RF00001 5S_rRNA 1302 5S ribosomal RNA Griffiths-Jones SR, Mifsud W, Gardner PP Szymanski et al, 5S ribosomal database, PMID:11752286 38.00 38.00 37.90 5S ribosomal RNA (5S rRNA) is a component of the large ribosomal subunit in both prokaryotes and eukaryotes. In eukaryotes, it is synthesised by RNA polymerase III (the other eukaryotic rRNAs are cleaved from a 45S precursor synthesised by RNA polymerase I). In Xenopus oocytes, it has been shown that fingers 4-7 of the nine-zinc finger transcription factor TFIIIA can bind to the central region of 5S RNA. Thus, in addition to positively regulating 5S rRNA transcription, TFIIIA also stabilises 5S rRNA until it is required for transcription. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.99 -Z 549862.597050 CM SEQDB 712 139932 0 0 Gene; rRNA; Published; PMID:11283358 8022 0 \N 0.59496 -5.32219 1600000 213632 305 119 1 -3.78120 0.71822 2013-10-03 20:41:44 2019-01-04 15:01:52 RF00002 5_8S_rRNA 1303 5.8S ribosomal RNA Griffiths-Jones SR, Mifsud W Wuyts et al, European LSU rRNA database, PMID:11125083 42.00 42.00 41.90 5.8S ribosomal RNA (5.8S rRNA) is a component of the large subunit of the eukaryotic ribosome. It is transcribed by RNA polymerase I as part of the 45S precursor that also contains 18S and 28S rRNA. Functionally, it is thought that 5.8S rRNA may be involved in ribosome translocation [2]. It is also known to form covalent linkage to the p53 tumour suppressor protein [3]. 5.8S rRNA is also found in archaea. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.62 -Z 742849.287494 CM SEQDB 61 4879 0 0 Gene; rRNA; Published; PMID:11125083 598 0 \N 0.66150 -9.18781 1600000 407997 265 154 1 -3.49770 0.71788 2013-10-03 20:47:00 2022-10-29 16:55:16 RF00003 U1 1304 U1 spliceosomal RNA Griffiths-Jones SR, Mifsud W, Moxon SJ, Ontiveros-Palacios N Zwieb C, The uRNA database, PMID:9016512 66.00 66.00 65.90 U1 is a small nuclear RNA (snRNA) component of the spliceosome (involved in pre-mRNA splicing). Its 5' end forms complementary base pairs with the 5' splice junction, thus defining the 5' donor site of an intron. There are significant differences in sequence and secondary structure between metazoan and yeast U1 snRNAs, the latter being much longer (568 nucleotides as compared to 164 nucleotides in human). Nevertheless, secondary structure predictions suggest that all U1 snRNAs share a 'common core' consisting of helices I, II, the proximal region of III, and IV [1]. This family does not contain the larger yeast sequences. The structure of U1 spliceosomal RNA has been reported in [5,6]. It present 4 Stem loops (SL1, SL2, SL3, and SL4) and a region call Helix H. SL1, SL2, and SL3 are join for the Helix H, forming a four-helix junction that are separated of SL4. U1 snRNA is important in the precatalytic spliceosome, where the 5' splice site (5'SS) of the pre-mRNA is recognized by pairing with 5'-U1 snRNA. Where spliceosome activation is initiated by a disruption of the 5′SS–U1 snRNP interaction by the DEAD-box helicase Prp28 [6]. The structure of U1 small nucleolar RNA was reported in PDB:6QX9 \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 100 11596 0 0 Gene; snRNA; splicing; Published; PMID:2405391 536 0 \N 0.66474 -8.65259 1600000 410919 262 166 1 -3.73110 0.71618 2013-10-03 20:57:11 2022-10-29 16:55:16 RF00004 U2 1305 U2 spliceosomal RNA Griffiths-Jones SR, Mifsud W, Gardner PP The uRNA database, PMID:9016512; Griffiths-Jones SR; PMID:18390578 46.00 46.00 45.90 U2 is a small nuclear RNA (snRNA) component of the spliceosome (involved in pre-mRNA splicing). Complementary binding between U2 snRNA (in an area lying towards the 5' end but 3' to hairpin I) and the branchpoint sequence (BPS) of the intron results the bulging out of an unpaired adenosine, on the BPS, which initiates a nucleophilic attack at the intronic 5' splice site, thus starting the first of two transesterification reactions that mediate splicing. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 208 16562 0 0 Gene; snRNA; splicing; Published; PMID:2339054; Griffiths-Jones SR 1102 0 \N 0.55222 -9.81359 1600000 403693 301 193 1 -3.51440 0.71292 2013-10-03 20:58:30 2021-07-05 13:43:57 RF00005 tRNA 1306 tRNA Eddy SR, Griffiths-Jones SR, Mifsud W Eddy SR 29.00 29.00 28.90 Transfer RNA (tRNA) molecules are approximately 80 nucleotides in length. Their secondary structure includes four short double-helical elements and three loops (D, anti-codon, and T loops). Further hydrogen bonds mediate the characteristic L-shaped molecular structure. tRNAs have two regions of fundamental functional importance: the anti-codon, which is responsible for specific mRNA codon recognition, and the 3' end, to which the tRNAs corresponding amino acid is attached (by aminoacyl-tRNA synthetases). tRNAs cope with the degeneracy of the genetic code in two manners: having more than one tRNA (with a specific anti-codon) for a particular amino acid; and 'wobble' base-pairing, i.e. permitting non-standard base-pairing at the 3rd anti-codon position. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.00 -Z 549862.597050 CM SEQDB 954 1429129 0 0 Gene; tRNA; Published; PMID:8256282 9951 0 \N 0.64375 -4.21424 1600000 283681 253 71 1 -2.61670 0.73401 2013-10-03 21:00:26 2021-07-05 13:43:57 RF00006 Vault 1307 Vault RNA Bateman A, Gardner PP Published; PMID:19491402 34.00 34.10 33.90 This family of RNAs are found as part of the enigmatic vault ribonucleoprotein complex. The complex consists of a major vault protein (MVP), two minor vault proteins (VPARP and TEP1), and several small untranslated RNA molecules. It has been suggested that the vault complex is involved in drug resistance. We have identified a putative novel vault RNA on chromosome 5 EMBL:AC005219. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 73 564 0 0 Gene; Published; PMID:19491402 94 0 \N 0.63669 -4.82430 1600000 279629 406 101 1 -3.55310 0.71855 2013-10-03 22:04:04 2019-01-04 15:01:52 RF00007 U12 1308 U12 minor spliceosomal RNA Griffiths-Jones S, Mifsud W, Gardner PP Shukla GC and Padgett RA, PMID:10199569; PMID:18390578 53.00 53.00 52.90 The U12 small nuclear (snRNA), together with U4atac/U6atac, U5, and U11 snRNAs and associated proteins, forms a spliceosome that cleaves a divergent class of low-abundance pre-mRNA introns. Although the U12 sequence is very divergent from that of U2 (Rfam:RF00004), the two are functionally analogous [2]. The predicted secondary structure of U12 RNA is published (see for example, PMID:10199569), but the alternative single hairpin in the 3' end shown here seems to better match the alignment of divergent Drosophila and Arabidopsis sequences. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 62 531 0 0 Gene; snRNA; splicing; Predicted; Griffiths-Jones S 336 0 \N 0.55844 -9.95163 1600000 493455 520 155 1 -3.16780 0.71782 2013-10-03 22:04:07 2021-07-05 13:43:57 RF00008 Hammerhead_3 1309 Hammerhead ribozyme (type III) Bateman A, Ontiveros-Palacios N Bateman A 41.80 41.80 41.70 The hammerhead ribozyme is one of the smallest catalytic RNAs. These RNAs have an endonuclease function, and most often are autocatalytic. Structurally it is composed of three base paired helices, separated by short linkers of conserved sequence. These helices are called I, II and III. We have classified hammerhead ribozymes into three types based on which helix the 5' and 3' ends of the sequence join. This family are the type III hammerheads. The conserved uridine-turn links helix I to helix II and usually has the sequence CUGA. Helix II and III are linked by a sequence CGAAA. The cleavage reaction occurs between helix III and I, and is usually a C. Hammerhead ribozymes are found in plant viroids and other small replicating satellite RNA species. Hammerhead ribozymes have been found in animals as well as plants. The structure of Hammerhead III ribozyme was reported in PDBs 2QUS, 2QUW [4], 5DI2, 5DI4, 5DQK [5], 5EAO, and 5EAQ [6]. Hammerhead cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 85 240 0 0 Gene; ribozyme; Published; PMID:7969422 39 0 \N 0.65191 -3.95526 1600000 280797 370 54 1 -4.41570 0.71958 2013-10-03 22:04:11 2022-10-29 16:55:16 RF00009 RNaseP_nuc 1310 Nuclear RNase P Griffiths-Jones SR, Mifsud W Brown JW, The Ribonuclease P Database, PMID:9847214 28.00 28.00 27.90 Ribonuclease P (RNase P) is a ubiquitous endoribonuclease, found in archaea, bacteria and eukarya as well as chloroplasts and mitochondria. Its best characterised activity is the generation of mature 5'-ends of tRNAs by cleaving the 5'-leader elements of precursor-tRNAs. Cellular RNase Ps are ribonucleoproteins. RNA from bacterial RNase Ps retains its catalytic activity in the absence of the protein subunit, i.e. it is a ribozyme. Isolated eukaryotic and archaeal RNase P RNA has not been shown to retain its catalytic function, but is still essential for the catalytic activity of the holoenzyme. Although the archaeal and eukaryotic holoenzyme s have a much greater protein content than the bacterial ones, the RNA cores from all the three lineages are homologous -- helices corresponding to P1, P2, P3, P4, and P10/11 are common to all cellular RNase P RNAs. Yet, there is considerable sequence variation, particularly among the eukaryotic RNAs. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 16.14 -Z 549862.597050 CM SEQDB 116 1237 0 0 Gene; ribozyme; Published; PMID:9847214 763 0 \N 0.76410 -8.04053 1600000 274636 1082 303 1 -4.36730 0.70576 2013-10-03 22:04:14 2021-07-05 13:43:57 RF00010 RNaseP_bact_a 2441 Bacterial RNase P class A Griffiths-Jones SR, Mifsud W Brown JW, The Ribonuclease P Database, PMID:9847214 100.00 100.50 99.60 Ribonuclease P (RNase P) is a ubiquitous endoribonuclease, found in archaea, bacteria and eukarya as well as chloroplasts and mitochondria. Its best characterised activity is the generation of mature 5'-ends of tRNAs by cleaving the 5'-leader elements of precursor-tRNAs. Cellular RNase Ps are ribonucleoproteins. RNA from bacterial RNase Ps retains its catalytic activity in the absence of the protein subunit, i.e. it is a ribozyme. Isolated eukaryotic and archaeal RNase P RNA has not been shown to retain its catalytic function, but is still essential for the catalytic activity of the holoenzyme. Although the archaeal and eukaryotic holoenzyme s have a much greater protein content than the bacterial ones, the RNA cores from all the three lineages are homologous -- helices corresponding to P1, P2, P3, P4, and P10/11 are common to all cellular RNase P RNAs. Yet, there is considerable sequence variation, particularly among the eukaryotic RNAs. Identified in Yersinia as Ysr151/RnpB. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 458 6023 0 0 Gene; ribozyme; Published; PMID:9847214 6324 0 \N 0.76804 -8.48988 1600000 366265 873 367 1 -4.37260 0.70355 2013-10-03 22:04:21 2021-07-05 13:43:57 RF00011 RNaseP_bact_b 2441 Bacterial RNase P class B Griffiths-Jones SR, Mifsud W, Gardner PP Brown JW, The Ribonuclease P Database, 9847214 97.00 97.10 96.60 Ribonuclease P (RNase P) is a ubiquitous endoribonuclease, found in archaea, bacteria and eukarya as well as chloroplasts and mitochondria. Its best characterised activity is the generation of mature 5'-ends of tRNAs by cleaving the 5'-leader elements of precursor-tRNAs. Cellular RNase Ps are ribonucleoproteins. RNA from bacterial RNase Ps retains its catalytic activity in the absence of the protein subunit, i.e. it is a ribozyme. Isolated eukaryotic and archaeal RNase P RNA has not been shown to retain its catalytic function, but is still essential for the catalytic activity of the holoenzyme. Although the archaeal and eukaryotic holoenzyme s have a much greater protein content than the bacterial ones, the RNA cores from all the three lineages are homologous -- helices corresponding to P1, P2, P3, P4, and P10/11 are common to all cellular RNase P RNAs. Yet, there is considerable sequence variation, particularly among the eukaryotic RNAs. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 114 676 0 0 Gene; ribozyme; Published; PMID:9847214 767 0 \N 0.69906 -8.49030 1600000 418092 675 366 1 -4.03570 0.70361 2013-10-03 22:04:51 2021-07-05 13:43:57 RF00012 U3 1312 Small nucleolar RNA U3 Gardner PP, Marz M Published; PMID:19875933; Gardner PP 34.00 34.00 33.90 Small nucleolar RNAs (snoRNAs) are involved in the processing and modification of rRNA in the nucleolus. There are two main classes of snoRNAs: the box C/D class, and the box H/ACA class. U3 snoRNA is a member of the box C/D class. Indeed, the box C/D element is a subset of the six short sequence elements found in all U3 snoRNAs, namely boxes A, A', B, C, C', and D. The U3 snoRNA secondary structure is characterised by a small 5' domain (with boxes A and A'), and a larger 3' domain (with boxes B, C, C', and D), the two domains being linked by a single-stranded hinge. Boxes B and C form the B/C motif, which appears to be exclusive to U3 snoRNAs, and boxes C' and D form the C'/D motif. The latter is functionally similar to the C/D motifs found in other snoRNAs. The 5' domain and the hinge region act as a pre-rRNA-binding domain. The 3' domain has conserved protein-binding sites. Both the box B/C and box C'/D motifs are sufficient for nuclear retention of U3 snoRNA. The box C'/D motif is also necessary for nucleolar localisation, stability and hyper-methylation of U3 snoRNA. Both box B/C and C'/D motifs are involved in specific protein interactions and are necessary for the rRNA processing functions of U3 snoRNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 87 3924 0 0 Gene; snRNA; snoRNA; CD-box; Published; PMID:19875933; Gardner PP 416 0 \N 0.59795 -9.77278 1600000 400072 326 218 1 -3.83010 0.71077 2013-10-03 22:04:54 2019-01-04 15:01:52 RF00013 6S 2461 6S / SsrS RNA Bateman A, Barrick JE Barrick JE 44.20 44.20 44.10 E. coli 6S RNA was the first non coding RNA to be sequenced, but its function was unknown until recently. It consists of 184 nucleotides that fold into an extended hairpin structure with a large single-stranded internal bulge. The 6S RNA specifically associates with RNA polymerase holoenzyme containing the sigma70 specificity factor. This interaction represses expression from a sigma70-dependent promoter during stationary phase [1]. 6S RNA homologs have recently been identified in most bacterial genomes [2,3]. Many Gram-positive species have two copies of 6S RNA. In Bacillus subtilis, both copies appear to interact with RNA polymerase holoenzyme containing the housekeeping sigma factor and be expressed during different stages of growth. In many proteobacteria, 6S RNA may be processed from a transcript encoding homologs of the E. coli YgfA protein which is a putative 5-formyltetrahydrofolate cycloligase activity. Structure of 6S-RNAP regulator has been reported in 5VT0 PDB [5]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 150 3636 0 0 Gene; Published; PMID:15811922 3414 0 \N 0.54245 -10.21771 1600000 317741 287 187 1 -3.62680 0.71364 2013-10-03 22:05:06 2021-07-05 13:43:57 RF00014 DsrA 1237 DsrA RNA Bateman A Bateman A 60.00 61.50 57.60 DsrA RNA regulates both transcription, by overcoming transcriptional silencing by the nucleoid-associated H-NS protein, and translation, by promoting efficient translation of the stress sigma factor, RpoS. These two activities of DsrA can be separated by mutation: the first of three stem-loops of the 85 nucleotide RNA is necessary for RpoS translation but not for anti-H-NS action, while the second stem-loop is essential for antisilencing and less critical for RpoS translation. The third stem-loop, which behaves as a transcription terminator, can be substituted by the trp transcription terminator without loss of either DsrA function. The sequence of the first stem-loop of DsrA is complementary with the upstream leader portion of RpoS messenger RNA, suggesting that pairing of DsrA with the RpoS message might be important for translational regulation. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 35 0 0 Gene; sRNA; Published; PMID:9770508 39 0 \N 0.53383 -8.38474 1600000 350673 177 85 1 -3.35620 0.71888 2013-02-01 11:56:19 2019-01-04 15:01:52 RF00015 U4 1314 U4 spliceosomal RNA Griffiths-Jones SR, Ontiveros-Palacios N Zwieb C, The uRNA database, PMID:9016512 46.00 46.00 45.90 U4 small nuclear RNA (U4 snRNA) is a component of the major U2-dependent spliceosome. It forms a duplex with U6, and with each splicing round, it is displaced from U6 (and the spliceosome) in an ATP-dependent manner, allowing U6 to re-fold and create the active site for splicing catalysis. A recycling process involving protein Prp24 re-anneals U4 and U6. U4/U6 di-snRNA is conserved in eukaryotes and is part of the large ribonucleoprotein complex: U4 / U6.U5 tri-snRNP [5,8]. The structure of U4 snRNA from yeast[5,6,8,9,11] and human[2,7,10,12,13] has been reported. U4 snRNA present two regions where U4 and U6 form helixes (stem II and stem I share helixes) and two stem loops (5p-SL and 3p-SL), in human, is also present an extra SL in the 3p end. U4 snRNA presents a k-turn RNA motif in the 5p-SL related to recognition of Snu13 protein [8]. The structure of U4 spliceosomal RNA has been reported in PDBs: 2N7M, 3JCM, 3JCR, 5GAN, 5GAP, 5NRL, 5O9Z, 5ZWM, 5ZWO, 6AH0, 6AHD, AQW6, 6QX9 [5-13] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 177 8285 0 0 Gene; snRNA; splicing; Published; PMID:2339054; Griffiths-Jones SR 1028 0 \N 0.60966 -8.50576 1600000 296541 361 138 1 -3.54070 0.71795 2013-10-03 22:05:22 2022-10-29 16:55:16 RF00016 SNORD14 1242 Small nucleolar RNA SNORD14 Griffiths-Jones SR, Mifsud W Griffiths-Jones SR 64.00 64.10 63.90 U14 small nucleolar RNA (U14 snoRNA) is required for early cleavages of eukaryotic precursor rRNAs. In yeasts, this molecule possess a stem-loop region (known as the Y-domain) which is essential for function. A similar structure, but with a different consensus sequence, is found in plants, but is absent in vertebrates [1]. U14 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21 -Z 549862.597050 CM SEQDB 18 1182 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 221 0 \N 0.63073 -3.65386 1600000 232910 229 116 1 -3.12800 0.71819 2013-02-01 11:56:23 2019-01-04 15:01:52 RF00017 Metazoa_SRP 1315 Metazoan signal recognition particle RNA Gardner PP Published; PMID:19838050 70.00 70.00 69.90 The signal recognition particle (SRP) is a universally conserved ribonucleoprotein. It is involved in the co-translational targeting of proteins to membranes. The eukaryotic SRP consists of a 300-nucleotide 7S RNA and six proteins: SRPs 72, 68, 54, 19, 14, and 9. Archaeal SRP consists of a 7S RNA and homologues of the eukaryotic SRP19 and SRP54 proteins. Eukaryotic and archaeal 7S RNAs have very similar secondary structures, as represented by this family. Eight helical elements fold into the Alu and S domains, separated by a long linker region [1,2]. The Alu domain is thought to mediate the peptide chain elongation retardation function of the SRP [1]. The universally conserved helix which interacts with the SRP54 M domain mediates signal sequence recognition [2,3]. In eukaryotes and archaea, the SRP19-helix 6 complex is thought to be involved in SRP assembly and stabilises helix 8 for SRP54 binding [1]. The Signal Recognition Particle Database (SRPDB) [4] provides compilations of SRP components, with phylogenetic data and structural illustrations. Many sequences below the threshold for this family are clearly closely related, but are most likely to be SRP RNA derived pseudogenes. The human genome in particular is known to contain a large amount of SRP RNA related sequence, including Alu repeats. While the threshold of this family is set high so as to minimise the number of hits to such regions, it is likely that some remain. SRP_euk_arch; 7SL; CeN107 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.49 -Z 549862.597050 CM SEQDB 91 42386 0 0 Gene; Published; PMID:19838050 402 0 \N 0.64536 -9.85267 1600000 488632 514 301 1 -4.01770 0.70604 2013-10-03 22:07:53 2021-07-05 13:43:57 RF00018 CsrB 2460 CsrB/RsmB RNA family Bateman A, Gardner PP Bateman A 71.00 71.40 70.90 The CsrB RNA binds to approximately 18 copies of the CsrA protein Pfam:PF02599. CsrA proteins are found in a wide variety of bacteria. The CsrB RNAs contain a conserved motif CAGGXXG that is found in up to 18 copies and has been suggested to bind CsrA. The Csr regulatory system has a strong negative regulatory effect on glycogen biosynthesis, glyconeogenesis and glycogen catabolism and a positive regulatory effect on glycolysis [1]. In other bacteria such as Erwinia caratovara the RsmA protein has been shown to regulate the production of virulence determinants, such extracellular enzymes [2]. RsmA binds to RsmB regulatory RNA which is also a member of this family [2]. RsmB RNA was shown to be upregulated by GacS/A system, and increase downstream T3SS gene expression.[6] FlhDC, the master regulator of flagellar genes, also activates rsmB RNA production.[7] A regulatory network have been revealed connecting rsmB, FlhDC and T3SS.[8] Plays role in the biocontrol activity of Rahnella aquatilis HX2 (a biocontrol agent producing antibacterial substance).[5] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 38 254 0 0 Gene; sRNA; Predicted; PFOLD; Bateman A; Gardner PP; 196 0 \N 0.69326 -9.81172 1600000 546392 555 356 1 -4.06520 0.70388 2013-10-03 23:07:27 2021-07-05 13:43:57 RF00019 Y_RNA 1317 Y RNA Griffiths-Jones SR, Gardner PP Griffiths-Jones SR, Published; PMID:18087752, Gardner PP 38.00 38.00 37.90 Y RNAs are components of the Ro ribonucleoprotein particle (Ro RNP), in association with Ro60 and La proteins. The Y RNAs and Ro60 and La proteins are well conserved, but the function of the Ro RNP is not known. In humans the RNA component can be one of four small RNAs -- hY1, hY3, hY4 and hY5. These small RNAs are predicted to fold into a conserved secondary structure containing three stem structures. The largest of the four, hY1, contains an additional hairpin. This family includes a significant number of annotated pseudogenes and the model is expected to discriminate poorly between real and Y RNA related pseudogenes. Y1; Y2; Y3; Y5 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.00 -Z 549862.597050 CM SEQDB 104 8521 0 0 Gene; Published; PMID:10606662 123 0 \N 0.59183 -5.14312 1600000 189478 249 98 1 -2.84180 0.71870 2013-10-03 23:07:38 2019-01-04 15:01:52 RF00020 U5 1318 U5 spliceosomal RNA Griffiths-Jones SR, Gardner PP Zwieb C, The uRNA database, PMID:9016512; PMID:18390578 40.00 40.00 39.90 U5 RNA is a component of both types of known spliceosome. The precise function of this molecule is unknown, though it is known that the 5' loop is required for splice site selection and p220 binding, and that both the 3' stem-loop and the Sm site are important for Sm protein binding and cap methylation. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 180 7524 0 0 Gene; snRNA; splicing; Published; PMID:2339054; Griffiths-Jones SR 1001 0 \N 0.50732 -5.54774 1600000 339349 331 116 1 -4.13270 0.71820 2013-10-03 23:08:43 2019-01-04 15:01:52 RF00021 Spot_42 1319 Spot 42 RNA Bateman A Bateman A 80.00 81.00 79.40 The physiological role of Escherichia coli Spot 42 (spf) RNA has remained obscure, even though the 109-nucleotide RNA was discovered almost three decades ago. Spot 42 seems to have a regulatory role on the galactose operon [1]. It is proposed that Spot 42 acts by an antisense mechanism where the RNA binds to the galK translation initiator region [1]. Changes in Spot 42 levels are implicated in affecting the adjacent DNA polymerase I levels [2]. The Hfq protein has been shown to interact with several small regulatory RNAs in E. coli, and the protein is required for OxyS, DsrA, RprA and Spot 42 RNA regulation [3]. Spot42 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 19 189 0 0 Gene; sRNA; Published; PMID:12101127 196 0 \N 0.55657 -7.40800 1600000 307081 220 115 1 -3.17800 0.71853 2013-10-03 23:09:05 2019-01-04 15:01:52 RF00022 GcvB 1320 GcvB RNA Bateman A, Daub J Bateman A, PMID:17974919, Daub J 42.00 45.00 41.60 The gcvB gene encodes a small untranslated RNA involved in expression of the dipeptide and oligopeptide transport systems in Escherichia coli. Included several unknown homologues in alignment (Bateman A pers obs). It base-pairs with SorC. This interaction triggers the degradation of GcvB by RNase E, alleviating the GcvB-mediated mRNA repression of other amino acid-related transport and metabolic genes [5]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 27 207 0 0 Gene; Published; PMID:17974919 219 0 \N 0.60302 -8.70917 1600000 345337 406 198 1 -3.98950 0.71245 2013-10-03 23:09:09 2019-01-04 15:01:52 RF00023 tmRNA 1321 transfer-messenger RNA Gardner PP Published; PMID:19617710 47.00 47.00 46.80 Bacterial tmRNA, also known as 10Sa RNA or SsrA, is named for its dual tRNA and mRNA-like properties. Its role is to liberate the mRNA from a stalled ribosome. To accomplish this part of the tmRNA is used as a reading frame that ends in a translation stop signal. The broken mRNA is replaced in the ribosome by the tmRNA and translation of the tmRNA leads to addition of a proteolysis tag to the incomplete protein enabling recognition by a protease. Recently a number of permuted tmRNA genes have been found encoded in two parts. tmRNAs have been identified in eubacteria and some chloroplasts but are absent from archaeal and eukaryote nuclear genomes. 10Sa_RNA; SsrA cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 16.62 -Z 549862.597050 CM SEQDB 477 6216 0 0 Gene; Published; PMID:19617710 6400 0 \N 0.70410 -10.32425 1600000 541479 1336 354 1 -4.19500 0.70396 2013-10-03 23:09:12 2021-07-05 13:43:57 RF00024 Telomerase-vert 1322 Vertebrate telomerase RNA Machado Lima A Machado Lima A 70.00 70.30 68.20 Telomerase is a ribonucleoprotein reverse transcriptase that synthesises telomeric DNA. Telomerase RNAs differ greatly in sequence and structure between vertebrates, ciliates and yeasts, but they share a 5' pseudoknot structure close to the template sequence. Vertebrate telomerase RNAs have a 3' H/ACA snoRNA-like domain. This family also contains viral telomerase RNAs from the Gallid herpes viruses as described in [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.69 -Z 549862.597050 CM SEQDB 37 77 0 0 Gene; Published; PMID:10721988; Machado Lima A 85 0 \N 0.61989 -11.15725 1600000 585785 762 436 1 -4.75640 0.70196 2013-10-03 23:10:23 2019-01-04 15:01:52 RF00025 Telomerase-cil 1322 Ciliate telomerase RNA Griffiths-Jones SR, Moxon SJ, Ontiveros-Palacios N McCormick-Graham and Romero, PMID:7739888; Griffiths-Jones SR, Moxon SJ 52.00 52.20 42.20 Telomerase is a ribonucleoprotein reverse transcriptase that synthesises telomeric DNA. Telomerase RNAs differ greatly in sequence and structure between vertebrates, ciliates and yeasts, but they share a 5' pseudoknot structure close to the template sequence [1,2]. The structure of Tetrahymena telomerase has been reported in 6D6V, 7LMA and 7LMB [3,4]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 21 3 0 0 Gene; Published; PMID:7958872; PMID:7739888, Moxon SJ 21 0 \N 0.48263 -8.79918 1600000 384182 456 165 1 -3.15540 0.71625 2013-10-03 23:10:27 2022-10-29 16:55:16 RF00026 U6 1323 U6 spliceosomal RNA Griffiths-Jones SR, Gardner PP Griffiths-Jones SR; ; PMID:18390578 44.00 44.00 43.90 U6 snRNA is a component of the spliceosome which is involved in splicing pre-mRNA. The putative secondary structure consensus base pairing is confined to a short 5' stem loop, but U6 snRNA is thought to form extensive base-pair interactions with U4 snRNA [2]. This model hits a large number of sequences in vertebrate genomes, which appear to be U6 derived pseudogenes or repeats. This family has a high significance threshold to minimise this problem, but many annotated pseudogenes remain. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 188 47401 0 0 Gene; snRNA; splicing; Published; PMID:2339054; Griffiths-Jones SR 1087 0 \N 0.66804 -5.60435 1600000 269485 820 104 1 -4.09870 0.71824 2013-10-03 23:10:33 2021-07-05 13:43:57 RF00027 let-7 1324 let-7 microRNA precursor Griffiths-Jones SR, Daub J INFERNAL 50.00 50.10 49.90 This family represents the microRNAs (miRNA) let-7 and mir-98. let-7 was identified from a study of developmental timing in C. elegans [1], and was later shown to be part of a much larger class of non-coding RNAs termed miRNAs [2]. Both miRNAs let-7 and mir-98 have now been predicted or experimentally confirmed in a wide range of species (MIPF:MIPF000002). miRNAs are transcribed as ~70nt precursors (modelled here) and subsequently processed by the Dicer enzyme to give a ~22nt product. The extents of the hairpin precursors are not generally known and are estimated based on hairpin prediction. The products are thought to have regulatory roles through complementarity to mRNA. The involvement of Dicer in miRNA processing suggests a relationship with the phenomenon of RNA interference. This family also includes the miR-98 precursor from human, which may be a let-7 homologue. The pre-miRNA structure of let-7 has been reported in complex with Dicer-TRBP [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 64 1430 0 0 Gene; miRNA; Predicted; PFOLD 199 0 \N 0.61781 -3.89377 1600000 189866 162 84 1 -3.74360 0.71892 2013-10-03 23:14:55 2021-11-19 11:53:18 RF00028 Intron_gpI 1325 Group I catalytic intron Griffiths-Jones SR Eddy SR 50.00 50.00 49.90 Group I catalytic introns are large self-splicing ribozymes. They catalyse their own excision from mRNA, tRNA and rRNA precursors in a wide range of organisms. The core secondary structure consists of 9 paired regions (P1-P9). These fold to essentially two domains - the P4-P6 domain (formed from the stacking of P5, P4, P6 and P6a helices) and the P3-P9 domain (formed from the P8, P3, P7 and P9 helices). The secondary structure mark-up for this family represents only this conserved core. Group I catalytic introns often have long ORFs inserted in loop regions. The window size for this search is chosen to minimise search time and catch the small examples. A larger window size will find more matches. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 12 2599 0 0 Intron; Published; PMID:2197983 1143 0 \N 0.66222 -7.41638 1600000 324432 1563 251 1 -3.88110 0.70830 2013-10-03 23:15:08 2019-01-04 15:01:52 RF00029 Intron_gpII 1326 Group II catalytic intron Griffiths-Jones SR PMID:11726522 40.00 40.00 39.90 Group II introns are found in rRNA, tRNA and mRNA of organelles in fungi, plants and protists, and also in mRNA in bacteria. They are large self-splicing ribozymes and have 6 structural domains (usually designated dI to dVI. This model and alignment represents only domains V and VI. A subset of group II introns also encode essential splicing proteins in intronic ORFs. The length of these introns can therefore be up to 3kb. Splicing occurs in almost identical fashion to nuclear pre-mRNA splicing with two transesterification steps. The 2' hydroxyl of a bulged adenosine in domain VI attacks the 5' splice site, followed by nucleophilic attack on the 3' splice site by the 3' OH of the upstream exon. Protein machinery is required for splicing in vivo, and long range intron-intron and intron-exon interactions are important for splice site positioning. Group II introns are further sub-classified into groups IIA and IIB which differ in splice site consensus, distance of bulged A from 3' splice site, some tertiary interactions, and intronic ORF phylogeny [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.00 -Z 549862.597050 CM SEQDB 92 15637 0 0 Intron; Predicted; PFOLD 1847 0 \N 0.56520 -7.49312 1600000 262242 581 93 1 -3.57660 0.71847 2013-10-03 23:17:00 2019-01-04 15:01:52 RF00030 RNase_MRP 1327 RNase MRP Griffiths-Jones SR Published; PMID:12088147, Griffiths-Jones SR, Daub J 50.00 50.00 49.90 RNase MRP is an enzymatically active ribonucleoprotein with two distinct roles in eukaryotes. In mitochondria it plays a direct role in the initiation of mitochondrial DNA replication. In the nucleus it is involved in precursor rRNA processing, where it cleaves the internal transcribed spacer 1 between 18S and 5.8S rRNAs. Despite distinct functions, RNase MRP has been shown to be evolutionarily related to RNase P. Like eukaryotic RNase P, RNase MRP is not catalytically active without associated protein subunits. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 66 1062 0 0 Gene; ribozyme; Published; PMID:7678563 882 0 \N 0.68784 -9.60404 1600000 385002 2236 266 1 -4.53760 0.70748 2013-10-03 23:18:26 2021-07-05 13:43:57 RF00031 SECIS_1 1328 Selenocysteine insertion sequence 1 Griffiths-Jones SR Gautheret D, PMID:12458087 35.00 35.00 34.90 The incorporation of selenocysteine into a protein sequence is directed by an in-frame UGA codon (usually a stop codon) within the coding region of the mRNA. Selenoprotein mRNAs contain a conserved secondary structure in the 3' UTR that is required for the distinction of UGA stop from UGA selenocysteine. The selenocysteine insertion sequence (SECIS) is around 60 nt in length and adopts a hairpin structure which is sufficiently well-defined and conserved to act as a computational screen for selenoprotein genes [2]. SECIS cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 61 611 0 0 Cis-reg; Published; PMID:12458087 167 0 \N 0.61389 -3.14575 1600000 235124 123 64 1 -2.40060 0.74522 2013-10-03 23:18:36 2021-07-05 13:43:57 RF00032 Histone3 1329 Histone 3' UTR stem-loop Gardner PP Published; PMID:17998288 25.00 25.00 24.90 The mRNAs of metazoan histone genes lack a poly-A tail. 3' end processing occurs at a site between a highly conserved stem-loop (modelled by this family) and a purine rich region around 20 nts downstream (the histone downstream element, or HDE). The stem-loop is bound by a 31 kDa stem-loop binding protein (SLBP - also termed the histone hairpin binding protein, or HBP). Together with U7 snRNA binding of the HDE, SLBP binding nucleate s the formation of the processing complex. The histone 3' UTR stem-loop is also involved in nucleocytoplasmic transport of the mRNA, and in stability regulation and translation efficiency in the cytoplasm. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.68 -Z 549862.597050 CM SEQDB 46 30457 0 0 Cis-reg; Published; PMID:17998288 813 0 \N 0.86412 -1.32523 1600000 239617 102 46 1 -3.20290 0.74543 2013-10-03 23:18:44 2019-01-04 15:01:52 RF00033 MicF 1330 MicF RNA Bateman A Noncoding RNAs Database 79.00 79.20 70.10 The micF gene is a stress response gene found in Escherichia coli and related bacteria that post-transcriptionally controls expression of the outer membrane porin gene ompF. The micF gene encodes a non-translated 93 nt antisense RNA that binds its target ompF mRNA and regulates ompF expression by inhibiting translation and inducing degradation of the message. In addition, other factors, such as the RNA chaperone protein StpA also play a role in this regulatory system. Expression of micF is controlled by both environmental and internal stress factors. Four transcriptional regulators are known to bind the micF promoter region and activate micF expression. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 38 0 0 Gene; antisense; Predicted; Bateman A 42 0 \N 0.45941 -8.02453 1600000 321412 189 94 1 -3.34380 0.71847 2013-10-03 23:19:41 2021-11-19 10:36:03 RF00034 RprA 1331 RprA RNA Bateman A, Moxon SJ Noncoding RNAs Database 70.00 70.20 69.50 Translational regulation of the stationary phase sigma factor RpoS is mediated by the formation of a double-stranded RNA stem-loop structure in the upstream region of the rpoS messenger RNA, occluding the translation initiation site. Clones carrying rprA (RpoS regulator RNA A) increased the translation of RpoS. The rprA gene encodes a 106 nucleotide regulatory RNA. As with DsrA Rfam:RF00014, RprA is predicted to form three stem-loops. Thus, at least two small RNAs, DsrA and RprA, participate in the positive regulation of RpoS translation. RprA also appears to bind to the RpoS leader [2]. RprA is non-essential [1]. The Y. pestis homologue was detected by similarity to the E. coli gene (pers obs. Bateman A). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 36 -Z 549862.597050 CM SEQDB 13 85 0 0 Gene; sRNA; Predicted; PFOLD; Moxon SJ 93 0 \N 0.44789 -5.03711 1600000 323894 201 108 1 -3.21610 0.71836 2013-10-03 23:19:45 2019-01-04 15:01:52 RF00035 OxyS 1332 OxyS RNA Bateman A Noncoding RNAs Database 75.00 75.10 74.90 OxyS is a small untranslated RNA which is induced in response to oxidative stress in Escherichia coli. This novel RNA acts as a global regulator to activate or repress the expression of as many as 40 genes, including the fhlA-encoded transcriptional activator and the rpoS-encoded sigma(s) subunit of RNA polymerase [1]. OxyS is bound by the Hfq protein, that increases the OxyS RNA interaction with its target messages [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 12 0 0 Gene; sRNA; Published; PMID:11804582 15 0 \N 0.56640 -9.09368 1600000 391780 215 110 1 -3.53830 0.71852 2013-10-03 23:19:48 2019-01-04 15:01:52 RF00036 RRE 1333 HIV Rev response element Griffiths-Jones SR Griffiths-Jones SR 104.00 104.00 103.90 The Rev response element (RRE) is encoded within the HIV-env gene. Rev is an essential regulatory protein of HIV that binds an internal loop of the RRE leading, encouraging further Rev-RRE binding. This RNP complex is critical for mRNA export and hence for expression of the HIV structural proteins. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 65 20 0 0 Cis-reg; Published; PMID:12177299 13 0 \N 0.73300 -8.78817 1600000 427253 500 337 1 -3.74130 0.70454 2013-10-03 23:19:54 2019-01-04 15:01:52 RF00037 IRE_I 1334 Iron response element I Stevens S, Gardner P, Brown C Leipuviene, R. and Theil, E.C. 34.00 34.00 33.90 Iron respond element I 3D structure was reported in PDB 3SNP [6] IRE I; IRE; ferritin cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 62 1847 0 0 Cis-reg; Published; PMID:17849083 107 0 \N 0.68512 -3.34985 1600000 315020 88 36 1 -4.29310 0.72684 2013-10-03 23:20:45 2022-10-29 16:55:16 RF00038 PrfA 1335 PrfA thermoregulator UTR Bateman A Bateman A 88.00 117.40 47.40 In Listeria monocytogenes, virulence genes are maximally expressed at 37 degrees C, almost silent at 30 degrees C and controlled by PrfA, a transcriptional activator whose expression is thermoregulated. It has been shown that the untranslated mRNA (UTR) preceding prfA, forms a secondary structure, which masks the ribosome binding region [1]. This family also contains UTRs from other closely related bacteria. The secondary structure of this motif forms a hairpin. The Shine-Dalgarno (SD) sequence is partly masked by the most conserved stem of the secondary structure. It is thought that at 37 degrees C the SD sequence is unmasked [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 1 0 0 Cis-reg; thermoregulator; Predicted; PFOLD 4 0 \N 0.47515 -6.50079 1600000 361291 242 132 1 -2.60970 0.71815 2013-10-03 23:21:00 2022-10-29 16:42:07 RF00039 DicF 1336 DicF RNA Bateman A INFERNAL 48.00 49.50 46.00 DicF RNA is an antisense inhibitor of cell division gene ftsZ [1]. DicF and Hfq are necessary to reduce FtsZ protein levels, leading to cell filamentation under anaerobic conditions.[4] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22 -Z 549862.597050 CM SEQDB 5 3 0 0 Gene; antisense; Predicted; PFOLD 6 0 \N 0.63101 -6.70909 1600000 454072 127 52 1 -3.40510 0.72304 2013-10-03 23:21:02 2019-01-04 15:01:52 RF00040 rne5 1337 RNase E 5' UTR element Griffiths-Jones SR Griffiths-Jones SR, Moxon SJ 180.00 182.80 170.70 This family represents a conserved element found in the 5' UTR of RNase E mRNA. RNase E is a key regulatory enzyme in the pathway of mRNA degradation in E. coli that is able to auto-regulate the degradation of its own mRNA in response to changes in RNase E activity. This rne 5' UTR element acts as a sensor of cellular RNase E concentration enabling tight regulation of RNase E concentration and synthesis. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 105 0 0 Cis-reg; Published; PMID:10817759 108 0 \N 0.74731 -8.28297 1600000 488498 1416 334 1 -4.23390 0.70468 2013-10-03 23:21:09 2019-01-04 15:01:52 RF00041 Entero_OriR 1338 Enteroviral 3' UTR element Bateman A, Moxon SJ PMID:9862969 80.00 83.20 78.40 This RNA structure is found in the 3' UTR of various enteroviruses. The overall structure forms the origin of replication (OriR) for the initiation of (-) strand RNA synthesis [1]. Pseudoknots have also been predicted in this structure [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 60 0 0 0 Cis-reg; Predicted; PFOLD 43 0 \N 0.55807 -8.24713 1600000 333049 227 121 1 -2.90290 0.71840 2013-10-03 23:21:13 2019-01-04 15:01:52 RF00042 CopA 1339 CopA-like RNA Bateman A Bateman A 60.00 66.30 57.50 In several groups of bacterial plasmids, antisense RNAs regulate copy number through inhibition of replication initiator protein synthesis. These RNAs are characterised by a long hairpin structure interrupted by several unpaired residues or bulged loops. In plasmid R1, the inhibitory complex between the antisense RNA (CopA) and its target mRNA (CopT) is characterised by a four-way junction structure and a side-by-side helical alignment [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.46 -Z 549862.597050 CM SEQDB 37 26 0 0 Gene; antisense; Predicted; PFOLD; Moxon SJ 41 0 \N 0.54677 -5.96158 1600000 251815 183 92 1 -3.63850 0.71884 2013-10-03 23:21:16 2019-01-04 15:01:52 RF00043 Plasmid_R1162 1340 R1162-like plasmid antisense RNA Bateman A Bateman A, INFERNAL 55.00 65.10 52.40 The copy-number of the broad host-range plasmid R1162 is controlled by the amounts of two proteins, encoded by cotranscribed genes comprising a region of the plasmid called RepI. RepI is negatively regulated by a 75 base RNA that is complementary to a segment of the RepI message [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 3 0 0 Gene; antisense; Predicted; PFOLD 10 0 \N 0.50825 -8.28196 1600000 299438 159 75 1 -3.56440 0.71909 2013-10-03 23:21:18 2019-01-04 15:01:52 RF00044 Phage_pRNA 1341 Bacteriophage pRNA Finn RD Finn RD 40.00 61.90 35.90 During replication of linear dsDNA viruses, the viral genome is packaged into the pre-formed viral procapsid. The packaging of DNA into the procapsid requires a molecular motor which using ATP as energy to accomplish the energetically unfavourable motion. In some bacteriophage, an RNA (pRNA) molecule is a vital component of this motor [1]. Structural analyses of the packaging motor have demonstrated that the pRNA molecule has fivefold symmetry when attached to the prohead [2-4]. The pRNA is thought to be bound by the capsid connector protein (PFAM:PF05352) [4]. Only the first 120 bases of the pRNA are essential for packing the viral DNA [5,6]. The pRNA is proposed to be comprised of two domains, one corresponding to the first 120 bases and the second to the remaining 50 bases [6]. Nuclear cleavage occurs in the single strand region linking these two domains [6]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; Predicted; ILM 3 0 \N 0.67619 -8.85020 1600000 385188 387 244 1 -3.78590 0.70874 2013-10-03 23:21:21 2019-01-04 15:01:52 RF00045 SNORA73 1342 Small nucleolar RNA SNORA73 family Griffiths-Jones SR Griffiths-Jones SR; Cervelli et al, PMID:11821910 74.00 74.20 73.90 U17 (SNORA73A and SNORA73B) also known as E1 belongs to the H/ACA class of small nucleolar RNAs (snoRNAs). Vertebrate U17 is intron-encoded and ranges in length from 200-230 nucleotides, longer than most snoRNAs. It is one of the most abundant snoRNAs in human cells and is essential for the cleavage of pre-rRNA within the 5' external transcribed spacer (ETS) [1]. This cleavage leads to the formation of 18S rRNA. Regions of the U17 RNA are complementary to rRNA and act as guides for RNA/RNA interactions, although these regions do not seem to be well conserved between organisms [2]. U17 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 66 513 0 0 Gene; snRNA; snoRNA; HACA-box; Published; PMID:11821910 134 0 \N 0.64967 -8.63062 1600000 295629 339 219 1 -3.92210 0.71063 2013-10-03 23:21:22 2019-01-04 15:01:52 RF00046 snoR30 2372 Small nucleolar RNA R30/Z108 Griffiths-Jones SR Griffiths-Jones SR 60.00 61.30 58.90 snoR30 is a C/D box small nucleolar RNA which acts as a methylation guide for 18S ribosomal RNA in plants. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 219 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Daub J 75 0 \N 0.64613 -4.23625 1600000 237238 193 96 1 -3.52710 0.71839 2013-10-03 23:21:31 2019-01-04 15:01:52 RF00047 mir-2 1344 mir-2 microRNA precursor Griffiths-Jones SR, Daub J Griffiths-Jones SR 45.50 45.50 45.40 This family represents the microRNA (miRNA) precursors mir-2 and mir-13 (MIPF:MIPF0000049). mir-2 has now been predicted or experimentally confirmed in a wide range of species. The miRNAs are transcribed as ~70nt precursors (modelled here) and subsequently processed by the Dicer enzyme to give a ~22nt product. In this case the mature sequence comes from the 3' arm of the precursor. The extents of the hairpin precursors are not generally known and are estimated based on hairpin prediction. The products are thought to have regulatory roles through complementarity to mRNA. The involvement of Dicer in miRNA processing suggests a relationship with the phenomenon of RNA interference. miRNAs are numbered based on the mature sequence. This family also contains the mir-13 precursor which, despite giving rise to a distinct mature sequence appears to be related in sequence. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 56 434 0 0 Gene; miRNA; Predicted; PFOLD 134 0 \N 0.58241 -4.47985 1600000 172753 145 72 1 -3.83740 0.71926 2013-10-03 23:21:33 2021-12-03 12:41:14 RF00048 Entero_CRE 1238 Enterovirus cis-acting replication element Bateman A Bateman A 55.00 55.00 49.70 The first step in the replication of the plus-stranded poliovirus RNA is the synthesis of a complementary minus strand. This process is initiated by the covalent attachment of UMP to the terminal protein VPg, yielding VPgpU and VPgpUpU. A small RNA hairpin in the coding region of protein 2C as the site in PV1(M) RNA that is used as the primary template for the in vitro uridylylation [1-2]. CRE cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 56 5 0 0 Cis-reg; Published; PMID:11044080 32 0 \N 0.61542 -2.56685 1600000 312886 139 61 1 -3.98340 0.71915 2013-02-01 11:56:35 2019-01-04 15:01:52 RF00049 SNORD36 1243 Small nucleolar RNA SNORD36 Griffiths-Jones SR Griffiths-Jones SR 37.00 37.00 36.90 U36 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. U36 is encoded within the intron of rpL7a, and has two regions of complementarity to 18S and 28S ribosomal RNA. This complementarity suggests that U36 acts as a 2'-O-ribose methylation guide [1,2]. This family also contains snoR47, which has been shown to be homologous to U36 [2], and plant Z100 snoRNA. U36 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 59 839 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 293 0 \N 0.51485 -5.04282 1600000 247599 148 77 1 -3.41190 0.71863 2013-02-01 11:56:38 2019-01-04 15:01:52 RF00050 FMN 1345 FMN riboswitch (RFN element) Vitreshchak A, Gelfand M, Bateman A, Ontiveros-Palacios N Vitreshchak A 66.20 66.30 66.10 The RFN element is a highly conserved domain that is found frequently in the 5'-untranslated regions of prokaryotic mRNAs that encode for flavin mononucleotide (FMN) biosynthesis and transport proteins. This element is a metabolite-dependent riboswitch that directly binds FMN in the absence of proteins. In Bacillus subtilis, the riboswitch most likely controls gene expression by causing premature transcription termination within the 5' untranslated region of the ribDEAHT operon and precluding access to the ribosome-binding site of ypaA mRNA [3].The FMN riboswitch structure, reported in [4] present an FMN-bound six-stem junction, adopts a butterfly-like scaffold, stapled together by opposingly directed but nearly identically folded peripheral domains. The FMN riboswitch structure was reported in PDB: 3F2Q, 3F2T, 3F2W, 3F2X, 3F2Y, 3F30 [4] 6WJR, 6WJS [5] RFN cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 146 4077 0 0 Cis-reg; riboswitch; Published; PMID:12456892 3376 0 \N 0.62775 -7.51726 1600000 330721 273 138 1 -3.35350 0.71809 2013-10-03 23:21:58 2022-10-29 16:55:16 RF00051 mir-17 1346 mir-17 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 48.30 48.40 48.10 This family represents the microRNA (miRNA) precursor mir-17, family, which includes mir-20, mir-91, and mir-103. miRNAs are transcribed as ~70nt precursors (modelled here) and subsequently processed by the Dicer enzyme to give a ~22nt product. In this case the mature sequence comes from the 3' arm of the precursor. The extents of the hairpin precursors are not generally known and are estimated based on hairpin prediction. The products are thought to have regulatory roles through complementarity to mRNA. The involvement of Dicer in miRNA processing suggests a relationship with the phenomenon of RNA interference. miRNAs are numbered based on the sequence of the mature RNA. This family represents the microRNA (miRNA) precursor mir-17 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 233 770 0 0 Gene; miRNA; Predicted; RNAalifold 124 0 \N 0.63775 -4.57068 1600000 192081 154 80 1 -4.03970 0.71875 2013-10-03 23:22:06 2022-05-06 11:43:50 RF00052 lin-4 1347 lin-4 microRNA precursor Griffiths-Jones SR Griffiths-Jones SR 62.00 62.10 61.70 This family represents the microRNA (miRNA) lin-4 (MIPF:MIPF0000303). lin-4 was identified from a study of developmental timing in C. elegans [1], and was later shown to be part of a much larger class of non-coding RNAs termed miRNAs [2]. miRNAs are transcribed as ~70nt precursors (modelled here) and subsequently processed by the Dicer enzyme to give a ~22nt product. The extents of the hairpin precursors are not generally known and are estimated based on hairpin prediction. The products are thought to have regulatory roles through complementarity to mRNA. The involvement of Dicer in miRNA processing suggests a relationship with the phenomenon of RNA interference. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 281 0 0 Gene; miRNA; Predicted; PFOLD 129 0 \N 0.66564 -3.59231 1600000 228376 150 71 1 -3.49280 0.71931 2013-10-03 23:22:10 2021-11-19 10:36:03 RF00053 mir-7 1348 mir-7 microRNA precursor Griffiths-Jones SR, Daub J Griffiths-Jones SR 51.80 52.20 51.40 This family represents the microRNA (miRNA) precursor mir-7. This miRNA has been predicted or experimentally confirmed in a wide range of species (MIPF:MIPF0000022). miRNAs are transcribed as ~70nt precursors (modelled here) and subsequently processed by the Dicer enzyme to give a ~22nt product. In this case the mature sequence comes from the 5' arm of the precursor. The extents of the hairpin precursors are not generally known and are estimated based on hairpin prediction. The products are thought to have regulatory roles through complementarity to mRNA. The involvement of Dicer in miRNA processing suggests a relationship with the phenomenon of RNA interference. miRNAs are numbered based on the sequence of the mature RNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 57 468 0 0 Gene; miRNA; Predicted; PFOLD 224 0 \N 0.64723 -2.62721 1600000 145416 170 88 1 -4.04280 0.71876 2013-10-03 23:22:15 2022-05-06 12:10:02 RF00054 SNORD25 1349 Small nucleolar RNA SNORD25 Griffiths-Jones SR Griffiths-Jones SR 39.00 40.00 38.90 U25 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. U25 is found in gene clusters in plants [1], and within the U22 snoRNA host gene (UHG) in mammals [2]. U25 is thought to as a 2'-O-ribose methylation guide for ribosomal RNA. This RNA has also been named snoRNA R73 in some plants. U25 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 12 374 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 82 0 \N 0.63487 -3.97210 1600000 200378 172 87 1 -3.56790 0.71854 2013-10-03 23:22:19 2019-01-04 15:01:52 RF00055 SNORD96 1350 Small nucleolar RNA SNORD96 family Griffiths-Jones SR, Daub J Griffiths-Jones SR, Daub J 43.00 43.50 42.50 snoRNA Z37 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Z37 acts as a methylation guide for 5.8S ribosomal RNA. This family contains a putative snoRNA found in the intron of the receptor for activated C kinase (RACK1) gene in mammals (S. Griffiths-Jones, pers. obs.). This family also includes human snoRNAs U96a (SNORD96A) and U96b (SNORD96B) and the apicomplexan snoRNA snr39b. snoZ37 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24 -Z 549862.597050 CM SEQDB 9 388 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 111 0 \N 0.60444 -3.62034 1600000 251816 246 85 1 -3.35880 0.71850 2013-10-03 23:22:22 2019-01-04 15:01:52 RF00056 SNORA71 1351 Small nucleolar RNA SNORA71 Griffiths-Jones SR, Daub J Griffiths-Jones SR, INFERNAL 60.00 60.40 59.80 The members of this family belong to the H/ACA class of snoRNAs which bind a number of proteins (including dyskerin, Gar1p and Nop10p) to form snoRNP complexes. This class of snoRNAs are thought to guide the sites of modification of uridines to pseudouridines by forming direct base pairing interactions with substrate RNAs [2]. This family includes U71 (SNORA71), ACA39 (SNORA39) and ACA60 (SNORA60) [1,3]. U71 and ACA60 are predicted to guide the pseudouridylation of U406 and U1004 in 18S rRNA respectively [4]. There is currently no target RNA identified for ACA39 [3]. U71 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 40 384 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD 99 0 \N 0.54703 -7.95765 1600000 238816 238 134 1 -3.10720 0.71833 2013-10-03 23:22:31 2019-01-04 15:01:52 RF00057 RyhB 2506 RyhB RNA Bateman A, Moxon SJ Bateman A 55.00 55.20 54.80 The RyhB 90-nt RNA down-regulates a set of iron-storage and iron-using proteins when iron is limiting; it is itself negatively regulated by the ferric uptake repressor protein, Fur (Ferric uptake regulator). RyhB RNA levels are inversely correlated with mRNA levels for the sdhCDAB operon, encoding succinate dehydrogenase, as well as five other genes previously shown to be positively regulated by Fur by an unknown mechanism. These include two other genes encoding enzymes in the tricarboxylic acid cycle, acnA and fumA, two ferritin genes, ftnA and bfr, and a gene for superoxide dismutase, sodB [1]. This ncRNA gene was also identified in a screen and called SraI and it was found to be expressed only in stationary phase [2].First sRNA shown to mediate persistence to antibiotics in E.coli.[5] It may act both as an RNA-RNA interaction based regulator and as a transcript encoding for a small protein.[6] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.95 -Z 549862.597050 CM SEQDB 26 261 0 0 Gene; sRNA; Predicted; PFOLD; Moxon SJ 173 0 \N 0.54406 -6.58276 1600000 244407 143 67 1 -3.60660 0.71901 2013-10-03 23:22:36 2019-01-04 15:01:52 RF00058 HgcF 1353 HgcF RNA (Pab35) Bateman A Bateman A 70.00 120.30 34.70 The HgcF ncRNA gene was identified computationally in AT-rich hyperthermophiles. The genes were named hgcA through hgcG ("high GC"). It was also identified as Pab35 H/ACA snoRNA with rRNA targets.[2] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 11 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD 14 0 \N 0.60770 -9.37117 1600000 345853 292 168 1 -3.17800 0.71597 2013-10-03 23:22:40 2019-01-04 15:01:52 RF00059 TPP 1354 TPP riboswitch (THI element) Rodionov DA, Vitreshchak AG, Mironov AA, Gelfand MS, Bateman A, Moxon SJ, Ontiveros-Palacios N Vitreshchak A 54.30 54.30 54.20 Vitamin B(1) in its active form thiamin pyrophosphate (TPP) is an essential coenzyme that is synthesised by coupling of pyrimidine and thiazole moieties in bacteria. The previously detected thiamin-regulatory element, thi box [1] was extended, resulting in a new, highly conserved RNA secondary structure, the THI element, which is widely distributed in eubacteria and also occurs in some archaea. Analysis of operon structures identified a large number of new candidate thiamin-regulated genes, mostly transporters, in various prokaryotic organisms [2]. The THI element is a riboswitch [3] that directly binds to TPP to regulate gene expression through a variety of mechanisms in archaea, bacteria and eukaryotes [4,5]. through a variety of mechanisms in archaea, bacteria and eukaryotes [4,5]. Tandem TPP riboswitches have been reported [6] where both TPP riboswitches respond independently to TPP. The structure of TPP riboswitch has been reported for Escherichia coli and Arabidopsis thaliana [7-12]. THI cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 115 10091 0 0 Cis-reg; riboswitch; Published; PMID:12376536; 5552 0 \N 0.56597 -6.92772 1600000 241882 264 105 1 -4.12170 0.71844 2013-10-03 23:22:43 2022-10-29 16:55:16 RF00060 HgcE 1355 HgcE RNA (Pab105) Bateman A Bateman A 50.00 66.20 34.00 The HgcE ncRNA gene was identified computationally in AT-rich hyperthermophiles. The genes were named hgcA through hgcG ("high GC").It was also identified as a part of Pab105 H/ACA snoRNA with rRNA targets. [2] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.16 -Z 549862.597050 CM SEQDB 4 7 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD 10 0 \N 0.58901 -8.04642 1600000 320239 240 130 1 -2.96580 0.71820 2013-10-03 23:23:16 2019-01-04 15:01:52 RF00061 IRES_HCV 1356 Hepatitis C virus internal ribosome entry site Lamkiewicz K, Triebel S, Marz M Kevin Lamkiewicz, Sandra Triebel, Manja Marz 100.00 186.10 54.20 Genetic modification of RNA structures in Hepatitis C virus (HCV) genome affects replication and infectivity [1] Long distant RNA-RNA interactions in HCV RNAs are involved in translation to virion budding [2] It has been proposed that the 5'-3' UTR base-pairing in the HCV genome might play an important role in viral RNA replication [3] HCV_IRES cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 79 4 0 0 Cis-reg; IRES; Predicted; BM VeGETA v.0.4, LocARNA 2.0.0RC8, RNAfold ViennaRNA v.2.4.18 14 0 \N 0.69087 -8.64668 1600000 380216 410 252 1 -3.65610 0.70845 2013-10-03 23:23:19 2022-05-06 11:43:50 RF00062 HgcC 1357 HgcC family RNA Bateman A Bateman A 50.00 77.50 48.60 The HgcC ncRNA gene was identified computationally in AT-rich hyperthermophiles. The genes were named hgcA through hgcG ("high GC"). HgcC is of unknown function. Two other homologues were detected called HhcA and HhcB after "homologue of hgcC" [1]. This family contains a large number of putative archaeal matches to the 3' end of the known ncRNAs. Many of these partly overlap coding regions. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 13 0 0 Gene; Predicted; RNAalifold 7 0 \N 0.62167 -8.06393 1600000 285117 619 130 1 -3.09230 0.71835 2013-10-03 23:23:31 2022-10-29 16:55:16 RF00063 SscA 1358 SscA RNA Bateman A Bateman A 60.00 64.80 37.10 The SscA ncRNA gene was identified computationally in AT-rich hyperthermophiles using QRNA [1]. SscA stands for Secondary Structure Conserved A. SscA is 97 nucleotides in length and is of unknown function. This RNA is currently restricted to pyrococcal species. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 11 0 0 Gene; Predicted; PFOLD 15 0 \N 0.52620 -5.77538 1600000 234277 191 96 1 -3.76450 0.71866 2013-10-03 23:23:42 2019-01-04 15:01:52 RF00064 HgcG 1359 HgcG RNA (Pab40) Bateman A Bateman A 77.00 77.90 66.40 The HgcG ncRNA gene was identified computationally in AT-rich hyperthermophiles. The genes were named hgcA through hgcG ("high GC") [1]. HgcG is of unknown function. hgcG is significantly similar to a region of the Archaeoglobus fulgidus genome. In a recent experimental screen for ncRNAs in A. fulgidus, this locus was identified as the second-most abundant transcript (Afu-4) (T.-H. Tang, J.-P. Bachellerie, H. Huber, M. Drungowski, T. Elge, J. Brosius, and A. Hüttenhofer, personal communication in [1]).It was also identified as Pab40 H/ACA snoRNA with rRNA targets.[2] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 17.62 -Z 742849.287494 --mxsize 128 CM SEQDB 5 14 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD 19 0 \N 0.71022 -8.81822 1600000 416758 457 276 1 -3.82460 0.70707 2013-10-03 23:23:44 2021-07-05 13:43:57 RF00065 snoR9 1360 Small nucleolar RNA snoR9 Bateman A, Daub J Bateman A 90.00 98.00 52.60 snoRNA R9 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. R9 was identified in a computational screen in AT-rich hyperthermophiles [1]. R9 was found to overlap with the smaller snoRNA R19 which is currently a member of Pyrococcus C/D box snoRNA family Rfam:RF00095. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 50.00 -Z 742849.287494 CM SEQDB 5 6 0 0 Gene; snRNA; snoRNA; CD-box; Published; PMID:12032319 11 0 \N 0.62570 -8.28269 1600000 349210 238 128 1 -3.78220 0.71819 2013-10-03 23:23:49 2022-10-29 16:55:16 RF00066 U7 1361 U7 small nuclear RNA Griffiths-Jones SR, Marz M Griffiths-Jones SR; Published; PMID:18267300 34.00 34.00 33.90 Animal histone pre-mRNAs are spliced by a different mechanism than nuclear pre-mRNAs and self-splicing introns. This processing involves the U7 snRNP, which contains only one RNA species: U7. The 5' end of U7 RNA is thought to base-pair to a conserved spacer element downstream of the cleavage site in histone pre-mRNA. This family contains a number of annotated U7 pseudogenes. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.34 -Z 549862.597050 CM SEQDB 49 2931 0 0 Gene; snRNA; Predicted; PFOLD; Griffiths-Jones SR 115 0 \N 0.61220 -7.02458 1600000 280347 123 63 1 -4.17370 0.71894 2013-10-03 23:23:51 2019-01-04 15:01:52 RF00067 SNORD15 1362 Small nucleolar RNA SNORD15 Griffiths-Jones SR Griffiths-Jones SR; Plant snoRNA database, PMID:12520043 75.00 75.00 74.70 U15 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. U15 is encoded within the introns of ribosomal protein S1 in Xenopus and S3 in human and Fugu. snoR75 from Arabidopsis [3] and homologues in rice and other plants are alternatively known as U15, and, despite a significantly shorter sequence length, appear to be related [4]. U15 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.42 -Z 549862.597050 CM SEQDB 11 276 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Griffiths-Jones SR, Daub J 106 0 \N 0.58151 -10.37617 1600000 560148 254 145 1 -2.91310 0.71789 2013-10-03 23:24:17 2019-01-04 15:01:52 RF00068 SNORD21 1363 Small nucleolar RNA SNORD21 Griffiths-Jones SR Griffiths-Jones SR 63.00 64.00 62.50 U21 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. U21 is encoded within an intron of the gene for ribosomal protein L5 in mammals [1], but within introns of the ADP ribosylation factor gene in Drosophila [2]. U21 snoRNA has a 13 nt region of complementarity with an invariant region of eukaryotic 28S ribosomal RNA. U21 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 98 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Griffiths-Jones SR, Daub J 93 0 \N 0.57011 -4.12754 1600000 229533 187 95 1 -3.39650 0.71843 2013-10-03 23:24:26 2019-01-04 15:01:52 RF00069 SNORD24 1364 Small nucleolar RNA SNORD24 Griffiths-Jones SR Griffiths-Jones SR 41.00 41.20 40.80 U24 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs [1]. C/D box snoRNAs have been shown to act as methylation guides for a number of RNA targets [2,3]. U24 is encoded within an intron of the gene for ribosomal protein L7a in mammals, chicken and Fugu [4]. The U76 snoRNA is found in an intron of the uRNA host gene (UHG) growth arrest specific 5 (GAS5) transcript gene [5]. snoRNAs Z20 and U76 snoRNAs show clear similarity to U24. U24 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 781 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Griffiths-Jones SR, Daub J 369 0 \N 0.55420 -4.28849 1600000 254857 190 76 1 -3.30620 0.71866 2013-10-03 23:24:29 2019-01-04 15:01:52 RF00070 SNORD29 1365 Small nucleolar RNA SNORD29 Moxon SJ, Griffiths-Jones SR Moxon SJ; Griffiths-Jones SR 48.00 49.10 47.70 U29 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. U29 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22 -Z 549862.597050 CM SEQDB 10 114 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ, Daub J 72 0 \N 0.60287 -4.78751 1600000 264626 224 65 1 -3.75840 0.71889 2013-10-03 23:24:36 2019-01-04 15:01:52 RF00071 SNORD73 1366 Small nucleolar RNA SNORD73 Griffiths-Jones SR Griffiths-Jones SR, INFERNAL 42.00 43.50 41.10 U73 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. U73 is encoded within the introns of ribosomal protein S3a and contains a 12nt region of complementarity to a conserved sequence in 28S ribosomal RNA. U73 is therefore thought to function as a 2'-O-ribose methylation guide for pre-rRNA. U73 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 25 153 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Griffiths-Jones SR 110 0 \N 0.56324 -4.06014 1600000 282081 189 72 1 -3.48470 0.71874 2013-10-03 23:24:57 2019-01-04 15:01:52 RF00072 SNORA75 1367 Small nucleolar RNA SNORA75 Bachellerie JP, Griffiths-Jones SR Griffiths-Jones SR 80.00 80.10 78.00 U23 belongs to the H/ACA class of snoRNAs. snoRNAs bind a number of proteins (including dyskerin, Gar1p and Nop10p in the case of the H/ACA class) to form snoRNP complexes. This class are thought to guide the sites of modification of uridines to pseudouridines by forming direct base pairing interactions with substrate RNAs [3]. Targets include ribosomal and spliceosomal RNAs as well as the Trypanosoma spliced leader RNA (SL RNA) as possibly other, still unknown cellular RNAs [3]. U23 can direct the pseudouridylation of U97 in human 18S rRNA (Bachellerie JP, Ganot, P unpublished data). U23 is encoded within intron 12 of the nucleolin gene in human, mouse, rat chicken, and Xenopus laevis. U23 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 100 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD; Griffiths-Jones SR 76 0 \N 0.47750 -7.89248 1600000 283090 247 134 1 -3.02750 0.71824 2013-10-03 23:25:00 2019-01-04 15:01:52 RF00073 mir-156 1368 mir-156 microRNA precursor Griffiths-Jones SR Griffiths-Jones SR 62.00 62.10 61.90 This family represents the plant microRNA (miRNA) precursor mir-156. This miRNA has now been predicted or experimentally confirmed in a range of plant species (MIPF:MIPF0000008). Animal miRNAs are transcribed as ~70nt precursors and subsequently processed by the Dicer enzyme to give a ~22nt product. In plants the precursor sequences may be longer, and the carpel factory (caf) enzyme appears to be involved in processing. In this case the mature sequence comes from the 5' arm of the precursor, and both Arabidopsis and rice genomes contain a number of related miRNA precursors which give rise to almost identical mature sequences. The extents of the hairpin precursors are not generally known and are estimated based on hairpin prediction. The products are thought to have regulatory roles through complementarity to mRNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 476 0 0 Gene; miRNA; Predicted; PFOLD 76 0 \N 0.62553 -4.17853 1600000 244917 190 88 1 -3.27760 0.71887 2013-10-03 23:25:08 2021-11-19 10:36:03 RF00074 mir-29 1369 mir-29 microRNA precursor Griffiths-Jones SR, Daub J INFERNAL 46.70 46.70 46.60 This family represents the microRNA (miRNA) precursors mir-29. This miRNA has been predicted or confirmed in a wide range of species (MIPF:MIPF0000009). Animal miRNAs are transcribed as ~70nt precursors and subsequently processed by the Dicer enzyme to give a ~22nt product. In this case the mature sequence comes from the 3' arm of the precursor. The extents of the hairpin precursors are not generally known and are estimated based on hairpin prediction. The products are thought to have regulatory roles through complementarity to mRNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 10 523 0 0 Gene; miRNA; Predicted; PFOLD 132 0 \N 0.62708 -3.88120 1600000 221064 151 71 1 -3.77530 0.71913 2013-10-03 23:25:24 2022-05-06 11:43:50 RF00075 mir-166 1370 mir-166 microRNA precursor Griffiths-Jones SR, Daub J Griffiths-Jones SR, Daub J 60.00 60.40 59.80 This family represents the plant microRNA (miRNA) precursor mir-166. This miRNA has now been predicted or experimentally confirmed in a wide range of plant species (MIPF:MIPF0000004). Animal miRNAs are transcribed as ~70nt precursors and subsequently processed by the Dicer enzyme to give a ~22nt product. In plants the precursor sequences may be longer, and the carpel factory (caf) enzyme appears to be involved in processing. In this case the mature sequence comes from the 3' arm of the precursor, and both Arabidopsis and rice genomes contain a number of related miRNA precursors which give rise to almost identical mature sequences. The extents of the hairpin precursors are not generally known and are estimated based on hairpin prediction. The products are thought to have regulatory roles through complementarity to mRNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 31 887 0 0 Gene; miRNA; Predicted; PFOLD 80 0 \N 0.68706 -4.31951 1600000 216169 686 126 1 -3.07990 0.71834 2013-10-03 23:25:29 2021-11-19 10:36:03 RF00076 mir-181 1371 mir-181 microRNA precursor Griffiths-Jones SR, Daub J Griffiths-Jones SR, INFERNAL 45.50 45.50 45.40 This family represents the microRNA (miRNA) mir-181 which has been predicted or experimentally confirmed in a wide number of vertebrate species (MIPF:MIPF0000007). miRNAs are transcribed as ~70nt precursors (modelled here) and subsequently processed by the Dicer enzyme to give a ~22nt product. In this case the mature sequence comes from the 5' arm of the precursor. The extents of the hairpin precursors are not generally known and are estimated based on hairpin prediction. The products are thought to have regulatory roles through complementarity to mRNA. The involvement of Dicer in miRNA processing suggests a relationship with the phenomenon of RNA interference. miRNAs are numbered based on the sequence of the mature RNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 19 327 0 0 Gene; miRNA; Predicted; PFOLD 117 0 \N 0.68756 -2.45990 1600000 162672 164 76 1 -3.95290 0.71901 2013-10-03 23:25:43 2022-05-06 12:10:02 RF00077 SraB 1372 SraB RNA Bateman A Bateman A 130.00 133.90 127.80 This RNA was discovered in E. coli during a large scale screen [1]. This ncRNA was found to be expressed only in stationary phase [1]. The function of this RNA is unknown. sraB cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 9 0 0 Gene; sRNA; Predicted; PFOLD 13 0 \N 0.53773 -9.57529 1600000 352566 292 169 1 -3.34080 0.71567 2013-10-03 23:25:48 2019-01-04 15:01:52 RF00078 MicA 1373 MicA sRNA Barquist LE Predicted; Barquist LE 41.00 42.30 40.50 \N SraD; MicA cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 17 113 0 0 Gene; sRNA; Predicted; Udekwu KI; WAR 128 0 \N 0.47393 -7.94632 1600000 250275 164 75 1 -3.28800 0.71902 2013-10-03 23:25:50 2021-11-19 11:53:18 RF00079 OmrA-B 1374 OmrA-B family Barquist LE Predicted; WAR; Infernal 40.00 42.90 37.90 \N SraE_OmrA_OmrB; OmrA-B; SraE_RygA_RygB; SraE cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 23 146 0 0 Gene; sRNA; Predicted; WAR 108 0 \N 0.55338 -6.85941 1600000 301359 187 87 1 -3.16620 0.71872 2013-10-03 23:25:53 2019-01-04 15:01:52 RF00080 yybP-ykoY 1375 yybP-ykoY manganese riboswitch Moxon SJ Barrick JE, Breaker RR 45.00 45.00 44.90 This RNA was originally discovered in E. coli during a large scale screen and was named SraF [1]. The family was later found to exist upstream of related families of protein genes in many bacteria, including the the yybP and ykoK genes in B. subtilis. The specific functions of these proteins are unknown, but this structured RNA element may be involved in their genetic regulation as a riboswitch [2]. SraF cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.53 -Z 549862.597050 --mxsize 128 CM SEQDB 29 803 0 0 Cis-reg; riboswitch; Predicted; Barrick JE, Breaker RR 736 0 \N 0.66591 -9.00901 1600000 249099 551 175 1 -3.64700 0.71513 2013-10-03 23:25:57 2019-01-04 15:01:52 RF00081 ArcZ 1376 ArcZ RNA Bateman A Bateman A 66.00 67.00 65.70 This RNA was discovered in E. coli during a large scale screen [1]. SraH expression is highly abundant in stationary phase, but low levels could be detected in exponentially growing cells as well [1]. The function of this RNA is unknown. ArcZ_RNA; SraH cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 61 0 0 Gene; sRNA; Predicted; PFOLD 67 0 \N 0.61927 -6.02763 1600000 230162 203 106 1 -3.37880 0.71848 2013-10-03 23:26:09 2019-01-04 15:01:52 RF00082 SraG 1239 SraG RNA Bateman A Bateman A, INFERNAL 50.00 54.40 47.60 This RNA was discovered in E. coli during a large scale screen [1]. Evidence was found for specific cleavage of this RNA [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 120 0 0 Gene; sRNA; Predicted; PFOLD 123 0 \N 0.49228 -9.38018 1600000 322345 297 177 1 -3.17950 0.71479 2013-02-01 11:56:41 2022-05-06 12:09:54 RF00083 GlmZ_SraJ 1377 GlmZ RNA activator of glmS mRNA Bateman A, Gardner P Published; PMID:18351803 40.00 40.40 37.70 This RNA was discovered in E. coli during a large scale screen [1]. The sraJ gene was expressed in early logarithmic phase, but its level decreased with cell growth [1]. Specific cleavage products of this RNA were found [1]. The function of this RNA is unknown. Identified in Yersinia pseudotuberculosis as Ysr248/153/sR016 [4]. SraJ cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 21 100 0 0 Gene; sRNA; Published; PMID:18351803 119 0 \N 0.63239 -8.90795 1600000 339949 409 212 1 -3.61180 0.71132 2013-10-03 23:26:27 2021-07-05 13:43:57 RF00084 CsrC 1378 CsrC RNA family Bateman A Bateman A 61.00 64.70 58.40 The 245 nucleotide sRNA of Escherichia coli, CsrC, was discovered using a genetic screen for factors that regulate glycogen biosynthesis. CsrC RNA binds multiple copies of CsrA Pfam:PF02599, a protein that post-transcriptionally regulates central carbon flux, biofilm formation and motility in E. coli. CsrC antagonises the regulatory effects of CsrA, presumably by sequestering this protein. The discovery of CsrC is intriguing, in that a similar sRNA, CsrB, performs essentially the same function. Both sRNAs possess similar imperfect repeat sequences (18 in CsrB, nine in CsrC), primarily localised in the loops of predicted hairpins, which may serve as CsrA binding elements. Transcription of csrC increases as the culture approaches the stationary phase of growth and is indirectly activated by CsrA via the response regulator UvrY [1]. This RNA was also discovered in E. coli during a large scale screen [2]. The gene called SraK, was highly abundant in stationary phase, but low levels could be detected in exponentially growing cells as well [2]. SraK cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 16.55 -Z 549862.597050 CM SEQDB 4 38 0 0 Gene; sRNA; Predicted; PFOLD 42 0 \N 0.76653 -8.06896 1600000 456319 397 255 1 -3.31650 0.70821 2013-10-03 23:26:30 2021-07-05 13:43:57 RF00085 SNORD28 1379 Small nucleolar RNA SNORD28 Griffiths-Jones SR Griffiths-Jones SR, INFERNAL 50.00 53.80 49.80 U28 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. U28 is encoded within the U22 snoRNA host gene (UHG) in mammals [1] and is thought to act as a 2'-O-ribose methylation guide for ribosomal RNA. U28 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 68 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Griffiths-Jones SR 45 0 \N 0.55624 -3.82460 1600000 254489 168 77 1 -3.30630 0.71866 2013-10-03 23:26:38 2019-01-04 15:01:52 RF00086 SNORD27 1380 Small nucleolar RNA SNORD27 Griffiths-Jones SR, Moxon SJ Griffiths-Jones SR, Moxon SJ, Daub J 52.00 53.20 51.50 U27 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. U27 is encoded within the U22 snoRNA host gene (UHG) in mammals [1] and is thought to act as a 2'-O-ribose methylation guide for ribosomal RNA. This family also contains several related snoRNAs from yeast and plants. U27 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.44 -Z 549862.597050 CM SEQDB 8 71 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Moxon SJ, Daub J 55 0 \N 0.57043 -3.45400 1600000 231351 153 71 1 -3.44970 0.71875 2013-10-03 23:26:42 2019-01-04 15:01:52 RF00087 SNORD26 1381 Small nucleolar RNA SNORD26 Griffiths-Jones SR Griffiths-Jones SR, INFERNAL 44.00 45.50 43.30 U26 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. U26 is encoded within the U22 snoRNA host gene (UHG) in mammals [1] and is thought to act as a 2'-O-ribose methylation guide for ribosomal RNA. U26 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 17 70 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Griffiths-Jones SR 63 0 \N 0.66029 -3.56949 1600000 269170 160 76 1 -3.58720 0.71870 2013-10-03 23:26:48 2019-01-04 15:01:52 RF00088 SNORD30 1382 Small nucleolar RNA SNORD30 Griffiths-Jones SR Griffiths-Jones SR, INFERNAL 40.00 40.30 39.70 U30 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. U30 is encoded within the U22 snoRNA host gene (UHG) in mammals [1] and is thought to act as a 2'-O-ribose methylation guide for ribosomal RNA. U30 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.95 -Z 549862.597050 CM SEQDB 20 78 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Daub J 60 0 \N 0.47604 -6.47956 1600000 256219 152 70 1 -3.94780 0.71896 2013-10-03 23:26:50 2021-07-05 13:43:57 RF00089 SNORD31 1383 Small nucleolar RNA SNORD31 Griffiths-Jones SR Griffiths-Jones SR, INFERNAL 40.00 40.00 39.50 U31 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. U31 is encoded within the U22 snoRNA host gene (UHG) in mammals [1] and is thought to act as a 2'-O-ribose methylation guide for ribosomal RNA. U31 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 26 222 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Daub J 114 0 \N 0.66233 -4.16658 1600000 216879 145 69 1 -3.99570 0.71875 2013-10-03 23:26:55 2019-01-04 15:01:52 RF00090 SNORA74 1384 Small nucleolar RNA SNORA74 Griffiths-Jones SR Griffiths-Jones SR, INFERNAL 71.00 72.40 70.60 U19 belongs to the H/ACA class of snoRNAs. snoRNAs bind a number of proteins (including dyskerin, Gar1p and Nop10p in the case of the H/ACA class) to form snoRNP complexes. This class are thought to guide the sites of modification of uridines to pseudouridines by forming direct base pairing interactions with substrate RNAs [1]. Targets may include ribosomal and spliceosomal RNAs but the exact functions of many snoRNAs, including U19, are not confirmed. Co-precipitation of U19 snoRNA with RNase MRP RNA suggests that U19 may be involved in pre-rRNA processing [2]. U19 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.50 -Z 549862.597050 CM SEQDB 24 250 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD; Griffiths-Jones SR 110 0 \N 0.66878 -8.48468 1600000 392067 322 201 1 -3.43880 0.71229 2013-10-03 23:26:58 2019-01-04 15:01:52 RF00091 SNORA62 1385 Small nucleolar RNA SNORA62/SNORA6 family Griffiths-Jones SR, Moxon SJ, Daub J Griffiths-Jones SR 80.00 80.10 79.90 The members of this family belong to the H/ACA class of snoRNAs which are predicted to guide the sites of modification of uridines to pseudouridines [3]. This family includes human snoRNAs E2 (SNORA62), ACA6 (SNORA6) and M2 and mouse MBI-136. In humans both E2 and ACA6 are encoded in the introns on the same host gene (LAMR1)[1,3]. E2 is involved in the processing of eukaryotic pre-rRNA and has regions of complementarity to 28S rRNA [2]. ACA6 is predicted to guide the pseudouridylation of residue U3616 of 28S rRNA [5]. E2 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.00 -Z 549862.597050 CM SEQDB 18 380 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD; Moxon SJ 105 0 \N 0.54094 -8.96921 1600000 301969 270 156 1 -3.14010 0.71764 2013-10-03 23:27:03 2019-01-04 15:01:52 RF00092 SNORA63 1386 Small nucleolar RNA SNORA63 Griffiths-Jones SR Griffiths-Jones SR 90.00 90.00 89.90 E3 belongs to the H/ACA class of snoRNAs and is involved in the processing of eukaryotic pre-rRNA and has regions of complementarity to 18S rRNA. E3 is encoded in introns in the gene for protein synthesis initiation factor 4AII [1]. E3 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 233 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD; Griffiths-Jones SR 103 0 \N 0.48205 -8.87185 1600000 289376 237 130 1 -3.37590 0.71812 2013-10-03 23:27:17 2019-01-04 15:01:52 RF00093 SNORD18 1387 Small nucleolar RNA SNORD18 Griffiths-Jones SR Griffiths-Jones SR 41.00 41.00 40.90 U18 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. It is encoded in introns of ribosomal protein L1 in Xenopus and human, and in introns of elongation factor 1 beta in yeast. Related snoRNAs in Arabidopsis and rice have been named R63 and Z106 respectively. Factors involved in the processing of the intronic snoRNA have recently been elucidated [2]. U18 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22 -Z 549862.597050 CM SEQDB 16 655 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Griffiths-Jones SR 308 0 \N 0.55560 -5.73799 1600000 264009 251 73 1 -3.71800 0.71868 2013-10-03 23:27:23 2019-01-04 15:01:52 RF00094 HDV_ribozyme 1388 Hepatitis delta virus ribozyme Griffiths-Jones SR, Daub J Griffiths-Jones SR, Daub J 50.00 55.00 49.00 The hepatitis delta virus (HDV) ribozyme is necessary for viral replication and is thought to be the only catalytic RNA known to be required for viability of a human pathogen. The ribozyme acts to process the RNA transcripts to unit lengths in a self cleavage reaction. The ribozyme is found to be active in vivo in the absence of any protein factors and is the fastest known naturally occurring self-cleaving RNA [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 33 7 0 0 Gene; ribozyme; Published; PMID:9783582 4 0 \N 0.40947 -10.31077 1600000 237676 185 91 1 -3.05310 0.71882 2013-10-03 23:27:45 2019-01-04 15:01:52 RF00095 snoPyro_CD 1389 Pyrococcus C/D box small nucleolar RNA Griffiths-Jones SR Griffiths-Jones SR 45.00 45.10 44.90 Computational screens have identified C/D box snoRNAs in a number of archaeal genomes [1,2]. This family represents several related snoRNAs from Pyrococcus. These RNAs are thought to act as guides for the 2'-O-ribose methylation of ribosomal RNA. CD_sno_Pyro cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 25 24 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 17 0 \N 0.60090 -6.72604 1600000 342045 118 58 1 -4.33630 0.72079 2013-10-03 23:27:49 2022-10-29 16:55:16 RF00096 U8 1390 U8 small nucleolar RNA Griffiths-Jones SR, Gardner PP Griffiths-Jones SR, Gardner PP 41.00 41.40 40.90 U8 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. U8 is the RNA component of a small complex (the U8 snoRNP) which is required for accumulation of mature large subunit ribosomal RNAs, 5.8S and 28S rRNAs. U8 RNA has been identified in human, mouse, rat and Xenopus. CeN21; CeR-2 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 55 375 0 0 Gene; snRNA; snoRNA; CD-box; Published; PMID:11675000; Gardner PP 95 0 \N 0.51924 -9.75710 1600000 421749 231 135 1 -3.62570 0.71800 2013-10-03 23:28:58 2019-01-04 15:01:52 RF00097 snoR71 1391 Plant small nucleolar RNA R71 Griffiths-Jones SR Griffiths-Jones SR, INFERNAL 40.00 40.00 39.90 R71 is a member of the C/D box family of snoRNAs containing the C (UGAUGA) and D (CUGA) box motifs. Multiple nearly identical copies of this snoRNA have been identified in Arabidopsis, and it is thought to function as a 2'-O-ribose methylation guide for 18S ribosomal RNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 25 60585 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 69 0 \N 0.60110 -4.97338 1600000 227896 201 107 1 -3.48540 0.71827 2013-10-03 23:29:09 2019-01-04 15:01:52 RF00099 SNORD22 1392 Small nucleolar RNA SNORD22 Griffiths-Jones SR Griffiths-Jones SR, INFERNAL 50.00 51.20 49.20 U22 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. U22 is encoded within the U22 snoRNA host gene (UHG) in mammals [1] and has also been identified in Xenopus [2]. U22 is thought to as a 2'-O-ribose methylation guide for ribosomal RNA. U22 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 49 206 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Daub J 70 0 \N 0.63210 -4.97552 1600000 274308 230 126 1 -2.97210 0.71799 2013-10-03 23:30:14 2019-01-04 15:01:52 RF00100 7SK 1393 7SK RNA Griffiths-Jones SR, Gardner PP Published; PMID:18193315 35.00 35.00 34.90 7SK was discovered as an abundant small nuclear RNA in the mid-70s but a possible function has only recently been suggested [1]. Two independent studies have found that 7SK RNA binds the CDK9/cyclin T complex (known as elongation factor P-TEFb). P-TEFb activates transcription by phosphorylating the C-terminal domain of RNA polymerase II. This process is negatively regulated by the 7SK RNP. The secondary structure of 7SK RNA shown here was proposed by Wasserman and Steitz on the basis of chemical modification and enzymatic cleavage experiments [2]. This family contains a number of annotated pseudogenes and 7SK derived repeats. The threshold is artificially high to minimise the pseudogene count. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 45 15232 0 0 Gene; Published; PMID:1646389 136 0 \N 0.67810 -8.68824 1600000 312385 544 330 1 -4.43900 0.70488 2013-10-03 23:30:23 2021-07-05 13:43:57 RF00101 SraC_RyeA 2373 SraC/RyeA RNA Bateman A Bateman A 37.00 37.20 36.80 This RNA was discovered in E. coli during a large scale screens [1-2]. The function of this RNA is unknown. This RNA overlaps RFAM:RF00111 on the opposite strand suggesting that the two may act in a concerted manner. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 185 0 0 Gene; sRNA; Predicted; PFOLD 197 0 \N 0.61149 -4.33069 1600000 286924 261 145 1 -3.03550 0.71800 2013-10-03 23:32:07 2021-07-05 13:43:57 RF00102 VA 1395 VA RNA Bateman A, Moxon SJ Bateman A, Moxon SJ 37.00 37.00 36.90 The VA (viral associated) RNA is found in adenovirus. It plays a role in regulating translation. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 54 81 0 0 Gene; Published; PMID:8809020, Moxon SJ 68 0 \N 0.48769 -9.33544 1600000 248227 300 159 1 -2.97680 0.71751 2013-10-03 23:32:10 2019-01-04 15:01:52 RF00103 mir-1 1396 mir-1 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 46.10 46.10 46.00 This family represents the microRNA (miRNA) mir-1 family. miRNAs are transcribed as ~70nt precursors (modelled here) and subsequently processed by the Dicer enzyme to give a ~22nt product. In this case the mature sequence comes from the 3' arm of the precursor. The extents of the hairpin precursors are not generally known and are estimated based on hairpin prediction. The products are thought to have regulatory roles through complementarity to mRNA. The involvement of Dicer in miRNA processing suggests a relationship with the phenomenon of RNA interference. miRNAs are numbered based on the sequence of the mature RNA. This family also contains the mir-206 from human, which appears to be related to mir-1. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 66 758 0 0 Gene; miRNA; Predicted; PFOLD 274 0 \N 0.60735 -3.50845 1600000 118134 154 77 1 -4.18430 0.71905 2013-10-03 23:32:16 2021-11-19 11:53:18 RF00104 mir-10 1397 mir-10 microRNA precursor family Griffiths-Jones SR, Daub J Griffiths-Jones SR 47.50 47.50 47.40 This family represents the microRNA (miRNA) mir-10 family, which contains mir-10, mir-51, mir-57, mir-99 and mir-100. mir-10, mir-99 and mir-100 have now been predicted or experimentally confirmed in a wide range of species (MIPF:MIPF0000033, MIPF:MIPF0000025). mir-51 and mir-57 have currently only been identified in the nematode Caenorhabditis elegans (MIPF:MIPF0000268, MIPF:MIPF0000271). miRNAs are transcribed as ~70nt precursors (modelled here) and subsequently processed by the Dicer enzyme to give a ~22nt product. In this case the mature sequence comes from the 5' arm of the precursor. The extents of the hairpin precursors are not generally known and are estimated based on hairpin prediction. The products are thought to have regulatory roles through complementarity to mRNA. The involvement of Dicer in miRNA processing suggests a relationship with the phenomenon of RNA interference. miRNAs are numbered based on the sequence of the mature RNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 36 727 0 0 Gene; miRNA; Predicted; PFOLD 216 0 \N 0.73695 -2.25810 1600000 172454 146 75 1 -3.96230 0.71887 2013-10-03 23:32:23 2021-11-19 10:36:03 RF00105 SNORD115 1398 Small nucleolar RNA SNORD115 Griffiths-Jones SR Griffiths-Jones SR 39.00 39.00 38.90 HBII-52 is a member of the C/D class of snoRNAs, which contain the C (UGAUGA) and D (CUGA) box motifs. HBII-52 is encoded in a tandemly repeated array with another C/D snoRNA, HBII-85, in the Prader-Willi syndrome (PWS) region of chromosome 15. HBII-52 is exclusively expressed in the brain but is absent in PWS patients. HBII-52 lacks any significant complementarity with ribosomal RNAs, but does have an 18-nt region of conserved complementarity to serotonin 2C receptor mRNA. snoHBII-52; HBII-52 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24 -Z 549862.597050 CM SEQDB 32 1184 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Daub J 38 0 \N 0.59730 -4.06540 1600000 280574 171 82 1 -3.24350 0.71863 2013-10-03 23:32:49 2019-01-04 15:01:52 RF00106 RNAI 1399 RNAI Griffiths-Jones SR Griffiths-Jones SR 47.00 47.00 46.90 RNAI is an antisense repressor of the replication of some E. coli plasmids, including ColE1. Plasmid replication is usually initiated by RNAII, which acts as a primer by binding to its template DNA. The complementary RNAI binds RNAII prohibiting it from its initiation role. The rate of degradation of RNAI is therefore a major factor in control of plasmid replication. This rate of degradation is aided by the pcnB (plasmid copy number B) gene product, which polyadenylates the 3' end of RNAI targeting it for degradation by PNPase. Please note: This family contains subsequences annotated as human (Z96734), Arabidopsis (AB003142), Xenopus (X91243) and S. pombe (L25927, L25928), which match with highly significant scores. These eukaryotic matches are almost certainly the result of vector contamination. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 141 0 0 Gene; antisense; Published; PMID:7535193 89 0 \N 0.53317 -8.04217 1600000 248994 198 102 1 -2.96690 0.71874 2013-10-03 23:33:02 2019-01-04 15:01:52 RF00107 FinP 1400 FinP Griffiths-Jones SR Griffiths-Jones SR 45.00 50.80 43.10 The FinOP system regulates the transfer of F-like plasmids. FinP encodes an antisense RNA product that is complementary to part of the 5' UTR of the traJ mRNA. The traJ gene encodes a protein required for transcription from the major transfer promoter, pY. The FinO protein is essential for effective repression, acting by binding to FinP and protecting it from RNase E degradation. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 11 0 0 Gene; Published; PMID:9917389 12 0 \N 0.56773 -6.16528 1600000 218265 170 79 1 -3.64840 0.71894 2013-10-03 23:33:10 2019-01-04 15:01:52 RF00108 SNORD116 1401 Small nucleolar RNA SNORD116 Griffiths-Jones SR Griffiths-Jones SR 35.00 35.20 34.90 HBII-85 is a member of the C/D class of snoRNAs, which contain the C (UGAUGA) and D (CUGA) box motifs. HBII-85 is encoded in a tandemly repeated array with another C/D snoRNA, HBII-52, in the Prader-Willi syndrome (PWS) region of chromosome 15. Unlike most other snoRNAs, HBII-85 is expressed prevalently in the brain (but is absent in PWS patients) and lacks any significant complementarity with ribosomal RNA. snoHBII-85; HBII-85 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22 -Z 549862.597050 CM SEQDB 48 809 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Daub J 52 0 \N 0.60297 -2.89502 1600000 240853 191 92 1 -3.48040 0.71852 2013-10-03 23:33:19 2019-01-04 15:01:52 RF00109 Vimentin3 1402 Vimentin 3' UTR protein-binding region Griffiths-Jones SR Griffiths-Jones SR 36.00 36.20 35.70 The 3' UTR of the vimentin mRNA contains a Y shaped structure which has been shown to have protein binding activity [1]. The same region has been implicated in the control of mRNA localisation to the perinuclear region of the cytoplasm, possibly at sites of intermediate filament assembly [2]. The identity of the proteins involved and the localisation mechanism are not known. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29 -Z 549862.597050 CM SEQDB 19 160 0 0 Cis-reg; Published; PMID:9241253 103 0 \N 0.53445 -4.42432 1600000 230937 174 67 1 -3.71250 0.71910 2013-10-03 23:33:39 2019-01-04 15:01:52 RF00110 RybB 1403 RybB RNA Bateman A Gottesman S, Storz G 40.00 41.60 38.10 This ncRNA was identified in a large scale screen of E. coli [1]. The function of this short RNA is unknown. The exact 5' and 3' ends of this RNA are uncertain. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 115 0 0 Gene; sRNA; Predicted; PFOLD 117 0 \N 0.56616 -7.92658 1600000 339298 167 79 1 -3.34080 0.71866 2013-10-03 23:33:48 2019-01-04 15:01:52 RF00111 SdsR_RyeB 1404 SdsR_RyeB RNA Bateman A Gottesman S 38.00 38.90 36.90 This ncRNA was identified in a large scale screen of E. coli [1]. The exact 5' and 3' ends of this RNA are uncertain. This RNA overlaps RFAM:RF00101 on the opposite strand suggesting that the two may act in a concerted manner. The homologous sRNA in S. enterica was shown to regulate synthesis of major porin OmpD. A study using Salmonella identified 20 targets of this sRNA including transcriptional regulator, CRP, global DNA-binding factors, StpA and HupB, the antibiotic transporter protein, TolC, and the RtsA/B two-component system (TCS), and validated their post-transcriptional control by SdsR/RyeB RNA. SdsR (sigma-S-dependent sRNA). RyeB; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 17 222 0 0 Gene; sRNA; Predicted; PFOLD 236 0 \N 0.54680 -6.18833 1600000 265426 192 100 1 -3.83470 0.71854 2013-10-03 23:33:51 2021-07-05 13:43:57 RF00112 CyaR_RyeE 1405 CyaR/Rye RNA Bateman A, Daub J Gottesman S, Storz G, INFERNAL 47.00 49.00 45.80 This sRNA was originally identified in a large scale screen of E. coli. It was shown to bind Hfq and called RyeE [1]. This sRNA has since been characterised as a post-transcriptional regulator of the 18 kDa OmpX porin in Salmonella [2]. Phylogenetic and mutational analyses suggest that a conserved RNA hairpin of this sRNA which features a C-rich apical loop, acts to sequester the Shine-Dalgarno sequence of ompX mRNA and inhibits translational initiation [2]. The expression of this sRNA has been shown to be tightly controlled by the cyclic AMP receptor protein, CRP and has been renamed CyaR (cyclic AMP-activated RNA)[2]. CyaR appears to be highly conserved amongst enterobacteria and the cyaR gene is frequently located downstream of the yegQ gene. RyeE cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 17 88 0 0 Gene; sRNA; Predicted; PFOLD 99 0 \N 0.57024 -4.99537 1600000 259329 177 85 1 -3.20560 0.71869 2013-10-03 23:33:54 2019-01-04 15:01:52 RF00113 SIB_RNA 1244 Short Intergenic Abundant RNA Bateman A Gottesman S, Storz G 56.00 59.30 55.70 This family contains multiple ncRNA from E. coli that were identified in a large scale screen of E. coli, were they were called candidates 43,55 and 61 [1]. These RNAs have also been identified by other groups and called QUAD RNAs. QUAD; QUAD_RNA cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.02 -Z 549862.597050 CM SEQDB 17 37 0 0 Gene; antitoxin; Predicted; PFOLD 31 0 \N 0.57298 -7.33823 1600000 327560 258 147 1 -3.16710 0.71808 2013-02-01 11:56:44 2019-01-04 15:01:52 RF00114 S15 1406 Ribosomal S15 leader Bateman A Ji Y 39.50 39.50 39.40 The E. coli Ribosomal S15 gene 5' UTR can form two alternative structures. One that is a series of three hairpins, The other includes a pseudoknot. This structure causes translational regulation of the S15 protein. The alignment of this family contains only the final two hairpins which are conserved in other species, and also includes the complete region that forms the alternate structures. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 78 554 0 0 Cis-reg; leader; Published; PMID:8955900 603 0 \N 0.63777 -7.79167 1600000 396848 209 117 1 -3.43210 0.71817 2013-10-03 23:34:06 2021-07-05 13:43:57 RF00115 McaS 1407 McaS/IsrA RNA Argasinska J Argasinska J 42.00 42.10 38.70 This family consists of several bacterial RNA genes which are found between the abgR and ydaL genes in Escherichia coli and Shigella flexneri.[1] It was discovered using a computational screen of the E. coli genome.[1] Subsequent characterisation of ISO61 region has revealed that the reverse strand is actually a CsrA binding ncRNA called McaS and that it has a role in biofilm formation control.[2] Furthermore, it has been shown that McaS(IsrA) exists as a ribonucleoprotein particles (sRNPs), which involve a defined set of proteins including Hfq, S1, CsrA, ProQ and PNPase.[4] IS061; cmbuild -n -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 13 0 0 Gene; sRNA; Predicted; 22289118 17 0 \N 0.52501 -7.54463 1600000 289422 194 96 1 -3.28380 0.71867 2013-10-03 23:34:19 2021-07-05 13:43:57 RF00116 C0465 1408 C0465 RNA Moxon SJ Hershberg R 40.00 42.50 35.30 This family consists of a number of bacterial RNA genes of 78 bases in length which are found between the tar and cheW genes in E. coli and Shigella flexneri. The function of this RNA is unknown. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 1 0 0 Gene; sRNA; Predicted; PFOLD 9 0 \N 0.54001 -7.31484 1600000 389877 171 78 1 -3.38440 0.71889 2013-10-03 23:34:22 2019-01-04 15:01:52 RF00117 C0719 1409 C0719 RNA Moxon SJ Hershberg R 50.00 69.30 34.90 This family consists of a number of bacterial RNA genes, of 222 bases in length, which are found between the yghK and glcB genes in both Shigella flexneri and Escherichia coli. The function of this RNA is unknown. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.27 -Z 549862.597050 CM SEQDB 9 1 0 0 Gene; sRNA; Predicted; ILM 10 0 \N 0.63554 -9.24939 1600000 408212 360 222 1 -3.62010 0.71034 2013-10-03 23:34:28 2019-01-04 15:01:52 RF00118 rydB 1410 rydB RNA Barquist L mafft; Infernal 50.00 59.20 37.10 This family consists of several bacterial sequences from E. coli, Shigella flexneri and Salmonella species. This RNA gene was discovered by an RNA screen [1] between the ydiC and ydiH in E. coli. This gene is only 67 bases in length and is composed of a hairpin like structure. The function of this RNA is unknown. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18.5 -Z 549862.597050 CM SEQDB 7 49 0 0 Gene; sRNA; Predicted; RNAalifold 45 0 \N 0.66075 -4.03185 1600000 202687 142 62 1 -3.83230 0.71915 2013-10-03 23:34:31 2019-01-04 15:01:52 RF00119 C0299 1411 C0299 RNA Moxon SJ Hershberg R 40.00 52.20 32.40 This family consists of a group of Shigella flexneri and Escherichia coli RNA genes which are 78 bases in length and are found between the hlyE and umuD genes. The function of this RNA is unknown. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 2 0 0 Gene; sRNA; Predicted; PFOLD 6 0 \N 0.55514 -7.56688 1600000 386091 172 79 1 -3.49020 0.71873 2013-10-03 23:34:40 2019-01-04 15:01:52 RF00121 MicC 1412 MicC RNA Moxon SJ Hershberg R 90.00 94.70 81.30 MicC (previously known as IS063 [1]) is located between the ompN and ydbK genes in E. coli. This family of Hfq-associated sRNA is thought to be a regulator of OmpC expression. MicC inhibits the 30S ribosome binding through a conserved 22 bp RNA duplex near the start codon of the ompC mRNA. Along with Rfam:RF00033 it may act in conjunction with EnvZ-OmpR two-component system to control the OmpF/OmpC protein ratio in response to a variety of environmental stimuli [2]. The expression of micC was shown to be increased in the presence of beta-lactam antibiotics. The metabolic activity of E.coli expressing either OmpC or OmpF was strongly inhibited upon exposure to beta-lactams [3]. IS063 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 14 0 0 Gene; sRNA; Predicted; PFOLD 21 0 \N 0.45925 -8.15303 1600000 273700 227 123 1 -2.91030 0.71829 2013-10-03 23:34:43 2022-05-06 12:10:02 RF00122 GadY 1413 GadY Moxon SJ Hershberg R, INFERNAL 45.00 55.40 33.50 This family represents a GadY RNA (previous named IS183 in [1]). GadY can form base pairs with the 3' UTR of its target mRNA gadX, this pairing is thought to confer increased stability to the transcript, allowing accumulation of gadX (a transcriptional regulator of the acid response) and therefore increased expression of downstream acid resistance genes [2]. IS183 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 2 0 0 Gene; sRNA; Predicted; ILM 6 0 \N 0.57306 -6.84715 1600000 261412 221 114 1 -3.52140 0.71844 2013-10-03 23:34:47 2019-01-04 15:01:52 RF00124 IS102 1414 IS102 RNA Moxon SJ Hershberg R 46.00 47.70 43.00 This family consists of a group of Shigella flexneri and Escherichia coli RNA genes which are 208 bases in length and are found between the yeeP and flu genes. The function of this RNA is unknown. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27 -Z 549862.597050 CM SEQDB 5 4 0 0 Gene; sRNA; Predicted; PFOLD 7 0 \N 0.48784 -10.00880 1600000 312993 338 206 1 -3.38620 0.71180 2013-10-03 23:34:50 2019-01-04 15:01:52 RF00125 IS128 1415 IS128 RNA Moxon SJ Hershberg R 80.00 94.30 43.80 This family consists of a number of bacterial RNA genes of 209 bases in length. The IS128 RNA gene is present in Escherichia coli and Shigella flexneri and where it is found between the sseA and sseB genes. The function of this RNA is unknown. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 2 0 0 Gene; sRNA; Predicted; RNAalifold 6 0 \N 0.56241 -8.91338 1600000 357700 342 209 1 -3.61300 0.71145 2013-10-03 23:34:52 2019-01-04 15:01:52 RF00126 ryfA 1416 ryfA RNA Moxon SJ Hershberg R 80.00 80.50 77.90 This family consists of a number of bacterial RNA genes of 305 bases in length. The ryfA RNA gene is present in E. coli, Shigella flexneri and Salmonella species where it is found between the ydaN and dbpA genes. The function of this RNA is unknown. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 23 0 0 Gene; sRNA; Predicted; RNAalifold 27 0 \N 0.67263 -8.26974 1600000 343253 447 296 1 -4.01940 0.70620 2013-10-03 23:35:00 2019-01-04 15:01:52 RF00127 t44 1417 t44 RNA Barquist L Infernal; LocaRNA 44.00 44.10 43.80 This family consists of a number of bacterial RNA genes of between 135 and 170 bases in length. The t44 gene has been identified in several species of enteric bacteria but homologs have also been identified in Pseudomonas and Coxiella species. The t44 gene is found between the map and rpsB genes in all species in the full alignment apart from Shigella flexneri. The function of this RNA is unknown. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20 -Z 549862.597050 CM SEQDB 78 723 0 0 Gene; sRNA; Predicted; LocaRNA; Barquist L 745 0 \N 0.65858 -2.72914 1600000 126641 251 97 1 -3.50400 0.71850 2013-10-03 23:35:03 2019-01-04 15:01:52 RF00128 GlmY_tke1 1418 Glm Y RNA activator of glmS mRNA Moxon SJ, Gardner P Published; PMID:17854828 33.00 33.30 32.10 This family consists of a number of bacterial RNA genes of around 167 bases in length. The tke1 RNA gene is present in Escherichia coli, Shigella flexneri, Yersinia pestis and Salmonella species where it is found between the yfhK and purL genes. The function of this RNA is unknown. tke1 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 17 113 0 0 Gene; sRNA; Published; PMID:17854828 127 0 \N 0.59097 -8.41452 1600000 275031 279 163 1 -3.45740 0.71674 2013-10-03 23:35:32 2021-07-05 13:43:57 RF00129 mir-103 2374 mir-103/107 microRNA precursor Griffiths-Jones SR Griffiths-Jones SR, INFERNAL 59.60 59.60 46.50 This family consists of the mammalian microRNA (miRNA) precursors mir-103 and mir107. Animal miRNAs are transcribed as ~70nt precursors and subsequently processed by the Dicer enzyme to give a ~22nt product. In this case the mature sequence comes from the 3' arm of the precursor. The extents of the hairpin precursors are not generally known and are estimated based on hairpin prediction. The products are thought to have regulatory roles through complementarity to mRNA. The involvement of Dicer in miRNA processing suggests a relationship with the phenomenon of RNA interference. miRNAs are numbered based on the sequence of the mature RNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 93 327 0 0 Gene; miRNA; Predicted; RNAalifold 123 0 \N 0.68395 -3.29177 1600000 144377 161 78 1 -3.79930 0.71905 2013-10-03 23:35:35 2021-11-19 10:36:03 RF00130 mir-192 2375 mir-192/215 microRNA precursor Moxon SJ Griffiths-Jones SR 54.00 63.50 52.00 This family represents the human microRNA (miRNA) precursors mir-192 and mir-215. Animal miRNAs are transcribed as ~70nt precursors and subsequently processed by the Dicer enzyme to give a ~22nt product. In this case the mature sequence comes from the 5' arm of the precursor. The extents of the hairpin precursors are not generally known and are estimated based on hairpin prediction. The products are thought to have regulatory roles through complementarity to mRNA. The involvement of Dicer in miRNA processing suggests a relationship with the phenomenon of RNA interference. miRNAs are numbered based on the sequence of the mature RNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 48 154 0 0 Gene; miRNA; Predicted; PFOLD 118 0 \N 0.70242 -2.49662 1600000 183696 332 75 1 -4.03360 0.71910 2013-10-03 23:35:38 2021-11-19 10:36:03 RF00131 mir-30 1421 mir-30 microRNA precursor Moxon SJ, Boursnell C Griffiths-Jones SR 50.20 50.30 50.00 This family consists of the mammalian microRNA (miRNA) precursor mir-30a. Animal miRNAs are transcribed as ~70nt precursors and subsequently processed by the Dicer enzyme to give a ~22nt product. In this case the mature sequence comes from both the 3' (miR-30) [1] and 5' (mir-97-6) [2] arms of the precursor. The extents of the hairpin precursors are not generally known and are estimated based on hairpin prediction. The products are thought to have regulatory roles through complementarity to mRNA. The involvement of Dicer in miRNA processing suggests a relationship with the phenomenon of RNA interference. miRNAs are numbered based on the sequence of the mature RNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 49 575 0 0 Gene; miRNA; Predicted; PFOLD 118 0 \N 0.62139 -4.20745 1600000 322571 135 60 1 -3.50260 0.71958 2013-10-03 23:35:53 2022-05-06 12:10:02 RF00132 snoR24 1422 Small nucleolar RNA R24 Moxon SJ Griffiths-Jones SR 38.00 38.00 37.40 snoR24 is a C/D box small nucleolar RNA which acts as a methylation guide for 18S ribosomal RNA in plants [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21 -Z 549862.597050 CM SEQDB 12 509 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 77 0 \N 0.57933 -4.55975 1600000 232217 192 97 1 -3.39130 0.71838 2013-10-03 23:35:57 2019-01-04 15:01:52 RF00133 SNORD33 2376 Small nucleolar RNA Z195/SNORD33/SNORD32 family Moxon SJ, Daub J Griffiths-Jones SR, Daub J, INFERNAL 44.00 44.00 43.90 Members of this family belong to the C/D box class of small nucleolar RNA which contain C (UGAUGA) and D (CUGA) box motifs. This family includes plant snoRNA Z195, human snoRNAs SNORD33 (U33) and SNORD32 (U32). snoRNA U33 is found in intron 4 of the ribosomal protein L13a gene in humans and is also present in mice. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. Although the selection of the target nucleotide requires the antisense element and the conserved box D or D' of the snoRNA, the methyltransferase activity is supposed to reside in one of the protein components [3]. snoZ195 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.26 -Z 549862.597050 CM SEQDB 72 487 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Daub J 181 0 \N 0.55840 -4.51249 1600000 258115 160 85 1 -3.44610 0.71852 2013-10-03 23:36:52 2021-07-05 13:43:57 RF00134 snoZ196 2377 Small nucleolar RNA Z196/R39/R59 family Moxon SJ, Daub J Griffiths-Jones SR 55.00 56.50 54.90 This family includes plant snoRNA snoZ196 and yeast snoRNAs R39 and R59. Members of this family belong to the C/D box class of snoRNA which contain C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. snoZ196 acts as a methylation guide for 18S ribosomal RNA in plants [1].Although the selection of the target nucleotide requires the antisense element and the conserved box D or D' of the snoRNA, the methyltransferase activity is supposed to reside in one of the protein components [4]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.25 -Z 549862.597050 CM SEQDB 22 302 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 90 0 \N 0.52539 -3.37293 1600000 231713 169 85 1 -3.58530 0.71850 2013-10-03 23:37:00 2019-01-04 15:01:52 RF00135 snoZ223 1425 Small nucleolar RNA Z223 Griffiths-Jones SR, Moxon SJ Griffiths-Jones SR 45.00 46.70 44.70 snoRNA Z223 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs identified in rice. C/D box small nucleolar RNAs are known to act as a methylation guides for 18S ribosomal RNA in plants [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26 -Z 549862.597050 CM SEQDB 5 389 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 79 0 \N 0.62370 -2.84419 1600000 214116 190 94 1 -3.48580 0.71838 2013-10-03 23:37:03 2019-01-04 15:01:52 RF00136 SNORD81 1426 Small nucleolar RNA SNORD81 Griffiths-Jones SR Griffiths-Jones SR 50.00 50.60 49.70 U81 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. U81 acts as a guanine methylation guide and is found in intron 11 of the gas5 gene in mammals [1]. This RNA has also been called Z23 snoRNA. U81 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 22 85 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 52 0 \N 0.61866 -2.39680 1600000 216395 197 77 1 -3.81240 0.71866 2013-10-03 23:37:10 2021-07-05 13:43:57 RF00137 SNORD83 1427 Small nucleolar RNA SNORD83 Griffiths-Jones SR, Daub J Griffiths-Jones SR 35.00 35.30 34.40 U83 (SNORD83) and U84 (SNORD84) are members of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. They act as guanine methylation guides but lack complementarity to ribosomal RNA [1]. U83 and U84 are spliced from introns 5 and 4 of the BAT1 gene in mammals. U83 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 252 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 111 0 \N 0.61333 -3.77929 1600000 279518 167 78 1 -3.52010 0.71872 2013-10-03 23:37:13 2019-01-04 15:01:52 RF00138 SNORD16 1428 Small nucleolar RNA SNORD16 Griffiths-Jones SR Griffiths-Jones SR 45.00 45.50 41.70 U16 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. U81 acts as a guanine methylation guide and is found in an intron of ribosomal proteins L1 gene in animals [1]. This snoRNA was independently named MBII-98 in mouse [2]. U16 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 219 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 115 0 \N 0.61114 -2.89802 1600000 213180 198 100 1 -3.30120 0.71855 2013-10-03 23:37:15 2019-01-04 15:01:52 RF00139 SNORA72 1245 Small nucleolar RNA SNORA72 Griffiths-Jones SR Griffiths-Jones SR, INFERNAL 43.00 43.60 41.40 U72 is a member of the H/ACA class of snoRNAs. The snoRNA gene is located in intron 4 of the ribosomal L30 protein gene in human, mouse and chicken. U72 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29 -Z 549862.597050 CM SEQDB 29 334 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD 107 0 \N 0.48657 -6.87906 1600000 252365 237 132 1 -3.05170 0.71818 2013-02-01 11:56:47 2019-01-04 15:01:52 RF00140 Alpha_RBS 1429 Alpha operon ribosome binding site Griffiths-Jones SR, Moxon SJ Griffiths-Jones SR 38.00 38.00 37.80 The bacterial alpha operon ribosome binding site is surrounded by this complex pseudoknotted structure. Translation of the mRNA produces 4 ribosomal protein products, one of which (S4) acts as a translational repressor by binding to the nested pseudoknot region. The mechanism of repression is thought to involve a conformational switch in the pseudoknot region and ribosome entrapment [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.00 -Z 549862.597050 CM SEQDB 39 523 0 0 Cis-reg; Published; PMID:11504736 537 0 \N 0.62317 -7.92672 1600000 252615 199 110 1 -3.42270 0.71817 2013-10-03 23:37:39 2019-01-04 15:01:52 RF00142 snoZ118 2378 Small nucleolar RNA Z118/Z121/Z120 Moxon SJ Griffiths-Jones SR 48.00 48.50 46.50 This family consists of several snoRNA Z118, Z121 and Z120 sequences which are members of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family seems to be found exclusively in rice. C/D box small nucleolar RNAs are known to act as a methylation guides for 18S ribosomal RNA in plants [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 244 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 20 0 \N 0.57800 -3.41655 1600000 183178 209 108 1 -2.92470 0.71825 2013-10-03 23:37:59 2019-01-04 15:01:52 RF00143 mir-6 1431 mir-6 microRNA precursor Moxon SJ Griffiths-Jones SR 58.00 59.20 56.50 This family consists of the microRNA (miRNA) precursor mir-6 which appears to be Drosophila specific. Animal miRNAs are transcribed as ~70nt precursors and subsequently processed by the Dicer enzyme to give a ~22nt product. In this case the mature sequence comes from the 3' arm of the precursor. The extents of the hairpin precursors are not generally known and are estimated based on hairpin prediction. The products are thought to have regulatory roles through complementarity to mRNA. The involvement of Dicer in miRNA processing suggests a relationship with the phenomenon of RNA interference. miRNAs are numbered based on the sequence of the mature RNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 36 41 0 0 Gene; miRNA; Predicted; PFOLD 18 0 \N 0.56740 -4.50299 1600000 232755 196 74 1 -3.51190 0.71906 2013-10-03 23:38:04 2021-12-03 12:04:12 RF00144 mir-199 1432 mir-199 microRNA precursor Griffiths-Jones SR Griffiths-Jones SR 60.00 61.30 57.10 This family consists of the microRNA (miRNA) precursor mir-199 which appears to be specific to humans. Animal miRNAs are transcribed as ~70nt precursors and subsequently processed by the Dicer enzyme to give a ~22nt product. In this case the mature sequence comes from the 3' arm of the precursor. The extents of the hairpin precursors are not generally known and are estimated based on hairpin prediction. The products are thought to have regulatory roles through complementarity to mRNA. The involvement of Dicer in miRNA processing suggests a relationship with the phenomenon of RNA interference. miRNAs are numbered based on the sequence of the mature RNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 83 284 0 0 Gene; miRNA; Predicted; RNAalifold 124 0 \N 0.65219 -4.19462 1600000 148677 167 80 1 -3.78610 0.71892 2013-10-03 23:38:07 2021-11-19 10:36:03 RF00145 snoZ105 1433 Small nucleolar RNA Z105 Moxon SJ, Wilkinson AC Predicted; CMfinder 45.00 45.40 43.90 This family consists of several snoRNA Z105 sequences which are members of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family seems to be found exclusively in plants. C/D box small nucleolar RNAs are known to act as a methylation guides for 18S ribosomal RNA [1]. snoR7 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 236 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; CMfinder 72 0 \N 0.50486 -6.99999 1600000 263841 148 72 1 -3.00490 0.71886 2013-10-03 23:38:09 2019-01-04 15:01:52 RF00147 SNORD34 1434 Small nucleolar RNA SNORD34 Moxon SJ Griffiths-Jones SR 38.00 38.00 37.80 snoRNA U34 is found in intron 5 of the ribosomal protein L13a gene in humans. U34 is a member of the C/D class of snoRNA which contain C (UGAUGA) and D (CUGA) box motifs, and functions in directing site-specific 2'-O-methylation of 25S rRNAs. Although the selection of the target nucleotide requires the antisense element and the conserved box D or D' of the snoRNA, the methyltransferase activity is thought to reside in one of the protein components [1]. U34 snoRNA has homologues in mouse, Arabidopsis (annotated as snoR4) and in several copies in rice (alternatively named snoZ181) [2]. This family also contains a putative homologue in Drosophila (Griffiths-Jones SR, pers. obs.). U34 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.84 -Z 549862.597050 CM SEQDB 14 443 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD, Griffiths-Jones SR 155 0 \N 0.58673 -3.87878 1600000 196099 165 80 1 -3.69390 0.71864 2013-10-03 23:38:14 2019-01-04 15:01:52 RF00149 snoZ103 1435 Small nucleolar RNA Z103 Moxon SJ Griffiths-Jones SR 44.00 44.20 43.80 This family consists of several snoRNA Z103 sequences which are members of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family seems to be found exclusively in plants. C/D box small nucleolar RNAs are known to act as a methylation guides for 18S ribosomal RNA [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.21 -Z 549862.597050 CM SEQDB 12 1457 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 83 0 \N 0.59742 -4.43391 1600000 260331 194 100 1 -3.45460 0.71833 2013-10-03 23:38:18 2019-01-04 15:01:52 RF00150 SNORD42 1436 Small nucleolar RNA SNORD42 Moxon SJ Griffiths-Jones SR 39.00 39.20 38.60 snoRNA U42 is found in intron 3 of the ribosomal protein L23a (RPL23a) gene in humans and is also present in mice. U42 is a member of the C/D class of snoRNA which contain C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. Although the selection of the target nucleotide requires the antisense element and the conserved box D or D' of the snoRNA, the methyltransferase activity is supposed to reside in one of the protein components [1]. U42 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26 -Z 549862.597050 CM SEQDB 7 172 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Daub J 102 0 \N 0.51828 -4.87439 1600000 223587 151 68 1 -3.31000 0.71882 2013-10-03 23:38:22 2019-01-04 15:01:52 RF00151 SNORD58 1437 Small nucleolar RNA SNORD58 Moxon SJ, Daub J Griffiths-Jones SR 42.00 42.00 41.70 snoRNA U58 is found in introns 1, 3 and 6 of the ribosomal protein RPL17 gene in humans. U58 is a member of the C/D class of snoRNA which contain C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. U58A and U58B are predicted to guide 2'O-ribose methylation of the large 28S rRNA subunit on position G4198 [2]. Although the selection of the target nucleotide requires the antisense element and the conserved box D or D' of the snoRNA, the methyltransferase activity is supposed to reside in one of the protein components [1]. U58 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 33 422 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 135 0 \N 0.63874 -4.26863 1600000 268132 167 65 1 -3.65810 0.71887 2013-10-03 23:38:30 2021-07-05 13:43:57 RF00152 SNORD79 1246 Small nucleolar RNA SNORD79 Moxon SJ Griffiths-Jones SR 47.00 47.10 45.10 snoRNA U79 or Z22 is found in intron 7 of the gas5 gene in humans and is also present in mice. U79 is a member of the C/D class of snoRNA which contain C (UGAUGA) and D (CUGA) box motifs. Most of the members of the C/D box family function in directing site-specific 2'-O-methylation of substrate RNAs. Although the selection of the target nucleotide requires the antisense element and the conserved box D or D' of the snoRNA, the methyltransferase activity is supposed to reside in one of the protein components [1]. U79 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 28 123 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Daub J 116 0 \N 0.53321 -4.14611 1600000 235152 167 83 1 -3.52050 0.71858 2013-02-01 11:56:49 2021-07-05 13:43:56 RF00153 SNORD62 1438 Small nucleolar RNA SNORD62 Moxon SJ Griffiths-Jones SR 39.00 40.30 37.20 snoRNA U62 is found in both humans and mice. U62 is a member of the C/D class of snoRNA which contain C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. Although the selection of the target nucleotide requires the antisense element and the conserved box D or D' of the snoRNA, the methyltransferase activity is supposed to reside in one of the protein components [1]. U62 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 152 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 83 0 \N 0.62448 -3.37184 1600000 246585 177 86 1 -3.57270 0.71845 2013-10-03 23:38:40 2019-01-04 15:01:52 RF00154 SNORD63 1439 Small nucleolar RNA SNORD63 Moxon SJ Griffiths-Jones SR, INFERNAL 43.00 43.20 40.20 snoRNA U63 is found in both humans and mice. U63 is a member of the C/D class of snoRNA which contain C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. Although the selection of the target nucleotide requires the antisense element and the conserved box D or D' of the snoRNA, the methyltransferase activity is supposed to reside in one of the protein components [1]. U63 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21 -Z 549862.597050 CM SEQDB 23 127 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 103 0 \N 0.57863 -5.08101 1600000 335152 154 70 1 -3.41580 0.71881 2013-10-03 23:38:46 2019-01-04 15:01:52 RF00155 SNORA66 1440 Small nucleolar RNA SNORA66 Moxon SJ Griffiths-Jones SR 45.00 45.80 43.40 snoRNA U66 is found in both humans and mice. U66 is a member of the H/ACA class of snoRNA which contain H (ANANNA) and ACA box motifs. H/ACA box snoRNAs are involved in the conversion of uridines to pseudouridines (5-ribosyluracil) a constituent of structural RNAs (transfer, ribosomal, small nuclear, and small nucleolar) [1,2]. U66 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25 -Z 549862.597050 CM SEQDB 25 227 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD 103 0 \N 0.50721 -8.16797 1600000 278152 242 133 1 -3.06230 0.71815 2013-10-03 23:39:36 2019-01-04 15:01:52 RF00156 SNORA70 1441 Small nucleolar RNA SNORA70 Moxon SJ Griffiths-Jones SR, INFERNAL 40.00 40.00 39.90 snoRNA U70 seems to be exclusive to mammals and is a member of the H/ACA class of snoRNA which contain H (ANANNA) and ACA box motifs. H/ACA box snoRNAs are involved in the conversion of uridines to pseudouridines (5-ribosyluracil) a constituent of structural RNAs (transfer, ribosomal, small nuclear, and small nucleolar) [1,2]. U70 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 43 1290 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD 73 0 \N 0.54823 -8.68325 1600000 300916 240 135 1 -3.49740 0.71807 2013-10-03 23:39:40 2019-01-04 15:01:52 RF00157 SNORD39 1442 Small nucleolar RNA SNORD55/SNORD39 Moxon SJ Griffiths-Jones SR, INFERNAL 35.00 35.00 34.90 snoRNA U39 (SNORD55), also described as U55 in [2], is a member of the C/D class of snoRNA which contain C (UGAUGA) and D (CUGA) box motifs [1]. U39 guides the methylation of 2'-O-ribose residues in 28S ribosomal RNA [1]. SNORD55; U39; U55 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 182 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 103 0 \N 0.66860 -3.79524 1600000 241245 167 80 1 -3.40080 0.71858 2013-10-03 23:39:55 2019-01-04 15:01:52 RF00158 SNORD82 1443 Small nucleolar RNA SNORD82 Moxon SJ Griffiths-Jones SR 43.00 43.60 42.80 snoRNA U82 or Z25 is found in both humans and mice. U82/Z25 is a member of the C/D class of snoRNA which contain C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. Although the selection of the target nucleotide requires the antisense element and the conserved box D or D' of the snoRNA, the methyltransferase activity is supposed to reside in one of the protein components [1]. U82 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24 -Z 549862.597050 CM SEQDB 27 114 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 113 0 \N 0.60762 -4.91414 1600000 339544 151 70 1 -3.68480 0.71883 2013-10-03 23:39:58 2019-01-04 15:01:52 RF00159 snoZ168 2379 Small nucleolar RNA Z168/Z174 Moxon SJ Griffiths-Jones SR 36.00 36.60 34.80 This family consists of several snoRNA Z168 and Z174 sequences which are members of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family seems to be found exclusively in rice. C/D box small nucleolar RNAs are known to act as a methylation guides for 18S ribosomal RNA in plants [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 53 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 11 0 \N 0.64081 -4.08611 1600000 286910 173 82 1 -3.56030 0.71858 2013-10-03 23:40:07 2019-01-04 15:01:52 RF00160 snoZ159 1727 Small nucleolar RNA Z159/U59 Moxon SJ Griffiths-Jones SR 39.00 39.00 38.40 This family consists of several snoRNA Z159 or U59 sequences which are members of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family seems to be found exclusively in rice. C/D box small nucleolar RNAs are known to act as a methylation guides for 18S ribosomal RNA in plants [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 545 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Daub J 92 0 \N 0.58638 -4.10856 1600000 253281 238 87 1 -3.28140 0.71850 2013-10-03 23:40:10 2019-01-04 15:01:52 RF00161 nos_TCE 1446 Nanos 3' UTR translation control element Griffiths-Jones SR Griffiths-Jones SR, INFERNAL 60.00 63.80 39.20 The Nanos protein in Drosophila is required for correct anterior/posterior patterning in the Drosophila embryo. Translation of the nanos mRNA is repressed in the bulk cytoplasm and activated in the posterior region. Repression is mediated by a translation control element (TCE) in the 3' UTR of the mRNA. This element forms a Y-shaped structure, part of which is recognised by the Smaug protein leading to translational repression [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.28 -Z 549862.597050 CM SEQDB 9 6 0 0 Cis-reg; Published; PMID:10882131 11 0 \N 0.56830 -6.04495 1600000 276765 144 64 1 -4.04540 0.71926 2013-10-03 23:40:21 2019-01-04 15:01:52 RF00162 SAM 1447 SAM riboswitch (S box leader) Griffiths-Jones SR, Gardner PP, Ontiveros-Palacios N Grundy F, Henkin T, PMID:10094622 44.40 44.40 44.30 The SAM riboswitch is found upstream of a number of genes which code for proteins involved in methionine or cysteine biosynthesis in Gram-positive bacteria. The SAM riboswitch acts at the level of transcription termination control. The predicted structure consists of a complex stem-loop region followed by a single stem loop terminator region. An alternative and mutually exclusive form involves bases in the 3' segment of helix 1 with those in the 5' region of helix 5 to form a structure termed the anti-terminator form [1]. This entry represents the conserved core of the complex structure involving helices 1-4. The structure of SAM riboswitch has been reported in PDBs: 2GIS, 2YDH, 2YGH, 3GX2, 3GX3, 3GX5, 3GX6, 3GX7, 3IQN, 3IQP, 3IQR, 3V7E_C, 3V7E_D, 4AOB, 4B5R, 4KQY, 5FJC, 5FK1, 5FK2, 5FK3, 5FK4, 5FK5, 5FK6, 5FKD, 5FKE, 5FKF, 5FKG, 5FKH, 7EAF [5-13] S_box cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 457 5704 0 0 Cis-reg; riboswitch; Published; PMID:10094622 2540 0 \N 0.66961 -3.72866 1600000 213859 270 108 1 -3.70030 0.71848 2013-10-03 23:40:30 2022-10-29 16:55:16 RF00163 Hammerhead_1 1309 Hammerhead ribozyme (type I) Bateman A Bateman A 34.00 34.00 33.90 The hammerhead ribozyme is one of the smallest catalytic RNAs. These RNAs have an endonuclease function, and most often are autocatalytic. Structurally it is composed of three base paired helices, separated by short linkers of conserved sequence. These helices are called I, II and III. We have classified hammerhead ribozymes into three types based on which helix the 5' and 3' ends of the sequence join. This family are the type I hammerheads. The conserved uridine-turn links helix I to helix II and usually has the sequence CUGA. Helix II and III are linked by a sequence CGAAA. The cleavage reaction occurs between helix III and I, and is usually a C. Hammerhead ribozymes are found in plant viroids and other small replicating satellite RNA species. Hammerhead ribozymes have been found in animals as well as plants. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.88 -Z 549862.597050 CM SEQDB 29 190650 0 0 Gene; ribozyme; Published; PMID:9632772 24 0 \N 0.72644 -2.44555 1600000 284406 1024 46 1 -3.93330 0.72420 2013-10-03 23:40:45 2019-01-04 15:01:52 RF00164 s2m 1448 Coronavirus 3' stem-loop II-like motif (s2m) Griffiths-Jones SR, Nawrocki E PMID:9568965; Griffiths-Jones SR, Moxon SJ 50.00 50.00 47.80 The s2m motif is found in the 3' UTRs of astrovirus, coronavirus and equine rhinovirus genomes [1]. Its function is unknown, but various viral 3' UTR regions have been found to play roles in viral replication and packaging. The seed alignment was expanded in 2020 by Eric Nawrocki. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 39 6 0 0 Cis-reg; Published; PMID:15630477 22 0 \N 0.69273 -2.87863 1600000 269837 103 43 1 -4.27500 0.71950 2013-10-03 23:42:02 2021-07-05 13:43:57 RF00165 Corona_pk3 1449 Coronavirus 3' UTR pseudoknot Griffiths-Jones SR, Nawrocki E Griffiths-Jones SR 35.60 35.60 35.10 Coronaviruses are plus-strand RNA viruses with ~30kb genomes. The 3' UTR region of coronavirus genomes contains a conserved ~55nt pseudoknot structure which has been shown to be necessary for viral genome replication [1]. The mechanism of cis-regulation is unclear, but this element is postulated to function in the plus-strand. The seed alignment was expanded in 2020 by Eric Nawrocki. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 765380.351698 CM SEQDB 52 3 0 0 Cis-reg; Published; PMID:10482585 55 0 \N 0.54986 -8.92456 1600000 538932 119 61 1 -3.33940 0.72290 2013-10-03 23:42:04 2021-07-05 13:43:57 RF00166 PrrB_RsmZ 2380 PrrB/RsmZ RNA family Filiatrault M, Gardner P Filiatrault M 38.00 39.40 37.30 PrrB RNA is able to phenotypically complement gacS and gacA mutants and is itself regulated by the GacS-GacA two-component signal transduction system [1]. Inactivation of the prrB gene in Pseudomonas fluorescens F113 resulted in a significant reduction of 2, 4-diacetylphloroglucinol (Phl) and hydrogen cyanide (HCN) production, while increased metabolite production was observed when prrB was overexpressed [1]. The prrB gene sequence contains a number of imperfect repeats of the consensus sequence 5'-AGGA-3', and sequence analysis predicted a complex secondary structure featuring multiple putative stem-loops with the consensus sequences predominantly positioned at the single-stranded regions at the ends of the stem-loops. This structure is similar to the CsrB and RsmB regulatory RNAs Rfam:RF00018 [1], suggesting this RNA also interacts with a CsrA-like protein. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 37 102 0 0 Gene; sRNA; Predicted; Filiatrault M, Gardner P 94 0 \N 0.60821 -9.62275 1600000 474393 235 133 1 -3.14750 0.71824 2013-10-03 23:42:06 2021-07-05 13:43:57 RF00167 Purine 1451 Purine riboswitch Boese B, Barrick JE, Breaker RR Boese B, Barrick JE 37.00 37.00 36.90 Riboswitches are metabolite binding domains within certain messenger RNAs that serve as precision sensors for their corresponding targets. Allosteric rearrangement of mRNA structure is mediated by ligand binding, and this results in modulation of gene expression. A class of riboswitches that selectively recognises guanine and becomes saturated at concentrations as low as 5 nM. In Bacillus subtilis, this mRNA motif is located on at least five separate transcriptional units that together encode 17 genes that are mostly involved in purine transport and purine nucleotide biosynthesis. It has also been shown that some members of this family are specific for adenine instead. Hence this family are termed purine riboswitches. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 133 2528 0 0 Cis-reg; riboswitch; Published; PMID:12787499 985 0 \N 0.56762 -2.93487 1600000 383852 179 102 1 -3.85680 0.71837 2013-10-03 23:42:09 2021-07-05 13:43:57 RF00168 Lysine 1452 Lysine riboswitch Wickiser JK, Barrick JE, Breaker RR Wickiser JK, Barrick JE 30.00 30.10 29.70 Riboswitches are metabolite binding domains within certain messenger RNAs that serve as precision sensors for their corresponding targets. Allosteric rearrangement of mRNA structure is mediated by ligand binding, and this results in modulation of gene expression. This family includes riboswitches that sense lysine [1] in a number of genes involved in lysine metabolism, including lysC [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 47 2214 0 0 Cis-reg; riboswitch; Published; PMID:12787499 1379 0 \N 0.67764 -7.73091 1600000 337029 503 183 1 -3.40990 0.71403 2013-10-03 23:42:13 2019-01-04 15:01:52 RF00169 Bacteria_small_SRP 1315 Bacterial small signal recognition particle RNA Gardner PP Published; PMID:19838050 40.00 40.00 39.90 The signal recognition particle (SRP) is a universally conserved ribonucleoprotein involved in the co-translational targeting of proteins to membranes. The eukaryotic SRP consists of a 300-nucleotide 7S RNA (RFAM:RF00017) and six proteins: SRPs 72, 68, 54, 19, 14, and 9. Archaeal SRP consists of a 7S RNA and homologues of the eukaryotic SRP19 and SRP54 proteins. In most bacteria, the SRP consists of a 4.5S RNA and the Ffh protein (a homologue of the eukaryotic SRP54 protein). Some Gram-positive bacteria (e.g. Bacillus subtilis) have a longer eukaryote-like SRP RNA that includes an Alu domain [2]. The Alu domain of the longer SRP RNAs is not included in this model and therefore the reported bounds of some members are incorrect. The Signal Recognition Particle Database (SRPDB) [1] provides compilations of SRP components, with phylogenetic data and structural illustrations. SRP_bact_l; SRP_bact; 4.5S; 7SK; 7S; SCR cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.03 -Z 549862.597050 CM SEQDB 261 4458 0 0 Gene; Published; PMID:19838050 4640 0 \N 0.66404 -2.40397 1600000 125609 149 97 1 -4.14410 0.71864 2013-10-03 23:42:19 2021-07-05 13:43:57 RF00170 msr 2500 Retron msr RNA Griffiths-Jones SR Griffiths-Jones SR 52.00 52.10 50.30 Retron elements are found in a wide range of mainly Gram-negative bacteria. The retron encodes a reverse transcriptase that is responsible for the production of a small satellite DNA called msDNA (multi-copy single-stranded DNA). msDNA has both DNA (encoded by the retron msd gene) and RNA (encoded by the msr gene) components. The 5' end of msDNA is linked to an internal guanosine residue of the RNA strand by a 2'-5' linkage. The components of msDNA are poorly conserved in sequence between different organisms -- this family therefore represents only a subset of known msr genes. Despite considerable investigation, very little is known about the function of msDNA, the mobility of retron elements, or their effect on the host cell. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 15 0 0 Gene; Predicted; PFOLD 21 0 \N 0.55457 -4.19244 1600000 214717 180 69 1 -3.83040 0.71899 2013-10-03 23:42:43 2021-07-05 13:43:57 RF00171 Tombus_5 1454 Tombusvirus 5' UTR Griffiths-Jones SR, Moxon SJ Griffiths-Jones SR 43.00 43.20 39.00 Tomato bushy stunt virus is the prototype member of the Tombusviridae family. In addition to viral proteins p33 and the RNA-dependent RNA polymerase p92, and unknown host factors, RNA signals within the UTRs are necessary for genome replication. 2 RNA domains in the 5' UTR have been reported [1,2], a 5' T-shaped domain (TSD) followed by a stem-loop (SL5) and a downstream domain (DSD). These domains are combined into a single family here. Reference [2] proposes that TSD-DSD interactions are involved in the mediation of viral RNA replication. The full alignment of this family contains a number of defective interfering (DI) deletion mutants, used to study RNA virus replication. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 8 0 0 Cis-reg; Published; PMID:11162089 14 0 \N 0.53232 -9.48028 1600000 326108 331 166 1 -3.15400 0.71612 2013-10-03 23:42:45 2019-01-04 15:01:52 RF00172 CAESAR 2381 ctgf/hcs24 CAESAR Griffiths-Jones SR Griffiths-Jones SR 45.00 48.80 38.40 The 3' UTR of human connective tissue growth factor/hypertrophic chondrocyte specific 24 (ctgf/hcs24) mRNA has been shown to repress ctgf gene expression [1]. Reference [2] identified a minimal RNA element, predicted to form a stable secondary structure, which acts as a post-transcriptional cis-acting element of structure-anchored repression (CAESAR), probably through direct interactions with as yet unknown nuclear factors. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 89 0 0 Cis-reg; Published; PMID:11032028 89 0 \N 0.59258 -4.25998 1600000 256598 167 80 1 -3.15100 0.71873 2013-10-03 23:42:48 2019-01-04 15:01:52 RF00173 Hairpin 1240 Hairpin ribozyme Ditzler M Ditzler M 65.00 73.30 38.10 The hairpin ribozyme, like the hammerhead (RFAM:RF00008 and RFAM:RF00163), is found in RNA satellites of plant viruses. It was first identified in the minus strand of the tobacco ringspot virus (TRSV) satellite RNA where it catalyses a self-cleavage reaction to process the products of rolling circle virus replication to unit-length satellite RNA. The structure consists of 2 domains, A and B. The 3' arm of domain A, which closes helices 1 and 2, contains the cleavage site and is linked to helix 3 of domain B by a linker of variable length and sequence. This region is thus not included in this family. The hairpin ribozyme has been identified in only 3 plant satellite RNAs -- from TRSV, chicory yellow mottle virus (CYMV) and arabis mosaic virus (ARMV). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.92 -Z 549862.597050 --mxsize 128 CM SEQDB 5 1 0 0 Gene; ribozyme; Published; PMID:7966321 4 0 \N 0.55144 -8.43568 1600000 492714 128 52 1 -3.73690 0.71926 2013-02-01 11:56:50 2019-01-04 15:01:52 RF00174 Cobalamin 1456 Cobalamin riboswitch Barrick JE, Breaker RR, Moxon SJ, Gardner PP, Ontiveros-Palacios N Barrick JE, Breaker RR 31.50 31.50 31.40 Riboswitches are metabolite binding domains within certain messenger RNAs that serve as precision sensors for their corresponding targets. Allosteric rearrangement of mRNA structure is mediated by ligand binding, and this results in modulation of gene expression [1]. This family represents a cobalamin riboswitch (B12-element) which is widely distributed in 5' UTRs of vitamin B(12)-related genes in bacteria. Cobalamin in the form of adenosylcobalamin (Ado-CBL) is known to repress expression of genes for vitamin B(12) biosynthesis and be transported by a post-transcriptional regulatory mechanism, which involves direct binding of Ado-CBL to 5' UTRs [2]. Cobalamin riboswitch structure was reported in PDB:4GMA [5], 4GXY [6] and 6VMY [7]. Cobalamin riboswitch forms a junctional structure that form a pocket that recognise adenosylcobalamin and is flanked by structural elements that connects by long-range interactions. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 433 13589 0 0 Cis-reg; riboswitch; Predicted; PFOLD 5123 0 \N 0.69219 -7.73906 1600000 336073 446 189 1 -3.88200 0.71341 2013-10-03 23:44:44 2022-10-29 16:55:16 RF00175 HIV-1_DIS 1457 Human immunodeficiency virus type 1 dimerisation initiation site Bateman A, Daub J Bateman A 35.00 35.00 34.90 This cis element is composed of four hairpins called SL1 to SL4 (SL is for Stem Loop). This element is involved in encapsidation of the retroviral RNA an essential step in replication [1-3]. It is found in HIV, SIV and CIV. It has been shown that SL1 may provide a secondary binding site for Rev [4]. SL1 [5], SL2 [6], SL3 [7] and SL4 [8] have been independently expressed and structurally characterised. Retroviral_psi cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27 -Z 549862.597050 CM SEQDB 70 17 0 0 Cis-reg; Published; PMID:8627772 11 0 \N 0.54231 -8.11538 1600000 681074 101 40 1 -3.92720 0.71973 2013-10-03 23:45:07 2019-01-04 15:01:52 RF00176 Tombus_3_IV 1458 Tombusvirus 3' UTR region IV Bateman A Bateman A 33.00 33.50 31.70 Tomato bushy stunt virus is the prototype member of the Tombusviridae family. In addition to viral proteins p33 and the RNA-dependent RNA polymerase p92, and unknown host factors, RNA signals within the UTRs are necessary for genome replication. This element contains a pseudoknot [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22 -Z 549862.597050 CM SEQDB 18 3 0 0 Cis-reg; Published; PMID:12954222 10 0 \N 0.57335 -8.28423 1600000 313578 189 92 1 -3.52180 0.71865 2013-10-03 23:45:12 2019-01-04 15:01:52 RF00177 SSU_rRNA_bacteria 1459 Bacterial small subunit ribosomal RNA Gutell RR, Nawrocki E Published; PMID:11869452 50.00 50.00 49.90 \N SSU_rRNA_5 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 17.38 -Z 742849.287494 CM SEQDB 99 22081 0 0 Gene; rRNA; Published; PMID:11869452 6977 0 \N 0.73917 -7.80744 1600000 269430 1851 1533 1 -5.95250 0.69565 2013-10-03 23:45:40 2022-10-29 16:55:16 RF00178 mir-24 1460 mir-24 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 50.00 51.20 49.90 This family represents the microRNA (miRNA) mir-24 family. miRNAs are transcribed as ~70nt precursors (modelled here) and subsequently processed by the Dicer enzyme to give a ~22nt product. In this case the mature sequence comes from the 3' arm of the precursor. The extents of the hairpin precursors are not generally known and are estimated based on hairpin prediction. The products are thought to have regulatory roles through complementarity to mRNA. The involvement of Dicer in miRNA processing suggests a relationship with the phenomenon of RNA interference. miRNAs are numbered based on the sequence of the mature RNA. miR-24 has been identified in human and mouse [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 63 184 0 0 Gene; miRNA; Predicted; RNAalifold 89 0 \N 0.68735 -3.15042 1600000 179209 153 70 1 -2.92370 0.71935 2013-10-04 00:09:45 2021-11-19 10:36:03 RF00179 GAIT 1461 GAIT element Moxon SJ See reference [1] 37.00 37.90 35.20 This family represents a cis-acting element in the 3'-UTR of the ceruloplasmin (Cp) gene called gamma interferon inhibitor of translation (GAIT). The GAIT element is involved in selective translational silencing of the Cp transcript. Ceruloplasmin (Cp) is a multifunctional, copper-containing glycoprotein produced by the liver and secreted into the plasma. As an acute-phase protein, its plasma concentration can double during multiple inflammatory conditions. Plasma Cp has been reported to be an independent risk factor for cardiovascular disease, including atherosclerosis, carotid restenosis after endarterectomy, and myocardial infarction. Translational silencing of Cp, and possibly other transcripts, mediated by the GAIT element may contribute to the resolution of the local inflammatory response following cytokine activation of macrophages [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 32 0 0 Cis-reg; Published; PMID:12588972 27 0 \N 0.62086 -3.07584 1600000 277816 160 71 1 -3.43170 0.71895 2013-10-04 00:09:50 2019-01-04 15:01:52 RF00180 REN-SRE 1462 Renin stability regulatory element (REN-SRE) Moxon SJ PMID:12933794 41.00 41.00 39.60 This family represents a cis-acting element in the 3'-UTR of the renin (REN) gene called renin stability regulatory element (REN-SRE) which acts to regulate renin production. REN-SRE is thought to destabilise the mRNA, promoting degradation of the sequence. It has been found that a number of proteins bind to the REN-SRE to stabilise the mRNA and promote translation. Renin is secreted by renal juxtaglomerular cells and catalyses the conversion of angiotensinogen into angiotensin I which is the rate-limiting step in the production of angiotensin II. Angiotensin II induces hypertension and REN therefore requires tight control to ensure expression appropriate to need [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 36 0 0 Cis-reg; Published; PMID:12933794 33 0 \N 0.67193 -7.73983 1600000 794799 102 37 1 -3.75150 0.72007 2013-10-04 00:10:02 2019-01-04 15:01:52 RF00181 SNORD113 1463 Small nucleolar RNA SNORD113/SNORD114 family Griffiths-Jones SR, Daub J PMID:12045206 36.00 36.00 35.90 The imprinted human domain at 14q32 contains two clusters of tandemly repeated small nucleolar RNAs named 14q(I) and 14q(II) snoRNAs. These two clusters are named SNORD113 and SNORD114 respectively in the HGNC approved gene symbol nomenclature. The snoRNAs found in both clusters are clearly related and are represented here by a single family. These snoRNAs are intron encoded and are processed from the tissue-specific non-coding human MEG8 RNA, which lies downstream of the imprinted genes DLK1 and GTL2. snoRNAs 14q(I) and 14q(II) differ from previously identified C/D box snoRNAs in their expression profiles and lack of complementarity to rRNA and snRNA. Homologues of these snoRNAs are found in the imprinted non-coding mouse transcript Rian, and in the rat non-coding Bsr (brain-specific repetitive) RNA. sno_14q_I_II; sno_14q_I cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24 -Z 549862.597050 CM SEQDB 59 1367 0 0 Gene; snRNA; snoRNA; CD-box; Published; PMID:12045206 40 0 \N 0.60854 -4.00500 1600000 251093 228 75 1 -3.56590 0.71868 2013-10-04 00:10:06 2019-01-04 15:01:52 RF00182 Corona_package 1464 Coronavirus packaging signal Moxon SJ, Petrov AI PMID:17428856 80.00 101.70 38.20 This family represents a predicted coronavirus packaging signal. Within a virally infected cell, viral genome and viral proteins specifically and selectively unite into progeny viruses. This process is called packaging and is vital for viral replication. Viral RNA containing a packaging signal allows the sequence to be efficiently packaged into the virion. The family was reviewed in 2020 to ensure that all 4 AGC/GUAAU elements were present in SS_cons and to include more sequences in the seed. Previously this family was based on PMID:12791173 which incorrectly claimed that this structure is found in SARS-CoV. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 765380.351698 CM SEQDB 6 15 0 0 Cis-reg; Published; PMID:17428856 13 0 \N 0.60410 -3.68708 1600000 252546 209 107 1 -3.41730 0.71848 2013-10-04 00:10:18 2020-04-23 11:35:20 RF00183 G-CSF_SLDE 1465 G-CSF factor stem-loop destabilising element (SLDE) Moxon SJ PMID:11865046 45.00 46.60 40.80 This family represents the granulocyte colony-stimulating factor stem-loop destabilising element (G-CSF SLDE). G-CSF is secreted by fibroblasts and endothelial cells in response to the inflammatory mediators interleukin-1 (IL-1) and tumour necrosis factor alpha and by activated macrophages. The synthesis of G-CSF is regulated both transcriptionally and through control of mRNA stability. In unstimulated cells G-CSF mRNA is unstable but becomes stabilised in response to IL-1 or tumour necrosis factor alpha, and also in the case of monocytes and macrophages, in response to lipopolysaccharide. It is likely that the presence of the SLDE in the G-CSF mRNA contributes to the specificity of regulation of G-CSF mRNA and enhances the rate of shortening of the poly(A) tail [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 37 0 0 Cis-reg; Published; PMID:11865046 40 0 \N 0.54365 -7.72831 1600000 282580 189 96 1 -3.21690 0.71864 2013-10-04 00:10:24 2019-01-04 15:01:52 RF00184 PVX_3 1466 Potato virus X cis-acting regulatory element Moxon SJ PMID:12581634 42.00 44.00 38.10 This family represents a cis-acting regulatory element which is found in the 3' UTR of the Potato virus X genome. This element has been found to be required for minus strand RNA accumulation and is therefore essential for efficient viral replication [1]. PVX_cis-reg cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18 -Z 549862.597050 CM SEQDB 4 1 0 0 Cis-reg; Published; PMID:12581634 2 0 \N 0.60707 -8.10606 1600000 575263 134 54 1 -3.87970 0.71920 2013-10-04 00:10:29 2019-01-04 15:01:52 RF00185 Flavi_CRE 1467 Flavivirus 3' UTR cis-acting replication element (CRE) Bateman A, Moxon SJ, Weinberg Z Bateman A, Moxon SJ, Weinberg Z 42.00 42.50 41.90 This family represents the Flavivirus 3'-SL cis-acting replication element (CRE). The family is thought to play a crucial role in replication and is thought to be needed for the formation of a "replication complex" [1]. Although evidence has been presented for an existence of a pseudoknot structure in this RNA [2], it does not appear to be well conserved across flaviviruses. Deletions of the 3' UTR of flaviviruses have been shown to be lethal for infectious clones. Flavi_pk3 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24 -Z 549862.597050 CM SEQDB 84 4 0 0 Cis-reg; Published; PMID:9696848; Bateman A, Moxon SJ, Weinberg Z 19 0 \N 0.55812 -5.53421 1600000 265985 180 96 1 -3.58760 0.71863 2013-10-04 00:10:58 2019-01-04 15:01:52 RF00186 SNORD101 1468 Small nucleolar RNA SNORD101 Moxon SJ PMID:14602913, INFERNAL 47.00 48.10 41.60 snoRNA U101 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs and guide the 2'-O-methylation of rRNA and snRNAs. The precise target of this family is unknown [1]. U101 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20 -Z 549862.597050 CM SEQDB 26 114 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 111 0 \N 0.61265 -4.11300 1600000 306392 157 73 1 -3.60210 0.71876 2013-10-04 00:11:08 2019-01-04 15:01:52 RF00187 SNORD102 1469 Small nucleolar RNA SNORD102 Moxon SJ, Daub J PMID:14602913, INFERNAL 47.00 48.40 44.40 snoRNA U102 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. It is found within intron 3 of the L21 ribosomal protein gene. The H/ACA box snoRNA ACA27 is found in the same host gene within a different intron [1]. This family is predicted to direct a highly conserved 2'-O-methylation in 28S rRNA [2]. U102 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 88 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 88 0 \N 0.54594 -3.76082 1600000 269432 158 72 1 -3.16180 0.71873 2013-10-04 00:11:31 2019-01-04 15:01:52 RF00188 SNORD103 1470 Small nucleolar RNA SNORD103/SNORD85 Moxon SJ, Daub J Moxon SJ, Daub J, INFERNAL 45.00 45.20 43.60 This family includes the snoRNAs SNORD103 (U103) and SNORD85 (HBII-251) . The members of this family belong to the C/D class of snoRNAs which contain the C (UGAUGA) and D (CUGA) box motifs. In the human genome, there are two identical copies of SNORD103 (SNORD103A and SNORD103B) which share the same host gene with SNORD85. All three snoRNAs are predicted to guide the 2'O-ribose methylation of 18S rRNA G601 [3]. U103 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 41 276 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Moxon SJ 109 0 \N 0.63641 -4.06792 1600000 268688 171 83 1 -3.42800 0.71858 2013-10-04 00:11:34 2019-01-04 15:01:52 RF00189 SNORD95 1471 Small nucleolar RNA SNORD95 Moxon SJ PMID:14602913 55.00 56.50 54.90 snoRNA U95 (also referred to as Z38 ) is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family is predicted to target two neighbouring 2'-O-methylations, Cm2801 and Am2792, in 28S rRNA [1]. U95 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.00 -Z 549862.597050 CM SEQDB 7 58 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 38 0 \N 0.67033 -3.73888 1600000 209151 154 68 1 -3.93510 0.71886 2013-10-04 00:11:38 2019-01-04 15:01:52 RF00190 SNORA16 1472 Small nucleolar RNA SNORA16B/SNORA16A family Moxon SJ PMID:14602913 35.00 35.00 34.90 The members of this family belong to the H/ACA class of snoRNAs which are predicted to guide the sites of modification of uridines to pseudouridines [2]. This family includes human snoRNAs U98b (SNORA16B) and ACA16 (SNORA16A) [1,2]. There are currently no predicted targets RNAs for either of these snoRNAs [1,2]. U98 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 29 288 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD 122 0 \N 0.55904 -8.53466 1600000 288072 237 135 1 -3.31180 0.71801 2013-10-04 00:12:06 2021-07-05 13:43:57 RF00191 SNORA57 1473 Small nucleolar RNA SNORA57 Moxon SJ PMID:14602913 40.00 40.40 38.70 U99 belongs to the H/ACA class of snoRNAs which are thought to guide the sites of modification of uridines to pseudouridines, the target for this family is unknown [1]. U99 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 26 520 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD 83 0 \N 0.63468 -7.38569 1600000 254360 259 148 1 -3.21050 0.71807 2013-10-04 00:12:10 2019-01-04 15:01:52 RF00192 BLV_package 1474 Bovine leukaemia virus RNA packaging signal Moxon SJ PMID:12359429 70.00 85.40 38.50 This family represents the bovine leukaemia virus RNA encapsidation (packaging) signal which is essential for efficient viral replication [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18 -Z 549862.597050 CM SEQDB 5 1 0 0 Cis-reg; Published; PMID:12359429 1 0 \N 0.57604 -10.03886 1600000 751814 136 55 1 -3.17950 0.71929 2013-10-04 00:12:14 2019-01-04 15:01:52 RF00193 CTV_rep_sig 1475 Citrus tristeza virus replication signal Moxon SJ PMID:12202214 100.00 259.10 40.00 This family represents a predicted replication signal which is highly conserved in citrus tristeza viruses. Replication signals are required for viral replication and are usually found near the 5' and 3' termini. This family is predicted to form ten stem loop structures some of which are essential for functions that provide for efficient viral replication [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 1 0 0 Cis-reg; Published; PMID:12202214 1 0 \N 0.81427 -6.75936 1600000 361039 423 273 1 -3.68350 0.70720 2013-10-04 00:12:48 2019-01-04 15:01:52 RF00194 Rubella_3 1476 Rubella virus 3' cis-acting element Moxon SJ PMID:10074193 35.00 35.20 34.60 This family represents a cis-acting element found at the 3' UTR in the rubella virus. This family contains three conserved step loop structures. Pfam:PF00262 (CAL) which is known to bind calcium in most eukaryotic cells, is able to specifically bind to the first stem loop. CAL binding is thought to be related to viral pathogenesis and in particular arthritis which is a occurs frequently in rubella infections in adults and is independent of viral viability. All stem loop structures are thought to be important for efficient viral replication and deletion of stem loop three is known to be lethal [1]. Rubella_cis_act cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 25 3 0 0 Cis-reg; Published; PMID:10074193 3 0 \N 0.55241 -8.00253 1600000 354525 155 68 1 -3.50830 0.71912 2013-10-04 00:12:50 2019-01-04 15:01:52 RF00195 RsmY 1477 RsmY RNA family Griffiths-Jones SR Griffiths-Jones SR 57.00 59.80 49.00 The rsmY gene, like rsmZ (Rfam:RF00166), is regulated by the GacS/GacA signal transduction system in the plant-beneficial soil bacterium and biocontrol model organism Pseudomonas fluorescens CHA0. GacA/GacS target genes are translationally repressed by the small RNA binding protein RsmA. RsmY and RsmZ RNAs bind RsmA to relieve this repression and so enhance secondary metabolism and biocontrol traits [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 71 0 0 Gene; sRNA; Predicted; PFOLD 76 0 \N 0.63481 -9.35788 1600000 493225 225 121 1 -2.75160 0.71828 2013-10-04 00:12:59 2021-07-05 13:43:57 RF00196 AMV_RNA1_SL 1478 Alfalfa mosaic virus RNA 1 5' UTR stem-loop Moxon SJ PMID:14512577 60.00 62.70 36.70 This family represents a putative stem-loop structure found in the 5' UTR in RNA 1 of alfalfa mosaic virus. RNA 1 is responsible for encoding the viral replicase protein P1. This family is required for negative strand RNA synthesis in in the alfalfa mosaic virus and may also be involved in positive strand RNA synthesis [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 1 0 0 Cis-reg; Published; PMID:14512577 1 0 \N 0.56039 -5.54949 1600000 609942 103 35 1 -3.58890 0.72178 2013-10-04 00:13:02 2019-01-04 15:01:52 RF00198 SL1 1479 SL1 RNA Moxon SJ Moxon SJ, Daub J 75.00 75.10 74.10 This family represents the SL1 RNA. SL1 is commonly located in the spacer region between 5S-rRNA genes where it is involved in trans-splicing. Trans-splicing is a form of RNA processing. The acquisition of a spliced leader from a SL RNA is a intra-molecular reaction which precisely joins exons derived from separately transcribed RNAs. This mechanism of mRNA maturation has been shown to occur in a number of lower eukaryotes and is commonplace in nematodes [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 549862.597050 CM SEQDB 28 943 0 0 Gene; Published; PMID:12949121; Moxon SJ 21 0 \N 0.51107 -8.60737 1600000 314581 205 103 1 -3.35810 0.71855 2013-10-04 00:13:05 2019-01-04 15:01:52 RF00199 SL2 1480 SL2 RNA Moxon SJ Moxon SJ 41.00 41.00 40.60 This family represents SL2 RNA. SL2 RNA is involved in trans splicing in lower eukaryotes. Trans-splicing is a form of RNA processing. The acquisition of a spliced leader from a SL RNA is a intra-molecular reaction which precisely joins exons derived from separately transcribed RNAs [2]. Approximately 25% of C. elegans genes are organised into polycistronic transcription units and the presence of SL2 on an mRNA is an indication the the gene is in an operon [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30 -Z 549862.597050 CM SEQDB 30 345 0 0 Gene; Published; PMID:10958663; Moxon SJ 21 0 \N 0.44299 -10.06104 1600000 383742 212 110 1 -3.35450 0.71846 2013-10-04 00:13:16 2019-01-04 15:01:52 RF00200 snoZ199 1481 Small nucleolar RNA Z199 Griffiths-Jones SR Griffiths-Jones SR 47.00 47.10 46.80 snoZ199 is a C/D box small nucleolar RNA, which acts as a methylation guide RNA for sites on 18S and 25S rRNA. Rice snoZ199 is reported to be homologous to Arabidopsis snoR13. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24 -Z 549862.597050 CM SEQDB 17 406 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 75 0 \N 0.53679 -4.08008 1600000 200201 245 84 1 -3.20180 0.71865 2013-10-04 00:13:18 2019-01-04 15:01:52 RF00201 snoZ278 1482 Small nucleolar RNA Z278 Griffiths-Jones SR Griffiths-Jones SR 36.00 36.10 35.90 snoZ278 is a C/D box small nucleolar RNA. Its methylation guide targets have not been reported. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 375 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Daub J 70 0 \N 0.60014 -5.52264 1600000 253347 222 115 1 -3.30180 0.71821 2013-10-04 00:13:38 2019-01-04 15:01:52 RF00202 snoR66 1483 Small nucleolar RNA R66 Griffiths-Jones SR Griffiths-Jones SR 43.00 43.00 38.20 snoR66 is a C/D box small nucleolar RNA, which acts as a methylation guide for 18S ribosomal RNA in plants [1]. snoR66 has been alternatively named snoZ269 in rice. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 232 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 74 0 \N 0.62752 -4.48462 1600000 262101 165 76 1 -3.39360 0.71870 2013-10-04 00:13:48 2019-01-04 15:01:52 RF00203 snoR160 1484 Small nucleolar RNA R160 Griffiths-Jones SR Griffiths-Jones SR 42.00 42.90 41.90 snoR160 is a C/D box small nucleolar RNA, which acts as a methylation guide for 25S ribosomal RNA in plants [1]. snoR160 has been alternatively named snoZ270 in rice. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 321 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Griffiths-Jones SR 72 0 \N 0.54165 -2.92108 1600000 239093 167 80 1 -3.28320 0.71859 2013-10-04 00:13:51 2019-01-04 15:01:52 RF00204 snoR12 1247 Small nucleolar RNA R12 Griffiths-Jones SR Griffiths-Jones SR 39.00 43.70 37.20 snoR12 is a C/D box small nucleolar RNA, which acts as a methylation guide for 25S ribosomal RNA in plants [1]. snoR12 has been alternatively named snoZ44 in Arabidopsis and snoZ131 in rice. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 392 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD, Griffiths-Jones SR 74 0 \N 0.58399 -4.32508 1600000 250785 174 83 1 -3.46590 0.71849 2013-02-01 11:56:59 2019-01-04 15:01:52 RF00205 snoR41 1485 Small nucleolar RNA R41 Griffiths-Jones SR Griffiths-Jones SR 40.00 41.20 39.40 snoR41 is a C/D box small nucleolar RNA, which acts as a methylation guide for 18S and 25S ribosomal RNA in plants [1]. snoR41 has been alternatively named snoZ154 and snoZ231 in rice. The 18S methylation site is reported to be homologous to that targeted by U62 in humans (Rfam:RF00153) [1], but the snoRNA sequence similarity is not significant. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26 -Z 549862.597050 CM SEQDB 7 171 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Griffiths-Jones SR 76 0 \N 0.56773 -3.68022 1600000 206526 202 97 1 -3.38510 0.71842 2013-10-04 00:17:03 2019-01-04 15:01:52 RF00206 U54 1486 Small nucleolar RNA U54 Griffiths-Jones SR Griffiths-Jones SR 40.00 41.60 39.80 U54 is a C/D box small nucleolar RNA, which acts as a methylation guide for 18S ribosomal RNA in plants [1]. SNORD54; U54 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 21 263 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD, Griffiths-Jones SR 72 0 \N 0.56841 -4.91593 1600000 308921 167 81 1 -3.52130 0.71862 2013-10-04 00:17:08 2019-01-04 15:01:52 RF00207 K10_TLS 2382 K10 transport/localisation element (TLS) Holmes I, Moxon SJ PMID:8582290 43.00 45.20 41.70 This family represents the 44 nucleotide K10 transport/localisation element (TLS) from Drosophila melanogaster. K10 TLS is responsible for the transport and anterior localisation of K10 mRNA and acts to establish dorsoventral polarity in the oocyte [1]. K10 TLS structure was reported in the PDBs 2KE6, 2KUR, 2KUU, 2KUV, and 2KUW [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 7 0 0 Cis-reg; Published; PMID:8582290 7 0 \N 0.70231 -2.50553 1600000 333042 121 48 1 -3.63200 0.71954 2013-10-04 00:17:16 2021-06-14 14:02:32 RF00208 snoR72 1488 Small nucleolar RNA R72 Griffiths-Jones SR Griffiths-Jones SR 43.00 43.00 42.40 snoR72 is a C/D box small nucleolar RNA, which acts as a methylation guide for 25S ribosomal RNA in Arabidopsis [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 27 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD, Griffiths-Jones SR 15 0 \N 0.51401 -3.68233 1600000 233856 184 87 1 -3.06440 0.71847 2013-10-04 00:17:23 2019-01-04 15:01:52 RF00209 IRES_Pesti 1489 Pestivirus internal ribosome entry site (IRES) Moxon SJ PMID:11142379 45.00 47.20 43.20 This family represents the internal ribosome entry site (IRES) of the the pestiviruses. The pestivirus IRES allows cap and end-independent translation of mRNA in the host cell. The IRES achieves this by mediating the internal initiation of translation by recruiting a ribosomal 43S pre-initiation complex directly to the initiation codon and eliminates the requirement for eIF4F [1]. The classical swine virus UTR described in [1] appears to be longer at the 5' end than other pestivirus UTRs. This family represents the conserved core. Pesti_IRES cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 25 1 0 0 Cis-reg; IRES; Published; PMID:11142379 10 0 \N 0.76013 -8.23616 1600000 426310 420 274 1 -3.60330 0.70714 2013-10-04 00:17:30 2019-01-04 15:01:52 RF00210 IRES_Picorna_2 1490 Aphthovirus internal ribosome entry site (IRES) Moxon SJ PMID:14561883 50.00 54.20 32.00 This family represents the internal ribosome entry site (IRES) of the the aphthoviruses. IRES elements allow cap and end-independent translation of mRNA in the host cell. The IRES achieves this by mediating the internal initiation of translation by recruiting a ribosomal 43S pre-initiation complex directly to the initiation codon and eliminates the requirement for eIF4F [2]. Aptho_IRES; IRES_Aptho cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 16.93 -Z 742849.287494 --mxsize 128 CM SEQDB 92 10 0 0 Cis-reg; IRES; Published; PMID:14561883 27 0 \N 0.75096 -8.44153 1600000 406550 744 462 1 -4.80640 0.70145 2013-10-04 00:17:34 2021-07-05 13:43:57 RF00211 SNORD35 1491 Small nucleolar RNA SNORD35 Griffiths-Jones SR Griffiths-Jones SR 36.00 36.20 35.90 U35 is a C/D box snoRNA located in intron 6 of ribosomal protein L13A and intron 3 of ribosomal protein S11 in humans [1] and at homologous positions in mouse and chicken ribosomal protein genes. U35 guides the methylation of 2'-O-ribose sites in 28S rRNA. U35 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 313 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD, Griffiths-Jones SR 108 0 \N 0.67763 -3.71023 1600000 257237 179 88 1 -3.56600 0.71845 2013-10-04 00:17:37 2019-01-04 15:01:52 RF00212 SNORD38 1492 Small nucleolar RNA SNORD38 Griffiths-Jones SR Griffiths-Jones SR 44.00 44.40 43.80 U38 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. U38 is located in introns 4 and 5 of ribosomal protein S8 in human and in homologous genes in mouse and cow [1]. U38 guides the methylation of 2'-O-ribose residues in 28S rRNA. Mouse MBII-329 snoRNA is homologous to U38 [2]. U38 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 270 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD, Griffiths-Jones SR 111 0 \N 0.61882 -4.00898 1600000 282583 154 70 1 -3.56160 0.71891 2013-10-04 00:17:40 2019-01-04 15:01:52 RF00213 snoR38 1493 Small nucleolar RNA R38 Griffiths-Jones SR INFERNAL 45.00 45.00 44.90 snoR38 is a C/D box small nucleolar RNA conserved across yeast [1], human, Arabidopsis [2] and rice [3]. It is encoded in the intron of elongation factor-1 gamma in both pombe and cerevisiae. snoR38 guides the methylation of 2'-O-ribose sites in 28S rRNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 19 715 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD, Griffiths-Jones SR 406 0 \N 0.51865 -4.52442 1600000 220268 233 91 1 -3.71040 0.71841 2013-10-04 00:17:49 2019-01-04 15:01:52 RF00214 Retro_dr1 1494 Retrovirus direct repeat 1 (dr1) Moxon SJ PMID:10438832 42.00 43.70 35.40 This family represents the direct repeat 1 (dr1) element commonly found in the 3' UTR of Avian sarcoma, Rous sarcoma and Avian leukosis viruses (Alpharetroviruses and Avian type C retroviruses). dr1 is required for efficient viral replication and is thought to be involved in genomic RNA packaging although this may not be its only role [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20 -Z 549862.597050 CM SEQDB 26 94 0 0 Cis-reg; Published; PMID:10438832 11 0 \N 0.61354 -5.59833 1600000 303488 185 90 1 -3.32960 0.71874 2013-10-04 00:17:52 2019-01-04 15:01:52 RF00215 Tombus_3_III 1495 Tombus virus defective interfering (DI) RNA region 3 Moxon SJ, Daub J PMID:12477830 35.00 37.80 34.70 This family represents region 3 of the defective interfering (DI) RNA element of the Tombus viruses and is found in the 3' UTR. This family has been found to enhance DI RNA accumulation by approximately 10-fold as well as mediating viral replication [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 28 1 0 0 Cis-reg; Published; PMID:12477830 10 0 \N 0.55243 -9.19415 1600000 505153 148 70 1 -3.82070 0.71889 2013-10-04 00:17:56 2019-01-04 15:01:52 RF00216 IRES_c-myc 1496 c-myc internal ribosome entry site (IRES) Moxon SJ PMID:11419940 40.00 41.40 38.50 This family represents the c-myc internal ribosome entry site (IRES). The mammalian c-myc gene is a proto-oncogene which is required for cell proliferation, transformation and death. c-myc mRNA has an alternative method of translation via internal ribosome entry where ribosomes are recruited to the IRES located in the 5' UTR thus bypassing the typical eukaryotic cap-dependent translation pathway [1]. c-myc_IRES cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 23 35 0 0 Cis-reg; IRES; Published; PMID:11419940 36 0 \N 0.68763 -9.70545 1600000 423241 457 302 1 -3.73050 0.70582 2013-10-04 00:18:04 2019-01-04 15:01:52 RF00217 SNORD20 1497 Small nucleolar RNA SNORD20 Griffiths-Jones SR Griffiths-Jones SR, INFERNAL 43.00 45.40 42.80 U20 is a C/D box small nucleolar RNA that is encoded in intron 11 of the nucleolin gene in human, mouse and rat [1]. U20 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 101 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Griffiths-Jones SR 97 0 \N 0.55741 -4.12863 1600000 232802 169 80 1 -2.90550 0.71865 2013-10-04 00:18:07 2019-01-04 15:01:52 RF00218 SNORD46 1498 Small nucleolar RNA SNORD46 Griffiths-Jones SR, Eberhardt R Griffiths-Jones SR 40.00 43.10 39.30 U40 is a C/D box small nucleolar RNA, also known as snoZ153 in plants. The human sequence has also been annotated in the sequence databases as U46. U40 is encoded in intron 2 of the ribosomal protein S8 gene in human, and is hypothesised to guide methylation of 2'-O-ribose residues on 28S ribosomal RNA [1]. This family represents vertebrate U40. U40 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.00 -Z 549862.597050 CM SEQDB 5 131 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Griffiths-Jones SR 106 0 \N 0.66504 -3.76092 1600000 246631 206 104 1 -3.18810 0.71827 2013-10-04 00:18:11 2019-01-04 15:01:52 RF00220 Rhino_CRE 1499 Human rhinovirus internal cis-acting regulatory element (CRE) Moxon SJ PMID:9848654 45.00 47.40 40.30 This family represents a cis-acting regulatory element (CRE) from the human rhinoviruses. The CRE is located within the genome segment encoding the capsid proteins so is found in a protein coding region. The family has been found to be essential for efficient viral replication and it has been suggested that the CRE is required for initiation of minus-strand RNA synthesis [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 12 0 0 0 Cis-reg; Published; PMID:9848654 10 0 \N 0.60763 -3.93195 1600000 193600 178 86 1 -3.73600 0.71869 2013-10-04 00:18:39 2019-01-04 15:01:52 RF00221 SNORD43 1500 Small nucleolar RNA SNORD43 Griffiths-Jones SR, Eberhardt R Griffiths-Jones SR 45.00 45.40 44.80 U43 is a C/D box small nucleolar RNA that is encoded in intron 1 of the ribosomal protein L3 gene in human and cow [2]. Three other snoRNAs ( U82, U83a and U83b) are also encoded in the same host gene but from different introns [2]. The rice homologue is expressed from a cluster also containing snoR16 [1]. The Arabidopsis homologue is annotated as snoR41 in the sequence databases. U43 is hypothesised to guide methylation of 2'-O-ribose residues on 18S ribosomal RNA [1]. This family represents mammalian U43. U43 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18.00 -Z 549862.597050 CM SEQDB 4 79 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Griffiths-Jones SR 38 0 \N 0.65705 -3.67693 1600000 258316 147 64 1 -3.90270 0.71894 2013-10-04 00:18:41 2019-01-04 15:01:52 RF00222 IRES_Bag1 1501 Bag-1 internal ribosome entry site (IRES) Moxon SJ http://ifr31w3.toulouse.inserm.fr/IRESdatabase/, INFERNAL 37.00 37.00 36.90 This family represents the bag-1 internal ribosome entry site (IRES). When expressed the BAG-1 protein is known to enhance the anti-apoptotic properties of Bcl-2. Although bag-1 translation usually occurs via a cap-dependent mechanism it has been found to contain a IRES in its 5' UTR. Translation via the IRES has been found to be common following heat shock when cap-dependent scanning is compromised [1]. Bag1_IRES cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 15 55 0 0 Cis-reg; IRES; Predicted; PFOLD 42 0 \N 0.58978 -11.79201 1600000 700053 529 370 1 -3.99690 0.70348 2013-10-04 00:20:16 2019-01-04 15:01:52 RF00223 IRES_Bip 1502 bip internal ribosome entry site (IRES) Moxon SJ http://ifr31w3.toulouse.inserm.fr/IRESdatabase/, INFERNAL 40.00 43.20 39.20 This family represents the bip internal ribosome entry site (IRES). BiP protein expression has been found to be significantly enhanced by the heat shock response due to IRES-dependent translation. It is thought that this translational mechanism is essential for the survival of cells under stress [1]. Bip_IRES cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 67 0 0 Cis-reg; IRES; Predicted; PFOLD 37 0 \N 0.71371 -10.59130 1600000 638004 415 263 1 -3.99850 0.70771 2013-10-04 00:20:22 2019-01-04 15:01:52 RF00224 IRES_FGF2 1503 FGF-2 internal ribosome entry site (IRES) Moxon SJ http://ifr31w3.toulouse.inserm.fr/IRESdatabase/, INFERNAL 35.00 35.20 34.90 This family represents the fibroblast growth factor 2 (FGF-2) internal ribosome entry site (IRES). When expressed the FGF-2 protein plays a pivotal role in cell proliferation, differentiation and survival as well as being involved in wound-healing [1,2]. It has been found that FGF-2 IRES activity is strictly controlled and highly tissue specific. It is thought that translational IRES dependent activation of FGF-2 plays a vital role in embryogenesis and in the adult brain [1]. IRES_FGF; FGF_IRES cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 17 0 0 Cis-reg; IRES; Predicted; PFOLD 18 0 \N 0.54334 -12.15671 1600000 483878 686 498 1 -4.20290 0.70087 2013-10-04 00:20:26 2019-01-04 15:01:52 RF00225 IRES_Tobamo 1504 Tobamovirus internal ribosome entry site (IRES) Moxon SJ http://ifr31w3.toulouse.inserm.fr/IRESdatabase/ 50.00 57.10 39.00 This family represents the Tobamovirus internal ribosome entry site (IRES). IRES elements allow cap and end-independent translation of mRNA in the host cell. The IRES achieves this by mediating the internal initiation of translation by recruiting a ribosomal 43S pre-initiation complex directly to the initiation codon and eliminates the requirement for eIF4F [2]. Tobamo_IRES cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 1 0 0 Cis-reg; IRES; Published; PMID:9185586 5 0 \N 0.44596 -10.94851 1600000 438124 270 151 1 -3.11680 0.71779 2013-10-04 00:20:27 2019-01-04 15:01:52 RF00226 IRES_n-myc 1505 n-myc internal ribosome entry site (IRES) Moxon SJ PMID:11419940 40.00 45.00 32.10 This family represents the n-myc internal ribosome entry site (IRES). The myc family of genes when expressed are known to be involved in the control of cell growth, differentiation and apoptosis. n-myc mRNA has an alternative method of translation via internal ribosome entry where ribosomes are recruited to the IRES located in the 5' UTR thus bypassing the typical eukaryotic cap-dependent translation pathway [1]. n-myc_IRES cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 62 0 0 Cis-reg; IRES; Predicted; PFOLD 33 0 \N 0.80616 -8.56659 1600000 483111 475 322 1 -4.13800 0.70497 2013-10-04 00:20:31 2019-01-04 15:01:52 RF00227 FIE3 1506 FIE3 (ftz instability element 3') element Bateman A, Griffiths-Jones SR PMID:8649416 40.00 40.30 39.40 The fushi tarazu gene is essential for the establishment of the Drosophila embryonic body plan. When first expressed in early embryogenesis, fushi tarazu mRNA is uniformly distributed over most of the embryo. Subsequently, fushi tarazu mRNA expression rapidly evolves into a pattern of seven stripes that encircle the embryo. The instability of fushi tarazu mRNA is probably crucial for attaining this localised pattern of expression [1]. Experiments provide evidence for at least two destabilising elements in the fushi tarazu mRNA, one located within the 5' one-third of the mRNA and the other near the 3' end (termed FIE3 for ftz instability element 3'). The FIE3 lies within a 201-nucleotide sequence just upstream of the polyadenylation signal and can act autonomously to destabilise a heterologous mRNA. Further deletion constructs identified an essential 68-nucleotide element within the FIE3 [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 8 0 0 Cis-reg; Predicted; stemloc, Bateman A 11 0 \N 0.46445 -7.35881 1600000 385132 253 65 1 -3.45660 0.71953 2013-10-04 00:20:33 2019-01-04 15:01:52 RF00228 IRES_HepA 1507 Hepatitis A virus internal ribosome entry site (IRES) Moxon SJ http://ifr31w3.toulouse.inserm.fr/IRESdatabase/ 55.00 58.20 36.80 This family represents the internal ribosome entry site (IRES) of the the Hepatitis A virus. IRES elements allow cap and end-independent translation of mRNA in the host cell. The IRES achieves this by mediating the internal initiation of translation by recruiting a ribosomal 43S pre-initiation complex directly to the initiation codon and eliminates the requirement for eIF4F [2]. HepA_IRES cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 23 1 0 0 Cis-reg; IRES; Predicted; PFOLD 1 0 \N 0.73986 -8.40112 1600000 391319 774 572 1 -4.69820 0.69980 2013-10-04 00:20:36 2019-01-04 15:01:52 RF00229 IRES_Picorna 1508 Picornavirus internal ribosome entry site (IRES) Moxon SJ http://ifr31w3.toulouse.inserm.fr/IRESdatabase/ 33.00 33.00 32.90 This family represents the Picornavirus internal ribosome entry site (IRES). IRES elements allow cap and end-independent translation of mRNA in the host cell. It has been found that La autoantigen (La) is required for Coxsackievirus B3 (CVB3) IRES-mediated translation, and it has been suggested that La may be required for the efficient translation of the viral RNA in the pancreas [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 92 9 0 0 Cis-reg; IRES; Predicted; PFOLD 58 0 \N 0.67968 -9.28524 1600000 405001 390 252 1 -4.18000 0.70835 2013-10-04 00:20:39 2019-01-04 15:01:52 RF00230 T-box 1509 T-box leader Barrick JE, Bateman A, Vitreschak AG, Gelfand MS, Gardner PP Barrick JE, predicted; Vitreschak A, PMID:12770710 93.00 93.00 92.90 Uncharged tRNA acts as the effector for transcription antitermination of genes in the T-box leader family [1-3]. T-boxes are found upstream of many aminoacyl-tRNA synthetase genes and some amino acid biosynthetic genes usually in Gram-positive bacteria. The anticodon of a specific tRNA base pairs to a specifier sequence within the T-box motif, and the NCCA acceptor tail of the tRNA base pairs to a conserved bulge in the T-box antiterminator hairpin [4]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18.50 -Z 549862.597050 CM SEQDB 48 12267 0 0 Cis-reg; leader; Published; PMID:12770710 1421 0 \N 0.59513 -9.83089 1600000 407865 1204 224 1 -3.46590 0.71018 2013-10-04 00:20:52 2021-07-05 13:43:57 RF00231 SCARNA13 1248 Small Cajal body specific RNA 13 Moxon SJ, Daub J PMID:12409454, INFERNAL 49.00 49.20 41.60 scaRNAs are a specific class of small nuclear RNAs which localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12 [1]. U93 is composed of two tandemly arranged box H/ACA RNA motifs and belongs to the H/ACA class of guide RNAs. U93 is predicted to guide pseudouridylation of the U2 spliceosomal snRNA [2]. U93 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 24 136 0 0 Gene; snRNA; snoRNA; scaRNA; Published; PMID:12409454 112 0 \N 0.66227 -8.79757 1600000 323344 412 275 1 -4.17250 0.70712 2013-02-01 11:57:22 2019-01-04 15:01:52 RF00232 Spi-1 1510 Spi-1 (PU.1) 5' UTR regulatory element Moxon SJ PMID:9207037 40.00 61.00 37.80 Spi-1 regulates myeloid gene expression during haemopoietic development. This family represents a regulatory element found in the 5' UTR of Spi-1 mRNA which is able to inhibit the translation Spi-1 transcripts by 8-fold. Mutations in this regulatory region of the 5' UTR can lead to overexpression of Spi-1 which has been linked to erythroleukemic transformation [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25 -Z 549862.597050 CM SEQDB 5 37 0 0 Cis-reg; Published; PMID:9207037 36 0 \N 0.52976 -9.55199 1600000 319555 292 168 1 -3.00750 0.71615 2013-10-04 00:21:33 2019-01-04 15:01:52 RF00233 Tymo_tRNA-like 2522 Tymovirus/Pomovirus/Furovirus tRNA-like 3' UTR element Moxon SJ PMID:15033563 40.00 41.40 38.80 This family represents a tRNA-like structure found in the 3' UTR of Tymoviruses, Pomoviruses and Furovirus. This family (in conjunction with Rfam:RF00390 and a 5'-cap) are known to enhance translation [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21 -Z 549862.597050 CM SEQDB 28 23 0 0 Cis-reg; Published; PMID:15033563 24 0 \N 0.56863 -9.00191 1600000 403383 165 84 1 -3.53340 0.71876 2013-10-04 00:21:36 2019-01-04 15:01:52 RF00234 glmS 1512 glmS glucosamine-6-phosphate activated ribozyme Winkler WC, Nahvi A, Roth A, Collins JA, Barrick JE, Breaker RR Barrick JE, Breaker RR 37.00 38.50 35.60 This entry contains a glucosamine-6-phosphate activated ribozyme that is found in the mRNA for GlmS. GlmS is an enzyme that uses fructose-6-phosphate and glutamine to generate glucosamine-6-phosphate. The ribozyme catalyses self cleavage of the glmS mRNA that is thought to regulate GlmS activity [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 18 925 0 0 Cis-reg; riboswitch; Published; PMID:15029187 920 0 \N 0.63246 -8.96959 1600000 427034 517 171 1 -3.25700 0.71554 2013-10-04 00:21:48 2019-01-04 15:01:52 RF00235 Plasmid_RNAIII 1513 Plasmid RNAIII Bateman A Pubmed:14583190 60.00 143.70 48.80 This RNA is found in bacterial plasmids including pIP501. RNAIII acts by transcriptional attenuation of the essential repR-mRNA. RNAIII is composed of four stem loops with loops L3 and L4 that interact with the RNA target [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 7 2 0 0 Gene; Predicted; ILM 5 0 \N 0.47112 -9.40435 1600000 372469 243 131 1 -2.98240 0.71825 2013-10-04 00:21:51 2019-01-04 15:01:52 RF00236 ctRNA_pGA1 1514 ctRNA Bateman A PMID:12670963 45.00 45.20 42.30 Rolling circle replication plasmids contain a number of mechanisms to maintain a low copy number. One of these methods is to transcribe a small RNA called ctRNA (for counter-transcribed RNA) than is transcribed on the opposite strand to RepB the replication initiation protein. ctRNA binds to the mRNA of repB and causes translational inhibition. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 15 16 0 0 Gene; antisense; Published; PMID:12670963 21 0 \N 0.57565 -7.16220 1600000 310044 163 79 1 -3.22590 0.71905 2013-10-04 00:22:06 2019-01-04 15:01:52 RF00237 mir-9 2383 mir-9/mir-79 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 44.00 44.00 43.90 miR-9 has been identified in Drosophila (MIR:MI0000129) [1], mouse (MIR:MI0000720) and human (MIR:MI0000466) [2], and the related miR-79 in C. elegans (MIR:MI0000050) [3] and worm (MIR:MI0000374) [4]. The mature ~21nt miRNAs are processed from hairpin precursor sequences represented here. miR-9 is processed from the 5' arm of its precursor, and miR-79 from the 3' arm. The bounds of the precursors are predicted based on conservation and base pairing and are not generally known. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 43 1119 0 0 Gene; miRNA; Predicted; PFOLD 280 0 \N 0.63765 -3.47723 1600000 233525 136 62 1 -4.10290 0.71924 2013-10-04 00:22:15 2021-11-19 11:53:19 RF00238 ctRNA_pND324 1514 ctRNA Bateman A PMID:9682491 45.00 46.50 44.70 Rolling circle replication plasmids contain a number of mechanisms to maintain a low copy number. One of these methods is to transcribe a small RNA called ctRNA (for counter-transcribed RNA) than is transcribed on the opposite strand to RepB the replication initiation protein. ctRNA binds to the mRNA of repB and causes translational inhibition. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 48 30 0 0 Gene; antisense; Predicted; ILM 20 0 \N 0.49044 -5.53958 1600000 267249 171 86 1 -2.86060 0.71878 2013-10-04 00:22:45 2019-01-04 15:01:52 RF00239 mir-124 1516 mir-124 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 38.00 38.10 37.90 miR-124 has been identified in Drosophila (MIR:MI0000373) [1], C. elegans (MIR:MI0000302) [2], mouse (MIR:MI0000150) and human (MIR:MI0000443) [3]. The mature ~21nt miRNAs are processed from hairpin precursor sequences represented here, in this case originating from the 3' arm. The bounds of the precursors are predicted based on conservation and base pairing and are not generally known. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 56 537 0 0 Gene; miRNA; Predicted; PFOLD 263 0 \N 0.67100 -2.80861 1600000 131833 161 81 1 -3.62820 0.71882 2013-10-04 00:22:48 2021-11-19 11:53:19 RF00240 RNA-OUT 1517 RNA-OUT Bateman A PMID:2482367, INFERNAL 41.00 41.50 40.90 Transposition of insertion sequence IS10 is regulated by an anti-sense RNA which inhibits transposase expression when IS10 is present in multiple copies per cell. The anti-sense RNA (RNA-OUT) consists of a stem domain topped by a flexibly paired loop; the 5' end of the target molecule, RNA-IN, is complementary to the top of the loop, and complementarity extends for 35 base-pairs down one side of RNA-OUT [1]. This bacterial RNA is also found in the genomic sequence of eukaryotic organisms. This is probably due to vector contamination. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 76 0 0 Gene; antisense; Predicted; Pfold 47 0 \N 0.58785 -4.55704 1600000 271205 168 70 1 -3.78520 0.71905 2013-10-04 00:22:57 2019-01-04 15:01:52 RF00241 mir-8 2384 mir-8/mir-141/mir-200 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 47.00 47.00 46.90 miR-8 from Drosophila [1] (MIR:MI0000128) and human and mouse mir-141 (MIR:MI0000166, MIR:MI0000457), mir-429 (MIR:MI0001642) and mir-200 (MIR:MI0000243, MIR:MI0000342) [2] are expressed from the 3' arm of related precursor hairpins (represented here). Members of this precursor family have now been predicted or experimentally confirmed in a wide range of species (MIPF:MIPF0000019). The bounds of the precursors are predicted based on conservation and base pairing and are not generally known. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 40.00 -Z 742849.287494 CM SEQDB 164 560 0 0 Gene; miRNA; Predicted; RNAalifold 257 0 \N 0.64886 -3.57064 1600000 189396 144 72 1 -3.68740 0.71935 2013-10-04 00:23:03 2022-10-29 16:42:08 RF00242 ctRNA_pT181 1514 ctRNA Bateman A PMID:2478296 56.00 58.90 52.30 Rolling circle replication plasmids contain a number of mechanisms to maintain a low copy number. One of these methods is to transcribe a small RNA called ctRNA (for counter-transcribed RNA) than is transcribed on the opposite strand to RepB the replication initiation protein. ctRNA binds to the mRNA of repB and causes translational inhibition. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 16 17 0 0 Gene; antisense; Published; PMID:2478296 15 0 \N 0.48014 -4.21360 1600000 219357 189 94 1 -3.06820 0.71869 2013-10-04 00:23:06 2019-01-04 15:01:52 RF00243 traJ_5 1519 traJ 5' UTR Bateman A PMID:14633993 50.00 51.40 47.50 The FinOP system regulates the transfer of F-like plasmids. FinP Rfam:RF00107 encodes an antisense RNA product that is complementary to part of the 5' UTR of the traJ mRNA. The traJ gene encodes a protein required for transcription from the major transfer promoter, pY. The FinO protein is essential for effective repression, acting by binding to FinP and protecting it from RNase E degradation. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 6 8 0 0 Cis-reg; Predicted; ILM 10 0 \N 0.49546 -7.23829 1600000 276057 212 109 1 -2.99530 0.71840 2013-10-04 00:23:20 2019-01-04 15:01:52 RF00244 mir-26 1520 mir-26 microRNA precursor family Griffiths-Jones SR, Griffiths-Jones SR Griffiths-Jones SR 57.00 57.00 56.80 miR-26 is processed from multiple predicted precursor hairpins in both mouse (MIR:MI0000573, MIR:MI0000575, MIR:MI0000706) and human (MIR:MI0000083, MIR:MI0000084, and MIR:MI0000750) [1,2]. miR-26 appears to be a vertebrate specific miRNA and has now been predicted or experimentally validated in many vertebrate species (MIPF:MIPF0000043). The hairpin precursors (represented here) are predicted based on base pairing and cross-species conservation -- their extents are not known. In this case the mature sequence is excised from the 5' arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 82 343 0 0 Gene; miRNA; Predicted; RNAalifold 122 0 \N 0.71076 -2.74758 1600000 177774 163 81 1 -3.85720 0.71902 2013-10-04 00:23:23 2021-11-19 10:36:03 RF00245 mir-19 1521 mir-19 microRNA precursor family Griffiths-Jones SR, Daub J Griffiths-Jones SR, INFERNAL 50.00 53.50 49.60 miR-19 is processed from multiple predicted precursor hairpins in both mouse (MIR:MI0000546, MIR:MI0000688, MIR:MI0000718) and human (MIR:MI0000073, MIR:MI0000074, and MIR:MI000075) [1,2,3]. miR-19 has now been predicted or experimentally confirmed in a wide range of vertebrate species (MIPF:MIPF0000011). The hairpin precursors (represented here) are predicted based on base pairing and cross-species conservation -- their extents are not known. In this case the mature sequence is excised from the 3' arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 46 338 0 0 Gene; miRNA; Predicted; PFOLD 124 0 \N 0.58891 -3.96069 1600000 186917 163 76 1 -3.67900 0.71900 2013-10-04 00:23:26 2021-11-19 11:53:19 RF00246 mir-135 1522 mir-135 microRNA precursor family Griffiths-Jones SR, Daub J Griffiths-Jones SR, INFERNAL 59.20 60.20 57.70 miR-135 has been shown to be expressed in human (MIR:MI0000452, MIR:MI0000453), mouse (MIR:MI0000161, MIR:MI0000646, MIR:MI0000715) and rat (MIR:MI0000645) [1,2]. miR-135 has now been predicted or experimentally confirmed in a wide range of vertebrate species (MIPF:MIPF0000028). The hairpin precursors (represented here) are predicted based on base pairing and cross-species conservation -- their extents are not known. In this case the mature sequence is excised from the 5' arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 32 335 0 0 Gene; miRNA; Predicted; PFOLD 121 0 \N 0.64974 -2.95919 1600000 134925 179 90 1 -3.79900 0.71883 2013-10-04 00:23:38 2022-05-06 12:10:02 RF00247 mir-160 1523 mir-160 microRNA precursor family Griffiths-Jones SR, Daub J Griffiths-Jones SR 48.00 48.00 47.90 miR-160 has been predicted or experimentally confirmed in a range of plant species including Arabidopsis and rice (MIPF:MIPF0000032). miR-160 is predicted to bind complementary sites in the untranslated regions of auxin response factor genes to regulate their expression [1].The hairpin precursors (represented here) are predicted based on base pairing and cross-species conservation -- their extents are not known. In this case the mature sequence is excised from the 5' arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 511 0 0 Gene; miRNA; Predicted; PFOLD 82 0 \N 0.64544 -3.88075 1600000 203017 583 90 1 -3.55780 0.71883 2013-10-04 00:23:41 2021-11-19 10:36:03 RF00248 mir-148 2385 mir-148/mir-152 microRNA precursor family Griffiths-Jones SR, Griffiths-Jones SR Griffiths-Jones SR 53.00 53.90 51.80 The expression of miR-148 has been demonstrated in human (MIR:MI0000253), mouse (MIR:MI0000550), rat (MIR:MI0000616) and zebrafish (MIR:MI0002015) [1,2,3]. miR-148 has also been predicted in chicken (MIR:MI0001189). These predicted hairpin precursor sequence are related to those of mir-152, which has been expressed in mouse (MIR:MI0000174) and is predicted in human (MIR:MI0000462) [1]. The hairpin precursors (represented here) are predicted based on base pairing and cross-species conservation -- their extents are not known. In this case the mature sequence is excised from the 3' arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 70 191 0 0 Gene; miRNA; Predicted; RNAalifold 89 0 \N 0.62917 -3.71283 1600000 149769 156 74 1 -3.60660 0.71909 2013-10-04 00:23:50 2022-05-06 11:43:53 RF00249 mir-46 2386 mir-46/mir-47/mir-281 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 44.70 44.70 44.50 miR-46 (MIR:MI0000017) and miR-47 (MIR:MI0000018) are expressed in C. elegans from related hairpin precursor sequences [1]. The predicted hairpin precursor sequences for Drosophila miR-281 (MIR:MI0000366, MIR:MI0000370) [2,3] are also related and so are also present in this family. The hairpin precursors (represented here) are predicted based on base pairing and cross-species conservation -- their extents are not known. In this case the mature sequences are expressed from the 3' arms of the hairpin precursors. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 57 155 0 0 Gene; miRNA; Predicted; RNAalifold 137 0 \N 0.61792 -3.17517 1600000 119958 170 85 1 -4.02870 0.71885 2013-10-04 00:23:53 2021-12-03 12:04:12 RF00250 mir-TAR 1526 Trans-activation response element (TAR) Moxon SJ PMID:12882959 40.00 45.90 36.10 This family represents the HIV trans-activation response (TAR) element which is known to be required for the trans-activation of the viral promoter and for virus replication. The TAR hairpin acts as a binding site for the Tat protein and this interaction stimulates the activity of the long terminal repeat promoter [1]. Further experiments have shown that TAR acts as a miRNA that protects against apoptosis [2,3]. TAR cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 45 28 0 0 Gene; miRNA; Published; PMID:12882959 13 0 \N 0.64556 -3.85970 1600000 279931 139 61 1 -3.88430 0.71935 2013-10-04 00:23:56 2021-11-19 11:53:19 RF00251 mir-219 1527 mir-219 microRNA precursor family Griffiths-Jones SR, Daub J Griffiths-Jones SR 35.00 35.00 34.80 miR-219 was predicted in vertebrates by conservation between human, mouse and Fugu and cloned in Fugu [1], and later predicted and experimentally confirmed in Drosophila [2]. miR-219 homologs have since been predicted or experimentally confirmed in a wide range of species which include the platyhelminth Schmidtea mediterranea, several arthropod species and a wide range of vertebrates (MIPF:MIPF0000044). The hairpin precursors (represented here) are predicted based on base pairing and cross-species conservation -- their extents are not known. In this case the mature sequence is excised from the 5' arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 298 0 0 Gene; miRNA; Predicted; PFOLD 174 0 \N 0.66642 -4.14526 1600000 200992 156 71 1 -3.50660 0.71903 2013-10-04 00:24:12 2021-11-19 10:36:03 RF00252 Alfamo_CPB 1528 Alfalfa mosaic virus coat protein binding (CPB) RNA Moxon SJ PMID:14718638 70.00 72.00 68.10 This family represents the Alfalfa mosaic virus (AMV) coat protein (CP) binding RNA which is found in the 3' UTR. AMV CP can stimulate the translation of AMV RNA by between 50 and 100-fold. This family contains at least two CP binding sites which are thought to be essential for efficient RNA translation [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 18 4 0 0 Cis-reg; Published; PMID:14718638 2 0 \N 0.70023 -7.84051 1600000 389337 308 182 1 -3.34080 0.71429 2013-10-04 00:24:17 2019-01-04 15:01:52 RF00253 mir-101 1529 mir-101 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 60.20 48.90 Expression of miR-101 has been validated in both human (MIR:MI0000103, MIR:MI0000739) [1] and mouse (MIR:MI0000148) [2].This mirna appears to be specific to the vertebrates and has now been predicted or confirmed in a wide range of vertebrate species (MIPF:MIPF0000046). The hairpin precursors (represented here) are predicted based on base pairing and cross-species conservation -- their extents are not known. In this case the mature sequence is excised from the 3' arm of the hairpin. This family also contains a predicted homologue of mir-101 from Tetraodon fluviatilis. Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 59 218 0 0 Gene; miRNA; Predicted; RNAalifold 120 0 \N 0.67185 -3.79911 1600000 202071 162 75 1 -3.58810 0.71900 2013-10-04 00:24:28 2021-11-19 10:36:03 RF00254 mir-16 1530 mir-16 microRNA precursor family Griffiths-Jones SR, Daub J Griffiths-Jones SR 44.00 44.10 43.90 miR-16, miR-15, mir-195 and miR-457 are related miRNA precursor sequences (MIPF:MIPF000006). This miRNA family appears to be vertebrate specific and members of this family have been predicted or experimentally validated in a wide range of vertebrate species (MIPF:MIPF0000006). miR-16 and miR-15a are clustered within 0.5 kb at 13q14 in human, a region shown to be deleted or down-regulated in more than half of B cell chronic lymphocytic leukaemias (CLL) [1]. The hairpin precursors (represented here) are predicted based on base pairing and cross-species conservation -- their extents are not known. In this case the mature sequence is excised from the 5' arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 513 0 0 Gene; miRNA; Predicted; PFOLD 117 0 \N 0.69466 -2.91088 1600000 151251 167 81 1 -3.58510 0.71895 2013-10-04 00:24:31 2021-11-19 10:36:03 RF00255 mir-218 2508 mir-218 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 62.00 62.40 60.20 miR-218 appears to be a vertebrate specific microRNA and has now been been predicted and experimentally confirmed in a wide range of vertebrate species (MIR:MIPF0000026). The extents of the hairpin precursors are not known. In this case the mature sequence in excised from the 5'arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 74 231 0 0 Gene; miRNA; Predicted; RNAalifold 123 0 \N 0.71328 -2.46295 1600000 182986 167 82 1 -3.83220 0.71891 2013-10-04 00:24:39 2021-11-19 10:36:03 RF00256 mir-196 1532 mir-196 microRNA precursor family Griffiths-Jones SR, Daub J Griffiths-Jones SR 55.40 55.40 55.30 miR-196 has been shown to be expressed in human (MIR:MI0000238, MIR:MI0000279) and mouse (MI0000552, MI0000553) [1,2]. miR-196 appears to be a vertebrate specific microRNA and has now been predicted or experimentally confirmed in a wide range of vertebrate species (MIPF:MIPF0000031). In many species the miRNA appears to be expressed from intergenic regions in HOX gene clusters. The hairpin precursors (represented here) are predicted based on base pairing and cross-species conservation -- their extents are not known. In this case the mature sequence is excised from the 5' arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 14 319 0 0 Gene; miRNA; Predicted; PFOLD 113 0 \N 0.68721 -1.95833 1600000 132100 182 92 1 -3.51720 0.71879 2013-10-04 00:24:42 2022-05-06 11:43:50 RF00257 mir-194 1533 mir-194 microRNA precursor family Griffiths-Jones SR, Daub J Griffiths-Jones SR, INFERNAL 55.00 55.10 54.60 Expression of miR-194 has been verified in mouse (MIR:MI0000236, MIR:MI0000733) [1] and human (MIR:MI0000488, MIR:MI0000732) [2]. miR-194 appears to be a vertebrate specific miRNA and has now been predicted or experimentally confirmed in a range of vertebrate species (MIPF:MIPF0000055). The hairpin precursors (represented here) are predicted based on base pairing and cross-species conservation -- their extents are not known. In this case the mature sequence is excised from the 5' arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 29 202 0 0 Gene; miRNA; Predicted; PFOLD 116 0 \N 0.67819 -2.31079 1600000 130655 169 85 1 -4.22480 0.71889 2013-10-04 00:24:46 2021-11-19 11:53:19 RF00258 mir-130 1534 mir-130 microRNA precursor family Griffiths-Jones SR, Daub J Griffiths-Jones SR, INFERNAL 40.60 40.60 40.50 miR-130 has been identified in mouse (MIR:MI0000156, MIR:MI0000408) [1], and in human (MIR:MI0000448, MIR:MI0000748) [2]. miR-130 appears to be vertebrate specific miRNA and has now been predicted or experimentally confrimed in a range of vertebrate species (MIPF:MIPF0000034). The hairpin precursors (represented here) are predicted based on base pairing and cross-species conservation -- their extents are not known. In this case the mature sequence is excised from the 3' arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 9 439 0 0 Gene; miRNA; Predicted; PFOLD 117 0 \N 0.61499 -3.81332 1600000 214432 175 83 1 -3.53160 0.71889 2013-10-04 00:24:53 2022-05-06 11:43:50 RF00259 IFN_gamma 1535 Interferon gamma 5' UTR regulatory element Moxon SJ PMID:11832212 40.00 41.60 39.50 This family represents a pseudoknot containing stem-loop structure found in the 5' UTR of interferon (IFN) gamma mRNA. This structure is thought to be involved in translational regulation and the pseudoknot has been found to activate PKR which is known to be a translational inhibitor. Mutations in the pseudoknot structure have been found to reduce PKR activation and increase the translation of IFN-gamma [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20 -Z 549862.597050 CM SEQDB 5 35 0 0 Cis-reg; Published; PMID:11832212 34 0 \N 0.49807 -9.43080 1600000 316968 292 169 1 -3.55750 0.71599 2013-10-04 00:24:59 2019-01-04 15:01:52 RF00260 HepC_CRE 1536 Hepatitis C virus (HCV) cis-acting replication element (CRE) Lamkiewicz K, Triebel S, Marz M Kevin Lamkiewicz; Sandra Triebel; Manja Marz; 60.00 67.80 36.20 Genetic modification of RNA structures in Hepatitis C virus (HCV) genome affects replication and infectivity [1] Long distant RNA-RNA interactions in HCV RNAs are involved in translation to virion budding [2] It has been proposed that the 5'-3' UTR base-pairing in the HCV genome might play an important role in viral RNA replication [3] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 52 0 0 0 Cis-reg; Predicted; BM VeGETA v. 0.4, LocARNA 2.0.0RC8, RNAfold 10 0 \N 0.50168 -5.95787 1600000 237844 125 51 1 -3.56570 0.71945 2013-10-04 00:25:03 2022-05-06 12:10:02 RF00261 IRES_L-myc 1537 L-myc internal ribosome entry site (IRES) Moxon SJ PMID:14730027, INFERNAL 60.00 61.40 52.70 This family represents the L-myc internal ribosome entry site (IRES). The myc family of genes when expressed are known to be involved in the control of cell growth, differentiation and apoptosis. L-myc undergoes translation via internal ribosome entry and bypasses the typical eukaryotic cap-dependent translation pathway [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.13 -Z 549862.597050 CM SEQDB 11 31 0 0 Cis-reg; IRES; Published; PMID:14730027 33 0 \N 0.54571 -10.39988 1600000 444084 360 221 1 -3.22950 0.71062 2013-10-04 00:25:10 2019-01-04 15:01:52 RF00262 sar 1538 sar RNA Bateman A Pubmed:9042942, INFERNAL 43.00 44.80 40.90 Sar RNA is an antisense RNA that is partly responsible for the negative regulation of antirepressor synthesis during development of bacteriophage P22 [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 4 9 0 0 Gene; antisense; Predicted; RNAalifold; Daub J 11 0 \N 0.60610 -5.23381 1600000 323300 152 68 1 -3.36840 0.71911 2013-10-04 00:25:24 2019-01-04 15:01:52 RF00263 SNORA68 1539 Small nucleolar RNA SNORA68 Moxon SJ Moxon SJ, INFERNAL 43.00 43.30 42.60 U68 is a member of the H/ACA class of small nucleolar RNAs (snoRNAs) which act as guides in the the modification of uridines to pseudouridines [2]. U68 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.5 -Z 549862.597050 CM SEQDB 26 247 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD 117 0 \N 0.54228 -6.85769 1600000 211996 234 133 1 -3.25450 0.71822 2013-10-04 00:25:30 2019-01-04 15:01:52 RF00264 SNORA64 2387 Small nucleolar RNA SNORA64/SNORA10 family Moxon SJ, Daub J PMID:10487763, Daub J 35.00 35.30 34.90 This family belongs to the H/ACA class of small nucleolar RNAs (snoRNAs) which act as guides in the the modification of uridines to pseudouridines [2]. This family includes the human snoRNAs U64 and ACA10 and mouse MBI-29. U64 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20 -Z 549862.597050 CM SEQDB 9 167 0 0 Gene; snRNA; snoRNA; HACA-box; Published; PMID:10487763 55 0 \N 0.59523 -7.32381 1600000 208566 242 134 1 -3.25670 0.71832 2013-10-04 00:25:38 2019-01-04 15:01:52 RF00265 SNORA69 1249 Small nucleolar RNA SNORA69 Moxon SJ http://ribosome.miyazaki-med.ac.jp/, INFERNAL 47.00 48.20 44.40 U69 is a member of the H/ACA class of small nucleolar RNAs (snoRNAs) which act as guides in the the modification of uridines to pseudouridines [1]. U69 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 16 152 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD 92 0 \N 0.51863 -7.13379 1600000 260530 242 132 1 -3.17000 0.71822 2013-02-01 11:57:24 2019-01-04 15:01:52 RF00266 snoZ17 1541 Small nucleolar RNA Z17 Moxon SJ http://ribosome.miyazaki-med.ac.jp/, INFERNAL 44.00 44.70 42.60 Z17 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21 -Z 549862.597050 CM SEQDB 26 133 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 107 0 \N 0.56826 -5.75120 1600000 367190 152 71 1 -3.64870 0.71882 2013-10-04 00:26:12 2019-01-04 15:01:52 RF00267 snoR64 2388 Small nucleolar RNA R64/Z200 family Moxon SJ, Daub J INFERNAL 45.00 45.90 43.10 This family of plant small nucleolar RNAs belong to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family includes Arabidopsis thaliana snoRNA R64 and Oryza sativa snoRNAs Z200 and J16. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 314 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Daub J 78 0 \N 0.63074 -1.45922 1600000 167526 185 94 1 -3.56730 0.71843 2013-10-04 00:26:30 2019-01-04 15:01:52 RF00268 snoZ7 2389 Small nucleolar RNA snoZ7/snoR77 Moxon SJ http://bioinf.scri.sari.ac.uk/cgi-bin/plant_snorna/home 43.00 43.40 42.30 snoZ7 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. snoR77 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.81 -Z 549862.597050 CM SEQDB 5 34 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 12 0 \N 0.54874 -5.92483 1600000 317927 168 78 1 -3.00880 0.71863 2013-02-01 11:57:27 2021-07-05 13:43:57 RF00270 SNORD61 1543 Small nucleolar RNA SNORD61 Moxon SJ Moxon SJ, INFERNAL 43.00 43.20 42.70 U61 belongs to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. U61 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 36 165 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 125 0 \N 0.49324 -6.11346 1600000 290129 148 72 1 -3.17990 0.71871 2013-10-04 00:26:43 2021-07-05 13:43:57 RF00271 SNORD60 1544 Small nucleolar RNA SNORD60 Moxon SJ Moxon SJ, INFERNAL 42.00 42.50 41.90 U60 belongs to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. U60 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 22 131 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 68 0 \N 0.61479 -3.10163 1600000 203624 172 83 1 -3.50100 0.71866 2013-10-04 00:26:45 2019-01-04 15:01:52 RF00272 SNORA67 1545 Small nucleolar RNA SNORA67 Moxon SJ Moxon SJ 45.00 46.50 44.30 U67 belongs to the H/ACA class of snoRNAs which are thought to guide the sites of modification of uridines to pseudouridines. U67 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.00 -Z 549862.597050 CM SEQDB 12 164 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Daub J 36 0 \N 0.54930 -8.66797 1600000 298665 262 143 1 -2.88970 0.71814 2013-10-04 00:26:48 2019-01-04 15:01:52 RF00273 SNORD59 1546 Small nucleolar RNA SNORD59 Moxon SJ Moxon SJ, INFERNAL 45.00 45.40 43.40 U59 belongs to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. U59 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 24 219 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; ILM; Moxon SJ, Daub J 103 0 \N 0.64428 -3.27041 1600000 259222 155 73 1 -3.95120 0.71872 2013-10-04 00:26:54 2019-01-04 15:01:52 RF00274 SNORD57 1547 Small nucleolar RNA SNORD57 Moxon SJ Moxon SJ, INFERNAL 47.00 47.10 46.80 U57 belongs to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. U57 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 23 100 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Daub J 88 0 \N 0.64701 -4.04623 1600000 304171 156 72 1 -3.62900 0.71873 2013-10-04 00:26:59 2019-01-04 15:01:52 RF00275 SNORD56 1548 Small nucleolar RNA SNORD56 Moxon SJ Moxon SJ 36.00 36.30 35.00 U56 belongs to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. U56 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 154 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 54 0 \N 0.63622 -3.91797 1600000 272954 155 71 1 -3.44190 0.71879 2013-10-04 00:27:01 2019-01-04 15:01:52 RF00276 SNORD52 1549 Small nucleolar RNA SNORD52 Moxon SJ Moxon SJ, INFERNAL 45.00 46.30 44.10 U52 belongs to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. U52 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 20 66 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ, Daub J 51 0 \N 0.63129 -5.31554 1600000 348514 145 67 1 -3.37080 0.71883 2013-10-04 00:27:04 2019-01-04 15:01:52 RF00277 SNORD49 1550 Small nucleolar RNA SNORD49 Moxon SJ Moxon SJ, INFERNAL 37.00 37.10 36.90 U49 belongs to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. U49 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 28 201 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Daub J 120 0 \N 0.61926 -8.20932 1600000 314669 151 71 0 -4.07510 0.71871 2013-10-04 00:27:15 2021-07-05 13:43:57 RF00278 SNORD50 1551 Small nucleolar RNA SNORD50 Moxon SJ Moxon SJ 42.00 42.30 41.60 U50 belongs to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. U50 is an intronic snoRNA gene located on chromosome 6q15, at the breakpoint of chromosomal translocation t(3;6)(q27;q15). The U50HG gene is composed of six exons, whose spliced transcripts have little potential for coding a protein, and its introns produce both U50 and U50-like (U50') snoRNAs that are localised in nucleoli [3]. U50 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 26 295 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Moxon SJ 111 0 \N 0.63428 -4.05653 1600000 289073 155 72 1 -3.47740 0.71875 2013-10-04 00:27:19 2019-01-04 15:01:52 RF00279 SNORD45 1552 Small nucleolar RNA SNORD45 Moxon SJ Moxon SJ 42.00 42.80 41.70 U45 belongs to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. U45 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25 -Z 549862.597050 CM SEQDB 11 336 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 96 0 \N 0.56036 -4.57230 1600000 230913 168 81 1 -3.16270 0.71861 2013-10-04 00:27:23 2019-01-04 15:01:52 RF00280 SNORD51 1553 Small nucleolar RNA SNORD51 Moxon SJ Moxon SJ, INFERNAL 50.00 50.10 49.50 U51 belongs to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. U51 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 107 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ, Daub J 95 0 \N 0.55944 -3.86685 1600000 200774 167 79 1 -3.72920 0.71861 2013-10-04 00:27:32 2021-07-05 13:43:57 RF00281 SNORD47 1251 Small nucleolar RNA SNORD47 Moxon SJ Moxon SJ, INFERNAL 50.00 50.30 49.40 U47 belongs to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. U47 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 129 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; ILM; Moxon SJ, Daub J 115 0 \N 0.59525 -4.13258 1600000 269301 162 77 1 -3.59600 0.71863 2013-02-01 11:57:28 2019-01-04 15:01:52 RF00282 SNORD48 1554 Small nucleolar RNA SNORD48 Moxon SJ Moxon SJ, INFERNAL 36.00 36.20 34.70 U48 belongs to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. U48 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 50 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 39 0 \N 0.69348 -5.02840 1600000 336196 146 63 1 -4.08730 0.71888 2013-10-04 00:27:43 2019-01-04 15:01:52 RF00283 SCARNA18 1555 small Cajal body-specific RNA 18 Moxon SJ, Daub J PMID:12032087, INFERNAL 40.00 42.10 38.70 scaRNAs are a specific class of small nuclear RNAs which localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12 [1]. This C/D box domain U91 (also known as U4-8) was identified by Darzacq and is predicted to guide the 2'O-ribose methylation of U4 snRNA C8 [1]. This C/D domain was later found associated in tandem with another C/D box domain U12-22 (RFAM:RF00492). Both the doublet (U12-22/U4-8) and singlet (U4-8) forms of this snRNA have been purified from Hela cells [1]. The doublet form U12-22/U4-8 has been shown to localise to the nucleoplasm and is proposed to reside in the Cajal bodies whereas the U4-8 single domain appears to accumulate in the nucleolus [3]. In humans the genomic location of U12-88/U4-8 is intergenic and the purified transcript has been shown to possess a methylated guanosine cap suggesting it is independently transcribed by RNA pol II [3]. U91 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 104 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; PFOLD; Moxon SJ 51 0 \N 0.68308 -3.36121 1600000 213120 173 83 1 -3.64270 0.71859 2013-10-04 00:27:45 2019-01-04 15:01:52 RF00284 SNORD74 1556 Small nucleolar RNA SNORD74 Moxon SJ, Daub J Moxon SJ, INFERNAL 41.00 41.70 40.40 Z18 also identified as U74 (SNORD74) belongs to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. U74 is predicted to guide the 2'O-ribose methylation of 28S rRNA residue C3820 [3]. In humans U74 shares the same non-protein coding host gene (gas5) with 9 other snoRNAs (U44, U47, U75, U76, U77, U78, U79, U80 and U81)[2]. snoZ18; Z18 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 22 184 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Daub J 110 0 \N 0.67884 -3.41532 1600000 186458 165 80 1 -4.24920 0.71856 2013-10-04 00:27:52 2019-01-04 15:01:52 RF00285 snoZ6 1557 Z6 small nucleolar RNA Moxon SJ Moxon SJ 35.00 35.10 34.40 Z6 belongs to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. Z6 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18 -Z 549862.597050 CM SEQDB 7 52 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ, Daub J 32 0 \N 0.71009 -3.28091 1600000 260774 189 91 1 -3.40430 0.71844 2013-10-04 00:27:56 2019-01-04 15:01:52 RF00286 SCARNA8 1558 Small Cajal body specific RNA 8 Moxon SJ Moxon SJ, INFERNAL 53.00 54.10 52.90 scaRNAs are a specific class of small nuclear RNAs which localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12 [1]. U92 belong to the H/ACA box class of guide RNAs as it has the predicted hairpin-hinge-hairpin-tail structure, conserved H/ACA-box motifs and is found associated with GAR1 [1]. Its is predicted to guide the pseudouridylation of residues U44 in U2 snRNA [1]. This family also includes the mouse H/ACA box snoRNA MBI-57 identified in [2]. U92 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 22 190 0 0 Gene; snRNA; snoRNA; scaRNA; Published; PMID:12032087 143 0 \N 0.55402 -8.06922 1600000 302832 238 131 1 -3.27390 0.71822 2013-10-04 00:29:12 2019-01-04 15:01:52 RF00287 SNORD44 1559 Small nucleolar RNA SNORD44 Moxon SJ Moxon SJ, INFERNAL 40.00 40.70 38.60 U44 belongs to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2]. U44 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 12 60 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Moxon SJ, Daub J 49 0 \N 0.59207 -6.79194 1600000 376631 140 61 1 -3.67370 0.71891 2013-10-04 00:29:16 2021-07-05 13:43:57 RF00288 snoZ30 1560 Z30 small nucleolar RNA Moxon SJ Moxon SJ, INFERNAL 50.00 52.60 43.80 Z30 belongs to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. Z30 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 127 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 112 0 \N 0.61415 -4.05438 1600000 204103 192 97 1 -3.27650 0.71840 2013-10-04 00:29:27 2019-01-04 15:01:52 RF00289 SNORND104 1561 Small nucleolar RNA SNORD104 Moxon SJ, Daub J Moxon SJ, INFERNAL 40.00 42.70 36.90 The members of this family belong to the C/D class of snoRNAs which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. U104 (SNORD104) also known as Z12 is predicted to guide the 2'O-ribose methylation of C1327 of 28S rRNA [3]. snoZ12; Z12 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.43 -Z 549862.597050 CM SEQDB 18 68 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ, Daub J 62 0 \N 0.71245 -4.80025 1600000 379449 154 70 1 -3.55620 0.71876 2013-10-04 00:29:29 2021-07-05 13:43:57 RF00290 BaMV_CRE 1562 Bamboo mosaic potexvirus (BaMV) cis-regulatory element Moxon SJ PMID:14585345 100.00 181.30 35.70 This family represents a cloverleaf-like cis-regulatory element found in the 3' UTR of the bamboo mosaic potexvirus. This family is thought to play an important role in the initiation of minus-strand RNA synthesis and may also be involved in the regulation of viral replication [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18 -Z 549862.597050 CM SEQDB 5 1 0 0 Cis-reg; Published; PMID:14585345 1 0 \N 0.62779 -6.35309 1600000 277695 257 140 1 -3.37150 0.71798 2013-10-04 00:29:32 2019-01-04 15:01:52 RF00291 snoR639 1563 Small nucleolar RNA snoR639/H1 Moxon SJ Moxon SJ, INFERNAL 42.00 43.50 41.50 snoR639 or snoH1 belongs to the H/ACA class of snoRNAs which are thought to guide the sites of modification of uridines to pseudouridines. snoH1 is found in an intron of the mfl gene in Drosophila [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21 -Z 549862.597050 CM SEQDB 9 38 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold_manual; Daub J 36 0 \N 0.58032 -7.76235 1600000 213817 252 140 1 -3.33050 0.71805 2013-10-04 00:29:40 2019-01-04 15:01:52 RF00292 snoTBR5 1564 Small nucleolar RNA TBR5 Moxon SJ Moxon SJ, INFERNAL 44.00 44.40 36.00 TBR5 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 78 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ, Daub J 20 0 \N 0.69073 -4.77670 1600000 290541 190 94 1 -2.92000 0.71836 2013-10-04 00:29:45 2019-01-04 15:01:52 RF00293 snoM1 1565 Small nucleolar RNA snoM1 Moxon SJ Moxon SJ, INFERNAL 40.00 41.20 37.20 M1 is a member of the H/ACA class of snoRNAs which are thought to guide the sites of modification of uridines to pseudouridines. snoM1 seems to be found exclusively in Drosophila species. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 3 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; ILM: Moxon SJ 8 0 \N 0.57636 -3.29617 1600000 244561 199 99 1 -3.56450 0.71841 2013-10-04 00:29:47 2019-01-04 15:01:52 RF00294 snoTBR17 1566 Small nucleolar RNA TBR17 Moxon SJ Moxon SJ 40.00 72.30 30.40 TBR17 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.79 -Z 549862.597050 CM SEQDB 6 69 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 16 0 \N 0.65481 -6.93584 1600000 302495 228 119 1 -3.63410 0.71800 2013-10-04 00:29:55 2019-01-04 15:01:52 RF00295 snoTBR7 1567 Small nucleolar RNA TBR7 Moxon SJ Moxon SJ 45.00 47.60 34.50 TBR7 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.87 -Z 549862.597050 CM SEQDB 10 80 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Daub J 21 0 \N 0.55544 -8.75573 1600000 378056 161 76 1 -3.36350 0.71863 2013-10-04 00:29:57 2019-01-04 15:01:52 RF00296 snoR16 1568 Small nucleolar RNA R16 Moxon SJ Moxon SJ 45.00 45.90 42.90 snoR16 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 18 305 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ, Daub J 75 0 \N 0.55096 -3.56882 1600000 213247 174 86 1 -2.96560 0.71856 2013-10-04 00:30:00 2019-01-04 15:01:52 RF00300 snoZ221_snoR21b 1569 Small nucleolar RNA Z221/R21b Moxon SJ, Wilkison A, Daub J Moxon SJ, Wilkison A, Daub J 44.00 44.00 43.30 Z221 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. snoZ221 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 12 237 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 77 0 \N 0.63944 -4.41449 1600000 262504 307 91 1 -3.67940 0.71840 2013-10-04 00:30:03 2019-01-04 15:01:52 RF00301 snoZ256 1570 Small nucleolar RNA Z256 Moxon SJ Moxon SJ 50.00 54.60 43.30 Z256 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 62 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Moxon SJ 10 0 \N 0.65825 -3.65457 1600000 233363 191 94 1 -3.62470 0.71829 2013-10-04 00:30:07 2019-01-04 15:01:52 RF00302 SNORA65 1571 Small nucleolar RNA SNORA65 Moxon SJ Moxon SJ 70.00 70.10 69.80 U65 belongs to the H/ACA class of snoRNAs which are thought to guide the sites of modification of uridines to pseudouridines [1,2]. U65 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.00 -Z 549862.597050 CM SEQDB 14 184 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 102 0 \N 0.52156 -7.72571 1600000 223830 229 127 1 -3.13190 0.71842 2013-10-04 00:30:10 2019-01-04 15:01:52 RF00303 snoR86 1252 Small nucleolar RNA snoR86 Moxon SJ Moxon SJ, INFERNAL 40.00 40.20 37.00 snoR86 is a member of the H/ACA class of small nucleolar RNAs (snoRNAs) which act as guides in the the modification of uridines to pseudouridines [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 278 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD; Moxon SJ 74 0 \N 0.52996 -8.02309 1600000 305834 230 123 1 -3.35990 0.71828 2013-02-01 11:57:30 2019-01-04 15:01:52 RF00304 snoZ279_R105_R108 1572 Small nucleolar RNA Z279/snoR105/snoR108 Moxon SJ, Daub J Moxon SJ, Daub J, INFERNAL 54.00 55.30 49.50 This family includes the plant snoRNAs known as Z279, snoR105 and snoR108. All three are members of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. snoZ279 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 276 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 76 0 \N 0.60692 -4.34335 1600000 232458 200 106 1 -3.24700 0.71859 2013-10-04 00:30:21 2021-07-05 13:43:57 RF00305 snoZ248 1573 Small nucleolar RNA Z248 Moxon SJ Moxon SJ 120.00 150.80 115.10 Z248 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 16 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 10 0 \N 0.57641 -5.45784 1600000 226020 253 137 1 -2.95650 0.71801 2013-10-04 00:30:24 2019-01-04 15:01:52 RF00306 snoZ178 1574 Small nucleolar RNA Z178 Moxon SJ Moxon SJ 100.00 195.30 45.90 Z178 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 8 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 9 0 \N 0.60165 -6.44116 1600000 339318 273 152 1 -2.60830 0.71801 2013-10-04 00:30:26 2019-01-04 15:01:52 RF00307 snoR98 1575 Small nucleolar RNA snoR98 Moxon SJ Moxon SJ 44.00 44.90 43.90 snoR98 belongs to the H/ACA class of snoRNAs which are thought to guide the sites of modification of uridines to pseudouridines [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 88 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; Griffiths-Jones S 31 0 \N 0.46326 -8.30610 1600000 371195 222 117 1 -3.19220 0.71826 2013-10-04 00:30:37 2019-01-04 15:01:52 RF00309 snosnR60_Z15 1576 Small nucleolar RNA snR60/Z15/Z230/Z193/J17 Moxon SJ Griffiths-Jones S 41.00 41.00 40.90 The members of this family belong to the C/D class of snoRNAs which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. The family includes the yeast snoRNA snR60 (also known as Z15) and the corresponding human guide snoRNA U80 (SNORD80) [2,3]. This family also includes the Arabidopsis orthologue of Z15 and a large number of related plant snoRNAs Z230, Z193 and J17 [4,5]. snoZ193 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 23 1026 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Griffiths-Jones S 633 0 \N 0.51992 -5.10385 1600000 234124 193 98 1 -3.22540 0.71833 2013-10-04 00:30:40 2021-07-05 13:43:57 RF00310 snoZ165 1577 Small nucleolar RNA Z165 Moxon SJ Moxon SJ 90.00 103.20 36.90 Z165 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 14 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Moxon SJ 10 0 \N 0.58808 -3.76584 1600000 232950 190 92 1 -3.68240 0.71834 2013-10-04 00:30:44 2019-01-04 15:01:52 RF00311 snoZ188 1253 Small nucleolar RNA Z188 Moxon SJ Moxon SJ 50.00 51.30 41.50 Z188 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 21 79 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 19 0 \N 0.58954 -6.15443 1600000 300309 226 123 1 -3.00940 0.71806 2013-02-01 11:57:31 2019-01-04 15:01:52 RF00312 snoZ206 1578 Small nucleolar RNA Z206 Moxon SJ Moxon SJ, INFERNAL 50.00 58.10 39.30 Z206 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 43 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Daub J 16 0 \N 0.53727 -7.03993 1600000 266986 242 129 1 -2.83480 0.71801 2013-10-04 00:30:49 2019-01-04 15:01:52 RF00313 snoZ173 1579 Small nucleolar RNA Z173 Moxon SJ Moxon SJ 70.00 73.10 65.00 Z173 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21 -Z 549862.597050 CM SEQDB 4 17 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 11 0 \N 0.57055 -4.77277 1600000 236359 212 107 1 -2.95660 0.71819 2013-10-04 00:30:51 2019-01-04 15:01:52 RF00314 snoZ182 1580 Small nucleolar RNA Z182 Moxon SJ Moxon SJ 80.00 86.20 39.80 Z182 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 21 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Moxon SJ 11 0 \N 0.62123 -2.73232 1600000 202163 189 92 1 -3.48560 0.71840 2013-10-04 00:31:03 2019-01-04 15:01:52 RF00315 snoJ33 1581 Small nucleolar RNA J33 Moxon SJ Moxon SJ, INFERNAL 45.00 45.40 44.80 J33 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 262 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Moxon SJ 73 0 \N 0.63393 -4.04911 1600000 252197 171 81 1 -3.64240 0.71860 2013-10-04 00:31:05 2019-01-04 15:01:52 RF00316 snoR43 1582 Small nucleolar RNA R43 Moxon SJ Moxon SJ 50.00 56.10 43.20 R43 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 16 11 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; ILM; Moxon SJ 1 0 \N 0.55934 -4.55752 1600000 258938 160 73 1 -3.30070 0.71875 2013-10-04 00:31:15 2019-01-04 15:01:52 RF00317 snoZ163 2390 Small nucleolar RNA Z163/Z177 family Moxon SJ, Daub J Griffiths-Jones S 39.00 39.30 37.70 This family of plant snoRNAs belong to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family includes rice snoRNA Z163 and Z177. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 45 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Griffiths-Jones S 11 0 \N 0.68095 -3.36693 1600000 259298 186 90 1 -3.18500 0.71847 2013-10-04 00:31:19 2019-01-04 15:01:52 RF00318 snoZ175 1584 Small nucleolar RNA Z175 Moxon SJ Moxon SJ 43.00 49.40 39.50 Z175 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 13 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 9 0 \N 0.50982 -4.98640 1600000 234217 174 81 1 -3.45230 0.71862 2013-10-04 00:31:21 2019-01-04 15:01:52 RF00319 SNORA23 1585 Small nucleolar RNA SNORA23 Moxon SJ Moxon SJ 45.00 46.50 43.80 The members of this family belong to the H/ACA class of snoRNAs which are thought to guide the sites of modification of uridines to pseudouridines [1]. This family includes human snoRNA ACA23 (SNORA23) and mouse snoMBI-1 [2,3]. ACA23 is predicted to guide the pseudouridylation of residue U3737 and U4331 of 28S rRNA [4]. snoMBI-1 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.11 -Z 549862.597050 CM SEQDB 9 177 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Griffiths-Jones S 109 0 \N 0.56220 -8.83118 1600000 320482 307 184 1 -3.68560 0.71397 2013-10-04 00:31:23 2019-01-04 15:01:52 RF00320 snoZ185 1586 Small nucleolar RNA Z185 Moxon SJ Moxon SJ 50.00 57.40 39.60 Z185 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 26 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 11 0 \N 0.70342 -2.21043 1600000 219833 181 86 1 -3.66510 0.71848 2013-10-04 00:31:26 2019-01-04 15:01:52 RF00321 snoZ247 1587 Small nucleolar RNA Z247 Moxon SJ Moxon SJ 38.00 38.00 37.90 Z247 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 2804 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 58 0 \N 0.56442 -6.78180 1600000 257180 249 139 1 -3.27130 0.71791 2013-10-04 00:31:32 2019-01-04 15:01:52 RF00322 SNORA31 1588 Small nucleolar RNA SNORA31 Moxon SJ, Daub J Griffiths-Jones S 40.00 40.00 39.90 ACA31 (SNORA31) belongs to the H/ACA class of snoRNAs which are thought to guide the sites of modification of uridines to pseudouridines [1]. ACA31 is predicted to guide the pseudouridylation of U3713 in 28S rRNA and U218 in 18S rRNA [4]. This family includes the mouse homologue snoMBI-161 [3]. snoMBI-161 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20 -Z 549862.597050 CM SEQDB 5 444 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 106 0 \N 0.53348 -7.33660 1600000 252576 240 130 1 -3.04380 0.71850 2013-10-04 00:31:37 2019-01-04 15:01:52 RF00323 snoR79 1589 Small nucleolar RNA R79 Moxon SJ Moxon SJ 80.00 93.10 55.40 R79 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 4 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 2 0 \N 0.63713 -3.99876 1600000 304334 152 65 1 -3.65910 0.71885 2013-10-04 00:31:49 2019-01-04 15:01:52 RF00324 snoMBII-202 1590 Small nucleolar RNA MBII-202 Moxon SJ Moxon SJ 40.00 40.30 39.10 MBII-202 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 30 170 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 99 0 \N 0.63428 -4.26898 1600000 213622 171 84 1 -4.10650 0.71851 2013-10-04 00:31:52 2019-01-04 15:01:52 RF00325 SNORD53_SNORD92 1591 Small nucleolar RNA SNORD53/SNORD92 Moxon SJ, Daub J Moxon SJ, INFERNAL 46.00 46.50 45.80 U53 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1].This family includes mouse MBII-316 identified in [3]. The human orthologue HBII-316 (SNORD92) is predicted to guide the 2'O-ribose methylation of 28S rRNA A3846 [4]. SNORD53; U53 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.47 -Z 549862.597050 CM SEQDB 37 396 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Moxon SJ 127 0 \N 0.60450 -4.80277 1600000 286655 163 78 1 -3.61640 0.71862 2013-10-04 00:31:59 2019-01-04 15:01:52 RF00326 snoZ155 1592 Small nucleolar RNA Z155 Moxon SJ Griffiths-Jones S 43.00 43.20 42.10 Z155 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 150 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Griffiths-Jones S 70 0 \N 0.51758 -4.04912 1600000 231850 168 81 1 -3.10930 0.71860 2013-10-04 00:32:04 2019-01-04 15:01:52 RF00327 snoZ194 1593 Small nucleolar RNA Z194 Moxon SJ Moxon SJ 50.00 59.30 39.70 Z194 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 5 27 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 16 0 \N 0.56899 -3.04892 1600000 212269 213 108 1 -3.22350 0.71837 2013-10-04 00:32:06 2019-01-04 15:01:52 RF00328 snoZ161_228 2391 Small nucleolar RNA Z161/Z228 Moxon SJ, Wilkinson AC Moxon SJ 45.00 47.60 43.40 Z161 and Z228 are members of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2]. snoZ161 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 11 219 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 70 0 \N 0.60477 -3.45548 1600000 234756 181 93 1 -3.23710 0.71840 2013-10-04 00:32:13 2019-01-04 15:01:52 RF00329 snoZ162 1595 Small nucleolar RNA Z162 Moxon SJ Moxon SJ 45.00 46.30 44.20 Z162 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.28 -Z 549862.597050 CM SEQDB 9 60 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 33 0 \N 0.60011 -3.60249 1600000 178696 182 88 1 -3.39870 0.71867 2013-10-04 00:32:30 2019-01-04 15:01:52 RF00330 snoZ43 1596 Small nucleolar RNA Z43 Moxon SJ Moxon SJ, INFERNAL 43.00 44.50 42.30 Z43 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 322 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 81 0 \N 0.63618 -3.51018 1600000 222759 199 100 1 -3.27330 0.71836 2013-10-04 00:32:32 2019-01-04 15:01:52 RF00331 snoZ169 1597 Small nucleolar RNA Z169 Moxon SJ Moxon SJ 55.00 59.30 38.70 Z169 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.60 -Z 549862.597050 CM SEQDB 3 14 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 9 0 \N 0.55175 -4.44952 1600000 242104 156 69 1 -3.49370 0.71880 2013-10-04 00:32:35 2019-01-04 15:01:52 RF00332 snoZ266 1598 Small nucleolar RNA Z266 Moxon SJ Moxon SJ, Daub J 43.00 44.20 42.10 Z266 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 272 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 73 0 \N 0.58959 -3.65348 1600000 222325 203 90 1 -3.42160 0.71845 2013-10-04 00:32:37 2019-01-04 15:01:52 RF00333 snoZ157 1599 Small nucleolar RNA Z157/R69/R10 Moxon SJ Moxon SJ 55.00 55.50 54.10 Z157, R69 and R10 are members of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 295 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 80 0 \N 0.64949 -2.40723 1600000 197026 195 100 1 -3.32560 0.71843 2013-10-04 00:32:39 2019-01-04 15:01:52 RF00334 SNORA3 1600 Small nucleolar RNA SNORA3/SNORA45 family Moxon SJ, Daub J INFERNAL 51.00 51.20 50.70 The members of this family belong to the H/ACA class of snoRNAs which are thought to guide the sites of modification of uridines to pseudouridines [1]. This family includes mouse snoMBI-28 and human homologues ACA3 (SNORA3) and ACA3-2 (SNORA45). Both ACA3 and ACA3-2 share the same host gene [3]. MBI-28, ACA3 and ACA3-2 are all predicted to guide the pseudouridylation of residues in 28S rRNA [1,2,3]. snoMBI-28 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 6 390 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 108 0 \N 0.55107 -7.48725 1600000 206146 239 131 1 -2.79490 0.71846 2013-10-04 00:32:41 2019-01-04 15:01:52 RF00335 snoZ13_snr52 2392 Small nucleolar RNA Z13/snr52 Moxon SJ Moxon SJ, INFERNAL 47.00 51.00 41.80 Z13 or snr52 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.72 -Z 549862.597050 CM SEQDB 42 545 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 378 0 \N 0.60058 -3.52105 1600000 224787 261 101 1 -3.39130 0.71833 2013-10-04 00:32:46 2019-01-04 15:01:52 RF00336 snoJ26 1602 Small nucleolar RNA J26 Moxon SJ Moxon SJ 50.00 62.00 43.00 J26 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 41 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; ILM; Moxon SJ, Daub J 10 0 \N 0.50102 -7.15726 1600000 270841 268 147 1 -2.94060 0.71795 2013-10-04 00:32:54 2019-01-04 15:01:52 RF00337 snoZ112 1603 Small nucleolar RNA Z112 Moxon SJ Moxon SJ, INFERNAL 40.00 40.00 38.60 Z112 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19 -Z 549862.597050 CM SEQDB 6 187 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 36 0 \N 0.53362 -9.04911 1600000 349723 313 184 1 -3.52810 0.71383 2013-10-04 00:32:57 2019-01-04 15:01:52 RF00338 snoR53 1604 Small nucleolar RNA snR53 Moxon SJ Moxon SJ, INFERNAL 70.00 97.20 39.60 snR53 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2]. snR53 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 9 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Daub J 12 0 \N 0.46984 -4.76875 1600000 217229 189 91 1 -3.17690 0.71848 2013-10-04 00:33:22 2019-01-04 15:01:52 RF00339 snoR60 1605 Small nucleolar RNA snoR60 Moxon SJ Moxon SJ, INFERNAL 40.00 41.00 39.20 snoR60 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 366 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ; Daub J 77 0 \N 0.63646 -3.79659 1600000 243773 158 72 1 -3.68780 0.71875 2013-10-04 00:33:23 2019-01-04 15:01:52 RF00340 SNORA36 1606 Small nucleolar RNA SNORA36 family Moxon SJ, Daub J Moxon SJ 43.00 43.50 41.90 ACA36 (SNORA36A) belongs to the H/ACA class of snoRNAs which are predicted to guide the sites of modification of uridines to pseudouridines [1]. ACA36 is predicted to guide the pseudouridylation of residue U105 and U1244 of 18S rRNA [4]. This family includes the mouse homologue snoMBI-87 [3] and also identifies the human paralog ACA36B (SNORA36B) [2]. snoMBI-87 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 276 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD 100 0 \N 0.52253 -7.62034 1600000 308489 243 132 1 -2.99040 0.71827 2013-10-04 00:33:27 2019-01-04 15:01:52 RF00341 snoZ39 1607 Small nucleolar RNA Z39 Moxon SJ Moxon SJ 39.00 39.90 36.80 Z39 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 159 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 96 0 \N 0.60847 -3.44768 1600000 254761 146 63 1 -3.35640 0.71918 2013-10-04 00:33:30 2019-01-04 15:01:52 RF00342 snoZ40 1608 Small nucleolar RNA Z40 Moxon SJ Moxon SJ 50.00 51.70 44.70 Z40 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 119 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ, Daub J 98 0 \N 0.64146 -3.26255 1600000 232881 163 73 1 -3.69140 0.71868 2013-10-04 00:33:38 2019-01-04 15:01:52 RF00343 snoZ122 1609 Small nucleolar RNA Z122 Moxon SJ Moxon SJ, INFERNAL 38.00 39.30 37.30 Z122 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 23 278 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 102 0 \N 0.47863 -5.14828 1600000 248487 218 94 1 -2.65500 0.71844 2013-10-04 00:33:40 2019-01-04 15:01:52 RF00344 snoZ267 1610 Small nucleolar RNA Z267 Moxon SJ Moxon SJ 43.00 43.00 42.20 Z267 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 176 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 72 0 \N 0.60746 -3.75103 1600000 225315 161 73 1 -3.53160 0.71881 2013-10-04 00:33:43 2019-01-04 15:01:52 RF00345 snoR1 1611 Small nucleolar RNA snoR1 Moxon SJ, Wilkinson AC Moxon SJ 49.00 49.80 47.80 snoR1 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 232 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 83 0 \N 0.61808 -5.50956 1600000 290718 197 93 1 -3.57170 0.71837 2013-10-04 00:33:46 2021-07-05 13:43:57 RF00348 snoR9_plant 1360 Small nucleolar RNA snoR9 Moxon SJ Moxon SJ 43.00 44.60 40.70 snoR9 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2]. This family is not related to Rfam:RF00065. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 7 108 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ, Daub J 2 0 \N 0.51508 -5.81898 1600000 282724 239 129 1 -2.83250 0.71789 2013-10-04 00:33:49 2019-01-04 15:01:52 RF00349 snoR11 2393 Small nucleolar RNA R11/Z151 Moxon SJ Moxon SJ 50.00 52.00 43.90 snoR11/Z151 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 283 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 74 0 \N 0.58112 -3.27941 1600000 231780 186 90 1 -3.31620 0.71847 2013-10-04 00:34:18 2019-01-04 15:01:52 RF00350 snoZ152 1613 Small nucleolar RNA Z152/R70/R12/ Moxon SJ Moxon SJ, INFERNAL 50.00 51.90 43.30 Z152 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2]. This family also contains snos R70 and R12 from Arabidopsis thaliana. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 222 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 74 0 \N 0.57180 -4.71089 1600000 268116 246 109 1 -2.90250 0.71818 2013-10-04 00:34:23 2019-01-04 15:01:52 RF00351 snoR20 1614 Small nucleolar RNA R20 Moxon SJ Moxon SJ, INFERNAL 43.00 43.20 40.20 snoR20 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33 -Z 549862.597050 CM SEQDB 4 53 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ, Daub J 9 0 \N 0.46698 -5.68230 1600000 255158 189 90 1 -2.83840 0.71839 2013-10-04 00:34:26 2019-01-04 15:01:52 RF00352 snoR21 1615 Small nucleolar RNA R21 Moxon SJ Moxon SJ, INFERNAL 45.00 45.20 44.20 snoR21 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33 -Z 549862.597050 CM SEQDB 6 140 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 46 0 \N 0.47850 -4.81862 1600000 227819 172 82 1 -3.36980 0.71865 2013-10-04 00:34:27 2019-01-04 15:01:52 RF00353 snoR31_Z110_Z27 1616 Small nucleolar RNA snoR31/Z110/Z27 Moxon SJ Moxon SJ 45.00 45.30 43.90 This family contains several related snoRNAs including R31, Z27 and Z110. Family members belong to the C/D class of snoRNAs which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2,3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 230 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ, Daub J 67 0 \N 0.49593 -3.49187 1600000 187417 188 97 1 -3.12670 0.71836 2013-10-04 00:34:34 2019-01-04 15:01:52 RF00355 snoR28 1617 Small nucleolar RNA snoR28 Moxon SJ Moxon SJ, INFERNAL 45.00 48.00 39.30 R28 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 109 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ, Daub J 73 0 \N 0.57781 -4.65736 1600000 275411 166 78 1 -3.64300 0.71866 2013-10-04 00:34:36 2019-01-04 15:01:52 RF00356 snoR32_R81 2394 Small nucleolar RNA R32/R81/Z41 Moxon SJ Moxon SJ 45.00 46.40 40.10 This family contains the related snoRNAs R32, R81 and Z41 which are members of the C/D class of snoRNA containing the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 81 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ, Daub J 44 0 \N 0.48339 -4.25023 1600000 219974 206 98 1 -2.95540 0.71838 2013-10-04 00:34:38 2019-01-04 15:01:52 RF00357 snoR44_J54 2395 Small nucleolar RNA R44/J54/Z268 family Moxon SJ Moxon SJ 48.00 48.70 46.60 R44, J54 and Z268 are members of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 29 435 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 78 0 \N 0.57856 -4.99586 1600000 287473 194 97 1 -3.05240 0.71837 2013-10-04 00:34:40 2021-07-05 13:43:57 RF00358 snoZ101 1620 Small nucleolar RNA Z101 Moxon SJ Moxon SJ, INFERNAL 44.00 44.80 41.40 Z101 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 351 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ, Daub J 79 0 \N 0.59261 -2.86410 1600000 185709 190 96 1 -3.44760 0.71848 2013-10-04 00:34:44 2019-01-04 15:01:52 RF00359 snoZ102_R77 1621 Small nucleolar RNA Z102/R77 Moxon SJ Moxon SJ, INFERNAL 40.00 41.30 39.60 Z102 and R77 and are members of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2,3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 435 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 77 0 \N 0.53365 -3.40143 1600000 231163 181 88 1 -3.26630 0.71847 2013-10-04 00:34:47 2019-01-04 15:01:52 RF00360 snoZ107_R87 2509 Small nucleolar RNA Z107/R87 Moxon SJ Moxon SJ 50.00 50.20 49.80 Z107 and R87 are members of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNA \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19 -Z 549862.597050 CM SEQDB 9 258 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAfold; Moxon SJ, Daub J, Gardner PP 76 0 \N 0.61981 -5.21848 1600000 279426 217 117 1 -3.26060 0.71808 2013-10-04 00:34:49 2019-01-04 15:01:52 RF00361 snoZ119 1623 Small nucleolar RNA Z119 Moxon SJ Moxon SJ 70.00 77.20 39.70 Z119 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 62 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 20 0 \N 0.59799 -3.14534 1600000 216335 198 98 1 -3.87010 0.71857 2013-10-04 00:35:30 2019-01-04 15:01:52 RF00362 Pospi_RY 1624 Pospiviroid RY motif stem loop Moxon SJ PMID:14500815 40.00 42.50 37.10 This family consists of several Pospiviroid sequences which are related to the potato spindle tuber viroid (PSTVd) RY motif stem-loop. The RY motif (5'-ACAGG and CUCUUCC-5') in PSTVd, is thought to bind with the tomato protein Virp1. The exact function of this motif and the significance of Virp1 binding is unknown. It is however thought that RY motifs are essential for establishing a viroid infection [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 0 0 0 Cis-reg; Published; PMID:14500815 4 0 \N 0.58988 -3.72587 1600000 173303 170 79 1 -3.54590 0.71894 2013-10-04 00:35:32 2019-01-04 15:01:52 RF00363 mir-BART1 1625 mir-BART1 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 97.70 44.70 This family represents the mir-BART1 microRNA precursor found in Human herpesvirus 4 (Epstein-Barr virus) and Cercopithicine herpesvirus 15. mir-BART1 is found in all stages of infection but expression is significantly elevated in the lytic stage. In Epstein-Barr virus mir-BART1 is found in the intronic regions of the BART (Bam HI-A region rightward transcript) gene whose function is unknown. The mature sequence is excised from the 5' arm of the hairpin [1]. Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.67032 -3.02688 1600000 214676 160 70 1 -3.34140 0.72466 2013-10-04 00:35:36 2021-11-19 10:36:03 RF00364 mir-BART2 1626 mir-BART2 microRNA precursor family Moxon SJ PMID:15118162 60.00 62.80 38.50 This family represents the mir-BART2 microRNA precursor found in Human herpesvirus 4 (Epstein-Barr virus) and Cercopithicine herpesvirus 15. mir-BART2 is expressed in all stages of infection but expression is significantly elevated in the lytic stage. In Epstein-Barr virus mir-BART2 is found in the intronic regions of the BART (Bam HI-A region rightward transcript) gene whose function is unknown. mir-BART2 is thought to target the virally encoded polymerase BALF5 for degradation. The mature sequence is excised from the 5' arm of the hairpin [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 3 0 0 Gene; miRNA; Published; PMID:15118162 1 0 \N 0.64206 -1.52194 1600000 226584 146 62 1 -4.15060 0.71922 2013-10-04 00:35:39 2019-01-04 15:01:52 RF00365 mir-BHRF1-1 1627 mir-BHRF1-1 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 95.90 41.10 This family represents the mir-BHRF1-1 microRNA precursor found in Human herpesvirus 4 (Epstein-Barr virus) and Cercopithicine herpesvirus 15. In Epstein-Barr virus mir-BHRF1-1 is found in the 5' UTR of the BHRF1 (Bam HI fragment H rightward open reading frame 1) gene which is known to encode a distant Bcl-2 homologue. The mature sequence is excised from the 5' arm of the hairpin [1]. Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.64091 -2.88270 1600000 231628 155 66 1 -3.17080 0.72439 2013-10-04 00:35:41 2021-11-19 10:36:03 RF00366 mir-BHRF1-2 1628 mir-BHRF1-2 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 87.00 87.60 56.60 This family represents the mir-BHRF1-2 microRNA precursor found in human herpesvirus 4 (Epstein-Barr virus), cercopithicine herpesvirus 15 and herpesvirus papio. In Epstein-Barr virus mir-BHRF1-2 is found in the 3' UTR of the BHRF1 (Bam HI fragment H rightward open reading frame 1) gene which is known to encode a distant Bcl-2 homologue. The mature sequence is excised from the 3' arm of the hairpin [1]. Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.60012 -3.57494 1600000 290348 153 65 1 -3.27680 0.72950 2013-10-04 00:35:47 2021-11-19 10:36:03 RF00367 mir-BHRF1-3 1629 mir-BHRF1-3 microRNA precursor family Moxon SJ PMID:15118162 80.00 100.10 39.60 This family represents the mir-BHRF1-3 microRNA precursor found in Human herpesvirus 4 (Epstein-Barr virus). In Epstein-Barr virus mir-BHRF1-3 is found in the 3' UTR of the BHRF1 (Bam HI fragment H rightward open reading frame 1) gene which is known to encode a distant Bcl-2 homologue. The mature sequence is excised from the 5' arm of the hairpin [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 3 0 0 Gene; miRNA; Published; PMID:15118162 1 0 \N 0.68725 -2.51453 1600000 255882 152 65 1 -3.51280 0.71922 2013-10-04 00:35:53 2021-11-19 10:36:03 RF00368 sroB 1630 sroB RNA Barquist LE Storz, G; LocARNA; Infernal 44.00 44.80 43.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 70 0 0 Gene; sRNA; Predicted; LocARNA 79 0 \N 0.46286 -5.11492 1600000 272661 166 83 1 -3.59230 0.71868 2013-10-04 00:35:55 2019-01-04 15:01:52 RF00369 sroC 1631 sroC RNA Moxon SJ PMID:14602901 45.00 46.90 42.90 This family consists of a number of bacterial sroC RNA genes of around 160 bases in length. sroC is found in several Enterobacterial species [1]. It base-pairs with GcvB. This interaction triggers the degradation of GcvB by RNase E, alleviating the GcvB-mediated mRNA repression of other amino acid-related transport and metabolic genes [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 56 0 0 Gene; sRNA; Predicted; PFOLD 62 0 \N 0.56350 -5.77845 1600000 288117 280 163 1 -3.34630 0.71672 2013-10-04 00:35:58 2021-12-03 12:41:14 RF00370 sroD 1632 sroD RNA Moxon SJ PMID:14602901 50.00 51.40 44.40 This family consists of a number of bacterial sroD RNA genes of around 90 bases in length. sroD is found in several Enterobacterial species but its function is unknown [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 38 0 0 Gene; sRNA; Predicted; PFOLD 40 0 \N 0.56163 -7.42654 1600000 328807 181 86 1 -3.14400 0.71865 2013-10-04 00:36:04 2019-01-04 15:01:52 RF00371 sroE 1633 sroE RNA Moxon SJ PMID:14602901 51.00 52.10 49.90 This family consists of a number of bacterial sroE RNA genes of around 90 bases in length. sroE is found in several Enterobacterial species but its function is unknown [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 34 0 0 Gene; sRNA; Predicted; PFOLD 37 0 \N 0.67822 -4.24008 1600000 210811 188 92 1 -3.26610 0.71867 2013-10-04 00:36:08 2019-01-04 15:01:52 RF00372 sroH 1634 sroH RNA Barquist L PMID:14602901, INFERNAL 80.00 88.70 72.90 This family consists of a number of bacterial sroH RNA genes of around 160 bases in length. The function of this family is unknown [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 6 0 0 Gene; sRNA; Predicted; Barquist L 8 0 \N 0.61811 -10.14425 1600000 528031 281 161 1 -2.51520 0.71683 2013-10-04 00:36:11 2019-01-04 15:01:52 RF00373 RNaseP_arch 2441 Archaeal RNase P Griffiths-Jones SR Brown JW, The Ribonuclease P Database, PMID:9847214 84.00 84.20 83.80 Ribonuclease P (RNase P) is a ubiquitous endoribonuclease, found in archaea, bacteria and eukarya as well as chloroplasts and mitochondria. Its best characterised activity is the generation of mature 5'-ends of tRNAs by cleaving the 5'-leader elements of precursor-tRNAs. Cellular RNase Ps are ribonucleoproteins. RNA from bacterial RNase Ps retains its catalytic activity in the absence of the protein subunit, i.e. it is a ribozyme. Isolated eukaryotic and archaeal RNase P RNA has not been shown to retain its catalytic function, but is still essential for the catalytic activity of the holoenzyme. Although the archaeal and eukaryotic holoenzymes have a much greater protein content than the bacterial ones, the RNA cores from all the three lineages are homologous -- helices corresponding to P1, P2, P3, P4, and P10/11 are common to all cellular RNase P RNAs. Yet, there is considerable sequence variation, particularly among the eukaryotic RNAs. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 70 303 0 0 Gene; ribozyme; Published; PMID:9847214 340 0 \N 0.69973 -9.74148 1600000 423094 968 303 1 -4.35440 0.70576 2013-10-04 00:36:13 2021-07-05 13:43:57 RF00374 Gammaretro_CES 1635 Gammaretrovirus core encapsidation signal Moxon SJ, Daub J PMID:15003457 51.00 51.00 50.90 This family represents the Gammaretrovirus (mammalian type C retrovirus) core encapsidation signal and related sequences. The Moloney murine leukaemia virus (MMLV) core encapsidation signal is know to be essential for stable dimerisation and efficient genome packaging during virus assembly [1]. Dimerisation of the viral RNA genomes is proposed to act as an RNA conformational switch which exposes conserved UCUG elements and enables efficient genome encapsidation [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.50 -Z 549862.597050 CM SEQDB 22 143 0 0 Cis-reg; Published; PMID:15003457 19 0 \N 0.50921 -8.73624 1600000 300894 201 101 1 -3.34980 0.71870 2013-10-04 00:36:25 2019-01-04 15:01:52 RF00375 HIV_PBS 1636 HIV primer binding site (PBS) Moxon SJ PMID:14757051 80.00 83.10 63.90 This family consists of several, structured HIV primer binding sites (PBSs). tRNA(3)(Lys) binds to the PBS to initiate reverse transcription [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 130 11 0 0 Cis-reg; Predicted; PFOLD 8 0 \N 0.64335 -3.38771 1600000 246232 198 99 1 -3.05430 0.71844 2013-10-04 00:36:31 2022-05-06 12:10:03 RF00376 HIV_GSL3 1637 HIV gag stem loop 3 (GSL3) Moxon SJ PMID:14757051 42.00 42.00 41.90 This family consists of several HIV gag stem loop 3 (GSL3) sequences. GSL3 is known to direct specific packaging of HIV-1 genomic RNA. Deletion of GSL3 leads to decreases in both viral RNA packaging and dimerisation [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25 -Z 549862.597050 CM SEQDB 72 23 0 0 Cis-reg; Predicted; PFOLD 16 0 \N 0.58943 -3.91234 1600000 252386 172 84 1 -3.28770 0.71860 2013-10-04 00:36:42 2019-01-04 15:01:52 RF00377 snoU6-53 2396 Small nucleolar RNA U6-53/MBII-28 Moxon SJ Moxon SJ, INFERNAL 36.00 36.40 35.80 U6-53 or MBII-28 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. This family possesses sequence complementarity to U6 spliceosomal RNA and is likely to direct its 2'-O-methylation [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.39 -Z 549862.597050 CM SEQDB 25 168 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold_manual; Daub J 103 0 \N 0.63709 -5.20786 1600000 237759 206 110 1 -3.37260 0.71821 2013-10-04 00:37:21 2019-01-04 15:01:52 RF00378 Qrr 1639 Qrr RNA Moxon SJ PMID:15242645 50.00 59.20 42.10 This family represents a set of small RNAs (the Qrr RNAs) that are thought to be involved in the regulation of quorum sensing in Vibrio species. It is believed that these RNAs, guided by a protein, Hfq, can mediate the destabilisation of the quorum-sensing master regulators LuxR/HapR mRNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.99 -Z 549862.597050 CM SEQDB 30 170 0 0 Gene; sRNA; Published; PMID:15242645; Moxon SJ 72 0 \N 0.54241 -6.89765 1600000 278985 203 108 1 -3.44440 0.71844 2013-10-04 00:37:25 2019-01-04 15:01:52 RF00379 ydaO-yuaA 2397 ydaO/yuaA leader Moxon SJ Barrick JE, Breaker RR 38.00 38.00 36.20 This family represents a conserved RNA structure found upstream of the ydaO and yuaA genes in Bacillus subtilis and related genes in other bacteria. The ydaO/yuaA element is thought to act as a genetic "off" switch for the ydaO and yuaA genes in its native state. It is believed that the element may be triggered during osmotic shock leading to activation of ydaO, a predicted amino acid transporter gene, and members of the yuaA-yubG operon which code for KtrA and KtrB K+ transporters [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20 -Z 549862.597050 CM SEQDB 106 3811 0 0 Cis-reg; riboswitch; Predicted; Barrick JE, Breaker RR 1285 0 \N 0.63990 -6.69945 1600000 194495 521 136 1 -3.60170 0.71816 2013-10-04 00:37:28 2019-01-04 15:01:52 RF00380 M-box 1641 M-box riboswitch (ykoK leader) Moxon SJ, Ontiveros-Palacios N Barrick JE, Breaker RR 44.00 44.10 36.90 M-box riboswitch, also know as ykoK leader is described as a metaloregulatory RNA that sense divalent metals and function as a genetic control element of genes related to divalent metal transport in bacteria. It was first reported upstream of the B.subtilis ykoK gene and genes with related functions in other bacteria [1]. The structure of the M-box was first reported in PDB 2QBZ [2], as a structure of three parallel helices, where P3 and P4 helixes form a coaxial stack that folds alongside P2 and P5. Six Mg2+ recognition sites were reported in 2QBZ, while in a second structure report in PDB 3PDR, the authors report another three sites of Mn2+ bound that been predicted from phosphorothioate substitution experiments and six more additional Mn2+ proposed from the analysis of the anomalous density in the sequence [3]. Phylogenetic analysis of the distribution of M-box RNAs across bacterial genomes revealed that M-box riboswitches are most often employed for the regulation of Mg2+ transporter genes [4] ykoK; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 159 913 0 0 Cis-reg; riboswitch; Predicted; Barrick JE, Breaker RR 726 0 \N 0.60556 -7.84028 1600000 349348 312 169 1 -3.65060 0.71579 2013-10-04 00:37:33 2022-10-29 16:55:17 RF00381 Antizyme_FSE 1642 Antizyme RNA frameshifting stimulation element Moxon SJ PMID:15147837 40.00 42.10 39.20 This family represents a structural element which is found in antizyme mRNA and is known to promote frameshifting. Antizyme genes have have two partially overlapping open reading frames, the second, which encodes the functional protein requires +1 translational frameshifting. This frameshift is stimulated by a pseudoknot present 3' of the frameshift site in the antizyme mRNA. The frameshifting efficiency is dependent on the level of polyamines in the cell, when the polyamine concentration is high frameshifting is more likely to occur which leads to an increase in the quantity of functional antizyme produced. The functional antizyme acts to reduce ornithine decarboxylase (ODC) activity which leads to a drop in polyamines present in the cell. Therefore, this family can be thought of as a biosensor for intracellular free polyamines [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21 -Z 549862.597050 CM SEQDB 13 280 0 0 Cis-reg; frameshift_element; Published; PMID:15147837 114 0 \N 0.66203 -4.23694 1600000 362460 137 59 1 -3.38040 0.71923 2013-10-04 00:37:38 2019-01-04 15:01:52 RF00382 DnaX 1643 DnaX ribosomal frameshifting element Moxon SJ PMID:9300054 35.00 35.00 34.90 This family represents a ribosomal frameshifting element found in the mRNA of the dnaX gene in E. coli. The dnaX gene has two encoded products tau and gamma which are produced in a 1:1 ratio. The gamma protein is synthesised due to programmed frameshifting and is shorter than tau. The two products of the dnaX gene are DNA polymerase III subunits [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 76 0 0 Cis-reg; frameshift_element; Published; PMID:9300054 79 0 \N 0.59904 -8.07336 1600000 337282 149 65 1 -3.42340 0.71903 2013-10-04 00:37:54 2019-01-04 15:01:52 RF00383 IS1222_FSE 1644 Insertion sequence IS1222 ribosomal frameshifting element Moxon SJ PMID:15126494 45.00 45.30 39.00 This family represents the insertion sequence IS1222 ribosomal frameshifting element. The element stimulates frameshifting which is known to be required for transposition [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 95 0 0 Cis-reg; frameshift_element; Published; PMID:15126494 51 0 \N 0.55669 -8.31821 1600000 317794 226 118 1 -3.35850 0.71813 2013-10-04 00:37:57 2019-01-04 15:01:52 RF00384 Pox_AX_element 1645 Poxvirus AX element late mRNA cis-regulatory element Moxon SJ PMID:10049834 60.00 62.60 41.80 This family represents a cis-regulatory element present at the 3' ends of poxvirus late mRNAs and is known as the AX element.The AX element is involved in directing the efficient production and orientation-dependent formation of of late RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.52 -Z 549862.597050 CM SEQDB 10 7 0 0 Cis-reg; Published; PMID:10049834 13 0 \N 0.50632 -7.14669 1600000 336633 146 62 1 -3.63690 0.71926 2013-10-04 00:37:59 2019-01-04 15:01:52 RF00385 IBV_D-RNA 1646 Infectious bronchitis virus D-RNA Moxon SJ PMID:11119581 35.00 40.90 34.60 This family represents a cis-regulatory element known as defective RNA or D-RNA. This region is thought to be essential for viral replication and efficient packaging [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22 -Z 549862.597050 CM SEQDB 10 8 0 0 Cis-reg; Published; PMID:11119581 9 0 \N 0.70171 -3.96030 1600000 386392 113 42 1 -3.99790 0.71978 2013-10-04 00:38:01 2019-01-04 15:01:52 RF00386 Entero_5_CRE 1647 Enterovirus 5' cloverleaf cis-acting replication element Moxon SJ PMID:11250909 46.00 46.00 45.80 This family represents a cis-regulatory element found at the 5' end of Enterovirus genomes. The element has a cloverleaf like secondary structure and is known to be a multifunctional cis-acting replication element (CRE), required for the initiation of negative strand RNA synthesis [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 160 2 0 0 Cis-reg; Published; PMID:11250909 87 0 \N 0.68121 -3.37059 1600000 207109 309 90 1 -3.24230 0.71888 2013-10-04 00:38:10 2019-01-04 15:01:52 RF00387 IRES_FGF1 1648 FGF-1 internal ribosome entry site (IRES) Moxon SJ PMID:15314170 38.00 39.10 36.20 This family represents the FGF-1 internal ribosome entry site (IRES). The FGF-1 IRES is present in the 5' UTR of the mRNA and allows cap-independent translation. It is thought that FGF-1 IRES activity is strictly controlled and highly tissue specific [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18 -Z 549862.597050 CM SEQDB 6 34 0 0 Cis-reg; IRES; Published; PMID:15314170 34 0 \N 0.55902 -8.30086 1600000 248588 291 168 1 -3.18200 0.71618 2013-10-04 00:38:13 2019-01-04 15:01:52 RF00388 Anti-Q_RNA 1649 Anti-Q RNA Moxon SJ PMID:14651627 45.00 46.30 35.60 Qa RNA is a cis-regulatory element from Enterococcus faecalis which is known to negatively regulate prgQ transcription via an antisense mechanism [1]. QaRNA cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 6 0 0 Gene; antisense; Published; PMID:14651627 5 0 \N 0.47665 -7.87188 1600000 312793 231 103 1 -3.16270 0.71875 2013-10-04 00:38:18 2019-01-04 15:01:52 RF00389 satBaMV_CRE 1650 Bamboo mosaic virus satellite RNA cis-regulatory element Moxon SJ PMID:12832220 100.00 127.70 24.90 This family represents a cis-regulatory element found in the 5' UTR of bamboo mosaic virus satellite RNA (satBaMV). The family is thought to be essential for efficient replication [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 42 1 0 0 Cis-reg; Published; PMID:12832220 1 0 \N 0.64240 -7.02054 1600000 253961 280 159 1 -3.28570 0.71730 2013-10-04 00:38:24 2019-01-04 15:01:52 RF00390 UPSK 1651 UPSK RNA Moxon SJ PMID:9223489, INFERNAL 38.00 38.60 37.10 This family represents a pseudoknot structure from turnip yellow mosaic virus which is thought to be needed for efficient transcription as disruption of the pseudoknot structure gives rise to a 50% drop in transcription efficiency [1]. This family acts in conjunction with Rfam:RF00233 to enhance translation [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 --mxsize 128 CM SEQDB 6 1 0 0 Cis-reg; Published; PMID:9223489 1 0 \N 0.55034 -8.27878 1600000 710521 87 23 1 -2.92440 0.73793 2013-10-04 00:38:26 2020-04-23 11:31:10 RF00391 RtT 1652 RtT RNA Moxon SJ, Gardner PP PMID:1840671 45.00 45.00 44.90 This family represents a bacterial cis-regulatory element known as RtT RNA. The exact function of RtT is unknown although it is thought that it may be involved in changing the cellular response in relation to amino acid starvation [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 57 507 0 0 Cis-reg; Published; PMID:1840671; Moxon SJ 157 0 \N 0.59237 -5.76937 1600000 253181 230 130 1 -3.36460 0.71829 2013-10-04 00:38:32 2019-01-04 15:01:52 RF00392 SNORA5 1653 Small nucleolar RNA SNORA5 Moxon SJ Moxon SJ 30.00 30.10 29.70 ACA5 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA5 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22 -Z 549862.597050 CM SEQDB 6 413 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAFOLD; Moxon SJ 106 0 \N 0.59160 -7.07534 1600000 224629 242 134 1 -3.16860 0.71824 2013-10-04 00:38:41 2019-01-04 15:01:52 RF00393 SNORA8 1654 Small nucleolar RNA SNORA8 Moxon SJ Moxon SJ 38.00 38.00 37.80 ACA8 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA8 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27 -Z 549862.597050 CM SEQDB 5 289 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAFOLD; Moxon SJ 109 0 \N 0.52411 -7.98940 1600000 291191 254 139 1 -3.16540 0.71823 2013-10-04 00:38:47 2019-01-04 15:01:52 RF00394 SNORA4 1655 Small nucleolar RNA SNORA4 Moxon SJ Moxon SJ 56.00 56.20 55.00 ACA4 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA4 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 95 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD; Moxon SJ 38 0 \N 0.48339 -6.98421 1600000 313578 253 141 1 -3.05600 0.71816 2013-10-04 00:38:53 2019-01-04 15:01:52 RF00396 SNORA13 1254 Small nucleolar RNA SNORA13 Moxon SJ PMID:15199136, INFERNAL 53.00 53.30 52.60 ACA13 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA13 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24 -Z 549862.597050 CM SEQDB 50 171 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; CMfinder 110 0 \N 0.50914 -7.48825 1600000 263062 235 134 1 -3.36440 0.71827 2013-02-01 11:57:33 2021-07-05 13:43:56 RF00397 SNORA14 1656 Small nucleolar RNA SNORA14 Moxon SJ PMID:15199136, INFERNAL 36.00 36.50 35.30 ACA14 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA14 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 18 151 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAFOLD; Moxon SJ 116 0 \N 0.54698 -6.97819 1600000 209380 242 135 1 -3.07780 0.71825 2013-10-04 00:39:30 2019-01-04 15:01:52 RF00398 SNORA15 1657 Small nucleolar RNA SNORA15 Moxon SJ PMID:15199136, INFERNAL 47.00 47.00 46.70 ACA15 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. This family also includes the mouse MBI-79 sequence as described in [2]. snoACA15 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 22 196 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAFOLD; Moxon SJ 111 0 \N 0.53472 -7.31263 1600000 274740 243 137 1 -2.90230 0.71821 2013-10-04 00:39:33 2019-01-04 15:01:52 RF00399 SNORA24 1658 Small nucleolar RNA SNORA24 Moxon SJ PMID:15199136 40.00 41.30 39.70 ACA24 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA24 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25 -Z 549862.597050 CM SEQDB 5 204 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAFOLD; Moxon SJ 84 0 \N 0.53249 -7.58614 1600000 255742 243 131 1 -3.18390 0.71839 2013-10-04 00:39:40 2019-01-04 15:01:52 RF00400 SNORA28 1659 Small nucleolar RNA SNORA28 Moxon SJ PMID:15199136, INFERNAL 65.00 66.90 64.70 ACA28 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA28 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 26 217 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAFOLD 99 0 \N 0.52811 -6.68786 1600000 231888 229 126 1 -3.25190 0.71825 2013-10-04 00:39:43 2019-01-04 15:01:52 RF00401 SNORA20 1660 Small nucleolar RNA SNORA20 Moxon SJ PMID:15199136 60.00 62.00 59.70 ACA20 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA20 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 17 120 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; ILM; Moxon SJ 48 0 \N 0.49786 -6.63717 1600000 216353 236 128 1 -2.97930 0.71835 2013-10-04 00:39:45 2019-01-04 15:01:52 RF00402 SNORA25 1661 Small nucleolar RNA SNORA25 Moxon SJ PMID:15199136, INFERNAL 85.00 85.20 84.70 ACA25 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA25 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 30 266 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAFOLD; Moxon SJ 87 0 \N 0.51324 -7.74877 1600000 331383 231 128 1 -3.30740 0.71825 2013-10-04 00:39:47 2019-01-04 15:01:52 RF00403 SNORA41 1662 Small nucleolar RNA SNORA41 Moxon SJ PMID:15199136, INFERNAL 80.00 85.00 76.60 ACA41 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. The family also includes the mouse sequence MBI-83 described in [2]. snoACA41 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26 -Z 549862.597050 CM SEQDB 31 141 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD; Moxon SJ 99 0 \N 0.49250 -8.26464 1600000 304740 235 133 1 -3.05380 0.71814 2013-10-04 00:39:56 2019-01-04 15:01:52 RF00404 SNORA46 1663 Small nucleolar RNA SNORA46 Moxon SJ Moxon SJ, INFERNAL 80.00 81.20 76.10 ACA46 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA46 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 22 105 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAFOLD; Moxon SJ 92 0 \N 0.50925 -8.24150 1600000 273164 242 135 1 -3.30310 0.71829 2013-10-04 00:40:00 2019-01-04 15:01:52 RF00405 SNORA44 1664 Small nucleolar RNA SNORA44 Moxon SJ Moxon SJ, INFERNAL 55.00 56.20 52.50 ACA44 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. The family also contains the mouse snoRNA sequence MBI-64 described in [2]. snoACA44 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 27 314 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD; Moxon SJ 111 0 \N 0.59507 -6.94769 1600000 210557 236 131 1 -3.06150 0.71821 2013-10-04 00:40:03 2019-01-04 15:01:52 RF00406 SNORA42 1665 Small nucleolar RNA SNORA42/SNORA80 family Moxon SJ, Daub J PMID:1637349 70.00 70.00 69.90 The members of this family belong to the H/ACA class of snoRNAs that guide the sites of modification of uridines to pseudouridines [1]. Human ACA42 (SNORA42) was cloned from HeLa cells by immunoprecipitation with anti-GAR1 antibody [1]. Its is predicted to guide the pseudouridylation of residues U109 and U572 of 18S rRNA [3]. ACA42 shares the same host gene with ACA26, ACA46, ACA50 [1]. This family also includes mammalian snoRNA ACA67 (SNORA80) which was identified by computational screening and its expression in mouse experimentally verified by Northern blot and primer extension analysis [2]. ACA67 is proposed to guide the pseudouridylation of the same 18S rRNA residues as ACA42 [3]. snoACA42 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18 -Z 549862.597050 CM SEQDB 21 422 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 49 0 \N 0.58218 -7.83368 1600000 277855 244 136 1 -3.31490 0.71821 2013-10-04 00:40:09 2019-01-04 15:01:52 RF00407 SNORA50 1666 Small nucleolar RNA SNORA50 Moxon SJ Moxon SJ, INFERNAL 90.00 90.20 89.70 ACA50 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA50 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 120 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold_manual; Daub J 106 0 \N 0.51135 -8.54811 1600000 261610 241 136 1 -3.28180 0.71806 2013-10-04 00:40:18 2021-07-05 13:43:57 RF00408 SNORA1 1667 Small nucleolar RNA SNORA1 Moxon SJ Moxon SJ, INFERNAL 70.00 70.10 69.50 ACA1 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA1 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 29 299 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD; Moxon SJ 103 0 \N 0.51223 -6.88192 1600000 267400 239 135 1 -3.10500 0.71811 2013-10-04 00:40:22 2019-01-04 15:01:52 RF00409 SNORA7 1668 Small nucleolar RNA SNORA7 Moxon SJ Moxon SJ, INFERNAL 100.00 100.00 99.90 ACA7 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. The family also contains the mouse sequence MBI-141 as mentioned in [2]. snoACA7 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18 -Z 549862.597050 CM SEQDB 31 1698 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD; Moxon SJ 61 0 \N 0.58723 -7.38584 1600000 249758 252 140 1 -3.14940 0.71825 2013-10-04 00:40:26 2019-01-04 15:01:52 RF00410 SNORA2 1669 Small nucleolar RNA SNORA2/SNORA34 family Moxon SJ, Daub J Moxon SJ 70.00 70.00 69.90 The members of this family belong to the H/ACA class of snoRNAs which are predicted to guide the sites of modification of uridines to pseudouridines [1]. This family includes human snoRNAs ACA2a (SNORA2A), ACA2b (SNORA2B) and ACA34 (SNORA34). ACA2a and ACA2a are predicted to guide pseudouridylation of U4263 and U4282 in 28S rRNA and ACA34 is predicted to guide the pseudouridylation of residue U4269 and U4282 of 28S rRNA [2]. In humans all three of these snoRNAs share the same host gene [2]. snoACA2 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 18 1217 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD; Moxon SJ 96 0 \N 0.51553 -7.76598 1600000 290634 243 137 1 -3.27660 0.71810 2013-10-04 00:41:06 2019-01-04 15:01:52 RF00411 SNORA9 1670 Small nucleolar RNA SNORA9 Moxon SJ Moxon SJ, INFERNAL 85.00 85.60 84.00 ACA9 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA9 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 36 186 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD; Moxon SJ 74 0 \N 0.58057 -7.51570 1600000 262660 236 133 1 -3.24680 0.71820 2013-10-04 00:41:11 2019-01-04 15:01:52 RF00412 SNORA21 1671 Small nucleolar RNA SNORA21 Moxon SJ Moxon SJ 80.00 80.20 78.60 ACA21 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. This family also contains the mouse sequence MBI-3 as shown in [2]. snoACA21 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 191 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD 78 0 \N 0.56587 -8.24876 1600000 315368 249 136 1 -2.94800 0.71806 2013-10-04 00:41:13 2019-01-04 15:01:52 RF00413 SNORA19 1672 Small nucleolar RNA SNORA19 Moxon SJ Moxon SJ, INFERNAL 80.00 80.80 79.90 ACA19 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. The family also includes the mouse sequence MBI-51 as shown in [2]. snoACA19 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24 -Z 549862.597050 CM SEQDB 34 262 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAFOLD; Moxon SJ 113 0 \N 0.50700 -6.67941 1600000 235158 235 131 1 -3.04600 0.71818 2013-10-04 00:41:16 2019-01-04 15:01:52 RF00414 SNORA22 1673 Small nucleolar RNA SNORA22 Moxon SJ Moxon SJ, INFERNAL 80.00 80.00 79.20 ACA22 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA22 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 31 171 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAFOLD; Moxon SJ 110 0 \N 0.50731 -8.55702 1600000 293173 239 134 1 -3.17940 0.71821 2013-10-04 00:41:28 2019-01-04 15:01:52 RF00415 SNORA30 1674 Small nucleolar RNA SNORA30/SNORA37 family Moxon SJ Moxon SJ 90.00 91.20 89.90 The members of this family belong to the H/ACA class of snoRNAs that guide the sites of modification of uridines to pseudouridines [1]. This family includes human ACA30 (SNORA30), ACA37 (SNORA37) and the mouse homolog MBI-26 [1,2]. Both ACA37 and ACA30 are predicted to guide the pseudouridylation of residue U4643 of 28S rRNA [3]. snoACA30 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 109 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAFOLD; Moxon SJ 38 0 \N 0.54712 -7.69391 1600000 251918 235 129 1 -3.34340 0.71836 2013-10-04 00:41:31 2019-01-04 15:01:52 RF00416 SNORA43 1675 Small nucleolar RNA SNORA43 Moxon SJ Moxon SJ 80.00 80.40 79.60 ACA43 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA43 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 21 120 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAFOLD; Moxon SJ 43 0 \N 0.56522 -7.40167 1600000 216109 245 138 1 -3.53810 0.71812 2013-10-04 00:41:35 2019-01-04 15:01:52 RF00417 SNORA56 1676 Small nucleolar RNA SNORA56 Moxon SJ Moxon SJ, INFERNAL 80.00 92.50 77.60 ACA56 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA56 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 17 34 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold_manual; Daub J 34 0 \N 0.55116 -7.91923 1600000 280939 235 129 1 -3.32540 0.71835 2013-10-04 00:41:39 2019-01-04 15:01:52 RF00418 SNORA58 1677 Small nucleolar RNA SNORA58 Moxon SJ Moxon SJ, INFERNAL 75.00 75.00 73.80 ACA52 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. This family also includes the mouse sequence MBI-12 as reported in [2]. snoACA58 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 124 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD 76 0 \N 0.55541 -7.19106 1600000 246137 245 136 1 -3.03750 0.71828 2013-10-04 00:41:41 2019-01-04 15:01:52 RF00419 SNORA52 1678 Small nucleolar RNA SNORA52 Moxon SJ Moxon SJ, INFERNAL 71.00 71.20 67.40 ACA52 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA52 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18 -Z 549862.597050 CM SEQDB 21 114 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAFOLD; Moxon SJ 94 0 \N 0.56883 -8.24069 1600000 246627 236 134 1 -3.32140 0.71828 2013-10-04 00:41:43 2021-07-05 13:43:57 RF00420 SNORA61 1679 Small nucleolar RNA SNORA61 Moxon SJ Moxon SJ, INFERNAL 74.00 74.00 73.90 ACA61 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA61 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 25 202 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD; Moxon SJ 83 0 \N 0.54611 -7.86108 1600000 267124 234 132 1 -3.39040 0.71819 2013-10-04 00:41:52 2019-01-04 15:01:52 RF00421 SNORA32 1680 Small nucleolar RNA SNORA32 Moxon SJ Moxon SJ 60.00 60.30 59.50 ACA32 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA32 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 181 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAFOLD; Moxon SJ 61 0 \N 0.49413 -7.10581 1600000 308657 227 121 1 -3.09140 0.71837 2013-10-04 00:42:03 2019-01-04 15:01:52 RF00422 SCARNA24 1681 Small Cajal body specific RNA 24 Moxon SJ, Daub J Moxon SJ, INFERNAL 70.00 73.60 68.50 scaRNAs are a specific class of small nuclear RNAs which localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12 [1]. ACA12 belongs to the H/ACA box class of guide RNAs as it has the predicted hairpin-hinge-hairpin-tail structure,the conserved H/ACA-box motifs and is found associated with GAR1 [2]. ACA12 is predicted to guide the pseudouridylation of residue U40 of the spliceosomal U6 snRNA [2]. snoACA12 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 23 166 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAFOLD; Moxon SJ 97 0 \N 0.47843 -8.13539 1600000 297410 239 130 1 -3.05610 0.71824 2013-10-04 00:42:07 2019-01-04 15:01:52 RF00423 SCARNA4 1682 Small Cajal body specific RNA 4 Moxon SJ, Daub J Moxon SJ, INFERNAL 60.00 61.20 57.00 scaRNAs are a specific class of small nuclear RNAs which localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12 [1]. ACA26 belongs to the H/ACA box class of guide RNAs as it has the predicted hairpin-hinge-hairpin-tail structure, conserved H/ACA-box motifs and is found associated with GAR1 [2]. Its is predicted to guide the pseudouridylation of residues U39 and U41 in U2 snRNA [2]. snoACA26 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 24 137 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAFOLD; Moxon SJ 96 0 \N 0.54504 -7.72100 1600000 245670 235 129 1 -3.27100 0.71827 2013-10-04 00:42:11 2019-01-04 15:01:52 RF00424 SCARNA16 1683 Small Cajal body specific RNA 16 Moxon SJ, Daub J Moxon SJ, INFERNAL 65.00 66.10 63.90 scaRNAs are a specific class of small nuclear RNAs which localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12 [1]. ACA47 belongs to the H/ACA box class of guide RNAs as it has the predicted hairpin-hinge-hairpin-tail structure, the conserved H/ACA-box motifs and is found associated with GAR1 [2]. ACA47 is predicted to guide the pseudouridylation of residue U5 of the U1 spliceosomal snRNA [2]. snoACA47 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 37 176 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAFOLD; Moxon SJ 93 0 \N 0.58323 -8.75938 1600000 289818 301 187 1 -3.25290 0.71374 2013-10-04 00:42:14 2019-01-04 15:01:52 RF00425 SNORA18 1684 Small nucleolar RNA SNORA18 Moxon SJ Moxon SJ, INFERNAL 70.00 70.10 69.80 ACA18 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA18 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.04 -Z 549862.597050 CM SEQDB 29 328 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAFOLD; Moxon SJ 116 0 \N 0.50987 -7.63096 1600000 230850 235 132 1 -3.20350 0.71823 2013-10-04 00:42:16 2019-01-04 15:01:52 RF00426 SCARNA15 1685 Small Cajal body specific RNA 15 Moxon SJ, Daub J Moxon SJ, INFERNAL 65.00 65.40 64.20 scaRNAs are a specific class of small nuclear RNAs which localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12 [1]. ACA45 belongs to the H/ACA box class of guide RNAs as it has the predicted hairpin-hinge-hairpin-tail structure, the conserved H/ACA-box motifs and is found associated with GAR1 [2]. ACA45 is predicted to guide the pseudouridylation of residue U37 of the U2 spliceosomal snRNA [2]. snoACA45 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.00 -Z 549862.597050 CM SEQDB 22 126 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAFOLD; Moxon SJ 100 0 \N 0.53238 -7.69663 1600000 225204 226 128 1 -3.39090 0.71830 2013-10-04 00:42:19 2019-01-04 15:01:52 RF00427 SCARNA23 1686 Small Cajal body specific RNA 23 Moxon SJ, Daub J Moxon SJ, INFERNAL 60.00 61.60 58.60 scaRNAs are a specific class of small nuclear RNAs which localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12 [1]. ACA11 belongs to the H/ACA box class of guide RNAs as it has the predicted hairpin-hinge-hairpin-tail structure,the conserved H/ACA-box motifs and is found associated with GAR1 [2]. H/ACA snRNAs are predicted to guide the modification of uridines to pseudouridines in substrate RNAs however, no target RNA has been identified for scaRNA ACA11. snoACA11 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 18 87 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAFOLD; Moxon SJ 77 0 \N 0.57350 -7.30926 1600000 263275 229 125 1 -3.22870 0.71840 2013-10-04 00:42:38 2019-01-04 15:01:52 RF00428 SNORA38 1687 Small nucleolar RNA SNORA38 Moxon SJ Moxon SJ, INFERNAL 60.00 60.00 58.00 ACA38 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA38 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 25 188 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAFOLD; Moxon SJ 45 0 \N 0.56898 -8.28887 1600000 333273 240 131 1 -3.21240 0.71823 2013-10-04 00:42:40 2019-01-04 15:01:52 RF00429 SNORA29 1688 Small nucleolar RNA SNORA29 Moxon SJ Moxon SJ, INFERNAL 50.00 50.00 49.50 ACA29 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. The family also contains the mouse sequence MBI-39 as described in [2]. snoACA29 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 26 220 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD; Moxon SJ 112 0 \N 0.51065 -8.15622 1600000 357249 248 140 1 -3.10030 0.71799 2013-10-04 00:42:43 2019-01-04 15:01:52 RF00430 SNORA54 1689 Small nucleolar RNA SNORA54 Moxon SJ Moxon SJ 60.00 60.10 59.50 ACA54 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA54 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 214 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD; Moxon SJ 108 0 \N 0.54603 -8.08148 1600000 255408 234 129 1 -3.18220 0.71826 2013-10-04 00:42:45 2019-01-04 15:01:52 RF00431 SNORA55 1690 Small nucleolar RNA SNORA55 Moxon SJ Moxon SJ, INFERNAL 45.00 47.20 44.00 ACA55 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA55 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20 -Z 549862.597050 CM SEQDB 29 240 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD; Moxon SJ 107 0 \N 0.58771 -7.05940 1600000 226057 242 135 1 -3.35280 0.71825 2013-10-04 00:42:51 2019-01-04 15:01:52 RF00432 SNORA51 1691 Small nucleolar RNA SNORA51 Moxon SJ Moxon SJ 50.00 50.20 49.90 ACA51 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA51 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 591 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD; Moxon SJ 51 0 \N 0.54413 -7.66052 1600000 282968 242 133 1 -3.19130 0.71816 2013-10-04 00:43:00 2019-01-04 15:01:52 RF00433 Hsp90_CRE 1692 Hsp90 cis-regulatory element Moxon SJ PMID:15347681, INFERNAL 50.00 133.70 47.30 The hsp90 gene product is involved in the Drosophila heat shock response and translation of the hsp90 mRNA is very inefficient under normal growth temperatures. When heat shock occurs translation becomes more efficient. This family represents a section of the Drosophila hsp90 mRNA 5' UTR that is required for increased translational efficiency during the heat shock response. The exact mechanism of action unknown [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 8 0 0 Cis-reg; thermoregulator; Published; PMID:15347681 6 0 \N 0.56434 -5.41550 1600000 207469 272 152 1 -3.31610 0.71803 2013-10-04 00:43:04 2022-10-29 16:42:07 RF00434 BTE 2491 Luteovirus cap-independent translation element (BTE) Moxon SJ PMID:15351207 45.00 46.70 32.30 This family represents the Luteovirus cap-independent translation element (BTE) as found in barley yellow dwarf virus (BYDV), bean leafroll virus and soybean dwarf virus. This family mediates translation of genomic (gRNA) and subgenomic RNA1 (sgRNA1) [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19 -Z 549862.597050 CM SEQDB 17 11 0 0 Cis-reg; Published; PMID:15351207 17 0 \N 0.70503 -2.55861 1600000 176814 262 100 1 -3.68890 0.71858 2013-10-04 00:43:10 2019-01-04 15:01:52 RF00435 ROSE 1694 Repression of heat shock gene expression (ROSE) element Moxon SJ, Bateman A PMID:11726689 45.00 45.30 44.50 This family represents a 5' UTR cis-regulatory element found in heat shock mRNAs and is known as the ROSE (repression of heat shock gene expression) element. The ROSE element is a negative regulator of heat shock gene expression. The secondary structure is thought to be regulated by temperature. This regulation blocks access to the ribosome binding site under normal conditions. During heat shock however, the structure changes freeing the ribosome binding site and allowing expression to occur [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 238 0 0 Cis-reg; thermoregulator; Published; PMID:11726689; Griffiths-Jones S 166 0 \N 0.45672 -9.34908 1600000 295494 180 94 1 -3.02340 0.71891 2013-10-04 00:43:15 2022-10-29 16:55:17 RF00436 UnaL2 1695 UnaL2 LINE 3' element Bateman A Bateman A 55.00 55.00 54.90 The eel long interspersed element (LINE) UnaL2 and its partner short interspersed element (SINE) share a conserved 3' tail containing a stem-loop that is critical for their retrotransposition. Presumably, the first step of retrotransposition is the recognition of their 3' tails by UnaL2-encoded reverse transcriptase. The solution structure of a 17-nucleotide RNA derived from the 3' tail of UnaL2 was determined by NMR [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 30 53249 0 0 Cis-reg; Published; PMID:15273327 19 0 \N 0.59732 -3.43387 1600000 187283 125 54 1 -4.28830 0.71929 2013-10-04 00:43:20 2019-01-04 15:01:52 RF00437 HLE 1696 Hairy RNA localisation element (HLE) Moxon SJ PMID:12743042 60.00 69.20 55.60 This family represents the hairy localisation element (HLE) found in Drosophila species. HLE is located in the 3'-UTR of the hairy gene and contains two stem-loops. HLE is essential for the mediation of apical localisation and the two stem-loop structures act to allow the recognition of hairy mRNA by the localisation machinery [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 5 0 0 Cis-reg; Published; PMID:12743042 7 0 \N 0.51859 -9.83990 1600000 335227 239 130 1 -3.50450 0.71806 2013-10-04 00:45:13 2019-01-04 15:01:52 RF00438 SNORA33 1697 Small nucleolar RNA SNORA33 Moxon SJ Moxon SJ, INFERNAL 74.00 74.40 73.90 ACA33 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA33 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 28 235 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD; Moxon SJ 96 0 \N 0.49483 -6.72171 1600000 249012 235 130 1 -3.17050 0.71828 2013-10-04 00:45:16 2019-01-04 15:01:52 RF00439 SNORD87 1698 Small nucleolar RNA SNORD87 Moxon SJ Moxon SJ, INFERNAL 50.00 51.10 49.90 U87 (HBII-276) is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. U87 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 101 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold_manual; Daub J 82 0 \N 0.61796 -3.41533 1600000 233464 180 85 1 -3.38820 0.71860 2013-10-04 00:45:20 2019-01-04 15:01:52 RF00440 SNORD37 1699 Small nucleolar RNA SNORD37 Moxon SJ Moxon SJ 45.00 45.00 44.80 U37 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. U37 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 549862.597050 CM SEQDB 6 117 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Moxon SJ 94 0 \N 0.57711 -5.75517 1600000 265016 146 65 1 -3.56930 0.71882 2013-10-04 00:45:22 2019-01-04 15:01:52 RF00441 snoZ242 1700 Small nucleolar RNA Z242 Moxon SJ Moxon SJ, INFERNAL 90.00 100.30 33.70 Z242 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 23 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ 8 0 \N 0.57790 -11.07695 1600000 467998 329 198 1 -2.97830 0.71233 2013-10-04 00:45:31 2019-01-04 15:01:52 RF00442 ykkC-yxkD 1701 Guanidine-I riboswitch Moxon SJ, Ontiveros-Palacios N Barrick JE, Breaker RR 63.00 63.00 62.90 This family represents a conserved RNA structure found upstream of the ykkC and yxkD genes in Bacillus subtilis and related genes in other bacteria. The function of this family is unclear although it has been suggested that it may function to switch on efflux pumps and detoxification systems in response to harmful environmental molecules [1]. The Thermoanaerobacter tengcongensis sequence EMBL:AE013027 overlaps with Rfam:RF00167 suggesting that the two riboswitches may work in conjunction to regulate the upstream gene which codes for Swiss:Q8RC62, a member of Pfam:PF00860 (Moxon SJ, pers. obs.). Nelson [2] showed that this riboswitch senses and responds to guanidine and it was renamed Guanidine-I riboswitch. Furthermore, they demonstrated that bacteria are capable of endogenously producing guanidine and the riboswitch controls genes whose products are involved in modification or pumping out guanidine as a toxic compound from bacteria. Crystal structures of the riboswitch bound to the ligand have also been determined in PDB 5T83, 5U3G and 7MLW [3][4]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 100 831 0 0 Cis-reg; riboswitch; Predicted; Barrick JE, Breaker RR 747 0 \N 0.51445 -9.18196 1600000 313439 215 107 1 -3.61730 0.71840 2013-10-04 00:45:33 2022-10-29 16:55:17 RF00443 SNORA27 1702 Small nucleolar RNA SNORA27 Moxon SJ Moxon SJ, INFERNAL 64.00 65.10 63.80 ACA27 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. snoACA27 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 24 175 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold_manual; Daub J 100 0 \N 0.51392 -8.33485 1600000 312222 234 127 1 -2.98540 0.71823 2013-10-04 00:45:46 2019-01-04 15:01:52 RF00444 PrrF 1703 PrrF RNA Moxon SJ PMID:15210934 90.00 95.70 81.10 PrrF RNA is a small RNA involved in iron homeostasis and is found exclusively in Pseudomonas species. PrrF sequences are the functional homologues of Rfam:RF00057 and are found in tandem. Their expression is induced under iron limitation by the ferric uptake regulator (Fur) and they act to negatively regulate several genes including sodB and sdh. Both homologues inhibit translation of antR mRNA, which affects quorum sensing and virulence factor production.[2] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 18 117 0 0 Gene; sRNA; Published; PMID:15210934 79 0 \N 0.50244 -8.78756 1600000 362519 264 150 1 -3.05540 0.71812 2013-10-04 00:46:07 2022-05-06 12:10:03 RF00445 mir-399 1704 mir-399 microRNA precursor family Moxon SJ Moxon SJ 57.00 57.00 56.90 mir-399 was identified in both Arabidopsis thaliana and Oryza sativa computationally and was later experimentally verified. mir-399 is thought to target mRNAs coding for a phosphatase transporter [1]. The mature sequence is excised from the 3' arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 820 0 0 Gene; miRNA; Predicted; PFOLD 71 0 \N 0.72833 -2.87269 1600000 192870 286 118 1 -3.26600 0.71846 2013-10-04 00:46:10 2021-11-19 10:36:03 RF00446 mir-133 1705 mir-133 microRNA precursor family Moxon SJ Moxon SJ 55.50 55.60 55.40 mir-133 was first experimentally characterised in mouse [1] and homologues have since been discovered in several other species. The mature sequence is excised from the 3' arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 46 621 0 0 Gene; miRNA; Predicted; PFOLD 202 0 \N 0.69490 -2.95966 1600000 106739 170 87 1 -3.99240 0.71878 2013-10-04 00:46:22 2022-05-06 12:10:03 RF00447 IRES_Kv1_4 1706 Voltage-gated potassium-channel Kv1.4 IRES Moxon SJ Published; PMID:15339906 100.00 121.30 99.80 This family represents the Kv1.4 voltage-gated potassium-channel internal ribosome entry site (IRES). This region has been shown to mediate internal ribosome entry in cells derived from brain, heart, and skeletal muscle, tissues known to express Kv1.4 mRNA species [1]. IRES_Kv1.4 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 37 0 0 Cis-reg; IRES; Predicted; RNAalifold 39 0 \N 0.57617 -10.29278 1600000 399083 403 260 1 -3.74510 0.70785 2013-10-04 00:46:41 2019-01-04 15:01:52 RF00448 IRES_EBNA 2472 Epstein-Barr virus nuclear antigen (EBNA) IRES Moxon SJ Published; 12555070 100.00 220.30 32.00 This family represents an Epstein-Barr virus internal ribosome entry site (IRES) which is found in the U leader exon in the 5' UTR of the Epstein-Barr nuclear antigen 1 (EBNA1) gene. The EBNA IRES allows EBNA1 translation to occur under situations where initiation from the 5' cap structure and ribosome scanning is reduced. It is thought that the EBNA IRES is necessary for the regulation of latent gene expression [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18 -Z 549862.597050 CM SEQDB 6 4 0 0 Cis-reg; IRES; Predicted; PFOLD 3 0 \N 0.64802 -9.46433 1600000 404017 350 217 1 -3.74570 0.71077 2013-10-04 00:46:44 2019-01-04 15:01:52 RF00449 IRES_HIF1 1708 HIF-1 alpha IRES Moxon SJ http://ifr31w3.toulouse.inserm.fr/IRESdatabase/, INFERNAL 110.00 121.40 105.10 This family represents the hypoxia-inducible factor 1-alpha internal ribosome entry site. HIF-1a is a subunit of the HIF-1 transcription factor, which induces transcription of several genes involved in the cellular response to hypoxia. The HIF-1a IRES allows translation to be maintained under hypoxic cell conditions that inhibit cap-dependent translation [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 17 -Z 549862.597050 CM SEQDB 17 27 0 0 Cis-reg; IRES; Predicted; RNAFOLD; Moxon SJ 31 0 \N 0.64720 -9.55089 1600000 363695 421 279 1 -3.72440 0.70682 2013-10-04 00:46:46 2019-01-04 15:01:52 RF00451 mir-395 1255 mir-395 microRNA precursor family Moxon SJ Moxon SJ 56.00 56.00 55.90 mir-395 was identified in both Arabidopsis thaliana and Oryza sativa computationally and was later experimentally verified. mir-395 is thought to target mRNAs coding for ATP sulphurylases [1]. The mature sequence is excised from the 3' arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 25 1065 0 0 Gene; miRNA; Predicted; PFOLD 74 0 \N 0.63467 -3.63138 1600000 166221 392 108 1 -2.98190 0.71867 2013-02-01 11:57:36 2021-11-19 10:36:02 RF00452 mir-172 1709 mir-172 microRNA precursor family Moxon SJ Moxon SJ 70.00 70.00 69.90 mir-172 has been experimentally verified in Arabidopsis thaliana [2,3]. This family is thought to target mRNAs coding for APETALA2-like transcription factors [1]. The mature sequence is excised from the 3' arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 644 0 0 Gene; miRNA; Predicted; PFOLD; Moxon SJ 73 0 \N 0.63606 -4.49623 1600000 161611 621 119 1 -3.43630 0.71844 2013-10-04 00:47:10 2021-11-19 10:36:03 RF00453 Cardiovirus_CRE 1710 Cardiovirus cis-acting replication element (CRE) Moxon SJ PMID:10500216 37.00 37.30 36.70 This family represents a Cardiovirus cis-acting replication element (CRE) which is located within the region encoding the capsid protein VP2 and is required for viral replication [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 1 0 0 Cis-reg; Published; PMID:10500216 3 0 \N 0.57589 -5.14218 1600000 395590 104 33 1 -2.66120 0.73696 2013-10-04 00:47:14 2019-01-04 15:01:52 RF00454 p27_CRE 1711 p27 cis-regulatory element Moxon SJ PMID:12837699, INFERNAL 42.00 42.70 35.30 This family represents a structured G/C rich element located in the 5' UTR of p27 mRNA. This element contributes to cell-cycle regulated translation and when deleted leads to a 50% drop in regulation. The element is thought to be able to form several different structures with similar free energy. It has been suggested that proteins may only bind to a specific structure thus conformational changes could regulate translation [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 12 25 0 0 Cis-reg; Predicted; PFOLD; Moxon SJ 28 0 \N 0.62590 -5.23041 1600000 376597 140 59 1 -3.32630 0.71937 2013-10-04 00:47:16 2019-01-04 15:01:52 RF00455 mir-15 1712 mir-15 microRNA precursor family Moxon SJ Moxon SJ, INFERNAL 58.00 58.00 57.90 This family represents the related mir-15a and mir-15b sequences. In humans miR-15a and miR-16 are clustered within 0.5 kb at 13q14. This region has been shown to be deleted in more than half of B cell chronic lymphocytic leukaemias (CLL). Both miR-15a and miR-16 are deleted or down-regulated in more than two thirds of CLL cases [2]. The mature sequence is excised from the 5' arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 17 317 0 0 Gene; miRNA; Predicted; RNAFOLD 118 0 \N 0.63357 -1.93445 1600000 201335 173 86 1 -3.53830 0.71880 2013-10-04 00:47:23 2021-11-19 11:53:19 RF00456 mir-34 1713 mir-34 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 53.40 53.40 53.20 Human mir-34a was discovered computationally [1] and later experimentally verified [2]. The mature sequence is excised from the 5' arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 18 263 0 0 Gene; miRNA; Predicted; RNAalifold 120 0 \N 0.65242 -2.89529 1600000 189517 177 90 1 -3.36420 0.71878 2013-10-04 00:47:26 2022-10-29 16:55:17 RF00457 IRES_mnt 1714 Mnt IRES Moxon SJ Published; 11314024, INFERNAL 100.00 118.30 90.10 This family represents the Mnt internal ribosome entry site (IRES). Mnt is a transcriptional repressor related to the Myc/Mad family of transcription factors. It is thought that this family allows efficient Mnt synthesis when cap-dependent translation initiation is reduced [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 21 33 0 0 Cis-reg; IRES; Predicted; PFOLD; Moxon SJ 38 0 \N 0.66516 -8.67748 1600000 395728 332 203 1 -3.22510 0.71199 2013-10-04 00:47:29 2019-01-04 15:01:52 RF00458 IRES_Cripavirus 1715 Cripavirus internal ribosome entry site (IRES) Moxon SJ Published; 11233983 80.00 97.60 52.90 This family represents a Cripavirus internal ribosome entry site (IRES) which is required for the production of capsid proteins through IRES-mediated translation [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 10 0 0 Cis-reg; IRES; Published; PMID:11233983 16 0 \N 0.54120 -9.06514 1600000 431797 314 201 1 -3.51400 0.71214 2013-10-04 00:47:34 2019-01-04 15:01:52 RF00459 MPMV_package 1716 Mason-Pfizer monkey virus packaging signal Moxon SJ PMID:14687944, INFERNAL 54.00 54.00 53.90 This family represents a group of sequences that are related to the Mason-Pfizer monkey virus (MPMV) packaging signal. The packaging signal is located in the 5' UTR and is required for specific RNA encapsidation [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 614 0 0 Cis-reg; Predicted; PFOLD; Moxon SJ 23 0 \N 0.62806 -8.35516 1600000 421648 419 279 1 -3.77290 0.70689 2013-10-04 00:47:37 2019-01-04 15:01:52 RF00460 U1A_PIE 1717 U1A polyadenylation inhibition element (PIE) Moxon SJ, Weinberg Z PMID:15491147 50.00 53.30 47.70 This family represents the U1A polyadenylation inhibition element (PIE). PIE is a regulatory RNA which is responsible for the regulation of the length of the polyA tail of the U1A pre-mRNA. The PIE is located in the U1A mRNA 3' UTR. PIE adopts a U-shaped structure, with binding sites for a single U1A protein at each bend and when complexed with the two proteins it blocks activity of poly(A) polymerase (PAP), and inhibits its activity [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 39 94 0 0 Cis-reg; Published; PMID:15491147 63 0 \N 0.66571 -1.88582 1600000 171269 151 74 1 -4.21850 0.71890 2013-10-04 00:47:41 2019-01-04 15:01:52 RF00461 IRES_VEGF_A 1718 Vascular endothelial growth factor (VEGF) IRES A Moxon SJ Published; PMID:9774635 160.00 162.00 158.50 This family represents the vascular endothelial growth factor (VEGF) internal ribosome entry site (IRES) A. VEGF is an endothelial cell mitogen with many crucial functions such as embryogenic development and wound healing. The 5' UTR of VEGF mRNA contains two IRES elements which are able to promote efficient translation at the AUG start codon [1], this family represents IRES A. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 24 0 0 Cis-reg; IRES; Published; PMID:9774635 26 0 \N 0.57286 -11.36968 1600000 501802 462 308 1 -3.63110 0.70566 2013-10-04 00:47:44 2019-01-04 15:01:52 RF00462 IRES_APC 1719 APC internal ribosome entry site (IRES) Moxon SJ Published; 12034871 50.00 59.90 40.30 This family represents an APC internal ribosome entry site (IRES) which is located in the coding sequence of the gene. APC is a tumour suppressor gene which is associated with the inherited disease adenomatous polyposis coli (APC).It is thought that IRES-mediated translation of APC is important for an apoptotic cascade [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21 -Z 549862.597050 CM SEQDB 6 0 0 0 Cis-reg; IRES; Published; PMID:12034871 4 0 \N 0.63265 -4.03843 1600000 301276 130 53 1 -3.74290 0.71927 2013-10-04 00:47:46 2019-01-04 15:01:52 RF00463 ApoB_5_CRE 1720 Apolipoprotein B (apoB) 5' UTR cis-regulatory element Moxon SJ PMID:15157107 55.00 68.10 51.20 This family represents an apolipoprotein B (apoB) cis regulatory element located in the 5' UTR of apoB mRNA. The element is important for optimal translation [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 5 9 0 0 Cis-reg; Published; PMID:15157107 9 0 \N 0.43296 -10.27235 1600000 310891 238 127 1 -2.91300 0.71832 2013-10-04 00:48:04 2019-01-04 15:01:52 RF00464 mir-92 1721 mir-92 microRNA precursor family Moxon SJ Moxon SJ 47.00 49.30 46.80 This family represents the microRNA precursor mir-92. Human miR-92 has two predicted hairpin precursor sequences: mir-92-1 on chromosome 13 and mir-92-2 on chromosome X. miR-92 has also been cloned from mouse embryonic stem cells [2]. The mature sequence is excised from the 3' arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 23 222 0 0 Gene; miRNA; Predicted; PFOLD 123 0 \N 0.75783 -2.39259 1600000 181452 166 80 1 -3.95500 0.71896 2013-10-04 00:48:06 2021-11-19 11:53:19 RF00467 RSV_PBS 1256 Rous sarcoma virus (RSV) primer binding site (PBS) Moxon SJ PMID:15153244 47.00 47.30 46.50 This family represents a structured region around the Rous sarcoma virus primer binding site (PBS). This region is known to be required for the efficient initiation of reverse transcription [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 22 31 0 0 Cis-reg; Published; PMID:15153244 18 0 \N 0.63653 -3.30337 1600000 238434 165 75 1 -3.67420 0.71883 2013-02-01 11:57:39 2019-01-04 15:01:52 RF00468 HCV_SLVII 1722 Hepatitis C virus stem-loop VII Lamkiewicz K, Triebel S, Marz M Kevin Lamkiewicz; Sandra Triebel; Manja Marz; 59.00 59.50 36.00 Genetic modification of RNA structures in Hepatitis C virus (HCV) genome affects replication and infectivity [1] Long distant RNA-RNA interactions in HCV RNAs are involved in translation to virion budding [2] It has been proposed that the 5'-3' UTR base-pairing in the HCV genome might play an important role in viral RNA replication [3] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 110 1 0 0 Cis-reg; Predicted; BM VeGETA v. 0.4, LocARNA 2.0.0RC8, RNAfold 17 0 \N 0.64530 -3.95206 1600000 202476 142 65 1 -3.59380 0.71913 2013-10-04 00:48:23 2022-05-06 11:43:51 RF00470 Toga_5_CRE 1724 Togavirus 5' plus strand cis-regulatory element Moxon SJ PMID:11720292 120.00 140.60 115.00 This family represents a Togavirus virus 5' plus strand cis-regulatory element which is thought to be essential for both plus and minus strand RNA synthesis [1].Genus Alphaviruse belongs to the Togaviridae family. Alpha viruses contain secondary structural motifs in the 5' UTR that allow them to avoid detection by IFIT1[2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 33 3 0 0 Cis-reg; Predicted; PFOLD 9 0 \N 0.67006 -9.32141 1600000 409597 415 277 1 -3.65460 0.70696 2013-10-04 00:48:39 2019-01-04 15:01:52 RF00471 snosnR48 1725 Small nucleolar RNA snR48 Moxon SJ Moxon SJ 60.00 67.20 57.20 snR48 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 36.46 -Z 549862.597050 CM SEQDB 6 54 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; ILM 59 0 \N 0.40773 -9.17395 1600000 351052 213 113 1 -2.90660 0.71809 2013-10-04 00:48:43 2021-07-05 13:43:57 RF00472 snosnR55 1726 Small nucleolar RNA snR55/Z10 Moxon SJ Moxon SJ 50.00 51.60 48.60 snR55 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. This family does not appear to have the C/D box snoRNA terminal stem structure. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 53 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Griffiths-Jones S 57 0 \N 0.48376 -9.14250 1600000 287207 181 92 0 -3.34920 0.71837 2013-10-04 00:48:45 2021-07-05 13:43:57 RF00473 snosnR54 1727 Small nucleolar RNA snR54 Moxon SJ Moxon SJ 50.00 61.80 46.20 snR54 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33.20 -Z 549862.597050 CM SEQDB 8 65 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Griffiths-Jones S 71 0 \N 0.44195 -8.49368 1600000 292989 309 87 0 -3.45640 0.71843 2013-10-04 00:48:47 2021-07-05 13:43:57 RF00474 snosnR57 1728 Small nucleolar RNA snR57 Moxon SJ Moxon SJ 50.00 52.80 46.70 snR57 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 59 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Griffiths-Jones S 59 0 \N 0.55270 -2.17770 1600000 198884 189 95 1 -3.19030 0.71834 2013-10-04 00:48:50 2019-01-04 15:01:52 RF00475 snosnR69 1729 Small nucleolar RNA snR69 Moxon SJ Moxon SJ 50.00 50.00 49.90 snR69 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 73 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD 73 0 \N 0.46515 -9.03340 1600000 297705 243 101 1 -3.38290 0.71827 2013-10-04 00:48:55 2021-07-05 13:43:57 RF00476 snosnR61 1730 Small nucleolar RNA snR61/Z1/Z11 Moxon SJ, Daub J Moxon SJ 45.00 45.10 44.70 This family of small nucleolar RNAs belongs to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family includes Schizosaccharomyces pombe snR61, Drosophila melanogaster Z1 and Saccharomyces cerevisiae snR61 and Z11 snoRNAs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27 -Z 549862.597050 CM SEQDB 56 578 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Daub J 530 0 \N 0.44138 -10.76428 1600000 364100 164 85 0 -3.74730 0.71848 2013-10-04 00:48:59 2021-07-05 13:43:57 RF00477 snosnR66 1731 Small nucleolar RNA snR66 Moxon SJ Moxon SJ 65.00 69.10 63.20 snR66 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.00 -Z 549862.597050 CM SEQDB 4 29 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Griffiths-Jones S 30 0 \N 0.55148 -2.73028 1600000 193028 210 104 1 -3.20860 0.71825 2013-10-04 00:49:07 2019-01-04 15:01:52 RF00478 SCARNA6 1732 Small Cajal body specific RNA 6 Moxon SJ, Marantidis E, Daub J Moxon SJ, Daub J, INFERNAL 68.00 68.00 67.70 U88 is small Cajal body specific RNA (scaRNA). scaRNAs are a novel class of small nuclear RNAs which localise to the Cajal bodies [1]. U88 is found associated with both fibrillarin and Gar1p and co-localises with coilin in Cajal bodies [1]. U88 scaRNA is composed of both an H/ACA box and a C/D box conserved domains domains and is predicted to guide 2'-O-methylation of residue U41 of the U5 snRNA [1]. This family also includes human scaRNA U87 and a mouse homologue MBI-46 described in [2]. In humans both U88 and U87 scaRNAs share the same host gene and both are predicted to guide modification of the same residue (U41 of U5 snRNA)[1,3]. U88 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 17 214 0 0 Gene; snRNA; snoRNA; scaRNA; Published; PMID:12032087, Daub J 111 0 \N 0.69028 -9.90054 1600000 443601 400 265 1 -3.72260 0.70759 2013-10-04 00:49:17 2019-01-04 15:01:52 RF00479 snosnR71 1733 Small nucleolar RNA snR71 Moxon SJ Moxon SJ 60.00 60.00 59.40 snR71 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 58 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Moxon SJ 63 0 \N 0.51237 -5.19071 1600000 204950 188 97 1 -3.33470 0.71831 2013-10-04 00:49:22 2021-07-05 13:43:57 RF00480 HIV_FE 1734 HIV Ribosomal frameshift signal Moxon SJ PMID:14747573 42.00 42.00 41.90 This family represents the HIV Ribosomal frameshift signal. HIV uses a system called -1 ribosomal frameshifting to produce the required ratio of Gag and Gag-Pol polyproteins. The stem-loop structure of the frameshift signal is thought to impede the ribosome and cause slippage in the 5' direction, this causes the -1 frameshift and translation then continues in the new frame [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 145 16 0 0 Cis-reg; frameshift_element; Published; PMID:14747573 9 0 \N 0.44781 -9.87817 1600000 609843 122 52 1 -3.91810 0.71930 2013-10-04 00:49:25 2019-01-04 15:01:52 RF00481 HCV_X3 1735 Hepatitis C virus 3' X element Lamkiewicz K, Triebel S, Marz M Kevin Lamkiewicz; Sandra Triebel; Manja Marz; 100.00 107.20 39.10 Genetic modification of RNA structures in Hepatitis C virus (HCV) genome affects replication and infectivity [1] Long distant RNA-RNA interactions in HCV RNAs are involved in translation to virion budding [2] It has been proposed that the 5'-3' UTR base-pairing in the HCV genome might play an important role in viral RNA replication [3] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 22 1 0 0 Cis-reg; Predicted; BM VeGETA v. 0.4, LocARNA 2.0.0RC8, RNAfold 4 0 \N 0.47690 -9.55113 1600000 339156 201 100 1 -3.47520 0.71874 2013-10-04 00:49:48 2022-05-06 11:43:51 RF00482 snoF1_F2 2398 Small nucleolar RNA F1/F2/snoR5a Moxon SJ Moxon SJ 60.00 60.00 59.80 This family contains F1, F2 and snoR5a sequences, all of which are members of the the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 132 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD 34 0 \N 0.56275 -7.02959 1600000 298328 254 140 1 -3.48020 0.71816 2013-10-04 00:49:51 2019-01-04 15:01:52 RF00483 IRES_IGF2 1737 Insulin-like growth factor II IRES Moxon SJ Moxon SJ 70.00 80.40 48.70 This family represents the insulin-like growth factor II (IGF-II) internal ribosome entry site (IRES) which is found in the 5' UTR of IGF-II leader 2 mRNA. This family allows cap-independent translation of the mRNA and it is thought that this family may facilitate a continuous IGF-II production in rapidly dividing cells during development [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18 -Z 549862.597050 CM SEQDB 9 27 0 0 Cis-reg; IRES; Published; PMID:11903044 30 0 \N 0.57350 -9.35093 1600000 352065 230 121 1 -3.19110 0.71834 2013-10-04 00:49:55 2019-01-04 15:01:52 RF00484 IRES_Cx32 2499 Connexin-32 internal ribosome entry site (IRES) Moxon SJ Moxon SJ 80.00 83.30 34.70 This family represents the connexin-32 internal ribosome entry site (IRES) which allows cap independent translation during conditions such as heat shock and stress [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20 -Z 549862.597050 CM SEQDB 6 35 0 0 Cis-reg; IRES; Published; PMID:10931843 35 0 \N 0.66593 -5.50956 1600000 241927 268 149 1 -3.07710 0.71815 2013-10-04 00:50:05 2019-01-04 15:01:52 RF00485 K_chan_RES 1739 Potassium channel RNA editing signal Moxon SJ PMID:15361858 51.00 51.00 50.90 This family represents a group of sequences related to the human potassium channel Kv1.1 hairpin element which directs the efficient modification of an adenosine to inosine by an adenosine deaminase acting on RNA (ADAR). The ADAR modification causes an isoleucine/valine recoding event which lies in the ion-conducting pore of the potassium channel. It is thought that this editing event targets the process of fast inactivation and allows a more rapid recovery from inactivation at negative potentials [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 85 2986 0 0 Cis-reg; Published; PMID:15361858; Moxon SJ 311 0 \N 0.59736 -4.93438 1600000 266350 211 114 1 -3.40650 0.71829 2013-10-04 00:50:09 2019-01-04 15:01:52 RF00486 mir-129 1740 mir-129 microRNA precursor family Moxon SJ Moxon SJ 50.00 60.40 49.60 mir-129 was first experimentally characterised in mouse [1] and homologues have since been discovered in several other species. The mature sequence is excised from the 5' arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 171 0 0 Gene; miRNA; Predicted; PFOLD 76 0 \N 0.64994 -3.74144 1600000 157439 187 92 1 -3.76060 0.71877 2013-10-04 00:50:21 2021-11-19 10:36:03 RF00487 IRES_Cx43 2498 Connexin-43 internal ribosome entry site (IRES) Moxon SJ Moxon SJ 70.00 70.30 65.40 This family represents the connexin-43 internal ribosome entry site (IRES) which allows cap independent translation during conditions such as heat shock and stress [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 127 0 0 Cis-reg; IRES; Published; PMID:10618489 88 0 \N 0.63004 -8.42785 1600000 398376 334 204 1 -3.47750 0.71206 2013-10-04 00:50:27 2019-01-04 15:01:52 RF00488 U1_yeast 1742 Yeast U1 spliceosomal RNA Griffiths-Jones SR Zwieb C, The uRNA database, PMID:9016512 80.00 87.60 70.70 U1 is a small nuclear RNA (snRNA) component of the spliceosome (involved in pre-mRNA splicing). Its 5' end forms complementary base pairs with the 5' splice junction, thus defining the 5' donor site of an intron. There are significant differences in sequence and secondary structure between metazoan and yeast U1 snRNAs, the latter being much longer (568 nucleotides as compared to 164 nucleotides in human). Nevertheless, secondary structure predictions suggest that all U1 snRNAs share a 'common core' consisting of helices I, II, the proximal region of III, and IV [1]. This family represents the larger yeast sequences. Family Rfam:RF00003 contains the metazoan U1 sequences. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 35 0 0 Gene; snRNA; splicing; Published; PMID:2405391 38 0 \N 0.55089 -10.42187 1600000 476340 838 569 1 -4.60390 0.69985 2013-10-04 00:50:30 2021-07-05 13:43:57 RF00489 ctRNA_p42d 1514 ctRNA Moxon SJ PMID:15554980 50.00 50.90 49.70 This family represents a group of ctRNAs (or counter-transcribed RNAs) from p42d and related plasmids. ctRNAs are small, highly structured, antisense sequences which are involved in negative regulation. Members of this family are known to bind to the mRNA of repC causing translational repression [1]. This model contains the predicted stem-loop structure followed by a U-rich tract which is proposed to act as a Rho-independent transcriptional terminator. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 212 0 0 Gene; antisense; Published; PMID:15554980 103 0 \N 0.67674 -3.71757 1600000 365440 117 46 1 -3.62990 0.71965 2013-10-04 00:50:36 2019-01-04 15:01:52 RF00490 S-element 1743 S-element Moxon SJ PMID:15554980 47.00 47.40 45.10 This family represents a group of S-elements from p42d and related plasmids. The S-element has multiple functions and is believed to act as a negative regulator of repC transcription, be required for efficient replication and act as a translational enhancer of repC [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 29 205 0 0 Cis-reg; Published; PMID:15554980 91 0 \N 0.52682 -7.18725 1600000 427953 143 67 1 -3.87060 0.71910 2013-10-04 00:50:40 2019-01-04 15:01:52 RF00492 SCARNA17 1744 small Cajal body-specific RNA 17 Moxon SJ, Daub J Moxon SJ 75.00 76.30 74.70 scaRNAs are a specific class of small nuclear RNAs which localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12 [1]. The complete human U12-22/U4-8 scaRNA is composed of two tandem C/D box domains (termed U12-22 and U4-8). The 5' and 3' C/D domains are predicted to guide the 2'O-ribose methylation of residue U22 in U12 (RFAM:RF00007) and residue C8 in U4 (RFAM:RF00015) snRNAs respectively [1]. This family only includes only the 5' C/D box domain (U12-22) as the 3' C/D box is represented by RFAM:RF00283. The 3' C/D domain (U4-8) was also cloned previously by Darzacq [2] and called U91. Both the doublet (U12-22/U4-8) and singlet (U4-8) forms of this snRNA have been purified from Hela cells [1]. The doublet form U12-22/U4-8 has been shown to localise to the nucleoplasm and is proposed to reside in the Cajal bodies whereas the U4-8 single domain appears to accumulate in the nucleolus [1]. In humans the genomic location of U12-88/U4-8 is intergenic and the purified transcript has been shown to possess a methylated guanosine cap suggesting it is independently transcribed by RNA pol II [1]. snoU12-22 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.32 -Z 742849.287494 CM SEQDB 6 70 0 0 Gene; snRNA; snoRNA; scaRNA; Published;PMID:15556860 36 0 \N 0.57819 -5.81125 1600000 243131 257 144 1 -3.40680 0.71818 2013-10-04 00:50:42 2022-10-29 16:42:07 RF00493 snoU2-30 1745 Small nucleolar RNA U2-30 Moxon SJ Moxon SJ, INFERNAL 60.00 60.70 57.40 U2-30 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family directs the 2'-O-methylation of A30 in Rfam:RF00004 [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 21 130 0 0 Gene; snRNA; snoRNA; CD-box; Published;PMID:15556860 44 0 \N 0.62415 -3.65951 1600000 289981 153 70 1 -3.13770 0.71891 2013-10-04 00:50:45 2019-01-04 15:01:52 RF00494 snoU2_19 1746 Small nucleolar RNA U2-19 Moxon SJ Moxon SJ, INFERNAL 39.00 39.10 38.50 U2-19 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family directs the 2'-O-methylation of G19 in Rfam:RF00004 [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.62 -Z 549862.597050 CM SEQDB 29 223 0 0 Gene; snRNA; snoRNA; CD-box; Published;PMID:15556860 105 0 \N 0.44744 -8.44765 1600000 261960 163 80 1 -3.74390 0.71869 2013-10-04 00:50:49 2019-01-04 15:01:52 RF00495 IRES_Hsp70 1747 Heat shock protein 70 (Hsp70) internal ribosome entry site (IRES) Moxon SJ Published 80.00 91.80 70.60 This family represents heat shock protein 70 (Hsp70) internal ribosome entry site (IRES) which allows cap independent translation during conditions such as heat shock and stress. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 30 0 0 Cis-reg; IRES; Predicted; PFOLD; Moxon SJ 11 0 \N 0.65640 -9.45680 1600000 435496 346 216 1 -3.66200 0.71097 2013-10-04 00:50:52 2019-01-04 15:01:52 RF00498 EAV_LTH 1749 Equine arteritis virus leader TRS hairpin (LTH) Moxon SJ PMID:14970388 70.00 76.90 40.40 This family represents the equine arteritis virus leader transcription-regulating sequence hairpin (LTH). The LTH is thought to be a key structural element in discontinuous subgenomic RNA synthesis and is critical for leader TRS function [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18 -Z 549862.597050 CM SEQDB 6 1 0 0 Cis-reg; leader; Published; PMID:14970388 2 0 \N 0.73532 -3.43877 1600000 380649 120 45 1 -3.80350 0.71954 2013-10-04 00:51:00 2019-01-04 15:01:52 RF00499 Parecho_CRE 1750 Human parechovirus 1 (HPeV1) cis regulatory element (CRE) Moxon SJ PMID:12438643 55.00 59.90 52.50 This family represents a Parechovirus cis regulatory element which is located in the 5'-terminal 112 nucleotides of the genome of human parechovirus 1 (HPeV1). The family consists of two stem-loop structures (SL-A and SL-B) together with a pseudoknot. Disruption of any of these elements impairs both viral replication and growth [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19 -Z 549862.597050 CM SEQDB 5 2 0 0 Cis-reg; Published; PMID:12438643 4 0 \N 0.58840 -6.01832 1600000 210447 222 116 1 -2.94900 0.71860 2013-10-04 00:51:13 2019-01-10 15:16:02 RF00500 TCV_H5 1751 Turnip crinkle virus (TCV) repressor of minus strand synthesis H5 Moxon SJ PMID:15220455 70.00 72.90 37.00 This family represents the turnip crinkle virus (TCV) hairpin 5 (H5) which contains a large symmetrical internal loop (LSL). H5 can repress minus-strand synthesis when the 3' side of the LSL pairs with the 3'-terminal 4 bases of the RNA(GCCC-OH) [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 1 0 0 Cis-reg; Published; PMID:15220455 2 0 \N 0.60626 -5.48504 1600000 430441 120 45 1 -3.82680 0.71957 2013-10-04 00:51:24 2019-01-04 15:01:52 RF00501 Rota_CRE 1752 Rotavirus cis-acting replication element (CRE) Moxon SJ PMID: 40.00 40.20 39.40 This family represents a Rotavirus cis-acting replication element (CRE) found at the 3'-end of rotavirus mRNAs. The family is thought to promote the synthesis of minus strand RNA to form viral dsRNA [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 1 0 0 Cis-reg; Predicted; Pfold; Moxon SJ 7 0 \N 0.63429 -4.05967 1600000 338093 153 68 1 -3.35550 0.71906 2013-10-04 00:51:29 2019-01-04 15:01:52 RF00502 TCV_Pr 1753 Turnip crinkle virus (TCV) core promoter hairpin (Pr) Moxon SJ PMID:15220455 40.00 46.30 37.70 This family represents the turnip crinkle virus (TCV) core promoter hairpin (Pr). Pr is located in the 3' UTR and is required for minus strand RNA synthesis [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 1 0 0 Cis-reg; Published; PMID:15220455 2 0 \N 0.61370 -5.34000 1600000 457057 105 34 1 -2.86110 0.73062 2013-10-04 00:51:36 2019-01-04 15:01:52 RF00503 RNAIII 1754 RNAIII Argasinska J Gardner P 47.00 47.60 34.60 This family represents RNAIII which is known to regulate the expression of many Staphylococcus aureus genes encoding exoproteins and cell wall associated proteins. In S.aureus, RNAIII acts as the effector of the agr system and is transcribed from the P3 operon. The RNAIII transcript also contains the 26 amino acid delta-haemolysin gene (hld) [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 10 20 0 0 Gene; Published; PMID:26504242 26 0 \N 0.63800 -8.15301 1600000 339240 834 511 1 -4.03050 0.70068 2013-10-04 00:51:37 2019-01-04 15:01:52 RF00504 Glycine 1755 Glycine riboswitch Moxon SJ Barrick JE, Breaker RR 32.00 32.00 31.90 This family represents the bacterial glycine riboswitch. Glycine riboswitches usually consist of two metabolite-binding aptamers domains with similar structures in tandem. The aptamers cooperatively bind glycine to regulate the expression of downstream genes. In Bacillus subtilis, this riboswitch is found upstream of the gcvT operon which controls glycine degradation. It is thought that when glycine is in excess it will bind to both aptamers to activate these genes and facilitate glycine degradation [1]. In vivo experiments demonstrated that glycine does not need to bind both aptamers for regulation. Mutation to the first aptamer caused greatest reduction in downstream gene expression, while mutation to the second one had varying effects. Glycine-induced expression of the gcvT operon is needed for B. subtilise growth, swarming motility and biofilm formation (in high glycine enviroment).[2] gcvT cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 44 4556 0 0 Cis-reg; riboswitch; Predicted; Barrick JE, Breaker RR 3019 0 \N 0.60968 -3.97297 1600000 143931 359 94 1 -4.01510 0.71854 2013-10-04 00:51:40 2021-07-05 13:43:57 RF00505 RydC 1756 RydC RNA Moxon SJ PMID:15618228 45.00 45.80 30.90 This family represents a bacterial non-coding RNA called RydC. RydC is thought to regulate an mRNA, yejABEF which encodes an ABC transporter protein. RydC is known to bind the protein Hfq which causes a conformational change in the RNA molecule. The Hfq/RydC complex is then thought to bind to the target mRNA and induce its degradation [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 16 0 0 Gene; sRNA; Published; PMID:15618228 21 0 \N 0.54152 -6.73153 1600000 323325 148 64 1 -3.73380 0.71905 2013-10-04 00:51:55 2019-01-04 15:01:52 RF00506 Thr_leader 1757 Threonine operon leader Bateman A Bateman A 55.00 56.50 54.80 At least 6 amino acid operons are known to be regulated by attenuation [1]. In each a leader sequence of 150-200 bp is found upstream of the first gene in the operon. This leader sequence can assume two different secondary structures known as the terminator and the anti-terminator structure. In each case the leader also codes for very short peptide sequence that is rich in the end product amino acid of the operon. The terminator structure is recognised as a termination signal for RNA polymerase and the operon is not transcribed. This structure forms when the cell has an excess of the regulatory amino acid and ribosome movement over the leader transcript is not impeded [1]. When there is a deficiency of the charged tRNA of the regulatory amino acid the ribosome translating the leader peptide stalls and the antiterminator structure can form. This allows RNA polymerase to transcribe the operon [1]. In the Rfam alignment the consensus structure is of the terminator. The alternative consensus structure is the antiterminator structure. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 25 174 0 0 Cis-reg; leader; Published; PMID:6186194 180 0 \N 0.53939 -7.63489 1600000 287172 228 118 1 -3.13730 0.71842 2013-10-04 00:51:57 2019-01-04 15:01:52 RF00507 Corona_FSE 1758 Coronavirus frameshifting stimulation element Moxon SJ, Nawrocki E, Ontiveros-Palacios N PMID:15680415 46.00 46.40 33.10 This family represents a conserved stem-loop found in Coronaviruses which can promote ribosomal frameshifting. This family interacts with a downstream region to form a pseudoknot structure, the region varies according to the virus but pseudoknot formation is known to stimulate frameshifting. In the classical situation a sequence 32nt downstream of the stem is complementary to part of the loop. In other Coronaviruses however, there is another stem loop structure around 150nt downstream that can interact with this family to form kissing stem loops and stimulate frameshifting [1]. The structure of coronavirus frameshifting has been reported in PDB 6XRZ [2]. Revised in 2020-2021 to expand the seed alignment. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 50 156 0 0 Cis-reg; frameshift_element; Published; PMID:15680415 87 0 \N 0.65017 -4.75871 1600000 291300 155 78 1 -3.37210 0.71875 2013-10-04 00:52:14 2022-10-29 16:55:17 RF00509 snosnR64 1759 Small nucleolar RNA snR64 Moxon SJ Moxon SJ, INFERNAL 38.00 43.20 37.00 snR64 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 42 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Daub J 47 0 \N 0.47007 -10.81060 1600000 289243 202 106 0 -3.31830 0.71815 2013-10-04 00:52:17 2021-07-05 13:43:57 RF00510 Tombus_IRE 1760 Tombusvirus internal replication element (IRE) Moxon SJ PMID:15795270 45.00 64.80 33.10 This family represents the Tombusvirus internal replication element (IRE) which is located within the region coding for p92 polymerase. The element is essential for viral replication and is thought to be required at an early stage of this process such as template recruitment and/or replicase complex assembly [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 23 2 0 0 Cis-reg; Predicted; PFOLD 10 0 \N 0.64184 -2.97537 1600000 224392 188 94 1 -3.38580 0.71875 2013-10-04 00:52:19 2019-01-04 15:01:52 RF00511 IRES_KSHV 2532 Kaposi's sarcoma-associated herpesvirus internal ribosome entry site Moxon SJ Published; 11160685, INFERNAL 100.00 317.10 30.10 This family represents the Kaposi's sarcoma-associated herpesvirus (KSHV) internal ribosome entry site (IRES) present in the vCyclin gene. The vCyclin and vFLIP coding sequences are present on a bicistronic transcript and it is thought the IRES may initiate translation of vFLIP from this bicistronic transcript [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 1 0 0 Cis-reg; IRES; Published; PMID:11160685 2 0 \N 0.69307 -8.84376 1600000 406567 393 248 1 -3.74860 0.70856 2013-10-04 00:52:21 2019-01-04 15:01:52 RF00512 Leu_leader 1762 Leucine operon leader Bateman A Bateman A 50.00 51.20 47.40 At least 6 amino acid operons are known to be regulated by attenuation [1]. In each a leader sequence of 150-200 bp is found upstream of the first gene in the operon. This leader sequence can assume two different secondary structures known as the terminator and the anti-terminator structure. In each case the leader also codes for very short peptide sequence that is rich in the end product amino acid of the operon. The terminator structure is recognised as a termination signal for RNA polymerase and the operon is not transcribed. This structure forms when the cell has an excess of the regulatory amino acid and ribosome movement over the leader transcript is not impeded [1]. When there is a deficiency of the charged tRNA of the regulatory amino acid the ribosome translating the leader peptide stalls and the antiterminator structure can form. This allows RNA polymerase to transcribe the operon [1]. In the Rfam alignment the consensus structure is of the terminator. The alternative consensus structure is the antiterminator structure. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 112 0 0 Cis-reg; leader; Published; PMID:6186194 112 0 \N 0.59617 -6.36098 1600000 266061 258 148 1 -3.67640 0.71825 2013-10-04 00:52:27 2019-01-04 15:01:52 RF00513 Trp_leader 1763 Tryptophan operon leader Bateman A Bateman A 41.00 41.40 40.80 At least 6 amino acid operons are known to be regulated by attenuation [1]. In each a leader sequence of 150-200 bp is found upstream of the first gene in the operon. This leader sequence can assume two different secondary structures known as the terminator and the anti-terminator structure. In each case the leader also codes for very short peptide sequence that is rich in the end product amino acid of the operon. The terminator structure is recognised as a termination signal for RNA polymerase and the operon is not transcribed. This structure forms when the cell has an excess of the regulatory amino acid and ribosome movement over the leader transcript is not impeded [1]. When there is a deficiency of the charged tRNA of the regulatory amino acid the ribosome translating the leader peptide stalls and the antiterminator structure can form. This allows RNA polymerase to transcribe the operon [1]. In the Rfam alignment the consensus structure is of the terminator structure. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 22 165 0 0 Cis-reg; leader; Published; PMID:6186194 176 0 \N 0.60851 -4.92012 1600000 239255 218 100 1 -2.94110 0.71855 2013-10-04 00:52:33 2019-01-04 15:01:52 RF00514 His_leader 1257 Histidine operon leader Bateman A Bateman A 49.00 49.10 48.90 At least 6 amino acid operons are known to be regulated by attenuation [1]. In each a leader sequence of 150-200 bp is found upstream of the first gene in the operon. This leader sequence can assume two different secondary structures known as the terminator and the anti-terminator structure. In each case the leader also codes for very short peptide sequence that is rich in the end product amino acid of the operon. The terminator structure is recognised as a termination signal for RNA polymerase and the operon is not transcribed. This structure forms when the cell has an excess of the regulatory amino acid and ribosome movement over the leader transcript is not impeded [1]. When there is a deficiency of the charged tRNA of the regulatory amino acid the ribosome translating the leader peptide stalls and the antiterminator structure can form. This allows RNA polymerase to transcribe the operon [1]. In the Rfam alignment the consensus structure is of the terminator structure. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 33 257 0 0 Cis-reg; leader; Published; PMID:6186194 262 0 \N 0.47851 -10.18713 1600000 361806 234 127 1 -2.68250 0.71851 2013-02-01 11:57:40 2019-01-04 15:01:52 RF00515 PyrR 1764 PyrR binding site Bateman A Bateman A 54.00 54.00 53.90 This family represents the PyrR binding site and terminator structure. This RNA structure is found upstream of a variety of genes involved in pyrimidine biosynthesis and transport. The alignment also includes a portion of the antiterminator structure. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.78 -Z 549862.597050 CM SEQDB 41 1160 0 0 Cis-reg; Published; PMID:11726695 734 0 \N 0.40827 -11.16586 1600000 343240 429 126 1 -2.99470 0.71834 2013-10-04 00:52:54 2019-01-04 15:01:52 RF00516 ylbH 1765 ylbH leader Barrick JE, Breaker RR Barrick JE 50.00 55.00 49.40 This family is a putative regulatory RNA structure that is found upstream of the ylbH gene in B. subtilis and related low GC Gram-positive bacteria. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 233 0 0 Cis-reg; leader; Predicted; Barrick JE 234 0 \N 0.58346 -8.48169 1600000 319010 330 122 1 -3.15720 0.71827 2013-10-04 00:53:03 2019-01-04 15:01:52 RF00517 serC 1766 serC leader Barrick JE Barrick JE 35.00 35.90 34.40 This family is a putative regulatory RNA structure that is found upstream of the serC-serA operon in some alpha-proteobacteria. The final stem of the structure overlaps the ribosome binding site of the serC reading frame. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 70 557 0 0 Cis-reg; leader; Predicted; Barrick JE 563 0 \N 0.60336 -8.68544 1600000 595667 117 52 1 -4.37480 0.71930 2013-10-04 00:53:11 2019-01-04 15:01:52 RF00518 speF 1767 speF leader Barrick JE, Eberhardt R Predicted; ClustalW 37.00 37.80 33.60 This family is a putative regulatory RNA structure that is found upstream of the speF gene encoding ornithine decarboxylase in Agrobacterium tumefaciens and other alpha-proteobacteria. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 222 0 0 Cis-reg; leader; Predicted; RNAalifold 227 0 \N 0.65202 -9.20724 1600000 416399 263 153 1 -3.34310 0.71798 2013-10-04 00:53:16 2019-01-04 15:01:52 RF00519 suhB 1768 Makes More Granules Regulator RNA (mmgR) Barrick JE Barrick JE 41.00 41.00 40.70 SuhB later renamed mmgR (makes more granules regulator) was a putative non-coding RNA found multiple times in the Agrobacterium tumefaciens genome and related alpha-proteobacteria. [1] Other non-coding RNAs uncovered in the same analysis include: speF, ybhL, metA, and serC. [1]Several studies inSinorhizobium meliloti showed that suhB element is indeed a non-coding RNA:firstly it was detected on Northern blot and called Sm8RNA[2], secondly in an RNAseq study referred to as SmelC689.[3]The mutant phenotype's (strain lacking the small RNA) cytoplasm contains higher content of polyhydroxybutyrate (PBH)storage granules than wild type strain. The sRNA is required to limit the PBH intracellular accumulation when the nitrogen-fixing Sinorhizobium meliloti is under condition of surplus carbon in relation to nitrogen. It has been renamed to mmgR. Further study confirmed that mmgR fine-tunes the regulation of PBH storage.[4]Northern blot confirmed the expression of the sRNA in other rhizobia species. MmgR homologues were found in most alpha-proteobacteria. The Rho-independent terminator and a single stranded region 10-mer (UUUCCUCCCU)are completely conserved. Hence, it was proposed to define a new family of alpha-proteobacterial sRNA: alpha-r8 of which mmgR is a member.[5] RNA binding protein Hfq is binding and stabilising mmgR.[6][7] Expression of the mmgR gene was shown to be controlled by nitrogen (N).[8] Further study[9] has shown that the regulatory proteins NtrC may be required for expression of mmgR gene upon N limitation. Under carbon (C) limitation, mmgR transcription is repressed by AntiA.[9] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.00 -Z 549862.597050 CM SEQDB 87 940 0 0 Gene; sRNA; Predicted; Barrick JE 501 0 \N 0.59829 -6.72824 1600000 268107 140 77 1 -3.39270 0.71873 2013-10-04 00:53:19 2021-07-05 13:43:57 RF00520 ybhL 1258 ybhL leader Barrick JE Barrick JE 50.00 52.00 35.30 This family is a putative regulatory RNA structure that is found upstream of an uncharacterized membrane protein in alpha-proteobacteria. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 81 0 0 Cis-reg; leader; Predicted; Barrick JE 82 0 \N 0.49026 -7.51231 1600000 239783 172 77 1 -3.20600 0.71889 2013-02-01 11:57:43 2019-01-04 15:01:52 RF00521 SAM_alpha 1769 SAM riboswitch (alpha-proteobacteria) Barrick JE, Corbino KA, Breaker RR Barrick JE 36.00 36.00 35.90 This family is a riboswitch found predominantly in alpha-proteobacteria that binds S-adenosyl methionine (SAM). Its structure and sequence appear to be unrelated to the SAM riboswitch Rfam:RF00162 found in Gram-positive bacteria. This SAM riboswitch is located upstream of the metA and metC genes in Agrobacterium tumefaciens, and other methionine and SAM biosynthesis genes in other alpha-proteobacteria. Like the other SAM riboswitch, it probably functions to turn off expression of these genes in response to elevated SAM levels. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 40 800 0 0 Cis-reg; riboswitch; Predicted; Barrick JE 631 0 \N 0.61852 -6.39179 1600000 166258 161 79 1 -4.00020 0.71867 2013-10-04 00:55:11 2019-01-04 15:01:52 RF00522 PreQ1 1770 PreQ1 riboswitch Barrick JE, Breaker RR, Ontiveros-Palacios N Barrick JE 45.50 45.50 45.40 This family is a bacterial riboswitch that binds to the metabolite preQ1, an intermediate in the biosynthesis of the modified nucleoside queuosine from GTP. One example of this riboswitch is located in the leader of the Bacillus subtilis ykvJKLM (queCDEF) operon which encodes four genes necessary for queuosine production [1]. PreQ1 binding to the riboswitch aptamer is thought to induce premature transcription termination within the leader to down-regulate expression of these genes. The 3D structure of PreQ1 riboswitch was reported in PDB 2L1V [2]. Methylation activity was reported for PreQ1 riboswitch [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 36 362 0 0 Cis-reg; riboswitch; Predicted; Barrick JE 349 0 \N 0.61009 -6.42193 1600000 265666 200 45 1 -3.93670 0.72389 2013-10-04 00:55:22 2022-10-29 16:55:17 RF00523 Prion_pknot 1259 Prion pseudoknot Moxon SJ PMID:11160898 39.00 39.00 38.90 This family represents a predicted pseudoknot structure found in prion protein mRNA. It has been suggested that the family has a possible effect in prion protein translation [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 148 93 0 0 Cis-reg; Published; PMID:11160898 106 0 \N 0.52113 -10.23017 1600000 763647 103 40 1 -3.93840 0.71963 2013-02-01 11:57:46 2019-01-04 15:01:52 RF00524 R2_retro_el 1771 R2 RNA element Moxon SJ PMID:15146081 38.00 38.10 37.90 This family represents the 3' UTR region of the R2 retrotransposable element. This family is known to interact with the R2-encoded reverse transcriptase in a reaction known as target primed reverse transcription (TPRT) [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 15 1564 0 0 Cis-reg; Published; PMID:15146081 53 0 \N 0.55937 -9.30927 1600000 258422 373 212 1 -3.58650 0.71123 2013-10-04 00:55:52 2019-01-04 15:01:52 RF00525 Flavivirus_DB 1467 Flavivirus DB element Moxon SJ PMID:15956576 36.00 36.20 35.60 This family represents the flavivirus 3' UTR elements DB1 and DB2. These DB elements are thought to be required for efficient translation [1]. Flavivirus_DB1 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24 -Z 549862.597050 CM SEQDB 111 5 0 0 Cis-reg; Published; PMID:15956576 14 0 \N 0.61955 -5.20821 1600000 219131 148 72 1 -4.05760 0.71894 2013-10-04 00:55:58 2019-01-04 15:01:52 RF00526 snoMe28S-U3344 1772 Small nucleolar RNA Me28S-U3344 Moxon SJ PMID:15987805 50.00 51.60 38.30 Me28S-Um3344 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family directs 2'-O-methylation of 28S U-3344 [1]. snoMe28S-U3344a; sno28S-U3344a cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 37 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ, Daub J 19 0 \N 0.56862 -3.23509 1600000 175089 174 83 1 -3.57990 0.71852 2013-10-04 00:56:07 2019-01-04 15:01:52 RF00527 snoMe28S-G3255 1773 Small nucleolar RNA Me28S-Gm3255 Moxon SJ PMID:15987805 44.00 44.60 43.20 Me28S-Gm3255 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family directs 2'-O-methylation of 28S G-3255 [1]. snoMe28S-G3255a cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 19 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ, Daub J 16 0 \N 0.45545 -4.49702 1600000 215777 173 84 1 -3.45200 0.71860 2013-10-04 00:56:10 2021-07-05 13:43:57 RF00528 snoMe28S-Gm1083 1774 Small nucleolar RNA Me28S-Gm1083 Moxon SJ PMID:15987805, INFERNAL 48.00 67.40 37.80 Me28S-Gm1083 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family directs 2'-O-methylation of 28S G-1083 [1]. snoMe28S-Gm1083a cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 68 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Daub J 16 0 \N 0.58862 -3.66208 1600000 195565 184 89 1 -3.73370 0.71846 2013-10-04 00:56:12 2019-01-04 15:01:52 RF00529 snoMe28S-Am2589 1775 Small nucleolar RNA Me28S-Am2589 Moxon SJ PMID:15987805 37.00 37.40 36.60 Me28S-Am2589 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family directs 2'-O-methylation of 28S A-2589 [1]. snoMe28S-Am2589a cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 94 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ, Daub J 48 0 \N 0.52203 -4.64279 1600000 268986 204 109 1 -3.39670 0.71816 2013-10-04 00:56:15 2019-01-04 15:01:52 RF00530 snoMe28S-Cm2645 1776 Small nucleolar RNA Me28S-Cm2645 Moxon SJ PMID:15987805 48.00 48.60 46.70 Me28S-Cm2645 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family directs 2'-O-methylation of 28S C-2645 [1]. snoMe28S-Cm2645a cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 56 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Moxon SJ, Daub J 24 0 \N 0.62600 -3.39711 1600000 210712 160 75 1 -3.79960 0.71866 2013-10-04 00:56:17 2019-01-04 15:01:52 RF00531 snoMe28S-Gm3113 1777 Small nucleolar RNA Me28S-Gm3113 Moxon SJ PMID:15987805 70.00 72.50 38.40 Me28S-Gm3113 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family directs 2'-O-methylation of 28S G-3113 [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 15 23 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; ILM; Moxon SJ, Daub J 15 0 \N 0.57011 -3.61655 1600000 208470 171 85 1 -3.90450 0.71848 2013-10-04 00:56:19 2019-01-04 15:01:52 RF00532 snoMe18S-Um1356 1778 Small nucleolar RNA Me18S-Um1356 Moxon SJ PMID:15987805 50.00 53.50 46.90 Me18S-Um1356 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family directs 2'-O-methylation of 18S U-1356 [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.74 -Z 549862.597050 CM SEQDB 21 41 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; ILM; Moxon SJ 19 0 \N 0.50108 -4.27967 1600000 200158 172 86 1 -3.57100 0.71846 2013-10-04 00:56:22 2021-07-05 13:43:57 RF00533 snoMe18S-Gm1358 1779 Small nucleolar RNA Me18S-Gm1358 Moxon SJ PMID:15987805 50.00 50.50 44.80 Me18S-Gm1358 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family directs 2'-O-methylation of 18S G-1358 [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.64 -Z 549862.597050 CM SEQDB 12 24 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Daub J 16 0 \N 0.58746 -4.13067 1600000 206153 167 79 1 -3.79060 0.71856 2013-10-04 00:56:29 2019-01-04 15:01:52 RF00534 SgrS 1780 SgrS RNA Moxon SJ, Daub J Published;PMID:17383224 37.00 38.40 36.80 In sugar transport-related sRNA (SgrS) is induced under conditions of glucose phosphate stress in E.coli. This small RNA acts to negatively regulate the translation and stability of the ptsG mRNA, which encodes the major glucose transporter in E. coli [2]. SgrS forms a specific ribonucleoprotein complex with RNAse E and the chaperone Hfq and acts by base pairing with the ptsG mRNA. The crucial base-pairs for action of SgrS are confined to the 6 nt region overlapping the Shine-Dalgarno sequence of the ptsG mRNA [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 49 0 0 Gene; antisense; Predicted; RNAalifold 52 0 \N 0.69937 -8.67908 1600000 353128 460 232 1 -3.60610 0.70984 2013-10-04 00:56:34 2019-01-04 15:01:52 RF00535 snoMe28S-Am982 1781 Small nucleolar RNA Me28S-Am982 Moxon SJ PMID:15987805 49.00 49.10 47.90 Me28S-Am982 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family directs 2'-O-methylation of 28S A-982 [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 47 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Daub J 42 0 \N 0.52867 -5.19394 1600000 202298 165 80 1 -3.71260 0.71859 2013-10-04 00:56:37 2021-07-05 13:43:57 RF00536 snoMe28S-Cm3227 1782 Small nucleolar RNA Me28S-Cm3227 Moxon SJ PMID:15987805; INFERNAL 43.00 43.30 42.60 Me28S-Cm3227 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family directs 2'-O-methylation of 28S C-3227 [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 32 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Daub J 18 0 \N 0.50327 -4.78965 1600000 221910 175 82 1 -3.58910 0.71855 2013-10-04 00:56:41 2019-01-04 15:01:52 RF00537 snoMe28S-Am2634 1783 Small nucleolar RNA Me28S-Am2634 Moxon SJ PMID:15987805 50.00 58.10 41.60 Me28S-Am2634 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family directs 2'-O-methylation of 28S A-2634 [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 18 30 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; ILM; Daub J 15 0 \N 0.53781 -4.36785 1600000 221203 188 97 1 -3.29290 0.71831 2013-10-04 00:56:44 2019-01-04 15:01:52 RF00538 snoCD11 1784 Small nucleolar RNA CD11 Moxon SJ PMID:15987805 60.00 67.60 38.10 CD11 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 26 33 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; ILM; Daub J 17 0 \N 0.60908 -2.94118 1600000 183695 158 75 1 -4.06500 0.71873 2013-10-04 00:56:49 2019-01-04 15:01:52 RF00539 snoMe28S-Cm788 1785 Small nucleolar RNA Me28S-Cm788 Moxon SJ PMID:15987805 45.00 46.00 39.00 Me28S-Cm788 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family directs 2'-O-methylation of 28S C-788 [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32 -Z 549862.597050 CM SEQDB 5 19 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; ILM; Daub J 13 0 \N 0.47208 -4.77410 1600000 224285 162 74 1 -3.66490 0.71863 2013-10-04 00:56:52 2019-01-04 15:01:52 RF00540 snopsi18S-1854 1786 Small nucleolar RNA psi18S-1854 Moxon SJ Moxon SJ, INFERNAL 40.00 43.00 36.20 psi18S-1854 is a member of the H/ACA class of snoRNA. This family is responsible for guiding the modification of uridines 1854 and 1937 to pseudouridine in Drosophila 18S rRNA [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 16 45 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; ILM; Moxon SJ 23 0 \N 0.46287 -8.85171 1600000 285724 293 156 1 -2.98730 0.71768 2013-10-04 00:56:59 2019-01-04 15:01:52 RF00541 snopsi28S-2876 1787 Small nucleolar RNA psi28S-2876 Moxon SJ Moxon SJ 100.00 127.80 38.00 psi28S-2876 is a member of the H/ACA class of snoRNA. This family is responsible for guiding the modification of uridines 2876 and 2956 to pseudouridine in Drosophila 28S rRNA [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 8 13 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; PFOLD; Moxon SJ 12 0 \N 0.50380 -9.44766 1600000 350832 283 143 1 -3.19580 0.71812 2013-10-04 00:57:04 2019-01-04 15:01:52 RF00542 snopsi28S-1192 1788 Small nucleolar RNA psi28S-1192 Moxon SJ Moxon SJ, INFERNAL 44.00 44.50 41.00 psi28S-1192 is a member of the H/ACA class of snoRNA. This family is responsible for guiding the modification of uridine 1192 to pseudouridine in Drosophila 28S rRNA [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26 -Z 549862.597050 CM SEQDB 15 65 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; ILM; Moxon SJ 29 0 \N 0.52385 -7.24163 1600000 277148 255 138 1 -3.45370 0.71819 2013-10-04 00:57:08 2019-01-04 15:01:52 RF00543 snopsi18S-1377 1789 Small nucleolar RNA psi18S-1377 Moxon SJ Moxon SJ, INFERNAL 48.00 48.10 44.20 psi18S-1377 is a member of the H/ACA class of snoRNA. This family is responsible for guiding the modification of uridines 1377 and 1279 to pseudouridine in Drosophila 18S rRNA [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 15 78 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 26 0 \N 0.52526 -7.71382 1600000 208229 250 140 1 -3.03380 0.71811 2013-10-04 00:57:13 2019-01-04 15:01:52 RF00544 snopsi28S-3327 1790 Small nucleolar RNA psi28S-3327 Moxon SJ Moxon SJ, INFERNAL 70.00 78.80 48.00 psi28S-3327 is a member of the H/ACA class of snoRNA. This family is responsible for guiding the modification of uridine 3327 in Drosophila 28S and U1920 in Drosophila 18S rRNA to pseudouridine [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 39 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAFOLD; Moxon SJ 21 0 \N 0.52375 -8.02917 1600000 283321 257 143 1 -3.12040 0.71811 2013-10-04 00:57:16 2019-01-04 15:01:52 RF00545 snopsi18S-841 2399 Small nucleolar RNA psi18S-841/snoR66 Moxon SJ Moxon SJ 50.00 54.70 41.90 psi18S-841 is a member of the H/ACA class of snoRNA. This family is responsible for guiding the modification of uridine 841 in Drosophila 18S rRNA to pseudouridine [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20 -Z 549862.597050 CM SEQDB 24 59 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAFOLD; Moxon SJ 28 0 \N 0.52276 -7.66619 1600000 236227 252 145 1 -3.20280 0.71824 2013-10-04 00:57:20 2019-01-04 15:01:52 RF00546 snopsi28S-3316 1792 Small nucleolar RNA psi28S-3316 Moxon SJ Moxon SJ 65.00 67.30 48.50 psi28S-3316 is a member of the H/ACA class of snoRNA. This family is responsible for guiding the modification of uridine 3316 in Drosophila 28S rRNA to pseudouridine [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24 -Z 549862.597050 CM SEQDB 33 50 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAFOLD; Moxon SJ 14 0 \N 0.51571 -7.57536 1600000 254471 236 133 1 -3.03860 0.71817 2013-10-04 00:57:28 2019-01-04 15:01:52 RF00547 IRES_TrkB 1793 TrkB IRES Moxon SJ PMID:15908588; INFERNAL 40.00 43.60 38.20 This family represents the TrkB internal ribosome entry site (IRES) which is present in the 5' leader sequence of the mRNA. TrkB is a neurotrophin receptor which is essential for the development and maintenance of the nervous system. The IRES element allows cap-independent translation of TrkB which may be needed for efficient translation in neuronal dendrites [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 42 0 0 Cis-reg; IRES; Predicted; RNAFOLD 39 0 \N 0.67280 -8.86678 1600000 386093 498 352 1 -3.73000 0.70414 2013-10-04 00:57:32 2019-01-04 15:01:52 RF00548 U11 1794 U11 spliceosomal RNA Griffiths-Jones S, Gardner PP, Marz M Griffiths-Jones S; PMID:18390578 39.00 39.10 38.90 The U11 small nuclear (snRNA), together with U4atac/U6atac, U5, and U12 snRNAs and associated proteins, forms a spliceosome that cleaves a divergent class of low-abundance pre-mRNA introns. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 72 682 0 0 Gene; snRNA; splicing; Published; PMID:15210936 343 0 \N 0.50524 -9.70921 1600000 325233 1090 137 1 -3.57620 0.71812 2013-10-04 00:57:35 2021-07-05 13:43:57 RF00549 IRES_c-sis 1795 c-sis internal ribosome entry site (IRES) Moxon SJ Published; 10409733 31.00 31.80 22.90 This family represents the c-sis 5'-UTR which contains three modules that can individually mediate internal ribosome entry. However, the full length sequence is required for maximal IRES activity. It is thought that the three IRES elements are somehow responsive to cellular changes and act to regulate the level of translation [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 35 0 0 Cis-reg; IRES; Predicted; ILM; Moxon SJ 33 0 \N 0.63775 -9.40826 1600000 328524 830 621 1 -4.55910 0.69933 2013-10-04 00:57:39 2019-01-04 15:01:52 RF00550 HepE_CRE 1796 Hepatitis E virus cis-reactive element Moxon SJ PMID:15890906 45.00 45.70 39.60 This family represents a cis-reactive element from Hepatitis E virus which is thought to be essential for "some step in gene expression" [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 46 1 0 0 Cis-reg; Published; PMID:15890906 3 0 \N 0.51468 -9.10578 1600000 329248 265 150 1 -3.34110 0.71802 2013-10-04 00:57:44 2019-01-04 15:01:52 RF00551 bicoid_3 1797 Bicoid 3'-UTR regulatory element Moxon SJ PMID:15016447 91.00 95.50 48.60 This family represents the core structure of the bicoid 3'-UTR and consists of domains II, III, IV and V which are known to be essential for correct transport and localisation of bicoid mRNA during oocyte and embryo differentiation [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 15 10 0 0 Cis-reg; Published; PMID:15016447 16 0 \N 0.59787 -9.81822 1600000 339252 753 547 1 -4.51660 0.70016 2013-10-04 00:57:46 2019-01-04 15:01:52 RF00552 rncO 1798 rncO Moxon SJ PMID:8972772 43.00 43.50 42.00 This family represents a bacterial regulatory element (rncO) found in the rnc leader sequence. The rnc operon is negatively auto-regulated by transcript stability. rnc, the first gene in the operon codes for RNase III which cleaves the long rncO stem II leading to transcript degradation and a reduction in translation [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 18 119 0 0 Cis-reg; Published; PMID:8972772 131 0 \N 0.58649 -8.81493 1600000 277225 340 214 1 -3.67000 0.71102 2013-10-04 00:57:48 2019-01-04 15:01:52 RF00553 SCARNA1 1799 Small Cajal body specific RNA 1 Marantidis E, Daub J Marantidis E, INFERNAL 45.00 45.90 40.60 scaRNAs are a specific class of small nuclear RNAs which localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12 [1]. ACA35 belong to the H/ACA box class of guide RNAs as it has the predicted hairpin-hinge-hairpin-tail structure, conserved H/ACA-box motifs and is found associated with GAR1 [2]. It is predicted to guide pseudouridylation of the U2 spliceosomal snRNA at residue U89 [2]. snoACA35 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 29 131 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAalifold 110 0 \N 0.48872 -8.76210 1600000 335772 281 166 1 -3.09760 0.71621 2013-10-04 00:57:51 2019-01-04 15:01:52 RF00554 SNORA48 1800 Small nucleolar RNA SNORA48 Marantidis E Marantidis E, INFERNAL 50.00 50.00 49.90 The snoRNA ACA 48 has been identified to guide pseudouridylation of the residue U3797 in the 28S rRNA subunit. Its host gene EIF4A1 (eukaryotic translation initiation factor 4A1) is shared with U67 and snoRNA mgU6-77 snoACA48 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 24 1003 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 44 0 \N 0.56419 -8.23452 1600000 287244 253 135 1 -3.38120 0.71816 2013-10-04 00:58:02 2019-01-04 15:01:52 RF00555 L13_leader 1801 Ribosomal protein L13 leader Barrick JE Predicted; Barrick JE, CMFinder 44.00 44.30 43.40 This family is a putative r-protein leader autoregulatory structure [1] found in B. subtilis and other low-GC Gram-positive bacteria. It is located in the 5' untranslated regions of mRNAs encoding the L13-S9 (rplM-rpsI) ribosomal protein operon. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 26 267 0 0 Cis-reg; leader; Predicted; Barrick JE, CMFinder 279 0 \N 0.51535 -5.43747 1600000 392620 351 60 1 -3.65120 0.71919 2013-10-04 00:58:12 2019-01-04 15:01:52 RF00556 L19_leader 1802 Ribosomal protein L19 leader Barrick JE Barrick JE, CMFinder 36.00 36.30 35.80 This family is a putative r-protein leader autoregulatory structure [1] found in B. subtilis and other low-GC Gram-positive bacteria. It is located in the 5' untranslated regions of mRNAs encoding ribosomal protein L19 (rplS). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.00 -Z 549862.597050 CM SEQDB 10 166 0 0 Cis-reg; leader; Predicted; Barrick JE, CMFinder 168 0 \N 0.65613 -4.50849 1600000 394306 108 42 1 -3.17400 0.73071 2013-10-04 00:58:17 2019-01-04 15:01:52 RF00557 L10_leader 1803 Ribosomal protein L10 leader Barrick JE Predicted; CMFinder, Barrick JE, Moy RH 44.00 44.10 43.90 This family is a putative r-protein leader autoregulatory structure [1] found in B. subtilis and other low-GC Gram-positive bacteria. It is located in the 5' untranslated regions of mRNAs encoding ribosomal proteins L10 and L12 (rplJ-rplL). A Rho-independent transcription terminator structure that is probably involved in regulation is included at the 3' end. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 97 1615 0 0 Cis-reg; leader; Predicted; CMFinder, Barrick JE, Moy RH 1652 0 \N 0.44622 -11.49083 1600000 341928 440 139 1 -3.37340 0.71804 2013-10-04 00:58:27 2019-01-04 15:01:52 RF00558 L20_leader 1804 Ribosomal protein L20 leader Barrick JE Predicted; CMFinder, Barrick JE, Moy RH 58.70 58.70 58.60 This family is a putative r-protein leader autoregulatory structure [1] found in B. subtilis and other low-GC Gram-positive bacteria. It is located in the 5' untranslated regions of mRNAs encoding initiation factor 3 followed by ribosomal proteins L35 and L20 (infC-rpmI-rplT). A Rho-independent transcription terminator structure that is probably involved in regulation is included at the 3' end. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 49.00 -Z 742849.287494 CM SEQDB 43 484 0 0 Cis-reg; leader; Predicted; CMFinder, Barrick JE, Moy RH 526 0 \N 0.56744 -6.80688 1600000 308304 221 127 1 -2.95250 0.71828 2013-10-04 00:58:38 2022-10-29 16:55:17 RF00559 L21_leader 1805 Ribosomal protein L21 leader Barrick JE, Moy RH Predicted; CMFinder, Barrick JE, Moy RH 36.00 36.10 35.70 This family is a putative r-protein leader autoregulatory structure [1] found in B. subtilis and other low-GC Gram-positive bacteria. It is located in the 5' untranslated regions of mRNAs encoding ribosomal protein L21, a protein of unknown function, and ribosomal protein L27 (rplU-ysxB-rpmA). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 38 635 0 0 Cis-reg; leader; Predicted; CMFinder, Barrick JE, Moy RH 648 0 \N 0.58853 -3.89232 1600000 178102 371 78 1 -3.27650 0.71882 2013-10-04 00:58:49 2019-01-04 15:01:52 RF00560 SNORA17 1806 Small nucleolar RNA SNORA17 Marantidis E Marantidis E, INFERNAL 29.00 29.10 28.90 snoRNA ACA 17 belongs to the H/ACA family of snoRNAs and is predicted to guide pseudouridylation of the 28S rRNA at positions U4659 and U4598. It shares the same host gene together with ACA43. NB This family has a high threshold value to exclude a large number of closely related sequences that do not appear to have conserved H and ACA boxes, and may be pseudogenes. snoACA17 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 53 1690 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 139 0 \N 0.54019 -8.27273 1600000 261711 245 132 1 -3.40680 0.71830 2013-10-04 00:58:56 2019-01-04 15:01:52 RF00561 SNORA40 1807 Small nucleolar RNA SNORA40 Marantidis E Marantidis E, INFERNAL 51.00 51.00 50.80 The snoRNA ACA 40 belongs to the H/ACA family of snoRNAs and guides the pseudouridylation of 28S rRNA subunit at position U4565. NB This family has a high threshold value to exclude a large number of closely related sequences that do not appear to have conserved H and ACA boxes, and may be pseudogenes. snoACA40 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 28 823 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 104 0 \N 0.52694 -7.24203 1600000 293213 233 128 1 -3.04540 0.71827 2013-10-04 00:59:11 2019-01-04 15:01:52 RF00562 SNORA49 1808 Small nucleolar RNA SNORA49 Marantidis E Marantidis E, INFERNAL 35.00 35.90 33.80 The snoRNA ACA49 has no identified RNA target. NB genomic sequence 1-nt different from published. snoACA49 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22 -Z 549862.597050 CM SEQDB 21 132 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 101 0 \N 0.55245 -8.25018 1600000 264764 241 133 1 -3.29730 0.71827 2013-10-04 00:59:18 2019-01-04 15:01:52 RF00563 SNORA53 1809 Small nucleolar RNA SNORA53 Marantidis E Marantidis E, INFERNAL 38.00 38.40 37.90 The snoRNA ACA53 belongs to the H/ACA family of pseudouridylation guide snoRNAs. RNA residues targeted for pseudouridylation by this molecule have not been identified. n.b: The GenBank accession number for 'Homo sapiens snoRNA ACA53 gene' (AJ609478) corresponds to a portion of snoRNA ACA24. snoACA53 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 28 189 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 159 0 \N 0.62809 -8.48589 1600000 329811 375 248 1 -3.74680 0.70869 2013-10-04 00:59:24 2019-01-04 15:01:52 RF00564 SCARNA11 1810 Small Cajal body specific RNA 11 Marantidis E, Daub J Marantidis E, INFERNAL 37.00 37.20 35.00 scaRNAs are a specific class of small nuclear RNAs which localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12 [1]. ACA57 belongs to the H/ACA box class of guide RNAs as it has the predicted hairpin-hinge-hairpin-tail structure, conserved H/ACA-box motifs and is found associated with GAR1 [1]. ACA57 is predicted to guide the pseudouridylation of the U5 spliceosomal RNA at position U43 [2]. snoACA57 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19 -Z 549862.597050 CM SEQDB 24 184 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAalifold 103 0 \N 0.55768 -7.38885 1600000 210505 247 140 1 -3.33450 0.71826 2013-10-04 00:59:27 2019-01-04 15:01:52 RF00565 SCARNA3 1811 Small Cajal body specific RNA 3 Marantidis E, Daub J Marantidis E, INFERNAL 47.00 48.10 45.30 scaRNAs are a specific class of small nuclear RNAs which localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12 [1]. This family includes the mouse H/ACA-box snoRNAs MBI-100 and MBI-114 identified in [2]. Both MBI-100 and MBI-114 are predicted to guide the pseudouridylation of position U40 in the U6 snRNA [2]. SCARNA25; snoHBI-100 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22 -Z 549862.597050 CM SEQDB 23 136 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAalifold 100 0 \N 0.56250 -6.72005 1600000 202698 247 141 1 -3.53510 0.71819 2013-10-04 00:59:37 2021-07-05 13:43:57 RF00566 SNORA35 1812 Small nucleolar RNA SNORA35 Marantidis E Marantidis E, INFERNAL 39.00 39.20 38.80 The snoRNA HBI-36 snoRNA belongs to the H/ACA family of snoRNAs and is specifically expressed in the brain, specifically in the choroids plexus. No RNA target has been identified. snoHBI-36 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19 -Z 549862.597050 CM SEQDB 29 162 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 115 0 \N 0.54500 -8.11877 1600000 317598 224 129 1 -3.28980 0.71828 2013-10-04 00:59:42 2019-01-04 15:01:52 RF00567 SNORD17 1813 Small nucleolar RNA SNORD17 Marantidis E Marantidis E, INFERNAL 45.00 51.20 40.60 The snoRNA HBI-43 belongs to the C/D family of snoRNAs, guiding 2'O-ribose methylation at position U3797 of the 28S rRNA. Pseudouridylation in position U3797 is predicted to be guided by the H/ACA snoRNA ACA48. snoHBI-43 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 19 152 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold 96 0 \N 0.61410 -10.14070 1600000 508432 368 238 1 -3.53110 0.70938 2013-10-04 00:59:59 2019-01-04 15:01:52 RF00568 SNORA26 1814 Small nucleolar RNA SNORA26 Marantidis E Marantidis E, INFERNAL 40.00 40.60 39.90 The snoRNA HBI-6 belong to the H/ACA family of snoRNAs, guiding the pseudouridylation of position U4522 if the 28S rRNA. HBI-6 is the human orthologue of mouse MBI-6 snoRNA. snoHBI-6 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 76 408 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 118 0 \N 0.52757 -6.77375 1600000 246558 247 122 1 -3.06960 0.71829 2013-10-04 01:00:02 2019-01-04 15:01:52 RF00569 SNORD19 1815 Small nucleolar RNA SNORD19 Marantidis E Marantidis E, INFERNAL 35.00 35.00 34.80 Homo sapiens C/D box snoRNA HBII-108: This snoRNA is the human orthologue of the mouse MBII-108 and is predicted to guide 2'O-ribose methylation of the small 18S rRNA on position G683. snoRNA HBII-108 is encoded in a nucleostemin (NS) gene intron like the HBII-210 snoHBII-108 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24 -Z 549862.597050 CM SEQDB 22 227 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold_manual; Daub J 109 0 \N 0.57658 -3.74824 1600000 180921 160 76 1 -3.52660 0.71865 2013-10-04 01:00:07 2019-01-04 15:01:52 RF00570 SNORD64 1816 Small Nucleolar RNA SNORD64 Marantidis E Marantidis E, INFERNAL 40.00 41.30 39.20 The human snoRNA HBII-13 belongs to the C/D family of snoRNAs. It is expressed mainly in the brain, but is also in the lungs, the kidneys and muscle. HBII-13 snoRNA has no identified RNA target and is encoded together with HBII-436, HBII-437, HBII-438A/B and the clusters of HBII-85, HBII-52 snoRNA in a 460 kb intron of the large, paternally expressed, transcription unit (SNURF-SNRNP-UBE3A AS). This is antisense to maternally expressed UBE3A gene (Runt et al., 2001). snoHBII-13 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 17 40 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold 35 0 \N 0.62264 -3.27653 1600000 285486 145 67 1 -3.45040 0.71900 2013-10-04 01:00:15 2019-01-04 15:01:52 RF00571 SNORD65 1817 Small nucleolar RNA SNORD65 Marantidis E Marantidis E, INFERNAL 41.00 41.70 40.60 snoRNA HBII-135 belongs to the CD family of snoRNAs. It is the human orthologue of the mouse MBII-135 snoRNA and is predicted to guide 2'O-ribose methylation of the small 18S rRNA at residue U627. snoHBII-135 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 26 200 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold 113 0 \N 0.58178 -8.21319 1600000 378071 153 73 0 -3.82600 0.71869 2013-10-04 01:00:17 2019-01-04 15:01:52 RF00572 SNORD66 1818 Small nucleolar RNA SNORD66 Marantidis E Marantidis E, INFERNAL 32.00 32.00 31.90 snoRNA HBII-142 is part of the C/D family of snoRNAs. It is the human orthologue of the mouse MBII-142 snoRNA and is predicted to guide 2'O-ribose methylation of small 18S rRNA at residue C1272. snoHBII-142 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 219 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold 109 0 \N 0.71977 -2.71802 1600000 250203 162 76 1 -3.88430 0.71866 2013-10-04 01:00:22 2019-01-04 15:01:52 RF00573 SNORD67 1819 Small nucleolar RNA SNORD67 Marantidis E Marantidis E, INFERNAL 35.00 35.00 34.60 snoRNA HBII-166 belongs to the C/D family of snoRNAs. It is the human orthologue of the mouse MBII-166 and is predicted to guide 2'O-ribose methylation of snRNA U6 at residue C60. snoHBII-166 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 15 139 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold_manual; Daub J 109 0 \N 0.64727 -4.55162 1600000 241227 211 111 1 -2.86850 0.71829 2013-10-04 01:00:27 2019-01-04 15:01:52 RF00574 SNORD69 1820 Small nucleolar RNA SNORD69 Marantidis E marantidis E, INFERNAL 37.00 38.30 35.80 snoRNA HBII-210 belongs to the C/D family of snoRNAs. It is the human orthologue of the mouse MBII-210 and is predicted to guide the 2'O-ribose methylation of large 28S rRNA on residue G4464. snoHBII-210 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27 -Z 549862.597050 CM SEQDB 11 93 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold_manual; Daub J 90 0 \N 0.57881 -3.91464 1600000 225222 167 77 1 -3.69840 0.71872 2013-10-04 01:00:29 2019-01-04 15:01:52 RF00575 SNORD70 1821 Small nucleolar RNA SNORD70 Marantidis E Marantidis E, INFERNAL 50.00 50.10 48.90 snoRNA HBII-234 belongs to the C/D family of snoRNAs. It is the human orthologue of the mouse MBII-234 and is predicted to guide 2'O-ribose methylation of the small 18S rRNA on position A512. It is hosted, together with HBII-95, by the core C/D box snoRNA protein encoding gene NOP5/NOP58. snoHBII-234 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 21 202 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold_manual; Daub J 112 0 \N 0.50727 -4.46705 1600000 204694 174 89 1 -3.38200 0.71859 2013-10-04 01:00:32 2019-01-04 15:01:52 RF00576 SNORD71 1822 Small nucleolar RNA SNORD71 Marantidis E Marantidis E, INFERNAL 34.00 34.00 33.80 snoRNA HBII-239 belongs to the family of C/D snoRNAs.It is the human orthologue of the mouse MBII-239 described and is predicted to guide 2'O-ribose methylation of 5.8S rRNA on residue U14. snoHBII-239 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 18 104 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 100 0 \N 0.64742 -3.58318 1600000 228533 177 86 1 -3.18080 0.71879 2013-10-04 01:00:36 2019-01-04 15:01:52 RF00577 SNORD72 1823 Small nucleolar RNA SNORD72 Marantidis E Marantidis E, INFERNAL 43.00 44.70 39.90 snoRNA HBII-240 belongs to the CD family of snoRNAs. It is the human orthologue of the mouse MBII-240 and is predicted to guide 2'O-ribose methylation of the large 28S rRNA at residue U4590. snoHBII-240 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 113 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold_manual; Daub J 87 0 \N 0.50827 -3.87659 1600000 199949 168 80 1 -3.57750 0.71860 2013-10-04 01:00:37 2019-01-04 15:01:52 RF00578 SNORD89 1824 Small nucleolar RNA SNORD89 Marantidis E marantidis E. 41.00 42.00 39.70 snoRNA HBII-289 belongs to the family of C/D snoRNAs. It is the human orthologue of the mouse MBII-289 and has no identified RNA target. snoHBII-289 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 18 113 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold 105 0 \N 0.58829 -5.17890 1600000 236614 218 114 1 -3.04840 0.71846 2013-10-04 01:00:43 2019-01-04 15:01:52 RF00579 SNORD90 1825 Small nucleolar RNA SNORD90 Marantidis E Marantidis E, INFERNAL 41.00 41.90 39.00 snoRNA HBII-295 belongs to the family of C/D snoRNAs. It is the human orthologue of the mouse MBII-295 and has no identified RNA target. snoHBII-295 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 18 97 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold 100 0 \N 0.54989 -3.50080 1600000 202798 213 111 1 -3.19770 0.71836 2013-10-04 01:00:48 2019-01-04 15:01:52 RF00580 SNORD91 1264 Small nucleolar RNA SNORD91 family Marantidis E, Daub J Marantidis E, INFERNAL 51.00 53.30 50.90 The members of this family belong to the C/D class of snoRNAs which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. This family includes HBII-296A (SNORD91A) and HBII-296B (SNORD91B). They are close paralogues and share the same host gene (FLJ10534). Both snoRNAs and are predicted to guide 2'O-ribose methylation of the large 28S rRNA at position G4588 [3]. snoHBII-296A cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 24 168 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold_manual; Daub J 93 0 \N 0.56842 -3.53605 1600000 186879 186 95 1 -3.64650 0.71843 2013-10-04 01:00:50 2019-01-04 15:01:52 RF00581 SNORD12 2400 Small nucleolar SNORD12/SNORD106 Marantidis E, Daub J Marantidis E. 43.00 43.20 42.70 This family belong to the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. This family includes the human ortholog of mouse snoRNA HBII-99 and human snoRNA U106. In humans both HB11-99 and U106 snoRNAs share the same host gene [1]. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. HBII-99 is predicted to guide the 2'O-ribose methylation of 28S rRNA G3878 [2]. U106 contains conserved antisense elements which would predict U106 methylates residues G1536 and U1602 of 18S rRNA. However, these targets do not appear to be methylated and U106 might function as an RNA chaperone during rRNA folding [1]. A similar role has been suggested for the H/ACA snoRNAs U17a and U17b Rfam:RF00045 [1]. SNORD106; snoHBII-99 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 360 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold, Daub J 111 0 \N 0.63381 -3.39784 1600000 233709 178 90 1 -3.83830 0.71847 2013-10-04 01:00:53 2019-01-04 15:01:52 RF00582 SCARNA14 1828 Small Cajal body specific RNA 14 Marantidis E, Daub J Marantidis E, INFERNAL 40.00 41.00 39.20 scaRNAs are a specific class of small nuclear RNAs which localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12 [1]. U100 belongs to the H/ACA box class of guide RNAs as it has the predicted hairpin-hinge-hairpin-tail structure and the conserved H/ACA-box motifs [2]. U100 is the human orthologue of mouse H/ACA snoRNA MBII-201 identified in [3] and also included in this family. U100 is predicted to guide the pseudouridylation of U2 snRNA at residue U7 [4]. snoU100 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 22 146 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAalifold 116 0 \N 0.51018 -6.96175 1600000 240504 243 136 1 -3.32780 0.71820 2013-10-04 01:00:58 2019-01-04 15:01:52 RF00584 SNORD105 1829 Small nucleolar RNA SNORD105 Marantidis E Marantidis E, INFERNAL 45.00 52.50 41.60 U105 belongs to the C/D family of snoRNAs. It is encoded in an intron of the Suppressor of SWI4 1 homolog (Ssf-1) (Peter Pan homolog) gene. and is predicted to guide 2'O-ribose methylation of residue U799 of the small 18S rRNA subunit. snoU105 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 15 38 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold_manual; Daub J 41 0 \N 0.66115 -3.01796 1600000 184158 177 87 1 -3.85500 0.71853 2013-10-04 01:01:03 2021-07-05 13:43:57 RF00586 SNORA12 1830 Small nucleolar RNA SNORA12 Marantidis E Marantidis E, INFERNAL 45.00 45.00 41.60 U108 belongs to the H/ACA family of snoRNAs. The sequence is predicted to guide the pseudouridylation of the U372 residue in the 28S rRNA subunit. However it has not been reported as a pseudouridylation site. snoU108 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 23 140 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 92 0 \N 0.57713 -8.11743 1600000 358987 271 148 1 -3.24560 0.71814 2013-10-04 01:01:05 2019-01-04 15:01:52 RF00588 SNORD41 1831 Small nucleolar RNA SNORD41 Marantidis E Marantidis E. 41.00 41.70 40.70 snoRNA U41 belongs to the C/D family of snoRNAs. It is predicted to guide 2'O-ribose methylation of the large 28S rRNA on residue U4276. snoU41 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 20 111 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold 78 0 \N 0.60278 -4.58471 1600000 285638 151 70 1 -3.50900 0.71877 2013-10-04 01:01:10 2021-07-05 13:43:57 RF00591 SNORD77 1260 Small nucleolar RNA SNORD77 Marantidis E Marantidis E, INFERNAL 35.00 35.00 34.80 U77 belongs to the C/D family of snoRNAs. It is predicted to guide 2'O-ribose methylation of large 28S rRNA subunit at position A1521. The C/D snoRNAs U44, U47, U74, U75, U76, U78, U79, U80 and U81 share the same host gene as U77 (non-coding). snoU77 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 21 105 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold 41 0 \N 0.58101 -4.10740 1600000 318181 149 68 1 -3.74750 0.71901 2013-02-01 11:57:49 2019-01-04 15:01:52 RF00592 SNORD78 1261 Small nucleolar RNA SNORD78 Marantidis E Marantidis E, INFERNAL 38.00 38.20 37.10 U78 belongs to the CD family of snoRNAs. It is predicted to guide 2'O-ribose methylation of the large 28S rRNA subunit at position G4593. The snoRNAs U44, U47, U74, U75, U76, U77, U79, U80 and U81, also of the C/D family, share the same host gene with U78 (protein non-coding). snoU78 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27 -Z 549862.597050 CM SEQDB 19 97 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Daub J 68 0 \N 0.48553 -10.04407 1600000 431275 142 65 0 -3.63580 0.71882 2013-02-01 11:57:52 2019-01-04 15:01:52 RF00593 snoU83B 1832 Small nucleolar RNA U83B Marantidis E Marantidis E, INFERNAL 35.00 35.30 34.70 U83B belongs to the C/D family of snoRNAs. U83B like U83A has no documented RNA target and they share the same host gene with the C/D box snoRNA U43 (RPL3). N.B. U83A/B/C have no sequence similarity with the U83 snoRNA that was cloned by Jady and Kiss (2000). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 21 177 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold_manual; Daub J 114 0 \N 0.64575 -4.20468 1600000 268657 187 94 1 -3.40550 0.71833 2013-10-04 01:02:02 2019-01-04 15:01:52 RF00594 SNORD86 1833 Small nucleolar RNA SNORD86 Marantidis E Marantidis E. 35.00 36.30 34.80 U86 belongs to the C/D family of snoRNAs. It is the human orthologue of Xenopus laevis U86 and has no identified RNA target. The snoRNAs U86, U56, U57 and HBII-55,of the C/D family, and the H/ACA box snoRNA ACA51 share the same host gene (NOL5A) with U86. snoU86 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 63 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold 38 0 \N 0.68614 -1.95265 1600000 208758 177 86 1 -3.69270 0.71875 2013-10-04 01:02:05 2019-01-04 15:01:52 RF00598 SNORA76 1834 Small nucleolar RNA SNORA76 Daub J PMID:16373490. INFERNAL 37.00 37.00 36.70 ACA62 (SNORA76) is a member of the H/ACA class of snoRNAs that guide the sites of modification of uridines to pseudouridines [1]. This snoRNA was identified by computational screening and its expression in mouse experimentally verified by Northern blot and primer extension analysis [2]. ACA62 is proposed to guide the pseudouridylation of 18S rRNA U34 and U105 [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21 -Z 549862.597050 CM SEQDB 22 221 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 76 0 \N 0.49406 -9.30276 1600000 280316 241 132 1 -2.90710 0.71835 2013-10-04 01:02:11 2019-01-04 15:01:52 RF00599 SNORA77 1835 Small nucleolar RNA SNORA77 Daub J PMID:16373490; INFERNAL 42.00 42.00 41.40 ACA63 (SNORA77) is a member of the H/ACA class of snoRNAs that guide the sites of modification of uridines to pseudouridines [1]. This snoRNA was identified by computational screening and its expression in mouse experimentally verified by Northern blot and primer extension analysis [2]. ACA63 is proposed to guide the pseudouridylation of 18S rRNA U814 [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 19 186 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 111 0 \N 0.56858 -7.53745 1600000 211415 227 125 1 -3.27170 0.71840 2013-10-04 01:02:15 2019-01-04 15:01:52 RF00600 SNORA79 1836 Small nucleolar RNA SNORA79 Daub J PMID:16373490; INFERNAL 55.00 56.10 54.30 ACA65 (SNORA79) is a member of the H/ACA class of snoRNAs that guide the sites of modification of uridines to pseudouridines [1]. This snoRNA was identified by computational screening and its expression in mouse experimentally verified by Northern blot and primer extension analysis [2]. ACA65 is proposed to guide the pseudouridylation of residue U31 in U6 snRNA (Rfam:RF00026)[2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 25 190 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 88 0 \N 0.50368 -6.95666 1600000 199741 252 143 1 -3.28930 0.71815 2013-10-04 01:02:18 2019-01-04 15:01:52 RF00601 SCARNA20 1837 Small Cajal body specific RNA 20 Daub J PMID:16373490 44.00 44.00 42.90 scaRNAs are a specific class of small nuclear RNAs which localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12 [1]. ACA66 (SCARNA20) is a member of the H/ACA class of snoRNAs that guide the sites of modification of uridines to pseudouridines. This snoRNA was identified by computational screening and its expression in mouse experimentally verified by Northern blot and primer extension analysis [2]. It is predicted to guide the pseudouridylation of residue U28 in U12 snRNA (Rfam:RF00007) [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24 -Z 549862.597050 CM SEQDB 5 191 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAalifold 49 0 \N 0.54770 -8.13942 1600000 236637 239 130 1 -3.20600 0.71832 2013-10-04 01:02:22 2019-01-04 15:01:52 RF00602 SCARNA21 1838 Small Cajal body specific RNA 21 Daub J PMID:16373490 60.00 65.90 56.60 scaRNAs are a specific class of small nuclear RNAs which localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12 [1]. ACA68 (SCARNA21) is a member of the H/ACA class of snoRNAs that guide the sites of modification of uridines to pseudouridines. This snoRNA was identified by computational screening and its expression in mouse experimentally verified by Northern blot and primer extension analysis [2]. ACA68 is proposed to guide the pseudouridylation of residue U19 in U12 snRNA (Rfam:RF00007)[2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 24 94 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAalifold; Daub J 43 0 \N 0.59511 -7.67772 1600000 242514 307 140 1 -2.87100 0.71822 2013-10-04 01:02:27 2019-01-04 15:01:52 RF00603 SNORD23 1839 Small nucleolar RNA SNORD23 Daub J INFERNAL 64.00 65.60 63.50 The members of this family belong to the C/D class of snoRNAs which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. This family includes mouse MBII-115 identified in [2] and the human orthologue HBII-115 (SNORD23). There is currently no predicted target RNA for HBII-115 [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 15 44 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Daub J 45 0 \N 0.66123 -4.33403 1600000 285604 211 110 1 -3.15190 0.71816 2013-10-04 01:02:30 2019-01-04 15:01:52 RF00604 SNORD88 1840 Small nucleolar RNA SNORD88 Daub J INFERNAL 46.00 46.80 45.00 The members of this family belong to the C/D class of snoRNAs which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. This family includes mouse MBII-211 and MBII-180 identified in [2] and the human orthologue HBII-180 (SNORD88). HBII-180 is predicted to guide the 2'O-ribose methylation of 28S rRNA C3680 [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 35 222 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold; Daub J 67 0 \N 0.65423 -3.96943 1600000 258883 177 91 1 -3.50660 0.71844 2013-10-04 01:02:34 2019-01-04 15:01:52 RF00606 SNORD93 1841 Small nucleolar RNA SNORD93 Daub J INFERNAL 60.00 62.70 54.60 The members of this family belong to the C/D class of snoRNAs which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. This family includes mouse MBII-336 identified in [2]. The human orthologue HBII-336 (SNORD93) is predicted to guide the 2'O-ribose methylation of 18S rRNA A576 [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.52 -Z 549862.597050 CM SEQDB 17 102 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold; Daub J 90 0 \N 0.56106 -5.31647 1600000 291111 217 74 1 -3.41770 0.71874 2013-10-04 01:02:36 2019-01-04 15:01:52 RF00607 SNORD98 1842 Small nucleolar RNA SNORD98 Daub J INFERNAL 50.00 54.10 43.00 The members of this family belong to the C/D class of snoRNAs which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. HBII-419 (SNORD98) is predicted to guide the 2'0-ribose methylation of 18S rRNA G867 [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 90 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Daub J 92 0 \N 0.61270 -4.51942 1600000 319087 145 65 1 -3.64520 0.71883 2013-10-04 01:02:38 2019-01-04 15:01:52 RF00608 SNORD99 1288 Small nucleolar RNA SNORD99 Daub J INFERNAL 60.00 60.10 59.90 The members of this family belong to the C/D class of snoRNAs which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. HBII-420 (SNORD99) is predicted to guide the 2'O-ribose methylation of 28S rRNA A2774 [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 23 111 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold; Daub J 106 0 \N 0.63356 -3.44311 1600000 238513 156 74 1 -3.66390 0.71876 2013-02-01 12:06:36 2021-07-05 13:43:57 RF00609 SNORD100 1843 Small nucleolar RNA SNORD100 Daub J INFERNAL 58.00 60.50 57.40 The members of this family belong to the C/D class of snoRNAs which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. HBII-429 (SNORD100) is predicted to guide the 2'O-ribose methylation of 18S rRNA G436 [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.09 -Z 549862.597050 CM SEQDB 26 150 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold; Daub J 106 0 \N 0.64080 -3.28241 1600000 209927 167 82 1 -3.65020 0.71857 2013-10-04 01:02:44 2021-07-05 13:43:57 RF00610 SNORD110 1844 Small nucleolar RNA SNORD110 Daub J INFERNAL 64.00 64.20 51.80 The members of this family belong to the C/D class of snoRNAs which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. HBII-55 (SNORD110) is predicted to guide the 2'O-ribose methylation of 18S rRNA U1288 [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 35 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Daub J 41 0 \N 0.64912 -3.55136 1600000 294448 156 71 1 -3.60900 0.71880 2013-10-04 01:02:47 2021-07-05 13:43:57 RF00611 SNORD111 1845 Small nucleolar RNA SNORD111 Daub J INFERNAL 46.00 46.00 45.20 The members of this family belong to the C/D class of snoRNAs which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. HBII-82 (SNORD111) is predicted to guide the 2'O-ribose methylation of 28S rRNA G3923 [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24 -Z 549862.597050 CM SEQDB 5 144 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold; Daub J 88 0 \N 0.55831 -4.23118 1600000 217859 183 89 1 -3.28630 0.71846 2013-10-04 01:02:54 2019-01-04 15:01:52 RF00612 SNORD75 1846 Small nucleolar RNA SNORD75 Daub J INFERNAL 50.00 51.10 48.00 U75 (SNORD75) belongs to the C/D class of snoRNAs which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. This family includes the mouse orthologue Z19. U75 is predicted to guide the 2'O-ribose methylation of 28S rRNA residue C4032 [3]. In humans U75 shares the same non-protein coding host gene (gas5) with 9 other snoRNAs (U44, U47, U74, U76, U77, U78, U79, U80 and U81)[2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20 -Z 549862.597050 CM SEQDB 5 126 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold; Daub J 108 0 \N 0.82146 -1.71394 1600000 250897 200 62 1 -3.92400 0.71893 2013-10-04 01:03:27 2019-01-04 15:01:52 RF00613 SNORD94 1847 Small nucleolar RNA SNORD94 Daub J INFERNAL 60.00 60.00 47.80 The members of this family belong to the C/D class of snoRNAs which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs [1]. U94 (SNORD94) is predicted to guide the 2'O-ribose methylation of C62 of the snRNA U6 (Rfam:RF00026)[2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 21 128 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold; Daub J 109 0 \N 0.63171 -7.73471 1600000 357600 247 137 1 -3.28940 0.71785 2013-10-04 01:04:06 2019-01-04 15:01:52 RF00614 SNORA11 1289 Small nucleolar RNA SNORA11 Daub J INFERNAL 36.00 36.20 35.80 U107 (SNORA11) is a member of the H/ACA class of snoRNAs that guide the sites of modification of uridines to pseudouridines [1]. This snoRNA was identified by RT-PCR from blood cells and its expression confirmed by Northern blot analysis [2]. There is no predicted target for this guide snRNA [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 35 612 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 54 0 \N 0.58748 -7.59100 1600000 346034 235 129 1 -3.33060 0.71834 2013-02-01 12:06:38 2019-01-04 15:01:52 RF00615 LhrA 1848 Listeria Hfq binding LhrA Daub J Daub J 100.00 150.80 35.20 This RNA was identifed by screening for RNA molecules which co-immunoprecipitated with the RNA chaperone Hfq [1]. It appears to be transcribed from a region overlapping with predicted protein of unknown function (Lmo2257) and is located between a putative intracellular protease/amidase and a putative protein of the ribulose-phosphate 3 epimerase family. Its is highly expressed in stationary growth phase but its function is unkown. It is proposed to be a regulatory RNA which controls gene expression at the post transcriptional level by binding its target mRNA in an Hfq dependent fashion [1]. This RNA molecule appears to be conserved amongst Listeria species but has not been identified in other bacterial species. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 7 0 0 Gene; sRNA; Published; PMID:16682563 17 0 \N 0.66846 -8.36707 1600000 400033 418 269 1 -3.75530 0.70743 2013-10-04 01:04:19 2019-01-04 15:01:52 RF00616 LhrC 1849 Listeria LhrC Daub J Daub J 110.00 115.30 107.20 This RNA was identifed by screening for RNA molecules which co-immunoprecipitated with the RNA chaperone Hfq [1]. However, neither the stability nor the activity of LhrC is depending on the presence of Hfq[2][3]. LhrC is transcribed from the intergenic region between the protein coding genes cysK, a putative cysteine synthase and sul, a putative dihydropteroate synthase [1]. In Listeria monocytogenes four additional copies of lhrC have been identifed in the genome, three of which are located in tandem repeat upstream of the originally characterised lhrC [1]. This RNA molecule appears to be conserved amongst Listeria species but has not been identified in other bacterial species. The direct mRNA targets of LhrC are the virulence adhesion LapB, and the oligo-peptide binding protein OppA. The 3 conserved UCCC motifs common to all copies of LhrC are involved in the mRNA binding and post-transcriptional repression of the target genes. Interestingly, 2 other Listerina monocytogenes sRNAs Rli22 and Rli33 contain two UCCC motifs and use them to repress oppA mRNA expression.[4] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 12 16 0 0 Gene; sRNA; Published; PMID:16682563 12 0 \N 0.47780 -8.02974 1600000 382984 214 111 1 -3.10690 0.71833 2013-10-04 01:04:25 2019-01-04 15:01:52 RF00617 cHP 1262 Flavivirus capsid hairpin cHP Daub J PMID:16474125 40.00 40.20 39.90 cHP is a conserved RNA hairpin structure identified within the capsid coding region of several Flavivirus genomes. These positive strand RNA genomes are translated as a single polypeptide and subsequently cleaved into constituent proteins, the first of which is the capsid protein. The cHP hairpin is located within the capsid coding region between two AUG start codons. The cHP cis element has been shown to direct translation start from the thermodynamically unstable first start codon [1]. The ability of cHP to direct initiation from the first start codon is proportional to its thermodynamic stability, is position dependent, and is sequence independent [1]. It has been demonstrated that both AUGs and the conserved cHP are necessary for efficient viral replication in human and mosquito cells [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 59 92 0 0 Cis-reg; Published; PMID:16474125 34 0 \N 0.58640 -8.40679 1600000 743570 104 45 1 -3.64070 0.71938 2013-02-01 11:57:56 2021-07-05 13:43:57 RF00618 U4atac 1850 U4atac minor spliceosomal RNA Daub J, Gardner PP, Marz M PMID:19030770; Gardner PP 53.00 53.20 52.90 U4atac is an essential component of the minor U12-type spliceosome complex which is required for removal of the rarer class of eukaryotic introns (AT-AC, U12-type) [1]. U4atac snRNA is proposed to form a base-paired complex with another spliceosomal RNA U6atac via two stem loop regions. These interacting stem loops have been shown to be required for in vivo splicing [2]. U4atac also contains an 3' Sm protein binding site which has been shown to be essential for splicing activity [2]. U4atac is the functional analog of U4 (Rfam:RF00015) in the major U2-type spliceosomal complex [2]. The drosophila U4atac snRNA has an additional predicted 3' stem loop terminal to the Sm binding site [3] which is not included in this model. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27 -Z 549862.597050 CM SEQDB 61 388 0 0 Gene; snRNA; splicing; Published; PMID:11911359 190 0 \N 0.48629 -10.68633 1600000 408947 324 133 1 -3.24450 0.71823 2013-10-04 01:04:46 2021-07-05 13:43:57 RF00619 U6atac 1851 U6atac minor spliceosomal RNA Daub J, Gardner PP PMID:10199569; Daub J, INFERNAL; PMID:18390578 33.00 33.00 32.90 U6atac is an essential component of the minor U12-type spliceosome complex which is required for removal of the rarer class of eukaryotic introns (AT-AC, U12-type) [1]. U6atac snRNA is proposed to form a base-paired complex with another spliceosomal RNA U4atac via two stem loop regions. These interacting stem loops have been shown to be required for in vivo splicing [2]. U6atac is the functional analog of U6 (Rfam:RF00026) in the major U2-type spliceosomal complex [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 62 2521 0 0 Gene; snRNA; splicing; Published; PMID:11911359 375 0 \N 0.65236 -8.23780 1600000 287519 218 126 1 -3.47370 0.71803 2013-10-04 01:04:54 2021-07-05 13:43:57 RF00620 HCV_ARF_SL 1852 Hepatitis C alternative reading frame stem-loop Lamkiewicz K, Triebel S, Marz M Kevin Lamkiewicz, Sandra Triebel, Manja Marz 120.00 160.50 61.80 Genetic modification of RNA structures in Hepatitis C virus (HCV) genome affects replication and infectivity [1] Long distant RNA-RNA interactions in HCV RNAs are involved in translation to virion budding [2] It has been proposed that the 5'-3' UTR base-pairing in the HCV genome might play an important role in viral RNA replication [3] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 36 1 0 0 Cis-reg; Predicted; BM VeGETA v. 0.4, LocARNA 2.0.0RC8, RNAfold 16 0 \N 0.63237 -6.80243 1600000 325831 272 153 1 -3.09700 0.71808 2013-10-04 01:05:07 2022-05-06 11:43:51 RF00621 CoTC_ribozyme 1853 Beta-globin co-transcriptional cleavage ribozyme Daub J Daub J 58.00 59.90 57.90 Transcription termination of RNA polymerase II transcripts is proposed to occur by a two stage process [1]. The first stage involves pre-termination cleavage (PTC) of the nascent transcript downstream of the poly(A) site. This process is also referred to as co-transcriptional cleavage (CoTC). The CoTC process in the human beta-globin gene has been shown to involve an RNA self-cleaving activity located in the 3' flanking region of the beta-globin gene. This Rfam model represents the catalytic core of the beta-globin CoTC ribozyme. The CoTC core is highly conserved in the 3' flanking regions of other primate beta-globin genes [2]. Functionally, this CoTC ribozyme resembles the 3' processive, self-cleaving ribozymes described for the protein-encoding genes from the myxomycetes Didymium iridis and Physarum polycephalum [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 20 0 0 Gene; ribozyme; Published; PMID:15565159 22 0 \N 0.53359 -9.27125 1600000 347041 319 191 1 -3.22190 0.71321 2013-10-04 01:05:20 2019-01-04 15:01:52 RF00622 CPEB3_ribozyme 1854 Mammalian CPEB3 ribozyme Daub J Published; PMID:16990549; INFERNAL 60.00 60.30 59.80 The mammalian CPEB3 ribozyme is a self cleaving RNA located in the second intron of the CPEB3 gene which belongs to a family of genes regulating messenger RNA polyadenylation [1]. This ribozyme is highly conserved and found only in mammals [1]. The CPEB3 ribozyme is structurally and biochemically related to the human hepatitis delta virus (HDV) ribozyme (Rfam:RF00094) and the HDV ribozyme is proposed to have arisen from the human transcriptome [1]. There is currently only one other known self cleaving ribozyme in mammals, the CoTC motif (Rfam:RF00621)[2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 12 98 0 0 Gene; ribozyme; Published; PMID:16990549 40 0 \N 0.76967 -3.79125 1600000 238214 165 78 1 -3.66150 0.71889 2013-10-04 01:05:22 2019-01-04 15:01:52 RF00623 P1 1855 Pseudomonas sRNA P1 Daub J INFERNAL 100.00 110.70 56.10 This small RNA (sRNA) was computationally identified in the genome of the opportunistic pathogen Pseudomonas aeruginosa and its expression verified by northern blot analysis [1]. There appears to be two related copies of P1 sRNA in the P.aeruginosa PA01 genome and both copies appear to be located upstream of predicted glutamine synthetase genes. This sRNA appears to be conserved amongst several Pseudomonas species. P1 has a predicted Rho independent terminator at the 3' end but the function of P1 is unknown [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 55 0 0 Gene; Predicted; RNAalifold 64 0 \N 0.52270 -11.22143 1600000 435063 297 180 1 -3.44490 0.71445 2013-10-04 01:05:25 2019-01-04 15:01:52 RF00624 P9 1856 Pseudomonas sRNA P9 Daub J INFERNAL 43.00 43.00 42.80 This small RNA (sRNA) was computationally identified in the genome of the opportunistic pathogen Pseudomonas aeruginosa and its expression verified by northern blot analysis [1]. P9 appears to be conserved in several Pseudomonas species in addition to Bordetella spp. In both Pseudomonas and Bordetella spp P9 appears to be located upstream of a predicted threonine dehydratase gene. P9 has a predicted Rho independent terminator at the 3' end but the function of P9 is unknown [1]. This sRNA also appears to be present in the Betaproteobacteria (Burkholderia and Ralstonia species). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 17 123 0 0 Gene; Predicted; RNAalifold 124 0 \N 0.59589 -7.43980 1600000 333973 199 74 1 -3.55210 0.71898 2013-10-04 01:05:31 2019-01-04 15:01:52 RF00625 P11 1857 Pseudomonas sRNA P11 Daub J INFERNAL 70.00 77.40 49.40 This small RNA (sRNA) was computationally identified in the genome of the opportunistic pathogen Pseudomonas aeruginosa and its expression verified by northern blot analysis [1]. P11 is located between a putative threonine protein kinase and putative nitrate reductase and appears to be conserved in several Pseudomonas species. P11 has a predicted Rho independent terminator at the 3'end but the function of P11 is unknown [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 15 41 0 0 Gene; Predicted; RNAalifold 50 0 \N 0.58335 -9.65986 1600000 394302 244 139 1 -3.44270 0.71827 2013-10-04 01:05:33 2019-01-04 15:01:52 RF00626 Gurken 1858 Gurken localisation signal Bateman A Bateman A, INFERNAL 90.00 95.30 53.60 Drosophila gurken mRNA is localized by dynein-mediated transport to a crescent near the oocyte nucleus, thus targeting the TGFalpha signal and forming the primary embryonic axes [1]. Gurken contains an RNA stem loop within the coding region that forms a signal for dynein-mediated RNA transport to the oocyte nucleus [1]. This hairpin is conserved in other drosophila species. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Cis-reg; Published; PMID:15992540 2 0 \N 0.64543 -2.42030 1600000 201853 157 69 1 -3.69500 0.71910 2013-10-04 01:05:35 2019-01-04 15:01:52 RF00627 P15 1859 Pseudomonas sRNA P15 Daub J INFERNAL 70.00 78.10 68.60 This small RNA (sRNA) was computationally identified in the genome of the opportunistic pathogen Pseudomonas aeruginosa and its expression verified by northern blot analysis [1]. P15 is conserved across a wide range of Gammaproteobacteria. It appears to be consistently located upstream of a 3-deoxy-7-phosphoheptulonate synthase gene. P15 has a predicted Rho independent terminator at the 3'end but the function of P15 is unknown [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 22 66 0 0 Gene; Predicted; RNAalifold 78 0 \N 0.56177 -9.26563 1600000 294569 223 119 1 -3.16790 0.71859 2013-10-04 01:05:37 2019-01-04 15:01:52 RF00628 RgsA 1860 RgsA sRNA Daub J INFERNAL 88.40 88.40 77.20 This small RNA (sRNA) was computationally identified in the genome of the opportunistic pathogen Pseudomonas aeruginosa and its expression verified by northern blot analysis [1]. P16 sRNA appears to be conserved across several Pseudomonas species and Azotobacter vinelandii. In these species it is consistently located downstream of a predicted TatD deoxyribonuclease gene. P16 has a predicted Rho independent terminator at the 3' end but the function of P16 is unknown [1]. It has been shown that this sRNA is transcribed from an RpoS-dependent promoter under positive, probably indirect GacA control in two Pseudomonas species. It was renamed RgsA (for regulation by GacA and stress).[2]RpoS mRNA expression is repressed by RgsA during the exponential phase. The Hfq RNA chaperone is required for the repression.[5] P16; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 27 62 0 0 Gene; sRNA; Predicted; RNAalifold 85 0 \N 0.61498 -10.69795 1600000 574064 314 194 1 -3.63320 0.71282 2013-10-04 01:05:39 2022-05-06 12:10:04 RF00629 P24 1861 Pseudomonas sRNA P24 Daub J INFERNAL 100.00 109.10 94.90 This small RNA (sRNA) was computationally identified in the genome of the opportunistic pathogen Pseudomonas aeruginosa and its expression verified by Northern blot analysis [1]. P24 is conserved across several Pseudomonas species and in Azotobacter vinelandii. It appears to be consistently located between a hypothetical protein gene and a transcriptional regulator gene (AsnC family) in the genomes of all these species. P24 has a predicted Rho independent terminator at the 3' end but the function of P24 is unknown [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18.84 -Z 742849.287494 CM SEQDB 14 57 0 0 Gene; Predicted; RNAalifold 70 0 \N 0.69860 -8.22578 1600000 351270 392 255 1 -3.71190 0.70820 2013-10-04 01:05:45 2022-10-29 16:55:17 RF00630 P26 1862 Pseudomonas sRNA P26 Daub J INFERNAL 36.00 36.00 35.90 This small RNA (sRNA) was computationally identified in the genome of the opportunistic pathogen Pseudomonas aeruginosa and its expression verified by northern blot analysis [1]. P26 is conserved across many Gammaproteobacteria species and appears to be consistently located between the DNA directed RNA polymerase (beta subunit) and 50S ribosomal protein L7/L12 genes. There are two eukaryotic sequences (AAGJ02000785.1 and AAAB01036679.1) included in this alignment which appear to be contamination. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 27 330 0 0 Gene; Predicted; RNAalifold 339 0 \N 0.58282 -6.84215 1600000 207374 136 66 1 -3.73290 0.71920 2013-10-04 01:05:48 2019-01-04 15:01:52 RF00632 sxy 1863 sxy 5' UTR element Bateman A Bateman A 70.00 71.30 42.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Cis-reg; Published; PMID:17981840 3 0 \N 0.56452 -3.95741 1600000 212798 208 104 1 -2.99550 0.71850 2013-10-04 01:05:51 2019-01-04 15:01:52 RF00634 SAM-IV 1864 S-adenosyl methionine (SAM) riboswitch, Weinberg Z, Barrick JE Published; PMID:18369181 38.00 38.60 37.10 SAM-IV is a mRNA element that regulates gene expression via direct sensing of S-adenosylmethionine (SAM or AdoMet). SAM-IV riboswitches share conserved nucleotide positions with the previously described SAM-I riboswitches sequence analysis and molecular recognition experiments suggest that SAM-I and SAM-IV riboswitches share similar ligand binding sites, but have different scaffolds. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 40 1204 0 0 Cis-reg; riboswitch; Published; PMID:18369181 654 0 \N 0.51212 -8.06531 1600000 277467 224 116 1 -3.15060 0.71835 2013-10-04 01:05:53 2021-07-05 13:43:57 RF00635 HAR1A 1865 Highly accelerated region 1A/1B Eberhardt R Published; PMID:16915236; Eberhardt R 40.00 44.30 37.70 \N HAR1F; HAR1R; HAR1B cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 37.49 -Z 549862.597050 CM SEQDB 13 88 0 0 Gene; lncRNA; Published; PMID:16915236; 90 0 \N 0.38534 -10.31463 1600000 290641 221 118 0 -2.81230 0.71810 2013-10-04 01:05:59 2019-01-04 15:01:52 RF00636 NRON 1866 ncRNA Repressor of NFAT (nuclear factor of activated T cells) Gardner PP Predicted; Gardner PP 50.00 100.90 32.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 24 93 0 0 Gene; Predicted; Gardner PP 100 0 \N 0.69821 -9.54325 1600000 497841 532 370 1 -4.07190 0.70345 2013-10-04 01:06:03 2019-01-04 15:01:52 RF00637 mir-276 1287 microRNA mir-276 Griffiths-Jones SR Griffiths-Jones SR 62.00 62.90 53.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 42 126 0 0 Gene; miRNA; Predicted; RNAalifold 92 0 \N 0.69558 -3.26922 1600000 102728 179 91 1 -3.98130 0.71884 2013-10-04 01:06:05 2021-12-03 12:04:12 RF00638 MIR159 1287 microRNA MIR159 Wilkinson A miRBase; Wilkinson A 74.00 74.00 73.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 66 1174 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 94 0 \N 0.57322 -9.85352 1600000 364519 721 196 1 -3.76130 0.71270 2013-10-04 01:06:14 2021-11-19 11:53:18 RF00639 mir-515 1287 microRNA mir-515 Wilkinson A miRBase; Wilkinson A 50.00 50.00 49.70 \N mir-373; mir-512 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 40 739 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 13 0 \N 0.65930 -2.62960 1600000 216150 173 87 1 -3.35310 0.71868 2013-10-04 01:06:18 2022-05-06 12:09:57 RF00640 MIR167_1 1287 microRNA MIR167_1 Wilkinson A miRBase; Wilkinson A 57.00 57.00 56.90 \N MIR167_2 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 42 605 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 74 0 \N 0.67739 -3.61041 1600000 191727 1841 130 1 -3.46310 0.71832 2013-10-04 01:06:27 2021-11-19 10:36:03 RF00641 mir-154 1867 microRNA mir-154 Wilkinson A miRBase; Wilkinson A 41.00 41.00 40.90 \N mir-368; mir-329; mir-379; mir-485; mir-654; mir-889 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 121 1171 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 51 0 \N 0.63382 -3.73957 1600000 281750 144 81 1 -3.57560 0.71917 2013-10-04 01:06:32 2021-11-19 11:53:19 RF00642 mir-23 1868 microRNA mir-23 Wilkinson A miRBase; Wilkinson A 47.90 56.30 44.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 22 214 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 116 0 \N 0.69069 -3.72821 1600000 199164 158 75 1 -3.85660 0.71891 2013-10-04 01:06:41 2022-05-06 12:10:04 RF00643 MIR171_1 1287 microRNA MIR171_1 Wilkinson A miRBase; Wilkinson A 48.00 48.00 47.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 57 1277 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 79 0 \N 0.57100 -4.07969 1600000 131358 487 101 1 -3.80960 0.71859 2013-10-04 01:06:44 2021-11-19 11:53:18 RF00644 mir-27 1290 microRNA mir-27 Griffiths-Jones SR Griffiths-Jones SR 48.50 48.50 47.30 This family represents the microRNA (miRNA) precursor mir-27 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 82 225 0 0 Gene; miRNA; Predicted; RNAalifold 123 0 \N 0.64679 -4.60356 1600000 144059 162 80 1 -3.67880 0.71891 2013-02-01 12:06:40 2022-05-06 11:43:49 RF00645 MIR169_2 1287 microRNA MIR169_2 Wilkinson A miRBase; Wilkinson A 50.00 50.00 49.90 \N MIR169_1 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.55 -Z 549862.597050 CM SEQDB 100 1780 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 80 0 \N 0.79206 -2.09162 1600000 178244 1089 134 1 -3.36850 0.71840 2013-10-04 01:06:57 2019-01-04 15:01:52 RF00646 mir-204 1287 microRNA mir-204 Griffiths-Jones SR Griffiths-Jones SR 48.40 48.40 39.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 60 267 0 0 Gene; miRNA; Predicted; RNAalifold 121 0 \N 0.69169 -3.93304 1600000 155346 177 89 1 -3.67670 0.71871 2013-10-04 01:07:01 2022-05-06 11:43:45 RF00647 MIR164 1287 microRNA MIR164 Wilkinson A miRBase; Wilkinson A 60.00 60.10 59.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 39 410 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 80 0 \N 0.71543 -3.88922 1600000 167994 690 109 1 -3.74350 0.71855 2013-10-04 01:07:07 2021-11-19 11:53:18 RF00648 MIR396 2401 microRNA MIR396 Wilkinson A miRBase; Wilkinson A 80.00 80.10 79.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 26 200 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 67 0 \N 0.63888 -3.20566 1600000 196496 675 118 1 -3.45600 0.71835 2013-10-04 01:07:13 2021-11-19 11:53:19 RF00649 mir-128 1287 microRNA mir-128 Griffiths-Jones SR Griffiths-Jones SR 49.00 49.70 40.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 57 217 0 0 Gene; miRNA; Predicted; RNAalifold 121 0 \N 0.72934 -2.53898 1600000 142562 178 83 1 -3.85410 0.71890 2013-10-04 01:07:16 2022-05-06 11:43:45 RF00650 mir-153 1870 microRNA mir-153 Griffiths-Jones SR Griffiths-Jones SR 54.00 54.00 53.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 63 254 0 0 Gene; miRNA; Predicted; RNAalifold 158 0 \N 0.57680 -3.94875 1600000 161298 152 73 1 -3.69320 0.71937 2013-10-04 01:07:24 2022-05-06 11:43:51 RF00651 mir-221 1871 microRNA mir-221 Griffiths-Jones SR Griffiths-Jones SR 46.60 46.60 42.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 72 289 0 0 Gene; miRNA; Predicted; RNAalifold 120 0 \N 0.63508 -4.54833 1600000 125771 167 85 1 -4.01640 0.71888 2013-10-04 01:07:28 2022-05-06 11:43:51 RF00652 MIR478 1287 microRNA MIR478 Wilkinson A miRBase; Wilkinson A, Daub J 50.00 50.50 49.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 17 523 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 1 0 \N 0.43967 -9.37106 1600000 207015 181 91 0 -2.99600 0.71840 2013-10-04 01:07:30 2021-11-19 10:36:03 RF00653 mir-22 1872 microRNA mir-22 Griffiths-Jones SR Griffiths-Jones SR 48.00 48.40 42.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 48 128 0 0 Gene; miRNA; Predicted; RNAalifold 118 0 \N 0.70678 -2.45559 1600000 139777 171 86 1 -3.83960 0.71881 2013-10-04 01:07:33 2022-05-06 11:43:51 RF00654 mir-216 1873 microRNA mir-216 Wilkinson A miRBase; Wilkinson A 59.00 59.10 58.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 33 216 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 115 0 \N 0.64529 -2.98454 1600000 155737 169 89 1 -4.00710 0.71869 2013-10-04 01:07:36 2021-11-19 11:53:19 RF00655 mir-28 1874 microRNA mir-28 Wilkinson A miRBase; Wilkinson A 54.00 54.00 53.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 29 241 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 54 0 \N 0.60487 -4.08205 1600000 161735 194 86 1 -3.44100 0.71895 2013-10-04 01:07:43 2022-05-06 12:10:04 RF00656 mir-205 1875 microRNA mir-205 Griffiths-Jones SR Griffiths-Jones SR 55.00 55.00 53.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 44 177 0 0 Gene; miRNA; Predicted; RNAalifold 118 0 \N 0.70302 -3.29906 1600000 155696 158 75 1 -3.98420 0.71900 2013-10-04 01:07:52 2021-12-03 12:04:12 RF00657 mir-184 1876 microRNA mir-184 Wilkinson A miRBase; Wilkinson A 54.10 54.60 53.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 32 193 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 185 0 \N 0.61979 -4.02401 1600000 117673 181 84 1 -3.89600 0.71896 2013-10-04 01:07:55 2022-05-06 12:10:04 RF00658 mir-21 1877 microRNA mir-21 Griffiths-Jones SR Griffiths-Jones SR 52.00 53.80 51.50 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 41 121 0 0 Gene; miRNA; Predicted; RNAalifold 119 0 \N 0.67331 -3.83703 1600000 193396 157 72 1 -3.42570 0.71906 2013-10-04 01:08:02 2022-05-06 11:43:51 RF00659 mir-365 1878 microRNA mir-365 Griffiths-Jones SR Griffiths-Jones SR 62.00 62.30 61.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 46 215 0 0 Gene; miRNA; Predicted; RNAalifold 117 0 \N 0.61686 -3.49361 1600000 164098 179 86 1 -3.36490 0.71874 2013-10-04 01:08:05 2022-05-06 11:43:51 RF00660 mir-214 1879 microRNA mir-214 Wilkinson A miRBase; Wilkinson A, Daub J 53.00 53.00 52.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 299 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 116 0 \N 0.62063 -3.90908 1600000 124544 211 110 1 -3.65450 0.71870 2013-10-04 01:08:08 2021-11-19 11:53:19 RF00661 mir-31 1880 microRNA mir-31 Griffiths-Jones SR Griffiths-Jones SR 55.50 55.70 55.20 \N mir-72 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 28 170 0 0 Gene; miRNA; Predicted; RNAalifold 154 0 \N 0.62299 -3.65517 1600000 123982 321 81 1 -3.95300 0.71890 2013-10-04 01:08:10 2022-10-29 16:55:17 RF00662 mir-132 2505 microRNA mir-132 Griffiths-Jones SR Griffiths-Jones SR 53.00 53.40 52.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 50 143 0 0 Gene; miRNA; Predicted; RNAalifold 68 0 \N 0.60110 -4.76061 1600000 115670 168 84 1 -4.17890 0.71887 2013-10-04 01:08:13 2021-11-19 10:36:03 RF00663 mir-183 1287 microRNA mir-183 Griffiths-Jones SR Griffiths-Jones SR 66.40 66.40 64.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 39 106 0 0 Gene; miRNA; Predicted; RNAalifold 105 0 \N 0.67447 -2.99995 1600000 170394 157 74 1 -3.46590 0.71914 2013-10-04 01:08:24 2021-11-19 10:36:03 RF00664 mir-223 1882 microRNA mir-223 Griffiths-Jones SR Griffiths-Jones SR 57.00 57.60 54.60 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 27 107 0 0 Gene; miRNA; Predicted; RNAalifold 115 0 \N 0.69229 -3.54709 1600000 107790 204 106 1 -3.77550 0.71866 2013-10-04 01:08:27 2022-05-06 11:43:51 RF00665 mir-290 1287 microRNA mir-290 Wilkinson A miRBase; Wilkinson A 53.00 53.00 52.90 \N mir-72; mir-373; mir-512 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 27 345 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 46 0 \N 0.63776 -3.61314 1600000 204650 162 82 1 -3.78170 0.71888 2013-02-01 12:06:42 2022-05-06 12:09:57 RF00666 mir-32 1883 mir-32 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 74.30 41.90 This family represents the microRNA (miRNA) precursor mir-32 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 22 95 0 0 Gene; miRNA; Predicted; RNAalifold 99 0 \N 0.68419 -3.22942 1600000 250719 158 70 1 -3.54300 0.71912 2013-10-04 01:08:46 2021-11-19 10:36:03 RF00667 mir-33 1884 microRNA mir-33 Wilkinson A miRBase; Wilkinson A 50.00 50.50 49.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 50 250 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 203 0 \N 0.65328 -4.58536 1600000 223503 143 69 1 -3.80870 0.71909 2013-10-04 01:08:49 2022-05-06 12:10:04 RF00668 mir-302 1287 microRNA mir-302 Griffiths-Jones SR Griffiths-Jones SR 55.00 55.00 54.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 49 382 0 0 Gene; miRNA; Predicted; RNAalifold 97 0 \N 0.62439 -3.57005 1600000 282482 146 69 1 -3.67080 0.71948 2013-10-04 01:08:56 2021-11-19 10:36:03 RF00669 mir-96 1885 microRNA mir-96 Griffiths-Jones SR Griffiths-Jones SR 70.00 70.50 68.40 \N MIR96 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 29 102 0 0 Gene; miRNA; Predicted; RNAalifold 101 0 \N 0.64101 -3.09930 1600000 160117 163 78 1 -3.85650 0.71903 2013-10-04 01:09:00 2021-11-19 10:36:03 RF00670 mir-105 1287 mir-105 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 68.00 68.90 66.00 This family represents the microRNA (miRNA) precursor mir-105 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 23 66 0 0 Gene; miRNA; Predicted; RNAalifold 42 0 \N 0.65040 -2.96226 1600000 180483 174 81 1 -3.47780 0.71902 2013-10-04 01:09:03 2021-11-19 10:36:03 RF00671 mir-138 1886 microRNA mir-138 Griffiths-Jones SR Griffiths-Jones SR 50.00 50.30 41.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 44 212 0 0 Gene; miRNA; Predicted; RNAalifold 115 0 \N 0.63755 -4.23916 1600000 224562 163 78 1 -3.85660 0.71905 2013-10-04 01:09:14 2021-11-19 10:36:03 RF00672 mir-190 1887 microRNA mir-190 Griffiths-Jones SR Griffiths-Jones SR 48.00 48.10 47.90 This family represents the microRNA (miRNA) precursor mir-190 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 29 462 0 0 Gene; miRNA; Predicted; RNAalifold 218 0 \N 0.63259 -2.46570 1600000 150994 174 89 1 -3.73030 0.71884 2013-10-04 01:09:17 2022-10-29 16:55:17 RF00673 mir-217 1287 microRNA mir-217 Griffiths-Jones SR Griffiths-Jones SR 70.00 79.60 69.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 28 113 0 0 Gene; miRNA; Predicted; RNAalifold 118 0 \N 0.56842 -3.42405 1600000 137424 186 93 1 -3.78110 0.71861 2013-10-04 01:09:25 2021-11-19 10:36:03 RF00674 mir-187 1888 microRNA mir-187 Griffiths-Jones SR Griffiths-Jones SR 58.00 59.60 54.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 27 105 0 0 Gene; miRNA; Predicted; RNAalifold 112 0 \N 0.63856 -3.81551 1600000 139036 171 81 1 -3.44170 0.71894 2013-10-04 01:09:29 2021-11-19 10:36:03 RF00675 mir-145 1889 microRNA mir-145 Griffiths-Jones SR Griffiths-Jones SR 50.00 50.00 47.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 26 100 0 0 Gene; miRNA; Predicted; RNAalifold 105 0 \N 0.66226 -4.17184 1600000 151872 177 86 1 -3.72080 0.71880 2013-10-04 01:09:31 2021-11-19 10:36:03 RF00676 mir-127 1890 microRNA mir-127 Griffiths-Jones SR Griffiths-Jones SR 60.00 64.50 40.60 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 19 38 0 0 Gene; miRNA; Predicted; RNAalifold 45 0 \N 0.70209 -2.40737 1600000 134727 197 97 1 -3.70160 0.71857 2013-10-04 01:09:34 2021-11-19 10:36:03 RF00677 MIR168 1287 microRNA MIR168 Wilkinson A miRBase; Wilkinson A 66.00 66.30 64.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 171 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 69 0 \N 0.68172 -4.94611 1600000 197897 384 133 1 -3.59050 0.71832 2013-10-04 01:09:36 2021-11-19 11:53:18 RF00678 mir-140 1287 microRNA mir-140 Griffiths-Jones SR Griffiths-Jones SR 70.00 70.80 55.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 32 95 0 0 Gene; miRNA; Predicted; RNAalifold 99 0 \N 0.67050 -3.81403 1600000 173242 171 79 1 -3.63760 0.71907 2013-10-04 01:09:48 2022-05-06 11:43:45 RF00679 mir-210 1891 microRNA mir-210 Wilkinson A miRBase; Wilkinson A 50.00 50.00 48.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 26 160 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 150 0 \N 0.71523 -1.98313 1600000 118105 181 96 1 -4.28820 0.71877 2013-10-04 01:09:51 2022-05-06 12:10:04 RF00680 mir-224 1892 mir-224 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 75.00 53.00 This family represents the microRNA (miRNA) precursor mir-224 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 36 0 0 Gene; miRNA; Predicted; RNAalifold 40 0 \N 0.63545 -3.10638 1600000 235082 174 81 1 -3.49380 0.71909 2013-10-04 01:09:53 2021-11-19 10:36:03 RF00681 mir-198 1893 mir-198 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 84.50 47.30 This family represents the microRNA (miRNA) precursor mir-198 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 9 0 0 Gene; miRNA; Predicted; RNAalifold 16 0 \N 0.65357 -3.01616 1600000 299354 146 62 1 -3.51300 0.71919 2013-10-04 01:09:55 2021-11-19 10:36:03 RF00682 mir-144 1894 microRNA mir-144 Griffiths-Jones SR Griffiths-Jones SR 60.00 65.10 47.70 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 32 78 0 0 Gene; miRNA; Predicted; RNAalifold 88 0 \N 0.66752 -3.61716 1600000 162025 165 78 1 -3.65920 0.71899 2013-10-04 01:10:05 2021-11-19 10:36:03 RF00683 mir-143 1895 microRNA mir-143 Griffiths-Jones SR Griffiths-Jones SR 60.00 64.20 51.00 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 30 107 0 0 Gene; miRNA; Predicted; RNAalifold 115 0 \N 0.68462 -3.32524 1600000 127055 175 84 1 -3.51880 0.71889 2013-10-04 01:10:07 2021-11-19 10:36:03 RF00684 mir-122 1896 mir-122 microRNA precursor Griffiths-Jones SR Griffiths-Jones SR 70.00 75.30 69.70 miR-122 is miRNA precursor family MIPF:MIPF0000095 that appears to be vertebrate specific. In mammals, miR-122 is enriched in liver cells where it has been implicated as a regulator of fatty-acid metabolism in mouse studies. The hairpin precursors (represented here) are predicted based on base pairing and cross-species conservation -- their extents are not known. In this case the mature sequence is excised from the 5' arm of the hairpin. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 32 114 0 0 Gene; miRNA; Predicted; RNAalifold 114 0 \N 0.62283 -4.50128 1600000 211040 152 73 1 -3.87010 0.71905 2013-10-04 01:10:15 2021-12-03 12:04:12 RF00685 mir-36 1287 microRNA mir-36 Wilkinson A miRBase; Wilkinson A 48.00 48.10 47.00 \N mir-35; mir-39 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 46 84 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 9 0 \N 0.64784 -3.14655 1600000 106961 186 103 1 -4.41400 0.71860 2013-10-04 01:10:17 2022-05-06 12:09:57 RF00686 mir-338 1897 microRNA mir-338 Griffiths-Jones SR Griffiths-Jones SR 57.00 57.50 55.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 36 158 0 0 Gene; miRNA; Predicted; RNAalifold 107 0 \N 0.60619 -3.71279 1600000 176155 151 69 1 -3.64910 0.71912 2013-10-04 01:10:21 2021-12-03 12:04:12 RF00687 mir-136 1287 microRNA mir-136 Griffiths-Jones SR Griffiths-Jones SR 64.00 64.20 59.50 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 16 37 0 0 Gene; miRNA; Predicted; RNAalifold 41 0 \N 0.61304 -3.68384 1600000 218505 176 82 1 -3.81470 0.71906 2013-10-04 01:10:25 2021-11-19 10:36:03 RF00688 MIR394 2402 microRNA MIR394 Wilkinson A miRBase; Wilkinson A 60.00 60.20 59.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 19 213 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 73 0 \N 0.60700 -4.35630 1600000 210197 272 111 1 -3.14290 0.71848 2013-10-04 01:10:28 2021-12-03 12:41:14 RF00689 MIR390 2403 microRNA MIR390 Wilkinson A miRBase; Wilkinson A 77.00 77.10 75.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 16 209 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 67 0 \N 0.64832 -2.93404 1600000 198381 269 123 1 -3.21660 0.71836 2013-10-04 01:10:33 2021-12-03 12:41:14 RF00690 MIR408 2404 microRNA MIR408 Wilkinson A miRBase; Wilkinson A 64.00 65.50 63.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 99 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 62 0 \N 0.70608 -5.21761 1600000 267429 842 136 1 -3.42120 0.71821 2013-10-04 01:10:35 2021-12-03 12:41:14 RF00691 mir-146 1901 microRNA mir-146 Wilkinson A miRBase; Wilkinson A 50.00 51.20 48.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 33 258 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 117 0 \N 0.64160 -3.78764 1600000 148243 173 90 1 -4.11100 0.71870 2013-10-04 01:10:52 2021-12-03 12:41:14 RF00692 MIR171_2 1287 microRNA MIR171_2 Wilkinson A miRBase; Wilkinson A 65.00 65.10 64.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 108 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 53 0 \N 0.67842 -3.14494 1600000 193176 218 112 1 -3.31160 0.71845 2013-10-04 01:10:56 2021-12-03 12:41:13 RF00693 mir-147 1287 microRNA mir-147 Wilkinson A miRBase; Wilkinson A 45.00 45.10 44.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 64 211 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 114 0 \N 0.59563 -3.97806 1600000 285162 139 70 1 -3.86300 0.71899 2013-10-04 01:11:00 2021-12-03 12:41:13 RF00694 mir-137 1902 microRNA mir-137 Griffiths-Jones SR Griffiths-Jones SR 56.70 56.70 52.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 62 226 0 0 Gene; miRNA; Predicted; RNAalifold 202 0 \N 0.62615 -3.32165 1600000 179140 154 72 1 -3.82190 0.71926 2013-10-04 01:11:08 2021-12-03 12:04:12 RF00695 MIR398 1903 microRNA MIR398 Wilkinson A miRBase; Wilkinson A 55.00 55.00 54.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 205 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 75 0 \N 0.65046 -4.43872 1600000 198637 365 109 1 -3.22910 0.71847 2013-10-04 01:11:12 2021-12-03 12:41:14 RF00696 mir-203 1904 microRNA mir-203 Griffiths-Jones SR Griffiths-Jones SR 65.00 65.00 64.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 32 122 0 0 Gene; miRNA; Predicted; RNAalifold 62 0 \N 0.64716 -4.12656 1600000 149778 166 80 1 -3.82200 0.71890 2013-10-04 01:11:14 2021-11-19 10:36:03 RF00697 mir-186 1905 microRNA mir-186 Wilkinson A miRBase; Wilkinson A 53.00 53.00 52.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 19 256 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 123 0 \N 0.56446 -2.79499 1600000 144849 182 93 1 -3.39390 0.71878 2013-10-04 01:11:22 2021-12-03 12:41:14 RF00698 mir-489 1906 microRNA mir-489 Griffiths-Jones SR Griffiths-Jones SR 61.00 61.80 60.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 21 102 0 0 Gene; miRNA; Predicted; RNAalifold 102 0 \N 0.63586 -3.34874 1600000 222966 175 84 1 -3.37300 0.71885 2013-10-04 01:11:44 2021-11-19 10:36:03 RF00699 mir-134 1907 microRNA mir-134 Griffiths-Jones SR Griffiths-Jones SR 68.00 68.10 61.40 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 15 31 0 0 Gene; miRNA; Predicted; RNAalifold 36 0 \N 0.61049 -3.83255 1600000 224240 163 73 1 -3.27750 0.71907 2013-10-04 01:11:47 2021-11-19 10:36:03 RF00700 mir-375 1908 microRNA mir-375 Griffiths-Jones SR Griffiths-Jones SR 46.70 46.70 46.50 This family represents the microRNA (miRNA) precursor mir-375 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 40.00 -Z 742849.287494 CM SEQDB 47 157 0 0 Gene; miRNA; Predicted; RNAalifold 160 0 \N 0.68943 -3.55309 1600000 229186 151 67 1 -4.15950 0.71920 2013-10-04 01:11:49 2022-10-29 16:42:07 RF00701 mir-126 1909 microRNA mir-126 Griffiths-Jones SR Griffiths-Jones SR 47.20 47.20 46.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 37 225 0 0 Gene; miRNA; Predicted; RNAalifold 111 0 \N 0.58622 -4.04540 1600000 140594 156 74 1 -4.14730 0.71908 2013-10-04 01:11:53 2022-05-06 11:43:51 RF00702 mir-182 1287 microRNA mir-182 Griffiths-Jones SR Griffiths-Jones SR 66.00 72.50 64.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 28 91 0 0 Gene; miRNA; Predicted; RNAalifold 84 0 \N 0.67521 -2.90509 1600000 174862 300 77 1 -3.21350 0.71899 2013-10-04 01:11:56 2022-10-29 16:42:07 RF00703 mir-139 1287 microRNA mir-139 Griffiths-Jones SR Griffiths-Jones SR 51.00 51.50 41.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 29 81 0 0 Gene; miRNA; Predicted; RNAalifold 86 0 \N 0.66583 -2.96644 1600000 193541 151 68 1 -3.61710 0.71926 2013-10-04 01:11:58 2022-05-06 11:43:45 RF00704 MIR397 2405 microRNA MIR397 Wilkinson A miRBase; Wilkinson A 55.00 55.00 54.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 176 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 69 0 \N 0.59348 -3.89576 1600000 216731 215 117 1 -3.21910 0.71843 2013-10-04 01:12:01 2021-12-03 12:04:12 RF00705 mir-202 1911 microRNA mir-202 Griffiths-Jones SR Griffiths-Jones SR 51.00 51.10 49.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 23 104 0 0 Gene; miRNA; Predicted; RNAalifold 105 0 \N 0.65999 -3.96944 1600000 179176 163 76 1 -3.42820 0.71901 2013-10-04 01:12:14 2022-05-06 11:43:51 RF00706 mir-263 1287 mir-263 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 51.30 51.30 51.00 This family represents the microRNA (miRNA) precursor mir-263 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 52 180 0 0 Gene; miRNA; Predicted; RNAalifold 113 0 \N 0.72662 -2.61839 1600000 138604 157 86 1 -3.62100 0.71865 2013-10-04 01:12:17 2022-10-29 16:42:07 RF00707 mir-197 1287 microRNA mir-197 Griffiths-Jones SR Griffiths-Jones SR 74.00 74.60 57.00 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 26 0 0 Gene; miRNA; Predicted; RNAalifold 32 0 \N 0.55574 -4.51309 1600000 274371 166 75 1 -3.28110 0.71908 2013-10-04 01:12:20 2022-05-06 11:43:45 RF00708 mir-450 1287 microRNA mir-450 Griffiths-Jones SR Griffiths-Jones SR 60.00 60.30 58.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 36 95 0 0 Gene; miRNA; Predicted; RNAalifold 38 0 \N 0.57168 -2.86195 1600000 179196 165 78 1 -3.47380 0.71897 2013-10-04 01:12:22 2021-12-03 12:04:12 RF00709 mir-455 1912 mir-455 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 73.90 67.00 This family represents the microRNA (miRNA) precursor mir-455 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 29 121 0 0 Gene; miRNA; Predicted; RNAalifold 114 0 \N 0.66065 -3.79559 1600000 164274 178 84 1 -3.71910 0.71880 2013-10-04 01:12:39 2021-11-19 10:36:03 RF00710 mir-44 1287 microRNA mir-44 Griffiths-Jones SR Griffiths-Jones SR 54.00 54.10 53.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 48 0 0 Gene; miRNA; Predicted; RNAalifold 31 0 \N 0.67850 -3.17089 1600000 135703 174 88 1 -3.88200 0.71883 2013-02-01 12:06:45 2021-11-19 10:36:03 RF00711 mir-449 1913 microRNA mir-449 Wilkinson A miRBase; Wilkinson A 45.00 45.00 44.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 56 405 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 213 0 \N 0.73867 -1.85722 1600000 132272 229 90 1 -3.77670 0.71871 2013-10-04 01:12:49 2022-05-06 12:10:04 RF00712 mir-460 1287 microRNA mir-460 Griffiths-Jones SR Griffiths-Jones SR 52.00 52.50 49.40 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 21 144 0 0 Gene; miRNA; Predicted; RNAalifold 74 0 \N 0.68240 -3.85528 1600000 160674 159 77 1 -4.06300 0.71891 2013-10-04 01:13:07 2021-11-19 10:36:03 RF00713 mir-239 1287 microRNA mir-239 Griffiths-Jones SR Griffiths-Jones SR 49.00 49.30 48.70 This family represents the microRNA (miRNA) precursor mir-239 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 31 0 0 Gene; miRNA; Predicted; RNAalifold 21 0 \N 0.65915 -3.22865 1600000 186383 143 74 1 -3.53820 0.71979 2013-10-04 01:14:11 2022-10-29 16:42:07 RF00714 MIR535 1291 microRNA MIR535 Wilkinson A miRBase; Wilkinson A 56.00 56.10 55.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 153 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 36 0 \N 0.69041 -2.48196 1600000 128561 198 102 1 -3.56330 0.71866 2013-02-01 12:06:47 2022-05-06 12:10:01 RF00715 mir-383 1914 microRNA mir-383 Griffiths-Jones SR Griffiths-Jones SR 70.00 75.20 43.00 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 21 98 0 0 Gene; miRNA; Predicted; RNAalifold 100 0 \N 0.66907 -3.52204 1600000 212078 162 73 1 -3.61700 0.71909 2013-10-04 01:14:35 2021-11-19 10:36:03 RF00716 mir-3 1915 microRNA mir-3 Griffiths-Jones SR Griffiths-Jones SR 53.00 53.00 52.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 28 69 0 0 Gene; miRNA; Predicted; RNAalifold 41 0 \N 0.60852 -3.87702 1600000 293312 151 74 1 -3.55260 0.71892 2013-10-04 01:14:53 2022-10-29 16:55:17 RF00717 mir-315 1287 microRNA mir-315 Griffiths-Jones SR Griffiths-Jones SR 63.00 63.70 61.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 27 71 0 0 Gene; miRNA; Predicted; RNAalifold 80 0 \N 0.57987 -2.93953 1600000 174780 162 83 1 -4.12740 0.71885 2013-10-04 01:15:00 2022-10-29 16:42:07 RF00718 mir-431 1916 mir-431 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 102.00 53.10 This family represents the microRNA (miRNA) precursor mir-431 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 35 0 0 Gene; miRNA; Predicted; RNAalifold 35 0 \N 0.54804 -4.55855 1600000 217322 182 86 1 -3.08100 0.71877 2013-10-04 01:15:15 2021-11-19 10:36:03 RF00719 mir-326 1917 microRNA mir-326 Griffiths-Jones SR Griffiths-Jones SR 66.00 66.00 50.00 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 35 0 0 Gene; miRNA; Predicted; RNAalifold 38 0 \N 0.60440 -3.48486 1600000 160046 194 95 1 -3.49570 0.71880 2013-10-04 01:15:17 2021-11-19 10:36:03 RF00720 mir-317 1287 microRNA mir-317 Griffiths-Jones SR Griffiths-Jones SR 56.00 56.20 54.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 25 81 0 0 Gene; miRNA; Predicted; RNAalifold 82 0 \N 0.68564 -4.04955 1600000 201220 178 93 1 -3.61120 0.71867 2013-10-04 01:15:21 2021-11-19 10:36:03 RF00721 MIR475 1287 microRNA MIR475 Griffiths-Jones SR Griffiths-Jones SR 70.00 76.30 68.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 9 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.58006 -3.72438 1600000 165306 234 128 1 -2.97360 0.71834 2013-10-04 01:15:24 2021-11-19 10:36:03 RF00722 mir-451 1918 microRNA mir-451 Wilkinson A miRBase; Wilkinson A 54.00 54.00 53.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 19 112 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 76 0 \N 0.64581 -2.90046 1600000 152423 154 72 1 -4.04310 0.71918 2013-10-04 01:15:32 2022-05-06 12:10:04 RF00723 mir-448 1919 mir-448 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 101.30 87.20 This family represents the microRNA (miRNA) precursor mir-448 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.00 -Z 742849.287494 CM SEQDB 10 33 0 0 Gene; miRNA; Predicted; RNAalifold 35 0 \N 0.56936 -4.78686 1600000 154992 216 111 1 -3.18710 0.71852 2013-10-04 01:15:36 2021-11-19 10:36:03 RF00724 mir-282 1920 microRNA mir-282 Wilkinson A miRBase; Wilkinson A 51.00 51.00 50.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 15 108 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 76 0 \N 0.61919 -2.12393 1600000 104743 189 95 1 -4.03250 0.71873 2013-10-04 01:15:45 2021-11-19 11:53:19 RF00725 mir-iab-4 1921 mir-iab-4 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 73.00 73.60 72.00 This family represents the microRNA (miRNA) precursor mir-iab-4 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 82 0 0 Gene; miRNA; Predicted; RNAalifold 81 0 \N 0.65937 -2.95095 1600000 205293 159 71 1 -3.27500 0.71919 2013-10-04 01:15:48 2021-11-19 10:36:03 RF00726 mir-87 1287 mir-87 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 49.00 49.20 48.80 This family represents the microRNA (miRNA) precursor mir-87 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 44 206 0 0 Gene; miRNA; Predicted; RNAalifold 156 0 \N 0.63491 -4.04116 1600000 159332 207 79 1 -3.98080 0.71886 2013-10-04 01:15:52 2022-10-29 16:42:07 RF00727 bantam 1922 microRNA bantam Griffiths-Jones SR Griffiths-Jones SR 55.00 55.30 53.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 28 92 0 0 Gene; miRNA; Predicted; RNAalifold 97 0 \N 0.62113 -2.55503 1600000 163989 163 82 1 -3.78040 0.71887 2013-10-04 01:16:07 2022-10-29 16:55:17 RF00728 mir-81 1287 microRNA mir-81 Griffiths-Jones SR Griffiths-Jones SR 54.50 54.60 54.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 10 55 0 0 Gene; miRNA; Predicted; RNAalifold 44 0 \N 0.67615 -2.58164 1600000 113289 176 89 1 -3.81170 0.71881 2013-10-04 01:16:10 2022-10-29 16:55:16 RF00729 mir-278 1923 microRNA mir-278 Griffiths-Jones SR Griffiths-Jones SR 55.00 55.20 54.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 26 67 0 0 Gene; miRNA; Predicted; RNAalifold 77 0 \N 0.68846 -3.56275 1600000 190994 152 75 1 -3.64850 0.71901 2013-10-04 01:16:17 2022-05-06 11:43:51 RF00730 mir-277 1924 microRNA mir-277 Griffiths-Jones SR Griffiths-Jones SR 43.00 43.60 41.90 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 25 79 0 0 Gene; miRNA; Predicted; RNAalifold 86 0 \N 0.69196 -2.93217 1600000 115216 206 90 1 -3.75520 0.71878 2013-10-04 01:16:20 2021-11-19 10:36:03 RF00731 mir-155 2482 microRNA mir-155 Griffiths-Jones SR Griffiths-Jones SR 56.00 56.60 55.80 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 25 107 0 0 Gene; miRNA; Predicted; RNAalifold 110 0 \N 0.64253 -2.52697 1600000 170122 146 65 1 -3.96240 0.71921 2013-10-04 01:16:26 2021-11-19 10:36:03 RF00732 mir-305 1926 microRNA mir-305 Griffiths-Jones SR Griffiths-Jones SR 66.00 66.80 64.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23000 -Z 742849.287494 CM SEQDB 23 80 0 0 Gene; miRNA; Predicted; RNAalifold 85 0 \N 0.70589 -2.15176 1600000 255521 158 73 1 -3.70680 0.71903 2013-10-04 01:16:34 2021-11-19 10:36:03 RF00733 mir-296 1927 microRNA mir-296 Griffiths-Jones SR Griffiths-Jones SR 66.00 66.70 55.30 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 32 0 0 Gene; miRNA; Predicted; RNAalifold 35 0 \N 0.63565 -3.48341 1600000 178024 170 79 1 -3.59160 0.71903 2013-10-04 01:16:39 2021-11-19 10:36:03 RF00734 mir-52 1928 microRNA mir-52 Griffiths-Jones SR Griffiths-Jones SR 50.00 67.40 38.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 9 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.66789 -4.02949 1600000 169408 186 92 1 -3.36660 0.71866 2013-10-04 01:16:44 2021-11-19 10:36:03 RF00735 mir-367 1929 microRNA mir-367 Griffiths-Jones SR Griffiths-Jones SR 54.00 54.30 51.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 97 0 0 Gene; miRNA; Predicted; RNAalifold 95 0 \N 0.62921 -4.38237 1600000 229494 153 68 1 -3.63670 0.71920 2013-10-04 01:16:46 2021-11-19 10:36:03 RF00736 mir-320 1930 mir-320 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 55.50 55.80 55.20 This family represents the microRNA (miRNA) precursor mir-320 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 38 176 0 0 Gene; miRNA; Predicted; RNAalifold 37 0 \N 0.66815 -3.69601 1600000 146156 160 76 1 -3.95070 0.71892 2013-10-04 01:16:48 2021-11-19 10:36:03 RF00737 mir-322 1931 microRNA mir-322 Griffiths-Jones SR Griffiths-Jones SR 62.00 62.70 61.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 15 33 0 0 Gene; miRNA; Predicted; RNAalifold 38 0 \N 0.61947 -3.87257 1600000 211978 177 84 1 -3.66180 0.71894 2013-10-04 01:18:48 2021-11-19 10:36:03 RF00739 MIR476 1287 MIR476 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 111.60 73.90 This family represents the microRNA (miRNA) precursor MIR476 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.59293 -2.85149 1600000 159388 190 92 1 -3.05180 0.71877 2013-10-04 01:18:51 2021-11-19 10:36:03 RF00740 mir-370 1932 mir-370 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 87.70 40.00 This family represents the microRNA (miRNA) precursor mir-370 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 36 0 0 Gene; miRNA; Predicted; RNAalifold 38 0 \N 0.69837 -2.56490 1600000 248505 166 75 1 -3.64670 0.71910 2013-10-04 01:19:00 2021-11-19 10:36:03 RF00741 mir-378 1287 microRNA mir-378 Wilkinson A, Daub J miRBase; Wilkinson A, Daub J 80.00 80.30 48.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 36 0 0 Gene; miRNA; Predicted; RNAalifold 36 0 \N 0.62642 -3.94041 1600000 245658 153 66 1 -3.64870 0.71931 2013-10-04 01:19:04 2022-05-06 11:43:45 RF00742 MIR162_2 1287 microRNA MIR162_2 Wilkinson A miRBase; Wilkinson A 60.00 60.00 59.80 \N MIR162_1 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 217 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 64 0 \N 0.61869 -3.72947 1600000 175470 419 92 1 -3.21000 0.71880 2013-10-04 01:19:08 2022-05-06 12:09:57 RF00743 mir-308 1287 microRNA mir-308 Wilkinson A miRBase; Wilkinson A 52.00 52.10 51.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 62 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 46 0 \N 0.62585 -4.12904 1600000 298989 145 63 1 -3.18640 0.71937 2013-10-04 01:19:11 2022-05-06 12:09:57 RF00744 mir-361 1933 microRNA mir-361 Griffiths-Jones SR Griffiths-Jones SR 70.00 73.10 56.80 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 15 34 0 0 Gene; miRNA; Predicted; RNAalifold 38 0 \N 0.66462 -3.13751 1600000 280458 159 71 1 -3.01090 0.71911 2013-10-04 01:19:21 2021-11-19 10:36:03 RF00745 mir-499 1287 microRNA mir-499 Griffiths-Jones SR Griffiths-Jones SR 60.00 60.80 54.20 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 31 113 0 0 Gene; miRNA; Predicted; RNAalifold 113 0 \N 0.59898 -5.58328 1600000 203325 167 79 1 -3.92000 0.71885 2013-10-04 01:19:23 2021-11-19 10:36:03 RF00746 mir-454 1934 microRNA mir-454 Griffiths-Jones SR Griffiths-Jones SR 60.00 64.60 49.30 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 20 107 0 0 Gene; miRNA; Predicted; RNAalifold 100 0 \N 0.65353 -2.89160 1600000 103455 198 103 1 -3.90470 0.71873 2013-10-04 01:19:29 2021-11-19 10:36:03 RF00747 mir-283 1287 microRNA mir-283 Wilkinson A miRBase; Wilkinson A 50.00 51.10 49.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 58 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 63 0 \N 0.60430 -2.27385 1600000 109724 190 99 1 -3.55990 0.71866 2013-10-04 01:19:32 2022-05-06 12:09:57 RF00748 mir-433 1935 mir-433 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 81.90 44.80 This family represents the microRNA (miRNA) precursor mir-433 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 38 0 0 Gene; miRNA; Predicted; RNAalifold 40 0 \N 0.59336 -3.79057 1600000 220979 192 93 1 -3.77780 0.71878 2013-10-04 01:19:38 2021-11-19 10:36:03 RF00749 mir-208 1936 microRNA mir-208 Griffiths-Jones SR Griffiths-Jones SR 56.40 56.40 56.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 29 136 0 0 Gene; miRNA; Predicted; RNAalifold 58 0 \N 0.69143 -2.77138 1600000 171787 159 77 1 -4.07670 0.71898 2013-10-04 01:19:39 2022-05-06 11:43:52 RF00750 mir-458 1287 microRNA mir-458 Griffiths-Jones SR Griffiths-Jones SR 59.00 59.80 54.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 146 0 0 Gene; miRNA; Predicted; RNAalifold 72 0 \N 0.64728 -3.26091 1600000 209550 164 78 1 -3.58650 0.71912 2013-10-04 01:19:56 2021-11-19 10:36:03 RF00751 mir-12 1287 microRNA mir-12 Griffiths-Jones SR Griffiths-Jones SR 55.00 55.60 54.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 21 58 0 0 Gene; miRNA; Predicted; RNAalifold 66 0 \N 0.64262 -2.94446 1600000 180791 642 74 1 -4.16710 0.71903 2013-10-04 01:19:59 2022-05-06 11:43:45 RF00752 mir-14 1937 microRNA mir-14 Griffiths-Jones SR Griffiths-Jones SR 53.00 53.70 51.40 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 23 79 0 0 Gene; miRNA; Predicted; RNAalifold 84 0 \N 0.64002 -4.38137 1600000 273286 146 63 1 -3.76400 0.71927 2013-10-04 01:20:02 2021-11-19 10:36:03 RF00753 mir-503 1938 microRNA mir-503 Griffiths-Jones SR Griffiths-Jones SR 54.00 54.70 50.80 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 32 0 0 Gene; miRNA; Predicted; RNAalifold 37 0 \N 0.67687 -3.26051 1600000 243401 158 71 1 -3.55450 0.71919 2013-10-04 01:21:30 2021-11-19 10:36:03 RF00754 mir-279 1939 microRNA mir-279 Wilkinson A miRBase; Wilkinson A 62.00 62.70 61.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 52 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 50 0 \N 0.62923 -2.63090 1600000 119655 179 93 1 -4.03460 0.71893 2013-10-04 01:21:32 2022-05-06 12:10:04 RF00755 mir-542 1940 microRNA mir-542 Griffiths-Jones SR Griffiths-Jones SR 70.00 71.50 44.90 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 32 0 0 Gene; miRNA; Predicted; RNAalifold 37 0 \N 0.66297 -2.79489 1600000 189081 173 80 1 -3.62580 0.71886 2013-10-04 01:21:39 2021-11-19 10:36:03 RF00756 mir-299 1941 microRNA mir-299 Griffiths-Jones SR Griffiths-Jones SR 67.00 67.50 65.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 69 0 0 Gene; miRNA; Predicted; RNAalifold 38 0 \N 0.66570 -3.04026 1600000 260200 147 63 1 -4.10420 0.71947 2013-10-04 01:21:41 2021-11-19 10:36:03 RF00757 mir-275 1942 microRNA mir-275 Griffiths-Jones SR Griffiths-Jones SR 56.00 56.30 55.50 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 25 77 0 0 Gene; miRNA; Predicted; RNAalifold 83 0 \N 0.60314 -4.40730 1600000 107715 176 89 1 -3.59850 0.71874 2013-10-04 01:21:55 2022-05-06 11:43:52 RF00758 mir-346 1943 mir-346 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 89.00 69.00 This family represents the microRNA (miRNA) precursor mir-346 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 34 0 0 Gene; miRNA; Predicted; RNAalifold 37 0 \N 0.55400 -4.24262 1600000 180105 195 95 1 -3.30970 0.71880 2013-10-04 01:21:57 2021-11-19 10:36:03 RF00760 mir-342 1287 mir-342 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 60.20 43.00 This family represents the microRNA (miRNA) precursor mir-342 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 15 35 0 0 Gene; miRNA; Predicted; RNAalifold 40 0 \N 0.64558 -3.67805 1600000 131147 198 99 1 -3.23540 0.71865 2013-10-04 01:22:00 2021-11-19 10:36:03 RF00761 mir-340 1944 microRNA mir-340 Wilkinson A miRBase; Wilkinson A 65.00 65.20 64.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 31 100 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 44 0 \N 0.52737 -2.94281 1600000 115070 179 97 1 -3.58280 0.71884 2013-10-04 01:22:05 2022-05-06 12:10:04 RF00762 mir-412 1287 microRNA mir-412 Griffiths-Jones SR Griffiths-Jones SR 78.00 78.70 74.90 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 12 32 0 0 Gene; miRNA; Predicted; RNAalifold 35 0 \N 0.56619 -3.78861 1600000 164728 182 87 1 -3.41680 0.71891 2013-10-04 01:22:20 2022-10-29 16:42:07 RF00763 mir-339 1945 microRNA mir-339 Griffiths-Jones SR Griffiths-Jones SR 60.00 61.40 58.90 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 31 0 0 Gene; miRNA; Predicted; RNAalifold 33 0 \N 0.53569 -4.58117 1600000 167222 186 92 1 -3.35380 0.71879 2013-10-04 01:22:22 2021-11-19 10:36:03 RF00764 mir-191 1946 microRNA mir-191 Griffiths-Jones SR Griffiths-Jones SR 54.00 54.70 53.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 24 103 0 0 Gene; miRNA; Predicted; RNAalifold 63 0 \N 0.64721 -3.72198 1600000 150540 183 91 1 -3.58510 0.71879 2013-10-04 01:22:26 2021-11-19 10:36:03 RF00765 mir-337 1947 mir-337 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 81.60 50.00 This family represents the microRNA (miRNA) precursor mir-337 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 29 0 0 Gene; miRNA; Predicted; RNAalifold 31 0 \N 0.62979 -4.03172 1600000 156967 191 93 1 -3.54110 0.71885 2013-10-04 01:22:32 2021-11-19 10:36:03 RF00766 mir-335 1287 microRNA mir-335 Griffiths-Jones SR Griffiths-Jones SR 64.00 64.70 63.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 37 0 0 Gene; miRNA; Predicted; RNAalifold 40 0 \N 0.67208 -3.03364 1600000 161340 190 92 1 -3.56370 0.71887 2013-10-04 01:22:35 2021-11-19 10:36:03 RF00767 mir-150 1948 microRNA mir-150 Griffiths-Jones SR Griffiths-Jones SR 55.00 55.60 54.00 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 22 47 0 0 Gene; miRNA; Predicted; RNAalifold 53 0 \N 0.59559 -4.73644 1600000 152938 167 82 1 -3.99520 0.71899 2013-10-04 01:22:37 2021-11-19 10:36:03 RF00768 MIR405 1287 microRNA MIR405 Wilkinson A miRBase; Wilkinson A, Daub J 104.00 104.20 103.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 90 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 5 0 \N 0.49957 -1.43676 1600000 189317 226 122 1 -3.27660 0.71838 2013-10-04 01:22:52 2022-05-06 11:43:45 RF00769 mir-331 1949 microRNA mir-331 Griffiths-Jones SR Griffiths-Jones SR 80.00 91.40 54.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 15 38 0 0 Gene; miRNA; Predicted; RNAalifold 42 0 \N 0.60216 -3.95567 1600000 157479 190 92 1 -3.23590 0.71873 2013-10-04 01:22:56 2021-11-19 10:36:03 RF00770 mir-330 1950 microRNA mir-330 Griffiths-Jones SR Griffiths-Jones SR 60.00 60.20 47.40 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 33 0 0 Gene; miRNA; Predicted; RNAalifold 37 0 \N 0.61983 -3.10511 1600000 141002 192 94 1 -3.27250 0.71880 2013-10-04 01:23:08 2021-11-19 10:36:03 RF00771 mir-185 1951 microRNA mir-185 Griffiths-Jones SR Griffiths-Jones SR 60.00 67.20 48.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 14 35 0 0 Gene; miRNA; Predicted; RNAalifold 36 0 \N 0.58308 -4.20101 1600000 195704 171 79 1 -3.44850 0.71919 2013-10-04 01:23:11 2022-05-06 11:43:52 RF00772 mir-328 1287 microRNA mir-328 Griffiths-Jones SR Griffiths-Jones SR 70.00 70.60 53.80 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 35 0 0 Gene; miRNA; Predicted; RNAalifold 38 0 \N 0.53789 -5.16110 1600000 216044 165 75 1 -3.30080 0.71906 2013-10-04 01:23:58 2021-11-19 10:36:03 RF00773 mir-298 1287 microRNA mir-298 Griffiths-Jones SR Griffiths-Jones SR 80.00 84.60 72.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 13 0 0 Gene; miRNA; Predicted; RNAalifold 14 0 \N 0.64645 -3.41914 1600000 241550 178 85 1 -3.45950 0.71892 2013-10-04 01:26:47 2022-05-06 11:43:45 RF00774 mir-360 1287 microRNA mir-360 Griffiths-Jones SR Griffiths-Jones SR 60.00 60.60 52.70 This family represents the microRNA (miRNA) precursor mir-360 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.65086 -3.57147 1600000 256732 144 62 1 -3.59000 0.71928 2013-10-04 01:26:50 2022-05-06 11:43:45 RF00775 mir-432 1952 microRNA mir-432 Wilkinson A miRBase; Wilkinson A 70.00 73.60 48.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 42 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 37 0 \N 0.62270 -3.57629 1600000 148129 186 94 1 -3.50730 0.71876 2013-10-04 01:26:57 2022-05-06 11:43:52 RF00776 mir-540 1287 microRNA mir-540 Griffiths-Jones SR Griffiths-Jones SR 80.00 92.30 50.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.58100 -4.29145 1600000 274455 156 67 1 -3.11820 0.72165 2013-10-04 01:26:59 2022-05-06 11:43:45 RF00777 mir-541 1953 mir-541 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 44.00 44.30 38.70 This family represents the microRNA (miRNA) precursor mir-541 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 31 0 0 Gene; miRNA; Predicted; RNAalifold 32 0 \N 0.67109 -3.10341 1600000 236369 177 84 1 -3.59560 0.71894 2013-10-04 01:27:05 2021-11-19 10:36:03 RF00778 MIR473 1287 microRNA MIR473 Wilkinson A miRBase; Wilkinson A 52.00 52.00 51.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 48 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 27 0 \N 0.61570 -4.81229 1600000 197378 215 95 1 -2.90370 0.71879 2013-10-04 01:27:08 2022-05-06 12:09:57 RF00779 MIR474 2406 microRNA MIR474 Wilkinson A miRBase; Wilkinson A 48.00 48.10 47.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 34 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 1 0 \N 0.65959 -2.07697 1600000 168872 293 107 1 -3.78260 0.71870 2013-10-04 01:27:12 2022-05-06 11:43:54 RF00780 MIR477 1287 microRNA MIR477 Wilkinson A miRBase; Wilkinson A 65.00 65.20 63.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 13 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 9 0 \N 0.66077 -3.26665 1600000 203252 200 99 1 -2.97610 0.71870 2013-10-04 01:27:18 2022-05-06 12:09:57 RF00781 mir-505 1955 microRNA mir-505 Griffiths-Jones SR Griffiths-Jones SR 60.00 69.60 50.60 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 35 0 0 Gene; miRNA; Predicted; RNAalifold 37 0 \N 0.62738 -3.80293 1600000 169754 178 83 1 -3.27030 0.71898 2013-10-04 01:27:23 2021-11-19 10:36:03 RF00782 MIR480 1287 microRNA MIR480 Wilkinson A miRBase; Wilkinson A 35.00 35.00 34.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33 -Z 549862.597050 CM SEQDB 69 1131 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 37 0 \N 0.50448 -3.25373 1600000 276711 247 140 1 -3.40410 0.71796 2013-10-04 01:27:25 2019-01-04 15:01:52 RF00783 mir-484 1956 microRNA mir-484 Griffiths-Jones SR Griffiths-Jones SR 40.00 42.20 36.30 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 35 0 0 Gene; miRNA; Predicted; RNAalifold 37 0 \N 0.63000 -4.02940 1600000 226527 152 67 1 -3.20320 0.71920 2013-10-04 01:27:29 2021-11-19 10:36:03 RF00784 mir-486 1287 microRNA mir-486 Griffiths-Jones SR Griffiths-Jones SR 69.00 73.50 68.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 16 56 0 0 Gene; miRNA; Predicted; RNAalifold 34 0 \N 0.65856 -4.42968 1600000 206314 152 68 1 -3.29830 0.71913 2013-10-04 01:27:31 2021-11-19 10:36:03 RF00785 mir-90 1287 microRNA mir-90 Griffiths-Jones SR Griffiths-Jones SR 68.00 69.30 48.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 7 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.64584 -3.02472 1600000 178544 174 84 1 -3.86030 0.71891 2013-10-04 01:27:33 2021-11-19 10:36:03 RF00786 mir-289 1287 mir-289 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 83.60 69.80 This family represents the microRNA (miRNA) precursor mir-289 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 7 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.66508 -2.28079 1600000 176653 201 96 1 -3.24930 0.71873 2013-10-04 01:27:37 2021-11-19 10:36:03 RF00787 mir-288 1287 mir-288 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 68.30 36.70 This family represents the microRNA (miRNA) precursor mir-288 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 12 0 0 Gene; miRNA; Predicted; RNAalifold 15 0 \N 0.61756 -3.04339 1600000 204600 195 96 1 -3.06650 0.71873 2013-10-04 01:27:39 2021-11-19 10:36:03 RF00788 mir-287 1287 microRNA mir-287 Griffiths-Jones SR Griffiths-Jones SR 80.00 80.50 43.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 11 0 0 Gene; miRNA; Predicted; RNAalifold 15 0 \N 0.65031 -3.39497 1600000 172682 161 73 1 -3.63890 0.71903 2013-10-04 01:27:41 2021-11-19 10:36:03 RF00789 mir-286 1287 microRNA mir-286 Wilkinson A miRBase; Wilkinson A 40.00 40.00 39.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 379 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 99 0 \N 0.69651 -1.46523 1600000 148130 213 100 1 -3.68150 0.71871 2013-10-04 01:27:52 2022-05-06 12:09:57 RF00790 mir-358 1287 mir-358 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 65.00 65.60 58.90 This family represents the microRNA (miRNA) precursor mir-358 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.67789 -2.53245 1600000 170595 214 111 1 -3.14410 0.71867 2013-10-04 01:27:55 2021-11-19 10:36:03 RF00791 mir-357 1287 microRNA mir-357 Griffiths-Jones SR Griffiths-Jones SR 49.40 49.40 40.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 8 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.61541 -4.34212 1600000 207765 157 72 1 -3.39110 0.71902 2013-02-01 12:06:49 2022-05-06 11:43:45 RF00792 mir-490 1287 microRNA mir-490 Griffiths-Jones SR Griffiths-Jones SR 84.00 84.30 41.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 19 94 0 0 Gene; miRNA; Predicted; RNAalifold 98 0 \N 0.70210 -2.44323 1600000 154483 193 95 1 -3.45210 0.71867 2013-10-04 01:28:05 2021-11-19 10:36:03 RF00793 mir-497 1957 microRNA mir-497 Griffiths-Jones SR Griffiths-Jones SR 62.00 62.50 60.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 18 73 0 0 Gene; miRNA; Predicted; RNAalifold 41 0 \N 0.60347 -4.02475 1600000 162708 177 85 1 -3.79840 0.71886 2013-10-04 01:28:07 2021-11-19 10:36:03 RF00794 mir-42 1958 microRNA mir-42 Griffiths-Jones SR Griffiths-Jones SR 70.00 73.40 57.60 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 7 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.67577 -2.76354 1600000 151885 202 102 1 -3.21490 0.71882 2013-10-04 01:28:09 2021-11-19 10:36:03 RF00795 mir-43 1287 microRNA mir-43 Griffiths-Jones SR Griffiths-Jones SR 54.00 54.80 48.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 7 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.60415 -3.33350 1600000 153259 179 87 1 -3.27550 0.71894 2013-10-04 01:28:14 2021-11-19 10:36:03 RF00796 mir-48 1959 microRNA mir-48 Griffiths-Jones SR, Griffiths-Jones SR Griffiths-Jones SR 69.00 69.60 43.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 7 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.64446 -3.59549 1600000 213687 173 84 1 -3.32310 0.71884 2013-10-04 01:28:17 2021-11-19 10:36:03 RF00797 mir-355 1287 microRNA mir-355 Griffiths-Jones SR Griffiths-Jones SR 70.30 70.30 51.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 7 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.61847 -3.07455 1600000 179311 164 75 1 -3.95050 0.71907 2013-10-04 01:28:20 2022-05-06 11:43:45 RF00798 mir-49 1287 microRNA mir-49 Griffiths-Jones SR Griffiths-Jones SR 60.00 64.90 47.70 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.61281 -3.88831 1600000 185569 162 74 1 -3.43700 0.71917 2013-10-04 01:28:25 2021-11-19 10:36:03 RF00799 mir-354 1287 mir-354 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 50.00 55.30 45.40 This family represents the microRNA (miRNA) precursor mir-354 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.69648 -2.21865 1600000 204750 214 109 1 -3.33280 0.71859 2013-10-04 01:28:27 2021-11-19 10:36:03 RF00801 mir-280 1287 microRNA mir-280 Griffiths-Jones SR Griffiths-Jones SR 70.00 83.50 49.60 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 11 0 0 Gene; miRNA; Predicted; RNAalifold 14 0 \N 0.59326 -3.16536 1600000 193572 176 83 1 -3.50620 0.71885 2013-10-04 01:28:32 2021-11-19 10:36:03 RF00802 mir-207 1287 microRNA mir-207 Wilkinson A miRBase; Wilkinson A 50.00 59.50 48.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 25 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 25 0 \N 0.52527 -5.53035 1600000 227950 170 79 1 -3.80350 0.71907 2013-10-04 01:29:32 2022-05-06 11:43:45 RF00803 mir-425 1960 microRNA mir-425 Griffiths-Jones SR Griffiths-Jones SR 60.00 70.70 48.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 19 69 0 0 Gene; miRNA; Predicted; RNAalifold 70 0 \N 0.69413 -2.14575 1600000 147488 177 85 1 -3.46560 0.71885 2013-10-04 01:29:52 2021-11-19 10:36:03 RF00804 mir-240 1287 microRNA mir-240 Wilkinson A miRBase; Wilkinson A 50.00 50.30 48.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 15 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 13 0 \N 0.59068 -2.22503 1600000 190434 217 113 1 -3.34700 0.71846 2013-10-04 01:29:56 2021-11-19 11:53:18 RF00805 mir-351 1961 microRNA mir-351 Griffiths-Jones SR Griffiths-Jones SR 70.00 103.00 59.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.68087 -3.09181 1600000 267770 166 75 1 -3.54560 0.71970 2013-10-04 01:29:58 2022-05-06 11:43:52 RF00806 mir-350 1962 microRNA mir-350 Griffiths-Jones SR Griffiths-Jones SR 60.00 62.60 46.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 36 0 0 Gene; miRNA; Predicted; RNAalifold 34 0 \N 0.62981 -2.96107 1600000 185413 182 87 1 -3.58370 0.71895 2013-10-04 01:30:00 2021-11-19 10:36:03 RF00807 mir-314 1287 microRNA mir-314 Griffiths-Jones SR Griffiths-Jones SR 69.00 69.20 62.10 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 13 0 0 Gene; miRNA; Predicted; RNAalifold 17 0 \N 0.62196 -3.62227 1600000 221098 186 90 1 -3.39220 0.71891 2013-10-04 01:30:02 2021-11-19 10:36:03 RF00808 mir-86 1287 microRNA mir-86 Griffiths-Jones SR Griffiths-Jones SR 64.00 64.00 57.50 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 38 0 0 Gene; miRNA; Predicted; RNAalifold 39 0 \N 0.68897 -2.95750 1600000 158216 164 77 1 -3.58120 0.71896 2013-10-04 01:30:06 2021-11-19 10:36:03 RF00809 mir-241 1963 microRNA mir-241 Griffiths-Jones SR Griffiths-Jones SR 63.00 63.30 42.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 7 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.64466 -4.41492 1600000 257986 162 74 1 -3.28540 0.71898 2013-10-04 01:30:09 2021-11-19 10:36:03 RF00810 mir-85 1287 microRNA mir-85 Griffiths-Jones SR Griffiths-Jones SR 68.00 68.50 59.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.60730 -3.28135 1600000 158315 172 82 1 -3.30580 0.71904 2013-10-04 01:30:10 2021-11-19 10:36:03 RF00811 mir-84 1964 microRNA mir-84 Griffiths-Jones SR Griffiths-Jones SR 60.00 60.60 49.10 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 29 0 0 Gene; miRNA; Predicted; RNAalifold 23 0 \N 0.70869 -2.88683 1600000 171954 150 75 1 -3.41270 0.71893 2013-10-04 01:30:13 2021-11-19 10:36:03 RF00812 mir-83 1287 microRNA mir-83 Griffiths-Jones SR Griffiths-Jones SR 44.00 44.30 43.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 47 0 0 Gene; miRNA; Predicted; RNAalifold 44 0 \N 0.56989 -3.56857 1600000 132334 172 84 1 -3.53060 0.71888 2013-10-04 01:30:16 2021-11-19 10:36:03 RF00813 mir-11 1965 mir-11 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 45.00 45.00 44.90 This family represents the microRNA (miRNA) precursor mir-11 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 20 68 0 0 Gene; miRNA; Predicted; RNAalifold 73 0 \N 0.62975 -3.93331 1600000 160076 167 78 1 -3.86840 0.71895 2013-10-04 01:30:23 2021-11-19 10:36:03 RF00814 mir-316 1287 microRNA mir-316 Griffiths-Jones SR Griffiths-Jones SR 80.00 80.40 79.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 20 11 0 0 Gene; miRNA; Predicted; RNAalifold 24 0 \N 0.67272 -1.45457 1600000 147070 175 91 1 -4.13410 0.71875 2013-10-04 01:30:40 2021-11-19 10:36:03 RF00815 mir-244 1287 microRNA mir-244 Wilkinson A miRBase; Wilkinson A 61.00 64.20 59.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 5 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 8 0 \N 0.64420 -2.56306 1600000 110881 204 103 1 -3.94570 0.71873 2013-10-04 01:30:44 2022-05-06 12:09:57 RF00816 mir-245 1287 microRNA mir-245 Griffiths-Jones SR Griffiths-Jones SR 70.00 72.80 42.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.64720 -2.87091 1600000 162053 180 86 1 -3.24740 0.71875 2013-10-04 01:30:47 2021-11-19 10:36:03 RF00817 mir-80 1287 microRNA mir-80 Griffiths-Jones SR Griffiths-Jones SR 68.00 68.90 48.70 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.67762 -2.41370 1600000 171672 184 89 1 -3.57950 0.71883 2013-10-04 01:30:53 2021-11-19 10:36:03 RF00818 mir-318 1287 microRNA mir-318 Griffiths-Jones SR Griffiths-Jones SR 74.00 74.30 48.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 15 0 0 Gene; miRNA; Predicted; RNAalifold 18 0 \N 0.62139 -3.69383 1600000 250544 155 69 1 -3.65720 0.71916 2013-10-04 01:30:56 2021-11-19 10:36:03 RF00819 mir-246 1287 microRNA mir-246 Griffiths-Jones SR Griffiths-Jones SR 60.00 60.30 46.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 7 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.62985 -4.31680 1600000 250187 157 72 1 -3.47590 0.71901 2013-02-01 12:06:50 2021-11-19 10:36:03 RF00820 mir-248 1287 mir-248 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.70 86.50 This family represents the microRNA (miRNA) precursor mir-248 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.73561 -1.57763 1600000 182721 188 93 1 -3.64580 0.71882 2013-10-04 01:31:09 2021-11-19 10:36:03 RF00821 mir-249 1287 mir-249 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 96.70 57.90 This family represents the microRNA (miRNA) precursor mir-249 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.68544 -2.31474 1600000 138563 194 97 1 -3.50990 0.71877 2013-10-04 01:31:13 2021-11-19 10:36:03 RF00822 mir-274 1287 microRNA mir-274 Griffiths-Jones SR Griffiths-Jones SR 56.00 56.30 53.30 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 24 0 0 Gene; miRNA; Predicted; RNAalifold 27 0 \N 0.64963 -2.03397 1600000 141428 211 97 1 -3.45190 0.71881 2013-10-04 01:31:17 2021-11-19 10:36:03 RF00823 lsy-6 1966 lsy-6 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 61.90 56.60 This family represents the microRNA (miRNA) precursor lsy-6 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.66709 -3.13570 1600000 226455 165 74 1 -3.20670 0.72652 2013-10-04 01:31:22 2021-11-19 10:36:03 RF00824 mir-50 1287 microRNA mir-50 Wilkinson A miRBase; Wilkinson A 49.00 49.00 48.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 41 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 31 0 \N 0.60772 -3.41405 1600000 139437 196 101 1 -3.55300 0.71889 2013-10-04 01:31:27 2022-05-06 12:09:57 RF00825 mir-344 1967 microRNA mir-344 Wilkinson A miRBase; Wilkinson A 51.00 51.00 50.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 35 162 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 6 0 \N 0.66960 -1.65402 1600000 117514 177 95 1 -3.89310 0.71876 2013-10-04 01:31:30 2022-05-06 11:43:52 RF00826 mir-55 1287 microRNA mir-55 Griffiths-Jones SR Griffiths-Jones SR 53.00 53.20 47.20 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.61823 -4.22875 1600000 220445 161 74 1 -3.72160 0.71906 2013-10-04 01:31:37 2021-11-19 10:36:03 RF00827 mir-77 1287 microRNA mir-77 Wilkinson A miRBase; Wilkinson A 55.00 57.20 53.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 7 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 8 0 \N 0.67379 -1.83920 1600000 106300 198 97 1 -3.88030 0.71882 2013-02-01 12:06:52 2021-11-19 11:53:18 RF00828 mir-75 1287 microRNA mir-75 Wilkinson A miRBase; Wilkinson A 50.00 50.30 49.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 19 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 18 0 \N 0.66722 -2.05362 1600000 124805 196 100 1 -3.64410 0.71872 2013-10-04 01:31:47 2021-11-19 11:53:18 RF00829 mir-149 1287 microRNA mir-149 Griffiths-Jones SR Griffiths-Jones SR 79.00 79.70 48.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 35 0 0 Gene; miRNA; Predicted; RNAalifold 37 0 \N 0.53275 -4.65229 1600000 188650 181 86 1 -3.61120 0.71885 2013-10-04 01:31:49 2021-11-19 10:36:03 RF00830 mir-74 1287 microRNA mir-74 Wilkinson A miRBase; Wilkinson A 45.00 46.00 43.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 13 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 8 0 \N 0.64923 -3.05899 1600000 170770 190 96 1 -3.59520 0.71866 2013-10-04 01:31:55 2022-05-06 12:09:57 RF00831 mir-73 1287 microRNA mir-73 Wilkinson A miRBase; Wilkinson A 60.00 64.90 54.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 5 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 7 0 \N 0.76011 -1.70445 1600000 131236 194 100 1 -3.51830 0.71870 2013-10-04 01:31:57 2021-11-19 11:53:18 RF00832 mir-71 1968 microRNA mir-71 Griffiths-Jones SR Griffiths-Jones SR 50.00 50.20 49.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 36 149 0 0 Gene; miRNA; Predicted; RNAalifold 136 0 \N 0.61006 -3.83795 1600000 134837 174 73 1 -3.75420 0.71906 2013-10-04 01:31:59 2021-11-19 10:36:03 RF00833 mir-70 1287 microRNA mir-70 Wilkinson A miRBase; Wilkinson A 70.00 77.00 69.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 3 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 6 0 \N 0.60657 -1.30614 1600000 239752 219 120 1 -3.44450 0.71843 2013-10-04 01:32:14 2021-11-19 11:53:18 RF00834 mir-268 1287 microRNA mir-268 Wilkinson A miRBase; Wilkinson A 60.00 60.20 59.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 5 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 6 0 \N 0.60833 -4.12226 1600000 197569 190 95 1 -3.26710 0.71872 2013-10-04 01:32:16 2021-12-03 12:41:13 RF00835 mir-58 1969 microRNA mir-58 Griffiths-Jones SR Griffiths-Jones SR 76.00 76.40 69.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 7 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.63130 -3.58688 1600000 245975 181 77 1 -3.32780 0.71909 2013-10-04 01:32:32 2021-11-19 10:36:03 RF00836 mir-250 1287 microRNA mir-250 Griffiths-Jones SR Griffiths-Jones SR 58.00 58.20 56.40 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 14 0 0 Gene; miRNA; Predicted; RNAalifold 13 0 \N 0.72003 -2.29011 1600000 189677 167 81 1 -3.76080 0.71896 2013-10-04 01:32:35 2021-11-19 10:36:03 RF00837 mir-251 1287 microRNA mir-251 Griffiths-Jones SR Griffiths-Jones SR 67.50 67.50 65.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.66371 -2.96063 1600000 254541 138 61 1 -3.60710 0.72006 2013-10-04 01:32:37 2022-10-29 16:42:07 RF00838 mir-252 1287 microRNA mir-252 Griffiths-Jones SR Griffiths-Jones SR 45.00 45.00 44.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 44 198 0 0 Gene; miRNA; Predicted; RNAalifold 166 0 \N 0.60229 -3.68240 1600000 177738 215 79 1 -3.98750 0.71877 2013-10-04 01:32:39 2022-05-06 11:43:45 RF00839 mir-452 1970 microRNA mir-452 Griffiths-Jones SR Griffiths-Jones SR 70.00 74.40 61.80 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 35 0 0 Gene; miRNA; Predicted; RNAalifold 37 0 \N 0.61831 -3.24878 1600000 214546 180 85 1 -3.26460 0.71894 2013-10-04 01:32:46 2021-11-19 10:36:03 RF00840 mir-374 1971 microRNA mir-374 Wilkinson A miRBase; Wilkinson A 69.00 69.10 68.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 56 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 37 0 \N 0.66380 -2.13194 1600000 222357 156 71 1 -3.85830 0.71921 2013-10-04 01:32:55 2022-05-06 12:10:04 RF00841 mir-384 1972 microRNA mir-384 Wilkinson A miRBase; Wilkinson A, Daub J 61.00 61.20 60.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 16 75 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 37 0 \N 0.51448 -3.29073 1600000 163014 235 88 1 -3.11000 0.71871 2013-10-04 01:32:58 2022-05-06 12:10:04 RF00842 MIR403 2407 microRNA MIR403 Wilkinson A miRBase; Wilkinson A 70.00 70.00 69.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 56 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 27 0 \N 0.63074 -2.87580 1600000 145509 324 115 1 -3.12240 0.71877 2013-10-04 01:33:11 2021-11-19 11:53:19 RF00843 mir-228 1287 microRNA mir-228 Griffiths-Jones SR Griffiths-Jones SR 45.00 46.50 44.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 23 0 0 Gene; miRNA; Predicted; RNAalifold 19 0 \N 0.68518 -2.52208 1600000 123147 176 85 1 -3.74480 0.71894 2013-02-01 12:06:54 2021-11-19 10:36:03 RF00844 mir-67 1974 microRNA mir-67 Griffiths-Jones SR Griffiths-Jones SR 53.00 53.50 51.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 33 102 0 0 Gene; miRNA; Predicted; RNAalifold 101 0 \N 0.65778 -3.15319 1600000 103901 169 84 1 -4.32570 0.71884 2013-10-04 01:33:16 2022-10-29 16:42:07 RF00845 MIR158 1287 MIR158 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 67.00 67.20 66.30 This family represents the microRNA (miRNA) precursor MIR158 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 14 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.61693 -2.65402 1600000 142726 198 100 1 -3.55610 0.71879 2013-10-04 01:33:19 2021-11-19 10:36:03 RF00846 mir-64 1287 microRNA mir-64 Wilkinson A miRBase; Wilkinson A 45.00 48.90 44.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 27 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 5 0 \N 0.64413 -4.96603 1600000 192388 205 110 1 -3.49840 0.71842 2013-10-04 01:33:23 2021-11-19 11:53:18 RF00847 mir-62 1975 mir-62 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 85.30 41.00 This family represents the microRNA (miRNA) precursor mir-62 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.59107 -4.86895 1600000 321328 140 58 1 -3.98030 0.71940 2013-10-04 01:33:25 2021-11-19 10:36:03 RF00848 mir-61 1976 microRNA mir-61 Griffiths-Jones SR Griffiths-Jones SR 77.00 77.70 60.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 5 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.58602 -4.02581 1600000 163463 175 85 1 -3.67830 0.71906 2013-10-04 01:33:35 2022-10-29 16:42:07 RF00849 mir-60 1287 microRNA mir-60 Griffiths-Jones SR Griffiths-Jones SR 67.00 67.10 65.20 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 10 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.64278 -3.02496 1600000 212553 159 72 1 -3.22960 0.71925 2013-10-04 01:33:38 2021-11-19 10:36:03 RF00850 mir-259 1287 microRNA mir-259 Griffiths-Jones SR Griffiths-Jones SR 50.00 68.60 47.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.65669 -3.00750 1600000 202037 167 78 1 -3.49460 0.71903 2013-10-04 01:33:43 2021-11-19 10:36:03 RF00851 mir-230 1287 microRNA mir-230 Wilkinson A miRBase; Wilkinson A 60.00 63.50 59.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 7 0 \N 0.64338 -2.53716 1600000 137477 196 98 1 -3.29140 0.71890 2013-10-04 01:33:46 2022-05-06 11:43:45 RF00852 mir-231 1287 microRNA mir-231 Griffiths-Jones SR Griffiths-Jones SR 50.00 69.50 49.10 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.61419 -3.46501 1600000 176913 170 80 1 -3.53370 0.71903 2013-10-04 01:33:51 2021-11-19 10:36:03 RF00853 mir-304 1287 microRNA mir-304 Griffiths-Jones SR Griffiths-Jones SR 99.00 99.20 87.70 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 8 0 0 Gene; miRNA; Predicted; RNAalifold 13 0 \N 0.66177 -2.81345 1600000 226234 184 88 1 -3.31950 0.71884 2013-10-04 01:33:56 2021-11-19 10:36:03 RF00854 mir-5 1977 microRNA mir-5 Griffiths-Jones SR Griffiths-Jones SR 75.00 75.50 71.00 Imported from miRBase. mir-4 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 15 0 0 Gene; miRNA; Predicted; RNAalifold 18 0 \N 0.61680 -3.62068 1600000 221055 157 70 1 -3.54490 0.71916 2013-10-04 01:34:03 2021-11-19 10:36:03 RF00855 mir-254 1287 microRNA mir-254 Wilkinson A miRBase; Wilkinson A 65.00 73.60 59.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 4 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 7 0 \N 0.72248 -1.77749 1600000 124714 214 110 1 -3.67640 0.71863 2013-02-01 12:06:55 2022-05-06 12:09:57 RF00856 mir-232 1287 microRNA mir-232 Griffiths-Jones SR Griffiths-Jones SR 67.00 67.20 50.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 9 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.65889 -2.91659 1600000 202865 171 81 1 -3.63440 0.71895 2013-10-04 01:34:11 2021-11-19 10:36:03 RF00857 mir-233 1287 microRNA mir-233 Griffiths-Jones SR Griffiths-Jones SR 67.00 67.10 48.20 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.60728 -3.60913 1600000 189760 168 78 1 -3.49140 0.71904 2013-10-04 01:34:15 2021-11-19 10:36:03 RF00858 mir-306 1287 microRNA mir-306 Griffiths-Jones SR Griffiths-Jones SR 52.00 52.00 51.70 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 16 13 0 0 Gene; miRNA; Predicted; RNAalifold 18 0 \N 0.69220 -2.87590 1600000 193646 172 81 1 -3.88990 0.71901 2013-10-04 01:34:18 2021-11-19 10:36:03 RF00859 mir-234 1287 microRNA mir-234 Griffiths-Jones SR Griffiths-Jones SR 58.00 58.20 57.90 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 30 0 0 Gene; miRNA; Predicted; RNAalifold 29 0 \N 0.55943 -4.69079 1600000 167459 150 70 1 -3.11850 0.71911 2013-10-04 01:34:21 2021-11-19 10:36:03 RF00861 mir-488 1978 microRNA mir-488 Griffiths-Jones SR Griffiths-Jones SR 88.00 88.60 82.60 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 34 0 0 Gene; miRNA; Predicted; RNAalifold 36 0 \N 0.70274 -2.13211 1600000 213152 177 83 1 -3.12100 0.71892 2013-10-04 01:34:27 2021-11-19 10:36:03 RF00862 mir-491 1979 microRNA mir-491 Griffiths-Jones SR Griffiths-Jones SR 62.00 62.90 57.00 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 34 0 0 Gene; miRNA; Predicted; RNAalifold 37 0 \N 0.61986 -3.41461 1600000 200722 179 84 1 -3.43980 0.71898 2013-10-04 01:34:30 2021-11-19 10:36:03 RF00863 mir-BART17 1287 microRNA mir-BART17 Wilkinson A miRBase; Wilkinson A 100.00 112.80 50.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20 -Z 549862.597050 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 2 0 \N 0.63254 -3.98328 1600000 184564 205 104 1 -2.82960 0.71858 2013-10-04 01:34:33 2019-01-04 15:01:52 RF00864 mir-BART20 1287 mir-BART20 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 99.50 65.10 This family represents the microRNA (miRNA) precursor mir-BART20 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.62129 -3.56229 1600000 206672 174 81 1 -3.25990 0.72208 2013-10-04 01:34:41 2021-11-19 10:36:03 RF00865 MIR169_5 1287 microRNA MIR169_5 Wilkinson A miRBase; Wilkinson A 44.00 44.00 43.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 906 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 73 0 \N 0.57817 -5.56469 1600000 193162 273 129 1 -2.75910 0.71824 2013-10-04 01:34:44 2022-05-06 12:09:57 RF00866 mir-BART3 1287 mir-BART3 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 74.40 59.80 This family represents the microRNA (miRNA) precursor mir-BART3 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 7 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.57294 -4.44978 1600000 258727 166 77 1 -3.21510 0.71912 2013-10-04 01:34:50 2021-11-19 10:36:03 RF00867 mir-BART5 1287 mir-BART5 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 85.10 47.60 This family represents the microRNA (miRNA) precursor mir-BART5 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.57708 -3.78934 1600000 192347 185 89 1 -3.46770 0.71915 2013-10-04 01:34:55 2021-11-19 10:36:03 RF00868 mir-BART15 1287 mir-BART15 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 81.90 45.80 This family represents the microRNA (miRNA) precursor mir-BART15 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.63417 -3.17497 1600000 225996 172 79 1 -3.24800 0.72276 2013-10-04 01:34:58 2021-11-19 10:36:03 RF00869 mir-BART7 1287 microRNA mir-BART7 Griffiths-Jones SR Griffiths-Jones SR 70.00 92.60 61.90 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.62839 -3.14489 1600000 231327 178 84 1 -3.14230 0.72012 2013-10-04 01:35:00 2021-11-19 10:36:03 RF00870 mir-423 1980 microRNA mir-423 Griffiths-Jones SR Griffiths-Jones SR 71.00 71.70 49.80 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 15 36 0 0 Gene; miRNA; Predicted; RNAalifold 40 0 \N 0.62480 -3.59924 1600000 188355 175 81 1 -3.18630 0.71899 2013-10-04 01:35:03 2021-11-19 10:36:03 RF00872 mir-652 1981 microRNA mir-652 Wilkinson A miRBase; Wilkinson A 75.00 76.20 74.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 46 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 40 0 \N 0.64581 -3.05681 1600000 114174 190 97 1 -3.78390 0.71873 2013-10-04 01:35:18 2022-05-06 11:43:52 RF00873 mir-550 1982 microRNA mir-550 Griffiths-Jones SR Griffiths-Jones SR 81.00 81.80 79.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 26 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.65252 -3.05776 1600000 216833 177 85 1 -3.06470 0.71899 2013-10-04 01:35:27 2021-11-19 10:36:03 RF00874 mir-BART12 1287 microRNA mir-BART12 Griffiths-Jones SR Griffiths-Jones SR 70.00 88.80 45.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.63486 -2.95177 1600000 211122 178 84 1 -2.94270 0.72322 2013-10-04 01:35:29 2022-05-06 11:43:45 RF00875 mir-692 1287 microRNA mir-692 Wilkinson A miRBase; Wilkinson A, Daub J 42.00 42.00 41.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 1544 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 44 0 \N 0.59847 -5.46093 1600000 254423 172 83 1 -3.23530 0.71880 2013-10-04 01:35:32 2022-05-06 11:43:45 RF00876 mir-684 1287 microRNA mir-684 Wilkinson A miRBase; Wilkinson A 40.00 40.00 39.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 28 1133 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 102 0 \N 0.60354 -2.94586 1600000 181853 180 88 1 -3.10520 0.71880 2013-10-04 01:35:58 2022-05-06 11:43:45 RF00877 mir-592 1983 microRNA mir-592 Griffiths-Jones SR Griffiths-Jones SR 67.00 67.40 61.10 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 37 0 0 Gene; miRNA; Predicted; RNAalifold 40 0 \N 0.67806 -2.20473 1600000 178697 185 88 1 -3.40660 0.71899 2013-10-04 01:36:07 2021-11-19 10:36:03 RF00878 mir-456 1287 microRNA mir-456 Griffiths-Jones SR Griffiths-Jones SR 58.00 58.20 35.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 69 0 0 Gene; miRNA; Predicted; RNAalifold 68 0 \N 0.63874 -3.80597 1600000 181652 161 73 1 -3.56600 0.71904 2013-10-04 01:36:23 2021-11-19 10:36:03 RF00879 mir-615 1984 microRNA mir-615 Griffiths-Jones SR Griffiths-Jones SR 90.00 90.70 67.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 30 0 0 Gene; miRNA; Predicted; RNAalifold 30 0 \N 0.52402 -5.27509 1600000 218188 181 85 1 -3.14780 0.71905 2013-10-04 01:36:31 2021-11-19 10:36:03 RF00882 MIR811 1287 microRNA MIR811 Wilkinson A miRBase; Wilkinson A 87.00 87.10 86.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 2442 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 91 0 \N 0.63368 -3.86889 1600000 182681 316 190 1 -3.38290 0.71355 2013-10-04 01:36:38 2022-05-06 11:43:45 RF00883 MIR820 1287 microRNA MIR820 Wilkinson A miRBase; Wilkinson A 150.00 154.30 140.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 47 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 9 0 \N 0.48641 -8.17204 1600000 236027 310 181 1 -3.10950 0.71461 2013-10-04 01:36:43 2022-05-06 11:43:45 RF00884 MIR815 1287 microRNA MIR815 Wilkinson A miRBase; Wilkinson A 63.00 64.20 61.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 11 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 7 0 \N 0.61784 -3.51319 1600000 231452 173 81 1 -3.31760 0.71898 2013-10-04 01:36:49 2022-05-06 11:43:45 RF00885 MIR821 1287 microRNA MIR821 Wilkinson A miRBase; Wilkinson A 166.00 166.00 165.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 4897 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 17 0 \N 0.56594 -9.49123 1600000 355812 422 275 1 -3.68140 0.70720 2013-10-04 01:37:02 2019-01-04 15:01:52 RF00886 MIR807 1287 microRNA MIR807 Wilkinson A miRBase; Wilkinson A 113.00 113.20 112.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 30 1637 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 9 0 \N 0.56129 -7.42697 1600000 284639 301 176 1 -3.53190 0.71505 2013-10-04 01:37:17 2022-05-06 11:43:45 RF00887 mir-802 1985 microRNA mir-802 Wilkinson A miRBase; Wilkinson A 60.00 60.50 59.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 64 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 69 0 \N 0.62164 -1.78431 1600000 118736 190 94 1 -3.41940 0.71883 2013-10-04 01:37:23 2022-05-06 11:43:52 RF00888 mir-770 1287 microRNA mir-770 Wilkinson A miRBase; Wilkinson A 52.00 52.20 51.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 39 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 30 0 \N 0.57044 -3.56968 1600000 158111 195 99 1 -3.06960 0.71887 2013-02-01 12:06:57 2021-11-19 10:36:03 RF00890 mir-668 1287 microRNA mir-668 Wilkinson A miRBase; Wilkinson A 45.00 55.00 40.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 35 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 36 0 \N 0.59695 -4.20913 1600000 290042 149 61 1 -3.38890 0.71938 2013-10-04 01:37:40 2022-05-06 11:43:45 RF00891 mir-671 1292 microRNA mir-671 Griffiths-Jones SR Griffiths-Jones SR 65.00 65.90 64.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 15 37 0 0 Gene; miRNA; Predicted; RNAalifold 41 0 \N 0.54760 -4.68473 1600000 247762 179 84 1 -3.40920 0.71899 2013-02-01 12:06:58 2021-11-19 10:36:03 RF00892 mir-551 1287 microRNA mir-551 Griffiths-Jones SR Griffiths-Jones SR 51.00 51.30 49.90 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 29 183 0 0 Gene; miRNA; Predicted; RNAalifold 112 0 \N 0.67828 -3.25227 1600000 218969 157 74 1 -3.67160 0.71913 2013-10-04 01:37:59 2021-11-19 10:36:03 RF00893 MIR854 1986 microRNA MIR854 Wilkinson A miRBase; Wilkinson A 50.00 50.10 49.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 167 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 2 0 \N 0.59871 -11.11940 1600000 482496 360 221 1 -3.13340 0.71044 2013-10-04 01:38:02 2022-05-06 11:43:52 RF00894 mir-790 1287 microRNA mir-790 Griffiths-Jones SR Griffiths-Jones SR 63.00 69.20 59.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 8 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.60994 -4.22620 1600000 235410 155 70 1 -3.88920 0.71913 2013-10-04 01:38:08 2021-11-19 10:36:03 RF00895 mir-786 1987 microRNA mir-786 Wilkinson A miRBase; Wilkinson A 50.00 50.40 49.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 7 0 \N 0.67780 -2.31601 1600000 205635 187 91 1 -2.63810 0.72335 2013-10-04 01:38:10 2022-05-06 11:43:52 RF00896 mir-787 1287 microRNA mir-787 Wilkinson A miRBase; Wilkinson A 52.00 52.90 51.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 6 0 \N 0.63039 -3.03022 1600000 183928 189 92 1 -3.47430 0.72410 2013-10-04 01:38:15 2022-05-06 11:43:45 RF00897 mir-675 1988 microRNA mir-675 Griffiths-Jones SR Griffiths-Jones SR 86.00 86.60 80.00 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 25 0 0 Gene; miRNA; Predicted; RNAalifold 26 0 \N 0.51655 -5.46657 1600000 290067 163 73 1 -3.60430 0.71911 2013-10-04 01:38:17 2021-11-19 10:36:03 RF00898 mir-242 1287 microRNA mir-242 Wilkinson A miRBase; Wilkinson A 42.00 42.40 41.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 27 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 17 0 \N 0.63844 -2.98425 1600000 259119 161 71 1 -3.00910 0.72472 2013-10-04 01:38:22 2021-11-19 11:53:18 RF00899 mir-235 1287 microRNA mir-235 Wilkinson A miRBase; Wilkinson A 45.00 47.10 44.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 6 0 \N 0.58144 -4.47372 1600000 261146 168 76 1 -2.85870 0.72565 2013-10-04 01:38:27 2021-11-19 11:53:18 RF00900 mir-255 1287 microRNA mir-255 Griffiths-Jones SR Griffiths-Jones SR 50.00 50.10 48.00 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 18 0 0 Gene; miRNA; Predicted; RNAalifold 16 0 \N 0.58189 -4.00061 1600000 266991 139 59 1 -3.41430 0.71947 2013-10-04 01:38:32 2021-11-19 10:36:03 RF00901 MIR845_1 1287 microRNA MIR845_1 Griffiths-Jones SR Griffiths-Jones SR 81.00 81.00 75.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 5 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.68349 -2.38383 1600000 221918 179 86 1 -3.33030 0.71892 2013-10-04 01:38:34 2021-11-19 10:36:03 RF00902 mir-791 1287 microRNA mir-791 Griffiths-Jones SR Griffiths-Jones SR 70.00 70.80 51.90 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.62153 -3.80283 1600000 244434 181 86 1 -3.14350 0.72400 2013-10-04 01:38:39 2021-11-19 10:36:03 RF00903 mir-359 1287 microRNA mir-359 Wilkinson A miRBase; Wilkinson A 55.00 56.70 53.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 6 0 \N 0.65617 -2.68142 1600000 202018 188 92 1 -3.16660 0.72064 2013-10-04 01:38:41 2021-11-19 11:53:18 RF00904 mir-392 1287 microRNA mir-392 Griffiths-Jones SR Griffiths-Jones SR 62.00 62.80 56.70 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.62124 -3.15260 1600000 230955 167 75 1 -3.29080 0.72869 2013-10-04 01:38:44 2021-11-19 10:36:03 RF00905 mir-789 1287 microRNA mir-789 Griffiths-Jones SR Griffiths-Jones SR 100.00 104.40 67.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61342 -2.93874 1600000 195122 192 97 1 -3.41550 0.71886 2013-10-04 01:38:46 2021-11-19 10:36:03 RF00906 MIR1122 1287 microRNA MIR1122 Wilkinson A miRBase; Wilkinson A 77.00 77.00 76.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.99 -Z 549862.597050 CM SEQDB 12 100454 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 57 0 \N 0.59392 -4.21307 1600000 152011 241 135 1 -3.19340 0.71832 2013-10-04 01:38:49 2019-01-04 15:01:52 RF00907 mir-941 1287 microRNA mir-941 Griffiths-Jones SR Griffiths-Jones SR 60.00 84.90 55.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.54815 -4.84226 1600000 253248 163 72 1 -3.25290 0.71979 2013-10-04 01:39:15 2022-05-06 11:43:45 RF00908 MIR529 1989 microRNA MIR529 Wilkinson A miRBase; Wilkinson A 75.00 75.80 73.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 32 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 19 0 \N 0.67610 -3.69337 1600000 188354 242 131 1 -3.42390 0.71818 2013-10-04 01:39:17 2022-05-06 11:43:52 RF00909 mir-883 1287 microRNA mir-883 Wilkinson A miRBase; Wilkinson A 60.00 63.50 57.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 10 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 5 0 \N 0.63450 -3.14919 1600000 192765 167 77 1 -3.38810 0.71904 2013-10-04 01:39:24 2022-05-06 11:43:45 RF00910 mir-873 1990 microRNA mir-873 Griffiths-Jones SR Griffiths-Jones SR 95.00 95.70 94.50 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 38 0 0 Gene; miRNA; Predicted; RNAalifold 41 0 \N 0.69133 -2.69472 1600000 234971 166 77 1 -3.55490 0.71908 2013-10-04 01:39:29 2021-11-19 10:36:03 RF00911 mir-672 1991 microRNA mir-672 Wilkinson A miRBase; Wilkinson A 60.00 60.00 59.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 36 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 35 0 \N 0.61855 -3.34272 1600000 146681 198 100 1 -3.56630 0.71856 2013-10-04 01:39:32 2022-05-06 11:43:52 RF00912 mir-877 1287 microRNA mir-877 Griffiths-Jones SR Griffiths-Jones SR 47.00 47.20 46.70 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 36 0 0 Gene; miRNA; Predicted; RNAalifold 31 0 \N 0.60412 -3.93321 1600000 179275 180 86 1 -3.26430 0.71890 2013-10-04 01:40:17 2021-11-19 10:36:03 RF00914 mir-674 1287 microRNA mir-674 Griffiths-Jones SR Griffiths-Jones SR 93.00 93.00 59.20 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.57418 -4.18431 1600000 221760 170 77 1 -2.99040 0.71902 2013-10-04 01:40:22 2021-11-19 10:36:03 RF00915 mir-760 1287 microRNA mir-760 Wilkinson A miRBase; Wilkinson A 55.00 57.80 45.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 26 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 27 0 \N 0.58339 -4.55235 1600000 238783 171 80 1 -2.99050 0.71896 2013-10-04 01:40:24 2022-05-06 11:43:45 RF00917 mir-708 1992 microRNA mir-708 Wilkinson A miRBase; Wilkinson A 70.00 72.70 64.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 21 72 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 50 0 \N 0.55067 -4.67590 1600000 175614 179 88 1 -3.30190 0.71893 2013-10-04 01:40:26 2022-05-06 11:43:52 RF00918 mir-872 1993 microRNA mir-872 Wilkinson A miRBase; Wilkinson A 46.00 46.00 45.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 37 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 27 0 \N 0.65231 -2.86396 1600000 209609 172 81 1 -3.30370 0.71898 2013-10-04 01:40:32 2022-05-06 11:43:52 RF00919 mir-874 1994 microRNA mir-874 Griffiths-Jones SR Griffiths-Jones SR 74.00 74.60 46.00 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 36 0 0 Gene; miRNA; Predicted; RNAalifold 39 0 \N 0.58586 -3.50556 1600000 201172 170 78 1 -3.07280 0.71898 2013-10-04 01:40:35 2021-11-19 10:36:03 RF00920 MIR444 2408 microRNA MIR444 Wilkinson A miRBase; Wilkinson A 110.00 111.60 107.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 0 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 3 0 \N 0.61289 -4.48425 1600000 199520 445 151 1 -2.85930 0.71826 2013-10-04 01:40:40 2019-01-04 15:01:52 RF00921 mir-665 1287 microRNA mir-665 Griffiths-Jones SR Griffiths-Jones SR 52.00 52.20 45.40 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 33 0 0 Gene; miRNA; Predicted; RNAalifold 33 0 \N 0.60735 -4.51850 1600000 304558 160 72 1 -3.12300 0.71924 2013-10-04 01:40:44 2021-11-19 10:36:03 RF00922 mir-673 1287 microRNA mir-673 Griffiths-Jones SR Griffiths-Jones SR 100.00 103.00 39.80 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.57263 -4.38598 1600000 219532 178 83 1 -3.27730 0.71890 2013-10-04 01:40:48 2021-11-19 10:36:03 RF00925 MIR1027 1287 microRNA MIR1027 Wilkinson A, Daub J miRBase; Daub J 150.00 172.10 80.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold; Daub J 2 0 \N 0.62608 -4.50806 1600000 227890 260 142 1 -3.34190 0.71802 2013-10-04 01:40:50 2022-05-06 11:43:45 RF00926 MIR1151 1287 microRNA MIR1151 Wilkinson A miRBase; Wilkinson A 90.00 113.90 87.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 1 0 \N 0.49937 -5.26831 1600000 208615 216 110 1 -2.87770 0.71876 2013-10-04 01:41:00 2022-05-06 11:43:45 RF00927 mir-582 1287 microRNA mir-582 Griffiths-Jones SR Griffiths-Jones SR 84.00 84.70 68.60 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 35 0 0 Gene; miRNA; Predicted; RNAalifold 39 0 \N 0.61933 -3.31168 1600000 191397 177 83 1 -3.23830 0.71885 2013-10-04 01:41:05 2021-11-19 10:36:03 RF00928 mir-590 1996 microRNA mir-590 Wilkinson A miRBase; Wilkinson A 62.00 62.40 60.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 32 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 34 0 \N 0.58247 -3.38389 1600000 154273 190 97 1 -3.16380 0.71891 2013-10-04 01:41:08 2021-11-19 10:36:03 RF00929 mir-574 1287 microRNA mir-574 Wilkinson A miRBase; Wilkinson A 80.00 84.20 77.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 22 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 22 0 \N 0.51089 -5.26549 1600000 224534 169 77 1 -3.28770 0.71918 2013-10-04 01:41:17 2022-05-06 11:43:46 RF00931 mir-879 1287 microRNA mir-879 Griffiths-Jones SR Griffiths-Jones SR 90.00 97.10 51.40 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.65398 -3.31843 1600000 265012 165 74 1 -3.67550 0.72028 2013-10-04 01:51:12 2021-11-19 10:36:03 RF00932 mir-471 1287 microRNA mir-471 Griffiths-Jones SR Griffiths-Jones SR 80.00 99.40 63.00 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.65721 -3.02653 1600000 251372 155 66 1 -3.46620 0.72332 2013-10-04 01:51:15 2021-11-19 10:36:03 RF00933 mir-875 1287 microRNA mir-875 Griffiths-Jones SR Griffiths-Jones SR 84.00 84.10 83.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 12 55 0 0 Gene; miRNA; Predicted; RNAalifold 55 0 \N 0.69181 -2.39560 1600000 200961 160 73 1 -3.43840 0.71908 2013-10-04 01:51:17 2022-05-06 11:43:46 RF00934 mir-463 1287 microRNA mir-463 Griffiths-Jones SR Griffiths-Jones SR 70.00 93.60 53.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.62919 -3.51025 1600000 261319 155 66 1 -3.28520 0.72634 2013-02-01 12:07:00 2022-05-06 11:43:46 RF00935 mir-876 1287 microRNA mir-876 Griffiths-Jones SR Griffiths-Jones SR 88.00 88.10 66.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 37 0 0 Gene; miRNA; Predicted; RNAalifold 38 0 \N 0.62611 -3.48151 1600000 203708 174 81 1 -3.74270 0.71907 2013-10-04 01:51:32 2021-11-19 10:36:03 RF00936 mir-744 1997 microRNA mir-744 Griffiths-Jones SR Griffiths-Jones SR 87.00 87.10 42.70 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 36 0 0 Gene; miRNA; Predicted; RNAalifold 37 0 \N 0.59469 -3.57238 1600000 163029 196 96 1 -3.24490 0.71880 2013-10-04 01:51:43 2021-11-19 10:36:03 RF00937 mir-653 1287 microRNA mir-653 Griffiths-Jones SR Griffiths-Jones SR 77.00 77.00 56.50 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 32 0 0 Gene; miRNA; Predicted; RNAalifold 33 0 \N 0.63539 -3.20711 1600000 212505 168 78 1 -3.17680 0.71891 2013-10-04 01:51:46 2021-11-19 10:36:03 RF00939 mir-504 1998 microRNA mir-504 Griffiths-Jones SR Griffiths-Jones SR 57.00 57.80 49.60 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 15 35 0 0 Gene; miRNA; Predicted; RNAalifold 39 0 \N 0.63503 -3.39455 1600000 186154 169 78 1 -3.66400 0.71911 2013-10-04 01:51:49 2021-11-19 10:36:03 RF00940 mir-327 1287 microRNA mir-327 Wilkinson A miRBase; Wilkinson A 55.00 55.00 54.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 20 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 3 0 \N 0.65491 -3.16524 1600000 249826 149 62 1 -2.78640 0.72811 2013-10-04 01:51:51 2022-05-06 11:43:46 RF00941 mir-434 1999 microRNA mir-434 Griffiths-Jones SR Griffiths-Jones SR 100.00 105.30 58.40 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.60467 -3.68187 1600000 222695 175 81 1 -3.48760 0.71952 2013-10-04 01:51:54 2021-11-19 10:36:03 RF00942 mir-1224 1287 microRNA mir-1224 Wilkinson A miRBase; Wilkinson A 60.00 69.20 48.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 36 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 41 0 \N 0.58980 -4.50749 1600000 264679 178 86 1 -2.98390 0.71882 2013-10-04 01:52:01 2022-05-06 11:43:46 RF00943 MIR824 2000 microRNA MIR824 Wilkinson A miRBase; Wilkinson A 100.00 152.80 81.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 18 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 7 0 \N 0.50764 -13.88763 1600000 751910 851 654 1 -4.65360 0.69896 2013-10-04 01:52:22 2022-05-06 11:43:52 RF00945 mir-1226 1287 microRNA mir-1226 Wilkinson A miRBase; Wilkinson A 70.00 76.00 65.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 11 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 12 0 \N 0.59262 -3.89649 1600000 187499 168 76 1 -3.20400 0.72122 2013-10-04 01:52:24 2022-05-06 11:43:46 RF00946 mir-1225 1287 microRNA mir-1225 Wilkinson A miRBase; Wilkinson A 70.00 79.90 39.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 36 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 36 0 \N 0.40073 -10.62407 1600000 330628 195 94 1 -2.74360 0.71852 2013-10-04 01:52:27 2022-05-06 11:43:46 RF00947 mir-929 1287 microRNA mir-929 Griffiths-Jones SR Griffiths-Jones SR 56.00 56.50 49.20 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 18 76 0 0 Gene; miRNA; Predicted; RNAalifold 78 0 \N 0.68904 -2.41421 1600000 165750 158 74 1 -3.82500 0.71899 2013-10-04 01:52:29 2021-11-19 10:36:03 RF00948 mir-996 1287 microRNA mir-996 Griffiths-Jones SR Griffiths-Jones SR 43.00 43.40 42.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 73 0 0 Gene; miRNA; Predicted; RNAalifold 69 0 \N 0.62904 -4.08627 1600000 222947 157 70 1 -3.71760 0.71938 2013-10-04 01:52:39 2022-10-29 16:55:16 RF00949 mir-983 1287 microRNA mir-983 Griffiths-Jones SR Griffiths-Jones SR 100.00 100.10 56.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.52648 -3.08310 1600000 165085 186 90 1 -3.16060 0.71871 2013-10-04 01:52:44 2021-11-19 10:36:03 RF00950 mir-927 1287 microRNA mir-927 Griffiths-Jones SR Griffiths-Jones SR 60.00 60.40 59.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 16 94 0 0 Gene; miRNA; Predicted; RNAalifold 79 0 \N 0.56725 -3.02893 1600000 112020 172 86 1 -3.96200 0.71895 2013-10-04 01:52:47 2021-11-19 10:36:03 RF00951 mir-1302 1287 microRNA mir-1302 Wilkinson A miRBase; Wilkinson A 62.00 62.00 61.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 24 3572 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 45 0 \N 0.58066 -2.48156 1600000 323012 122 52 1 -3.78480 0.71933 2013-10-04 01:52:53 2022-05-06 11:43:46 RF00952 mir-650 2001 microRNA mir-650 Wilkinson A miRBase; Wilkinson A, Daub J 45.00 45.00 44.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 610 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 37 0 \N 0.65799 -2.95139 1600000 173408 189 95 1 -3.16520 0.71876 2013-10-04 01:53:10 2022-05-06 11:43:52 RF00953 mir-1497 1287 microRNA mir-1497 Wilkinson A miRBase; Wilkinson A 80.00 99.50 35.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 2 0 \N 0.66231 -3.85155 1600000 246557 165 74 1 -3.07010 0.72390 2013-10-04 01:53:16 2021-11-19 11:53:18 RF00954 MIR1446 1287 microRNA MIR1446 Wilkinson A miRBase; Wilkinson A 65.00 68.80 64.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 15 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 5 0 \N 0.66078 -2.91766 1600000 191904 202 105 1 -3.34180 0.71877 2013-10-04 01:53:18 2022-05-06 11:43:46 RF00955 mir-1829 1287 microRNA mir-1829 Griffiths-Jones SR Griffiths-Jones SR 60.00 62.70 43.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 6 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63365 -3.12595 1600000 277444 138 58 1 -3.69890 0.71932 2013-10-04 01:53:27 2021-11-19 10:36:03 RF00956 MIR1444 1287 microRNA MIR1444 Wilkinson A miRBase; Wilkinson A 80.00 90.50 74.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 1 0 \N 0.62285 -2.94758 1600000 211172 178 85 1 -3.57900 0.71886 2013-10-04 01:53:30 2022-05-06 11:43:46 RF00957 mir-663 2002 microRNA mir-663 Wilkinson A miRBase; Wilkinson A 43.00 43.40 42.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 91 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 30 0 \N 0.45627 -5.17236 1600000 142217 182 93 1 -3.17050 0.71916 2013-10-04 01:53:32 2022-05-06 11:43:52 RF00958 mir-498 2003 microRNA mir-498 Wilkinson A miRBase; Wilkinson A 80.00 91.50 74.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 10 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 13 0 \N 0.71157 -1.99159 1600000 130117 226 124 1 -3.45580 0.71858 2013-10-04 01:53:38 2021-11-19 10:36:03 RF00959 mir-612 2004 microRNA mir-612 Wilkinson A miRBase; Wilkinson A 70.00 77.80 66.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 14 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 15 0 \N 0.57709 -3.67462 1600000 154292 198 101 1 -2.92440 0.71875 2013-10-04 01:53:42 2021-11-19 10:36:03 RF00960 mir-661 2005 microRNA mir-661 Griffiths-Jones SR Griffiths-Jones SR 73.00 73.80 63.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 7 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.53481 -4.73877 1600000 253311 215 84 1 -3.19800 0.71891 2013-10-04 01:53:46 2022-05-06 11:43:52 RF00961 mir-581 1287 microRNA mir-581 Griffiths-Jones SR Griffiths-Jones SR 100.00 106.50 69.90 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.62580 -3.41902 1600000 235576 186 89 1 -3.27170 0.71887 2013-10-04 01:53:49 2021-11-19 10:36:03 RF00962 mir-586 1287 microRNA mir-586 Griffiths-Jones SR Griffiths-Jones SR 89.00 89.40 71.70 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.67189 -2.44829 1600000 192990 183 87 1 -3.43350 0.71888 2013-10-04 01:53:53 2021-11-19 10:36:03 RF00963 mir-642 1287 microRNA mir-642 Griffiths-Jones SR Griffiths-Jones SR 90.00 90.00 87.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.54617 -4.92503 1600000 207811 176 83 1 -3.36450 0.71910 2013-10-04 01:53:56 2021-11-19 10:36:03 RF00964 mir-938 2006 microRNA mir-938 Griffiths-Jones SR Griffiths-Jones SR 84.00 84.20 50.60 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.62905 -3.65590 1600000 225307 174 81 1 -3.43980 0.71899 2013-10-04 01:54:02 2021-11-19 10:36:03 RF00965 mir-549 2007 microRNA mir-549 Griffiths-Jones SR Griffiths-Jones SR 93.00 93.90 86.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.64990 -2.60295 1600000 241165 161 72 1 -3.56920 0.71925 2013-10-04 01:54:04 2022-05-06 11:43:52 RF00966 mir-676 1287 mir-676 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 61.00 69.30 60.50 This family represents the microRNA (miRNA) precursor mir-676 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 30 0 0 Gene; miRNA; Predicted; RNAalifold 31 0 \N 0.68412 -2.33240 1600000 204977 161 73 1 -3.71200 0.71904 2013-10-04 01:54:10 2021-11-19 10:36:03 RF00967 mir-281 2008 mir-281 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 96.70 50.40 This family represents the microRNA (miRNA) precursor mir-281 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61540 -3.45982 1600000 164537 181 86 1 -3.13940 0.72139 2013-10-04 01:54:12 2021-11-19 10:36:03 RF00968 mir-626 1287 mir-626 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 91.60 55.00 This family represents the microRNA (miRNA) precursor mir-626 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.66223 -2.55052 1600000 223532 178 84 1 -3.75940 0.71891 2013-10-04 01:54:15 2021-11-19 10:36:03 RF00969 mir-556 1287 microRNA mir-556 Griffiths-Jones SR Griffiths-Jones SR 84.00 84.20 83.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 8 0 0 Gene; miRNA; Predicted; RNAalifold 11 0 \N 0.58824 -3.67682 1600000 191532 184 88 1 -3.63260 0.71890 2013-02-01 12:07:02 2021-11-19 10:36:03 RF00970 mir-648 1287 mir-648 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 84.00 84.20 34.70 This family represents the microRNA (miRNA) precursor mir-648 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.64415 -3.13813 1600000 197672 179 84 1 -3.06690 0.71895 2013-10-04 01:54:22 2021-11-19 10:36:03 RF00971 mir-578 1287 mir-578 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 98.00 98.80 88.20 This family represents the microRNA (miRNA) precursor mir-578 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 7 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.59231 -3.55002 1600000 239755 179 84 1 -3.61100 0.71892 2013-10-04 01:54:25 2021-11-19 10:36:03 RF00972 mir-651 1287 microRNA mir-651 Wilkinson A miRBase; Wilkinson A 65.00 65.30 63.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 16 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 15 0 \N 0.63448 -1.61062 1600000 142595 195 97 1 -2.86650 0.71879 2013-10-04 01:54:30 2022-05-06 11:43:46 RF00973 mir-597 1287 microRNA mir-597 Wilkinson A, Daub J miRBase; Wilkinson A, Daub J 50.00 52.40 47.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 16 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 16 0 \N 0.61403 -3.06121 1600000 195003 195 97 1 -3.24740 0.71867 2013-10-04 01:54:39 2022-05-06 11:43:46 RF00974 mir-607 1287 microRNA mir-607 Griffiths-Jones SR Griffiths-Jones SR 94.00 94.20 90.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.57537 -4.50900 1600000 230120 189 91 1 -3.37970 0.71882 2013-10-04 01:54:43 2021-11-19 10:36:03 RF00975 MIR845_2 1287 microRNA MIR845_2 Wilkinson A miRBase; Wilkinson A 80.00 80.50 78.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 86 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 1 0 \N 0.58222 -4.60246 1600000 284502 244 131 1 -3.08190 0.71819 2013-10-04 01:54:45 2021-11-19 10:36:03 RF00976 mir-583 1287 microRNA mir-583 Wilkinson A miRBase; Wilkinson A 68.00 68.00 66.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 9 0 \N 0.64448 -3.60208 1600000 199748 166 75 1 -3.48870 0.71902 2013-10-04 01:54:48 2022-05-06 11:43:46 RF00977 mir-600 1287 microRNA mir-600 Griffiths-Jones SR Griffiths-Jones SR 80.00 85.70 43.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.61439 -3.63221 1600000 232029 173 80 1 -3.19440 0.71887 2013-10-04 01:54:51 2021-11-19 10:36:03 RF00978 mir-638 2009 microRNA mir-638 Wilkinson A miRBase; Wilkinson A 50.00 54.40 44.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 20 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 22 0 \N 0.49450 -5.31712 1600000 191608 201 100 1 -3.01110 0.71861 2013-10-04 01:54:58 2022-05-06 11:43:52 RF00979 mir-553 1287 microRNA mir-553 Griffiths-Jones SR Griffiths-Jones SR 82.00 82.40 51.40 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.61855 -3.31122 1600000 270003 146 62 1 -3.73160 0.71927 2013-10-04 01:55:00 2021-11-19 10:36:03 RF00980 mir-643 1287 microRNA mir-643 Wilkinson A miRBase; Wilkinson A 55.00 55.00 52.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 13 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 11 0 \N 0.66387 -1.71733 1600000 184901 197 97 1 -3.34390 0.71871 2013-10-04 01:55:03 2021-11-19 10:36:03 RF00981 mir-939 2010 microRNA mir-939 Griffiths-Jones SR Griffiths-Jones SR 84.00 84.20 55.20 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 10 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.56053 -4.27982 1600000 214001 176 82 1 -3.12340 0.71914 2013-10-04 01:55:06 2021-11-19 10:36:03 RF00983 mir-662 1287 microRNA mir-662 Wilkinson A miRBase; Wilkinson A 60.00 60.50 44.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 28 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 34 0 \N 0.60716 -3.73840 1600000 198588 191 95 1 -3.42320 0.71881 2013-10-04 01:55:18 2022-05-06 12:09:57 RF00984 mir-576 1287 microRNA mir-576 Griffiths-Jones SR Griffiths-Jones SR 99.00 99.70 86.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.66817 -2.43087 1600000 165431 188 90 1 -3.33400 0.71881 2013-10-04 01:55:21 2021-11-19 10:36:03 RF00985 mir-640 1287 microRNA mir-640 Griffiths-Jones SR Griffiths-Jones SR 96.00 96.00 68.90 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.64523 -2.98464 1600000 208285 186 89 1 -3.45830 0.71889 2013-10-04 01:55:27 2021-11-19 10:36:03 RF00986 mir-920 1287 mir-920 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 92.50 61.10 This family represents the microRNA (miRNA) precursor mir-920 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.65405 -3.18545 1600000 223868 164 74 1 -3.03690 0.71897 2013-10-04 01:55:31 2021-11-19 10:36:03 RF00987 mir-589 2011 microRNA mir-589 Griffiths-Jones SR Griffiths-Jones SR 54.80 54.80 54.30 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 12 0 0 Gene; miRNA; Predicted; RNAalifold 14 0 \N 0.59343 -3.27376 1600000 179316 195 96 1 -3.31120 0.71869 2013-10-04 01:55:33 2021-11-19 10:36:03 RF00988 mir-657 2012 microRNA mir-657 Griffiths-Jones SR Griffiths-Jones SR 69.00 69.20 45.30 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 8 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.60950 -3.41958 1600000 173914 182 86 1 -3.37480 0.71896 2013-10-04 01:55:41 2021-11-19 10:36:03 RF00989 mir-492 2013 microRNA mir-492 Wilkinson A miRBase; Wilkinson A, Daub J 75.00 76.30 74.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 73 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 28 0 \N 0.61695 -3.31012 1600000 194716 218 116 1 -3.36170 0.71834 2013-10-04 01:55:44 2022-05-06 11:43:52 RF00990 mir-552 2014 microRNA mir-552 Wilkinson A miRBase; Wilkinson A, Daub J 70.00 71.20 67.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.61280 -2.88631 1600000 167733 196 96 1 -3.32430 0.71871 2013-10-04 01:55:56 2021-11-19 10:36:03 RF00991 mir-599 1287 microRNA mir-599 Wilkinson A miRBase; Wilkinson A 50.00 52.30 49.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 81 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 82 0 \N 0.65521 -2.48881 1600000 141322 190 95 1 -3.72840 0.71881 2013-10-04 01:56:02 2022-05-06 11:43:46 RF00992 mir-593 1287 microRNA mir-593 Griffiths-Jones SR Griffiths-Jones SR 100.00 116.50 81.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 7 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.66840 -2.70657 1600000 161089 202 100 1 -3.16870 0.71871 2013-10-04 01:56:05 2021-11-19 10:36:03 RF00993 mir-1473 1287 microRNA mir-1473 Griffiths-Jones SR Griffiths-Jones SR 95.00 95.20 48.00 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63211 -3.90683 1600000 246216 173 80 1 -3.08390 0.72331 2013-10-04 01:56:09 2021-11-19 10:36:03 RF00994 mir-1255 1287 microRNA mir-1255 Wilkinson A miRBase; Wilkinson A 65.00 65.00 64.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 14455 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 38 0 \N 0.62355 -3.38286 1600000 319752 151 66 1 -3.70110 0.71914 2013-10-04 01:56:11 2019-01-04 15:01:52 RF00995 mir-616 2015 microRNA mir-616 Wilkinson A miRBase; Wilkinson A 71.00 71.60 70.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 11 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 10 0 \N 0.62146 -2.59213 1600000 137280 195 97 1 -3.42650 0.71874 2013-10-04 01:56:33 2022-05-06 11:43:52 RF00996 mir-631 1287 microRNA mir-631 Griffiths-Jones SR Griffiths-Jones SR 59.00 59.20 53.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 23 0 0 Gene; miRNA; Predicted; RNAalifold 23 0 \N 0.58413 -3.62051 1600000 260309 162 73 1 -3.62770 0.71924 2013-10-04 01:56:38 2021-11-19 10:36:03 RF00997 mir-942 1287 microRNA mir-942 Griffiths-Jones SR Griffiths-Jones SR 100.00 101.40 77.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.61370 -3.59758 1600000 226680 182 86 1 -3.51010 0.71888 2013-10-04 01:56:45 2021-11-19 10:36:03 RF00998 mir-562 2016 microRNA mir-562 Wilkinson A miRBase; Wilkinson A 68.00 68.00 67.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 2987 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 39 0 \N 0.58264 -2.51506 1600000 165894 199 95 1 -3.02210 0.71871 2013-10-04 01:56:48 2022-05-06 12:10:04 RF00999 mir-924 1287 microRNA mir-924 Wilkinson A miRBase; Wilkinson A 65.00 65.40 62.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 13 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 9 0 \N 0.67040 -3.76485 1600000 386464 130 53 1 -3.90490 0.72084 2013-10-04 01:59:07 2022-05-06 11:43:46 RF01000 mir-580 2017 microRNA mir-580 Griffiths-Jones SR Griffiths-Jones SR 83.00 100.80 82.40 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.64700 -2.64324 1600000 199134 192 93 1 -3.35400 0.71883 2013-10-04 01:59:10 2021-11-19 10:36:03 RF01001 mir-609 1287 microRNA mir-609 Griffiths-Jones SR Griffiths-Jones SR 98.00 98.30 75.80 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 8 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.59180 -4.14436 1600000 200065 190 92 1 -3.31150 0.71885 2013-10-04 01:59:14 2021-11-19 10:36:03 RF01002 mir-936 1287 microRNA mir-936 Wilkinson A miRBase; Wilkinson A 55.00 59.60 50.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 17 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 17 0 \N 0.63572 -3.37590 1600000 189133 195 98 1 -3.12910 0.71861 2013-10-04 01:59:18 2021-11-19 11:53:18 RF01003 mir-563 1287 microRNA mir-563 Wilkinson A miRBase; Wilkinson A 48.00 56.20 45.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 25 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 25 0 \N 0.59649 -5.16070 1600000 293255 166 79 1 -3.60190 0.71896 2013-10-04 01:59:21 2022-05-06 11:43:46 RF01004 mir-557 1287 microRNA mir-557 Wilkinson A miRBase; Wilkinson A 70.00 72.40 40.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 10 0 \N 0.69606 -2.57974 1600000 214807 161 71 1 -3.46320 0.72173 2013-10-04 01:59:26 2022-05-06 11:43:46 RF01005 MIR530 1287 microRNA MIR530 Wilkinson A miRBase; Wilkinson A 85.00 85.20 84.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 29 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 19 0 \N 0.55827 -6.46343 1600000 262511 295 172 1 -3.03210 0.71548 2013-10-04 01:59:29 2022-05-06 12:09:57 RF01006 mir-601 2018 microRNA mir-601 Wilkinson A miRBase; Wilkinson A 80.00 101.90 64.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 9 0 \N 0.66757 -3.17746 1600000 203040 172 79 1 -3.69330 0.71884 2013-10-04 01:59:48 2021-12-03 12:04:12 RF01007 mir-624 2019 microRNA mir-624 Griffiths-Jones SR Griffiths-Jones SR 100.00 101.40 86.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 8 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.62592 -3.54690 1600000 226458 182 86 1 -3.61640 0.71908 2013-10-04 01:59:50 2021-11-19 10:36:03 RF01008 mir-636 2020 microRNA mir-636 Wilkinson A miRBase; Wilkinson A 55.00 56.70 54.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 11 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 12 0 \N 0.45141 -6.09113 1600000 192880 197 99 1 -2.60340 0.71876 2013-10-04 01:59:53 2021-12-03 12:04:12 RF01009 mir-M7 2021 microRNA mir-M7 Griffiths-Jones SR Griffiths-Jones SR 91.00 91.10 44.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.66240 -3.12041 1600000 186057 156 67 1 -2.92340 0.72911 2013-10-04 01:59:55 2021-11-19 10:36:03 RF01010 mir-632 2022 microRNA mir-632 Griffiths-Jones SR Griffiths-Jones SR 67.00 67.20 52.40 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 36 0 0 Gene; miRNA; Predicted; RNAalifold 37 0 \N 0.54612 -4.21535 1600000 191036 177 84 1 -3.43800 0.71904 2013-10-04 02:00:01 2021-11-19 10:36:03 RF01011 mir-605 2023 microRNA mir-605 Griffiths-Jones SR Griffiths-Jones SR 98.00 98.10 77.30 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 6 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.60145 -4.31787 1600000 242261 176 82 1 -3.70510 0.71923 2013-10-04 02:00:06 2021-11-19 10:36:03 RF01012 mir-628 1287 microRNA mir-628 Griffiths-Jones SR Griffiths-Jones SR 75.00 75.90 66.40 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 31 0 0 Gene; miRNA; Predicted; RNAalifold 35 0 \N 0.67726 -2.85195 1600000 213302 168 77 1 -3.09840 0.71905 2013-10-04 02:00:11 2021-11-19 10:36:03 RF01013 mir-577 1287 microRNA mir-577 Griffiths-Jones SR Griffiths-Jones SR 100.00 100.50 90.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 8 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.57496 -4.92468 1600000 245060 182 86 1 -3.54510 0.71905 2013-10-04 02:00:19 2021-11-19 10:36:03 RF01014 mir-1306 1287 microRNA mir-1306 Griffiths-Jones SR Griffiths-Jones SR 70.00 75.70 49.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 19 113 0 0 Gene; miRNA; Predicted; RNAalifold 109 0 \N 0.63347 -4.18033 1600000 180119 161 72 1 -3.58460 0.71905 2013-10-04 02:00:23 2021-12-03 12:04:12 RF01015 mir-885 2024 microRNA mir-885 Griffiths-Jones SR Griffiths-Jones SR 66.00 66.80 63.20 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 28 0 0 Gene; miRNA; Predicted; RNAalifold 31 0 \N 0.64931 -3.30012 1600000 215935 162 74 1 -3.86800 0.71913 2013-10-04 02:00:29 2022-05-06 11:43:52 RF01016 mir-584 2025 microRNA mir-584 Wilkinson A miRBase; Wilkinson A, Daub J 62.00 62.00 61.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 16 308 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 40 0 \N 0.62332 -2.88696 1600000 119961 295 97 1 -3.36220 0.71878 2013-10-04 02:00:37 2021-12-03 12:41:14 RF01018 mir-569 2027 microRNA mir-569 Wilkinson A miRBase; Wilkinson A 70.00 73.10 51.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 33 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 38 0 \N 0.57441 -3.00653 1600000 190555 191 96 1 -3.22530 0.71868 2013-10-04 02:01:02 2021-12-03 12:41:14 RF01019 mir-922 1287 microRNA mir-922 Wilkinson A miRBase; Wilkinson A 45.00 48.00 40.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 21 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 26 0 \N 0.65254 -2.55342 1600000 193098 168 81 1 -3.74260 0.71894 2013-10-04 02:01:05 2021-12-03 12:41:13 RF01020 mir-572 1293 microRNA mir-572 Griffiths-Jones SR Griffiths-Jones SR 80.00 87.50 74.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 11 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.50763 -4.66614 1600000 205841 188 90 1 -3.12790 0.71887 2013-02-01 12:07:03 2022-05-06 11:43:49 RF01021 mir-558 2028 microRNA mir-558 Griffiths-Jones SR Griffiths-Jones SR 90.00 91.50 59.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.69476 -2.47664 1600000 276226 159 70 1 -3.61340 0.71918 2013-10-04 02:01:19 2022-05-06 11:43:52 RF01022 mir-611 1287 microRNA mir-611 Wilkinson A miRBase; Wilkinson A 40.00 42.80 39.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 20 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 23 0 \N 0.65867 -4.50396 1600000 295057 148 67 1 -3.33570 0.71904 2013-10-04 02:02:52 2021-12-03 12:41:13 RF01023 mir-940 1287 microRNA mir-940 Wilkinson A miRBase; Wilkinson A 55.00 56.00 48.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 27 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 27 0 \N 0.50395 -5.15569 1600000 233908 192 94 1 -3.22750 0.71880 2013-10-04 02:03:01 2021-12-03 12:04:12 RF01024 mir-944 1287 microRNA mir-944 Griffiths-Jones SR Griffiths-Jones SR 100.00 100.60 85.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.56431 -4.29947 1600000 221672 185 88 1 -3.90010 0.71895 2013-10-04 02:03:04 2021-11-19 10:36:03 RF01025 mir-934 1287 microRNA mir-934 Griffiths-Jones SR Griffiths-Jones SR 80.00 89.50 70.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.61528 -3.82697 1600000 246330 178 83 1 -3.27010 0.71901 2013-10-04 02:03:11 2021-12-03 12:04:12 RF01026 MIR828 2029 microRNA MIR828 Griffiths-Jones SR Griffiths-Jones SR 69.00 69.20 68.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 16 70 0 0 Gene; miRNA; Predicted; RNAalifold 49 0 \N 0.57511 -4.28639 1600000 196545 360 121 1 -2.70400 0.71841 2013-10-04 02:03:13 2022-05-06 11:43:52 RF01027 mir-765 2030 microRNA mir-765 Griffiths-Jones SR Griffiths-Jones SR 130.00 131.60 107.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.59871 -4.62082 1600000 219556 221 114 1 -3.48000 0.71842 2013-10-04 02:03:24 2022-05-06 11:43:52 RF01028 mir-633 2031 microRNA mir-633 Wilkinson A miRBase; Wilkinson A 75.00 80.60 70.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 9 0 \N 0.48585 -4.70088 1600000 223575 195 98 1 -2.99060 0.71855 2013-10-04 02:03:27 2022-05-06 11:43:52 RF01029 mir-649 1287 microRNA mir-649 Wilkinson A miRBase; Wilkinson A 82.00 84.90 81.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 11 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 9 0 \N 0.64152 -2.38219 1600000 139577 318 97 1 -3.41410 0.71875 2013-10-04 02:03:30 2022-05-06 11:43:46 RF01030 mir-422 1287 microRNA mir-422 Griffiths-Jones SR Griffiths-Jones SR 90.00 97.50 57.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.59184 -3.97605 1600000 237903 181 85 1 -3.44900 0.71895 2013-10-04 02:03:34 2022-05-06 11:43:46 RF01031 mir-639 1287 microRNA mir-639 Wilkinson A miRBase; Wilkinson A 44.00 45.60 42.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 27 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 28 0 \N 0.51624 -5.27691 1600000 174563 194 98 1 -3.34550 0.71871 2013-10-04 02:03:37 2022-05-06 12:09:57 RF01032 mir-554 1287 microRNA mir-554 Wilkinson A miRBase; Wilkinson A 40.00 44.20 37.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 18 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 20 0 \N 0.61833 -3.94906 1600000 179273 193 96 1 -3.05340 0.71852 2013-10-04 02:03:46 2022-05-06 12:09:57 RF01033 mir-767 2032 microRNA mir-767 Wilkinson A miRBase; Wilkinson A 70.00 79.00 58.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 32 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 35 0 \N 0.70003 -1.81248 1600000 186615 209 110 1 -3.53360 0.71860 2013-10-04 02:03:48 2022-05-06 12:10:04 RF01034 mir-618 2033 microRNA mir-618 Griffiths-Jones SR, Griffiths-Jones SR Griffiths-Jones SR 96.00 96.70 64.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.61968 -3.21727 1600000 182214 194 95 1 -3.15690 0.71876 2013-10-04 02:03:51 2021-11-19 10:36:03 RF01035 mir-887 1287 microRNA mir-887 Griffiths-Jones SR Griffiths-Jones SR 100.00 100.90 47.20 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 9 0 0 Gene; miRNA; Predicted; RNAalifold 11 0 \N 0.58668 -4.18278 1600000 243428 171 78 1 -3.34650 0.71918 2013-10-04 02:03:53 2021-11-19 10:36:03 RF01036 mir-567 1287 microRNA mir-567 Wilkinson A miRBase; Wilkinson A 52.00 54.60 51.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 15 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 17 0 \N 0.61024 -2.02010 1600000 142713 186 95 1 -3.56880 0.71882 2013-10-04 02:04:01 2022-05-06 12:09:57 RF01037 mir-644 1287 microRNA mir-644 Wilkinson A miRBase; Wilkinson A, Daub J 60.00 66.50 50.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 8 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.63998 -2.24588 1600000 214192 192 94 1 -3.42130 0.71872 2013-10-04 02:04:16 2022-05-06 11:43:46 RF01038 mir-1307 1287 microRNA mir-1307 Griffiths-Jones SR Griffiths-Jones SR 69.00 69.10 61.20 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 24 0 0 Gene; miRNA; Predicted; RNAalifold 27 0 \N 0.59929 -3.24351 1600000 178686 187 90 1 -3.57900 0.71890 2013-10-04 02:04:22 2021-11-19 10:36:03 RF01039 mir-937 1287 microRNA mir-937 Wilkinson A miRBase; Wilkinson A 45.00 47.50 43.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 28 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 28 0 \N 0.51193 -5.28338 1600000 230333 175 86 1 -3.09740 0.71893 2013-10-04 02:04:24 2022-05-06 11:43:46 RF01040 mir-573 1287 microRNA mir-573 Griffiths-Jones SR Griffiths-Jones SR 89.00 89.30 68.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.59780 -3.96409 1600000 202280 173 80 1 -3.32690 0.71897 2013-10-04 02:04:36 2021-11-19 10:36:03 RF01041 mir-604 1287 microRNA mir-604 Griffiths-Jones SR Griffiths-Jones SR 88.00 88.00 56.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 11 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.64194 -2.92993 1600000 208860 182 86 1 -3.35010 0.71882 2013-10-04 02:04:44 2021-11-19 10:36:03 RF01042 mir-891 1287 microRNA mir-891 Wilkinson A miRBase; Wilkinson A, Daub J 54.00 54.20 53.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 51 0 0 Gene; miRNA; Predicted; RNAalifold 16 0 \N 0.68164 -2.91698 1600000 210582 168 79 1 -3.27730 0.71892 2013-10-04 02:04:48 2022-05-06 11:43:46 RF01043 MIR1023 1287 microRNA MIR1023 Wilkinson A, Daub J miRBase; Wilkinson A, Daub J 90.00 117.40 89.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.59884 -6.37664 1600000 207826 280 165 1 -3.27640 0.71649 2013-10-04 02:04:52 2022-05-06 11:43:46 RF01044 mir-345 2034 microRNA mir-345 Griffiths-Jones SR Griffiths-Jones SR 65.00 66.60 63.30 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 34 0 0 Gene; miRNA; Predicted; RNAalifold 37 0 \N 0.65512 -3.33923 1600000 157770 187 91 1 -3.42150 0.71872 2013-10-04 02:05:34 2021-11-19 10:36:03 RF01045 mir-544 2035 microRNA mir-544 Griffiths-Jones SR Griffiths-Jones SR 66.50 66.50 66.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 16 2424 0 0 Gene; miRNA; Predicted; RNAalifold 41 0 \N 0.61327 -2.84950 1600000 169684 224 84 1 -3.51520 0.71913 2013-10-04 02:05:40 2022-10-29 16:42:07 RF01046 WLE3 2036 Wingless localisation element 3 (WLE3) Brown C Predicted 50.00 55.00 43.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19 -Z 549862.597050 CM SEQDB 10 9 0 0 Cis-reg; Predicted; RNAalifold 14 0 \N 0.70276 -3.65537 1600000 429166 112 44 1 -3.93670 0.71965 2013-10-04 02:06:14 2019-01-04 15:01:52 RF01047 HBV_epsilon 2037 HBV RNA encapsidation signal epsilon Chen A, Brown C Chen A, Brown C 45.00 83.70 38.50 The HBV RNA encapsidation signal epsilon (HBV_epsilon) is an element essential for HBV virus replication. Its structure was reported in [4] HBV cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 33 3 0 0 Cis-reg; Published; PMID:12409471 6 0 \N 0.62294 -3.96223 1600000 296380 145 61 1 -3.90470 0.71937 2013-10-04 02:06:20 2022-05-06 12:10:04 RF01050 Sacc_telomerase 1322 Saccharomyces telomerase Gardner PP Published; PMID:15242611 80.00 102.90 37.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 9 0 0 Gene; Published; PMID:15242611 19 0 \N 0.57950 -9.79073 1600000 352561 1537 1208 1 -5.57990 0.69632 2013-10-04 02:06:31 2021-07-05 13:43:57 RF01051 c-di-GMP-I 2038 Cyclic di-GMP-I riboswitch Weinberg Z Weinberg Z 35.00 35.00 34.90 GEMM was predicted in a large-scale screen for bacterial structured RNA regulatory elements. Genes associated with GEMM are involved in a diverse array of functions, including chemotaxis regulation, signal transduction, secretion and chitin. GEMM_RNA_motif cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 155 4058 0 0 Cis-reg; Published; PMID:17621584 1390 0 \N 0.54602 -7.72484 1600000 250881 300 87 1 -3.68040 0.71863 2013-10-04 02:06:33 2021-07-05 13:43:57 RF01052 Arthropod_7SK 1393 Arthropod 7SK RNA Gruber A, Stadler PF, Gardner PP Published; PMID:18566019 44.00 44.40 42.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 19 102 0 0 Gene; Published; PMID:18566019 73 0 \N 0.69961 -10.65851 1600000 464304 645 445 1 -4.32070 0.70174 2013-10-04 02:06:38 2021-07-05 13:43:57 RF01053 Deinococcus_Y_RNA 1317 Deinococcus radiodurans Y RNA Gardner PP Gardner PP 80.00 163.40 45.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; Published; PMID:10766734 2 0 \N 0.54013 -6.15672 1600000 241640 238 126 1 -2.99210 0.71824 2013-10-04 02:06:40 2019-01-04 15:01:52 RF01054 preQ1-II 2039 preQ1-II (pre queuosine) riboswitch Weinberg Z, Gardner PP, Ontiveros-Palacios N Published; PMID:18305186; Weinberg Z, Meyer MM, Gardner PP 42.00 42.70 41.20 preQ1-II riboswitch was first reported for Weinberg et al. 2007 [7] it was recognised in Streptococcaceae and Lactococcus families in 5' untranslated regions of genes of a membrane protein classified as COG4708 or DUF988. Meyers et al. 2008 [1] confirm that preQ1-II recognise the queuosine (Q) precursor pre-queuosine 1 (preQ1). Q is a hyper modified nucleoside present in some anticodons in tRNAs (Try, Asn, Asp and His). The structure of preQ1-II riboswitch has been reported by Kang et al. 2014 [3], as preQ1 riboswitch (RF00522) preQ1-II structure present an unusual H-type pseudoknot featuring and differs in the interactions that recognise preQ1. The structure of preQ1-II riboswitch was reported in PDB:2MIY [3] COG4708 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 15 57 0 0 Cis-reg; riboswitch; Published; PMID:18305186; Gardner PP 67 0 \N 0.54846 -4.69978 1600000 257762 275 99 1 -3.40500 0.71842 2013-10-04 02:06:42 2022-10-29 16:55:17 RF01055 MOCO_RNA_motif 2040 Moco (molybdenum cofactor) riboswitch Weinberg Z Barrick JE, Weinberg Z 36.00 36.00 35.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 160 1230 0 0 Cis-reg; riboswitch; Published; PMID:18363797 787 0 \N 0.68702 -4.88098 1600000 263850 477 135 1 -3.51560 0.71817 2013-10-04 02:06:44 2021-07-05 13:43:57 RF01056 Mg_sensor 2041 Magnesium Sensor Gardner PP Gardner PP 40.00 41.40 36.60 The Magnesium sensor RNA element is a cis-regulatory element that regulates the expression of the magnesium transporter protein MgtA. It is located in the 5' UTR of this gene. The element adopts different structures depending on the presence or absence of Mg2+, this has the affect of regulating whether transcription reads through the mgtA coding region or stops within the 5' UTR. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 38 0 0 Cis-reg; riboswitch; Published; PMID:17381304 40 0 \N 0.55564 -7.88813 1600000 261884 218 115 1 -3.74140 0.71843 2013-10-04 02:06:48 2019-01-04 15:01:52 RF01057 SAH_riboswitch 2042 S-adenosyl-L-homocysteine riboswitch Wang J Published; PMID:18374645 37.00 37.10 36.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21 -Z 549862.597050 CM SEQDB 52 809 0 0 Cis-reg; riboswitch; Published; PMID:18374645 687 0 \N 0.51598 -8.31866 1600000 235441 440 78 1 -3.66420 0.71872 2013-10-04 02:06:50 2019-01-04 15:01:52 RF01059 mir-598 2043 microRNA mir-598 Wilkinson A miRBase; Wilkinson A 70.00 70.00 69.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 24 1730 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 114 0 \N 0.55175 -4.05924 1600000 143140 185 97 1 -3.84970 0.71869 2013-10-04 02:06:54 2021-07-05 13:43:57 RF01061 mir-548 2044 microRNA mir-548 Wilkinson A miRBase; Wilkinson A 90.00 90.00 89.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 951 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 11 0 \N 0.60566 -3.62097 1600000 214506 175 84 1 -3.37400 0.71903 2013-10-04 02:07:24 2021-12-03 12:04:12 RF01064 mir-253 1287 microRNA mir-253 Griffiths-Jones SR Griffiths-Jones SR 72.00 72.00 68.20 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.63113 -3.15897 1600000 178468 197 98 1 -3.47480 0.71878 2013-10-04 02:09:14 2021-11-19 10:36:03 RF01065 23S-methyl 2045 23S methyl RNA motif Weinberg Z, Gardner PP Published; PMID:17621584; Weinberg Z 50.00 50.90 43.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 19 190 0 0 Cis-reg; Published; PMID:17621584; Weinberg Z 200 0 \N 0.49256 -7.01491 1600000 260086 193 102 1 -3.42750 0.71864 2013-10-04 02:09:16 2019-01-04 15:01:52 RF01066 6C 2046 6C RNA Weinberg Z, Gardner PP Published; PMID:17621584; Weinberg Z 47.00 47.00 46.90 \N 390 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 35.35 -Z 549862.597050 CM SEQDB 18 394 0 0 Cis-reg; Published; PMID:17621584; Weinberg Z 397 0 \N 0.39794 -11.30154 1600000 336561 161 75 1 -3.46460 0.71892 2013-10-04 02:09:18 2019-01-04 15:01:52 RF01067 ATPC 2047 ATPC RNA motif Weinberg Z, Gardner PP Published; PMID:17621584; Weinberg Z 45.00 45.50 41.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.00 -Z 549862.597050 CM SEQDB 90 15 0 0 Gene; Published; PMID:17621584; Weinberg Z 26 0 \N 0.56152 -6.57273 1600000 232173 175 92 1 -3.82120 0.71871 2013-10-04 02:09:20 2019-01-04 15:01:52 RF01068 mini-ykkC 1300 Guanidine-II riboswitch Weinberg Z, Gardner PP Published; PMID:17621584; Weinberg Z 32.00 32.00 31.90 Simpler in structure and has fewer highly conserved nucleotide positions than the ykkC-yxkD leader.[1] Despite this each of its two stem-loop structures directly bind free guanidine. Therefore, mini-ykkC RNA motif represents a distinct class of guanidine-sensing RNAs.[2] Its crystal structure was also determined.[3] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.00 -Z 549862.597050 CM SEQDB 72 929 0 0 Cis-reg; Published; PMID:17621584; Weinberg Z 788 0 \N 0.53606 -11.16592 1600000 878218 103 48 1 -3.55830 0.73256 2013-02-01 12:14:38 2019-01-04 15:01:52 RF01069 purD 2048 purD RNA motif Weinberg Z, Gardner PP Published; PMID:17621584; Weinberg Z 41.00 42.10 40.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 21 80 0 0 Cis-reg; Published; PMID:17621584; Weinberg Z 87 0 \N 0.54520 -7.20408 1600000 272302 220 125 1 -3.30340 0.71821 2013-10-04 02:09:48 2019-01-04 15:01:52 RF01070 sucA 2049 SucA RNA motif Weinberg Z, Gardner PP Published; PMID:17621584; Weinberg Z 40.00 41.20 36.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24 -Z 549862.597050 CM SEQDB 35 249 0 0 Cis-reg; Published; PMID:17621584; Weinberg Z 257 0 \N 0.54747 -6.41143 1600000 225470 177 83 1 -3.59530 0.71891 2013-10-04 02:09:51 2019-01-04 15:01:52 RF01071 OLE 2050 Ornate Large Extremophilic RNA Weinberg Z, Gardner PP Published; PMID:17164334; Weinberg Z 50.00 57.20 45.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 274 0 0 Gene; Published; PMID:17164334; Weinberg Z 276 0 \N 0.69483 -8.98988 1600000 365507 989 616 1 -5.14870 0.69935 2013-10-04 02:09:53 2019-01-04 15:01:52 RF01072 TMV_UPD-PK3 1651 Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR Wilkinson A Pseudobase 34.00 34.10 33.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.00 -Z 549862.597050 CM SEQDB 25 15 0 0 Cis-reg; Pseudobase 32 0 \N 0.67904 -7.21806 1600000 543635 88 31 1 -3.77530 0.72742 2013-10-04 02:09:55 2019-01-04 15:01:52 RF01073 GP_knot1 2409 Gag/pol translational readthrough site Wilkinson A Pseudobase 67.70 67.70 67.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 757 0 0 Cis-reg; Pseudobase 36 0 \N 0.62551 -5.47554 1600000 411274 142 62 1 -3.30700 0.71908 2013-10-04 02:10:03 2022-10-29 16:42:08 RF01074 RF_site1 1295 Putative RNA-dependent RNA polymerase ribosomal frameshift site Wilkinson A Pseudobase 40.00 42.00 38.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.93 -Z 742849.287494 --mxsize 128 CM SEQDB 4 8 0 0 Cis-reg; frameshift_element; Pseudobase 11 0 \N 0.51915 -10.47590 1600000 985059 113 40 1 -3.04350 0.72896 2013-02-01 12:07:07 2020-04-23 11:35:10 RF01075 TLS-PK1 2052 Pseudoknot of tRNA-like structure Wilkinson A Pseudobase 80.00 109.20 37.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Cis-reg; Pseudobase 2 0 \N 0.56939 -7.04447 1600000 247342 197 97 1 -3.37430 0.71854 2013-10-04 02:10:21 2019-01-04 15:01:52 RF01076 RF_site2 1295 Polymerase ribosomal frameshift site Wilkinson A Pseudobase 70.00 84.00 32.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Cis-reg; frameshift_element; Pseudobase 4 0 \N 0.58976 -3.68548 1600000 227714 163 72 1 -3.24850 0.72186 2013-10-04 02:10:23 2019-01-04 15:01:52 RF01077 TLS-PK2 2052 Pseudoknot of tRNA-like structure Wilkinson A Pseudobase 42.00 42.60 38.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 2 0 0 Cis-reg; Pseudobase 6 0 \N 0.56589 -6.25930 1600000 305491 150 66 1 -3.45960 0.71912 2013-10-04 02:10:25 2019-01-04 15:01:52 RF01078 PK-PYVV 1296 3'-terminal pseudoknot in PYVV Wilkinson A Pseudobase 65.00 74.60 37.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.97 -Z 742849.287494 --mxsize 128 CM SEQDB 3 1 0 0 Cis-reg; Pseudobase 1 0 \N 0.52333 -8.23124 1600000 363420 139 58 1 -3.37120 0.72156 2013-02-01 12:07:08 2020-04-23 11:35:10 RF01079 RF_site3 1295 Putative RNA-dependent RNA polymerase ribosomal frameshift site Wilkinson A Pseudobase 50.00 60.10 33.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Cis-reg; frameshift_element; Pseudobase 2 0 \N 0.57146 -6.28882 1600000 410860 117 39 1 -2.31460 0.74314 2013-10-04 02:10:28 2019-01-04 15:01:52 RF01080 UPD-PKib 1651 Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR Wilkinson A Pseudobase 39.00 39.90 34.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 2 0 0 Cis-reg; Pseudobase 4 0 \N 0.53859 -7.74439 1600000 507814 102 32 1 -3.19010 0.73905 2013-10-04 02:10:30 2019-01-04 15:01:52 RF01081 SBWMV1_UPD-PKe 1651 Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR Wilkinson A Pseudobase 38.00 39.00 32.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.31 -Z 549862.597050 CM SEQDB 3 3 0 0 Cis-reg; Pseudobase 2 0 \N 0.55367 -6.81126 1600000 466680 96 26 1 -2.78080 0.75549 2013-10-04 02:10:31 2019-01-04 15:01:52 RF01082 SBWMV1_UPD-PKh 1651 Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR Wilkinson A Pseudobase 32.00 32.30 31.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.33 -Z 549862.597050 CM SEQDB 2 3 0 0 Cis-reg; Pseudobase 2 0 \N 0.64708 -3.41455 1600000 348281 97 25 1 -2.36610 0.78270 2013-10-04 02:10:33 2019-01-04 15:01:52 RF01083 UPD-PK2 1651 Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR Wilkinson A Pseudobase 32.00 32.00 31.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 7 0 0 Cis-reg; Pseudobase 7 0 \N 0.57464 -6.42484 1600000 574590 86 21 1 -2.93580 0.75030 2013-10-04 02:10:34 2019-01-04 15:01:52 RF01084 TLS-PK3 2052 Pseudoknot of tRNA-like structure Wilkinson A Pseudobase 45.00 53.60 41.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 9 0 0 Cis-reg; Pseudobase 11 0 \N 0.59313 -7.58435 1600000 249798 243 130 1 -3.39960 0.71823 2013-10-04 02:10:36 2019-01-04 15:01:52 RF01085 TLS-PK4 2052 Pseudoknot of tRNA-like structure Wilkinson A Pseudobase 80.00 136.90 58.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18 -Z 549862.597050 CM SEQDB 2 0 0 0 Cis-reg; Pseudobase 1 0 \N 0.61049 -6.82034 1600000 254880 226 118 1 -3.14150 0.71840 2013-10-04 02:10:38 2019-01-04 15:01:52 RF01087 PK-repZ 2053 Pseudoknot of the regulatory region of the repZ gene Wilkinson A Pseudobase 44.00 46.30 42.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 0 0 0 Cis-reg; Pseudobase 6 0 \N 0.58748 -7.90469 1600000 216002 268 150 1 -2.79040 0.71791 2013-10-04 02:10:40 2019-01-04 15:01:52 RF01088 TLS-PK5 2052 Pseudoknot of tRNA-like structure Wilkinson A Pseudobase 70.00 79.50 33.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 0 0 0 Cis-reg; Pseudobase 3 0 \N 0.57169 -4.65998 1600000 247065 153 68 1 -3.77590 0.71906 2013-10-04 02:10:42 2019-01-04 15:01:52 RF01089 PK-repBA 2054 Pseudoknot of the regulatory region of the repBA gene Wilkinson A Pseudobase 45.00 45.80 44.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18.00 -Z 742849.287494 --mxsize 128 CM SEQDB 7 38 0 0 Cis-reg; Pseudobase 36 0 \N 0.62249 -6.74766 1600000 293665 226 124 1 -3.07840 0.71812 2013-10-04 02:10:44 2021-07-05 13:43:57 RF01090 RF_site4 1295 Edr gene ribosomal frameshift signal Wilkinson A Pseudobase 45.00 50.30 37.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 37 0 0 Cis-reg; frameshift_element; Pseudobase 38 0 \N 0.53573 -7.70037 1600000 419055 151 66 1 -3.40620 0.71902 2013-10-04 02:10:58 2019-01-04 15:01:52 RF01091 PK-SPCSV 2055 3'-terminal pseudoknot in SPCSV Wilkinson A Pseudobase 36.00 36.40 35.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.45 -Z 549862.597050 CM SEQDB 2 6 0 0 Cis-reg; Pseudobase 4 0 \N 0.54901 -6.41120 1600000 345088 148 61 1 -3.17680 0.72491 2013-10-04 02:11:00 2019-01-04 15:01:52 RF01092 GP_knot2 2409 Gag/pol translational readthrough site Wilkinson A Pseudobase 80.00 86.00 53.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 0 0 0 Cis-reg; Pseudobase 2 0 \N 0.56983 -6.75610 1600000 367971 148 61 1 -2.86000 0.72408 2013-10-04 02:11:02 2019-01-04 15:01:52 RF01093 RF_site5 1295 Ma3 gene ribosomal frameshift signal Wilkinson A Pseudobase 35.00 36.00 34.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 12 103 0 0 Cis-reg; frameshift_element; Pseudobase 43 0 \N 0.51187 -9.73219 1600000 698201 137 60 1 -3.55240 0.71913 2013-10-04 02:11:03 2019-01-04 15:01:52 RF01094 RF_site6 1295 Polymerase ribosomal frameshift site Wilkinson A Pseudobase 90.00 154.00 38.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Cis-reg; frameshift_element; Pseudobase 2 0 \N 0.51495 -5.06211 1600000 249610 226 118 1 -3.22180 0.71823 2013-10-04 02:11:05 2019-01-04 15:01:52 RF01095 PK-CuYV_BPYV 2056 3'-terminal pseudoknot of CuYV/BPYV Wilkinson A Pseudobase 60.00 89.90 34.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Cis-reg; Pseudobase 2 0 \N 0.56516 -6.36783 1600000 411202 141 56 1 -3.13000 0.72723 2013-10-04 02:11:06 2019-01-04 15:01:52 RF01096 PK-HAV 2057 HepA virus 3'-terminal pseudoknot Wilkinson A Pseudobase 50.00 54.00 45.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 2 1 0 0 Cis-reg; Pseudobase 2 0 \N 0.45476 -6.06970 1600000 394283 141 56 1 -2.61140 0.73329 2013-10-04 02:11:08 2019-01-04 15:01:52 RF01097 RF_site8 1295 Gag/pro ribosomal frameshift site Wilkinson A Pseudobase 43.00 43.00 42.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 883 0 0 Cis-reg; frameshift_element; Pseudobase 36 0 \N 0.51554 -9.82953 1600000 678662 130 52 1 -3.59770 0.71927 2013-10-04 02:11:16 2019-01-04 15:01:52 RF01098 RF_site9 1295 Gag/pro ribosomal frameshift site Wilkinson A Pseudobase 70.00 70.40 63.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27 -Z 549862.597050 CM SEQDB 2 4 0 0 Cis-reg; frameshift_element; Pseudobase 4 0 \N 0.54670 -7.23948 1600000 471970 133 50 1 -2.86850 0.73334 2013-10-04 02:11:22 2019-01-04 15:01:52 RF01099 PK-IAV 2058 Pseudoknot of influenza A virus gene Wilkinson A, Moore B Pseudobase 47.00 47.30 44.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 32 0 0 0 Cis-reg; Pseudobase 32 0 \N 0.62776 -5.83839 1600000 438263 121 48 1 -3.75720 0.71931 2013-10-04 02:11:25 2019-01-04 15:01:52 RF01100 PK-BYV 2059 3'-terminal pseudoknot in BYV Wilkinson A Pseudobase 50.00 59.10 34.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18 -Z 549862.597050 CM SEQDB 2 1 0 0 Cis-reg; Pseudobase 2 0 \N 0.62293 -6.22579 1600000 378819 119 40 1 -2.50860 0.74000 2013-10-04 02:11:38 2019-01-04 15:01:52 RF01101 TLS-PK6 2052 Pseudoknot of tRNA-like structure Wilkinson A Pseudobase 44.00 47.70 31.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 4 0 0 Cis-reg; Pseudobase 4 0 \N 0.56949 -7.47660 1600000 408727 116 40 1 -3.20650 0.73181 2013-10-04 02:12:17 2019-01-04 15:01:52 RF01102 PK1-TEV_CVMV 1297 5'-leader pseudoknot of TEV/CVMV Wilkinson A Pseudobase 40.00 42.70 38.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Cis-reg; leader; Pseudobase 3 0 \N 0.54819 -4.47842 1600000 311926 114 37 1 -2.37180 0.75727 2013-02-01 12:07:10 2019-01-04 15:01:52 RF01103 UPD-PKc 1651 Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR Wilkinson A Pseudobase 40.00 44.30 34.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Cis-reg; Pseudobase 2 0 \N 0.51549 -7.14038 1600000 467179 103 29 1 -2.59080 0.76215 2013-10-04 02:12:20 2019-01-04 15:01:52 RF01104 SBWMV2_UPD-PKb 1651 Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR Wilkinson A Pseudobase 39.00 42.20 31.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Cis-reg; Pseudobase 3 0 \N 0.60831 -6.36082 1600000 632755 100 29 1 -2.93600 0.74482 2013-10-04 02:12:21 2019-01-04 15:01:52 RF01105 SBWMV2_UPD-PKl 1651 Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR Wilkinson A Pseudobase 39.00 41.70 34.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.50 -Z 549862.597050 CM SEQDB 2 1 0 0 Cis-reg; Pseudobase 1 0 \N 0.50846 -5.32709 1600000 394175 100 27 1 -2.45660 0.76565 2013-10-04 02:12:24 2019-01-04 15:01:52 RF01106 SBWMV1_UPD-PKb 1651 Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR Wilkinson A Pseudobase 38.00 39.50 35.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Cis-reg; Pseudobase 2 0 \N 0.51555 -6.51222 1600000 392050 97 25 1 -2.35690 0.77506 2013-10-04 02:12:25 2019-01-04 15:01:52 RF01107 SBRMV1_UPD-PKf 1651 Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR Wilkinson A Pseudobase 39.00 42.10 32.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Cis-reg; Pseudobase 1 0 \N 0.59948 -5.25916 1600000 424928 100 27 1 -2.54260 0.76321 2013-10-04 02:12:26 2019-01-04 15:01:52 RF01108 BMV3_UPD-PK1 1651 Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR Wilkinson A Pseudobase 38.00 40.80 35.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Cis-reg; Pseudobase 1 0 \N 0.65415 -4.40576 1600000 426316 98 26 1 -2.29780 0.76646 2013-10-04 02:12:28 2019-01-04 15:01:52 RF01109 SBRMV1_UPD-PKd 1651 Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR Wilkinson A Pseudobase 33.00 35.50 30.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24 -Z 549862.597050 CM SEQDB 2 2 0 0 Cis-reg; Pseudobase 2 0 \N 0.58420 -5.46766 1600000 431766 90 21 1 -2.24810 0.78265 2013-10-04 02:12:33 2019-01-04 15:01:52 RF01111 SBWMV2_UPD-PKk 1651 Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR Wilkinson A Pseudobase 35.00 36.30 33.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.26 -Z 549862.597050 CM SEQDB 4 1 0 0 Cis-reg; Pseudobase 3 0 \N 0.56733 -7.68732 1600000 673678 86 21 1 -2.85070 0.74995 2013-10-04 02:12:35 2019-01-04 15:01:52 RF01113 BMV3_UPD-PK3 1651 Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR Wilkinson A Pseudobase 36.00 37.00 33.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.00 -Z 549862.597050 CM SEQDB 2 2 0 0 Cis-reg; Pseudobase 2 0 \N 0.53492 -4.47632 1600000 356879 93 23 1 -1.86200 0.78125 2013-10-04 02:12:38 2019-01-04 15:01:52 RF01114 TMV_UPD-PK1 1651 Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR Wilkinson A Pseudobase 33.00 33.90 31.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Cis-reg; Pseudobase 4 0 \N 0.66370 -3.20997 1600000 352659 92 22 1 -2.62380 0.78080 2013-10-04 02:12:39 2019-01-04 15:01:52 RF01116 Yfr1 2060 Cyanobacterial functional RNA 1 Voss B, Gardner PP Published; PMID:17941988 38.00 38.30 37.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.00 -Z 549862.597050 CM SEQDB 37 120 0 0 Gene; sRNA; Published; PMID:17941988 129 0 \N 0.56468 -8.04994 1600000 390460 129 59 1 -3.58730 0.71952 2013-10-04 02:12:43 2019-01-04 15:01:52 RF01117 ciona-mir-92 1287 Ciona microRNA mir-92 Wilkinson A miRBase; Wilkinson A 70.00 101.40 48.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; WAR; Wilkinson A 2 0 \N 0.65624 -2.60561 1600000 216313 175 81 1 -3.40100 0.72313 2013-10-04 02:12:46 2021-11-19 11:53:18 RF01119 sR32 1264 Small nucleolar RNA sR32 Wilkinson A Predicted; WAR; Wilkinson A 40.00 50.70 35.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 3 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 5 0 \N 0.70912 -7.82785 1600000 492612 136 57 0 -3.61300 0.71973 2013-10-04 02:13:13 2019-01-04 15:01:52 RF01120 sR33 1264 Small nucleolar RNA sR33 Wilkinson A Predicted; WAR; Wilkinson A 37.00 37.60 35.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.37 -Z 549862.597050 CM SEQDB 3 9 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 10 0 \N 0.55329 -9.02327 1600000 307023 133 55 0 -3.81040 0.72604 2013-10-04 02:13:15 2019-01-04 15:01:52 RF01121 sR38 1264 Small nucleolar RNA sR38 Wilkinson A Predicted; WAR; Wilkinson A 50.00 69.60 35.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 3 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 5 0 \N 0.61747 -9.33987 1600000 552058 140 59 0 -3.72920 0.71897 2013-10-04 02:13:17 2019-01-04 15:01:52 RF01122 sR39 1264 Small nucleolar RNA sR39 Wilkinson A Predicted; WAR; Wilkinson A 50.00 65.40 33.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 10 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 14 0 \N 0.65153 -9.29859 1600000 785278 135 56 0 -3.74360 0.71903 2013-10-04 02:13:18 2019-01-04 15:01:52 RF01123 sR35 1264 Small nucleolar RNA sR35 Wilkinson A Predicted; WAR; Wilkinson A 60.00 74.60 37.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18.00 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 4 0 \N 0.66854 -7.40004 1600000 365648 136 57 0 -4.02230 0.72176 2013-10-04 02:13:20 2019-01-04 15:01:52 RF01124 sR36 1264 Small nucleolar RNA sR36 Wilkinson A Predicted; WAR; Wilkinson A 55.00 72.50 32.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.16 -Z 549862.597050 CM SEQDB 5 10 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 13 0 \N 0.65858 -8.84998 1600000 575616 133 55 0 -3.89170 0.71905 2013-10-04 02:13:56 2019-01-04 15:01:52 RF01125 sR4 1264 Small nucleolar RNA sR4 Wilkinson A Predicted; WAR; Wilkinson A 50.00 78.30 34.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.10 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 3 0 \N 0.61696 -8.26981 1600000 415348 135 56 0 -3.63910 0.72125 2013-10-04 02:13:58 2019-01-04 15:01:52 RF01126 sR41 1264 Small nucleolar RNA sR41 Wilkinson A Predicted; WAR; Wilkinson A 54.00 57.60 53.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.10 -Z 549862.597050 CM SEQDB 7 16 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 18 0 \N 0.62731 -9.55919 1600000 653998 123 53 0 -4.03400 0.71910 2013-10-04 02:13:59 2019-01-04 15:01:52 RF01127 sR42 1264 Small nucleolar RNA sR42 Wilkinson A Predicted; WAR; Wilkinson A 38.00 38.50 34.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 4 0 \N 0.61744 -8.61975 1600000 351280 144 63 0 -3.84700 0.71984 2013-10-04 02:14:01 2019-01-04 15:01:52 RF01128 sR43 1264 Small nucleolar RNA sR42 Wilkinson A Predicted; WAR; Wilkinson A 45.00 58.50 35.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.19 -Z 549862.597050 CM SEQDB 6 11 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 13 0 \N 0.65168 -8.97019 1600000 521623 161 57 0 -3.77470 0.71899 2013-10-04 02:14:02 2019-01-04 15:01:52 RF01129 sR44 1264 Small nucleolar RNA sR44 Wilkinson A Predicted; WAR; Wilkinson A 45.00 59.80 36.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 4 0 \N 0.65388 -8.68722 1600000 646264 133 55 0 -3.30560 0.72215 2013-10-04 02:14:04 2019-01-04 15:01:52 RF01130 sR46 1264 Small nucleolar RNA sR46 Wilkinson A Predicted; WAR; Wilkinson A 50.00 69.80 33.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 10 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 14 0 \N 0.64192 -8.08240 1600000 519651 141 56 1 -3.78840 0.71912 2013-10-04 02:14:06 2019-01-04 15:01:52 RF01131 sR47 1264 Small nucleolar RNA sR47 Wilkinson A Predicted; WAR; Wilkinson A 40.00 43.60 39.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 9 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 11 0 \N 0.62165 -9.16525 1600000 541940 124 55 0 -4.05260 0.71905 2013-10-04 02:14:08 2022-10-29 16:55:16 RF01132 sR48 1264 Small nucleolar RNA sR48 Wilkinson A Predicted; WAR; Wilkinson A 40.00 47.50 33.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 4 0 \N 0.49847 -8.44662 1600000 227909 142 59 0 -2.95370 0.73418 2013-10-04 02:14:09 2019-01-04 15:01:52 RF01133 sR3 1264 Small nucleolar RNA sR3 Wilkinson A Predicted; WAR; Wilkinson A 41.00 42.10 40.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.87 -Z 549862.597050 CM SEQDB 19 54 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 56 0 \N 0.66691 -8.68288 1600000 439985 226 55 0 -4.14120 0.71905 2013-10-04 02:14:10 2019-01-04 15:01:52 RF01134 sR30 1264 Small nucleolar RNA sR30 Wilkinson A Predicted; WAR; Wilkinson A 38.00 41.30 33.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 7 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 5 0 \N 0.65977 -8.56314 1600000 517101 136 57 0 -3.80830 0.71928 2013-10-04 02:14:12 2019-01-04 15:01:52 RF01135 sR24 1264 Small nucleolar RNA sR24 Wilkinson A Predicted; WAR; Wilkinson A 36.00 37.80 35.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 4 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 6 0 \N 0.67058 -5.63199 1600000 422306 136 55 1 -3.57900 0.71907 2013-10-04 02:14:14 2019-01-04 15:01:52 RF01136 sR28 1264 Small nucleolar RNA sR28 Wilkinson A Predicted; WAR; Wilkinson A 39.00 40.40 37.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 12 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 16 0 \N 0.68177 -7.96953 1600000 430485 127 55 0 -3.97120 0.72206 2013-10-04 02:14:16 2019-01-04 15:01:52 RF01137 sR21 1264 Small nucleolar RNA sR21 Wilkinson A Predicted; WAR; Wilkinson A 45.00 63.60 31.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 2 0 \N 0.53219 -7.12044 1600000 246880 153 67 0 -2.26830 0.73793 2013-10-04 02:14:18 2019-01-04 15:01:52 RF01138 sR23 1264 Small nucleolar RNA sR23 Wilkinson A Predicted; WAR; Wilkinson A 45.00 57.90 36.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18.00 -Z 549862.597050 CM SEQDB 6 10 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 14 0 \N 0.65997 -8.67515 1600000 554887 127 54 0 -4.21380 0.71908 2013-10-04 02:14:20 2019-01-04 15:01:52 RF01139 sR2 1264 Small nucleolar RNA sR2 Wilkinson A Predicted; WAR; Wilkinson A 42.00 48.90 41.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18.00 -Z 549862.597050 CM SEQDB 8 15 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 16 0 \N 0.59639 -8.78876 1600000 382307 127 57 0 -3.88290 0.72261 2013-10-04 02:15:22 2019-01-04 15:01:52 RF01140 sR20 1264 Small nucleolar RNA sR20 Wilkinson A Predicted; WAR; Wilkinson A 44.00 44.60 41.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 9 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 11 0 \N 0.61201 -6.34545 1600000 359917 130 56 1 -3.97430 0.72193 2013-10-04 02:20:08 2019-01-04 15:01:52 RF01141 sR18 1264 Small nucleolar RNA sR18 Wilkinson A Predicted; WAR; Wilkinson A 45.00 53.70 39.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 3 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 6 0 \N 0.60040 -9.32957 1600000 546902 129 56 0 -3.91490 0.72078 2013-10-04 02:20:09 2019-01-04 15:01:52 RF01142 sR19 1264 Small nucleolar RNA sR19 Wilkinson A Predicted; WAR; Wilkinson A 45.00 59.50 33.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 4 0 \N 0.62815 -8.67119 1600000 390886 145 63 0 -3.71470 0.71885 2013-10-04 02:20:11 2019-01-04 15:01:52 RF01143 sR16 1264 Small nucleolar RNA sR16 Wilkinson A Predicted; WAR; Wilkinson A 70.00 79.10 33.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.83 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 2 0 \N 0.54049 -8.71524 1600000 354393 134 53 0 -3.03580 0.72843 2013-10-04 02:20:13 2019-01-04 15:01:52 RF01144 sR17 1264 Small nucleolar RNA sR17 Wilkinson A Predicted; WAR; Wilkinson A 36.00 36.50 35.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.38 -Z 549862.597050 CM SEQDB 5 7 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 10 0 \N 0.63175 -8.50811 1600000 497441 128 55 0 -3.53860 0.72232 2013-10-04 02:20:14 2019-01-04 15:01:52 RF01145 sR14 1264 Small nucleolar RNA sR14 Wilkinson A Predicted; WAR; Wilkinson A 38.00 40.40 34.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 14 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 17 0 \N 0.69831 -7.94333 1600000 533490 123 54 0 -3.95560 0.72099 2013-10-04 02:20:16 2019-01-04 15:01:52 RF01146 sR15 1264 Small nucleolar RNA sR15 Wilkinson A Predicted; WAR; Wilkinson A 40.00 47.90 29.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.59 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 3 0 \N 0.55886 -5.59377 1600000 188331 150 65 0 -2.63680 0.74215 2013-10-04 02:20:23 2019-01-04 15:01:52 RF01147 sR12 1264 Small nucleolar RNA sR12 Wilkinson A Predicted; WAR; Wilkinson A 38.00 39.60 35.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21 -Z 549862.597050 CM SEQDB 5 5 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 8 0 \N 0.55834 -9.86894 1600000 547807 155 55 0 -3.47200 0.72414 2013-10-04 02:20:24 2019-01-04 15:01:52 RF01149 sR10 1264 Small nucleolar RNA sR10 Wilkinson A Predicted; WAR; Wilkinson A 45.00 69.00 34.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 3 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 5 0 \N 0.66771 -7.98570 1600000 405847 130 54 0 -3.94080 0.71909 2013-10-04 02:20:34 2019-01-04 15:01:52 RF01150 sR11 1264 Small nucleolar RNA sR11 Wilkinson A Predicted; WAR; Wilkinson A 39.00 40.20 36.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.87 -Z 549862.597050 CM SEQDB 8 6 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 8 0 \N 0.52766 -9.68743 1600000 410507 143 57 0 -3.24060 0.72886 2013-10-04 02:20:35 2019-01-04 15:01:52 RF01151 snoU82P 1264 Small nucleolar RNA U82P Wilkinson A Predicted; WAR; Wilkinson A 42.00 45.70 39.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 42 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 45 0 \N 0.66432 -8.65542 1600000 569031 130 55 0 -3.88220 0.71906 2013-10-04 02:20:38 2019-01-04 15:01:52 RF01152 sR1 1264 Small nucleolar RNA sR1 Wilkinson A Predicted; WAR; Wilkinson A 45.00 46.70 43.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19 -Z 549862.597050 CM SEQDB 12 22 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 24 0 \N 0.66863 -8.98940 1600000 598719 121 57 0 -3.88900 0.72020 2013-10-04 02:20:44 2019-01-04 15:01:52 RF01153 sn3060 1264 Small nucleolar RNA sn3060 Wilkinson A Predicted; WAR; Wilkinson A 45.00 48.90 35.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 12 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 10 0 \N 0.65558 -3.76017 1600000 296658 155 67 1 -3.54110 0.71886 2013-10-04 02:20:54 2019-01-04 15:01:52 RF01155 snoR101 1264 Small nucleolar RNA snoR101 Wilkinson A Predicted; WAR; Wilkinson A 40.00 40.70 36.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 189 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 74 0 \N 0.53464 -9.81742 1600000 409340 147 66 0 -3.41120 0.71882 2013-10-04 02:20:55 2019-01-04 15:01:52 RF01156 SNORD123 1264 Small nucleolar RNA SNORD123 Wilkinson A Predicted; WAR; Wilkinson A 45.00 45.80 44.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25 -Z 549862.597050 CM SEQDB 12 92 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 94 0 \N 0.62287 -3.90935 1600000 309070 155 70 1 -3.62930 0.71881 2013-10-04 02:20:57 2019-01-04 15:01:52 RF01157 sn1185 1264 Small nucleolar RNA sn1185 Wilkinson A Predicted; WAR; Wilkinson A 60.00 67.20 52.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 7 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 7 0 \N 0.62145 -4.61260 1600000 302161 152 66 1 -3.65370 0.71882 2013-10-04 02:21:00 2019-01-04 15:01:52 RF01158 SNORD108 1264 Small nucleolar RNA SNORD108 Wilkinson A Predicted; WAR; Wilkinson A 46.00 46.50 44.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.24 -Z 549862.597050 CM SEQDB 4 15 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 15 0 \N 0.58830 -4.97642 1600000 275647 156 71 1 -3.85600 0.71874 2013-10-04 02:21:01 2019-01-04 15:01:52 RF01159 snoU18 1264 Small nucleolar RNA U18 Wilkinson A Predicted; WAR; Wilkinson A 47.00 47.20 46.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.54 -Z 549862.597050 CM SEQDB 16 91 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 57 0 \N 0.44148 -10.05077 1600000 273722 149 71 0 -3.58180 0.71871 2013-02-01 11:58:20 2019-01-04 15:01:52 RF01160 sn2841 1264 Small nucleolar RNA sn2841 Wilkinson A Predicted; WAR; Wilkinson A 45.00 60.70 38.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 14 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 13 0 \N 0.65593 -3.53246 1600000 286199 163 72 1 -3.13540 0.72101 2013-10-04 02:21:20 2019-01-04 15:01:52 RF01161 SNORD5 1264 Small nucleolar RNA SNORD5 Wilkinson A Predicted; WAR; Wilkinson A 55.00 55.70 54.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25 -Z 549862.597050 CM SEQDB 20 117 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 100 0 \N 0.46599 -9.46928 1600000 305795 151 72 0 -3.57350 0.71870 2013-10-04 02:21:22 2019-01-04 15:01:52 RF01162 sn668 1264 Small nucleolar RNA sn668 Wilkinson A, Eberhardt R Predicted; WAR; Wilkinson A 40.00 40.60 38.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.80 -Z 549862.597050 CM SEQDB 6 21 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 20 0 \N 0.65733 -3.16694 1600000 280760 151 65 1 -3.65990 0.71890 2013-10-04 02:21:27 2019-01-04 15:01:52 RF01163 snoR64a 1264 Small nucleolar RNA snoR64a Wilkinson A Predicted; WAR; Wilkinson A 45.00 45.00 43.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.69 -Z 549862.597050 CM SEQDB 4 109 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 44 0 \N 0.47296 -9.36012 1600000 305149 163 77 0 -3.56650 0.71860 2013-10-04 02:21:29 2019-01-04 15:01:52 RF01164 SNORD107 1264 Small nucleolar RNA SNORD107 Wilkinson A Predicted; WAR; Wilkinson A 50.00 55.90 46.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 40 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 39 0 \N 0.59437 -4.33876 1600000 300373 160 74 1 -3.44390 0.71873 2013-10-04 02:21:31 2019-01-04 15:01:52 RF01165 sn2317 1264 Small nucleolar RNA sn2317 Wilkinson A Predicted; WAR; Wilkinson A 50.00 73.90 40.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 6 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 6 0 \N 0.59218 -4.03889 1600000 249042 160 70 1 -3.43600 0.71881 2013-02-01 11:58:22 2019-01-04 15:01:52 RF01166 sn3071 1264 Small nucleolar RNA sn3071 Wilkinson A Predicted; WAR; Wilkinson A 40.00 40.60 35.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 14 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 13 0 \N 0.65219 -3.65470 1600000 281772 169 77 1 -3.32460 0.71945 2013-10-04 02:21:34 2019-01-04 15:01:52 RF01167 sn2429 1264 Small nucleolar RNA sn2429 Wilkinson A Predicted; WAR; Wilkinson A 50.00 74.70 36.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 6 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 6 0 \N 0.62913 -3.78273 1600000 251751 168 77 1 -3.29460 0.71868 2013-10-04 02:21:36 2019-01-04 15:01:52 RF01168 SNORD126 1264 Small nucleolar RNA SNORD126 Wilkinson A Predicted; WAR; Wilkinson A 55.00 66.10 52.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.08 -Z 549862.597050 CM SEQDB 6 45 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 43 0 \N 0.63563 -3.55733 1600000 233334 166 77 1 -3.83900 0.71870 2013-10-04 02:21:37 2019-01-04 15:01:52 RF01169 SNORD112 1264 Small nucleolar RNA SNORD112 Wilkinson A Predicted; WAR; Wilkinson A 58.00 58.10 57.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 51 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 35 0 \N 0.63202 -3.20873 1600000 241776 162 77 1 -3.75100 0.71868 2013-10-04 02:21:39 2019-01-04 15:01:52 RF01170 snoU61 1264 Small nucleolar RNA U61 Wilkinson A Predicted; WAR; Wilkinson A 55.00 55.90 52.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.70 -Z 549862.597050 CM SEQDB 8 130 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 67 0 \N 0.67768 -3.32738 1600000 262278 191 84 1 -3.25830 0.71850 2013-10-04 02:21:41 2021-07-05 13:43:57 RF01171 snoR4 1264 Small nucleolar RNA snoR4 Wilkinson A Predicted; WAR; Wilkinson A 60.00 81.90 37.80 This model is based on the Medicago trunculata homolog of Arabidposis thaliana snoR4 which is included in Rfam model RF00147 (along with mouse and other species). This sequence was obtained from the plant snoRNA database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 2 0 \N 0.44578 -7.14750 1600000 203927 170 80 0 -2.62560 0.72861 2013-10-04 02:21:43 2019-01-04 15:01:52 RF01172 sn2343 1264 Small nucleolar RNA sn2343 Wilkinson A Predicted; WAR; Wilkinson A 60.00 89.90 38.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 6 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 7 0 \N 0.71694 -3.22081 1600000 285998 170 78 1 -3.63590 0.71864 2013-10-04 02:21:44 2019-01-04 15:01:52 RF01173 snoU105B 1264 Small nucleolar RNA U105B Wilkinson A, Eberhardt R Predicted; WAR 49.00 49.90 46.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.01 -Z 549862.597050 CM SEQDB 13 34 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR 37 0 \N 0.65102 -3.81555 1600000 214602 167 80 1 -3.76070 0.71878 2013-10-04 02:21:46 2021-07-05 13:43:57 RF01174 snoU43 1264 Small nucleolar RNA U43 Wilkinson A Predicted; WAR; Wilkinson A 45.00 45.30 43.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.42 -Z 549862.597050 CM SEQDB 11 51 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 46 0 \N 0.45861 -9.07596 1600000 338249 162 79 0 -3.22190 0.71859 2013-10-04 02:21:47 2019-01-04 15:01:52 RF01175 snoU83D 1264 Small nucleolar RNA U83 Wilkinson A Predicted; WAR; Wilkinson A 55.00 80.00 39.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 12 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 13 0 \N 0.56308 -5.73495 1600000 252568 171 81 1 -3.46200 0.71856 2013-10-04 02:21:49 2019-01-04 15:01:52 RF01176 snR78 1264 Small nucleolar RNA snR78 Wilkinson A Predicted; WAR; Wilkinson A 48.00 48.20 44.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.52 -Z 549862.597050 CM SEQDB 8 37 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 43 0 \N 0.47833 -6.97919 1600000 290111 195 82 1 -3.40350 0.71860 2013-10-04 02:21:50 2021-07-05 13:43:57 RF01177 snR67 1264 Small nucleolar RNA snR67 Wilkinson A Predicted; WAR; Wilkinson A 55.00 62.70 35.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 64 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 73 0 \N 0.54362 -9.32818 1600000 343675 300 83 0 -3.27820 0.71852 2013-10-04 02:21:52 2021-07-05 13:43:57 RF01178 snoR77Y 1264 Small nucleolar RNA snoR77Y Wilkinson A Predicted; WAR; Wilkinson A 52.00 53.50 50.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 21 217 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 77 0 \N 0.59068 -4.03959 1600000 217132 170 85 1 -3.61250 0.71858 2013-10-04 02:21:54 2021-07-05 13:43:57 RF01179 snoU83 1264 Small nucleolar RNA U83 Wilkinson A Predicted; WAR; Wilkinson A 50.00 50.70 48.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.33 -Z 549862.597050 CM SEQDB 7 104 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 56 0 \N 0.52659 -5.60611 1600000 284303 168 84 1 -3.12470 0.71854 2013-02-01 11:58:24 2019-01-04 15:01:52 RF01180 snoR110 1264 Small nucleolar RNA snoR110 Wilkinson A Predicted; WAR; Wilkinson A 44.00 44.60 40.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.00 -Z 549862.597050 CM SEQDB 2 25 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 8 0 \N 0.56315 -3.47730 1600000 198381 184 89 1 -3.27060 0.71863 2013-10-04 02:21:58 2019-01-04 15:01:52 RF01181 snR77 1264 Small nucleolar RNA snR77 Wilkinson A Predicted; WAR; Wilkinson A 50.00 54.20 42.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 15 68 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 74 0 \N 0.43306 -9.88275 1600000 282445 170 83 0 -3.55250 0.71854 2013-10-04 02:22:00 2021-07-05 13:43:57 RF01182 SNORD11 1264 Small nucleolar RNA SNORD11 Wilkinson A Predicted; WAR; Wilkinson A 55.00 57.40 52.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.85 -Z 549862.597050 CM SEQDB 19 109 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 101 0 \N 0.59781 -3.51665 1600000 222538 174 84 1 -3.73560 0.71853 2013-10-04 02:22:01 2021-07-05 13:43:57 RF01183 SNORD19B 1264 Small nucleolar RNA SNORD19B Wilkinson A Predicted; WAR; Wilkinson A 50.00 51.60 48.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25 -Z 549862.597050 CM SEQDB 17 43 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 46 0 \N 0.52610 -4.37444 1600000 222476 170 84 1 -3.40850 0.71856 2013-10-04 02:22:03 2019-01-04 15:01:52 RF01184 snR79 1264 Small nucleolar RNA snR79 Wilkinson A Predicted; WAR; Wilkinson A 55.00 58.20 50.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.66 -Z 549862.597050 CM SEQDB 18 62 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 66 0 \N 0.47897 -8.85132 1600000 298535 178 89 0 -2.97170 0.71840 2013-10-04 02:22:18 2019-01-04 15:01:52 RF01185 snR75 1264 Small nucleolar RNA snR75 Wilkinson A Predicted; WAR; Wilkinson A 40.00 43.00 39.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.82 -Z 549862.597050 CM SEQDB 61 459 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 468 0 \N 0.54588 -9.23022 1600000 343233 200 87 0 -3.49870 0.71846 2013-10-04 02:22:19 2021-07-05 13:43:57 RF01186 SNORD127 1264 Small nucleolar RNA SNORD127 Wilkinson A Predicted; WAR; Wilkinson A, Daub J 45.00 47.50 39.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.99 -Z 549862.597050 CM SEQDB 13 95 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 94 0 \N 0.53205 -4.26279 1600000 238659 177 86 1 -3.30690 0.71858 2013-10-04 02:22:21 2019-01-04 15:01:52 RF01188 snR56 1264 Small nucleolar RNA snR56 Wilkinson A Predicted; WAR; Wilkinson A 54.00 54.10 53.60 Checked in using file \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33.31 -Z 549862.597050 CM SEQDB 16 94 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 100 0 \N 0.41883 -11.10112 1600000 348926 176 85 0 -3.41400 0.71850 2013-10-04 02:22:23 2021-07-05 13:43:57 RF01189 sn1502 1264 Small nucleolar RNA sn1502 Wilkinson A Predicted; WAR; Wilkinson A 60.00 88.70 40.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 6 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 6 0 \N 0.66641 -2.87711 1600000 227761 183 87 1 -3.40080 0.71856 2013-10-04 02:22:24 2019-01-04 15:01:52 RF01190 snR50 1264 Small nucleolar RNA snR50 Wilkinson A Predicted; WAR; Wilkinson A 45.00 49.60 41.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.43 -Z 549862.597050 CM SEQDB 3 11 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 13 0 \N 0.50828 -5.71144 1600000 276043 186 89 1 -3.01960 0.71837 2013-10-04 02:22:26 2019-01-04 15:01:52 RF01191 SNORD121A 1264 Small nucleolar RNA SNORD121A Wilkinson A Predicted; WAR; Wilkinson A 44.00 44.10 43.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.80 -Z 549862.597050 CM SEQDB 26 195 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 94 0 \N 0.59776 -3.60000 1600000 226662 168 82 1 -3.52220 0.71862 2013-10-04 02:22:29 2019-01-04 15:01:52 RF01192 SNORD11B 1264 Small nucleolar RNA SNORD11B Wilkinson A Predicted; WAR; Wilkinson A 50.00 51.50 49.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.48 -Z 549862.597050 CM SEQDB 37 109 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 119 0 \N 0.56109 -3.72753 1600000 205392 171 87 1 -3.72660 0.71851 2013-10-04 02:22:31 2021-07-05 13:43:57 RF01193 snoR20a 1264 Small nucleolar RNA snoR20a Wilkinson A Predicted; WAR; Wilkinson A 42.00 43.80 41.70 This family is based on the Oryza sativum homolog of Arabidposis thaliana snoR20 (which is included in model RF00351). The O.sativum sequence was obtained from the plant snoRNA database. The name originally given to the O.sativum homolog in PMID:12736310 is Z160a. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.00 -Z 549862.597050 CM SEQDB 5 145 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 61 0 \N 0.52689 -4.54398 1600000 269372 179 90 1 -2.97890 0.71848 2013-10-04 02:22:32 2019-01-04 15:01:52 RF01194 sn2903 1264 Small nucleolar RNA sn2903 Wilkinson A Predicted; WAR; Wilkinson A 50.00 52.50 43.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.72 -Z 549862.597050 CM SEQDB 4 22 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 21 0 \N 0.70615 -3.21170 1600000 260523 190 91 1 -3.20280 0.71846 2013-10-04 02:22:34 2021-07-05 13:43:57 RF01195 snR52 1264 Small nucleolar RNA snR52 Wilkinson A Predicted; WAR; Wilkinson A 45.00 45.70 43.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.00 -Z 549862.597050 CM SEQDB 5 33 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 36 0 \N 0.39629 -10.27296 1600000 276258 187 92 0 -2.98450 0.71840 2013-10-04 02:22:36 2019-01-04 15:01:52 RF01196 snoZ30a 1264 Small nucleolar RNA Z30a Wilkinson A Predicted; WAR; Wilkinson A 80.00 83.10 34.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18 -Z 549862.597050 CM SEQDB 10 11 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 13 0 \N 0.71932 -3.01272 1600000 235338 185 92 1 -3.34470 0.71833 2013-10-04 02:22:38 2019-01-04 15:01:52 RF01197 snR39 1264 Small nucleolar RNA snR39 Wilkinson A Predicted; WAR; Wilkinson A 40.00 42.40 39.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.69 -Z 549862.597050 CM SEQDB 4 43 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 41 0 \N 0.55687 -5.22405 1600000 265513 195 95 1 -3.29360 0.71825 2013-10-04 02:23:01 2019-01-04 15:01:52 RF01198 snoR69Y 1264 Small nucleolar RNA snoR69Y Wilkinson A Predicted; WAR; Wilkinson A 45.00 46.20 43.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.37 -Z 549862.597050 CM SEQDB 7 282 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 54 0 \N 0.56565 -4.99325 1600000 259001 194 99 1 -3.49380 0.71827 2013-10-04 02:23:03 2021-07-05 13:43:57 RF01199 snR58 1264 Small nucleolar RNA snR58 Wilkinson A Predicted; WAR; Wilkinson A 70.00 76.90 64.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.85 -Z 549862.597050 CM SEQDB 3 9 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 12 0 \N 0.45787 -8.92805 1600000 236690 192 97 0 -3.56610 0.71834 2013-10-04 02:23:05 2019-01-04 15:01:52 RF01200 SNORD125 1264 Small nucleolar RNA SNORD125 Wilkinson A Predicted; WAR; Wilkinson A 56.00 62.30 53.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 83 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 87 0 \N 0.57734 -4.71482 1600000 192577 192 97 1 -3.82370 0.71843 2013-10-04 02:23:06 2021-07-05 13:43:57 RF01201 snR40 1264 Small nucleolar RNA snR40 Wilkinson A Predicted; WAR; Wilkinson A 50.00 50.10 42.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 18 58 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 68 0 \N 0.52186 -9.37791 1600000 287964 181 93 0 -3.34960 0.71837 2013-10-04 02:23:08 2021-07-05 13:43:57 RF01202 sn2991 1264 Small nucleolar RNA sn2991 Wilkinson A Predicted; WAR; Wilkinson A 60.00 66.30 39.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 9 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 8 0 \N 0.59080 -3.58384 1600000 214025 198 98 1 -3.43270 0.71837 2013-10-04 02:23:09 2019-01-04 15:01:52 RF01203 snR47 1264 Small nucleolar RNA snR47 Wilkinson A Predicted; WAR; Wilkinson A 61.00 66.80 54.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 17 67 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 75 0 \N 0.38901 -8.54093 1600000 286477 188 96 1 -2.90040 0.71837 2013-10-04 02:23:11 2021-07-05 13:43:57 RF01204 snR65 1264 Small nucleolar RNA snR65 Wilkinson A Predicted; WAR; Wilkinson A 40.00 40.90 38.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 36 -Z 549862.597050 CM SEQDB 5 30 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 33 0 \N 0.39588 -7.87657 1600000 265121 197 100 0 -3.21110 0.71825 2013-10-04 02:23:12 2019-01-04 15:01:52 RF01205 snR62 1264 Small nucleolar RNA snR62 Wilkinson A Predicted; WAR; Wilkinson A 55.00 61.40 44.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34 -Z 549862.597050 CM SEQDB 2 10 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 12 0 \N 0.42024 -4.42090 1600000 223003 202 100 1 -2.87940 0.71821 2013-10-04 02:23:14 2019-01-04 15:01:52 RF01206 snoR109 1264 Small nucleolar RNA snoR109 Wilkinson A Predicted; WAR; Wilkinson A 34.00 34.60 33.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 194 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 72 0 \N 0.52989 -5.08674 1600000 191713 256 92 1 -3.31760 0.71858 2013-10-04 02:23:15 2019-01-04 15:01:52 RF01207 snR73 1264 Small nucleolar RNA snR73 Wilkinson A Predicted; WAR; Wilkinson A 37.00 37.30 36.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 5 244 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 246 0 \N 0.47864 -9.58685 1600000 293826 199 103 0 -3.22740 0.71822 2013-10-04 02:23:17 2021-07-05 13:43:57 RF01208 snoR99 1264 Small nucleolar RNA snoR99 Wilkinson A Predicted; WAR; Wilkinson A 41.00 41.10 40.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 251 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 74 0 \N 0.48207 -7.65993 1600000 269262 200 106 1 -3.14040 0.71838 2013-10-04 02:23:23 2019-01-04 15:01:52 RF01209 snR76 1264 Small nucleolar RNA snR76 Wilkinson A Predicted; WAR; Wilkinson A 55.00 59.00 51.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 15 69 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 78 0 \N 0.65135 -3.77483 1600000 253907 210 101 1 -3.26820 0.71832 2013-10-04 02:23:24 2021-07-05 13:43:57 RF01210 snoU13 1264 Small nucleolar RNA U13 Wilkinson A Predicted; WAR; Wilkinson A 46.00 46.00 45.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 34 5445 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 97 0 \N 0.57262 -8.44604 1600000 283759 192 104 0 -3.81210 0.71821 2013-10-04 02:23:26 2019-01-04 15:01:52 RF01211 SNORD124 1264 Small nucleolar RNA SNORD124 Wilkinson A Predicted; WAR; Wilkinson A 40.00 41.90 38.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 18 51 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 56 0 \N 0.53184 -5.94046 1600000 218808 202 104 1 -3.51230 0.71830 2013-10-04 02:23:29 2019-01-04 15:01:52 RF01212 sn2524 1264 Small nucleolar RNA sn2524 Wilkinson A Predicted; WAR; Wilkinson A 44.00 44.70 42.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.05 -Z 549862.597050 CM SEQDB 2 46 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 14 0 \N 0.51618 -4.80731 1600000 189493 211 109 1 -3.21810 0.71811 2013-10-04 02:23:31 2019-01-04 15:01:52 RF01213 snoR103 1264 Small nucleolar RNA snoR103 Wilkinson A Predicted; WAR; Wilkinson A 50.00 51.20 44.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 295 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 76 0 \N 0.46272 -8.02122 1600000 217593 200 106 1 -3.37820 0.71843 2013-10-04 02:23:35 2019-01-04 15:01:52 RF01214 snR51 1264 Small nucleolar RNA snR51 Burge SW, Wilkinson A Predicted; WAR; Wilkinson A 44.00 44.30 43.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 17 127 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 131 0 \N 0.38726 -9.01288 1600000 257629 194 100 1 -2.97170 0.71838 2013-10-04 02:23:36 2021-07-05 13:43:57 RF01215 snoR97 1264 Small nucleolar RNA snoR97 Wilkinson A Predicted; WAR; Wilkinson A 40.00 40.40 39.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 263 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 74 0 \N 0.46438 -7.64345 1600000 219728 203 106 1 -3.40360 0.71839 2013-02-01 11:58:26 2019-01-04 15:01:52 RF01216 snR87 1264 Small nucleolar RNA snR87 Wilkinson A Predicted; WAR; Wilkinson A 37.00 37.70 36.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 40 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 42 0 \N 0.56749 -3.98699 1600000 205289 213 109 1 -3.13280 0.71817 2013-10-04 02:23:40 2019-01-04 15:01:52 RF01218 snR41 1264 Small nucleolar RNA snR41 Wilkinson A Predicted; WAR; Wilkinson A 50.00 68.80 40.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 18 63 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 72 0 \N 0.58362 -2.97757 1600000 250046 209 111 1 -3.03100 0.71814 2013-02-01 12:07:11 2021-07-05 13:43:57 RF01219 snoR100 1264 Small nucleolar RNA snoR100 Wilkinson A Predicted; WAR; Wilkinson A 50.00 52.80 48.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 226 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 75 0 \N 0.58790 -5.73144 1600000 281495 216 116 1 -3.35380 0.71829 2013-10-04 02:23:45 2019-01-04 15:01:52 RF01220 snoR104 1264 Small nucleolar RNA snoR104 Wilkinson A Predicted; WAR; Wilkinson A 40.00 41.90 38.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 220 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 77 0 \N 0.49568 -8.34518 1600000 276722 216 118 1 -3.30110 0.71828 2013-10-04 02:23:47 2019-01-04 15:01:52 RF01221 snoU6-47 1264 Small nucleolar RNA U6-47 Wilkinson A Predicted; WAR; Wilkinson A 54.00 54.70 51.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 5 13 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 6 0 \N 0.49869 -7.34414 1600000 325598 271 132 1 -2.50150 0.71800 2013-10-04 02:23:49 2019-01-04 15:01:52 RF01222 sn2417 1264 Small nucleolar RNA sn2417 Wilkinson A Predicted; WAR; Wilkinson A 80.00 111.90 35.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 7 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 6 0 \N 0.59411 -6.95469 1600000 291561 233 123 1 -3.03480 0.71800 2013-10-04 02:23:51 2019-01-04 15:01:52 RF01223 snR13 1264 Small nucleolar RNA snR13 Wilkinson A Predicted; WAR; Wilkinson A 47.00 48.60 43.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 53 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 54 0 \N 0.53896 -6.06367 1600000 279804 235 124 1 -2.86310 0.71815 2013-10-04 02:23:52 2019-01-04 15:01:52 RF01224 snoR80 1264 Small nucleolar RNA snoR80 Wilkinson A Predicted; WAR; Wilkinson A 45.00 46.70 42.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 248 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 72 0 \N 0.49611 -7.74811 1600000 270127 244 129 1 -2.61520 0.71824 2013-10-04 02:23:56 2021-07-05 13:43:57 RF01225 ACA64 1264 Small nucleolar RNA ACA64 Wilkinson A Predicted; WAR; Wilkinson A 35.00 35.00 34.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 30 224 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 101 0 \N 0.58541 -7.78587 1600000 238908 229 128 1 -3.43070 0.71818 2013-10-04 02:23:58 2019-01-04 15:01:52 RF01226 snoZ5 1264 Small nucleolar RNA Z5 Wilkinson A Predicted; WAR; Wilkinson A 60.00 65.40 51.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 9 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Wilkinson A 13 0 \N 0.49993 -7.40848 1600000 276257 218 113 1 -3.18320 0.71816 2013-02-01 11:58:28 2021-07-05 13:43:57 RF01227 snoR83 1264 Small nucleolar RNA snoR83 Wilkinson A Predicted; WAR; Wilkinson A 40.00 40.30 39.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 301 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 78 0 \N 0.55414 -5.69520 1600000 178287 270 129 1 -3.50990 0.71825 2013-10-04 02:24:02 2019-01-04 15:01:52 RF01228 snoR111 1264 Small nucleolar RNA snoR111 Wilkinson A Predicted; WAR; Wilkinson A 38.00 39.50 34.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 163 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 75 0 \N 0.54017 -5.93374 1600000 216090 235 128 1 -3.39870 0.71847 2013-10-04 02:24:03 2019-01-04 15:01:52 RF01229 SNORA84 1264 Small nucleolar RNA SNORA84 Wilkinson A Predicted; WAR; Wilkinson A 45.00 46.00 41.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 28 139 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 111 0 \N 0.59954 -6.74802 1600000 211808 237 134 1 -3.05780 0.71833 2013-10-04 02:24:05 2019-01-04 15:01:52 RF01230 snoR77 1264 Small nucleolar RNA snoR77 Wilkinson A Predicted; WAR; Wilkinson A 47.00 47.50 45.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 226 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 74 0 \N 0.50342 -6.96834 1600000 221693 273 131 1 -3.37790 0.71820 2013-10-04 02:24:07 2019-01-04 15:01:52 RF01231 snoR74 1264 Small nucleolar RNA snoR74 Wilkinson A Predicted; WAR; Wilkinson A 44.00 44.40 42.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 9 457 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 75 0 \N 0.46250 -8.93826 1600000 311309 239 134 1 -3.20020 0.71820 2013-10-04 02:24:09 2019-01-04 15:01:52 RF01232 snoR442 1264 Small nucleolar RNA R442 Wilkinson A, Eberhardt R Predicted; WAR; Eberhardt R 50.00 64.30 33.50 \N snoU40 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 18 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; 19 0 \N 0.68465 -4.04581 1600000 358219 119 46 1 -3.64120 0.71943 2013-10-04 02:24:14 2019-01-04 15:01:52 RF01233 snoU109 1264 Small nucleolar RNA U109 Burge SW, Wilkinson A Predicted; WAR; Wilkinson A 43.00 43.20 42.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 26 322 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 113 0 \N 0.49398 -7.11637 1600000 265265 247 134 1 -3.13500 0.71817 2013-10-04 02:24:16 2019-01-04 15:01:52 RF01234 SNORA47 1264 Small nucleolar RNA SNORA47 Wilkinson A Predicted; WAR; Wilkinson A 45.00 46.30 44.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.10 -Z 549862.597050 CM SEQDB 20 118 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 108 0 \N 0.56765 -8.12392 1600000 256049 246 138 1 -3.28790 0.71825 2013-10-04 02:24:19 2019-01-04 15:01:52 RF01235 snR68 1264 Small nucleolar RNA snR68 Wilkinson A, Eberhardt R Predicted; ClustalW; Eberhardt R 80.00 128.50 45.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 9 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold; 12 0 \N 0.54063 -5.73129 1600000 245354 252 137 1 -3.12350 0.71830 2013-10-04 02:24:20 2019-01-04 15:01:52 RF01236 snoU19 1264 Small nucleolar RNA U19 Wilkinson A Predicted; WAR; Wilkinson A 45.00 45.30 42.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 3 118 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 70 0 \N 0.47455 -9.37043 1600000 346000 258 144 1 -2.72450 0.71817 2013-10-04 02:24:22 2019-01-04 15:01:52 RF01237 snR161 1264 Small nucleolar RNA snR161 Wilkinson A Predicted; WAR; Wilkinson A 50.00 54.90 45.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 30 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 38 0 \N 0.51549 -7.97648 1600000 264794 280 165 1 -3.51000 0.71633 2013-10-04 02:24:24 2021-07-05 13:43:57 RF01238 snR70 1264 Small nucleolar RNA snR70 Wilkinson A, Eberhardt R Predicted; CMfinder; Eberhardt R 55.00 55.40 53.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 27 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; CMfinder; 32 0 \N 0.65502 -4.03740 1600000 268677 284 165 1 -3.24580 0.71640 2013-10-04 02:24:25 2021-07-05 13:43:57 RF01239 snR49 1264 Small nucleolar RNA snR49 Wilkinson A Predicted; WAR; Wilkinson A 45.00 45.80 42.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 49 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 52 0 \N 0.55553 -8.14454 1600000 326064 307 170 1 -2.98280 0.71568 2013-02-01 12:07:13 2019-01-04 15:01:52 RF01240 snR85 1264 Small nucleolar RNA snR85 Wilkinson A Predicted; WAR; Wilkinson A 37.00 37.90 36.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 29 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 33 0 \N 0.53901 -8.28828 1600000 273676 305 180 1 -3.35670 0.71436 2013-10-04 02:24:30 2019-01-04 15:01:52 RF01241 SNORA81 1264 Small nucleolar RNA SNORA81 Wilkinson A Predicted; WAR; Wilkinson A 45.00 46.40 42.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 28 226 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 116 0 \N 0.51468 -9.83244 1600000 362955 297 179 1 -3.21680 0.71445 2013-10-04 02:24:32 2019-01-04 15:01:52 RF01242 snR36 1264 Small nucleolar RNA snR36 Wilkinson A Predicted; WAR; Wilkinson A 43.00 43.70 40.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 303 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 304 0 \N 0.53453 -8.63941 1600000 303341 308 180 1 -3.29100 0.71448 2013-10-04 02:24:34 2019-01-04 15:01:52 RF01243 snR33 1264 Small nucleolar RNA snR33 Wilkinson A Predicted; WAR; Wilkinson A 45.00 47.50 42.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 5 14 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 18 0 \N 0.53980 -8.29152 1600000 336002 311 183 1 -3.40980 0.71402 2013-10-04 02:24:36 2019-01-04 15:01:52 RF01244 snR4 1264 Small nucleolar RNA snR4 Wilkinson A, Eberhardt R Predicted; CMfinder; Eberhardt R 37.00 38.30 35.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 35 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; CMfinder; 38 0 \N 0.56298 -7.86434 1600000 292137 312 187 1 -3.12760 0.71374 2013-10-04 02:24:38 2019-01-04 15:01:52 RF01245 snR9 1264 Small nucleolar RNA snR9 Wilkinson A Predicted; WAR; Wilkinson A 58.00 60.20 53.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 11 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 15 0 \N 0.46255 -10.12748 1600000 378717 315 187 1 -3.40850 0.71355 2013-10-04 02:24:40 2019-01-04 15:01:52 RF01246 snR81 1264 Small nucleolar RNA snR81 Wilkinson A Predicted; WAR; Wilkinson A 50.00 52.50 43.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 9 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 11 0 \N 0.49426 -10.18211 1600000 331327 317 188 1 -3.39170 0.71355 2013-10-04 02:24:42 2019-01-04 15:01:52 RF01247 snR32 1264 Small nucleolar RNA snR32 Wilkinson A Predicted; WAR; Wilkinson A 45.00 45.60 44.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27 -Z 549862.597050 CM SEQDB 11 95 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 101 0 \N 0.48349 -9.32044 1600000 309760 317 191 1 -3.46110 0.71315 2013-10-04 02:24:43 2019-01-04 15:01:52 RF01248 snR8 1264 Small nucleolar RNA snR8 Wilkinson A Predicted; WAR; Wilkinson A 45.00 60.10 36.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 64 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 73 0 \N 0.53451 -8.52118 1600000 318014 530 184 1 -3.64280 0.71394 2013-10-04 02:24:45 2021-07-05 13:43:57 RF01249 snR190 1264 Small nucleolar RNA snR190 Wilkinson A, Eberhardt R Predicted; CMfinder; Eberhardt R 40.00 42.40 38.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 42 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; CMfinder; 48 0 \N 0.62927 -7.93247 1600000 308035 321 198 1 -3.36500 0.71265 2013-10-04 02:24:46 2021-07-05 13:43:57 RF01250 snR189 1264 Small nucleolar RNA snR189 Wilkinson A Predicted; WAR; Wilkinson A 50.00 53.70 37.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.00 -Z 549862.597050 CM SEQDB 4 26 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 29 0 \N 0.47987 -9.14910 1600000 334328 323 193 1 -3.08040 0.71305 2013-10-04 02:24:48 2019-01-04 15:01:52 RF01251 snR3 1264 Small nucleolar RNA snR3 Wilkinson A Predicted; WAR; Wilkinson A 40.00 40.30 36.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24 -Z 549862.597050 CM SEQDB 4 57 0 0 Gene; snRNA; snoRNA; HACA-box; Published; PMID:9106664; Wilkinson A 59 0 \N 0.50847 -8.73737 1600000 337216 321 193 1 -3.11640 0.71297 2013-10-04 02:24:49 2019-01-04 15:01:52 RF01252 snR5 1264 Small nucleolar RNA snR5 Wilkinson A Predicted; WAR; Wilkinson A 45.00 46.40 40.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 58 0 0 Gene; snRNA; snoRNA; HACA-box; Published; PMID:15075370; Wilkinson A 66 0 \N 0.50953 -9.24895 1600000 353026 314 196 1 -3.45930 0.71273 2013-10-04 02:24:51 2021-07-05 13:43:57 RF01253 snR46 1264 Small nucleolar RNA snR46 Wilkinson A Predicted; WAR; Wilkinson A 43.00 43.70 42.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 55 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 59 0 \N 0.53499 -8.78309 1600000 283970 327 197 1 -3.31580 0.71264 2013-10-04 02:24:53 2019-01-04 15:01:52 RF01254 snR34 1264 Small nucleolar RNA snR34 Wilkinson A Predicted; WAR; Wilkinson A 39.00 40.70 36.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 42 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 46 0 \N 0.42041 -10.39566 1600000 316685 343 206 1 -3.35010 0.71168 2013-10-04 02:24:55 2019-01-04 15:01:52 RF01255 snR35 1264 Small nucleolar RNA snR35 Wilkinson A Predicted; WAR; Wilkinson A 40.00 41.80 35.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 59 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 66 0 \N 0.57634 -8.99732 1600000 339603 330 204 1 -3.58280 0.71194 2013-10-04 02:24:56 2021-07-05 13:43:57 RF01256 snR43 1264 Small nucleolar RNA snR43 Wilkinson A Predicted; WAR; Wilkinson A 60.00 60.10 55.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 66 0 0 Gene; snRNA; snoRNA; HACA-box; Published; PMID:18332121; Wilkinson A 74 0 \N 0.56742 -9.16013 1600000 377940 328 207 1 -3.87350 0.71160 2013-10-04 02:24:58 2021-07-05 13:43:57 RF01257 snR31 1264 Small nucleolar RNA snR31 Wilkinson A Predicted; WAR; Wilkinson A 45.00 48.20 43.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 37 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 43 0 \N 0.53414 -9.73461 1600000 328721 366 223 1 -3.71860 0.71034 2013-10-04 02:25:00 2019-01-04 15:01:52 RF01258 snR10 1264 Small nucleolar RNA snR10 Wilkinson A Predicted; WAR; Wilkinson A 70.00 107.90 64.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 15 65 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 73 0 \N 0.56709 -10.17946 1600000 312451 414 245 1 -4.01660 0.70884 2013-10-04 02:25:01 2021-07-05 13:43:57 RF01259 snR63 1264 Small nucleolar RNA snR63 Wilkinson A, Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 53.00 44.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 29 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; CMfinder; 33 0 \N 0.70145 -7.95178 1600000 400641 399 255 1 -3.56440 0.70820 2013-10-04 02:25:03 2019-01-04 15:01:52 RF01260 snR11 1264 Small nucleolar RNA snR11 Wilkinson A Predicted; WAR; Wilkinson A 42.00 42.30 40.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18 -Z 549862.597050 CM SEQDB 6 31 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 35 0 \N 0.65572 -8.02774 1600000 364338 492 260 1 -3.50360 0.70790 2013-10-04 02:25:06 2019-01-04 15:01:52 RF01261 snR82 1264 Small nucleolar RNA snR82 Wilkinson A Predicted; WAR; Wilkinson A 60.00 63.50 50.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 30 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 33 0 \N 0.57693 -10.38629 1600000 434112 422 270 1 -3.81540 0.70734 2013-10-04 02:25:09 2019-01-04 15:01:52 RF01262 snR44 1264 Small nucleolar RNA snR44 Wilkinson A Predicted; WAR; Wilkinson A 33.00 33.60 32.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 250 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 247 0 \N 0.55027 -8.68136 1600000 285309 341 211 1 -3.39380 0.71135 2013-10-04 02:25:11 2019-01-04 15:01:52 RF01263 snR191 1264 Small nucleolar RNA snR191 Wilkinson A Predicted; WAR; Wilkinson A 46.00 46.90 45.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 234 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 239 0 \N 0.61783 -9.05349 1600000 458239 409 273 1 -3.90760 0.70720 2013-10-04 02:25:13 2021-07-05 13:43:57 RF01264 snR83 1264 Small nucleolar RNA snR83 Wilkinson A Predicted; WAR; Wilkinson A 75.00 77.40 73.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.42 -Z 742849.287494 --mxsize 128 CM SEQDB 5 17 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 21 0 \N 0.59366 -9.59562 1600000 385881 463 308 1 -4.02420 0.70557 2013-10-04 02:25:15 2021-07-05 13:43:57 RF01265 snR42 1264 Small nucleolar RNA snR42 Wilkinson A Predicted; WAR; Wilkinson A 61.00 62.30 60.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 39 0 0 Gene; snRNA; snoRNA; HACA-box; Published; PMID:9106664; Wilkinson A 42 0 \N 0.67488 -8.63223 1600000 436785 509 349 1 -4.07830 0.70422 2013-10-04 02:25:17 2019-01-04 15:01:52 RF01266 snR45 1264 Small nucleolar RNA snR45 Wilkinson A Predicted; WAR; Wilkinson A 80.00 120.50 71.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34 -Z 549862.597050 CM SEQDB 8 31 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 35 0 \N 0.35878 -13.13822 1600000 391964 312 180 0 -3.44390 0.71418 2013-10-04 02:25:19 2019-01-04 15:01:52 RF01267 snR37 1264 Small nucleolar RNA snR37 Wilkinson A Predicted; WAR; Wilkinson A 47.00 48.50 44.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 50 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 56 0 \N 0.66044 -8.61930 1600000 416151 588 385 1 -4.42650 0.70315 2013-10-04 02:25:20 2019-01-04 15:01:52 RF01268 SCARNA2 1264 Small Cajal body-specific RNA 2 Wilkinson A Predicted; WAR; Wilkinson A 48.00 48.60 46.50 \N snoU2-25 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 83 0 0 Gene; snRNA; snoRNA; scaRNA; Published; PMID:15556860; Wilkinson A 68 0 \N 0.64279 -9.55235 1600000 374250 666 421 1 -4.41970 0.70224 2013-10-04 02:25:22 2019-01-04 15:01:52 RF01269 snR80 1264 Small nucleolar RNA snR80 Wilkinson A Predicted; WAR; Wilkinson A 40.00 40.20 39.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25 -Z 549862.597050 CM SEQDB 6 198 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 175 0 \N 0.46275 -8.80459 1600000 336609 299 176 1 -3.04380 0.71493 2013-10-04 02:25:28 2019-01-04 15:01:52 RF01270 snR84 1264 Small nucleolar RNA snR84 Wilkinson A Predicted; WAR; Wilkinson A 109.00 129.60 62.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 9 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 14 0 \N 0.71726 -8.41602 1600000 438398 777 568 1 -4.52120 0.69989 2013-10-04 02:25:31 2019-01-04 15:01:52 RF01271 snR30 1264 Small nucleolar RNA snR30 Wilkinson A Predicted; WAR; Wilkinson A 80.00 96.60 74.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 17.51 -Z 742849.287494 --mxsize 128 CM SEQDB 5 30 0 0 Gene; snRNA; snoRNA; HACA-box; Published; PMID:14749391; Wilkinson A 34 0 \N 0.72756 -8.34058 1600000 316984 819 612 1 -5.03570 0.69939 2013-10-04 02:25:33 2021-07-05 13:43:57 RF01272 snR86 1264 Small nucleolar RNA snR86 Wilkinson A Predicted; WAR; Wilkinson A 120.00 126.70 104.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 9 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 13 0 \N 0.63548 -10.65111 1600000 441461 1253 1008 1 -5.40680 0.69697 2013-10-04 02:25:34 2019-01-04 15:01:52 RF01273 sR34 1264 Small nucleolar RNA sR34 Wilkinson A, Eberhardt R Predicted; WAR; Eberhardt R 40.00 63.00 35.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 12 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; 13 0 \N 0.54366 -8.30156 1600000 446646 134 54 1 -3.52460 0.71923 2013-10-04 02:25:36 2019-01-04 15:01:52 RF01274 sR45 1264 Small nucleolar RNA sR45 Wilkinson A, Eberhardt R Predicted; WAR; Eberhardt R 40.00 43.00 33.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 11 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; 15 0 \N 0.69187 -3.59192 1600000 198811 147 55 1 -3.90550 0.71935 2013-10-04 02:25:37 2019-01-04 15:01:52 RF01275 sR22 1264 Small nucleolar RNA sR22 Wilkinson A, Eberhardt R Predicted; CMfinder; Eberhardt R 40.00 74.30 34.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 11 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; CMfinder; 14 0 \N 0.64125 -5.04349 1600000 380079 140 58 1 -3.50130 0.71924 2013-10-04 02:25:39 2019-01-04 15:01:52 RF01276 sR53 1264 Small nucleolar RNA sR53 Wilkinson A, Eberhardt R Predicted; WAR; Eberhardt R 49.00 49.70 48.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.77 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; 4 0 \N 0.60587 -9.36075 1600000 451158 140 60 0 -3.60980 0.71892 2013-10-04 02:25:40 2019-01-04 15:01:52 RF01277 snoU54 1264 Small nucleolar RNA U54 Wilkinson A Predicted; WAR; Wilkinson A 35.00 35.60 34.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 28 127 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 115 0 \N 0.63043 -4.41481 1600000 283595 144 67 1 -3.51820 0.71886 2013-10-04 02:25:43 2021-07-05 13:43:57 RF01278 SNORD109A 1264 Small nucleolar RNA SNORD109A Wilkinson A Predicted; WAR; Wilkinson A 35.00 35.40 34.60 Humans have two copies of the SNORD109 gene, SNORD109A and SNORD109B. SNORD109B cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 142 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 37 0 \N 0.65054 -3.90758 1600000 322235 168 67 1 -3.68320 0.71884 2013-10-04 02:25:45 2019-01-04 15:01:52 RF01279 snoR53Y 1264 Small nucleolar RNA snoR53Y Wilkinson A Predicted; WAR; Wilkinson A 43.00 44.40 40.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 176 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 78 0 \N 0.57349 -4.38510 1600000 238590 193 79 1 -3.28480 0.71866 2013-10-04 02:25:46 2021-07-05 13:43:57 RF01280 snoR14 1264 Small nucleolar RNA snoR14 Wilkinson A Predicted; Wilkinson A 40.00 43.00 37.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 185 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Wilkinson A 75 0 \N 0.61575 -4.36874 1600000 292783 190 84 1 -3.42770 0.71852 2013-10-04 02:25:48 2021-07-05 13:43:57 RF01281 snoR35 1264 Small nucleolar RNA snoR35 Wilkinson A, Eberhardt R Predicted; CMfinder; Eberhardt R 40.00 44.50 35.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 12 199 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; CMfinder; 76 0 \N 0.56423 -8.82413 1600000 320488 165 81 1 -3.76980 0.71861 2013-10-04 02:25:50 2021-07-05 13:43:57 RF01283 snoU30 1264 Small nucleolar RNA U30 Wilkinson A Predicted; Wilkinson A 45.00 48.30 41.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 103 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Wilkinson A 54 0 \N 0.55931 -5.77540 1600000 320015 177 86 1 -3.10580 0.71850 2013-10-04 02:25:51 2021-07-05 13:43:57 RF01284 snoR8a 1264 Small nucleolar RNA snoR8a Wilkinson A Predicted; WAR; Wilkinson A 37.00 37.00 36.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 383 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 81 0 \N 0.57058 -3.28715 1600000 233587 182 92 1 -3.10520 0.71848 2013-10-04 02:25:53 2019-01-04 15:01:52 RF01285 snoU31b 1264 Small nucleolar RNA U31b Wilkinson A Predicted; Wilkinson A 37.00 37.80 36.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 446 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Wilkinson A 84 0 \N 0.58513 -5.53985 1600000 313090 174 86 1 -3.43020 0.71852 2013-10-04 02:25:55 2019-01-04 15:01:52 RF01286 snoR26 1264 Small nucleolar RNA snoR26 Wilkinson A Predicted; WAR; Wilkinson A 47.00 49.00 43.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 203 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 73 0 \N 0.58772 -3.80297 1600000 239513 186 94 1 -3.11220 0.71848 2013-10-04 02:25:56 2019-01-04 15:01:52 RF01287 snoR27 1264 Small nucleolar RNA snoR27 Wilkinson A Predicted; WAR; Wilkinson A 41.00 42.00 40.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 175 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 61 0 \N 0.50350 -4.48121 1600000 238170 186 95 1 -2.91290 0.71844 2013-10-04 02:25:58 2019-01-04 15:01:52 RF01288 snoR31 1264 Small nucleolar RNA snoR31 Wilkinson A Predicted; WAR; Wilkinson A 44.00 44.90 43.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 193 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 72 0 \N 0.51644 -5.46869 1600000 289943 193 100 1 -3.35060 0.71833 2013-10-04 02:25:59 2019-01-04 15:01:52 RF01289 snoR17 1264 Small nucleolar RNA snoR17 Wilkinson A, Eberhardt R Predicted; CMfinder; Eberhardt R 60.00 66.70 42.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 20 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; CMfinder; 8 0 \N 0.45986 -8.23066 1600000 251922 211 110 1 -3.19610 0.71826 2013-10-04 02:26:01 2019-01-04 15:01:52 RF01290 SNORD10 1264 Small nucleolar RNA SNORD10 Wilkinson A Predicted; WAR; Wilkinson A 37.00 37.60 34.70 \N snoU6-77 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 22 90 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 69 0 \N 0.59381 -7.52219 1600000 191418 246 139 1 -3.22920 0.71795 2013-10-04 02:26:02 2019-01-04 15:01:52 RF01291 SNORD97 1264 Small nucleolar RNA SNORD97 Wilkinson A Predicted; WAR; Wilkinson A 45.00 47.50 41.80 \N snoU97 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 109 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 108 0 \N 0.51126 -7.86006 1600000 280174 602 142 1 -3.19280 0.71788 2013-10-04 02:26:04 2019-01-04 15:01:52 RF01292 snoR2 1264 Small nucleolar RNA snoR2/U65 Wilkinson A Predicted; WAR; Wilkinson A 44.00 45.10 42.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 293 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 79 0 \N 0.53849 -7.49153 1600000 221291 275 149 1 -3.43110 0.71814 2013-10-04 02:26:06 2019-01-04 15:01:52 RF01293 ACA59 1264 Small nucleolar RNA ACA59 Wilkinson A Predicted; WAR; Wilkinson A 43.00 44.90 40.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 16 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Wilkinson A 14 0 \N 0.56887 -8.65453 1600000 323479 357 151 1 -2.98910 0.71797 2013-10-04 02:26:08 2019-01-04 15:01:52 RF01294 snoU89 1264 Small nucleolar RNA U89 Wilkinson A Predicted; Wilkinson A 44.00 44.10 43.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 51 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; Wilkinson A 41 0 \N 0.71081 -9.26683 1600000 385744 429 270 1 -3.96310 0.70736 2013-10-04 02:26:12 2021-07-05 13:43:57 RF01295 SCARNA7 1264 Small Cajal body-specific RNA 7 Wilkinson A Predicted; Wilkinson A 65.00 67.90 51.20 \N snoU90 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 18 101 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; Wilkinson A 100 0 \N 0.57710 -13.35157 1600000 707504 518 330 1 -3.76720 0.70463 2013-10-04 02:26:15 2019-01-04 15:01:52 RF01296 snoU85 1264 Small nucleolar RNA U85 Wilkinson A Predicted; Locarna; Wilkinson A 41.00 42.00 40.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 21 182 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; Locarna; Wilkinson A 140 0 \N 0.65982 -10.32471 1600000 443986 467 329 1 -3.95660 0.70472 2013-10-04 02:28:04 2019-01-04 15:01:52 RF01297 sR40 1264 Small nucleolar RNA sR40 Wilkinson A, Eberhardt R Predicted; WAR; Eberhardt 50.00 97.40 39.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; 4 0 \N 0.55095 -9.67225 1600000 560758 148 61 1 -3.54500 0.72420 2013-10-04 02:28:05 2019-01-04 15:01:52 RF01298 snoU25 1264 Small nucleolar RNA U25 Wilkinson A Predicted; WAR; Wilkinson A 50.00 98.40 35.60 \N snoU35 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 5 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 2 0 \N 0.66142 -3.45541 1600000 254859 158 69 1 -3.05500 0.71890 2013-10-04 02:28:07 2019-01-04 15:01:52 RF01299 SNORD2 1264 Small nucleolar RNA SNORD2 Wilkinson A Predicted; WAR; Wilkinson A 37.00 37.30 36.80 \N snR39B cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 17 213 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 130 0 \N 0.64193 -3.24459 1600000 244327 183 70 1 -3.49510 0.71879 2013-10-04 02:28:08 2019-01-04 15:01:52 RF01300 snoU49 1264 Small nucleolar RNA U49 Wilkinson A, Eberhardt R Predicted; CMfinder; Eberhardt R 35.00 37.10 33.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 93 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; CMfinder; 46 0 \N 0.60871 -5.36027 1600000 320871 147 65 1 -3.52740 0.71895 2013-10-04 02:28:10 2019-01-04 15:01:52 RF01301 snoR4a 1264 Small nucleolar RNA snoR4a Wilkinson A Predicted; WAR; Wilkinson A 50.00 58.50 35.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 36 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 8 0 \N 0.57847 -3.91129 1600000 260374 169 77 1 -3.65530 0.71903 2013-10-04 02:28:12 2019-01-04 15:01:52 RF01302 snoU36a 1264 SnoRNA U36a Wilkinson A Predicted; WAR; Wilkinson A 45.00 46.20 43.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.59 -Z 549862.597050 CM SEQDB 15 355 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 90 0 \N 0.61869 -4.17906 1600000 290423 179 90 1 -3.23500 0.71843 2013-10-04 02:28:13 2021-07-05 13:43:57 RF01303 sR49 1264 Small nucleolar RNA sR49 Wilkinson A, Eberhardt R Predicted; MAFFT; Eberhardt R 50.00 61.60 34.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold; 3 0 \N 0.65946 -4.66965 1600000 423132 137 56 1 -3.93900 0.72057 2013-10-04 02:28:15 2019-01-04 15:01:52 RF01304 sR5 1264 Small nucleolar RNA sR5 Wilkinson A, Eberhardt R Predicted; ClustalW; Eberhardt R 40.00 42.30 39.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 15 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold; 18 0 \N 0.62599 -8.71987 1600000 535411 122 53 1 -3.85830 0.72508 2013-10-04 02:28:16 2019-01-04 15:01:52 RF01305 sR51 1264 Small nucleolar RNA sR51 Wilkinson A, Eberhardt R Predicted; CMfinder; Eberhardt R 38.00 39.20 35.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 7 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; CMfinder; 9 0 \N 0.64904 -4.35262 1600000 281749 134 56 1 -3.97240 0.71971 2013-10-04 02:28:19 2019-01-04 15:01:52 RF01306 sR52 1264 Small nucleolar RNA sR52 Wilkinson A, Eberhardt R Predicted; WAR; Eberhardt R 50.00 53.20 41.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; 2 0 \N 0.57321 -10.00812 1600000 679560 145 59 1 -2.96900 0.72792 2013-10-04 02:28:20 2019-01-04 15:01:52 RF01307 sR55 1264 Small nucleolar RNA sR55 Wilkinson A, Eberhardt R Predicted; WAR; Eberhardt R 35.00 44.50 33.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.20 -Z 549862.597050 CM SEQDB 4 11 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; 13 0 \N 0.71441 -4.90913 1600000 367031 147 64 1 -3.88780 0.71888 2013-10-04 02:28:23 2019-01-04 15:01:52 RF01308 sR58 1264 Small nucleolar RNA sR58 Wilkinson A Predicted; WAR; Wilkinson A 55.00 71.10 31.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 11 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 14 0 \N 0.65768 -5.93647 1600000 426194 134 55 1 -3.69650 0.71911 2013-10-04 02:28:25 2019-01-04 15:01:52 RF01309 sR60 1264 Small nucleolar RNA sR60 Wilkinson A Predicted; WAR; Wilkinson A 50.00 62.80 40.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 40.00 -Z 742849.287494 CM SEQDB 4 9 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Wilkinson A 13 0 \N 0.69196 -5.56953 1600000 519307 135 55 1 -3.81670 0.71906 2013-10-04 02:28:27 2022-10-29 16:55:16 RF01310 sR7 1264 Small nucleolar RNA sR7 Wilkinson A, Eberhardt R Predicted; CMfinder; Eberhardt R 37.00 38.20 33.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.26 -Z 549862.597050 CM SEQDB 5 7 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; CMfinder; 10 0 \N 0.60193 -8.83414 1600000 391860 132 58 0 -3.51820 0.72348 2013-10-04 02:28:28 2019-01-04 15:01:52 RF01312 sR9 1264 Small nucleolar RNA sR9 Wilkinson A, Eberhardt R Predicted; CMfinder; Eberhardt R 36.00 36.10 33.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.54 -Z 549862.597050 CM SEQDB 3 6 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; CMfinder; 6 0 \N 0.62313 -4.55600 1600000 217403 138 55 1 -2.42160 0.74986 2013-10-04 02:28:31 2019-01-04 15:01:52 RF01313 AHBV_epsilon 2062 Avian HBV RNA encapsidation signal epsilon Chen A, Brown C, Daub J Chen A, Brown C 45.00 46.50 36.10 \N HHBV_epsilon cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 4 0 0 Cis-reg; Published; PMID:17430968 6 0 \N 0.64045 -4.17371 1600000 330670 138 57 1 -3.80120 0.71932 2013-10-04 02:28:33 2021-07-05 13:43:57 RF01314 mir-1227 1287 microRNA mir-1227 Griffiths-Jones SR Griffiths-Jones SR 70.00 81.90 41.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.55983 -3.86130 1600000 195002 185 88 1 -3.18420 0.71888 2013-10-04 02:28:34 2021-12-03 12:04:12 RF01315 CRISPR-DR2 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 37.00 37.00 36.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.00 -Z 549862.597050 CM SEQDB 19 9051 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 124 0 \N 0.61123 -4.21530 1600000 476169 88 30 1 -3.12240 0.73164 2013-02-01 11:58:31 2021-07-05 13:43:57 RF01316 CRISPR-DR3 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 41.00 41.20 40.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29 -Z 549862.597050 CM SEQDB 20 1307 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 43 0 \N 0.42211 -10.31268 1600000 793254 88 30 1 -3.58990 0.72622 2013-10-04 02:29:04 2019-01-04 15:01:52 RF01317 CRISPR-DR4 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 35.00 35.00 34.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.77 -Z 549862.597050 CM SEQDB 33 10236 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 264 0 \N 0.70862 -3.09750 1600000 570316 83 28 1 -3.47390 0.72986 2013-10-04 02:29:06 2021-07-05 13:43:57 RF01318 CRISPR-DR5 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 40.00 40.00 39.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 12 4678 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 52 0 \N 0.51940 -6.40185 1600000 661721 100 37 1 -3.52240 0.72484 2013-10-04 02:29:13 2019-01-04 15:01:52 RF01319 CRISPR-DR6 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 39.00 39.40 38.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 615 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 14 0 \N 0.64843 -4.79057 1600000 548447 95 30 1 -3.26030 0.72657 2013-10-04 02:29:17 2019-01-04 15:01:52 RF01320 CRISPR-DR7 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 37.00 37.00 36.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 2400 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 68 0 \N 0.62017 -4.11298 1600000 318921 102 37 1 -3.50510 0.72537 2013-10-04 02:29:19 2019-01-04 15:01:52 RF01321 CRISPR-DR8 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 39.00 39.50 36.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 72 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 5 0 \N 0.67522 -3.54433 1600000 312220 107 37 1 -2.82650 0.73894 2013-10-04 02:29:21 2019-01-04 15:01:52 RF01322 CRISPR-DR9 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 45.00 45.40 44.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 1362 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 58 0 \N 0.68789 -3.88890 1600000 403954 104 37 1 -3.30370 0.72772 2013-10-04 02:29:23 2019-01-04 15:01:52 RF01323 CRISPR-DR10 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 39.00 39.80 36.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 294 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 7 0 \N 0.68270 -3.54794 1600000 241430 107 37 1 -3.43770 0.73625 2013-10-04 02:29:25 2019-01-04 15:01:52 RF01324 CRISPR-DR11 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 45.00 56.00 35.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 38 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 1 0 \N 0.59969 -5.42995 1600000 521981 106 36 1 -3.25160 0.72591 2013-10-04 02:29:27 2019-01-04 15:01:52 RF01325 CRISPR-DR12 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 37.00 37.30 36.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 257 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 10 0 \N 0.65714 -4.29933 1600000 463675 98 30 1 -3.32210 0.73286 2013-10-04 02:29:28 2019-01-04 15:01:52 RF01326 CRISPR-DR13 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 37.00 37.10 36.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26 -Z 549862.597050 CM SEQDB 4 130 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 2 0 \N 0.49839 -7.81157 1600000 575318 99 30 1 -3.10270 0.73344 2013-10-04 02:29:30 2019-01-04 15:01:52 RF01327 CRISPR-DR14 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 45.00 45.30 44.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33.00 -Z 549862.597050 CM SEQDB 5 184 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 7 0 \N 0.42824 -9.37412 1600000 608214 94 29 0 -2.99800 0.73428 2013-10-04 02:29:32 2019-01-04 15:01:52 RF01328 CRISPR-DR17 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 42.00 42.30 40.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 45 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 1 0 \N 0.61450 -4.88118 1600000 693903 94 25 1 -2.29140 0.75385 2013-10-04 02:29:34 2019-01-04 15:01:52 RF01329 CRISPR-DR15 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 36.00 36.00 35.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.87 -Z 549862.597050 CM SEQDB 3 104 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 21 0 \N 0.65066 -3.75687 1600000 356421 111 37 1 -2.85650 0.74162 2013-10-04 02:29:39 2019-01-04 15:01:52 RF01330 CRISPR-DR16 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 35.00 35.00 34.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 589 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 27 0 \N 0.72145 -3.43505 1600000 462708 106 37 1 -3.27360 0.72358 2013-10-04 02:29:40 2019-01-04 15:01:52 RF01331 CRISPR-DR18 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 50.00 56.50 39.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 28 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 2 0 \N 0.50916 -8.62235 1600000 487603 106 37 1 -3.27790 0.72662 2013-10-04 02:29:42 2019-01-04 15:01:52 RF01332 CRISPR-DR19 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 40.00 41.20 38.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 405 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 5 0 \N 0.55922 -5.45642 1600000 378375 109 37 1 -3.48910 0.73439 2013-10-04 02:29:43 2019-01-04 15:01:52 RF01333 CRISPR-DR20 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 42.00 44.10 35.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 38 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 2 0 \N 0.64599 -4.45633 1600000 434399 110 36 1 -2.40880 0.74379 2013-10-04 02:29:45 2019-01-04 15:01:52 RF01334 CRISPR-DR21 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 48.00 50.00 44.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 276 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 2 0 \N 0.57762 -4.25613 1600000 344087 114 37 1 -2.64870 0.74811 2013-10-04 02:29:47 2019-01-04 15:01:52 RF01335 CRISPR-DR22 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 49.00 49.20 48.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 478 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 40 0 \N 0.57723 -9.16572 1600000 931621 101 36 1 -3.69370 0.72600 2013-10-04 02:29:49 2019-01-04 15:01:52 RF01336 CRISPR-DR23 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 45.00 48.90 39.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22 -Z 549862.597050 CM SEQDB 3 148 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 4 0 \N 0.57850 -5.78584 1600000 369317 110 36 1 -3.09190 0.73379 2013-10-04 02:29:51 2019-01-04 15:01:52 RF01337 CRISPR-DR24 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 35.00 35.90 34.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25 -Z 549862.597050 CM SEQDB 4 1217 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 35 0 \N 0.54045 -8.61739 1600000 618257 99 30 1 -3.22100 0.73871 2013-02-01 11:58:37 2019-01-04 15:01:52 RF01338 CRISPR-DR25 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 36.00 36.40 35.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 303 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 6 0 \N 0.64216 -4.72177 1600000 751638 91 25 1 -3.03010 0.73965 2013-10-04 02:29:59 2019-01-04 15:01:52 RF01339 CRISPR-DR27 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 35.00 35.10 34.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26 -Z 549862.597050 CM SEQDB 3 130 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 4 0 \N 0.53977 -5.32285 1600000 455495 94 25 1 -2.64350 0.75383 2013-10-04 02:30:01 2019-01-04 15:01:52 RF01340 CRISPR-DR29 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 39.00 39.70 38.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 129 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 12 0 \N 0.66173 -3.67097 1600000 294775 114 37 1 -2.43130 0.74426 2013-10-04 02:30:05 2019-01-04 15:01:52 RF01341 CRISPR-DR30 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 50.00 54.30 34.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.8 -Z 549862.597050 CM SEQDB 3 19 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 1 0 \N 0.55276 -6.41814 1600000 273270 113 38 1 -3.05530 0.73776 2013-10-04 02:30:09 2019-01-04 15:01:52 RF01342 CRISPR-DR32 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 48.00 49.60 42.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 34 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 1 0 \N 0.58447 -3.75746 1600000 278213 114 37 1 -2.71090 0.75334 2013-10-04 02:30:12 2019-01-04 15:01:52 RF01343 CRISPR-DR33 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 39.00 39.30 38.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 178 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 14 0 \N 0.69029 -2.54233 1600000 245739 111 37 1 -2.84230 0.75164 2013-10-04 02:30:14 2019-01-04 15:01:52 RF01344 CRISPR-DR34 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 35.00 36.00 34.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 549862.597050 CM SEQDB 5 377 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 31 0 \N 0.64415 -3.43253 1600000 391656 106 36 1 -3.66560 0.72664 2013-10-04 02:30:18 2019-01-04 15:01:52 RF01345 CRISPR-DR35 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 35.00 35.30 34.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 129 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 5 0 \N 0.62356 -4.11747 1600000 323652 113 36 1 -2.65990 0.74919 2013-10-04 02:30:20 2019-01-04 15:01:52 RF01346 CRISPR-DR36 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 38.00 38.40 37.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 67 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 4 0 \N 0.60889 -8.38716 1600000 670594 110 36 1 -3.43850 0.73250 2013-10-04 02:30:22 2019-01-04 15:01:52 RF01347 CRISPR-DR37 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 40.00 41.60 35.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24 -Z 549862.597050 CM SEQDB 3 182 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 9 0 \N 0.60982 -3.25037 1600000 310255 109 35 1 -2.88730 0.74510 2013-10-04 02:30:24 2019-01-04 15:01:52 RF01348 CRISPR-DR38 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 44.00 45.80 42.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 109 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 5 0 \N 0.49252 -8.63807 1600000 446276 104 35 1 -3.34580 0.73180 2013-10-04 02:30:26 2019-01-04 15:01:52 RF01349 CRISPR-DR40 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 42.00 42.60 41.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.5 -Z 549862.597050 CM SEQDB 3 0 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 1 0 \N 0.54610 -3.21799 1600000 328456 101 30 1 -2.60340 0.74459 2013-10-04 02:30:28 2019-01-04 15:01:52 RF01350 CRISPR-DR41 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 36.00 36.20 35.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 36 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 4 0 \N 0.66621 -2.89380 1600000 359337 103 29 1 -2.50820 0.76609 2013-10-04 02:30:30 2019-01-04 15:01:52 RF01351 CRISPR-DR42 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 40.00 41.60 33.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.5 -Z 549862.597050 CM SEQDB 3 5 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 2 0 \N 0.47496 -7.16751 1600000 409137 98 29 0 -2.77400 0.74524 2013-10-04 02:30:31 2019-01-04 15:01:52 RF01352 CRISPR-DR43 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 35.00 35.00 34.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 3 985 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 28 0 \N 0.52810 -5.93493 1600000 419708 98 29 0 -2.75990 0.74982 2013-10-04 02:30:33 2021-07-05 13:43:57 RF01353 CRISPR-DR44 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 35.00 35.80 34.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.8 -Z 549862.597050 CM SEQDB 3 33 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 4 0 \N 0.56487 -4.18823 1600000 473658 98 28 1 -2.47020 0.75518 2013-10-04 02:30:40 2019-01-04 15:01:52 RF01354 CRISPR-DR45 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 37.00 37.10 36.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 323 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 6 0 \N 0.57977 -4.66301 1600000 491519 93 24 1 -2.57220 0.75617 2013-10-04 02:30:45 2019-01-04 15:01:52 RF01355 CRISPR-DR26 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 39.00 39.40 38.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.02 -Z 742849.287494 CM SEQDB 4 45 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 3 0 \N 0.53297 -7.80611 1600000 720616 92 25 1 -2.89050 0.74446 2013-10-04 02:30:46 2022-10-29 16:55:16 RF01356 CRISPR-DR28 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 35.00 35.00 34.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 614 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 18 0 \N 0.56629 -5.76719 1600000 448432 93 24 1 -2.57690 0.75470 2013-10-04 02:30:48 2019-01-04 15:01:52 RF01357 CRISPR-DR31 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 35.00 35.60 34.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 19 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 4 0 \N 0.67115 -3.74640 1600000 321571 111 37 1 -3.45570 0.73453 2013-10-04 02:30:50 2019-01-04 15:01:52 RF01358 CRISPR-DR39 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 39.00 39.20 38.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 3 136 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 3 0 \N 0.52350 -4.64152 1600000 394790 103 31 1 -2.63720 0.74956 2013-10-04 02:30:52 2019-01-04 15:01:52 RF01359 CRISPR-DR46 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 50.00 52.90 43.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 5 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 1 0 \N 0.51716 -5.69497 1600000 365902 116 38 1 -2.06200 0.75154 2013-10-04 02:30:54 2019-01-04 15:01:52 RF01360 CRISPR-DR47 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 39.00 40.10 36.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22 -Z 549862.597050 CM SEQDB 2 43 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 1 0 \N 0.54716 -7.80444 1600000 554725 114 37 1 -2.82450 0.74368 2013-10-04 02:30:56 2019-01-04 15:01:52 RF01361 CRISPR-DR48 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 50.00 60.60 37.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 9 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 2 0 \N 0.52842 -6.95039 1600000 429615 114 37 1 -2.90400 0.74676 2013-10-04 02:31:11 2019-01-04 15:01:52 RF01362 CRISPR-DR49 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 41.00 41.00 40.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 214 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 23 0 \N 0.50750 -8.35611 1600000 556993 125 47 1 -3.22100 0.72618 2013-10-04 02:31:13 2019-01-04 15:01:52 RF01363 CRISPR-DR50 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 47.00 48.10 44.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 386 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 12 0 \N 0.53509 -3.63376 1600000 237922 127 46 1 -2.15990 0.74273 2013-10-04 02:31:16 2019-01-04 15:01:52 RF01364 CRISPR-DR51 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 45.00 51.90 33.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 23 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 2 0 \N 0.55188 -3.68422 1600000 303050 116 38 1 -2.60550 0.75479 2013-10-04 02:31:19 2019-01-04 15:01:52 RF01365 CRISPR-DR52 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 50.00 61.70 35.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 50 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 1 0 \N 0.57714 -6.02921 1600000 461984 114 37 1 -2.58950 0.74639 2013-10-04 02:31:21 2019-01-04 15:01:52 RF01366 CRISPR-DR53 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 45.00 51.00 39.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 14 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 1 0 \N 0.60669 -3.91305 1600000 278609 114 37 1 -2.85770 0.74784 2013-10-04 02:31:23 2019-01-04 15:01:52 RF01367 CRISPR-DR54 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 39.00 39.20 38.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 21 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 6 0 \N 0.64677 -3.46642 1600000 316219 114 37 1 -2.34780 0.74694 2013-10-04 02:31:25 2019-01-04 15:01:52 RF01368 CRISPR-DR55 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 41.00 42.40 34.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29 -Z 549862.597050 CM SEQDB 2 45 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 2 0 \N 0.50647 -4.92552 1600000 369785 112 37 0 -2.13180 0.75237 2013-10-04 02:31:26 2019-01-04 15:01:52 RF01369 CRISPR-DR56 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 35.00 36.00 34.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 100 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 4 0 \N 0.62957 -3.91246 1600000 336976 114 37 1 -2.50660 0.74545 2013-10-04 02:31:28 2019-01-04 15:01:52 RF01370 CRISPR-DR57 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 39.00 39.00 38.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 439 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 14 0 \N 0.68028 -3.76131 1600000 318048 111 37 1 -3.21770 0.73990 2013-10-04 02:31:30 2019-01-04 15:01:52 RF01371 CRISPR-DR58 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 38.00 39.00 34.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 100 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 2 0 \N 0.62250 -4.14656 1600000 333214 114 37 1 -2.78960 0.74719 2013-10-04 02:31:32 2019-01-04 15:01:52 RF01373 CRISPR-DR60 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 45.00 50.10 39.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25 -Z 549862.597050 CM SEQDB 2 169 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 2 0 \N 0.60988 -3.39290 1600000 312839 114 37 1 -2.26260 0.75502 2013-10-04 02:31:38 2019-01-04 15:01:52 RF01374 CRISPR-DR61 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 38.00 38.60 36.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 4 0 \N 0.56158 -4.58849 1600000 368759 114 37 1 -2.44540 0.74798 2013-10-04 02:31:40 2019-01-04 15:01:52 RF01375 CRISPR-DR62 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 45.00 58.90 39.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 35.10 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 1 0 \N 0.46483 -6.12998 1600000 454382 114 37 1 -2.06870 0.74824 2013-10-04 02:31:42 2022-10-29 16:42:07 RF01376 CRISPR-DR63 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 37.00 37.60 36.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 38 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 6 0 \N 0.49894 -7.08395 1600000 424873 114 37 1 -2.38230 0.74677 2013-10-04 02:31:43 2019-01-04 15:01:52 RF01377 CRISPR-DR64 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 40.00 61.10 37.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 0 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 1 0 \N 0.52647 -7.06847 1600000 384280 114 37 1 -2.66670 0.74530 2013-10-04 02:31:45 2019-01-04 15:01:52 RF01378 CRISPR-DR65 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 43.00 55.40 38.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 2 0 \N 0.58512 -2.46540 1600000 280622 114 37 1 -2.44010 0.75526 2013-10-04 02:31:46 2019-01-04 15:01:52 RF01379 CRISPR-DR66 1265 CRISPR RNA direct repeat element Wilkinson A Predicted; WAR; Wilkinson A 45.00 50.60 37.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 126 0 0 Gene; CRISPR; Predicted; WAR; Wilkinson A 2 0 \N 0.56964 -5.28671 1600000 417776 109 37 1 -3.39330 0.72668 2013-10-04 02:31:48 2019-01-04 15:01:52 RF01380 HIV-1_SD 1457 Human immunodeficiency virus type 1 major splice donor Chen A, Brown C, Daub J Chen A 30.00 30.40 29.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.67 -Z 742849.287494 --mxsize 128 CM SEQDB 22 19 0 0 Cis-reg; Published; PMID:18160437 19 0 \N 0.67105 -3.66922 1600000 528027 74 19 1 -3.62150 0.73887 2013-10-04 02:31:49 2021-07-05 13:43:57 RF01381 HIV-1_SL3 1457 HIV-1 stem-loop 3 Psi packaging signal Chen A, Brown C, Daub J Chen A 33.00 33.00 32.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.00 -Z 549862.597050 CM SEQDB 19 14 0 0 Cis-reg; Published; PMID:18713870 10 0 \N 0.76425 -3.92123 1600000 871521 79 23 1 -3.73550 0.73254 2013-10-04 02:31:53 2019-01-04 15:01:52 RF01382 HIV-1_SL4 1457 HIV-1 stem-loop 4 packaging signal Chen A, Brown C, Daub J Chen A 31.00 31.10 30.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.20 -Z 549862.597050 CM SEQDB 16 28 0 0 Cis-reg; Published; PMID:18713870 20 0 \N 0.64216 -5.49278 1600000 545209 77 20 1 -3.30510 0.73925 2013-10-04 02:32:00 2019-01-04 15:01:52 RF01383 GRIK4_3p_UTR 2063 GRIK4 3 prime UTR element Gardner PP Predicted; CMfinder 38.00 39.20 37.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.72 -Z 549862.597050 CM SEQDB 8 18 0 0 Gene; Predicted; CMfinder 19 0 \N 0.60605 -5.57229 1600000 272717 195 94 1 -3.18480 0.71851 2013-10-04 02:32:12 2019-01-04 15:01:52 RF01384 InvR 2064 Invasion gene-associated RNA Daub J PMID 17971080 60.00 101.80 35.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 5 0 0 Gene; Predicted; RNAalifold 9 0 \N 0.65078 -2.93355 1600000 273531 188 91 1 -3.33820 0.71861 2013-10-04 02:32:15 2019-01-04 15:01:52 RF01385 isrA 1266 isrA Hfq binding RNA Daub J, Gardner PP Predicted; WAR; Infernal 51.00 53.00 49.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 38 0 0 Gene; sRNA; Predicted; WAR 31 0 \N 0.60409 -8.13116 1600000 352219 239 129 1 -2.98060 0.71827 2013-02-01 11:58:39 2019-01-04 15:01:52 RF01386 isrB 1266 isrB Hfq binding RNA Barquist L Predicted; WAR; Infernal 35.00 38.50 34.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 7 0 0 Gene; sRNA; Predicted; WAR 7 0 \N 0.51817 -8.81311 1600000 318638 181 87 1 -3.42300 0.71885 2013-02-01 11:58:41 2019-01-04 15:01:52 RF01387 isrC 1266 isrC Hfq binding RNA Daub J, Gardner PP Predicted; WAR; Infernal 39.00 39.70 38.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21 -Z 549862.597050 CM SEQDB 16 15 0 0 Gene; sRNA; Predicted; WAR 25 0 \N 0.65447 -3.80164 1600000 256500 231 123 1 -3.29260 0.71837 2013-10-04 02:32:21 2019-01-04 15:01:52 RF01388 isrD 1266 isrD Hfq binding RNA Daub J, Gardner PP Predicted; WAR; Infernal 37.00 38.30 36.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.24 -Z 549862.597050 CM SEQDB 2 5 0 0 Gene; sRNA; Predicted; WAR 7 0 \N 0.57653 -7.56495 1600000 476418 134 51 1 -2.99230 0.73219 2013-10-04 02:32:24 2019-01-04 15:01:52 RF01389 isrF 1266 isrF Hfq binding RNA Daub J, Gardner PP Predicted; WAR; Infernal 40.00 45.10 29.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 4 0 0 Gene; sRNA; Predicted; WAR 7 0 \N 0.66399 -10.97292 1600000 569196 442 292 1 -3.88570 0.70625 2013-10-04 02:32:26 2019-01-04 15:01:52 RF01390 isrG 1266 isrG Hfq binding RNA Daub J, Gardner PP Predicted; ClustalW; Infernal 100.00 100.60 99.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 129 0 0 Gene; sRNA; Predicted; RNAalifold 14 0 \N 0.67348 -9.65561 1600000 431341 428 279 1 -3.85170 0.70690 2013-10-04 02:32:27 2019-01-04 15:01:52 RF01391 isrH 1266 isrH Hfq binding RNA Daub J, Gardner PP Predicted; ClustalW; Infernal 45.00 49.20 38.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 5 0 0 Gene; sRNA; Predicted; RNAalifold 10 0 \N 0.72676 -7.71930 1600000 346609 431 280 1 -3.56160 0.70691 2013-10-04 02:32:34 2019-01-04 15:01:52 RF01392 isrI 1266 isrI Hfq binding RNA Daub J, Gardner PP Predicted; WAR; Infernal 45.00 46.60 43.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 30 9 0 0 Gene; sRNA; Predicted; WAR 27 0 \N 0.63940 -2.05088 1600000 304914 194 98 1 -3.46250 0.71841 2013-10-04 02:32:36 2019-01-04 15:01:52 RF01393 isrJ 1266 isrJ Hfq binding RNA Daub J, Gardner PP Predicted; ClustalW; Infernal 37.00 37.40 36.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26 -Z 549862.597050 CM SEQDB 5 7 0 0 Gene; sRNA; Predicted; RNAalifold 11 0 \N 0.53420 -7.89245 1600000 292475 162 75 1 -3.32500 0.71889 2013-10-04 02:32:38 2019-01-04 15:01:52 RF01394 isrK 1266 isrK Hfq binding RNA Daub J, Gardner PP Predicted; CMfinder; Infernal 50.00 50.00 49.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.00 -Z 549862.597050 CM SEQDB 52 385 0 0 Gene; sRNA; Predicted; CMfinder 258 0 \N 0.58895 -8.90962 1600000 444744 148 77 1 -3.56510 0.71882 2013-10-04 02:32:40 2021-07-05 13:43:57 RF01395 isrL 1266 isrL Hfq binding RNA Daub J, Gardner PP Predicted; MAFFT; Infernal 35.00 36.40 34.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 16 0 0 Gene; sRNA; Predicted; RNAalifold 20 0 \N 0.73969 -7.71588 1600000 313726 515 345 1 -4.27570 0.70429 2013-10-04 02:32:49 2019-01-04 15:01:52 RF01396 isrN 1266 isrN Hfq binding RNA Daub J, Gardner PP Predicted; WAR; Infernal 44.00 44.60 43.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 17 123 0 0 Gene; sRNA; Predicted; WAR 87 0 \N 0.59852 -8.74901 1600000 302885 238 143 1 -3.09450 0.71805 2013-10-04 02:32:51 2019-01-04 15:01:52 RF01397 isrO 1266 isrO Hfq binding RNA Daub J, Gardner PP Predicted; ClustalW; Infernal 42.00 42.80 38.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 16 0 0 Gene; sRNA; Predicted; RNAalifold 20 0 \N 0.56729 -9.52941 1600000 344778 328 201 1 -3.52110 0.71235 2013-10-04 02:32:52 2019-01-04 15:01:52 RF01398 isrP 1266 isrP Hfq binding RNA Daub J, Gardner PP Predicted; ClustalW; Infernal 45.00 45.10 42.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 4 0 0 Gene; sRNA; Predicted; RNAalifold 11 0 \N 0.54799 -8.23973 1600000 314797 267 148 1 -3.37600 0.71818 2013-10-04 02:32:54 2019-01-04 15:01:52 RF01399 isrQ 1266 isrQ Hfq binding RNA Daub J, Gardner PP Predicted; ClustalW; Infernal 50.00 58.20 34.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 5 0 0 Gene; sRNA; Predicted; RNAalifold 10 0 \N 0.55100 -8.57570 1600000 347624 286 162 1 -3.10380 0.71679 2013-10-04 02:32:55 2019-01-04 15:01:52 RF01400 istR 2065 istR Hfq binding RNA Daub J, Gardner PP Predicted; CMfinder; Infernal 45.00 47.10 38.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 32 0 0 Gene; antitoxin; Predicted; CMfinder 36 0 \N 0.56313 -8.42909 1600000 309063 240 130 1 -3.29290 0.71833 2013-10-04 02:32:57 2019-01-04 15:01:52 RF01401 rseX 1266 rseX Hfq binding RNA Barquist L Predicted; mafft; Infernal 50.00 51.40 45.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 12 7 0 0 Gene; sRNA; Predicted; RNAalifold 17 0 \N 0.42808 -7.45525 1600000 272652 185 94 1 -3.20230 0.71862 2013-10-04 02:32:59 2019-01-04 15:01:52 RF01402 STnc150 1266 STnc150 Hfq binding RNA Daub J, Gardner PP Predicted; WAR; Infernal 60.00 60.80 51.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.98 -Z 549862.597050 CM SEQDB 9 6 0 0 Gene; sRNA; Predicted; WAR 15 0 \N 0.56357 -10.40654 1600000 431055 444 267 1 -3.43290 0.70737 2013-10-04 02:33:00 2019-01-04 15:01:52 RF01403 STnc290 1266 STnc290 Hfq binding RNA Daub J, Gardner PP Predicted; ClustalW; Infernal 60.00 67.30 41.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 5 0 0 Gene; sRNA; Predicted; RNAalifold 11 0 \N 0.53264 -7.16830 1600000 386135 152 65 1 -3.56390 0.71917 2013-02-01 11:58:42 2019-01-04 15:01:52 RF01404 PinT 2428 PinT (STnc440) Hfq binding RNA Daub J, Gardner PP Predicted; CMfinder; Infernal 60.00 72.20 33.20 \N STnc440; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 5 0 0 Gene; sRNA; Predicted; CMfinder 9 0 \N 0.58849 -6.89067 1600000 323183 168 76 1 -3.39330 0.71886 2013-10-04 02:33:04 2019-01-04 15:01:52 RF01405 STnc490 1266 STnc490 Hfq binding RNA Daub J, Gardner PP Predicted; WAR; Infernal 56.00 56.80 55.70 \N STnc490k; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 76 184 0 0 Gene; sRNA; Predicted; WAR 97 0 \N 0.54705 -9.26061 1600000 395939 231 124 1 -3.06740 0.71846 2013-10-04 02:33:05 2019-01-04 15:01:52 RF01406 STnc500 1266 STnc500 Hfq binding RNA Daub J, Gardner PP Predicted; WAR; Infernal 44.00 44.90 25.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 5 0 0 Gene; sRNA; Predicted; WAR 12 0 \N 0.68856 -9.10975 1600000 407500 438 285 1 -4.01610 0.70649 2013-10-04 02:33:08 2019-01-04 15:01:52 RF01407 STnc560 1266 STnc560 Hfq binding RNA Daub J, Gardner PP Predicted; WAR; Infernal 55.00 56.50 54.00 Original sequence was AE014075.1/1805202-1804553. Based upon sequence conservation this was trimmed to AE014075.1/1805101-1804887. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 12 18 0 0 Gene; sRNA; Predicted; WAR 29 0 \N 0.56487 -9.49705 1600000 352339 349 214 1 -3.52870 0.71110 2013-10-04 02:33:09 2019-01-04 15:01:52 RF01408 sraL 2523 sraL Hfq binding RNA Daub J, Gardner PP Predicted; ClustalW; Infernal 39.00 39.50 37.80 The SraL RNA ('sra' for small RNA), discovered in E. coli,[2][3] and later in Salmonella Tiphimurium.[5][6] It is expressed only in stationary phase.[2] It may possibly play a role in Salmonella virulence.[5] The major stationary phase regulator RpoS is transcriptionally regulating SraL and directly binds to the sraL gene promoter. SraL down-regulates the expression of of the ribosome-associated chaperone Trigger Factor (TF), which is involved in the folding of the newly synthesised cystolic proteins.[7] ryjA cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 43 0 0 Gene; sRNA; Predicted; RNAalifold 44 0 \N 0.58821 -9.31554 1600000 366764 267 142 1 -2.98240 0.71822 2013-10-04 02:33:11 2019-01-04 15:01:52 RF01409 STnc250 1266 STnc250 Hfq binding RNA Daub J, Gardner PP Predicted; WAR; Infernal 42.00 42.20 39.90 \N ypfM_ORF cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 10 0 0 Gene; sRNA; Predicted; WAR 13 0 \N 0.56074 -7.65728 1600000 320483 194 94 1 -3.30060 0.71864 2013-10-04 02:33:14 2019-01-04 15:01:52 RF01410 BsrC 2066 BsrC Gardner PP Predicted; CMfinder; Infernal 38.00 38.30 36.80 The 301 nucleotide sequence from Kouji Nakamura has been trimmed to a highly conserved ~85 nucleotide long core to form this family. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 29 324 0 0 Gene; sRNA; Predicted; CMfinder 301 0 \N 0.51461 -8.08259 1600000 267100 170 87 1 -3.57230 0.71872 2013-10-04 02:33:15 2019-01-04 15:01:52 RF01411 BsrF 2066 BsrF Gardner PP Predicted; WAR; Infernal 50.00 54.70 31.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 112 0 0 Gene; sRNA; Predicted; WAR 116 0 \N 0.53152 -7.77261 1600000 296435 211 113 1 -3.27670 0.71839 2013-10-04 02:33:17 2019-01-04 15:01:52 RF01412 BsrG 2066 BsrG Gardner PP Predicted; WAR; Infernal 55.00 55.40 54.80 bsrE, bsrG and bsrH pair through intermolecular interactions with antisense sRNAs. They form type I toxin/antitoxin system that includes an mRNA encoding for a short, toxic peptide (bsrE, bsrG and bsrH) and an antitoxin that is comprised of an antisense RNA.[7] bsrG encodes a 39-amino-acid toxin, and the 180 nucleotide antisense sRNA called SR4 acts as the antitoxin (they overlap by 123 nucleotides). SR4 interaction with the 3'UTR of bsrG RNA promotes bsrG degradation and inhibits its translation.[2][4] BsrG interferes with cell envelope biosynthesis, causes membrane invaginations and delocalisation of the cell wall synthesis and initiates autolysis.[3] bsrE RNA encodes 30 amino-acid toxin peptide. Its antitoxin gene, SR5 overlaps by 112 nucleotides at the 3' end of bsrE.[5] SR5 also overlaps bsrG from nucleotide 163 to 52 (Rfam overlap check). The antitoxin SR5 promotes bsrE degradation but unlike SR4 it does not directly inhibits toxin mRNA translation.[5][6] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 295 0 0 Gene; sRNA; Predicted; WAR 166 0 \N 0.62771 -8.93185 1600000 368026 479 259 1 -3.99710 0.70797 2013-10-04 02:33:19 2019-01-04 15:01:52 RF01413 miR-430 2067 miR-430 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 47.30 47.30 47.20 This family represents the microRNA (miRNA) precursor mir-430 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 40.00 -Z 742849.287494 CM SEQDB 32 611 0 0 Gene; miRNA; Predicted; RNAalifold 12 0 \N 0.57188 -4.42658 1600000 197967 142 70 1 -3.78070 0.71921 2013-10-04 02:33:21 2022-10-29 16:42:07 RF01414 Dicty_Class_I_RNA 2068 Class I RNA from Dictyostelium Jonas K Jonas K; PMID:33479022; 41.50 42.00 41.10 Dictyostelium Class I RNA was first reported for Aspegren et al. 2004 in Dictyostelium discoideum [1]. Sucgang et al. 2011 [2] identify putative homologs of Class I RNA in D. discoideum and D. purpureum. Avesson et al. 2011 [3] report that Class I RNA present a down regulation during the development of social amoeba Dictyostelium discoideum, they also found that deletion of one of the Class I RNAs, DdR-21, results in aberrant development. Kjellin et al. 2020 [4] report an extended number of expressed Class I RNA genes in class Dictyostelia, in their analysis they remark that Class I RNA appear to be unique to dictyostelid social amoebas, and they hypothesise that Class I RNAs were involved in evolution of multicellularity in Dictyostelia. class_I_RNA; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 112 40 0 0 Gene; Published; PMID:33479022; 8 0 \N 0.57737 -5.84391 1600000 506393 510 61 1 -2.75010 0.72543 2013-10-04 02:33:31 2021-07-05 13:43:57 RF01415 Flavivirus_SLIV 1467 Flavivirus 3'UTR stem loop IV Osuch I INFERNAL 38.60 38.60 38.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 20 97 0 0 Cis-reg; Published; PMID:19064258 17 0 \N 0.46660 -9.79371 1600000 366811 159 75 1 -3.32430 0.71898 2013-10-04 02:33:33 2021-07-05 13:43:57 RF01416 NrrF 2069 NrrF RNA Osuch I INFERNAL 60.00 67.40 43.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 6 0 0 Gene; antisense; Published; PMID:17351036 8 0 \N 0.54930 -9.02327 1600000 354035 282 160 1 -3.25980 0.71715 2013-10-04 02:33:35 2019-01-10 15:16:02 RF01417 RSV_RNA 2070 Retroviral 3'UTR stability element Osuch I INFERNAL 105.00 106.00 104.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 71 0 0 Cis-reg; Published; PMID:19091866 12 0 \N 0.73787 -8.23018 1600000 384427 438 289 1 -3.70740 0.70639 2013-10-04 02:33:37 2019-01-04 15:01:52 RF01418 HIV_POL-1_SL 2071 HIV pol-1 stem loop Osuch I INFERNAL 54.00 54.00 53.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 29 19 0 0 Cis-reg; Published; PMID:18974280 12 0 \N 0.59873 -4.66215 1600000 228486 212 113 1 -3.30790 0.71842 2013-10-04 02:34:22 2019-01-04 15:01:52 RF01419 IsrR 2072 Antisense RNA which regulates isiA expression Osuch I Predicted; MAFFT 52.00 52.00 51.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 308 1126 0 0 Gene; antisense; Predicted; PFOLD; Osuch I 408 0 \N 0.54041 -11.41194 1600000 687312 328 187 1 -3.23050 0.71345 2013-10-04 02:35:15 2019-01-04 15:01:52 RF01420 snoR113 1264 Small nucleolar RNA snoR113 Osuch I INFERNAL 47.00 47.70 44.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 152 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold; Osuch I 69 0 \N 0.63475 -4.93652 1600000 271172 227 103 1 -3.36510 0.71827 2013-10-04 02:35:20 2019-01-04 15:01:52 RF01421 snoR114 1264 small nucleolar RNA snoR114 Osuch I INFERNAL 45.00 45.00 44.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20 -Z 549862.597050 CM SEQDB 24 482 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold; Osuch I 63 0 \N 0.58882 -4.99070 1600000 300056 169 87 1 -3.67200 0.71850 2013-10-04 02:35:22 2019-01-04 15:01:52 RF01422 snoR116 1264 small nucleolar RNA snoR116 Osuch I INFERNAL 47.00 48.30 39.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 90 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold; Osuch I 48 0 \N 0.60707 -4.17577 1600000 249368 180 86 1 -3.37350 0.71857 2013-10-04 02:35:37 2019-01-04 15:01:52 RF01423 snoR117 1264 small nucleolar RNA snoR117 Osuch I INFERNAL 42.00 43.60 41.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 152 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold; Osuch I 73 0 \N 0.64619 -4.48884 1600000 314522 168 80 1 -3.48920 0.71863 2013-10-04 02:35:39 2019-01-04 15:01:52 RF01424 snoR118 1264 small nucleolar RNA snoR118 Osuch I INFERNAL 44.00 44.30 41.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 227 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 75 0 \N 0.51656 -9.75958 1600000 302247 180 92 0 -3.41750 0.71838 2013-10-04 02:35:41 2021-07-05 13:43:57 RF01425 snoR121 1264 small nucleolar RNA snoR121 Osuch I INFERNAL 50.00 54.30 42.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 14 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold; Osuch I 8 0 \N 0.60730 -4.21683 1600000 264232 184 88 1 -3.16700 0.71836 2013-10-04 02:35:42 2019-01-04 15:01:52 RF01426 snoR126 1264 small nucleolar RNA snoR126 Osuch I INFERNAL 39.00 39.20 37.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 169 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold; Osuch I 73 0 \N 0.56911 -5.20811 1600000 282741 199 101 1 -2.96300 0.71835 2013-10-04 02:35:44 2019-01-04 15:01:52 RF01427 snoR127 1264 small nucleolar RNA snoR127 Osuch I INFFERNAL 37.00 37.40 36.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 92 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold; Osuch I 57 0 \N 0.56138 -6.55238 1600000 281685 254 139 1 -2.99330 0.71790 2013-10-04 02:35:46 2019-01-04 15:01:52 RF01428 snoR128 1264 small nucleolar RNA snoR128 Osuch I INFERNAL 40.00 40.90 38.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 5 215 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold; Osuch I 69 0 \N 0.51029 -3.89844 1600000 230867 186 91 1 -2.93790 0.71844 2013-10-04 02:35:49 2019-01-04 15:01:52 RF01429 snoR130 1264 small nucleolar RNA snoR130 Osuch I INFERNAL 40.00 41.80 38.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 32 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAalifold; Osuch I 16 0 \N 0.55247 -5.77217 1600000 258113 229 120 1 -2.87450 0.71824 2013-10-04 02:35:51 2019-01-04 15:01:52 RF01430 snoR134 1264 small nucleolar RNA snoR134 Osuch I INFERNAL 40.00 40.50 35.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 278 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Osuch I 76 0 \N 0.58090 -7.47660 1600000 241199 261 149 1 -3.35050 0.71807 2013-10-04 02:35:53 2019-01-04 15:01:52 RF01431 snoR135 1264 small nucleolar RNA snoR135 Osuch I INFERNAL 45.00 45.40 44.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 278 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 75 0 \N 0.55610 -8.16228 1600000 261686 257 143 1 -3.09470 0.71818 2013-10-04 02:35:54 2019-01-04 15:01:52 RF01432 snoR143 1264 small nucleolar RNA snoR143 Osuch I INFERNAL 50.00 50.50 49.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 217 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 75 0 \N 0.53525 -7.30984 1600000 228841 288 169 1 -3.19800 0.71582 2013-10-04 02:35:56 2019-01-04 15:01:52 RF01433 snoR137 1264 small nucleolar RNA snoR137 Osuch I INFERNAL 44.00 44.10 42.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 252 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 73 0 \N 0.51305 -7.97321 1600000 291054 268 146 1 -2.88350 0.71799 2013-10-04 02:35:57 2019-01-04 15:01:52 RF01434 S_pombe_snR3 1264 small nucleolar RNA snR3 Osuch I INFERNAL 100.00 128.30 33.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Osuch I 3 0 \N 0.56115 -7.80586 1600000 283365 288 167 1 -3.12960 0.71611 2013-10-04 02:35:59 2019-01-04 15:01:52 RF01435 S_pombe_snR5 1264 small nucleolar RNA snR5 Osuch I INFERNAL 80.00 97.90 39.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Osuch I 3 0 \N 0.51368 -7.84215 1600000 247292 258 143 1 -3.02880 0.71815 2013-10-04 02:36:01 2019-01-04 15:01:52 RF01436 S_pombe_snR33 1264 small nucleolar RNA snR33 Osuch I INFERNAL 80.00 91.20 41.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Osuch I 3 0 \N 0.49547 -7.02663 1600000 215975 259 145 1 -3.01130 0.71805 2013-02-01 11:58:44 2019-01-04 15:01:52 RF01437 S_pombe_snR10 1264 small nucleolar RNA snR10 Osuch I INFERNAL 50.00 58.40 40.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Osuch I 3 0 \N 0.45208 -8.18738 1600000 302646 292 167 1 -2.75370 0.71612 2013-10-04 02:36:04 2019-01-04 15:01:52 RF01438 S_pombe_snR35 1264 small nucleolar RNA snR35 Osuch I INFERNAL 35.00 35.00 34.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 27 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Osuch I 24 0 \N 0.59998 -8.29095 1600000 319194 295 172 1 -3.23380 0.71534 2013-10-04 02:36:05 2019-01-04 15:01:52 RF01439 S_pombe_snR36 1264 small nucleolar RNA snR36 Osuch I INFERNAL 50.00 58.40 43.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Osuch I 3 0 \N 0.53557 -8.51895 1600000 348476 289 164 1 -3.12430 0.71645 2013-10-04 02:36:07 2019-01-04 15:01:52 RF01440 S_pombe_snR42 1264 small nucleolar RNA snR42 Osuch I INFERNAL 90.00 142.70 34.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.69 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Osuch I 3 0 \N 0.49052 -9.75361 1600000 275460 338 208 1 -3.29440 0.71147 2013-10-04 02:36:08 2019-01-04 15:01:52 RF01441 S_pombe_snR46 1264 small nulceolar RNA snR46 Osuch I INFERNAL 60.00 67.30 43.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Osuch I 2 0 \N 0.49515 -8.52303 1600000 302608 294 168 1 -2.97570 0.71592 2013-10-04 02:36:10 2019-01-04 15:01:52 RF01442 S_pombe_snR90 1264 small nucleolar RNA snR90 Osuch I INFERNAL 80.00 102.40 40.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 3 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Osuch I 3 0 \N 0.45834 -9.00434 1600000 348195 277 158 1 -3.08450 0.71734 2013-10-04 02:36:11 2019-01-04 15:01:52 RF01443 S_pombe_snR91 1264 small nucleolar RNA snR91 Osuch I INFERNAL 50.00 71.20 41.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.64 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Osuch I 2 0 \N 0.52220 -7.58671 1600000 283411 263 144 1 -2.89190 0.71807 2013-10-04 02:36:12 2019-01-04 15:01:52 RF01444 S_pombe_snR92 1264 small nucleolar RNA snR92 Osuch I INFERNAL 80.00 84.30 38.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 3 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Osuch I 3 0 \N 0.57140 -6.99058 1600000 227604 257 144 1 -3.28100 0.71807 2013-10-04 02:36:14 2019-01-04 15:01:52 RF01445 S_pombe_snR94 1264 small nucleolar RNA snR94 Osuch I INFERNAL 100.00 159.20 37.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 3 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Osuch I 3 0 \N 0.47896 -10.49396 1600000 413793 341 210 1 -3.41010 0.71147 2013-10-04 02:36:15 2019-01-04 15:01:52 RF01446 S_pombe_snR95 1264 small nucleolar RNA snR95 Osuch I INFERNAL 60.00 80.40 34.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Osuch I 2 0 \N 0.53511 -9.42746 1600000 307730 361 222 1 -3.28840 0.71045 2013-10-04 02:36:17 2019-01-04 15:01:52 RF01447 S_pombe_snR98 1264 small nucleolar RNA snR98 Osuch I INFERNAL 40.00 41.30 33.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 3 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Osuch I 3 0 \N 0.61151 -8.70464 1600000 308959 349 212 1 -3.58640 0.71137 2013-10-04 02:36:18 2019-01-04 15:01:52 RF01448 S_pombe_snR93 1264 small nucleolar RNA snR93 Osuch I INFERNAL 45.00 46.00 40.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 2 0 \N 0.49209 -7.53249 1600000 265460 261 143 1 -3.15650 0.71799 2013-10-04 02:36:20 2019-01-04 15:01:52 RF01449 S_pombe_snR100 1264 small nucleolar RNA snR100 Osuch I INFERNAL 80.00 99.50 55.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 3 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Osuch I 3 0 \N 0.63782 -8.00032 1600000 308202 312 187 1 -3.47190 0.71393 2013-10-04 02:36:21 2019-01-04 15:01:52 RF01450 S_pombe_snR96 1264 small nucleolar RNA snR96 Osuch I INFERNAL 100.00 274.30 33.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Osuch I 1 0 \N 0.56953 -9.22527 1600000 352110 348 211 1 -3.05590 0.71129 2013-10-04 02:36:23 2019-01-04 15:01:52 RF01451 S_pombe_snR97 1264 small nucleolar RNA snR97 Osuch I INFERNL 100.00 192.80 37.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; Osuch I 1 0 \N 0.50051 -7.51381 1600000 345187 268 148 1 -2.82500 0.71804 2013-10-04 02:36:24 2019-01-04 15:01:52 RF01452 S_pombe_snR99 1264 small nucleolar RNA snR99 Osuch I INFERNAL 90.00 167.60 46.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 6 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 3 0 \N 0.60789 -8.22005 1600000 323167 313 185 1 -3.38640 0.71384 2013-10-04 02:36:26 2019-01-04 15:01:52 RF01453 RCNMV_TE_DR1 2073 3'TE-DR1 translation enhancer element Osuch I INFERNAL 80.00 160.30 60.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Cis-reg; Published; PMID:19577782 2 0 \N 0.64425 -6.37650 1600000 240061 254 138 1 -3.16160 0.71820 2013-10-04 02:36:27 2019-01-04 15:01:52 RF01454 RCNMV_5UTR 2073 5'UTR enhancer element Osuch I INFERNAL 75.00 136.00 40.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Cis-reg; Published; PMID:19577782 2 0 \N 0.51929 -8.87780 1600000 385289 231 123 1 -3.34240 0.71827 2013-10-04 02:36:28 2019-01-04 15:01:52 RF01455 DPB 2074 Stem loopII regulatory element in POLB Osuch I INFERNAL 40.00 41.00 39.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24 -Z 549862.597050 CM SEQDB 19 56 0 0 Cis-reg; Published; PMID:17704138 41 0 \N 0.54799 -2.95940 1600000 155374 176 86 1 -3.78690 0.71865 2013-10-04 02:36:30 2019-01-04 15:01:52 RF01456 VrrA 2075 Vibrio regulatory RNA of OmpA Osuch I INFERNAL 50.00 54.80 42.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 32 0 0 Gene; antisense; Published; PMID:18681937 43 0 \N 0.49808 -8.78335 1600000 321677 251 140 1 -3.19700 0.71818 2013-10-04 02:36:36 2019-01-04 15:01:52 RF01457 rli22 1267 Listeria sRNA rli22 Osuch I INFERNAL 80.00 116.90 41.10 The UCCC motifs prevent ribosomal binding to oppA mRNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 1 0 0 Gene; sRNA; Predicted; RNAalifold 7 0 \N 0.48838 -8.35479 1600000 322973 217 111 1 -2.99540 0.71835 2013-10-04 02:36:38 2019-01-04 15:01:52 RF01458 rli23 1267 Listeria snRNA rli23 Osuch I INFERNAL 45.00 46.70 42.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22 -Z 549862.597050 CM SEQDB 7 45 0 0 Gene; antisense; Predicted; RNAalifold 30 0 \N 0.51969 -6.23236 1600000 242171 194 98 1 -3.31340 0.71863 2013-10-04 02:36:39 2019-01-04 15:01:52 RF01459 rliE 1267 Listeria sRNA rliE Osuch I INFERNAL 90.00 119.50 51.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.48 -Z 549862.597050 CM SEQDB 4 1 0 0 Gene; sRNA; Predicted; WAR 5 0 \N 0.45877 -11.00955 1600000 340322 356 222 1 -3.20870 0.71033 2013-10-04 02:36:42 2019-01-04 15:01:52 RF01460 rliH 1267 Listeria sRNA rliH Osuch I INFERNAL 100.00 151.70 37.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 17.56 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; WAR 4 0 \N 0.72750 -8.13179 1600000 382156 607 429 1 -4.31110 0.70212 2013-10-04 02:36:44 2019-01-04 15:01:52 RF01461 rli24 1267 Listeria sRNA rli22 Osuch I INFERNAL 100.00 143.70 48.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.73 -Z 549862.597050 CM SEQDB 6 1 0 0 Gene; sRNA; Predicted; RNAalifold 7 0 \N 0.52910 -8.06906 1600000 287925 280 158 1 -3.15980 0.71735 2013-10-04 02:36:45 2019-01-04 15:01:52 RF01462 rli26 1267 Listeria sRNA rli26 Osuch I INFERNAL 100.00 197.30 41.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.42 -Z 549862.597050 CM SEQDB 5 1 0 0 Gene; sRNA; Predicted; RNAalifold 6 0 \N 0.47425 -9.76855 1600000 342983 317 188 1 -2.96920 0.71346 2013-10-04 02:36:47 2019-01-04 15:01:52 RF01463 rli27 1267 Listeria sRNA rli27 Osuch I INFERNAL 55.00 56.50 41.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 38.00 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; RNAalifold 4 0 \N 0.41475 -5.19686 1600000 300096 200 99 1 -3.02120 0.71836 2013-10-04 02:36:48 2019-01-04 15:01:52 RF01464 rliA 1267 Listeria sRNA rliA Osuch I INFERNAL 50.00 50.10 47.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 3 0 0 Gene; sRNA; Predicted; RNAalifold 6 0 \N 0.56244 -8.62877 1600000 353765 362 224 1 -3.61010 0.71025 2013-10-04 02:36:50 2019-01-04 15:01:52 RF01465 rli31 1267 Listeria sRNA rli31 Osuch I INFERNAL 80.00 81.80 62.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; RNAalifold 4 0 \N 0.53945 -4.18613 1600000 245307 221 115 1 -2.87130 0.71836 2013-10-04 02:36:51 2019-01-04 15:01:52 RF01466 rli34 1267 Listeria sRNA rli34 Osuch I INFERNAL 48.00 48.30 46.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 3 0 0 Gene; sRNA; Predicted;RNAalifold 7 0 \N 0.43538 -5.68078 1600000 328847 176 84 1 -3.12880 0.71861 2013-02-01 11:58:46 2019-01-04 15:01:52 RF01467 rli36 1267 Listeria sRNA rli36 Osuch I INFERNAL 50.00 52.00 40.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27 -Z 549862.597050 CM SEQDB 6 1 0 0 Gene; sRNA; Predicted; RNAalifold 7 0 \N 0.50842 -7.87160 1600000 376288 178 84 1 -3.30390 0.71878 2013-10-04 02:37:46 2019-01-04 15:01:52 RF01468 rli32 1267 Listeria sRNA rli32 Osuch I INFERNAL 100.00 109.50 48.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 1 0 0 Gene; sRNA; Predicted;RNAalifold 6 0 \N 0.56709 -9.01479 1600000 399297 264 147 1 -3.20390 0.71817 2013-10-04 02:37:48 2019-01-04 15:01:52 RF01469 rli33 1267 Listeria sRNA rli33 Osuch I INFERNAL 46.00 47.80 44.50 The UCCC motifs prevent ribosomal binding to oppA mRNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 15 -Z 549862.597050 CM SEQDB 3 3 0 0 Gene; sRNA; Predicted; RNAalifold 5 0 \N 0.71539 -8.29328 1600000 398465 728 532 1 -4.46310 0.70036 2013-10-04 02:37:49 2019-01-04 15:01:52 RF01470 rli38 1267 Listeria sRNA rli38 Osuch I INFERNAL 49.00 49.20 48.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25 -Z 549862.597050 CM SEQDB 20 80 0 0 Gene; sRNA; Predicted; RNAalifold 84 0 \N 0.43958 -8.64504 1600000 313772 251 150 1 -3.01460 0.71822 2013-10-04 02:37:52 2019-01-04 15:01:52 RF01471 rliB 1267 Listeria sRNA rliB Osuch I INFERNAL 40.00 41.50 37.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 5 0 0 Gene; sRNA; Predicted; RNAalifold 7 0 \N 0.54272 -10.87738 1600000 577502 517 360 1 -3.60570 0.70372 2013-10-04 02:38:02 2019-01-04 15:01:52 RF01472 rli40 1267 Listeria sRNA rli40 Osuch I INFERNAL 100.00 207.10 44.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 1 0 0 Gene; sRNA; Predicted; RNAalifold 5 0 \N 0.65202 -8.73657 1600000 415662 408 263 1 -3.82980 0.70783 2013-10-04 02:38:04 2019-01-04 15:01:52 RF01473 rli41 1267 Listeria sRNA rli41 Osuch I INFERNAL 55.00 58.30 35.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 5 0 0 Gene; sRNA; Predicted; RNAalifold 11 0 \N 0.56644 -9.15474 1600000 337883 683 494 1 -4.18100 0.70092 2013-10-04 02:38:05 2019-01-04 15:01:52 RF01474 rli42 1267 Listeia sRNA rli42 Osuch I INFERNAL 80.00 147.90 49.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20 -Z 549862.597050 CM SEQDB 4 1 0 0 Gene; sRNA; Predicted; RNAalifold 5 0 \N 0.60595 -8.40878 1600000 400553 296 171 1 -3.26000 0.71559 2013-10-04 02:38:07 2019-01-04 15:01:52 RF01475 rli45 1267 Listeria snRNA rli45 Osuch I INFERNAL 60.00 89.80 39.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 1 0 0 Gene; antisense; Predicted;RNAalifold 7 0 \N 0.59206 -3.20074 1600000 286263 168 78 1 -3.30660 0.71875 2013-10-04 02:38:08 2019-01-04 15:01:52 RF01476 rliF 1267 Listeria sRNA rliF Osuch I INFERNAL 60.00 63.20 52.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 4 0 0 Gene; sRNA; Predicted; WAR 8 0 \N 0.48690 -9.77496 1600000 363690 350 220 1 -3.31570 0.71064 2013-10-04 02:38:10 2019-01-04 15:01:52 RF01477 rli43 1267 Listeria sRNA rli43 Osuch I INFERNAL 100.00 191.80 98.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 1 0 0 Gene; sRNA; Predicted; RNAalifold 5 0 \N 0.63721 -8.83283 1600000 426339 400 255 1 -3.54610 0.70825 2013-10-04 02:38:11 2019-01-04 15:01:52 RF01478 rli47 1267 Listeria sRNA rli47 Osuch I INFERNAL 200.00 413.00 36.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 1 0 0 Gene; sRNA; Predicted;RNAalifold 10 0 \N 0.69519 -8.64467 1600000 384036 701 508 1 -4.55440 0.70071 2013-10-04 02:38:13 2019-01-04 15:01:52 RF01479 rli48 1267 Listeria sRNA rli48 Osuch I INFERNAL 100.00 169.50 52.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 4 0 0 Gene; sRNA; Predicted;RNaalfold 7 0 \N 0.57825 -3.99794 1600000 208451 267 149 1 -3.24180 0.71811 2013-10-04 02:38:14 2019-01-04 15:01:52 RF01480 rli52 1267 Listeria sRNA rli52 Osuch I INFERNAL 70.00 72.90 49.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 1 0 0 Cis-reg; Predicted; RNAalifold 7 0 \N 0.48110 -7.32348 1600000 335856 194 95 1 -3.42070 0.71865 2013-10-04 02:38:16 2019-01-04 15:01:52 RF01481 rli53 1267 Listeria sRNA rli53 Osuch I INFERNAL 70.00 74.80 37.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 1 0 0 Cis-reg; Predicted; RNAalifold 6 0 \N 0.58155 -6.77653 1600000 275080 299 173 1 -3.33950 0.71528 2013-10-04 02:38:17 2019-01-04 15:01:52 RF01482 AdoCbl_riboswitch 1456 AdoCbl riboswitch Osuch I INFERNAL 50.00 50.00 49.90 \N rli55 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 168 0 0 Cis-reg; riboswitch; Published; PMID:19246383 164 0 \N 0.53664 -7.92363 1600000 324226 258 149 1 -3.53050 0.71814 2013-10-04 02:38:19 2022-10-29 16:55:16 RF01483 rli56 1267 Listeria sRNA rli56 Osuch I INFERNAL 47.00 49.20 41.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 1 0 0 Cis-reg; Predicted;RNAalifold 7 0 \N 0.53980 -4.99305 1600000 254650 202 100 1 -3.35730 0.71864 2013-02-01 11:58:50 2019-01-04 15:01:52 RF01484 rli59 1267 Listeria sRNA rli59 Osuch I INFERNAL 100.00 150.80 44.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 1 0 0 Cis-reg; Predicted; WAR; cmfinder 6 0 \N 0.49511 -8.09811 1600000 330398 309 181 1 -2.92190 0.71428 2013-10-04 02:38:23 2019-01-04 15:01:52 RF01485 rli61 1267 Listeria sRNA rli61 Osuch I INFERNAL 50.00 50.40 49.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 9 0 0 Cis-reg; Predicted; RNAalifold 13 0 \N 0.53665 -6.53851 1600000 231340 210 106 1 -3.38870 0.71848 2013-10-04 02:38:24 2019-01-04 15:01:52 RF01486 rli62 1267 Listeria sRNA rli62 Osuch I INFERNAL 83.00 102.40 82.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.97 -Z 549862.597050 CM SEQDB 2 5 0 0 Cis-reg; Predicted;RNAalifold 7 0 \N 0.53208 -8.41206 1600000 336669 244 134 1 -3.14170 0.71816 2013-10-04 02:38:25 2019-01-04 15:01:52 RF01487 rliI 1267 Listeria sRNA rliI Osuch I INFERNAL 45.00 48.50 38.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 7 0 0 Gene; sRNA; Predicted;RNAalifold 12 0 \N 0.69165 -7.61417 1600000 361126 382 239 1 -3.62630 0.70929 2013-10-04 02:38:27 2019-01-04 15:01:52 RF01488 rli49 1267 Listeria sRNA rli49 Osuch I INFERNAL 40.00 46.20 39.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 1 0 0 Gene; sRNA; Predicted; RNAalifold 6 0 \N 0.50915 -9.87066 1600000 442202 286 163 1 -3.15740 0.71653 2013-10-04 02:38:29 2019-01-04 15:01:52 RF01489 sbrA 1267 Listeria sRNA sbrA Osuch I INFERNAL 45.00 50.70 37.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 30 0 0 Gene; sRNA; Predicted; WAR 35 0 \N 0.61236 -5.55983 1600000 308863 158 71 1 -3.39090 0.71899 2013-10-04 02:38:30 2019-01-04 15:01:52 RF01490 rli51 1267 Listeria snRNA rli51 Osuch I INFERNAL 48.00 48.50 46.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 3 0 0 Cis-reg; Predicted; RNAalifold 5 0 \N 0.54994 -5.35749 1600000 284407 228 121 1 -3.06850 0.71830 2013-10-04 02:38:31 2019-01-04 15:01:52 RF01491 rli54 1267 Listeria sRNA rli54 Osuch I INFERNAL 80.00 103.00 36.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 4 0 0 Cis-reg; Predicted;RNAalifold 9 0 \N 0.68389 -8.07540 1600000 337037 724 528 1 -4.22780 0.70040 2013-10-04 02:38:33 2019-01-04 15:01:52 RF01492 rli28 1267 Listeria sRNA rli28 Osuch I INFERNAL 45.00 45.00 44.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 21 397 0 0 Gene; sRNA; Predicted; RNAalifold 186 0 \N 0.37855 -13.72784 1600000 463710 292 186 1 -3.39500 0.71366 2013-10-04 02:38:35 2019-01-04 15:01:52 RF01493 rli37 1267 Listeria sRNA rli37 Osuch I INFERNAL 90.00 156.30 44.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 1 0 0 Gene; sRNA; Predicted; RNAalifold 5 0 \N 0.53843 -10.42392 1600000 468119 390 247 1 -3.38550 0.70862 2013-10-04 02:38:37 2019-01-04 15:01:52 RF01494 rliD 1267 Listeria sRNA rliD Osuch I, Daub J INFERNAL 50.00 50.10 49.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 88 0 0 Gene; antisense; Predicted; RNAalifold 97 0 \N 0.71751 -7.89356 1600000 376884 487 327 1 -4.11910 0.70481 2013-10-04 02:38:39 2019-01-04 15:01:52 RF01495 ACAT 2077 Human acetyl-coA cholesterol acyltransferase mRNA Osuch I, Daub J INFERNAL 37.00 37.20 36.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20 -Z 549862.597050 CM SEQDB 8 30 0 0 Cis-reg; Published; PMID:18542101 24 0 \N 0.57290 -8.63033 1600000 338253 272 147 1 -3.05900 0.71808 2013-10-04 02:38:41 2019-01-04 15:01:52 RF01496 Afu_182 2078 A. fumigatus sRNA Afu_182 Osuch I, Daub J INFERNAL 65.00 69.40 63.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 19 280 0 0 Gene; sRNA; Predicted; clustal_alifold; 269 0 \N 0.50627 -10.38837 1600000 344648 322 196 1 -3.08550 0.71269 2013-10-04 02:38:43 2019-01-04 15:01:52 RF01497 ALIL 2079 ALIL pseudoknot Osuch I INFERNAL 50.00 50.00 49.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 26 1389 0 0 Cis-reg; Published; PMID:18474594 668 0 \N 0.68353 -8.30130 1600000 438520 214 117 1 -3.34650 0.71834 2013-10-04 02:38:45 2019-01-04 15:01:52 RF01498 Afu_190 1264 A. fumigatus snoRNA Afu_190 Osuch I INFERNAL 35.00 35.00 34.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 3 273 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 263 0 \N 0.54837 -9.92190 1600000 405780 192 100 0 -3.56360 0.71826 2013-10-04 02:38:50 2019-01-04 15:01:52 RF01499 Afu_191 1264 A. fumigatus snoRNA Afu_191 Osuch I INFERNAL 60.00 70.40 47.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 86 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 87 0 \N 0.46749 -9.52981 1600000 263410 187 93 0 -3.09610 0.71839 2013-10-04 02:38:52 2019-01-04 15:01:52 RF01500 Afu_198 1264 A. fumigatus snoRNA Afu_198 Osuch I INFERNAL 40.00 40.80 37.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 117 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 116 0 \N 0.50400 -10.33255 1600000 220983 253 149 0 -3.43690 0.71776 2013-10-04 02:38:54 2019-01-04 15:01:52 RF01501 Afu_199 1264 A. fimigatus snoRNA Afu_199 Osuch I INFERNAL 45.00 50.40 39.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 98 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 99 0 \N 0.51424 -8.72618 1600000 294651 162 77 0 -3.52140 0.71859 2013-10-04 02:38:55 2019-01-04 15:01:52 RF01502 Fungi_SRP 1315 Fungal signal recognition particle RNA Gardner PP Published; PMID:19838050 65.00 65.60 64.80 \N Afu_202; SRP_euk_arch; SCR1; Afu_202 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.99 -Z 549862.597050 CM SEQDB 50 330 0 0 Gene; Published; PMID:19838050 344 0 \N 0.58808 -11.31913 1600000 518713 1499 314 1 -4.33730 0.70558 2013-10-04 02:38:57 2021-07-05 13:43:57 RF01503 Afu_203 2078 A. fumigatus sRNA Afu_203 Osuch I INFERNAL 37.00 37.10 33.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 8 0 0 Gene; sRNA; Predicted; WAR; Clustal_alifold; 9 0 \N 0.54164 -6.64895 1600000 222941 217 111 1 -3.31460 0.71847 2013-10-04 02:38:59 2019-01-04 15:01:52 RF01504 Afu_254 2078 A. fumigatus sRNA Afu_254 Osuch I INFERNAL 60.00 64.70 57.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 105 0 0 Gene; sRNA; Predicted; WAR; Mafft_alifold; 77 0 \N 0.49181 -9.95702 1600000 539257 268 158 1 -3.41960 0.71723 2013-10-04 02:39:00 2019-01-04 15:01:52 RF01505 Afu_264 1264 A. fumigatus snoRNA Afu_264 Osuch I INFERNAL 40.00 41.50 39.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 247 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 244 0 \N 0.55041 -8.07566 1600000 298995 195 103 0 -3.37100 0.71824 2013-10-04 02:39:03 2019-01-04 15:01:52 RF01506 Afu_294 1264 A. fumigatus snoRNA Afu_294 Osuch I INFERNAL 43.00 43.80 42.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 181 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I; 178 0 \N 0.54814 -8.32685 1600000 291661 165 83 0 -3.42920 0.71852 2013-10-04 02:39:04 2019-01-04 15:01:52 RF01507 Afu_298 2078 A. fimigatus snoRNA Afu_298 Osuch I INFERNAL 40.00 40.80 38.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 163 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 148 0 \N 0.41845 -10.33361 1600000 293837 187 93 0 -3.24770 0.71840 2013-10-04 02:39:06 2019-01-04 15:01:52 RF01508 BYDV_5_UTR 2080 Barley yellow dwarf virus 5'UTR Osuch I INFERNAL 75.00 99.90 32.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 4 0 0 Cis-reg; Published; PMID:11389856 6 0 \N 0.61278 -8.48203 1600000 353402 265 149 1 -3.12000 0.71811 2013-10-04 02:39:07 2019-01-04 15:01:52 RF01509 Afu_300 1264 A. fumigatus snoRNA Afu_300 Osuch I INFERNAL 40.00 44.70 39.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 260 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 257 0 \N 0.54732 -7.91300 1600000 307121 178 92 0 -3.46830 0.71837 2013-10-04 02:39:09 2019-01-04 15:01:52 RF01510 MFR 2081 M. florum riboswitch Osuch I, Eberhardt R INFERNAL 82.70 82.70 81.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 2 0 0 Cis-reg; riboswitch; Published; PMID:17911257 1 0 \N 0.61205 -3.49701 1600000 266521 146 63 1 -3.16580 0.72275 2013-10-04 02:39:11 2020-09-14 14:04:54 RF01511 Afu_304 1264 A. fumigatus snoRNA Afu_304 Osuch I INFERNAL 35.00 35.20 34.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 255 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 241 0 \N 0.48673 -10.12195 1600000 271232 203 107 0 -3.19110 0.71820 2013-10-04 02:39:12 2019-01-04 15:01:52 RF01512 Afu_309 2078 A. fumigatus sRNA Afu_309 Osuch I INFERNAL 48.00 49.20 45.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 273 0 0 Gene; sRNA; Predicted; WAR; Clustal_alifold; 266 0 \N 0.70376 -8.49498 1600000 373878 549 322 1 -4.20030 0.70511 2013-10-04 02:39:13 2019-01-04 15:01:52 RF01513 Afu_335 1264 A. fumigatus snoRNA Afu_335 Osuch I INFERNAL 50.00 56.30 39.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26 -Z 549862.597050 CM SEQDB 5 281 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 267 0 \N 0.48170 -10.05979 1600000 263554 188 96 0 -3.49610 0.71829 2013-10-04 02:39:15 2019-01-04 15:01:52 RF01514 Afu_513 1264 A. fumigatus snoRNA Afu_513 Osuch I INFERNAL 48.00 49.80 42.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 277 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 272 0 \N 0.57292 -9.56449 1600000 308904 197 103 0 -3.36570 0.71823 2013-10-04 02:39:17 2019-01-04 15:01:52 RF01515 Afu_514 1264 A. fumigatus snoRNA Afu_514 Osuch I INFERNAL 39.00 39.70 32.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 268 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 266 0 \N 0.52060 -9.81935 1600000 336282 201 106 0 -3.23740 0.71822 2013-10-04 02:39:19 2019-01-04 15:01:52 RF01516 v-snoRNA-1 2476 Human herpesvirus 1 small nucleolar RNA Osuch I INFERNAL 75.00 85.10 33.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 3 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 2 0 \N 0.54393 -9.04729 1600000 329549 151 65 0 -3.13730 0.72681 2013-10-04 02:39:20 2019-01-04 15:01:52 RF01517 iscRS 2083 iscR stability element Osuch I INFERNAL 40.00 43.40 35.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 36 0 0 Cis-reg; Published; PMID:19407815 39 0 \N 0.70017 -3.63988 1600000 218269 214 110 1 -3.50130 0.71849 2013-10-04 02:39:22 2019-01-04 15:01:52 RF01518 pRNA 2084 NoRC associated RNA, pRNA Osuch I INFERNAL 34.00 34.00 33.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 23 92 0 0 Gene; Published; PMID:18600236 42 0 \N 0.62441 -4.18099 1600000 230577 175 90 1 -2.98520 0.71889 2013-10-04 02:39:24 2019-01-10 15:16:02 RF01519 CC0196 2085 Caulobacter sRNA CC0196 Osuch I INFERNAL 35.00 35.40 34.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 14 0 0 Gene; sRNA; Predicted; RNAalifold; 15 0 \N 0.61060 -8.32844 1600000 446857 144 58 1 -3.24710 0.72658 2013-10-04 02:39:27 2019-01-04 15:01:52 RF01520 CC0734 2085 caulobacter sRNA CC0734 Osuch I INFERNAL 45.00 53.00 40.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 6 0 0 Gene; sRNA; Predicted;Mafft_pfold; 3 0 \N 0.55243 -5.28599 1600000 209351 194 95 1 -3.32230 0.71855 2013-10-04 02:39:29 2019-01-04 15:01:52 RF01521 CC1840 2085 caulobacter sRNA CC1840 Osuch I INFERNAL 50.00 60.40 40.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 10 0 0 Gene; sRNA; Predicted;Clustal_alifold; 11 0 \N 0.40161 -11.86634 1600000 316439 198 95 1 -3.11580 0.71873 2013-10-04 02:39:30 2019-01-04 15:01:52 RF01522 TB10Cs1H1 2410 Trypanosomatid snoRNA TB10Cs1H1 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 45.00 48.10 38.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 72 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 15 0 \N 0.62697 -4.48715 1600000 276962 158 71 1 -3.53220 0.71895 2013-10-04 02:39:31 2019-01-04 15:01:52 RF01523 TB10Cs1H2 2411 Trypanosomatid snoRNA TB10Cs1H2 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 50.00 69.60 35.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 34 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 15 0 \N 0.62603 -4.84762 1600000 333423 145 63 1 -3.35090 0.71923 2013-10-04 02:39:33 2019-01-04 15:01:52 RF01524 TB10Cs1H3 2411 Trypanosomatid snoRNA TB10cs1H3 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 50.00 70.30 47.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 34 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 15 0 \N 0.63234 -4.59942 1600000 203927 160 73 1 -3.39450 0.71900 2013-10-04 02:39:34 2019-01-04 15:01:52 RF01525 TB10Cs2H1 2411 Trypanosomatid snoRNA TB10Cs2H1 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 35.00 43.10 31.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 33 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 12 0 \N 0.59077 -5.85751 1600000 255213 149 66 1 -3.29180 0.71932 2013-10-04 02:39:36 2019-01-04 15:01:52 RF01526 ceN106 1264 C. elegans snoRNA ceN106 Osuch I INFERNAL 60.00 78.80 36.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.75 -Z 549862.597050 CM SEQDB 3 6 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 6 0 \N 0.62097 -4.64609 1600000 246719 169 77 1 -3.65660 0.71864 2013-10-04 02:39:37 2019-01-04 15:01:52 RF01527 CrfA 1236 Caulobacter sRNA CrfA Osuch I INFERNAL 38.00 38.40 36.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 33 0 0 Gene; sRNA; Predicted; Clustal_alifold; 32 0 \N 0.50233 -10.45067 1600000 359981 251 136 1 -3.02440 0.71834 2013-10-04 02:39:39 2019-01-04 15:01:52 RF01528 CC3513 2085 caulobacter sRNA CC3513 Osuch I INFERNAL 40.00 42.20 33.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 9 0 0 Gene; sRNA; Predicted; Mafft_alifold; 10 0 \N 0.49181 -10.70110 1600000 332139 299 173 1 -2.84060 0.71538 2013-10-04 02:39:40 2019-01-04 15:01:52 RF01529 CC3552 2085 Cauldobacter sRNA CC3552 Osuch I INFERNAL 50.00 71.70 40.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 26 0 0 Gene; sRNA; Predicted;RNAalifold; 27 0 \N 0.47141 -11.26164 1600000 465206 208 106 1 -3.38040 0.71864 2013-10-04 02:39:42 2019-01-04 15:01:52 RF01530 CC3664 2085 Caulobacter sRNA CC3664 Osuch I INFERNAL 60.00 63.50 46.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 2 14 0 0 Gene; sRNA; Predicted; Clustal_alifold; 14 0 \N 0.47004 -11.71801 1600000 465380 252 136 1 -2.96000 0.71848 2013-10-04 02:39:43 2019-01-04 15:01:52 RF01531 TB10Cs3H1 2411 Trypanosomatid snoRNA TB10Cs3H1 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 40.00 44.10 35.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 48 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 14 0 \N 0.58569 -5.72530 1600000 338074 147 62 1 -3.57730 0.71923 2013-10-04 02:39:45 2019-01-04 15:01:52 RF01532 TB10Cs3H2 2411 Trypanosomatid snoRNA TB10Cs3H2 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 45.00 50.20 34.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 48 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 13 0 \N 0.55699 -5.25538 1600000 200688 153 69 1 -3.04150 0.71908 2013-10-04 02:39:46 2019-01-04 15:01:52 RF01533 TB10Cs4H3 2411 Trypanosomatid snoRNA TB10Cs4H3 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 45.00 47.70 37.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 25 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 11 0 \N 0.59884 -5.41726 1600000 296559 152 67 1 -3.20700 0.72168 2013-10-04 02:39:48 2019-01-04 15:01:52 RF01534 TB10Cs4H4 2411 Trypanosomatid snoRNA TB10Cs4H4 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 50.00 68.50 45.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 16 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 7 0 \N 0.61963 -4.81361 1600000 326086 154 66 1 -3.02270 0.72858 2013-10-04 02:39:49 2019-01-04 15:01:52 RF01535 TB10Cs5H2 2411 Trypanosomatid snoRNA TB10Cs5H2 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 40.00 40.90 34.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 9 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 11 0 \N 0.64117 -5.05837 1600000 309934 163 78 1 -3.39700 0.71875 2013-10-04 02:39:51 2019-01-04 15:01:52 RF01536 TB10Cs5H3 2411 Trypanosomatid snoRNA TB10Cs5H3 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 45.00 46.00 40.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 7 17 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 15 0 \N 0.60637 -4.90872 1600000 290833 151 70 1 -3.38070 0.71892 2013-10-04 02:39:53 2019-01-04 15:01:52 RF01537 TB11Cs2H1 2411 Trypanosomatid snoRNA TB11Cs2H1 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 40.00 43.90 37.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 66 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 14 0 \N 0.62940 -3.60657 1600000 168436 152 70 1 -3.96180 0.71899 2013-10-04 02:39:56 2019-01-04 15:01:52 RF01538 TB11Cs3H1 2411 Trypanosomatid snoRNA TB11Cs3H1 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 50.00 58.20 49.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.48 -Z 549862.597050 CM SEQDB 4 27 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 15 0 \N 0.64000 -3.85820 1600000 218627 157 72 1 -3.57170 0.71895 2013-10-04 02:40:01 2019-01-04 15:01:52 RF01539 TB11Cs4H1 2411 Trypanosomatid snoRNA TB11Cs4H1 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 45.00 46.20 43.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 157 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 15 0 \N 0.59945 -4.66991 1600000 251364 157 72 1 -3.10260 0.71894 2013-10-04 02:40:03 2019-01-04 15:01:52 RF01540 TB11Cs4H2 2411 Trypanosomatid snoRNA TB11Cs4H2 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 50.00 55.30 37.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 6 155 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 13 0 \N 0.62282 -4.52723 1600000 300184 144 64 1 -3.65420 0.71912 2013-10-04 02:40:08 2019-01-04 15:01:52 RF01541 TB11Cs4H3 2411 Trypanosomatid snoRNA TB11Cs4H3 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 40.00 40.60 39.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 130 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 9 0 \N 0.57494 -5.94883 1600000 302974 162 74 1 -2.97830 0.71885 2013-10-04 02:40:10 2019-01-04 15:01:52 RF01542 TB11Cs5H1 2411 Trypanosomatid snoRNA TB11Cs5H1 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 45.00 48.30 32.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 14 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 7 0 \N 0.67172 -3.49198 1600000 227602 161 71 1 -3.08870 0.72757 2013-10-04 02:40:12 2019-01-04 15:01:52 RF01543 TB11Cs5H2 2411 Trypanosomatid snoRNA TB11Cs5H2 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 47.00 47.10 46.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 30 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 18 0 \N 0.66339 -4.41714 1600000 310740 150 68 1 -3.46960 0.71909 2013-02-01 11:58:51 2019-01-04 15:01:52 RF01544 TB11Cs5H3 2411 Trypanosomatid snoRNA TB11Cs5H3 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 50.00 52.10 36.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 5 11 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 9 0 \N 0.69365 -3.35569 1600000 272411 147 65 1 -3.87940 0.71925 2013-10-04 02:40:15 2019-01-04 15:01:52 RF01545 TB3Cs2H1 2411 Trypanosomatid snoRNA TB3Cs2H1 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 60.00 62.50 33.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 6 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 7 0 \N 0.58497 -5.35089 1600000 273986 158 69 1 -2.88630 0.72735 2013-10-04 02:40:17 2019-01-04 15:01:52 RF01546 TB6Cs1H1 2411 Trypanosomatid snoRNA TB6Cs1H1 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 40.00 63.20 36.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 99 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 19 0 \N 0.66514 -4.19309 1600000 273107 149 66 1 -3.66310 0.71911 2013-10-04 02:40:18 2019-01-04 15:01:52 RF01547 TB6Cs1H3 2411 Trypanosomatid snoRNA TB6Cs1H3 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 40.00 44.10 32.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 87 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 18 0 \N 0.62117 -5.18926 1600000 389886 146 64 1 -3.53540 0.71911 2013-10-04 02:40:20 2019-01-04 15:01:52 RF01548 TB6Cs1H4 2411 Trypanosomatid snoRNA TB6Cs1H4 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 60.00 70.90 34.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 69 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 16 0 \N 0.62334 -3.90497 1600000 249069 161 73 1 -3.70870 0.71887 2013-10-04 02:40:21 2019-01-04 15:01:52 RF01549 TB8Cs2H1 2411 Trypanosomatid snoRNA TB8Cs2H1 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 40.00 41.20 33.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 48 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 15 0 \N 0.60881 -5.90714 1600000 385127 141 65 1 -3.47520 0.71912 2013-10-04 02:40:23 2019-01-04 15:01:52 RF01550 TB8Cs3H1 2411 Trypanosomatid snoRNA TB8Cs3H1 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 45.00 56.00 31.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 44 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 17 0 \N 0.65631 -4.56504 1600000 289650 144 63 1 -3.62870 0.71915 2013-10-04 02:40:24 2019-01-04 15:01:52 RF01551 TB8Cs4H2 2411 Trypanosomatid snoRNA TB8Cs4H2 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 50.00 56.30 34.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 5 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 6 0 \N 0.62281 -4.66393 1600000 259887 160 70 1 -2.88480 0.72944 2013-10-04 02:40:26 2019-01-04 15:01:52 RF01552 TB9Cs1H2 2411 Trypanosomatid snoRNA TB9Cs1H2 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 35.00 42.00 32.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 52 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 17 0 \N 0.54347 -6.27438 1600000 224031 177 86 1 -3.00970 0.71856 2013-10-04 02:40:27 2019-01-04 15:01:52 RF01553 TB9Cs1H3 2411 Trypanosomatid snoRNA TB9Cs1H3 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 35.00 35.80 32.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 39 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 14 0 \N 0.65331 -4.67723 1600000 264584 149 65 1 -3.39260 0.72220 2013-10-04 02:40:29 2019-01-04 15:01:52 RF01554 TB9Cs2H1 2411 Trypanosomatid snoRNA TB9Cs2H1 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 45.00 70.40 33.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 57 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 19 0 \N 0.60191 -5.01636 1600000 281816 153 68 1 -3.25030 0.71909 2013-10-04 02:40:31 2019-01-04 15:01:52 RF01555 TB9Cs3H1 2411 Trypanosomatid snoRNA TB9Cs3H1 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 45.00 53.10 33.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 36 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 16 0 \N 0.60338 -4.39214 1600000 260986 148 68 1 -3.76610 0.71900 2013-10-04 02:40:32 2019-01-04 15:01:52 RF01556 TB9Cs3H2 2411 Trypanosomatid snoRNA TB9Cs3H2 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 50.00 51.10 35.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 30 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 14 0 \N 0.64684 -4.61645 1600000 317962 146 63 1 -3.38740 0.72305 2013-10-04 02:40:34 2019-01-04 15:01:52 RF01557 TB9Cs4H1 2411 Trypanosomatid snoRNA TB9Cs4H1 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 40.00 47.90 33.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 37 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 13 0 \N 0.60634 -4.80876 1600000 287917 144 62 1 -3.48390 0.71986 2013-10-04 02:40:35 2019-01-04 15:01:52 RF01558 TB9Cs4H2 2411 Trypanosomatid snoRNA TB9Cs4H2 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 50.00 51.10 38.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 46 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 15 0 \N 0.56884 -5.30142 1600000 244011 158 71 1 -3.00420 0.71894 2013-10-04 02:40:37 2019-01-04 15:01:52 RF01559 DdR1 1264 Dictyostelium snoRNA DdR1 Osuch I INFERNAL 70.00 80.80 43.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.91 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 3 0 \N 0.49615 -9.66560 1600000 364016 197 66 0 -3.15620 0.71882 2013-10-04 02:40:38 2019-01-04 15:01:52 RF01560 DdR10 1264 Dictyostelium snoRNA DdR10 Osuch I INFERNAL 48.00 49.90 43.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 40.08 -Z 549862.597050 CM SEQDB 4 5 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 7 0 \N 0.36998 -9.93336 1600000 315778 169 81 0 -2.94980 0.71857 2013-10-04 02:40:39 2019-01-04 15:01:52 RF01561 DdR11 1264 Dictyostelium snoRNA DdR11 Osuch I INFERNAL 65.00 80.70 40.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.03 -Z 549862.597050 CM SEQDB 3 5 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 3 0 \N 0.53684 -8.56883 1600000 339197 163 76 0 -3.31490 0.71861 2013-10-04 02:40:41 2019-01-04 15:01:52 RF01562 DdR12 1264 D. discoideum snoRNA DdR12 Osuch I INFERNAL 70.00 110.10 37.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 2 0 \N 0.40356 -9.95489 1600000 292918 164 75 0 -3.28300 0.71938 2013-10-04 02:40:42 2019-01-04 15:01:52 RF01563 DdR13 1264 Dictyostelium snoRNA DdR13 Osuch I INFERNAL 65.00 88.90 32.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.91 -Z 549862.597050 CM SEQDB 3 3 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 3 0 \N 0.54407 -9.26477 1600000 345648 168 80 0 -3.54970 0.71857 2013-10-04 02:40:44 2019-01-04 15:01:52 RF01564 DdR14 1264 D. discoideum snoRNA DdR14 Osuch I INFERNAL 80.00 95.10 37.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 2 0 \N 0.42292 -8.94398 1600000 338292 151 65 0 -3.10340 0.72377 2013-10-04 02:40:45 2019-01-04 15:01:52 RF01565 DdR15 1264 Dictyostelium snoRNA DdR15 Osuch I INFERNAL 70.00 118.00 40.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 35.57 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 3 0 \N 0.40025 -10.30812 1600000 274109 215 113 0 -3.08160 0.71816 2013-10-04 02:40:46 2019-01-04 15:01:52 RF01566 DdR16 1264 Dictyostelium snoRNA DdR16 Osuch I INFERNAL 70.00 73.80 40.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.02 -Z 549862.597050 CM SEQDB 4 5 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 5 0 \N 0.47461 -9.15904 1600000 346007 164 78 0 -3.27460 0.71862 2013-10-04 02:40:48 2019-01-04 15:01:52 RF01567 DdR17 1264 D. discoideum snoRNA DdR17 Osuch I INFERNAL 80.00 101.20 43.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 2 0 \N 0.40191 -7.60294 1600000 300516 157 70 0 -2.88290 0.72161 2013-10-04 02:40:49 2019-01-04 15:01:52 RF01568 DdR18 1264 Dictyostelium snoRNA DdR18 Osuch I INFERNAL 80.00 125.70 37.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.82 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; HACA-box; Published; PMID:15333696 3 0 \N 0.48715 -8.00266 1600000 291756 264 147 1 -3.02900 0.71808 2013-10-04 02:40:51 2019-01-04 15:01:52 RF01569 DdR2 1264 Dictyostelium snoRNA DdR2 Osuch I INFERNAL 80.00 101.50 42.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.74 -Z 549862.597050 CM SEQDB 3 3 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; 2 0 \N 0.43006 -10.07634 1600000 289364 173 83 0 -3.20540 0.71852 2013-10-04 02:40:52 2019-01-04 15:01:52 RF01570 Dictyostelium_SRP 1315 Dictyostelium signal recognition particle Osuch I INFERNAL 90.00 249.10 63.60 \N DdR20 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 17.33 -Z 549862.597050 CM SEQDB 3 4 0 0 Gene; snRNA; Published; PMID:15333696 3 0 \N 0.72024 -8.73335 1600000 414900 429 283 1 -3.56650 0.70675 2013-10-04 02:40:53 2019-01-04 15:01:52 RF01572 DdR4 1264 Dictyostelium snoRNA DdR4 Osuch I INFERNAL 70.00 122.60 38.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.68 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 3 0 \N 0.45593 -8.21610 1600000 230961 205 106 0 -3.26320 0.71822 2013-10-04 02:40:56 2019-01-04 15:01:52 RF01573 DdR5 1264 Dictyostelium snoRNA DdR5 Osuch I INFERNAL 70.00 107.30 39.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34.08 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; 3 0 \N 0.41720 -10.00938 1600000 283896 171 81 0 -3.40080 0.71857 2013-10-04 02:40:58 2019-01-04 15:01:52 RF01574 DdR6 1264 Dictyostelium snoRNA DdR6 Osuch I INFERNAL 90.00 103.00 37.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.47 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 3 0 \N 0.48672 -8.71098 1600000 342591 178 86 0 -3.31310 0.71848 2013-10-04 02:40:59 2019-01-04 15:01:52 RF01575 DdR7 1264 Dictyostelium snoRNA Dd7 Osuch I INFERNAL 80.00 109.90 34.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.31 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 3 0 \N 0.49151 -10.12289 1600000 284619 196 98 0 -3.49850 0.71832 2013-10-04 02:41:01 2019-01-04 15:01:52 RF01576 DdR8 1264 D. discoideum snoRNA DdR8 Osuch I INFERNAL 80.00 123.80 33.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 2 0 \N 0.49211 -9.50691 1600000 270928 182 88 0 -3.50000 0.71838 2013-10-04 02:41:02 2019-01-04 15:01:52 RF01577 RNase_P 2441 Plasmodium RNase_P Osuch I INFERNAL 100.00 155.90 91.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 22 0 0 Gene; ribozyme; Published; PMID:17901154 24 0 \N 0.46729 -11.01908 1600000 438291 837 626 1 -4.86000 0.69922 2013-10-04 02:41:03 2021-07-05 13:43:57 RF01578 RUF1 2087 Plasmodium RNA of unkown function RUF1 Osuch I INFERNAL 70.00 87.60 43.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.00 -Z 549862.597050 CM SEQDB 3 20 0 0 Gene; sRNA; Predicted; WAR; Clustal_alifold; 22 0 \N 0.52948 -9.77269 1600000 434035 410 264 1 -3.45530 0.70761 2013-10-04 02:41:07 2019-01-04 15:01:52 RF01579 RUF2 2088 Plasmodium RNA of unknown function RUF2 Osuch I INFERNAL 90.00 110.70 52.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 22 0 0 Gene; sRNA; Predicted; WAR; Clustal_alifold; 22 0 \N 0.48727 -6.54011 1600000 320486 285 154 1 -3.00090 0.71808 2013-10-04 02:41:12 2019-01-04 15:01:52 RF01580 RUF3 2089 Plasmodium RNA of unkown function RU6-F3 Osuch I INFERNAL 80.00 117.80 64.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 10 0 0 Gene; sRNA; Predicted; WAR; Clustal_alifold; 13 0 \N 0.40739 -9.93153 1600000 378997 316 187 1 -3.30210 0.71365 2013-10-04 02:41:14 2019-01-04 15:01:52 RF01581 RUF6-5 2089 Plasmodium RNA of unknown function RUF6-5 Osuch I INFERNAL 70.00 71.80 67.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 125 0 0 Gene; sRNA; Predicted; WAR; Clustal_alifold; 20 0 \N 0.58935 -5.76987 1600000 300950 272 156 1 -3.15610 0.71783 2013-10-04 02:41:15 2019-01-04 15:01:52 RF01582 RUF4 2090 RNA of unknown function RUF4 Osuch I INFERNAL 55.00 55.40 53.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 15 0 0 Gene; sRNA; Predicted; WAR; Clustal_alifold; 16 0 \N 0.53454 -9.52905 1600000 357727 427 277 1 -3.63570 0.70700 2013-10-04 02:41:18 2019-01-04 15:01:52 RF01583 snoR01 1264 small nucleolar RNA snoR01 Osuch I INFERNAL 55.00 63.10 46.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 22 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR; Clustal_alifold; 23 0 \N 0.41397 -5.07327 1600000 209140 174 83 1 -3.21680 0.71856 2013-10-04 02:41:19 2019-01-04 15:01:52 RF01584 snoR03 1264 small nucleolar RNA snoR03 Osuch I INFERNAL 80.00 116.20 52.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34 -Z 549862.597050 CM SEQDB 2 9 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 10 0 \N 0.42986 -7.72088 1600000 298118 280 160 1 -2.86170 0.71711 2013-10-04 02:41:21 2019-01-04 15:01:52 RF01585 snoR07 1264 small nucleolar RNA snoR07 Osuch I INFERNAL 44.00 46.90 39.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 4 24 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 24 0 \N 0.54907 -3.62667 1600000 279855 183 88 1 -2.73240 0.71849 2013-10-04 02:41:22 2019-01-04 15:01:52 RF01586 snoR09 1264 small nucleolar RNA snoR09 Osuch I INFERNAL 50.00 68.10 42.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 17 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 18 0 \N 0.50873 -4.17264 1600000 252694 182 84 1 -3.34770 0.71851 2013-10-04 02:41:25 2019-01-04 15:01:52 RF01587 snoR10 1264 small nucleolar RNA snoR10 Osuch I INFERNAL 65.00 83.10 41.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 24 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 25 0 \N 0.47865 -3.58172 1600000 244042 165 76 1 -3.37490 0.71867 2013-10-04 02:41:26 2019-01-04 15:01:52 RF01588 snoR13 1264 small nucleolar RNA snoR13 Osuch I INFERNAL 60.00 77.90 38.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 48 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 23 0 \N 0.50886 -4.24067 1600000 206754 206 105 1 -3.01070 0.71822 2013-02-01 11:58:52 2019-01-04 15:01:52 RF01589 plasmodium_snoR11 1264 small nucleolar RNA snoR11 Osuch I INFERNAL 80.00 161.30 58.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 9 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 10 0 \N 0.46704 -8.88405 1600000 362871 341 207 1 -3.31240 0.71166 2013-10-04 02:41:30 2019-01-04 15:01:52 RF01590 plasmodium_snoR14 1264 small nucleolar RNA snoR14 Osuch I INFERNAL 90.00 114.60 46.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 35.15 -Z 549862.597050 CM SEQDB 4 12 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 13 0 \N 0.44107 -6.52468 1600000 279979 238 127 1 -2.77940 0.71797 2013-10-04 02:41:47 2019-01-04 15:01:52 RF01591 snoR15 1264 small nucleolar RNA snoR15 Osuch I INFERNAL 50.00 50.70 45.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 CM SEQDB 4 25 0 0 Gene; snRNA; snoRNA; CD-box; Published; PMID:17901154 26 0 \N 0.47707 -4.14293 1600000 260040 240 131 1 -2.71770 0.71804 2013-10-04 02:41:50 2019-01-04 15:01:52 RF01592 plasmodium_snoR17 1264 small nucleolar RNA snoR17 Osuch I INFERNAL 51.00 51.20 50.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 36.87 -Z 549862.597050 CM SEQDB 5 17 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 19 0 \N 0.43931 -4.88316 1600000 269167 170 80 1 -3.17820 0.71855 2013-10-04 02:41:52 2019-01-04 15:01:52 RF01593 plasmodium_snoR16 1264 small nucleolar RNA snoR16 Osuch I INFERNAL 70.00 78.70 40.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.70 -Z 549862.597050 CM SEQDB 3 26 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 25 0 \N 0.53144 -5.27359 1600000 343828 235 126 1 -2.48800 0.71801 2013-10-04 02:41:54 2019-01-04 15:01:52 RF01594 snoR18 1264 small nucleolar RNA snoR18 Osuch I INFERNAL 55.00 61.30 41.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 35.32 -Z 549862.597050 CM SEQDB 3 24 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 26 0 \N 0.45881 -4.44892 1600000 243886 187 90 1 -2.86350 0.71842 2013-10-04 02:41:55 2019-01-04 15:01:52 RF01595 snoR19 1264 small nucleolar RNA snoR19 Osuch I INFERNAL 60.00 92.00 43.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 24 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 26 0 \N 0.46797 -2.52729 1600000 231022 195 96 1 -3.16110 0.71841 2013-10-04 02:41:57 2019-01-04 15:01:52 RF01596 plasmodium_snoR20 1264 small nucleolar RNA snoR20 Osuch I INFERNAL 45.00 48.70 39.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.00 -Z 549862.597050 CM SEQDB 2 30 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 30 0 \N 0.53861 -7.80754 1600000 256206 173 82 0 -3.33730 0.71986 2013-10-04 02:41:58 2019-01-04 15:01:52 RF01597 snoR22 1264 small nucleolar RNA snoR22 Osuch I INFERNAL 50.00 50.40 42.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27 -Z 549862.597050 CM SEQDB 3 33 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 25 0 \N 0.51005 -3.07680 1600000 249856 176 83 1 -3.07760 0.71852 2013-02-01 11:58:54 2019-01-04 15:01:52 RF01598 snoR23 1264 small nucleolar RNA snoR23 Osuch I INFERNAL 70.00 70.50 57.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 37.05 -Z 549862.597050 CM SEQDB 3 23 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 23 0 \N 0.42623 -5.78206 1600000 246837 177 84 1 -3.33990 0.71853 2013-10-04 02:42:41 2019-01-04 15:01:52 RF01599 plasmodium_snoR24 1264 small nucleolar RNA snoR24 Osuch I INFERNAL 55.00 63.30 45.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.00 -Z 549862.597050 CM SEQDB 4 17 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 16 0 \N 0.48037 -3.52248 1600000 219968 173 82 1 -3.24910 0.71855 2013-10-04 02:42:43 2019-01-04 15:01:52 RF01600 snoR25 1264 small nucleolar RNA snoR25 Osuch I INFERNAL 50.00 61.90 45.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 24 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 24 0 \N 0.53756 -3.45155 1600000 255244 157 70 1 -3.22470 0.71880 2013-10-04 02:42:45 2019-01-04 15:01:52 RF01601 plasmodium_snoR26 1264 small nucleolar RNA snoR26 Osuch I INFERNAL 50.00 52.70 44.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33 -Z 549862.597050 CM SEQDB 3 27 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 28 0 \N 0.39530 -10.10031 1600000 452442 282 160 1 -2.72870 0.71692 2013-10-04 02:42:47 2019-01-04 15:01:52 RF01602 plasmodium_snoR27 1264 small nucleolar RNA snoR27 Osuch I INFERNAL 50.00 59.30 42.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 24 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 24 0 \N 0.47715 -6.53494 1600000 218384 259 143 1 -2.93170 0.71808 2013-10-04 02:42:48 2019-01-04 15:01:52 RF01603 snoR29 1264 small nucleolar RNA snoR29 Osuch I INFERNAL 50.00 51.50 44.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 22 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 24 0 \N 0.51608 -2.78609 1600000 225668 177 84 1 -3.05790 0.71852 2013-10-04 02:42:50 2019-01-04 15:01:52 RF01604 plasmodium_snoR28 1264 small nucleolar RNA snoR28 Osuch I INFERNAL 63.00 74.00 41.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 23 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 23 0 \N 0.55928 -2.56153 1600000 222693 169 78 1 -3.29030 0.71865 2013-10-04 02:42:51 2019-01-04 15:01:52 RF01605 plasmodium_snoR30 1264 small nucleolar RNA snoR30 Osuch I INFERNAL 43.00 43.40 40.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 26 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 27 0 \N 0.54105 -3.83154 1600000 300292 165 74 1 -3.24640 0.71865 2013-10-04 02:42:52 2019-01-04 15:01:52 RF01606 plasmodium_snoR31 1264 small nucleolar RNA snoR31 Osuch I INFERNAL 60.00 61.60 53.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 23 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 25 0 \N 0.45643 -7.34812 1600000 370770 260 145 1 -2.84140 0.71810 2013-10-04 02:42:54 2019-01-04 15:01:52 RF01607 ceN100 1264 C. elegans snoRNA ceN100 Osuch I INFERNAL 80.00 105.50 66.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 15 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 6 0 \N 0.54886 -6.74448 1600000 226476 242 132 1 -3.29380 0.71831 2013-10-04 02:42:56 2019-01-04 15:01:52 RF01608 ceN102 1264 Caenorhabditis snoRNA ceN80 Osuch I INFERNAL 50.00 52.40 39.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 8 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 6 0 \N 0.46646 -8.14641 1600000 259171 258 142 1 -3.08520 0.71803 2013-10-04 02:42:57 2019-01-04 15:01:52 RF01609 ceN103 1264 Caenorhabditis snoRNA ceN103 Osuch I INFERNAL 55.00 60.50 42.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 7 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 7 0 \N 0.48417 -6.14296 1600000 257160 214 109 1 -2.99360 0.71817 2013-10-04 02:42:59 2019-01-04 15:01:52 RF01610 ceN104 1264 Caenorhabditis snoRNA ceN104 Osuch I INFERNAL 65.00 80.10 37.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 14 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 6 0 \N 0.49810 -7.71460 1600000 282238 648 163 1 -3.23220 0.71668 2013-10-04 02:43:00 2019-01-04 15:01:52 RF01611 ceN108 1264 Caenorhabditis snoRNA ceN108 Osuch I INFERNAL 50.00 53.10 44.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 14 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 6 0 \N 0.67817 -3.47524 1600000 308567 159 70 1 -3.58050 0.71875 2013-10-04 02:43:02 2019-01-04 15:01:52 RF01612 ceN105 1264 Nematode snoRNA ceN105 Osuch I INFERNAL 55.00 56.50 53.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 3 7 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 7 0 \N 0.50996 -7.40018 1600000 260933 288 140 1 -2.85180 0.71825 2013-10-04 02:43:03 2019-01-04 15:01:52 RF01613 ceN109 1264 Nematode snoRNA ceN109 Osuch I INFERNAL 52.00 53.60 48.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 17 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 14 0 \N 0.69713 -3.52076 1600000 282226 154 67 1 -3.59740 0.71888 2013-10-04 02:43:05 2019-01-04 15:01:52 RF01614 ceN110 1264 Caenorhabditis snoRNA ceN110 Osuch I INFERNAL 50.00 51.20 44.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 7 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 6 0 \N 0.51833 -6.57048 1600000 207688 236 126 1 -3.03130 0.71831 2013-10-04 02:43:07 2019-01-04 15:01:52 RF01615 ceN111 1264 Nematode snoRNA ceN111 Osuch I INFERNAL 43.00 43.60 42.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 29 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 26 0 \N 0.59235 -3.80638 1600000 278118 157 70 1 -3.73900 0.71881 2013-10-04 02:43:08 2019-01-04 15:01:52 RF01617 ceN113 1264 Caenorhabditis snoRNA ceN113 Osuch I INFERNAL 40.00 40.10 37.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 6 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 6 0 \N 0.50622 -6.65548 1600000 272237 241 131 1 -2.76850 0.71788 2013-10-04 02:43:10 2019-01-04 15:01:52 RF01618 ceN114 1264 Nematode snoRNA ceN114 Osuch I INFERNAL 44.00 44.30 39.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 17 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 16 0 \N 0.60556 -4.70524 1600000 298956 148 63 1 -3.63470 0.71900 2013-10-04 02:43:11 2019-01-04 15:01:52 RF01619 ceN115 2091 C. elegans sRNA ceN115 Osuch I INFERNAL 44.00 45.90 42.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 6 0 0 Gene; sRNA; Predicted; WAR; Clustal_alifold; 2 0 \N 0.58769 -7.74551 1600000 334618 282 159 1 -3.00810 0.71726 2013-10-04 02:43:13 2019-01-04 15:01:52 RF01620 ceN125 1264 Nematode snoRNA ceN125 Osuch I INFERNAL 60.00 65.90 35.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 10 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 8 0 \N 0.58013 -7.99743 1600000 275323 247 135 1 -3.23690 0.71832 2013-10-04 02:43:14 2019-01-04 15:01:52 RF01621 ceN126 1264 Caenorhabditis snoRNA ceN126 Osuch I INFERNAL 80.00 150.40 48.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 7 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 6 0 \N 0.53462 -6.79502 1600000 248016 243 131 1 -2.75050 0.71826 2013-10-04 02:43:16 2019-01-04 15:01:52 RF01622 ceN22 1264 Nematode snoRNA ceN22 Osuch I INFERNAL 45.00 47.90 36.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 17 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 15 0 \N 0.60714 -4.26233 1600000 209213 168 76 1 -3.24930 0.71926 2013-10-04 02:43:17 2019-01-04 15:01:52 RF01623 ceN23-1 2091 Caenorhabditis sRNA ceN23-1 Osuch I INFERNAL 40.00 72.50 36.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 14 0 0 Gene; sRNA; Predicted; WAR; cmfinder; 7 0 \N 0.58092 -4.06043 1600000 182622 201 100 1 -3.26220 0.71851 2013-10-04 02:43:18 2019-01-04 15:01:52 RF01624 ceN27 1264 Nematode snoRNA ceN27 Osuch I INFERNAL 38.00 38.10 35.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 2 9 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 7 0 \N 0.57403 -3.79839 1600000 192373 173 80 1 -3.58690 0.71944 2013-10-04 02:43:20 2019-01-04 15:01:52 RF01625 ceN28 1264 Caenorhabditis snoRNA ceN28 Osuch I INFERNAL 70.00 104.50 47.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 7 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 7 0 \N 0.65300 -3.61760 1600000 226403 184 88 1 -3.30810 0.71853 2013-10-04 02:43:23 2019-01-04 15:01:52 RF01626 ceN30 1264 Caenorhabditis snoRNA ceN30 Osuch I INFERNAL 65.00 90.70 36.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 7 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 6 0 \N 0.66248 -3.38872 1600000 234518 162 73 1 -3.49560 0.71877 2013-10-04 02:43:25 2019-01-04 15:01:52 RF01627 ceN36-1 1264 Nematode snoRNA ceN36-1 Osuch I INFERNAL 48.00 49.20 42.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 15 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 13 0 \N 0.52470 -7.71201 1600000 261683 241 130 1 -3.17930 0.71812 2013-10-04 02:43:26 2019-01-04 15:01:52 RF01628 ceN38 1264 Caenorhabditis snoRNA ceN38 Osuch I INFERNAL 50.00 50.70 35.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22 -Z 549862.597050 CM SEQDB 3 5 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 5 0 \N 0.52697 -7.02448 1600000 217364 251 137 1 -3.08660 0.71824 2013-10-04 02:43:28 2019-01-04 15:01:52 RF01629 ceN39 1264 Nematode snoRNA ceN39 Osuch I INFERNAL 35.00 36.60 33.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 56 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 22 0 \N 0.59878 -7.17334 1600000 291805 244 131 1 -3.46660 0.71837 2013-10-04 02:43:30 2019-01-04 15:01:52 RF01630 ceN40 1264 Nematode snoRNA ceN40 Osuch I INFERNAL 35.00 35.10 32.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.75 -Z 549862.597050 CM SEQDB 4 22 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 17 0 \N 0.65982 -6.15540 1600000 288198 231 123 1 -3.32710 0.71804 2013-10-04 02:43:31 2019-01-04 15:01:52 RF01631 ceN41 1264 Caenorhabditis snoRNA ceN41 Osuch I INFERNAL 50.00 50.30 39.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 8 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 6 0 \N 0.53650 -7.42452 1600000 270880 249 137 1 -3.35350 0.71833 2013-10-04 02:43:33 2019-01-04 15:01:52 RF01632 ceN42 1264 Caenorhabditis snoRNA ceN42 Osuch I INFERNAL 42.00 44.20 39.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 6 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 7 0 \N 0.52189 -6.71813 1600000 269009 241 130 1 -3.00150 0.71829 2013-10-04 02:43:34 2019-01-04 15:01:52 RF01633 ceN43 1264 Caenorhabditis snoRNA ceN43 Osuch I INFERNAL 50.00 71.70 37.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 6 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 6 0 \N 0.55756 -7.12777 1600000 239698 240 129 1 -3.19600 0.71827 2013-10-04 02:43:36 2019-01-04 15:01:52 RF01634 ceN44 1264 Caenorhabditis snoRNA ceN44 Osuch I INFERNAL 70.00 88.80 35.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 6 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 7 0 \N 0.65348 -3.32673 1600000 223846 164 74 1 -3.62280 0.71876 2013-10-04 02:43:37 2019-01-04 15:01:52 RF01635 ceN45 1264 Caenorhabditis snoRNA ceN45 Osuch I INFERNAL 60.00 90.20 47.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 10 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 8 0 \N 0.54386 -7.73428 1600000 293170 237 128 1 -3.28410 0.71843 2013-10-04 02:43:39 2019-01-04 15:01:52 RF01636 ceN46 1264 Caenorhabditis snoRNA ceN46 Osuch I INFERNAL 50.00 90.90 31.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 7 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 6 0 \N 0.59848 -6.93857 1600000 252666 236 125 1 -3.14760 0.71828 2013-10-04 02:43:40 2019-01-04 15:01:52 RF01637 ceN47 1264 Nematode snoRNA ceN47 Osuch I INFERNAL 35.00 35.70 34.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18 -Z 549862.597050 CM SEQDB 6 36 0 0 Gene; snRNA; snoRNA; CD-box; Predicted;Osuch I; 27 0 \N 0.57988 -8.96472 1600000 388420 270 155 1 -2.80720 0.71758 2013-10-04 02:43:42 2019-01-04 15:01:52 RF01638 ceN48 1264 Caenorhabditis snoRNA ceN48 Osuch I INFERNAL 70.00 112.20 68.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 7 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 6 0 \N 0.55903 -7.30601 1600000 309183 235 125 1 -3.06490 0.71837 2013-10-04 02:44:02 2019-01-04 15:01:52 RF01639 ceN49 1264 Caenorhabditis snoRNA ceN49 Osuch I INFERNAL 65.00 66.90 36.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 8 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 6 0 \N 0.58712 -7.63614 1600000 342661 247 134 1 -3.03380 0.71822 2013-10-04 02:44:03 2019-01-04 15:01:52 RF01640 ceN51 1264 Caenorhabditis snoRNA ceN51 Osuch I INFERNAL 65.00 65.90 31.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 6 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 6 0 \N 0.60991 -6.91356 1600000 263923 257 141 1 -3.29620 0.71836 2013-10-04 02:44:04 2019-01-04 15:01:52 RF01641 ceN53 1264 Caenorhabditis snoRNA ceN53 Osuch I INFERNAL 50.00 50.90 46.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 7 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 6 0 \N 0.64137 -3.65325 1600000 265711 164 74 1 -3.72780 0.71869 2013-10-04 02:44:06 2019-01-04 15:01:52 RF01642 ceN54 1264 Caenorhabditis snoRNA ceN54 Osuch I INFERNAL 60.00 62.00 39.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 9 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 6 0 \N 0.65002 -5.03763 1600000 342800 155 68 1 -3.97960 0.71880 2013-10-04 02:44:07 2019-01-04 15:01:52 RF01643 ceN56 2091 Caenorhabditis sRNA ceN56 Osuch I INFERNAL 60.00 69.50 59.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 4 6 0 0 Gene; sRNA; Predicted; WAR; cmfinder; 6 0 \N 0.63098 -3.90743 1600000 188603 235 125 1 -3.12390 0.71831 2013-10-04 02:44:09 2019-01-04 15:01:52 RF01644 ceN59 1264 Caenorhabditis snoRNA ceN59 Osuch I INFERNAL 50.00 76.30 41.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 11 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; Clustal_alifold; 8 0 \N 0.50362 -7.15810 1600000 261715 250 137 1 -2.80350 0.71817 2013-10-04 02:44:10 2019-01-04 15:01:52 RF01645 ceN58 1264 Nematode snoRNA ceN58 Osuch I INFERNAL 60.00 61.10 43.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 14 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 13 0 \N 0.55193 -8.06567 1600000 279639 254 139 1 -3.30100 0.71818 2013-10-04 02:44:12 2019-01-04 15:01:52 RF01646 ceN63 1264 Caenorhabditis snoRNA ceN63 Osuch I INFERNAL 65.00 85.50 42.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 7 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 7 0 \N 0.63192 -4.05344 1600000 265784 157 69 1 -3.44020 0.71878 2013-10-04 02:44:13 2019-01-04 15:01:52 RF01647 ceN61 1264 Caenorhabditis snoRNA ceN61 Osuch I INFNERAL 60.00 63.70 50.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 7 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 6 0 \N 0.65921 -3.38083 1600000 212504 167 76 1 -3.62950 0.71873 2013-10-04 02:44:14 2019-01-04 15:01:52 RF01648 ceN65 1264 Caenorhabditis snoRNA ceN65 Osuch I INFERNAL 48.00 48.20 43.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 6 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 6 0 \N 0.68157 -3.90346 1600000 294984 151 65 1 -3.76920 0.71894 2013-02-01 11:58:58 2019-01-04 15:01:52 RF01649 ceN67 1264 Caenorhabditis snoRNA ceN67 Osuch I INFERNAL 70.00 73.40 38.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 3 6 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 6 0 \N 0.50969 -7.39869 1600000 231393 237 130 1 -3.23080 0.71830 2013-10-04 02:44:18 2019-01-04 15:01:52 RF01650 ceN68 1264 Caenorhabditis snoRNA ceN48 Osuch I INFERNAL 80.00 157.90 38.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold 1 0 \N 0.52304 -7.38649 1600000 273945 231 121 1 -2.90550 0.71827 2013-10-04 02:44:19 2019-01-04 15:01:52 RF01651 ceN69 1264 Caenorhabditis snoRNA ceN69 Osuch I INFERNAL 45.00 47.20 34.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 7 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 6 0 \N 0.60458 -4.37206 1600000 246515 211 107 1 -2.95000 0.71821 2013-10-04 02:44:21 2019-01-04 15:01:52 RF01652 ceN70 1264 Caenorhabditis snoRNA ceN70 Osuch I INFERNAL 65.00 70.70 46.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 12 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 10 0 \N 0.66859 -3.89179 1600000 286545 159 71 1 -3.51980 0.71885 2013-10-04 02:44:23 2019-01-04 15:01:52 RF01653 ceN80 1264 Caenorhabditis snoRNA ceN80 Osuch I INFERNAL 80.00 111.90 63.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 13 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 7 0 \N 0.57185 -6.83476 1600000 244718 242 131 1 -3.42240 0.71839 2013-10-04 02:44:25 2019-01-04 15:01:52 RF01654 ceN82 1264 Caenorhabditis snoRNA ceN82 Osuch I INFERNAL 80.00 98.70 47.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 13 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 6 0 \N 0.51994 -6.20940 1600000 273936 248 135 1 -3.19210 0.71816 2013-10-04 02:44:26 2019-01-04 15:01:52 RF01655 ceN84 1264 Caenorhabditis snoRNA ceN84 Osuch I INFERNAL 80.00 81.90 55.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22 -Z 549862.597050 CM SEQDB 5 13 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 6 0 \N 0.49161 -7.31509 1600000 236882 236 130 1 -2.94610 0.71819 2013-10-04 02:44:28 2019-01-04 15:01:52 RF01656 ceN72-3_ceN74-2 2091 Nematode sRNA ceN72-3_ceN74-2 Osuch I, Eberhardt R, Daub J INFERNAL 38.00 38.20 37.80 \N ceN72-3 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 265 0 0 Gene; sRNA; Predicted; WAR; 22 0 \N 0.59508 -5.07236 1600000 200424 280 131 1 -3.11810 0.71839 2013-10-04 02:44:31 2019-01-04 15:01:52 RF01658 ceN81 1264 Caenorhabditis snoRNA ceN81 Osuch I INFERNAL 50.00 56.70 43.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.35 -Z 549862.597050 CM SEQDB 3 7 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 6 0 \N 0.52859 -7.22487 1600000 251990 237 126 1 -3.39100 0.71841 2013-10-04 02:44:33 2019-01-04 15:01:52 RF01659 ceN86 1264 Caenorhabditis snoRNA ceN86 Osuch I INFERNAL 40.00 41.00 34.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 2 5 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 5 0 \N 0.54920 -6.68379 1600000 266774 233 124 1 -3.16580 0.71839 2013-10-04 02:44:35 2019-01-04 15:01:52 RF01660 ceN88 1264 Nematode snoRNA ceN88 Osuch I INFERNAL 40.00 41.30 34.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 54 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 33 0 \N 0.55269 -9.19798 1600000 371913 255 140 1 -3.08760 0.71820 2013-10-04 02:44:37 2019-01-04 15:01:52 RF01661 ceN92 1264 Caenorhabditis snoRNA ceN92 Osuch I INFERNAL 50.00 53.00 43.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 4 13 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 6 0 \N 0.50447 -6.35774 1600000 273756 237 126 1 -3.02090 0.71821 2013-10-04 02:44:38 2019-01-04 15:01:52 RF01662 ceN89 1264 Caenorhabditis snoRNA ceN89 Osuch I INFERNAL 48.00 49.00 36.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 7 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 7 0 \N 0.65758 -3.69324 1600000 283762 168 78 1 -3.17710 0.71867 2013-10-04 02:44:40 2019-01-04 15:01:52 RF01663 ceN93 2091 Caenorhabditis sRNA ceN93 Osuch I INFERNAL 60.00 62.40 46.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 6 0 0 Gene; sRNA; Predicted; WAR; 6 0 \N 0.53250 -6.60853 1600000 270631 242 131 1 -2.99570 0.71831 2013-10-04 02:44:41 2019-01-04 15:01:52 RF01664 ceN101 1264 Caenorhabditis snoRNA ceN101 Osuch I INFERNAL 70.00 87.50 43.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 13 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAalifold; 6 0 \N 0.52748 -7.56683 1600000 283114 239 128 1 -3.24160 0.71830 2013-10-04 02:44:43 2019-01-04 15:01:52 RF01665 P13 1269 Pseudomonas sRNA P13 Osuch I INFERNAL 70.00 99.20 35.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; WAR; Clustal_alifold; 2 0 \N 0.44585 -10.61303 1600000 359259 168 76 1 -3.17830 0.72145 2013-02-01 11:58:59 2019-01-04 15:01:52 RF01666 rox2 2092 Drosophila rox2 ncRNA Osuch I INFERNAL 55.00 56.90 47.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 8 0 0 Cis-reg; Published; PMID:18039876 8 0 \N 0.56419 -4.29149 1600000 309331 158 71 1 -3.32050 0.71897 2013-10-04 02:44:46 2019-01-04 15:01:52 RF01667 rox1 2092 Drosophila rox1 ncRNA Osuch I INFERNAL 58.00 59.20 52.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 3 0 0 Cis-reg; Published; PMID:18039876 4 0 \N 0.63834 -4.12484 1600000 315230 142 59 1 -3.43460 0.71935 2013-10-04 02:44:53 2019-01-04 15:01:52 RF01668 P10 1269 Pseudomonas sRNA P10 Osuch I INFERNAL 37.00 37.50 36.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 17 -Z 549862.597050 CM SEQDB 8 74 0 0 Gene; sRNA; Predicted; WAR; Clustal_alifold; 44 0 \N 0.72541 -3.89071 1600000 268292 153 72 1 -3.41720 0.71896 2013-10-04 02:44:55 2019-01-04 15:01:52 RF01669 P14 1269 Pseudomonas sRNA P14 Osuch I INFERNAL 45.00 46.60 38.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 64 0 0 Gene; sRNA; Predicted; WAR; Clustal_alifold; 66 0 \N 0.54499 -8.91773 1600000 344092 259 146 1 -2.95940 0.71820 2013-10-04 02:45:10 2019-01-04 15:01:52 RF01670 P17 1269 Pseudomonas sRNA P17 Osuch I INFERNAL 45.00 46.90 39.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19 -Z 549862.597050 CM SEQDB 3 17 0 0 Gene; sRNA; Predicted; WAR; Clustal_alifold; 19 0 \N 0.62606 -9.84034 1600000 367125 433 282 1 -3.64110 0.70682 2013-10-04 02:45:11 2019-01-04 15:01:52 RF01671 P18 1269 Pseudomonas sRNA P18 Osuch I INFERNAL 60.00 73.20 52.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26 -Z 549862.597050 CM SEQDB 4 28 0 0 Gene; sRNA; Predicted; WAR; Clustal_alifold; 29 0 \N 0.47467 -10.14726 1600000 312888 246 135 1 -3.12820 0.71821 2013-10-04 02:45:13 2019-01-04 15:01:52 RF01672 P2 1269 Psudomonas sRNA P2 Osuch I INFERNAL 80.00 163.30 38.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 1 0 0 Gene; sRNA; Predicted; WAR; Clustal_alifold; 7 0 \N 0.50785 -8.07018 1600000 292924 255 138 1 -2.79080 0.71845 2013-10-04 02:45:15 2019-01-04 15:01:52 RF01673 PhrS 2093 PhrS Burge SW Burge SW 37.00 38.10 35.50 \N P20 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 101 0 0 Gene; sRNA; Predicted; WAR; cmfinder; 106 0 \N 0.63779 -10.10521 1600000 538719 333 213 1 -3.60660 0.71104 2013-10-04 02:45:16 2019-01-04 15:01:52 RF01674 P27 1269 Pseudomonas sRNA P27 Osuch I INFERNAL 50.00 107.80 49.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 77 0 0 Gene; sRNA; Predicted; WAR; Clustal_alifold; 78 0 \N 0.60796 -8.06533 1600000 283038 321 192 1 -3.40530 0.71325 2013-10-04 02:45:18 2019-01-04 15:01:52 RF01675 CrcZ 2094 Pseudomonas sRNA CrcZ Burge S, Osuch I INFERNAL 95.00 107.80 88.50 \N P29 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 19 149 0 0 Gene; sRNA; Predicted; WAR; Clustal_alifold; 88 0 \N 0.67617 -9.83728 1600000 482118 564 398 1 -4.57990 0.70274 2013-10-04 02:45:20 2019-01-04 15:01:52 RF01676 P31 1269 Pseudomonas sRNA P31 Osuch I INFERNAL 40.00 43.00 39.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 4 74 0 0 Gene; sRNA; Predicted; WAR; cmfinder; 76 0 \N 0.53049 -8.74480 1600000 375943 174 82 1 -3.18680 0.71881 2013-10-04 02:45:29 2019-01-04 15:01:52 RF01677 P35 1269 Pseudomonas sRNA P35 Osuch I INFERNAL 70.00 89.40 41.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAalifold; 2 0 \N 0.47555 -9.17356 1600000 514128 149 62 1 -3.07370 0.72425 2013-10-04 02:45:31 2019-01-04 15:01:52 RF01678 P37 1269 Pseudomonas sRNA P37 Osuch I INFERNAL 50.00 91.10 43.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAalifold; 2 0 \N 0.55968 -8.01957 1600000 483075 149 62 1 -2.98110 0.72593 2013-10-04 02:45:33 2019-01-04 15:01:52 RF01679 P36 1269 Pseudomonas sRNA P36 Osuch I INFERNAL 36.00 37.10 34.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 37 0 0 Gene; sRNA; Predicted; RNAalifold; 37 0 \N 0.55892 -8.73518 1600000 464643 148 61 1 -3.31690 0.72500 2013-10-04 02:45:34 2019-01-04 15:01:52 RF01680 P5 1269 Pseudomonas sRNA P5 Osuch I INFERNAL 60.00 101.40 34.50 Identified as IgRs 491 in [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; WAR; Mafta_alifold; 2 0 \N 0.48848 -10.26885 1600000 432401 161 71 1 -3.03980 0.72232 2013-10-04 02:45:36 2019-01-04 15:01:52 RF01681 P4 1269 Pseudomonas sRNA P4 Osuch I INFERNAL 37.00 37.30 35.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 6 0 0 Gene; sRNA; Predicted; WAR; Clustal_alifold; 7 0 \N 0.67092 -8.60794 1600000 387175 352 215 1 -3.27090 0.71101 2013-10-04 02:45:37 2019-01-04 15:01:52 RF01682 P8 1269 Pseudomonas sRNA P8 Osuch I INFERNAL 60.00 105.40 35.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; WAR; Clustal_alifold; 2 0 \N 0.53651 -7.49394 1600000 350970 171 78 1 -3.53680 0.71888 2013-10-04 02:45:39 2019-01-04 15:01:52 RF01683 P6 1269 Pseudomonas sRNA P6 Osuch I INFERNAL 50.00 51.60 44.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 4 0 0 Gene; sRNA; Predicted; RNAalifold; 6 0 \N 0.70610 -7.86658 1600000 297632 703 510 1 -4.56410 0.70072 2013-10-04 02:45:40 2019-01-04 15:01:52 RF01684 mascRNA-menRNA 1301 MALAT1-associated small cytoplasmic RNA/MEN beta RNA Marz M, Stadler PF, Gardner PP Marz M, Stadler PF 42.00 42.20 41.70 The seed alignment for this family was obtained from the following publication: Marz M, Stadler PF. Homology Search for Small Structured ncRNAs. Handbook of RNA biochemistry. 2010;1:1-1. There is no PMID available for this book chapter so only the authors have been referenced above. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 53 260 0 0 Gene; Published; PMID:19041754; 75 0 \N 0.60803 -5.32505 1600000 290428 127 56 1 -3.19830 0.71930 2013-02-01 12:14:41 2019-01-04 15:01:52 RF01685 6S-Flavo 2461 6S-Flavo RNA Weinberg Z Published; PMID:20230605; 85.00 85.30 84.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33.40 -Z 549862.597050 CM SEQDB 82 148 0 0 Gene; sRNA; Published; PMID:20230605; 148 0 \N 0.51543 -3.24261 1600000 237828 212 109 1 -2.93250 0.71827 2013-10-04 02:45:43 2019-01-04 15:01:52 RF01686 Acido-1 1271 Acido-1 RNA Weinberg Z Published; PMID:20230605; 50.00 59.40 48.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 4 0 0 Gene; sRNA; Published; PMID:20230605; 2 0 \N 0.52746 -10.39364 1600000 589014 144 64 1 -3.22090 0.72267 2013-02-01 11:59:01 2019-01-04 15:01:52 RF01687 Acido-Lenti-1 2095 Acido-Lenti-1 RNA Weinberg Z Published; PMID:20230605; 37.00 37.00 36.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 87 1891 0 0 Gene; sRNA; Published; PMID:20230605; 151 0 \N 0.62586 -8.87280 1600000 779441 99 46 1 -3.62310 0.72842 2013-10-04 02:45:47 2019-01-04 15:01:52 RF01688 Actino-pnp 2096 Actino-pnp RNA Weinberg Z Published; PMID:20230605; 47.70 47.70 47.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 77 674 0 0 Cis-reg; Published; PMID:20230605; 632 0 \N 0.64500 -3.91924 1600000 236963 137 63 1 -3.66420 0.71913 2013-10-04 02:45:50 2022-10-29 16:55:17 RF01689 AdoCbl-variant 1456 AdoCbl variant RNA Weinberg Z, Ontiveros-Palacios N Published; PMID:20230605; 36.50 36.50 36.40 AdoCbl riboswitches (clan CL00101) are cis-regulatory elements that recognise coenzyme B12 and modulate the expression of genes relate to Cobalamin obtention. AdoCbl riboswitch variant was first reported for Weinberg [1] and its structure was reported in 4FRN and 4FRG PDBs [2] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 146 278 0 0 Cis-reg; riboswitch; Published; PMID:20230605; 131 0 \N 0.71206 -2.57318 1600000 203824 167 81 1 -3.87990 0.71876 2013-10-04 02:45:53 2022-10-29 16:55:16 RF01690 Bacillaceae-1 2097 Bacillaceae-1 RNA Weinberg Z Published; PMID:20230605; 35.00 35.30 34.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 95 2235 0 0 Gene; sRNA; Published; PMID:20230605; 120 0 \N 0.54042 -7.48300 1600000 276917 129 67 1 -3.99730 0.71900 2013-10-04 02:45:55 2019-01-04 15:01:52 RF01691 Bacillus-plasmid 2098 Bacillus-plasmid RNA Weinberg Z Published; PMID:20230605; 31.00 31.30 30.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 31 96 0 0 Gene; sRNA; Published; PMID:20230605; 82 0 \N 0.65209 -4.18092 1600000 197960 201 61 1 -3.81370 0.71907 2013-10-04 02:45:57 2019-01-04 15:01:52 RF01692 Bacteroid-trp 2099 Bacteroidete tryptophan peptide leader RNA Weinberg Z Published; PMID:20230605; 49.00 49.10 48.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 37.90 -Z 549862.597050 CM SEQDB 35 180 0 0 Cis-reg; leader; Published; PMID:20230605; 188 0 \N 0.42121 -6.10998 1600000 326727 241 131 1 -2.52370 0.71817 2013-10-04 02:45:59 2019-01-04 15:01:52 RF01693 Bacteroidales-1 2100 Bacteroidales-1 6S-Bacteroidales RNA suggested Weinberg Z Published; PMID:20230605; 60.00 61.90 59.30 Bacteroidales-1 was first reported in a comparative genomics-based approach of genome and metagenome sequences from Weinberg et al. 2010 [1] In a high-resolution transcriptome map study of Bacteroides thetaiotaomicron, Ryan et al. 2020 [2] report this sRNA as 6S RNA homologue of Bacteroides, in the study they obtain evidence of small product RNAs (pRNAs) related to 6S function. This sRNA presents a different secondary structure than the one of 6S (RF00013) and 6S-Flavo (RF01685) families. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 41 189 0 0 Gene; sRNA; Published; PMID:20230605; 169 0 \N 0.47734 -11.73952 1600000 382879 294 179 1 -3.55560 0.71441 2013-10-04 02:46:01 2021-07-05 13:43:57 RF01694 Bacteroides-1 2101 Bacteroides-1 RNA Weinberg Z Published; PMID:20230605; 43.00 43.50 40.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 40 41 0 0 Gene; sRNA; Published; PMID:20230605; 37 0 \N 0.53820 -6.14924 1600000 317350 168 83 1 -3.69280 0.71887 2013-10-04 02:46:03 2019-01-04 15:01:52 RF01695 C4 2102 C4 antisense RNA Weinberg Z Published; PMID:20230605; 45.00 45.00 44.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 456 2158 0 0 Gene; antisense; Published; PMID:20230605; 632 0 \N 0.55593 -5.80840 1600000 228368 158 87 1 -3.70750 0.71862 2013-10-04 02:46:07 2021-07-05 13:43:57 RF01696 Chlorobi-1 2103 Chlorobi-1 RNA Weinberg Z Published; PMID:20230605; 50.00 52.50 38.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 15 20 0 0 Gene; sRNA; Published; PMID:20230605; 9 0 \N 0.76420 -4.16137 1600000 245342 144 67 1 -3.90410 0.71902 2013-10-04 02:46:12 2019-01-04 15:01:52 RF01697 Chlorobi-RRM 1272 Chlorobi-RRM RNA Weinberg Z Published; PMID:20230605; 45.00 46.60 43.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.33 -Z 549862.597050 CM SEQDB 18 20 0 0 Cis-reg; Published; PMID:20230605; 13 0 \N 0.63371 -4.99931 1600000 342545 153 73 1 -3.80760 0.71915 2013-02-01 11:59:03 2019-01-04 15:01:52 RF01698 Chloroflexi-1 2104 Chloroflexi-1 RNA Weinberg Z Published; PMID:20230605; 80.00 96.20 37.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 0 0 0 Gene; sRNA; Published; PMID:20230605; 1 0 \N 0.59976 -5.45794 1600000 225035 177 84 1 -3.24110 0.71875 2013-10-04 02:46:15 2019-01-04 15:01:52 RF01699 Clostridiales-1 2105 Clostridiales-1 RNA Weinberg Z Published; PMID:20230605; 48.00 48.10 47.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 194 913 0 0 Gene; sRNA; Published; PMID:20230605; 119 0 \N 0.60845 -6.66194 1600000 251184 264 166 1 -3.59480 0.71626 2013-10-04 02:46:17 2019-01-04 15:01:52 RF01700 Collinsella-1 2106 Collinsella-1 RNA Weinberg Z Published; PMID:20230605; 35.00 37.90 32.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 12 0 0 Gene; sRNA; Published; PMID:20230605; 12 0 \N 0.66984 -8.33834 1600000 318497 565 196 1 -3.29980 0.71280 2013-10-04 02:46:20 2019-01-04 15:01:52 RF01701 Cyano-1 2107 Cyano-1 RNA Weinberg Z Published; PMID:20230605; 41.00 41.10 40.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.40 -Z 549862.597050 CM SEQDB 265 258 0 0 Gene; sRNA; Published; PMID:20230605; 136 0 \N 0.54409 -6.50388 1600000 298824 153 69 1 -4.00980 0.71881 2013-10-04 02:46:21 2019-01-04 15:01:52 RF01702 Cyano-2 2108 Cyano-2 RNA Weinberg Z Published; PMID:20230605; 40.00 42.40 35.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20 -Z 549862.597050 CM SEQDB 57 9 0 0 Gene; sRNA; Published; PMID:20230605; 5 0 \N 0.62394 -10.04232 1600000 476553 325 204 1 -3.52760 0.71196 2013-10-04 02:46:24 2019-01-04 15:01:52 RF01703 Dictyoglomi-1 2109 Dictyoglomi-1 RNA Yang J, Weinberg Z Published; PMID:20230605; 150.00 220.90 68.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 2 0 0 Gene; sRNA; Published; PMID:20230605; 2 0 \N 0.57635 -10.07535 1600000 361502 374 236 1 -3.27200 0.70941 2013-10-04 02:46:26 2019-01-04 15:01:52 RF01704 Glutamine-II 2110 Glutamine-II riboswitch (downstream peptide RNA) Weinberg Z, Ontiveros-Palacios N Published; PMID:20230605; 33.00 33.10 32.40 Glutamine-II riboswich also known as downstream-peptide was first reported in a metagenomic analysis of conserved ncRNAs [1] The structure of Glutamine-II riboswitch has been reported in PDB:6QN3 [2] The structure comprises three coaxial helical domains, the central one of which is a pseudoknot (PK). The major groove of the PK provides the binding site for L-glutamine Downstream-peptide; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 628 419 0 0 Cis-reg; riboswitch; Published; PMID:20230605; 49 0 \N 0.65944 -8.21676 1600000 529470 111 60 1 -4.06930 0.71903 2013-10-04 02:46:28 2022-10-29 16:55:17 RF01705 Flavo-1 2111 Flavo-1 RNA Weinberg Z Published; PMID:20230605; 42.00 42.00 41.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.05 -Z 549862.597050 CM SEQDB 201 5164 0 0 Gene; sRNA; Published; PMID:20230605; 230 0 \N 0.63631 -3.58292 1600000 137358 288 76 1 -3.79850 0.71871 2013-10-04 02:46:33 2019-01-04 15:01:52 RF01706 Gut-1 2112 Gut-1 RNA Weinberg Z Published; PMID:20230605; 50.00 50.20 49.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 38 72 0 0 Gene; sRNA; Published; PMID:20230605; 19 0 \N 0.59142 -5.59355 1600000 267452 206 77 1 -3.75840 0.71874 2013-10-04 02:46:40 2019-01-04 15:01:52 RF01707 JUMPstart 2113 JUMPstart RNA Weinberg Z Published; PMID:20230605; 35.00 35.20 34.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 128 271 0 0 Cis-reg; Published; PMID:20230605; 198 0 \N 0.66534 -5.62254 1600000 718063 88 38 1 -4.06140 0.72298 2013-10-04 02:46:42 2019-01-04 15:01:52 RF01708 L17DE 2114 L17 ribosomal protein downstream element Weinberg Z Published; PMID:20230605; 37.00 37.20 36.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.00 -Z 549862.597050 CM SEQDB 52 153 0 0 Cis-reg; Published; PMID:20230605; 195 0 \N 0.54724 -6.85150 1600000 308375 446 76 1 -4.19870 0.71883 2013-10-04 02:46:45 2019-01-04 15:01:52 RF01709 Lacto-rpoB 2115 Lacto-rpoB RNA Weinberg Z Published; PMID:20230605; 40.00 40.70 39.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.00 -Z 549862.597050 CM SEQDB 31 76 0 0 Cis-reg; Published; PMID:20230605; 96 0 \N 0.54803 -3.83682 1600000 391052 118 58 1 -4.07340 0.72489 2013-10-04 02:46:48 2019-01-04 15:01:52 RF01710 Lacto-usp 2116 Lacto-usp RNA Weinberg Z Published; PMID:20230605; 50.00 53.30 34.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 20 0 0 Gene; sRNA; Published; PMID:20230605; 22 0 \N 0.52306 -4.69661 1600000 185344 177 90 1 -3.59470 0.71877 2013-10-04 02:46:50 2019-01-04 15:01:52 RF01711 Lnt 2117 Lnt RNA Weinberg Z Published; PMID:20230605; 55.00 61.10 47.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 11 0 0 Cis-reg; Published; PMID:20230605; 12 0 \N 0.45064 -9.86761 1600000 456131 162 63 1 -3.17300 0.71898 2013-10-04 02:46:52 2019-01-04 15:01:52 RF01712 Methylobacterium-1 2118 Methylobacterium-1 RNA Weinberg Z Published; PMID:20230605; 40.00 43.30 36.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 34 13 0 0 Gene; sRNA; Published; PMID:20230605; 12 0 \N 0.51851 -8.00632 1600000 268833 186 104 1 -3.38660 0.71855 2013-10-04 02:46:53 2019-01-04 15:01:52 RF01713 Moco-II 2119 Moco-II RNA Weinberg Z Published; PMID:20230605; 35.00 42.20 30.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 18 0 0 Cis-reg; Published; PMID:20230605; 6 0 \N 0.53535 -7.52229 1600000 403378 116 46 1 -3.27830 0.72856 2013-10-04 02:46:55 2019-01-04 15:01:52 RF01714 Ocean-V 2120 Ocean-V RNA Weinberg Z Published; PMID:20230605; 75.00 86.30 53.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 0 0 0 Gene; sRNA; Published; PMID:20230605; 1 0 \N 0.64849 -3.75386 1600000 275088 159 72 1 -3.36490 0.71887 2013-10-04 02:46:57 2019-01-04 15:01:52 RF01715 Pedo-repair 2121 Pedo-repair RNA Weinberg Z Published; PMID:20230605; 150.00 192.50 46.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 6 0 0 Cis-reg; Published; PMID:20230605; 1 0 \N 0.60378 -8.23951 1600000 292274 341 211 1 -3.46750 0.71139 2013-10-04 02:46:58 2019-01-04 15:01:52 RF01716 PhotoRC-I 1273 PhotoRC-I RNA Weinberg Z Published; PMID:20230605; 45.00 52.00 39.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 65 12 0 0 Cis-reg; Published; PMID:20230605; 12 0 \N 0.66200 -8.55655 1600000 884279 109 44 1 -4.08090 0.71990 2013-10-04 02:47:00 2019-01-04 15:01:52 RF01717 PhotoRC-II 1273 PhotoRC-II RNA Weinberg Z Published; PMID:20230605; 39.00 39.60 37.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 338 45 0 0 Cis-reg; Published; PMID:20230605; 46 0 \N 0.50501 -5.79677 1600000 226143 299 94 1 -3.74330 0.71843 2013-02-01 11:59:04 2021-11-19 11:53:18 RF01718 Polynucleobacter-1 2122 Polynucleobacter-1 RNA Weinberg Z Published; PMID:20230605; 37.00 38.80 31.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.00 -Z 549862.597050 CM SEQDB 16 2 0 0 Gene; sRNA; Published; PMID:20230605; 3 0 \N 0.59845 -8.58965 1600000 259324 237 142 1 -3.55910 0.71810 2013-10-04 02:47:10 2019-01-04 15:01:52 RF01719 Pseudomon-1 2123 Pseudomon-1/ErsA RNA Weinberg Z Published; PMID:20230605; 50.00 59.30 49.50 Functions to regulate the AlgC enzyme.[2] Based on this information, the new name ErsA for the RNA was adopted. Negatively regulates major porin oprD expression responsible for uptake of carbapenem antibiotics, by base pairing with oprD 5'UTR (leading to increased bacterial resistance to meropenem)[4].Positively regulates amrZ mRNA and contributes to biofilm formation and motility.[5] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 19 94 0 0 Gene; sRNA; Published; PMID:20230605; 91 0 \N 0.55811 -7.33901 1600000 233397 220 116 1 -3.20850 0.71832 2013-10-04 02:47:12 2022-05-06 12:10:05 RF01720 Pseudomon-Rho 2124 Pseudomon-Rho RNA Weinberg Z Published; PMID:20230605; 45.00 48.00 40.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25 -Z 549862.597050 CM SEQDB 16 74 0 0 Cis-reg; Published; PMID:20230605; 80 0 \N 0.43488 -11.07245 1600000 390860 197 102 1 -2.81680 0.71860 2013-10-04 02:47:13 2019-01-04 15:01:52 RF01721 Pseudomon-groES 2125 Pseudomon-groES RNA Weinberg Z Published; PMID:20230605; 50.00 50.70 35.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.91 -Z 549862.597050 CM SEQDB 18 70 0 0 Cis-reg; Published; PMID:20230605; 79 0 \N 0.49353 -11.06356 1600000 400309 209 111 1 -3.17670 0.71857 2013-10-04 02:47:15 2019-01-04 15:01:52 RF01722 Pyrobac-1 2126 Pyrobac-1 RNA Weinberg Z Published; PMID:20230605; 40.00 41.20 35.60 The motif has been shown by [2] to be part of sRNA202 and sRNA203 canonical and noncanonical pseudouridine guide RNA (H/ACA RNA). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 5 0 0 Gene; sRNA; Published; PMID:20230605; 5 0 \N 0.55287 -5.97328 1600000 240541 133 60 1 -3.87310 0.72011 2013-10-04 02:47:17 2019-01-04 15:01:52 RF01723 Rhizobiales-2 2127 Rhizobiales-2 RNA Corbino K, Weinberg Z Published; PMID:20230605; 40.00 43.60 37.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33 -Z 549862.597050 CM SEQDB 15 48 0 0 Gene; sRNA; Published; PMID:20230605; 38 0 \N 0.39105 -12.05057 1600000 379268 197 104 1 -3.24590 0.71884 2013-10-04 02:47:18 2019-01-04 15:01:52 RF01724 SAM-Chlorobi 2128 SAM-Chlorobi RNA Weinberg Z Published; PMID:20230605; 35.00 47.80 32.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 17 0 0 Cis-reg; Published; PMID:20230605; 18 0 \N 0.53687 -8.05654 1600000 290660 176 87 1 -2.90400 0.71886 2013-10-04 02:47:20 2019-01-04 15:01:52 RF01725 SAM-I-IV-variant 1447 SAM-I/IV variant riboswitch Weinberg Z, Ontiveros-Palacios N Published; PMID:20230605; 41.10 41.10 41.00 SAM-I-IV variant riboswitch is part of the clan CL00012 (SAM-I, SAM-IV and SAM-I-IV) which share a common SAM binding core. It is found upstream of a number of genes which code for proteins involved in methionine or cysteine biosynthesis. It has been found mostly in the order Actinomycetales [1]. PDB 4L81 and 4OQU has been reported for SAM-I-IV aptamer, which shows the SAM binding core and an alternative PK-2 subdomain shared with SAM-IV [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 417 348 0 0 Cis-reg; riboswitch; Published; PMID:20230605; 325 0 \N 0.50816 -5.68665 1600000 198805 212 99 1 -3.80820 0.71843 2013-10-04 02:47:21 2022-10-29 16:55:16 RF01726 SAM-II_long_loops 1769 SAM-II long loop Weinberg Z Published; PMID:20230605; 44.00 44.70 41.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 126 457 0 0 Cis-reg; Published; PMID:20230605; 462 0 \N 0.57089 -5.54402 1600000 212783 222 60 1 -4.15790 0.71910 2013-10-04 02:47:25 2019-01-04 15:01:52 RF01727 SAM-SAH 2129 SAM/SAH riboswitch Yang J, Weinberg Z, Ontiveros-Palacios N Published; PMID:20230605; 40.00 40.10 35.90 The structure of SAM/SAH riboswitch has been reported in PDB 6HAG [2] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 54 245 0 0 Cis-reg; riboswitch; Published; PMID:20230605; 213 0 \N 0.60557 -8.45977 1600000 461961 104 49 1 -3.96960 0.72079 2013-10-04 02:47:28 2022-10-29 16:55:17 RF01728 STAXI 2130 STAXI RNA Weinberg Z Published; PMID:20230605; 40.50 40.50 40.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 43 163 0 0 Gene; sRNA; Published; PMID:20230605; 66 0 \N 0.56940 -9.90459 1600000 373550 360 153 1 -3.22750 0.71802 2013-10-04 02:47:30 2021-11-19 11:53:19 RF01729 Termite-flg 2131 Termite-flg RNA Weinberg Z Published; PMID:20230605; 40.00 43.90 34.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23 -Z 549862.597050 CM SEQDB 13 2 0 0 Cis-reg; Published; PMID:20230605; 3 0 \N 0.51842 -7.48978 1600000 239526 198 104 1 -3.36510 0.71855 2013-10-04 02:47:31 2019-01-04 15:01:52 RF01730 Termite-leu 2132 Termite-leu RNA Weinberg Z Published; PMID:20230605; 51.00 51.00 50.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 0 0 0 Cis-reg; Published; PMID:20230605; 1 0 \N 0.55138 -6.23364 1600000 214199 217 98 1 -2.93730 0.71877 2013-10-04 02:47:33 2019-01-04 15:01:52 RF01731 TwoAYGGAY 2133 TwoAYGGAY RNA Weinberg Z Published; PMID:20230605; 43.00 43.00 42.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 210 1693 0 0 Cis-reg; Published; PMID:20230605; 185 0 \N 0.52306 -4.29938 1600000 232402 250 168 1 -4.01020 0.71602 2013-10-04 02:47:37 2022-10-29 16:55:17 RF01732 asd 2134 MarS sRNA Weinberg Z Published; PMID:20230605; 84.00 84.80 57.20 Interacts with the 5'UTR of the mga transcript (the multiple virulence gene regulator gene) and was renamed MarS for mag-activating regulatory sRNA. In MarS deletion strains expression of mga and several Mga-activated genes is reduced. This down-regulation of virulence factors leads to increased susceptibility of the deletion strain to phagocytosis, reduced adherence to human keratinocytes. However, the lack of MarS increased bacterial dissemination and tolerance towards oxidative stress.[2] Called SR914400 in [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 31 75 0 0 Gene; sRNA; Published; PMID:20230605; 85 0 \N 0.54436 -9.09290 1600000 338303 295 143 1 -3.60200 0.71807 2013-10-04 02:47:40 2021-07-05 13:43:57 RF01733 atoC 2135 atoC RNA Weinberg Z Published; PMID:20230605; 50.00 58.20 40.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 18 0 0 Cis-reg; Published; PMID:20230605; 17 0 \N 0.55030 -5.58735 1600000 238069 176 93 1 -3.70620 0.71852 2013-10-04 02:47:42 2019-01-04 15:01:52 RF01734 Fluoride 2136 Fluoride riboswitch (crcB) Weinberg Z, Ontiveros-Palacios N Published; PMID:20230605; 32.00 32.00 31.90 Previously known as crcB RNA. The structure of Fluoride riboswitch has been reported in PDB:3VRS, 4EN5, 4ENA, 4ENB, 4ENC, 5KH8 [3,4] crcB; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 289 2093 0 0 Cis-reg; riboswitch; Published; PMID:20230605; 1643 0 \N 0.62355 -4.99843 1600000 189666 198 64 1 -4.12930 0.72074 2013-10-04 02:47:43 2022-10-29 16:55:17 RF01735 epsC 2137 epsC RNA Yang J, Weinberg Z Published; PMID:20230605; 42.00 42.80 33.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 30 216 0 0 Cis-reg; Published; PMID:20230605; 172 0 \N 0.49214 -9.70648 1600000 310387 221 117 1 -3.03160 0.71845 2013-10-04 02:47:46 2021-11-19 11:53:19 RF01736 flg-Rhizobiales 2138 flg-Rhizobiales RNA Corbino K, Weinberg Z Published; PMID:20230605; 55.00 71.40 33.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 36 0 0 Cis-reg; Published; PMID:20230605; 41 0 \N 0.54527 -10.72458 1600000 477085 250 143 1 -2.97370 0.71820 2013-10-04 02:47:48 2019-01-04 15:01:52 RF01737 flpD 2139 flpD RNA Weinberg Z Published; PMID:20230605; 40.00 45.10 33.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 5 0 0 Cis-reg; Published; PMID:20230605; 9 0 \N 0.71108 -3.27441 1600000 372118 116 47 1 -3.04610 0.72917 2013-10-04 02:47:50 2019-01-04 15:01:52 RF01738 gabT 2140 gabT RNA Weinberg Z Published; PMID:20230605; 45.00 49.30 42.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 17 56 0 0 Cis-reg; Published; PMID:20230605; 62 0 \N 0.58581 -3.18755 1600000 333133 131 61 1 -3.74280 0.71919 2013-10-04 02:47:51 2019-01-04 15:01:52 RF01739 glnA 2141 Glutamine riboswitch Weinberg Z, Ontiveros-Palacios N Published; PMID:20230605; 41.00 41.00 40.90 Glutamine riboswitch was first reported in a metagenomic comparative analysis [1], it was later reported that this ncRNA selectively bind glutamine [2] and its structure was later reported in PDB: 5DDP, 5DDQ, 5DDR and 5DDO [3] Previously known as glnA RNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 940 772 0 0 Cis-reg; riboswitch; Published; PMID:20230605; 87 0 \N 0.63700 -4.90381 1600000 256113 145 53 1 -4.01270 0.71917 2013-10-04 02:47:52 2022-10-29 16:55:17 RF01740 gyrA 2142 gyrA RNA Weinberg Z Published; PMID:20230605; 45.00 51.10 33.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 18 86 0 0 Cis-reg; Published; PMID:20230605; 67 0 \N 0.73987 -3.01884 1600000 225809 169 88 1 -3.08320 0.71885 2013-10-04 02:47:58 2019-01-04 15:01:52 RF01742 lactis-plasmid 2144 lactis-plasmid RNA Weinberg Z Published; PMID:20230605; 70.00 73.30 53.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 7 0 0 Gene; sRNA; Published; PMID:20230605; 10 0 \N 0.50533 -5.86327 1600000 229019 205 106 1 -3.07190 0.71859 2013-10-04 02:48:01 2019-01-04 15:01:52 RF01743 leu-phe_leader 1274 leu/phe leader RNA from Lactococcus Weinberg Z Published; PMID:20230605; 70.00 74.30 45.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 7 0 0 Cis-reg; leader; Published; PMID:20230605; 5 0 \N 0.48930 -8.86004 1600000 388133 280 162 1 -2.93850 0.71668 2013-02-01 11:59:06 2019-01-04 15:01:52 RF01744 livK 2145 livK RNA Weinberg Z Published; PMID:20230605; 65.00 78.00 34.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.99 -Z 549862.597050 CM SEQDB 8 18 0 0 Cis-reg; Published; PMID:20230605; 9 0 \N 0.46413 -8.61555 1600000 280469 171 84 1 -3.39130 0.71900 2013-10-04 02:48:04 2019-01-04 15:01:52 RF01745 manA 2146 manA RNA Weinberg Z Published; PMID:20230605; 55.20 55.20 50.90 manA RNA has been located in 5'UTR regions of genes of mannose or fructose metabolism. Has been proposed as a cis-regulatory element and as a riboswitch candidate for his complex secondary structure. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 165 18 0 0 Cis-reg; Published; PMID:20230605; 20 0 \N 0.65409 -7.83370 1600000 317872 509 193 1 -3.28990 0.71297 2013-10-04 02:48:06 2020-09-14 14:04:59 RF01746 mraW 2147 mraW RNA Weinberg Z Published; PMID:20230605; 50.00 50.20 49.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.08 -Z 549862.597050 CM SEQDB 45 457 0 0 Cis-reg; Published; PMID:20230605; 466 0 \N 0.60490 -3.67424 1600000 104210 180 108 1 -3.86620 0.71854 2013-10-04 02:48:09 2019-01-04 15:01:52 RF01747 msiK 2148 msiK RNA Weinberg Z Published; PMID:20230605; 33.00 34.60 29.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18 -Z 549862.597050 CM SEQDB 120 652 0 0 Cis-reg; Published; PMID:20230605; 648 0 \N 0.68407 -4.88406 1600000 172325 125 60 1 -4.45250 0.71926 2013-10-04 02:48:12 2019-01-04 15:01:52 RF01748 nuoG 2149 nuoG RNA Weinberg Z Published; PMID:20230605; 33.00 33.20 32.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.40 -Z 549862.597050 CM SEQDB 31 68 0 0 Cis-reg; Published; PMID:20230605; 82 0 \N 0.58109 -8.31215 1600000 523537 440 44 1 -3.53150 0.72167 2013-10-04 02:48:14 2019-01-04 15:01:52 RF01749 pan 2150 pan motif Weinberg Z Published; PMID:20230605; 36.20 36.30 36.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.77 -Z 549862.597050 CM SEQDB 74 480 0 0 Cis-reg; Published; PMID:20230605; 478 0 \N 0.52352 -6.52858 1600000 232138 338 93 1 -3.32280 0.71855 2013-10-04 02:48:16 2019-01-04 15:01:52 RF01750 ZMP-ZTP 2151 ZMP/ZTP riboswitch Weinberg Z, Ontiveros-Palacios N Published; PMID:20230605; 41.00 41.00 40.90 Previously known as pfl RNA. ZMP is also known as AICAR. ZMP/ZTP riboswitch (pfl riboswitch)was first recognise by a comparative analysis [1] ZMP/ZTP riboswitch selectively binds ZMP and regulates genes associated with purine biosynthesis and one-carbon metabolism [3] The structure of ZMP/ZTP has been reported in [2,3,4,5,6,7] pfl; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 185 1737 0 0 Cis-reg; riboswitch; Published; PMID:20230605; 1308 0 \N 0.47726 -10.45036 1600000 367261 478 86 1 -3.69190 0.71867 2013-10-04 02:48:18 2022-10-29 16:55:17 RF01751 potC 2152 potC RNA Weinberg Z Published; PMID:20230605; 44.00 45.30 41.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25 -Z 549862.597050 CM SEQDB 136 1 0 0 Cis-reg; Published; PMID:20230605; 2 0 \N 0.62325 -3.37609 1600000 218428 147 70 1 -3.80500 0.71915 2013-10-04 02:48:21 2019-01-04 15:01:52 RF01752 psaA 2153 psaA RNA Weinberg Z Published; PMID:20230605; 50.00 52.10 38.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18 -Z 549862.597050 CM SEQDB 31 14 0 0 Cis-reg; Published; PMID:20230605; 20 0 \N 0.61082 -8.81153 1600000 321041 317 195 1 -3.00430 0.71289 2013-10-04 02:48:24 2019-01-04 15:01:52 RF01753 psbNH 2154 psbNH RNA Weinberg Z Published; PMID:20230605; 45.00 47.00 31.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 39 8 0 0 Cis-reg; Published; PMID:20230605; 15 0 \N 0.63518 -8.17083 1600000 525932 131 60 1 -3.61450 0.71912 2013-10-04 02:48:26 2019-01-04 15:01:52 RF01754 radC 2155 radC RNA Weinberg Z Published; PMID:20230605; 40.00 40.10 39.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 148 424 0 0 Cis-reg; Published; PMID:20230605; 128 0 \N 0.47972 -12.15207 1600000 462046 278 148 1 -3.34520 0.71812 2013-10-04 02:48:28 2021-11-19 11:53:19 RF01755 rmf 2156 rmf RNA Weinberg Z Published; PMID:20230605; 45.00 48.30 32.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 72 0 0 Cis-reg; Published; PMID:20230605; 79 0 \N 0.58588 -5.93678 1600000 284839 236 132 1 -3.07450 0.71828 2013-10-04 02:48:32 2019-01-04 15:01:52 RF01756 rne-II 2157 rne-II RNA Weinberg Z Published; PMID:20230605; 50.00 58.30 40.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 74 0 0 Cis-reg; Published; PMID:20230605; 82 0 \N 0.69940 -8.27941 1600000 323910 1010 296 1 -3.90460 0.70613 2013-10-04 02:48:34 2019-01-04 15:01:52 RF01757 sbcD 2158 sbcD RNA Weinberg Z Published; PMID:20230605; 40.00 41.90 39.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 18 0 0 Gene; sRNA; Published; PMID:20230605; 20 0 \N 0.52799 -10.32536 1600000 354524 271 155 1 -2.82070 0.71808 2013-10-04 02:48:35 2019-01-04 15:01:52 RF01758 sucA-II 2159 sucA-II RNA Weinberg Z Published; PMID:20230605; 70.00 132.90 63.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 17 73 0 0 Cis-reg; Published; PMID:20230605; 82 0 \N 0.60030 -9.49777 1600000 347519 344 218 1 -3.40750 0.71088 2013-10-04 02:48:37 2019-01-04 15:01:52 RF01759 sucC 2160 sucC RNA Weinberg Z Published; PMID:20230605; 50.00 61.90 41.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 18 63 0 0 Cis-reg; Published; PMID:20230605; 74 0 \N 0.65156 -3.98935 1600000 224940 152 70 1 -3.24550 0.71890 2013-10-04 02:48:39 2019-01-04 15:01:52 RF01760 traJ-II 2161 traJ-II RNA Weinberg Z Published; PMID:20230605; 40.00 40.60 38.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 47 153 0 0 Cis-reg; Published; PMID:20230605; 146 0 \N 0.55811 -5.61202 1600000 217658 184 104 1 -3.19660 0.71854 2013-10-04 02:48:40 2019-01-04 15:01:52 RF01761 wcaG 2162 wcaG RNA Weinberg Z Published; PMID:20230605; 42.00 42.40 38.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 108 22 0 0 Cis-reg; Published; PMID:20230605; 21 0 \N 0.53363 -8.12131 1600000 289184 183 98 1 -3.64730 0.71850 2013-10-04 02:48:42 2021-11-19 11:53:19 RF01762 whalefall-1 2163 Whalefall-1 RNA Weinberg Z Published; PMID:20230605; 37.00 37.60 35.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 41 0 0 Gene; sRNA; Published; PMID:20230605; 11 0 \N 0.73713 -4.57358 1600000 316002 125 56 1 -3.69510 0.71925 2013-10-04 02:48:53 2019-01-04 15:01:52 RF01763 ykkC-III 1701 Guanidine-III riboswitch Weinberg Z, Ontiveros-Palacios N Published; PMID:20230605; 36.00 36.00 35.80 Although the structure of ykkC-III RNAs does not resemble ykkC/yxkD RNAs, both have a structure complexity that led to the proposal that they represent riboswitches. The ykkC-III motif has a rigidly conserved ACGA sequence within it that resembles a less rigidly conserved ACGA or ACGG sequence found in mini-ykkC RNAs, but it is unknown whether this observation relates to a biological relationship. Biochemical validation has been presented to show that this motif is a third class of guanidine riboswitches [2]. The structure of Guanidine-III riboswitch has been reported in [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 41 662 0 0 Cis-reg; Published; PMID:20230605; 626 0 \N 0.57837 -7.71323 1600000 204017 132 67 1 -4.39010 0.71901 2013-10-04 02:48:55 2022-10-29 16:55:17 RF01764 yjdF 2164 yjdF RNA Weinberg Z Published; PMID:20230605; 45.00 45.20 44.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.00 -Z 549862.597050 CM SEQDB 62 308 0 0 Cis-reg; Published; PMID:20230605; 327 0 \N 0.59015 -2.43965 1600000 189239 447 101 1 -3.67140 0.71847 2013-10-04 02:48:57 2019-01-04 15:01:52 RF01765 srg1 2165 srg1 Gardner PP, Moore B Gardner PP 70.00 144.00 36.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 9 0 0 Gene; Predicted; Gardner PP 11 0 \N 0.60899 -9.00673 1600000 324689 754 556 1 -4.69700 0.70002 2013-10-04 02:48:59 2019-01-04 15:01:52 RF01766 cspA 2166 cspA thermoregulator Moore B Published; PMID:20129052 78.00 78.00 77.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 15 1597 0 0 Cis-reg; thermoregulator; Published; PMID:20129052 923 0 \N 0.67165 -8.82464 1600000 406903 591 428 1 -4.29290 0.70213 2013-10-04 02:49:01 2022-10-29 16:55:17 RF01767 SMK_box_riboswitch 2167 SMK box translational riboswitch (SAM-III) Gardner PP Gardner PP 45.00 45.10 44.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 25 167 0 0 Cis-reg; riboswitch; Published; PMID:18806797; Gardner PP 189 0 \N 0.72442 -2.20069 1600000 216651 183 82 1 -3.57890 0.71884 2013-10-04 02:49:09 2022-10-29 16:55:17 RF01768 flavi_FSE 2488 ribosomal frameshift site Boursnell C Published; PMID:19196463 43.00 43.00 37.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 34 0 0 Cis-reg; frameshift_element; Published; PMID:19196463 9 0 \N 0.61034 -8.35325 1600000 405951 145 62 1 -3.79200 0.71911 2013-10-04 02:49:10 2021-07-05 13:43:57 RF01769 greA 2169 Enterobacteria greA leader Moore B Published; PMID:20920266 60.00 61.40 53.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 25 99 0 0 Cis-reg; leader; Published; PMID:20920266 111 0 \N 0.50759 -9.07611 1600000 304669 225 124 1 -3.31230 0.71822 2013-10-04 02:49:13 2019-01-04 15:01:52 RF01770 rimP 2170 Gammaprotebacteria rimP leader Moore B Published; PMID:20920266 47.00 47.50 46.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 46 240 0 0 Cis-reg; leader; Published; PMID:20920266 266 0 \N 0.47074 -8.55631 1600000 286659 353 111 1 -3.33060 0.71841 2013-10-04 02:49:15 2019-01-04 15:01:52 RF01771 rnk_leader 2171 Enterobacteria rnk leader Moore B Published; PMID:20920266 50.00 53.80 47.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 13 36 0 0 Cis-reg; leader; Published; PMID:20920266 46 0 \N 0.53205 -5.58320 1600000 216709 207 109 1 -3.21700 0.71848 2013-10-04 02:49:17 2019-01-04 15:01:52 RF01772 rnk_pseudo 2172 Pseudomonas rnk leader Moore B Published; PMID:20920266 55.00 59.40 47.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 15 38 0 0 Cis-reg; leader; Published; PMID:20920266 47 0 \N 0.51371 -8.01830 1600000 324031 194 108 1 -3.39630 0.71845 2013-10-04 02:49:19 2019-01-04 15:01:52 RF01773 rpsL_pseudo 2173 Pseudomonas rpsL leader Moore B Published; PMID:20920266 70.00 77.90 67.70 \N rpsL_psuedo; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 72 0 0 Cis-reg; leader; Published; PMID:20920266 76 0 \N 0.55123 -9.79953 1600000 441659 256 128 1 -3.41150 0.71836 2013-10-04 02:49:21 2019-01-04 15:01:52 RF01774 rpsL_ricks 2174 Rickettsia rpsL leader Moore B Published; PMID:20920266 60.00 64.30 48.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 37 -Z 549862.597050 CM SEQDB 7 4 0 0 Cis-reg; leader; Published; PMID:20920266 11 0 \N 0.40222 -7.73115 1600000 262501 272 131 1 -2.98180 0.71808 2013-10-04 02:49:22 2019-01-04 15:01:52 RF01775 RsaOG 2175 RNA S.aureus Orsay G Moore B Published; PMID:20200491; 50.00 66.70 43.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 21 0 0 Gene; sRNA; Published; PMID:20200491; 25 0 \N 0.47434 -8.34638 1600000 282575 274 148 1 -3.10150 0.71796 2013-10-04 02:49:24 2019-01-04 15:01:52 RF01776 RatA 2176 RNA anti-toxin A Moore B Predicted; Clustal; 49.00 49.10 48.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33 -Z 549862.597050 CM SEQDB 16 216 0 0 Gene; antitoxin; Predicted; RNAalifold; 121 0 \N 0.49559 -4.80235 1600000 398379 175 90 1 -3.56620 0.71855 2013-10-04 02:49:26 2019-01-04 15:01:52 RF01778 Evf-2_5p 2497 Embryonic ventral forebrain-2 long ncRNA Moore B, Gardner PP Published; 40.00 45.10 38.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 94 0 0 Gene; lncRNA; Predicted; CMfinder; 94 0 \N 0.46392 -11.20754 1600000 306377 251 142 0 -3.11280 0.71785 2013-10-04 02:49:27 2022-10-29 16:42:08 RF01779 AS1726 2178 AS1726 sRNA Moore B Published; PMID:19555452 50.00 98.90 39.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; Published; PMID:19555452 3 0 \N 0.48240 -8.69706 1600000 333544 171 78 1 -2.99010 0.71893 2013-10-04 02:49:29 2019-01-04 15:01:52 RF01780 AS1890 2178 AS1890 sRNA Moore B Published; PMID:19555452 39.00 39.80 33.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20 -Z 549862.597050 CM SEQDB 2 13 0 0 Gene; Published; PMID:19555452 15 0 \N 0.52183 -7.67637 1600000 264462 215 109 1 -2.88910 0.71860 2013-10-04 02:49:31 2019-01-04 15:01:52 RF01781 ASdes 2178 ASdes TB sRNA Moore B Published; PMID:19555452 40.00 40.10 38.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 26 729 0 0 Gene; sRNA; Published; PMID:19555452 431 0 \N 0.67624 -4.23859 1600000 279454 149 68 1 -3.19330 0.71906 2013-10-04 02:49:33 2019-01-04 15:01:52 RF01782 ASpks 2178 ASpks TB sRNA Moore B Published; PMID:19555452 52.00 52.00 51.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 77 4571 0 0 Gene; antisense; Published; PMID:19555452 375 0 \N 0.53853 -8.21802 1600000 370018 157 75 1 -3.42990 0.71888 2013-10-04 02:49:35 2019-01-04 15:01:52 RF01783 b55 2178 Mycobacterium B11 Moore B Published; PMID:19555452 70.00 85.30 44.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; sRNA; Published; PMID:19555452 3 0 \N 0.50021 -9.19310 1600000 489200 148 61 1 -3.32360 0.72420 2013-10-04 02:49:38 2019-01-04 15:01:52 RF01784 bablM 2179 bablM sRNA Moore B Published; PMID:19531245 38.00 38.50 37.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33 -Z 549862.597050 CM SEQDB 12 10 0 0 Gene; sRNA; Published; PMID:19531245 13 0 \N 0.48411 -4.63299 1600000 310067 156 70 1 -3.56870 0.71890 2013-10-04 02:49:39 2019-01-04 15:01:52 RF01785 blv_FSE 2180 ribosomal frameshift site Boursnell C Published; PMID:15629717 34.00 34.40 33.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Cis-reg; frameshift_element; Published; PMID:15629717 2 0 \N 0.60356 -5.30735 1600000 359089 100 27 1 -2.29390 0.76956 2013-10-04 02:49:42 2019-01-04 15:01:52 RF01786 c-di-GMP-II 2181 Cyclic di-GMP-II riboswitch Weinberg Z, Moore B Predicted; Weinberg Z; 52.00 52.00 51.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 54 532 0 0 Cis-reg; riboswitch; Predicted; Weinberg Z; 292 0 \N 0.65097 -3.02050 1600000 154699 251 85 1 -4.02450 0.71855 2013-10-04 02:49:44 2021-07-05 13:43:57 RF01787 drz-agam-1 2182 drz-agam-1 ribozyme Moore B, Burge S Published; PMID:19965505 37.00 37.00 36.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 9217 0 0 Gene; ribozyme; Published; PMID:19965505 38 0 \N 0.57699 -6.39504 1600000 279775 195 82 1 -3.60030 0.71882 2013-10-04 02:49:46 2019-01-04 15:01:52 RF01788 drz-agam-2-2 2182 drz-agam-2-2 ribozyme Moore B Published; PMID:19965505 38.00 38.30 37.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 2137 0 0 Gene; ribozyme; Published; PMID:19965505 24 0 \N 0.67931 -8.27774 1600000 370417 320 191 1 -3.65910 0.71318 2013-10-04 02:49:50 2019-01-04 15:01:52 RF01789 EBER1 2479 Epstein-Barr virus EBER1 Moore B Published; PMID:17381320 50.00 51.50 35.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 4 0 0 Gene; sRNA; Published; PMID:17381320 4 0 \N 0.56489 -9.17216 1600000 297361 486 166 1 -2.99010 0.71648 2013-10-04 02:49:52 2019-01-04 15:01:52 RF01790 htlv_FSE 2184 ribosomal frameshift site Boursnell C Published; PMID:8416368 45.00 48.40 38.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 8 0 0 Cis-reg; frameshift_element; Published; PMID:8416368 9 0 \N 0.59348 -6.32751 1600000 580741 112 43 1 -3.83300 0.71969 2013-10-04 02:49:53 2019-01-04 15:01:52 RF01791 F6 2178 F6 TB sRNA Moore B Published; PMID:19555452 46.00 47.30 45.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 187 0 0 Gene; sRNA; Published; PMID:19555452 187 0 \N 0.55198 -4.90347 1600000 192527 129 58 1 -3.84530 0.71930 2013-10-04 02:49:55 2019-01-04 15:01:52 RF01792 eiav_FSE 2185 ribosomal frameshift site Boursnell C Published; PMID:3003905 40.00 42.30 36.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 0 0 0 Cis-reg; frameshift_element; Published; PMID:3003905 1 0 \N 0.63789 -8.76575 1600000 806758 104 35 1 -3.58340 0.72454 2013-10-04 02:49:56 2019-01-04 15:01:52 RF01793 ffh 2179 ffh sRNA Moore B, Meyer MM Published; PMID:19531245 35.00 35.00 34.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 89 539 0 0 Gene; sRNA; Published; PMID:19531245 562 0 \N 0.55841 -6.68728 1600000 258761 106 52 1 -4.18800 0.72034 2013-10-04 02:49:58 2019-01-04 15:01:52 RF01794 sok 2412 sok antitoxin (CssrC) Gardner PP, Moore B Published; PMID:17462020 59.00 59.70 57.50 Also identified in Shigella as CssrC [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 91 202 0 0 Gene; antitoxin; Published; PMID:17462020 149 0 \N 0.61139 -8.33308 1600000 319401 355 157 1 -3.10110 0.71761 2013-10-04 02:50:03 2022-10-29 16:55:17 RF01795 FourU 2187 FourU thermometer RNA element Bateman A, Moore B Published; PMID:17630972 60.00 61.90 36.80 FourU is a small thermoregulator element found upstream of the agsA gene in Salmonella species. The four Us occlude the Shine-Dalgarno (SD) sequence by base pairing. It has been suggested that this element is related to that found in Yersina pestis LcrF. Two further potential FourU regulators were found in S. aureus groES and B. melitensis dnaJ [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 16 0 0 Cis-reg; thermoregulator; Published; PMID:17630972; Bateman A 19 0 \N 0.56371 -7.25770 1600000 353448 151 65 1 -3.50990 0.71917 2013-10-04 02:50:06 2022-10-29 16:55:17 RF01796 frnS 1275 Fumarate/nitrate reductase regulator sRNA Moore B Published; PMID:20070527 60.00 65.80 56.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 108 0 0 Gene; sRNA; Published; PMID:20070527 116 0 \N 0.50563 -8.31447 1600000 332501 221 119 1 -3.05370 0.71839 2013-02-01 11:59:08 2019-01-04 15:01:52 RF01797 fstAT 2188 Fst antitoxin sRNA Moore B Predicted; Mafft; 72.00 72.20 71.90 It is located on the opposite strand of SprA1 sRNA (PMID: 22198463). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.77 -Z 549862.597050 CM SEQDB 22 35 0 0 Gene; antitoxin; Predicted; RNAalifold; 33 0 \N 0.55843 -4.97814 1600000 214542 187 94 1 -3.50110 0.71852 2013-10-04 02:50:13 2019-01-04 15:01:52 RF01798 g2 2178 G2 Moore B Published; PMID:19555452 70.00 102.40 42.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; Published; PMID:19555452 3 0 \N 0.53660 -5.73445 1600000 235162 156 67 1 -3.32030 0.72250 2013-10-04 02:50:14 2019-01-04 15:01:52 RF01800 gadd7 2189 growth arrested DNA-damage inducible gene 7 Moore B Published; PMID:2658040 70.00 181.30 41.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 5 0 0 Gene; lncRNA; Predicted; 3 0 \N 0.66986 -8.65412 1600000 289987 986 754 1 -5.04360 0.69823 2013-10-04 02:50:16 2019-01-04 15:01:52 RF01802 HSUR 2190 Herpesvirus saimiri U RNA1/RNA2 Moore B, Daub J Published; PMID:17381320 50.00 53.40 43.80 \N HSUR1 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 2 0 0 Gene; snRNA; Published; PMID:17381320 2 0 \N 0.39036 -9.11482 1600000 272300 256 123 1 -2.79720 0.71811 2013-10-04 02:50:18 2019-01-04 15:01:52 RF01803 GABA3 2191 Editing element of GABA-3 exon 9 Gardner PP, Moore B Gardner PP 57.00 58.40 55.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 52 689 0 0 Cis-reg; Published; PMID:17369310 132 0 \N 0.71737 -2.67387 1600000 346645 131 54 1 -4.14350 0.71946 2013-10-04 02:50:19 2019-01-04 15:01:52 RF01804 Lambda_thermo 2192 Lambda phage CIII thermoregulator element Bateman A, Moore B Published; PMID:2532257 50.00 83.10 38.70 There is an evidence supporting presence of a riboswitch upstream of the thermometer.[2] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 20 0 0 Cis-reg; thermoregulator; Published; PMID:2532257; Bateman A 24 0 \N 0.68327 -4.24266 1600000 298236 141 59 1 -3.71480 0.71928 2013-10-04 02:50:22 2022-10-29 16:55:17 RF01807 GIR1 2193 GIR1 branching ribozyme Gardner PP, Moore B Predicted; Infernal; 100.00 115.90 66.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 12 0 0 0 Gene; ribozyme; Published; PMID:16141078 12 0 \N 0.57192 -9.01150 1600000 309842 370 199 1 -3.61480 0.71232 2013-10-04 02:50:24 2019-01-04 15:01:52 RF01808 MicX 2194 MicX Vibrio cholerae sRNA Gardner PP, Moore B Gardner PP 75.00 96.60 71.50 \N A10 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 30 0 0 Gene; sRNA; Predicted; CMfinder 38 0 \N 0.60974 -7.85346 1600000 320960 317 194 1 -3.31180 0.71287 2013-10-04 02:50:25 2019-01-04 15:01:52 RF01809 symR 2195 SymR antitoxin Moore B Published; PMID:17462020 61.00 62.20 60.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 17 0 0 Gene; antitoxin; Published; PMID:17462020 34 0 \N 0.55663 -6.89869 1600000 282915 163 77 1 -3.81470 0.71906 2013-10-04 02:50:28 2019-01-04 15:01:52 RF01810 pntA 2179 pntA sRNA Moore B Published; PMID:19531245 54.00 54.00 53.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 6 0 0 Gene; sRNA; Published; PMID:19531245 8 0 \N 0.48918 -8.44395 1600000 626799 145 62 1 -3.37110 0.71925 2013-10-04 02:50:30 2019-01-04 15:01:52 RF01811 PtaRNA1 2196 Plasmid transferred anti-sense RNA Moore B Published; PMID:20220307 47.00 48.20 46.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 30 0 0 Gene; antitoxin; Published; PMID:20220307 37 0 \N 0.57572 -6.74747 1600000 278772 155 72 1 -3.24090 0.71903 2013-10-04 02:50:33 2019-01-04 15:01:52 RF01812 Pxr 2197 Pxr regulatory sRNA Moore B Published; PMID:20489016 80.00 81.60 79.70 Downregulates genes responsible for the formation of fruiting bodies in Myxococcus xanthus, inhibiting the transition from growth to development in the presence of abundant nutrients.[1] Two-component system operon (histidine kinase gene and a σ54 response regulator) is associated with production and processing of Pxr sRNA.[2] Folds into 3 steam loops. SL1 and SL 2 are highly conserved across mycobacteria and SL1 is necessary for the regulatory function. However, a conserved eight-base-pair segment of the variable SL3 is necessary for PxR accumulation and multicellular development.[3] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; sRNA; Published; PMID:20489016 6 0 \N 0.50262 -9.04178 1600000 263608 214 109 1 -2.84930 0.71870 2013-10-04 02:50:34 2022-05-06 12:10:05 RF01813 rdlD 2217 rdlD antitoxin Gardner PP, Moore B Predicted; Gardner PP; 50.00 51.20 48.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 52 25 0 0 Gene; antitoxin; Predicted; Gardner PP; 49 0 \N 0.60494 -5.47102 1600000 275368 147 66 1 -3.62580 0.71917 2013-10-04 02:50:36 2019-01-04 15:01:52 RF01814 rhtB 2179 rhtB sRNA Moore B Published; PMID:19531245 55.00 57.00 52.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 9 0 0 Gene; sRNA; Published; PMID:19531245 12 0 \N 0.60786 -1.95137 1600000 199900 170 83 1 -4.01460 0.71883 2013-10-04 02:50:38 2019-01-04 15:01:52 RF01815 rpsB 2179 rpsB sRNA Moore B Published; PMID:19531245 40.00 40.00 39.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 150 0 0 Gene; sRNA; Published; PMID:19531245 150 0 \N 0.55060 -9.58507 1600000 345611 344 144 1 -3.08710 0.71854 2013-10-04 02:50:41 2019-01-04 15:01:52 RF01816 RsaA 2199 RNA Staph. aureus A Moore B Published; PMID:19786493 50.00 61.60 49.80 Represses the translation of the transcriptional regulator MgrA by binding to its mRNA, enhances biofilm formation and decreases bacterial virulence.[2] Other mRNAs, including SsaA-like enzymes involved in peptidoglycan metabolism and the secreted anti-inflammatory FLIPr protein were validated as direct targets of RsaA.[3] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 11 0 0 Gene; sRNA; Published; PMID:19786493 18 0 \N 0.49766 -8.41173 1600000 324439 240 134 1 -3.24970 0.71828 2013-10-04 02:50:43 2022-05-06 12:10:05 RF01817 RsaB 2199 RNA Staph. aureus A Moore B Published; PMID:19786493 55.00 58.50 38.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; sRNA; Published; PMID:19786493 3 0 \N 0.47536 -8.45213 1600000 542076 146 60 1 -2.73330 0.72798 2013-10-04 02:50:44 2019-01-04 15:01:52 RF01818 RsaC 2199 RNA Staph. aureus C Moore B Published; PMID:19786493 100.00 215.30 31.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; sRNA; Published; PMID:19786493 4 0 \N 0.66897 -8.00835 1600000 317893 622 440 1 -4.29810 0.70186 2013-10-04 02:50:46 2019-01-04 15:01:52 RF01819 RsaD 2199 RNA Staph. aureus D Moore B Published; PMID:19786493 50.00 90.40 46.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 17 0 0 Gene; sRNA; Published; PMID:19786493 21 0 \N 0.50521 -9.36924 1600000 321184 324 189 1 -3.47550 0.71346 2013-10-04 02:50:48 2019-01-04 15:01:52 RF01820 RsaE 2199 RNA Staph. aureus E (RoxS) Moore B Published; PMID:19786493 79.00 79.30 78.70 It was shown to be regulated by the presence of nitric oxide (NO). In Bacillus subtilis it controls expression of genes with functions related to oxidative stress and oxidation-reduction reactions and it was renamed RoxS (for related to oxidative stress).[2] ncr22; ncr629 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 15 117 0 0 Gene; sRNA; Published; PMID:19786493 131 0 \N 0.48595 -8.88537 1600000 304409 214 112 1 -3.86420 0.71846 2013-10-04 02:50:49 2021-07-05 13:43:57 RF01821 RsaH 2199 RNA Staph. aureus H Moore B Published; PMID:19786493 50.00 65.70 39.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 14 0 0 Gene; sRNA; Published; PMID:19786493 16 0 \N 0.49292 -7.61446 1600000 280348 232 123 1 -3.20380 0.71836 2013-10-04 02:50:51 2019-01-04 15:01:52 RF01822 RsaJ 2199 RNA Staph. aureus A Moore B Published; PMID:19786493 100.00 287.10 89.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; sRNA; Published; PMID:19786493 4 0 \N 0.62991 -8.67128 1600000 388496 439 287 1 -3.74020 0.70646 2013-10-04 02:50:52 2019-01-04 15:01:52 RF01823 rspL 2179 rpsL sRNA Moore B Published; PMID:19531245 37.00 37.50 36.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 14 0 0 Gene; sRNA; Published; PMID:19531245 16 0 \N 0.57521 -3.58596 1600000 230130 181 88 1 -3.53780 0.71870 2013-10-04 02:50:54 2019-01-04 15:01:52 RF01824 RUF20 2200 RNA of unknown function 20 Moore B Predicted; 60.00 134.70 27.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 9 0 0 Gene; Predicted; WAR 15 0 \N 0.65263 -8.29270 1600000 364642 677 425 1 -3.86360 0.70211 2013-10-04 02:50:57 2019-01-04 15:01:52 RF01825 RUF21 2200 RNA of unknown function 21 Moore B Predicted; 60.00 139.10 50.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 9 0 0 Gene; Predicted; WAR 13 0 \N 0.48145 -11.53101 1600000 381232 1087 690 1 -4.59400 0.69866 2013-10-04 02:50:58 2019-01-04 15:01:52 RF01826 SAM_V 2201 SAM-V riboswitch Moore B, Ontiveros-Palacios N Published; PMID:19531245 41.00 46.20 39.80 SAM-V riboswitch is a cis-regulatory element that was recognised in marine bacteria [1,2] it recognise S-adenosylmethione (SAM). The binding of SAM leads to the association of the triplex third strand in the aptamer of SAM-V riboswitch that stabilizes a short helix and occludes the ribosome binding site. SAM-V riboswitch structure was reported in PDB:6FZ0 [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 12 0 0 Cis-reg; riboswitch; Published; PMID:19531245 12 0 \N 0.49500 -7.72177 1600000 322256 148 66 1 -3.57700 0.71897 2013-10-04 02:51:02 2022-10-29 16:55:17 RF01827 SAR11_0636 2179 SAR11_0636 sRNA Moore B Published; PMID:19531245 67.00 68.10 66.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 8 0 0 Gene; sRNA; Published; PMID:19531245 15 0 \N 0.54701 -3.38605 1600000 199251 185 90 1 -3.31450 0.71868 2013-10-04 02:51:05 2019-01-04 15:01:52 RF01828 SprD 2202 Small pathogenicity island RNA D Moore B Published; PMID:20532214 100.00 160.00 42.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 8 0 0 Gene; sRNA; Published; PMID:20532214 10 0 \N 0.57173 -8.91268 1600000 388451 260 142 1 -3.22780 0.71825 2013-10-04 02:51:10 2019-01-04 15:01:52 RF01829 sR6 1264 sR6 snoRNA Moore B Published; PMID:10775111 60.00 89.20 35.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Mfold; Moore B 2 0 \N 0.47971 -9.00598 1600000 551609 137 53 1 -2.93570 0.72863 2013-10-04 02:51:11 2019-01-04 15:01:52 RF01830 StyR-44 1236 Salmonella enterica Typhi npcRNA 44 Moore B Published; PMID:20460466 54.00 54.00 53.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.57 -Z 549862.597050 CM SEQDB 34 421 0 0 Gene; Predicted; CMfinder 124 0 \N 0.46968 -7.97956 1600000 286424 204 107 1 -3.13090 0.71838 2013-10-04 02:51:12 2019-01-04 15:01:52 RF01831 THF 2203 THF riboswitch Weinberg Z, Ames T, Ontiveros-Palacios N Published; PMID:20659680 36.00 36.70 34.80 Tetrahydrofolate (THF) riboswitch was first reported for Ames et al. [1] as an RNA motif in 5' untranslated (5'-UTR)regions of folate transport and biosynthesis genes in Firmicutes genomes. The structure of THF riboswitch has been reported in [2,3,4], it presents an inverted three-way junctional architecture. THF riboswitch presents a pseudoknot that joins P1-P2 and the loop of P3 and two THF binding. Tetrahydrofolate riboswitch structure is reported in PDB: 4LVV, 4LVW, 4LVX, 4LVY, 4LVZ, 4LW0 [4], 3SD3 [3], 3SUH, 3SUX, 3SUY [2], 6Q57 and 7KD1. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 101 595 0 0 Cis-reg; riboswitch; Published; PMID:20659680 554 0 \N 0.66579 -2.95694 1600000 230244 245 99 1 -3.60010 0.71866 2013-10-04 02:51:16 2022-10-29 16:55:17 RF01832 ROSE_2 1694 Repression of heat shock gene expression (ROSE) element Bateman A, Moore B Published; PMID:11726689 65.00 65.00 64.40 This family represents a 5' UTR cis-regulatory element found in heat shock mRNAs and is known as the ROSE (repression of heat shock gene expression) element. The ROSE element is a negative regulator of heat shock gene expression. The secondary structure is thought to be regulated by temperature. This regulation blocks access to the ribosome binding site under normal conditions. During heat shock however, the structure changes freeing the ribosome binding site and allowing expression to occur [1,2]. This family includes predicted members of the family from gamma-proteobacteria. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 28 0 0 Cis-reg; thermoregulator; Published; PMID:16438677; Bateman A 42 0 \N 0.63404 -4.50046 1600000 222684 158 73 1 -3.76190 0.71895 2013-10-04 02:51:18 2022-10-29 16:55:17 RF01833 astro_FSE 2204 ribosomal frameshift site Boursnell C Published; PMID:8248142 70.00 76.30 44.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 1 0 0 Cis-reg; frameshift_element; Published; PMID:8248142 4 0 \N 0.67768 -7.01888 1600000 362744 135 55 1 -3.84010 0.71922 2013-10-04 02:51:20 2019-01-04 15:01:52 RF01834 fiv_FSE 2205 ribosomal frameshift site Boursnell C Published; PMID:1310175 53.00 55.80 38.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 0 0 0 Cis-reg; frameshift_element; Published; PMID:1310175 1 0 \N 0.57774 -10.14970 1600000 899341 104 35 1 -3.36970 0.72451 2013-10-04 02:51:22 2019-01-04 15:01:52 RF01835 HIV_FS2 2206 ribosomal frameshift site Boursnell C Published; PMID:1575083 44.00 47.20 43.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 19 3 0 0 Cis-reg; frameshift_element; Published; PMID:1575083 3 0 \N 0.66205 -3.59412 1600000 299159 115 45 1 -3.89750 0.71968 2013-10-04 02:51:24 2019-01-04 15:01:52 RF01836 weev_FSE 2207 ribosomal frameshift site Boursnell C Published; PMID:19895695 40.00 40.60 39.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 3 0 0 Cis-reg; frameshift_element; Published; PMID:19895695 6 0 \N 0.52696 -6.67043 1600000 731982 92 27 1 -3.23230 0.73647 2013-10-04 02:51:25 2019-01-04 15:01:52 RF01837 toga_FSE 2208 togavirus ribosomal frameshift element Boursnell C Published; PMID:18822126 40.00 50.00 37.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 0 0 0 Cis-reg; frameshift_element; Published; PMID:18822126 2 0 \N 0.62528 -4.61666 1600000 434192 100 29 1 -2.91410 0.74324 2013-10-04 02:51:27 2019-01-04 15:01:52 RF01838 sobemo_FSE 2209 sobemovirus ribosomal frameshift elemental Boursnell C Published; PMID:10848968 55.00 57.40 35.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 4 0 0 Cis-reg; frameshift_element; Published; PMID:10848968 5 0 \N 0.56167 -7.01963 1600000 197854 164 79 1 -3.79230 0.71878 2013-10-04 02:51:28 2019-01-04 15:01:52 RF01839 eeev_FSE 2210 eastern equine encephalitis ribosomal frameshift element Boursnell C Published; PMID:18822126 80.00 87.50 54.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 0 0 0 Cis-reg; frameshift_element; Published; PMID:18822126 1 0 \N 0.55615 -7.66895 1600000 316665 162 73 1 -3.46910 0.71886 2013-10-04 02:51:30 2019-01-04 15:01:52 RF01840 ovine_lenti_FSE 2211 ribosomal frameshift element Boursnell C Published; PMID:15629717 45.00 51.10 38.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 1 0 0 Cis-reg; frameshift_element; Published; PMID:15629717 4 0 \N 0.55334 -9.27798 1600000 586622 132 54 1 -3.75930 0.71925 2013-10-04 02:51:32 2019-01-04 15:01:52 RF01841 veev_FSE 2212 venezuelan equine encephalitis virus ribosomal frameshift element Boursnell C Published; PMID:18822126 55.00 78.00 52.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 0 0 0 Cis-reg; frameshift_element; Published; PMID:18822126 1 0 \N 0.56242 -6.84220 1600000 308525 158 71 1 -3.48510 0.71892 2013-10-04 02:51:33 2019-01-04 15:01:52 RF01842 mycoplasma_FSE 2213 mycoplasma ribosomal frameshift element Boursnell C Published; PMID:7476162 88.00 88.50 46.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 24 0 0 Cis-reg; frameshift_element; Published; PMID:7476162 4 0 \N 0.44736 -4.75166 1600000 310123 183 87 1 -3.06520 0.71855 2013-10-04 02:51:35 2019-01-04 15:01:52 RF01843 neisseria_FSE 2214 neiserria ribosomal frameshift element Boursnell C Published; PMID:11943474 50.00 57.60 34.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 2 0 0 Cis-reg; frameshift_element; Published; PMID:11943474 6 0 \N 0.69108 -3.79442 1600000 391899 113 40 1 -3.59500 0.72378 2013-10-04 02:51:36 2019-01-04 15:01:52 RF01844 SmY 2215 SmY spliceosomal RNA Jones T, Moore B, Daub J, Marz M Published; PMID:19106623 39.00 39.80 37.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 61 261 0 0 Gene; snRNA; splicing; Published; PMID:19106623 42 0 \N 0.58430 -8.04167 1600000 256117 149 80 1 -4.20330 0.71873 2013-10-04 02:51:38 2019-01-04 15:01:52 RF01845 enod40 2216 Early nodulin 40 Gardner PP Published; PMID:17452360 45.00 50.00 44.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 35 125 0 0 Gene; Published; PMID:17452360 72 0 \N 0.52897 -11.54489 1600000 453993 500 269 1 -3.47950 0.70727 2013-10-04 02:51:39 2019-01-04 15:01:52 RF01846 Fungi_U3 1312 Fungal small nucleolar RNA U3 Gardner PP, Marz M Published; PMID:19875933 95.00 96.10 91.80 Small nucleolar RNAs (snoRNAs) are involved in the processing and modification of rRNA in the nucleolus. There are two main classes of snoRNAs: the box C/D class, and the box H/ACA class. U3 snoRNA is a member of the box C/D class. Indeed, the box C/D element is a subset of the six short sequence elements found in all U3 snoRNAs, namely boxes A, A', B, C, C', and D. The U3 snoRNA secondary structure is characterised by a small 5' domain (with boxes A and A'), and a larger 3' domain (with boxes B, C, C', and D), the two domains being linked by a single-stranded hinge. Boxes B and C form the B/C motif, which appears to be exclusive to U3 snoRNAs, and boxes C' and D form the C'/D motif. The latter is functionally similar to the C/D motifs found in other snoRNAs. The 5' domain and the hinge region act as a pre-rRNA-binding domain. The 3' domain has conserved protein-binding sites. Both the box B/C and box C'/D motifs are sufficient for nuclear retention of U3 snoRNA. The box C'/D motif is also necessary for nucleolar localisation, stability and hyper-methylation of U3 snoRNA. Both box B/C and C'/D motifs are involved in specific protein interactions and are necessary for the rRNA processing functions of U3 snoRNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.23 -Z 549862.597050 CM SEQDB 66 577 0 0 Gene; snRNA; snoRNA; CD-box; Published; PMID:19875933 360 0 \N 0.64339 -9.13412 1600000 467174 724 276 1 -4.34560 0.70709 2013-10-04 02:51:41 2021-07-05 13:43:57 RF01847 Plant_U3 1312 Plant small nucleolar RNA U3 Gardner PP Published; PMID:19875933; Gardner PP 80.00 80.30 79.80 Small nucleolar RNAs (snoRNAs) are involved in the processing and modification of rRNA in the nucleolus. There are two main classes of snoRNAs: the box C/D class, and the box H/ACA class. U3 snoRNA is a member of the box C/D class. Indeed, the box C/D element is a subset of the six short sequence elements found in all U3 snoRNAs, namely boxes A, A', B, C, C', and D. The U3 snoRNA secondary structure is characterised by a small 5' domain (with boxes A and A'), and a larger 3' domain (with boxes B, C, C', and D), the two domains being linked by a single-stranded hinge. Boxes B and C form the B/C motif, which appears to be exclusive to U3 snoRNAs, and boxes C' and D form the C'/D motif. The latter is functionally similar to the C/D motifs found in other snoRNAs. The 5' domain and the hinge region act as a pre-rRNA-binding domain. The 3' domain has conserved protein-binding sites. Both the box B/C and box C'/D motifs are sufficient for nuclear retention of U3 snoRNA. The box C'/D motif is also necessary for nucleolar localisation, stability and hyper-methylation of U3 snoRNA. Both box B/C and C'/D motifs are involved in specific protein interactions and are necessary for the rRNA processing functions of U3 snoRNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18.66 -Z 549862.597050 CM SEQDB 24 1185 0 0 Gene; snRNA; snoRNA; CD-box; Published; PMID:19875933; Gardner PP 92 0 \N 0.69853 -8.21730 1600000 415983 334 221 1 -3.52670 0.71053 2013-10-04 02:51:43 2021-07-05 13:43:57 RF01848 ACEA_U3 1312 ACEA small nucleolar RNA U3 Gardner PP Published; PMID:19875933 55.00 55.00 54.90 Small nucleolar RNAs (snoRNAs) are involved in the processing and modification of rRNA in the nucleolus. There are two main classes of snoRNAs: the box C/D class, and the box H/ACA class. U3 snoRNA is a member of the box C/D class. Indeed, the box C/D element is a subset of the six short sequence elements found in all U3 snoRNAs, namely boxes A, A', B, C, C', and D. The U3 snoRNA secondary structure is characterised by a small 5' domain (with boxes A and A'), and a larger 3' domain (with boxes B, C, C', and D), the two domains being linked by a single-stranded hinge. Boxes B and C form the B/C motif, which appears to be exclusive to U3 snoRNAs, and boxes C' and D form the C'/D motif. The latter is functionally similar to the C/D motifs found in other snoRNAs. The 5' domain and the hinge region act as a pre-rRNA-binding domain. The 3' domain has conserved protein-binding sites. Both the box B/C and box C'/D motifs are sufficient for nuclear retention of U3 snoRNA. The box C'/D motif is also necessary for nucleolar localisation, stability and hyper-methylation of U3 snoRNA. Both box B/C and C'/D motifs are involved in specific protein interactions and are necessary for the rRNA processing functions of U3 snoRNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 28 123 0 0 Gene; snRNA; snoRNA; CD-box; Published; PMID:19875933 94 0 \N 0.55628 -9.19641 1600000 345800 496 220 1 -3.76690 0.71055 2013-10-04 02:51:46 2021-07-05 13:43:57 RF01849 alpha_tmRNA 1321 Alphaproteobacteria transfer-messenger RNA Gardner PP Published; PMID:19617710 50.00 50.00 49.80 Bacterial tmRNA, also known as 10Sa RNA or SsrA, is named for its dual tRNA and mRNA-like properties. Its role is to liberate the mRNA from a stalled ribosome. To accomplish this part of the tmRNA is used as a reading frame that ends in a translation stop signal. The broken mRNA is replaced in the ribosome by the tmRNA and translation of the tmRNA leads to addition of a proteolysis tag to the incomplete protein enabling recognition by a protease. Recently a number of permuted tmRNA genes have been found encoded in two parts. tmRNAs have been identified in eubacteria and some chloroplasts but are absent from archaeal and eukaryote nuclear genomes. 10Sa_RNA; SsrA; tmRNA cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 16.48 -Z 549862.597050 CM SEQDB 111 831 0 0 Gene; Published; PMID:19617710 890 0 \N 0.68481 -11.25656 1600000 516306 2019 338 1 -3.96260 0.70444 2013-10-04 02:51:49 2021-07-05 13:43:57 RF01850 beta_tmRNA 1321 Betaproteobacteria transfer-messenger RNA Gardner PP Published; PMID:19617710 84.00 84.90 83.10 Bacterial tmRNA, also known as 10Sa RNA or SsrA, is named for its dual tRNA and mRNA-like properties. Its role is to liberate the mRNA from a stalled ribosome. To accomplish this part of the tmRNA is used as a reading frame that ends in a translation stop signal. The broken mRNA is replaced in the ribosome by the tmRNA and translation of the tmRNA leads to addition of a proteolysis tag to the incomplete protein enabling recognition by a protease. Recently a number of permuted tmRNA genes have been found encoded in two parts. tmRNAs have been identified in eubacteria and some chloroplasts but are absent from archaeal and eukaryote nuclear genomes. 10Sa_RNA; SsrA; tmRNA cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 34 0 0 Gene; Published; PMID:19617710 39 0 \N 0.77142 -8.64831 1600000 424064 673 331 1 -4.34750 0.70468 2013-10-04 02:51:56 2021-07-05 13:43:57 RF01851 cyano_tmRNA 1321 Cyanobacteria transfer-messenger RNA Gardner PP Published; PMID:19617710 70.00 70.00 67.50 Bacterial tmRNA, also known as 10Sa RNA or SsrA, is named for its dual tRNA and mRNA-like properties. Its role is to liberate the mRNA from a stalled ribosome. To accomplish this part of the tmRNA is used as a reading frame that ends in a translation stop signal. The broken mRNA is replaced in the ribosome by the tmRNA and translation of the tmRNA leads to addition of a proteolysis tag to the incomplete protein enabling recognition by a protease. Recently a number of permuted tmRNA genes have been found encoded in two parts. tmRNAs have been identified in eubacteria and some chloroplasts but are absent from archaeal and eukaryote nuclear genomes. 10Sa_RNA; SsrA; tmRNA cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 27 21 0 0 Gene; Published; PMID:19617710 42 0 \N 0.70300 -8.84920 1600000 402190 491 288 1 -4.22050 0.70650 2013-10-04 02:52:01 2021-07-05 13:43:57 RF01852 tRNA-Sec 1306 Selenocysteine transfer RNA Gardner PP Gardner PP 47.00 47.00 46.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.39 -Z 549862.597050 CM SEQDB 109 2250 0 0 Gene; tRNA; Published; PMID:10682860 2039 0 \N 0.59769 -5.29381 1600000 292574 164 91 1 -3.85580 0.71862 2013-10-04 02:52:03 2021-07-05 13:43:57 RF01853 mtDNA_ssA 2454 Mitochondrial DNA control region secondary structure A Gardner PP, Moore B Gardner PP; 40.00 40.00 39.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 53 195 0 0 Gene; antisense; Published; PMID:18845547 39 0 \N 0.49628 -4.51282 1600000 256561 192 106 1 -3.17280 0.71857 2013-10-04 02:52:21 2019-01-04 15:01:52 RF01854 Bacteria_large_SRP 1315 Bacterial large signal recognition particle RNA Gardner PP Published; PMID:19838050 60.00 60.00 59.90 The signal recognition particle (SRP) is a universally conserved ribonucleoprotein involved in the co-translational targeting of proteins to membranes. The eukaryotic SRP consists of a 300-nucleotide 7S RNA (RFAM:RF00017) and six proteins: SRPs 72, 68, 54, 19, 14, and 9. Archaeal SRP consists of a 7S RNA and homologues of the eukaryotic SRP19 and SRP54 proteins. In most bacteria, the SRP consists of a 4.5S RNA and the Ffh protein (a homologue of the eukaryotic SRP54 protein). Some Gram-positive bacteria (e.g. Bacillus subtilis) have a longer eukaryote-like SRP RNA that includes an Alu domain [2]. The Alu domain of the longer SRP RNAs is not included in this model and therefore the reported bounds of some members are incorrect. The Signal Recognition Particle Database (SRPDB) [1] provides compilations of SRP components, with phylogenetic data and structural illustrations. SRP_bact_l; SRP_bact cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.00 -Z 549862.597050 CM SEQDB 92 1051 0 0 Gene; Published; PMID:19838050 1089 0 \N 0.45950 -10.02780 1600000 257958 693 255 1 -3.73820 0.70833 2013-10-04 02:52:55 2021-07-05 13:43:57 RF01855 Plant_SRP 1315 Plant signal recognition particle RNA Gardner PP Published; PMID:19838050 105.00 105.10 104.90 \N SRP_euk_arch cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 63 1335 0 0 Gene; Published; PMID:19838050 100 0 \N 0.69593 -9.36073 1600000 526674 434 305 1 -3.95740 0.70581 2013-10-04 02:52:58 2019-01-04 15:01:52 RF01856 Protozoa_SRP 1315 Protozoan signal recognition particle RNA Gardner PP Published; PMID:19838050 65.00 65.00 64.90 \N SRP_euk_arch; 7SL cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.96 -Z 549862.597050 CM SEQDB 18 68 0 0 Gene; Published; PMID:19838050 66 0 \N 0.55362 -8.71569 1600000 362783 452 241 1 -3.99860 0.70914 2013-10-04 02:53:10 2021-07-05 13:43:57 RF01857 Archaea_SRP 1315 Archaeal signal recognition particle RNA Gardner PP Published; PMID:19838050 89.00 89.00 88.90 \N SRP_euk_arch cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 53 291 0 0 Gene; Published; PMID:19838050 334 0 \N 0.60192 -10.82988 1600000 560582 435 318 1 -4.05290 0.70531 2013-10-04 02:53:30 2021-07-05 13:43:57 RF01858 RsaF 2199 RNA Staph. aureus F Moore B Published; PMID:19786493 60.00 65.20 49.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 1 0 0 Gene; sRNA; Published; PMID:19786493 5 0 \N 0.59362 -5.27547 1600000 288846 228 119 1 -2.70140 0.71830 2013-10-04 02:53:32 2019-01-04 15:01:52 RF01859 Phe_leader 2218 Phenylalanine leader peptide Gardner PP Predicted; CMfinder 55.00 55.00 54.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.86 -Z 549862.597050 CM SEQDB 71 296 0 0 Cis-reg; leader; Predicted; CMfinder 232 0 \N 0.51068 -6.82533 1600000 238396 244 125 1 -3.19060 0.71855 2013-10-04 02:53:34 2019-01-04 15:01:52 RF01860 Afu_455 1264 A. fumigatus snoRNA Afu_455 Osuch I INFERNAL 48.00 48.50 44.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 273 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 268 0 \N 0.48124 -9.45651 1600000 261929 182 92 0 -3.62740 0.71840 2013-10-04 02:53:41 2019-01-04 15:01:52 RF01861 TB9Cs1H1 2411 Trypanosomatid snoRNA TB9Cs1H1 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 55.00 59.10 43.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.00 -Z 549862.597050 CM SEQDB 4 67 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 14 0 \N 0.60837 -5.72226 1600000 368575 144 63 1 -3.58430 0.72052 2013-10-04 02:53:42 2019-01-04 15:01:52 RF01862 TB10Cs4H2 2411 Trypanosomatid snoRNA TB10Cs4H2 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 50.00 55.10 35.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.49 -Z 549862.597050 CM SEQDB 4 32 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 11 0 \N 0.58994 -5.46416 1600000 247470 149 67 1 -3.30850 0.72129 2013-10-04 02:53:44 2019-01-04 15:01:52 RF01863 TB10Cs2H2 2411 Trypanosomatid snoRNA TB10Cs2H2 Doniger T, Michaeli S, Unger R, Osuch I Predicted; WAR; 50.00 66.70 48.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 3 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR; 2 0 \N 0.63155 -4.27875 1600000 248617 155 67 1 -3.38780 0.71904 2013-10-04 02:53:46 2019-01-04 15:01:52 RF01864 plasmodium_snoR21 1264 small nucleolar RNA snoR21 Osuch I INFERNAL 90.00 126.50 70.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 24 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 26 0 \N 0.44309 -7.20927 1600000 437832 261 145 1 -2.80710 0.71804 2013-10-04 02:53:47 2022-10-29 16:55:16 RF01865 Vg1_ribozyme 2219 Manganese dependent ribozyme in Vg1 mRNA Osuch I INFERNAL 90.00 108.40 39.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 1 0 0 Gene; ribozyme; Published; PMID:18753150 3 0 \N 0.44358 -8.63319 1600000 331896 252 142 1 -3.22210 0.71814 2013-10-04 02:53:49 2019-01-04 15:01:52 RF01866 ceN33 1264 C. elegans snoRNA ceN33 Osuch I INFERNAL 75.00 89.30 41.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.72 -Z 549862.597050 CM SEQDB 5 7 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; Osuch I 7 0 \N 0.64402 -4.64627 1600000 249964 224 118 1 -3.25650 0.71809 2013-10-04 02:53:51 2019-01-04 15:01:52 RF01867 CC2171 2085 caulobacter sRNA CC2171 Osuch I INFERNAL 75.00 75.20 74.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 55 0 0 Gene; sRNA; Predicted;RNAalifold; 67 0 \N 0.56524 -10.25774 1600000 381547 387 159 1 -3.21280 0.71738 2013-10-04 02:53:52 2022-10-29 16:55:17 RF01871 MALAT1 2222 Metastasis associated lung adenocarcinoma transcript 1 Eberhardt R Eberhardt R 70.00 72.40 68.90 MALAT 1 (metastasis associated lung adenocarcinoma transcript 1) is also known as NEAT2 (noncoding nuclear-enriched abundant transcript 2). It is a large, infrequently spliced RNA, which is highly conserved amongst mammals. It is highly expressed in the nucleus [1]. It is associated with metastasis, and positively regulates cell motility via the transcriptional and/or post-transcriptional regulation of motility-related genes [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 38.00 -Z 549862.597050 CM SEQDB 17 39 0 0 Gene; lncRNA; Predicted; RNAz; Eberhardt R 41 0 \N 0.41259 -9.46860 1600000 286978 193 95 0 -3.09210 0.71836 2013-10-04 02:53:59 2019-01-04 15:01:52 RF01872 MEG3_2 2221 Maternally expressed 3 conserved region 2 Eberhardt R Eberhardt R 60.00 63.70 53.60 MEG3 (maternally expressed 3) is a maternally expressed, imprinted noncoding RNA gene. At least 12 different isoforms of MEG3 are generated by alternative splicing [1]. Expression of MEG3 is lost in cancer cells [1,2]. It acts as a growth suppressor in tumour cells, and activates p53 [2,3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.82 -Z 549862.597050 CM SEQDB 16 37 0 0 Gene; lncRNA; Predicted; RNAz; Eberhardt R 40 0 \N 0.50998 -10.29545 1600000 286395 202 105 0 -3.12510 0.71821 2013-10-04 02:54:01 2019-01-04 15:01:52 RF01873 PISRT1 2223 Polled intersex syndrome regulated transcript 1 Eberhardt R Predicted; CMfinder; Eberhardt R 70.00 70.60 67.30 PISRT1 (polled intersex syndrome regulated transcript 1) is a noncoding RNA. It has been implicated in the polled intersex (PIS) mutation in goats [1]. It has been shown not to be involved in sex determination in the rodent Ellobius lutescens [2] and in dogs [3], and is unlikely to be involved in sex-specific gonad differentiation in mice [4]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34.00 -Z 549862.597050 CM SEQDB 18 38 0 0 Gene; lncRNA; Predicted; CMfinder; 42 0 \N 0.43061 -8.79476 1600000 303849 204 107 0 -2.89390 0.71819 2013-10-04 02:54:03 2019-01-04 15:01:52 RF01874 MIAT_exon1 2224 Myocardial infarction associated transcript exon 1 Eberhardt R Predicted; CMfinder; Eberhardt R 110.00 117.80 61.80 MIAT (myocardial infarction associated transcript), also known as RNCR2 (retinal non-coding RNA 2) or Gomafu, is a noncoding RNA. Single nucleotide polymorphisms (SNPs) in MIAT are associated with a risk of myocardial infarction [1]. It is expressed in neurons, and located in the nucleus [2]. It plays a role in the regulation of retinal cell fate specification [3]. RNCR2; Gomafu cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 45.83 -Z 549862.597050 CM SEQDB 10 33 0 0 Gene; lncRNA; Predicted; CMfinder; 36 0 \N 0.28162 -21.75017 1600000 535705 244 135 0 -3.14850 0.71785 2013-10-04 02:54:05 2019-01-04 15:01:52 RF01875 MIAT_exon5_1 2224 Myocardial infarction associated transcript exon 5 conserved region 1 Eberhardt R, Burge S Predicted; WAR; Eberhardt R 100.00 131.20 67.00 MIAT (myocardial infarction associated transcript), also known as RNCR2 (retinal non-coding RNA 2) or Gomafu, is a noncoding RNA. Single nucleotide polymorphisms (SNPs) in MIAT are associated with a risk of myocardial infarction [1]. It is expressed in neurons, and located in the nucleus [2]. It plays a role in the regulation of retinal cell fate specification [3]. RNCR2; Gomafu; MIAT cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.64 -Z 549862.597050 CM SEQDB 9 36 0 0 Gene; lncRNA; Predicted; WAR; 40 0 \N 0.40890 -13.51438 1600000 304001 261 146 0 -2.93220 0.71773 2013-10-04 02:54:06 2019-01-04 15:01:52 RF01876 MIAT_exon5_2 2224 Myocardial infarction associated transcript exon 5 conserved region 2 Eberhardt R Predicted; WAR; Eberhardt R 75.00 81.20 48.70 MIAT (myocardial infarction associated transcript), also known as RNCR2 (retinal non-coding RNA 2) or Gomafu, is a noncoding RNA. Single nucleotide polymorphisms (SNPs) in MIAT are associated with a risk of myocardial infarction [1]. It is expressed in neurons, and located in the nucleus [2]. It plays a role in the regulation of retinal cell fate specification [3]. RNCR2; Gomafu cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.44 -Z 549862.597050 CM SEQDB 10 37 0 0 Gene; lncRNA; Predicted; WAR; 40 0 \N 0.58800 -9.41498 1600000 396366 171 83 0 -3.32560 0.71847 2013-10-04 02:54:08 2019-01-04 15:01:52 RF01877 MIAT_exon5_3 2224 Myocardial infarction associated transcript exon 5 conserved region 3 Eberhardt R Predicted; WAR; Eberhardt R 90.00 93.30 62.50 MIAT (myocardial infarction associated transcript), also known as RNCR2 (retinal non-coding RNA 2) or Gomafu, is a noncoding RNA. Single nucleotide polymorphisms (SNPs) in MIAT are associated with a risk of myocardial infarction [1]. It is expressed in neurons, and located in the nucleus [2]. It plays a role in the regulation of retinal cell fate specification [3]. RNCR2; Gomafu cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 16.26 -Z 549862.597050 CM SEQDB 16 37 0 0 Gene; lncRNA; Predicted; WAR; 42 0 \N 0.63421 -14.55412 1600000 895293 536 382 0 -4.03180 0.70305 2013-10-04 02:54:09 2019-01-04 15:01:52 RF01879 TUSC7 1276 Non-coding RNA LOC285194 Eberhardt R Eberhardt R 65.00 91.50 47.20 LOC285194 is a non-coding RNA which is often deleted in osteosarcoma. Deletion of this gene is associated with poor survival of osteosarcoma patients. It may act as a growth suppressor in osteoblasts [1]. LOC285194; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.49 -Z 742849.287494 --mxsize 128 CM SEQDB 25 37 0 0 Gene; lncRNA; Predicted; RNAz; Eberhardt R 47 0 \N 0.39335 -14.35634 1600000 338639 311 165 0 -3.06070 0.71609 2013-10-04 02:54:13 2021-07-05 13:43:57 RF01880 Xist_exon1 2469 X-chromosome inactivation gene exon 1 Gardner PP, Eberhardt R Gardner PP 50.00 56.10 39.70 Xist is an RNA gene on the X chromosome of the placental mammals that acts as major effector of the X inactivation process. The Xist RNA, a large (17 kb in humans) [1] transcript, is expressed on the inactive chromosome and not on the active one. It is processed similarly to mRNAs, through splicing and polyadenylation, however, it remains untranslated. It has been suggested that this RNA gene evolved at least partly from a protein coding gene that became a pseudogene [2]. The inactive X is coated with this transcript, which is essential for the inactivation. X lacking Xist will not be inactivated, while duplication of the Xist gene on another chromosome causes inactivation of that chromosome. This Xist exon was identified in a screen for conserved and structured elements in the human genome [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18.72 -Z 549862.597050 CM SEQDB 24 31 0 0 Gene; lncRNA; Predicted; RNAz; Gardner PP 44 0 \N 0.72951 -6.85076 1600000 368137 166 85 0 -3.62350 0.71849 2013-10-04 02:54:15 2019-01-04 15:01:52 RF01881 Xist_exon4 2469 X-chromosome inactivation gene exon 4 Gardner PP, Eberhardt R Gardner PP 100.00 107.60 47.40 Xist is an RNA gene on the X chromosome of the placental mammals that acts as major effector of the X inactivation process. The Xist RNA, a large (17 kb in humans) [1] transcript, is expressed on the inactive chromosome and not on the active one. It is processed similarly to mRNAs, through splicing and polyadenylation, however, it remains untranslated. It has been suggested that this RNA gene evolved at least partly from a protein coding gene that became a pseudogene [2]. The inactive X is coated with this transcript, which is essential for the inactivation. X lacking Xist will not be inactivated, while duplication of the Xist gene on another chromosome causes inactivation of that chromosome. This Xist exon was identified in a screen for conserved and structured elements in the human genome [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.43 -Z 549862.597050 CM SEQDB 25 35 0 0 Gene; lncRNA; Predicted; RNAz; Gardner PP 45 0 \N 0.54281 -10.54189 1600000 296089 231 126 0 -3.24100 0.71803 2013-10-04 02:54:16 2019-01-04 15:01:52 RF01882 TUG1_1 2227 Taurine upregulated gene 1 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 80.00 84.20 68.70 TUG1 (taurine upregulated gene 1) is a long non-coding RNA expressed in retina and brain. It was first identified in a screen for genes upregulated by in developing retinal cells in response to taurine. It is required for the normal development of photoreceptors in the retina [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 35.27 -Z 549862.597050 CM SEQDB 21 45 0 0 Gene; lncRNA; Predicted; CMfinder; 45 0 \N 0.40181 -10.29173 1600000 259927 266 145 0 -3.08240 0.71782 2013-10-04 02:54:18 2019-01-04 15:01:52 RF01883 TUG1_2 2227 Taurine upregulated gene 1 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 90.00 91.00 81.30 TUG1 (taurine upregulated gene 1) is a long non-coding RNA expressed in retina and brain. It was first identified in a screen for genes upregulated by in developing retinal cells in response to taurine. It is required for the normal development of photoreceptors in the retina [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.61 -Z 549862.597050 CM SEQDB 17 37 0 0 Gene; lncRNA; Predicted; CMfinder; 34 0 \N 0.45969 -10.27846 1600000 335473 180 89 0 -3.65360 0.71844 2013-10-04 02:54:20 2019-01-04 15:01:52 RF01884 LINC00901 1276 Non-coding RNA BC040587 Eberhardt R Eberhardt R 55.00 55.10 54.90 BC040587 is a long non-coding RNA which is often deleted in osteosarcoma. Deletion of this gene is associated with poor survival of osteosarcoma patients [1]. BC040587; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.91 -Z 549862.597050 --mxsize 128 CM SEQDB 30 179 0 0 Gene; lncRNA; Predicted; RNAz; Eberhardt R 103 0 \N 0.48930 -12.06750 1600000 374423 282 152 0 -3.10450 0.71776 2013-02-01 11:59:10 2019-01-04 15:01:52 RF01885 HSR-omega_1 2228 Heat shock gene hsromega conserved region 1 Eberhardt R Predicted; WAR; Eberhardt R 80.00 92.20 33.70 The heat shock gene hsromega is a long non-coding RNA which produces a number of transcripts. These transcripts include a nuclear transcript, hsromega-n, which is detected as small speckles in the interchromatin space and co-localises with heterogeneous nuclear RNA-binding proteins (hnRNPs) [1]. Hsromega-n interacts directly and indirectly with a number of regulatory proteins including hnRNPs, cAMP response element binding binding protein (CBP), proteasome, and Drosophila inhibitor of apoptosis protein 1 (DIAP1). Through these interactions, it has roles in the regulation of apoptosis [2] and the suppression of poly(Q) toxicity [3]. HSR-omega_1; ; DLX6-AS1_2 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.27 -Z 549862.597050 CM SEQDB 13 11 0 0 Gene; lncRNA; Predicted; WAR; 14 0 \N 0.46204 -9.61130 1600000 264737 166 78 0 -3.54540 0.71859 2013-10-04 02:54:24 2019-01-04 15:01:52 RF01886 HSR-omega_2 2228 Heat shock gene hsromega conserved region 2 Eberhardt R Predicted; WAR; Eberhardt R 55.00 56.90 32.10 The heat shock gene hsromega is a long non-coding RNA which produces a number of transcripts. These transcripts include a nuclear transcript, hsromega-n, which is detected as small speckles in the interchromatin space and co-localises with heterogeneous nuclear RNA-binding proteins (hnRNPs) [1]. Hsromega-n interacts directly and indirectly with a number of regulatory proteins including hnRNPs, cAMP response element binding binding protein (CBP), proteasome, and Drosophila inhibitor of apoptosis protein 1 (DIAP1). Through these interactions, it has roles in the regulation of apoptosis [2] and the suppression of poly(Q) toxicity [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.15 -Z 549862.597050 CM SEQDB 10 12 0 0 Gene; lncRNA; Predicted; WAR; 15 0 \N 0.54101 -8.96075 1600000 240401 177 87 0 -3.91760 0.71843 2013-10-04 02:54:25 2019-01-04 15:01:52 RF01887 DLX6-AS1_1 2497 Embryonic ventral forebrain RNA 1 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 60.00 75.50 45.10 Evf-1 (Embryonic ventral forebrain-1) is a developmentally-regulated long non-coding RNA. In rats, it is expressed in neurons in the subventricular zone of the developing forebrain. Its expression is linked to that of the Shh (sonic hedgehog) and Dlx families of genes, which are important in ventral forebrain and craniofacial development [1]. An alternatively spliced form of Evf-1, Evf-2, forms a stable complex with the Dlx-2 protein. This complex activates transcription of Dlx-5 and Dlx-6 [2]. Evf1_1; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 40.06 -Z 549862.597050 --mxsize 128 CM SEQDB 15 36 0 0 Gene; lncRNA; Predicted; CMfinder; 41 0 \N 0.35862 -12.04956 1600000 380393 301 180 0 -3.38540 0.71418 2013-10-04 02:54:27 2019-01-04 15:01:52 RF01888 DLX6-AS1_2 2497 Embryonic ventral forebrain RNA 1 conserved region 2 Eberhardt R Predicted; ClustalW; Eberhardt R 150.00 152.60 148.90 Evf-1 (Embryonic ventral forebrain-1) is a developmentally-regulated long non-coding RNA. In rats, it is expressed in neurons in the subventricular zone of the developing forebrain. Its expression is linked to that of the Shh (sonic hedgehog) and Dlx families of genes, which are important in ventral forebrain and craniofacial development [1]. An alternatively spliced form of Evf-1, Evf-2, forms a stable complex with the Dlx-2 protein. This complex activates transcription of Dlx-5 and Dlx-6 [2]. Evf1_2; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 44.87 -Z 549862.597050 --mxsize 128 CM SEQDB 19 36 0 0 Gene; lncRNA; Predicted; Pfold; 43 0 \N 0.30761 -16.82632 1600000 508363 332 207 0 -3.34350 0.71150 2013-10-04 02:54:28 2019-01-04 15:01:52 RF01889 lincRNA-p21_1 1276 LincRNA-p21 conserved region 1 Eberhardt R Predicted; WAR; Eberhardt R 75.00 79.60 33.40 LincRNA-p21 is an large intergenic non-coding RNA. Transcription of lincRNA-p21 is induced by p53. It interacts with heterogeneous nuclear riboprotein K (hnRNP-K) and has an important role in the p53-dependent apoptotic responses to DNA damage [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.61 -Z 549862.597050 CM SEQDB 2 6 0 0 Gene; lncRNA; Predicted; WAR; 5 0 \N 0.45569 -12.93998 1600000 307576 296 174 0 -3.34210 0.71495 2013-10-04 02:54:30 2019-01-04 15:01:52 RF01890 lincRNA-p21_2 1276 LincRNA-p21 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 70.00 73.90 65.80 LincRNA-p21 is an large intergenic non-coding RNA. Transcription of lincRNA-p21 is induced by p53. It interacts with heterogeneous nuclear riboprotein K (hnRNP-K) and has an important role in the p53-dependent apoptotic responses to DNA damage [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.30 -Z 549862.597050 CM SEQDB 2 3 0 0 Gene; lncRNA; Predicted; CMfinder; 2 0 \N 0.52707 -9.18119 1600000 385167 133 52 0 -3.06680 0.73230 2013-10-04 02:54:32 2019-01-04 15:01:52 RF01891 TUG1_3 2227 Taurine upregulated gene 1 conserved region 3 Eberhardt R Predicted; CMfinder; Eberhardt R 90.00 90.40 65.40 TUG1 (taurine upregulated gene 1) is a long non-coding RNA expressed in retina and brain. It was first identified in a screen for genes upregulated by in developing retinal cells in response to taurine. It is required for the normal development of photoreceptors in the retina [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.91 -Z 549862.597050 CM SEQDB 24 43 0 0 Gene; lncRNA; Predicted; CMfinder; 43 0 \N 0.48557 -15.02060 1600000 472068 365 236 0 -3.40330 0.70923 2013-10-04 02:54:33 2019-01-04 15:01:52 RF01892 TUG1_4 2227 Taurine upregulated gene 1 conserved region 4 Eberhardt R Predicted; CMfinder; Eberhardt R 100.00 118.40 76.60 TUG1 (taurine upregulated gene 1) is a long non-coding RNA expressed in retina and brain. It was first identified in a screen for genes upregulated by in developing retinal cells in response to taurine. It is required for the normal development of photoreceptors in the retina [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 35.75 -Z 549862.597050 CM SEQDB 25 44 0 0 Gene; lncRNA; Predicted; CMfinder; 45 0 \N 0.38000 -12.09175 1600000 228581 298 180 0 -3.29430 0.71420 2013-10-04 02:54:35 2019-01-04 15:01:52 RF01894 PCA3_2 2229 Prostate cancer antigen RNA 3 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 100.00 111.10 63.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.44 -Z 549862.597050 CM SEQDB 20 92 0 0 Gene; lncRNA; Predicted; CMfinder; 99 0 \N 0.54085 -15.68454 1600000 517801 574 409 0 -4.29270 0.70238 2013-10-04 02:54:38 2019-01-04 15:01:52 RF01895 mir-193 2230 microRNA mir-193 Griffiths-Jones SR Griffiths-Jones SR 55.00 55.40 54.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 54 187 0 0 Gene; miRNA; Predicted; RNAalifold 131 0 \N 0.66073 -3.48763 1600000 162386 257 76 1 -3.93270 0.71885 2013-10-04 02:54:39 2022-10-29 16:42:07 RF01896 mir-142 1287 microRNA mir-142 Griffiths-Jones SR Griffiths-Jones SR 57.00 57.00 54.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 37 246 0 0 Gene; miRNA; Predicted; RNAalifold 109 0 \N 0.60701 -4.29524 1600000 174770 176 85 1 -3.15930 0.71876 2013-10-04 02:54:41 2022-10-29 16:42:07 RF01897 mir-188 2231 microRNA mir-188 Boursnell C Predicted; ClustalW2 70.00 72.90 68.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 99 0 0 Gene; miRNA; Predicted; RNAalifold 38 0 \N 0.62465 -5.12434 1600000 285543 203 107 1 -3.83730 0.71846 2013-10-04 02:54:43 2022-10-29 16:55:17 RF01898 mir-363 2232 microRNA mir-363 Griffiths-Jones SR Griffiths-Jones SR 58.00 58.10 48.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 22 100 0 0 Gene; miRNA; Predicted; RNAalifold 103 0 \N 0.66016 -3.96603 1600000 196640 171 80 1 -3.40260 0.71890 2013-10-04 02:54:45 2022-10-29 16:42:07 RF01899 mir-2241 1287 mir-2241 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 104.90 59.10 This family represents the microRNA (miRNA) precursor mir-2241 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 10 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66598 -2.64306 1600000 200276 186 89 1 -3.46130 0.71887 2013-10-04 02:54:47 2022-10-29 16:42:07 RF01900 mir-2024 1287 microRNA mir-2024 Griffiths-Jones SR Griffiths-Jones SR 69.00 69.20 68.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 16 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61927 -3.76697 1600000 182193 166 77 1 -3.47610 0.71909 2013-10-04 02:54:48 2022-10-29 16:42:07 RF01901 mir-284 1287 mir-284 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 63.50 46.80 This family represents the microRNA (miRNA) precursor mir-284 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 21 0 0 Gene; miRNA; Predicted; RNAalifold 24 0 \N 0.58426 -3.99802 1600000 194045 198 98 1 -3.47690 0.71867 2013-10-04 02:54:50 2022-10-29 16:42:07 RF01902 MIR439 1287 microRNA MIR439 Boursnell C Predicted; ClustalW2 65.00 65.30 64.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 125 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.58526 -3.61089 1600000 177432 196 96 1 -3.26780 0.71884 2013-10-04 02:54:51 2022-10-29 16:42:07 RF01903 mir-500 1299 microRNA mir-500 Boursnell C Predicted; ClustalW2 62.00 63.60 60.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 26 157 0 0 Gene; miRNA; Predicted; RNAalifold 36 0 \N 0.68076 -2.63657 1600000 147540 181 90 1 -3.42460 0.71876 2013-02-01 12:07:17 2022-10-29 16:42:07 RF01904 HOTAIR_1 2233 HOTAIR conserved region 1 Eberhardt R Predicted; WAR; Eberhardt R 44.00 48.30 39.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 34 0 0 Gene; lncRNA; Predicted; WAR; 39 0 \N 0.54369 -9.41250 1600000 723519 101 37 0 -3.96010 0.71959 2013-10-04 02:54:56 2022-05-06 12:10:05 RF01905 HOTAIR_2 2233 HOTAIR conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 60.00 66.80 50.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 34 0 0 Gene; lncRNA; Predicted; CMfinder; 39 0 \N 0.64786 -8.20632 1600000 511507 152 69 0 -3.48980 0.71873 2013-10-04 02:54:58 2021-12-03 12:41:14 RF01906 HOTAIR_3 2233 HOTAIR conserved region 3 Eberhardt R Predicted; WAR; Eberhardt R 80.00 81.00 68.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 17 30 0 0 Gene; lncRNA; Predicted; WAR; 38 0 \N 0.58055 -9.22651 1600000 322873 192 98 0 -3.39000 0.71828 2013-10-04 02:54:59 2021-12-03 12:41:14 RF01909 CDKN2B-AS 2234 CDKN2B antisense RNA 1 intronic convserved region Eberhardt R Eberhardt R 80.00 83.40 42.40 CDKN2B-AS, also known as ANRIL (antisense non-coding RNA in the INK4 locus) is a long non-coding RNA consisting of 19 exons, spanning 126.3kb in the genome, and spliced product is a 3834bp RNA. It is located within the p15/CDKN2B-p16/CDKN2A-p14/ARF gene cluster, in the antisense direction. Single nucleotide polymorphisms (SNPs) which alter the expression of CDKN2B-AS are associated with many diseases, including coronary artery disease, diabetes and many cancers [1]. It binds to chromobox 7 (CBX7) within the polycomb repressive complex 1 and to SUZ12, a component of polycomb repression complex 2 and through these interactions is involved in transciptional repression [2,3]. ANRIL cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 25 34 0 0 Gene; lncRNA; Predicted; RNAz; Eberhardt R 46 0 \N 0.45812 -12.33774 1600000 289421 256 150 0 -3.05170 0.71780 2013-10-04 02:55:06 2022-05-06 12:10:05 RF01910 mir-506 2235 microRNA mir-506 Boursnell C Predicted; ClustalW2 78.00 84.80 66.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 18 0 0 Gene; miRNA; Predicted; RNAalifold 18 0 \N 0.66956 -2.30490 1600000 200763 182 87 1 -3.49720 0.71887 2013-10-04 02:55:10 2022-10-29 16:42:07 RF01911 MIR2118 1287 microRNA MIR2118 Boursnell C Predicted; ClustalW2 85.00 85.00 84.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 1241 0 0 Gene; miRNA; Predicted; RNAalifold 20 0 \N 0.56146 -6.55566 1600000 191449 294 170 1 -3.15660 0.71579 2013-10-04 02:55:12 2022-10-29 16:42:07 RF01912 mir-2807 1287 microRNA mir-2807 Griffiths-Jones SR Griffiths-Jones SR 54.00 54.00 53.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 4739 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.53014 -3.51336 1600000 216121 172 84 1 -3.66320 0.71892 2013-10-04 02:55:17 2022-10-29 16:42:07 RF01913 mir-2778 1287 microRNA mir-2778 Griffiths-Jones SR Griffiths-Jones SR 86.00 89.40 85.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 7 20 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62906 -2.89439 1600000 208166 168 77 1 -3.42290 0.71896 2013-10-04 02:55:25 2022-10-29 16:42:07 RF01914 mir-932 1287 microRNA mir-932 Griffiths-Jones SR Griffiths-Jones SR 54.00 54.80 42.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 75 0 0 Gene; miRNA; Predicted; RNAalifold 78 0 \N 0.66874 -3.23982 1600000 155708 162 76 1 -3.66410 0.71899 2013-10-04 02:55:26 2022-10-29 16:42:07 RF01915 mir-2238 1287 microRNA mir-2238 Griffiths-Jones SR Griffiths-Jones SR 52.20 52.20 52.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 19 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.68738 -2.02797 1600000 188971 175 86 1 -3.70220 0.71887 2013-10-04 02:55:28 2022-10-29 16:42:07 RF01916 mir-988 1287 microRNA mir-988 Griffiths-Jones SR Griffiths-Jones SR 72.00 72.10 71.90 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 30 0 0 Gene; miRNA; Predicted; RNAalifold 31 0 \N 0.62340 -3.65474 1600000 199508 169 80 1 -3.67880 0.71897 2013-10-04 02:55:29 2022-10-29 16:42:07 RF01917 MIR2587 1287 microRNA MIR2587 Boursnell C Predicted; ClustalW2 68.00 68.50 67.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 280 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.65091 -2.90409 1600000 145908 210 105 1 -3.53770 0.71871 2013-10-04 02:55:31 2022-10-29 16:42:07 RF01918 mir-1249 1287 microRNA mir-1249 Griffiths-Jones SR Griffiths-Jones SR 83.00 83.70 42.90 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 36 0 0 Gene; miRNA; Predicted; RNAalifold 40 0 \N 0.61001 -4.71702 1600000 186936 165 75 1 -3.74700 0.71904 2013-10-04 02:55:33 2022-10-29 16:42:07 RF01919 mir-1419 1287 microRNA mir-1419 Griffiths-Jones SR Griffiths-Jones SR 62.00 62.50 51.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 13 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66866 -2.61130 1600000 212398 177 87 1 -3.43690 0.71886 2013-10-04 02:55:35 2022-10-29 16:42:07 RF01920 mir-764 2236 microRNA mir-764 Griffiths-Jones SR Griffiths-Jones SR 82.00 82.50 56.30 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 34 0 0 Gene; miRNA; Predicted; RNAalifold 34 0 \N 0.65580 -2.79356 1600000 224844 179 85 1 -3.41600 0.71896 2013-10-04 02:55:36 2022-10-29 16:42:07 RF01921 mir-1296 1287 microRNA mir-1296 Griffiths-Jones SR Griffiths-Jones SR 100.00 101.60 60.30 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 30 0 0 Gene; miRNA; Predicted; RNAalifold 33 0 \N 0.59723 -3.80760 1600000 186155 184 87 1 -3.54290 0.71880 2013-10-04 02:55:38 2022-10-29 16:42:07 RF01922 mir-654 1287 microRNA mir-654 Boursnell C Predicted; ClustalW2 45.00 47.70 42.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 51 0 0 Gene; miRNA; Predicted; RNAalifold 35 0 \N 0.65529 -3.84988 1600000 172540 205 104 1 -3.74850 0.71857 2013-10-04 02:55:40 2022-10-29 16:42:07 RF01923 mir-711 2237 microRNA mir-711 Griffiths-Jones SR Griffiths-Jones SR 68.00 68.30 58.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 32 0 0 Gene; miRNA; Predicted; RNAalifold 31 0 \N 0.67949 -2.52226 1600000 202623 156 69 1 -3.69490 0.71915 2013-10-04 02:55:42 2022-10-29 16:42:07 RF01924 mir-2774 1287 microRNA mir-2774 Griffiths-Jones SR Griffiths-Jones SR 51.00 51.00 50.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 7 3412 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.78298 -1.83627 1600000 226535 152 67 1 -3.45400 0.71906 2013-10-04 02:55:43 2022-10-29 16:42:07 RF01925 MIR1428 1287 microRNA MIR1428 Boursnell C Predicted; ClustalW2 79.00 79.40 76.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 7 103 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.56937 -4.22582 1600000 169021 214 110 1 -3.50820 0.71856 2013-10-04 02:55:48 2022-10-29 16:42:07 RF01926 mir-981 1287 microRNA mir-981 Griffiths-Jones SR Griffiths-Jones SR 51.00 51.70 50.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 17 87 0 0 Gene; miRNA; Predicted; RNAalifold 88 0 \N 0.87105 -1.37266 1600000 180661 167 86 1 -3.93490 0.71877 2013-10-04 02:55:50 2022-10-29 16:42:07 RF01927 MIR1222 1287 microRNA MIR1222 Boursnell C Predicted; ClustalW2 90.00 101.10 68.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 5 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63225 -4.12749 1600000 191422 238 134 1 -3.60170 0.71837 2013-10-04 02:55:51 2022-10-29 16:42:07 RF01928 Mico1 1276 Maternal intergenic circadian oscillating RNA 1 Eberhardt R Predicted; ClustalW; Eberhardt R 60.00 82.10 49.80 Maternal intergenic circadian oscillating 1 (Mico1) and Mico1 opposite strand (Mico1os) are lon non-coding RNAs. Their expression shows circadian oscillations [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.32 -Z 549862.597050 CM SEQDB 3 39 0 0 Gene; lncRNA; Predicted; Pfold; 38 0 \N 0.43817 -16.73405 1600000 702492 333 205 0 -3.46460 0.71164 2013-02-01 11:59:13 2019-01-04 15:01:52 RF01929 bxd_1 2238 Bithoraxoid conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 75.00 86.90 40.10 Bithoraxoid (bxd) is a long non-coding RNA found in Drosophila. It silences the expression of the Ultrabithorax (Ubx) gene by transcriptional interference [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 6 0 0 Gene; lncRNA; Predicted; CMfinder; 8 0 \N 0.58310 -8.75128 1600000 274079 179 86 0 -3.56000 0.71846 2013-10-04 02:55:55 2021-12-03 12:41:14 RF01930 bxd_2 2238 Bithoraxoid conserved region 2 Eberhardt R Predicted; WAR; Eberhardt R 80.00 91.00 35.00 Bithoraxoid (bxd) is a long non-coding RNA found in Drosophila. It silences the expression of the Ultrabithorax (Ubx) gene by transcriptional interference [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 5 0 0 Gene; lncRNA; Predicted; WAR; 8 0 \N 0.58545 -9.51800 1600000 357803 183 91 0 -3.24790 0.71835 2013-10-04 02:55:57 2021-12-03 12:41:14 RF01931 bxd_3 2238 Bithoraxoid conserved region 3 Eberhardt R Predicted; CMfinder; Eberhardt R 70.00 102.10 47.30 Bithoraxoid (bxd) is a long non-coding RNA found in Drosophila. It silences the expression of the Ultrabithorax (Ubx) gene by transcriptional interference [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; lncRNA; Predicted; CMfinder; 10 0 \N 0.40226 -9.45830 1600000 202559 246 137 0 -3.00690 0.71793 2013-10-04 02:55:58 2021-11-19 11:53:19 RF01932 bxd_4 2238 Bithoraxoid conserved region 4 Eberhardt R Predicted; ClustalW; Eberhardt R 40.00 75.10 36.90 Bithoraxoid (bxd) is a long non-coding RNA found in Drosophila. It silences the expression of the Ultrabithorax (Ubx) gene by transcriptional interference [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 8 0 0 Gene; lncRNA; Predicted; RNAalifold; 11 0 \N 0.47302 -11.46268 1600000 355350 203 106 0 -2.66270 0.71826 2013-10-04 02:56:00 2021-11-19 11:53:19 RF01933 bxd_5 2238 Bithoraxoid conserved region 5 Eberhardt R Predicted; WAR; Eberhardt R 50.00 67.40 34.20 Bithoraxoid (bxd) is a long non-coding RNA found in Drosophila. It silences the expression of the Ultrabithorax (Ubx) gene by transcriptional interference [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 9 0 0 Gene; lncRNA; Predicted; WAR; 11 0 \N 0.64428 -8.06106 1600000 408944 136 57 0 -3.93030 0.71898 2013-10-04 02:56:01 2021-12-03 12:41:14 RF01934 bxd_6 2238 Bithoraxoid conserved region 6 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 95.80 37.50 Bithoraxoid (bxd) is a long non-coding RNA found in Drosophila. It silences the expression of the Ultrabithorax (Ubx) gene by transcriptional interference [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 9 0 0 Gene; lncRNA; Predicted; CMfinder; 11 0 \N 0.48371 -10.35026 1600000 247616 187 93 0 -3.71040 0.71839 2013-10-04 02:56:03 2021-12-03 12:41:14 RF01935 bxd_7 2238 Bithoraxoid conserved region 7 Eberhardt R Predicted; MAFFT; Eberhardt R 60.00 91.40 43.70 Bithoraxoid (bxd) is a long non-coding RNA found in Drosophila. It silences the expression of the Ultrabithorax (Ubx) gene by transcriptional interference [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 3 0 0 Gene; lncRNA; Predicted; RNAalifold; 4 0 \N 0.53058 -8.88818 1600000 397603 150 66 0 -3.70420 0.71881 2013-10-04 02:56:04 2021-12-03 12:41:14 RF01936 mir-63 1287 microRNA mir-63 Boursnell C Predicted; ClustalW2 55.00 55.50 51.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 6 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63038 -2.80146 1600000 175716 221 116 1 -3.28680 0.71872 2013-10-04 02:56:06 2022-10-29 16:42:07 RF01937 mir-2780 1287 microRNA mir-2780 Griffiths-Jones SR Griffiths-Jones SR 95.50 95.60 95.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 7 1169 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.71939 -2.16440 1600000 206390 185 88 1 -3.32030 0.71879 2013-10-04 02:56:07 2022-10-29 16:42:07 RF01938 mir-1251 1287 microRNA mir-1251 Griffiths-Jones SR Griffiths-Jones SR 81.00 81.60 69.20 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 38 0 0 Gene; miRNA; Predicted; RNAalifold 39 0 \N 0.69346 -3.00234 1600000 218474 152 66 1 -3.70690 0.71915 2013-10-04 02:56:10 2022-10-29 16:42:07 RF01939 mir-761 1287 microRNA mir-761 Griffiths-Jones SR Griffiths-Jones SR 82.00 82.20 55.50 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 37 0 0 Gene; miRNA; Predicted; RNAalifold 37 0 \N 0.62023 -4.53572 1600000 257676 151 65 1 -3.42300 0.71933 2013-10-04 02:56:12 2022-10-29 16:42:07 RF01940 hvt-mir-H 1287 microRNA hvt-mir-H9 Boursnell C Predicted; ClustalW2 55.00 57.20 41.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 7 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64723 -3.13510 1600000 156718 181 90 1 -3.75670 0.71866 2013-10-04 02:56:14 2022-10-29 16:55:16 RF01941 MIR1223 1287 microRNA MIR1223 Griffiths-Jones SR Griffiths-Jones SR 77.00 77.00 68.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 10 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.68240 -3.08982 1600000 192383 227 102 1 -3.60610 0.71859 2013-10-04 02:56:15 2022-10-29 16:42:07 RF01943 mir-999 1287 microRNA mir-999 Griffiths-Jones SR Griffiths-Jones SR 58.00 58.10 57.40 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 45 0 0 Gene; miRNA; Predicted; RNAalifold 43 0 \N 0.67232 -2.85042 1600000 174696 175 84 1 -3.79100 0.71897 2013-10-04 02:56:37 2022-10-29 16:42:07 RF01944 mir-2518 1287 microRNA mir-2518 Griffiths-Jones SR Griffiths-Jones SR 61.00 61.40 41.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 57 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.62809 -4.02235 1600000 252188 154 67 1 -3.54280 0.71922 2013-10-04 02:56:38 2022-10-29 16:42:07 RF01945 mir-1388 1287 microRNA mir-1388 Griffiths-Jones SR Griffiths-Jones SR 58.00 58.40 56.20 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 78 0 0 Gene; miRNA; Predicted; RNAalifold 79 0 \N 0.63960 -2.85395 1600000 128245 185 93 1 -3.77900 0.71884 2013-10-04 02:56:40 2022-10-29 16:42:07 RF01946 KCNQ1OT1_1 1277 KCNQ1 overlapping transcript 1 conserved region 1 Eberhardt R Predicted; ClustalW; Eberhardt R 70.00 92.30 39.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 34 0 0 Gene; lncRNA; Predicted; RNAalifold; 36 0 \N 0.66383 -13.37086 1600000 363265 635 464 0 -4.70940 0.70132 2013-10-04 02:56:41 2021-12-03 12:04:12 RF01947 KCNQ1OT1_2 1277 KCNQ1 overlapping transcript 1 conserved region 2 Eberhardt R Predicted; ClustalW; Eberhardt R 80.00 86.20 46.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 18 31 0 0 Gene; lncRNA; Predicted; RNAalifold; 39 0 \N 0.37709 -18.13004 1600000 470463 318 196 0 -3.35210 0.71251 2013-02-01 11:59:14 2022-05-06 12:09:56 RF01948 KCNQ1OT1_3 1277 KCNQ1 overlapping transcript 1 conserved region 3 Eberhardt R Predicted; ClustalW; Eberhardt R 60.00 69.80 37.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 31 0 0 Gene; lncRNA; Predicted; RNAalifold; 32 0 \N 0.44036 -9.91389 1600000 274287 217 116 0 -3.12480 0.71813 2013-10-04 02:56:46 2021-12-03 12:04:12 RF01950 KCNQ1OT1_5 1277 KCNQ1 overlapping transcript 1 conserved region 5 Eberhardt R Predicted; CMfinder; Eberhardt R 120.00 156.70 37.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 15 32 0 0 Gene; lncRNA; Predicted; CMfinder; 36 0 \N 0.36962 -16.39133 1600000 453641 356 226 0 -3.50500 0.70990 2013-10-04 02:56:47 2021-12-03 12:41:13 RF01951 SOX2OT_exon1 1278 SOX2 overlapping transcript exon 1 Eberhardt R Predicted; RNAz; Eberhardt R 65.00 73.40 45.40 SOX2 overlapping transcript (SOX2OT) is a long non-coding RNA, containing at least 5 exons. The SOX2 gene, an important regulator of neurogenesis, lies within one of the introns of SOX2OT [1]. SOX2OT and SOX2DOT (an isoform of SOXOT transcribed from a distal highly conserved element) are expressed in zones of neurogenesis within the brain. It is associated with central nervous system structures in zebrafish and chicken embryonic brains, and is dynamically regulated during embryogenesis [2]. SOX2OT may play a role in vertebrate development [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 29 98 0 0 Gene; lncRNA; Predicted; RNAz; 107 0 \N 0.48925 -15.36204 1600000 524643 356 230 0 -3.50660 0.70964 2013-10-04 02:56:49 2021-12-03 12:41:13 RF01952 SOX2OT_exon2 1278 SOX2 overlapping transcript exon 2 Eberhardt R Predicted; ClustalW; Eberhardt R 45.00 57.70 37.00 SOX2 overlapping transcript (SOX2OT) is a long non-coding RNA, containing at least 5 exons. The SOX2 gene, an important regulator of neurogenesis, lies within one of the introns of SOX2OT [1]. SOX2OT and SOX2DOT (an isoform of SOXOT transcribed from a distal highly conserved element) are expressed in zones of neurogenesis within the brain. It is associated with central nervous system structures in zebrafish and chicken embryonic brains, and is dynamically regulated during embryogenesis [2]. SOX2OT may play a role in vertebrate development [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 37 0 0 Gene; lncRNA; Predicted; Pfold; 44 0 \N 0.60604 -8.59587 1600000 350048 150 69 0 -4.02260 0.71875 2013-10-04 02:56:51 2021-12-03 12:41:13 RF01953 SOX2OT_exon3 1278 SOX2 overlapping transcript exon 3 Eberhardt R Predicted; MAFFT; Eberhardt R 70.00 72.30 55.00 SOX2 overlapping transcript (SOX2OT) is a long non-coding RNA, containing at least 5 exons. The SOX2 gene, an important regulator of neurogenesis, lies within one of the introns of SOX2OT [1]. SOX2OT and SOX2DOT (an isoform of SOXOT transcribed from a distal highly conserved element) are expressed in zones of neurogenesis within the brain. It is associated with central nervous system structures in zebrafish and chicken embryonic brains, and is dynamically regulated during embryogenesis [2]. SOX2OT may play a role in vertebrate development [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 84 0 0 Gene; lncRNA; Predicted; RNAalifold; 86 0 \N 0.57365 -14.26366 1600000 509563 413 276 0 -4.19410 0.70690 2013-10-04 02:56:53 2021-12-03 12:41:13 RF01954 SOX2OT_exon4 1278 SOX2 overlapping transcript exon 4 Eberhardt R Predicted; CMfinder; Eberhardt R 40.00 40.10 32.70 SOX2 overlapping transcript (SOX2OT) is a long non-coding RNA, containing at least 5 exons. The SOX2 gene, an important regulator of neurogenesis, lies within one of the introns of SOX2OT [1]. SOX2OT and SOX2DOT (an isoform of SOXOT transcribed from a distal highly conserved element) are expressed in zones of neurogenesis within the brain. It is associated with central nervous system structures in zebrafish and chicken embryonic brains, and is dynamically regulated during embryogenesis [2]. SOX2OT may play a role in vertebrate development [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 60 0 0 Gene; lncRNA; Predicted; CMfinder; 62 0 \N 0.51296 -11.24919 1600000 409002 204 109 0 -3.34820 0.71821 2013-02-01 11:59:16 2021-12-03 12:41:13 RF01955 NEAT1_1 1279 Nuclear enriched abundant transcript 1 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 50.10 39.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.34 -Z 549862.597050 CM SEQDB 17 46 0 0 Gene; lncRNA; Predicted; CMfinder; 42 0 \N 0.49232 -11.04892 1600000 287506 223 122 0 -3.26980 0.71805 2013-10-04 02:56:57 2019-01-04 15:01:52 RF01956 NEAT1_2 1279 Nuclear enriched abundant transcript 1 conserved region 2 Eberhardt R Predicted; MAFFT; Eberhardt R 60.00 74.70 50.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.89 -Z 549862.597050 CM SEQDB 13 44 0 0 Gene; lncRNA; Predicted; RNAalifold; 40 0 \N 0.54406 -10.77626 1600000 452376 214 116 0 -3.26510 0.71807 2013-10-04 02:56:59 2019-01-04 15:01:52 RF01957 NEAT1_3 1279 Nuclear enriched abundant transcript 1 conserved region 3 Eberhardt R Predicted; CMfinder; Eberhardt R 55.00 57.80 36.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.61 -Z 549862.597050 CM SEQDB 18 53 0 0 Gene; lncRNA; Predicted; CMfinder; 44 0 \N 0.41338 -14.16122 1600000 316830 275 159 0 -3.24120 0.71703 2013-02-01 11:59:18 2019-01-04 15:01:52 RF01959 SSU_rRNA_archaea 1459 Archaeal small subunit ribosomal RNA Gutell RR, Nawrocki E, Gardner PP Published; PMID:11869452 50.00 50.00 49.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18.25 -Z 549862.597050 CM SEQDB 86 546 0 0 Gene; rRNA; Published; PMID:11869452 437 0 \N 0.68847 -8.52203 1600000 277036 2777 1477 1 -5.93710 0.69575 2013-10-04 02:57:24 2022-10-29 16:55:16 RF01960 SSU_rRNA_eukarya 1459 Eukaryotic small subunit ribosomal RNA Gutell RR, Gardner PP, Nawrocki E Published; PMID:11869452 50.00 50.00 49.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 17.38 -Z 742849.287494 CM SEQDB 90 21572 0 0 Gene; rRNA; Published; PMID:11869452 1038 0 \N 0.70379 -8.00813 1600000 296590 2762 1831 1 -6.33160 0.69523 2013-10-04 03:08:45 2022-10-29 16:55:16 RF01962 RMST_1 2241 Rhabdomyosarcoma 2 associated transcript conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 40.00 46.80 35.30 \N NCRMS cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.76 -Z 549862.597050 CM SEQDB 14 37 0 0 Gene; lncRNA; Predicted; CMfinder; 41 0 \N 0.61864 -8.57604 1600000 412475 136 61 0 -3.62740 0.71891 2013-10-04 03:17:00 2019-01-04 15:01:52 RF01963 RMST_2 2241 Rhabdomyosarcoma 2 associated transcript conserved region 2 Eberhardt R Predicted; ClustalW; Eberhardt R 45.00 47.70 43.30 \N NCRMS cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.94 -Z 549862.597050 CM SEQDB 16 42 0 0 Gene; lncRNA; Predicted; RNAalifold; 50 0 \N 0.46141 -12.60598 1600000 388728 240 135 0 -3.22420 0.71795 2013-10-04 03:17:01 2019-01-04 15:01:52 RF01964 RMST_3 2241 Rhabdomyosarcoma 2 associated transcript conserved region 3 Eberhardt R Predicted; MAFFT; Eberhardt R 55.00 59.20 53.70 \N NCRMS cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.21 -Z 549862.597050 CM SEQDB 16 38 0 0 Gene; lncRNA; Predicted; RNAalifold; 44 0 \N 0.48655 -11.49241 1600000 437502 208 109 0 -3.13210 0.71812 2013-10-04 03:17:03 2019-01-04 15:01:52 RF01965 RMST_4 2241 Rhabdomyosarcoma 2 associated transcript conserved region 4 Eberhardt R Predicted; MAFFT; Eberhardt R 40.00 44.40 38.20 \N NCRMS cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.37 -Z 549862.597050 CM SEQDB 17 39 0 0 Gene; lncRNA; Predicted; Pfold: 47 0 \N 0.48249 -11.41273 1600000 390215 205 108 0 -3.21350 0.71822 2013-10-04 03:17:05 2019-01-04 15:01:52 RF01966 RMST_5 2241 Rhabdomyosarcoma 2 associated transcript conserved region 5 Eberhardt R Predicted; CMfinder; Eberhardt R 58.00 67.20 34.30 \N NCRMS cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.46 -Z 549862.597050 CM SEQDB 21 39 0 0 Gene; lncRNA; Predicted; CMfinder; 47 0 \N 0.51201 -10.65849 1600000 313502 232 128 0 -3.41740 0.71797 2013-10-04 03:17:06 2019-01-04 15:01:52 RF01967 RMST_6 2241 Rhabdomyosarcoma 2 associated transcript conserved region 6 Eberhardt R Predicted; CMfinder; Eberhardt R 90.00 90.70 67.20 \N NCRMS cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33.26 -Z 549862.597050 CM SEQDB 18 94 0 0 Gene; lncRNA; Predicted; CMfinder; 102 0 \N 0.38154 -16.16296 1600000 450927 329 203 0 -3.23690 0.71182 2013-10-04 03:17:08 2019-01-04 15:01:52 RF01968 RMST_7 2241 Rhabdomyosarcoma 2 associated transcript conserved region 7 Eberhardt R Predicted; CMfinder; Eberhardt R 100.00 126.50 61.00 \N NCRMS cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 44.55 -Z 549862.597050 CM SEQDB 22 91 0 0 Gene; lncRNA; Predicted; CMfinder; 101 0 \N 0.29725 -19.61884 1600000 558785 405 268 0 -3.24340 0.70728 2013-10-04 03:17:10 2019-01-04 15:01:52 RF01969 RMST_8 2241 Rhabdomyosarcoma 2 associated transcript conserved region 8 Eberhardt R Predicted; ClustalW; Eberhardt R 80.00 95.60 61.40 \N NCRMS cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.22 -Z 549862.597050 CM SEQDB 22 94 0 0 Gene; lncRNA; Predicted; RNAalifold; 99 0 \N 0.45871 -12.92897 1600000 361162 250 143 0 -3.21070 0.71784 2013-10-04 03:17:11 2019-01-04 15:01:52 RF01970 RMST_9 2241 Rhabdomyosarcoma 2 associated transcript conserved region 9 Eberhardt R Predicted; CMfinder; Eberhardt R 65.00 69.20 63.80 \N NCRMS cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.38 -Z 549862.597050 CM SEQDB 28 102 0 0 Gene; lncRNA; Predicted; CMfinder; 111 0 \N 0.44831 -14.64387 1600000 441848 315 193 0 -3.62160 0.71283 2013-10-04 03:17:13 2019-01-04 15:01:52 RF01971 RMST_10 2241 Rhabdomyosarcoma 2 associated transcript conserved region 10 Eberhardt R Predicted; CMfinder; Eberhardt R 55.00 57.80 35.00 \N NCRMS cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.13 -Z 549862.597050 CM SEQDB 21 39 0 0 Gene; lncRNA; Predicted; CMfinder; 49 0 \N 0.43391 -12.03428 1600000 257291 265 154 0 -3.18510 0.71775 2013-10-04 03:17:15 2019-01-04 15:01:52 RF01972 H19_1 2242 H19 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 53.30 39.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 37.53 -Z 549862.597050 CM SEQDB 35 29 0 0 Gene; lncRNA; Predicted; CMfinder; 37 0 \N 0.36176 -14.61231 1600000 453570 154 71 0 -3.09890 0.71871 2013-10-04 03:17:17 2019-01-04 15:01:52 RF01973 H19_2 2242 H19 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 51.00 34.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.23 -Z 549862.597050 CM SEQDB 23 30 0 0 Gene; lncRNA; Predicted; CMfinder; 38 0 \N 0.65995 -7.79566 1600000 313529 151 69 0 -3.62100 0.71876 2013-10-04 03:17:19 2019-01-04 15:01:52 RF01974 H19_3 2242 H19 conserved region 3 Eberhardt R Predicted; CMfinder; Eberhardt R 46.00 47.40 44.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.46 -Z 549862.597050 CM SEQDB 5 29 0 0 Gene; lncRNA; Predicted; CMfinder; 20 0 \N 0.48468 -11.95781 1600000 355220 220 116 0 -3.15270 0.71813 2013-10-04 03:17:20 2019-01-04 15:01:52 RF01975 HOTAIRM1_1 2243 HOX antisense intergenic RNA myeloid 1 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 70.00 75.00 50.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 40.23 -Z 549862.597050 CM SEQDB 14 33 0 0 Gene; lncRNA; Predicted; CMfinder; 37 0 \N 0.33255 -15.64121 1600000 340697 230 125 0 -2.71190 0.71797 2013-10-04 03:17:22 2019-01-04 15:01:52 RF01976 HOTAIRM1_2 2243 HOX antisense intergenic RNA myeloid 1 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 37.00 44.80 34.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.21 -Z 549862.597050 CM SEQDB 7 112 0 0 Gene; lncRNA; Predicted; CMfinder; 106 0 \N 0.39412 -14.61925 1600000 301591 350 220 0 -3.60780 0.71033 2013-10-04 03:17:24 2019-01-04 15:01:52 RF01977 HOTAIRM1_3 2243 HOX antisense intergenic RNA myeloid 1 conserved region 3 Eberhardt R Predicted; MAFFT; Eberhardt R 37.00 43.90 32.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.76 -Z 549862.597050 CM SEQDB 11 38 0 0 Gene; lncRNA; Predicted; Pfold; 44 0 \N 0.65371 -8.46280 1600000 577703 135 59 0 -3.88280 0.71895 2013-10-04 03:17:26 2019-01-04 15:01:52 RF01978 HOTAIRM1_4 2243 HOX antisense intergenic RNA myeloid 1 conserved region 4 Eberhardt R Predicted; CMfinder; Eberhardt R 40.00 45.30 35.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.87 -Z 549862.597050 CM SEQDB 10 41 0 0 Gene; lncRNA; Predicted; CMfinder; 43 0 \N 0.41661 -11.65029 1600000 330639 198 102 0 -3.12700 0.71824 2013-10-04 03:17:28 2019-01-04 15:01:52 RF01979 HOTAIRM1_5 2243 HOX antisense intergenic RNA myeloid 1 conserved region 5 Eberhardt R Predicted; CMfinder; Eberhardt R 60.00 67.10 52.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.29 -Z 549862.597050 CM SEQDB 10 37 0 0 Gene; lncRNA; Predicted; CMfinder; 39 0 \N 0.41640 -11.76128 1600000 269444 256 145 0 -3.17410 0.71776 2013-10-04 03:17:29 2019-01-04 15:01:52 RF01981 PCGEM1 2245 Prostate-specific transcript 1 Eberhardt R Predicted; CMfinder; Eberhardt R 75.00 80.80 35.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34.34 -Z 549862.597050 CM SEQDB 26 36 0 0 Gene; lncRNA; Predicted; CMfinder; 46 0 \N 0.40528 -11.07873 1600000 287261 236 132 0 -3.31030 0.71790 2013-10-04 03:17:33 2019-01-04 15:01:52 RF01982 PYLIS_1 2246 Pyrrolysine insertion sequence 1 Eberhardt R Predicted; WAR 70.00 78.30 59.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 39 0 0 Cis-reg; Predicted; WAR 23 0 \N 0.64203 -4.48547 1600000 225056 193 100 1 -3.21240 0.71839 2013-10-04 03:17:35 2019-01-04 15:01:52 RF01983 Pinc 2495 Pregnancy induced noncoding RNA Eberhardt R Predicted; CMfinder; Eberhardt R 60.00 76.50 50.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.82 -Z 549862.597050 CM SEQDB 16 34 0 0 Gene; lncRNA; Predicted; CMfinder; 40 0 \N 0.45475 -11.71454 1600000 294950 265 154 0 -3.28750 0.71768 2013-10-04 03:17:36 2019-01-04 15:01:52 RF01984 ZEB2_AS1_1 2248 ZEB2 antisense RNA 1 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 80.00 107.90 66.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.79 -Z 549862.597050 CM SEQDB 11 88 0 0 Gene; lncRNA; Predicted; CMfinder; 94 0 \N 0.46684 -11.30651 1600000 391506 282 128 0 -3.23670 0.71797 2013-10-04 03:17:38 2019-01-04 15:01:52 RF01985 ZEB2_AS1_2 2248 ZEB2 antisense RNA 1 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 70.00 72.10 49.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.58 -Z 549862.597050 CM SEQDB 11 36 0 0 Gene; lncRNA; Predicted; CMfinder; 45 0 \N 0.63666 -8.03997 1600000 450019 139 61 0 -3.55670 0.71891 2013-10-04 03:17:40 2019-01-04 15:01:52 RF01986 ZEB2_AS1_3 2248 ZEB2 antisense RNA 1 conserved region 3 Eberhardt R Predicted; ClustalW; Eberhardt R 55.00 59.60 42.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.03 -Z 549862.597050 CM SEQDB 11 39 0 0 Gene; lncRNA; Predicted; RNAalifold; 43 0 \N 0.53511 -11.29661 1600000 472730 201 100 0 -3.38360 0.71824 2013-10-04 03:17:42 2019-01-04 15:01:52 RF01987 ZEB2_AS1_4 2248 ZEB2 antisense RNA 1 conserved region 4 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 52.00 42.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 40.07 -Z 549862.597050 CM SEQDB 13 36 0 0 Gene; lncRNA; Predicted; CMfinder; 43 0 \N 0.35986 -11.56316 1600000 341818 166 78 0 -3.21850 0.71857 2013-10-04 03:17:44 2019-01-04 15:01:52 RF01988 SECIS_2 1328 Selenocysteine insertion sequence 2 Eberhardt R Predicted; ClustalW; Eberhardt R 70.00 73.60 64.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 56 0 0 Cis-reg; Predicted; RNAalifold; 55 0 \N 0.62731 -3.96811 1600000 355330 134 55 1 -3.67610 0.71940 2013-10-04 03:17:45 2019-01-04 15:01:52 RF01989 SECIS_3 1328 Selenocysteine insertion sequence 3 Eberhardt R Predicted; CMfinder; Eberhardt R 63.00 63.20 62.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.41 -Z 549862.597050 CM SEQDB 24 454 0 0 Cis-reg; Predicted; CMfinder; 408 0 \N 0.67429 -3.98821 1600000 307291 137 59 1 -3.43850 0.71920 2013-10-04 03:17:48 2019-01-04 15:01:52 RF01990 SECIS_4 1328 Selenocysteine insertion sequence 4 Eberhardt R Predicted; ClustalW; Eberhardt R 38.00 38.20 37.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 24 317 0 0 Cis-reg; Predicted; Pfold; 200 0 \N 0.69155 -4.53012 1600000 685866 102 38 1 -4.19600 0.71973 2013-10-04 03:17:51 2019-01-04 15:01:52 RF01991 SECIS_5 1328 Selenocysteine insertion sequence 5 Eberhardt R Predicted; WAR; Eberhardt R 50.00 61.50 35.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 25 0 0 Cis-reg; Predicted; WAR; 26 0 \N 0.61202 -2.95839 1600000 198069 153 66 1 -3.34810 0.71914 2013-10-04 03:17:53 2019-01-04 15:01:52 RF01992 VIS1 2486 Viral integration site 1 Eberhardt R Predicted; ClustalW; Eberhardt R 100.00 122.40 64.20 \N HIS-1 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.59 -Z 549862.597050 CM SEQDB 27 37 0 0 Gene; lncRNA; Predicted; Pfold; 47 0 \N 0.40822 -15.33785 1600000 403380 323 202 0 -3.45730 0.71192 2013-10-04 03:17:54 2019-01-04 15:01:52 RF01996 mir-995 1287 microRNA mir-995 Boursnell C Predicted; ClustalW2 70.00 78.20 62.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 8 0 0 Gene; miRNA; Predicted; RNAalifold 12 0 \N 0.68348 -2.34831 1600000 134427 217 92 1 -3.72230 0.71884 2013-10-04 03:17:56 2022-10-29 16:55:16 RF01997 mir-969 1287 microRNA mir-969 Griffiths-Jones SR Griffiths-Jones SR 61.00 61.60 53.00 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 10 0 0 Gene; miRNA; Predicted; RNAalifold 11 0 \N 0.60641 -3.85911 1600000 236880 180 86 1 -3.41270 0.71880 2013-02-01 12:04:57 2022-10-29 16:42:07 RF01998 group-II-D1D4-1 1326 Group II catalytic intron D1-D4-1 Weinberg Z, Gardner PP Weinberg Z 35.00 35.00 34.90 Group II introns are found in rRNA, tRNA and mRNA of organelles in fungi, plants and protists, and also in mRNA in bacteria. They are large self-splicing ribozymes and have 6 structural domains (usually designated dI to dVI. This model and alignment represents only domains V and VI. A subset of group II introns also encode essential splicing proteins in intronic ORFs. The length of these introns can therefore be up to 3kb. Splicing occurs in almost identical fashion to nuclear pre-mRNA splicing with two transesterification steps. The 2' hydroxyl of a bulged adenosine in domain VI attacks the 5' splice site, followed by nucleophilic attack on the 3' splice site by the 3' OH of the upstream exon. Protein machinery is required for splicing in vivo, and long range intron-intron and intron-exon interactions are important for splice site positioning. Group II introns are further sub-classified into groups IIA and IIB which differ in splice site consensus, distance of bulged A from 3' splice site, some tertiary interactions, and intronic ORF phylogeny [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 237 2034 0 0 Intron; Predicted; Weinberg Z 872 0 \N 0.52566 -9.55999 1600000 435829 229 84 1 -4.23640 0.71860 2013-10-04 03:18:00 2021-07-05 13:43:57 RF01999 group-II-D1D4-2 1326 Group II catalytic intron D1-D4-2 Weinberg Z, Gardner PP Weinberg Z 36.00 36.50 35.30 Group II introns are found in rRNA, tRNA and mRNA of organelles in fungi, plants and protists, and also in mRNA in bacteria. They are large self-splicing ribozymes and have 6 structural domains (usually designated dI to dVI. This model and alignment represents only domains V and VI. A subset of group II introns also encode essential splicing proteins in intronic ORFs. The length of these introns can therefore be up to 3kb. Splicing occurs in almost identical fashion to nuclear pre-mRNA splicing with two transesterification steps. The 2' hydroxyl of a bulged adenosine in domain VI attacks the 5' splice site, followed by nucleophilic attack on the 3' splice site by the 3' OH of the upstream exon. Protein machinery is required for splicing in vivo, and long range intron-intron and intron-exon interactions are important for splice site positioning. Group II introns are further sub-classified into groups IIA and IIB which differ in splice site consensus, distance of bulged A from 3' splice site, some tertiary interactions, and intronic ORF phylogeny [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 144 678 0 0 Intron; Predicted; Weinberg Z 429 0 \N 0.55763 -9.42840 1600000 414385 215 118 1 -3.56640 0.71841 2013-10-04 03:18:04 2021-07-05 13:43:57 RF02000 MIR1846 1287 microRNA MIR1846 Boursnell C Predicted; ClustalW2 33.00 33.00 32.90 \N C1674 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 21 2006 0 0 Gene; miRNA; Predicted; RNAalifold 203 0 \N 0.58240 -3.95692 1600000 147966 174 86 1 -3.55220 0.71897 2013-10-04 03:18:07 2022-10-29 16:42:07 RF02001 group-II-D1D4-3 1326 Group II catalytic intron D1-D4-3 Weinberg Z, Gardner PP Weinberg Z 32.00 32.00 31.90 Group II introns are found in rRNA, tRNA and mRNA of organelles in fungi, plants and protists, and also in mRNA in bacteria. They are large self-splicing ribozymes and have 6 structural domains (usually designated dI to dVI. This model and alignment represents only domains V and VI. A subset of group II introns also encode essential splicing proteins in intronic ORFs. The length of these introns can therefore be up to 3kb. Splicing occurs in almost identical fashion to nuclear pre-mRNA splicing with two transesterification steps. The 2' hydroxyl of a bulged adenosine in domain VI attacks the 5' splice site, followed by nucleophilic attack on the 3' splice site by the 3' OH of the upstream exon. Protein machinery is required for splicing in vivo, and long range intron-intron and intron-exon interactions are important for splice site positioning. Group II introns are further sub-classified into groups IIA and IIB which differ in splice site consensus, distance of bulged A from 3' splice site, some tertiary interactions, and intronic ORF phylogeny [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.96 -Z 549862.597050 CM SEQDB 406 3139 0 0 Intron; Predicted; Weinberg Z 1157 0 \N 0.56506 -9.25076 1600000 411885 498 171 1 -2.99240 0.71558 2013-10-04 03:18:10 2021-07-05 13:43:57 RF02003 group-II-D1D4-4 1326 Group II catalytic intron D1-D4-4 Weinberg Z, Gardner PP Weinberg Z 49.00 49.00 48.90 Group II introns are found in rRNA, tRNA and mRNA of organelles in fungi, plants and protists, and also in mRNA in bacteria. They are large self-splicing ribozymes and have 6 structural domains (usually designated dI to dVI. This model and alignment represents only domains V and VI. A subset of group II introns also encode essential splicing proteins in intronic ORFs. The length of these introns can therefore be up to 3kb. Splicing occurs in almost identical fashion to nuclear pre-mRNA splicing with two transesterification steps. The 2' hydroxyl of a bulged adenosine in domain VI attacks the 5' splice site, followed by nucleophilic attack on the 3' splice site by the 3' OH of the upstream exon. Protein machinery is required for splicing in vivo, and long range intron-intron and intron-exon interactions are important for splice site positioning. Group II introns are further sub-classified into groups IIA and IIB which differ in splice site consensus, distance of bulged A from 3' splice site, some tertiary interactions, and intronic ORF phylogeny [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.36 -Z 549862.597050 CM SEQDB 90 530 0 0 Intron; Predicted; Weinberg Z 336 0 \N 0.57628 -9.92348 1600000 449125 506 138 1 -2.76970 0.71806 2013-10-04 03:18:17 2021-07-05 13:43:57 RF02004 group-II-D1D4-5 1326 Group II catalytic intron D1-D4-5 Weinberg Z, Gardner PP Weinberg Z 34.50 34.60 34.30 Group II introns are found in rRNA, tRNA and mRNA of organelles in fungi, plants and protists, and also in mRNA in bacteria. They are large self-splicing ribozymes and have 6 structural domains (usually designated dI to dVI. This model and alignment represents only domains V and VI. A subset of group II introns also encode essential splicing proteins in intronic ORFs. The length of these introns can therefore be up to 3kb. Splicing occurs in almost identical fashion to nuclear pre-mRNA splicing with two transesterification steps. The 2' hydroxyl of a bulged adenosine in domain VI attacks the 5' splice site, followed by nucleophilic attack on the 3' splice site by the 3' OH of the upstream exon. Protein machinery is required for splicing in vivo, and long range intron-intron and intron-exon interactions are important for splice site positioning. Group II introns are further sub-classified into groups IIA and IIB which differ in splice site consensus, distance of bulged A from 3' splice site, some tertiary interactions, and intronic ORF phylogeny [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 139 447 0 0 Intron; Predicted; Weinberg Z 290 0 \N 0.58957 -8.90674 1600000 367737 375 201 1 -3.33760 0.71217 2013-10-04 03:18:19 2022-10-29 16:55:16 RF02005 group-II-D1D4-6 1326 Group II catalytic intron D1-D4-6 Weinberg Z, Gardner PP Weinberg Z 49.00 49.00 48.80 Group II introns are found in rRNA, tRNA and mRNA of organelles in fungi, plants and protists, and also in mRNA in bacteria. They are large self-splicing ribozymes and have 6 structural domains (usually designated dI to dVI. This model and alignment represents only domains V and VI. A subset of group II introns also encode essential splicing proteins in intronic ORFs. The length of these introns can therefore be up to 3kb. Splicing occurs in almost identical fashion to nuclear pre-mRNA splicing with two transesterification steps. The 2' hydroxyl of a bulged adenosine in domain VI attacks the 5' splice site, followed by nucleophilic attack on the 3' splice site by the 3' OH of the upstream exon. Protein machinery is required for splicing in vivo, and long range intron-intron and intron-exon interactions are important for splice site positioning. Group II introns are further sub-classified into groups IIA and IIB which differ in splice site consensus, distance of bulged A from 3' splice site, some tertiary interactions, and intronic ORF phylogeny [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 174 1189 0 0 Intron; Predicted; Weinberg Z 524 0 \N 0.73383 -8.37008 1600000 459785 413 225 1 -3.66470 0.71022 2013-10-04 03:18:22 2022-10-29 16:55:16 RF02006 mir-1253 1287 microRNA mir-1253 Boursnell C Predicted; ClustalW2 70.00 93.90 59.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.66073 -2.65267 1600000 172597 209 105 1 -3.15980 0.71854 2013-10-04 03:18:25 2022-10-29 16:42:07 RF02007 mir-1237 1287 microRNA mir-1237 Boursnell C Predicted; ClustalW2 45.00 46.60 44.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 10 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.48971 -5.05850 1600000 203597 205 102 1 -2.87720 0.71866 2013-10-04 03:18:27 2022-10-29 16:42:07 RF02008 mir-621 1287 microRNA mir-621 Griffiths-Jones SR Griffiths-Jones SR 71.00 71.90 51.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 13 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.61771 -3.89237 1600000 242372 178 83 1 -3.42470 0.71889 2013-10-04 03:18:28 2022-10-29 16:42:07 RF02009 mir-987 1287 microRNA mir-987 Griffiths-Jones SR Griffiths-Jones SR 98.00 98.50 73.80 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 12 0 0 Gene; miRNA; Predicted; RNAalifold 12 0 \N 0.61751 -2.79130 1600000 156268 190 92 1 -3.44770 0.71879 2013-10-04 03:18:30 2022-10-29 16:42:07 RF02010 mir-3180 2251 microRNA mir-3180 Boursnell C Predicted; ClustalW2 70.00 74.80 57.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 15 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.59904 -4.88124 1600000 186942 222 114 1 -2.71740 0.71840 2013-10-04 03:18:32 2022-10-29 16:42:07 RF02011 mir-575 2252 microRNA mir-575 Boursnell C Predicted; ClustalW2 60.00 73.20 35.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.68203 -2.70650 1600000 146975 194 94 1 -3.07820 0.71881 2013-10-04 03:18:33 2022-10-29 16:42:07 RF02012 group-II-D1D4-7 1326 Group II catalytic intron D1-D4-7 Weinberg Z, Gardner PP Weinberg Z 34.00 34.20 33.80 Group II introns are found in rRNA, tRNA and mRNA of organelles in fungi, plants and protists, and also in mRNA in bacteria. They are large self-splicing ribozymes and have 6 structural domains (usually designated dI to dVI. This model and alignment represents only domains V and VI. A subset of group II introns also encode essential splicing proteins in intronic ORFs. The length of these introns can therefore be up to 3kb. Splicing occurs in almost identical fashion to nuclear pre-mRNA splicing with two transesterification steps. The 2' hydroxyl of a bulged adenosine in domain VI attacks the 5' splice site, followed by nucleophilic attack on the 3' splice site by the 3' OH of the upstream exon. Protein machinery is required for splicing in vivo, and long range intron-intron and intron-exon interactions are important for splice site positioning. Group II introns are further sub-classified into groups IIA and IIB which differ in splice site consensus, distance of bulged A from 3' splice site, some tertiary interactions, and intronic ORF phylogeny [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 244 804 0 0 Intron; Predicted; Weinberg Z 507 0 \N 0.53016 -10.36704 1600000 400355 317 148 1 -3.42340 0.71797 2013-10-04 03:18:35 2021-07-05 13:43:57 RF02014 mir-1178 1287 microRNA mir-1178 Boursnell C Predicted; ClustalW2 75.00 77.40 74.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 13 0 0 Gene; miRNA; Predicted; RNAalifold 13 0 \N 0.64511 -4.46640 1600000 210296 217 111 1 -3.28490 0.71850 2013-10-04 03:18:40 2022-10-29 16:42:07 RF02015 mir-1287 1287 microRNA mir-1287 Boursnell C Predicted; ClustalW2 46.00 47.20 45.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 75 0 0 Gene; miRNA; Predicted; RNAalifold 72 0 \N 0.63375 -2.91039 1600000 183221 187 90 1 -3.30660 0.71885 2013-10-04 03:18:42 2022-10-29 16:42:07 RF02016 mir-1183 1287 microRNA mir-1183 Griffiths-Jones SR Griffiths-Jones SR 97.00 97.00 34.20 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.69007 -2.54488 1600000 196450 187 89 1 -3.24230 0.71875 2013-10-04 03:18:44 2022-10-29 16:42:07 RF02017 mir-1912 1287 microRNA mir-1912 Griffiths-Jones SR Griffiths-Jones SR 72.00 72.50 60.00 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 33 0 0 Gene; miRNA; Predicted; RNAalifold 33 0 \N 0.72921 -1.99415 1600000 237614 168 77 1 -3.48470 0.71897 2013-10-04 03:18:45 2022-10-29 16:42:07 RF02018 mir-1207 1287 microRNA mir-1207 Griffiths-Jones SR Griffiths-Jones SR 90.00 94.50 43.10 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.61808 -3.07205 1600000 206878 184 87 1 -3.49340 0.71889 2013-10-04 03:18:47 2022-10-29 16:42:07 RF02019 mir-1265 1287 microRNA mir-1265 Griffiths-Jones SR Griffiths-Jones SR 79.00 79.00 68.00 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.63214 -3.45926 1600000 218764 175 82 1 -3.58860 0.71905 2013-10-04 03:18:49 2022-10-29 16:42:07 RF02020 mir-25 2253 microRNA mir-25 Boursnell C Predicted; ClustalW2 50.00 53.40 45.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 54 0 0 Gene; miRNA; Predicted; RNAalifold 51 0 \N 0.57681 -3.72695 1600000 225344 179 84 1 -3.25570 0.71885 2013-10-04 03:18:51 2022-10-29 16:42:07 RF02021 mir-3179 1287 microRNA mir-3179 Boursnell C Predicted; ClustalW2 90.00 108.90 83.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 11 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.59427 -4.22718 1600000 242203 180 84 1 -3.38900 0.71904 2013-10-04 03:18:52 2022-10-29 16:42:07 RF02022 mir-1275 1287 microRNA mir-1275 Boursnell C Predicted; ClustalW2 70.00 75.10 52.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 16 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.62993 -3.57158 1600000 259314 371 80 1 -3.34240 0.71889 2013-10-04 03:18:55 2022-10-29 16:42:07 RF02023 mir-1208 1287 microRNA mir-1208 Griffiths-Jones SR Griffiths-Jones SR 90.00 95.50 66.00 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.61485 -3.82153 1600000 265963 164 73 1 -3.48510 0.71916 2013-02-01 12:07:19 2022-10-29 16:42:07 RF02024 mir-1180 1287 microRNA mir-1180 Griffiths-Jones SR Griffiths-Jones SR 49.00 49.30 41.80 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 15 0 0 Gene; miRNA; Predicted; RNAalifold 17 0 \N 0.54409 -4.79091 1600000 286093 155 68 1 -3.41520 0.71925 2013-10-04 03:18:59 2022-10-29 16:42:07 RF02025 mir-3017 1287 microRNA mir-3017 Boursnell C Predicted; ClustalW2 59.00 59.30 55.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 36 7 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.56271 -5.06040 1600000 174127 225 85 1 -3.25990 0.71886 2013-10-04 03:19:01 2022-10-29 16:55:16 RF02026 mir-2833 1287 microRNA mir-2833 Griffiths-Jones SR Griffiths-Jones SR 65.00 65.30 54.00 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 15 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64178 -3.08239 1600000 277411 158 69 1 -3.49050 0.71914 2013-10-04 03:19:03 2022-10-29 16:42:07 RF02027 MIR2907 1287 microRNA MIR2907 Boursnell C Predicted; ClustalW2 52.00 52.00 51.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 52 499 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.43251 -10.56241 1600000 438048 237 65 1 -3.55690 0.71907 2013-10-04 03:19:04 2022-10-29 16:42:07 RF02028 mir-1827 1287 microRNA mir-1827 Boursnell C Predicted; ClustalW2 60.00 68.20 52.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 17 0 0 Gene; miRNA; Predicted; RNAalifold 12 0 \N 0.68943 -2.52095 1600000 239369 152 67 1 -3.40060 0.71918 2013-10-04 03:19:07 2022-10-29 16:42:07 RF02029 sraA 2254 sraA Barquist LE Predicted; FSA; RNAalifold; Infernal 56.00 58.30 55.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.00 -Z 549862.597050 CM SEQDB 20 100 0 0 Gene; sRNA; Predicted; FSA; RNAalifold 110 0 \N 0.48460 -6.65400 1600000 244085 184 95 1 -3.69800 0.71869 2013-10-04 03:19:08 2019-01-04 15:01:52 RF02030 tp2 2254 tp2 Barquist LE Predicted; FSA; RNAalifold; Infernal 50.00 51.50 45.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.70 -Z 549862.597050 CM SEQDB 24 104 0 0 Gene; sRNA; Predicted; FSA; RNAalifold 116 0 \N 0.52844 -4.03307 1600000 160760 324 114 1 -3.49770 0.71845 2013-10-04 03:19:10 2019-01-04 15:01:52 RF02031 tpke11 2254 tpke11 Barquist LE Predicted; WAR; Infernal 43.00 44.70 41.50 In Yersinia located in ICR upstream dnaJ (chaperone)gene. Has temperature responsive RNA structure. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.24 -Z 549862.597050 CM SEQDB 28 124 0 0 Gene; sRNA; Predicted; WAR; T-coffee consensus 137 0 \N 0.62148 -5.08835 1600000 240341 152 76 1 -3.97530 0.71903 2013-10-04 03:19:13 2019-01-04 15:01:52 RF02032 GOLLD 2255 Giant, ornate, lake- and Lactobacillales-derived (GOLLD) RNA Weinberg Z, Eberhardt R Published; PMID:12376536; Weinberg Z 150.00 128.10 40.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 35 23 0 0 Gene; Published; PMID:12376536; Weinberg Z 26 0 \N 0.67750 -9.08673 1600000 471314 831 436 1 -4.20870 0.70190 2013-10-04 03:19:14 2021-11-19 11:53:19 RF02033 HEARO 2256 HNH endonuclease-associated RNA and ORF (HEARO) RNA Weinberg Z, Eberhardt R Published; PMID:12376536; Weinberg Z 32.00 32.00 31.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 139 1149 0 0 Gene; Published; PMID:12376536; Weinberg Z 254 0 \N 0.67663 -9.03350 1600000 418293 615 224 1 -3.57910 0.71032 2013-10-04 03:19:17 2021-11-19 11:53:19 RF02034 IMES-1 2257 IMES-1 RNA motif Weinberg Z, Eberhardt R Published; PMID:12376536; Weinberg Z 81.00 81.90 40.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 172 4 0 0 Gene; Published; PMID:12376536; Weinberg Z 4 0 \N 0.55775 -9.44459 1600000 415850 308 191 1 -2.80790 0.71310 2013-10-04 03:19:19 2021-11-19 11:53:19 RF02035 IMES-2 2258 IMES-2 RNA motif Weinberg Z, Eberhardt R Published; PMID:12376536; Weinberg Z 54.70 54.70 45.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 320 7 0 0 Gene; Published; PMID:12376536; Weinberg Z 8 0 \N 0.67378 -8.00665 1600000 420710 244 141 1 -2.78140 0.71817 2013-10-04 03:19:22 2021-11-19 11:53:19 RF02036 IMES-3 2259 IMES-3 RNA motif Weinberg Z, Eberhardt R Published; PMID:12376536; Weinberg Z 55.00 57.00 38.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 32 0 0 0 Gene; Published; PMID:12376536; Weinberg Z 1 0 \N 0.57127 -6.75322 1600000 244970 263 149 1 -2.84120 0.71818 2013-10-04 03:19:25 2019-01-04 15:01:52 RF02037 IMES-4 2260 IMES-4 RNA motif Weinberg Z, Eberhardt R Published; PMID:12376536; Weinberg Z 48.00 50.00 42.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 30 0 0 0 Gene; Published; PMID:12376536; Weinberg Z 1 0 \N 0.48648 -9.36626 1600000 477556 168 80 1 -3.25630 0.71886 2013-10-04 03:19:27 2019-01-04 15:01:52 RF02038 SPRY4-IT1_1 2261 SPRY4-IT1 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 72.80 44.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.35 -Z 549862.597050 CM SEQDB 23 34 0 0 Gene; lncRNA; Predicted; CMfinder; 41 0 \N 0.51250 -11.31609 1600000 420629 178 91 0 -3.07670 0.71840 2013-10-04 03:19:28 2019-01-04 15:01:52 RF02039 SPRY4-IT1_2 2261 SPRY4-IT1 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 40.00 43.00 31.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.44 -Z 549862.597050 CM SEQDB 24 36 0 0 Gene; lncRNA; Predicted; CMfinder; 44 0 \N 0.57288 -10.08972 1600000 361278 212 121 0 -3.29980 0.71802 2013-10-04 03:19:32 2019-01-04 15:01:52 RF02040 HOTTIP_1 2262 HOXA transcript at the distal tip, conserved region 1 Eberhardt R Predicted; ClustalW; Eberhardt R 50.00 51.80 41.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.00 -Z 549862.597050 CM SEQDB 7 28 0 0 Gene; lncRNA; Predicted; RNAalifold; 30 0 \N 0.56743 -10.74059 1600000 796598 133 57 0 -3.61140 0.71900 2013-10-04 03:19:34 2019-01-04 15:01:52 RF02041 HOTTIP_2 2262 HOXA transcript at the distal tip, conserved region 2 Eberhardt R Predicted; MAFFT; Eberhardt R 80.00 87.70 71.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 15.68 -Z 549862.597050 CM SEQDB 25 74 0 0 Gene; lncRNA; Predicted; Pfold; 83 0 \N 0.63490 -14.69987 1600000 694452 551 374 0 -4.18300 0.70327 2013-10-04 03:19:36 2019-01-04 15:01:52 RF02042 HOTTIP_3 2262 HOXA transcript at the distal tip, conserved region 3 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 99.70 39.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 16.13 -Z 549862.597050 CM SEQDB 23 36 0 0 Gene; lncRNA; Predicted; CMfinder; 45 0 \N 0.62587 -14.53449 1600000 627333 501 353 0 -4.20060 0.70389 2013-10-04 03:19:39 2019-01-04 15:01:52 RF02043 HOTTIP_4 2262 HOXA transcript at the distal tip, conserved region 4 Eberhardt R Predicted; CMfinder; Eberhardt R 45.00 45.80 33.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.08 -Z 549862.597050 CM SEQDB 19 37 0 0 Gene; lncRNA; Predicted; CMfinder; 46 0 \N 0.43624 -12.95224 1600000 267502 279 166 0 -3.64570 0.71601 2013-10-04 03:19:40 2019-01-04 15:01:52 RF02044 CDKN2B-AS_2 2234 CDKN2B antisense RNA 1 convserved region 2 Eberhardt R Predicted; WAR; Eberhardt R 50.00 53.60 42.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 17 0 0 Gene; lncRNA; Predicted; WAR; 21 0 \N 0.56019 -10.01476 1600000 547192 115 46 0 -3.55130 0.72193 2013-10-04 03:19:42 2022-05-06 11:43:53 RF02045 CDKN2B-AS_3 2234 CDKN2B antisense RNA 1 convserved region 3 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 72.00 48.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 18 29 0 0 Gene; lncRNA; Predicted; CMfinder; 37 0 \N 0.40266 -11.73395 1600000 454738 243 144 0 -3.13890 0.71786 2013-10-04 03:19:44 2021-12-03 12:41:14 RF02046 Sphinx_1 2263 Sphinx_ conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 34.00 34.00 33.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.67 -Z 549862.597050 CM SEQDB 3 155 0 0 Gene; lncRNA; Predicted; CMfinder; 75 0 \N 0.49053 -10.98755 1600000 306889 198 100 0 -3.34570 0.71824 2013-10-04 03:19:46 2019-01-04 15:01:52 RF02047 Sphinx_2 2263 Sphinx conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 34.00 34.00 31.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.64 -Z 549862.597050 CM SEQDB 37 168 0 0 Gene; lncRNA; Predicted; CMfinder; 83 0 \N 0.48319 -12.14497 1600000 401326 321 158 0 -3.34610 0.71715 2013-10-04 03:19:48 2019-01-04 15:01:52 RF02048 STnc30 1236 Salmonella enterica conserved region STnc30 Burge SW Burge SW 120.00 159.80 34.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 4 0 0 Gene; sRNA; Predicted; WAR; Burge, SW 5 0 \N 0.48330 -8.60095 1600000 296176 246 132 1 -3.17430 0.71831 2013-10-04 03:19:50 2019-01-04 15:01:52 RF02049 STnc460 1236 Salmonella enterica sRNA STnc460 Eberhardt R, Barquist LE Predicted; FSA 70.00 76.00 38.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; sRNA; Predicted; RNIE; RNAalifold 2 0 \N 0.55774 -8.15339 1600000 344538 262 146 1 -2.89790 0.71822 2013-10-04 03:19:52 2019-01-04 15:01:52 RF02050 STnc470 1236 Salmonella enterica sRNA STnc470 Burge SW Burge SW 80.00 84.50 58.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 5 0 0 Gene; sRNA; Predicted; WAR; Burge SW 5 0 \N 0.62967 -9.57358 1600000 396370 359 223 1 -3.91960 0.71031 2013-10-04 03:19:53 2019-01-04 15:01:52 RF02051 STnc450 1236 Enterobacterial sRNA STnc450 Eberhardt R Predicted; CMfinder; Eberhardt R 37.00 37.40 34.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 12 33 0 0 Gene; sRNA; Predicted; CMfinder; 42 0 \N 0.63447 -5.72784 1600000 330627 131 57 1 -3.28420 0.71935 2013-10-04 03:19:55 2019-01-04 15:01:52 RF02052 STnc630 1236 Enterobacterial sRNA STnc630 Eberhardt R Predicted; CMfinder; Eberhardt R 55.00 60.10 49.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 10 0 0 Gene; sRNA; Predicted; CMfinder; 18 0 \N 0.53933 -8.04658 1600000 341221 285 166 1 -3.16810 0.71620 2013-10-04 03:19:57 2019-01-04 15:01:52 RF02053 STnc430 1236 Enterobacterial sRNA STnc430 Eberhardt R Predicted; CMfinder; Eberhardt R 47.00 47.10 45.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 22 0 0 Gene; sRNA; Predicted; CMfinder; 24 0 \N 0.48440 -8.12652 1600000 327705 276 162 1 -2.95870 0.71680 2013-10-04 03:19:59 2019-01-04 15:01:52 RF02054 STnc420 1236 Salmonella enterica sRNA STnc420 Eberhardt R Predicted; CMfinder; Eberhardt R 70.00 78.00 59.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 3 0 0 Gene; sRNA; Predicted; CMfinder; 5 0 \N 0.61694 -4.04259 1600000 292822 141 58 1 -3.74520 0.71920 2013-10-04 03:20:01 2019-01-04 15:01:52 RF02055 STnc380 1236 Enterobacterial sRNA STnc380 Eberhardt R Predicted; CMfinder; Eberhardt R 60.00 92.30 41.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 2 0 0 Gene; sRNA; Predicted; CMfinder; 7 0 \N 0.55523 -8.09807 1600000 331582 210 108 1 -3.13430 0.71843 2013-10-04 03:20:03 2019-01-04 15:01:52 RF02056 STnc390 1236 Salmonella sRNA STnc390 Eberhardt R Predicted; WAR; Eberhardt R 50.00 52.90 46.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.72 -Z 549862.597050 CM SEQDB 2 5 0 0 Gene; sRNA; Predicted; WAR; 7 0 \N 0.65328 -4.82488 1600000 365177 146 60 1 -3.31980 0.72733 2013-10-04 03:20:04 2019-01-04 15:01:52 RF02057 STnc40 1236 Salmonella enterica sRNA STnc40 Barquist LE Predicted; LocARNA; Infernal 45.00 46.00 43.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 17 49 0 0 Gene; sRNA; Predicted; RNIE; LocARNA 59 0 \N 0.54727 -5.57970 1600000 285820 147 70 1 -3.03120 0.71906 2013-10-04 03:20:06 2019-01-04 15:01:52 RF02058 STnc400 1236 Gammaproteobacterial sRNA STnc400 Eberhardt R Predicted; ClustalW; Eberhardt R 80.00 102.30 71.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; Predicted; RNAalifold; 3 0 \N 0.54736 -6.64130 1600000 224370 231 124 1 -3.36380 0.71834 2013-10-04 03:20:08 2019-01-04 15:01:52 RF02059 STnc50 1236 Salmonella enterica sRNA STnc40 Barquist LE Predicted; FSA; Infernal 55.00 55.00 44.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 5 0 0 Gene; sRNA; Predicted; RNIE; RNAalifold 5 0 \N 0.53990 -5.62965 1600000 306661 178 84 1 -3.63760 0.71887 2013-10-04 03:20:10 2019-01-04 15:01:52 RF02060 STnc410 1236 Enterobacterial sRNA STnc410 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 52.10 37.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 10 0 0 Gene; sRNA; Predicted; CMfinder; 19 0 \N 0.57815 -8.97565 1600000 353268 269 158 1 -3.23510 0.71719 2013-10-04 03:20:12 2019-01-04 15:01:52 RF02061 mir-301 2264 microRNA mir-301 Burge SW Burge SW; ENSDART00000115588; 56.00 63.70 50.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 17 228 0 0 Gene; miRNA; Predicted; WAR; Burge SW; 113 0 \N 0.64141 -3.42913 1600000 181028 173 84 1 -3.81740 0.71881 2013-10-04 03:20:14 2019-01-04 15:01:52 RF02062 STnc361 1236 Salmonella enterica sRNA STnc361 Eberhardt R Predicted; ClustalW; Eberhardt R 80.00 107.90 37.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 5 0 0 Gene; sRNA; Predicted; RNAalifold; 5 0 \N 0.47939 -7.41841 1600000 290883 269 150 1 -2.93970 0.71811 2013-10-04 03:20:17 2019-01-04 15:01:52 RF02063 STnc350 1236 Salmonella enterica sRNA STnc350 Eberhardt R Predicted; CMfinder; Eberhardt R 60.00 87.50 55.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 5 0 0 Gene; sRNA; Predicted; CMfinder; 6 0 \N 0.55315 -6.83778 1600000 333548 157 68 1 -3.23490 0.72479 2013-10-04 03:20:18 2019-01-04 15:01:52 RF02064 STnc370 1236 Enterobacterial sRNA STnc370 Eberhardt R Predicted; WAR; Eberhardt R 54.00 54.20 53.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33.31 -Z 549862.597050 CM SEQDB 10 16 0 0 Gene; sRNA; Predicted; WAR; 25 0 \N 0.48861 -4.20181 1600000 264804 152 71 1 -3.55240 0.71911 2013-10-04 03:20:20 2019-01-04 15:01:52 RF02065 STnc340 1236 Enterobacterial sRNA STnc340 Eberhardt R Predicted; WAR; Eberhardt R 80.00 112.50 52.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 5 0 0 Gene; sRNA; Predicted; WAR; 7 0 \N 0.42952 -11.03727 1600000 548423 239 130 1 -2.91720 0.71811 2013-10-04 03:20:24 2019-01-04 15:01:52 RF02066 STnc320 1236 Salmonella enterica sRNA STnc320 Eberhardt R Predicted; WAR; Eberhardt R 50.00 51.20 46.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 5 0 0 Gene; sRNA; Predicted; WAR; 7 0 \N 0.54900 -7.58833 1600000 400879 136 55 1 -3.88620 0.71978 2013-10-04 03:20:25 2019-01-04 15:01:52 RF02067 STnc310 1236 Salmonella enterica sRNA STnc310 Eberhardt R Predicted; ClustalW; Eberhardt R 40.00 45.70 37.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.60 -Z 549862.597050 CM SEQDB 8 4 0 0 Gene; sRNA; Predicted; RNAalifold; 10 0 \N 0.54501 -7.48839 1600000 341199 142 61 1 -3.63340 0.71930 2013-10-04 03:20:27 2019-01-04 15:01:52 RF02068 STnc480 1266 Enterobacterial sRNA STnc480 Burge SW Burge SW 72.00 72.00 70.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 4 0 0 Gene; sRNA; Predicted;WAR ;Burge SW 9 0 \N 0.49740 -5.19705 1600000 251603 173 72 1 -3.66790 0.71884 2013-10-04 03:20:29 2019-01-04 15:01:52 RF02069 STnc70 2265 Enterobacterial sRNA STnc70 Burge SW, Barquist LE Burge SW 40.00 40.20 39.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 32 0 0 Gene; sRNA; Predicted; Pfold; Burge SW 32 0 \N 0.56497 -8.21600 1600000 278270 269 149 1 -3.09710 0.71796 2013-10-04 03:20:31 2019-01-04 15:01:52 RF02070 STnc300 1236 Salmonella enterica sRNA STnc300 Eberhardt R Predicted; CMfinder; Eberhardt R 80.00 83.30 71.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 4 0 0 Gene; sRNA; Predicted; CMfinder; 7 0 \N 0.42565 -9.49326 1600000 390440 279 159 1 -2.90430 0.71724 2013-10-04 03:20:32 2019-01-04 15:01:52 RF02071 STnc280 1236 Salmonella enterica sRNA STnc280 Eberhardt R Predicted; WAR; Eberhardt R 80.00 95.00 53.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 5 0 0 Gene; sRNA; Predicted; WAR; 6 0 \N 0.54483 -6.18048 1600000 300879 175 83 1 -3.66360 0.71868 2013-10-04 03:20:34 2019-01-04 15:01:52 RF02072 STnc590 1236 Salmonella enterica sRNA STnc590 Eberhardt R Predicted; CMfinder; Eberhardt R 100.00 142.80 60.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 3 0 0 Gene; sRNA; Predicted; CMfinder; 5 0 \N 0.43657 -7.95292 1600000 406000 283 160 1 -2.58440 0.71694 2013-10-04 03:20:36 2019-01-04 15:01:52 RF02073 STnc260 1236 Salmonella enterica sRNA STnc260 Eberhardt R Predicted; CMfinder; Eberhardt R 100.00 137.00 78.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 5 0 0 Gene; sRNA; Predicted; CMfinder; 7 0 \N 0.46023 -8.42719 1600000 295189 302 176 1 -3.06370 0.71481 2013-10-04 03:20:37 2019-01-04 15:01:52 RF02074 STnc240 1236 Enterobacterial sRNA STnc240 Eberhardt R Predicted; WAR; Eberhardt R 55.00 55.60 53.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.65 -Z 549862.597050 CM SEQDB 15 66 0 0 Gene; sRNA; Predicted; WAR; 76 0 \N 0.48830 -5.94189 1600000 272368 160 77 1 -3.31580 0.71886 2013-10-04 03:20:39 2019-01-04 15:01:52 RF02075 STnc230 1236 Enterobacterial sRNA STnc230 Eberhardt R Predicted; WAR; Eberhardt R 50.00 63.80 44.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 15 0 0 Gene; sRNA; Predicted; WAR; 22 0 \N 0.47773 -5.85326 1600000 177898 167 83 1 -3.69740 0.71877 2013-10-04 03:20:41 2019-01-04 15:01:52 RF02076 STnc100 1236 Gammaproteobacterial sRNA STnc100 Burge SW Predicted; CMfinder; Burge SW 47.00 47.10 46.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.97 -Z 549862.597050 CM SEQDB 24 111 0 0 Gene; sRNA; Predicted; CMfinder 71 0 \N 0.57598 -8.96429 1600000 282551 325 206 1 -3.93230 0.71186 2013-10-04 03:20:42 2019-01-04 15:01:52 RF02077 STnc220 1236 Salmonella enterica sRNA STnc220 Eberhardt R Predicted; CMfinder; Eberhardt R 60.00 69.00 49.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 5 0 0 Gene; sRNA; Predicted; CMfinder; 7 0 \N 0.56220 -4.16271 1600000 247186 173 81 1 -3.58450 0.71873 2013-10-04 03:20:45 2019-01-04 15:01:52 RF02078 STnc210 1236 Salmonella enterica sRNA STnc210 Eberhardt R Predicted; WAR; Eberhardt R 100.00 148.20 45.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 5 0 0 Gene; sRNA; Predicted; WAR; 5 0 \N 0.54310 -7.99336 1600000 348386 303 177 1 -3.33540 0.71482 2013-10-04 03:20:46 2019-01-04 15:01:52 RF02079 STnc180 1236 Enterobacterial sRNA STnc180 Eberhardt R Predicted; ClustalW; Eberhardt R 50.00 55.30 40.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 21 0 0 Gene; sRNA; Predicted; RNAalifold; 27 0 \N 0.57215 -9.63732 1600000 393146 345 217 1 -3.65170 0.71083 2013-10-04 03:20:48 2019-01-04 15:01:52 RF02080 STnc170 1236 Salmonella enterica sRNA STnc170 Eberhardt R Predicted; CMfinder; Eberhardt R 80.00 97.90 28.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.58 -Z 549862.597050 CM SEQDB 3 4 0 0 Gene; sRNA; Predicted; CMfinder; 7 0 \N 0.61120 -9.02804 1600000 388218 495 333 1 -3.71480 0.70466 2013-10-04 03:20:50 2019-01-04 15:01:52 RF02081 STnc550 1236 Enterobacterial sRNA STnc550 Eberhardt R Predicted; CMfinder; Eberhardt R 48.00 49.20 46.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 64 0 0 Gene; sRNA; Predicted; CMfinder; 70 0 \N 0.62513 -9.89753 1600000 466091 548 388 1 -4.01060 0.70299 2013-02-01 11:59:22 2019-01-04 15:01:52 RF02082 STnc540 1236 Enterobacterial sRNA STnc540 Eberhardt R Predicted; WAR; Eberhardt R 38.00 38.30 36.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 18 0 0 Gene; sRNA; Predicted; WAR; 19 0 \N 0.61653 -6.78943 1600000 275849 333 202 1 -3.66140 0.71210 2013-10-04 03:21:00 2019-01-04 15:01:52 RF02083 OrzO-P 2266 OrzO-P RNA antitoxin family Barquist LE Predicted; Barquist LE; FSA; Infernal 60.00 66.30 42.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 2 0 0 Gene; antitoxin; Predicted; RNAalifold 9 0 \N 0.48085 -8.34788 1600000 290663 164 76 1 -3.43120 0.71886 2013-10-04 03:21:02 2019-01-04 15:01:52 RF02084 STnc130 1236 Enterobacteria sRNA STnc130 Burge SW Predicted; WAR;Burge SW 55.00 57.30 48.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.17 -Z 549862.597050 CM SEQDB 13 29 0 0 Gene; sRNA; Predicted; WAR; 38 0 \N 0.47403 -8.08195 1600000 350010 239 135 1 -2.96420 0.71805 2013-10-04 03:21:04 2019-01-04 15:01:52 RF02085 Yar_1 2267 Yellow-achaete intergenic RNA conserved region 1 Eberhardt R Predicted; WAR; Eberhardt R 50.00 77.90 35.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.62 -Z 549862.597050 CM SEQDB 10 8 0 0 Gene; lncRNA; Predicted; WAR; 13 0 \N 0.57712 -7.86739 1600000 227429 164 74 0 -3.97970 0.71867 2013-10-04 03:21:05 2019-01-04 15:01:52 RF02086 Yar_2 2267 Yellow-achaete intergenic RNA conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 86.40 33.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.77 -Z 549862.597050 CM SEQDB 7 10 0 0 Gene; lncRNA; Predicted; CMfinder; 11 0 \N 0.55600 -9.58687 1600000 330883 160 74 0 -3.44530 0.71865 2013-10-04 03:21:07 2019-01-04 15:01:52 RF02087 Yar_3 2267 Yellow-achaete intergenic RNA conserved region 3 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 59.40 38.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.89 -Z 549862.597050 CM SEQDB 4 6 0 0 Gene; lncRNA; Predicted; CMfinder; 8 0 \N 0.66597 -7.92923 1600000 323234 150 67 0 -3.73330 0.71880 2013-10-04 03:21:09 2019-01-04 15:01:52 RF02088 STnc510 1266 Enterobacterial sRNA STnc510 Burge SW Burge SW 80.00 88.30 27.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 6 0 0 Gene; sRNA; Predicted; WAR; Burge SW 8 0 \N 0.63286 -8.62241 1600000 314101 1175 807 1 -4.85390 0.69789 2013-10-04 03:21:10 2019-01-04 15:01:52 RF02089 CLRN1-AS1 2268 CLRN1 antisense RNA 1 conserved region Eberhardt R Predicted; WAR; Eberhardt R 48.00 49.20 43.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.77 -Z 549862.597050 CM SEQDB 19 34 0 0 Gene; lncRNA; Predicted; WAR; 40 0 \N 0.67091 -7.62399 1600000 279988 157 79 0 -3.62800 0.71859 2013-10-04 03:21:12 2019-01-04 15:01:52 RF02090 DAOA-AS1_1 2269 DAOA antisense RNA 1 conserved region 1 Eberhardt R Predicted; WAR; Eberhardt R 50.00 54.00 44.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 36.49 -Z 549862.597050 CM SEQDB 24 37 0 0 Gene; lncRNA; Predicted; WAR; 47 0 \N 0.36849 -15.25529 1600000 556140 320 201 0 -3.48690 0.71199 2013-10-04 03:21:14 2019-01-04 15:01:52 RF02091 DAOA-AS1_2 2269 DAOA antisense RNA 1 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 43.00 43.60 40.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.43 -Z 549862.597050 CM SEQDB 24 64 0 0 Gene; lncRNA; Predicted; CMfinder; 49 0 \N 0.53995 -13.07091 1600000 359236 315 205 0 -3.68570 0.71165 2013-10-04 03:21:16 2019-01-04 15:01:52 RF02092 mir-2970 1287 mir-2970 microRNA precursor Griffiths-Jones SR Griffiths-Jones SR 72.00 77.00 71.50 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 77.00 -Z 742849.287494 CM SEQDB 4 28 0 0 Gene; miRNA; Predicted; RNAalifold 28 0 \N 0.61567 -3.87526 1600000 179472 171 80 1 -3.55000 0.71896 2013-10-04 03:21:19 2021-03-01 19:36:46 RF02093 mir-2968 1287 mir-2968 microRNA precursor Moore B Published; PMID:21627805 70.00 83.50 51.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 12 55 0 0 Gene; miRNA; Published; PMID:21627805 56 0 \N 0.58523 -3.77609 1600000 216074 207 106 1 -3.13690 0.71868 2013-10-04 03:21:20 2019-01-04 15:01:52 RF02094 mir-1803 1287 mir-1803 microRNA precursor Moore B Published; PMID:21627805 64.00 64.10 63.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 859 0 0 Gene; miRNA; Published; PMID:21627805 58 0 \N 0.64711 -3.63748 1600000 215032 171 85 1 -3.72910 0.71911 2013-10-04 03:21:22 2019-01-04 15:01:52 RF02095 mir-2985-2 1287 mir-2985-2 microRNA precursor Moore B Published; PMID:21627805 67.00 69.60 66.80 RNAs can be post-transcriptional modified, in micro RNAs (miRNA) editing of pre-mRNA is a common process. The structure of the mir-2985-2 has been reported in complex with ADAR protein [3] where they call it R/G site, in the structure, reported in PDB 2L3J, R/G site is reported as a regular A-form helix structure, composed of a stem-loop containing three base-pair mismatches, 2 C:A and 1 G:G. Based on the sequences presented in the SEED alignment, one of the C:A mismatches reported in [3] was updated to a a:u base pair. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 21 345 0 0 Gene; miRNA; Published; PMID:21627805 118 0 \N 0.62928 -3.23904 1600000 190551 170 81 1 -3.55060 0.71902 2013-10-04 03:21:27 2022-05-06 12:09:58 RF02097 mir-1662 1287 mir-1662 microRNA precursor Griffiths-Jones SR Griffiths-Jones SR 85.00 90.50 84.50 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 90.00 -Z 742849.287494 CM SEQDB 3 50 0 0 Gene; miRNA; Predicted; RNAalifold 50 0 \N 0.61955 -4.29780 1600000 313423 153 66 1 -3.38240 0.71921 2013-10-04 03:21:36 2021-07-05 13:43:57 RF02098 DGCR5 2507 DiGeorge syndrome critical region gene 5 conserved region Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 60.10 38.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.91 -Z 549862.597050 CM SEQDB 4 13 0 0 Gene; lncRNA; Predicted; CMfinder; 10 0 \N 0.51705 -9.65794 1600000 472889 123 49 0 -3.23320 0.72014 2013-10-04 03:21:37 2019-01-04 15:01:52 RF02099 rivX 2271 rivX sRNA Moore B Published; PMID:18005100 100.00 301.70 51.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; WAR 3 0 \N 0.66180 -8.87808 1600000 412635 392 248 1 -3.72660 0.70857 2013-10-04 03:21:39 2019-01-04 15:01:52 RF02100 tfoR 1863 Translational regulator of tfoXVC Moore B Published; PMID:21317321 70.00 80.10 52.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 42 0 0 Gene; sRNA; Predicted; WAR 48 0 \N 0.70566 -5.13427 1600000 292380 199 101 1 -3.04570 0.71859 2013-10-04 03:21:41 2019-01-04 15:01:52 RF02101 HULC 2272 Highly up-regulated in liver cancer conserved region Eberhardt R Predicted; CMfinder; Eberhardt R 45.00 47.40 44.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.00 -Z 549862.597050 CM SEQDB 19 32 0 0 Gene; lncRNA; Predicted; CMfinder; 39 0 \N 0.29943 -17.02155 1600000 393172 355 241 0 -3.26800 0.70889 2013-10-04 03:21:42 2019-01-04 15:01:52 RF02102 DISC2 2489 Disrupted in schizophrenia 2 conserved region Eberhardt R Predicted; WAR; Eberhardt R 100.00 100.80 83.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 45.21 -Z 549862.597050 CM SEQDB 5 12 0 0 Gene; lncRNA; Predicted; WAR; 13 0 \N 0.31930 -13.66738 1600000 424608 333 205 0 -3.21960 0.71160 2013-10-04 03:21:46 2019-01-04 15:01:52 RF02103 DLEU1_1 2464 Deleted in lymphocytic leukemia 1 conserved region 1 Eberhardt R Predicted; MAFFT; Eberhardt R 30.00 30.10 29.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.65 -Z 549862.597050 CM SEQDB 26 57 0 0 Gene; lncRNA; Predicted; Pfold; 54 0 \N 0.46634 -12.93614 1600000 303335 298 190 0 -3.50220 0.71308 2013-10-04 03:21:48 2019-01-04 15:01:52 RF02104 DLEU1_2 2464 Deleted in lymphocytic leukemia 1 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 100.00 100.00 83.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34.10 -Z 549862.597050 CM SEQDB 16 22 0 0 Gene; lncRNA; Predicted; CMfinder; 27 0 \N 0.35834 -18.68736 1600000 476997 484 344 0 -4.13610 0.70416 2013-10-04 03:21:50 2019-01-04 15:01:52 RF02105 DLEU2_1 1280 Deleted in lymphocytic leukemia 2 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 52.00 54.00 51.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 41.46 -Z 549862.597050 CM SEQDB 27 50 0 0 Gene; lncRNA; Predicted; CMfinder; 39 0 \N 0.36650 -8.97675 1600000 310022 214 121 0 -2.90790 0.71804 2013-10-04 03:21:52 2019-01-04 15:01:52 RF02106 DLEU2_2 1280 Deleted in lymphocytic leukemia 2 conserved region 2 Eberhardt R Predicted; MAFFT; Eberhardt R 45.00 46.50 42.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 35.17 -Z 549862.597050 CM SEQDB 18 33 0 0 Gene; lncRNA; Predicted; Pfold; 34 0 \N 0.41953 -8.57013 1600000 270956 175 90 0 -2.84950 0.71843 2013-10-04 03:21:54 2019-01-04 15:01:52 RF02107 DLEU2_3 1280 Deleted in lymphocytic leukemia 2 conserved region 3 Eberhardt R Predicted; CMfinder; Eberhardt R 60.00 60.90 56.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.92 -Z 549862.597050 CM SEQDB 24 37 0 0 Gene; lncRNA; Predicted; CMfinder; 40 0 \N 0.44499 -10.34314 1600000 427311 156 76 0 -3.36640 0.71862 2013-10-04 03:21:55 2019-01-04 15:01:52 RF02108 DLEU2_4 1280 Deleted in lymphocytic leukemia 2 conserved region 4 Eberhardt R Predicted; CMfinder; Eberhardt R 40.00 40.90 39.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.82 -Z 549862.597050 CM SEQDB 21 47 0 0 Gene; lncRNA; Predicted; CMfinder; 39 0 \N 0.56428 -8.53311 1600000 435172 129 58 0 -3.73290 0.71898 2013-10-04 03:21:57 2019-01-04 15:01:52 RF02109 DLEU2_5 1280 Deleted in lymphocytic leukemia 2 conserved region 5 Eberhardt R Predicted; MAFFT; Eberhardt R 40.00 41.90 38.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.88 -Z 549862.597050 CM SEQDB 30 112 0 0 Gene; lncRNA; Predicted; RNAalifold; 98 0 \N 0.49016 -8.99824 1600000 336788 167 84 0 -3.35400 0.71849 2013-02-01 11:59:24 2019-01-04 15:01:52 RF02110 DLEU2_6 1280 Deleted in lymphocytic leukemia 2 conserved region 6 Eberhardt R Predicted; ClustalW; Eberhardt R 60.00 62.60 58.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.89 -Z 549862.597050 CM SEQDB 32 65 0 0 Gene; lncRNA; Predicted; Pfold; 49 0 \N 0.50077 -10.09832 1600000 321471 233 135 0 -2.87870 0.71789 2013-10-04 03:22:02 2019-01-04 15:01:52 RF02111 IS009 2254 IS009 Burge SW Burge SW 117.00 117.20 114.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 12 0 0 Gene; Predicted; CMFinder; Burge SW 20 0 \N 0.61573 -9.79151 1600000 471227 323 198 1 -3.23100 0.71243 2013-10-04 03:22:04 2019-01-04 15:01:52 RF02112 DLG2-AS1_1 2275 DLG2 antisense RNA 1 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 80.00 96.40 75.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 43.12 -Z 549862.597050 CM SEQDB 21 40 0 0 Gene; lncRNA; Predicted; CMfinder; 46 0 \N 0.32556 -14.30722 1600000 382765 336 215 0 -3.01870 0.71077 2013-10-04 03:22:07 2019-01-04 15:01:52 RF02113 DLG2-AS1_2 2275 DLG2 antisense RNA 1 conserved region 2 Eberhardt R Predicted; ClustalW; Eberhardt R 70.00 86.30 64.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.03 -Z 549862.597050 CM SEQDB 23 36 0 0 Gene; lncRNA; Predicted; RNAalifold; 46 0 \N 0.55247 -13.32678 1600000 510999 395 215 0 -3.56590 0.71076 2013-10-04 03:22:09 2019-01-04 15:01:52 RF02114 FAM13A-AS1_1 1276 FAM13A antisense RNA 1 conserved region 1 Eberhardt R Predicted; WAR; Eberhardt R 70.00 77.90 63.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.29 -Z 549862.597050 CM SEQDB 10 24 0 0 Gene; lncRNA; Predicted; WAR; 28 0 \N 0.47456 -10.32470 1600000 265026 211 118 0 -3.12060 0.71809 2013-10-04 03:22:11 2019-01-04 15:01:52 RF02115 FAM13A-AS1_2 1276 FAM13A antisense RNA 1 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 38.00 39.90 36.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.96 -Z 549862.597050 CM SEQDB 10 29 0 0 Gene; lncRNA; Predicted; CMfinder; 32 0 \N 0.52171 -11.08543 1600000 428037 208 114 0 -3.13700 0.71809 2013-10-04 03:22:13 2019-01-04 15:01:52 RF02116 FAS-AS1 2485 FAS antisense RNA 1 conserved region Eberhardt R Predicted; ClustalW; Eberhardt R 55.00 59.00 46.00 \N SAF cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 35.20 -Z 549862.597050 CM SEQDB 19 34 0 0 Gene; lncRNA; Predicted; Pfold; 40 0 \N 0.38734 -12.80814 1600000 346766 275 171 0 -3.20450 0.71531 2013-10-04 03:22:14 2019-01-04 15:01:52 RF02117 FMR1-AS1_1 2277 FMR1 antisense RNA 1 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 40.00 41.60 33.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.58 -Z 549862.597050 CM SEQDB 20 31 0 0 Gene; lncRNA; Predicted; CMfinder; 35 0 \N 0.63532 -8.40418 1600000 545460 130 56 0 -3.87990 0.71902 2013-10-04 03:22:16 2019-01-04 15:01:52 RF02118 FMR1-AS1_2 2277 FMR1 antisense RNA 1 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 80.00 88.80 61.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 44.76 -Z 549862.597050 CM SEQDB 25 28 0 0 Gene; lncRNA; Predicted; CMfinder; 34 0 \N 0.29519 -20.42184 1600000 660113 232 127 0 -2.81810 0.71800 2013-10-04 03:22:18 2019-01-04 15:01:52 RF02119 FTX_1 2278 FTX transcript, XIST regulator conserved region 1 Eberhardt R Predicted; WAR; Eberhardt R 50.00 52.10 36.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.63 -Z 549862.597050 CM SEQDB 11 33 0 0 Gene; lncRNA; Predicted; WAR; 30 0 \N 0.53109 -9.62124 1600000 393060 151 71 0 -3.53580 0.71871 2013-10-04 03:22:20 2019-01-04 15:01:52 RF02120 FTX_2 2278 FTX transcript, XIST regulator conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 48.00 49.80 42.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.02 -Z 549862.597050 CM SEQDB 18 28 0 0 Gene; lncRNA; Predicted; CMfinder; 32 0 \N 0.51829 -9.85247 1600000 345807 182 97 0 -3.30090 0.71832 2013-10-04 03:22:22 2019-01-04 15:01:52 RF02121 FTX_3 2278 FTX transcript, XIST regulator conserved region 3 Eberhardt R Predicted; CMfinder; Eberhardt R 55.00 56.40 48.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.82 -Z 549862.597050 CM SEQDB 14 28 0 0 Gene; lncRNA; Predicted; CMfinder; 34 0 \N 0.44306 -11.85076 1600000 303135 260 147 0 -2.85040 0.71782 2013-10-04 03:22:23 2019-01-04 15:01:52 RF02122 FTX_5 2278 FTX transcript, XIST regulator conserved region 5 Eberhardt R Predicted; CMfinder; Eberhardt R 45.00 48.10 36.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33.75 -Z 549862.597050 CM SEQDB 14 36 0 0 Gene; lncRNA; Predicted; CMfinder; 34 0 \N 0.36201 -18.87608 1600000 547217 329 208 0 -3.24390 0.71138 2013-10-04 03:22:25 2019-01-04 15:01:52 RF02123 FTX_4 2278 FTX transcript, XIST regulator conserved region 4 Eberhardt R Predicted; CMfinder; Eberhardt R 80.00 96.90 44.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.19 -Z 549862.597050 CM SEQDB 13 25 0 0 Gene; lncRNA; Predicted; CMfinder; 29 0 \N 0.45933 -9.85321 1600000 283609 251 141 0 -3.29460 0.71786 2013-10-04 03:22:27 2019-01-04 15:01:52 RF02124 JPX_1 1281 JPX transcript, XIST activator conserved region 1 Eberhardt R Predicted; ClustalW; Eberhardt R 55.00 59.90 49.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.42 -Z 549862.597050 CM SEQDB 14 34 0 0 Gene; lncRNA; Predicted; Pfold; 30 0 \N 0.46719 -12.91807 1600000 467920 236 135 0 -2.96500 0.71789 2013-10-04 03:22:29 2019-01-04 15:01:52 RF02125 JPX_2 1281 JPX transcript, XIST activator conserved region 2 Eberhardt R Predicted; MAFFT; Eberhardt R 48.00 49.10 44.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.63 -Z 549862.597050 CM SEQDB 11 23 0 0 Gene; lncRNA; Predicted; Pfold; 27 0 \N 0.56267 -8.73893 1600000 414246 146 69 0 -3.91550 0.71876 2013-02-01 11:59:25 2019-01-04 15:01:52 RF02126 GHRLOS 2279 Ghrelin opposite strand RNA conserved region Eberhardt R Predicted; WAR; Eberhardt R 48.00 48.50 40.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.38 -Z 549862.597050 CM SEQDB 16 21 0 0 Gene; lncRNA; Predicted; WAR; 23 0 \N 0.65927 -8.35049 1600000 489057 151 70 0 -3.48350 0.71871 2013-10-04 03:22:33 2019-01-04 15:01:52 RF02127 GNAS-AS1_1 1282 GNAS antisense RNA 1 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 45.00 46.20 36.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.08 -Z 549862.597050 CM SEQDB 21 37 0 0 Gene; lncRNA; Predicted; CMfinder; 42 0 \N 0.44231 -12.28666 1600000 400180 240 105 0 -3.17150 0.71823 2013-10-04 03:22:35 2019-01-04 15:01:52 RF02128 GNAS-AS1_2 1282 GNAS antisense RNA 1 conserved region 2 Eberhardt R Predicted; WAR; Eberhardt R 47.00 48.50 41.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.25 -Z 549862.597050 CM SEQDB 16 29 0 0 Gene; lncRNA; Predicted; WAR; 35 0 \N 0.41459 -13.36750 1600000 313880 216 119 0 -2.92260 0.71804 2013-10-04 03:22:36 2019-01-04 15:01:52 RF02129 GNAS-AS1_3 1282 GNAS antisense RNA 1 conserved region 3 Eberhardt R Predicted; CMfinder; Eberhardt R 42.00 43.70 41.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.77 -Z 549862.597050 CM SEQDB 9 24 0 0 Gene; lncRNA; Predicted; CMfinder; 24 0 \N 0.64157 -8.50991 1600000 794926 102 38 0 -3.90840 0.72207 2013-10-04 03:22:38 2019-01-04 15:01:52 RF02130 GNAS-AS1_4 1282 GNAS antisense RNA 1 conserved region 4 Eberhardt R Predicted; ClustalW; Eberhardt R 50.00 51.50 43.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34.70 -Z 549862.597050 CM SEQDB 18 42 0 0 Gene; lncRNA; Predicted; RNAalifold; 42 0 \N 0.37787 -15.15187 1600000 441668 220 122 0 -2.93710 0.71800 2013-10-04 03:22:40 2019-01-04 15:01:52 RF02131 GNAS-AS1_5 1282 GNAS antisense RNA 1 conserved region 5 Eberhardt R Predicted; MAFFT; Eberhardt R 70.00 77.50 43.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 40.12 -Z 549862.597050 CM SEQDB 22 38 0 0 Gene; lncRNA; Predicted; RNAalifold; 45 0 \N 0.33464 -16.16846 1600000 441186 226 124 0 -2.77750 0.71799 2013-02-01 11:59:27 2019-01-04 15:01:52 RF02132 HOXB13-AS1_1 2496 HOXB13 antisense RNA 1 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 60.00 65.30 57.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.73 -Z 549862.597050 CM SEQDB 12 26 0 0 Gene; lncRNA; Predicted; CMfinder; 32 0 \N 0.53291 -11.17499 1600000 348540 301 136 0 -3.41250 0.71790 2013-10-04 03:22:44 2019-01-04 15:01:52 RF02133 HOXB13-AS1_2 2496 HOXB13 antisense RNA 1 conserved region 2 Eberhardt R Predicted; ClustalW; Eberhardt R 40.00 43.00 35.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.77 -Z 549862.597050 CM SEQDB 14 29 0 0 Gene; lncRNA; Predicted; RNAalifold; 35 0 \N 0.61460 -8.95746 1600000 462019 161 81 0 -3.60750 0.71855 2013-10-04 03:22:46 2019-01-04 15:01:52 RF02134 HTT-AS1_1 2492 HTT antisense RNA 1 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 200.00 241.10 57.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.26 -Z 549862.597050 CM SEQDB 3 9 0 0 Gene; lncRNA; Predicted; CMfinder; 8 0 \N 0.40132 -17.93047 1600000 488095 366 230 0 -3.47530 0.70960 2013-10-04 03:22:47 2019-01-04 15:01:52 RF02135 HTT-AS1_2 2492 HTT antisense RNA 1 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 100.00 126.70 37.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.30 -Z 549862.597050 CM SEQDB 3 8 0 0 Gene; lncRNA; Predicted; CMfinder; 8 0 \N 0.39673 -14.61610 1600000 352178 303 175 0 -3.39630 0.71483 2013-10-04 03:22:49 2019-01-04 15:01:52 RF02136 HTT-AS1_3 2492 HTT antisense RNA 1 conserved region 3 Eberhardt R Predicted; CMfinder; Eberhardt R 70.00 76.70 35.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.50 -Z 549862.597050 CM SEQDB 4 7 0 0 Gene; lncRNA; Predicted; CMfinder; 8 0 \N 0.52708 -10.64027 1600000 544149 138 60 0 -3.96880 0.71892 2013-10-04 03:22:51 2019-01-04 15:01:52 RF02137 HOXA11-AS1_1 2483 HOXA11 antisense RNA 1 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 50.90 32.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.28 -Z 549862.597050 CM SEQDB 15 37 0 0 Gene; lncRNA; Predicted; CMfinder; 44 0 \N 0.48644 -10.43061 1600000 269104 189 96 0 -3.34940 0.71834 2013-10-04 03:22:53 2019-01-04 15:01:52 RF02138 HOXA11-AS1_2 2483 HOXA11 antisense RNA 1 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 66.60 41.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.35 -Z 549862.597050 CM SEQDB 21 88 0 0 Gene; lncRNA; Predicted; CMfinder; 94 0 \N 0.38170 -16.61947 1600000 382228 304 187 0 -3.46500 0.71340 2013-10-04 03:22:54 2019-01-04 15:01:52 RF02139 HOXA11-AS1_3 2483 HOXA11 antisense RNA 1 conserved region 3 Eberhardt R Predicted; MAFFT; Eberhardt R 50.00 62.10 34.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.69 -Z 549862.597050 CM SEQDB 24 36 0 0 Gene; lncRNA; Predicted; RNAalifold; 46 0 \N 0.46412 -11.63887 1600000 391344 189 98 0 -3.28510 0.71831 2013-10-04 03:22:56 2019-01-04 15:01:52 RF02140 HOXA11-AS1_4 2483 HOXA11 antisense RNA 1 conserved region 4 Eberhardt R Predicted; CMfinder; Eberhardt R 80.00 87.90 66.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 45.48 -Z 549862.597050 CM SEQDB 20 85 0 0 Gene; lncRNA; Predicted; CMfinder; 94 0 \N 0.31145 -14.60412 1600000 389554 361 233 0 -3.38120 0.70946 2013-10-04 03:22:58 2019-01-04 15:01:52 RF02141 HOXA11-AS1_5 2483 HOXA11 antisense RNA 1 conserved region 5 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 53.20 49.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.96 -Z 549862.597050 CM SEQDB 28 86 0 0 Gene; lncRNA; Predicted; CMfinder; 95 0 \N 0.42522 -16.49823 1600000 472263 445 203 0 -3.55130 0.71180 2013-10-04 03:22:59 2019-01-04 15:01:52 RF02142 HOXA11-AS1_6 2483 HOXA11 antisense RNA 1 conserved region 6 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 57.20 38.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.78 -Z 549862.597050 CM SEQDB 21 37 0 0 Gene; lncRNA; Predicted; CMfinder; 46 0 \N 0.50509 -12.88637 1600000 321322 368 179 0 -3.83070 0.71429 2013-10-04 03:23:01 2019-01-04 15:01:52 RF02143 HYMAI 2283 Hydatidiform mole associated and imprinted conserved region 1 Eberhardt R Predicted; ClustalW; Eberhardt R 80.00 112.60 52.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.46 -Z 549862.597050 CM SEQDB 16 36 0 0 Gene; lncRNA; Predicted; RNAalifold; 39 0 \N 0.51994 -11.81493 1600000 452975 394 242 0 -3.83780 0.70879 2013-10-04 03:23:03 2019-01-04 15:01:52 RF02144 rsmX 2284 rsmX Moll S, Schneider DJ, Stodghill P, Myers CR, Cartinhour SW, Filiatrault M Moll S, Schneider DJ, Stodghill P, Myers CR, Cartinhour SW, Filiatrault M 56.00 66.50 52.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 96 0 0 Gene; Predicted; 53 0 \N 0.51911 -9.86352 1600000 341381 215 114 1 -3.09590 0.71868 2013-10-04 03:23:06 2021-07-05 13:43:57 RF02145 MEG8_1 2470 Maternally expressed 8 exon 1 Eberhardt R Predicted; ClustalW; Eberhardt R 70.00 76.80 35.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.80 -Z 549862.597050 CM SEQDB 23 37 0 0 Gene; lncRNA; Predicted; RNAalifold; 45 0 \N 0.65514 -7.32135 1600000 291727 186 97 0 -3.62860 0.71832 2013-10-04 03:23:07 2019-01-04 15:01:52 RF02146 MEG8_2 2470 Maternally expressed 8 exon 2 Eberhardt R Predicted; CMfinder; Eberhardt R 45.00 46.30 41.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.10 -Z 549862.597050 CM SEQDB 12 26 0 0 Gene; lncRNA; Predicted; CMfinder; 28 0 \N 0.42391 -13.76496 1600000 529730 218 111 0 -3.35360 0.71815 2013-10-04 03:23:09 2019-01-04 15:01:52 RF02147 MEG8_3 2470 Maternally expressed 8 exon 3 Eberhardt R Predicted; ClustalW; Eberhardt R 40.00 41.20 37.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.26 -Z 549862.597050 CM SEQDB 10 30 0 0 Gene; lncRNA; Predicted; RNAalifold; 32 0 \N 0.66007 -8.54879 1600000 527412 143 66 0 -3.65300 0.71879 2013-10-04 03:23:11 2019-01-04 15:01:52 RF02148 MESTIT1_1 2286 MEST intronic transcript 1, antisense RNA conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 54.60 47.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34.38 -Z 549862.597050 CM SEQDB 16 33 0 0 Gene; lncRNA; Predicted; CMfinder; 41 0 \N 0.39518 -12.53958 1600000 328188 296 144 0 -3.60870 0.71782 2013-10-04 03:23:13 2019-01-04 15:01:52 RF02149 MESTIT1_2 2286 MEST intronic transcript 1, antisense RNA conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 80.00 133.90 55.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.92 -Z 549862.597050 CM SEQDB 16 37 0 0 Gene; lncRNA; Predicted; CMfinder; 42 0 \N 0.40444 -15.96590 1600000 333596 371 235 0 -3.81700 0.70927 2013-10-04 03:23:14 2019-01-04 15:01:52 RF02150 MESTIT1_3 2286 MEST intronic transcript 1, antisense RNA conserved region 3 Eberhardt R Predicted; MAFFT; Eberhardt R 60.00 66.10 36.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.85 -Z 549862.597050 CM SEQDB 18 34 0 0 Gene; lncRNA; Predicted; RNAalifold; 40 0 \N 0.55355 -9.60152 1600000 319862 212 99 0 -3.49030 0.71827 2013-10-04 03:23:19 2019-01-04 15:01:52 RF02151 MIMT1_1 2465 MER1 repeat containing imprinted transcript 1 conserved region 1 Eberhardt R Eberhardt R 45.00 47.80 40.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.86 -Z 549862.597050 CM SEQDB 21 26 0 0 Gene; lncRNA; Predicted; RNAz; Eberhardt R 35 0 \N 0.50084 -11.02830 1600000 307724 195 88 0 -3.53560 0.71845 2013-10-04 03:23:21 2019-01-04 15:01:52 RF02153 NBR2 2288 Neighbour of BRCA1 gene 2 converved region Eberhardt R Predicted; CMfinder; Eberhardt R 40.00 40.50 39.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.04 -Z 549862.597050 CM SEQDB 26 111 0 0 Gene; lncRNA; Predicted; CMfinder; 104 0 \N 0.44428 -10.09073 1600000 391580 143 63 0 -3.50710 0.71888 2013-10-04 03:23:25 2019-01-04 15:01:52 RF02154 NCRUPAR_1 2504 Non-protein coding RNA, upstream of F2R/PAR1 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 50.10 44.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 40.56 -Z 549862.597050 CM SEQDB 9 26 0 0 Gene; lncRNA; Predicted; CMfinder; 29 0 \N 0.35473 -11.52162 1600000 307383 247 140 0 -2.56630 0.71788 2013-10-04 03:23:27 2019-01-04 15:01:52 RF02155 NCRUPAR_2 2504 Non-protein coding RNA, upstream of F2R/PAR1 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 80.00 93.90 45.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 38.02 -Z 549862.597050 CM SEQDB 3 9 0 0 Gene; lncRNA; Predicted; CMfinder; 9 0 \N 0.37570 -11.22416 1600000 315463 197 99 0 -2.77120 0.71830 2013-10-04 03:23:28 2019-01-04 15:01:52 RF02156 NPPA-AS1_1 2501 NPPA antisense RNA 1 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 45.00 47.20 39.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.25 -Z 549862.597050 CM SEQDB 19 26 0 0 Gene; lncRNA; Predicted; CMfinder; 31 0 \N 0.45247 -14.47959 1600000 460612 288 176 0 -3.44990 0.71472 2013-10-04 03:23:30 2019-01-04 15:01:52 RF02157 NPPA-AS1_2 2501 NPPA antisense RNA 1 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 60.00 64.20 56.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.11 -Z 549862.597050 CM SEQDB 16 19 0 0 Gene; lncRNA; Predicted; CMfinder; 23 0 \N 0.43814 -11.29614 1600000 275175 257 150 0 -3.25170 0.71776 2013-10-04 03:23:32 2019-01-04 15:01:52 RF02158 NPPA-AS1_3 2501 NPPA antisense RNA 1 conserved region 3 Eberhardt R Predicted; CMfinder; Eberhardt R 55.00 55.70 43.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.11 -Z 549862.597050 CM SEQDB 24 32 0 0 Gene; lncRNA; Predicted; CMfinder; 40 0 \N 0.61425 -8.18859 1600000 351221 197 108 0 -3.11930 0.71819 2013-10-04 03:23:34 2019-01-04 15:01:52 RF02159 PART1_1 2473 Prostate androgen-regulated transcript 1 conserved region 1 Eberhardt R Predicted; ClustalW; Eberhardt R 65.00 70.50 53.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34.48 -Z 549862.597050 CM SEQDB 22 38 0 0 Gene; lncRNA; Predicted; RNAalifold; 46 0 \N 0.38467 -14.19069 1600000 393479 410 218 0 -3.55510 0.71054 2013-10-04 03:23:36 2019-01-04 15:01:52 RF02160 PART1_2 2473 Prostate androgen-regulated transcript 1 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 55.00 57.10 48.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.90 -Z 549862.597050 CM SEQDB 29 92 0 0 Gene; lncRNA; Predicted; CMfinder; 102 0 \N 0.50012 -15.21822 1600000 335382 509 249 0 -3.71610 0.70835 2013-10-04 03:23:37 2019-01-04 15:01:52 RF02161 PART1_3 2473 Prostate androgen-regulated transcript 1 conserved region 3 Eberhardt R Predicted; CMfinder; Eberhardt R 40.00 43.50 39.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.59 -Z 549862.597050 CM SEQDB 3 24 0 0 Gene; lncRNA; Predicted; CMfinder; 24 0 \N 0.57968 -9.31604 1600000 313098 350 131 0 -3.17290 0.71793 2013-10-04 03:23:39 2019-01-04 15:01:52 RF02162 XIST_A_REPEAT 2469 XIST RNA A repeat Burge SW Duszczyk MM, Wutz A, Rybin V, Sattler M, Burge SW; 33.00 33.10 32.90 \N XIST cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 54 240 0 0 Gene; sRNA; Predicted; CMFinder;Burge SW 55 0 \N 0.80466 -2.77402 1600000 570602 90 37 1 -4.19390 0.72046 2013-10-04 03:23:41 2022-05-06 12:10:07 RF02163 sR-tMet 2293 Small nucleolar RNA sR-tMet Eberhardt R Predicted; PMID:21654217; Eberhardt R 50.00 53.50 43.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.18 -Z 549862.597050 CM SEQDB 2 70 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PMID:21654217; 68 0 \N 0.58403 -4.45193 1600000 307160 162 72 1 -2.90690 0.72424 2013-10-04 03:23:43 2019-01-04 15:01:52 RF02164 PVT1_1 1283 Pvt1 oncogene conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 80.00 85.80 79.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 61.36 -Z 549862.597050 CM SEQDB 17 29 0 0 Gene; lncRNA; Predicted; CMfinder; 32 0 \N 0.22976 -26.19468 1600000 611351 291 178 0 -2.95220 0.71447 2013-10-04 03:23:44 2019-01-04 15:01:52 RF02165 PVT1_2 1283 Pvt1 oncogene conserved region 2 Eberhardt R Predicted; ClustalW; Eberhardt R 47.00 48.40 40.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.62 -Z 549862.597050 CM SEQDB 17 36 0 0 Gene; lncRNA; Predicted; RNAalifold; 41 0 \N 0.40016 -16.58049 1600000 464627 338 173 0 -3.13580 0.71506 2013-10-04 03:23:46 2019-01-04 15:01:52 RF02166 PVT1_3 1283 Pvt1 oncogene conserved region 3 Eberhardt R Predicted; CMfinder; Eberhardt R 45.00 46.00 39.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.64 -Z 549862.597050 CM SEQDB 25 53 0 0 Gene; lncRNA; Predicted; CMfinder; 47 0 \N 0.64656 -9.29503 1600000 388106 174 95 0 -3.76500 0.71834 2013-10-04 03:23:48 2019-01-04 15:01:52 RF02167 PVT1_4 1283 Pvt1 oncogene conserved region 4 Eberhardt R Predicted; WAR; Eberhardt R 60.00 64.10 49.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.42 -Z 549862.597050 CM SEQDB 10 21 0 0 Gene; lncRNA; Predicted; WAR; 24 0 \N 0.42822 -14.52079 1600000 432665 292 173 0 -3.15210 0.71504 2013-10-04 03:23:49 2019-01-04 15:01:52 RF02168 PVT1_5 1283 Pvt1 oncogene conserved region 5 Eberhardt R Predicted; CMfinder; Eberhardt R 60.00 63.40 56.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.08 -Z 549862.597050 CM SEQDB 23 33 0 0 Gene; lncRNA; Predicted; CMfinder; 41 0 \N 0.45740 -11.75465 1600000 376551 226 133 0 -3.52620 0.71791 2013-02-01 11:59:28 2019-01-04 15:01:52 RF02169 PVT1_6 1283 Pvt1 oncogene conserved region 6 Eberhardt R Predicted; CMfinder; Eberhardt R 45.00 47.40 39.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.58 -Z 549862.597050 CM SEQDB 7 27 0 0 Gene; lncRNA; Predicted; CMfinder; 30 0 \N 0.47652 -11.06521 1600000 289926 208 113 0 -3.31000 0.71815 2013-02-01 11:59:30 2019-01-04 15:01:52 RF02170 PVT1_7 1283 Pvt1 oncogene conserved region 7 Eberhardt R Predicted; CMfinder; Eberhardt R 80.00 93.30 77.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.77 -Z 549862.597050 CM SEQDB 8 16 0 0 Gene; lncRNA; Predicted; CMfinder; 16 0 \N 0.48789 -12.28708 1600000 337415 238 137 0 -3.19770 0.71787 2013-10-04 03:23:58 2019-01-04 15:01:52 RF02171 RFPL3-AS1_1 2474 RFPL3 antisense RNA 1 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 70.00 109.70 53.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.66 -Z 549862.597050 CM SEQDB 4 14 0 0 Gene; lncRNA; Predicted; CMfinder; 7 0 \N 0.64602 -7.95432 1600000 311212 181 88 0 -3.56120 0.71844 2013-10-04 03:23:59 2019-01-04 15:01:52 RF02172 RFPL3-AS1_2 2474 RFPL3 antisense RNA 1 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 40.00 41.20 39.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.84 -Z 549862.597050 CM SEQDB 3 14 0 0 Gene; lncRNA; Predicted; CMfinder; 10 0 \N 0.67452 -7.88425 1600000 384885 155 71 0 -3.65690 0.71873 2013-10-04 03:24:01 2019-01-04 15:01:52 RF02173 SMAD5-AS1_1 2478 SMAD5 antisense RNA 1 conserved region 1 Eberhardt R Predicted; ClustalW; Eberhardt R 45.00 47.80 38.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.96 -Z 549862.597050 CM SEQDB 18 36 0 0 Gene; lncRNA; Predicted; RNAalifold; 42 0 \N 0.52259 -14.15157 1600000 456385 389 263 0 -3.71720 0.70757 2013-10-04 03:24:03 2019-01-04 15:01:52 RF02174 SMAD5-AS1_2 2478 SMAD5 antisense RNA 1 conserved region 2 Eberhardt R Predicted; ClustalW; Eberhardt R 50.00 51.40 47.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.89 -Z 549862.597050 CM SEQDB 20 35 0 0 Gene; lncRNA; Predicted; RNAalifold; 46 0 \N 0.58902 -11.17248 1600000 461837 226 129 0 -3.54600 0.71795 2013-10-04 03:24:06 2019-01-04 15:01:52 RF02175 SMAD5-AS1_3 2478 SMAD5 antisense RNA 1 conserved region 3 Eberhardt R Predicted; ClustalW; Eberhardt R 60.00 69.00 43.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.42 -Z 549862.597050 CM SEQDB 18 34 0 0 Gene; lncRNA; Predicted; RNAalifold; 44 0 \N 0.57491 -9.97352 1600000 356532 225 125 0 -3.05350 0.71798 2013-10-04 03:24:09 2019-01-04 15:01:52 RF02176 SMAD5-AS1_4 2478 SMAD5 antisense RNA 1 conserved region 4 Eberhardt R Predicted; ClustalW; Eberhardt R 50.00 64.50 34.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.36 -Z 549862.597050 CM SEQDB 19 34 0 0 Gene; lncRNA; Predicted; RNAalifold; 43 0 \N 0.40557 -14.63199 1600000 366472 288 173 0 -3.39240 0.71506 2013-10-04 03:24:11 2019-01-04 15:01:52 RF02177 SMCR2_1 2493 Smith-Magenis syndrome chromosome region, candidate 2 conserved region 1 Eberhardt R Predicted; ClustalW; Eberhardt R 50.00 51.60 47.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.51 -Z 549862.597050 CM SEQDB 6 22 0 0 Gene; lncRNA; Predicted; RNAalifold; 21 0 \N 0.45122 -14.35178 1600000 463982 301 159 0 -2.98920 0.71698 2013-10-04 03:24:13 2019-01-04 15:01:52 RF02178 SMCR2_2 2493 Smith-Magenis syndrome chromosome region, candidate 2 conserved region 2 Eberhardt R Predicted; ClustalW; Eberhardt R 55.00 56.50 50.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.01 -Z 549862.597050 CM SEQDB 5 18 0 0 Gene; lncRNA; Predicted; RNAalifold; 19 0 \N 0.45984 -12.74123 1600000 253017 279 165 0 -3.08550 0.71615 2013-10-04 03:24:15 2019-01-04 15:01:52 RF02179 ST7-AS1_1 2490 ST7 antisense RNA 1 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 45.00 46.10 42.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 35.60 -Z 549862.597050 CM SEQDB 25 31 0 0 Gene; lncRNA; Predicted; CMfinder; 45 0 \N 0.40115 -10.06612 1600000 262811 254 117 0 -3.04410 0.71808 2013-10-04 03:24:16 2019-01-04 15:01:52 RF02180 ST7-AS1_2 2490 ST7 antisense RNA 1 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 55.70 40.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.67 -Z 549862.597050 CM SEQDB 24 30 0 0 Gene; lncRNA; Predicted; CMfinder; 41 0 \N 0.58187 -9.27442 1600000 344332 202 110 0 -3.28180 0.71815 2013-10-04 03:24:18 2019-01-04 15:01:52 RF02181 ST7-AS2_1 2471 ST7 antisense RNA 2 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 80.00 94.10 61.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.74 -Z 549862.597050 CM SEQDB 4 9 0 0 Gene; lncRNA; Predicted; CMfinder; 11 0 \N 0.54393 -9.38599 1600000 334990 157 72 0 -3.53240 0.71870 2013-10-04 03:24:20 2019-01-04 15:01:52 RF02182 ST7-AS2_2 2471 ST7 antisense RNA 2 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 45.00 50.80 43.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.34 -Z 549862.597050 CM SEQDB 8 13 0 0 Gene; lncRNA; Predicted; CMfinder; 17 0 \N 0.63919 -8.68297 1600000 629601 115 47 0 -4.01710 0.71927 2013-10-04 03:24:22 2019-01-04 15:01:52 RF02183 ST7-OT3_1 2475 ST7 overlapping transcript 3 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 54.60 40.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.63 -Z 549862.597050 CM SEQDB 28 36 0 0 Gene; lncRNA; Predicted; CMfinder; 49 0 \N 0.47415 -9.66229 1600000 358358 160 79 0 -3.30300 0.71858 2013-10-04 03:24:23 2019-01-04 15:01:52 RF02184 ST7-OT3_2 2475 ST7 overlapping transcript 3 conserved region 2 Eberhardt R Predicted; WAR; Eberhardt R 100.00 139.90 54.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.52 -Z 549862.597050 CM SEQDB 5 93 0 0 Gene; lncRNA; Predicted; WAR; 92 0 \N 0.45074 -12.85599 1600000 365187 250 138 0 -3.08150 0.71789 2013-10-04 03:24:25 2019-01-04 15:01:52 RF02185 ST7-OT3_3 2475 ST7 overlapping transcript 3 conserved region 3 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 58.00 40.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.33 -Z 549862.597050 CM SEQDB 21 35 0 0 Gene; lncRNA; Predicted; CMfinder; 46 0 \N 0.42804 -10.63669 1600000 282807 208 116 0 -3.24570 0.71809 2013-10-04 03:24:27 2019-01-04 15:01:52 RF02186 ST7-OT3_4 2475 ST7 overlapping transcript 3 conserved region 4 Eberhardt R Predicted; CMfinder; Eberhardt R 80.00 92.90 41.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.08 -Z 549862.597050 CM SEQDB 8 9 0 0 Gene; lncRNA; Predicted; CMfinder; 14 0 \N 0.62180 -8.89947 1600000 363661 158 73 0 -3.79610 0.71871 2013-02-01 11:59:32 2019-01-04 15:01:52 RF02187 ST7-OT4_1 2477 ST7 overlapping transcript 4 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 53.20 49.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.67 -Z 549862.597050 CM SEQDB 24 31 0 0 Gene; lncRNA; Predicted; CMfinder; 44 0 \N 0.42178 -13.52759 1600000 237812 321 201 0 -3.38710 0.71201 2013-10-04 03:24:31 2019-01-04 15:01:52 RF02188 ST7-OT4_2 2477 ST7 overlapping transcript 4 conserved region 2 Eberhardt R Predicted; CMfinder; Eberhardt R 55.00 62.80 36.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.30 -Z 549862.597050 CM SEQDB 29 35 0 0 Gene; lncRNA; Predicted; CMfinder; 49 0 \N 0.44962 -12.75432 1600000 301958 277 172 0 -3.44290 0.71519 2013-10-04 03:24:33 2019-01-04 15:01:52 RF02189 ST7-OT4_3 2477 ST7 overlapping transcript 4 conserved region 3 Eberhardt R Predicted; CMfinder; Eberhardt R 50.00 51.00 43.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.91 -Z 549862.597050 CM SEQDB 20 36 0 0 Gene; lncRNA; Predicted; CMfinder; 45 0 \N 0.56152 -12.24799 1600000 621026 506 302 0 -4.05640 0.70571 2013-10-04 03:24:35 2019-01-04 15:01:52 RF02190 ST7-OT4_4 2477 ST7 overlapping transcript 4 conserved region 4 Eberhardt R Predicted; CMfinder; Eberhardt R 70.00 76.20 49.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.00 -Z 549862.597050 CM SEQDB 26 31 0 0 Gene; lncRNA; Predicted; CMfinder; 41 0 \N 0.32685 -14.94272 1600000 485002 356 211 0 -3.47340 0.71109 2013-10-04 03:24:40 2019-01-04 15:01:52 RF02191 TCL6_1 2466 T-cell leukemia/lymphoma 6 conserved region 1 Eberhardt R Predicted; CMfinder; Eberhardt R 60.00 70.10 43.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.23 -Z 549862.597050 CM SEQDB 9 21 0 0 Gene; lncRNA; Predicted; CMfinder; 22 0 \N 0.55382 -10.24761 1600000 328267 211 113 0 -3.42780 0.71809 2013-10-04 03:24:42 2019-01-04 15:01:52 RF02192 TCL6_2 2466 T-cell leukemia/lymphoma 6 conserved region 2 Eberhardt R Predicted; ClustalW; Eberhardt R 45.00 47.00 37.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 35.00 -Z 549862.597050 CM SEQDB 12 27 0 0 Gene; lncRNA; Predicted; RNAalifold; 29 0 \N 0.48119 -11.09205 1600000 370119 222 126 0 -3.45510 0.71797 2013-10-04 03:24:44 2019-01-04 15:01:52 RF02193 TCL6_3 2466 T-cell leukemia/lymphoma 6 conserved region 3 Eberhardt R Predicted; CMfinder; Eberhardt R 40.00 43.90 38.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.67 -Z 549862.597050 CM SEQDB 26 29 0 0 Gene; lncRNA; Predicted; CMfinder; 33 0 \N 0.52807 -11.93980 1600000 426161 244 139 0 -3.60690 0.71787 2013-10-04 03:24:45 2019-01-04 15:01:52 RF02194 HPnc0260 2301 Bacterial antisense RNA HPnc0260 Burge SW Burge SW 59.00 59.00 58.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 31 147 0 0 Gene; antisense; Predicted; CMFinder 166 0 \N 0.42624 -4.60077 1600000 310719 254 156 1 -2.59150 0.71767 2013-10-04 03:24:47 2019-01-04 15:01:52 RF02195 TP53TG1_1 2302 TP53 target 1 conserved region 1 Eberhardt R Predicted; ClustalW 40.00 44.90 35.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.18 -Z 549862.597050 CM SEQDB 16 30 0 0 Gene; lncRNA; Predicted; RNAalifold 34 0 \N 0.48126 -12.70350 1600000 390725 257 153 0 -3.01130 0.71772 2013-10-04 03:24:50 2019-01-04 15:01:52 RF02196 TP53TG1_2 2302 TP53 target 1 conserved region 2 Eberhardt R Predicted; ClustalW 75.00 78.90 67.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 48.22 -Z 549862.597050 CM SEQDB 12 19 0 0 Gene; lncRNA; Predicted; RNAalifold 22 0 \N 0.26873 -23.16176 1600000 623501 317 186 0 -2.93840 0.71354 2013-10-04 03:24:52 2019-01-04 15:01:52 RF02197 TP73-AS1 2502 TP73 antisense RNA 1 conserved region Eberhardt R Predicted; CMfinder 75.00 82.50 56.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.98 -Z 549862.597050 CM SEQDB 4 9 0 0 Gene; lncRNA; Predicted; CMfinder 10 0 \N 0.49436 -12.52544 1600000 327496 276 161 0 -3.17150 0.71666 2013-10-04 03:24:54 2019-01-04 15:01:52 RF02198 TTC28-AS1_1 1276 TTC28 antisense RNA 1 conserved region 1 Eberhardt R Predicted; CMfinder 70.00 73.70 67.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 54.33 -Z 549862.597050 CM SEQDB 14 23 0 0 Gene; lncRNA; Predicted; CMfinder 28 0 \N 0.24131 -23.81874 1600000 450728 267 162 0 -3.05330 0.71651 2013-10-04 03:24:56 2019-01-04 15:01:52 RF02199 TTC28-AS1_2 1276 TTC28 antisense RNA 1 conserved region 2 Eberhardt R Predicted; CMfinder 50.00 52.70 43.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 39.12 -Z 549862.597050 CM SEQDB 8 21 0 0 Gene; lncRNA; Predicted; CMfinder 26 0 \N 0.35333 -13.89345 1600000 397119 264 156 0 -2.95480 0.71748 2013-10-04 03:24:57 2019-01-04 15:01:52 RF02200 TTC28-AS1_3 1276 TTC28 antisense RNA 1 conserved region 3 Eberhardt R Predicted; ClustalW 55.00 56.50 51.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34.02 -Z 549862.597050 CM SEQDB 6 19 0 0 Gene; lncRNA; Predicted; Pfold 21 0 \N 0.36230 -18.94697 1600000 627612 301 184 0 -2.94100 0.71376 2013-10-04 03:24:59 2019-01-04 15:01:52 RF02201 TTC28-AS1_4 1276 TTC28 antisense RNA 1 conserved region 4 Eberhardt R Predicted; MAFFT 45.00 48.80 40.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.96 -Z 549862.597050 CM SEQDB 18 34 0 0 Gene; lncRNA; Predicted; RNAalifold 41 0 \N 0.45089 -11.59669 1600000 254922 206 113 0 -3.29670 0.71810 2013-10-04 03:25:01 2019-01-04 15:01:52 RF02202 UCA1 2503 Urothelial cancer associated 1 conserved region Eberhardt R Predicted; CMfinder 80.00 93.50 32.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.22 -Z 549862.597050 CM SEQDB 5 8 0 0 Gene; lncRNA; Predicted; CMfinder 8 0 \N 0.62144 -8.88875 1600000 388691 163 75 0 -3.50980 0.71869 2013-10-04 03:25:06 2019-01-04 15:01:52 RF02203 WT1-AS_1 2494 WT1 antisense RNA conserved region 1 Eberhardt R Predicted; ClustalW 40.00 43.40 36.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34.85 -Z 549862.597050 CM SEQDB 10 29 0 0 Gene; lncRNA; Predicted; RNAalifold 29 0 \N 0.38113 -14.08789 1600000 366336 207 109 0 -3.06640 0.71820 2013-10-04 03:25:08 2019-01-04 15:01:52 RF02204 WT1-AS_2 2494 WT1 antisense RNA conserved region 2 Eberhardt R Predicted; CMfinder 45.00 49.80 37.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.87 -Z 549862.597050 CM SEQDB 18 28 0 0 Gene; lncRNA; Predicted; CMfinder 32 0 \N 0.48607 -12.50045 1600000 366693 238 137 0 -3.06970 0.71788 2013-10-04 03:25:10 2019-01-04 15:01:52 RF02205 WT1-AS_3 2494 WT1 antisense RNA conserved region 3 Eberhardt R Predicted; CMfinder 55.00 66.70 49.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 35.78 -Z 549862.597050 CM SEQDB 19 36 0 0 Gene; lncRNA; Predicted; CMfinder 42 0 \N 0.33828 -20.10321 1600000 472204 367 245 0 -3.53060 0.70864 2013-10-04 03:25:13 2019-01-04 15:01:52 RF02206 WT1-AS_4 2494 WT1 antisense RNA conserved region 4 Eberhardt R Predicted; MAFFT 60.00 62.70 51.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.67 -Z 549862.597050 CM SEQDB 12 26 0 0 Gene; lncRNA; Predicted; RNAalifold 28 0 \N 0.50346 -11.16612 1600000 330236 233 134 0 -3.23210 0.71790 2013-10-04 03:25:15 2019-01-04 15:01:52 RF02207 WT1-AS_5 2494 WT1 antisense RNA conserved region 5 Eberhardt R Predicted; CMfinder 80.00 89.00 47.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.44 -Z 549862.597050 CM SEQDB 4 9 0 0 Gene; lncRNA; Predicted; CMfinder 9 0 \N 0.61471 -8.73601 1600000 331352 171 79 0 -3.50460 0.71862 2013-10-04 03:25:16 2019-01-04 15:01:52 RF02208 WT1-AS_6 2494 WT1 antisense RNA conserved region 6 Eberhardt R Predicted; MAFFT 80.00 83.90 58.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 41.00 -Z 549862.597050 CM SEQDB 19 33 0 0 Gene; lncRNA; Predicted; RNAalifold 40 0 \N 0.32994 -15.99776 1600000 428161 220 121 0 -3.25000 0.71803 2013-10-04 03:25:18 2019-01-04 15:01:52 RF02209 WT1-AS_7 2494 WT1 antisense RNA conserved region 7 Eberhardt R Predicted; ClustalW 50.00 58.20 45.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.18 -Z 549862.597050 CM SEQDB 21 65 0 0 Gene; lncRNA; Predicted; RNAalifold 66 0 \N 0.57386 -13.61699 1600000 434036 433 294 0 -4.51040 0.70604 2013-10-04 03:25:19 2019-01-04 15:01:52 RF02210 WT1-AS_8 2494 WT1 antisense RNA conserved region 8 Eberhardt R Predicted; CMfinder 70.00 80.40 58.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 48.44 -Z 549862.597050 CM SEQDB 24 39 0 0 Gene; lncRNA; Predicted; CMfinder 49 0 \N 0.27447 -19.95755 1600000 413523 531 281 0 -3.59840 0.70662 2013-10-04 03:25:21 2019-01-04 15:01:52 RF02211 ZFAT-AS1_1 2480 ZFAT antisense RNA 1 conserved region 1 Eberhardt R Predicted; CMfinder 80.00 83.10 37.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.30 -Z 549862.597050 CM SEQDB 3 9 0 0 Gene; lncRNA; Predicted; CMfinder 9 0 \N 0.54377 -9.88493 1600000 343828 169 79 0 -3.24090 0.71854 2013-10-04 03:25:23 2019-01-04 15:01:52 RF02212 ZFAT-AS1_2 2480 ZFAT antisense RNA 1 conserved region 2 Eberhardt R Predicted; CMfinder 70.00 72.30 44.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.81 -Z 549862.597050 CM SEQDB 11 23 0 0 Gene; lncRNA; Predicted; CMfinder 27 0 \N 0.41975 -14.99021 1600000 280860 509 205 0 -3.58420 0.71162 2013-10-04 03:25:25 2019-01-04 15:01:52 RF02213 ZFAT-AS1_3 2480 ZFAT antisense RNA 1 conserved region 3 Eberhardt R Predicted; ClustalW 70.00 77.30 57.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.82 -Z 549862.597050 CM SEQDB 5 9 0 0 Gene; lncRNA; Predicted; RNAalifold 11 0 \N 0.58505 -9.08473 1600000 372758 168 80 0 -3.53220 0.71857 2013-10-04 03:25:27 2019-01-04 15:01:52 RF02214 mir-56 1287 microRNA mir-56 Burge SW Predicted; CMfinder 70.00 87.10 32.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 4 0 0 Gene; miRNA; Predicted; CMfinder 7 0 \N 0.57585 -9.36278 1600000 294914 190 97 0 -3.56880 0.71829 2013-10-04 03:25:28 2022-10-29 16:55:16 RF02215 ZNFX1-AS1_1 2484 ZNFX1 antisense RNA 1 conserved region 1 Eberhardt R Predicted; ClustalW 70.00 78.00 62.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 40.54 -Z 549862.597050 CM SEQDB 15 33 0 0 Gene; lncRNA; Predicted; RNAalifold 37 0 \N 0.31266 -20.51619 1600000 568016 317 198 0 -3.17890 0.71230 2013-10-04 03:25:30 2019-01-04 15:01:52 RF02216 ZNFX1-AS1_2 2484 ZNFX1 antisense RNA 1 conserved region 2 Eberhardt R Predicted; CMfinder 45.00 48.90 42.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.93 -Z 549862.597050 CM SEQDB 18 59 0 0 Gene; lncRNA; Predicted; CMfinder 39 0 \N 0.61669 -9.34536 1600000 374517 173 93 0 -3.87520 0.71838 2013-10-04 03:25:32 2019-01-04 15:01:52 RF02217 ZNFX1-AS1_3 2484 ZNFX1 antisense RNA 1 conserved region 3 Eberhardt R Predicted; CMfinder 60.00 71.70 44.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.64 -Z 549862.597050 CM SEQDB 3 9 0 0 Gene; lncRNA; Predicted; CMfinder 9 0 \N 0.45703 -9.64962 1600000 288818 180 87 0 -3.21610 0.71848 2013-10-04 03:25:34 2019-01-04 15:01:52 RF02218 ZNRD1-AS1_1 2468 ZNRD1 antisense RNA 1 conserved region 1 Eberhardt R Predicted; ClustalW 50.00 50.00 43.80 \N HTEX4 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.32 -Z 549862.597050 CM SEQDB 8 36 0 0 Gene; lncRNA; Predicted; RNAalifold 13 0 \N 0.57311 -8.64660 1600000 466169 148 68 0 -3.62820 0.71877 2013-10-04 03:25:35 2019-01-04 15:01:52 RF02219 ZNRD1-AS1_2 2468 ZNRD1 antisense RNA 1 conserved region 2 Eberhardt R Predicted; CMfinder 60.00 62.80 53.50 \N HTEX4 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.89 -Z 549862.597050 CM SEQDB 34 93 0 0 Gene; lncRNA; Predicted; CMfinder 50 0 \N 0.65360 -7.98545 1600000 457398 155 76 0 -3.74790 0.71861 2013-10-04 03:25:37 2019-01-04 15:01:52 RF02220 ZNRD1-AS1_3 2468 ZNRD1 antisense RNA 1 conserved region 3 Eberhardt R Predicted; ClustalW 60.00 74.70 54.30 \N HTEX4 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.33 -Z 549862.597050 CM SEQDB 9 15 0 0 Gene; lncRNA; Predicted; RNAalifold 14 0 \N 0.57810 -8.71970 1600000 324485 202 104 0 -2.89450 0.71817 2013-10-04 03:25:41 2019-01-04 15:01:52 RF02221 sRNA-Xcc1 1285 sRNA-Xcc1 Gardner PP, Daub J Published; PMID:21941121 53.00 53.00 52.80 \N sX1; sX10 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 74 337 0 0 Gene; sRNA; Predicted; RNAalifold 243 0 \N 0.54673 -4.89956 1600000 209664 168 87 1 -3.62310 0.71876 2013-10-04 03:25:42 2022-10-29 16:55:16 RF02222 sX2 1285 Xanthomonas sRNA sX2 Eberhardt R Predicted; CMfinder 40.00 40.40 31.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 5 0 0 Gene; sRNA; Predicted; CMfinder 12 0 \N 0.59307 -8.02656 1600000 355777 213 110 1 -3.04390 0.71854 2013-10-04 03:25:45 2019-01-04 15:01:52 RF02223 sX4 1285 Proteobacterial sRNA sX4 Eberhardt R Predicted; ClustalW 70.00 70.20 65.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 30 0 0 Gene; sRNA; Predicted; RNAalifold 34 0 \N 0.56835 -9.71048 1600000 382066 289 167 1 -3.21860 0.71632 2013-02-01 11:59:34 2019-01-04 15:01:52 RF02224 sX5 1285 Xanthomonadaceae sRNA sX5 Eberhardt R Predicted; MAFFT 50.00 61.60 45.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 19 0 0 Gene; sRNA; Predicted; RNAalifold 27 0 \N 0.68125 -4.22199 1600000 279256 125 49 1 -3.94980 0.71948 2013-02-01 11:59:36 2019-01-04 15:01:52 RF02225 sX6 1285 Proteobacterial sRNA sX6 Eberhardt R Predicted; MAFFT 40.00 42.00 39.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 21 0 0 Gene; sRNA; Predicted; RNAalifold 26 0 \N 0.65279 -9.68291 1600000 373421 500 342 1 -3.78700 0.70436 2013-10-04 03:26:01 2019-01-04 15:01:52 RF02226 sX7 1285 Xanthomonas sRNA sX7 Eberhardt R Predicted; MAFFT 55.00 57.20 47.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 9 0 0 Gene; sRNA; Predicted; RNAalifold 15 0 \N 0.55957 -7.64532 1600000 269555 195 95 1 -3.10250 0.71873 2013-10-04 03:26:03 2019-01-04 15:01:52 RF02227 sX8 1285 Proteobacterial sRNA sX8 Eberhardt R Predicted; CMfinder 50.00 72.50 33.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 12 35 0 0 Gene; sRNA; Predicted; CMfinder 36 0 \N 0.57443 -7.17871 1600000 329765 171 82 1 -3.60480 0.71889 2013-10-04 03:26:05 2019-01-04 15:01:52 RF02228 sX9 1285 Xanthomonas sRNA sX9 Eberhardt R Predicted; ClustalW 44.00 44.10 43.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 378 0 0 Gene; sRNA; Predicted; RNAalifold 45 0 \N 0.51485 -9.79002 1600000 409423 157 76 1 -3.36070 0.71885 2013-10-04 03:26:06 2019-01-04 15:01:52 RF02230 sX11 1285 Proteobacterial sRNA sX11 Eberhardt R Predicted; CMfinder 70.00 71.50 38.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 15 0 0 Gene; sRNA; Predicted; CMfinder 23 0 \N 0.52295 -9.65346 1600000 343960 253 138 1 -2.92740 0.71815 2013-10-04 03:26:09 2019-01-04 15:01:52 RF02231 sX12 1285 Xanthomonas sRNA sX12 Eberhardt R Predicted; CMfinder 106.00 106.00 38.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 742849.287494 CM SEQDB 8 0 0 0 Gene; sRNA; Predicted; CMfinder 8 0 \N 0.51296 -8.36483 1600000 265966 170 78 1 -3.52520 0.71893 2013-10-04 03:26:11 2021-07-05 13:43:57 RF02232 sX13 1285 Xanthomonadaceae sRNA sX13 Eberhardt R Predicted; CMfinder 50.00 66.70 41.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 12 49 0 0 Gene; sRNA; Predicted; CMfinder 57 0 \N 0.53196 -9.35390 1600000 316938 219 115 1 -2.87570 0.71849 2013-02-01 11:59:38 2019-01-04 15:01:52 RF02233 sX14 1285 Xanthomonas sRNA sX14/Xoo3 Eberhardt R Predicted; CMfinder 80.00 106.10 53.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 3 0 0 Gene; sRNA; Predicted; CMfinder 9 0 \N 0.52319 -9.57593 1600000 360200 190 92 1 -3.40360 0.71882 2013-10-04 03:26:14 2019-01-04 15:01:52 RF02234 sX15 1285 Xanthomonadaceae sRNA sX15 Eberhardt R Predicted; CMfinder 55.00 56.00 51.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 24 0 0 Gene; sRNA; Predicted; CMfinder 14 0 \N 0.48207 -9.01080 1600000 220071 277 159 1 -2.90460 0.71747 2013-10-04 03:26:16 2019-01-04 15:01:52 RF02235 asX1 1285 Xanthomonadaceae sRNA asX1 Eberhardt R Published; PMID:22080557 70.00 81.40 49.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 15 49 0 0 Gene; sRNA; Predicted; CMfinder 58 0 \N 0.43863 -10.43658 1600000 258151 218 115 1 -2.95810 0.71855 2013-10-04 03:26:17 2019-01-04 15:01:52 RF02236 asX2 1285 Xanthomonas sRNA asX2 Eberhardt R Predicted; CMfinder 70.00 96.90 46.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 0 0 0 Gene; sRNA; Predicted; CMfinder 2 0 \N 0.54762 -8.21544 1600000 297481 182 87 1 -3.34850 0.71894 2013-10-04 03:26:19 2019-01-04 15:01:52 RF02237 asX3 1285 Xanthomonas sRNA asX3 Eberhardt R Predicted; CMfinder 40.00 44.00 34.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 1 0 0 Gene; sRNA; Predicted; CMfinder 4 0 \N 0.54416 -10.02554 1600000 332747 309 182 1 -3.26660 0.71425 2013-10-04 03:26:21 2019-01-04 15:01:52 RF02238 asX4 1285 Xanthomonas sRNA asX4/Xoo4 Eberhardt R Predicted; CMfinder 100.00 155.70 27.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 3 0 0 Gene; sRNA; Predicted; CMfinder 9 0 \N 0.71787 -8.22108 1600000 345617 466 309 1 -3.94260 0.70557 2013-10-04 03:26:23 2019-01-04 15:01:52 RF02239 asX6 1285 Xanthomonas sRNA asX6 Eberhardt R Predicted; CMfinder 50.00 58.50 36.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 0 0 0 Gene; sRNA; Predicted; CMfinder 3 0 \N 0.51647 -7.57387 1600000 263746 191 93 1 -3.58650 0.71890 2013-10-04 03:26:24 2019-01-04 15:01:52 RF02240 Xoo1 1285 Xanthomonadaceae sRNA Xoo1 Eberhardt R Predicted; CMfinder 70.00 80.50 58.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 4 0 0 Gene; sRNA; Predicted; CMfinder 7 0 \N 0.48450 -9.70368 1600000 363798 192 95 1 -3.57070 0.71861 2013-10-04 03:26:26 2019-01-04 15:01:52 RF02241 Xoo2 1285 Xanthomonadaceae sRNA Xoo2 Eberhardt R Predicted; CMfinder 45.00 46.40 39.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 7 0 0 Gene; sRNA; Predicted; CMfinder 10 0 \N 0.54559 -8.78822 1600000 360949 170 78 1 -3.36940 0.71892 2013-10-04 03:26:28 2019-01-04 15:01:52 RF02242 Xoo5 1285 Xanthomonadaceae sRNA Xoo5 Eberhardt R Predicted; ClustalW 50.00 65.90 42.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 27 0 0 Gene; sRNA; Predicted; RNAalifold 29 0 \N 0.59222 -6.73591 1600000 257257 233 124 1 -3.20800 0.71841 2013-10-04 03:26:29 2019-01-04 15:01:52 RF02243 Xoo8 1285 Proteobacterial sRNA Xoo8 Eberhardt R Predicted; CMfinder 90.00 99.40 88.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 8 0 0 Gene; sRNA; Predicted; CMfinder 11 0 \N 0.73398 -7.89130 1600000 359343 479 323 1 -4.05970 0.70504 2013-10-04 03:26:31 2019-01-04 15:01:52 RF02244 mir-785 1287 microRNA mir-785 Griffiths-Jones SR Griffiths-Jones SR 62.00 62.50 56.30 Imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.65498 -2.89505 1600000 180770 186 90 1 -3.46050 0.71891 2013-10-04 03:26:33 2022-10-29 16:42:07 RF02245 mir-788 1287 microRNA mir-788 Eberhardt R Predicted; WAR 70.00 73.50 51.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 3 0 0 Gene; miRNA; Predicted; WAR 6 0 \N 0.63797 -2.78318 1600000 189015 168 79 1 -3.49540 0.71902 2013-10-04 03:26:35 2022-10-29 16:55:16 RF02246 Six3os1_1 2309 Six3os1 conserved region 1 Eberhardt R Predicted; ClustalW 50.00 50.10 42.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.64 -Z 549862.597050 CM SEQDB 9 34 0 0 Gene; lncRNA; Predicted; RNAalifold 35 0 \N 0.57428 -9.50080 1600000 301250 174 87 0 -3.61140 0.71844 2013-10-04 03:26:37 2019-01-04 15:01:52 RF02247 Six3os1_2 2309 Six3os1 conserved region 2 Eberhardt R Predicted; CMfinder 80.00 119.40 59.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.26 -Z 549862.597050 CM SEQDB 15 36 0 0 Gene; lncRNA; Predicted; CMfinder 39 0 \N 0.40849 -19.23184 1600000 774134 350 217 0 -3.22190 0.71063 2013-10-04 03:26:39 2019-01-04 15:01:52 RF02248 Six3os1_3 2309 Six3os1 conserved region 3 Eberhardt R Predicted; ClustalW 40.00 43.70 32.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.57 -Z 549862.597050 CM SEQDB 10 36 0 0 Gene; lncRNA; Predicted; RNAalifold 35 0 \N 0.68284 -7.77156 1600000 372631 159 75 0 -3.66910 0.71862 2013-10-04 03:27:21 2019-01-04 15:01:52 RF02249 Six3os1_4 2309 Six3os1 conserved region 4 Eberhardt R Predicted; ClustalW 70.00 79.80 59.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.13 -Z 549862.597050 CM SEQDB 7 36 0 0 Gene; lncRNA; Predicted; RNAalifold 37 0 \N 0.35295 -22.50565 1600000 689596 477 326 0 -3.60370 0.70480 2013-10-04 03:27:23 2019-01-04 15:01:52 RF02250 Six3os1_5 2309 Six3os1 conserved region 5 Eberhardt R Predicted; CMfinder 50.00 52.00 43.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18.81 -Z 549862.597050 CM SEQDB 15 104 0 0 Gene; lncRNA; Predicted; CMfinder 105 0 \N 0.57289 -13.41652 1600000 303123 409 272 0 -3.70150 0.70707 2013-10-04 03:27:25 2019-01-04 15:01:52 RF02251 Six3os1_6 2309 Six3os1 conserved region 6 Eberhardt R Predicted; CMfinder 80.00 85.70 76.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 57.23 -Z 549862.597050 CM SEQDB 4 15 0 0 Gene; lncRNA; Predicted; CMfinder 15 0 \N 0.22129 -26.82505 1600000 348516 324 200 0 -3.27190 0.71215 2013-10-04 03:27:27 2019-01-04 15:01:52 RF02252 Six3os1_7 2309 Six3os1 conserved region 7 Eberhardt R Predicted; CMfinder 50.00 54.90 37.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.99 -Z 549862.597050 CM SEQDB 5 110 0 0 Gene; lncRNA; Predicted; CMfinder 103 0 \N 0.38637 -15.00005 1600000 328848 340 194 0 -3.47690 0.71275 2013-10-04 03:27:28 2019-01-04 15:01:52 RF02253 IRE_II 1334 Iron response element II Stevens S, Gardner P, Brown C Leipuviene, R. and Theil, E.C. 30.00 30.00 29.90 IRE, TFRC, SLC40A1, SDHB, SLC11A2, CDC42BPA, ACO2, ALAS2_H.SAPIENS, CDC14A, EPAS1, ALAS2, qoxD, Hao1, NDUFS1, transferrin, Aconitate. The 3D structure of IRE_II was reported in PDB 3SN2 [14] Model1_new cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 30 914 0 0 Cis-reg; Published; PMID:17849083 140 0 \N 0.64160 -2.08294 1600000 284257 87 31 1 -2.86380 0.75436 2013-10-04 03:27:30 2022-10-29 16:55:16 RF02254 mir-35 2265 microRNA mir-35 Eberhardt R Predicted; WAR 69.00 69.40 68.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; WAR 2 0 \N 0.55458 -4.46026 1600000 153446 195 97 1 -3.00540 0.71887 2013-10-04 03:27:34 2022-10-29 16:55:17 RF02255 adapt33_1 2310 Adaptive response 33 conserved region 1 Eberhardt R Predicted; CMfinder 60.00 65.30 52.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 37.93 -Z 549862.597050 CM SEQDB 3 7 0 0 Gene; lncRNA; Predicted; CMfinder 5 0 \N 0.38902 -10.03822 1600000 369996 161 76 0 -3.29940 0.71861 2013-10-04 03:27:36 2019-01-04 15:01:52 RF02256 adapt33_2 2310 Adaptive response 33 conserved region 2 Eberhardt R Predicted; CMfinder 60.00 79.80 53.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.02 -Z 549862.597050 CM SEQDB 2 4 0 0 Gene; lncRNA; Predicted; CMfinder 3 0 \N 0.46742 -8.18890 1600000 264965 158 71 0 -2.67780 0.72659 2013-10-04 03:27:37 2019-01-04 15:01:52 RF02257 adapt33_3 2310 Adaptive response 33 conserved region 3 Eberhardt R Predicted; CMfinder 70.00 82.50 54.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.25 -Z 549862.597050 CM SEQDB 3 6 0 0 Gene; lncRNA; Predicted; CMfinder 5 0 \N 0.55925 -9.65465 1600000 285224 249 140 0 -3.25960 0.71788 2013-10-04 03:27:39 2019-01-04 15:01:52 RF02258 adapt33_4 2310 Adaptive response 33 conserved region 4 Eberhardt R Predicted; CMfinder 80.00 119.40 38.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 37.29 -Z 549862.597050 CM SEQDB 2 5 0 0 Gene; lncRNA; Predicted; CMfinder 5 0 \N 0.34113 -18.20713 1600000 485709 300 179 0 -3.25450 0.71430 2013-10-04 03:27:41 2019-01-04 15:01:52 RF02259 Vax2os1_1 2311 Vax2os1 conserved region 1 Eberhardt R Predicted; CMfinder 100.00 178.00 81.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34.04 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; lncRNA; Predicted; CMfinder 2 0 \N 0.36338 -16.72891 1600000 298687 336 187 0 -3.34570 0.71337 2013-10-04 03:27:43 2019-01-04 15:01:52 RF02260 MAT2A_A 2481 MAT2A 3'UTR stem loop A Daub J Published; PMID:21994249 40.00 41.00 39.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 20 95 0 0 Cis-reg; Published; PMID:21994249 75 0 \N 0.69443 -3.05142 1600000 243170 148 65 1 -3.95120 0.71911 2013-10-04 03:27:45 2022-10-29 16:55:17 RF02261 MAT2A_B 2481 MAT2A 3'UTR stem loop B Daub J Published; PMID:21994249 45.00 47.10 43.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 28 66 0 0 Cis-reg; Published; PMID:21994249 49 0 \N 0.63915 -3.54928 1600000 271790 147 64 1 -3.45410 0.71927 2013-02-01 11:59:39 2022-10-29 16:55:17 RF02262 MAT2A_C 2481 MAT2A 3'UTR stem loop C Daub J Published; PMID:21994249 47.00 49.90 43.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 18 76 0 0 Cis-reg; Published; PMID:21994249 47 0 \N 0.63260 -4.39600 1600000 328444 128 52 1 -3.91210 0.71954 2013-10-04 03:27:52 2022-10-29 16:42:08 RF02263 MAT2A_D 2481 MAT2A 3'UTR stem loop D Daub J Published; PMID:21994249 32.00 32.00 31.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 35 107 0 0 Cis-reg; Published; PMID:21994249 61 0 \N 0.67509 -4.33754 1600000 411906 97 41 1 -4.15760 0.72256 2013-10-04 03:27:54 2019-01-04 15:01:52 RF02264 MAT2A_E 2481 MAT2A 3'UTR stem loop E Daub J Published; PMID:21994249 46.00 46.90 41.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.33 -Z 742849.287494 CM SEQDB 28 83 0 0 Cis-reg; Published; PMID:21994249 55 0 \N 0.65052 -3.45986 1600000 292679 149 67 1 -3.56490 0.71917 2013-10-04 03:27:55 2022-10-29 16:42:08 RF02265 MAT2A_F 2481 MAT2A 3'UTR stem loop F Daub J Published; PMID:21994249 51.00 52.00 50.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.17 -Z 549862.597050 CM SEQDB 26 92 0 0 Cis-reg; Published; PMID:21994249 55 0 \N 0.64808 -3.21549 1600000 283739 150 66 1 -3.83680 0.71918 2013-10-04 03:27:57 2019-01-04 15:01:52 RF02266 XIST_intron 2469 XIST 3' intron conserved motif Daub J Published; PMID:21994249 70.00 80.10 58.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 35 0 0 Gene; lncRNA; Published; PMID:21994249 43 0 \N 0.58434 -4.15754 1600000 267709 153 68 1 -3.66380 0.71909 2013-10-04 03:27:59 2019-01-04 15:01:52 RF02267 Vax2os1_2 2311 Vax2os1 conserved region 2 Eberhardt R Predicted; ClustalW 55.00 57.60 49.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 13.33 -Z 549862.597050 CM SEQDB 3 33 0 0 Gene; lncRNA; Predicted; RNAalifold 33 0 \N 0.71632 -13.57512 1600000 679766 645 466 0 -4.48680 0.70129 2013-10-04 03:28:01 2019-01-04 15:01:52 RF02268 MtlS 2312 MtlS RNA Burge SW PMID 22101846 80.00 91.60 52.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.34 -Z 549862.597050 CM SEQDB 6 25 0 0 Gene; sRNA; Predicted; WAR; Burge SW 30 0 \N 0.58678 -4.57635 1600000 219734 226 121 1 -3.01830 0.71853 2013-10-04 03:28:03 2019-01-04 15:01:52 RF02269 HPnc0580 1236 Heliobacter pylori small RNA HPnc0580 Burge SW Predicted; MAFFT 37.00 37.90 36.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 27 0 0 Gene; sRNA; Predicted; RNAalifold 15 0 \N 0.52816 -6.18686 1600000 319095 206 105 1 -3.40390 0.71840 2013-02-01 11:59:41 2019-01-04 15:01:52 RF02270 nse_sRNA 2313 Neisseria sigma-E sRNA Gardner PP Gardner PP 75.00 79.30 39.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 3 0 0 Gene; Published; PMID:22194974; Gardner PP 8 0 \N 0.55459 -5.39992 1600000 316894 163 73 1 -3.46290 0.71898 2013-10-04 03:28:07 2019-01-04 15:01:52 RF02271 uc_338 2314 TUC338 Burge SW Burge SW 120.00 120.00 119.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.50 -Z 549862.597050 CM SEQDB 34 75130 0 0 Cis-reg; Predicted; WAR; Burge SW 105 0 \N 0.65828 -7.38245 1600000 272233 296 180 1 -3.27650 0.71449 2013-10-04 03:28:14 2019-01-04 15:01:52 RF02272 Vax2os1_3 2311 Vax2os1 conserved region 3 Eberhardt R Predicted; MAFFT 50.00 57.20 41.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.19 -Z 549862.597050 CM SEQDB 5 31 0 0 Gene; lncRNA; Predicted; RNAalifold 32 0 \N 0.46799 -15.76158 1600000 612086 322 199 0 -3.52990 0.71218 2013-10-04 03:30:08 2019-01-04 15:01:52 RF02273 FsrA 2315 FsrA Burge SW Burge SW 80.00 108.50 39.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 7 0 0 Gene; Predicted; WAR; mafft_alifold 10 0 \N 0.55741 -9.28476 1600000 410745 177 83 1 -3.60340 0.71878 2013-10-04 03:30:10 2019-01-04 15:01:52 RF02274 AniS 2265 AniS Burge SW Burge SW 50.00 50.10 46.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 9 0 0 Gene; Predicted; WAR; CMFinder 14 0 \N 0.52360 -7.06649 1600000 286239 209 106 1 -3.60590 0.71849 2013-10-04 03:30:12 2019-01-04 15:01:52 RF02275 Hammerhead_HH9 1309 Hammerhead ribozyme HH9 de la Pena M, Burge SW Burge SW 52.00 52.40 51.90 \N Hammerhead_RECK cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 33 235 0 0 Gene; ribozyme; Published; PMID:20651741; Burge, SW 104 0 \N 0.73853 -2.62455 1600000 165569 166 77 1 -4.04710 0.71890 2013-10-04 03:30:14 2021-07-05 13:43:57 RF02276 Hammerhead_II 1309 Hammerhead ribozyme (type II) de la Pena M, Burge SW de la Pena M; Burge SW 37.00 37.20 36.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 24 203 0 0 Gene; ribozyme; Predicted; WAR 151 0 \N 0.59885 -5.46981 1600000 261397 149 67 1 -3.37760 0.71896 2013-10-04 03:30:18 2021-07-05 13:43:57 RF02277 Hammerhead_HH10 1309 Hammerhead ribozyme HH10 de la Pena M, Burge SW de la Pena M; Burge SW 75.00 83.00 68.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 18 33 0 0 Gene; ribozyme; Predicted; WAR; mafft_alifold 42 0 \N 0.60414 -4.80295 1600000 220830 234 125 1 -3.38830 0.71834 2013-10-04 03:30:20 2021-07-05 13:43:57 RF02278 Betaproteobacteria_toxic_sRNA 2316 Betaproteobacteria toxic small RNA Levy A, Burge SW Levy A; Burge SW 50.00 50.10 49.60 Overexpression in amino aid rich medium attenuates growth, suggesting role in repressing amino acid intake and metabolism.[2] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.71 -Z 549862.597050 CM SEQDB 51 579 0 0 Gene; sRNA; Predicted; WAR; Burge SW 302 0 \N 0.58138 -7.78701 1600000 465449 135 64 1 -3.48860 0.71924 2013-10-04 03:30:22 2019-01-04 15:01:52 RF02279 TtnuCD1 1264 Tetrahymena snoRNA TtnuCD1 Eberhardt R Eberhardt R 70.00 84.00 38.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34.62 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 3 0 \N 0.43414 -7.62096 1600000 268134 148 63 0 -3.05750 0.72584 2013-10-04 03:30:25 2019-01-04 15:01:52 RF02280 TtnuCD3 1264 Tetrahymena snoRNA TtnuCD3 Eberhardt R Eberhardt R 70.00 104.00 41.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33.20 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 4 0 \N 0.43621 -8.83947 1600000 268218 158 72 0 -3.73230 0.71871 2013-10-04 03:30:27 2019-01-04 15:01:52 RF02281 TtnuCD4 1264 Tetrahymena snoRNA TtnuCD4 Eberhardt R Eberhardt R 60.00 74.80 35.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.54 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 5 0 \N 0.50078 -10.27843 1600000 488552 139 60 0 -3.26500 0.72154 2013-10-04 03:30:29 2019-01-04 15:01:52 RF02282 TtnuCD5 1264 Tetrahymena snoRNA TtnuCD5 Eberhardt R Eberhardt R 70.00 104.90 43.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34.74 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 3 0 \N 0.41086 -10.28594 1600000 315040 166 77 0 -2.74260 0.71953 2013-10-04 03:30:30 2019-01-04 15:01:52 RF02283 TtnuCD6 1264 Tetrahymena snoRNA TtnuCD6 Eberhardt R Eberhardt R 50.00 63.90 33.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.11 -Z 549862.597050 CM SEQDB 2 3 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 4 0 \N 0.47366 -8.21037 1600000 221723 160 72 0 -3.41150 0.72611 2013-10-04 03:30:32 2019-01-04 15:01:52 RF02284 TtnuCD7 1264 Tetrahymena snoRNA TtnuCD7 Eberhardt R Eberhardt R 90.00 127.70 42.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 39.82 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 3 0 \N 0.38007 -8.76688 1600000 304194 209 108 0 -2.94630 0.71824 2013-10-04 03:30:34 2019-01-04 15:01:52 RF02285 TtnuCD8 1264 Tetrahymena snoRNA TtnuCD8 Eberhardt R Eberhardt R 70.00 75.70 37.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.18 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 4 0 \N 0.47651 -7.13843 1600000 247792 142 59 0 -2.92560 0.73037 2013-10-04 03:30:36 2019-01-04 15:01:52 RF02286 TtnuCD9 1264 Tetrahymena snoRNA TtnuCD9 Eberhardt R Eberhardt R 70.00 78.60 37.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33.17 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 3 0 \N 0.46027 -6.93803 1600000 302307 137 55 0 -2.84250 0.72986 2013-10-04 03:30:38 2019-01-04 15:01:52 RF02287 TtnuCD10 1264 Tetrahymena snoRNA TtnuCD10 Eberhardt R Eberhardt R 85.00 108.90 42.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33.49 -Z 549862.597050 CM SEQDB 4 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 6 0 \N 0.41601 -11.03770 1600000 322319 219 117 0 -3.09350 0.71804 2013-10-04 03:30:40 2019-01-04 15:01:52 RF02288 TtnuCD11 1264 Tetrahymena snoRNA TtnuCD11 Eberhardt R Eberhardt R 70.00 78.90 32.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.39 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 5 0 \N 0.61309 -7.88088 1600000 333959 158 74 0 -3.68500 0.71868 2013-10-04 03:30:41 2019-01-04 15:01:52 RF02289 TtnuCD13 1264 Tetrahymena snoRNA TtnuCD13 Eberhardt R Eberhardt R 75.00 88.60 40.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.53 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 3 0 \N 0.46913 -8.92510 1600000 318057 148 63 0 -3.08170 0.72463 2013-10-04 03:30:43 2019-01-04 15:01:52 RF02290 TtnuCD14 1264 Tetrahymena snoRNA TtnuCD14 Eberhardt R Eberhardt R 75.00 95.50 36.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.64 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 3 0 \N 0.44744 -8.50612 1600000 287822 162 74 0 -3.28970 0.72161 2013-10-04 03:30:44 2019-01-04 15:01:52 RF02291 TtnuCD15 1264 Tetrahymena snoRNA TtnuCD15 Eberhardt R Eberhardt R 75.00 79.30 48.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33.76 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 4 0 \N 0.44525 -7.61193 1600000 290628 150 65 0 -2.90790 0.72795 2013-10-04 03:30:46 2019-01-04 15:01:52 RF02292 TtnuCD16 1264 Tetrahymena snoRNA TtnuCD16 Eberhardt R Eberhardt R 75.00 83.40 37.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.66 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 3 0 \N 0.56338 -8.05584 1600000 294654 141 58 0 -3.14840 0.72778 2013-10-04 03:30:47 2019-01-04 15:01:52 RF02293 TtnuCD17 1264 Tetrahymena snoRNA TtnuCD17 Eberhardt R Eberhardt R 75.00 91.40 38.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.90 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 3 0 \N 0.45658 -8.89701 1600000 357343 154 68 0 -3.21740 0.72274 2013-10-04 03:30:49 2019-01-04 15:01:52 RF02294 TtnuCD18 1264 Tetrahymena snoRNA TtnuCD18 Eberhardt R Eberhardt R 55.00 64.80 38.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33.32 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 4 0 \N 0.45794 -6.73288 1600000 269402 141 58 0 -3.13460 0.73153 2013-10-04 03:30:51 2019-01-04 15:01:52 RF02295 TtnuCD19 1264 Tetrahymena snoRNA TtnuCD19 Eberhardt R Eberhardt R 70.00 80.50 39.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 36.27 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 4 0 \N 0.42244 -6.39028 1600000 194987 157 70 0 -2.91420 0.72617 2013-10-04 03:30:52 2019-01-04 15:01:52 RF02296 TtnuCD20 1264 Tetrahymena snoRNA TtnuCD20 Eberhardt R Eberhardt R 80.00 92.60 36.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.13 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 3 0 \N 0.47934 -8.66832 1600000 347063 152 66 0 -3.15480 0.72303 2013-10-04 03:30:54 2019-01-04 15:01:52 RF02297 TtnuCD21 1264 Tetrahymena snoRNA TtnuCD21 Eberhardt R Eberhardt R 70.00 78.20 35.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.38 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 4 0 \N 0.47159 -6.33116 1600000 247172 150 65 0 -2.96160 0.72896 2013-10-04 03:30:56 2019-01-04 15:01:52 RF02298 TtnuCD22 1264 Tetrahymena snoRNA TtnuCD22 Eberhardt R Eberhardt R 85.00 108.60 34.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.48 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 3 0 \N 0.50868 -8.68240 1600000 283373 166 77 0 -3.35470 0.71881 2013-10-04 03:30:57 2019-01-04 15:01:52 RF02299 TtnuCD23 1264 Tetrahymena snoRNA TtnuCD23 Eberhardt R Eberhardt R 70.00 91.20 38.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33.45 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 3 0 \N 0.43310 -9.38094 1600000 331142 160 72 0 -3.19360 0.72142 2013-10-04 03:30:59 2019-01-04 15:01:52 RF02300 TtnuCD24 1264 Tetrahymena snoRNA TtnuCD24 Eberhardt R Eberhardt R 75.00 84.20 36.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.13 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 3 0 \N 0.48915 -9.15688 1600000 395966 141 58 0 -3.13240 0.72734 2013-10-04 03:31:00 2019-01-04 15:01:52 RF02301 TtnuCD25 1264 Tetrahymena snoRNA TtnuCD25 Eberhardt R Eberhardt R 85.00 98.00 32.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.94 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 5 0 \N 0.59389 -7.19706 1600000 313371 181 89 0 -3.58350 0.71843 2013-10-04 03:31:02 2019-01-04 15:01:52 RF02302 TtnuCD26 1264 Tetrahymena snoRNA TtnuCD26 Eberhardt R Eberhardt R 90.00 108.20 36.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33.26 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 4 0 \N 0.42388 -10.01010 1600000 268562 208 108 0 -3.12650 0.71817 2013-10-04 03:31:04 2019-01-04 15:01:52 RF02303 TtnuCD28 1264 Tetrahymena snoRNA TtnuCD28 Eberhardt R Eberhardt R 70.00 83.50 46.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.37 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 3 0 \N 0.46086 -7.94593 1600000 340706 149 64 0 -3.11870 0.72525 2013-10-04 03:31:06 2019-01-04 15:01:52 RF02304 TtnuCD29 1264 Tetrahymena snoRNA TtnuCD29 Eberhardt R Eberhardt R 90.00 110.30 38.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33.64 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 3 0 \N 0.42302 -9.90676 1600000 290775 168 78 0 -3.36090 0.71863 2013-10-04 03:31:07 2019-01-04 15:01:52 RF02305 TtnuCD31 1264 Tetrahymena snoRNA TtnuCD31 Eberhardt R Eberhardt R 75.00 86.40 32.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.59 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 3 0 \N 0.48451 -8.36448 1600000 282263 153 67 0 -3.27160 0.72341 2013-10-04 03:31:09 2019-01-04 15:01:52 RF02306 TtnuCD32 1264 Tetrahymena snoRNA TtnuCD32 Eberhardt R Eberhardt R 100.00 128.10 34.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.39 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 4 0 \N 0.52450 -8.86270 1600000 311309 196 98 0 -3.52610 0.71831 2013-10-04 03:31:11 2019-01-04 15:01:52 RF02307 TtnuCD33 1264 Tetrahymena snoRNA TtnuCD33 Eberhardt R Eberhardt R 80.00 103.70 36.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.73 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 3 0 \N 0.44901 -7.83216 1600000 236888 163 74 0 -3.31390 0.72111 2013-10-04 03:31:12 2019-01-04 15:01:52 RF02308 TtnuCD34 1264 Tetrahymena snoRNA TtnuCD34 Eberhardt R Eberhardt R 80.00 89.40 32.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.18 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold; 3 0 \N 0.51364 -8.48522 1600000 263159 149 64 0 -3.36940 0.72559 2013-10-04 03:31:14 2019-01-04 15:01:52 RF02309 TtnuHACA1 1264 Tetrahymena snoRNA TtnuHACA1 Eberhardt R Eberhardt R 100.00 137.40 50.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 3 0 \N 0.51785 -7.25973 1600000 310453 220 113 1 -3.33060 0.71849 2013-10-04 03:31:15 2019-01-04 15:01:52 RF02310 TtnuHACA2 1264 Tetrahymena snoRNA TtnuHACA2 Eberhardt R Eberhardt R 100.00 139.00 38.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 4 0 \N 0.50322 -6.06654 1600000 255514 230 121 1 -2.76170 0.71827 2013-10-04 03:31:17 2019-01-04 15:01:52 RF02311 TtnuHACA3 1264 Tetrahymena snoRNA TtnuHACA3 Eberhardt R Eberhardt R 100.00 177.40 41.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 2 0 \N 0.46532 -8.32194 1600000 295242 272 152 1 -3.05650 0.71814 2013-10-04 03:31:19 2019-01-04 15:01:52 RF02312 TtnuHACA5 1264 Tetrahymena snoRNA TtnuHACA5 Eberhardt R Eberhardt R 100.00 150.70 37.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 3 0 \N 0.54250 -6.96348 1600000 269080 245 132 1 -3.11160 0.71829 2013-10-04 03:31:20 2019-01-04 15:01:52 RF02313 TtnuHACA6 1264 Tetrahymena snoRNA TtnuHACA6 Eberhardt R Eberhardt R 100.00 150.20 45.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 3 0 \N 0.46043 -9.72904 1600000 343161 244 131 1 -3.05890 0.71816 2013-10-04 03:31:22 2019-01-04 15:01:52 RF02314 TtnuHACA7 1264 Tetrahymena snoRNA TtnuHACA7 Eberhardt R Eberhardt R 100.00 129.70 32.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 3 0 \N 0.60096 -4.90176 1600000 236147 239 129 1 -3.47420 0.71832 2013-10-04 03:31:23 2019-01-04 15:01:52 RF02315 TtnuHACA8 1264 Tetrahymena snoRNA TtnuHACA8 Eberhardt R Eberhardt R 50.00 63.10 36.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 4 0 \N 0.47327 -8.25001 1600000 303038 242 130 1 -3.13260 0.71835 2013-10-04 03:31:25 2019-01-04 15:01:52 RF02316 TtnuHACA9 1264 Tetrahymena snoRNA TtnuHACA9 Eberhardt R Eberhardt R 100.00 127.30 47.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 5 0 \N 0.50180 -6.70974 1600000 242915 247 135 1 -2.78340 0.71818 2013-10-04 03:31:27 2019-01-04 15:01:52 RF02317 TtnuHACA10 1264 Tetrahymena snoRNA TtnuHACA10 Eberhardt R Eberhardt R 100.00 126.30 42.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 4 0 \N 0.47094 -6.16668 1600000 274889 206 104 1 -3.01980 0.71843 2013-10-04 03:31:28 2019-01-04 15:01:52 RF02318 TtnuHACA11a 1264 Tetrahymena snoRNA TtnuHACA11a Eberhardt R Eberhardt R 100.00 160.30 48.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 3 0 \N 0.52563 -7.08281 1600000 264804 258 141 1 -3.05410 0.71813 2013-10-04 03:31:30 2019-01-04 15:01:52 RF02319 TtnuHACA12 1264 Tetrahymena snoRNA TtnuHACA12 Eberhardt R Eberhardt R 80.00 89.50 51.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.03 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 3 0 \N 0.47834 -6.43676 1600000 285736 241 131 1 -2.86370 0.71824 2013-10-04 03:31:32 2019-01-04 15:01:52 RF02320 TtnuHACA13 1264 Tetrahymena snoRNA TtnuHACA13 Eberhardt R Eberhardt R 100.00 156.90 45.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 3 0 \N 0.55512 -5.61559 1600000 285368 248 134 1 -2.66280 0.71813 2013-10-04 03:31:33 2019-01-04 15:01:52 RF02321 TtnuHACA14 1264 Tetrahymena snoRNA TtnuHACA14 Eberhardt R Eberhardt R 100.00 159.40 49.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 4 0 \N 0.50011 -7.48574 1600000 247130 246 133 1 -2.86780 0.71811 2013-10-04 03:31:35 2019-01-04 15:01:52 RF02322 TtnuHACA15 1264 Tetrahymena snoRNA TtnuHACA15 Eberhardt R Eberhardt R 100.00 148.00 47.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 3 0 \N 0.52252 -6.80304 1600000 248612 225 117 1 -3.03770 0.71832 2013-10-04 03:31:36 2019-01-04 15:01:52 RF02323 TtnuHACA16 1264 Tetrahymena snoRNA TtnuHACA16 Eberhardt R Eberhardt R 100.00 148.60 38.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 3 0 \N 0.46598 -7.28637 1600000 325646 225 117 1 -3.09010 0.71836 2013-10-04 03:31:38 2019-01-04 15:01:52 RF02324 TtnuHACA17 1264 Tetrahymena snoRNA TtnuHACA17 Eberhardt R Eberhardt R 100.00 127.40 41.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 4 0 \N 0.46351 -6.60264 1600000 289423 225 118 1 -3.25490 0.71826 2013-10-04 03:31:40 2019-01-04 15:01:52 RF02325 TtnuHACA18 1264 Tetrahymena snoRNA TtnuHACA18 Eberhardt R Eberhardt R 100.00 143.90 43.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 4 0 \N 0.49055 -6.94903 1600000 321953 241 130 1 -2.93330 0.71817 2013-10-04 03:31:41 2019-01-04 15:01:52 RF02326 TtnuHACA19 1264 Tetrahymena snoRNA TtnuHACA19 Eberhardt R Eberhardt R 100.00 154.90 38.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 3 0 \N 0.47992 -7.55107 1600000 262833 231 121 1 -3.13510 0.71822 2013-10-04 03:31:43 2019-01-04 15:01:52 RF02327 TtnuHACA20 1264 Tetrahymena snoRNA TtnuHACA20 Eberhardt R Eberhardt R 100.00 143.80 39.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 3 0 \N 0.48095 -8.85213 1600000 290895 234 123 1 -3.18730 0.71843 2013-10-04 03:31:44 2019-01-04 15:01:52 RF02328 TtnuHACA21 1264 Tetrahymena snoRNA TtnuHACA21 Eberhardt R Eberhardt R 100.00 164.70 43.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 3 0 \N 0.50129 -7.68163 1600000 289818 243 130 1 -2.98600 0.71821 2013-10-04 03:31:46 2019-01-04 15:01:52 RF02329 TtnuHACA22 1264 Tetrahymena snoRNA TtnuHACA22 Eberhardt R Eberhardt R 90.00 115.10 40.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 3 0 \N 0.49093 -5.21720 1600000 211242 205 103 1 -2.91700 0.71868 2013-10-04 03:31:48 2019-01-04 15:01:52 RF02330 TtnuHACA23 1264 Tetrahymena snoRNA TtnuHACA23 Eberhardt R Eberhardt R 100.00 130.00 41.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 4 0 \N 0.46702 -7.24942 1600000 305101 246 135 1 -2.69330 0.71827 2013-10-04 03:31:49 2019-01-04 15:01:52 RF02331 TtnuHACA24 1264 Tetrahymena snoRNA TtnuHACA24 Eberhardt R Eberhardt R 100.00 154.10 40.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 3 0 \N 0.53050 -6.58106 1600000 221458 239 127 1 -3.16520 0.71835 2013-10-04 03:31:51 2019-01-04 15:01:52 RF02332 TtnuHACA25 1264 Tetrahymena snoRNA TtnuHACA25 Eberhardt R Eberhardt R 100.00 135.60 44.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 3 0 \N 0.54127 -4.31051 1600000 217207 217 111 1 -2.99020 0.71833 2013-10-04 03:31:53 2019-01-04 15:01:52 RF02333 TtnuHACA27 1264 Tetrahymena snoRNA TtnuHACA27 Eberhardt R Eberhardt R 80.00 106.00 43.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 3 0 \N 0.45264 -5.34904 1600000 290430 182 86 1 -2.95980 0.71861 2013-10-04 03:31:54 2019-01-04 15:01:52 RF02334 TtnuHACA28 1264 Tetrahymena snoRNA TtnuHACA28 Eberhardt R Eberhardt R 130.00 170.60 55.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold; 3 0 \N 0.48729 -8.08668 1600000 298397 249 134 1 -3.36760 0.71819 2013-10-04 03:31:56 2019-01-04 15:01:52 RF02335 GlsR2_miR4 2467 Giardia snoRNA GlsR2 Eberhardt R Published; PMID:22028939 100.00 120.30 33.30 Reported as a snoRNA related to miRNA [1], updated to only snoRNA after reviewed with mirBase data (2021) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30 -Z 742849.287494 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; Predicted; PMID:22028939 2 0 \N 0.52079 -7.57949 1600000 250822 210 106 1 -3.07570 0.71851 2013-10-04 03:31:57 2021-11-19 10:36:03 RF02336 GlsR1_miR6 2467 Giardia snoRNA GlsR1 Eberhardt R Published; PMID:22568619 100.00 110.40 33.70 Reported as a snoRNA related to miRNA [1], been updated to snoRNA after reviewed with mirBase data (2021) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; Predicted; PMID:22568619 3 0 \N 0.57059 -5.20145 1600000 185510 180 85 1 -3.40220 0.71871 2013-10-04 03:31:59 2021-11-19 10:36:03 RF02337 GlsR8_miR10 2467 Giardia snoRNA GlsR8 Eberhardt R Published; PMID:22568619 100.00 103.30 34.40 Reported as a snoRNA related to miRNA [1], updated to only snoRNA after reviewed with mirBase data (2021) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; Predicted; PMID:22568619 3 0 \N 0.67036 -3.39490 1600000 217072 159 70 1 -3.84380 0.71903 2013-10-21 09:34:28 2021-11-19 10:36:03 RF02338 GlsR16_miR3 2467 Giardia snoRNA GlsR16 Eberhardt R Published; PMID:19043559 100.00 103.60 34.20 Reported as a snoRNA related to miRNA [1], updated to only snoRNA after reviewed with mirBase data (2021) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; Predicted; PMID:19043559 4 0 \N 0.74532 -1.70431 1600000 219210 169 77 1 -3.29280 0.71891 2013-10-04 03:32:02 2021-11-19 10:36:03 RF02339 GlsR17_miR2 2467 Giardia snoRNA GlsR17 Eberhardt R Published; PMID:19043559 84.00 84.80 36.90 Reported as a snoRNA related to miRNA [1], updated to only snoRNA after reviewed with mirBase data (2021) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 2 0 0 Gene; snRNA; snoRNA; Predicted; PMID:19043559 3 0 \N 0.69960 -2.88524 1600000 250749 147 63 1 -3.06440 0.71936 2013-10-04 03:32:04 2021-11-19 10:36:03 RF02340 DENV_SLA 1467 Dengue virus SLA Eberhardt R, Choi K Published; PMID:19004935 35.40 35.40 35.10 Flavivirus stem-loop A (SLA) is a secondary structure present in the 5 prime untranslated (5'-UTR) region of viruses of the genus Flavivirus. SLA structure was first proposed from enzymatic and chemical probing methods [1,2] afterwards the 3D structure of Dengue (PDB:7LYF) and Zika (PDB:5U0B) SLA viruses were reported [3]. SLA interacts with the nonstructural protein 5 (NS5), where SLA functions as a promoter for viral RNA synthesis by NS5 polymerase. The SLA secondary structure includes a bottom stem-loop (previously reported as SL1 and SL2), a top stem-loop (previously reported as SL3 and TL) and a side-loop (previously proposed as side SL). The side SL variate in length between flaviviruses (Tick-borne flaviviruses present a side SL >40nt), despite the lack of sequence conservation, deletion of the side SL abolish replication in Dengue virus. It is proposed that the side SL is essential to maintain the overall fold of Flavivirus SLA [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 83 0 0 Cis-reg; Published; PMID:19004935 27 0 \N 0.57120 -5.60824 1600000 348354 147 70 1 -3.27120 0.71896 2013-10-04 03:32:05 2021-07-05 12:06:19 RF02341 ncrMT1302 2178 Mycobacterium sRNA ncrMT1302 Eberhardt R Predicted; WAR 45.00 46.30 43.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 57 0 0 Gene; sRNA; Predicted; WAR 63 0 \N 0.55226 -7.21478 1600000 280346 209 109 1 -2.89450 0.71841 2013-10-04 03:32:08 2019-01-04 15:01:52 RF02342 ar7 2318 Alphaproteobacterial sRNA ar7 Eberhardt R Published; PMID:22418845 60.00 77.40 47.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.83 -Z 549862.597050 CM SEQDB 29 101 0 0 Gene; sRNA; Predicted; PMID:22418845 120 0 \N 0.55010 -10.67055 1600000 509553 251 146 1 -3.21630 0.71813 2013-10-04 03:32:10 2019-01-04 15:01:52 RF02343 ar9 2319 Alphaproteobacterial sRNA ar9 Eberhardt R Published; PMID:22418845 45.00 46.90 43.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.71 -Z 549862.597050 CM SEQDB 28 123 0 0 Gene; sRNA; Predicted; PMID:22418845 140 0 \N 0.50336 -7.53513 1600000 243354 262 149 1 -3.28100 0.71823 2013-10-04 03:32:12 2019-01-04 15:01:52 RF02344 ar14 2320 Alphaproteobacterial ar14 Eberhardt R Published; PMID:22418845 58.80 58.80 58.70 Smr14C2 was renamed NfeR1 (Nodule Formation Efficiency RNA) highly expressed in salt stress and during the symbiotic interaction on legume roots.[2] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 118 498 0 0 Gene; sRNA; Predicted; PMID:22418845 198 0 \N 0.51197 -11.60424 1600000 527493 210 123 1 -3.63290 0.71826 2013-10-04 03:32:14 2021-07-05 13:43:57 RF02345 ar15 2365 Alphaproteobacterial ar15 Eberhardt R Published; PMID:22418845 40.00 40.60 36.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 61 241 0 0 Gene; sRNA; Predicted; PMID:22418845 126 0 \N 0.57102 -7.66858 1600000 276788 211 113 1 -3.49130 0.71856 2013-10-04 03:32:17 2021-07-05 13:43:57 RF02346 ar35 2322 Alphaproteobacterial sRNA ar35 Eberhardt R Published; PMID:22418845 45.00 45.20 44.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 181 0 0 Gene; sRNA; Predicted; PMID:22418845 99 0 \N 0.52547 -9.96073 1600000 341920 252 144 1 -3.13920 0.71834 2013-10-04 03:32:19 2019-01-04 15:01:52 RF02347 ar45 2323 Alphaproteobacterial sRNA ar45 Eberhardt R Published; PMID:22418845 40.00 44.70 34.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 36 211 0 0 Gene; sRNA; Predicted; PMID:22418845 231 0 \N 0.60959 -7.08808 1600000 256403 263 148 1 -2.60850 0.71829 2013-10-04 03:32:21 2019-01-04 15:01:52 RF02348 tracrRNA 2324 Trans-activating crRNA Eberhardt R Published; PMID:22745249 74.00 76.80 62.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 35 45 0 0 Gene; Predicted; PMID:22745249 76 0 \N 0.48525 -8.18665 1600000 259902 180 91 1 -3.39370 0.71851 2013-10-04 03:32:22 2019-01-04 15:01:52 RF02349 psRNA2 1236 Proteobacterial sRNA psRNA2 Eberhardt R Published; PMID:20840601 65.00 70.00 62.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 77 0 0 Gene; sRNA; Predicted; PMID:20840601 16 0 \N 0.64998 -8.82099 1600000 408784 391 201 1 -3.72130 0.71238 2013-10-04 03:32:24 2019-01-04 15:01:52 RF02350 psRNA6 1236 Nitrosomonas sRNA psRNA6 Eberhardt R Published; PMID:20840601 60.00 63.60 35.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 5 0 0 Gene; sRNA; Predicted; PMID:20840601 3 0 \N 0.73879 -7.74868 1600000 364936 478 324 1 -4.00040 0.70506 2013-10-04 03:32:26 2019-01-04 15:01:52 RF02351 psRNA14 1236 Proteobacteria sRNA psRNA14 Eberhardt R Published; PMID:20840601 60.00 79.50 54.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 3 0 0 Gene; sRNA; Predicted; PMID:20840601 3 0 \N 0.52951 -5.50498 1600000 226453 173 84 1 -2.78410 0.72374 2013-10-04 03:32:28 2019-01-04 15:01:52 RF02353 BjrC68 1236 Bradyrhizobiaceae sRNA BjrC68 Eberhardt R Published; PMID:22258152 39.00 39.40 37.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 12 38 0 0 Gene; sRNA; Predicted; PMID:22258152 46 0 \N 0.71617 -5.37333 1600000 243950 170 82 1 -3.58060 0.71882 2013-10-04 03:32:33 2019-01-04 15:01:52 RF02354 BjrC80 1236 Bradyrhizobiaceae sRNA BjrC80 Eberhardt R Published; PMID:22258152 80.00 94.90 69.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 15 29 0 0 Gene; sRNA; Predicted; PMID:22258152 36 0 \N 0.51491 -11.73060 1600000 545948 272 162 1 -3.07160 0.71693 2013-10-04 03:32:35 2019-01-04 15:01:52 RF02355 BjrC174 1236 Bradyrhizobiaceae sRNA BjrC174 Eberhardt R Published; PMID:22258152 45.00 50.60 39.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 15 59 0 0 Gene; sRNA; Predicted; PMID:22258152 65 0 \N 0.51967 -9.05922 1600000 300922 323 201 1 -3.64720 0.71226 2013-10-04 03:32:37 2019-01-04 15:01:52 RF02356 BjrC1505 1236 Alphaproteobacterial sRNA BjrC1505 Eberhardt R Published; PMID:22258152 50.00 54.20 46.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 25 165 0 0 Gene; sRNA; Predicted; PMID:22258152 174 0 \N 0.54165 -8.77869 1600000 374815 247 140 1 -3.31850 0.71815 2013-10-04 03:32:39 2019-01-04 15:01:52 RF02357 RNaseP-T 2441 RNaseP truncated form Eberhardt R Published; PMID:21135215 60.00 76.70 47.50 Pyrobaculum and Caldivirga RNase P RNAs are reported as the smallest naturally occurring form of RNase P. They function as trans-acting precursor tRNA-processing ribozymes. This variant of RNase P, have a loss of the specificity domain, which suggests altered substrate specificity [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 9 0 0 Gene; ribozyme; Predicted; PMID:21135215 18 0 \N 0.57874 -10.43148 1600000 493955 336 208 1 -2.94230 0.71165 2013-10-04 03:32:41 2021-07-05 13:43:57 RF02358 hsp17 2325 Hsp17 thermometer Eberhardt R Published; PMID:21131278 45.00 52.80 32.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.49 -Z 549862.597050 CM SEQDB 3 2 0 0 Cis-reg; thermoregulator; Published; PMID:21131278 3 0 \N 0.55474 -5.78446 1600000 301526 127 49 1 -2.46980 0.73589 2013-10-04 03:32:42 2019-01-04 15:01:52 RF02359 MS2 2326 Bacteriophage MS2 operator hairpin Eberhardt R Eberhardt R 40.00 44.30 35.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.56 -Z 549862.597050 CM SEQDB 5 1 0 0 Cis-reg; Published; PMID:11095669 4 0 \N 0.65228 -7.58001 1600000 524019 106 36 1 -3.60550 0.72645 2013-10-04 03:32:44 2019-01-04 15:01:52 RF02360 Yfr8 2265 Cyanobacterial functional RNA 8/9 Eberhardt R Eberhardt R 40.00 43.20 39.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.29 -Z 549862.597050 CM SEQDB 5 1 0 0 Gene; sRNA; Predicted; mfold 4 0 \N 0.60227 -8.93929 1600000 429424 363 226 1 -3.69240 0.71011 2013-10-04 03:32:46 2019-01-04 15:01:52 RF02362 Yfr10 2265 Cyanobacterial functional RNA 10 Eberhardt R Eberhardt R 43.00 43.20 42.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.41 -Z 549862.597050 CM SEQDB 6 3 0 0 Gene; sRNA; Predicted; mfold 6 0 \N 0.48150 -6.50907 1600000 246954 162 78 1 -3.23360 0.71884 2013-10-04 03:32:50 2019-01-04 15:01:52 RF02363 Yfr11 2265 Cyanobacterial functional RNA 11 Eberhardt R Eberhardt R 44.00 44.70 42.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.84 -Z 549862.597050 CM SEQDB 4 2 0 0 Gene; sRNA; Predicted; mfold 3 0 \N 0.49388 -7.79668 1600000 344468 259 144 1 -2.68020 0.71822 2013-10-04 03:32:53 2019-01-04 15:01:52 RF02364 Yfr13 2265 Cyanobacterial functional RNA 13 Eberhardt R Eberhardt R 39.00 39.00 34.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.27 -Z 549862.597050 CM SEQDB 7 2 0 0 Gene; sRNA; Predicted; mfold 8 0 \N 0.47380 -8.98396 1600000 347179 195 98 1 -3.14740 0.71851 2013-10-04 03:32:54 2019-01-04 15:01:52 RF02365 Yfr17 2265 Cyanobacterial functional RNA 17 Eberhardt R Eberhardt R 50.00 52.00 43.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.53 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; sRNA; Predicted; mfold 4 0 \N 0.52064 -9.58722 1600000 425957 409 264 1 -3.26520 0.70764 2013-10-04 03:32:56 2019-01-04 15:01:52 RF02366 Yfr19 2265 Cyanobacterial functional RNA 19 Eberhardt R Eberhardt R 70.00 72.50 46.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.05 -Z 549862.597050 CM SEQDB 6 1 0 0 Gene; sRNA; Predicted; mfold 6 0 \N 0.49909 -5.88099 1600000 294939 174 82 1 -3.11060 0.71894 2013-10-04 03:32:58 2019-01-04 15:01:52 RF02367 Yfr20 2265 Cyanobacterial functional RNA 20 Eberhardt R Eberhardt R 44.00 44.00 38.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.13 -Z 549862.597050 CM SEQDB 7 1 0 0 Gene; sRNA; Predicted; mfold 7 0 \N 0.51953 -9.12710 1600000 441473 184 89 1 -3.52260 0.71873 2013-10-04 03:33:00 2019-01-04 15:01:52 RF02368 Yfr21 2265 Cyanobacterial functional RNA 21 Eberhardt R Eberhardt R 100.00 222.90 39.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.28 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; mfold 2 0 \N 0.45789 -10.29640 1600000 341845 338 205 1 -3.20850 0.71173 2013-10-04 03:33:02 2019-01-04 15:01:52 RF02369 h2cR 2327 h2cR sRNA Eberhardt R Eberhardt R 70.00 82.30 48.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.73 -Z 549862.597050 CM SEQDB 7 7 0 0 Gene; sRNA; Predicted; PMID:23082228 10 0 \N 0.59537 -4.64875 1600000 208238 251 137 1 -3.37210 0.71830 2013-10-04 03:33:04 2019-01-04 15:01:52 RF02370 Trp_leader_2 1763 Bacillus tryptophan operon leader Eberhardt R Eberhardt R 100.00 119.90 39.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 7 0 0 Cis-reg; leader; Published; PMID:14712717 16 0 \N 0.42649 -9.78202 1600000 348869 280 147 1 -2.68910 0.71795 2013-10-04 03:33:05 2019-01-04 15:01:52 RF02371 PyrG_leader 2328 PyrG leader Eberhardt R Eberhardt R 65.00 71.40 50.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33.69 -Z 549862.597050 CM SEQDB 10 14 0 0 Cis-reg; leader; Published; PMID:17302819 23 0 \N 0.44831 -7.63323 1600000 322480 163 78 1 -3.34060 0.71879 2013-10-04 03:33:07 2019-01-04 15:01:52 RF02372 PyrC_leader 2329 PyrC leader Eberhardt R Eberhardt R 50.00 60.90 43.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 12 0 0 Cis-reg; leader; Published; PMID:18535147 18 0 \N 0.49001 -8.70348 1600000 579378 123 50 1 -3.86970 0.71930 2013-10-04 03:33:09 2019-01-04 15:01:52 RF02373 PyrD_leader 2330 PyrD leader Eberhardt R Eberhardt R 47.00 49.00 46.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 27 59 0 0 Cis-reg; leader; Published; PMID:7510398 77 0 \N 0.50090 -7.58138 1600000 395114 158 74 1 -3.74160 0.71879 2013-10-04 03:33:11 2019-01-04 15:01:52 RF02374 YenS 2331 Yersinia YenS sRNA Eberhardt R Eberhardt R 80.00 102.30 36.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 2 0 0 Gene; sRNA; Predicted; mfold 8 0 \N 0.60881 -8.39396 1600000 407650 290 169 1 -3.23800 0.71584 2013-10-04 03:33:13 2019-01-04 15:01:52 RF02375 Aar 2332 Aar sRNA Eberhardt R Eberhardt R 60.00 69.70 41.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 30 0 0 Gene; sRNA; Predicted; mfold 39 0 \N 0.45563 -9.15955 1600000 317803 343 191 1 -3.33940 0.71325 2013-10-04 03:33:14 2019-01-04 15:01:52 RF02376 antisense_SR1 2333 SR1 sRNA Eberhardt R Eberhardt R 45.00 45.00 44.80 \N SR1; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 109 0 0 Gene; sRNA; Published; PMID:17576690 105 0 \N 0.52441 -10.50525 1600000 352754 370 210 1 -3.43660 0.71135 2013-10-04 03:33:16 2021-07-05 13:43:57 RF02377 SurA 1236 SurA sRNA Eberhardt R Eberhardt R 100.00 118.80 55.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 5 0 0 Gene; sRNA; Predicted; mfold 8 0 \N 0.69719 -8.20154 1600000 394695 468 278 1 -4.08750 0.70705 2013-10-04 03:33:18 2019-01-04 15:01:52 RF02378 SurC 1236 SurC sRNA Eberhardt R Eberhardt R 80.00 120.10 56.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.69 -Z 549862.597050 CM SEQDB 4 4 0 0 Gene; sRNA; Predicted; mfold 8 0 \N 0.54966 -7.52989 1600000 247275 282 161 1 -3.25980 0.71696 2013-10-04 03:33:20 2019-01-04 15:01:52 RF02379 csRNA 2334 Cia-dependent small RNA csRNA1 Eberhardt R Eberhardt R 57.00 57.90 55.30 \N csRNA1; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 48 74 0 0 Gene; sRNA; Predicted; PMID:17725562 60 0 \N 0.43161 -8.24756 1600000 304667 185 93 1 -3.43110 0.71859 2013-10-04 03:33:22 2019-01-04 15:01:52 RF02384 FasX 2335 FasX small RNA Eberhardt R Eberhardt R 100.00 155.40 65.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.24 -Z 549862.597050 CM SEQDB 8 11 0 0 Gene; sRNA; Predicted; PMID:21143309 15 0 \N 0.48582 -10.27429 1600000 389224 333 207 1 -3.97040 0.71171 2013-10-04 03:33:33 2019-01-04 15:01:52 RF02385 sau-13 1236 Staphylococcus sRNA sau-13 Eberhardt R Eberhardt R 55.00 58.70 51.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 15 0 0 Gene; sRNA; Predicted; mfold 19 0 \N 0.50934 -5.68304 1600000 256632 203 104 1 -3.38650 0.71846 2013-10-04 03:33:35 2019-01-04 15:01:52 RF02386 sau-19 1236 Staphylococcus sRNA sau-19 Eberhardt R Eberhardt R 80.00 97.50 52.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 1 0 0 Gene; sRNA; Predicted; mfold 5 0 \N 0.60287 -2.88438 1600000 205007 165 75 1 -3.33590 0.71903 2013-10-04 03:33:36 2019-01-04 15:01:52 RF02387 sau-27 1236 Staphylococcus sRNA sau-27 Eberhardt R Eberhardt R 80.00 98.70 39.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; mfold 4 0 \N 0.50430 -5.98657 1600000 272646 189 92 1 -3.38220 0.71864 2013-10-04 03:33:38 2019-01-04 15:01:52 RF02388 sau-30 1236 Staphylococcus sRNA sau-30 Eberhardt R Eberhardt R 70.00 88.60 42.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; sRNA; Predicted; mfold 3 0 \N 0.54511 -4.96948 1600000 386873 152 64 1 -3.37680 0.72722 2013-10-04 03:33:40 2019-01-04 15:01:52 RF02389 sau-31 1236 Staphylococcus sRNA sau-31 Eberhardt R Eberhardt R 50.00 54.80 42.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; mfold 4 0 \N 0.53176 -4.07536 1600000 259626 153 66 1 -3.43120 0.71897 2013-10-04 03:33:41 2019-01-04 15:01:52 RF02390 sau-41 1236 Staphylococcus sRNA sau-41 Eberhardt R Eberhardt R 80.00 101.20 38.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; mfold 3 0 \N 0.45965 -10.01578 1600000 397384 278 156 1 -2.69840 0.71763 2013-10-04 03:33:43 2019-01-04 15:01:52 RF02392 sau-53 1236 Staphylococcus sRNA sau-53 Eberhardt R Eberhardt R 100.00 211.20 37.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 1 0 0 Gene; sRNA; Predicted; mfold 5 0 \N 0.54412 -9.07633 1600000 345928 322 192 1 -3.42660 0.71320 2013-10-04 03:33:53 2019-01-04 15:01:52 RF02393 sau-59 1236 Staphylococcus sRNA sau-59 Eberhardt R Eberhardt R 80.00 82.80 65.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33.90 -Z 549862.597050 CM SEQDB 3 8 0 0 Gene; sRNA; Predicted; mfold 10 0 \N 0.43572 -9.69604 1600000 517559 239 128 1 -3.02810 0.71819 2013-10-04 03:33:55 2019-01-04 15:01:52 RF02394 sau-63 1236 Staphylococcus sRNA sau-63 Eberhardt R Eberhardt R 100.00 124.90 51.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; mfold 4 0 \N 0.53938 -7.69270 1600000 290063 199 98 1 -3.48840 0.71857 2013-10-04 03:33:56 2019-01-04 15:01:52 RF02395 sau-66 1236 Staphylococcus sRNA sau-66 Eberhardt R Eberhardt R 80.00 110.40 46.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; sRNA; Predicted; mfold 5 0 \N 0.55212 -3.50385 1600000 239736 174 80 1 -2.94700 0.71883 2013-10-04 03:33:58 2019-01-04 15:01:52 RF02396 sau-5949 1236 Staphylococcus sRNA sau-5949 Eberhardt R Eberhardt R 56.00 57.40 52.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 59 0 0 Gene; sRNA; Predicted; mfold 13 0 \N 0.48227 -8.27878 1600000 436020 138 59 1 -3.34980 0.71920 2013-10-04 03:33:59 2019-01-04 15:01:52 RF02397 sau-5971 1236 Staphylococcus sRNA sau-5971 Eberhardt R Eberhardt R 90.00 108.20 52.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; mfold 4 0 \N 0.50716 -8.75044 1600000 332085 196 96 1 -3.05440 0.71878 2013-10-04 03:34:01 2019-01-04 15:01:52 RF02398 sau-6072 1236 Staphylococcus sRNA sau-6072 Eberhardt R Eberhardt R 50.00 82.40 38.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; mfold 3 0 \N 0.58405 -7.23022 1600000 487503 137 53 1 -3.12410 0.73273 2013-10-04 03:34:03 2019-01-04 15:01:52 RF02399 NsiR1 1236 Nitrogen stress-induced RNA 1 Eberhardt R Eberhardt R 39.00 39.50 38.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.20 -Z 549862.597050 CM SEQDB 17 490 0 0 Gene; sRNA; Predicted; PMID:20227418 81 0 \N 0.57096 -8.05942 1600000 513043 131 60 1 -3.17450 0.71922 2013-10-04 03:34:05 2019-01-04 15:01:52 RF02400 Hsp83_3_UTR 2336 Heat shock protein 83 3' UTR Eberhardt R Eberhardt R 90.00 121.60 78.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 23 0 0 Cis-reg; Predicted; mfold 7 0 \N 0.72595 -8.39217 1600000 312712 729 470 1 -4.19620 0.70140 2013-10-04 03:34:06 2019-01-04 15:01:52 RF02401 ClpQY_promoter 2337 ClpQY promoter Eberhardt R Eberhardt R 42.00 42.10 39.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 39 65 0 0 Cis-reg; Predicted; PMID:19440251 91 0 \N 0.56177 -10.60931 1600000 675114 165 58 1 -3.76100 0.71931 2013-10-04 03:34:10 2019-01-04 15:01:52 RF02402 Afu_263 1264 A. fumigatus snoRNA Afu_263 Osuch I, Eberhardt R INFERNAL 60.00 60.30 55.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 19 90 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; 95 0 \N 0.48267 -5.75576 1600000 233554 188 96 1 -3.37160 0.71850 2013-10-21 09:37:16 2021-07-05 13:43:57 RF02403 Afu_328 1264 A. fumigatus snoRNA Afu_328 Osuch I, Eberhardt R INFERNAL 70.00 84.20 60.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.85 -Z 549862.597050 CM SEQDB 4 14 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; 14 0 \N 0.44067 -9.81446 1600000 274158 169 73 0 -3.48970 0.71870 2013-10-21 09:37:18 2019-01-04 15:01:52 RF02404 P33 1269 Pseudomonas sRNA P33 Osuch I, Eberhardt R INFERNAL 45.00 46.70 44.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; sRNA; Predicted; WAR; Clustal_alifold; 3 0 \N 0.54696 -9.29669 1600000 329197 282 160 1 -2.90560 0.71714 2013-10-04 03:34:15 2019-01-04 15:01:52 RF02405 P34 1269 Pseudomonas sRNA P34 Osuch I, Eberhardt R INFERNAL 44.00 46.30 37.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 58 0 0 Gene; sRNA; Predicted; WAR; cmfinder; 61 0 \N 0.65802 -8.37085 1600000 293580 542 383 1 -4.24840 0.70322 2013-10-04 03:34:17 2019-01-04 15:01:52 RF02406 snoR120 1264 Small nucleolar RNA snoR120 Eberhardt R Predicted 55.00 79.70 41.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34.19 -Z 549862.597050 CM SEQDB 4 20 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold 10 0 \N 0.42328 -10.02687 1600000 390441 177 85 0 -3.17170 0.71850 2013-10-04 03:34:19 2019-01-04 15:01:52 RF02407 snoR122 1264 Small nucleolar RNA snoR122 Eberhardt R Predicted 36.00 36.20 35.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.69 -Z 549862.597050 CM SEQDB 4 94 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold 65 0 \N 0.47175 -9.58169 1600000 323241 160 74 0 -3.37400 0.71870 2013-10-04 03:34:20 2019-01-04 15:01:52 RF02408 snoR124 1264 Small nucleolar RNA snoR124 Eberhardt R Predicted 70.00 92.60 38.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.41 -Z 549862.597050 CM SEQDB 5 15 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold 10 0 \N 0.52801 -4.14427 1600000 244653 167 77 1 -3.47570 0.71855 2013-10-04 03:34:22 2019-01-04 15:01:52 RF02409 snoR125 1264 Small nucleolar RNA snoR125 Eberhardt R Predicted 100.00 183.50 66.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 11 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; mfold 10 0 \N 0.62219 -7.92271 1600000 317721 330 200 1 -3.55410 0.71232 2013-10-04 03:34:23 2019-01-04 15:01:52 RF02410 snoR136 1264 Small nucleolar RNA snoR136 Eberhardt R Predicted 43.00 43.80 42.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 167 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold 73 0 \N 0.51306 -7.26335 1600000 336574 259 152 1 -2.94150 0.71819 2013-10-04 03:34:26 2019-01-04 15:01:52 RF02411 snoR138 1264 Small nucleolar RNA snoR138 Eberhardt R Predicted 44.00 44.30 43.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 92 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold 61 0 \N 0.54442 -7.86976 1600000 242316 270 154 1 -3.15210 0.71812 2013-10-04 03:34:28 2019-01-04 15:01:52 RF02412 snoR144 1264 Small nucleolar RNA snoR144 Eberhardt R Predicted 100.00 140.80 43.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 15 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold 10 0 \N 0.55579 -7.29660 1600000 290013 260 144 1 -3.40150 0.71804 2013-10-04 03:34:30 2019-01-04 15:01:52 RF02413 snoR145 1264 Small nucleolar RNA snoR145 Eberhardt R Predicted 57.00 60.10 52.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 19 91 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; mfold 72 0 \N 0.48327 -9.02350 1600000 300813 256 147 1 -3.13200 0.71818 2013-10-04 03:34:31 2019-01-04 15:01:52 RF02414 rli60 1267 Listeria sRNA rli60 Osuch I, Eberhardt R INFERNAL 60.00 66.90 56.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 23 0 0 Gene; sRNA; Predicted;RNAalifold 31 0 \N 0.45324 -7.41873 1600000 375056 514 191 1 -3.10310 0.71316 2013-10-04 03:34:33 2019-01-04 15:01:52 RF02415 rliG 1267 Listeria sRNA rliG Osuch I, Eberhardt R Predicted; ClustalW 55.00 55.60 54.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.42 -Z 549862.597050 CM SEQDB 5 8 0 0 Gene; sRNA; Predicted; RNAalifold 13 0 \N 0.56481 -9.68397 1600000 382973 436 267 1 -3.28570 0.70739 2013-10-04 03:34:34 2019-01-04 15:01:52 RF02416 TCV_H4 2339 Turnip crinkle virus 3'UTR Eberhardt R Eberhardt R 50.00 57.10 36.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Cis-reg; Published; PMID:19656866 2 0 \N 0.56934 -5.27275 1600000 376946 134 51 1 -2.83420 0.73778 2013-10-04 03:34:36 2019-01-04 15:01:52 RF02417 VR-RNA 2340 VR-RNA Eberhardt R Eberhardt R 100.00 396.20 46.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; mfold 4 0 \N 0.59255 -8.87429 1600000 418960 570 397 1 -4.03690 0.70277 2013-10-04 03:34:37 2019-01-04 15:01:52 RF02418 Spd-sr07 2341 Streptococcus sRNA Spd-sr07 Eberhardt R Predicted; WAR 55.00 61.60 42.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 3 0 0 Gene; sRNA; Predicted; WAR 6 0 \N 0.46614 -8.91192 1600000 375413 149 63 1 -3.36490 0.71913 2013-10-04 03:34:39 2019-01-04 15:01:52 RF02419 Spd-sr37 2341 Streptococcus sRNA Spd-sr37 Eberhardt R Predicted; WAR 45.00 46.30 36.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 25 44 0 0 Gene; sRNA; Predicted; WAR 66 0 \N 0.50578 -8.36537 1600000 357351 148 67 1 -3.72840 0.71905 2013-10-04 03:34:41 2019-01-04 15:01:52 RF02420 Bp1_162 1236 Burkholderia sRNA Bp1_Cand612_SIPHT Eberhardt R Predicted; ClustalW 50.00 50.30 36.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 11 54 0 0 Gene; sRNA; Predicted; RNAalifold 59 0 \N 0.53758 -6.07281 1600000 328963 199 100 1 -3.39060 0.71852 2013-10-04 03:34:43 2019-01-04 15:01:52 RF02421 Bp1_684 1236 Burkholderia sRNA Bp1_Cand684_SIPHT Eberhardt R Predicted; ClustalW 44.00 44.30 43.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 158 0 0 Gene; sRNA; Predicted; RNAalifold 40 0 \N 0.61710 -7.71076 1600000 419419 217 113 1 -2.68890 0.71839 2013-10-04 03:34:44 2019-01-04 15:01:52 RF02422 Bp1_738 1236 Burkholderia sRNA Bp1_Cand738_SIPHT Eberhardt R Predicted; ClustalW 45.00 47.10 35.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 21 54 0 0 Gene; sRNA; Predicted; RNAalifold 66 0 \N 0.55749 -10.09354 1600000 448284 333 208 1 -3.31300 0.71153 2013-10-04 03:34:46 2019-01-04 15:01:52 RF02423 Bp1_781 2451 Burkholderia sRNA Bp1_Cand871_SIPHT Eberhardt R Predicted; CMfinder 80.00 170.40 34.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 15 59 0 0 Gene; sRNA; Predicted; CMfinder 67 0 \N 0.65675 -9.27574 1600000 371483 360 230 1 -3.46250 0.70989 2013-10-04 03:34:47 2019-01-10 15:16:02 RF02424 Bp2_287 1236 Burkholderia sRNA Bp2_Cand287_SIPHT Eberhardt R Predicted; ClustalW 70.00 146.30 51.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 39 0 0 Gene; sRNA; Predicted; RNAalifold 47 0 \N 0.59735 -9.41224 1600000 351056 348 174 1 -3.18610 0.71532 2013-10-04 03:34:49 2019-01-04 15:01:52 RF02425 SpF01_sRNA 2341 Streptococcus sRNA SpF01 Eberhardt R Eberhardt R 55.00 57.10 51.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 7 0 0 Gene; sRNA; Predicted; mfold 19 0 \N 0.47957 -5.30137 1600000 295283 167 80 1 -3.66770 0.71882 2013-10-04 03:34:51 2019-01-04 15:01:52 RF02426 SpF03_sRNA 2341 Streptococcus sRNA SpF03 Eberhardt R Eberhardt R 50.00 71.40 39.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 6 0 0 Gene; sRNA; Predicted; mfold 7 0 \N 0.51103 -4.53427 1600000 242695 210 106 1 -3.23460 0.71852 2013-10-04 03:34:52 2019-01-04 15:01:52 RF02427 SpF10_sRNA 2341 Streptococcus sRNA SpF10 Eberhardt R Eberhardt R 60.00 81.40 38.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 4 0 0 Gene; sRNA; Predicted; mfold 6 0 \N 0.61589 -3.88945 1600000 290614 142 57 1 -2.85140 0.72790 2013-10-04 03:34:54 2019-01-04 15:01:52 RF02428 SpF11_sRNA 2341 Streptococcus sRNA SpF11 Eberhardt R Eberhardt R 54.00 54.00 52.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 4 0 0 Gene; sRNA; Predicted; mfold 7 0 \N 0.50442 -5.63305 1600000 265086 194 95 1 -3.20820 0.71857 2013-10-04 03:34:55 2019-01-04 15:01:52 RF02429 SpF14_sRNA 2341 Streptococcus sRNA SpF14 Eberhardt R Eberhardt R 100.00 107.80 37.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 3 0 0 Gene; sRNA; Predicted; mfold 7 0 \N 0.53724 -3.16859 1600000 241652 226 120 1 -3.01380 0.71834 2013-10-04 03:34:57 2019-01-04 15:01:52 RF02430 SpF19_sRNA 2341 Streptococcus sRNA SpF19 Eberhardt R Eberhardt R 60.00 89.10 53.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 4 0 0 Gene; sRNA; Predicted; mfold 7 0 \N 0.61507 -2.29815 1600000 197360 197 99 1 -3.14200 0.71873 2013-10-04 03:34:58 2019-01-04 15:01:52 RF02431 SpF22_sRNA 2341 Streptococcus sRNA SpF22 Eberhardt R Eberhardt R 55.00 59.60 43.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 22 9 0 0 Gene; sRNA; Predicted; mfold 29 0 \N 0.55712 -8.02332 1600000 322375 338 140 1 -3.04570 0.71813 2013-10-04 03:35:00 2019-01-04 15:01:52 RF02432 SpF25_sRNA 2341 Streptococcus sRNA SpF25 Eberhardt R Eberhardt R 48.00 48.90 43.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 15 0 0 Gene; sRNA; Predicted; mfold 27 0 \N 0.50569 -6.69313 1600000 241555 197 102 1 -3.02990 0.71859 2013-10-04 03:35:02 2019-01-04 15:01:52 RF02433 SpF36_sRNA 2341 Streptococcus sRNA SpF36 Eberhardt R Eberhardt R 45.00 46.60 44.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 5 0 0 Gene; sRNA; Predicted; mfold 9 0 \N 0.52413 -3.64452 1600000 326190 128 51 1 -3.87590 0.71954 2013-10-04 03:35:03 2019-01-04 15:01:52 RF02434 SpF39_sRNA 2341 Streptococcus sRNA SpF39 Eberhardt R Eberhardt R 60.00 64.50 53.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 13 0 0 Gene; sRNA; Predicted; mfold 22 0 \N 0.45116 -6.06342 1600000 305065 250 109 1 -2.84690 0.71843 2013-10-04 03:35:05 2019-01-04 15:01:52 RF02435 SpF41_sRNA 2341 Streptococcus sRNA SpF41 Eberhardt R Eberhardt R 52.00 53.60 50.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 9 0 0 Gene; sRNA; Predicted; mfold 15 0 \N 0.49509 -6.98277 1600000 296809 201 105 1 -3.62920 0.71851 2013-10-04 03:35:07 2019-01-04 15:01:52 RF02436 SpF43_sRNA 2341 Streptococcus sRNA SpF43 Eberhardt R Eberhardt R 70.00 76.40 54.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 11 0 0 Gene; sRNA; Predicted; mfold 16 0 \N 0.65160 -2.24043 1600000 153308 197 99 1 -3.25990 0.71869 2013-10-04 03:35:09 2019-01-04 15:01:52 RF02437 SpF44_sRNA 2341 Streptococcus sRNA SpF44 Eberhardt R Eberhardt R 70.00 85.20 45.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 12 8 0 0 Gene; sRNA; Predicted; mfold 19 0 \N 0.53057 -7.36847 1600000 311636 200 102 1 -2.52660 0.71856 2013-10-04 03:35:11 2019-01-04 15:01:52 RF02438 SpF51_sRNA 2341 Streptococcus sRNA SpF51 Eberhardt R Eberhardt R 50.00 51.20 37.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 8 0 0 Gene; sRNA; Predicted; mfold 14 0 \N 0.55490 -7.66751 1600000 627805 118 45 1 -3.52360 0.71955 2013-10-04 03:35:13 2019-01-04 15:01:52 RF02439 SpF56_sRNA 2341 Streptococcus sRNA SpF56 Eberhardt R Eberhardt R 80.00 107.30 37.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; mfold 3 0 \N 0.54432 -3.95339 1600000 242474 201 99 1 -2.85050 0.71862 2013-10-04 03:35:14 2019-01-04 15:01:52 RF02440 SpF59_sRNA 2341 Streptococcus sRNA SpF59 (ldcC RNA) Eberhardt R Eberhardt R 37.20 37.20 36.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.01 -Z 742849.287494 --mxsize 128 CM SEQDB 410 140 0 0 Gene; sRNA; Predicted; mfold 194 0 \N 0.53524 -9.06415 1600000 523518 188 57 1 -3.66460 0.71908 2013-10-04 03:35:16 2019-01-21 11:11:38 RF02441 SpF61_sRNA 2341 Streptococcus sRNA SpF61 Eberhardt R Eberhardt R 60.00 82.10 49.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 4 0 0 Gene; sRNA; Predicted; mfold 7 0 \N 0.60137 -2.74399 1600000 461639 140 58 1 -3.63530 0.71964 2013-10-04 03:35:17 2019-01-04 15:01:52 RF02442 SpF66_sRNA 2341 Streptococcus sRNA SpF66 Eberhardt R Eberhardt R 42.00 42.10 41.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 45 0 0 Gene; sRNA; Predicted; mfold 43 0 \N 0.63072 -8.49896 1600000 319331 375 239 1 -3.84140 0.70924 2013-10-04 03:35:19 2019-01-04 15:01:52 RF02443 SpR08_sRNA 2341 Streptococcus sRNA SpR08 Eberhardt R Eberhardt R 80.00 104.40 39.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; sRNA; Predicted; mfold 5 0 \N 0.54960 -6.22524 1600000 475842 164 73 1 -3.37880 0.71891 2013-10-04 03:35:21 2019-01-04 15:01:52 RF02444 SpR10_sRNA 2341 Streptococcus sRNA SpR10 Eberhardt R Eberhardt R 50.00 66.30 35.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 4 0 0 Gene; sRNA; Predicted; mfold 9 0 \N 0.68982 -4.43871 1600000 453338 122 47 1 -3.77130 0.71950 2013-10-04 03:35:22 2019-01-04 15:01:52 RF02445 SpR14_sRNA 2341 Streptococcus sRNA SpR14 Eberhardt R Eberhardt R 50.00 80.70 44.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 3 0 0 Gene; sRNA; Predicted; mfold 8 0 \N 0.50173 -3.80228 1600000 226558 171 80 1 -3.24640 0.71883 2013-10-04 03:35:24 2019-01-04 15:01:52 RF02446 SpR18_sRNA 2341 Streptococcus sRNA SpR18 Eberhardt R Eberhardt R 60.00 63.30 51.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 23 75 0 0 Gene; sRNA; Predicted; mfold 51 0 \N 0.47298 -6.00886 1600000 301307 237 132 1 -2.71940 0.71812 2013-10-04 03:35:26 2019-01-04 15:01:52 RF02447 SpR19_sRNA 2341 Streptococcus sRNA SpR19 Eberhardt R Eberhardt R 79.00 79.10 77.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.53 -Z 549862.597050 CM SEQDB 23 23 0 0 Gene; sRNA; Predicted; mfold 43 0 \N 0.52430 -7.65969 1600000 299550 369 123 1 -2.53990 0.71832 2013-10-04 03:35:28 2019-01-04 15:01:52 RF02448 SpR20_sRNA 2341 Streptococcus sRNA SpR20 Eberhardt R Eberhardt R 45.00 47.70 38.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 7 3 0 0 Gene; sRNA; Predicted; mfold 10 0 \N 0.61734 -6.96467 1600000 460366 118 45 1 -3.97150 0.71957 2013-10-04 03:35:29 2019-01-04 15:01:52 RF02449 ncr1015 1236 Bacillus sRNA ncr1015 Eberhardt R Eberhardt R 60.00 67.90 51.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.56 -Z 549862.597050 CM SEQDB 16 48 0 0 Gene; sRNA; Published; PMID:20525796 56 0 \N 0.46887 -7.01132 1600000 333143 224 121 1 -3.18480 0.71837 2013-10-04 03:35:31 2019-01-04 15:01:52 RF02450 ncr1175 1236 Bacillus sRNA ncr1175 Eberhardt R Eberhardt R 60.00 61.40 48.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 4 0 0 Gene; sRNA; Published; PMID:20525796 7 0 \N 0.51811 -7.97040 1600000 273666 224 110 1 -3.34540 0.71849 2013-10-04 03:35:33 2019-01-04 15:01:52 RF02451 ncr1241 1236 Bacillus sRNA ncr1241 Eberhardt R Eberhardt R 60.00 64.70 39.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 16 0 0 Gene; sRNA; Published; PMID:20525796 20 0 \N 0.49979 -8.39982 1600000 395094 140 63 1 -3.78720 0.71922 2013-10-04 03:35:35 2019-01-04 15:01:52 RF02452 ncr1575 1236 Bacillus sRNA ncr1575 Eberhardt R Eberhardt R 60.00 69.70 50.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 29 79 0 0 Gene; sRNA; Published; PMID:20525796 95 0 \N 0.47683 -7.50622 1600000 327930 340 215 1 -3.12520 0.71098 2013-10-04 03:35:36 2019-01-04 15:01:52 RF02453 ncr952 1236 Bacillus sRNA ncr952 Eberhardt R Eberhardt R 100.00 140.30 37.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 1 0 0 Gene; sRNA; Published; PMID:20525796 6 0 \N 0.61067 -8.14730 1600000 369104 258 143 1 -2.94740 0.71805 2013-10-04 03:35:38 2019-01-04 15:01:52 RF02454 ncr982 1236 Bacillus sRNA ncr982 Eberhardt R Eberhardt R 50.00 53.30 37.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 6 0 0 Gene; sRNA; Published; PMID:20525796 11 0 \N 0.49019 -5.58302 1600000 252942 167 79 1 -3.36290 0.71884 2013-10-04 03:35:40 2019-01-04 15:01:52 RF02455 Virus_CITE_1 2342 Dianthovirus RNA2 cap-independent translation element Eberhardt R Eberhardt R 80.00 111.40 32.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 0 0 0 Cis-reg; Predicted; PMID:20561661 2 0 \N 0.60738 -4.86360 1600000 233137 191 93 1 -3.40810 0.71866 2013-10-04 03:35:42 2019-01-04 15:01:52 RF02456 Diantho_3_UTR 2073 Dianthovirus RNA2 3'UTR stem loops Eberhardt R Eberhardt R 100.00 205.00 33.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 0 0 0 Cis-reg; Predicted; PMID:20561661 2 0 \N 0.61482 -10.19857 1600000 507798 337 205 1 -3.16520 0.71179 2013-10-04 03:35:43 2019-01-04 15:01:52 RF02457 Virus_CITE_2 2342 Tombusvirus 3' cap-independent translation element Eberhardt R Eberhardt R 100.00 116.70 29.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 1 0 0 Cis-reg; Predicted; PMID:23192876 9 0 \N 0.62969 -6.09660 1600000 247784 284 167 1 -3.30330 0.71614 2013-10-04 03:35:45 2019-01-04 15:01:52 RF02458 Virus_CITE_3 2342 Aureusvirus cap-independent translation element Eberhardt R Eberhardt R 100.00 117.30 34.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 3 0 0 Cis-reg; Predicted; PMID:23192876 4 0 \N 0.66250 -4.16775 1600000 231137 228 122 1 -3.25080 0.71831 2013-10-04 03:35:47 2019-01-04 15:01:52 RF02459 Virus_CITE_4 2342 Necrovirus cap-independent translation element Eberhardt R Eberhardt R 40.00 44.50 34.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 6 0 0 Cis-reg; Predicted; PMID:23192876 7 0 \N 0.63947 -3.41665 1600000 211753 174 85 1 -3.47010 0.71886 2013-10-04 03:35:48 2019-01-04 15:01:52 RF02460 Virus_CITE_5 2342 Satellite tobacco necrosis virus cap-independent translation element Eberhardt R Eberhardt R 90.00 108.30 37.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 0 0 0 Cis-reg; Predicted; PMID:18031280 1 0 \N 0.63999 -2.84367 1600000 202855 192 94 1 -3.09610 0.71877 2013-10-04 03:35:50 2019-01-04 15:01:52 RF02461 Virus_CITE_6 2342 Blackcurrant reversion virus cap-independent translation element Eberhardt R Eberhardt R 41.00 41.50 37.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.47 -Z 549862.597050 CM SEQDB 3 0 0 0 Cis-reg; Predicted; PMID:18031280 1 0 \N 0.53370 -8.16635 1600000 310877 220 115 1 -3.39680 0.71855 2013-10-04 03:35:51 2019-01-04 15:01:52 RF02462 Telomerase_Asco 2265 Ascomycota telomerase RNA Eberhardt R Eberhardt R 30.00 31.30 29.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 186 0 0 Gene; Predicted; PMID:23093598 181 0 \N 0.70977 -11.59524 1600000 496782 2352 1859 1 -6.61000 0.69520 2013-10-04 03:35:53 2021-07-05 13:43:57 RF02463 Ms_AS-1 1236 Mycobacterium sRNA Ms_AS-1 Eberhardt R Eberhardt R 37.00 37.00 35.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 104 0 0 Gene; sRNA; Predicted; PMID:23169799 98 0 \N 0.54450 -8.85093 1600000 329509 195 98 1 -3.45200 0.71852 2013-10-04 03:35:55 2019-01-04 15:01:52 RF02464 Ms_AS-4 1236 Actinobacteria sRNA Ms_AS-4 Eberhardt R Eberhardt R 50.00 51.00 48.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 91 0 0 Gene; sRNA; Predicted; PMID:23169799 57 0 \N 0.45695 -10.38708 1600000 347965 170 82 1 -3.30050 0.71877 2013-10-04 03:35:57 2019-01-04 15:01:52 RF02465 Ms_AS-5 1236 Mycobacterium sRNA Ms_AS-5 Eberhardt R Eberhardt R 46.00 46.30 45.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 72 0 0 Gene; sRNA; Predicted; PMID:23169799 76 0 \N 0.53740 -8.61729 1600000 497935 116 45 1 -3.67330 0.71946 2013-10-04 03:35:59 2019-01-04 15:01:52 RF02466 Ms_AS-8 1236 Actinobacteria sRNA Ms_AS-8 Eberhardt R Eberhardt R 48.00 49.40 43.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 91 0 0 Gene; sRNA; Predicted; PMID:23169799 48 0 \N 0.58245 -6.58251 1600000 257803 159 74 1 -3.48190 0.71901 2013-10-04 03:36:00 2019-01-04 15:01:52 RF02467 Ms_IGR-2 1236 Mycobacterium sRNA Ms_IGR-2 Eberhardt R Eberhardt R 45.00 55.30 32.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 32 0 0 Gene; sRNA; Predicted; PMID:23169799 34 0 \N 0.62587 -6.76302 1600000 312622 175 82 1 -3.35310 0.71862 2013-10-04 03:36:02 2019-01-04 15:01:52 RF02468 Ms_IGR-4 1236 Mycobacterium sRNA Ms_IGR-4 Eberhardt R Eberhardt R 55.00 61.00 37.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 6 0 0 Gene; sRNA; Predicted; PMID:23169799 7 0 \N 0.57836 -4.94968 1600000 359898 116 38 1 -2.43040 0.74547 2013-10-04 03:36:04 2019-01-04 15:01:52 RF02469 Ms_IGR-7 1236 Actinobacteria sRNA Ms_IGR-7 Eberhardt R Eberhardt R 45.00 45.40 44.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 236 0 0 Gene; sRNA; Predicted; PMID:23169799 111 0 \N 0.57934 -7.37686 1600000 312103 215 118 1 -3.51380 0.71846 2013-10-04 03:36:06 2019-01-04 15:01:52 RF02470 Ms_IGR-8 1236 Mycobacterium sRNA Ms_IGR-8 Eberhardt R Eberhardt R 44.00 44.00 43.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 39 0 0 Gene; sRNA; Predicted; PMID:23169799 17 0 \N 0.59226 -7.47749 1600000 241057 147 63 1 -3.26100 0.72782 2013-10-04 03:36:07 2019-01-04 15:01:52 RF02471 Ms_IGR-5 1236 Actinobacteria sRNA Ms_IGR-5 Eberhardt R Eberhardt R 45.00 45.10 40.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 21 543 0 0 Gene; sRNA; Predicted; PMID:23169799 552 0 \N 0.59086 -9.86186 1600000 358519 444 184 1 -3.21620 0.71403 2013-10-04 03:36:09 2019-01-04 15:01:52 RF02472 Gl_RNase_MRP 1327 Giardia RNase MRP Eberhardt R, Nawrocki EP Published; PMID: 22053856 60.00 239.50 47.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.52 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; ribozyme; Published; PMID: 22053856 2 0 \N 0.64461 -7.95677 1600000 316041 320 189 1 -3.11790 0.71354 2013-10-04 03:36:11 2021-06-14 14:02:31 RF02473 GlsR4 1264 Small nucleolar RNA GlsR4 Eberhardt R Predicted 70.00 76.10 36.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.55 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR 3 0 \N 0.54177 -8.48379 1600000 295667 145 61 0 -2.80400 0.72765 2013-10-04 03:36:13 2019-01-04 15:01:52 RF02474 GlsR5 1264 Small nucleolar RNA GlsR5 Eberhardt R Predicted 100.00 114.10 31.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.23 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR 3 0 \N 0.60713 -8.28784 1600000 324914 184 89 0 -3.49190 0.71844 2013-10-04 03:36:15 2019-01-04 15:01:52 RF02475 GlsR6 1264 Small nucleolar RNA GlsR6 Eberhardt R Predicted 75.00 87.90 34.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.97 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR 4 0 \N 0.61502 -9.07931 1600000 570178 139 59 0 -3.86350 0.71896 2013-10-04 03:36:17 2019-01-04 15:01:52 RF02476 GlsR7 1264 Small nucleolar RNA GlsR7 Eberhardt R Predicted 75.00 88.90 33.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.15 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR 4 0 \N 0.73465 -3.34316 1600000 395247 141 59 1 -3.21660 0.71904 2013-10-04 03:36:18 2019-01-04 15:01:52 RF02477 GlsR9 1264 Small nucleolar RNA GlsR9 Eberhardt R Predicted 95.00 107.70 33.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.10 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR 3 0 \N 0.69923 -2.70430 1600000 199951 172 79 1 -3.42610 0.71943 2013-10-04 03:36:20 2019-01-04 15:01:52 RF02478 GlsR10 1264 Small nucleolar RNA GlsR10 Eberhardt R Predicted 75.00 86.30 33.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.93 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR 3 0 \N 0.68209 -2.88114 1600000 254030 157 68 1 -3.58460 0.72232 2013-10-04 03:36:22 2019-01-04 15:01:52 RF02479 GlsR13 1264 Small nucleolar RNA GlsR13 Eberhardt R Predicted 100.00 128.50 32.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.82 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR 4 0 \N 0.56103 -9.16493 1600000 316175 198 100 0 -3.36730 0.71826 2013-10-04 03:36:24 2019-01-04 15:01:52 RF02480 GlsR14 1264 Small nucleolar RNA GlsR14 Eberhardt R Predicted 90.00 99.70 34.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.64 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; WAR 4 0 \N 0.63497 -8.23872 1600000 503884 152 68 0 -3.66370 0.71878 2013-10-04 03:36:25 2019-01-04 15:01:52 RF02481 GlsR18 1264 Small nucleolar RNA GlsR18 Eberhardt R Predicted 100.00 126.90 31.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR 4 0 \N 0.64319 -5.37622 1600000 232454 265 147 1 -3.04290 0.71821 2013-10-04 03:36:27 2019-01-04 15:01:52 RF02482 GlsR19 1264 Small nucleolar RNA GlsR19 Eberhardt R Predicted 100.00 180.40 30.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR 4 0 \N 0.62274 -8.51048 1600000 393015 269 150 1 -3.16060 0.71793 2013-10-04 03:36:29 2019-01-04 15:01:52 RF02483 GlsR20 1264 Small nucleolar RNA GlsR20 Eberhardt R Predicted 100.00 128.20 31.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR 4 0 \N 0.63231 -5.37538 1600000 252442 211 107 1 -3.30490 0.71850 2013-10-04 03:36:30 2019-01-04 15:01:52 RF02484 GlsR21 1264 Small nucleolar RNA GlsR21 Eberhardt R Predicted 100.00 119.40 35.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR 4 0 \N 0.56396 -6.76528 1600000 269443 217 112 1 -3.17230 0.71843 2013-10-04 03:36:32 2019-01-04 15:01:52 RF02485 GlsR22 1264 Small nucleolar RNA GlsR22 Eberhardt R Predicted 100.00 179.00 37.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR 4 0 \N 0.57640 -5.65995 1600000 264223 269 150 1 -3.14670 0.71806 2013-10-04 03:36:34 2019-01-04 15:01:52 RF02486 GlsR23 1264 Small nucleolar RNA GlsR23 Eberhardt R Predicted 100.00 121.40 38.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR 3 0 \N 0.59935 -7.16214 1600000 317504 268 149 1 -2.99490 0.71792 2013-10-04 03:36:35 2019-01-04 15:01:52 RF02487 GlsR24 1264 Small nucleolar RNA GlsR24 Eberhardt R Predicted 100.00 135.10 37.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 3 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR 4 0 \N 0.67761 -6.78130 1600000 269389 269 147 1 -2.60210 0.71825 2013-10-04 03:36:37 2019-01-04 15:01:52 RF02488 GlsR25 1264 Small nucleolar RNA GlsR25 Eberhardt R Predicted 100.00 143.80 33.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR 4 0 \N 0.55086 -8.13368 1600000 333136 264 146 1 -2.93160 0.71797 2013-10-04 03:36:38 2019-01-04 15:01:52 RF02489 GlsR26 1264 Small nucleolar RNA GlsR26 Eberhardt R Predicted 100.00 125.80 31.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR 4 0 \N 0.53616 -8.54066 1600000 277318 219 114 1 -3.15830 0.71851 2013-10-04 03:36:40 2019-01-04 15:01:52 RF02490 GlsR27 1264 Small nucleolar RNA GlsR27 Eberhardt R Predicted 100.00 139.00 34.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; WAR 3 0 \N 0.57074 -7.90855 1600000 290093 220 113 1 -2.89530 0.71847 2013-10-04 03:36:42 2019-01-04 15:01:52 RF02491 Gl_U1 1304 Giardia U1 spliceosomal RNA Eberhardt R Eberhardt R 100.00 141.60 32.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; splicing; Predicted; PMID:23019220 3 0 \N 0.73991 -3.42785 1600000 208226 230 121 1 -3.01340 0.71846 2013-10-04 03:36:43 2019-01-04 15:01:52 RF02492 Gl_U2 1305 Giardia U2 spliceosomal RNA Eberhardt R Eberhardt R 100.00 172.00 30.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; splicing; Predicted; PMID:23019220 3 0 \N 0.61369 -8.22899 1600000 323665 252 136 1 -3.12560 0.71807 2013-10-04 03:36:45 2019-01-04 15:01:52 RF02493 Gl_U4 1314 Giardia U4 spliceosomal RNA Eberhardt R Eberhardt R 100.00 126.20 34.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; splicing; Predicted; PMID:23019220 3 0 \N 0.59992 -5.56530 1600000 250162 195 95 1 -3.12760 0.71846 2013-10-04 03:36:47 2019-01-04 15:01:52 RF02494 Gl_U6 1323 Giardia U6 spliceosomal RNA Eberhardt R Eberhardt R 100.00 133.40 33.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; snRNA; splicing; Predicted; PMID:23019220 3 0 \N 0.58910 -7.38354 1600000 345311 205 102 1 -3.33370 0.71854 2013-10-04 03:36:48 2019-01-04 15:01:52 RF02495 ohsC_RNA 2266 Oppression of Hydrophobic ORF by sRNA Gardner P Gardner P 50.00 51.60 45.10 \N RyfC cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 34 3 0 0 Gene; antitoxin; Published; PMID:19052321 37 0 \N 0.48435 -7.87897 1600000 404841 163 77 1 -3.25950 0.71906 2013-10-04 03:36:50 2019-01-04 15:01:52 RF02496 Atu_At1 1236 Rhizobiales sRNA Atu_At1 Eberhardt R Predicted; CMfinder 60.00 70.40 55.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 33 135 0 0 Gene; sRNA; Predicted; CMfinder 126 0 \N 0.49566 -7.02632 1600000 238773 198 108 1 -3.71460 0.71844 2013-10-04 03:36:52 2019-01-04 15:01:52 RF02497 Atu_C10 1236 Rhizobiales sRNA Atu_C10 Eberhardt R Predicted; CMfinder 60.00 120.00 42.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 4 0 0 Gene; sRNA; Predicted; CMfinder 5 0 \N 0.56911 -6.80236 1600000 258841 187 89 1 -3.29270 0.71874 2013-10-04 03:36:54 2019-01-04 15:01:52 RF02498 Atu_C3 1236 Rhizobiales sRNA Atu_C3 Eberhardt R Predicted; CMfinder 100.00 169.40 41.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; sRNA; Predicted; CMfinder 3 0 \N 0.57241 -9.55830 1600000 375926 278 156 1 -3.03750 0.71798 2013-10-04 03:36:56 2019-01-04 15:01:52 RF02499 Atu_C4 1236 Rhizobiales sRNA Atu_C4 Eberhardt R Predicted; CMfinder 80.00 99.90 36.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 2 0 0 Gene; sRNA; Predicted; CMfinder 3 0 \N 0.55640 -8.42862 1600000 525067 160 70 1 -3.12630 0.72196 2013-10-04 03:36:57 2019-01-04 15:01:52 RF02500 Atu_C6 2556 EcpR1 Eberhardt R Predicted; WAR 60.00 60.70 57.70 Perviously named SmelC291, SmrC10, or Sra33.[3][4][5] According to its overproduction phenotype it was renamed Elongated Cell Phenotype RNA1.[2] Induced by stress,EcpR1 negatively regulates cell cycle master regulatory genes dnaA and gcrA at post-transcriptional level by base pairing between its strongly conserved GC-rich loop and the target mRNAs. It's regulation is hfq-independent but requires RNase E to regulate dnaA.[2] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 32 166 0 0 Gene; sRNA; Predicted; WAR 191 0 \N 0.42634 -11.10934 1600000 309026 225 113 1 -3.49440 0.71852 2013-10-04 03:36:59 2021-12-03 12:41:14 RF02501 Atu_C7 1236 Rhizobiales sRNA Atu_C7 Eberhardt R Predicted; WAR 45.00 50.80 33.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 47 0 0 Gene; sRNA; Predicted; WAR 49 0 \N 0.60879 -9.97264 1600000 465600 279 157 1 -2.92550 0.71741 2013-10-04 03:37:01 2019-01-04 15:01:52 RF02502 Atu_C8 1236 Rhizobiales sRNA Atu_C8 Eberhardt R Predicted; CMfinder 50.00 54.40 48.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 27 167 0 0 Gene; sRNA; Predicted; CMfinder 158 0 \N 0.62758 -3.92433 1600000 223409 223 122 1 -3.44390 0.71852 2013-10-04 03:37:02 2019-01-04 15:01:52 RF02503 Atu_C9 1236 Rhizobiales sRNA Atu_C9 Eberhardt R Predicted; WAR 40.00 41.30 36.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 9 66 0 0 Gene; sRNA; Predicted; WAR 71 0 \N 0.65429 -10.19448 1600000 484483 318 192 1 -3.30180 0.71295 2013-10-04 03:37:04 2019-01-04 15:01:52 RF02504 Atu_L1 1236 Rhizobiales sRNA Atu_L1 Eberhardt R Predicted; CMfinder 60.00 70.50 35.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 11 0 0 Gene; sRNA; Predicted; CMfinder 13 0 \N 0.62488 -8.13690 1600000 315905 300 174 1 -3.18590 0.71508 2013-10-04 03:37:06 2019-01-04 15:01:52 RF02505 Atu_L6 1236 Rhizobiales sRNA Atu_L6 Eberhardt R Predicted; WAR 100.00 122.50 39.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 3 0 0 Gene; sRNA; Predicted; WAR 4 0 \N 0.60897 -7.85171 1600000 292571 233 124 1 -3.04770 0.71842 2013-10-04 03:37:08 2019-01-04 15:01:52 RF02506 Atu_Ti1 1236 Rhizobiales sRNA Atu_Ti1 Eberhardt R Predicted; WAR 55.00 60.10 41.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 14 45 0 0 Gene; sRNA; Predicted; WAR 41 0 \N 0.45181 -10.29561 1600000 320719 182 92 1 -2.98510 0.71874 2013-10-04 03:37:10 2019-01-04 15:01:52 RF02507 Atu_Ti3 1236 Rhizobiales sRNA Atu_Ti3 Eberhardt R Predicted; WAR 50.00 51.30 43.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 4 12 0 0 Gene; sRNA; Predicted; WAR 14 0 \N 0.67559 -3.16128 1600000 231514 183 89 1 -3.69340 0.71851 2013-10-04 03:37:12 2019-01-04 15:01:52 RF02508 Atu_Ti4 1236 Rhizobiales sRNA Atu_Ti4 Eberhardt R Predicted; WAR 40.00 42.50 37.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; WAR 3 0 \N 0.62269 -4.71436 1600000 232144 211 107 1 -3.34520 0.71835 2013-10-04 03:37:13 2019-01-04 15:01:52 RF02509 PYLIS_2 2246 Pyrrolysine insertion sequence mtbB Eberhardt R Predicted; WAR 36.00 39.30 31.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 23 70 0 0 Cis-reg; Predicted; WAR 47 0 \N 0.67654 -5.09762 1600000 251102 194 100 1 -3.43810 0.71850 2013-10-04 03:37:15 2019-01-04 15:01:52 RF02510 PYLIS_3 2246 Pyrrolysine insertion sequence mttB Eberhardt R Predicted; CMfinder 38.00 38.00 37.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 23 367 0 0 Cis-reg; Predicted; CMfinder 262 0 \N 0.57183 -9.07526 1600000 394844 188 100 1 -3.42820 0.71831 2013-10-04 03:37:17 2019-01-04 15:01:52 RF02511 PYLIS_4 2246 Pyrrolysine insertion sequence TetR Eberhardt R Predicted; WAR 50.00 56.10 38.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 3 0 0 Cis-reg; Predicted; WAR 2 0 \N 0.54419 -4.46025 1600000 260890 201 100 1 -2.87480 0.71839 2013-10-04 03:37:19 2019-01-04 15:01:52 RF02512 PYLIS_5 2246 Pyrrolysine insertion sequence transposase 1 Eberhardt R Predicted; WAR 60.00 78.50 40.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 17 17 0 0 Cis-reg; Predicted; WAR 3 0 \N 0.50043 -7.35393 1600000 280751 201 100 1 -3.42970 0.71847 2013-10-04 03:37:21 2019-01-04 15:01:52 RF02513 PYLIS_6 2246 Pyrrolysine insertion sequence transposase 2 Eberhardt R Predicted; WAR 80.00 136.50 42.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 4 0 0 Cis-reg; Predicted; WAR 2 0 \N 0.53774 -4.64359 1600000 278121 202 100 1 -3.04710 0.71848 2013-10-04 03:37:23 2019-01-04 15:01:52 RF02514 5_ureB_sRNA 2343 5' ureB small RNA Eberhardt R Eberhardt R 40.00 40.00 39.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 2642 0 0 Gene; sRNA; Predicted; mfold; 2457 0 \N 0.69232 -8.35712 1600000 368631 434 292 1 -4.08830 0.70632 2013-10-04 03:37:25 2019-01-04 15:01:52 RF02515 AfaR 2344 AfaR small RNA Eberhardt R Published; PMID:23563153 100.00 295.60 58.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 0 0 0 Gene; sRNA; Predicted; PMID:23563153 2 0 \N 0.49936 -10.18895 1600000 434508 375 234 1 -3.82550 0.70948 2013-10-04 03:37:30 2019-01-04 15:01:52 RF02516 mir-393 1287 mir-393 microRNA precursor family Eberhardt R miRBase 60.00 60.00 59.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 27 362 0 0 Gene; miRNA; Predicted; miRBase 75 0 \N 0.64362 -4.28519 1600000 204066 240 129 1 -2.93980 0.71855 2013-10-04 03:37:32 2022-10-29 16:55:16 RF02517 mir-1017 1287 mir-1017 microRNA precursor family Eberhardt R miRBase 50.00 54.30 38.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 11 0 0 Gene; miRNA; Predicted; miRBase 15 0 \N 0.62202 -4.47104 1600000 254456 261 71 1 -3.35080 0.71904 2013-10-04 03:37:34 2022-10-29 16:55:16 RF02518 mir-2494 1287 mir-2494 microRNA precursor family Eberhardt R miRBase 50.00 50.40 45.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 5 0 0 Gene; miRNA; Predicted; miRBase 13 0 \N 0.57805 -4.67076 1600000 216770 221 117 1 -3.27760 0.71845 2013-10-04 03:37:36 2022-10-29 16:42:07 RF02519 ToxI 2266 ToxI antitoxin Eberhardt R Published; PMID:23267117 50.00 54.70 35.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 2 0 0 Gene; antitoxin; Published; PMID:23267117 7 0 \N 0.52336 -9.54935 1600000 792362 103 34 1 -3.63940 0.72867 2013-10-04 03:37:38 2022-10-29 16:55:17 RF02520 mir-965 1287 mir-965 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 43.00 43.10 42.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 16 87 0 0 Gene; miRNA; Predicted; RNAalifold 83 0 \N 0.62754 -3.62300 1600000 183454 156 77 1 -3.98700 0.71898 2013-10-04 03:37:40 2022-10-29 16:42:07 RF02521 Virus_CITE_7 2342 Pea enation mosaic virus-2 cap-independent translation element Eberhardt R Eberhardt R 80.00 105.80 33.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Cis-reg; Predicted; PMID:23682606 1 0 \N 0.67588 -2.43800 1600000 205966 180 85 1 -3.67050 0.71881 2013-10-04 03:37:42 2019-01-04 15:01:52 RF02522 Virus_CITE_8 2342 Pea enation mosaic virus-2 cap-independent translation element Eberhardt R Eberhardt R 80.00 101.30 35.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Cis-reg; Predicted; PMID:23682606 1 0 \N 0.62264 -3.98498 1600000 311130 161 71 1 -3.31360 0.72111 2013-10-04 03:37:43 2019-01-04 15:01:52 RF02523 ROSE_3 1694 Repression of heat shock gene expression (ROSE) element Eberhardt R Published; PMID:23741480 43.00 43.30 41.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 73 0 0 Cis-reg; thermoregulator; Predicted; PMID:23741480 77 0 \N 0.58548 -7.20641 1600000 288588 146 69 1 -3.56260 0.71911 2013-10-04 03:37:45 2019-01-04 15:01:52 RF02524 sagA 1236 Streptococcus sRNA sagA Eberhardt R Predicted; CMfinder 60.00 76.90 47.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 6 6 0 0 Gene; sRNA; Predicted; CMfinder 12 0 \N 0.45500 -6.97764 1600000 267574 277 161 1 -3.07480 0.71701 2013-10-04 03:37:47 2019-01-04 15:01:52 RF02525 SSRC30 1236 Streptococcus sRNA SSRC30 Eberhardt R Predicted; CMfinder 100.00 182.70 37.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; CMfinder 4 0 \N 0.52954 -6.69019 1600000 282811 272 151 1 -3.02660 0.71804 2013-10-04 03:37:49 2019-01-04 15:01:52 RF02526 SSRC34_1 1236 Streptococcus sRNA SSRC34 Eberhardt R Predicted; CMfinder 64.00 65.70 60.90 It is based on computationally predicted coordinates (RNAz). SSRC34; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 16 22 0 0 Gene; sRNA; Predicted; CMfinder 32 0 \N 0.46931 -6.90243 1600000 301724 243 128 1 -2.86280 0.71815 2013-10-04 03:37:50 2019-01-04 15:01:52 RF02527 SSRC38 1236 Streptococcus sRNA SSRC38 Eberhardt R Predicted; CMfinder 80.00 123.30 58.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 3 0 0 Gene; sRNA; Predicted; CMfinder 6 0 \N 0.49843 -9.61363 1600000 325372 382 166 1 -3.41380 0.71618 2013-10-04 03:37:52 2019-01-04 15:01:52 RF02528 SSRC41 1236 Streptococcus sRNA SSRC41 Eberhardt R Predicted; CMfinder 60.00 60.40 44.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 8 10 0 0 Gene; sRNA; Predicted; CMfinder 15 0 \N 0.44479 -6.62760 1600000 295645 212 111 1 -2.87400 0.71832 2013-10-04 03:37:54 2019-01-04 15:01:52 RF02529 SSRC8_1 1236 Streptococcus sRNA SSRC8 Eberhardt R Predicted; CMfinder 80.00 89.00 43.10 It is based on computationally predicted coordinates (RNAz). SSRC8; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; CMfinder 4 0 \N 0.55594 -6.52780 1600000 313821 270 150 1 -2.90830 0.71800 2013-10-04 03:37:56 2019-01-04 15:01:52 RF02530 URE2_IRES 2345 Ure2 internal ribosome entry site (IRES) Eberhardt R Published; PMID:15314170 70.00 100.50 44.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 5 9 0 0 Cis-reg; IRES; Published; PMID:15314170 13 0 \N 0.55922 -3.15443 1600000 277954 207 105 1 -3.33480 0.71837 2013-10-04 03:37:57 2019-01-04 15:01:52 RF02531 NRF2_IRES 2346 Nrf2 internal ribosome entry site (IRES) Eberhardt R Published; PMID:19934254 50.00 52.60 44.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 20 25 0 0 Cis-reg; IRES; Published; PMID:19934254 34 0 \N 0.43501 -11.73180 1600000 360768 300 128 1 -3.18500 0.71820 2013-10-04 03:37:59 2019-01-04 15:01:52 RF02532 MNV_3UTR 2347 Murine norovirus 3'UTR Eberhardt R Published; PMID:20053745 70.00 73.30 56.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 10 0 0 0 Cis-reg; Published; PMID:20053745 10 0 \N 0.59209 -8.89352 1600000 299252 365 222 1 -3.53370 0.71054 2013-10-04 03:38:01 2019-01-04 15:01:52 RF02533 HAV_CRE 2348 Hepatitis A virus (HAV) cis-acting replication element (CRE) Eberhardt R PMID:18684812 55.00 55.40 44.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Cis-reg; Published; PMID:18684812 2 0 \N 0.63657 -2.53398 1600000 216023 221 114 1 -3.27850 0.71856 2013-10-04 03:38:03 2019-01-04 15:01:52 RF02534 Noro_CRE 2349 Norovirus cis-acting replication element (CRE) Eberhardt R PMID:19735574 35.00 36.60 34.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 21 1 0 0 Cis-reg; Published; PMID:19735574 22 0 \N 0.71462 -3.27128 1600000 306258 127 52 1 -3.79970 0.71932 2013-10-04 03:38:05 2019-01-04 15:01:52 RF02535 ODC_IRES 2350 ODC internal ribosome entry site (IRES) Eberhardt R Eberhardt R 44.00 44.30 42.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 13 94 0 0 Cis-reg; IRES; Predicted; mfold 35 0 \N 0.48262 -7.96888 1600000 298931 264 142 1 -3.27280 0.71819 2013-10-04 03:38:07 2019-01-04 15:01:52 RF02536 AEV_CRE 2351 Avian encephalitis virus (AEV) cis-acting replication element (CRE) Eberhardt R PMID:18684812 100.00 164.90 54.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Cis-reg; Published; PMID:18684812 1 0 \N 0.60178 -4.81064 1600000 224021 250 135 1 -3.47660 0.71821 2013-10-04 03:38:09 2019-01-04 15:01:52 RF02537 TarA 2352 Vibrio ToxT activated RNA TarA Eberhardt R PMID:22546941 80.00 121.50 37.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; sRNA; Published; PMID:22546941 3 0 \N 0.50739 -8.45333 1600000 401041 200 99 1 -3.22260 0.71847 2013-10-04 03:38:11 2019-01-04 15:01:52 RF02538 TarB 2352 Vibrio ToxT activated RNA TarB Eberhardt R PMID:22546941 80.00 111.90 36.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB 2 1 0 0 Gene; sRNA; Published; PMID:22546941 3 0 \N 0.54093 -8.43630 1600000 434239 172 79 1 -3.81600 0.71921 2013-10-04 03:38:12 2019-01-04 15:01:52 RF02539 SNOR75 1264 Plant small nucleolar RNA SNOR75 Griffiths-Jones SR Griffiths-Jones SR; Plant snoRNA database, PMID:12520043 50.00 50.20 46.30 U15 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. U15 is encoded within the introns of ribosomal protein S1 in Xenopus and S3 in human and Fugu. snoR75 from Arabidopsis [3] and homologues in rice and other plants are alternatively known as U15, and, despite a significantly shorter sequence length, appear to be related [4]. U15 cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.42 -Z 549862.597050 CM SEQDB 6 398 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; PFOLD; Griffiths-Jones SR, Daub J 75 0 \N 0.63346 -3.18918 1600000 244518 182 88 1 -3.46630 0.71849 2014-05-01 10:08:11 2019-01-04 15:01:52 RF02540 LSU_rRNA_archaea 1459 Archaeal large subunit ribosomal RNA Gutell RR, Nawrocki E Published; PMID:11869452 50.00 50.00 49.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 17.38 -Z 742849.287494 CM SEQDB 91 1370 0 0 Gene; rRNA; Published; PMID:11869452 667 0 \N 0.73490 -8.17894 1600000 265300 3811 2987 1 -6.95030 0.69443 2014-06-11 16:01:24 2022-10-29 16:55:16 RF02541 LSU_rRNA_bacteria 1459 Bacterial large subunit ribosomal RNA Gutell RR, Nawrocki E Published; PMID:11869452 50.00 50.00 49.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 17.38 -Z 549862.597050 --mxsize 512--noali CM SEQDB 102 25344 0 0 Gene; rRNA; Published; PMID:11869452 7040 0 \N 0.77134 -7.79686 1600000 263856 5738 2925 1 -6.68590 0.69446 2014-06-11 16:04:37 2022-10-29 16:55:16 RF02542 SSU_rRNA_microsporidia 1459 Microsporidia small subunit ribosomal RNA Gutell RR, Nawrocki E Published; PMID:11869452 50.00 50.00 49.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 17.38 -Z 742849.287494 CM SEQDB 46 353 0 0 Gene; rRNA; Published; PMID:11869452 179 0 \N 0.71589 -8.31927 1600000 314746 1933 1311 1 -5.60500 0.69607 2014-06-24 19:54:58 2022-10-29 16:55:16 RF02543 LSU_rRNA_eukarya 1459 Eukaryotic large subunit ribosomal RNA Gutell RR, Nawrocki E Published; PMID:11869452 50.00 50.00 49.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 17.38 -Z 742849.287494 CM SEQDB 88 33233 0 0 Gene; rRNA; Published; PMID:11869452 1077 0 \N 0.63537 -7.98630 1600000 240749 5746 3401 1 -7.25190 0.69427 2014-07-14 02:57:59 2022-10-29 16:55:16 RF02544 mt-tmRNA 1321 Mitochondrion-encoded tmRNA Eberhardt R Hafez M 65.00 72.70 57.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 11 28 0 0 Gene; Hafez M 16 0 \N 0.57649 -3.08994 1600000 209693 231 77 1 -3.55530 0.71887 2014-08-07 09:51:41 2019-01-04 15:01:52 RF02545 SSU_trypano_mito 1459 Trypanosomatid mitochondrial small subunit ribosomal RNA Eberhardt R Predicted; ClustalW 60.00 72.60 51.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 12 0 0 Gene; rRNA; Predicted; RNAalifold 12 0 \N 0.59111 -8.39876 1600000 401705 828 623 1 -4.62340 0.69928 2015-03-19 08:53:07 2019-01-04 15:01:52 RF02546 LSU_trypano_mito 1459 Trypanosomatid mitochondrial large subunit ribosomal RNA Eberhardt R Predicted; ClustalW 60.00 62.90 46.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 6 13 0 0 Gene; rRNA; Predicted; RNAalifold 13 0 \N 0.59330 -9.66079 1600000 504993 750 561 1 -4.15840 0.69995 2015-03-19 13:53:08 2019-01-04 15:01:52 RF02547 mtPerm-5S 1302 Permuted mitochondrial genome encoded 5S rRNA Valach M, Eberhardt R Valach M 39.00 39.70 36.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 6 1 0 0 Gene; rRNA; Valach M 6 0 \N 0.50684 -8.25849 1600000 290946 207 106 1 -3.55320 0.71855 2015-04-22 13:14:53 2019-01-04 15:01:52 RF02548 Oskar_OES 2353 Oocyte entry signal (OES) from oskar mRNA Argasinska J Jambor et al, PMID:24572808 46.00 46.00 43.90 In Drosophila, oskar mRNA harbours a stem-loop structure in the 3’UTR, called the oocyte entry signal (OES), that promotes dynein-based mRNA accumulation in the oocyte [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 14 10 0 0 Cis-reg; Published; PMID:24572808 15 0 \N 0.59400 -2.95856 1600000 234753 145 67 1 -3.96610 0.71922 2016-01-13 12:48:33 2019-01-04 15:01:52 RF02550 RnaG 2355 RnaG sRNA Argasinska J Argasinska J 153.00 153.20 38.70 Small regulatory RNA encoded by the virulence plasmid of S. flexneri, a Gram-negative pathogenic bacterium that causes human bacillary dysentery. It is 450 nt long and it contains a region with specific secondary structure that interacts with icsA mRNA and forms a transcription terminator. Acting as antisense, RnaG is transcribed from the complementary strand of its target, icsA mRNA [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 1 0 0 Gene; sRNA; Published; PMID:20129941 4 0 \N 0.54363 -5.30948 1600000 232433 230 120 1 -2.99430 0.71825 2016-01-19 15:50:04 2019-01-04 15:01:52 RF02551 DapZ 1236 ABC transporter regulator Argasinska J Argasinska J 56.00 56.30 55.90 DapZ sRNA, encoded in the 3′-UTR of the conserved dapB gene, as a translational repressor with a GcvB-like seed domain. This is the first example of a widely conserved bacterial gene whose 3′-UTR has dual function. [1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 6 58 0 0 Cis-reg; Published; PMID:22922465 61 0 \N 0.52303 -7.03269 1600000 257887 165 78 1 -3.48510 0.71895 2016-01-20 11:01:27 2019-01-04 15:01:52 RF02552 RcsR1 2413 RcsR1 sRNA Argasinska J Baumgardt et al, PMID:26588798 60.00 60.00 56.80 RcsR1 (rhizobial cold and salinity stress riboregulator 1) trans-acting sRNA, formerly known as SmelC587, is a stress-related riboregulator, conserved in Sinorhizobium, Rhizobium and Agrobacterium. It contains highly conserved stem-loops involved in the interaction with several target mRNAs (PhoR, MotE, anti-σE1, GntR, FgA, TrpC). In S. meliloti RcsR1 less conserved central region is responsible for the species-specific interaction with the 5’UTR of autoinducer synthase encoding mRNA sinI. The interaction negatively influences sinI translation. [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 50 0 0 Gene; sRNA; Published; PMID:26588798 60 0 \N 0.58342 -6.72388 1600000 243098 193 96 1 -3.16360 0.71878 2016-02-01 09:34:14 2022-05-06 12:10:06 RF02553 YrlA 1317 Y RNA-like Argasinska J, Ontiveros-Palacios N Argasinska J 62.00 62.00 61.90 In Deinococcus radiodurans Rsr is tethered via Y RNA to the exoribonuclease PNPase and channels single-stranded RNA into the PNPase cavity. Rsr and Y RNA enhance degradation of structured RNAs by PNPase. This role could be conserved, as Rsr and ncRNAs called YrlA and YrlB (Y RNA like) also associate with PNPase in an evolutionary distant bacterium Salmonella Typhimurium [1]. The 3D structure of Y RNA-like was reported in PDB:6CU1 [3] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 118 0 0 Gene; sRNA; Published; PMID:23540697 81 0 \N 0.66553 -2.99070 1600000 191633 215 114 1 -3.51910 0.71844 2016-02-03 12:37:55 2022-10-29 16:55:16 RF02554 ppoRNA 1302 mt-5S-like P. polycephalum Argasinska J Argasinska J 99.00 105.80 42.20 mtDNA-encoded RNA with 5S rRNA-like structures that is associated with the mitoribosome. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 0 0 0 Gene; rRNA; Published; PMID:20304999 1 0 \N 0.59068 -3.67821 1600000 202831 199 98 1 -2.99860 0.71866 2016-02-09 13:13:51 2019-01-04 15:01:52 RF02555 hveRNA 1302 mt-5S-like H. vermiformis Argasinska J Argasinska, J 90.00 99.10 40.60 mtDNA-encoded RNA with 5S rRNA-like structures that is associated with the mitoribosome. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 7 0 0 0 Gene; rRNA; Published; PMID:20304999 1 0 \N 0.51317 -6.45767 1600000 277977 234 124 1 -3.24780 0.71820 2016-02-09 13:18:05 2019-01-04 15:01:52 RF02556 snaR-A 2358 snaR-A sRNA Argasinska J Argasinska J 98.00 98.00 97.30 Small NF90/ILF3-associated RNAs (snaR) are ~120 nucleotides long and are known to interact with NF90 double-stranded RNA-binding motifs. snaR-A is abundant in human testis and has been shown to associate with ribosomes in HeLa cells. snaR-A is present in human and gorilla but not in chimpanzee. Other snaR RNAs are found in African Great Apes (including chimpanzee and bonobo). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 5 40 0 0 Gene; sRNA; Predicted; PMID:17855395 4 0 \N 0.65684 -3.67794 1600000 213733 223 115 1 -3.04440 0.71840 2016-02-24 12:15:06 2019-01-04 15:01:52 RF02557 CbSR1 2359 Coxiella burnetii sRNA 1 Argasinska J Argasinska J 146.00 146.50 38.80 In bacteria small regulatory RNAs are activated during stress and virulence conditions. Coxiella burnetii small RNAs: CbSRs 1, 11, 12, and 14 encoded within intergenic region IGR, and CbSRs 2, 3, 4 and 9 located antisense to identified ORFs, are up-regulated during intracellular growth in host cells. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; CMfinder 2 0 \N 0.57514 -7.51254 1600000 285724 219 112 1 -3.08370 0.71838 2016-02-29 12:44:03 2019-01-04 15:01:52 RF02558 CbSR2 2359 Coxiella burnetii sRNA 2 Argasinska J Argasinska J 300.00 303.50 39.00 In bacteria small regulatory RNAs are activated during stress and virulence conditions. Coxiella burnetii small RNAs: CbSRs 1, 11, 12, and 14 encoded within intergenic region IGR, and CbSRs 2, 3, 4 and 9 located antisense to identified ORFs, are up-regulated during intracellular growth in host cells. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; antisense; Predicted; CMfinder 3 0 \N 0.67252 -8.18885 1600000 349633 387 243 1 -3.92980 0.70906 2016-02-29 14:58:18 2019-01-04 15:01:52 RF02559 CbSR4 2359 Coxiella burnetii sRNA 4 Argasinska J Argasinska J 243.00 243.60 36.30 In bacteria small regulatory RNAs are activated during stress and virulence conditions. Coxiella burnetii small RNAs: CbSRs 1, 11, 12, and 14 encoded within intergenic region IGR, and CbSRs 2, 3, 4 and 9 located antisense to identified ORFs, are up-regulated during intracellular growth in host cells. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; antisense; Predicted; CMfinder 2 0 \N 0.55536 -9.44775 1600000 323917 329 196 1 -3.31360 0.71278 2016-02-29 15:42:13 2019-01-04 15:01:52 RF02560 CbSR9 2359 Coxiella burnetii sRNA 9 Argasinska J Argasinska J 279.00 279.10 38.10 In bacteria small regulatory RNAs are activated during stress and virulence conditions. Coxiella burnetii small RNAs: CbSRs 1, 11, 12, and 14 encoded within intergenic region IGR, and CbSRs 2, 3, 4 and 9 located antisense to identified ORFs, are up-regulated during intracellular growth in host cells. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; antisense; Predicted; CMfinder 3 0 \N 0.52452 -9.66941 1600000 379500 350 213 1 -3.54550 0.71112 2016-02-29 16:32:41 2019-01-04 15:01:52 RF02561 CbSR12 2359 Coxiella burnetii sRNA 12 Argasinska J Argasinska J 195.00 196.50 33.70 In bacteria small regulatory RNAs are activated during stress and virulence conditions. Coxiella burnetii small RNAs: CbSRs 1, 11, 12, and 14 encoded within intergenic region IGR, and CbSRs 2, 3, 4 and 9 located antisense to identified ORFs, are up-regulated during intracellular growth in host cells. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; CMfinder 2 0 \N 0.55248 -8.62210 1600000 338960 268 148 1 -3.16690 0.71805 2016-03-01 09:51:32 2019-01-04 15:01:52 RF02562 CbSR14 2359 Coxiella burnetii sRNA 14 Argasinska J Argasinska J 172.00 172.70 39.60 In bacteria small regulatory RNAs are activated during stress and virulence conditions. Coxiella burnetii small RNAs (CbSRs 1, 11, 12, and 14) are encoded within intergenic region IGR. CbSRs 2, 3, 4 and 9 are located antisense to identified ORFs and are up-regulated during intracellular growth in host cells. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; CMfinder 3 0 \N 0.57596 -9.02811 1600000 336922 318 189 1 -3.37830 0.71341 2016-03-01 10:55:58 2019-01-04 15:01:52 RF02563 CbSR3 2359 Coxiella burnetii sRNA 3 Argasinska J Argasinska J 101.00 101.10 100.90 In bacteria small regulatory RNAs are activated during stress and virulence conditions. Coxiella burnetii small RNAs (CbSRs 1, 11, 12, and 14) are encoded within intergenic region IGR. CbSRs 2, 3, 4 and 9 are located antisense to identified ORFs. CbSRs are up-regulated during intracellular growth in host cells. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 19 0 0 Gene; antisense; Predicted; CMfinder 2 0 \N 0.61170 -8.38243 1600000 369106 331 198 1 -3.30990 0.71267 2016-03-01 15:37:12 2019-01-04 15:01:52 RF02564 naRNA4 2360 Nucleoid-associated noncoding RNA 4 (CssrE) Argasinska J Argasinska J 59.50 59.50 59.40 In E. coli small RNA transcribed from repeated extragenic palindromic element (REP325) called nucleoid-associated ncRNA 4 (nRNA4) collaborates HU protein in condensing the DNA. The secondary structure but not the sequence of the RNA is important in nucleoid condensation. Also identified in Shigella as CssrE [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 167 0 0 Gene; sRNA; Published; PMID:26307168 19 0 \N 0.51549 -9.62341 1600000 479374 170 77 1 -3.45220 0.71898 2016-03-02 12:21:01 2019-01-04 15:01:52 RF02565 YrlB 1317 Y RNA-like Argasinska J Argasinska J 97.00 97.00 36.30 In Deinococcus radiodurans Rsr is tethered via Y RNA to the exoribonuclease PNPase and channels single-stranded RNA into the PNPase cavity. Rsr and Y RNA enhance degradation of structured RNAs by PNPase. This role could be conserved, as Rsr and ncRNAs called YrlA and YrlB (Y RNA like) also associate with PNPase in an evolutionary distant bacterium Salmonella Typhimurium.[1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 2 0 0 Gene; sRNA; Published; PMID:23540697 4 0 \N 0.63224 -3.45017 1600000 232921 171 78 1 -3.08350 0.72436 2016-03-07 11:16:41 2019-01-04 15:01:52 RF02566 Ms1 2361 Mycobacterium smegmatis small RNA 1 Argasinska J Argasinska J 162.00 162.40 151.00 Mycobacterium smegmatis small RNA 1 is highly expressed during stationary phase of growth. Ms1 RNA directly interacts with RNA polymerase (RNAP), but in a different way than 6S, which is present in other bacteria. Ms1 does not require the presence of the main sigma factor for RNAP interaction. There is evidence that Ms1 RNA may function similar to 6S RNA in M. smegmatis which does not have 6S RNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 111 0 0 Gene; sRNA; Predicted; CMfinder 114 0 \N 0.65197 -9.56930 1600000 375488 472 304 1 -3.68170 0.70582 2016-03-08 11:35:56 2019-01-04 15:01:52 RF02567 Va-907 1236 Vibrio alginolyticus sRNA 907 Argasinska J Argasinska J 45.00 60.00 32.40 Negative control of the adhesion process and negative control of key chemotaxis regulators translation. The number 907 comes from the Huang et al. name candidate 907. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 3 0 0 Gene; sRNA; Predicted; CMfinder 6 0 \N 0.70931 -8.12521 1600000 345208 469 311 1 -4.11690 0.70551 2016-03-09 11:14:00 2019-01-04 15:01:52 RF02568 UptR 2254 Escherichia coli small RNA (uptR) gene Argasinska J Argasinska J 100.00 101.10 34.50 UptR scRNA transcribed from the uptR gene is implicated in suppressing extracytoplasmic toxicity by reducing the amount of membrane-bound toxic hybrid protein. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 0 0 0 Gene; sRNA; Predicted; PMID:11157926 2 0 \N 0.48246 -8.95754 1600000 324072 190 92 1 -3.22050 0.71872 2016-03-22 09:24:14 2019-01-04 15:01:52 RF02569 IhtA 2370 IhtA sRNA Argasinska J Tattersall et al, PMID:23071807 76.00 76.40 38.80 A histone like protein HctA and HctB play role in controlling the differentiation between the two cell types. The expression of HctA is tightly regulated and repressed by small non-coding RNA, IhtA until the late RB to EB re-differentiation. The IhtA RNA is conserved across Chlamydia species. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 5 4 0 0 Gene; sRNA; Predicted; RNAfold 7 0 \N 0.51285 -9.25764 1600000 324229 209 107 1 -3.23390 0.71864 2016-04-11 14:22:10 2019-01-04 15:01:52 RF02570 BM-sr0117 2371 Brucella melitensis small RNA 0117 Argasinska J Argasinska J 112.00 112.20 31.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; PMID:26778206 4 0 \N 0.68782 -2.91155 1600000 209621 178 83 1 -3.34280 0.71886 2016-04-11 14:27:50 2019-01-04 15:01:52 RF02571 Mcr7 2178 mcr7 sRNA Argasinska J Argasinska J 380.00 385.00 35.20 Mcr7 sRNA encoded by the mcr7 gene modulates translation of the tatC mRNA and impacts the activity of the Twin Arginine Translocation (Tat) protein secretion apparatus. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold; 2 0 \N 0.62705 -9.89542 1600000 403318 517 351 1 -3.81900 0.70420 2016-04-11 14:32:25 2019-01-04 15:01:52 RF02572 babR_5UTR 2371 Brucella babR 5'UTR Argasinska J Argasinska J 93.00 94.20 44.00 Hfq protein regulates virB operon which is required for full virulence of the bacteria. It can bind to 5' untranslated region of virB transcriptional regulator BabR and mediate its effects on babR expression. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Cis-reg; Predicted; PMID:22020650 4 0 \N 0.53137 -5.89723 1600000 293857 249 134 1 -3.15850 0.71821 2016-04-11 14:38:26 2019-01-04 15:01:52 RF02573 LLnc147 2414 Lactococcus lactis non-coding RNA 147 Argasinska J Argasinska J 127.00 127.60 37.40 Hundreds of novel RNAs were identified by Meulen et al. LLnc147 was shown to be involved in carbon uptake and metabolism. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 2 0 0 Gene; sRNA; Predicted; RNAfold; 4 0 \N 0.51463 -8.14323 1600000 323134 204 102 1 -3.24090 0.71857 2016-05-03 12:32:48 2019-01-04 15:01:52 RF02574 Ricks_sRNA10 2415 Rickettsia sRNA 10 Argasinska J Argasinska J 97.00 97.10 96.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 2 0 0 Gene; sRNA; Predicted; RNAfold 5 0 \N 0.58137 -9.28564 1600000 402671 510 352 1 -3.72400 0.70400 2016-05-03 12:38:03 2019-01-04 15:01:52 RF02575 DM_SisR1 2416 Drosophila melanogaster stable intronic sequence RNA 1 Argasinska J Argasinska J 62.00 62.30 46.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 2 0 0 Gene; Predicted; RNAfold; 2 0 \N 0.60647 -8.62502 1600000 332760 618 389 1 -3.87280 0.70301 2016-05-03 13:46:39 2019-01-04 15:01:52 RF02576 tsr1 1236 tsr1 small RNA Argasinska J Argasinska J 235.00 235.90 185.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 3 0 0 Gene; sRNA; Predicted; RNAfold 4 0 \N 0.65334 -10.80549 1600000 547361 866 657 1 -4.81220 0.69900 2016-05-03 13:49:38 2019-01-04 15:01:52 RF02577 tsr24 1236 S. aureus tsr24 small RNA Argasinska J Argasinska J 50.00 50.60 49.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 105 0 0 Gene; sRNA; Predicted; RNAfold 22 0 \N 0.59662 -9.31174 1600000 365317 380 238 1 -3.36490 0.70926 2016-05-03 13:52:08 2019-01-04 15:01:52 RF02578 tsr25 1236 S. aureus tsr25 small RNA Argasinska J Argasinska J 63.00 63.90 50.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 16 0 0 Gene; sRNA; Predicted; RNAfold 19 0 \N 0.58228 -9.00863 1600000 376405 310 181 1 -3.59960 0.71438 2016-05-03 13:52:44 2019-01-04 15:01:52 RF02579 tsr26 1236 S. aureus tsr26 small RNA Argasinska J Argasinska J 141.00 141.00 50.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 0 0 0 Gene; sRNA; Predicted; RNAfold 2 0 \N 0.51930 -4.90989 1600000 249176 232 122 1 -2.94560 0.71815 2016-05-03 13:53:10 2019-01-04 15:01:52 RF02580 tsr31 1236 S. aureus tsr31 small RNA Argasinska J Argasinska J 50.00 60.50 49.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 17 0 0 Gene; sRNA; Predicted; RNAfold 20 0 \N 0.52623 -6.39940 1600000 401826 158 70 1 -3.45820 0.71904 2016-05-03 13:53:32 2019-01-04 15:01:52 RF02581 tsr32 1236 S. aureus tsr32 small RNA Argasinska J Argasinska J 98.00 98.20 46.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 1 0 0 Gene; sRNA; Predicted; RNAfold 5 0 \N 0.59829 -5.77947 1600000 245760 271 151 1 -3.07950 0.71825 2016-05-03 13:53:59 2019-01-04 15:01:52 RF02582 tsr33 1236 S. aureus tsr33 small RNA Argasinska J Argasinska J 109.00 109.40 42.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold 3 0 \N 0.44838 -6.68761 1600000 281103 181 85 1 -3.33100 0.71867 2016-05-03 13:54:23 2019-01-04 15:01:52 RF02583 Teg23 1236 S. aureus Teg23 small RNA Argasinska J Carroll et al, PMID:26861020 166.00 166.10 41.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 6 1 0 0 Gene; sRNA; Predicted; RNAalifold 6 0 \N 0.63386 -8.32596 1600000 364951 613 433 1 -4.06990 0.70199 2016-05-03 13:55:07 2019-01-04 15:01:52 RF02584 KRAS_3UTR 2417 KRAS 3' UTR cis-regulatory element Argasinska J Argasinska J 49.00 49.70 47.90 AU-rich 49 nt fragment in KRAS 3'UTR. Its sequence but not the secondary is necessary and sufficient for reporter repression in HeLa cells. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 29 0 0 Cis-reg; Predicted; RNAfold; 21 0 \N 0.43949 -6.61279 1600000 475559 132 49 1 -2.62240 0.73334 2016-05-03 13:59:14 2022-10-29 16:42:08 RF02589 Spy779816 1236 S. pyogenes small RNA 779816 Argasinska J Rhun et al, PMID:26580233 67.00 67.40 64.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 9 0 0 Gene; sRNA; Predicted; RNAalifold 11 0 \N 0.52199 -5.71373 1600000 244365 181 88 1 -3.25870 0.71888 2016-05-17 14:01:46 2019-01-04 15:01:52 RF02590 Spy1186876 1236 S. pyogenes small RNA 1186876 Argasinska J Rhun et al, PMID:26580233 208.00 208.20 43.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 3 0 0 Gene; sRNA; Predicted; RNAalifold 6 0 \N 0.59490 -9.18691 1600000 446506 386 243 1 -3.30800 0.70889 2016-05-17 14:02:51 2019-01-04 15:01:52 RF02591 Spy1786666 1236 S. pyogenes small RNA 1786666 Argasinska J Rhun et al, PMID:26580233 64.00 64.30 57.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 3 0 0 Gene; sRNA; Predicted; RNAalifold 5 0 \N 0.54975 -7.38097 1600000 316504 183 87 1 -3.20350 0.71878 2016-05-17 14:04:15 2019-01-04 15:01:52 RF02592 Spy392987 1236 S. pyogenes antisense RNA 392987 Argasinska J Argasinska J 47.00 47.50 46.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 68 0 0 Gene; antisense; Predicted; RNAalifold 30 0 \N 0.58697 -3.85832 1600000 263588 148 63 1 -3.31590 0.71921 2016-05-17 14:44:59 2019-01-04 15:01:52 RF02593 NsiR8 1236 Nitrogen stress-induced RNA 8 Argasinska J Argasinska J 61.00 61.60 43.30 Transcribed in developing heterocysts. Transcription requires HetR suggestingthat it could be related to the differentiation of heterocysts. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 10 0 0 Gene; sRNA; Predicted; RNAalifold 11 0 \N 0.51133 -9.54202 1600000 331874 298 172 1 -3.19490 0.71545 2016-05-31 12:48:18 2019-01-04 15:01:52 RF02594 NsiR9 1236 Nitrogen stress-induced RNA 9 Argasinska J Argasinska J 90.00 90.20 39.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 13 0 0 Gene; sRNA; Predicted; RNAalifold 13 0 \N 0.58340 -8.33765 1600000 350635 232 123 1 -3.22270 0.71845 2016-05-31 13:51:33 2019-01-04 15:01:52 RF02595 EBv-sisRNA-1 2419 Epstein-Barr virus stable intronic sequence RNA 1 Argasinska J Moss at al; PMID:23937650 58.00 58.00 44.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 8 26 0 0 Gene; Predicted; PMID:23937650 8 0 \N 0.68987 -4.76905 1600000 313829 198 81 1 -3.51850 0.71870 2016-05-31 14:40:28 2019-01-04 15:01:52 RF02596 cyano_het_sRNA 1236 Cyanobacteria heterocyst sRNA Argasinska J Brendes-Alvarez et al, PMID:26870012 35.70 35.70 35.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 5 26 0 0 Gene; sRNA; Predicted; PMID:26870012 22 0 \N 0.55667 -8.64561 1600000 513952 136 56 1 -4.09550 0.71935 2016-06-01 16:31:44 2019-01-04 15:01:52 RF02597 shuA_thermo 2420 shuA/chuA 5' UTR thermoregulator Argasinska J Kouse et al, PMID:23704938 58.00 58.60 39.30 Shingella ShuA the outer-membrane heme receptor and its E.coli orthologue ChuA expression are subject to temperature-dependent post-transcriptional regulation by 5' UTR regions containing FourURNA thermometer. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 0 0 0 Cis-reg; thermoregulator; Published; PMID:23704938 5 0 \N 0.49911 -6.95886 1600000 689089 100 32 1 -3.76480 0.72567 2016-06-06 16:02:00 2022-10-29 16:55:17 RF02598 EBv-sisRNA-2 2419 Epstein-Barr virus stable intronic sequence RNA 2 Argasinska J Argasinska J 41.80 41.80 41.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 71 0 0 Gene; Predicted; PMID:24441309 7 0 \N 0.51396 -4.88216 1600000 269322 168 76 1 -3.02890 0.71952 2016-06-07 09:31:13 2019-01-04 15:01:52 RF02599 BASRCI408 2371 Brucella sRNA CI408 Argasinska J Argasinska J 398.00 398.40 185.50 Brucella abortus sRNA chromosome I, candidate 408 \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; RNAfold 3 0 \N 0.67135 -8.63621 1600000 339115 615 435 1 -4.29220 0.70200 2016-06-08 11:00:59 2019-01-04 15:01:52 RF02600 BASRCI27 2371 Brucella sRNA CI27 Argasinska J Argasinska J 59.80 59.80 59.70 Brucella abortus sRNA chromosome I, candidate 27 \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 23 0 0 Gene; sRNA; Predicted; RNAfold 15 0 \N 0.59980 -8.00975 1600000 316505 293 167 1 -3.23960 0.71629 2016-06-08 11:26:01 2019-01-04 15:01:52 RF02601 BASRCI337 2371 Brucella sRNA CI337 Argasinska J Argasinska J 229.00 229.50 125.80 Brucella abortus sRNA chromosome I, candidate 337 \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 1 0 0 Gene; sRNA; Predicted; RNAfold 4 0 \N 0.64616 -8.45734 1600000 377408 322 191 1 -3.54890 0.71327 2016-06-08 11:44:13 2019-01-04 15:01:52 RF02602 BASRCI414 2371 Brucella sRNA CI414 Argasinska J Argasinska J 270.00 270.00 37.10 Brucella abortus sRNA chromosome I, candidate 414 \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; RNAfold 3 0 \N 0.62122 -9.55870 1600000 414121 369 229 1 -3.63790 0.71004 2016-06-08 16:29:00 2019-01-04 15:01:52 RF02603 BASRCII26 2371 Brucella sRNA CII26 Argasinska J Argasinska J 218.00 218.80 108.80 Brucella abortus sRNA chromosome II, candidate 26 \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold 2 0 \N 0.65942 -8.15735 1600000 347500 321 190 1 -3.14470 0.71340 2016-06-08 16:59:01 2019-01-04 15:01:52 RF02604 BASRCI153 2371 Brucella sRNA CI153 Argasinska J Argasinska J 137.00 137.10 134.10 Brucella abortus sRNA chromosome I, candidate 408 \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 2 0 0 Gene; sRNA; Predicted; RNAfold 2 0 \N 0.62045 -9.05194 1600000 345093 350 214 1 -3.71460 0.71112 2016-06-13 11:01:11 2019-01-04 15:01:52 RF02605 scr5239 2421 Streptomyces sRNA scr5239 Argasinska J Published; PMID:25785836 64.00 64.20 45.90 It inhibits agarase DagA expression by direct base pairing to the dagA coding region, and it represses translation of methionine synthase metE (SCO0985) at the 5’ end of its open reading frame. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 6 179 0 0 Gene; sRNA; Published; PMID:25785836 179 0 \N 0.46822 -12.08240 1600000 459162 276 158 1 -2.71450 0.71757 2016-06-13 11:03:34 2019-01-04 15:01:52 RF02606 AbsR28 2422 Acinetobacter sRNA 28 Argasinska J Argasinska J 50.00 50.20 35.10 Three sRNAs: AbsR11, AbsR25 and AbsR28 have been experimentally validated in the MTCC 1425 (ATCC15308) strain, which is an MDR strain showing resistance to 12 antibiotics. AbsR25 sRNA could play role in the efflux pump regulation and drug resistance. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 13 0 0 Gene; sRNA; Predicted; RNAfold 15 0 \N 0.61875 -7.70776 1600000 359455 308 180 1 -3.39890 0.71459 2016-06-13 14:25:17 2019-01-04 15:01:52 RF02607 AbsR25 2422 Acinetobacter sRNA 25 Argasinska J Argasinska J 47.00 47.80 44.70 Three sRNAs: AbsR11, AbsR25 and AbsR28 have been experimentally validated in the MTCC 1425 (ATCC15308) strain, which is an MDR (multiple drug resistance) strain showing resistance to 12 antibiotics. AbsR25 sRNA could play a role in the efflux pump regulation and drug resistance. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold 3 0 \N 0.49718 -9.29054 1600000 344826 288 164 1 -2.99930 0.71654 2016-06-13 14:38:41 2019-01-04 15:01:52 RF02608 AbsR11 2422 Acinetobacter sRNA 11 Argasinska J Argasinska J 158.00 158.50 90.80 Three sRNAs: AbsR11, AbsR25 and AbsR28 have been experimentally validated in the MTCC 1425 (ATCC15308) strain, which is an MDR (multiple drug resistance) strain showing resistance to 12 antibiotics. AbsR25 sRNA could play a role in the efflux pump regulation and drug resistance. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 26 0 0 Gene; sRNA; Predicted; RNAfold 28 0 \N 0.57977 -8.62209 1600000 322494 333 200 1 -3.55410 0.71238 2016-06-13 14:43:42 2019-01-04 15:01:52 RF02609 BSR0602 2371 Brucella sRNA 0602 Argasinska J Argasinska J 191.00 191.40 31.60 Highly induced in stationary phase and modulate the intracellular survival. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold 3 0 \N 0.60791 -8.53570 1600000 352030 295 169 1 -2.99610 0.71592 2016-06-15 11:10:20 2019-01-04 15:01:52 RF02610 BSR0709 2371 Brucella sRNA 0709 Argasinska J Argasinska J 382.00 382.50 38.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 1 0 0 Gene; sRNA; Predicted; RNAfold 5 0 \N 0.73118 -7.44709 1600000 338570 477 318 1 -3.91320 0.70521 2016-06-15 11:23:04 2019-01-04 15:01:52 RF02611 BSR0653 2371 Brucella sRNA 0653 Argasinska J Argasinska J 627.00 627.80 31.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 1 0 0 Gene; sRNA; Predicted; RNAfold 5 0 \N 0.72353 -8.38527 1600000 322769 857 642 1 -5.14020 0.69913 2016-06-15 11:53:40 2019-01-04 15:01:52 RF02612 BSR1350 2371 Brucella sRNA 1350 Argasinska J Argasinska J 216.00 216.50 76.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; RNAfold 4 0 \N 0.54082 -7.07866 1600000 266100 304 176 1 -3.49260 0.71503 2016-06-15 11:59:31 2019-01-04 15:01:52 RF02613 BSR0739 2371 Brucella sRNA 0739 Argasinska J Argasinska J 191.00 192.20 91.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 1 0 0 Gene; sRNA; Predicted; RNAfold 5 0 \N 0.60164 -7.21505 1600000 263049 284 160 1 -3.30190 0.71728 2016-06-15 12:06:14 2019-01-04 15:01:52 RF02614 BSR1073 2371 Brucella sRNA 1073 Argasinska J Argasinska J 241.00 241.50 109.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold 3 0 \N 0.68002 -8.18302 1600000 444013 329 196 1 -3.59620 0.71281 2016-06-15 12:13:02 2019-01-04 15:01:52 RF02615 BSR0626 2371 Brucella sRNA 0626 Argasinska J Argasinska J 155.00 155.10 58.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold 3 0 \N 0.52154 -8.58429 1600000 373719 241 128 1 -2.73580 0.71832 2016-06-15 12:17:56 2019-01-04 15:01:52 RF02616 SSRC8_2 1236 Streptococcus sRNA 8 Argasinska J Argasinska J 72.00 72.00 71.10 Sequence is experimentally verified. SSRC8; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 11 0 0 Gene; sRNA; Predicted; RNAfold 5 0 \N 0.72958 -7.57589 1600000 342083 433 281 1 -3.87620 0.70677 2016-06-21 11:50:21 2019-01-04 15:01:52 RF02617 SSRC10 1236 Streptococcus sRNA 10 Argasinska J Argasinska J 56.00 56.60 55.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 49 0 0 Gene; sRNA; Predicted; RNAfold 50 0 \N 0.53548 -8.32812 1600000 299717 220 113 1 -3.24010 0.71841 2016-06-21 11:50:49 2019-01-04 15:01:52 RF02618 SSRC34_2 1236 Streptococcus sRNA 34 Argasinska J Argasinska J 48.00 48.40 46.60 Sequence is experimentally verified. SSRC34; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 6 0 0 Gene; sRNA; Predicted; RNAfold 9 0 \N 0.50250 -7.15592 1600000 266158 237 125 1 -2.82970 0.71833 2016-06-21 11:51:12 2019-01-04 15:01:52 RF02619 BSnc115 2371 Brucella sRNA 115 Argasinska J Argasinska J 115.00 115.60 35.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; RNAfold 4 0 \N 0.65642 -3.66726 1600000 256786 190 91 1 -2.98400 0.71867 2016-06-21 15:10:50 2019-01-04 15:01:52 RF02620 BSnc119 2371 Brucella sRNA 119 Argasinska J Argasinska J 115.00 115.20 66.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; RNAfold 4 0 \N 0.55707 -5.84882 1600000 242631 188 90 1 -3.08190 0.71866 2016-06-21 15:11:39 2019-01-04 15:01:52 RF02621 BSnc120 2371 Brucella sRNA 120 Argasinska J Argasinska J 114.00 114.90 70.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; RNAfold 4 0 \N 0.72612 -2.28044 1600000 282225 185 88 1 -3.37110 0.71877 2016-06-21 15:12:00 2019-01-04 15:01:52 RF02622 BSnc121 2371 Brucella sRNA 121 Argasinska J Argasinska J 114.00 138.70 53.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold 3 0 \N 0.51215 -9.14582 1600000 338802 225 116 1 -2.79400 0.71831 2016-06-21 16:12:18 2019-01-04 15:01:52 RF02623 BSnc140 2371 Brucella sRNA 140 Argasinska J Argasinska J 126.00 126.00 112.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold 3 0 \N 0.53318 -6.53670 1600000 311731 194 94 1 -2.90740 0.71857 2016-06-21 16:50:31 2019-01-04 15:01:52 RF02624 BSnc150 2371 Brucella sRNA 150 Argasinska J Argasinska J 73.00 73.10 33.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold 3 0 \N 0.58391 -4.77415 1600000 276620 124 44 1 -2.63610 0.73690 2016-06-21 16:54:08 2019-01-04 15:01:52 RF02625 WsnRNA46 2423 Wolbachia sRNA 46 Argasinska J Argasinska J 65.30 65.30 65.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 122 0 0 Gene; sRNA; Predicted; PMID:25512495 17 0 \N 0.64215 -2.91920 1600000 249701 282 151 1 -3.23070 0.71808 2016-06-27 15:54:22 2019-01-04 15:01:52 RF02626 WsnRNA59 2423 Wolbachia sRNA 59 Argasinska J Argasinska J 49.00 49.70 47.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 3 0 0 Gene; sRNA; Predicted; PMID:25512495 4 0 \N 0.67254 -2.39457 1600000 182942 185 89 1 -3.31300 0.72069 2016-06-27 15:56:54 2019-01-04 15:01:52 RF02627 Ssr1 2424 Shigella small RNA 1 Argasinska J Argasinska J 820.00 820.40 365.20 Exists only in Shigella, may play role in resistance to acidic stress and regulation of virulence. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 0 0 0 Gene; sRNA; Predicted; RNAfold; 2 0 \N 0.69854 -7.65446 1600000 293316 871 654 1 -5.21630 0.69905 2016-07-04 14:05:37 2019-01-04 15:01:52 RF02628 Hrs1 1266 Hfq-regulated sRNA 1 Argasinska J Argasinska J 56.40 56.40 56.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 28 0 0 Gene; sRNA; Predicted; RNAfold; 29 0 \N 0.56035 -8.15032 1600000 484213 165 74 1 -2.78580 0.72136 2016-07-12 09:33:51 2019-01-04 15:01:52 RF02629 RmaA 2425 Regulator of motility and amylovoran A Argasinska J Argasinska J 57.00 57.40 48.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 0 0 0 Gene; sRNA; Predicted; RNAfold; 2 0 \N 0.52120 -7.06190 1600000 264283 220 113 1 -3.43270 0.71849 2016-07-12 09:34:36 2019-01-04 15:01:52 RF02630 Hrs12 1266 Hfq-regulated sRNA 12 Argasinska J Argasinska J 70.00 70.70 50.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold; 3 0 \N 0.49636 -7.90800 1600000 373213 182 87 1 -3.21680 0.71889 2016-07-12 09:35:23 2019-01-04 15:01:52 RF02631 Hrs13 1266 Hfq-regulated sRNA 13 Argasinska J Argasinska J 52.00 52.90 39.00 \N Hrs10; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 4 0 0 Gene; sRNA; Predicted; RNAfold; 6 0 \N 0.69490 -5.57500 1600000 309470 176 82 1 -2.94530 0.72043 2016-07-12 09:36:08 2019-01-04 15:01:52 RF02632 Hrs10 1266 Hfq-regulated sRNA 10 Argasinska J Argasinska J 108.00 108.40 35.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold; 3 0 \N 0.58727 -8.63306 1600000 404357 268 148 1 -3.11420 0.71804 2016-07-12 11:46:48 2019-01-04 15:01:52 RF02633 Hrs21 1266 Hfq-regulated sRNA 21 Argasinska J Argasinska J 102.00 102.90 31.10 Could play role in virulence regulation. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold; 3 0 \N 0.64385 -4.79747 1600000 256457 250 135 1 -3.23450 0.71823 2016-07-12 11:54:34 2019-01-04 15:01:52 RF02634 EF3314_EF3315 2426 Enterococcus sRNA EF3314_EF3315 Argasinska J Argasinska J 100.00 177.60 69.00 It may be involved in the turnover of some abundant proteins. Involvement in stress response and virulence. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; sRNA; Predicted; RNAfold; 4 0 \N 0.62065 -8.43568 1600000 418235 258 141 1 -3.21110 0.71823 2016-07-12 16:52:33 2021-11-19 11:53:19 RF02635 EF0820_EF0821 2426 Enterococcus sRNA EF0820_EF0821 Argasinska J Argasinska J 442.00 442.60 116.00 Expressed during exponential phase. Seem not to be involved in virulence. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 3 0 0 Gene; sRNA; Predicted; RNAfold; 4 0 \N 0.66243 -8.47813 1600000 367868 539 370 1 -3.92700 0.70351 2016-07-13 11:26:11 2019-01-04 15:01:52 RF02636 EF1368_EF1369 2426 Enterococcus sRNA EF1368_EF1369 Argasinska J Argasinska J 730.00 738.30 94.90 Expressed during exponential phase. Involvement in stress response and virulence. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 2 0 0 Gene; sRNA; Predicted; RNAfold; 6 0 \N 0.74630 -7.48141 1600000 305589 838 626 1 -4.98710 0.69926 2016-07-18 10:33:24 2021-11-19 11:53:19 RF02637 EF0408_EF0409 2426 Enterococcus sRNA EF0408_EF0409 Argasinska J Argasinska J 440.00 448.40 60.00 Expressed during exponential phase. Involvement in stress response and virulence. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 2 0 0 Gene; sRNA; Predicted; RNAfold; 5 0 \N 0.68441 -8.25987 1600000 380232 589 412 1 -3.72620 0.70248 2016-07-18 10:41:20 2021-12-03 12:41:14 RF02638 EF0605_EF0606 2426 Enterococcus sRNA EF0605_EF0606 Argasinska J Argasinska J 219.00 219.90 43.30 Expressed during exponential phase. Involvement in stress response and virulence. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; sRNA; Predicted; RNAfold; 1 0 \N 0.53479 -8.97527 1600000 352885 307 179 1 -3.33970 0.71450 2016-07-18 11:14:32 2021-12-03 12:41:14 RF02639 EF0869_EF0870 2426 Enterococcus sRNA EF0869_EF0870 Argasinska J Argasinska J 533.00 559.70 56.80 Expressed after 24 h of starvation[1]. Identified in E. faecium as sRNA_0160. Expressed in mid,late exponential and early stationary phases of growth. Transcript level decreased significantly under antibiotic exposure [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 3 0 0 Gene; sRNA; Predicted; RNAfold; 6 0 \N 0.68646 -8.23494 1600000 331438 662 474 1 -4.50330 0.70122 2016-07-18 14:06:27 2019-01-04 15:01:52 RF02640 MOSES4 1236 S. pyogenes small RNA MOSES4 Argasinska J Argasinska J 54.80 54.80 54.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 2 0 0 Gene; sRNA; Predicted; RNAfold; 5 0 \N 0.53969 -9.30818 1600000 384795 303 176 1 -2.97690 0.71492 2016-07-20 14:37:24 2019-01-04 15:01:52 RF02641 Spy490483c 1236 S. pyogenes small RNA Spy490483c Argasinska J Argasinska J 65.00 65.80 37.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 4 0 0 Gene; sRNA; Predicted; RNAfold; 7 0 \N 0.53454 -6.35745 1600000 247317 199 98 1 -3.17180 0.71863 2016-07-20 15:09:45 2019-01-04 15:01:52 RF02642 Spy491311c 1236 S. pyogenes small RNA Spy491311c Argasinska J Argasinska J 178.00 178.80 61.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold; 3 0 \N 0.59151 -5.21783 1600000 302826 261 143 1 -3.16690 0.71815 2016-07-25 14:43:22 2019-01-04 15:01:52 RF02643 Spy491738 1236 S. pyogenes small RNA Spy491738 Argasinska J Argasinska J 91.00 91.90 39.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 6 0 0 Gene; sRNA; Predicted; RNAfold; 8 0 \N 0.46312 -9.62184 1600000 347362 180 85 1 -2.72600 0.71874 2016-07-25 14:52:53 2019-01-04 15:01:52 RF02644 Spy490380c 1236 S. pyogenes small RNA Spy490380c Argasinska J Argasinska J 65.00 90.30 48.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 6 0 0 Gene; sRNA; Predicted; RNAfold; 9 0 \N 0.42790 -7.35467 1600000 293284 195 96 1 -3.30540 0.71862 2016-07-25 16:34:49 2019-01-04 15:01:52 RF02645 Cis2_sRNA 2427 Ruegeria cis2 sRNA Argasinska J Argasinska J 50.00 50.40 48.40 Cis-encoded. Targets ABC transporter. Functions in transport. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 174 0 0 Gene; sRNA; Predicted; RNAfold; 175 0 \N 0.56252 -9.09542 1600000 328720 273 153 1 -2.87250 0.71819 2016-07-26 15:29:28 2019-01-04 15:01:52 RF02646 Cis8_sRNA 2427 Ruegeria cis8 sRNA Argasinska J Argasinska J 58.00 58.00 57.40 Cis-encoded. Targets hypothetical protein. Higher sRNA expression during C-limited growth. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 90 0 0 Gene; sRNA; Predicted; RNAfold; 91 0 \N 0.51871 -7.86760 1600000 285564 239 128 1 -3.16030 0.71824 2016-08-08 14:19:48 2019-01-04 15:01:52 RF02647 Cis52_sRNA 2427 Ruegeria cis52 sRNA Argasinska J Argasinska J 56.00 56.00 55.30 Cis-encoded. Targets oligo/dipeptide ABC transporter. Functions in transport. Higher sRNA expression during C-limited growth. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 147 0 0 Gene; sRNA; Predicted; RNAfold; 146 0 \N 0.53116 -10.03023 1600000 367315 307 179 1 -3.01760 0.71464 2016-08-08 14:37:01 2019-01-04 15:01:52 RF02648 Cis90_sRNA 2427 Ruegeria cis90 sRNA Argasinska J Argasinska J 50.00 50.50 49.90 Cis-encoded. Targets ABC transporter. Functions in transport. Higher sRNA expression during C-limited growth. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 17 0 0 Gene; sRNA; Predicted; RNAfold; 18 0 \N 0.62887 -9.06155 1600000 344628 371 234 1 -3.52700 0.70959 2016-08-08 14:51:50 2019-01-04 15:01:52 RF02649 Trans44_sRNA 2427 Ruegeria trans44 sRNA Argasinska J Argasinska J 108.00 108.10 70.80 Trans-encoded. Higher sRNA expression during C-limited growth. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 15 0 0 Gene; sRNA; Predicted; RNAfold; 13 0 \N 0.65974 -9.19025 1600000 379161 414 267 1 -3.78580 0.70755 2016-08-09 10:10:48 2019-01-04 15:01:52 RF02650 CncR1 2429 Cag non-coding RNA1 Argasinska J Argasinska J 76.00 76.10 43.30 Encoded by the virulence-associated cag pathogenicity island (cag-PAI). It is an abundant and conserved sRNA which does not target cag-PAI genes, but down-regulates bacterial motility and have positive role on the adhesion to host cells. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; PMID:268638 4 0 \N 0.62060 -8.67780 1600000 426529 349 213 1 -3.54440 0.71116 2016-08-10 14:40:00 2019-01-04 15:01:52 RF02651 SorY 2430 Singlet oxygen resistance RNA Y Argasinska J Argasinska J 111.00 111.30 67.80 Singlet oxygen induced SorY is induced under several stress conditions and conferrs resistance against singlet oxygen by affecting a metabolite transporter. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold; 2 0 \N 0.56930 -8.33839 1600000 375982 178 83 1 -3.39550 0.71887 2016-08-10 14:48:01 2019-01-04 15:01:52 RF02652 StyR-3 2431 Salmonella enterica Typhi npcRNA 3 Argasinska J Argasinska J 59.00 59.20 35.10 Promoter associated sRNA gene that is co-transcribed with the ramA gene (mediates multidrug resistance) and overlaps with the DNA binding site of the RamR repressor. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 5 5 0 0 Gene; sRNA; Predicted; RNAfold; 10 0 \N 0.60547 -5.71550 1600000 240221 263 144 1 -2.86660 0.71820 2016-08-22 10:41:23 2019-01-04 15:01:52 RF02653 StyR-143 2431 Salmonella enterica Typhi npcRNA 143 Argasinska J Argasinska J 176.00 176.40 57.40 Antisense to the 3'-end of ORF of the hypothetical protein-coding t4293 gene. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 0 0 0 Gene; sRNA; Predicted; RNAfold; 2 0 \N 0.56880 -8.58707 1600000 348521 262 144 1 -3.13620 0.71813 2016-08-22 10:49:58 2019-01-04 15:01:52 RF02654 MicL 2432 MicL sRNA Argasinska J Argasinska J 56.00 56.00 55.90 mRNA-interfering complementary RNA regulator of Lpp. Transcription factor sigma E dependant sRNA. Together with MicA and RybB it allows sigma E to repress the synthesis of all abundant outer membrane proteins in response to stress. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 35 0 0 Gene; sRNA; Predicted; RNAfold; 37 0 \N 0.72527 -7.89121 1600000 361581 466 308 1 -3.93800 0.70567 2016-08-24 10:20:16 2019-01-04 15:01:52 RF02655 BSR0441 2371 Brucella BSR0441 sRNA Argasinska J Argasinska J 291.00 291.50 35.40 Plays important role in Brucella's intracellular survival. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 5 1 0 0 Gene; sRNA; Predicted; RNAfold; 6 0 \N 0.66137 -8.39641 1600000 355070 383 240 1 -3.54440 0.70921 2016-08-24 10:51:55 2019-01-04 15:01:52 RF02656 sot0042 1236 Sense overlapping transcript RNA 0042 (sot) Argasinska J Argasinska J 88.00 88.00 86.50 It is associated with IS1341-type transposase (tnpB) genes, at the 3'-end in H. salinarum NRC-1. The tetraloop structural motif may be functional. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 142 0 0 Gene; sRNA; Predicted; RNAfold; 54 0 \N 0.68480 -8.19684 1600000 391387 301 174 1 -3.22460 0.71534 2016-08-24 14:12:13 2019-01-04 15:01:52 RF02657 sot2652 1236 Sense overlapping transcript RNA 2652 (sot) Argasinska J Argasinska J 61.00 61.00 52.90 It is associated with IS1341-type transposase (tnpB) genes, at the 3'-end in H. salinarum NRC-1. The tetraloop structural motif may be functional. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 25 0 0 Gene; sRNA; Predicted; RNAfold; 17 0 \N 0.58380 -9.54614 1600000 352917 316 187 1 -3.20440 0.71366 2016-08-24 14:12:28 2019-01-04 15:01:52 RF02658 IRES_RhPV 2487 Rhopalosiphum padi virus 5'UTR internal ribosome entry site Argasinska J Argasinska J 688.00 688.70 55.10 This IRES element can function efficiently in mammalian, plant and insect translation systems. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 0 0 0 Cis-reg; IRES; Predicted; RNAfold; 1 0 \N 0.68521 -8.15971 1600000 356002 783 579 1 -4.78220 0.69976 2016-09-13 13:24:32 2019-01-04 15:01:52 RF02659 ncRv12659 2178 ncRv12659 sRNA Argasinska J Argasinska J 209.00 209.70 111.50 Original name MTS2048. It is induced during starvation and infection. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold; 2 0 \N 0.59440 -8.70730 1600000 316812 301 174 1 -3.22970 0.71518 2016-09-13 13:41:59 2019-01-04 15:01:52 RF02660 icaR_3p_UTR 2458 icaR 3'UTR Argasinska J Argasinska J 369.00 369.90 357.20 The 3'UTR of icaR mRNA (repressor of the main expolysaccharidic compound of the bacteria biofilm matrix) binding to the 5' UTR can interfere with the translation initiation complex and generate a double stranded substrate for RNaseIII. Mozos at al. showed that the interaction was between UCCCCUG motif in the 3'UTR and the Shine-Dalagarno region at the 5'UTR. Deletion of the motif resulted in IcaR repressor accumulation and inhibition of biofilm development. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Cis-reg; Predicted; RNAfold; 4 0 \N 0.66583 -7.51952 1600000 378320 563 390 1 -3.92390 0.70298 2016-09-13 16:35:05 2019-01-04 15:01:52 RF02661 icaR_5p_UTR 2458 icaR 5' UTR Argasinska J Argasinska J 88.00 88.70 49.20 The 3'UTR of icaR mRNA (repressor of the main expolysaccharidic compound of the bacteria biofilm matrix) binding to the 5' UTR can interfere with the translation initiation complex and generate a double stranded substrate for RNaseIII. Mozos at al. showed that the interaction was between UCCCCUG motif in the 3'UTR and the Shine-Dalagarno region at the 5'UTR. Deletion of the motif resulted in IcaR repressor accumulation and inhibition of biofilm development. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 2 0 0 Cis-reg; Predicted; RNAfold; 4 0 \N 0.57045 -3.19112 1600000 286408 167 75 1 -3.28120 0.71958 2016-09-13 16:35:29 2019-01-04 15:01:52 RF02662 BLi_r0872 2434 Bacillus asRNA 0872 Argasinska J Argasinska J 61.00 61.10 53.00 Antisense RNA against 3' end of Subtilisin Carlsberg encoding mRNA, discovered in an RNA-seq based study. It may have a putative impact on protease production and serve as a target for strain improvement. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 2 0 0 Gene; antisense; Predicted; RNAfold; 3 0 \N 0.56296 -5.74695 1600000 222586 263 144 1 -3.24200 0.71818 2016-09-19 11:47:30 2019-01-04 15:01:52 RF02663 GmglnB1_5p_UTR 2435 GmglnB1 5'UTR Argasinska J Argasinska J 54.00 54.10 38.40 The 5'UTR of the Soybean cytosolic glutamine synthetase gene (Gmglnβ1) contains prokaryotic translation initiation signals and acts as a translational enhancer. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 3 0 0 Cis-reg; Predicted; RNAfold; 2 0 \N 0.56956 -5.26190 1600000 226090 181 85 1 -3.40640 0.71884 2016-09-21 11:55:50 2019-01-04 15:01:52 RF02664 IRES_cyp24a1 2436 Cyp24a1 internal ribosome entry site (IRES) Argasinska J Argasinska J 191.00 191.00 144.80 Cyp24a1 (1,25-dihydroxyvitamin D3 24-hydroxylase) expression is translationally regulated via IRES within the 5'UTR, which is responsive to an inflammatory environment. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 9 0 0 Cis-reg; IRES; Predicted; RNAfold; 9 0 \N 0.72578 -8.64817 1600000 354725 579 404 1 -4.06710 0.70269 2016-09-21 16:28:31 2019-01-04 15:01:52 RF02665 PsiU1-6 1799 Drosophila small cajal body-specific RNA PsiU1-6 Argasinska J Argasinska J 72.00 72.40 57.80 Pseudouridylation guide activity for U1 snRNA and 28s rRNA \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 11 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAfold; 12 0 \N 0.57369 -8.35735 1600000 322421 282 159 1 -2.81690 0.71724 2016-09-26 15:23:43 2019-01-04 15:01:52 RF02666 PsiU2-35.45 1799 Drosophila small cajal body-specific RNA PsiU2-35.45 Argasinska J Argasinska J 89.00 89.70 87.00 Pseudouridylation guide activity for U2 snRNA \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 5 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAfold; 6 0 \N 0.52030 -7.69901 1600000 285950 255 140 1 -3.02030 0.71814 2016-09-27 12:44:29 2019-01-04 15:01:52 RF02667 PsiU2-38.40.42 1799 Drosophila small cajal body-specific RNA PsiU2-38.40.4 Argasinska J Argasinska J 88.00 88.40 52.90 Pseudouridylation guide activity for U2 snRNA \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 11 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAfold; 13 0 \N 0.52167 -7.73212 1600000 274665 250 136 1 -3.08060 0.71816 2016-09-27 14:28:26 2019-01-04 15:01:52 RF02668 PsiU2-55 1799 Drosophila small cajal body-specific RNA PsiU2-55 Argasinska J Argasinska J 55.00 55.30 38.00 Pseudouridylation guide activity for U2 snRNA and 28s rRNA \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 10 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAfold; 10 0 \N 0.63337 -8.20206 1600000 348404 306 178 1 -3.41060 0.71475 2016-09-28 10:41:40 2019-01-04 15:01:52 RF02669 PsiU6-40 1799 Drosophila small cajal body-specific RNA PsiU6-40 Argasinska J Argasinska J 48.00 48.90 33.20 Pseudouridylation guide activity for U6 snRNA \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 9 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAfold; 10 0 \N 0.57654 -7.24871 1600000 270548 259 142 1 -3.13340 0.71831 2016-09-28 10:59:49 2019-01-04 15:01:52 RF02670 scaDm46E3 1799 small Cajal body-specific RNA Dm46E3 Argasinska J Argasinska J 61.00 61.10 31.90 Targets U1b snRNA, a developmentally regulated isoform of the spliceosomal U1 snRNA \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 4 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAfold; 4 0 \N 0.63092 -5.66025 1600000 236581 253 137 1 -2.92580 0.71805 2016-09-28 12:33:16 2019-01-04 15:01:52 RF02671 Ysr35 2437 Yersinia sRNA 35 Argasinska J Argasinska J 428.00 428.30 167.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; RNAfold; 3 0 \N 0.71682 -8.52837 1600000 406724 503 339 1 -4.40830 0.70453 2016-10-04 10:40:04 2021-07-05 13:43:57 RF02672 SprX 2438 Small pathogenicity island RNA X Argasinska J Published; PMID:24557948 80.00 179.70 55.50 SprX was shown to influence antibiotic resistance of the bacteria to Vancomycin and Teicoplanin glycopeptides, which are used to treat MRSA infections. In this study the authors identified a SprX target, stage V sporulation protein G (Spo VG). By reducing Spo VG expression levels, SprX affects S. aureus resistance to the glycopeptide antibiotics. It is involved in regulation of pathogenicity factors.[2] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 15 0 0 Gene; sRNA; Published; PMID:24557948 17 0 \N 0.58381 -8.86101 1600000 384107 271 151 1 -3.29890 0.71796 2016-10-05 16:56:56 2022-05-06 12:10:07 RF02673 scr4677 2421 Streptomyces sRNA 4677 Argasinska J Argasinska J 41.00 41.90 37.10 Located in the intergenic region between anti-sigma factor SCO4677 gene and a putative regulatory protein gene SCO4676. scr4677 expression requires the SCO4677 activity and scr4677 sRNA itself seem to affect the levels of the SCO4676-associated transcripts. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 12 282 0 0 Gene; sRNA; Predicted; PMID:24465751 143 0 \N 0.68111 -9.53852 1600000 456311 400 247 1 -3.65620 0.70863 2016-11-08 13:46:39 2019-01-04 15:01:52 RF02674 AsdA 2431 antisense RNA of dnaA mRNA Argasinska J Argasinska J 52.00 52.20 51.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 208 0 0 Gene; antisense; Predicted; RNAfold; 207 0 \N 0.58394 -7.21520 1600000 309186 174 81 1 -3.62570 0.71890 2016-11-09 10:34:40 2019-01-04 15:01:52 RF02675 Ysr141 2440 Yersinia sRNA 141 Argasinska J Argasinska J 196.00 196.30 194.00 Shown to regulate the synthesis of the type III secretion system (T3SS) effector protein YopJ.The Yop-Ysc T3SS is a critical component of virulence for Yersinia species. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 2 0 0 Gene; sRNA; Predicted; PMID:24532772; 5 0 \N 0.70574 -8.03713 1600000 352237 398 255 1 -3.79400 0.70824 2016-11-16 17:00:11 2021-07-05 13:43:57 RF02676 Esr41 2254 Enterohemorrhagic E. coli sRNA 41 Argasinska J Argasinska J 102.00 102.40 39.30 Enhances cell motility in both enterohemorrhagic E.coli O157:H7 and nonpathogenic E. coli K12. However, the sequence is specific to O157:H7 and not present in K12. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 0 0 0 Gene; sRNA; Predicted; PMID:24646762; 3 0 \N 0.54259 -8.62523 1600000 437690 165 74 1 -3.52450 0.71895 2016-11-21 10:40:15 2019-01-04 15:01:52 RF02677 NsiR4 2442 Nitrogen stress-induced RNA 4 Argasinska J Argasinska J 40.00 40.60 32.90 Former name SyR12, is a cyanobacterial non-coding RNA which plays role in the regulation of Glutamine synthetase (GS), a key enzyme in biological nitrogen assimilation. NsiR4 interacts with the 5'UTR of the mRNA of the GS inactivating factor IF7 (gifA mRNA) and reduces its expression. NsiR4 expression is under positive control of the nitrogen control transcription factor (NtcA). NsR4 is a first example of an sRNA controlling the assimilation of a micronutrient. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 25 0 0 Gene; sRNA; Predicted; RNAalifold; 25 0 \N 0.61623 -8.17109 1600000 575635 149 65 1 -3.62300 0.71905 2016-11-21 16:27:24 2019-01-04 15:01:52 RF02678 Hatchet 2443 Hatchet ribozyme Weinberg Z, Ontiveros-Palacios N Published; PMID:26167874 51.00 54.50 39.60 Hatchet ribozyme was first report in [1] and biochemical analysis report it has self-cleaving activity [2]. The structure of Hatchet ribozyme was reported in PDB 6JQ5 and 6JQ6 [3] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 155 2 0 0 Gene; ribozyme; Published; PMID:26167874 4 0 \N 0.59766 -5.50502 1600000 303381 372 133 1 -2.81430 0.71807 2016-11-28 12:52:20 2022-10-29 16:55:17 RF02679 Pistol 2444 Pistol ribozyme Argasinska J Weinberg Z 34.00 34.00 33.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 45 30 0 0 Gene; ribozyme; Published; PMID:26167874 43 0 \N 0.56235 -8.60917 1600000 494459 149 70 1 -4.17900 0.71969 2016-11-28 14:43:55 2019-01-04 15:01:52 RF02680 PreQ1-III 2445 PreQ1-III riboswitch Argasinska J, Ontiveros-Palacios N Zasha Weinberg, Phillip McCown, Jonathan Liang 63.00 63.40 35.90 A third preQ1-binding (preQ1-III riboswitch that differs structurally from preQ1 (RF00522) and preQ1-II (RF01054) was first reported for McCown et al. 2014 [1]. The structure of preQ1-III has been reported for Mathews et al. 2015 [2], preQ1-III riboswitch aptamer presents four pairing regions P1-P4, organised as a HL out-type pseudoknot in its structure. preQ1-II presents a bipartite architecture, wich permit a dynamic conformational switch involved in the expression platform accessibility. PreQ1-III riboswitch structure was reported in PDB: 4RZD_A [2] and 6XKN_A and 6XKO_A \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 31 85 0 0 Cis-reg; riboswitch; Published; PMID:25036777 13 0 \N 0.56056 -8.12985 1600000 303833 199 102 1 -3.03710 0.71844 2016-11-30 12:50:08 2022-10-29 16:55:17 RF02681 Twister-sister 2446 Twister_sister_ribozyme Weinberg Z Weinberg Z; 0000-0002-6681-3624 37.80 37.80 36.00 Twister-sister is a self-cleaving ribozyme, it was first reported in [1], it resemble twister ribozyme in terms of the connectivity of helices and the sequence of a conserved loop [2] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 35.00 -Z 742849.287494 CM SEQDB 112 1 0 0 Gene; ribozyme; Published; PMID:26167874 3 0 \N 0.63394 -3.65928 1600000 185715 275 83 1 -3.57650 0.71867 2016-11-30 15:37:56 2021-07-05 13:43:57 RF02682 HDV-F-prausnitzii 1388 HDV ribozyme from F. prausnitzii Argasinska J Weinberg Z 44.00 44.10 43.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 48 3005 0 0 Gene; ribozyme; Published; PMID:19965505 50 0 \N 0.53196 -8.58026 1600000 331261 178 74 1 -3.67340 0.71883 2016-11-30 16:09:27 2019-01-04 15:01:52 RF02683 NiCo 2447 NiCo riboswitch Argasinska J, Ontiveros-Palacios N Weinberg Z, Vallery T 34.00 34.00 33.90 NiCo riboswitch responds to transition metals, its structure was reported in [1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 83 397 0 0 Cis-reg; riboswitch; Published; PMID:25794617 198 0 \N 0.66115 -3.88778 1600000 183854 267 96 1 -3.64270 0.71864 2016-12-05 15:04:53 2022-10-29 16:55:17 RF02684 Twister-P5 2448 Type-P5 twister ribozyme Weinberg Z, Ames TD Published; 24240507; 37.60 37.60 37.50 Twister ribozyme motif, present stem P5 variant (type P3) [1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 215 14 0 0 Gene; ribozyme; Published; 24240507; 16 0 \N 0.58648 -8.17274 1600000 440783 248 60 1 -2.96130 0.72662 2016-12-12 15:42:45 2021-07-05 13:43:57 RF02685 RAGATH-5 2449 RAGATH-5 RNA Argasinska J Weinberg Z 50.00 51.50 40.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 39 19 0 0 Gene; ribozyme; Published; PMID:26167874 6 0 \N 0.49202 -9.69159 1600000 574970 122 53 1 -3.81130 0.71923 2016-12-12 16:53:40 2019-01-04 15:01:52 RF02686 RAGATH-6 2449 RAGATH-6 RNA Argasinska J Weinberg Z 170.00 177.40 40.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 0 0 0 Gene; ribozyme; Published; PMID:26167874 1 0 \N 0.44216 -8.50227 1600000 322484 270 151 1 -2.86320 0.71792 2016-12-13 11:07:24 2019-01-04 15:01:52 RF02687 RAGATH-8 2449 RAGATH-8 RNA Weinberg Z Published; PMID:26167874 86.70 86.70 35.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 69 3 0 0 Gene; sRNA; Published; PMID:26167874 4 0 \N 0.67366 -9.29324 1600000 420573 443 276 1 -3.06500 0.70700 2016-12-13 12:59:01 2020-09-14 14:06:17 RF02688 RAGATH-13 2449 RAGATH-13 RNA Argasinska J Weinberg Z 80.00 80.70 34.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 20 51 0 0 Gene; ribozyme; Published; PMID:26167874 32 0 \N 0.63227 -2.72964 1600000 181293 186 95 1 -3.45350 0.71876 2016-12-13 14:13:52 2019-01-04 15:01:52 RF02689 hilD_3p_UTR 2450 hilD 3'UTR Argasinska J Argasinska J 74.00 74.10 35.00 Target for hilD mRNA degradation by the degradosome and it may play an role in hilD and SPI-1 expression by serving as a target for the Hfq RNA chaperone. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 5 5 0 0 Cis-reg; Predicted; RNAfold; 8 0 \N 0.56982 -9.32388 1600000 389662 464 310 1 -3.82940 0.70554 2017-01-10 11:32:26 2019-01-04 15:01:52 RF02690 BTH_s1 2452 Burkholderia sRNA 1 Argasinska J Argasinska J 74.00 74.20 33.60 Trans-encoded, exhibits differential expression profiles dependent on growth phase and cell stimuli, such as antbiotics and serum. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 5 12 0 0 Gene; sRNA; Predicted; RNAfold; 16 0 \N 0.62657 -8.85638 1600000 343730 337 205 1 -3.41090 0.71195 2017-01-11 10:47:51 2019-01-04 15:01:52 RF02691 BTH_s19 2452 Burkholderia sRNA 19 Argasinska J Argasinska J 153.00 153.10 38.20 Cis-encoded, located in the 5'UTR of their cognate gene. Expression correlated with tight regulation of the gene transcript levels. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 7 11 0 0 Gene; sRNA; Predicted; RNAfold; 17 0 \N 0.65650 -8.78082 1600000 359656 358 224 1 -3.62280 0.71031 2017-01-16 12:04:17 2019-01-04 15:01:52 RF02692 BTH_s39 2452 Burkholderia sRNA 39 Argasinska J Argasinska J 77.00 77.70 66.40 Trans-encoded, exhibits differential expression profiles dependent on growth phase and cell stimuli, such as antbiotics and serum. May function in bacterial metabolism and adaptation to the host.[1] Shown to be expressed in biotin. Named ncS63 in[2]. Significantly up-regulated in response to low iron. Its 5'-adjacent gene BCAL2297 encoding hemin-uptake protein HemP, is up-regulated to the same fold change. Expression and target genes suggest a potential role in regulating iron homoeostasis[2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 7 56 0 0 Gene; sRNA; Predicted; RNAfold; 61 0 \N 0.66135 -5.29808 1600000 225633 241 130 1 -3.13140 0.71834 2017-01-17 10:51:51 2019-01-10 15:16:02 RF02693 psm_mec_RNA 2453 psm_mec locus RNA Argasinska J Argasinska J 85.00 85.70 63.30 psm_mec locus strain dependent gene (immune evasion factor protein A) regulatory RNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 2 0 0 Gene; sRNA; Predicted; RNAfold; 6 0 \N 0.43873 -8.93538 1600000 340945 293 143 1 -3.09950 0.71796 2017-01-17 15:54:15 2019-01-04 15:01:52 RF02694 RalA 2254 RalR antitoxin Argasinska J Argasinska J 170.00 170.30 47.30 Trans-encoded, has 16 nucleotides complimentary to coding region of toxin RalR mRNA. RalA functions as an antitoxin by preventing translation of RalR (a non-specific endonuclease that cleaves methylated and unmethylated DNA). Its activity requires RNA chaperone Hfq. RalR and RalA form a type I toxin-antitoxin (TA) system. RalR/RaLA TA locus is responsible for resistance to the antibiotic fosfomycin in E.coli. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 10 1 0 0 Gene; sRNA; Predicted; PMID:24748661; 11 0 \N 0.60157 -8.51280 1600000 395549 306 179 1 -3.17190 0.71473 2017-01-24 11:41:53 2019-01-04 15:01:52 RF02695 NrsZ 2455 Nitrogen regulated small RNA Argasinska J Argasinska J 76.90 76.90 76.10 Found in the opportunistic pathogen Pseudomonas aeruginosa PAO1. Its transcription is induced during nitrogen limitation by the NtrB/C two-component system (an important regulator of nitrogen assimilation and swarming motility) together with the alternative sigma factor RpoN (a global regulator involved in nitrogen metabolism). By activating rhlA (a gene essential for rhamnolipids synthesis) it positively regulates the production of rhamnolipid surfactants needed for swarming motility. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 37 0 0 Gene; sRNA; Predicted; PMID:24308329; 32 0 \N 0.64750 -9.84042 1600000 394148 372 236 1 -3.73630 0.70946 2017-01-25 11:03:17 2019-01-04 15:01:52 RF02696 Teg49 2456 Teg49 sRNA Argasinska J Argasinska J 186.00 186.40 56.10 Present in the extended promoter region of the staphylococcal accessory regulator sarA. It is modulated by sigB (sarA regulator) and cshA (an ATP-dependant DEAD box RNA helicase) and it most likely contributes to virulence of S. aureus by modulating SarA expression. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 1 0 0 Gene; sRNA; Predicted; PMID: 25092913; 7 0 \N 0.46335 -9.84924 1600000 335274 327 196 1 -3.04630 0.71261 2017-01-25 12:07:44 2021-07-05 13:43:57 RF02697 LDH1_5p_UTR 2457 LDH1 5'UTR Argasinska J Argasinska J 113.00 113.50 35.40 the translational repression of lactate dehydrogenase 1 (LDH1) is mediated through its 5'UTR. A small 16 nucleotide long regulatory RNA hairpin is essential for the repression. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 2 0 0 Cis-reg; Predicted; PMID:25223457; 6 0 \N 0.51525 -6.91296 1600000 269347 205 102 1 -3.65900 0.71854 2017-01-25 16:26:44 2019-01-04 15:01:52 RF02698 Avalong_thermometer 2510 Avalong 5' UTR thermometer Argasinska J Argasinska J 154.00 154.80 50.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Cis-reg; thermoregulator; Predicted; PMID:24755616; 2 0 \N 0.60655 -4.41643 1600000 203277 244 131 1 -2.84350 0.71815 2017-02-06 11:16:00 2022-10-29 16:55:17 RF02699 Avashort_thermometer 2510 Avashort 5' UTR thermometer Argasinska J Argasinska J 88.00 88.60 41.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Cis-reg; thermoregulator; Predicted; PMID:24755616; 2 0 \N 0.54375 -8.33420 1600000 439107 145 59 1 -2.74170 0.72764 2017-02-06 11:16:32 2022-10-29 16:55:17 RF02700 HtrA_thermometer 2187 HtrA 5' UTR thermometer Argasinska J Argasinska J 52.00 53.70 49.00 FourU thermometer found in the 5'UTR of Salmonella htrAp3 and E. coli htrA genes (high temperature requirement A gene). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 12 0 0 Cis-reg; thermoregulator; Published; PMID:28739676; 16 0 \N 0.62518 -4.12194 1600000 441778 121 46 1 -4.03170 0.71954 2017-02-06 11:17:05 2022-10-29 16:42:07 RF02701 PsrR1 2462 Photosynthesis regulatory RNA1 Argasinska J Georg et al, PMID:25248550 42.00 42.00 41.30 Formerly known as Syr1 discovered in Synechocystis sp PCC 6803, is a regulatory factor controlling photosynthetic functions. PsrR1 interacts with the ribosome binding regions of several photosynthesis-related mRNAs. In particular, psaL mRNA is processed by RNase E only in the presence of PsrR1. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 13 46 0 0 Gene; sRNA; Predicted; CMfinder 39 0 \N 0.54036 -6.66673 1600000 195614 242 78 1 -3.36120 0.71878 2017-02-07 12:40:52 2021-07-05 13:43:57 RF02702 AgvB 2463 Anti GcvB sRNA Argasinska J Argasinska J 56.00 56.20 52.90 Inhibits GcvB sRNA repression. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 3 0 0 Gene; sRNA; Predicted; RNAfold; 6 0 \N 0.54702 -8.35557 1600000 452782 146 62 1 -3.48830 0.71925 2017-02-08 16:51:17 2019-01-04 15:01:52 RF02703 AsxR 2463 Anti stx2 sRNA Argasinska J Argasinska J 63.00 63.10 51.90 Increases expression of the ChuS heme oxygenase via destabilisation of FnrS sRNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 9 0 0 Gene; sRNA; Predicted; RNAfold; 11 0 \N 0.48893 -7.30584 1600000 378377 137 53 1 -2.88360 0.73107 2017-02-08 17:04:41 2019-01-04 15:01:52 RF02704 LcrF_thermometer 2511 LcrF intergenic thermometer Argasinska J Argasinska J 169.00 169.60 43.50 Intergenic two hairpin RNA thermometer (usually RNAT are in the 5'UTR). Together with the termo-labile YmoA protein it activates synthesis of the most crucial virulence activator LcrF (VirF). The sequence is 100% identical in all human pathogenic Yersinia species suggesting the importance of this structure. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Cis-reg; thermoregulator; Predicted; PMID:22359501; 3 0 \N 0.51990 -6.02646 1600000 239780 247 133 1 -2.78770 0.71810 2017-02-20 10:33:34 2022-10-29 16:55:17 RF02705 B_rapa_snoR775 2512 Brassica rapa small nucleolar RNA 775 Argasinska J Argasinska J 64.00 64.10 55.80 Name based on close proximity to miR775. Precursors of both are encoded by a single gene sno-miR775. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 20 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; 26607788; 8 0 \N 0.46337 -7.45507 1600000 293961 239 127 1 -2.96640 0.71822 2017-02-28 14:28:54 2019-01-04 15:01:52 RF02706 TeloSII_ncR30 2513 TeloSII non coding RNA 30 Argasinska J Argasinska J 86.00 86.80 41.30 Located downstream of the TeloSII elements. These elements have been shown to coordinate the expression of protein-coding gene related to ribosome biogenesis throughout the cell cycle in Arabidopsis. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 14 0 0 Gene; sRNA; Predicted; RNAfold 7 0 \N 0.58191 -10.61665 1600000 470911 364 226 1 -3.52010 0.71002 2017-02-28 14:33:15 2019-01-04 15:01:52 RF02707 TeloSII_ncR33 2513 TeloSII non coding RNA 33 Argasinska J Argasinska J 105.00 105.30 72.00 Located downstream of the TeloSII elements. These elements have been shown to coordinate the expression of protein-coding gene related to ribosome biogenesis throughout the cell cycle in Arabidopsis. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 18 0 0 Gene; sRNA; Predicted; RNAfold 8 0 \N 0.57894 -9.29986 1600000 436454 450 297 1 -3.51580 0.70610 2017-02-28 14:34:01 2019-01-04 15:01:52 RF02708 TeloSII_ncR40 2513 TeloSII non coding RNA 40 Argasinska J Argasinska J 186.00 186.50 40.30 Located downstream of the TeloSII elements. These elements have been shown to coordinate the expression of protein-coding gene related to ribosome biogenesis throughout the cell cycle in Arabidopsis. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 5 0 0 Gene; sRNA; Predicted; RNAfold 3 0 \N 0.57548 -8.04341 1600000 283881 285 162 1 -3.31540 0.71675 2017-02-28 14:42:30 2019-01-04 15:01:52 RF02709 TeloSII_ncR43 2513 TeloSII non coding RNA 43 Argasinska J Argasinska J 298.00 298.40 41.90 Located downstream of the TeloSII elements. These elements have been shown to coordinate the expression of protein-coding gene related to ribosome biogenesis throughout the cell cycle in Arabidopsis. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 2 0 0 Gene; sRNA; Predicted; RNAfold 1 0 \N 0.61920 -9.71358 1600000 441333 448 277 1 -3.63500 0.70695 2017-02-28 14:45:09 2019-01-04 15:01:52 RF02710 TeloSII_ncR45 2513 TeloSII non coding RNA 45 Argasinska J Argasinska J 101.00 101.60 39.50 Located downstream of the TeloSII elements. These elements have been shown to coordinate the expression of protein-coding gene related to ribosome biogenesis throughout the cell cycle in Arabidopsis. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold 1 0 \N 0.58535 -3.52074 1600000 235219 159 69 1 -3.44660 0.72238 2017-02-28 14:45:58 2019-01-04 15:01:52 RF02711 TeloSII_ncR49 2513 TeloSII non coding RNA 49 Argasinska J Argasinska J 55.00 55.10 53.60 Located downstream of the TeloSII elements. These elements have been shown to coordinate the expression of protein-coding gene related to ribosome biogenesis throughout the cell cycle in Arabidopsis. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 4 0 0 Gene; sRNA; Predicted; RNAfold 2 0 \N 0.51393 -3.03199 1600000 172148 184 89 1 -3.43350 0.71864 2017-02-28 14:46:23 2019-01-04 15:01:52 RF02712 EBER2 2479 Epstein-Barr virus EBER2 Quinones-Olvera N Quinones-Olvera N 200.00 217.30 69.80 Highly structured, non-coding RNA highly abundant in EBV-infected cells during latency. Contributes to oncogenesis by promoting growth of tumor cells and by inducing apoptosis resistance. Known interactions include paired PAX5 and cellular protein La. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 3 0 0 Gene; sRNA; Published; PMID:25662012 1 0 \N 0.63948 -7.15688 1600000 241356 300 173 1 -3.28040 0.71542 2017-03-07 11:18:33 2022-05-06 11:43:54 RF02713 MCS4 2213 Mycoplasma sRNA MCS4 Quinones-Olvera N Quinones-Olvera N 56.00 56.10 53.50 Abundant, small RNA of unknown function, found only in Mycoplasma. Extensive sequence similarity to eukaryotic U6 snRNAs. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 50.00 -Z 549862.597050 --mxsize 128 CM SEQDB 5 6 0 0 Gene; sRNA; Published; PMID:9498566 7 0 \N 0.44061 -9.55082 1600000 339649 233 123 1 -3.17360 0.71834 2017-03-07 11:43:41 2019-01-04 15:01:52 RF02714 snopsi28S-3378 1264 Small nucleolar RNA psi28S-3378 Quinones-Olvera N Quinones-Olvera N 136.00 136.40 37.80 psi28S-3378 is a member of the H/ACA class of snoRNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 8 9 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; CMfinder; 10 0 \N 0.52790 -8.19609 1600000 302446 265 145 1 -3.10460 0.71821 2017-03-07 11:51:53 2019-01-04 15:01:52 RF02715 sno_ncR1 2513 Small nucleolar RNA ncR1 Argasinska J Argasinska J 94.00 108.40 37.70 Type H/ACA. Orphan. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 7 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; RNAfold 2 0 \N 0.50223 -6.48594 1600000 199302 215 111 1 -3.33890 0.71840 2017-03-07 16:01:46 2022-10-29 16:55:17 RF02716 sno_ncR3 2513 Small nucleolar RNA ncR3 Argasinska J Argasinska J 88.00 88.50 48.50 Type C/D. Target 18S. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAfold 1 0 \N 0.63068 -5.50363 1600000 341680 163 75 1 -3.90190 0.71882 2017-03-07 16:20:09 2022-10-29 16:55:17 RF02717 sno_ncR4 2513 Small nucleolar RNA ncR4 Argasinska J Argasinska J 103.00 103.90 34.10 Type C/D. Target 18S. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 1 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAfold 2 0 \N 0.68848 -2.94481 1600000 246077 175 82 1 -3.59640 0.71881 2017-03-07 16:23:22 2022-10-29 16:55:17 RF02718 sca_ncR14 2513 Small Cajal body specific RNA ncR14 Argasinska J Argasinska J 62.00 62.40 32.20 Type C/D. Putative target U6.26. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 12 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAfold 8 0 \N 0.67299 -4.03413 1600000 227993 242 131 1 -3.20030 0.71838 2017-03-07 16:24:32 2019-01-04 15:01:52 RF02719 sca_ncR20 2513 Small Cajal body specific RNA ncR20 Argasinska J Argasinska J 127.00 127.00 37.20 Type C/D. Putative target U6-29. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAfold 1 0 \N 0.46069 -8.91491 1600000 373678 208 104 1 -3.30060 0.71848 2017-03-07 16:25:03 2019-01-04 15:01:52 RF02720 sca_ncR21 2513 Small Cajal body specific RNA ncR21 Argasinska J Argasinska J 113.00 113.40 39.10 Type C/D. Putative target U2.4. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 3 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAfold 2 0 \N 0.57340 -3.31150 1600000 239849 216 111 1 -3.37840 0.71847 2017-03-07 16:25:32 2019-01-04 15:01:52 RF02721 sca_ncR26 2513 Small Cajal body specific RNA ncR26 Argasinska J Argasinska J 37.00 37.20 36.60 Type C/D. Putative target U6.1. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 12 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAfold 9 0 \N 0.54944 -4.03890 1600000 232690 157 68 1 -3.09130 0.72636 2017-03-07 16:26:02 2019-01-04 15:01:52 RF02722 sca_ncR27 2513 Small Cajal body specific RNA ncR27 Argasinska J Argasinska J 91.00 91.90 36.10 Type C/D. Putative target U6.1. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 3 0 0 Gene; snRNA; snoRNA; scaRNA; Predicted; RNAfold 5 0 \N 0.58961 -5.42754 1600000 283346 174 83 1 -3.73290 0.71877 2017-03-07 16:26:30 2019-01-04 15:01:52 RF02723 sno_ZL1 1264 Small nucleolar RNA ZL1 Argasinska J Argasinska J 64.00 64.30 63.90 Host gene TRRAP. Predicted target U2@U47. Only GU-rich region is homologous to other known snoRNAs. Conserved in vertebrates. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 68 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAfold 67 0 \N 0.65153 -8.13619 1600000 369153 326 196 1 -3.39550 0.71270 2017-03-07 16:26:56 2022-10-29 16:55:16 RF02724 sno_ZL2 1264 Small nucleolar RNA ZL2 Argasinska J Argasinska J 50.00 50.90 49.00 Host gene TNPO2. Predicted target 28S@U4276, U4571. Previously described as SNORD41B. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 35 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAfold 35 0 \N 0.62297 -3.64600 1600000 259561 166 77 1 -3.11910 0.71899 2017-03-07 16:27:48 2022-10-29 16:55:16 RF02725 sno_ZL8 1264 Small nucleolar RNA ZL8 Argasinska J Argasinska J 52.00 60.40 47.20 Host gene C6orf48. No homologs outside of mammals. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 30 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAfold 23 0 \N 0.66816 -2.31916 1600000 171314 176 83 1 -3.68590 0.71894 2017-03-07 16:28:23 2022-10-29 16:55:16 RF02726 sno_ZL63 1264 Small nucleolar RNA ZL63 Argasinska J Argasinska J 50.00 50.10 37.10 Host gene FZD6. The authors call it a mini-snoRNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 8 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAfold 8 0 \N 0.64793 -4.09276 1600000 361776 121 43 1 -3.52760 0.72673 2017-03-08 15:14:33 2022-10-29 16:42:07 RF02727 sno_ZL116 1264 Small nucleolar RNA ZL116 Argasinska J Argasinska J 82.00 88.40 44.70 Host gene SUPT5H. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 9 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAfold 10 0 \N 0.67109 -3.06279 1600000 215514 161 72 1 -3.75640 0.71903 2017-03-08 15:14:59 2022-10-29 16:42:07 RF02728 HrrF 2514 Haemophilus regulatory RNA responsive to iron Argasinska J Santana et al, PMID:25157846 77.00 77.00 45.10 Involved in iron homeostasis in Haemophilus species. Orthologues exist only among other Pasteurellacae. It is an analog to PrrF and RyhB RNAs. HrrF is maximally expressed when iron levels are low. Ferric uptake regulator (Fur) binds upstream of the hrrF promoter. HrrF stability is not dependant on the RNA chaperone Hfq. RNA-seq has shown that that HrrF targets are mRNAs of genes whose products are involved in molybdate uptake, deoxyribonucleotide synthesis, and amino acid synthesis. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 7 13 0 0 Gene; sRNA; Predicted; CMfinder 17 0 \N 0.50168 -8.66264 1600000 356755 340 116 1 -3.11540 0.71848 2017-03-14 16:52:58 2019-01-04 15:01:52 RF02729 JA01 2515 Aggregatibacter sRNA JA01 Argasinska J Argasinska J 111.00 111.80 42.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; RNAfold 4 0 \N 0.50922 -7.37652 1600000 308676 274 153 1 -2.73300 0.71802 2017-03-14 16:53:47 2019-01-04 15:01:52 RF02730 JA02 2515 Aggregatibacter sRNA JA02 Argasinska J Argasinska J 49.00 49.00 48.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 2 0 0 Gene; sRNA; Predicted; RNAfold 6 0 \N 0.44911 -8.20066 1600000 358613 222 116 1 -2.73780 0.71829 2017-03-14 16:54:05 2019-01-04 15:01:52 RF02731 JA03 2515 Aggregatibacter sRNA JA03 Argasinska J Argasinska J 44.00 44.30 43.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 13 0 0 Gene; sRNA; Predicted; RNAfold 15 0 \N 0.62302 -8.00402 1600000 382318 423 274 1 -3.57420 0.70713 2017-03-14 16:54:23 2019-01-04 15:01:52 RF02732 JA04 2515 Aggregatibacter sRNA JA04 Argasinska J Argasinska J 81.00 81.40 65.10 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 6 14 0 0 Gene; sRNA; Predicted; RNAfold 14 0 \N 0.48500 -6.49589 1600000 347056 171 81 1 -2.97430 0.71867 2017-03-14 16:56:18 2019-01-04 15:01:52 RF02733 ToxT_thermometer 2187 ToxT 5' UTR thermometer Argasinska J Argasinska J 81.00 81.00 35.70 Controls temperature-dependant translation of toxT, facilitating V. cholerae virulance. At human body temperature, the thermometer structure opens and to allow transcriptional activator protein ToxT translation. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Cis-reg; thermoregulator; Predicted; PMID:25228776; 4 0 \N 0.53822 -4.44054 1600000 233065 177 71 1 -3.62090 0.71897 2017-03-28 16:19:36 2019-01-04 15:01:52 RF02734 Cgb105 2516 Corynebacterium sRNA 105 Argasinska J Argasinska J 163.00 163.50 32.20 Absent under heat stress conditions. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold 2 0 \N 0.69046 -4.88790 1600000 225636 249 134 1 -3.35490 0.71838 2017-03-29 16:23:07 2019-01-04 15:01:52 RF02735 Sernc350 2517 Saccharopolyspora sRNA 350 Argasinska J Argasinska J 50.00 50.60 39.30 Probably regulates terpene metabolism. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 463 0 0 Gene; antisense; Predicted; RNAfold; 278 0 \N 0.64207 -9.11280 1600000 310051 698 508 1 -4.02720 0.70074 2017-03-29 16:39:23 2019-01-04 15:01:52 RF02736 Rev11 2518 Soft rot Enterobacteriaceae Rev 11 asRNA Argasinska J Argasinska J 91.30 91.30 91.20 From bacteria cultured under starvation conditions. Antisense to ECA3028. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 46 0 0 Gene; antisense; Predicted; RNAfold 47 0 \N 0.75870 -7.58960 1600000 319266 593 417 1 -4.34770 0.70234 2017-04-18 12:32:17 2019-01-04 15:01:52 RF02737 Rev13 2518 Soft rot Enterobacteriaceae Rev 13 asRNA Argasinska J Argasinska J 242.00 242.60 50.90 From bacteria cultured under starvation conditions. Antisense to ECA0388. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Gene; antisense; Predicted; RNAfold 3 0 \N 0.68175 -7.64879 1600000 335908 515 354 1 -4.09930 0.70397 2017-04-18 12:52:17 2019-01-04 15:01:52 RF02738 Rev24 2518 Soft rot Enterobacteriaceae Rev 24 asRNA Argasinska J Argasinska J 246.00 246.50 230.30 From bacteria cultured under starvation conditions. Antisense to rcsC. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 7 0 0 Gene; antisense; Predicted; RNAfold 9 0 \N 0.67172 -8.63001 1600000 328704 674 489 1 -4.45680 0.70098 2017-04-18 12:54:13 2019-01-04 15:01:52 RF02739 Rev41 2518 Soft rot Enterobacteriaceae Rev 41 sRNA Argasinska J Argasinska J 535.00 535.20 145.00 From bacteria cultured under starvation conditions. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; RNAfold 3 0 \N 0.71393 -8.71468 1600000 353446 667 480 1 -4.52130 0.70119 2017-04-18 13:59:21 2019-01-04 15:01:52 RF02740 Fwd6_3p_UTR 2518 Soft rot Enterobacteriaceae Fwd 6 3'UTR Argasinska J Argasinska J 79.00 79.90 38.80 From bacteria cultured under starvation conditions. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 5 0 0 Cis-reg; Predicted; RNAfold 7 0 \N 0.44366 -8.86520 1600000 363204 224 116 1 -2.93100 0.71828 2017-04-18 14:27:53 2019-01-04 15:01:52 RF02741 Rev44 2518 Soft rot Enterobacteriaceae Rev 44 asRNA Argasinska J Argasinska J 178.00 178.10 33.50 From bacteria cultured under starvation conditions. Antisense to ECA0910. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 2 0 0 Gene; antisense; Predicted; RNAfold 4 0 \N 0.68868 -8.86677 1600000 358632 498 336 1 -3.82480 0.70460 2017-04-18 14:30:29 2019-01-04 15:01:52 RF02742 Rev72 2518 Soft rot Enterobacteriaceae Rev 72 asRNA Argasinska J Argasinska J 289.00 289.60 63.30 From bacteria cultured under starvation conditions. Antisense to gudP. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Gene; antisense; Predicted; RNAfold 3 0 \N 0.72966 -8.44619 1600000 402990 602 426 1 -4.21830 0.70213 2017-04-18 14:31:16 2019-01-04 15:01:52 RF02743 Sernc389 2517 Saccharopolyspora sRNA 389 Argasinska J Argasinska J 74.00 74.20 44.90 Probably regulates polyketide biosynthesis. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 33 0 0 Gene; antisense; Predicted; RNAfold; 21 0 \N 0.65349 -8.95659 1600000 311262 801 595 1 -4.33440 0.69962 2017-04-24 11:08:21 2019-01-04 15:01:52 RF02744 Rev39_5p_UTR 2518 Soft rot Enterobacteriaceae Rev 39 5'UTR Argasinska J Argasinska J 88.00 88.60 86.30 From bacteria cultured under starvation conditions. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 113 0 0 Cis-reg; Predicted; RNAfold 113 0 \N 0.76526 -7.24521 1600000 353540 454 300 1 -3.90440 0.70596 2017-04-24 13:52:56 2019-01-04 15:01:52 RF02745 Rev42_5p_UTR 2518 Soft rot Enterobacteriaceae Rev 42 5'UTR Argasinska J Argasinska J 229.00 229.40 129.90 From bacteria cultured under starvation conditions. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 3 0 0 Cis-reg; Predicted; RNAfold 5 0 \N 0.73693 -7.83576 1600000 338752 921 443 1 -4.70160 0.70181 2017-04-24 13:55:06 2019-01-04 15:01:52 RF02746 AsrC 2519 antisense RNA of rseC mRNA Argasinska J Argasinska J 111.00 111.50 110.30 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 7 61 0 0 Gene; antisense; Predicted; RNAfold 63 0 \N 0.75025 -8.09528 1600000 297923 1200 886 1 -5.39770 0.69748 2017-04-24 14:23:18 2019-01-04 15:01:52 RF02747 FtrA 2520 Francisella sRNA A Argasinska J Argasinska J 134.00 134.20 41.10 Deletion led to significant changes in the expression of several mRNAs. However, it did not alter Francisella's growth under stress condition or its ability to induce disease in a mouse model. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 5 1 0 0 Gene; sRNA; Predicted; RNAfold 6 0 \N 0.46068 -8.03468 1600000 321304 217 111 1 -3.11760 0.71828 2017-04-24 14:52:09 2019-01-04 15:01:52 RF02748 FtrB 2520 Francisella sRNA B Argasinska J Argasinska J 66.00 66.00 53.70 Deletion led to significant changes in the expression of several mRNAs. However, it did not alter Francisella's growth under stress condition or its ability to induce disease in a mouse model. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 5 3 0 0 Gene; sRNA; Predicted; RNAfold 6 0 \N 0.49689 -7.65678 1600000 296268 221 115 1 -3.11650 0.71834 2017-04-24 14:52:49 2019-01-04 15:01:52 RF02749 Ncrwmel02 2423 Wolbachia sRNA mel02 Argasinska J Argasinska J 290.80 290.80 101.30 May play role in the interaction with the host. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; sRNA; Predicted; RNAfold 7 0 \N 0.67077 -7.70667 1600000 391539 396 251 1 -3.56050 0.70848 2017-04-25 14:09:25 2021-07-05 13:43:57 RF02750 ES003 2254 ES003 sRNA Argasinska J Argasinska J 37.00 37.10 35.20 Differentially expressed under several chemical stress and fermentation conditions. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 12 0 0 Gene; sRNA; Predicted; RNAfold 20 0 \N 0.55855 -8.96319 1600000 597219 132 53 1 -4.08600 0.71943 2017-05-02 11:21:51 2022-05-06 11:43:53 RF02751 ES036 2254 ES036 (CssrF) sRNA Argasinska J Argasinska J 37.60 37.60 37.30 Differentially expressed under several chemical stress conditions. Also identified in Shigella as CssrF [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 50 0 0 Gene; sRNA; Predicted; RNAfold 10 0 \N 0.61216 -5.29433 1600000 469213 117 43 1 -3.70730 0.72278 2017-05-02 11:29:04 2022-05-06 11:43:53 RF02752 ES056 2254 ES056 sRNA Argasinska J Argasinska J 43.00 43.60 40.20 Differentially expressed under several chemical stress and fermentation conditions. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 11 0 0 Gene; sRNA; Predicted; RNAfold 17 0 \N 0.52713 -6.01272 1600000 215332 190 92 1 -3.62270 0.71872 2017-05-02 11:32:57 2022-05-06 12:10:05 RF02753 ES173 2254 ES173 sRNA Argasinska J Argasinska J 90.00 92.90 74.30 Differentially expressed under several chemical stress conditions. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 2 0 0 Gene; sRNA; Predicted; RNAfold 6 0 \N 0.59080 -5.91212 1600000 417719 149 64 1 -3.41090 0.71911 2017-05-02 11:34:44 2022-05-06 11:43:53 RF02754 ES205 2254 ES205 sRNA Argasinska J Argasinska J 86.00 101.50 36.60 Differentially expressed under several chemical stress and fermentation conditions. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 3 0 0 Gene; sRNA; Predicted; RNAfold 8 0 \N 0.50417 -7.61888 1600000 273874 161 72 1 -3.39770 0.71896 2017-05-02 11:35:24 2022-05-06 11:43:53 RF02755 ES222 2254 ES222 sRNA Argasinska J Argasinska J 62.00 63.80 58.50 Differentially expressed under several chemical stress and fermentation conditions. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 24 0 0 Gene; sRNA; Predicted; RNAfold 29 0 \N 0.54648 -5.83251 1600000 220712 213 108 1 -3.49510 0.71854 2017-05-02 11:36:48 2021-11-19 10:36:03 RF02756 ES239 2254 ES239 sRNA Argasinska J Argasinska J 62.00 147.00 39.90 Differentially expressed under several chemical stress and fermentation conditions. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 3 0 0 Gene; sRNA; Predicted; RNAfold 8 0 \N 0.52674 -8.53739 1600000 315492 234 123 1 -3.10500 0.71813 2017-05-02 11:37:13 2022-05-06 11:43:53 RF02757 Erse 2254 Erse small RNA Argasinska J Argasinska J 138.00 138.70 137.50 May be essential for survival. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 6 29 0 0 Gene; sRNA; Predicted; RNAfold 34 0 \N 0.73133 -8.20159 1600000 443208 395 252 1 -3.89800 0.70845 2017-05-09 10:34:34 2019-01-04 15:01:52 RF02758 RhlA_thermometer 1694 RhlA 5' UTR ROSE like thermometer Argasinska J Grosso-Becerra et al, PMID:25313031 85.00 85.70 75.70 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 1 0 0 Cis-reg; thermoregulator; Predicted; PMID:25313031; 5 0 \N 0.64802 -3.41798 1600000 209846 216 110 1 -3.34290 0.71849 2017-05-09 10:41:02 2019-01-04 15:01:52 RF02759 LasI_thermometer 1694 LasI 5' UTR ROSE like thermometer Argasinska J Grosso-Becerra et al, PMID:25313031 76.00 76.80 40.10 ROSE-like thermometer in the 5'UTR blocks the translation at lower temperature. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Cis-reg; thermoregulator; Predicted; PMID:25313031; 3 0 \N 0.51698 -7.68687 1600000 233992 216 110 1 -3.33730 0.71843 2017-05-09 10:41:40 2019-01-04 15:01:52 RF02760 sR035 2440 sR035 sRNA Argasinska J Argasinska J 233.00 233.50 46.10 Temperature-dependent expression pattern. Potentially involved in Y. pestis pathogenesis. Predicted target is ymoA, a thermo-sensitive regulator. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; RNAfold 4 0 \N 0.69636 -8.18647 1600000 371916 341 206 1 -3.53970 0.71188 2017-05-17 10:26:05 2019-01-04 15:01:52 RF02761 sR084 2440 sR084 sRNA Argasinska J Argasinska J 95.00 99.10 38.30 Temperature-dependent expression pattern. Potentially involved in Y. pestis pathogenesis. Predicted target is fur, ferric uptake regulator. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; RNAfold 3 0 \N 0.53995 -8.10110 1600000 314081 169 78 1 -3.59280 0.71901 2017-05-17 10:26:48 2019-01-04 15:01:52 RF02762 C1_109596F_thermometer 2420 C1_109596F 5' UTR thermometer Argasinska J Argasinska J 125.00 125.30 30.20 May regulate translation of the major cold shock protein cspA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 2 0 0 Cis-reg; thermoregulator; Predicted; RNAfold 3 0 \N 0.71997 -8.24191 1600000 398081 367 227 1 -3.47170 0.71000 2017-05-17 10:27:20 2019-01-04 15:01:52 RF02763 IsrM 2521 IsrM sRNA Argasinska J Argasinska J 376.00 376.20 115.40 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold 2 0 \N 0.71712 -8.53504 1600000 434805 488 329 1 -4.17170 0.70482 2017-05-17 10:28:12 2022-05-06 11:43:55 RF02764 Ysr190 2437 Yersinia sRNA 190 Argasinska J Argasinska J 66.00 66.20 62.20 The sRNA was identified by [2] and is confirmed to have a stable secondary structure by [1] using genome-wide structure probing at different temperatures. The function is unknown. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 9 0 0 Gene; sRNA; Predicted; PMID:27298343; 13 0 \N 0.50457 -6.16955 1600000 288072 204 102 1 -3.24890 0.71843 2017-06-07 14:05:11 2019-01-04 15:01:52 RF02765 Ysr209 2437 Yersinia sRNA 209 Argasinska J Argasinska J 59.00 59.20 52.30 The sRNA was identified by [2] and is confirmed to have a stable secondary structure by [1] using genome-wide structure probing at different temperatures. The function is unknown. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 4 0 0 Gene; sRNA; Predicted; PMID:27298343; 8 0 \N 0.50537 -9.21413 1600000 523901 122 46 1 -3.55820 0.71946 2017-06-07 14:10:59 2019-01-04 15:01:52 RF02766 Ysr49 2437 Yersinia sRNA 49 Argasinska J Argasinska J 95.00 95.20 61.30 The sRNA was identified by [2] and is confirmed to have a stable secondary structure by [1] using genome-wide structure probing at different temperatures. The function is unknown. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 3 0 0 Gene; sRNA; Predicted; PMID:27298343; 5 0 \N 0.54517 -8.65542 1600000 358589 235 124 1 -3.31660 0.71821 2017-06-07 14:15:54 2019-01-04 15:01:52 RF02767 Ysr186_sR026_CsrC 2437 Yersinia sRNA 186/sR026/CsrC Argasinska J Argasinska J 279.00 279.70 95.10 The sRNA was identified by [2] and is confirmed to have a stable secondary structure by [1] using genome-wide structure probing at different temperatures. The function is unknown. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 3 0 0 Gene; sRNA; Predicted; PMID:27298343; 7 0 \N 0.67579 -8.97635 1600000 439635 482 325 1 -3.86590 0.70502 2017-06-07 14:35:34 2021-07-05 13:43:57 RF02768 Ysr155_RyfD 2437 Yersinia sRNA 155(RyfD) Argasinska J Argasinska J 42.00 68.40 41.80 The sRNA was identified by [2] and is confirmed to have a stable secondary structure by [1] using genome-wide structure probing at different temperatures. The function is unknown. Ysr155(RyfD); cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 103 0 0 Gene; sRNA; Predicted; PMID:27298343; 111 0 \N 0.59625 -6.26985 1600000 229958 253 140 1 -2.94560 0.71821 2017-06-12 12:26:36 2021-07-05 13:43:57 RF02769 Ysr202 2437 Yersinia sRNA 202 Argasinska J Argasinska J 315.00 315.60 34.70 The sRNA was identified by [2] and is confirmed to have a stable secondary structure by [1] using genome-wide structure probing at different temperatures. The function is unknown. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; PMID:27298343; 3 0 \N 0.70755 -8.66696 1600000 394291 433 282 1 -3.62310 0.70680 2017-06-12 15:15:30 2019-01-04 15:01:52 RF02770 Ysr224 2437 Yersinia sRNA 224 Argasinska J Argasinska J 70.00 70.00 69.80 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 5 121 0 0 Gene; sRNA; Predicted; PMID:27298343; 11 0 \N 0.65712 -4.56516 1600000 193747 209 107 1 -3.35890 0.71842 2017-06-12 15:16:18 2019-01-04 15:01:52 RF02771 CnfY_thermometer 2437 CnfY 5' UTR thermometer Argasinska J Argasinska J 130.00 130.70 38.80 CnfY gene is associated with Yersinia virulence. RNAT functionality is impaired by point mutating the 5'UTR. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Cis-reg; thermoregulator; Predicted; PMID:27298343; 4 0 \N 0.49869 -3.47352 1600000 256419 218 112 1 -2.96600 0.71832 2017-06-12 15:26:47 2019-01-04 15:01:52 RF02772 AilA_thermometer 2437 AilA 5' UTR thermometer Argasinska J Argasinska J 81.00 81.40 41.00 AilA gene is associated with Yersinia virulence. RNAT functionality is impaired by point mutating the 5'UTR. Temperature affects the secondary structure and ribosome binding efficiency of the 5'UTR. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 5 1 0 0 Cis-reg; thermoregulator; Predicted; PMID:27298343; 6 0 \N 0.52308 -5.24067 1600000 249899 184 89 1 -3.49320 0.71865 2017-06-12 15:27:40 2019-01-04 15:01:52 RF02773 TrxA_thermometer 2437 TrxA 5' UTR thermometer Argasinska J Argasinska J 58.00 58.20 57.40 Involved in protection against oxidative stress. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 8 62 0 0 Cis-reg; thermoregulator; Predicted; PMID:27298343; 69 0 \N 0.51007 -6.16167 1600000 245670 214 88 1 -3.06740 0.71872 2017-06-12 15:28:50 2019-01-04 15:01:52 RF02774 KatA_thermometer 2437 KatA 5' UTR thermometer Argasinska J Argasinska J 111.00 111.20 43.60 Involved in protection against oxidative stress. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 5 2 0 0 Cis-reg; thermoregulator; Predicted; PMID:27298343; 7 0 \N 0.47706 -9.72787 1600000 381187 273 154 1 -3.08320 0.71801 2017-06-12 15:40:12 2019-01-04 15:01:52 RF02775 SodB_thermometer 2437 SodB 5' UTR thermometer Argasinska J Argasinska J 98.00 98.30 65.60 Involved in protection against oxidative stress. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 5 2 0 0 Cis-reg; thermoregulator; Predicted; PMID:27298343; 7 0 \N 0.54953 -7.20103 1600000 350349 225 119 1 -3.39540 0.71820 2017-06-12 15:41:02 2019-01-04 15:01:52 RF02776 SodC_thermometer 2437 SodC 5' UTR thermometer Argasinska J Argasinska J 125.00 125.50 41.70 Involved in protection against oxidative stress. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 2 1 0 0 Cis-reg; thermoregulator; Predicted; PMID:27298343; 3 0 \N 0.52371 -3.65486 1600000 230485 192 93 1 -2.96710 0.71858 2017-06-12 15:41:39 2019-01-04 15:01:52 RF02777 OppA_thermometer 2437 OppA 5' UTR thermometer Argasinska J Argasinska J 290.00 291.60 54.50 Positioned upstream of gene for oligopeptide uptake. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 3 1 0 0 Cis-reg; thermoregulator; Predicted; PMID:27298343; 4 0 \N 0.67194 -9.12526 1600000 410299 461 304 1 -4.02550 0.70576 2017-06-12 15:42:36 2019-01-04 15:01:52 RF02778 FdoG1_thermometer 2437 FdoG-1 5' UTR thermometer Argasinska J Argasinska J 50.00 50.10 49.70 Located upstream of fdoG-1 gene which is involved in metabolic processes. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 14 0 0 Cis-reg; thermoregulator; Predicted; PMID:27298343; 17 0 \N 0.65995 -8.28243 1600000 371365 328 193 1 -3.26250 0.71290 2017-06-12 15:43:41 2019-01-04 15:01:52 RF02779 PepN_thermometer 2437 PepN 5' UTR thermometer Argasinska J Argasinska J 83.00 83.90 38.20 Position upstream of pepN gene responsible for amino acid processing. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 5 3 0 0 Cis-reg; thermoregulator; Predicted; PMID:27298343; 7 0 \N 0.51872 -7.39047 1600000 242165 293 136 1 -2.89160 0.71822 2017-06-12 15:50:12 2019-01-04 15:01:52 RF02780 PutA_thermometer 2437 PutA 5' UTR thermometer Argasinska J Argasinska J 51.00 51.80 40.20 Position upstream of pepN gene responsible for amino acid processing. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 2 0 0 Cis-reg; thermoregulator; Predicted; PMID:27298343; 6 0 \N 0.50484 -9.61254 1600000 526098 160 72 1 -3.13560 0.71893 2017-06-12 15:51:30 2019-01-04 15:01:52 RF02781 ManX_thermometer 2437 ManX 5' UTR thermometer Argasinska J Argasinska J 76.00 76.30 37.00 Short UTR positioned upstream of ManX gene responsible for sugar uptake. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 4 3 0 0 Cis-reg; thermoregulator; Predicted; PMID:27298343; 7 0 \N 0.62089 -3.03025 1600000 223695 223 117 1 -3.39790 0.71839 2017-06-12 15:52:19 2019-01-04 15:01:52 RF02782 CpoB_ybgF_thermometer 2437 CpoB/ybgF ICR thermometer Argasinska J Argasinska J 51.00 51.40 50.60 Imprinting control region from upstream of cpoB/ybgF (tol/pal system protein). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 8 137 0 0 Cis-reg; thermoregulator; Predicted; PMID:27298343; 142 0 \N 0.54752 -8.18257 1600000 351180 254 139 1 -3.08580 0.71823 2017-06-12 15:58:00 2019-01-04 15:01:52 RF02783 IscS1_thermometer 2437 IscS-1 ICR thermometer Argasinska J Argasinska J 58.00 58.20 54.00 Imprinting control region from upstream of iscS-1 (cysteine desulfurase). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 549862.597050 --mxsize 128 CM SEQDB 5 31 0 0 Cis-reg; thermoregulator; Predicted; PMID:27298343; 35 0 \N 0.52474 -9.25252 1600000 367886 307 183 1 -3.14470 0.71400 2017-06-12 16:26:18 2019-01-04 15:01:52 RF02784 SorX 2430 Singlet oxygen resistance RNA X Argasinska J Argasinska J 46.60 46.60 46.50 SorX (RSs2461)like SorY is a singlet oxygen induced sRNA that counteracts oxidative stress by targeting mRNA for a transporter in Rhodobacter. It also has an impact on resistance against organic hydroperoxides. It targets SD sequence of potA mRNA via an aSD sequence. The aSD sequence and some neighbouring nucleotides are identical to the one of SorY (targets takP mRNA). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 8 271 0 0 Gene; sRNA; Predicted; 27420112; 172 0 \N 0.67702 -5.24454 1600000 252929 157 73 1 -3.50420 0.71891 2017-10-02 09:59:48 2019-01-04 15:01:52 RF02785 snoRNA2 1264 Trypanosomatid small nucleolar RNA 2 Argasinska J Argasinska J 108.00 108.40 32.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 12 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAfold 5 0 \N 0.60841 -4.90188 1600000 266274 177 83 1 -3.30410 0.71876 2017-10-02 10:23:52 2019-01-04 15:01:52 RF02786 snoTBR2 2524 Small nucleolar RNA TBR2 Argasinska J Argasinska J 62.00 62.70 56.20 TBR4 was one of seventeen snoRNAs identified in Trypanosoma brucei.[2] Together with TBR12, TBR6 and TBR4 it is a part of snoRNA gene cluster that is tandemly repeated. These 4 snoRNA genes are transcribed as a polycistronic RNA transcript.[1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 5 49 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAfold 9 0 \N 0.57946 -5.13491 1600000 207666 207 109 1 -3.07720 0.71870 2017-10-04 14:46:19 2019-01-04 15:01:52 RF02787 snoTBR4 2525 Small nucleolar RNA TBR4 Argasinska J Argasinska J 83.00 83.40 77.60 TBR4 was one of seventeen snoRNAs identified in Trypanosoma brucei.[2] Together with TBR12, TBR6 and TBR2 it is a part of snoRNA gene cluster that is tandemly repeated. These 4 snoRNA genes are transcribed as a polycistronic RNA transcript.[1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 24 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAfold 5 0 \N 0.50076 -8.23112 1600000 288630 198 99 1 -3.50060 0.71858 2017-10-04 14:47:15 2019-01-04 15:01:52 RF02788 snoTBR6 2526 Small nucleolar RNA TBR6 Argasinska J Argasinska J 37.60 37.60 37.10 TBR6 was one of seventeen snoRNAs identified in Trypanosoma brucei.[2] Together with TBR2, TBR12 and TBR4 it is a part of snoRNA gene cluster that is tandemly repeated. These 4 snoRNA genes are transcribed as a polycistronic RNA transcript.[1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 605271.01655 --mxsize 128 CM SEQDB 3 52 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAfold 10 0 \N 0.50214 -8.32377 1600000 279410 196 83 1 -3.58260 0.71870 2017-10-04 14:47:25 2019-01-04 15:01:52 RF02789 snoTBR12 2527 Small nucleolar RNA TBR12 Argasinska J Argasinska J 77.00 77.50 34.90 TBR12 was one of seventeen snoRNAs identified in Trypanosoma brucei.[2] Together with TBR2, TBR6 and TBR4 it is a part of snoRNA gene cluster that is tandemly repeated. These 4 snoRNA genes are transcribed as a polycistronic RNA transcript.[1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 451031.997884 --mxsize 128 CM SEQDB 3 31 0 0 Gene; snRNA; snoRNA; CD-box; Predicted; RNAfold 6 0 \N 0.68049 -2.01241 1600000 166632 200 101 1 -3.64230 0.71864 2017-10-04 14:47:43 2019-01-04 15:01:52 RF02790 sodF_sRNA 2528 sodF sRNA Argasinska J Argasinska J 46.00 46.10 45.00 Identified in Streptomyces coelicolor. It is produced from sodF mRNA by cleavage of about 90 nucleotides from its 3'UTR. However, it does not affect the function of sodF mRNA, but acts on another mRNA called sodN. s-SodF RNA has a sequence complimentary to sodN mRNA from the 5'-end up to the ribosome binding site. It pairs with sodN mRNA, blocks its translation and facilitates sodN mRNA decay. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 6 169 0 0 Gene; sRNA; Predicted; 24234448; 159 0 \N 0.46947 -9.36293 1600000 318078 185 90 1 -2.66120 0.71885 2017-10-11 14:22:15 2019-01-04 15:01:52 RF02791 CcsR1 2430 Conserved CCUCCUCCC motif stress-induced RNA 1 Argasinska J Argasinska J 65.30 65.30 65.00 A cluster of four homologous sRNAs called CcsR 1-4 has been shown to play a role in photo-oxidative stress resistance. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 605271.01655 --mxsize 128 CM SEQDB 2 8 0 0 Gene; sRNA; Predicted; 25777678; 7 0 \N 0.68100 -5.88205 1600000 296150 177 83 1 -2.75440 0.72504 2017-10-11 16:27:01 2019-01-04 15:01:52 RF02792 sRNA162 2529 Archaeal Small RNA 162 Argasinska J Argasinska J 78.00 78.40 57.30 Acts on cis and trans-encoded mRNAs. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 605271.01655 --mxsize 128 CM SEQDB 3 5 0 0 Gene; antisense; Predicted; 22965121; 3 0 \N 0.52231 -8.86541 1600000 383063 314 190 1 -3.09820 0.71339 2017-10-16 10:51:15 2019-01-04 15:01:52 RF02793 asR3 2530 Pyrobaculum asRNA3 Argasinska J Argasinska J 46.00 46.20 37.20 Binds to the 3'-end of the tpi gene (triose-phosphate-isomerse). The tpi mRNA has a conserved structural element located close to the stop codon. Binding of the asR3 may be able to compete against the formation of the tpi element structure and this may modulate the function of this highly conserved element. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 4 0 0 Gene; antisense; Predicted; 22783241; 4 0 \N 0.48650 -10.32892 1600000 440082 138 57 1 -3.15320 0.72362 2017-10-16 10:55:01 2019-01-04 15:01:52 RF02794 Pab19 2531 Pab19 RNA Argasinska J Argasinska J 55.00 55.50 44.60 By using various computational and experimental approaches in three Pyrococcus genomes seven H/ACA sRNAs and 15 pseudouridine resides on rRNA were identified. One H/ACA motif was shown to guide up to three distinct pseudouridylations.[1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 12 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; 18304947; 12 0 \N 0.52527 -6.32276 1600000 254485 203 102 1 -3.14540 0.71865 2017-10-18 12:38:59 2019-01-04 15:01:52 RF02795 Pab91 2531 Pab91 RNA Argasinska J Argasinska J 71.00 71.10 49.10 By using various computational and experimental approaches in three Pyrococcus genomes seven H/ACA sRNAs and 15 pseudouridine resides on rRNA were identified. One H/ACA motif was shown to guide up to three distinct pseudouridylations.[1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 7 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; 18304947; 7 0 \N 0.57694 -5.60656 1600000 337540 139 57 1 -3.37950 0.71938 2017-10-18 12:40:50 2019-01-04 15:01:52 RF02796 Pab160 2531 Pab160 RNA Argasinska J Argasinska J 47.40 47.40 37.00 By using various computational and experimental approaches in three Pyrococcus genomes seven H/ACA sRNAs and 15 pseudouridine resides on rRNA were identified. One H/ACA motif was shown to guide up to three distinct pseudouridylations [1]. The structure of Pab160 RNA in complex with ribonucleoprotein pseudouridine synthase was reported in [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 9 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; 18304947; 14 0 \N 0.52935 -5.76990 1600000 295457 151 68 1 -3.46420 0.71924 2017-10-18 12:41:15 2022-10-29 16:55:17 RF02797 PssrA 1236 Plasmid-encoded Shigella sRNA A Argasinska J Argasinska J 69.00 69.50 63.60 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 6 38 0 0 Gene; sRNA; Predicted; RNAfold 42 0 \N 0.52433 -7.06334 1600000 294893 191 93 1 -2.92310 0.71864 2017-10-25 09:15:18 2019-01-04 15:01:52 RF02798 CssrA 1236 Chromosome-encoded Shigella sRNA A Argasinska J Argasinska J 93.00 93.30 60.50 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 7 0 0 Gene; sRNA; Predicted; RNAfold 9 0 \N 0.55708 -9.38914 1600000 384065 217 111 1 -3.03840 0.71857 2017-10-25 09:15:40 2019-01-04 15:01:52 RF02799 CssrB 1236 Chromosome-encoded Shigella sRNA B Argasinska J Argasinska J 76.00 76.30 51.00 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 2 0 0 Gene; sRNA; Predicted; RNAfold 3 0 \N 0.56097 -9.17535 1600000 359691 309 180 1 -3.16970 0.71445 2017-10-25 09:16:17 2019-01-04 15:01:52 RF02800 Rp_sR47 2415 Rickettsia sRNA47 Argasinska J Argasinska J 60.00 60.00 59.50 Expressed in human microvascular endothelial cells (HMEC) infected with Rickettsia. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 2 27 0 0 Gene; sRNA; Predicted; RNAfold 27 0 \N 0.67345 -8.60623 1600000 407121 474 316 1 -4.05320 0.70524 2017-10-31 09:57:44 2019-01-04 15:01:52 RF02801 PyrR201 2531 Pyrobaculum sRNA 201 Argasinska J Argasinska J 49.00 49.10 37.00 Has weak conservation of the canonical pseudouridylation guide sRNA features among the Pyrobaculum species. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 5 8 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; 22282340 11 0 \N 0.55999 -4.89966 1600000 258009 154 68 1 -3.26000 0.71913 2017-10-31 16:23:02 2019-01-04 15:01:52 RF02802 PyrR204 2531 Pyrobaculum sRNA 204 Argasinska J Argasinska J 71.00 71.40 37.70 Non canonical pseudouridylation guide sRNA features. Predicted to target 23S U2023 in Pyrobaculum. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 5 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; 22282340 6 0 \N 0.63580 -4.71636 1600000 318894 134 57 1 -3.34600 0.71929 2017-10-31 16:24:01 2019-01-04 15:01:52 RF02803 PyrR205 2531 Pyrobaculum sRNA 205 Argasinska J Argasinska J 35.60 35.60 35.40 Non canonical pseudouridylation guide sRNA features. Predicted to target 23S U2029 in Pyrobaculum. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 5 35 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; 22282340 8 0 \N 0.60741 -6.62628 1600000 285055 143 61 1 -3.46740 0.71915 2017-10-31 16:24:29 2019-01-04 15:01:52 RF02804 PyrR206 2531 Pyrobaculum sRNA 206 Argasinska J Argasinska J 46.00 46.50 39.20 Non canonical pseudouridylation guide sRNA features. Predicted to target 23S U1902 in Pyrobaculum. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 3 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; 22282340 6 0 \N 0.50154 -9.34219 1600000 407977 143 61 1 -3.36390 0.71922 2017-10-31 16:25:07 2019-01-04 15:01:52 RF02805 PyrR207 2531 Pyrobaculum sRNA 207 Argasinska J Argasinska J 60.00 60.80 42.10 Non canonical pseudouridylation guide sRNA features. Predicted to target 23S U2597 in Pyrobaculum. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 3 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; 22282340 5 0 \N 0.59432 -5.54977 1600000 354753 149 65 1 -3.10220 0.71916 2017-10-31 16:25:29 2019-01-04 15:01:52 RF02806 PyrR208 2531 Pyrobaculum sRNA 208 Argasinska J Argasinska J 64.00 64.70 36.40 Non canonical pseudouridylation guide sRNA features. Predicted to target 23S U1978 in Pyrobaculum. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 2 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; 22282340 5 0 \N 0.54119 -8.61220 1600000 277953 139 60 1 -3.45280 0.72101 2017-10-31 16:25:45 2019-01-04 15:01:52 RF02807 PyrR209 2531 Pyrobaculum sRNA 209 Argasinska J Argasinska J 42.00 42.60 35.80 Non canonical pseudouridylation guide sRNA features. Predicted to target 16S U8 in Pyrobaculum. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 5 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; 22282340 7 0 \N 0.56714 -7.07813 1600000 443888 146 65 1 -3.77870 0.71905 2017-10-31 16:28:10 2019-01-04 15:01:52 RF02808 PyrR210 2531 Pyrobaculum sRNA 210 Argasinska J Argasinska J 59.00 59.60 33.60 Non canonical pseudouridylation guide sRNA features. Predicted to target tRNALys U54 in Pyrobaculum. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 6 4 0 0 Gene; snRNA; snoRNA; HACA-box; Predicted; 22282340 8 0 \N 0.53790 -9.03253 1600000 410123 138 59 1 -3.27870 0.71919 2017-10-31 16:28:21 2019-01-04 15:01:52 RF02809 RsmW 2534 RsmW RNA family Argasinska J Argasinska J 52.00 52.40 46.60 Specifically binds to RsmA protein in vitro, restores biofilm production (possibly due to the interaction with RsmA) and partially complements the loss of RsmY and RsmZ in rsmY/rsmZ double mutant in regards to their contribution to swarming. Compared to RsmY and RsmZ its production is induced in high temperatures and rsmW is not transcriptionally activated by GacA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 4 0 0 Gene; sRNA; Predicted; 27430253 7 0 \N 0.47298 -11.18155 1600000 334419 227 124 1 -2.98430 0.71844 2017-11-07 16:08:44 2021-07-05 13:43:57 RF02810 Lst_thermometer 2535 Lst 5' UTR thermometer Argasinska J Argasinska J 126.00 126.40 45.30 Three independent RNA thermosensors were identified in the 5'UTRs of genes needed for: capsule biosynthesis (cssA), the expression of factor H binding protein (fHbp) and sialylation of lipopolysaccharide, which is essential for bacterial resistance against immune killing (lst). The very different nucleotide sequence and predicted inhibitory structures of the three RNATs indicate that they have evolved independently. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 2 2 0 0 Cis-reg; thermoregulator; Predicted; 24067614 2 0 \N 0.60372 -4.23960 1600000 231782 222 115 1 -3.17530 0.71835 2017-11-20 10:17:55 2019-01-04 15:01:52 RF02811 FHbp_thermometer 2535 FHbp 5' UTR thermometer Argasinska J Argasinska J 104.00 104.80 37.60 Three independent RNA thermosensors were identified in the 5'UTRs of genes needed for: capsule biosynthesis (cssA), the expression of factor H binding protein (fHbp) and sialylation of lipopolysaccharide, which is essential for bacterial resistance against immune killing (lst). The very different nucleotide sequence and predicted inhibitory structures of the three RNATs indicate that they have evolved independently. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 2 2 0 0 Cis-reg; thermoregulator; Predicted; 24067614 2 0 \N 0.52293 -5.55197 1600000 314089 164 73 1 -3.48110 0.72142 2017-11-20 10:18:56 2019-01-04 15:01:52 RF02812 asponA 2536 anti ponA RNA Argasinska J Argasinska J 113.00 113.60 85.70 Transcribed antisense to the penicillin-binding protein 1A gene called ponA. It was identified by RNAseq and the expression was validated by 5' and 3' RACE experiments. AsponA expression was up or down regulated under different antibiotic stress. Due to its location it may be able to prevent the transcription or translation of the opposite gene.[1] Study by Wurtzel et al. and Ferrara et al. also detected its expression. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 73 0 0 Gene; antisense; Predicted; RNAfold 72 0 \N 0.74022 -8.34583 1600000 388314 447 295 1 -3.87810 0.70621 2017-11-20 10:22:53 2019-01-04 15:01:52 RF02813 PA5194_thermometer 1269 Pseudomonas PA5194 thermometer Argasinska J Argasinska J 60.00 60.30 39.10 Identified in genetic Tet-Tap screening, no obvious similarities to known RNATs. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 2 3 0 0 Cis-reg; thermoregulator; Published; PMID:25336583 3 0 \N 0.54110 -9.23935 1600000 340308 205 105 1 -3.53680 0.71881 2017-11-20 10:58:36 2019-01-04 15:01:52 RF02814 Sso133 2537 Sulfolobus sRNA133 Argasinska J Argasinska J 44.00 44.50 39.20 This RNA has structural homologues in 3 archaeon Sulfolobus genomes: tokodaii, acidocalarius and solfotaricus. It shows extensive compensatory base changes, possibly consistent with a functional role. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 15 0 0 Gene; sRNA; Predicted; 15659164 7 0 \N 0.57812 -5.85660 1600000 246151 161 73 1 -3.42430 0.71908 2017-11-21 09:54:41 2019-01-04 15:01:52 RF02815 Lig_thermometer 2538 Lig 5' UTR thermometer Argasinska J Argasinska J 51.50 51.50 51.30 It controls ligA and ligB gene expression in Leptospira interrogans in response to temperature change. The lipoproteins LigA and LigB promote adhesion of Leptospira to host proteins.The RNA is composed of 175-nucleotide 5'UTR and the first six lig codons (identical in ligA and ligB). Lig expressions is limited by double-stranded RNA structure that occludes the ribosome-binding site. At higher temperatures the site is exposed to promote translation initiation. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 2 3 0 0 Cis-reg; thermoregulator; Predicted; 24013626 3 0 \N 0.44306 -9.87069 1600000 376572 339 205 1 -3.06490 0.71173 2017-11-22 16:02:16 2019-01-04 15:01:52 RF02816 HBV_PRE_1151-1410 2539 Hepatitis B virus post-transcriptional regulatory element 1151-1410 Argasinska J Argasinska J 82.00 82.70 40.00 Part of 500 base pair long HBV PRE, contains nucleotides 1151-1410. Enhances nuclear export of intronless transcripts and represses the splicing mechanism to a comparable degree to that of the full-length PRE. It was proposed to be the core HBV PRE element. contains 3 known regulatory elements: PRE SL-alpha (nucleotides 1292-1321), human La protein binding site (nucleotide 1275-1291) and SRE-1 (nucleotides 1252-1348). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 2 5 0 0 Cis-reg; Predicted; RNAfold 5 0 \N 0.71980 -7.90066 1600000 344528 406 259 1 -3.74180 0.70802 2017-11-22 16:26:13 2019-01-10 15:16:03 RF02818 V_AS5 2540 Vibrio RNA AS5 Argasinska J Argasinska J 96.00 96.10 95.80 Identified by direct cloning an parallel sequencing experiments with 5S/tRNA depletion. Confirmed by Northern blot. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 52 0 0 Gene; antisense; Predicted; RNAfold 8 0 \N 0.64216 -3.66891 1600000 193768 243 129 1 -2.85050 0.71841 2017-12-04 13:05:17 2019-01-04 15:01:52 RF02819 V_AS7 2540 Vibrio RNA AS7 Argasinska J Argasinska J 90.00 91.40 89.30 Identified by direct cloning an parallel sequencing experiments with 5S/tRNA depletion. Confirmed by Northern blot. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 7 66 0 0 Gene; antisense; Predicted; RNAfold 67 0 \N 0.53262 -9.53286 1600000 304689 290 169 1 -3.51420 0.71592 2017-12-04 13:07:06 2019-01-04 15:01:52 RF02820 V_AS9 2540 Vibrio RNA AS9 Argasinska J Argasinska J 50.00 50.30 49.90 Identified by direct cloning an parallel sequencing experiments with 5S/tRNA depletion. Confirmed by Northern blot. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 126 0 0 Gene; antisense; Predicted; RNAfold 125 0 \N 0.52048 -7.69460 1600000 287927 203 104 1 -3.35420 0.71866 2017-12-04 13:07:54 2019-01-04 15:01:52 RF02821 V_IGR5 2540 Vibrio RNA IGR5 Argasinska J Argasinska J 75.00 75.60 45.80 Identified by direct cloning an parallel sequencing experiments with 5S/tRNA depletion. Confirmed by Northern blot. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 2 3 0 0 Gene; sRNA; Predicted; RNAfold 3 0 \N 0.48509 -7.18940 1600000 247059 216 114 1 -2.94870 0.71855 2017-12-04 13:08:49 2019-01-04 15:01:52 RF02822 Srn266 2341 Streptococcus RNA 266 Argasinska J Argasinska J 63.00 63.80 62.70 SP_0836 target predicted. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 187 0 0 Gene; sRNA; Predicted; 22274957 40 0 \N 0.47142 -9.52659 1600000 364112 216 112 1 -3.23310 0.71849 2017-12-04 14:19:40 2019-01-04 15:01:52 RF02823 LPR69 2541 Legionella RNA 69 Argasinska J Argasinska J 40.00 40.40 39.60 Identified by strand specific sequencing of the transcriptional response during broth growth and during infection inside the host. Infection specific expression. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 5 136 0 0 Gene; sRNA; Predicted; RNAfold 6 0 \N 0.64369 -5.01812 1600000 247169 171 82 1 -2.97740 0.71879 2017-12-05 13:45:26 2019-01-04 15:01:52 RF02824 LPR10 2542 Legionella RNA 10 Argasinska J Argasinska J 69.00 69.60 56.80 Identified by strand specific sequencing of the transcriptional response during broth growth and during infection inside the host. Up-regulated in late infection or broth growth time points. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 9 0 0 Gene; sRNA; Predicted; RNAfold 10 0 \N 0.54762 -6.32901 1600000 276500 191 94 1 -3.34820 0.71849 2017-12-05 13:46:39 2019-01-04 15:01:52 RF02825 LPR17 2542 Legionella RNA 17 Argasinska J Argasinska J 98.00 98.40 74.00 Identified by strand specific sequencing of the transcriptional response during broth growth and during infection inside the host. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 2 8 0 0 Gene; sRNA; Predicted; RNAfold 8 0 \N 0.65755 -8.10890 1600000 404472 400 256 1 -3.58020 0.70817 2017-12-05 13:46:59 2019-01-04 15:01:52 RF02826 Scr6925 2421 Streptomyces RNA 6925 Argasinska J Argasinska J 50.00 50.50 43.30 Identified by deep sequencing of transcriptome at the end of exponential growth phase. Sequencing size consistent with northern blot size. Streptomyces specific. Small 12 nt possible coding region observed. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 38 0 0 Gene; sRNA; Predicted; 21521948 37 0 \N 0.47077 -10.99946 1600000 364373 242 131 1 -2.82290 0.71843 2017-12-11 10:33:03 2021-11-19 11:53:19 RF02827 Scr6106 2421 Streptomyces RNA 6106 Argasinska J Argasinska J 52.50 52.50 52.10 Identified by deep sequencing of transcriptome at the end of exponential growth phase. Appears smaller on northern blot than sequencing transcript. This indicates processing step. Streptomyces specific. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 63 0 0 Gene; sRNA; Predicted; 21521948 67 0 \N 0.37277 -12.80250 1600000 375787 179 85 1 -2.97970 0.71896 2017-12-11 10:36:42 2021-11-19 11:53:19 RF02828 Scr3920 2421 Streptomyces RNA 3920 Argasinska J Argasinska J 88.00 88.40 84.70 Identified by deep sequencing of transcriptome at the end of exponential growth phase. Sequencing size consistent with northern blot size. Streptomyces specific. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 130 0 0 Gene; sRNA; Predicted; 21521948 136 0 \N 0.52547 -10.05059 1600000 368212 236 125 1 -3.02650 0.71843 2017-12-11 10:37:07 2021-11-19 11:53:19 RF02829 Scr4115 2421 Streptomyces RNA 4115 Argasinska J Argasinska J 58.00 58.10 54.70 Identified by deep sequencing of transcriptome at the end of exponential growth phase. Sequencing size consistent with notrthern blot size. Streptomyces specific. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 173 0 0 Gene; sRNA; Predicted; 21521948 178 0 \N 0.39125 -11.11934 1600000 243131 213 109 1 -3.07340 0.71862 2017-12-11 10:37:32 2021-11-19 11:53:19 RF02830 Scr1601 2421 Streptomyces RNA 1601 Argasinska J Argasinska J 100.00 101.60 97.10 Identified by deep sequencing of transcriptome at the end of exponential growth phase. Appears longer on northern blot than sequencing transcript. Streptomyces specific. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 172 0 0 Gene; sRNA; Predicted; 21521948 176 0 \N 0.54117 -10.36901 1600000 295839 341 208 1 -3.23430 0.71174 2017-12-11 10:37:59 2021-11-19 11:53:19 RF02831 Scr2736 2421 Streptomyces RNA 2736 Argasinska J Argasinska J 43.00 43.00 42.90 Identified by deep sequencing of transcriptome at the end of exponential growth phase. Appears smaller on northern blot than sequencing transcript. This indicates processing step. Streptomyces specific. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 163 0 0 Gene; sRNA; Predicted; 21521948 166 0 \N 0.53074 -6.44211 1600000 294246 150 64 1 -3.34480 0.71920 2017-12-11 10:38:30 2021-11-19 11:53:19 RF02832 Scr5676 2421 Streptomyces RNA 5676 Argasinska J Argasinska J 56.00 56.90 48.40 Identified by deep sequencing of transcriptome at the end of exponential growth phase. Appears longer on northern blot than sequencing transcript. This indicates processing step. Streptomyces specific. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 159 0 0 Gene; sRNA; Predicted; 21521948 164 0 \N 0.58248 -6.06262 1600000 225294 241 130 1 -2.56990 0.71834 2017-12-11 14:38:11 2021-11-19 11:53:19 RF02833 Scr3202 2421 Streptomyces RNA 3202 Argasinska J Argasinska J 52.00 52.20 44.80 Identified by deep sequencing of transcriptome at the end of exponential growth phase. Appears smaller on northern blot than sequencing transcript. This indicates processing step. Streptomyces specific. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 76 0 0 Gene; sRNA; Predicted; 21521948 80 0 \N 0.42083 -10.26252 1600000 281991 188 92 1 -2.75210 0.71896 2017-12-11 14:38:47 2021-11-19 11:53:19 RF02834 VqmR 2543 Vibrio RNA VqmR Argasinska J Argasinska J 76.00 76.40 42.30 Repress the expression of multiple mRNAs including the rtx (repeats in toxin) toxin genes and the vpsT, which is required for biofilm formation. In fact, VqmR which is highly conserved in vibrionaceae, was shown to strongly inhibit biofilm formation through the repression of vpsT gene and could be the link between biofilm formation and quorum sensing. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 16 0 0 Gene; sRNA; Published; 25646441 20 0 \N 0.52051 -9.47517 1600000 334882 269 154 1 -3.52070 0.71806 2017-12-12 11:02:58 2022-05-06 12:10:07 RF02835 Bcj11 2451 Burkholderia RNA 11 Argasinska J Argasinska J 49.00 49.40 48.60 Co-purified with Hfq, expression confirmed by Northern blot. Predicted target marZ. Overlaps coding sequence. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 152 0 0 Gene; sRNA; Predicted; RNAfold 152 0 \N 0.50280 -8.37359 1600000 263227 229 122 1 -2.97430 0.71840 2017-12-13 16:17:51 2019-01-04 15:01:52 RF02836 Bcj14 2451 Burkholderia RNA 14 Argasinska J Argasinska J 59.00 59.90 58.80 Co-purified with Hfq, expression confirmed by Northern blot. Putative functional homologue of PA-SraF. Overlaps coding sequence. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 91 0 0 Gene; sRNA; Predicted; RNAfold 74 0 \N 0.49648 -10.67087 1600000 344833 296 171 1 -2.77850 0.71578 2017-12-13 16:19:36 2019-01-04 15:01:52 RF02837 anti-hemB 2736 Burkholderia RNA 7 (anti-hemB) Weinberg Z, Gore J Published; PMID:17621584 49.50 49.50 49.40 This RNA motif was identified by computational search in b-proteobacteria Burkholderia [1]. Co-purified with Hfq, expression confirmed by Northern blot. Putative functional homologue of SP-RydB and predicted target hemB [2]. Named anti-hemB in [1,3]. Named ncS04 and shown to be expressed in biofilm [4]. Bcj7; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 26 314 0 0 Gene; sRNA; Published; PMID:17621584 305 0 \N 0.65066 -7.03273 1600000 435769 167 80 1 -3.10250 0.71887 2017-12-13 16:33:57 2020-09-14 14:07:43 RF02838 Ref55 2426 Enterococcus sRNA 55 Argasinska J, Repoila F Argasinska J 43.00 43.80 42.20 Name ‘Ref’ stands for RNA in E. faecalis. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 9 0 0 Gene; sRNA; Predicted; RNAfold; 9 0 \N 0.48598 -6.22813 1600000 398989 131 54 1 -3.18080 0.72888 2018-01-22 11:47:30 2019-01-04 15:01:52 RF02839 Ref66 2426 Enterococcus sRNA 66 Argasinska J, Repoila F Argasinska J 92.00 92.20 40.00 Name ‘Ref’ stands for RNA in E. faecalis. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 128 CM SEQDB 2 8 0 0 Gene; antisense; Predicted; RNAfold; 3 0 \N 0.54522 -7.78035 1600000 274678 224 118 1 -3.47820 0.71840 2018-01-22 11:48:05 2019-01-04 15:01:52 RF02840 Ref68 2426 Enterococcus sRNA 68 (Lacto-3 RNA) Argasinska J, Repoila F, Weinberg Z Weinberg Z 44.00 44.00 43.60 Name ‘Ref’ stands for RNA in E. faecalis[1]. Also known as Lacto-3 RNA.[2] Lactobacillales (Firmicutes). Lineage (Lactobacillaceae)[2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.12 -Z 742849.287494 --mxsize 128 CM SEQDB 78 125 0 0 Gene; sRNA; Published; PMID:28977401; 168 0 \N 0.58176 -9.90330 1600000 473899 301 124 1 -3.21750 0.71824 2018-01-22 11:49:16 2019-01-10 15:16:02 RF02841 Ref70 2426 Enterococcus sRNA 70 Argasinska J, Repoila F Argasinska J 115.00 115.70 49.50 Name ‘Ref’ stands for RNA in E. faecalis. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 10 0 0 Gene; sRNA; Predicted; RNAfold; 10 0 \N 0.54347 -6.17703 1600000 315106 229 122 1 -2.75220 0.71829 2018-01-22 11:49:39 2019-01-04 15:01:52 RF02842 RefA1 2426 Enterococcus sRNA A1 Argasinska J, Repoila F Argasinska J 94.00 94.20 61.30 Name ‘Ref’ stands for RNA in E. faecalis. Encoded by pTEF1 plasmid. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 8 0 0 Gene; sRNA; Predicted; RNAfold; 7 0 \N 0.59887 -8.08229 1600000 351031 358 222 1 -3.18600 0.71029 2018-01-22 11:51:19 2019-01-04 15:01:52 RF02843 RefA5 2426 Enterococcus sRNA A5 Argasinska J, Repoila F Argasinska J 91.00 91.80 39.60 Name ‘Ref’ stands for RNA in E. faecalis. Encoded by pTEF1 plasmid. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 6 0 0 Gene; antisense; Predicted; RNAfold; 2 0 \N 0.54877 -9.46977 1600000 581250 154 68 1 -3.44330 0.71911 2018-01-22 11:51:47 2019-01-04 15:01:52 RF02844 RefA9 2426 Enterococcus sRNA A9 Argasinska J, Repoila F Argasinska J 49.00 49.60 46.50 Name ‘Ref’ stands for RNA in E. faecalis. Encoded by pTEF1 plasmid. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 13 0 0 Gene; antisense; Predicted; RNAfold; 10 0 \N 0.47593 -8.95298 1600000 492889 145 64 1 -3.00830 0.72450 2018-01-22 11:52:09 2019-01-04 15:01:52 RF02845 Ref1C 2426 Enterococcus sRNA 1C Argasinska J, Repoila F Argasinska J 90.00 90.40 48.10 Name ‘Ref’ stands for RNA in E. faecalis. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 2 6 0 0 Gene; sRNA; Predicted; RNAfold; 5 0 \N 0.47239 -7.18296 1600000 282331 238 130 1 -2.76900 0.71830 2018-01-22 12:16:56 2019-01-04 15:01:52 RF02846 Ref84 2426 Enterococcus sRNA 84 Argasinska J, Repoila F Argasinska J 52.00 52.50 48.20 Name ‘Ref’ stands for RNA in E. faecalis. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 5 45 0 0 Gene; antisense; Predicted; RNAfold; 33 0 \N 0.42021 -8.58299 1600000 300737 178 87 1 -3.53220 0.71867 2018-01-22 12:29:53 2019-01-04 15:01:52 RF02847 Ref64 2426 Enterococcus sRNA 64 Argasinska J, Repoila F Argasinska J 44.30 44.30 44.00 Name ‘Ref’ stands for RNA in E. faecalis. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 20 0 0 Gene; sRNA; Predicted; RNAfold; 13 0 \N 0.61823 -3.59110 1600000 274947 155 69 1 -3.80490 0.71908 2018-01-22 12:33:12 2019-01-04 15:01:52 RF02848 RefB11 2426 Enterococcus sRNA B11 Argasinska J, Repoila F Argasinska J 54.00 54.60 53.60 Name ‘Ref’ stands for RNA in E. faecalis. Encoded by pTEF2 plasmid. 22 nucleotides removed from 3'end of original sequence as it overlapped with RF02844 (RefA9). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 39 0 0 Gene; sRNA; Predicted; RNAfold; 30 0 \N 0.54796 -8.80476 1600000 286474 329 167 1 -3.57270 0.71621 2018-01-23 11:45:46 2019-01-04 15:01:52 RF02849 Ysr197 2437 Yersinia sRNA 197 Argasinska J Argasinska J 167.00 167.70 155.90 5' located ORF: gmhB, 3' located ORF:16S rRNA. Repressed during phase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 8 0 0 Gene; sRNA; Predicted; RNAfold 9 0 \N 0.64074 -8.93734 1600000 363123 395 254 1 -3.56690 0.70827 2018-02-05 15:13:33 2019-01-04 15:01:52 RF02850 Ysr276 2437 Yersinia sRNA 276 Argasinska J Argasinska J 100.00 100.10 96.90 Antisense to pepA gene. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 5 132 0 0 Gene; antisense; Predicted; RNAfold 131 0 \N 0.75376 -7.34772 1600000 324329 324 195 1 -3.34230 0.71293 2018-02-05 15:34:53 2019-01-04 15:01:52 RF02851 Ysr283 2437 Yersinia sRNA 283 Argasinska J Argasinska J 58.00 58.00 54.10 Identified in transcriptional profiling by RNA seq. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 9 0 0 Gene; antisense; Predicted; RNAfold 9 0 \N 0.71482 -8.04965 1600000 335706 395 253 1 -3.73810 0.70831 2018-02-05 16:01:26 2019-01-04 15:01:52 RF02852 Ysr206 2437 Yersinia sRNA 206 Argasinska J Argasinska J 124.00 124.90 41.90 5' located ORF: rssB. Exclusively detected in the crp mutant, suggesting CRP regulon is a regulator of the sRNA. CRP binding in a cAMP dependent manner was confirmed. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 2 3 0 0 Gene; sRNA; Predicted; RNAfold 4 0 \N 0.69520 -7.33351 1600000 351196 463 310 1 -3.83110 0.70556 2018-02-05 16:17:47 2019-01-04 15:01:52 RF02853 Ysr201 2437 Yersinia sRNA 201 Argasinska J Argasinska J 62.00 70.30 33.20 Increased expression in the crp mutant in the stationary phases at 25 degree suggesting CRP regulon is a regulator of the sRNA. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 3 3 0 0 Gene; sRNA; Predicted; RNAfold 6 0 \N 0.66590 -2.96766 1600000 259466 158 70 1 -3.72730 0.71906 2018-02-05 16:26:41 2021-07-05 13:43:57 RF02854 Ysr100 2437 Yersinia sRNA 100 Argasinska J Argasinska J 47.00 47.10 36.20 5' located ORF: qor, 3' located ORF: pspG. Decreased expression in the crp mutant (in the stationary phase), suggesting CRP regulon is a regulator of the sRNA. CRP binding in a cAMP dependent manner was confirmed. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 4 0 0 Gene; sRNA; Predicted; RNAfold 6 0 \N 0.54143 -7.67409 1600000 321912 228 120 1 -3.06890 0.71825 2018-02-05 16:31:42 2019-01-04 15:01:52 RF02855 Ysr251 2437 Yersinia sRNA 251 Argasinska J Argasinska J 100.00 102.80 86.20 Antisense to phoH gene. Trimmed on 5'end from the original size. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 5 94 0 0 Gene; antisense; Predicted; RNAfold 95 0 \N 0.68490 -8.26322 1600000 362765 321 194 1 -3.45590 0.71291 2018-02-05 16:38:02 2019-01-04 15:01:52 RF02856 30_292 2544 Leptospira sRNA 30_292 Argasinska J Argasinska J 112.00 112.70 37.20 Identified by RNA seq and Northern blot on cells grown to exponential phase at 30 degree C. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 6 0 0 Gene; sRNA; Predicted; RNAfold; 6 0 \N 0.53175 -7.51451 1600000 281013 221 115 1 -2.80170 0.71838 2018-02-06 11:05:54 2019-01-04 15:01:52 RF02857 30_255 2544 Leptospira sRNA 30_255 Argasinska J Argasinska J 197.00 197.90 44.20 Identified by RNA seq and Northern blot on cells grown to exponential phase at 30 degree C. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 2 1 0 0 Gene; sRNA; Predicted; RNAfold; 2 0 \N 0.45177 -10.55752 1600000 370208 349 213 1 -3.02960 0.71107 2018-02-06 11:07:00 2019-01-04 15:01:52 RF02858 Arrc08 2545 Actinobacillus sRNA 08 Argasinska J Argasinska J 219.00 219.80 172.40 Arrc stands for Actinobacillus pleuropneumoniae Regulatory RNA Candidate. TargetRNA2 was used for the predictions. sufI gene target may be involved in stress resistance. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 5 0 0 Gene; sRNA; Predicted; RNAfold 5 0 \N 0.72710 -7.29359 1600000 352726 417 270 1 -3.97300 0.70743 2018-02-27 14:57:55 2019-01-04 15:01:52 RF02859 Arrc11 2545 Actinobacillus sRNA 11 Argasinska J Argasinska J 52.00 52.20 42.60 Arrc stands for Actinobacillus pleuropneumoniae Regulatory RNA Candidate. TargetRNA2 was used for the predictions. radA gene target may be involved in stress resistance. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 2 7 0 0 Gene; sRNA; Predicted; RNAfold 7 0 \N 0.48216 -9.14832 1600000 335531 297 173 1 -3.11100 0.71531 2018-02-27 14:59:59 2019-01-04 15:01:52 RF02860 Arrc14 2545 Actinobacillus sRNA 14 Argasinska J Argasinska J 99.00 99.30 55.40 Arrc stands for Actinobacillus pleuropneumoniae Regulatory RNA Candidate. May control the expression of ferric permease (gene afuB2) and ferredoxin (fdx). TargetRNA2 was used for the predictions. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 10 0 0 Gene; sRNA; Predicted; RNAfold 10 0 \N 0.46544 -8.46604 1600000 314782 285 167 1 -3.10500 0.71614 2018-02-27 15:00:24 2019-01-04 15:01:52 RF02861 IR_84 2546 Neisseria sRNA 84 Argasinska J Argasinska J 51.00 51.50 50.20 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 11 0 0 Gene; sRNA; Predicted; RNAfold; 10 0 \N 0.50156 -9.12421 1600000 373994 319 186 1 -3.00580 0.71379 2018-02-27 15:07:18 2019-01-04 15:01:52 RF02862 sRNA_1300 2547 Enterococcus sRNA 1300 Argasinska J Argasinska J 48.80 48.80 48.20 Expressed in mid and late exponential phases of growth. Expression remained uniform under daptomycin exposure. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 48 0 0 Gene; sRNA; Predicted; RNAfold; 46 0 \N 0.61596 -8.18298 1600000 317495 371 231 1 -3.53220 0.70987 2018-02-27 15:14:32 2019-01-04 15:01:52 RF02863 sRNA_2410 2547 Enterococcus sRNA 2410 Argasinska J Argasinska J 61.00 61.60 59.70 Produced as 2 transcripts on Northern blot. Expressed in mid, late exponential and early stationary phases of growth. Expression remained uniform under daptomycin exposure. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 82 0 0 Gene; sRNA; Predicted; RNAfold; 55 0 \N 0.48063 -9.53180 1600000 295226 326 196 1 -3.00180 0.71279 2018-02-27 15:15:11 2019-01-04 15:01:52 RF02864 sRNA_0030 2547 Enterococcus sRNA 30 Argasinska J Argasinska J 123.00 123.20 71.60 Produced as 2 transcripts on Northern blot. Expressed in mid, late exponential and early stationary phases of growth. Expression fluctuated under daptomycin exposure. Expressed from an integrative transposon carrying the tet(M) gene, which confers tetacyclin resistance. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 47 0 0 Gene; sRNA; Predicted; RNAfold; 46 0 \N 0.56387 -7.60282 1600000 314238 289 165 1 -3.33910 0.71643 2018-02-27 15:15:43 2019-01-04 15:01:52 RF02865 ncS01 2451 Burkholderia sRNA 1 Argasinska J Argasinska J 58.00 58.80 39.50 Identified by RNA-seq, RACE and Northern blot. Strongly expressed in biofilm. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 52 0 0 Gene; sRNA; Predicted; RNAfold; 52 0 \N 0.50287 -9.02341 1600000 287415 214 110 1 -3.16760 0.71867 2018-02-27 15:34:49 2019-01-10 15:16:02 RF02866 ncS16 2451 Burkholderia sRNA 16 (Bc_KC_sr1) Argasinska J Argasinska J 48.00 48.50 39.70 Identified by RNA-seq, RACE and Northern blot. Strongly expressed in biofilm [1]. Also know as Bc_KC_sr1 [2]. Upregulated in response to iron ion depletion. Predicted targets include cysteine desulfurase and isochorismatase desulfurase.[2] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 55 0 0 Gene; sRNA; Predicted; RNAfold; 55 0 \N 0.55311 -7.76638 1600000 290642 175 83 1 -3.57850 0.71881 2018-02-27 15:35:52 2019-01-10 15:16:02 RF02867 ncS011 2451 Burkholderia sRNA 11 Argasinska J Argasinska J 48.00 48.10 43.60 Identified by RNA-seq, RACE and Northern blot. Strongly expressed in biofilm.[1] Identified in [2] as ncRNA13. It is complimentary by 40 nucleotides with a gene encoding a regulatory protein (BCAL1948). ncS11 is strongly up-regulated in the stationary phase and biofilms, while BCAL1948 is down-regulated under these conditions. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 51 0 0 Gene; sRNA; Predicted; RNAfold; 51 0 \N 0.66705 -8.42402 1600000 347544 340 207 1 -3.10270 0.71189 2018-02-27 15:36:20 2019-01-10 15:16:02 RF02868 ncS037 2451 Burkholderia sRNA 37 Argasinska J Argasinska J 112.00 112.50 46.10 Identified by RNA-seq, RACE and Northern blot. Strongly expressed in biofilm. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 4 0 0 Gene; sRNA; Predicted; RNAfold; 4 0 \N 0.46259 -11.04792 1600000 309216 269 152 1 -2.61340 0.71827 2018-02-27 15:37:19 2019-01-10 15:16:02 RF02869 ncS025 2451 Burkholderia sRNA 25 Argasinska J Argasinska J 46.00 46.20 40.40 Identified by RNA-seq, RACE and Northern blot. Strongly expressed in biofilm. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 52 0 0 Gene; sRNA; Predicted; RNAfold; 53 0 \N 0.51013 -9.47261 1600000 407950 180 85 1 -3.45320 0.71881 2018-02-27 15:37:55 2019-01-10 15:16:02 RF02870 ncS035 2451 Burkholderia sRNA 35 Argasinska J Argasinska J 79.00 79.10 34.70 Identified by RNA-seq, RACE and Northern blot. Strongly expressed in biofilm. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 14 0 0 Gene; sRNA; Predicted; RNAfold; 14 0 \N 0.61383 -8.45996 1600000 285259 290 168 1 -3.01530 0.71614 2018-02-27 15:38:26 2019-01-10 15:16:02 RF02871 ncS54 2451 Burkholderia sRNA 54 Argasinska J Argasinska J 43.00 43.00 42.50 Identified by RNA-seq, RACE and Northern blot. Strongly expressed in biofilm. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 91 0 0 Gene; sRNA; Predicted; RNAfold; 53 0 \N 0.65516 -5.11536 1600000 232863 172 79 1 -3.13550 0.71894 2018-03-05 12:09:16 2019-01-10 15:16:02 RF02872 SrbA 2548 sRNA regulator of biofilms A Argasinska J Argasinska J 69.00 69.70 44.40 Important for biofilm formation and pathogenicity. Bacterial strain with deleted SrbA had reduced biofilm mass. As the ability to form biofilms can contribute to the ability a pathogen to thrive within the host, the C. elegans hosts infected with the srbA deleted strain displayed significantly lower mortality rate than the wild-type strain. However, the deletion of srbA had no effect on growth or antibiotic resistance in P. aeruginosa. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 58 0 0 Gene; sRNA; Predicted; R-Scape; 61 0 \N 0.66167 -9.35928 1600000 450981 370 235 1 -3.87920 0.70947 2018-03-06 11:48:03 2021-11-19 11:53:19 RF02873 AS-traI 2549 Antisense to traI Argasinska J Argasinska J 99.00 99.90 36.20 The pHK01 produces plasmid-encoded small RNAs and mediates expression of host sRNAs. These sRNAs are antisense to genes involved in replication, conjugate transfer and plasmid stabilisation: AS-repA3 (CopA), AS-traI, AS-finO, AS-traG, AS-pc02. The overexpression of AS-traI shortened the log phase of host growth. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 5 0 0 Gene; antisense; Predicted; RNAfold 7 0 \N 0.57246 -5.14945 1600000 238088 168 77 1 -3.15320 0.71895 2018-03-06 11:52:58 2019-01-04 15:01:52 RF02874 AS-traG 2549 Antisense to traG Argasinska J Argasinska J 58.00 58.60 35.70 The pHK01 produces plasmid-encoded small RNAs and mediates expression of host sRNAs. These sRNAs are antisense to genes involved in replication, conjugate transfer and plasmid stabilisation: AS-repA3 (CopA), AS-traI, AS-finO, AS-traG, AS-pc02. The overexpression of AS-traI shortened the log phase of host growth. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 13 0 0 Gene; antisense; Predicted; RNAfold 13 0 \N 0.58414 -3.93265 1600000 191237 179 86 1 -3.81820 0.71877 2018-03-06 11:53:23 2019-01-04 15:01:52 RF02875 AS-pc01 2549 Antisense to pHK01_035 Argasinska J Argasinska J 79.00 79.50 41.90 The pHK01 produces plasmid-encoded small RNAs and mediates expression of host sRNAs. These sRNAs are antisense to genes involved in replication, conjugate transfer and plasmid stabilisation: AS-repA3 (CopA), AS-traI, AS-finO, AS-traG, AS-pc02. The overexpression of AS-traI shortened the log phase of host growth. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 8 0 0 Gene; antisense; Predicted; RNAfold 6 0 \N 0.51299 -8.21981 1600000 304439 196 99 1 -3.23480 0.71868 2018-03-06 11:54:48 2019-01-04 15:01:52 RF02876 AS-pc02 2549 Antisense to pHK01_099 Argasinska J Argasinska J 40.00 40.50 36.90 The pHK01 produces plasmid-encoded small RNAs and mediates expression of host sRNAs. These sRNAs are antisense to genes involved in replication, conjugate transfer and plasmid stabilisation: AS-repA3 (CopA), AS-traI, AS-finO, AS-traG, AS-pc02. The overexpression of AS-traI shortened the log phase of host growth. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 4 0 0 Gene; antisense; Predicted; RNAfold 5 0 \N 0.65612 -8.41031 1600000 397142 313 185 1 -3.44000 0.71399 2018-03-06 11:55:14 2019-01-04 15:01:52 RF02877 NmsRb 2550 Neisseria metabolic switch regulator b (RcoF1/NgncR163) Argasinska J Argasinska J 52.00 52.40 45.30 Sibling sRNA described and independently named in three publications. NgncR163 is N. gonorrhoeae while the others are N. meningitidis RNAs. RcoF1 stands for: RNA regulating colonization factor 1. NmsRb_RcoF1_NgncR163 was shown to be the predominant sibling. They are tandemly arranged, structurally nearly identical and and share 70% sequence identity. They translationally down-regulate genes involved in basic metabolic processes including tricarboxylic acid cycle enzymes and amino acid uptake and degradation. The targets include: fumC, sdhC, gltA, sucC, prpB and prpC [1][3] Their expression is under the control of RelA.[3] Furthermore, they interact with Hfq and target mRNA that encodes putative colonization factor of the human nasopharynx (PrpB).[2] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 6 50 0 0 Gene; sRNA; Predicted; RNAfold; 36 0 \N 0.47451 -8.82692 1600000 308981 183 91 1 -4.01210 0.71867 2018-03-06 12:23:15 2019-01-04 15:01:52 RF02878 MH_s7 2551 Mesorhizobail RNA 7 Argasinska J Argasinska J 221.00 221.10 67.00 Existence predicted via genome wide comparisons with 4 related strains. Analysed further by deep sequencing and Northern blot under various stress conditions. Expressed only under rare growth conditions: symbiosis, micro-oxygen stress, and alkali stress. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 13 0 0 Gene; sRNA; Predicted; RNAfold; 13 0 \N 0.69381 -8.73167 1600000 373659 465 312 1 -4.33310 0.70542 2018-03-06 13:35:44 2019-01-04 15:01:52 RF02879 MH_s10 2551 Mesorhizobail RNA 10 Argasinska J Argasinska J 81.00 81.10 39.70 Existence predicted via genome wide comparisons with 4 related strains. Analysed further by deep sequencing and Northern blot under various stress conditions. Exhibited 2 bands. Strong signals in response to variety of stimuli. Highly abundant in symbiotic, micro-oxygen, oxidative and salt stress conditions. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 11 0 0 Gene; sRNA; Predicted; R-scape; 11 0 \N 0.52767 -9.90818 1600000 401236 259 143 1 -2.66720 0.71815 2018-03-06 14:13:23 2019-01-04 15:01:52 RF02880 MH_s15 2551 Mesorhizobail RNA 15 Argasinska J Argasinska J 123.00 123.20 34.70 Existence predicted via genome wide comparisons with 4 related strains. Analysed further by deep sequencing and Northern blot under various stress conditions. Widely expressed, accumulated heavily under most of the induction conditions, suggesting function in multiple cellular processes. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 2 5 0 0 Gene; sRNA; Predicted; RNAfold; 5 0 \N 0.59558 -9.67984 1600000 364528 410 266 1 -3.55680 0.70764 2018-03-06 14:17:03 2019-01-04 15:01:52 RF02881 MH_s25 2551 Mesorhizobail RNA 25 Argasinska J Argasinska J 114.00 114.90 51.70 Existence predicted via genome wide comparisons with 4 related strains. Analysed further by deep sequencing and Northern blot under various stress conditions. Showed complex banding pattern. Highly abundant in symbiotic, micro-oxygen, oxidative and salt stress conditions. Widely expressed and as it accumulated heavily under most tested induction conditions it may function in many cellular processes. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 2 5 0 0 Gene; sRNA; Predicted; R-scape; 5 0 \N 0.48749 -11.03758 1600000 428913 332 203 1 -3.21230 0.71182 2018-03-06 15:19:50 2019-01-04 15:01:52 RF02882 MH_s36 2551 Mesorhizobail RNA 36 Argasinska J Argasinska J 46.00 46.00 33.80 Existence predicted via genome wide comparisons with 4 related strains. Analysed further by deep sequencing and Northern blot under various stress conditions. Strong signals in response to variety of stimuli. Highly abundant in symbiotic, micro-oxygen, oxidative and salt stress conditions. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 2 10 0 0 Gene; sRNA; Predicted; RNAfold; 10 0 \N 0.47737 -8.85070 1600000 320201 189 92 1 -2.80130 0.71870 2018-03-06 15:20:31 2019-01-04 15:01:52 RF02883 BcKCsr2 2451 Burkholderia sRNA 2 Argasinska J Argasinska J 40.00 40.50 37.80 Upregulated in response to iron ion depletion. Predicted targets include MerR family transcriptional regulator. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 5 46 0 0 Gene; sRNA; Predicted; RNAfold 46 0 \N 0.59818 -8.23180 1600000 288935 345 130 1 -2.75420 0.71826 2018-03-06 15:23:34 2019-01-04 15:01:52 RF02884 BcKCsr7 2451 Burkholderia sRNA 7 Argasinska J Argasinska J 59.00 59.00 46.90 Did not show any change in expression in iron-depletion and hydrogen peroxide (oxidative stress) treatment. Constitutively expressed. Possibly targets the GTPase, ObgE. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 5 51 0 0 Gene; sRNA; Predicted; R-scape; 51 0 \N 0.57021 -8.00449 1600000 269734 290 157 1 -3.10810 0.71782 2018-03-06 15:26:00 2019-01-04 15:01:52 RF02885 SAM_VI 2552 SAM-VI riboswitch Argasinska J Argasinska J 57.50 57.50 57.20 sixth member of the riboswitch family predominantly found in Bifidobacterium and exhibits some similarities to the SAM-III (Smk box) riboswitch class, but it lacks most of the highly-conserved nucleotides of SAM-III class. SAM-VI aptamers bind the cofactor S-adenosylmethinine SAM (a key metabolite in sulphur metabolism) and discriminate strongly against S-adenosylhomocysteine SAH. The class was discovered by further analysis of Bifido-meK motif RNAs[1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 26 0 0 Cis-reg; riboswitch; Predicted; RNAfold; 26 0 \N 0.60187 -4.61909 1600000 305168 238 62 1 -3.42440 0.71931 2018-03-07 12:24:52 2021-07-05 13:43:57 RF02886 npcTB_6715 2178 Mycobacterium sRNA 6715 Argasinska J Argasinska J 72.00 72.00 66.20 First sRNA identified as a potential biomarker for the detection of MTB in patients. Overlaps partially the 5'leader and SDS of hypothetical protein LH_10405. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 3 38 0 0 Gene; sRNA; Predicted; RNAfold; 38 0 \N 0.66816 -8.46904 1600000 377829 343 212 1 -3.13950 0.71131 2018-03-07 12:41:58 2019-01-04 15:01:52 RF02887 mgtC_leader 2553 Salmonella mgtC leader RNA Argasinska J Argasinska J 48.00 48.50 42.10 From mgtCBR operon, decreases flagellin production during infection by directly base pairing with mRNAs of the fljB gene encoding flagellin and promotes fljBA mRNA degradation. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 604040.189692 --mxsize 128 CM SEQDB 4 26 0 0 Cis-reg; leader; Predicted; Rscape; 26 0 \N 0.52675 -10.17504 1600000 459585 217 114 1 -3.16350 0.71819 2018-03-28 15:36:15 2019-01-04 15:01:52 RF02888 BtsR1 2554 Bacillus sRNA 1 Argasinska J Argasinska J 66.00 66.60 36.20 Allows avoidance of host behavioural defences by silencing the Cry toxin when outside the host via direct base pairing to the RBS site of the Cry5Ba toxin transcript and inhibiting its expression. The silencing results in increased ingestion by C. elegans and is relieved inside the host, resulting in host death. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; sRNA; Predicted; Rscape; 7 0 \N 0.57327 -7.90530 1600000 529658 131 51 1 -3.51040 0.72359 2018-03-28 15:36:53 2022-05-06 12:10:08 RF02889 Sr006 2555 Pseudomonas sRNA 6 Argasinska J Argasinska J 100.00 106.70 40.10 Positively regulates (post-transcriptionally), without Hfq, the expression of PagL, an enzyme responsible for deacylation of lipid A. This reduces the pro-inflammatory property of lipid A. [1] Furthermore, similarly to Salmonella, Sr006 regulation of PagL expression was suggested to aid in polymyxin B resistance.[1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 0 0 0 Gene; sRNA; Predicted; Rscape; 3 0 \N 0.47170 -10.00745 1600000 360017 229 124 1 -2.91120 0.71831 2018-03-28 15:37:23 2021-11-19 11:53:19 RF02890 SprC 2458 Small pathogenicity island RNA C (srn_3610) Argasinska J Argasinska J 100.00 147.00 79.60 Reduces autolysin ALT expression by binding to the mRNA and preventing ribosome loading. Reduces virulence and bacterial load in mouse model.[1] SarA TF represses its transcription by binding to an essential 22 bp region.[2] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; sRNA; Predicted; RNAfold 2 0 \N 0.45798 -9.01351 1600000 317940 266 150 1 -2.87120 0.71797 2018-05-23 11:49:45 2022-05-06 12:10:07 RF02891 AgrB 2254 ArsR-gov region gene B Argasinska J Argasinska J 40.00 40.50 39.40 arsR-gov region gene B is transcribed opposite of dinQ (translates into a toxic single transmembrane peptide) with 30 complimentary nucleotides. AgrB appears to repress accumulation of dinQ by RNA interference and counteracts its toxicity. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 4 22 0 0 Gene; antisense; Predicted; RNAfold 17 0 \N 0.50669 -7.51056 1600000 288649 175 84 1 -3.15240 0.71878 2018-05-23 12:02:06 2019-01-10 15:16:02 RF02892 SR6_antitoxin 2557 Bacillus SR6 antitoxin Argasinska J Argasinska J 55.00 55.60 43.70 Overlaps 2 toxins: 3' end of yonT and yoyJ at its 5'end. In type I toxin-antitoxin (TA) systems the antitoxin is a small RNA that neutralizes a toxin protein. YonT/SR6 system is located on the SPβ prophage of the B. subtilis chromosome and it was shown to be multi-stress responsive. SR6 acts by promoting yonT mRNA degradation. It may regulate the second toxin, yoyJ by a different mechanism. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 3 3 0 0 Gene; antisense; Predicted; RNAfold; 6 0 \N 0.52712 -6.27896 1600000 254544 206 104 1 -3.55830 0.71853 2018-05-23 12:03:39 2019-01-10 15:16:03 RF02893 RpsF_leader 2558 RpsF leader Argasinska J Argasinska J 37.00 37.00 36.60 Conserved and widely distributed to many bacterial species RNA structure. It precedes operon containing rpsF, which encodes ribosomal protein S6. The motif also precedes operon containing rpsR, which encodes ribosomal protein S18. The RNA was shown to interact with S6:S18 protein dimer in vitro.[1] It was shown that RpsF leader regulates gene expression in response to the S6:S18 complex, contributing to the regulation of ribosomal protein levels [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 10 214 0 0 Cis-reg; leader; Predicted; 24310371; 223 0 \N 0.65102 -3.60900 1600000 166130 179 85 1 -3.70250 0.71869 2018-05-23 12:19:06 2019-01-10 15:16:03 RF02894 S35 2458 Staphylococcus sRNA 35 (srn_0335) Argasinska J Argasinska J 69.00 69.60 67.00 Other name: Srn_0335 [2], SAOUHSCs258 [3]. Northern blot transcript confirmed in exponentially growing and stationary cells in three cultivation media. Trans-encoded.[1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 3 64 0 0 Gene; sRNA; Predicted; RNAfold 9 0 \N 0.67895 -7.74624 1600000 350559 501 270 1 -3.91210 0.70745 2018-06-18 14:47:01 2019-01-10 15:16:03 RF02895 S414 2458 Staphylococcus sRNA 414 Argasinska J Argasinska J 45.00 45.60 43.80 Antisense of an annotated CDS (SAOUHSC_1422) but was considered an trans-encoded sRNA rather than a typical antisense RNA [1]. Target prediction revealed enrichment of iron-coding genes and genes with function in cofator metabolism. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 5 38 0 0 Gene; sRNA; Predicted; RNAfold 43 0 \N 0.47714 -9.27228 1600000 398008 295 175 1 -3.07150 0.71498 2018-06-18 14:50:45 2019-01-10 15:16:03 RF02896 S774 2458 Staphylococcus sRNA 774 Argasinska J Argasinska J 48.00 48.40 47.00 Northern blot transcript confirmed in exponentially growing and stationary cells in three cultivation media. Trans-encoded.[1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 4 24 0 0 Gene; sRNA; Predicted; R-scape; 28 0 \N 0.41917 -8.87465 1600000 329636 194 95 1 -2.78390 0.71840 2018-06-18 14:53:19 2019-01-10 15:16:03 RF02897 S808 2458 Staphylococcus sRNA 808 Argasinska J Argasinska J 76.00 76.80 41.80 Other name: Srn9345[2]. Own promoter plus 3'UTR of SAOUHSC_02016.[2] Highly expressed under all conditions tested. Northern blot transcript confirmed in exponentially growing and stationary cells in three cultivation media. Trans-encoded.[1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 4 22 0 0 Gene; sRNA; Predicted; RNAfold 26 0 \N 0.64857 -8.96388 1600000 480803 397 255 1 -3.43660 0.70814 2018-06-18 14:54:15 2019-01-10 15:16:03 RF02898 AaHKsRNA20 2559 Aggregatibacter sRNA 20 Argasinska J Argasinska J 43.00 43.40 39.80 Validated by RT-PCR and Northern blot. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 6 26 0 0 Gene; sRNA; Predicted; Rscape; 32 0 \N 0.56081 -2.74659 1600000 213054 163 77 1 -3.66550 0.71889 2018-06-18 16:11:04 2019-01-10 15:16:03 RF02899 AaHKsRNA54 2559 Aggregatibacter sRNA 54 Argasinska J Argasinska J 37.00 37.10 36.20 Validated by RT-PCR, expression up-regulated during growth. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 6 18 0 0 Gene; sRNA; Predicted; RNAfold; 24 0 \N 0.50362 -8.02735 1600000 302830 225 118 1 -3.13760 0.71846 2018-06-18 16:12:00 2019-01-10 15:16:03 RF02900 AaHKsRNA82 2559 Aggregatibacter sRNA 82 Argasinska J Argasinska J 51.40 51.40 50.80 Validated by RT-PCR, expression down-regulated during growth. Blast search using Bacterial Small Regulatory RNA Database found isrK. Has Rho-independent terminator. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 4 10 0 0 Gene; sRNA; Predicted; RNAfold; 12 0 \N 0.51860 -5.26773 1600000 353327 167 81 1 -3.40940 0.71880 2018-06-18 16:13:02 2019-01-10 15:16:03 RF02901 AaHKsRNA41 2559 Aggregatibacter sRNA 41 Argasinska J Argasinska J 97.00 97.40 95.80 Validated by RT-PCR, expression up-regulated during growth. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 2 5 0 0 Gene; sRNA; Predicted; RNAfold; 5 0 \N 0.61719 -7.90639 1600000 300433 302 180 1 -3.30410 0.71445 2018-06-18 16:13:36 2019-01-10 15:16:03 RF02902 AaHKsRNA22 2559 Aggregatibacter sRNA 22 Argasinska J Argasinska J 39.80 39.80 39.60 Validated by RT-PCR. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 7 132 0 0 Gene; sRNA; Predicted; RNAfold; 36 0 \N 0.52927 -8.97756 1600000 316515 195 101 1 -3.58510 0.71861 2018-06-18 16:14:18 2019-01-10 15:16:03 RF02903 AaHKsRNA96 2559 Aggregatibacter sRNA 96 Argasinska J Argasinska J 43.00 43.80 40.90 Validated by RT-PCR. Antisense gene: HK1651_08600. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 3 11 0 0 Gene; antisense; Predicted; RNAfold; 14 0 \N 0.51856 -6.31703 1600000 268643 222 117 1 -3.12410 0.71837 2018-06-18 16:15:06 2019-01-10 15:16:03 RF02904 AaHKsRNA69 2559 Aggregatibacter sRNA 69 Argasinska J Argasinska J 43.00 43.70 40.90 Validated by RT-PCR. Has Rho-independent terminator. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 3 12 0 0 Gene; sRNA; Predicted; RNAfold; 15 0 \N 0.51099 -5.62115 1600000 319417 172 83 1 -3.44210 0.71877 2018-06-18 16:15:34 2019-01-10 15:16:03 RF02905 sRNA41 2560 Archaeal Small RNA 41 Argasinska J Argasinska J 45.00 45.20 44.00 Highly expressed during nitrogen sufficiency[1]. Capable to bind several ribosome binding sites independently within a polycistronic mRNA. Inhibits translation initiation of all ACDS (acetyl-CoA decarbonylase/ synthase complex) genes in N-dependent manner [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; sRNA; Predicted; RNAfold; 4 0 \N 0.51575 -6.66217 1600000 301099 215 113 1 -2.93660 0.71843 2018-06-18 16:23:17 2022-05-06 12:10:08 RF02906 sRNA154 2560 Archaeal Small RNA 154 Argasinska J Argasinska J 88.00 88.40 35.90 Exclusively expressed under nitrogen deficiency, has a central regulatory role in nitrogen metabolism affecting nitrogenase and glutamine synthetase by masking the ribosome binding site or positively affecting transcript stability. Global nitrogen repressor NrpR direct binding.[2] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 3 1 0 0 Gene; sRNA; Predicted; RNAfold; 4 0 \N 0.60234 -5.74845 1600000 276180 245 134 1 -3.31360 0.71822 2018-06-18 16:29:43 2019-01-10 15:16:03 RF02907 patAB 2341 patAB leader Argasinska J Argasinska J 92.00 92.70 41.90 Mutation in hairpin loop weakens it and seems to increase the transcription of the downstream CDS. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 2 2 0 0 Cis-reg; leader; Predicted; RNAfold; 4 0 \N 0.55806 -4.33586 1600000 356793 143 57 1 -3.26280 0.72817 2018-06-18 16:32:04 2019-01-10 15:16:02 RF02908 rli30 1267 Listeria sRNA rli30 Argasinska J Argasinska J 41.00 41.80 36.80 Coevolved with internalin gene lmo2445. Paired with CDS partners lmo0501 and lmo0508.[2] Antisense to lmo0506 [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 3 17 0 0 Gene; antisense; Predicted; RNAfold; 19 0 \N 0.52667 -7.95698 1600000 283978 221 116 1 -2.94550 0.71838 2018-06-18 16:36:07 2019-01-10 15:16:02 RF02909 rli117 1267 Listeria sRNA rli117 Argasinska J Argasinska J 87.00 87.60 84.50 Coevolved with internalin genes lmo0549, lmo0263, lmo02470. Internalins are important virulence factors. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 3 12 0 0 Gene; sRNA; Predicted; RNAfold; 8 0 \N 0.66199 -7.98137 1600000 354385 415 272 1 -3.34280 0.70727 2018-06-18 16:38:39 2019-01-10 15:16:02 RF02911 Baculoviridae_NAE 2562 Baculoviridae Nucleocapsid Assembly essential Element Argasinska J Argasinska J 51.00 51.40 42.00 Internal cis-element within the ac83 gene. Ac83 is involved in nucleocapsid assembly via NAE (nucleocapsid assembly essential element). element). The nucleocapsid assembly is not dependent on the Ac83 protein product. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 6 24 0 0 Cis-reg; Predicted; RNAfold; 30 0 \N 0.43827 -10.98331 1600000 407564 325 200 1 -3.35520 0.71219 2018-06-19 10:59:34 2019-01-10 15:16:03 RF02912 AAC_AAD_leader 2563 putative aminoglycoside riboswitch / attI site Argasinska J Argasinska J 56.00 56.20 50.70 Conserved RNA structure found upstream of the bacterial aminoglycosides antibiotic-resistant genes: aminoglycoside acetyl transferase (AAC) and aminoglycoside adenyl transferase (AAD). It has putative short open reading frame (ORF) that encode leader peptide upstream of the resistance gene. 75 nucleotide long sequence from the first ribosome binding site (SD1) up to the coding sequence was shown to have the regulatory role, and it was considered the minima functional RNA. Aminoglycosides bind to specific regions of AAC/AAD 5' leader and induce change in the RNA structure. The drug binding induces expression of the resistance protein. The leader RNA is widely distributed among antibiotic-resistant bacterial pathogens.[1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 25 0 0 Cis-reg; riboswitch; Published; 23332747; 23 0 \N 0.60190 -6.63998 1600000 349391 164 75 1 -3.62810 0.71895 2018-06-19 11:03:38 2020-09-14 14:07:08 RF02913 pemK 2564 pemK RNA Argasinska J, Corbino K, Weinberg Z Weinberg Z 34.80 34.80 34.40 Firmicutes. Environment (Human gut, Qin et al., obese & healthy subjects) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 1542 750 0 0 Cis-reg; Published; PMID:28977401; 477 0 \N 0.52357 -9.43446 1600000 497899 394 61 1 -3.27260 0.71898 2018-06-27 12:30:23 2022-10-29 16:55:17 RF02914 DUF805b 2565 DUF805b RNA Argasinska J, Weinberg Z Weinberg Z 35.60 35.60 35.50 Bacteroidetes, Chlorobi (1 example), Proteobacteria. Lineage (Flavobacteria) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18.93 -Z 742849.287494 --mxsize 128 CM SEQDB 1230 807 0 0 Cis-reg; Published; PMID:28977401; 334 0 \N 0.79771 -5.02831 1600000 428378 79 36 1 -3.61420 0.72676 2018-06-27 12:38:12 2019-01-17 14:00:28 RF02915 DUF3800-VI 2566 DUF3800-VI RNA Weinberg Z Weinberg Z 35.00 35.00 34.50 Actinobacteria, Planctomycetes, Proteobacteria, Spirochaetes. Nearby to DUF3800 \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.79 -Z 742849.287494 --mxsize 128 CM SEQDB 87 26 0 0 Cis-reg; Published; PMID:28977401; 29 0 \N 0.61042 -4.99422 1600000 311329 106 52 1 -3.53510 0.72432 2018-07-02 14:22:42 2019-01-17 14:00:28 RF02916 atpB 2567 atpB RNA Argasinska J, Weinberg Z Weinberg Z 37.40 37.40 35.00 Corynebacteriaceae (Actinobacteria). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.62 -Z 742849.287494 --mxsize 128 CM SEQDB 72 88 0 0 Cis-reg; Published; PMID:28977401; 126 0 \N 0.58958 -9.26653 1600000 315314 237 128 1 -3.59440 0.71804 2018-07-03 14:33:52 2019-01-10 15:16:03 RF02917 Burkholderiales-2 2568 Burkholderiales-2 RNA Argasinska J, Weinberg Z Weinberg Z 67.90 67.90 37.50 BetaProteobacteria, Bacteroidetes (suspicious). Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.61 -Z 742849.287494 --mxsize 128 CM SEQDB 19 8 0 0 Cis-reg; Published; PMID:28977401; 13 0 \N 0.49269 -9.53477 1600000 512535 157 74 1 -2.95350 0.71900 2018-07-03 14:39:15 2019-01-10 15:16:03 RF02918 MDR-NUDIX 2569 MDR-NUDIX RNA Weinberg Z Weinberg Z 54.90 54.90 36.20 TM7. Lineage (Saccharibacteria, aka TM7) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.65 -Z 742849.287494 --mxsize 128 CM SEQDB 15 9 0 0 Cis-reg; Published; PMID:28977401; 7 0 \N 0.54183 -8.80383 1600000 473550 139 61 1 -3.63870 0.71928 2018-07-03 14:41:13 2019-01-17 14:00:28 RF02919 ilvB-OMG 2570 ilvB-OMG RNA Weinberg Z Weinberg Z 95.90 95.90 67.20 OMG group (GammaProteobacteria). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 17.71 -Z 742849.287494 --mxsize 128 CM SEQDB 28 6 0 0 Cis-reg; Published; PMID:28977401; 7 0 \N 0.74219 -8.05743 1600000 436078 337 210 1 -3.62470 0.71143 2018-07-03 14:43:06 2019-01-17 14:00:28 RF02920 Fusobacteriales-1 2571 Fusobacteriales-1 RNA Corbino K, Weinberg Z Weinberg Z 52.10 52.10 49.50 Fusobacteria. Lineage (Fusobacteria) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34.98 -Z 742849.287494 --mxsize 128 CM SEQDB 13 9 0 0 Cis-reg; Published; PMID:28977401; 14 0 \N 0.41104 -10.77637 1600000 317555 212 114 1 -2.94850 0.71834 2018-07-03 14:47:50 2019-01-17 14:00:28 RF02921 RT-14 2572 RT-14 RNA Weinberg Z Weinberg Z 48.10 48.10 46.30 Cloacimonetes, Firmicutes, Proteobacteria. Nearby to self-splicing intron genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34.10 -Z 742849.287494 --mxsize 128 CM SEQDB 143 52 0 0 Gene; sRNA; Published; PMID:28977401; 45 0 \N 0.42616 -10.38265 1600000 367526 235 144 1 -2.83100 0.71806 2018-07-03 14:50:22 2019-01-17 14:00:28 RF02922 RAGATH-32 2449 RAGATH-32 RNA Weinberg Z Weinberg Z 41.80 41.80 36.60 Legionellales (_-Proteobacteria). Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.80 -Z 742849.287494 --mxsize 128 CM SEQDB 19 37 0 0 Cis-reg; Published; PMID:28977401; 33 0 \N 0.61586 -8.07702 1600000 390097 166 78 1 -3.22950 0.71872 2018-07-03 14:52:21 2019-01-17 14:00:27 RF02923 HTH-XRE 2573 HTH-XRE RNA Weinberg Z Weinberg Z 49.80 49.80 39.80 Clostridiales. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.51 -Z 742849.287494 --mxsize 128 CM SEQDB 60 10 0 0 Cis-reg; Published; PMID:28977401; 17 0 \N 0.59259 -4.93515 1600000 266737 162 78 1 -3.52230 0.71872 2018-07-03 16:27:14 2019-01-17 14:00:28 RF02924 skipping-rope 2574 skipping-rope RNA Argasinska J, Weinberg Z Weinberg Z 36.70 36.70 36.50 Firmicutes, Fusobacteria, AlphaProteobacteria, Spirochaetes. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.15 -Z 742849.287494 --mxsize 128 CM SEQDB 1426 173 0 0 Gene; sRNA; Published; PMID:28977401; 360 0 \N 0.61173 -4.55766 1600000 167702 417 85 1 -3.70640 0.71859 2018-07-04 15:28:53 2019-01-17 14:00:28 RF02925 6A 2575 6A RNA Weinberg Z Weinberg Z 41.20 41.20 40.60 Actinobacteria (1 example), Firmicutes, Fusobacteria. Terminator (Clostridia) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.56 -Z 742849.287494 --mxsize 128 CM SEQDB 273 20 0 0 Gene; sRNA; Published; PMID:28977401; 41 0 \N 0.60914 -4.16536 1600000 288869 329 52 1 -3.75350 0.71918 2018-11-26 15:26:14 2019-01-10 15:16:03 RF02926 DUF2693-FD 2576 DUF2693-FD RNA Weinberg Z Weinberg Z 46.70 46.70 33.50 Bacteroides. No recognized genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.93 -Z 742849.287494 --mxsize 128 CM SEQDB 91 5 0 0 Gene; sRNA; Published; PMID:28977401; 17 0 \N 0.68179 -3.86120 1600000 365441 108 49 1 -3.99570 0.71930 2018-12-11 12:46:01 2019-01-10 15:16:03 RF02927 Actino-ugpB 2577 Actino-ugpB RNA Weinberg Z Weinberg Z 42.50 42.50 40.90 Actinobacteria. Lineage (Bifidobacteriales) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.42 -Z 742849.287494 --mxsize 128 CM SEQDB 12 3 0 0 Gene; sRNA; Published; PMID:28977401; 7 0 \N 0.51716 -8.61563 1600000 447456 368 61 1 -3.59530 0.71906 2018-12-12 10:23:43 2019-01-10 15:16:03 RF02928 Actinomyces-1 2578 Actinomyces-1 RNA Weinberg Z Weinberg Z 39.10 39.10 36.90 Actinomyces. Lineage (Actinomycetales) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.02 -Z 742849.287494 --mxsize 128 CM SEQDB 236 49 0 0 Gene; sRNA; Published; PMID:28977401; 18 0 \N 0.49786 -7.82161 1600000 327799 204 110 1 -3.19200 0.71850 2018-12-12 10:40:24 2019-01-10 15:16:03 RF02929 algC 2579 algC RNA Weinberg Z Weinberg Z 33.80 33.80 33.60 Enterobacteriaceae. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.99 -Z 742849.287494 --mxsize 128 CM SEQDB 492 21 0 0 Cis-reg; Published; PMID:28977401; 472 0 \N 0.65008 -3.80271 1600000 289956 117 52 1 -3.85840 0.71920 2018-12-12 10:50:55 2019-01-10 15:16:03 RF02930 aspS 2580 aspS RNA Weinberg Z Weinberg Z 42.50 42.50 36.40 Actinobacteria. Lineage (Coriobacterales) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.47 -Z 742849.287494 --mxsize 128 CM SEQDB 58 24 0 0 Cis-reg; Published; PMID:28977401; 26 0 \N 0.49953 -8.76822 1600000 424886 164 80 1 -3.47430 0.71901 2018-12-12 10:53:54 2019-01-10 15:16:03 RF02931 Bacilli-1 2581 Bacilli-1 RNA Weinberg Z Weinberg Z 55.60 55.60 36.60 Bacilli (Firmicutes). Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.99 -Z 742849.287494 --mxsize 128 CM SEQDB 145 8 0 0 Gene; sRNA; Published; PMID:28977401; 92 0 \N 0.68054 -4.78659 1600000 347854 143 65 1 -3.29280 0.71894 2018-12-12 10:58:30 2019-01-10 15:16:03 RF02932 Betaproteobacteria-1 2582 Betaproteobacteria-1 RNA Weinberg Z Weinberg Z 49.40 49.40 36.00 Betaproteobacteria. Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.11 -Z 742849.287494 --mxsize 128 CM SEQDB 102 27 0 0 Gene; sRNA; Published; PMID:28977401; 33 0 \N 0.49792 -11.75606 1600000 546090 208 120 1 -3.22970 0.71817 2018-12-12 11:15:28 2019-01-10 15:16:03 RF02933 ARRPOF 2583 ARRPOF RNA Weinberg Z Weinberg Z 127.20 127.20 115.20 Fusobacteria. Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.82 -Z 742849.287494 --mxsize 128 CM SEQDB 35 1 0 0 Gene; sRNA; Published; PMID:28977401; 3 0 \N 0.64508 -8.63235 1600000 385048 413 257 1 -3.45680 0.70799 2018-12-12 12:15:45 2019-01-10 15:16:03 RF02934 caiA 2584 caiA RNA Weinberg Z Weinberg Z 55.50 55.50 41.80 Clostridiales (Firmicutes). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.89 -Z 742849.287494 --mxsize 128 CM SEQDB 14 4 0 0 Gene; sRNA; Published; PMID:28977401; 8 0 \N 0.50810 -6.74151 1600000 260649 159 78 1 -3.47900 0.71871 2018-12-12 13:18:43 2019-01-10 15:16:03 RF02935 che1 2585 che1 RNA Weinberg Z Weinberg Z 54.10 54.10 49.30 Streptomyces. Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.87 -Z 742849.287494 --mxsize 128 CM SEQDB 98 186 0 0 Gene; sRNA; Published; PMID:28977401; 237 0 \N 0.43807 -10.33526 1600000 230882 190 91 1 -2.93810 0.71872 2018-12-12 13:24:32 2019-01-10 15:16:03 RF02936 Chloroflexus-1 2586 Chloroflexus-1 RNA Weinberg Z Weinberg Z 181.50 181.50 46.60 Chloroflexus (Chloroflexi). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.13 -Z 742849.287494 --mxsize 128 CM SEQDB 4 1 0 0 Gene; sRNA; Published; PMID:28977401; 4 0 \N 0.66266 -8.46099 1600000 363490 293 171 1 -3.32070 0.71568 2018-12-12 13:45:05 2019-01-10 15:16:03 RF02937 Clostridiales-2 2587 Clostridiales-2 RNA Weinberg Z Weinberg Z 58.60 58.60 58.20 Clostridiales. Environment (Chloroethene soil) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.76 -Z 742849.287494 --mxsize 128 CM SEQDB 44 110 0 0 Gene; sRNA; Published; PMID:28977401; 13 0 \N 0.66744 -4.87234 1600000 220118 205 82 1 -3.85910 0.71870 2018-12-12 13:58:26 2019-01-10 15:16:03 RF02938 COG2827 2588 COG2827 RNA Weinberg Z Weinberg Z 49.10 49.10 38.50 Clostridiales. Nearby to self-splicing intron genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.00 -Z 742849.287494 --mxsize 128 CM SEQDB 48 20 0 0 Gene; sRNA; Published; PMID:28977401; 30 0 \N 0.53014 -7.31400 1600000 291260 206 80 1 -3.03750 0.71904 2018-12-12 14:12:05 2019-01-10 15:16:03 RF02939 COG2908 2589 COG2908 RNA Weinberg Z Weinberg Z 58.70 58.70 32.20 Freshwater metagenome only. Environment (Freshwater) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.80 -Z 742849.287494 --mxsize 128 CM SEQDB 9 0 0 0 Cis-reg; Published; PMID:28977401; 1 0 \N 0.78954 -3.12525 1600000 343352 113 45 1 -4.02770 0.71953 2018-12-12 14:49:16 2019-01-10 15:16:03 RF02940 COG3860 2590 COG3860 RNA Weinberg Z Weinberg Z 42.50 42.50 41.60 Proteobacteria. Lineage (Rhizobiales) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.88 -Z 742849.287494 --mxsize 128 CM SEQDB 42 122 0 0 Cis-reg; Published; PMID:28977401; 134 0 \N 0.60949 -8.51983 1600000 441135 125 54 1 -3.75990 0.71921 2018-12-12 16:19:16 2019-01-10 15:16:03 RF02941 COG3943 2591 COG3943 RNA Weinberg Z Weinberg Z 71.80 71.80 36.30 cow rumen. Environment (Cow rumen (57)) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.52 -Z 742849.287494 --mxsize 128 CM SEQDB 27 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.52276 -8.01915 1600000 252317 202 108 1 -3.64380 0.71853 2018-12-12 16:23:38 2019-01-10 15:16:03 RF02942 Clostridiales-3 2592 Clostridiales-3 RNA Weinberg Z Weinberg Z 103.40 103.40 55.80 Clostridiales (Firmicutes). Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.17 -Z 742849.287494 --mxsize 128 CM SEQDB 157 16 0 0 Gene; sRNA; Published; PMID:28977401; 21 0 \N 0.67697 -8.98700 1600000 408170 558 262 1 -3.71300 0.70778 2018-12-12 16:34:45 2019-01-10 15:16:03 RF02943 Bacteroidales-2 2593 Bacteroidales-2 RNA Weinberg Z Weinberg Z 204.30 204.30 46.60 Bacteroidales. Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.63 -Z 742849.287494 --mxsize 128 CM SEQDB 43 3 0 0 Gene; sRNA; Published; PMID:28977401; 11 0 \N 0.68634 -8.05042 1600000 383705 698 392 1 -4.18080 0.70288 2018-12-12 16:37:46 2019-01-10 15:16:03 RF02944 c4-2 2102 c4-2 RNA Weinberg Z Weinberg Z 41.00 41.10 40.50 Bacteroidetes, some Proteobacteria. Lineage (Flavobacteria) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 224 81 0 0 Gene; sRNA; Published; PMID:28977401; 45 0 \N 0.65866 -3.20537 1600000 309837 130 79 1 -3.90010 0.72199 2018-12-12 16:40:04 2022-10-29 16:55:17 RF02945 Corio-PBP 2594 Corio-PBP RNA Weinberg Z Weinberg Z 63.50 63.50 41.30 Actinobacteria. Lineage (Coriobacterales) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.65 -Z 742849.287494 --mxsize 128 CM SEQDB 14 16 0 0 Gene; sRNA; Published; PMID:28977401; 17 0 \N 0.59775 -4.70682 1600000 297772 321 74 1 -3.52670 0.71905 2018-12-12 16:50:43 2019-01-10 15:16:03 RF02946 cow-rumen-1 2595 cow-rumen-1 RNA Weinberg Z Weinberg Z 53.40 53.40 37.90 cow rumen metagenome. Environment (Cow rumen (57)) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.01 -Z 742849.287494 --mxsize 128 CM SEQDB 50 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.67235 -5.04147 1600000 333806 146 61 1 -3.62030 0.71905 2018-12-12 16:55:03 2019-01-10 15:16:03 RF02947 cow-rumen-2 2595 cow-rumen-2 RNA Weinberg Z Weinberg Z 66.00 66.60 36.80 cow rumen metagenome. Environment (Cow rumen (57)) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 32 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.54420 -6.75247 1600000 231072 193 106 1 -3.91910 0.71837 2018-12-12 16:56:58 2022-10-29 16:55:17 RF02948 cow-rumen-4 2595 cow-rumen-4 RNA Weinberg Z Weinberg Z 48.50 48.50 38.70 cow rumen metagenome. Environment (Cow rumen (57)) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.83 -Z 742849.287494 --mxsize 128 CM SEQDB 8 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.52050 -7.85552 1600000 709503 137 64 1 -3.46660 0.72292 2018-12-12 16:58:45 2019-01-10 15:16:03 RF02949 Cupriavidus-1 2596 Cupriavidus-1 RNA Weinberg Z Weinberg Z 45.50 45.50 40.40 Betaproteobacteria. Lineage (Betaproteobacteria) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.11 -Z 742849.287494 --mxsize 128 CM SEQDB 5 9 0 0 Gene; sRNA; Published; PMID:28977401; 9 0 \N 0.45106 -10.25106 1600000 428436 161 78 1 -3.54500 0.71901 2018-12-12 17:01:06 2019-01-10 15:16:03 RF02950 D12-methyl 2597 D12-methyl RNA Weinberg Z Weinberg Z 57.00 57.00 37.20 Environmental. Terminator (Clostridia) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.44 -Z 742849.287494 --mxsize 128 CM SEQDB 19 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.51703 -9.44339 1600000 412742 147 64 1 -3.68820 0.71906 2018-12-12 17:05:26 2019-01-10 15:16:03 RF02951 DABA-DC-AT 2598 DABA-DC-AT RNA Weinberg Z Weinberg Z 56.10 56.10 36.10 Gammaproteobacteria. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.01 -Z 742849.287494 --mxsize 128 CM SEQDB 126 55 0 0 Cis-reg; Published; PMID:28977401; 159 0 \N 0.63569 -6.93177 1600000 209961 443 151 1 -3.39070 0.71796 2018-12-12 17:08:10 2019-01-10 15:16:03 RF02952 dfrA-dnaX 2599 dfrA-dnaX RNA Weinberg Z Weinberg Z 48.60 48.60 45.10 Parvimonas (Firmicutes). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 39.34 -Z 742849.287494 --mxsize 128 CM SEQDB 138 20 0 0 Gene; sRNA; Published; PMID:28977401; 5 0 \N 0.40238 -6.73727 1600000 243262 153 76 1 -3.15440 0.71873 2018-12-12 17:10:48 2019-01-10 15:16:03 RF02953 DUF1874 2600 DUF1874 RNA Weinberg Z Weinberg Z 44.80 44.80 39.30 Hot springs metagenome only. Environment (Bison Hot Springs, Yellowstone) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.63 -Z 742849.287494 --mxsize 128 CM SEQDB 76 0 0 0 Cis-reg; Published; PMID:28977401; 1 0 \N 0.59269 -4.32523 1600000 199789 176 93 1 -3.54890 0.71865 2018-12-13 09:43:50 2019-01-10 15:16:03 RF02954 DUF3577 2601 DUF3577 RNA Weinberg Z Weinberg Z 42.60 42.60 36.60 Cardiobacterium (Gammaproteobacteria). No recognized genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.82 -Z 742849.287494 --mxsize 128 CM SEQDB 86 4 0 0 Cis-reg; Published; PMID:28977401; 2 0 \N 0.52044 -7.53390 1600000 211367 197 105 1 -3.39360 0.71862 2018-12-13 09:52:33 2019-01-10 15:16:03 RF02955 EGFOA 2602 EGFOA RNA Weinberg Z Weinberg Z 37.70 37.70 36.50 Firmicutes, Actinobacteria. Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.00 -Z 742849.287494 --mxsize 128 CM SEQDB 73 26 0 0 Gene; sRNA; Published; PMID:28977401; 26 0 \N 0.52314 -8.84692 1600000 299985 398 107 1 -3.07390 0.71834 2018-12-13 10:10:30 2019-01-10 15:16:03 RF02956 DUF2693 2603 DUF2693 RNA Weinberg Z Weinberg Z 81.30 81.30 36.40 Porphyromonas (Bacteroidetes). Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.28 -Z 742849.287494 --mxsize 128 CM SEQDB 63 0 0 0 Gene; sRNA; Published; PMID:28977401; 2 0 \N 0.51744 -10.59411 1600000 415946 366 165 1 -3.10540 0.71633 2018-12-13 10:28:23 2019-01-10 15:16:03 RF02957 EFASI 2604 EFASI RNA Weinberg Z Weinberg Z 51.20 51.20 43.80 Enterobacteriaceae (Gammaproteobacteria). Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.25 -Z 742849.287494 --mxsize 128 CM SEQDB 448 105 0 0 Gene; sRNA; Published; PMID:28977401; 332 0 \N 0.56670 -6.06468 1600000 193850 374 134 1 -3.32160 0.71822 2018-12-13 10:46:40 2019-01-10 15:16:03 RF02958 drum 2605 drum RNA Weinberg Z Weinberg Z 43.00 43.00 38.90 Firmicutes, Bacteroidetes (1 example), Proteobacteria (2 examples), Spirochaetes (2 examples). Terminator (Clostridia) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.05 -Z 742849.287494 --mxsize 128 CM SEQDB 464 54 0 0 Gene; sRNA; Published; PMID:28977401; 72 0 \N 0.52970 -8.15317 1600000 269874 199 114 1 -3.80960 0.71824 2018-12-13 11:00:01 2019-01-10 15:16:03 RF02959 DUF3085 2606 DUF3085 RNA Weinberg Z Weinberg Z 40.60 40.60 37.20 Thauera (Betaproteobacteria). Environment (Sludge) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.18 -Z 742849.287494 --mxsize 128 CM SEQDB 16 15 0 0 Cis-reg; Published; PMID:28977401; 2 0 \N 0.49606 -10.01901 1600000 365450 157 76 1 -3.19850 0.71893 2018-12-13 11:05:47 2019-01-10 15:16:03 RF02960 DUF2800 2607 DUF2800 RNA Weinberg Z Weinberg Z 60.20 60.20 39.90 Actinobacteria, Firmicutes, Synergistetes (1 example). Terminator (Clostridia) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.83 -Z 742849.287494 --mxsize 128 CM SEQDB 155 13 0 0 Cis-reg; Published; PMID:28977401; 24 0 \N 0.51147 -10.49723 1600000 420854 262 158 1 -3.63370 0.71732 2018-12-13 11:22:20 2019-01-10 15:16:03 RF02961 DUF3800-II 2566 DUF3800-II RNA Weinberg Z Weinberg Z 43.20 43.20 36.30 Environmental. Nearby to DUF3800 \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.81 -Z 742849.287494 --mxsize 128 CM SEQDB 23 22 0 0 Gene; sRNA; Published; PMID:28977401; 22 0 \N 0.61685 -4.27445 1600000 246851 140 69 1 -3.21620 0.71889 2018-12-13 11:24:30 2019-01-10 15:16:03 RF02962 DUF3800-III 2566 DUF3800-III RNA Weinberg Z Weinberg Z 43.80 43.80 33.60 Microgenomates. Nearby to DUF3800 \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.83 -Z 742849.287494 --mxsize 128 CM SEQDB 55 18 0 0 Gene; sRNA; Published; PMID:28977401; 17 0 \N 0.68400 -3.13944 1600000 221823 387 108 1 -3.24550 0.71840 2018-12-13 11:27:25 2019-01-10 15:16:03 RF02963 DUF3800-IV 2566 DUF3800-IV RNA Weinberg Z Weinberg Z 60.70 60.70 47.40 Actinobacteria. Nearby to DUF3800 \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.95 -Z 742849.287494 --mxsize 128 CM SEQDB 10 3 0 0 Gene; sRNA; Published; PMID:28977401; 8 0 \N 0.52386 -5.24252 1600000 218850 183 91 1 -3.74510 0.71874 2018-12-13 11:34:45 2019-01-10 15:16:03 RF02964 DUF3800-V 2566 DUF3800-V RNA Weinberg Z Weinberg Z 37.40 37.40 34.90 Proteobacteria. Nearby to DUF3800 \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.29 -Z 742849.287494 --mxsize 128 CM SEQDB 79 59 0 0 Gene; sRNA; Published; PMID:28977401; 57 0 \N 0.64811 -1.95316 1600000 191974 259 96 1 -3.36380 0.71862 2018-12-13 11:41:51 2019-01-10 15:16:03 RF02965 CyVA-1 2608 CyVA-1 RNA Weinberg Z Weinberg Z 41.40 41.40 39.40 Cyanobacteria, Acidobacteria (1 example), Verrucomicrobia (1 example). Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.26 -Z 742849.287494 --mxsize 128 CM SEQDB 123 63 0 0 Gene; sRNA; Published; PMID:28977401; 58 0 \N 0.65879 -3.86193 1600000 240038 147 77 1 -4.31540 0.71961 2018-12-13 11:57:47 2019-01-10 15:16:03 RF02966 DUF3268 2609 DUF3268 RNA Weinberg Z Weinberg Z 65.30 65.30 45.20 Firmicutes (Bacilli, Clostridia). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.21 -Z 742849.287494 --mxsize 128 CM SEQDB 108 9 0 0 Gene; sRNA; Published; PMID:28977401; 13 0 \N 0.56773 -6.01275 1600000 189976 290 120 1 -3.56910 0.71832 2018-12-13 12:01:48 2019-01-10 15:16:03 RF02967 DUF3800-VII 2566 DUF3800-VII RNA Weinberg Z Weinberg Z 36.20 36.20 33.70 Firmicutes, Proteobacteria. Nearby to DUF3800 \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.68 -Z 742849.287494 --mxsize 128 CM SEQDB 139 21 0 0 Gene; sRNA; Published; PMID:28977401; 33 0 \N 0.60541 -3.30996 1600000 164898 198 90 1 -3.55490 0.71855 2018-12-13 12:22:47 2019-01-10 15:16:03 RF02968 DUF3800-IX 2566 DUF3800-IX RNA Weinberg Z Weinberg Z 36.80 37.10 36.30 Actinobacteria, Firmicutes (1 example), Nitrospirae, Proteobacteria, Verrucomicrobia (1 example). Nearby to DUF3800 \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 229 89 0 0 Gene; sRNA; Published; PMID:28977401; 88 0 \N 0.63534 -4.02292 1600000 206788 132 67 1 -3.64970 0.72470 2018-12-13 13:01:12 2022-10-29 16:55:17 RF02969 DUF3800-I 2566 DUF3800-I RNA Weinberg Z Weinberg Z 44.20 44.30 43.40 Actinobacteria, Firmicutes, Fusobacteria, Proteobacteria (1 example), Tenericutes (2 examples). Terminator (Clostridia) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 321 44 0 0 Gene; sRNA; Published; PMID:28977401; 77 0 \N 0.47060 -8.37837 1600000 308686 197 115 1 -3.96860 0.71830 2018-12-13 14:08:34 2022-10-29 16:55:17 RF02970 EGFOA-assoc-1 2602 EGFOA-assoc-1 RNA Weinberg Z Weinberg Z 224.50 224.50 34.10 Environmental. Nearby to EGFOA RNA \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18.59 -Z 742849.287494 --mxsize 128 CM SEQDB 10 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.71505 -8.00830 1600000 392680 388 250 1 -3.48090 0.70841 2018-12-13 14:21:27 2019-01-10 15:16:03 RF02971 emrB-Lactobacillus 2610 emrB-Lactobacillus RNA Weinberg Z Weinberg Z 60.80 60.80 37.20 Lactobacillus (Firmicutes). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.20 -Z 742849.287494 --mxsize 128 CM SEQDB 39 11 0 0 Gene; sRNA; Published; PMID:28977401; 36 0 \N 0.51567 -5.14326 1600000 297020 145 65 1 -3.03130 0.71909 2018-12-13 14:23:43 2019-01-10 15:16:03 RF02972 engA 2611 engA RNA Weinberg Z Weinberg Z 46.00 46.00 38.40 Prevotella (Bacteroidetes). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.78 -Z 742849.287494 --mxsize 128 CM SEQDB 154 26 0 0 Cis-reg; Published; PMID:28977401; 51 0 \N 0.54055 -8.97386 1600000 311107 188 101 1 -3.40640 0.71866 2018-12-13 14:25:24 2019-01-10 15:16:03 RF02973 Enterococcus-1 2612 Enterococcus-1 RNA Weinberg Z Weinberg Z 71.40 71.40 43.00 Enterococcus (Firmicutes). Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.16 -Z 742849.287494 --mxsize 128 CM SEQDB 78 7 0 0 Gene; sRNA; Published; PMID:28977401; 55 0 \N 0.57156 -7.14566 1600000 225638 252 152 1 -3.42700 0.71802 2018-12-13 14:26:56 2019-01-10 15:16:03 RF02974 Fibro-purF 2613 Fibro-purF RNA Weinberg Z Weinberg Z 60.00 60.00 34.70 Fibrobacteres. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.28 -Z 742849.287494 --mxsize 128 CM SEQDB 12 7 0 0 Cis-reg; Published; PMID:28977401; 8 0 \N 0.71317 -3.91438 1600000 278789 162 75 1 -3.67990 0.71888 2018-12-13 14:28:50 2019-01-10 15:16:03 RF02975 DUF3800-XI 2566 DUF3800-XI RNA Weinberg Z Weinberg Z 37.80 37.80 36.50 Actinobacteria, Firmicutes, Proteobacteria, Spirochaetes (1 example). Nearby to DUF3800 \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.17 -Z 742849.287494 --mxsize 128 CM SEQDB 256 42 0 0 Gene; sRNA; Published; PMID:28977401; 47 0 \N 0.60523 -9.22864 1600000 707545 97 48 1 -3.87330 0.71989 2018-12-13 14:34:41 2019-01-10 15:16:03 RF02976 Flavobacterium-1 2614 Flavobacterium-1 RNA Weinberg Z Weinberg Z 58.90 58.90 34.50 Flavobacterium (Bacteroidetes). No recognized genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.87 -Z 742849.287494 --mxsize 128 CM SEQDB 210 0 0 0 Gene; sRNA; Published; PMID:28977401; 2 0 \N 0.56797 -6.79773 1600000 246511 211 120 1 -3.75790 0.71836 2018-12-13 14:39:11 2019-01-10 15:16:03 RF02977 folE 2615 folE RNA Weinberg Z Weinberg Z 42.50 42.50 32.10 Alphaproteobacteria. Upstream of fluoride genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.71 -Z 742849.287494 --mxsize 128 CM SEQDB 45 39 0 0 Cis-reg; Published; PMID:28977401; 56 0 \N 0.73426 -7.29939 1600000 886327 223 39 1 -4.08250 0.71957 2018-12-13 14:46:14 2019-01-10 15:16:03 RF02978 folP 2616 folP RNA Weinberg Z Weinberg Z 99.00 99.00 38.00 Dialister (Negativicutes). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.58 -Z 742849.287494 --mxsize 128 CM SEQDB 28 5 0 0 Cis-reg; Published; PMID:28977401; 7 0 \N 0.62686 -5.17104 1600000 270070 199 102 1 -3.04160 0.71860 2018-12-13 14:48:03 2019-01-10 15:16:03 RF02979 freshwater-1 2617 freshwater-1 RNA Weinberg Z Weinberg Z 72.00 72.00 36.10 Freshwater and estuary metagenome. Environment (Freshwater) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.72 -Z 742849.287494 --mxsize 128 CM SEQDB 8 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.65333 -5.02090 1600000 307971 140 62 1 -3.71490 0.71914 2018-12-13 15:18:36 2019-01-10 15:16:03 RF02980 freshwater-2 2618 freshwater-2 RNA Weinberg Z Weinberg Z 49.90 49.90 48.40 Aquatic, esp. fresh water. No recognized genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.23 -Z 742849.287494 --mxsize 128 CM SEQDB 200 0 0 0 Cis-reg; Published; PMID:28977401; 1 0 \N 0.46417 -10.00670 1600000 443328 163 85 1 -3.70330 0.71867 2018-12-13 15:20:42 2019-01-10 15:16:03 RF02981 FTHFS 2619 FTHFS RNA Weinberg Z Weinberg Z 72.60 72.60 38.80 human gut. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.17 -Z 742849.287494 --mxsize 128 CM SEQDB 27 4 0 0 Cis-reg; Published; PMID:28977401; 5 0 \N 0.44256 -10.54046 1600000 347980 213 117 1 -3.21590 0.71833 2018-12-13 15:24:02 2019-01-10 15:16:03 RF02982 gltS 2620 gltS RNA Weinberg Z Weinberg Z 47.50 47.50 44.90 Vibrionaceae. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 33.08 -Z 742849.287494 --mxsize 128 CM SEQDB 108 38 0 0 Cis-reg; Published; PMID:28977401; 129 0 \N 0.48008 -5.94363 1600000 294480 221 105 1 -3.24660 0.71831 2018-12-13 15:28:32 2019-01-10 15:16:03 RF02983 Fibrobacter-1 2621 Fibrobacter-1 RNA Weinberg Z Weinberg Z 77.90 77.90 35.40 Fibrobacter (Fibrobacteres). BLAST against metagenomes (Fibrobacteres) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.98 -Z 742849.287494 --mxsize 128 CM SEQDB 4 5 0 0 Gene; sRNA; Published; PMID:28977401; 6 0 \N 0.60978 -5.72832 1600000 292095 200 102 1 -3.48920 0.71858 2018-12-13 15:29:55 2019-01-10 15:16:03 RF02984 DUF3800-X 2566 DUF3800-X RNA Weinberg Z Weinberg Z 38.20 40.90 35.70 Euryarchaeota (Archaea). Nearby to DUF3800 \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.18 -Z 742849.287494 --mxsize 128 CM SEQDB 88 13 0 0 Gene; sRNA; Published; PMID:28977401; 14 0 \N 0.65470 -2.74803 1600000 188506 271 73 1 -3.73510 0.71885 2018-12-13 16:49:44 2019-01-10 15:16:03 RF02985 ftsZ-DE 2622 ftsZ-DE RNA Weinberg Z Weinberg Z 72.20 72.20 41.80 Fibrobacter (Fibrobacteres). BLAST against metagenomes (Fibrobacteres) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.78 -Z 742849.287494 --mxsize 128 CM SEQDB 10 7 0 0 Gene; sRNA; Published; PMID:28977401; 8 0 \N 0.53071 -9.07009 1600000 394098 153 69 1 -3.71510 0.71909 2018-12-20 11:15:33 2019-01-10 15:16:03 RF02986 FuFi-1 2623 FuFi-1 RNA Weinberg Z Weinberg Z 59.60 59.60 46.40 Firmicutes, Fusobacteria. Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.88 -Z 742849.287494 --mxsize 128 CM SEQDB 170 12 0 0 Gene; sRNA; Published; PMID:28977401; 15 0 \N 0.61157 -9.17421 1600000 381695 1022 181 1 -4.07960 0.71420 2018-12-20 11:20:14 2019-01-10 15:16:03 RF02987 GA-cis 2624 GA-cis RNA Weinberg Z Weinberg Z 34.70 34.70 34.10 Firmicutes. Environment (Human gut, Qin et al., obese & healthy subjects) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 481 150 0 0 Gene; sRNA; Published; PMID:28977401; 20 0 \N 0.61422 -6.11879 1600000 346020 156 88 1 -3.88990 0.71857 2018-12-20 11:28:42 2022-10-29 16:55:17 RF02988 GEBRO 2625 GEBRO RNA Weinberg Z Weinberg Z 284.70 284.70 36.40 Streptococcus (Firmicutes). Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18.02 -Z 742849.287494 --mxsize 128 CM SEQDB 42 0 0 0 Gene; sRNA; Published; PMID:28977401; 7 0 \N 0.71840 -8.58600 1600000 429386 498 350 1 -3.61940 0.70407 2018-12-20 11:34:47 2019-01-10 15:16:03 RF02989 gntR-DTE 2626 gntR-DTE RNA Weinberg Z Weinberg Z 63.60 63.60 37.70 Actinobacteria. Lineage (Actinomycetales) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.19 -Z 742849.287494 --mxsize 128 CM SEQDB 7 23 0 0 Gene; sRNA; Published; PMID:28977401; 25 0 \N 0.58249 -5.42777 1600000 215099 391 120 1 -3.25810 0.71838 2018-12-20 11:38:40 2019-01-10 15:16:03 RF02990 gut-2 2627 gut-2 RNA Weinberg Z Weinberg Z 39.80 39.80 36.10 gut metagenomes. Environment (Cow rumen (57)) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.53 -Z 742849.287494 --mxsize 128 CM SEQDB 73 8 0 0 Gene; sRNA; Published; PMID:28977401; 9 0 \N 0.59744 -8.05360 1600000 336767 102 48 1 -3.70520 0.72989 2018-12-20 11:39:57 2019-01-10 15:16:03 RF02991 GP20-a 2628 GP20-a RNA Weinberg Z Weinberg Z 47.20 47.20 39.50 gut metagenomes. Environment (Cow rumen (57)) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.39 -Z 742849.287494 --mxsize 128 CM SEQDB 54 0 0 0 Cis-reg; Published; PMID:28977401; 1 0 \N 0.52153 -6.28060 1600000 259049 176 97 1 -3.64650 0.71840 2018-12-20 11:42:40 2019-01-10 15:16:03 RF02992 hya 2629 hya RNA Weinberg Z Weinberg Z 56.80 56.80 48.30 Actinobacteria. Lineage (Actinomycetales) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.47 -Z 742849.287494 --mxsize 128 CM SEQDB 27 56 0 0 Cis-reg; Published; PMID:28977401; 71 0 \N 0.50668 -8.29389 1600000 265153 156 72 1 -3.25610 0.71884 2018-12-20 11:54:48 2019-01-10 15:16:03 RF02993 ilvH 2630 ilvH RNA Weinberg Z Weinberg Z 55.10 55.10 36.00 Betaproteobacteria. Lineage (Betaproteobacteria) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.76 -Z 742849.287494 --mxsize 128 CM SEQDB 17 76 0 0 Cis-reg; Published; PMID:28977401; 80 0 \N 0.61523 -4.78981 1600000 312656 151 68 1 -3.27360 0.71902 2018-12-20 15:36:50 2019-01-10 15:16:03 RF02994 IMPDH 2631 IMPDH RNA Weinberg Z Weinberg Z 95.40 95.40 36.70 Faecalibacterium (Firmicutes). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.60 -Z 742849.287494 --mxsize 128 CM SEQDB 81 8 0 0 Gene; sRNA; Published; PMID:28977401; 9 0 \N 0.61710 -5.53751 1600000 257912 208 109 1 -3.13770 0.71832 2018-12-20 15:39:48 2019-01-10 15:16:03 RF02995 IMES-5 2632 IMES-5 RNA Weinberg Z Weinberg Z 96.10 96.10 41.50 Environmental. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.18 -Z 742849.287494 --mxsize 128 CM SEQDB 52 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.54091 -8.74009 1600000 344431 256 150 1 -3.16760 0.71808 2018-12-20 15:41:16 2019-01-10 15:16:03 RF02996 int-alpA 2633 int-alpA RNA Weinberg Z Weinberg Z 35.80 35.80 35.70 Acidobacteria (1 example), Planctomycetes (1 example), Proteobacteria. Environment (Lake Washington) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.91 -Z 742849.287494 CM SEQDB 167 407 0 0 Gene; sRNA; Published; PMID:28977401; 344 0 \N 0.59411 -6.21441 1600000 218126 159 71 1 -3.49090 0.72486 2018-12-20 15:42:52 2022-10-29 16:55:17 RF02997 HOLDH 2634 HOLDH RNA Weinberg Z Weinberg Z 319.40 319.40 31.00 Environmental (human tongue dorsum, human supragingival plaque). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.34 -Z 742849.287494 --mxsize 128 CM SEQDB 13 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.65067 -8.76661 1600000 362189 576 391 1 -4.24430 0.70292 2018-12-20 15:43:46 2019-01-10 15:16:03 RF02998 IS605-orfB-II 2635 IS605-orfB-II RNA Weinberg Z Weinberg Z 88.00 88.00 41.00 Environmental. Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.64 -Z 742849.287494 --mxsize 128 CM SEQDB 56 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.46239 -10.13928 1600000 332540 264 154 1 -2.90100 0.71790 2018-12-20 15:49:42 2019-01-10 15:16:03 RF02999 ivy-DE 2636 ivy-DE RNA Weinberg Z Weinberg Z 41.40 41.40 39.00 Pseudomonas. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.00 -Z 742849.287494 --mxsize 128 CM SEQDB 248 56 0 0 Cis-reg; Published; PMID:28977401; 231 0 \N 0.56075 -4.84011 1600000 213915 181 93 1 -3.28690 0.71869 2018-12-20 15:53:32 2019-01-10 15:16:03 RF03000 LOOT 2637 LOOT RNA Weinberg Z Weinberg Z 46.40 49.50 45.80 Latescibacteria, OD1/Parcubacteria, OP11, TM7. Lineage (Microgenomates, aka OP11) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 368 330 0 0 Gene; sRNA; Published; PMID:28977401; 245 0 \N 0.53853 -9.19442 1600000 404553 194 121 1 -3.42120 0.71803 2018-12-20 16:06:27 2022-10-29 16:55:17 RF03001 leuA-Halobacteria 2638 leuA-Halobacteria RNA Weinberg Z Weinberg Z 47.90 47.90 32.30 Halobacteriaceae (Euryarchaeota). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.79 -Z 742849.287494 --mxsize 128 CM SEQDB 152 59 0 0 Cis-reg; Published; PMID:28977401; 101 0 \N 0.56164 -8.58303 1600000 296745 122 53 1 -4.08050 0.71922 2018-12-20 16:42:00 2019-01-10 15:16:03 RF03002 lysM-Prevotella 2639 lysM-Prevotella RNA Weinberg Z Weinberg Z 66.60 66.60 40.50 Prevotella (Bacteroidetes). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.72 -Z 742849.287494 --mxsize 128 CM SEQDB 47 3 0 0 Cis-reg; Published; PMID:28977401; 11 0 \N 0.52851 -4.67144 1600000 286063 145 66 1 -3.19910 0.71896 2018-12-20 16:50:42 2019-01-10 15:16:03 RF03003 GP20-b 2628 GP20-b RNA Weinberg Z Weinberg Z 36.20 36.60 35.60 Clostridia. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.51 -Z 742849.287494 --mxsize 128 CM SEQDB 210 48 0 0 Cis-reg; Published; PMID:28977401; 60 0 \N 0.62401 -6.18865 1600000 449286 132 62 1 -3.04280 0.72224 2018-12-20 17:02:05 2019-01-10 15:16:03 RF03004 Lacto-phage-1 2640 Lacto-phage-1 RNA Weinberg Z Weinberg Z 50.00 69.10 35.00 Lactobacillales (Firmicutes). Lineage (Lactobacillaceae) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.67 -Z 742849.287494 --mxsize 128 CM SEQDB 9 1 0 0 Gene; sRNA; Published; PMID:28977401; 4 0 \N 0.53672 -8.60377 1600000 359705 170 81 1 -3.40950 0.71874 2018-12-20 17:07:56 2019-01-10 15:16:03 RF03005 lysM-TM7 2639 lysM-TM7 RNA Weinberg Z Weinberg Z 61.50 61.50 41.50 TM7. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.34 -Z 742849.287494 --mxsize 128 CM SEQDB 129 9 0 0 Cis-reg; Published; PMID:28977401; 11 0 \N 0.53295 -8.13510 1600000 350321 292 140 1 -3.10050 0.71805 2018-12-20 17:11:50 2019-01-10 15:16:03 RF03006 M23 2641 M23 RNA Weinberg Z Weinberg Z 41.20 41.20 40.60 Clostridia. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.59 -Z 742849.287494 --mxsize 128 CM SEQDB 31 5 0 0 Gene; sRNA; Published; PMID:28977401; 7 0 \N 0.58891 -6.10368 1600000 495825 121 54 1 -3.32380 0.71930 2018-12-20 17:14:17 2019-01-10 15:16:03 RF03007 Mahella-1 2642 Mahella-1 RNA Weinberg Z Weinberg Z 70.70 70.70 34.40 Mahella australiensis (Firmicutes). Terminator (Clostridia) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.22 -Z 742849.287494 --mxsize 128 CM SEQDB 19 7 0 0 Gene; sRNA; Published; PMID:28977401; 2 0 \N 0.54754 -8.75297 1600000 257993 209 114 1 -3.12110 0.71835 2018-12-20 17:15:40 2019-01-10 15:16:03 RF03008 malK-II 2643 malK-II RNA Weinberg Z Weinberg Z 52.90 52.90 39.20 Vibrio (Proteobacteria). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.63 -Z 742849.287494 --mxsize 128 CM SEQDB 94 20 0 0 Cis-reg; Published; PMID:28977401; 103 0 \N 0.50401 -8.80521 1600000 557174 209 50 1 -3.49280 0.71933 2018-12-20 17:16:49 2019-01-10 15:16:03 RF03009 malK-III 2643 malK-III RNA Weinberg Z Weinberg Z 51.90 51.90 34.90 Environmental. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.06 -Z 742849.287494 --mxsize 128 CM SEQDB 39 3 0 0 Cis-reg; Published; PMID:28977401; 4 0 \N 0.63612 -4.45592 1600000 162956 341 95 1 -3.45380 0.71863 2018-12-20 17:18:17 2019-01-10 15:16:03 RF03010 mcrA 2644 mcrA RNA Weinberg Z Weinberg Z 57.60 57.60 35.60 Listeria (Firmicutes). Nearby to self-splicing intron genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.08 -Z 742849.287494 --mxsize 128 CM SEQDB 16 6 0 0 Gene; sRNA; Published; PMID:28977401; 20 0 \N 0.70606 -7.59310 1600000 660987 125 51 1 -3.97240 0.71919 2018-12-20 17:19:42 2019-01-10 15:16:03 RF03011 Methylophilales-1 2645 Methylophilales-1 RNA Weinberg Z Weinberg Z 79.90 79.90 78.60 Methylophilales, lake sediment metagenome. Environment (Lake Washington) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.14 -Z 742849.287494 --mxsize 128 CM SEQDB 14 11 0 0 Gene; sRNA; Published; PMID:28977401; 12 0 \N 0.63592 -2.57064 1600000 182779 206 103 1 -3.51110 0.71856 2018-12-20 17:21:48 2019-01-10 15:16:03 RF03012 Mu-gpT-DE 2646 Mu-gpT-DE RNA Weinberg Z Weinberg Z 50.20 50.20 49.70 Environmental. No recognized genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 50.00 -Z 742849.287494 --mxsize 128 CM SEQDB 316 10 0 0 Gene; sRNA; Published; PMID:28977401; 2 0 \N 0.65146 -6.50986 1600000 453227 118 53 1 -3.89550 0.71922 2018-12-20 17:29:53 2019-01-10 15:16:03 RF03013 nadA 2647 nadA RNA Weinberg Z Weinberg Z 39.60 39.60 37.80 Acidobacteria. Lineage (Acidobacteria) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 182 13 0 0 Gene; sRNA; Published; PMID:28977401; 11 0 \N 0.67791 -4.69817 1600000 364751 239 66 1 -2.98200 0.72283 2018-12-20 17:31:30 2019-01-10 15:16:03 RF03014 Transposase-1 2648 Transposase-1 RNA Weinberg Z Weinberg Z 42.80 42.80 40.80 Lactobacillales (Firmicutes). Environment (Human Microbiome Project, vagina) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 176 66 0 0 Gene; sRNA; Published; PMID:28977401; 37 0 \N 0.66041 -3.87573 1600000 243483 120 59 1 -4.05160 0.71907 2018-12-20 17:38:08 2019-01-10 15:16:03 RF03015 Transposase-2 2649 Transposase-2 RNA Weinberg Z Weinberg Z 42.70 42.70 42.10 Actinobacteria, Firmicutes. Lineage (Bifidobacteriales) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 151 74 0 0 Gene; sRNA; Published; PMID:28977401; 51 0 \N 0.57735 -8.42723 1600000 503431 138 69 1 -3.63460 0.71889 2018-12-20 17:39:29 2019-01-10 15:16:03 RF03016 RT-12 2572 RT-12 RNA Weinberg Z Weinberg Z 44.20 44.20 42.60 Proteobacteria. Nearby to self-splicing intron genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.51 -Z 742849.287494 --mxsize 128 CM SEQDB 42 6 0 0 Gene; sRNA; Published; PMID:28977401; 38 0 \N 0.49881 -8.80532 1600000 261365 221 122 1 -3.28360 0.71823 2018-12-20 17:41:14 2019-01-10 15:16:03 RF03017 RT-13 2572 RT-13 RNA Weinberg Z Weinberg Z 69.10 69.10 50.60 Alphaproteobacteria. Nearby to self-splicing intron genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.44 -Z 742849.287494 --mxsize 128 CM SEQDB 13 11 0 0 Gene; sRNA; Published; PMID:28977401; 14 0 \N 0.58818 -5.81502 1600000 374600 146 67 1 -3.28980 0.71905 2018-12-20 17:43:17 2019-01-10 15:16:03 RF03018 RT-15 2572 RT-15 RNA Weinberg Z Weinberg Z 82.00 82.00 61.30 Proteobacteria. Nearby to self-splicing intron genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.45 -Z 742849.287494 --mxsize 128 CM SEQDB 64 30 0 0 Gene; sRNA; Published; PMID:28977401; 54 0 \N 0.61871 -9.25580 1600000 383129 344 193 1 -3.37060 0.71309 2018-12-20 17:45:40 2019-01-10 15:16:03 RF03019 RT-16 2572 RT-16 RNA Weinberg Z Weinberg Z 50.00 51.80 48.00 candidate division DUSEL4 (Archaea). Nearby to self-splicing intron genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 104 12 0 0 Gene; sRNA; Published; PMID:28977401; 12 0 \N 0.47455 -7.27459 1600000 218063 384 158 1 -3.63260 0.71722 2018-12-20 17:49:37 2022-10-29 16:55:17 RF03020 RT-17 2572 RT-17 RNA Weinberg Z Weinberg Z 40.40 40.40 39.80 Bacteroidales (Bacteroidetes), Clostridiales (Firmicutes). Nearby to self- splicing intron genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.65 -Z 742849.287494 --mxsize 128 CM SEQDB 63 15 0 0 Gene; sRNA; Published; PMID:28977401; 21 0 \N 0.57472 -5.77679 1600000 267200 173 95 1 -2.88790 0.71844 2018-12-20 17:52:08 2019-01-10 15:16:03 RF03021 RT-18 2572 RT-18 RNA Weinberg Z Weinberg Z 41.30 41.30 36.70 Clostridiales (Firmicutes). Nearby to self-splicing intron genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.08 -Z 742849.287494 --mxsize 128 CM SEQDB 141 21 0 0 Gene; sRNA; Published; PMID:28977401; 21 0 \N 0.52419 -7.07766 1600000 367917 247 83 1 -3.05700 0.71869 2018-12-20 17:53:29 2019-01-10 15:16:03 RF03022 RT-10 2572 RT-10 RNA Weinberg Z Weinberg Z 49.30 49.30 35.60 Proteobacteria. Nearby to self-splicing intron genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.88 -Z 742849.287494 --mxsize 128 CM SEQDB 113 6 0 0 Gene; sRNA; Published; PMID:28977401; 9 0 \N 0.55063 -9.47639 1600000 353828 218 127 1 -3.66230 0.71821 2018-12-20 17:56:16 2019-01-10 15:16:03 RF03023 rpfG 2650 rpfG RNA Weinberg Z Weinberg Z 75.90 75.90 34.40 Xanthomonas (Gammaproteobacteria). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.54 -Z 742849.287494 --mxsize 128 CM SEQDB 28 3 0 0 Gene; sRNA; Published; PMID:28977401; 30 0 \N 0.60371 -7.81696 1600000 359683 175 85 1 -3.12660 0.71869 2018-12-20 17:59:07 2019-01-10 15:16:03 RF03024 Rothia-sucC 2651 Rothia-sucC RNA Weinberg Z Weinberg Z 64.50 64.50 44.60 Rothia (Actinobacteria). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.11 -Z 742849.287494 --mxsize 128 CM SEQDB 28 2 0 0 Cis-reg; Published; PMID:28977401; 8 0 \N 0.57071 -6.49905 1600000 261019 139 59 1 -3.43190 0.71906 2018-12-20 18:01:11 2019-01-10 15:16:03 RF03025 RT-4 2572 RT-4 RNA Weinberg Z Weinberg Z 73.50 73.50 48.20 Clostridiales. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.68 -Z 742849.287494 --mxsize 128 CM SEQDB 47 3 0 0 Gene; sRNA; Published; PMID:28977401; 8 0 \N 0.51535 -7.45306 1600000 263318 263 122 1 -3.07530 0.71826 2018-12-20 18:06:57 2019-01-10 15:16:03 RF03026 RT-5 2572 RT-5 RNA Weinberg Z Weinberg Z 45.70 45.70 40.00 Clostridium (Firmicutes). Environment (Cow rumen (57)) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.38 -Z 742849.287494 --mxsize 128 CM SEQDB 71 11 0 0 Gene; sRNA; Published; PMID:28977401; 12 0 \N 0.56909 -6.46486 1600000 282848 275 103 1 -3.99590 0.71840 2018-12-20 18:09:04 2019-01-10 15:16:03 RF03027 RT-6 2572 RT-6 RNA Weinberg Z Weinberg Z 46.70 46.70 44.50 Firmicutes. Nearby to self-splicing intron genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.53 -Z 742849.287494 --mxsize 128 CM SEQDB 59 7 0 0 Gene; sRNA; Published; PMID:28977401; 16 0 \N 0.61996 -6.65880 1600000 289200 140 75 1 -3.86540 0.71873 2018-12-20 18:13:38 2019-01-10 15:16:03 RF03028 RT-7 2572 RT-7 RNA Weinberg Z Weinberg Z 116.80 116.80 66.50 Bacteroidales. Nearby to self-splicing intron genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.04 -Z 742849.287494 --mxsize 128 CM SEQDB 54 4 0 0 Gene; sRNA; Published; PMID:28977401; 10 0 \N 0.63242 -8.34376 1600000 252938 411 191 1 -3.66580 0.71320 2018-12-20 18:16:58 2019-01-10 15:16:03 RF03029 RT-8 2572 RT-8 RNA Weinberg Z Weinberg Z 87.00 87.00 37.80 Proteobacteria. Nearby to self-splicing intron genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.55 -Z 742849.287494 --mxsize 128 CM SEQDB 9 2 0 0 Gene; sRNA; Published; PMID:28977401; 6 0 \N 0.54535 -5.55607 1600000 257044 187 92 1 -3.48940 0.71858 2018-12-20 18:18:45 2019-01-10 15:16:03 RF03030 salivarius-1 2652 salivarius-1 RNA Weinberg Z Weinberg Z 55.30 55.30 40.50 Lactobacillus salivarius (Firmicutes). Lineage (Lactobacillaceae) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.17 -Z 742849.287494 --mxsize 128 CM SEQDB 19 5 0 0 Gene; sRNA; Published; PMID:28977401; 5 0 \N 0.63916 -4.57871 1600000 390336 126 56 1 -3.87950 0.71930 2018-12-20 18:24:12 2019-01-10 15:16:03 RF03031 ssnA 2653 ssnA RNA Weinberg Z Weinberg Z 37.30 37.30 34.70 Clostridiales. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 20.89 -Z 742849.287494 --mxsize 128 CM SEQDB 118 18 0 0 Cis-reg; Published; PMID:28977401; 22 0 \N 0.77160 -3.22567 1600000 260451 99 48 1 -4.52910 0.72089 2018-12-20 18:33:35 2019-01-10 15:16:03 RF03032 narK 2654 narK RNA Weinberg Z Weinberg Z 43.20 43.20 42.40 Betaproteobacteria and Gammaproteobacteria. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.05 -Z 742849.287494 --mxsize 128 CM SEQDB 308 89 0 0 Cis-reg; Published; PMID:28977401; 239 0 \N 0.54120 -9.96034 1600000 627290 148 72 1 -3.55080 0.71877 2018-12-20 18:57:28 2019-01-10 15:16:03 RF03033 NLPC-P60 2655 NLPC-P60 RNA Weinberg Z Weinberg Z 53.70 53.70 35.00 Streptomyces (Actinobacteria). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.16 -Z 742849.287494 --mxsize 128 CM SEQDB 17 15 0 0 Cis-reg; Published; PMID:28977401; 29 0 \N 0.49672 -8.03055 1600000 227436 204 97 1 -2.78300 0.71855 2018-12-21 09:30:52 2019-01-10 15:16:03 RF03034 nrdJ 2656 nrdJ RNA Weinberg Z Weinberg Z 40.30 40.30 40.10 Streptomyces (Actinobacteria). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.64 -Z 742849.287494 --mxsize 128 CM SEQDB 73 151 0 0 Gene; sRNA; Published; PMID:28977401; 190 0 \N 0.56852 -6.37616 1600000 306376 160 80 1 -3.38240 0.71886 2018-12-21 09:40:06 2019-01-10 15:16:03 RF03035 nqrA-Marinomonas 2657 nqrA-Marinomonas RNA Weinberg Z Weinberg Z 95.50 95.50 41.40 Marinomonas (Gammaproteobacteria). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.01 -Z 742849.287494 --mxsize 128 CM SEQDB 5 7 0 0 Gene; sRNA; Published; PMID:28977401; 9 0 \N 0.55334 -4.66267 1600000 265549 242 134 1 -3.26500 0.71818 2018-12-21 09:40:59 2019-01-10 15:16:03 RF03036 osmY 2658 osmY RNA Weinberg Z Weinberg Z 46.90 46.90 40.00 Enterobacteriaceae (Gammaproteobacteria). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.54 -Z 742849.287494 --mxsize 128 CM SEQDB 38 24 0 0 Gene; sRNA; Published; PMID:28977401; 45 0 \N 0.64873 -6.85106 1600000 410076 148 72 1 -3.38720 0.71893 2018-12-21 09:48:00 2019-01-10 15:16:03 RF03037 PAGEV 2659 PAGEV RNA Weinberg Z Weinberg Z 61.10 61.10 38.20 Gammaproteobacteria. Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.37 -Z 742849.287494 --mxsize 128 CM SEQDB 86 6 0 0 Gene; sRNA; Published; PMID:28977401; 29 0 \N 0.68577 -8.26233 1600000 364448 637 196 1 -3.52050 0.71259 2018-12-21 09:51:03 2019-01-10 15:16:03 RF03038 nhaA-II 2660 nhaA-II RNA Weinberg Z Weinberg Z 70.40 70.40 37.50 Caulobacterales (Alphaproteobacteria). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 32.11 -Z 742849.287494 --mxsize 128 CM SEQDB 16 18 0 0 Cis-reg; Published; PMID:28977401; 18 0 \N 0.44484 -10.08443 1600000 305519 195 84 1 -3.17810 0.71893 2018-12-21 09:57:10 2019-01-10 15:16:03 RF03039 Peptidase-S11 2661 Peptidase-S11 RNA Weinberg Z Weinberg Z 34.80 34.80 33.80 Enterobacteria. Environment (Termite gut, fungus grower) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.44 -Z 742849.287494 --mxsize 128 CM SEQDB 135 53 0 0 Cis-reg; Published; PMID:28977401; 133 0 \N 0.55453 -4.91842 1600000 232144 161 84 1 -3.25610 0.71869 2018-12-21 10:00:45 2019-01-10 15:16:03 RF03040 PGK 2662 PGK RNA Weinberg Z Weinberg Z 50.80 50.80 43.80 mammalian gut metagenomes. Environment (Cow rumen (57)) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 37.81 -Z 742849.287494 --mxsize 128 CM SEQDB 18 8 0 0 Cis-reg; Published; PMID:28977401; 8 0 \N 0.42870 -6.45379 1600000 374896 179 93 1 -3.01170 0.71856 2018-12-21 10:02:52 2019-01-10 15:16:03 RF03041 poplar-1 2663 poplar-1 RNA Weinberg Z Weinberg Z 110.50 110.50 36.00 metagenome only. Environment (Groundwater, Oak Ridge) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.53 -Z 742849.287494 --mxsize 128 CM SEQDB 22 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.60183 -8.74858 1600000 322413 246 141 1 -3.11460 0.71810 2018-12-21 10:05:01 2019-01-10 15:16:03 RF03042 porB 2664 porB RNA Weinberg Z Weinberg Z 35.10 35.10 33.90 Neisseria (Betaproteobacteria). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.40 -Z 742849.287494 --mxsize 128 CM SEQDB 85 18 0 0 Gene; sRNA; Published; PMID:28977401; 78 0 \N 0.50282 -8.61033 1600000 429185 138 61 1 -2.84420 0.71905 2018-12-21 10:08:00 2019-01-10 15:16:03 RF03043 Prevotella-2 2665 Prevotella-2 RNA Weinberg Z Weinberg Z 72.10 72.10 41.70 Prevotella. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34.36 -Z 742849.287494 --mxsize 128 CM SEQDB 20 4 0 0 Gene; sRNA; Published; PMID:28977401; 8 0 \N 0.43472 -8.94853 1600000 322689 216 116 1 -3.16180 0.71839 2018-12-21 10:10:31 2019-01-10 15:16:03 RF03044 Proteo-phage-1 2666 Proteo-phage-1 RNA Weinberg Z Weinberg Z 42.00 42.00 41.70 Proteobacteria. Environment (Dendroctonus ponderosae gallery) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.93 -Z 742849.287494 --mxsize 128 CM SEQDB 67 40 0 0 Gene; sRNA; Published; PMID:28977401; 54 0 \N 0.52512 -8.03098 1600000 342306 174 82 1 -3.28890 0.71859 2018-12-21 10:14:03 2019-01-10 15:16:03 RF03045 proV 2667 proV RNA Weinberg Z Weinberg Z 88.50 88.50 34.00 Pseudomonas (Gammaproteobacteria). Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.62 -Z 742849.287494 --mxsize 128 CM SEQDB 16 12 0 0 Gene; sRNA; Published; PMID:28977401; 21 0 \N 0.58159 -9.75453 1600000 324080 257 149 1 -3.34180 0.71804 2018-12-21 10:16:50 2019-01-10 15:16:03 RF03046 Pseudomonadales-1 2668 Pseudomonadales-1 RNA Weinberg Z Weinberg Z 68.00 69.30 67.60 Pseudomonadales (Gammaproteobacteria). Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 54 19 0 0 Gene; sRNA; Published; PMID:28977401; 41 0 \N 0.62792 -8.19265 1600000 291651 280 164 1 -3.29920 0.71639 2018-12-21 10:18:34 2022-10-29 16:55:17 RF03047 RAGATH-16 2449 RAGATH-16 RNA Weinberg Z Weinberg Z 65.60 65.60 33.90 Environmental. Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.71 -Z 742849.287494 --mxsize 128 CM SEQDB 18 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.57532 -6.04733 1600000 330086 149 72 1 -4.11600 0.71881 2018-12-21 10:24:30 2019-01-10 15:16:02 RF03048 RAGATH-20 2449 RAGATH-20 RNA Weinberg Z Weinberg Z 101.40 101.40 40.50 Environmental. Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.70 -Z 742849.287494 --mxsize 128 CM SEQDB 9 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.46534 -9.65854 1600000 308794 201 102 1 -3.15490 0.71836 2018-12-21 10:31:32 2019-01-10 15:16:02 RF03049 RAGATH-24 2449 RAGATH-24 RNA Weinberg Z Weinberg Z 45.30 45.30 31.00 Environmental. Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.26 -Z 742849.287494 --mxsize 128 CM SEQDB 22 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.65090 -2.98784 1600000 207546 611 103 1 -3.08240 0.71853 2018-12-21 10:38:32 2019-01-10 15:16:02 RF03050 RAGATH-25 2449 RAGATH-25 RNA Weinberg Z Weinberg Z 49.00 49.00 36.40 Firmicutes. Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.66 -Z 742849.287494 --mxsize 128 CM SEQDB 21 2 0 0 Gene; sRNA; Published; PMID:28977401; 5 0 \N 0.67556 -7.06664 1600000 576644 112 50 1 -3.57900 0.72039 2018-12-21 10:41:15 2019-01-10 15:16:02 RF03051 RAGATH-26 2449 RAGATH-26 RNA Weinberg Z Weinberg Z 86.30 86.30 34.10 Environmental. Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.74 -Z 742849.287494 --mxsize 128 CM SEQDB 8 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.51888 -8.63020 1600000 338521 180 76 1 -3.51130 0.71870 2018-12-21 10:43:11 2019-01-10 15:16:02 RF03052 RAGATH-28 2449 RAGATH-28 RNA Weinberg Z Weinberg Z 45.30 45.30 44.70 Clostridiales (Firmicutes). Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.14 -Z 742849.287494 --mxsize 128 CM SEQDB 85 10 0 0 Gene; sRNA; Published; PMID:28977401; 15 0 \N 0.48611 -11.79311 1600000 579012 156 85 1 -2.92470 0.71854 2018-12-21 10:46:33 2019-01-10 15:16:02 RF03053 OTKONC 2669 OTKONC RNA Weinberg Z Weinberg Z 141.40 141.40 39.20 Environmental. No recognized genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.61 -Z 742849.287494 --mxsize 128 CM SEQDB 43 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.46015 -9.43120 1600000 343105 283 166 1 -3.03390 0.71603 2018-12-21 10:52:10 2019-01-10 15:16:03 RF03054 Xanthine 2670 Xanthine riboswitch (NMT1 RNA) Weinberg Z, Ontiveros-Palacios N Weinberg Z 36.00 36.70 35.60 Xanthine riboswitch was first reported in Proteobacteria as NMT1 non-coding RNA (ncRNA) in [1]. Later it was reported as a ncRNA that recognised Xanthine [2]. More recently the structure of Xanthine riboswitch was reported in 7ELP, 7ELQ, 7ELR and 7ELS PDBs [3] NMT1; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 383 192 0 0 Cis-reg; Published; PMID:28977401; 278 0 \N 0.63736 -4.62233 1600000 160049 151 56 1 -3.87950 0.72144 2018-12-21 10:55:41 2022-10-29 16:55:17 RF03055 RAGATH-30 2449 RAGATH-30 RNA Weinberg Z Weinberg Z 59.50 59.50 37.90 Environmental. Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.59 -Z 742849.287494 --mxsize 128 CM SEQDB 33 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.54913 -8.81880 1600000 600873 130 59 1 -3.52170 0.71908 2018-12-21 11:05:28 2019-01-10 15:16:02 RF03056 RAGATH-35 2449 RAGATH-35 RNA Weinberg Z Weinberg Z 38.90 38.90 35.40 Clostridium (Firmicutes). Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.13 -Z 742849.287494 --mxsize 128 CM SEQDB 16 7 0 0 Gene; sRNA; Published; PMID:28977401; 9 0 \N 0.62032 -3.53717 1600000 211319 175 87 1 -3.94380 0.71854 2018-12-21 11:10:57 2019-01-10 15:16:02 RF03057 nhaA-I 2671 nhaA-I RNA Weinberg Z Weinberg Z 38.70 38.80 38.50 Acidobacteria, Alphaproteobacteria, Betaproteobacteria and Gammaproteobacteria, Verrucomicrobia, cand. division NC10. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.99 -Z 742849.287494 --mxsize 128 CM SEQDB 281 277 0 0 Cis-reg; riboswitch; Published; PMID:28977401; 299 0 \N 0.59251 -9.15327 1600000 727800 131 56 1 -3.18550 0.72303 2018-12-21 11:55:37 2019-01-10 15:16:03 RF03058 sul1 2672 sul1 RNA Weinberg Z Weinberg Z 36.20 36.20 35.60 Alphaproteobacteria. Lineage (Rhizobiales) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.81 -Z 742849.287494 --mxsize 128 CM SEQDB 54 289 0 0 Cis-reg; riboswitch; Published; PMID:28977401; 268 0 \N 0.53073 -8.61133 1600000 313864 125 56 1 -3.80510 0.71923 2018-12-21 12:14:18 2019-01-10 15:16:03 RF03059 raiA-hairpin 2673 raiA-hairpin RNA Weinberg Z Weinberg Z 43.70 43.70 36.40 Streptomyces (Actinobacteria). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.57 -Z 742849.287494 --mxsize 128 CM SEQDB 80 163 0 0 Gene; sRNA; Published; PMID:28977401; 203 0 \N 0.52168 -9.85954 1600000 649435 114 48 1 -3.75500 0.71937 2018-12-22 22:53:55 2019-01-10 15:16:03 RF03060 uup 2674 uup RNA Weinberg Z Weinberg Z 36.80 36.80 35.50 Firmicutes, Gammaproteobacteria. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.60 -Z 742849.287494 --mxsize 128 CM SEQDB 203 84 0 0 Cis-reg; Published; PMID:28977401; 196 0 \N 0.55788 -8.06593 1600000 541234 103 48 1 -4.30120 0.71928 2018-12-22 22:55:57 2019-01-10 15:16:03 RF03061 uxuA 2675 uxuA RNA Weinberg Z Weinberg Z 66.80 66.80 34.00 Vibrio (Gammaproteobacteria). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.82 -Z 742849.287494 --mxsize 128 CM SEQDB 33 3 0 0 Gene; sRNA; Published; PMID:28977401; 33 0 \N 0.59425 -4.20745 1600000 218667 178 89 1 -3.43470 0.71860 2018-12-22 22:57:27 2019-01-10 15:16:03 RF03062 xerDC 2676 xerDC RNA Weinberg Z Weinberg Z 72.50 72.50 48.50 Clostridia. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 29.43 -Z 742849.287494 --mxsize 128 CM SEQDB 72 4 0 0 Cis-reg; Published; PMID:28977401; 5 0 \N 0.46867 -10.56846 1600000 297713 259 130 1 -2.72140 0.71834 2018-12-22 22:58:45 2019-01-10 15:16:03 RF03063 Streptomyces-metK 2677 Streptomyces-metK RNA Weinberg Z Weinberg Z 44.20 44.20 41.00 Streptomyces (Actinobacteria). Lineage (Actinomycetales) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.00 -Z 742849.287494 --mxsize 128 CM SEQDB 38 191 0 0 Gene; sRNA; Published; PMID:28977401; 199 0 \N 0.53688 -9.27981 1600000 363053 350 117 1 -3.17270 0.71826 2018-12-22 23:01:10 2019-01-10 15:16:03 RF03064 RAGATH-18 2449 RAGATH-18 RNA Weinberg Z Weinberg Z 44.90 45.00 44.30 Actinobacteria, Firmicutes, Fusobacteria, Thermotogae (1 example). Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.12 -Z 742849.287494 CM SEQDB 1420 355 0 0 Gene; sRNA; Published; PMID:28977401; 317 0 \N 0.59597 -4.60276 1600000 352571 176 71 1 -3.35320 0.71876 2018-12-23 18:08:33 2022-10-29 16:55:17 RF03065 IS605-orfB-I 2635 IS605-orfB-I RNA Weinberg Z Weinberg Z 94.20 94.20 91.40 Enterococcus (Firmicutes). No recognized genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 259 1 0 0 Gene; sRNA; Published; PMID:28977401; 2 0 \N 0.60897 -8.18893 1600000 410914 342 214 1 -3.37220 0.71099 2018-12-24 16:44:40 2022-10-29 16:55:17 RF03066 COG3610-DE 2678 COG3610-DE RNA Weinberg Z Weinberg Z 73.50 73.50 47.70 Lactobacillales (Firmicutes). Lineage (Lactobacillaceae) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.61 -Z 742849.287494 --mxsize 128 CM SEQDB 59 16 0 0 Gene; sRNA; Published; PMID:28977401; 52 0 \N 0.50940 -9.70565 1600000 388641 216 116 1 -2.78280 0.71848 2019-01-02 10:35:09 2019-01-10 15:16:03 RF03067 terC 2679 terC RNA Weinberg Z Weinberg Z 39.90 39.90 39.50 Alphaproteobacteria, Pseudomonadales. Lineage (Rhizobiales) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 --mxsize 128 CM SEQDB 129 591 0 0 Cis-reg; Published; PMID:28977401; 426 0 \N 0.53153 -5.23330 1600000 142878 194 60 1 -3.89920 0.71934 2019-01-03 09:15:05 2019-01-10 15:16:03 RF03068 RT-3 2572 RT-3 RNA Weinberg Z Weinberg Z 40.50 49.20 37.40 Bacteroidetes. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 231 13 0 0 Gene; sRNA; Published; PMID:28977401; 32 0 \N 0.63770 -8.47469 1600000 384891 249 148 1 -3.04050 0.71799 2019-01-03 12:20:09 2022-10-29 16:55:17 RF03069 malK-I 2643 malK-I RNA Weinberg Z Weinberg Z 60.30 60.30 44.30 Clostridia. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.97 -Z 742849.287494 --mxsize 128 CM SEQDB 322 27 0 0 Cis-reg; Published; PMID:28977401; 33 0 \N 0.50852 -8.87241 1600000 294490 399 179 1 -3.80520 0.71455 2019-01-03 12:25:46 2019-01-10 15:16:03 RF03070 ssNA-helicase 2704 ssNA-helicase RNA Weinberg Z Weinberg Z 41.50 41.50 41.00 Firmicutes, Actinobacteria (1 example). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.93 -Z 742849.287494 --mxsize 128 CM SEQDB 104 10 0 0 Gene; sRNA; Published; PMID:28977401; 16 0 \N 0.51582 -9.67710 1600000 573396 103 49 1 -4.15260 0.71938 2019-01-03 12:29:03 2020-04-23 11:36:30 RF03071 Sodium 2681 Na+ riboswitch (DUF1646 RNA) Weinberg Z Weinberg Z 40.50 40.60 40.40 Proteobacteria, NC10, Acidobacteria, Verrucomicrobia. Lineage (Clostridia) The riboswitch of Na+ was first reported in a comparative analysis of intergenic regions and called DUF1646 RNA, it was also suggested that it acts as cis-reg RNA present upstream of Na+ genes [1]. Afterward it was reported as a riboswitch that selectively senses Na+ [2]. DUF1646; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 146 125 0 0 Cis-reg; riboswitch; Published; PMID:28977401; 166 0 \N 0.58441 -8.67519 1600000 553595 107 55 1 -3.61490 0.72088 2019-01-03 13:59:50 2022-10-29 16:55:17 RF03072 raiA 2682 raiA RNA Weinberg Z Weinberg Z 101.30 101.40 87.70 Actinobacteria, Firmicutes. Lineage (Negativicutes) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 488 248 0 0 Cis-reg; riboswitch; Published; PMID:28977401; 295 0 \N 0.64784 -8.26486 1600000 246043 542 209 1 -3.15990 0.71144 2019-01-03 14:12:32 2022-10-29 16:55:17 RF03073 RT-19 2572 RT-19 RNA Weinberg Z Weinberg Z 78.30 78.30 33.90 Actinobacteria. Nearby to self-splicing intron genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.58 -Z 742849.287494 --mxsize 128 CM SEQDB 23 0 0 0 Gene; sRNA; Published; PMID:28977401; 6 0 \N 0.55726 -7.42377 1600000 208772 230 99 1 -3.31710 0.71848 2019-01-03 14:23:46 2019-01-10 15:16:03 RF03074 Rhodo-rpoB 2683 Rhodo-rpoB RNA Weinberg Z Weinberg Z 33.60 33.60 32.20 Rhodobacterales (Alphaproteobacteria). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.84 -Z 742849.287494 --mxsize 128 CM SEQDB 261 204 0 0 Cis-reg; Published; PMID:28977401; 232 0 \N 0.45927 -11.44147 1600000 584573 160 93 1 -3.86250 0.71856 2019-01-03 14:31:26 2019-01-10 15:16:03 RF03075 DUF3800-VIII 2566 DUF3800-VIII RNA Weinberg Z Weinberg Z 40.20 40.20 37.80 Bacteroidetes, Cyanobacteria, Firmicutes, Planctomycetes (1 example), Proteobacteria, Tenericutes (1 example). Nearby to DUF3800 \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.74 -Z 742849.287494 --mxsize 128 CM SEQDB 209 45 0 0 Gene; sRNA; Published; PMID:28977401; 59 0 \N 0.54786 -5.15944 1600000 251218 253 64 1 -3.43560 0.71892 2019-01-03 14:33:53 2019-01-10 15:16:03 RF03076 Streptomyces-metH 2677 Streptomyces-metH RNA Weinberg Z Weinberg Z 50.00 50.00 36.10 Streptomyces (Actinobacteria). Lineage (Actinomycetales) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.30 -Z 742849.287494 --mxsize 128 CM SEQDB 43 194 0 0 Gene; sRNA; Published; PMID:28977401; 203 0 \N 0.49015 -10.43005 1600000 377848 274 122 1 -3.65420 0.71821 2019-01-03 14:37:36 2019-01-10 15:16:03 RF03077 RT-2 2572 RT-2 RNA Weinberg Z Weinberg Z 40.00 40.80 33.10 Coriobacteriales (Actinobacteria), Clostridiales (Firmicutes). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 195 15 0 0 Gene; sRNA; Published; PMID:28977401; 18 0 \N 0.61824 -9.22332 1600000 360722 353 222 1 -3.98170 0.71032 2019-01-04 09:23:46 2022-10-29 16:55:17 RF03078 chrB-a 2684 chrB-a RNA Weinberg Z Weinberg Z 43.90 43.90 43.60 Alphaproteobacteria. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.00 -Z 742849.287494 --mxsize 128 CM SEQDB 163 244 0 0 Cis-reg; Published; PMID:28977401; 208 0 \N 0.50332 -9.18733 1600000 289902 253 81 1 -3.40440 0.71875 2019-01-04 09:43:52 2019-01-10 15:16:03 RF03079 MISL 2685 MISL RNA Weinberg Z Weinberg Z 274.60 274.60 22.40 Verrucomicrobia. Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 17.24 -Z 742849.287494 --mxsize 128 CM SEQDB 44 5 0 0 Gene; sRNA; Published; PMID:28977401; 6 0 \N 0.73559 -8.28017 1600000 305107 4403 747 1 -4.95520 0.69827 2019-01-04 10:32:37 2019-01-10 15:16:03 RF03080 RT-9 2572 RT-9 RNA Weinberg Z Weinberg Z 46.10 46.10 43.50 Firmicutes. Nearby to self-splicing intron genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.76 -Z 742849.287494 --mxsize 128 CM SEQDB 48 17 0 0 Gene; sRNA; Published; PMID:28977401; 14 0 \N 0.49663 -6.87959 1600000 283299 182 92 1 -3.46030 0.71852 2019-01-04 10:37:29 2019-01-10 15:16:03 RF03081 DUF805 2565 DUF805 RNA Weinberg Z Weinberg Z 51.10 51.10 50.60 Bacteroidetes, Aeromonadales. Lineage (Bacteroidetes) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.97 -Z 742849.287494 --mxsize 128 CM SEQDB 46 235 0 0 Cis-reg; Published; PMID:28977401; 161 0 \N 0.53494 -7.16345 1600000 313683 139 68 1 -4.02050 0.71889 2019-01-04 10:54:19 2021-07-05 13:43:57 RF03082 dinG 2686 dinG RNA Weinberg Z Weinberg Z 46.90 46.90 44.90 Clostridiales (Firmicutes). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.91 -Z 742849.287494 --mxsize 128 CM SEQDB 86 25 0 0 Gene; sRNA; Published; PMID:28977401; 28 0 \N 0.49119 -9.71148 1600000 373637 214 86 1 -3.27640 0.71872 2019-01-04 11:21:05 2019-01-10 15:16:03 RF03083 cow-rumen-3 2595 cow-rumen-3 RNA Weinberg Z Weinberg Z 86.70 86.70 35.90 cow rumen metagenome. Environment (Cow rumen (57)) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.47 -Z 742849.287494 --mxsize 128 CM SEQDB 8 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.61527 -8.68603 1600000 454988 248 141 1 -3.30360 0.71819 2019-01-04 11:26:09 2019-01-10 15:16:03 RF03084 DUF2815 2687 DUF2815 RNA Weinberg Z Weinberg Z 41.20 41.20 35.80 Environmental. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.94 -Z 742849.287494 --mxsize 128 CM SEQDB 22 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.59432 -5.40795 1600000 481605 131 63 1 -3.72830 0.71912 2019-01-04 12:25:27 2019-01-10 15:16:03 RF03085 abiF 2688 abiF RNA Weinberg Z Weinberg Z 37.00 37.00 36.80 Actinobacteria, Bacteroidetes, Clostridia, Proteobacteria, one Clostridia phage. Environment (Freshwater) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.18 -Z 742849.287494 --mxsize 128 CM SEQDB 126 186 0 0 Gene; sRNA; Published; PMID:28977401; 187 0 \N 0.56786 -5.88456 1600000 542358 87 37 1 -4.05170 0.72531 2019-01-04 12:40:45 2019-01-10 15:16:03 RF03086 chrB-b 2684 chrB-b RNA Weinberg Z Weinberg Z 36.50 36.50 36.40 Alphaproteobacteria, Betaproteobacteria. Environment (Rainforest soil) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.21 -Z 742849.287494 --mxsize 128 CM SEQDB 313 136 0 0 Cis-reg; Published; PMID:28977401; 120 0 \N 0.55565 -9.99840 1600000 673901 309 51 1 -3.51210 0.71924 2019-01-04 13:13:22 2019-01-10 15:16:03 RF03087 ROOL 2689 ROOL RNA Weinberg Z Weinberg Z 99.10 99.10 29.70 Firmicutes, Fusobacteria (1 example), Tenericutes (1 example). Environment (Cow rumen (57)) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.77 -Z 742849.287494 --mxsize 128 CM SEQDB 290 26 0 0 Gene; sRNA; Published; PMID:28977401; 34 0 \N 0.53971 -9.65118 1600000 432902 1133 580 1 -4.53580 0.69972 2019-01-08 09:31:14 2019-01-10 15:16:03 RF03088 Parabacteroides-1 2690 Parabacteroides-1 RNA Weinberg Z Weinberg Z 93.40 93.40 45.10 Parabacteroides (Bacteroidetes). Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.60 -Z 742849.287494 --mxsize 128 CM SEQDB 15 1 0 0 Gene; sRNA; Published; PMID:28977401; 3 0 \N 0.60760 -4.83112 1600000 230570 203 105 1 -3.48310 0.71857 2019-01-15 09:42:34 2019-01-17 14:00:28 RF03089 cold-seep-1 2691 cold-seep-1 RNA Weinberg Z Weinberg Z 125.80 125.80 39.40 Environmental, Norwegian cold seep. Environment (Cold seep) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.06 -Z 742849.287494 --mxsize 128 CM SEQDB 15 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.52728 -8.23494 1600000 259694 264 152 1 -3.04070 0.71803 2019-01-15 09:47:02 2019-01-17 14:00:28 RF03090 lysM-Actino 2639 lysM-Actino RNA Weinberg Z Weinberg Z 153.80 153.80 64.10 Actinomycetales. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 21.00 -Z 742849.287494 --mxsize 128 CM SEQDB 56 2 0 0 Cis-reg; Published; PMID:28977401; 7 0 \N 0.63128 -9.37751 1600000 458418 342 213 1 -3.38940 0.71116 2019-01-15 09:48:57 2019-01-17 14:00:28 RF03091 Clostridium-PBP 2692 Clostridium-PBP RNA Weinberg Z Weinberg Z 94.40 94.40 39.70 Environmental, Clostridium (Firmicute; 1 example). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34.82 -Z 742849.287494 --mxsize 128 CM SEQDB 11 0 0 0 Gene; sRNA; Published; PMID:28977401; 3 0 \N 0.43984 -8.74065 1600000 450712 160 73 1 -3.35180 0.71872 2019-01-15 10:09:23 2019-01-17 14:00:28 RF03092 Ocean-VII 2693 Ocean-VII RNA Weinberg Z Weinberg Z 53.50 53.50 37.70 marine metagenomes. Environment (Puerto Rico trench) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 18.62 -Z 742849.287494 --mxsize 128 CM SEQDB 16 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.78996 -6.15163 1600000 679278 106 41 1 -3.88540 0.71970 2019-01-15 10:17:09 2019-01-17 14:00:28 RF03093 queA 2694 queA RNA Weinberg Z Weinberg Z 52.60 52.60 49.60 Environmental. Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.01 -Z 742849.287494 --mxsize 128 CM SEQDB 8 1 0 0 Gene; sRNA; Published; PMID:28977401; 2 0 \N 0.51905 -10.30523 1600000 557044 164 59 1 -3.58680 0.71918 2019-01-15 10:19:19 2019-01-17 14:00:28 RF03094 LAGLIDADG-2 2695 LAGLIDADG-2 RNA Weinberg Z Weinberg Z 94.90 94.90 42.60 Halobacteria (Archaea). Nearby to self-splicing intron genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.56 -Z 742849.287494 --mxsize 128 CM SEQDB 25 0 0 0 Gene; sRNA; Published; PMID:28977401; 3 0 \N 0.51825 -9.95600 1600000 355936 235 128 1 -2.95220 0.71845 2019-01-15 10:22:25 2019-01-17 14:00:28 RF03095 RAGATH-17 2449 RAGATH-17 RNA Weinberg Z Weinberg Z 102.30 102.30 40.80 Environmental. Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 35.91 -Z 742849.287494 --mxsize 128 CM SEQDB 7 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.42937 -7.75458 1600000 299304 234 96 1 -2.97700 0.71841 2019-01-15 10:23:52 2019-01-17 14:00:27 RF03096 RAGATH-19 2449 RAGATH-19 RNA Weinberg Z Weinberg Z 85.60 85.60 41.10 Environmental. Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.43 -Z 742849.287494 --mxsize 128 CM SEQDB 11 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.45041 -10.38585 1600000 325492 245 141 1 -3.31850 0.71806 2019-01-15 10:25:22 2019-01-17 14:00:27 RF03097 RAGATH-21 2449 RAGATH-21 RNA Weinberg Z Weinberg Z 70.30 70.30 35.20 Clostridiales (Firmicutes). Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.46 -Z 742849.287494 --mxsize 128 CM SEQDB 38 0 0 0 Gene; sRNA; Published; PMID:28977401; 5 0 \N 0.57887 -4.89727 1600000 293430 297 77 1 -3.76610 0.71883 2019-01-15 10:26:17 2019-01-17 14:00:27 RF03098 RAGATH-22 2449 RAGATH-22 RNA Weinberg Z Weinberg Z 120.30 120.30 44.20 Veillonella (Firmicutes). Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.67 -Z 742849.287494 --mxsize 128 CM SEQDB 18 1 0 0 Gene; sRNA; Published; PMID:28977401; 2 0 \N 0.53118 -9.17092 1600000 398693 285 166 1 -3.05620 0.71618 2019-01-15 10:27:09 2019-01-17 14:00:27 RF03099 RAGATH-23 2449 RAGATH-23 RNA Weinberg Z Weinberg Z 92.60 92.60 47.00 Environmental. Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.15 -Z 742849.287494 --mxsize 128 CM SEQDB 11 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.58594 -5.36645 1600000 225782 194 99 1 -3.23550 0.71846 2019-01-15 10:28:04 2019-01-17 14:00:27 RF03100 RAGATH-27 2449 RAGATH-27 RNA Weinberg Z Weinberg Z 76.10 76.10 41.50 Clostridiales (Firmicutes). Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 34.82 -Z 742849.287494 --mxsize 128 CM SEQDB 15 1 0 0 Gene; sRNA; Published; PMID:28977401; 3 0 \N 0.42490 -9.82026 1600000 371954 172 86 1 -3.23130 0.71851 2019-01-15 10:28:58 2019-01-17 14:00:27 RF03101 RAGATH-31 2449 RAGATH-31 RNA Weinberg Z Weinberg Z 71.80 71.80 37.20 Oscillibacter (Firmicutes). Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.54 -Z 742849.287494 --mxsize 128 CM SEQDB 26 1 0 0 Gene; sRNA; Published; PMID:28977401; 3 0 \N 0.61166 -4.45115 1600000 368464 131 54 1 -3.63000 0.71945 2019-01-15 10:31:00 2019-01-17 14:00:27 RF03102 RAGATH-33 2449 RAGATH-33 RNA Weinberg Z Weinberg Z 120.40 120.40 33.60 Environmental. Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 24.88 -Z 742849.287494 --mxsize 128 CM SEQDB 7 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.57212 -8.24498 1600000 366726 308 113 1 -2.49950 0.71829 2019-01-15 10:32:31 2019-01-17 14:00:27 RF03103 RAGATH-34 2449 RAGATH-34 RNA Weinberg Z Weinberg Z 60.70 60.70 37.80 Environmental. Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 31.91 -Z 742849.287494 --mxsize 128 CM SEQDB 24 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.48307 -6.55367 1600000 252327 202 106 1 -3.23900 0.71837 2019-01-15 10:33:20 2019-01-17 14:00:27 RF03104 RAGATH-36 2449 RAGATH-36 RNA Weinberg Z Weinberg Z 80.70 80.70 36.10 Environmental. Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.51 -Z 742849.287494 --mxsize 128 CM SEQDB 14 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.58814 -8.83046 1600000 391436 359 129 1 -3.26360 0.71821 2019-01-15 10:34:18 2019-01-17 14:00:27 RF03105 RAGATH-7-assoc 2449 RAGATH-7-assoc RNA Weinberg Z Weinberg Z 88.50 88.50 38.10 Environmental. Nearby to self-cleaving ribozyme genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.58 -Z 742849.287494 --mxsize 128 CM SEQDB 26 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.55529 -5.84707 1600000 247967 235 131 1 -3.16800 0.71821 2019-01-15 10:35:22 2019-01-17 14:00:27 RF03106 RT-11 2572 RT-11 RNA Weinberg Z Weinberg Z 143.50 143.50 33.10 Environmental. Nearby to self-splicing intron genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.80 -Z 742849.287494 --mxsize 128 CM SEQDB 3 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.58037 -8.81764 1600000 358074 261 147 1 -3.18350 0.71807 2019-01-15 10:36:43 2019-01-17 14:00:28 RF03107 saliva-tongue-1 2696 saliva-tongue-1 RNA Weinberg Z Weinberg Z 107.30 107.30 38.10 Human saliva and tongue dorsum. Terminator (Clostridia) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.09 -Z 742849.287494 --mxsize 128 CM SEQDB 10 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.51126 -8.81933 1600000 337053 213 109 1 -3.17760 0.71831 2019-01-15 10:37:46 2019-01-17 14:00:28 RF03108 Methylosinus-1 2697 Methylosinus-1 RNA Weinberg Z Weinberg Z 145.10 145.10 60.60 Methylosinus trichosporium (Alphaproteobacteria). Big IGRs \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 22.20 -Z 742849.287494 --mxsize 128 CM SEQDB 12 8 0 0 Gene; sRNA; Published; PMID:28977401; 4 0 \N 0.57654 -10.79803 1600000 393530 414 212 1 -3.56880 0.71115 2019-01-15 10:44:09 2019-01-17 14:00:28 RF03109 Thermales-rpoB 2698 Thermales-rpoB RNA Weinberg Z Weinberg Z 77.30 77.30 34.10 Thermales (Deinococcus-Thermus). Lineage (Deinococcus-Thermus) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 23.87 -Z 742849.287494 --mxsize 128 CM SEQDB 14 5 0 0 Cis-reg; Published; PMID:28977401; 12 0 \N 0.67453 -3.58503 1600000 238081 190 89 1 -3.00540 0.71861 2019-01-15 10:55:39 2019-01-17 14:00:28 RF03110 throat-1 2699 throat-1 RNA Weinberg Z Weinberg Z 124.40 124.40 33.30 throat and tongue metagenomes. Environment (Human Microbiome Project, throat) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 19.40 -Z 742849.287494 --mxsize 128 CM SEQDB 27 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.69848 -7.78284 1600000 380357 482 334 1 -3.74470 0.70456 2019-01-15 10:57:20 2019-01-17 14:00:28 RF03111 Zeta-pan 2700 Zeta-pan RNA Weinberg Z Weinberg Z 56.70 56.70 35.80 Zetaproteobacteria. Lineage (Zetaproteobacteria) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.74 -Z 742849.287494 --mxsize 128 CM SEQDB 11 1 0 0 Gene; sRNA; Published; PMID:28977401; 8 0 \N 0.53072 -8.40637 1600000 461981 160 50 1 -3.66310 0.71930 2019-01-15 10:58:14 2019-01-17 14:00:28 RF03112 Staphylococcus-1 2701 Staphylococcus-1 RNA Weinberg Z Weinberg Z 87.70 87.70 35.50 Firmicute (1 example). Nearby to self-splicing intron genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.83 -Z 742849.287494 --mxsize 128 CM SEQDB 21 1 0 0 Gene; sRNA; Published; PMID:28977401; 2 0 \N 0.58060 -3.56845 1600000 177690 230 127 1 -3.56820 0.71816 2019-01-15 10:59:16 2019-01-17 14:00:28 RF03113 Poribacteria-1 2702 Poribacteria-1 RNA Weinberg Z Weinberg Z 74.20 74.20 34.60 Poribacteria. Lineage (Poribacteria) \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 28.47 -Z 742849.287494 --mxsize 128 CM SEQDB 6 0 0 0 Gene; sRNA; Published; PMID:28977401; 1 0 \N 0.50243 -8.82066 1600000 295225 209 107 1 -3.46380 0.71835 2019-01-15 11:49:06 2019-01-17 14:00:28 RF03114 RT-1 2572 RT-1 RNA Weinberg Z Weinberg Z 106.40 106.40 38.10 Neisseria elongata (Betaproteobacteria). Nearby to self-splicing intron genes \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 27.90 -Z 742849.287494 --mxsize 128 CM SEQDB 5 1 0 0 Gene; sRNA; Published; PMID:28977401; 3 0 \N 0.53902 -6.68471 1600000 269132 210 107 1 -3.23060 0.71860 2019-01-15 11:55:17 2019-01-17 14:00:28 RF03115 KDPG-aldolase 2703 KDPG-aldolase RNA Weinberg Z Weinberg Z 54.60 54.60 33.30 Enterobacteriaceae (Gammaproteobacteria). Downstream gene \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 26.46 -Z 742849.287494 --mxsize 128 CM SEQDB 43 14 0 0 Gene; sRNA; Published; PMID:28977401; 44 0 \N 0.56076 -6.44358 1600000 221441 179 88 1 -3.32640 0.71868 2019-01-16 10:25:22 2019-01-17 14:00:28 RF03116 aCoV-5UTR 2707 Alphacoronavirus 5'UTR Lamkiewicz K Lamkiewicz K 70.30 70.30 49.70 The first 150 to 200 nucleotides within the 5' UTR of alphacoronaviruses are highly structured and shown to be conserved on the structural level among alphacoronaviruses. The 5' UTR has been predicted to contain 3 conserved stem-loops: SL1, SL2 and SL4. SL1 is important for viral replication, most likely playing a role in the template-switch of viral subgenomic RNA transcription. Mutations of the upper part of SL1 seems to have an higher impact of viral replication level. SL2 is crucial for viral viability, nucleotides are interchangeable as long as the structure remains stable. Disrupting any G-C pairing causes major defects in viral replication. SL4 is hypothesised to play a role in directing subgenomic RNA synthesis during viral replication. Downstream of SL4 lies SL5, which overlaps with the first ORF of the viral genome. The 3 terminal loops of SL5 contain a conserved sequence 5′-UUCCGU-3′ and are thought to act as the packaging signal [3]. This strong level of conservation has not been observed in other genera of coronaviruses yet. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 765380.351698 CM SEQDB 17 27 0 0 Cis-reg; Predicted; 30 0 \N 0.60461 -9.90325 1600000 491527 544 324 1 -4.59620 0.70506 2020-04-15 14:24:12 2020-04-23 11:36:30 RF03117 bCoV-5UTR 2707 Betacoronavirus 5'UTR Lamkiewicz K Lamkiewicz K 111.60 111.60 55.50 The first 150 to 200 nucleotides within the 5' UTR of betacoronaviruses are highly structured and shown to be conserved on a structure level among betacoronaviruses. It has been predicted to contain 3 conserved stem-loops (SL1, SL2 and SL4). SARS-CoV and BCoV have an additional stem-loop, called SL3, which contains the TRS-L sequence in its loop region. However, according to predictions, SL3 is not stable in other betacoronaviruses like MHV. SL1 is important for viral replication, most likely playing a role in the template-switch of viral subgenomic RNA transcription. SL2 is crucial for viral viability, however, the nucleotide sequence can be mutated and some residues, as long as the structure remains stable. SL4 is hypothesized to play a role in directing subgenomic RNA synthesis during viral replication. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 765380.351698 CM SEQDB 17 22 0 0 Cis-reg; Predicted; 27 0 \N 0.64251 -9.88954 1600000 483492 562 310 1 -4.14230 0.70546 2020-04-15 16:35:34 2021-07-05 13:43:57 RF03118 gCoV-5UTR 2707 Gammacoronavirus 5'UTR Lamkiewicz K Lamkiewicz K 124.90 124.90 51.60 The 5' UTR of gammacoronaviruses is similar to the 5' UTRs of alpha- and betacoronaviruses, as they also contain 3 helices denoted as SL1, SL2 and SL4. Further, in a subset of gammacoronaviruses a third stem-loop, SL3, is observed. SL1 and SL2 have major impacts of the level of viral replication, whereas SL4 is hypothesized to play a role as a "spacer" during the template-switch of CoV sgRNA synthesis. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 765380.351698 CM SEQDB 3 6 0 0 Cis-reg; Predicted; 8 0 \N 0.44149 -10.93940 1600000 454394 350 200 1 -3.49420 0.71233 2020-04-15 19:23:09 2020-04-23 11:36:30 RF03119 dCoV-5UTR 2707 Deltacoronavirus 5'UTR Lamkiewicz K Lamkiewicz K 102.90 102.90 40.50 The 5'UTR of deltacoronaviruses is similar to the 5'UTRs of alpha- and betacoronaviruses, as they also contain three helices denoted as SL1, SL2 and SL4. SL1 and SL2 have major impacts of the level of viral replication, whereas SL4 is hypothesized to play a role as a "spacer" during the template-switch of CoV sgRNA synthesis. Further, predictions show a conserved fourth stem-loop (SL3) between SL2 and SL4, sometimes observed in beta- and gammacoronaviruses as well. SL3 usually exposes the TRS-L sequence, which is crucial for sgRNA synthesis during viral replication, in the loop region. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 765380.351698 CM SEQDB 7 7 0 0 Cis-reg; Predicted; 11 0 \N 0.55585 -10.63893 1600000 543298 455 294 1 -3.56990 0.70618 2020-04-15 19:36:20 2020-04-23 11:36:30 RF03120 Sarbecovirus-5UTR 2707 Sarbecovirus 5'UTR Lamkiewicz K Lamkiewicz K 150.00 150.10 73.40 The 5' UTR of Sarbecovirus consists of 4 distinct stem-loops, namely SL1, SL2, SL3 and SL4. Further, there is a larger structure, SL5, present, which includes the first ORFs of the polyprotein. Note, that SL3 is typically present in SARS coronaviruses, but not necessarily conserved among other betacoronaviruses. SL1 is important for viral replication, most likely playing a role in the template-switch of viral subgenomic RNA transcription. SL2 is crucial for viral viability, however, the nucleotide sequence can be mutated and some residues, as long as the structure remains stable. SL4 is hypothesized to play a role in directing subgenomic RNA synthesis during viral replication. SARS-CoV-2-5UTR; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 50.00 -Z 742849.287494 CM SEQDB 19 84 0 0 Cis-reg; Predicted; 19 0 \N 0.72899 -8.16489 1600000 363609 451 298 1 -4.07750 0.70612 2020-04-15 19:39:09 2022-10-29 16:55:17 RF03121 aCoV-3UTR 2708 Alphacoronavirus 3'UTR Lamkiewicz K Kevin Lamkiewicz 85.00 85.00 53.60 The 3' UTR of alphacoronaviruses consists of two small hairpins (PK-SL2) which can form an alternate conformation (PK-SL1) where the loop region of the second hairpin interacts with the stem of the first hairpin. PK-SL2 has been confirmed in HCoV-229E and HCoV-NL63 by in vitro structure probing experiments. Downstream of this pseudoknot lies the hypervariable region (HVR), which is supported by many covarying basepairs in alphacoronaviruses. Further, a conserved octanucleotide sequence is present in the HVR. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 765380.351698 CM SEQDB 17 28 0 0 Cis-reg; Predicted; 31 0 \N 0.61120 -10.58180 1600000 615718 502 305 1 -3.72140 0.70563 2020-04-15 20:41:15 2020-04-23 11:36:30 RF03122 bCoV-3UTR 2708 Betacoronavirus 3'UTR Lamkiewicz K Lamkiewicz K 112.90 112.90 68.30 The 3' UTR of betacoronaviruses is approximately 300-500 nucleotides long. The most 5' structure is the bulged stem-loop (BSL), starting downstream of the N gene stop codon and is essential for viral replication. It is predicted to be conserved among betacoronaviruses. Downstream to the BSL lies the hypervariable bulged-stemloop region (HVR), containing a triple helix junction. The hairpin stem-loop arising from this junction participates in the pseudoknot pairing with the BSL region. The pseudoknot and the BSL partially overlap and therefore cannot be formed at the same time. It is proposed that the BSL and pseudoknot act as a molecular switch that may regulate a transition during viral RNA synthesis. Part of the HVR is the octanucleotide sequence '5-GGAAGAGC-3' which is conserved among alpha- and betacoronaviruses. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 765380.351698 CM SEQDB 17 22 0 0 Cis-reg; Predicted; 27 0 \N 0.64324 -9.57939 1600000 459676 537 327 1 -4.07300 0.70489 2020-04-15 20:50:45 2021-07-05 13:43:57 RF03123 gCoV-3UTR 2708 Gammacoronavirus 3'UTR Lamkiewicz K Lamkiewicz K 175.80 175.80 50.50 In gammacoronaviruses a stem-loop located at the 3' UTR is observed, which is vital for viral replication. Even though a nearby pseudoknot structure, which has been observed in other genera of coronaviruses, is present, its functional importance has not been established yet. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 765380.351698 CM SEQDB 3 7 0 0 Cis-reg; Predicted; 9 0 \N 0.67718 -7.74360 1600000 415767 417 275 1 -3.29400 0.70708 2020-04-15 20:56:52 2020-04-23 11:36:30 RF03124 dCoV-3UTR 2708 Deltacoronavirus 3'UTR Lamkiewicz K Lamkiewicz K 174.80 174.80 76.50 There are two smaller hairpins and the hypervariable region (HVR) present in the 3' UTR of deltacoronaviruses. The pseudoknot structure which is typical for alpha- and betacoronaviruses has not been predicted in deltacoronaviruses thus far. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 765380.351698 CM SEQDB 7 7 0 0 Cis-reg; Predicted; 11 0 \N 0.70088 -8.79860 1600000 368029 555 410 1 -4.00910 0.70254 2020-04-15 20:59:38 2020-04-23 11:36:30 RF03125 Sarbecovirus-3UTR 2708 Sarbecovirus 3'UTR Lamkiewicz K Lamkiewicz K 179.70 179.70 132.80 The Sarbecovirus 3'UTR is similar to other betacoronaviruses and is approximately 300-500 nucleotides long. The most 5' structure is the bulged stem-loop (BSL), starting downstream of the N gene stop codon and is essential for viral replication. It is predicted to be conserved among betacoronaviruses. Downstream to the BSL lies the hypervariable bulged-stem loop region (HVR), containing a triple helix junction. The hairpin stem from this junction participates in the pseudoknot pairing with the BSL region. The pseudoknot and the BSL partially overlap and therefore cannot be formed at the same time. It is proposed that the BSL and pseudoknot act as a molecular switch that may regulate a transition during viral RNA synthesis. Part of the HVR is the octanucleotide sequence '5-GGAAGAGC-3' which is conserved among alpha- and betacoronaviruses. SARS-CoV-2-3UTR; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 765380.351698 CM SEQDB 11 86 0 0 Cis-reg; Predicted; 15 0 \N 0.71285 -8.54678 1600000 368925 496 335 1 -4.11990 0.70460 2020-04-15 21:02:37 2021-07-05 13:43:57 RF03126 L20-Deltaproteobacteria 1804 L20-Deltaproteobacteria ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 42.80 42.80 35.00 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 117 33 0 0 Cis-reg; leader; Published; PMID:32448158; 41 0 \N 0.57083 -6.89704 1600000 325492 223 75 1 -4.03450 0.71888 2020-07-07 16:45:40 2020-09-14 14:04:32 RF03127 L13-Bacteroidia 1801 L13-Bacteroidia ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 38.00 38.40 36.70 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 370 52 0 0 Cis-reg; leader; Published; PMID:32448158; 109 0 \N 0.69062 -3.68595 1600000 302727 143 72 1 -4.07170 0.71883 2020-07-09 11:54:15 2020-09-14 14:04:31 RF03128 L31-Coriobacteria 2726 L31-Coriobacteria ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 33.00 33.00 32.50 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 75 53 0 0 Cis-reg; leader; Published; PMID:32448158; 55 0 \N 0.46579 -12.40537 1600000 1187323 86 33 1 -3.55810 0.73188 2020-07-10 10:01:18 2020-09-14 14:07:41 RF03129 L31-Corynebacteriaceae 2726 L31-Corynebacteriaceae ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 36.00 36.60 35.40 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 113 55 0 0 Cis-reg; leader; Published; PMID:32448158; 105 0 \N 0.54950 -8.53939 1600000 426470 332 73 1 -3.68330 0.71899 2020-07-10 10:27:40 2020-09-14 14:07:41 RF03130 L19-Flavobacteria 1802 L19-Flavobacteria ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 31.50 31.50 31.40 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 460 224 0 0 Cis-reg; leader; Published; PMID:32448158; 330 0 \N 0.61860 -4.70764 1600000 430511 90 30 1 -3.46890 0.72919 2020-07-10 12:38:24 2020-09-14 14:04:31 RF03131 L25-Gammaproteobacteria 2727 L25-Gammaproteobacteria ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 34.10 34.30 34.00 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 381 125 0 0 Cis-reg; leader; Published; PMID:32448158; 418 0 \N 0.68323 -3.65752 1600000 410532 70 26 1 -4.05890 0.73155 2020-07-10 12:56:43 2021-07-05 13:43:57 RF03132 L17-Actino-Proteobacteria 2728 L17-Actino-Proteobacteria ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 34.90 34.90 34.60 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 408 236 0 0 Cis-reg; leader; Published; PMID:32448158; 516 0 \N 0.46495 -8.64158 1600000 481144 145 56 1 -3.25110 0.71931 2020-07-10 13:06:27 2021-07-05 13:43:57 RF03133 S4-Fusobacteriales 2729 S4-Fusobacteriales ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 48.80 48.80 38.30 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 84 18 0 0 Cis-reg; leader; Published; PMID:32448158; 41 0 \N 0.58072 -4.95412 1600000 372404 247 62 1 -3.41860 0.71915 2020-07-10 14:20:45 2020-09-14 14:07:42 RF03134 S6-S18-Chlorobi 2730 S6-S18-Chlorobi ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 47.40 47.40 41.20 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 34 12 0 0 Cis-reg; leader; Published; PMID:32448158; 15 0 \N 0.58068 -4.49978 1600000 217647 155 76 1 -3.60600 0.71911 2020-07-10 14:24:06 2020-09-14 14:07:42 RF03135 L4-Archaeoglobi 2731 L4-Archaeoglobi ribosomal protein leades Weinberg Z, Eckert I Published; PMID:32448158; 34.50 34.60 34.00 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 379 84 0 0 Cis-reg; leader; Published; PMID:32448158; 161 0 \N 0.61110 -3.90897 1600000 268472 185 85 1 -3.39710 0.71872 2020-07-10 15:31:10 2022-10-29 16:55:17 RF03136 S10-Clostridia 2732 S10-Clostridia ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 35.10 35.10 34.90 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 199 470 0 0 Cis-reg; leader; Published; PMID:32448158; 518 0 \N 0.55635 -7.79760 1600000 253731 288 81 1 -3.52320 0.71877 2020-07-10 16:20:21 2020-09-14 14:07:42 RF03137 S15-Methanomicrobia 1406 S15-Methanomicrobia ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 42.20 42.20 31.70 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 100 14 0 0 Cis-reg; leader; Published; PMID:32448158; 21 0 \N 0.52787 -7.21570 1600000 251468 244 76 1 -3.63850 0.71898 2020-07-10 16:31:17 2020-09-14 14:04:01 RF03138 S16-Flavobacteria 2733 S16-Flavobacteria ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 35.70 36.00 35.60 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 130 151 0 0 Cis-reg; leader; Published; PMID:32448158; 166 0 \N 0.43580 -5.86038 1600000 515866 84 35 1 -3.93210 0.72286 2020-07-10 16:51:51 2020-09-14 14:07:42 RF03139 S4-Bacteroidia 2729 S4-Bacteroidia ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 34.70 34.70 34.60 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 225 63 0 0 Cis-reg; leader; Published; PMID:32448158; 91 0 \N 0.64396 -7.91810 1600000 776078 226 39 1 -2.86870 0.73018 2020-07-10 17:08:17 2021-07-05 13:43:57 RF03140 S4-Clostridia 2729 S4-Clostridia ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 37.50 37.50 37.20 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 140 39 0 0 Cis-reg; leader; Published; PMID:32448158; 73 0 \N 0.71631 -2.56467 1600000 296659 453 57 1 -3.52940 0.72365 2020-07-10 17:27:32 2021-07-05 13:43:57 RF03141 S4-Flavobacteria 2729 S4-Flavobacteria ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 35.20 35.20 35.10 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 260 176 0 0 Cis-reg; leader; Published; PMID:32448158; 230 0 \N 0.64164 -2.28100 1600000 316349 109 34 1 -4.09710 0.72747 2020-07-10 17:45:24 2020-09-14 14:07:42 RF03142 L2-Alphaproteobacteria 2724 L2-Alphaproteobacteria ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 37.80 37.80 37.60 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 452 170 0 0 Cis-reg; leader; Published; PMID:32448158; 230 0 \N 0.67763 -8.15632 1600000 578466 405 69 1 -3.15500 0.71887 2020-07-16 08:24:04 2021-07-05 13:43:57 RF03143 S15-Halobacteria 1406 S15-Halobacteria ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 49.00 49.80 37.00 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 237 63 0 0 Cis-reg; leader; Published; PMID:32448158; 126 0 \N 0.61824 -4.61215 1600000 222445 336 67 1 -3.75330 0.71907 2020-07-16 09:19:59 2020-09-14 14:04:01 RF03144 eL15-Euryarchaeota 2725 eL15-Euryarchaeota ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 33.70 33.70 33.60 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 539 103 0 0 Cis-reg; leader; Published; PMID:32448158; 223 0 \N 0.56710 -6.02302 1600000 314917 153 48 1 -3.64530 0.73142 2020-07-16 10:43:12 2022-10-29 16:55:17 RF03145 RAGATH-14 2449 RAGATH-14 RNA Weinberg Z Published; PMID:26167874; 149.10 149.10 33.40 RNA motif Associated with Genes Associated with Twister and Hammerhead ribozymes (RAGATH). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 15 0 0 0 Gene; sRNA; Published; PMID:26167874; 1 0 \N 0.49009 -10.58343 1600000 422549 729 189 1 -3.34070 0.71333 2020-07-16 14:45:51 2020-09-14 14:06:21 RF03146 RAGATH-9 2449 RAGATH-9 RNA Weinberg Z Published; PMID:26167874; 75.20 75.20 36.70 RNA motif Associated with Genes Associated with Twister and Hammerhead ribozymes (RAGATH). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 53 0 0 0 Gene; sRNA; Published; PMID:26167874; 1 0 \N 0.50355 -9.35546 1600000 396618 280 173 1 -2.96860 0.71519 2020-07-20 11:14:21 2020-09-14 14:06:21 RF03147 RAGATH-10 2449 RAGATH-10 RNA Weinberg Z Published; PMID:26167874; 41.20 41.20 35.10 RNA motif Associated with Genes Associated with Twister and Hammerhead ribozymes (RAGATH). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 149 1 0 0 Gene; sRNA; Published; PMID:26167874: 2 0 \N 0.55737 -6.37532 1600000 259108 166 82 1 -3.05080 0.71885 2020-07-20 11:20:01 2020-09-14 14:06:22 RF03148 RAGATH-11 2449 RAGATH-11 RNA Weinberg Z Published; PMID:26167874; 79.40 79.40 44.90 RNA motif Associated with Genes Associated with Twister and Hammerhead ribozymes (RAGATH). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 0 0 0 Gene; sRNA; Published; PMID:26167874; 1 0 \N 0.50675 -9.05915 1600000 310864 214 117 1 -3.58060 0.71833 2020-07-20 11:24:28 2020-09-14 14:06:22 RF03149 RAGATH-12 2449 RAGATH-12 RNA Weinberg Z Published; PMID:26167874; 75.00 75.00 40.00 RNA motif Associated with Genes Associated with Twister and Hammerhead ribozymes (RAGATH). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 24 0 0 0 Gene; sRNA; Published; PMID:26167874; 1 0 \N 0.58330 -7.30220 1600000 385492 167 78 1 -3.27120 0.71869 2020-07-20 11:27:46 2020-09-14 14:06:22 RF03150 RAGATH-15 2449 RAGATH-15 RNA Weinberg Z Published; PMID:26167874; 199.50 199.50 47.70 RNA motif Associated with Genes Associated with Twister and Hammerhead ribozymes (RAGATH). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 0 0 0 Gene; sRNA; Published; PMID:26167874; 1 0 \N 0.68988 -7.72389 1600000 364248 429 297 1 -3.59630 0.70608 2020-07-20 11:30:12 2020-09-14 14:06:22 RF03151 cyano-S1 2734 Cyanobacterial ribosomal protein S1 leader Weinberg Z Published; PMID:17621584; 39.90 39.90 37.70 cyano-S1 is a ncRNA recognized in the 5-prime region of genes encoding 30S ribosomal protein S1 [1], it has been proposed as an cis regulation element. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 26 16 0 0 Cis-reg; leader; Published; PMID:17621584; 21 0 \N 0.63897 -3.70632 1600000 307042 153 81 1 -4.05140 0.71869 2020-07-20 11:41:27 2020-09-14 14:07:42 RF03152 RAGATH-1-hammerhead 1309 RAGATH-1 hammerhead ribozyme Weinberg Z Published; PMID:26167874; 56.30 56.30 37.00 RNA motif Associated with Genes Associated with Twister and Hammerhead ribozymes (RAGATH) [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 16 0 0 0 Gene; ribozyme; Published; PMID:26167874; 1 0 \N 0.50788 -7.81691 1600000 373652 435 78 1 -3.92290 0.71875 2020-07-20 14:01:18 2020-09-14 14:03:52 RF03153 RAGATH-4 2449 RAGATH-4 RNA Weinberg Z Published; PMID:26167874; 104.40 104.40 103.90 RNA motif Associated with Genes Associated with Twister and Hammerhead ribozymes (RAGATH). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 15 0 0 0 Gene; sRNA; Published; PMID:26167874; 1 0 \N 0.62414 -4.39933 1600000 232694 236 131 1 -2.83900 0.71822 2020-07-20 14:04:03 2020-09-14 14:06:23 RF03154 twister-P3 2448 type-P3 twister ribozyme Weinberg Z, Ames TD Published; PMID:24240507 39.90 53.60 38.20 Twister ribozyme motif, present stem P3 variant (type P3) [1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 37.00 -Z 742849.287494 CM SEQDB 9 0 0 0 Gene; ribozyme; Published; PMID:24240507 1 0 \N 0.64299 -3.11264 1600000 240176 148 73 1 -3.07430 0.72779 2020-07-20 15:09:09 2020-09-14 14:06:17 RF03155 TD-1 2735 TD-1 RNA Weinberg Z Published; PMID:17621584; 64.50 64.50 64.40 non coding RNA found in Treponema denticola [1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 28 109 0 0 Cis-reg; Published; PMID:17621584; 8 0 \N 0.47911 -8.53330 1600000 274141 1014 120 1 -3.32870 0.71833 2020-07-20 15:47:01 2020-09-14 14:07:43 RF03156 L31-Firmicutes 2726 L31-Firmicutes ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 33.30 33.30 33.20 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 1083 65 0 0 Cis-reg; leader; Published; PMID:32448158; 681 0 \N 0.54028 -10.15967 1600000 821267 99 30 1 -2.85270 0.73866 2020-07-28 14:09:21 2021-07-05 13:43:57 RF03157 L31-Gammaproteobacteria 2726 L31-Gammaproteobacteria ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 33.20 33.20 33.10 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 733 319 0 0 Cis-reg; leader; Published; PMID:32448158; 733 0 \N 0.63155 -7.64602 1600000 652766 177 52 1 -3.80520 0.72012 2020-07-29 14:55:31 2021-07-05 13:43:57 RF03158 L31-Actinobacteria 2726 L31-Actinobacteria ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 35.00 35.00 34.90 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 971 516 0 0 Cis-reg; leader; Published; PMID:32448158; 972 0 \N 0.61677 -4.74631 1600000 444107 146 48 1 -3.20230 0.72115 2020-07-29 17:39:45 2022-10-29 16:55:17 RF03159 RAGATH-7 2449 RAGATH-7 RNA Weinberg Z Published; PMID:26167874; 111.80 111.80 41.70 RNA motif Associated with Genes Associated with Twister and Hammerhead ribozymes (RAGATH). \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 44 0 0 0 Gene; sRNA; Published; PMID:26167874; 1 0 \N 0.58282 -9.73933 1600000 533701 700 211 1 -3.29820 0.71122 2020-07-30 14:42:50 2020-09-14 14:06:23 RF03160 twister-P1 2448 type-P1 twister ribozyme Weinberg Z, Ames TD Published; PMID:24240507; 67.20 67.20 67.10 The twister ribozyme motif, present stem P3 variant (type P3) [1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 1613 1108 0 0 Gene; ribozyme; Published; PMID:24240507; 46 0 \N 0.67679 -3.44765 1600000 310004 270 67 1 -3.71330 0.72353 2020-07-31 12:23:22 2021-07-05 13:43:57 RF03161 S15-Flavobacteria 1406 S15-Flavobacteria ribosomal protein leader Weinberg Z, Eckert I Published; PMID:32448158; 46.50 46.50 45.70 Imported from the ZWD database. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 935 237 0 0 Cis-reg; leader; Published; PMID:32448158; 377 0 \N 0.43656 -8.60782 1600000 460426 223 63 1 -3.37900 0.71888 2020-08-11 11:06:35 2021-06-14 14:02:32 RF03162 TD-2 2737 TD-2 RNA Weinberg Z Published; PMID:17621584; 48.70 48.70 48.50 non coding RNA found in Treponema denticola [1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 36 236 0 0 Gene; sRNA; Published; PMID:17621584; 8 0 \N 0.47306 -7.01772 1600000 266431 175 98 1 -3.72570 0.71865 2020-08-11 14:30:39 2020-09-14 14:07:43 RF03163 c4-a1b1 2102 a1, b1 targets of C4 antisense RNA Weinberg Z Published; PMID:20230605; 46.70 46.70 46.60 c4-a1b1 is a c4 antisense RNA [1], it is use by phagues to inhibit the synthesis of antirepressor genes. It is propose that c4 antisense RNAs are responsible for heteroimmunity in phagues [2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 77 380 0 0 Gene; antisense; Published; PMID:20230605; 140 0 \N 0.69227 -6.66129 1600000 447110 107 53 1 -3.85890 0.72525 2020-08-11 16:51:51 2021-07-05 13:43:57 RF03164 NiCo-AnGGAG 2447 NiCo-AnGGAG riboswitch Weinberg Z Published; PMID:28265071 64.50 64.50 63.70 Nico riboswitches are selective metalloregulatory riboswitches that recognice Ni2+ and Co2+ metals [2]. NiCo-AnGGAG is a variant of Nico riboswitch [2], with a change in position 87, from G to A [1]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 7 0 0 Cis-reg; Published; PMID:28265071 9 0 \N 0.63967 -4.06043 1600000 211860 181 89 1 -3.03740 0.71867 2020-08-12 16:37:51 2021-07-05 13:43:57 RF03165 2dG-II 1451 2dG-II purine riboswitch Weinberg Z Published; PMID:28265071 60.00 60.00 59.40 Purine riboswitch variant that recognize 2'-deoxyguanosine \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 30 59 0 0 Cis-reg; Published; PMID:28265071 26 0 \N 0.73099 -2.38861 1600000 235970 141 71 1 -3.68790 0.71884 2020-08-13 10:42:03 2021-06-14 14:02:32 RF03166 glycine-GGAnGA 1755 glycine-GGAnGA riboswitch Weinberg Z Published; PMID:28265071 110.00 110.30 109.30 glycine-GGAnGA riboswitch is a variant of glycine riboswitch that have in common a U69A change. This riboswitch is associate with genes that encode either saccharopine dehydrogenase or amino acid transporters and other genes with not predicted function. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 26 22 0 0 Cis-reg; Published; PMID:28265071 25 0 \N 0.58478 -9.08996 1600000 356260 362 180 1 -2.92360 0.71447 2020-08-14 17:53:26 2020-09-14 14:04:27 RF03167 c-di-GMP-I-GGC 2038 c-di-GMP-I-GGC riboswitch Weinberg Z Published; PMID:28265071 55.00 55.00 54.90 c-di-MP-I-GGC is a variant of c-di-GMPI riboswitch RF01051, that includes CORESEQ GGC \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 38 805 0 0 Cis-reg; Published; PMID:28265071 385 0 \N 0.63590 -6.38410 1600000 282791 553 78 1 -3.84850 0.71872 2020-08-14 18:19:57 2021-07-05 13:43:57 RF03168 c-di-GMP-I-UAU 2038 c-di-GMP-I-UAU riboswitch Weinberg Z Published; PMID:28265071 65.90 65.90 65.80 c-di-GMP-I-GGC is a variant of c-di-GMP-I riboswitch RF01051, that includes CORESEQ UAU \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 17 0 0 Cis-reg; Published; PMID:28265071 18 0 \N 0.61281 -5.51860 1600000 232033 161 81 1 -3.48880 0.72382 2020-08-14 18:26:52 2021-06-14 14:02:32 RF03169 c-di-GMP-II-GAG 2181 c-di-GMP-II-GAG riboswitch Weinberg Z Published; PMID:28265071 40.00 40.00 39.80 c-di-GMP-II-GAG is a variant of c-di-GMP-II riboswitch RF01786, that includes CORESEQ GAG \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 472 169 0 0 Cis-reg; Published; PMID:28265071 80 0 \N 0.61664 -3.82365 1600000 160621 409 88 1 -3.76940 0.71852 2020-08-14 18:57:45 2021-07-05 13:43:57 RF03170 c-di-GMP-II-GCG 2181 c-di-GMP-II-GCG riboswitch Weinberg Z Published; PMID:28265071 47.90 47.90 47.80 c-di-GMP-II-GCG is a variant of c-di-GMP-II riboswitch RF01786, that includes CORESEQ GCG \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 33 382 0 0 Cis-reg; Published; PMID:28265071 49 0 \N 0.55075 -4.36965 1600000 169330 306 86 1 -3.57090 0.71870 2020-08-14 19:10:00 2020-09-14 14:05:03 RF03171 mir-1012 1287 mir-1012 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 88.40 48.50 This family represents the microRNA (miRNA) precursor mir-1012 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; PFOLD 2 0 \N 0.60580 -4.42807 1600000 346889 145 59 1 -2.81370 0.72730 2020-08-17 13:45:46 2020-09-14 13:54:33 RF03172 mir-6012 1287 mir-6012 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 59.00 59.70 51.20 This family represents the microRNA (miRNA) precursor mir-6012 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 21 0 0 Gene; miRNA; Predicted; RNAalifold 21 0 \N 0.59097 -4.14937 1600000 264376 180 85 1 -2.87400 0.72207 2020-08-31 15:25:10 2020-09-14 13:54:33 RF03173 mir-4504 1287 mir-4504 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 104.00 104.90 78.10 This family represents the microRNA (miRNA) precursor mir-4504 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.63448 -3.08162 1600000 191836 191 92 1 -3.32630 0.71886 2020-08-31 16:35:21 2020-09-14 13:54:33 RF03174 mir-4803 1287 mir-4803 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 91.10 73.60 This family represents the microRNA (miRNA) precursor mir-4803 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.59393 -4.14315 1600000 253227 165 74 1 -3.41920 0.72114 2020-09-01 19:25:23 2020-11-05 15:43:16 RF03175 MIR3454 1287 MIR3454 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 142.00 142.40 130.60 This family represents the microRNA (miRNA) precursor MIR3454 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 7 19 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61823 -4.00605 1600000 175130 264 147 1 -3.08730 0.71831 2020-09-01 19:58:07 2020-09-14 13:54:33 RF03176 MIR7729 1287 MIR7729 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 92.00 92.70 91.60 This family represents the microRNA (miRNA) precursor MIR7729 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 64 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.69403 -2.76589 1600000 264973 183 86 1 -3.46310 0.71880 2020-09-01 19:58:59 2020-11-05 15:43:16 RF03177 mir-2067 1287 mir-2067 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 105.30 53.00 This family represents the microRNA (miRNA) precursor mir-2067 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.64131 -2.88319 1600000 209256 163 72 1 -3.39830 0.72084 2020-09-01 19:59:24 2021-07-05 13:43:57 RF03178 mir-4515 1287 mir-4515 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 99.00 99.70 50.90 This family represents the microRNA (miRNA) precursor mir-4515 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.57126 -3.87491 1600000 229930 176 81 1 -3.02990 0.71902 2020-09-01 19:59:49 2021-07-05 13:43:57 RF03179 mir-1182 1287 mir-1182 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 100.00 81.00 This family represents the microRNA (miRNA) precursor mir-1182 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.60927 -3.23884 1600000 204418 197 96 1 -3.27920 0.71887 2020-09-01 20:00:28 2020-11-05 15:43:16 RF03180 mir-3126 1287 mir-3126 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.50 58.40 This family represents the microRNA (miRNA) precursor mir-3126 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.63144 -2.37444 1600000 231452 165 74 1 -3.71200 0.71954 2020-09-01 20:02:05 2021-07-05 13:43:57 RF03181 mir-2755 1287 mir-2755 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 76.00 76.10 47.70 This family represents the microRNA (miRNA) precursor mir-2755 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.70185 -2.57577 1600000 181829 163 74 1 -3.61550 0.71900 2020-09-01 20:03:25 2021-07-05 13:43:57 RF03182 MIR6032 1287 MIR6032 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 102.00 102.90 60.40 This family represents the microRNA (miRNA) precursor MIR6032 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.64587 -2.29703 1600000 188674 202 100 1 -3.40760 0.71868 2020-09-01 20:03:50 2021-07-05 13:43:57 RF03183 MIR5516 1287 MIR5516 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 93.00 93.40 86.40 This family represents the microRNA (miRNA) precursor MIR5516 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 15 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.62766 -3.80576 1600000 227584 159 69 1 -3.49540 0.72164 2020-09-01 20:04:24 2021-07-05 13:43:57 RF03184 mir-1250 1287 mir-1250 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 119.30 74.30 This family represents the microRNA (miRNA) precursor mir-1250 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 7 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.61294 -3.25886 1600000 163519 207 104 1 -3.40400 0.71875 2020-09-01 20:05:02 2021-07-05 13:43:57 RF03185 mir-3193 1287 mir-3193 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 55.00 55.20 48.30 This family represents the microRNA (miRNA) precursor mir-3193 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.62810 -3.94153 1600000 318587 140 55 1 -3.10320 0.72816 2020-09-01 20:05:34 2020-09-14 13:54:34 RF03186 mir-3689 1287 mir-3689 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 58.00 58.10 51.60 This family represents the microRNA (miRNA) precursor mir-3689 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 7 76 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.63910 -3.76979 1600000 287740 158 72 1 -3.55940 0.71912 2020-09-01 20:06:28 2020-09-14 13:54:34 RF03187 MIR1512 1287 MIR1512 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 79.00 79.30 64.30 This family represents the microRNA (miRNA) precursor MIR1512 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 12 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.62680 -2.65312 1600000 162684 237 94 1 -3.24550 0.71881 2020-09-01 20:06:59 2020-11-05 15:43:17 RF03188 mir-2843 1287 mir-2843 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 93.00 93.20 80.50 This family represents the microRNA (miRNA) precursor mir-2843 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 31 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.65245 -3.43105 1600000 282215 169 77 1 -3.70880 0.71962 2020-09-01 20:07:20 2020-09-14 13:54:34 RF03189 mir-1175 1287 mir-1175 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 51.00 51.20 49.80 This family represents the microRNA (miRNA) precursor mir-1175 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 78 0 0 Gene; miRNA; Predicted; RNAalifold 77 0 \N 0.70114 -2.62851 1600000 173822 147 72 1 -3.67870 0.71904 2020-09-01 20:08:04 2021-07-05 13:43:57 RF03190 mir-4857 1287 mir-4857 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 103.60 43.10 This family represents the microRNA (miRNA) precursor mir-4857 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.68186 -2.63077 1600000 226234 171 78 1 -3.35800 0.72025 2020-09-01 20:08:41 2021-07-05 13:43:57 RF03191 mir-1913 1287 mir-1913 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 105.00 105.10 102.70 This family represents the microRNA (miRNA) precursor mir-1913 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.63291 -3.41446 1600000 252096 173 80 1 -3.39290 0.71894 2020-09-01 20:09:09 2021-07-05 13:43:57 RF03192 mir-6794 1287 mir-6794 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 74.00 74.90 48.10 This family represents the microRNA (miRNA) precursor mir-6794 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.57391 -5.42372 1600000 288011 149 62 1 -2.94200 0.72561 2020-09-01 20:09:31 2020-11-05 15:43:18 RF03193 mir-2941 1287 mir-2941 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 66.10 56.50 This family represents the microRNA (miRNA) precursor mir-2941 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 6 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.69813 -2.91319 1600000 186242 168 82 1 -4.10980 0.71898 2020-09-01 20:10:13 2020-11-05 15:43:18 RF03194 mir-1272 1287 mir-1272 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 137.40 77.10 This family represents the microRNA (miRNA) precursor mir-1272 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.56908 -5.32027 1600000 235225 241 128 1 -3.12610 0.71846 2020-09-01 20:10:39 2020-09-14 13:54:35 RF03195 mir-3934 1287 mir-3934 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 84.00 84.30 81.30 This family represents the microRNA (miRNA) precursor mir-3934 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.60938 -3.30037 1600000 193263 191 92 1 -2.91070 0.71882 2020-09-01 20:10:59 2021-07-05 13:43:57 RF03196 mir-6790 1287 mir-6790 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 78.00 78.30 45.80 This family represents the microRNA (miRNA) precursor mir-6790 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.63107 -4.07157 1600000 318375 151 63 1 -2.93340 0.72515 2020-09-01 20:12:23 2020-11-05 15:43:18 RF03197 mir-4887 1287 mir-4887 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 101.50 54.40 This family represents the microRNA (miRNA) precursor mir-4887 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.58016 -3.79395 1600000 182152 182 87 1 -3.88960 0.72002 2020-09-01 20:12:49 2021-07-05 13:43:57 RF03198 mir-7385 1287 mir-7385 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 69.00 69.60 66.10 This family represents the microRNA (miRNA) precursor mir-7385 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 8 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66212 -3.98703 1600000 286777 141 62 1 -3.67340 0.71920 2020-09-01 20:13:20 2020-11-05 15:43:18 RF03199 MIR5271 1287 MIR5271 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 55.00 55.00 43.80 This family represents the microRNA (miRNA) precursor MIR5271 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 42 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.57288 -4.33136 1600000 216355 169 78 1 -3.24080 0.71892 2020-09-01 20:14:05 2020-11-05 15:43:18 RF03200 mir-BART13 1287 mir-BART13 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 97.90 47.90 This family represents the microRNA (miRNA) precursor mir-BART13 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61629 -3.37576 1600000 233077 177 83 1 -3.34340 0.72167 2020-09-01 20:16:06 2021-07-05 13:43:57 RF03201 mir-617 1287 mir-617 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 87.50 77.70 This family represents the microRNA (miRNA) precursor mir-617 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.63903 -3.25687 1600000 222949 176 82 1 -3.69750 0.71895 2020-09-01 20:16:30 2021-07-05 13:43:57 RF03202 mir-555 1287 mir-555 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 92.00 94.10 91.20 This family represents the microRNA (miRNA) precursor mir-555 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.72657 -1.82871 1600000 200919 187 89 1 -3.36720 0.71881 2020-09-01 20:18:32 2021-07-05 13:43:57 RF03203 mir-3070 1287 mir-3070 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 75.00 91.00 66.30 This family represents the microRNA (miRNA) precursor mir-3070 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.67521 -2.99521 1600000 195615 186 89 1 -3.31530 0.71878 2020-09-01 20:19:05 2020-11-05 15:43:18 RF03204 mir-4510 1287 mir-4510 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 60.30 46.10 This family represents the microRNA (miRNA) precursor mir-4510 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.68162 -3.10367 1600000 221527 162 72 1 -3.58700 0.71907 2020-09-01 20:19:32 2021-07-05 13:43:57 RF03205 mir-1898 1287 mir-1898 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 78.00 78.00 77.70 This family represents the microRNA (miRNA) precursor mir-1898 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 39 0 0 Gene; miRNA; Predicted; RNAalifold 39 0 \N 0.58879 -4.37141 1600000 305493 148 61 1 -2.88780 0.72542 2020-09-01 20:20:20 2020-09-14 13:54:35 RF03206 mir-3102 1287 mir-3102 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 61.00 61.30 60.60 This family represents the microRNA (miRNA) precursor mir-3102 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.55313 -4.13009 1600000 177455 208 104 1 -3.02220 0.71877 2020-09-01 20:21:04 2020-09-14 13:54:36 RF03207 mir-3960 1287 mir-3960 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 73.00 73.10 70.10 This family represents the microRNA (miRNA) precursor mir-3960 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 11 0 0 Gene; miRNA; Predicted; RNAalifold 11 0 \N 0.49488 -5.65931 1600000 302253 163 73 1 -2.85480 0.72220 2020-09-01 20:21:49 2020-09-14 13:54:36 RF03208 mir-1781 1287 mir-1781 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 68.00 68.10 65.40 This family represents the microRNA (miRNA) precursor mir-1781 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 45 0 0 Gene; miRNA; Predicted; RNAalifold 41 0 \N 0.60438 -3.74659 1600000 208470 181 86 1 -3.74850 0.71891 2020-09-01 20:22:14 2020-09-14 13:54:36 RF03209 MIR9657 1287 MIR9657 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 53.00 53.40 52.60 This family represents the microRNA (miRNA) precursor MIR9657 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 28 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.54581 -3.86503 1600000 220984 180 85 1 -3.44200 0.71895 2020-09-01 20:22:38 2020-11-05 15:43:19 RF03210 mir-7359 1287 mir-7359 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.50 50.80 This family represents the microRNA (miRNA) precursor mir-7359 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61015 -3.15216 1600000 220435 141 56 1 -3.31720 0.73021 2020-09-01 20:23:03 2020-11-05 15:43:19 RF03211 mir-666 1287 mir-666 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 109.10 36.80 This family represents the microRNA (miRNA) precursor mir-666 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.58308 -3.89846 1600000 203248 183 86 1 -3.07670 0.71891 2020-09-01 20:23:25 2020-09-14 13:54:36 RF03212 mir-2788 1287 mir-2788 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 62.00 62.30 55.10 This family represents the microRNA (miRNA) precursor mir-2788 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 27 0 0 Gene; miRNA; Predicted; RNAalifold 29 0 \N 0.69523 -1.69884 1600000 120739 188 92 1 -3.81120 0.71887 2020-09-01 20:23:51 2021-07-05 13:43:57 RF03213 mir-5885 1287 mir-5885 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 64.00 64.00 37.60 This family represents the microRNA (miRNA) precursor mir-5885 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 34 0 0 Gene; miRNA; Predicted; RNAalifold 11 0 \N 0.66329 -3.49701 1600000 196691 149 65 1 -3.84960 0.71930 2020-09-01 20:24:27 2020-11-05 15:43:19 RF03214 mir-769 1287 mir-769 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 57.00 57.50 56.80 This family represents the microRNA (miRNA) precursor mir-769 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 8 34 0 0 Gene; miRNA; Predicted; RNAalifold 27 0 \N 0.61157 -3.56588 1600000 164583 173 81 1 -3.61780 0.71903 2020-09-01 20:25:14 2021-07-05 13:43:57 RF03215 mir-5360 1287 mir-5360 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 79.00 79.10 65.10 This family represents the microRNA (miRNA) precursor mir-5360 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 16 0 0 Gene; miRNA; Predicted; RNAalifold 16 0 \N 0.64530 -2.86912 1600000 172722 174 81 1 -3.31340 0.71976 2020-09-01 20:25:56 2020-11-05 15:43:19 RF03216 mir-BART10 1287 mir-BART10 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 99.50 54.90 This family represents the microRNA (miRNA) precursor mir-BART10 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.54050 -4.89630 1600000 286487 173 80 1 -3.38810 0.72131 2020-09-01 20:26:54 2021-07-05 13:43:57 RF03217 mir-3167 1287 mir-3167 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 86.00 86.90 57.40 This family represents the microRNA (miRNA) precursor mir-3167 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.57259 -4.68659 1600000 313241 145 59 1 -3.05570 0.72797 2020-09-01 20:27:23 2020-11-05 15:43:19 RF03218 mir-3015 1287 mir-3015 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 59.00 59.00 58.90 This family represents the microRNA (miRNA) precursor mir-3015 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 79 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60252 -4.54130 1600000 294826 135 57 1 -2.70260 0.72263 2020-09-01 20:29:21 2020-11-05 15:43:19 RF03219 mir-602 1287 mir-602 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 95.60 81.00 This family represents the microRNA (miRNA) precursor mir-602 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.57948 -3.95131 1600000 195033 180 85 1 -2.93980 0.71902 2020-09-01 20:30:11 2021-07-05 13:43:57 RF03220 mir-2582 1287 mir-2582 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 68.00 68.70 52.30 This family represents the microRNA (miRNA) precursor mir-2582 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.63470 -2.70192 1600000 247475 173 80 1 -3.16980 0.72230 2020-09-01 20:30:40 2020-11-05 15:43:20 RF03221 mir-6715 1287 mir-6715 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 82.00 82.00 81.50 This family represents the microRNA (miRNA) precursor mir-6715 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 11 0 0 Gene; miRNA; Predicted; RNAalifold 11 0 \N 0.59095 -4.71399 1600000 318379 143 57 1 -3.04280 0.73047 2020-09-01 20:31:11 2020-09-14 13:54:37 RF03222 mir-4900 1287 mir-4900 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 61.60 54.70 This family represents the microRNA (miRNA) precursor mir-4900 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 16 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63486 -3.39752 1600000 175045 166 75 1 -3.28940 0.72673 2020-09-01 20:32:37 2020-11-05 15:43:20 RF03223 mir-2209 1287 mir-2209 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 89.50 47.00 This family represents the microRNA (miRNA) precursor mir-2209 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.65549 -3.16749 1600000 223671 151 63 1 -3.20820 0.72982 2020-09-01 20:33:03 2020-11-05 15:43:20 RF03224 MIR9560 1287 MIR9560 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 74.00 74.50 65.00 This family represents the microRNA (miRNA) precursor MIR9560 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 14 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.61520 -3.61891 1600000 210077 196 96 1 -2.87510 0.71873 2020-09-01 20:33:25 2021-07-05 13:43:57 RF03225 mir-2763 1287 mir-2763 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 50.00 50.90 49.90 This family represents the microRNA (miRNA) precursor mir-2763 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 6 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.65295 -2.48578 1600000 189565 176 83 1 -3.58910 0.71891 2020-09-01 20:33:44 2021-07-05 13:43:57 RF03226 mir-8196 1287 mir-8196 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 59.00 59.50 48.40 This family represents the microRNA (miRNA) precursor mir-8196 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.55693 -4.18436 1600000 279690 153 65 1 -3.19380 0.72499 2020-09-01 20:35:14 2020-11-05 15:43:20 RF03227 mir-2528 1287 mir-2528 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 102.00 102.40 92.30 This family represents the microRNA (miRNA) precursor mir-2528 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 115 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.64400 -2.82311 1600000 220703 227 118 1 -3.46580 0.71857 2020-09-01 20:35:34 2021-07-05 13:43:57 RF03228 mir-1471 1287 mir-1471 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 82.00 82.00 77.20 This family represents the microRNA (miRNA) precursor mir-1471 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 11 0 \N 0.63476 -3.35983 1600000 328314 143 57 1 -2.93120 0.72696 2020-09-01 20:36:08 2021-07-05 13:43:57 RF03229 mir-1297 1287 mir-1297 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 84.00 84.50 83.90 This family represents the microRNA (miRNA) precursor mir-1297 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 24 0 0 Gene; miRNA; Predicted; RNAalifold 25 0 \N 0.64267 -2.57462 1600000 207047 169 77 1 -3.32940 0.71891 2020-09-01 20:37:01 2021-07-05 13:43:57 RF03230 mir-967 1287 mir-967 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 116.00 51.30 This family represents the microRNA (miRNA) precursor mir-967 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.59738 -3.91001 1600000 211295 188 90 1 -3.33570 0.71883 2020-09-01 20:37:26 2020-09-14 13:54:38 RF03231 mir-4523 1287 mir-4523 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 96.00 96.10 95.60 This family represents the microRNA (miRNA) precursor mir-4523 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.50071 -5.38205 1600000 241038 159 69 1 -3.02510 0.72067 2020-09-01 20:37:48 2020-09-14 13:54:38 RF03232 mir-6526 1287 mir-6526 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 57.00 57.30 56.50 This family represents the microRNA (miRNA) precursor mir-6526 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 19 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61995 -3.73926 1600000 233653 172 79 1 -3.01410 0.71900 2020-09-01 20:38:09 2020-09-14 13:54:38 RF03233 hvt-mir-H16 1287 hvt-mir-H16 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 94.80 46.00 This family represents the microRNA (miRNA) precursor hvt-mir-H16 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64369 -3.50816 1600000 265838 152 64 1 -3.37450 0.72495 2020-09-01 20:38:59 2020-09-14 13:54:39 RF03234 mir-2813 1287 mir-2813 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 92.80 34.90 This family represents the microRNA (miRNA) precursor mir-2813 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60351 -3.13204 1600000 242876 156 67 1 -3.56730 0.72226 2020-09-01 20:39:22 2020-09-14 13:54:39 RF03235 mir-2543 1287 mir-2543 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 125.70 59.80 This family represents the microRNA (miRNA) precursor mir-2543 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 7 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.65844 -3.10752 1600000 225112 224 116 1 -3.49460 0.71854 2020-09-01 20:39:47 2021-07-05 13:43:57 RF03236 mir-1206 1287 mir-1206 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 70.10 59.30 This family represents the microRNA (miRNA) precursor mir-1206 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.63346 -4.31958 1600000 370405 144 58 1 -3.33180 0.72670 2020-09-01 20:40:15 2020-09-14 13:54:39 RF03237 MIR6425 1287 MIR6425 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 142.00 142.30 69.60 This family represents the microRNA (miRNA) precursor MIR6425 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 11 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.65731 -2.74583 1600000 157028 237 125 1 -3.34900 0.71854 2020-09-01 20:40:36 2020-11-05 15:43:21 RF03238 mir-1542 1287 mir-1542 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 100.30 43.80 This family represents the microRNA (miRNA) precursor mir-1542 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.64949 -2.94659 1600000 211148 163 72 1 -3.32820 0.72353 2020-09-01 20:40:57 2020-11-05 15:43:21 RF03239 mir-963 1287 mir-963 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 109.40 75.60 This family represents the microRNA (miRNA) precursor mir-963 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61669 -3.07934 1600000 224578 176 82 1 -3.77640 0.71893 2020-09-01 20:41:42 2020-09-14 13:54:40 RF03240 MIR5534 1287 MIR5534 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 79.00 79.40 78.90 This family represents the microRNA (miRNA) precursor MIR5534 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 64 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.58543 -4.42952 1600000 209541 204 102 1 -3.49890 0.71874 2020-09-01 20:42:02 2021-07-05 13:43:57 RF03241 mir-1789 1287 mir-1789 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 88.00 88.30 87.80 This family represents the microRNA (miRNA) precursor mir-1789 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 35 0 0 Gene; miRNA; Predicted; RNAalifold 35 0 \N 0.66107 -3.82261 1600000 329003 151 63 1 -3.24340 0.72529 2020-09-01 20:42:22 2020-09-14 13:54:40 RF03242 mir-1397 1287 mir-1397 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 102.00 51.90 This family represents the microRNA (miRNA) precursor mir-1397 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 55 0 0 Gene; miRNA; Predicted; RNAalifold 54 0 \N 0.65356 -2.81804 1600000 204060 179 84 1 -3.40190 0.71896 2020-09-01 20:42:49 2021-07-05 13:43:57 RF03243 mir-2731 1287 mir-2731 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 89.10 71.40 This family represents the microRNA (miRNA) precursor mir-2731 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66196 -2.46502 1600000 186003 190 91 1 -3.48240 0.71888 2020-09-01 20:43:38 2020-11-05 15:43:21 RF03244 mir-4798 1287 mir-4798 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 75.00 75.30 73.30 This family represents the microRNA (miRNA) precursor mir-4798 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.64646 -2.81528 1600000 233400 167 75 1 -3.77680 0.72076 2020-09-01 20:43:58 2021-07-05 13:43:57 RF03246 MIR1515 1287 MIR1515 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 140.00 161.00 88.60 This family represents the microRNA (miRNA) precursor MIR1515 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.60628 -4.94801 1600000 234947 252 137 1 -3.14760 0.71830 2020-09-01 20:44:49 2020-11-05 15:43:21 RF03247 mir-1324 1287 mir-1324 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 77.80 61.60 This family represents the microRNA (miRNA) precursor mir-1324 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 59 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.61334 -3.80831 1600000 220764 188 91 1 -3.25990 0.71874 2020-09-01 20:45:39 2021-07-05 13:43:57 RF03248 MIR9772 1287 MIR9772 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 64.00 64.30 61.60 This family represents the microRNA (miRNA) precursor MIR9772 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 19 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.56826 -4.26773 1600000 195474 190 92 1 -3.23830 0.71878 2020-09-01 20:47:23 2021-07-05 13:43:57 RF03249 mir-2114 1287 mir-2114 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 94.00 94.40 93.00 This family represents the microRNA (miRNA) precursor mir-2114 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 12 0 0 Gene; miRNA; Predicted; RNAalifold 12 0 \N 0.63695 -3.20310 1600000 197119 178 84 1 -3.41460 0.71889 2020-09-01 20:47:59 2020-09-14 13:54:41 RF03251 mir-4446 1287 mir-4446 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 79.00 79.40 65.40 This family represents the microRNA (miRNA) precursor mir-4446 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 9 0 0 Gene; miRNA; Predicted; RNAalifold 11 0 \N 0.63921 -3.29586 1600000 200632 176 82 1 -3.20320 0.71891 2020-09-01 20:49:01 2021-07-05 13:43:57 RF03252 mir-678 1287 mir-678 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 106.00 64.90 This family represents the microRNA (miRNA) precursor mir-678 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.56484 -4.37684 1600000 256564 171 78 1 -3.21920 0.71958 2020-09-01 20:49:35 2020-09-14 13:54:42 RF03253 mir-4654 1287 mir-4654 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 87.00 87.90 47.20 This family represents the microRNA (miRNA) precursor mir-4654 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.63406 -3.11116 1600000 238933 168 76 1 -3.83370 0.71907 2020-09-01 20:50:00 2020-11-05 15:43:22 RF03254 mir-9460 1287 mir-9460 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 85.00 85.20 79.70 This family represents the microRNA (miRNA) precursor mir-9460 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 53 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.67527 -3.20383 1600000 239233 156 68 1 -3.41390 0.71906 2020-09-01 20:50:25 2020-09-14 13:54:42 RF03255 mir-2188 1287 mir-2188 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 62.60 56.90 This family represents the microRNA (miRNA) precursor mir-2188 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 8 75 0 0 Gene; miRNA; Predicted; RNAalifold 73 0 \N 0.62719 -3.67894 1600000 209752 165 78 1 -3.57360 0.71900 2020-09-01 20:51:08 2021-07-05 13:43:57 RF03256 mir-1286 1287 mir-1286 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 80.60 50.50 This family represents the microRNA (miRNA) precursor mir-1286 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 9 0 0 Gene; miRNA; Predicted; RNAalifold 11 0 \N 0.64533 -3.50617 1600000 209437 168 76 1 -3.90600 0.71895 2020-09-01 20:52:48 2021-07-05 13:43:57 RF03257 mir-4427 1287 mir-4427 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 86.00 86.50 63.70 This family represents the microRNA (miRNA) precursor mir-4427 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.66571 -3.18174 1600000 273780 157 68 1 -3.51810 0.72243 2020-09-01 20:53:17 2021-07-05 13:43:57 RF03258 mir-4 1287 mir-4 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 104.10 62.80 This family represents the microRNA (miRNA) precursor mir-4 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 12 0 0 Gene; miRNA; Predicted; RNAalifold 15 0 \N 0.61147 -3.44310 1600000 210323 175 81 1 -3.46310 0.71886 2020-09-01 20:53:51 2021-07-05 13:43:57 RF03259 MIR1514 1287 MIR1514 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 118.80 75.90 This family represents the microRNA (miRNA) precursor MIR1514 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.58763 -2.97146 1600000 170011 213 109 1 -3.20390 0.71837 2020-09-01 20:54:32 2020-11-05 15:43:22 RF03260 mir-8229 1287 mir-8229 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 45.00 45.10 44.80 This family represents the microRNA (miRNA) precursor mir-8229 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62742 -4.68112 1600000 390644 145 59 1 -3.06700 0.73055 2020-09-01 20:54:54 2020-11-05 15:43:22 RF03261 mir-1759 1287 mir-1759 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 58.00 58.30 52.90 This family represents the microRNA (miRNA) precursor mir-1759 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 43 0 0 Gene; miRNA; Predicted; RNAalifold 43 0 \N 0.60716 -3.54808 1600000 227925 166 75 1 -3.52400 0.72191 2020-09-01 20:55:19 2020-11-05 15:43:22 RF03262 mir-1181 1287 mir-1181 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 97.20 91.50 This family represents the microRNA (miRNA) precursor mir-1181 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.58091 -4.11704 1600000 208133 175 81 1 -3.09460 0.71905 2020-09-01 20:55:44 2021-07-05 13:43:57 RF03263 MIR861 1287 MIR861 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 114.20 60.00 This family represents the microRNA (miRNA) precursor MIR861 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.58821 -3.87261 1600000 205973 215 110 1 -3.15850 0.71850 2020-09-01 20:56:11 2021-07-05 13:43:57 RF03264 MIR1024 1287 MIR1024 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 112.50 41.50 This family represents the microRNA (miRNA) precursor MIR1024 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.59199 -4.13073 1600000 185909 212 109 1 -2.92570 0.71863 2020-09-01 20:56:41 2020-09-14 13:54:42 RF03265 mir-1460 1287 mir-1460 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 74.00 79.90 73.70 This family represents the microRNA (miRNA) precursor mir-1460 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 44 0 0 Gene; miRNA; Predicted; RNAalifold 44 0 \N 0.53547 -4.90207 1600000 230823 190 91 1 -3.23560 0.71881 2020-09-01 20:57:11 2020-09-14 13:54:43 RF03266 mir-2943 1287 mir-2943 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 76.00 76.80 47.60 This family represents the microRNA (miRNA) precursor mir-2943 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 26 0 0 Gene; miRNA; Predicted; RNAalifold 21 0 \N 0.62566 -3.18573 1600000 268224 161 71 1 -2.81280 0.72519 2020-09-01 20:57:32 2020-09-14 13:54:43 RF03267 mir-645 1287 mir-645 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 100.50 83.50 This family represents the microRNA (miRNA) precursor mir-645 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.65180 -2.91493 1600000 203906 169 77 1 -3.56170 0.71912 2020-09-01 20:58:57 2021-07-05 13:43:57 RF03268 mir-1911 1287 mir-1911 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 88.00 88.00 87.50 This family represents the microRNA (miRNA) precursor mir-1911 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.64014 -4.06439 1600000 282288 145 59 1 -3.02210 0.72689 2020-09-01 20:59:34 2020-09-14 13:54:43 RF03269 mir-5697 1287 mir-5697 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 50.00 50.30 47.40 This family represents the microRNA (miRNA) precursor mir-5697 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.63263 -3.77940 1600000 310128 145 59 1 -3.19770 0.72871 2020-09-01 21:00:21 2020-11-05 15:43:23 RF03270 MIR3712 1287 MIR3712 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 94.00 94.70 75.10 This family represents the microRNA (miRNA) precursor MIR3712 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.64227 -3.46598 1600000 316663 153 65 1 -3.05240 0.72595 2020-09-01 21:00:40 2021-07-05 13:43:57 RF03271 mir-1247 1287 mir-1247 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 70.60 49.80 This family represents the microRNA (miRNA) precursor mir-1247 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 8 24 0 0 Gene; miRNA; Predicted; RNAalifold 25 0 \N 0.54569 -4.47636 1600000 209953 164 74 1 -3.55490 0.71914 2020-09-01 21:01:18 2021-07-05 13:43:57 RF03272 mir-2187 1287 mir-2187 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 67.00 67.00 41.10 This family represents the microRNA (miRNA) precursor mir-2187 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 23 0 0 Gene; miRNA; Predicted; RNAalifold 14 0 \N 0.58395 -3.74094 1600000 267635 149 62 1 -3.62590 0.72542 2020-09-01 21:03:12 2021-07-05 13:43:57 RF03274 mir-1238 1287 mir-1238 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 81.00 81.50 38.70 This family represents the microRNA (miRNA) precursor mir-1238 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.60017 -3.84540 1600000 232782 177 83 1 -3.16030 0.71899 2020-09-01 21:04:26 2021-07-05 13:43:57 RF03275 mir-2542 1287 mir-2542 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 74.60 49.90 This family represents the microRNA (miRNA) precursor mir-2542 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.65556 -2.46994 1600000 214689 181 85 1 -3.46160 0.71896 2020-09-01 21:04:51 2021-07-05 13:43:57 RF03276 mir-2232 1287 mir-2232 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 91.80 40.30 This family represents the microRNA (miRNA) precursor mir-2232 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63045 -3.40477 1600000 193298 186 90 1 -3.02710 0.72293 2020-09-01 21:05:36 2020-11-05 15:43:23 RF03277 mir-5886 1287 mir-5886 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 85.00 85.00 84.60 This family represents the microRNA (miRNA) precursor mir-5886 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 39 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63369 -2.28840 1600000 197975 186 89 1 -3.56730 0.71885 2020-09-01 21:05:55 2020-11-05 15:43:23 RF03278 mir-980 1287 mir-980 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 47.00 47.00 46.80 This family represents the microRNA (miRNA) precursor mir-980 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 74 0 0 Gene; miRNA; Predicted; RNAalifold 65 0 \N 0.69496 -2.52450 1600000 194049 166 80 1 -3.69920 0.71887 2020-09-01 21:06:26 2021-07-05 13:43:57 RF03279 mir-1193 1287 mir-1193 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 71.00 71.70 47.90 This family represents the microRNA (miRNA) precursor mir-1193 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 35 0 0 Gene; miRNA; Predicted; RNAalifold 38 0 \N 0.56333 -4.21016 1600000 241891 174 81 1 -3.83040 0.71903 2020-09-01 21:07:14 2021-07-05 13:43:57 RF03280 mir-7583 1287 mir-7583 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 48.00 48.60 39.30 This family represents the microRNA (miRNA) precursor mir-7583 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 15 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61375 -4.07812 1600000 300581 138 58 1 -3.42730 0.71940 2020-09-01 21:07:49 2020-09-14 13:54:44 RF03281 mir-596 1287 mir-596 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 96.00 72.60 This family represents the microRNA (miRNA) precursor mir-596 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.53333 -4.53846 1600000 256818 163 73 1 -3.24900 0.71909 2020-09-01 21:08:22 2021-07-05 13:43:57 RF03283 mir-1010 1287 mir-1010 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 78.90 40.90 This family represents the microRNA (miRNA) precursor mir-1010 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 12 0 0 Gene; miRNA; Predicted; RNAalifold 13 0 \N 0.68121 -2.54231 1600000 214573 191 93 1 -3.55450 0.71873 2020-09-01 21:09:26 2021-07-05 13:43:57 RF03284 mir-4637 1287 mir-4637 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 89.00 89.80 60.10 This family represents the microRNA (miRNA) precursor mir-4637 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.60779 -4.15544 1600000 281403 178 84 1 -3.40240 0.71885 2020-09-01 21:09:56 2021-07-05 13:43:57 RF03285 mir-564 1287 mir-564 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 87.00 50.80 This family represents the microRNA (miRNA) precursor mir-564 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 8 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.52310 -4.48092 1600000 195077 177 82 1 -3.13910 0.71893 2020-09-01 21:10:22 2021-07-05 13:43:57 RF03286 MIR6146 1287 MIR6146 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 59.00 59.70 53.10 This family represents the microRNA (miRNA) precursor MIR6146 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.66409 -2.95386 1600000 227599 167 75 1 -3.45660 0.72061 2020-09-01 21:10:45 2021-07-05 13:43:57 RF03287 mir-5904 1287 mir-5904 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 73.00 73.10 72.60 This family represents the microRNA (miRNA) precursor mir-5904 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 41 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.65583 -2.79099 1600000 223556 178 84 1 -3.48140 0.71898 2020-09-01 21:11:07 2020-09-14 13:54:44 RF03288 mir-3085 1287 mir-3085 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.60 80.60 42.80 This family represents the microRNA (miRNA) precursor mir-3085 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 35 0 0 Gene; miRNA; Predicted; RNAalifold 35 0 \N 0.51906 -4.79140 1600000 182647 187 89 1 -3.32770 0.71896 2020-09-01 21:11:48 2020-11-05 15:43:24 RF03289 mir-1205 1287 mir-1205 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 75.00 85.80 71.20 This family represents the microRNA (miRNA) precursor mir-1205 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.67273 -3.49318 1600000 257952 149 63 1 -3.43130 0.71924 2020-09-01 21:12:49 2021-07-05 13:43:57 RF03290 mir-9428 1287 mir-9428 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 81.00 81.60 80.60 This family represents the microRNA (miRNA) precursor mir-9428 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 51 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63509 -4.59809 1600000 313215 154 68 1 -3.55850 0.71906 2020-09-01 21:13:13 2020-11-05 15:43:24 RF03291 mir-591 1287 mir-591 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 85.50 42.60 This family represents the microRNA (miRNA) precursor mir-591 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.63320 -3.27846 1600000 213022 167 75 1 -3.28590 0.71906 2020-09-01 21:13:45 2021-07-05 13:43:57 RF03292 mir-1301 1287 mir-1301 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 63.00 63.00 56.10 This family represents the microRNA (miRNA) precursor mir-1301 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 7 25 0 0 Gene; miRNA; Predicted; RNAalifold 27 0 \N 0.57320 -4.05820 1600000 226247 173 80 1 -3.60120 0.71912 2020-09-01 21:14:22 2021-07-05 13:43:57 RF03293 mir-4672 1287 mir-4672 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 98.00 98.40 78.90 This family represents the microRNA (miRNA) precursor mir-4672 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.63300 -2.95354 1600000 226643 175 81 1 -3.49080 0.71906 2020-09-01 21:15:43 2021-07-05 13:43:57 RF03294 mir-H3 1287 mir-H3 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 94.40 54.80 This family represents the microRNA (miRNA) precursor mir-H3 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.48671 -5.60013 1600000 217932 175 81 1 -3.05840 0.72345 2020-09-01 21:16:49 2021-07-05 13:43:57 RF03295 mir-7594 1287 mir-7594 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 88.20 39.20 This family represents the microRNA (miRNA) precursor mir-7594 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64170 -3.79980 1600000 275421 151 63 1 -3.02940 0.72914 2020-09-01 21:17:10 2020-11-05 15:43:25 RF03296 MIR8788 1287 MIR8788 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 124.00 124.80 101.30 This family represents the microRNA (miRNA) precursor MIR8788 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.54107 -4.66106 1600000 180531 251 138 1 -3.04510 0.71834 2020-09-01 21:17:32 2021-07-05 13:43:57 RF03297 MIR1033 1287 MIR1033 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 90.90 64.60 This family represents the microRNA (miRNA) precursor MIR1033 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 5 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60425 -4.25511 1600000 193042 174 82 1 -3.80380 0.71904 2020-09-01 21:18:25 2020-09-14 13:54:45 RF03298 mir-4488 1287 mir-4488 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 71.00 71.90 53.60 This family represents the microRNA (miRNA) precursor mir-4488 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.47396 -6.87254 1600000 337090 149 62 1 -2.86260 0.72417 2020-09-01 21:18:58 2021-07-05 13:43:57 RF03299 mir-1000 1287 mir-1000 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 50.00 52.90 48.20 This family represents the microRNA (miRNA) precursor mir-1000 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 76 0 0 Gene; miRNA; Predicted; RNAalifold 76 0 \N 0.70492 -2.05357 1600000 170804 170 72 1 -3.73130 0.71905 2020-09-01 21:19:46 2021-07-05 13:43:57 RF03300 mir-3617 1287 mir-3617 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 107.00 107.30 97.00 This family represents the microRNA (miRNA) precursor mir-3617 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.63261 -3.37543 1600000 231803 172 79 1 -3.52640 0.71887 2020-09-01 21:20:48 2021-07-05 13:43:57 RF03301 mir-3154 1287 mir-3154 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 64.00 64.80 62.90 This family represents the microRNA (miRNA) precursor mir-3154 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 31 0 0 Gene; miRNA; Predicted; RNAalifold 32 0 \N 0.61740 -3.08793 1600000 199697 181 86 1 -3.57650 0.71897 2020-09-01 21:22:01 2021-07-05 13:43:57 RF03302 mir-6133 1287 mir-6133 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 79.00 79.60 54.00 This family represents the microRNA (miRNA) precursor mir-6133 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.59586 -3.67284 1600000 207929 208 104 1 -3.53750 0.71868 2020-09-01 21:22:40 2020-09-14 13:54:45 RF03303 mir-973 1287 mir-973 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 63.00 63.70 52.30 This family represents the microRNA (miRNA) precursor mir-973 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.61135 -3.04595 1600000 188950 178 84 1 -3.24020 0.72326 2020-09-01 21:23:17 2020-09-14 13:54:45 RF03304 mir-1744 1287 mir-1744 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 73.00 73.10 71.10 This family represents the microRNA (miRNA) precursor mir-1744 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 28 0 0 Gene; miRNA; Predicted; RNAalifold 28 0 \N 0.66384 -2.96017 1600000 192888 166 75 1 -3.37750 0.72270 2020-09-01 21:23:39 2020-11-05 15:43:25 RF03305 mir-3338 1287 mir-3338 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 95.20 53.30 This family represents the microRNA (miRNA) precursor mir-3338 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.63058 -3.02883 1600000 194348 177 84 1 -3.10970 0.71892 2020-09-01 21:25:20 2021-07-05 13:43:57 RF03306 mir-3923 1287 mir-3923 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 94.00 94.80 88.30 This family represents the microRNA (miRNA) precursor mir-3923 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.58419 -4.54978 1600000 275869 178 83 1 -3.56560 0.71897 2020-09-01 21:25:47 2021-07-05 13:43:57 RF03307 mir-1825 1287 mir-1825 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 77.60 67.30 This family represents the microRNA (miRNA) precursor mir-1825 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.63981 -4.30203 1600000 381125 136 52 1 -2.89660 0.73065 2020-09-01 21:26:28 2020-09-14 13:54:46 RF03308 MIR848 1287 MIR848 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 107.70 80.30 This family represents the microRNA (miRNA) precursor MIR848 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.68178 -1.85662 1600000 136682 197 97 1 -3.59690 0.71884 2020-09-01 21:26:50 2021-07-05 13:43:57 RF03309 mir-4791 1287 mir-4791 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 103.10 87.60 This family represents the microRNA (miRNA) precursor mir-4791 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.61799 -2.76121 1600000 186823 180 84 1 -3.66490 0.71885 2020-09-01 21:27:19 2021-07-05 13:43:57 RF03310 mir-1544 1287 mir-1544 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 46.00 46.50 39.40 This family represents the microRNA (miRNA) precursor mir-1544 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 20 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61499 -5.21264 1600000 295058 140 59 1 -3.62070 0.71924 2020-09-01 21:27:47 2020-11-05 15:43:26 RF03311 MIR169 1287 MIR169 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 83.90 70.10 This family represents the microRNA (miRNA) precursor MIR169 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 8 20 0 0 Gene; miRNA; Predicted; RNAalifold 17 0 \N 0.59991 -4.22391 1600000 183875 218 111 1 -3.13450 0.71856 2020-09-01 21:28:31 2021-07-05 13:43:57 RF03312 mir-880 1287 mir-880 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 105.40 73.50 This family represents the microRNA (miRNA) precursor mir-880 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.66141 -3.20894 1600000 235684 171 78 1 -3.39050 0.72054 2020-09-01 21:29:02 2020-09-14 13:54:46 RF03313 mir-1468 1287 mir-1468 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 96.40 93.50 This family represents the microRNA (miRNA) precursor mir-1468 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 7 21 0 0 Gene; miRNA; Predicted; RNAalifold 23 0 \N 0.60983 -3.78415 1600000 245993 181 86 1 -3.60230 0.71885 2020-09-01 21:29:55 2021-07-05 13:43:57 RF03314 mir-1908 1287 mir-1908 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 82.00 82.20 71.80 This family represents the microRNA (miRNA) precursor mir-1908 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.49393 -5.72162 1600000 260717 164 73 1 -2.89150 0.72043 2020-09-01 21:30:28 2021-07-05 13:43:57 RF03315 mir-723 1287 mir-723 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 63.00 63.00 62.80 This family represents the microRNA (miRNA) precursor mir-723 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 21 0 0 Gene; miRNA; Predicted; RNAalifold 13 0 \N 0.60507 -4.13974 1600000 285202 142 60 1 -3.44680 0.72059 2020-09-01 21:30:52 2020-09-14 13:54:46 RF03316 mir-1263 1287 mir-1263 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 101.50 88.00 This family represents the microRNA (miRNA) precursor mir-1263 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.58654 -4.26736 1600000 235549 179 84 1 -3.32610 0.71899 2020-09-01 21:31:18 2021-07-05 13:43:57 RF03317 mir-4874 1287 mir-4874 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 111.30 54.80 This family represents the microRNA (miRNA) precursor mir-4874 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.55464 -3.72385 1600000 146948 194 94 1 -3.26750 0.71888 2020-09-01 21:31:40 2021-07-05 13:43:57 RF03318 mir-2208 1287 mir-2208 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 91.00 44.20 This family represents the microRNA (miRNA) precursor mir-2208 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.65415 -3.49869 1600000 287688 148 61 1 -3.37040 0.72885 2020-09-01 21:32:16 2020-09-14 13:54:46 RF03319 mir-989 1287 mir-989 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 59.00 59.20 54.70 This family represents the microRNA (miRNA) precursor mir-989 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 49 0 0 Gene; miRNA; Predicted; RNAalifold 49 0 \N 0.68010 -3.01819 1600000 167871 728 119 1 -3.25640 0.71866 2020-09-01 21:32:42 2021-07-05 13:43:57 RF03320 mir-1743 1287 mir-1743 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 100.30 77.20 This family represents the microRNA (miRNA) precursor mir-1743 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 52 0 0 Gene; miRNA; Predicted; RNAalifold 52 0 \N 0.61730 -3.48915 1600000 230267 172 79 1 -3.17720 0.71892 2020-09-01 21:33:18 2020-09-14 13:54:46 RF03321 mir-1006 1287 mir-1006 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 64.00 64.80 42.00 This family represents the microRNA (miRNA) precursor mir-1006 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 11 0 0 Gene; miRNA; Predicted; RNAalifold 12 0 \N 0.59920 -3.30301 1600000 183820 170 78 1 -3.35780 0.71898 2020-09-01 21:33:41 2021-07-05 13:43:57 RF03322 mir-1641 1287 mir-1641 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 104.00 104.70 98.90 This family represents the microRNA (miRNA) precursor mir-1641 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 49 0 0 Gene; miRNA; Predicted; RNAalifold 48 0 \N 0.64847 -3.14486 1600000 211949 181 85 1 -3.16530 0.71890 2020-09-01 21:34:06 2020-11-05 15:43:27 RF03323 mir-3613 1287 mir-3613 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 91.00 91.20 59.10 This family represents the microRNA (miRNA) precursor mir-3613 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 32 0 0 Gene; miRNA; Predicted; RNAalifold 33 0 \N 0.64502 -3.37114 1600000 181146 182 86 1 -3.57080 0.71876 2020-09-01 21:34:42 2021-07-05 13:43:57 RF03324 mir-1288 1287 mir-1288 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 93.60 62.00 This family represents the microRNA (miRNA) precursor mir-1288 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.64940 -3.33886 1600000 245669 165 74 1 -3.51790 0.71982 2020-09-01 21:36:13 2020-11-05 15:43:27 RF03325 mir-4872 1287 mir-4872 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 58.00 58.10 53.00 This family represents the microRNA (miRNA) precursor mir-4872 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 35 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64558 -3.51055 1600000 233459 164 76 1 -3.56810 0.71913 2020-09-01 21:36:42 2020-11-05 15:43:27 RF03326 mir-312 1287 mir-312 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 55.00 60.50 46.50 This family represents the microRNA (miRNA) precursor mir-312 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 7 4 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.65139 -3.83813 1600000 251299 151 67 1 -3.56150 0.71916 2020-09-01 21:37:22 2021-07-05 13:43:57 RF03327 mir-1266 1287 mir-1266 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 86.00 58.80 This family represents the microRNA (miRNA) precursor mir-1266 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 9 0 0 Gene; miRNA; Predicted; RNAalifold 11 0 \N 0.58671 -4.34226 1600000 228018 177 82 1 -3.32880 0.71905 2020-09-01 21:38:04 2021-07-05 13:43:57 RF03328 mir-606 1287 mir-606 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 96.80 75.70 This family represents the microRNA (miRNA) precursor mir-606 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.65738 -2.76028 1600000 217171 179 84 1 -3.40600 0.71898 2020-09-01 21:38:42 2021-07-05 13:43:57 RF03329 mir-4743 1287 mir-4743 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 72.00 72.00 65.70 This family represents the microRNA (miRNA) precursor mir-4743 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 11 0 0 Gene; miRNA; Predicted; RNAalifold 12 0 \N 0.66067 -2.50901 1600000 156038 203 101 1 -3.10550 0.71884 2020-09-01 21:39:37 2021-07-05 13:43:57 RF03330 mir-750 1287 mir-750 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 64.20 57.20 This family represents the microRNA (miRNA) precursor mir-750 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 6 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.67075 -3.37481 1600000 226192 170 83 1 -3.52420 0.71898 2020-09-01 21:40:17 2021-07-05 13:43:57 RF03331 mir-247 1287 mir-247 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 102.60 53.50 This family represents the microRNA (miRNA) precursor mir-247 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.70228 -2.27179 1600000 202810 185 89 1 -3.23460 0.72374 2020-09-01 21:41:05 2020-09-14 13:54:47 RF03332 mir-2237 1287 mir-2237 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 70.70 50.40 This family represents the microRNA (miRNA) precursor mir-2237 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63131 -3.45721 1600000 232083 185 91 1 -2.96190 0.71885 2020-09-01 21:41:37 2020-09-14 13:54:47 RF03333 mir-2820 1287 mir-2820 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 84.00 84.10 82.20 This family represents the microRNA (miRNA) precursor mir-2820 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 33 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64902 -3.54808 1600000 228899 178 83 1 -3.57440 0.71890 2020-09-01 21:42:32 2020-11-05 15:43:28 RF03334 MIR391 1287 MIR391 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 86.50 64.30 This family represents the microRNA (miRNA) precursor MIR391 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 14 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.68675 -2.11889 1600000 211215 206 103 1 -3.34370 0.71871 2020-09-01 21:43:08 2021-07-05 13:43:57 RF03335 MIR2950 1287 MIR2950 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 76.00 76.60 71.90 This family represents the microRNA (miRNA) precursor MIR2950 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 16 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.64914 -3.51743 1600000 225401 211 108 1 -3.35290 0.71857 2020-09-01 21:43:43 2020-09-14 13:54:48 RF03336 mir-1322 1287 mir-1322 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 87.50 64.20 This family represents the microRNA (miRNA) precursor mir-1322 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.63476 -3.40357 1600000 274492 157 69 1 -3.77330 0.71900 2020-09-01 21:44:31 2021-07-05 13:43:57 RF03337 mir-6505 1287 mir-6505 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 96.00 96.90 65.10 This family represents the microRNA (miRNA) precursor mir-6505 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.65718 -3.32813 1600000 253431 157 68 1 -3.30670 0.72262 2020-09-01 21:47:02 2020-09-14 13:54:48 RF03338 MIR4416 1287 MIR4416 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 70.70 57.90 This family represents the microRNA (miRNA) precursor MIR4416 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 12 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.60072 -6.14723 1600000 216528 320 147 1 -3.12140 0.71809 2020-09-01 21:47:45 2020-11-05 15:43:28 RF03339 mir-3047 1287 mir-3047 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 53.00 53.50 49.50 This family represents the microRNA (miRNA) precursor mir-3047 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61673 -4.19847 1600000 303214 148 61 1 -3.18170 0.72687 2020-09-01 21:49:50 2020-09-14 13:54:48 RF03340 mir-6511 1287 mir-6511 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 87.00 87.40 68.80 This family represents the microRNA (miRNA) precursor mir-6511 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 17 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.53929 -5.24365 1600000 264331 155 67 1 -3.38700 0.71923 2020-09-01 21:50:45 2020-09-14 13:54:48 RF03341 mir-943 1287 mir-943 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 104.40 85.90 This family represents the microRNA (miRNA) precursor mir-943 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.57854 -3.47959 1600000 204045 199 98 1 -3.34810 0.71891 2020-09-01 21:51:19 2021-07-05 13:43:57 RF03342 mir-1467 1287 mir-1467 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.30 65.50 This family represents the microRNA (miRNA) precursor mir-1467 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 47 0 0 Gene; miRNA; Predicted; RNAalifold 47 0 \N 0.60314 -3.27469 1600000 161669 192 93 1 -3.31580 0.71884 2020-09-01 21:52:28 2020-09-14 13:54:48 RF03343 mir-3347 1287 mir-3347 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 124.00 124.10 80.30 This family represents the microRNA (miRNA) precursor mir-3347 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.67818 -2.47932 1600000 183302 210 106 1 -3.50250 0.71850 2020-09-01 21:53:06 2020-11-05 15:43:28 RF03344 mir-5365 1287 mir-5365 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 103.50 58.60 This family represents the microRNA (miRNA) precursor mir-5365 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.65758 -2.83894 1600000 232622 170 78 1 -3.42970 0.71915 2020-09-01 21:53:40 2020-11-05 15:43:28 RF03345 MIR3444 1287 MIR3444 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 96.50 77.40 This family represents the microRNA (miRNA) precursor MIR3444 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.60931 -3.77115 1600000 147495 203 103 1 -3.17010 0.71879 2020-09-01 21:54:15 2021-07-05 13:43:57 RF03346 mir-881 1287 mir-881 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 104.00 57.70 This family represents the microRNA (miRNA) precursor mir-881 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.62045 -2.82918 1600000 209958 170 78 1 -3.30020 0.72045 2020-09-01 21:54:47 2020-11-05 15:43:29 RF03347 mir-2816 1287 mir-2816 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 49.00 49.50 39.50 This family represents the microRNA (miRNA) precursor mir-2816 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 53 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.67015 -2.52465 1600000 201284 165 74 1 -3.68700 0.71897 2020-09-01 21:55:14 2020-11-05 15:43:29 RF03348 mir-667 1287 mir-667 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 119.50 40.40 This family represents the microRNA (miRNA) precursor mir-667 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.59494 -3.43093 1600000 205153 191 92 1 -3.34820 0.71874 2020-09-01 21:55:41 2020-11-05 15:43:29 RF03349 mir-3151 1287 mir-3151 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 83.00 83.40 69.00 This family represents the microRNA (miRNA) precursor mir-3151 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 6 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.52987 -5.20688 1600000 206499 180 85 1 -3.04620 0.71903 2020-09-01 21:56:11 2021-07-05 13:43:57 RF03350 mir-3851 1287 mir-3851 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 106.00 106.40 83.20 This family represents the microRNA (miRNA) precursor mir-3851 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 6 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62135 -1.37858 1600000 144341 192 94 1 -3.78360 0.71874 2020-09-01 21:57:20 2020-09-14 13:54:49 RF03351 MIR6020 1287 MIR6020 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 118.00 118.50 71.90 This family represents the microRNA (miRNA) precursor MIR6020 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63799 -2.98384 1600000 217917 214 110 1 -3.23840 0.71858 2020-09-01 21:57:47 2021-07-05 13:43:57 RF03352 mir-4869 1287 mir-4869 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 106.40 44.90 This family represents the microRNA (miRNA) precursor mir-4869 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.66211 -2.91883 1600000 221309 171 78 1 -3.67420 0.71973 2020-09-01 21:58:13 2021-07-05 13:43:57 RF03353 MIR5291 1287 MIR5291 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 54.00 54.30 53.50 This family represents the microRNA (miRNA) precursor MIR5291 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 42 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.58713 -3.34209 1600000 259003 151 65 1 -3.98930 0.71919 2020-09-01 21:58:44 2020-11-05 15:43:29 RF03354 mir-459 1287 mir-459 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 62.00 62.60 42.10 This family represents the microRNA (miRNA) precursor mir-459 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 12 0 0 Gene; miRNA; Predicted; RNAalifold 12 0 \N 0.65394 -3.94149 1600000 176811 170 81 1 -3.64490 0.71898 2020-09-01 21:59:19 2021-07-05 13:43:57 RF03355 mir-2008 1287 mir-2008 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 93.00 93.00 63.20 This family represents the microRNA (miRNA) precursor mir-2008 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 1 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.64236 -3.13719 1600000 198382 178 85 1 -3.81990 0.71891 2020-09-01 21:59:56 2021-07-05 13:43:57 RF03356 mir-4782 1287 mir-4782 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 108.90 92.10 This family represents the microRNA (miRNA) precursor mir-4782 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.57988 -4.49495 1600000 254643 172 79 1 -3.84100 0.71904 2020-09-01 22:00:26 2021-07-05 13:43:57 RF03357 mir-1842 1287 mir-1842 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 81.00 84.10 80.60 This family represents the microRNA (miRNA) precursor mir-1842 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 14 0 0 Gene; miRNA; Predicted; RNAalifold 15 0 \N 0.57477 -5.36951 1600000 297162 144 60 1 -3.71520 0.71931 2020-09-01 22:00:56 2021-07-05 13:43:57 RF03358 mir-634 1287 mir-634 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 105.60 39.20 This family represents the microRNA (miRNA) precursor mir-634 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.63248 -2.50491 1600000 155939 185 88 1 -3.29540 0.71884 2020-09-01 22:01:26 2021-07-05 13:43:57 RF03359 mir-1729 1287 mir-1729 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 92.10 79.80 This family represents the microRNA (miRNA) precursor mir-1729 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 48 0 0 Gene; miRNA; Predicted; RNAalifold 47 0 \N 0.66340 -3.22803 1600000 268849 161 71 1 -3.34260 0.72304 2020-09-01 22:01:49 2020-09-14 13:54:49 RF03360 mir-3156 1287 mir-3156 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 76.00 76.50 71.20 This family represents the microRNA (miRNA) precursor mir-3156 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 20 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.61746 -3.45434 1600000 198138 169 77 1 -3.62290 0.71912 2020-09-01 22:02:17 2020-09-14 13:54:49 RF03361 mir-3136 1287 mir-3136 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 86.00 86.40 62.80 This family represents the microRNA (miRNA) precursor mir-3136 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.66114 -2.44801 1600000 225232 171 78 1 -3.76830 0.71912 2020-09-01 22:03:04 2020-09-14 13:54:49 RF03362 mir-9436 1287 mir-9436 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.10 79.80 This family represents the microRNA (miRNA) precursor mir-9436 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 26 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.65026 -2.99885 1600000 251009 155 66 1 -3.23410 0.72514 2020-09-01 22:03:41 2020-09-14 13:54:50 RF03363 mir-6129 1287 mir-6129 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 114.00 114.00 96.50 This family represents the microRNA (miRNA) precursor mir-6129 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.64026 -2.74701 1600000 214773 191 92 1 -3.34400 0.71875 2020-09-01 22:04:17 2020-11-05 15:43:30 RF03364 mir-427 1287 mir-427 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 77.20 65.20 This family represents the microRNA (miRNA) precursor mir-427 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 64 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.60664 -4.48870 1600000 301647 159 69 1 -3.65920 0.72159 2020-09-01 22:04:51 2020-11-05 15:43:30 RF03365 mir-1236 1287 mir-1236 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 115.00 120.70 113.30 This family represents the microRNA (miRNA) precursor mir-1236 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 10 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.57264 -4.58972 1600000 227404 205 102 1 -3.09220 0.71868 2020-09-01 22:05:20 2021-07-05 13:43:57 RF03366 mir-3122 1287 mir-3122 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 92.00 92.50 79.40 This family represents the microRNA (miRNA) precursor mir-3122 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.58107 -4.40711 1600000 280429 164 73 1 -3.34800 0.72143 2020-09-01 22:06:51 2020-11-05 15:43:30 RF03367 mir-975 1287 mir-975 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 109.00 70.20 This family represents the microRNA (miRNA) precursor mir-975 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61519 -2.61066 1600000 157417 189 91 1 -3.25960 0.71888 2020-09-01 22:08:38 2020-09-14 13:54:50 RF03368 mir-1822 1287 mir-1822 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 73.00 73.00 56.80 This family represents the microRNA (miRNA) precursor mir-1822 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 6 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.65135 -3.90919 1600000 320847 141 61 1 -3.41100 0.71931 2020-09-01 22:09:09 2020-11-05 15:43:30 RF03369 mir-2217 1287 mir-2217 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 69.50 40.50 This family represents the microRNA (miRNA) precursor mir-2217 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 11 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62794 -4.35675 1600000 266722 146 62 1 -3.67270 0.71931 2020-09-01 22:09:44 2020-11-05 15:43:30 RF03370 mir-2566 1287 mir-2566 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 86.00 86.80 55.40 This family represents the microRNA (miRNA) precursor mir-2566 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 17 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.60887 -3.11957 1600000 232700 177 83 1 -3.68100 0.71899 2020-09-01 22:10:16 2021-07-05 13:43:57 RF03371 mir-4788 1287 mir-4788 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 91.00 91.30 72.90 This family represents the microRNA (miRNA) precursor mir-4788 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.59016 -4.02540 1600000 239223 174 80 1 -3.70070 0.71908 2020-09-01 22:10:51 2021-07-05 13:43:57 RF03372 mir-5918 1287 mir-5918 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 69.00 69.30 57.20 This family represents the microRNA (miRNA) precursor mir-5918 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 11 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.59133 -3.76701 1600000 196211 176 85 1 -3.44260 0.71903 2020-09-01 22:11:37 2020-09-14 13:54:50 RF03373 mir-3170 1287 mir-3170 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 98.00 98.10 63.10 This family represents the microRNA (miRNA) precursor mir-3170 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.66252 -2.96681 1600000 260722 170 77 1 -3.47740 0.71904 2020-09-01 22:12:06 2021-07-05 13:43:57 RF03374 mir-2001 1287 mir-2001 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 74.00 74.60 54.40 This family represents the microRNA (miRNA) precursor mir-2001 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 2 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.67388 -3.20969 1600000 241710 155 72 1 -3.59680 0.71918 2020-09-01 22:12:35 2021-07-05 13:43:57 RF03375 MIR1094 1287 MIR1094 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 112.40 69.10 This family represents the microRNA (miRNA) precursor MIR1094 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 7 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63081 -3.44349 1600000 152193 207 104 1 -3.48700 0.71867 2020-09-01 22:13:22 2020-09-14 13:54:51 RF03376 mir-3075 1287 mir-3075 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 91.00 91.20 42.00 This family represents the microRNA (miRNA) precursor mir-3075 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.61616 -3.34152 1600000 204811 181 85 1 -3.32610 0.71892 2020-09-01 22:13:51 2020-11-05 15:43:31 RF03377 mir-960 1287 mir-960 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 114.10 84.70 This family represents the microRNA (miRNA) precursor mir-960 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63715 -2.85645 1600000 209730 192 93 1 -3.73140 0.71874 2020-09-01 22:14:19 2020-11-05 15:43:31 RF03378 mir-7398 1287 mir-7398 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 44.00 44.20 41.40 This family represents the microRNA (miRNA) precursor mir-7398 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 23 59 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.60721 -4.81748 1600000 316863 129 60 1 -3.76810 0.71935 2020-09-01 22:15:22 2020-09-14 13:54:51 RF03379 mir-4667 1287 mir-4667 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 68.00 68.00 66.40 This family represents the microRNA (miRNA) precursor mir-4667 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 15 0 0 Gene; miRNA; Predicted; RNAalifold 17 0 \N 0.56010 -4.15752 1600000 161507 191 93 1 -3.32470 0.71883 2020-09-01 22:16:36 2021-07-05 13:43:57 RF03380 mir-9441 1287 mir-9441 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 91.00 91.20 56.40 This family represents the microRNA (miRNA) precursor mir-9441 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.59963 -4.88458 1600000 258148 157 68 1 -3.25370 0.72273 2020-09-01 22:17:20 2020-11-05 15:43:31 RF03381 mir-2796 1287 mir-2796 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 72.00 72.40 71.80 This family represents the microRNA (miRNA) precursor mir-2796 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 54 0 0 Gene; miRNA; Predicted; RNAalifold 55 0 \N 0.66337 -2.88353 1600000 125315 164 77 1 -3.81760 0.71907 2020-09-01 22:18:25 2021-07-05 13:43:57 RF03382 mir-635 1287 mir-635 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 112.70 89.30 This family represents the microRNA (miRNA) precursor mir-635 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.67561 -2.48134 1600000 180084 191 92 1 -3.37610 0.71876 2020-09-01 22:19:02 2020-09-14 13:54:51 RF03383 mir-1976 1287 mir-1976 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 71.00 71.40 53.10 This family represents the microRNA (miRNA) precursor mir-1976 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.62763 -4.54559 1600000 358585 136 52 1 -2.69830 0.73099 2020-09-01 22:19:37 2021-07-05 13:43:57 RF03384 mir-7180 1287 mir-7180 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 78.00 78.40 59.60 This family represents the microRNA (miRNA) precursor mir-7180 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 19 0 0 Gene; miRNA; Predicted; RNAalifold 19 0 \N 0.66405 -3.81300 1600000 313646 144 58 1 -2.92710 0.72853 2020-09-01 22:20:17 2020-09-14 13:54:51 RF03385 mir-614 1287 mir-614 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 97.30 81.10 This family represents the microRNA (miRNA) precursor mir-614 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.54413 -4.67012 1600000 259508 174 80 1 -3.39780 0.71904 2020-09-01 22:20:46 2021-07-05 13:43:57 RF03386 mir-1994 1287 mir-1994 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 47.00 47.20 39.00 This family represents the microRNA (miRNA) precursor mir-1994 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 7 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.59666 -4.81000 1600000 211446 183 66 1 -3.57180 0.72336 2020-09-01 22:21:18 2021-07-05 13:43:57 RF03387 mir-1902 1287 mir-1902 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 82.50 78.60 This family represents the microRNA (miRNA) precursor mir-1902 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 37 0 0 Gene; miRNA; Predicted; RNAalifold 36 0 \N 0.64100 -3.10836 1600000 250861 172 79 1 -3.54730 0.71950 2020-09-01 22:22:02 2020-09-14 13:54:51 RF03388 mir-9418 1287 mir-9418 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 82.00 82.20 37.80 This family represents the microRNA (miRNA) precursor mir-9418 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.55536 -5.28693 1600000 285243 148 61 1 -2.99920 0.72990 2020-09-01 22:22:27 2020-09-14 13:54:52 RF03389 mir-4738 1287 mir-4738 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 81.00 81.00 66.00 This family represents the microRNA (miRNA) precursor mir-4738 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.62280 -3.16295 1600000 224626 184 87 1 -3.34500 0.71902 2020-09-01 22:22:51 2021-07-05 13:43:57 RF03390 mir-2450 1287 mir-2450 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 59.00 59.10 43.90 This family represents the microRNA (miRNA) precursor mir-2450 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 13 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.58712 -4.87969 1600000 268014 162 73 1 -3.34240 0.71915 2020-09-01 22:23:21 2020-09-14 13:54:52 RF03391 mir-588 1287 mir-588 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 108.20 59.80 This family represents the microRNA (miRNA) precursor mir-588 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.61324 -3.48216 1600000 236366 175 81 1 -3.48730 0.71898 2020-09-01 22:23:50 2021-07-05 13:43:57 RF03392 mir-3943 1287 mir-3943 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 69.00 69.10 51.40 This family represents the microRNA (miRNA) precursor mir-3943 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 10 0 0 Gene; miRNA; Predicted; RNAalifold 12 0 \N 0.48889 -5.56693 1600000 241565 180 84 1 -2.90720 0.71896 2020-09-01 22:24:18 2021-07-05 13:43:57 RF03393 mir-2849 1287 mir-2849 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 117.30 96.40 This family represents the microRNA (miRNA) precursor mir-2849 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.69011 -2.29433 1600000 169181 198 97 1 -2.99720 0.71864 2020-09-01 22:24:50 2020-11-05 15:43:32 RF03394 mir-2574 1287 mir-2574 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.00 86.90 This family represents the microRNA (miRNA) precursor mir-2574 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 14 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.65704 -3.22932 1600000 278495 157 68 1 -3.27890 0.72547 2020-09-01 22:25:42 2021-07-05 13:43:57 RF03395 mir-718 1287 mir-718 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 55.00 55.00 43.50 This family represents the microRNA (miRNA) precursor mir-718 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 16 0 0 Gene; miRNA; Predicted; RNAalifold 16 0 \N 0.50812 -5.05800 1600000 269429 152 66 1 -3.22810 0.71937 2020-09-01 22:26:17 2020-09-14 13:54:52 RF03396 mir-2814 1287 mir-2814 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.80 76.70 This family represents the microRNA (miRNA) precursor mir-2814 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 18 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.64064 -2.66488 1600000 221323 182 87 1 -3.69670 0.71892 2020-09-01 22:26:43 2020-09-14 13:54:52 RF03397 mir-1234 1287 mir-1234 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 74.00 58.60 This family represents the microRNA (miRNA) precursor mir-1234 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.52766 -5.87971 1600000 321685 143 57 1 -2.71770 0.72890 2020-09-01 22:27:16 2020-09-14 13:54:52 RF03398 mir-3552 1287 mir-3552 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 120.00 124.80 117.80 This family represents the microRNA (miRNA) precursor mir-3552 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.66735 -2.29602 1600000 208751 209 105 1 -3.49380 0.71859 2020-09-01 22:28:44 2020-09-14 13:54:52 RF03399 mir-986 1287 mir-986 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 94.90 63.90 This family represents the microRNA (miRNA) precursor mir-986 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 6 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.69830 -2.08458 1600000 194418 191 94 1 -3.10440 0.71877 2020-09-01 22:29:06 2021-07-05 13:43:57 RF03400 mir-728 1287 mir-728 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 70.80 69.10 This family represents the microRNA (miRNA) precursor mir-728 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 25 0 0 Gene; miRNA; Predicted; RNAalifold 15 0 \N 0.58220 -3.76658 1600000 240457 144 62 1 -3.64560 0.71926 2020-09-01 22:31:14 2021-07-05 13:43:57 RF03401 mir-1323 1287 mir-1323 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 98.00 98.10 78.00 This family represents the microRNA (miRNA) precursor mir-1323 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.66197 -3.01847 1600000 197962 164 73 1 -3.54500 0.71908 2020-09-01 22:31:52 2021-07-05 13:43:57 RF03402 mir-957 1287 mir-957 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 66.00 66.40 46.70 This family represents the microRNA (miRNA) precursor mir-957 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 7 43 0 0 Gene; miRNA; Predicted; RNAalifold 43 0 \N 0.63830 -3.83299 1600000 172328 165 77 1 -3.82190 0.71898 2020-09-01 22:32:23 2021-07-05 13:43:57 RF03403 mir-5366 1287 mir-5366 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 73.00 73.60 67.10 This family represents the microRNA (miRNA) precursor mir-5366 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 15 0 0 Gene; miRNA; Predicted; RNAalifold 14 0 \N 0.63786 -3.92461 1600000 216602 161 71 1 -3.22030 0.72509 2020-09-01 22:32:56 2020-11-05 15:43:33 RF03404 mir-1298 1287 mir-1298 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 91.00 63.40 This family represents the microRNA (miRNA) precursor mir-1298 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 9 36 0 0 Gene; miRNA; Predicted; RNAalifold 37 0 \N 0.62907 -3.01019 1600000 165753 206 104 1 -3.17290 0.71864 2020-09-01 22:33:49 2021-07-05 13:43:57 RF03405 mir-3200 1287 mir-3200 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 79.00 79.30 71.00 This family represents the microRNA (miRNA) precursor mir-3200 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 15 0 0 Gene; miRNA; Predicted; RNAalifold 15 0 \N 0.56245 -3.66484 1600000 181244 191 92 1 -3.40570 0.71897 2020-09-01 22:34:33 2020-09-14 13:54:53 RF03406 mir-3099 1287 mir-3099 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 95.90 67.50 This family represents the microRNA (miRNA) precursor mir-3099 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.62040 -3.74540 1600000 226077 179 84 1 -3.39640 0.71889 2020-09-01 22:35:35 2020-09-14 13:54:53 RF03407 MIR531 1287 MIR531 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 73.80 68.60 This family represents the microRNA (miRNA) precursor MIR531 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 49 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.59377 -3.92664 1600000 244077 159 69 1 -3.31650 0.72143 2020-09-01 22:36:35 2021-07-05 13:43:57 RF03408 mir-5890 1287 mir-5890 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 54.00 54.10 53.90 This family represents the microRNA (miRNA) precursor mir-5890 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 123 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.66072 -3.44787 1600000 183509 169 78 1 -3.71900 0.71899 2020-09-01 22:37:04 2020-09-14 13:54:53 RF03409 mir-646 1287 mir-646 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 103.30 56.10 This family represents the microRNA (miRNA) precursor mir-646 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.58745 -3.84566 1600000 204728 182 86 1 -3.47620 0.71888 2020-09-01 22:38:08 2021-07-05 13:43:57 RF03410 mir-1891 1287 mir-1891 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 99.90 61.50 This family represents the microRNA (miRNA) precursor mir-1891 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 23 0 0 Gene; miRNA; Predicted; RNAalifold 22 0 \N 0.65019 -2.90272 1600000 220966 183 87 1 -3.43630 0.71887 2020-09-01 22:38:39 2020-09-14 13:54:53 RF03411 mir-2856 1287 mir-2856 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 67.90 59.40 This family represents the microRNA (miRNA) precursor mir-2856 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 26 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.67364 -1.82597 1600000 187113 184 87 1 -3.63620 0.71884 2020-09-01 22:41:21 2020-09-14 13:54:53 RF03412 mir-1915 1287 mir-1915 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 95.60 81.00 This family represents the microRNA (miRNA) precursor mir-1915 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.52132 -5.10371 1600000 261450 164 73 1 -3.15300 0.71984 2020-09-01 22:41:43 2021-07-05 13:43:57 RF03413 MIR904 1287 MIR904 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 152.10 69.80 This family represents the microRNA (miRNA) precursor MIR904 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62377 -3.92430 1600000 203967 257 141 1 -3.03340 0.71836 2020-09-01 22:42:04 2020-11-05 15:43:33 RF03414 mir-670 1287 mir-670 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 95.50 84.10 This family represents the microRNA (miRNA) precursor mir-670 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 35 0 0 Gene; miRNA; Predicted; RNAalifold 35 0 \N 0.59556 -3.68464 1600000 223318 187 90 1 -3.37040 0.71893 2020-09-01 22:43:28 2020-11-05 15:43:34 RF03416 mir-7383 1287 mir-7383 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 88.00 88.80 38.90 This family represents the microRNA (miRNA) precursor mir-7383 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 8 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.65263 -3.63867 1600000 279810 142 59 1 -3.84720 0.71926 2020-09-01 22:45:19 2020-11-05 15:43:34 RF03417 mir-343 1287 mir-343 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 94.50 47.00 This family represents the microRNA (miRNA) precursor mir-343 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.67088 -3.24655 1600000 234113 160 70 1 -3.03800 0.72216 2020-09-01 22:45:40 2020-11-05 15:43:34 RF03418 mir-3198 1287 mir-3198 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 91.00 91.50 67.60 This family represents the microRNA (miRNA) precursor mir-3198 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 17 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.59485 -4.10920 1600000 252090 174 80 1 -3.65800 0.71899 2020-09-01 22:46:10 2020-09-14 13:54:54 RF03419 mir-998 1287 mir-998 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 52.00 52.30 51.60 This family represents the microRNA (miRNA) precursor mir-998 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 46 0 0 Gene; miRNA; Predicted; RNAalifold 48 0 \N 0.64729 -2.74616 1600000 134805 561 91 1 -3.90210 0.71877 2020-09-01 22:46:36 2022-10-29 16:42:07 RF03420 mir-1200 1287 mir-1200 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 71.00 71.10 52.80 This family represents the microRNA (miRNA) precursor mir-1200 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 11 0 \N 0.66419 -3.01553 1600000 235432 168 76 1 -3.20110 0.71905 2020-09-01 22:47:08 2021-07-05 13:43:57 RF03421 mir-2558 1287 mir-2558 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 92.80 40.60 This family represents the microRNA (miRNA) precursor mir-2558 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.60264 -4.23426 1600000 229441 179 84 1 -3.06210 0.71874 2020-09-01 22:48:04 2021-07-05 13:43:57 RF03422 mir-637 1287 mir-637 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 71.00 74.30 70.10 This family represents the microRNA (miRNA) precursor mir-637 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.62018 -3.33022 1600000 178546 188 90 1 -3.11470 0.71886 2020-09-01 22:48:23 2021-07-05 13:43:57 RF03423 mir-962 1287 mir-962 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 115.30 54.90 This family represents the microRNA (miRNA) precursor mir-962 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63267 -2.92465 1600000 170148 190 92 1 -3.64300 0.71872 2020-09-01 22:48:43 2020-09-14 13:54:54 RF03424 mir-4856 1287 mir-4856 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 108.00 50.10 This family represents the microRNA (miRNA) precursor mir-4856 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61891 -2.93096 1600000 184952 179 84 1 -3.30200 0.71896 2020-09-01 22:49:32 2021-07-05 13:43:57 RF03425 mir-1292 1287 mir-1292 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 92.90 88.90 This family represents the microRNA (miRNA) precursor mir-1292 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.55146 -5.02029 1600000 312977 153 66 1 -3.54250 0.71933 2020-09-01 22:51:19 2021-07-05 13:43:57 RF03426 mir-1294 1287 mir-1294 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 114.40 75.40 This family represents the microRNA (miRNA) precursor mir-1294 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.69286 -2.10983 1600000 166901 227 118 1 -3.19200 0.71866 2020-09-01 22:51:45 2020-11-05 15:43:34 RF03427 mir-1005 1287 mir-1005 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 90.40 65.80 This family represents the microRNA (miRNA) precursor mir-1005 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.64072 -3.81260 1600000 295319 148 61 1 -3.34440 0.72662 2020-09-01 22:52:09 2020-09-14 13:54:54 RF03428 mir-6134 1287 mir-6134 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 109.00 109.90 97.50 This family represents the microRNA (miRNA) precursor mir-6134 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 8 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.63977 -3.03338 1600000 196380 183 87 1 -3.55070 0.71877 2020-09-01 22:52:32 2020-11-05 15:43:35 RF03429 mir-4451 1287 mir-4451 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 101.30 81.70 This family represents the microRNA (miRNA) precursor mir-4451 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.62038 -4.10242 1600000 247866 155 66 1 -3.50420 0.72325 2020-09-01 22:52:56 2021-07-05 13:43:57 RF03430 MIR5294 1287 MIR5294 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 115.00 115.10 114.90 This family represents the microRNA (miRNA) precursor MIR5294 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 31 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.68500 -2.59877 1600000 201084 216 111 1 -3.42330 0.71842 2020-09-01 22:53:20 2020-09-14 13:54:54 RF03431 mir-4657 1287 mir-4657 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 73.00 73.20 57.80 This family represents the microRNA (miRNA) precursor mir-4657 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 35 0 0 Gene; miRNA; Predicted; RNAalifold 35 0 \N 0.66990 -3.22901 1600000 354622 137 53 1 -3.09600 0.72924 2020-09-01 22:53:47 2020-11-05 15:43:35 RF03432 mir-7331 1287 mir-7331 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 100.20 55.40 This family represents the microRNA (miRNA) precursor mir-7331 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.65547 -3.31860 1600000 241319 157 68 1 -3.47080 0.72404 2020-09-01 22:54:06 2020-11-05 15:43:35 RF03433 mir-2576 1287 mir-2576 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 83.00 83.30 80.70 This family represents the microRNA (miRNA) precursor mir-2576 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 61 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.51001 -4.84265 1600000 196250 230 120 1 -2.83390 0.71857 2020-09-01 22:54:31 2021-07-05 13:43:57 RF03434 mir-1246 1287 mir-1246 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 98.10 61.10 This family represents the microRNA (miRNA) precursor mir-1246 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.65687 -2.63679 1600000 218157 163 73 1 -3.42830 0.71897 2020-09-01 22:54:59 2021-07-05 13:43:57 RF03435 mir-726 1287 mir-726 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 76.00 76.30 64.50 This family represents the microRNA (miRNA) precursor mir-726 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 16 0 0 Gene; miRNA; Predicted; RNAalifold 16 0 \N 0.64249 -2.70881 1600000 166816 182 87 1 -3.55650 0.72269 2020-09-01 22:55:22 2020-09-14 13:54:55 RF03436 mir-759 1287 mir-759 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 100.30 91.50 This family represents the microRNA (miRNA) precursor mir-759 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 8 38 0 0 Gene; miRNA; Predicted; RNAalifold 38 0 \N 0.60142 -2.82714 1600000 219490 186 89 1 -3.43920 0.71884 2020-09-01 22:56:00 2020-11-05 15:43:35 RF03437 mir-2392 1287 mir-2392 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.30 42.30 This family represents the microRNA (miRNA) precursor mir-2392 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.59168 -3.65437 1600000 198786 180 84 1 -3.11160 0.71893 2020-09-01 22:56:41 2020-11-05 15:43:35 RF03438 mir-1956 1287 mir-1956 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 95.60 81.30 This family represents the microRNA (miRNA) precursor mir-1956 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.58360 -4.55815 1600000 270979 153 65 1 -3.04920 0.72275 2020-09-01 22:57:04 2020-09-14 13:54:55 RF03439 mir-1791 1287 mir-1791 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 75.00 75.30 53.90 This family represents the microRNA (miRNA) precursor mir-1791 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 50 0 0 Gene; miRNA; Predicted; RNAalifold 50 0 \N 0.63687 -3.44050 1600000 219064 173 80 1 -3.47770 0.71907 2020-09-01 22:58:25 2020-11-05 15:43:35 RF03440 MIR4414 1287 MIR4414 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 100.80 85.80 This family represents the microRNA (miRNA) precursor MIR4414 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 12 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.65047 -4.26080 1600000 222167 237 128 1 -3.27950 0.71836 2020-09-01 22:58:49 2020-09-14 13:54:55 RF03441 mir-613 1287 mir-613 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 98.50 67.30 This family represents the microRNA (miRNA) precursor mir-613 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.67409 -2.45224 1600000 205937 184 87 1 -3.70080 0.71893 2020-09-01 23:00:44 2021-07-05 13:43:57 RF03442 mir-4003 1287 mir-4003 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 75.20 61.80 This family represents the microRNA (miRNA) precursor mir-4003 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 7 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.58621 -4.56351 1600000 282174 139 58 1 -3.55360 0.71931 2020-09-01 23:01:12 2020-09-14 13:54:55 RF03443 mir-2131 1287 mir-2131 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 92.00 92.40 72.80 This family represents the microRNA (miRNA) precursor mir-2131 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 43 0 0 Gene; miRNA; Predicted; RNAalifold 42 0 \N 0.60356 -3.92960 1600000 223894 186 89 1 -3.54950 0.71885 2020-09-01 23:01:40 2020-09-14 13:54:55 RF03444 MIR5635 1287 MIR5635 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 149.00 149.10 126.80 This family represents the microRNA (miRNA) precursor MIR5635 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 11 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.53891 -7.10992 1600000 241203 310 182 1 -3.35710 0.71429 2020-09-01 23:02:03 2020-11-05 15:43:36 RF03445 mir-7552 1287 mir-7552 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 59.00 59.30 54.90 This family represents the microRNA (miRNA) precursor mir-7552 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 26 0 0 Gene; miRNA; Predicted; RNAalifold 14 0 \N 0.53334 -4.84898 1600000 269791 146 63 1 -3.44670 0.71918 2020-09-01 23:02:36 2021-07-05 13:43:57 RF03446 mir-2954 1287 mir-2954 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 96.00 96.20 41.00 This family represents the microRNA (miRNA) precursor mir-2954 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 44 0 0 Gene; miRNA; Predicted; RNAalifold 44 0 \N 0.60154 -4.51698 1600000 248824 151 63 1 -3.35340 0.72381 2020-09-01 23:03:03 2020-11-05 15:43:36 RF03447 mir-1231 1287 mir-1231 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.00 68.30 This family represents the microRNA (miRNA) precursor mir-1231 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.61679 -3.46838 1600000 204079 179 85 1 -3.19930 0.72117 2020-09-01 23:03:28 2020-09-14 13:54:56 RF03448 mir-6131 1287 mir-6131 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 66.00 66.50 54.70 This family represents the microRNA (miRNA) precursor mir-6131 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.63084 -3.27446 1600000 214242 209 105 1 -3.31080 0.71866 2020-09-01 23:03:55 2020-09-14 13:54:56 RF03449 mir-6827 1287 mir-6827 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.70 60.10 This family represents the microRNA (miRNA) precursor mir-6827 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.62584 -3.91357 1600000 282854 140 55 1 -3.30340 0.73040 2020-09-01 23:04:25 2020-09-14 13:54:56 RF03450 MIR1513 1287 MIR1513 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 106.20 80.50 This family represents the microRNA (miRNA) precursor MIR1513 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61047 -3.54449 1600000 211197 189 91 1 -3.41820 0.71882 2020-09-01 23:05:29 2020-11-05 15:43:36 RF03451 mir-3188 1287 mir-3188 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 93.00 93.40 51.60 This family represents the microRNA (miRNA) precursor mir-3188 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.53544 -4.36842 1600000 186056 182 86 1 -3.28100 0.71899 2020-09-01 23:06:40 2021-07-05 13:43:57 RF03452 mir-3121 1287 mir-3121 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 108.00 108.40 72.50 This family represents the microRNA (miRNA) precursor mir-3121 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.73214 -1.39950 1600000 228232 169 77 1 -3.32850 0.71907 2020-09-01 23:07:15 2021-07-05 13:43:57 RF03453 mir-1276 1287 mir-1276 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 109.00 97.40 This family represents the microRNA (miRNA) precursor mir-1276 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.64886 -2.76678 1600000 211017 177 82 1 -3.59580 0.71893 2020-09-01 23:07:49 2020-11-05 15:43:36 RF03454 mir-1267 1287 mir-1267 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 79.40 68.40 This family represents the microRNA (miRNA) precursor mir-1267 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.63380 -3.45017 1600000 224611 170 78 1 -3.36650 0.71906 2020-09-01 23:08:17 2021-07-05 13:43:57 RF03455 mir-9847 1287 mir-9847 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 74.00 74.90 53.30 This family represents the microRNA (miRNA) precursor mir-9847 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.69614 -2.90662 1600000 214193 167 75 1 -3.09810 0.71888 2020-09-01 23:08:49 2020-11-05 15:43:36 RF03456 mir-724 1287 mir-724 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 83.00 83.70 41.90 This family represents the microRNA (miRNA) precursor mir-724 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 8 27 0 0 Gene; miRNA; Predicted; RNAalifold 15 0 \N 0.65786 -2.99320 1600000 324461 143 60 1 -3.77280 0.71929 2020-09-01 23:09:23 2021-07-05 13:43:57 RF03457 MIR173 1287 MIR173 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 87.40 64.20 This family represents the microRNA (miRNA) precursor MIR173 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.62702 -3.56382 1600000 208494 204 102 1 -3.27950 0.71869 2020-09-01 23:10:16 2021-07-05 13:43:57 RF03458 mir-766 1287 mir-766 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 110.00 125.40 106.40 This family represents the microRNA (miRNA) precursor mir-766 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.69527 -2.74802 1600000 205024 213 108 1 -3.17790 0.71852 2020-09-01 23:10:42 2021-07-05 13:43:57 RF03459 mir-1890 1287 mir-1890 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 76.00 76.80 75.30 This family represents the microRNA (miRNA) precursor mir-1890 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 16 0 0 Gene; miRNA; Predicted; RNAalifold 15 0 \N 0.61239 -3.62995 1600000 193274 169 78 1 -3.21250 0.71905 2020-09-01 23:11:07 2021-11-19 10:36:03 RF03460 mir-561 1287 mir-561 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 104.90 78.20 This family represents the microRNA (miRNA) precursor mir-561 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.57903 -4.52940 1600000 239895 175 81 1 -3.04070 0.71895 2020-09-01 23:11:32 2020-09-14 13:54:57 RF03461 MIR842 1287 MIR842 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 85.00 144.10 74.40 This family represents the microRNA (miRNA) precursor MIR842 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.60215 -4.27815 1600000 212911 239 127 1 -3.02850 0.71838 2020-09-01 23:12:03 2021-07-05 13:43:57 RF03462 mir-4677 1287 mir-4677 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.70 79.60 This family represents the microRNA (miRNA) precursor mir-4677 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 18 0 0 Gene; miRNA; Predicted; RNAalifold 17 0 \N 0.65333 -3.31224 1600000 264606 145 59 1 -3.51100 0.72710 2020-09-01 23:12:58 2020-09-14 13:54:57 RF03463 mir-3036 1287 mir-3036 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 72.60 47.40 This family represents the microRNA (miRNA) precursor mir-3036 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 7 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.58804 -3.41162 1600000 265607 141 58 1 -3.93380 0.71937 2020-09-01 23:13:18 2020-11-05 15:43:37 RF03464 mir-465 1287 mir-465 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 65.00 66.90 62.20 This family represents the microRNA (miRNA) precursor mir-465 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 10 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.63481 -3.43521 1600000 219015 170 79 1 -3.41310 0.71907 2020-09-01 23:13:47 2020-09-14 13:54:57 RF03465 MIR9666 1287 MIR9666 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 88.00 88.20 83.80 This family represents the microRNA (miRNA) precursor MIR9666 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 150 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.65705 -2.61095 1600000 164706 199 98 1 -3.44530 0.71884 2020-09-01 23:14:14 2020-09-14 13:54:57 RF03466 mir-1184 1287 mir-1184 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 77.80 63.30 This family represents the microRNA (miRNA) precursor mir-1184 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 57 0 0 Gene; miRNA; Predicted; RNAalifold 32 0 \N 0.62344 -3.43324 1600000 170197 201 99 1 -3.18100 0.71873 2020-09-01 23:15:15 2020-09-14 13:54:57 RF03467 mir-2851 1287 mir-2851 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 85.00 85.20 58.70 This family represents the microRNA (miRNA) precursor mir-2851 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 15 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.59713 -2.64159 1600000 179069 188 90 1 -3.81390 0.71881 2020-09-01 23:15:36 2020-11-05 15:43:37 RF03468 mir-2830 1287 mir-2830 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 99.00 61.50 This family represents the microRNA (miRNA) precursor mir-2830 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.62261 -3.65646 1600000 213983 168 76 1 -3.46990 0.71917 2020-09-01 23:16:41 2020-11-05 15:43:37 RF03469 mir-1179 1287 mir-1179 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.40 77.90 This family represents the microRNA (miRNA) precursor mir-1179 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 7 19 0 0 Gene; miRNA; Predicted; RNAalifold 20 0 \N 0.63007 -3.31311 1600000 191040 176 82 1 -3.84720 0.71907 2020-09-01 23:17:13 2021-07-05 13:43:57 RF03470 mir-571 1287 mir-571 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 40.00 40.20 39.80 This family represents the microRNA (miRNA) precursor mir-571 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 71 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.62841 -3.39970 1600000 229724 180 85 1 -3.53040 0.71891 2020-09-01 23:17:57 2021-07-05 13:43:57 RF03471 mir-745 1287 mir-745 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 62.00 62.10 55.90 This family represents the microRNA (miRNA) precursor mir-745 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 10 0 0 Gene; miRNA; Predicted; RNAalifold 12 0 \N 0.65431 -2.81105 1600000 170608 159 77 1 -3.93630 0.71907 2020-09-01 23:18:26 2021-07-05 13:43:57 RF03472 mir-623 1287 mir-623 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 92.00 43.70 This family represents the microRNA (miRNA) precursor mir-623 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.65395 -2.64434 1600000 175830 184 87 1 -3.42570 0.71891 2020-09-01 23:18:59 2021-07-05 13:43:57 RF03473 mir-8813 1287 mir-8813 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 58.00 58.80 46.00 This family represents the microRNA (miRNA) precursor mir-8813 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 56 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.54864 -4.18598 1600000 192298 197 96 1 -2.91810 0.71873 2020-09-01 23:19:29 2020-09-14 13:54:58 RF03474 mir-4766 1287 mir-4766 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 72.00 72.80 62.40 This family represents the microRNA (miRNA) precursor mir-4766 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.61583 -4.29869 1600000 334824 141 56 1 -3.05490 0.72930 2020-09-01 23:19:55 2020-09-14 13:54:58 RF03475 mir-2387 1287 mir-2387 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 93.00 93.40 82.90 This family represents the microRNA (miRNA) precursor mir-2387 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 11 0 0 Gene; miRNA; Predicted; RNAalifold 11 0 \N 0.55667 -4.46591 1600000 256874 171 78 1 -3.26910 0.71907 2020-09-01 23:20:23 2020-11-05 15:43:38 RF03476 mir-7360 1287 mir-7360 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 47.00 47.30 43.00 This family represents the microRNA (miRNA) precursor mir-7360 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 34 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60885 -3.65571 1600000 293262 145 59 1 -3.03370 0.72734 2020-09-01 23:21:41 2020-11-05 15:43:38 RF03477 MIR862_2 1287 MIR862_2 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 71.00 71.70 63.80 This family represents the microRNA (miRNA) precursor MIR862_2 imported from miRBase. MIR862; cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 12 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.61262 -2.95332 1600000 151466 212 90 1 -3.31570 0.71881 2020-09-01 23:22:17 2021-06-14 14:02:18 RF03478 mir-630 1287 mir-630 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 92.80 87.20 This family represents the microRNA (miRNA) precursor mir-630 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 6 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.62374 -3.20304 1600000 202840 168 76 1 -3.44820 0.71901 2020-09-01 23:22:47 2021-07-05 13:43:57 RF03479 mir-324 1287 mir-324 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 72.20 46.20 This family represents the microRNA (miRNA) precursor mir-324 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 15 37 0 0 Gene; miRNA; Predicted; RNAalifold 39 0 \N 0.65456 -3.54138 1600000 168630 178 83 1 -3.35900 0.71889 2020-09-01 23:23:42 2021-11-19 10:36:03 RF03480 mir-1284 1287 mir-1284 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 81.60 79.90 This family represents the microRNA (miRNA) precursor mir-1284 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 29 0 0 Gene; miRNA; Predicted; RNAalifold 30 0 \N 0.60184 -2.67855 1600000 173716 190 92 1 -3.49160 0.71861 2020-09-01 23:24:57 2021-07-05 13:43:57 RF03481 mir-9014 1287 mir-9014 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 63.00 63.60 62.10 This family represents the microRNA (miRNA) precursor mir-9014 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 252 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64110 -3.11812 1600000 194681 185 88 1 -3.51450 0.71882 2020-09-01 23:26:03 2020-11-05 15:43:38 RF03482 mir-4774 1287 mir-4774 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 85.00 85.30 54.60 This family represents the microRNA (miRNA) precursor mir-4774 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.60066 -2.90414 1600000 212729 168 76 1 -3.29070 0.71899 2020-09-01 23:26:45 2021-07-05 13:43:57 RF03483 MIR319 1287 MIR319 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 54.00 54.40 53.90 This family represents the microRNA (miRNA) precursor MIR319 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 90 0 0 Gene; miRNA; Predicted; RNAalifold 26 0 \N 0.65855 -3.37629 1600000 229765 228 93 1 -3.10720 0.71870 2020-09-01 23:27:21 2021-07-05 13:43:57 RF03484 mir-K12-10 1287 mir-K12-10 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 101.80 46.80 This family represents the microRNA (miRNA) precursor mir-K12-10 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60495 -4.18164 1600000 318662 160 70 1 -3.38820 0.72121 2020-09-01 23:28:10 2020-09-14 13:54:58 RF03485 mir-4000 1287 mir-4000 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 58.00 68.20 38.30 This family represents the microRNA (miRNA) precursor mir-4000 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 6 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61693 -4.47640 1600000 280131 129 54 1 -3.42860 0.72329 2020-09-01 23:28:37 2020-09-14 13:54:59 RF03486 mir-3940 1287 mir-3940 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 84.00 84.50 50.90 This family represents the microRNA (miRNA) precursor mir-3940 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.59238 -3.53977 1600000 205217 191 92 1 -3.56070 0.71894 2020-09-01 23:29:04 2021-07-05 13:43:57 RF03487 mir-4423 1287 mir-4423 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 78.00 78.10 50.60 This family represents the microRNA (miRNA) precursor mir-4423 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.65559 -2.65834 1600000 233423 174 80 1 -3.59310 0.71891 2020-09-01 23:29:29 2020-09-14 13:54:59 RF03488 mir-2366 1287 mir-2366 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 68.00 68.60 63.70 This family represents the microRNA (miRNA) precursor mir-2366 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.57758 -3.89345 1600000 168418 178 83 1 -3.28940 0.71891 2020-09-01 23:29:57 2020-09-14 13:54:59 RF03489 mir-4796 1287 mir-4796 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.60 70.90 This family represents the microRNA (miRNA) precursor mir-4796 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.63576 -3.04387 1600000 166925 192 93 1 -3.15810 0.71881 2020-09-01 23:30:24 2021-07-05 13:43:57 RF03490 mir-1426 1287 mir-1426 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 71.00 71.00 56.70 This family represents the microRNA (miRNA) precursor mir-1426 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 49 0 0 Gene; miRNA; Predicted; RNAalifold 49 0 \N 0.60577 -3.34008 1600000 166920 185 89 1 -3.54010 0.72123 2020-09-01 23:31:24 2020-09-14 13:54:59 RF03491 mir-3146 1287 mir-3146 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 96.00 96.50 85.30 This family represents the microRNA (miRNA) precursor mir-3146 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.60981 -3.83778 1600000 285893 172 79 1 -3.41160 0.71904 2020-09-01 23:31:51 2020-11-05 15:43:39 RF03492 mir-878 1287 mir-878 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 93.40 77.80 This family represents the microRNA (miRNA) precursor mir-878 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.65607 -3.40714 1600000 241132 168 76 1 -3.14250 0.72003 2020-09-01 23:32:15 2020-09-14 13:54:59 RF03493 mir-1281 1287 mir-1281 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 70.90 45.30 This family represents the microRNA (miRNA) precursor mir-1281 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 25 0 0 Gene; miRNA; Predicted; RNAalifold 26 0 \N 0.52177 -6.59217 1600000 377080 135 54 1 -3.63550 0.71954 2020-09-01 23:32:51 2021-07-05 13:43:57 RF03494 mir-4680 1287 mir-4680 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 78.00 78.30 75.20 This family represents the microRNA (miRNA) precursor mir-4680 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 27 0 0 Gene; miRNA; Predicted; RNAalifold 25 0 \N 0.60756 -3.50569 1600000 234939 157 68 1 -3.11630 0.72272 2020-09-01 23:33:30 2020-09-14 13:54:59 RF03495 mir-968 1287 mir-968 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 88.00 88.10 78.00 This family represents the microRNA (miRNA) precursor mir-968 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 6 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.61186 -2.75203 1600000 191711 168 79 1 -3.50050 0.71899 2020-09-01 23:33:56 2021-07-05 13:43:57 RF03496 MIR2086 1287 MIR2086 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 50.00 50.20 49.30 This family represents the microRNA (miRNA) precursor MIR2086 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 8 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.62542 -2.23854 1600000 184684 181 87 1 -2.98210 0.71882 2020-09-01 23:35:01 2021-07-05 13:43:57 RF03497 MIR5038 1287 MIR5038 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 70.60 69.30 This family represents the microRNA (miRNA) precursor MIR5038 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61451 -3.68692 1600000 257232 167 75 1 -3.38240 0.72017 2020-09-01 23:35:29 2020-11-05 15:43:39 RF03498 mir-3145 1287 mir-3145 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 98.00 98.80 82.80 This family represents the microRNA (miRNA) precursor mir-3145 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 7 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.62301 -3.02085 1600000 188161 178 84 1 -3.60960 0.71894 2020-09-01 23:36:25 2021-07-05 13:43:57 RF03499 mir-702 1287 mir-702 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 93.80 44.10 This family represents the microRNA (miRNA) precursor mir-702 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.53415 -4.43494 1600000 174260 204 102 1 -3.17680 0.71873 2020-09-01 23:36:52 2020-09-14 13:55:00 RF03500 mir-1262 1287 mir-1262 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 95.30 59.10 This family represents the microRNA (miRNA) precursor mir-1262 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.65573 -2.11312 1600000 207039 190 91 1 -3.26630 0.71876 2020-09-01 23:37:22 2021-07-05 13:43:57 RF03501 mir-3140 1287 mir-3140 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 93.00 93.30 62.80 This family represents the microRNA (miRNA) precursor mir-3140 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.60945 -3.38651 1600000 196829 188 90 1 -3.16700 0.71875 2020-09-01 23:38:09 2020-09-14 13:55:00 RF03502 mir-1914 1287 mir-1914 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 86.00 86.40 53.10 This family represents the microRNA (miRNA) precursor mir-1914 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.54956 -4.74068 1600000 235132 173 80 1 -3.34380 0.71895 2020-09-01 23:38:36 2021-07-05 13:43:57 RF03503 mir-547 1287 mir-547 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 101.90 87.90 This family represents the microRNA (miRNA) precursor mir-547 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.69527 -2.62144 1600000 267466 171 78 1 -3.43100 0.72102 2020-09-01 23:39:21 2020-11-05 15:43:40 RF03504 mir-9461 1287 mir-9461 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 84.00 84.50 79.50 This family represents the microRNA (miRNA) precursor mir-9461 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 11 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.68130 -2.70214 1600000 240934 173 80 1 -3.10100 0.71892 2020-09-01 23:39:44 2020-09-14 13:55:00 RF03505 mir-9128 1287 mir-9128 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 53.00 53.60 42.00 This family represents the microRNA (miRNA) precursor mir-9128 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 11 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.54614 -4.67931 1600000 220615 195 95 1 -3.03980 0.71888 2020-09-01 23:40:06 2020-09-14 13:55:00 RF03506 mir-587 1287 mir-587 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 90.30 79.40 This family represents the microRNA (miRNA) precursor mir-587 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.65696 -3.28278 1600000 216474 165 74 1 -3.81080 0.71907 2020-09-01 23:40:47 2021-07-05 13:43:57 RF03507 mir-4429 1287 mir-4429 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 97.00 97.00 58.60 This family represents the microRNA (miRNA) precursor mir-4429 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.72335 -2.97323 1600000 294649 164 73 1 -3.40220 0.72033 2020-09-01 23:41:19 2021-07-05 13:43:57 RF03508 mir-970 1287 mir-970 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 53.00 53.00 40.60 This family represents the microRNA (miRNA) precursor mir-970 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 53 0 0 Gene; miRNA; Predicted; RNAalifold 55 0 \N 0.59286 -3.96029 1600000 196003 159 74 1 -3.64410 0.71902 2020-09-01 23:41:56 2021-07-05 13:43:57 RF03509 mir-4660 1287 mir-4660 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 87.00 87.30 73.00 This family represents the microRNA (miRNA) precursor mir-4660 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.63531 -3.12204 1600000 194024 182 86 1 -3.45680 0.71888 2020-09-01 23:42:44 2021-07-05 13:43:57 RF03510 mir-3660 1287 mir-3660 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 70.70 66.70 This family represents the microRNA (miRNA) precursor mir-3660 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 33 0 0 Gene; miRNA; Predicted; RNAalifold 34 0 \N 0.64838 -2.71674 1600000 218040 176 82 1 -3.54870 0.71903 2020-09-01 23:43:46 2021-07-05 13:43:57 RF03511 mir-5444 1287 mir-5444 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 101.50 64.10 This family represents the microRNA (miRNA) precursor mir-5444 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63211 -2.77375 1600000 151841 185 89 1 -2.86170 0.72216 2020-09-01 23:44:18 2020-11-05 15:43:41 RF03512 mir-3479 1287 mir-3479 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 79.00 79.70 66.80 This family represents the microRNA (miRNA) precursor mir-3479 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.64101 -3.15149 1600000 245742 165 74 1 -3.39290 0.72129 2020-09-01 23:45:00 2021-07-05 13:43:57 RF03514 mir-6128 1287 mir-6128 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 92.00 92.70 54.20 This family represents the microRNA (miRNA) precursor mir-6128 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 8 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.59080 -2.60370 1600000 246216 150 64 1 -3.44030 0.71925 2020-09-01 23:45:43 2020-09-14 13:55:01 RF03516 MIR5229 1287 MIR5229 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 111.30 62.00 This family represents the microRNA (miRNA) precursor MIR5229 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.67121 -2.11400 1600000 188629 184 87 1 -3.60760 0.71893 2020-09-01 23:46:47 2020-11-05 15:43:41 RF03517 MIR5225 1287 MIR5225 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 72.00 72.40 70.40 This family represents the microRNA (miRNA) precursor MIR5225 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 14 0 0 Gene; miRNA; Predicted; RNAalifold 12 0 \N 0.62521 -4.96026 1600000 186954 233 126 1 -3.09190 0.71828 2020-09-01 23:47:12 2021-07-05 13:43:57 RF03518 mir-1893 1287 mir-1893 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 94.00 94.20 57.40 This family represents the microRNA (miRNA) precursor mir-1893 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 31 0 0 Gene; miRNA; Predicted; RNAalifold 32 0 \N 0.58093 -3.66690 1600000 185483 178 83 1 -3.21860 0.71887 2020-09-01 23:48:08 2021-07-05 13:43:57 RF03519 mir-238 1287 mir-238 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 87.20 74.00 This family represents the microRNA (miRNA) precursor mir-238 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.61704 -3.28856 1600000 163483 176 85 1 -3.66860 0.71888 2020-09-01 23:48:34 2020-11-05 15:43:41 RF03520 mir-3059 1287 mir-3059 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 88.00 88.10 53.90 This family represents the microRNA (miRNA) precursor mir-3059 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 36 0 0 Gene; miRNA; Predicted; RNAalifold 36 0 \N 0.60058 -5.15859 1600000 312982 145 59 1 -2.96400 0.72614 2020-09-01 23:49:11 2020-11-05 15:43:41 RF03521 mir-23c 1287 mir-23c microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 83.00 83.80 64.70 This family represents the microRNA (miRNA) precursor mir-23c imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.63028 -3.05294 1600000 196736 202 100 1 -3.07750 0.71873 2020-09-01 23:51:41 2021-07-05 13:43:57 RF03522 mir-4850 1287 mir-4850 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 93.00 93.70 81.80 This family represents the microRNA (miRNA) precursor mir-4850 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.65643 -2.16311 1600000 197284 184 88 1 -3.69060 0.71887 2020-09-01 23:52:01 2021-07-05 13:43:57 RF03523 mir-4703 1287 mir-4703 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 88.00 88.10 70.30 This family represents the microRNA (miRNA) precursor mir-4703 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.64157 -3.45118 1600000 248872 148 61 1 -3.31110 0.72681 2020-09-01 23:53:48 2020-11-05 15:43:41 RF03524 mir-3174 1287 mir-3174 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 101.10 79.80 This family represents the microRNA (miRNA) precursor mir-3174 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.66221 -2.83815 1600000 232664 184 87 1 -3.46970 0.71888 2020-09-01 23:54:47 2021-07-05 13:43:57 RF03525 mir-1343 1287 mir-1343 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 51.00 51.40 50.70 This family represents the microRNA (miRNA) precursor mir-1343 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 60 0 0 Gene; miRNA; Predicted; RNAalifold 38 0 \N 0.54429 -4.04309 1600000 177321 176 82 1 -3.14270 0.71910 2020-09-01 23:56:02 2021-07-05 13:43:57 RF03526 mir-7177 1287 mir-7177 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 86.00 86.00 85.60 This family represents the microRNA (miRNA) precursor mir-7177 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 23 0 0 Gene; miRNA; Predicted; RNAalifold 23 0 \N 0.65026 -3.68898 1600000 238521 161 71 1 -3.29540 0.72137 2020-09-01 23:56:40 2020-11-05 15:43:42 RF03527 mir-3072 1287 mir-3072 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 86.00 86.20 50.50 This family represents the microRNA (miRNA) precursor mir-3072 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.54338 -4.36679 1600000 243365 178 83 1 -2.93790 0.71905 2020-09-01 23:57:04 2020-11-05 15:43:42 RF03528 mir-1264 1287 mir-1264 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 79.00 47.70 This family represents the microRNA (miRNA) precursor mir-1264 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 35 0 0 Gene; miRNA; Predicted; RNAalifold 36 0 \N 0.63393 -3.60610 1600000 250676 154 67 1 -3.36000 0.71918 2020-09-02 19:41:46 2021-07-05 13:43:57 RF03530 bglG-cis-reg 2740 cis-regulatory element of the bglG/LicT operon Secherre E, Boudhouche H, Bahroun R PMID:23675309 80.00 102.00 78.90 \N \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 0 0 0 Cis-reg; Predicted; LocaRNA 6 0 \N 0.54459 -6.28171 1600000 253364 245 137 1 -3.17780 0.71845 2020-09-09 16:49:01 2020-09-14 14:07:43 RF03531 n00280 2741 Clostridioides difficile sRNA included into helicase gene Gobalakichenin A, Ibene M, Pohyer V Published; PMID:23675309 65.20 65.20 65.10 This element was identified by RNA deep sequencing of Clostridioides difficile 630 [1] where it is located within gene CD0749 (putative DNA helicase, UvrD/REP type) in the same direction as the gene. A strong transcription start site for this RNA was experimentally confirmed, in the 3’ region of gene CD0749. The 3’ end of the sRNA has not been confirmed and its length was arbitrarily set to 100nt. For inclusion criteria: Only sequences from order Clostridiales were included, mostly because the starting sequence belonged to this order and the large majority of sequences found by the different RFAM search iterations belonged to this order as well. Associated e-values did not exceed 1e-09. As the original RNA is part of a coding sequence (CDS), it is possible that homologies were detected due to selection pressure for the CDS rather than for a sRNA. R-scape identified only two significantly covarying pairs present in the structure (4-100 and 7-97). Thus evidence for structure is weak. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 24 38 0 0 Gene; sRNA; Predicted; LocARNA; 56 0 \N 0.53030 -4.65586 1600000 272069 189 101 1 -3.72980 0.71845 2020-09-09 16:57:33 2020-09-14 14:07:43 RF03532 SQ2397 2742 Cis-regulator of HTH transcription factor SERIR R, SCHNEIDER T, SANGARANE V Published; PMID:23675309 100.00 100.90 99.60 This element was identified by RNA deep sequencing of Clostridioides difficile 630 [1] where it is located immediately upstream of an uncharacterized HTH-type Transcriptional regulator. Homologues are found widely across firmicutes, consistently located 5’ of transcriptional regulators of similar size and sequence, which strongly supports a cis-regulatory function. RNA is referred to as CD630_SQ2397 in ref [1]. Note: the sequence is highly conserved and shows no evidence for covariation as per R-scape analysis. The proposed secondary structure is therefore purely hypothetical. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 57 3 0 0 Cis-reg; Predicted; LocARNA; 56 0 \N 0.47741 -10.81529 1600000 459796 391 243 1 -3.53270 0.70892 2020-09-09 19:18:02 2020-09-14 14:07:43 RF03533 SQ1002_RNA 2744 Clostridioides difficile sRNA SQ1002 Rabearivelo N, Marty M, Sabban J Predicted; Blastn; LocARNA; 128.00 131.00 127.90 This 191nt small RNA was identified in Clostridioides difficile 630 by RNA deep sequencing and confirmed by Northern Blot and RT-PCR [1]. Extremities were confirmed by 5’ and 3’-RACE [1]. The element is found in several C. difficile strains in syntenic positions between a putative acyltransferase gene and a Ferrous iron transport gene. No homologues were found outside C. difficile, although a putative paralogue was found in C. difficile 630, located between a Tryptophanyl-tRNA synthetase gene and a pseudogene. Due to lack of sequence variation, the proposed secondary structure is not supported by any covariation and should be considered speculative \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 1 0 0 Gene; sRNA; Predicted; R-scape; 1 0 \N 0.59452 -8.50160 1600000 354188 383 237 1 -3.61380 0.70937 2020-09-10 12:01:46 2020-09-14 14:07:43 RF03534 sRNA71 2745 Staphylococcus sRNA71 small RNA Ducos C, Michel M, Morice E Published; PMID:23733475; 50.00 76.90 41.90 sRNA71 is a Bacterial small RNA discovered by RNA-seq analysis of the multiresistant Staphylococcus aureus strain ST239 grown in the presence of antibiotics [1] and found throughout the Staphylococcus genus. It is thought to be a trans-encoded small RNA expressed in diverse conditions and media. The 5’ position is uncertain, this record adds 12 bases to the initial sRNA71 sequence to include additional conserved nucleotides. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 1 0 0 Gene; sRNA; Predicted; LocARNA; 13 0 \N 0.46853 -6.69683 1600000 209950 204 107 1 -3.31840 0.71863 2020-09-10 12:04:45 2021-07-05 13:43:57 RF03535 TEG147 2750 Staphylococcus aureus small RNA TEG147 Liger J, Minaud L, Poulain C, Vencic J Published; PMID:20505759; 56.10 56.10 55.20 TEG147 is an RNA element identified by RNA-seq in S. aureus N315 [1] with homologues in other Staphylococcus species. Other names: sRNA85, srn_0960, SAOUHSCs103. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 29 0 0 Cis-reg; Predicted; LocARNA; 31 0 \N 0.61137 -4.09748 1600000 279910 141 60 1 -3.83220 0.71923 2020-09-11 15:16:51 2020-09-14 14:07:43 RF03536 Flavi_TBFV_xrRNA 2754 Tick-borne Flavivirus exoribonuclease-resistant RNA element Lamkiewicz K Lamkiewicz K 46.50 46.50 35.90 The exoribonuclease-resistant RNA elements (xrRNA) are described throughout all groups of flaviviruses. Usually, each virus harbors two xrRNAs, xrRNA1 and xrRNA2, in the beginning of the 3' UTR [1]. The formation of these stem-loops, especially xrRNA1, is vital to ensure resistance against XRN1 activity [2]. The Y-shaped stem-loop is also termed SL II and SL IV, respectively. In order to function as xrRNA, the sequence downstream is needed as well, since the upper loop region forms a pseudoknot (PK) with the single-stranded region directly downstream to its respective hairpin. In some species, the region downstream also forms a small hairpin. In such cases, the PK interactions takes place between the two loop regions. Conserved formation of these structures were observed in mammalian cells but not in mosquito cells, suggesting this region has varying functions in different hosts[3][4]. In plant-viruses, xrRNA elements have been observed as well, showing some similarities to flaviviral xrRNAs[5][6]. However, plant-virus xrRNA and flaviviral xrRNA are distinguishable by their underlying three-dimensional folds[7]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 18 23 0 0 Cis-reg; Predicted; LocARNA 2.0.0RC8 16 0 \N 0.67552 -3.04646 1600000 163479 173 90 1 -3.86430 0.71894 2020-09-11 18:05:34 2022-10-11 10:22:54 RF03537 Flavi_TBFV_SL6 2754 Tick-borne Flavivirus short stem-loop SL6 Lamkiewicz K, Wolfinger MT Lamkiewicz K 38.30 38.30 38.00 In different studies, a short stem-loop, named SL6 has been observed in at least Tick-borne encephalitis virus, Langat virus and Omsk hemorrhagic fever [1][2]. SL6 shows a high heterogeneity among different tick-borne flaviviruses, but is structurally conserved supported by multiple covariation [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 9 0 0 Cis-reg; Predicted; LocARNA 2.0.0RC8 13 0 \N 0.81352 -1.98823 1600000 407370 110 45 1 -2.96090 0.74750 2020-09-11 21:27:26 2022-10-11 10:23:50 RF03538 Flavi_TBFV_CRE 2754 Tick-borne Flavivirus 3' UTR cis-acting replication element (CRE) Lamkiewicz K Lamkiewicz K 60.50 67.50 60.40 Flavi_TBFV_CRE is a Tick Borne Flavivirus family. Flavivirus 3' UTR cis-acting replication element (CRE) plays a crucial role in the virus replication and is thought to be needed for the formation of a "replication complex" [1], it is composed of a small hairpin (sHP) and a larger structural element (3'SL). It has been shown that mutations in sHP are lethal for the virus [2]. CRE is involved in the 5'-3' UTR interation of flaviviruses [3] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 10 0 0 Cis-reg; Predicted; LocARNA 2.0.0RC8 12 0 \N 0.49290 -6.64087 1600000 226107 207 106 1 -3.35350 0.71863 2020-09-11 21:28:47 2022-10-29 16:55:17 RF03539 Flavi_NKV_xrRNA 2754 No-known vector Flavivirus exoribonuclease-resistant RNA element Lamkiewicz K Lamkiewicz K 50.00 50.00 37.70 The exoribonuclease-resistant RNA elements (xrRNA) are described throughout all groups of flaviviruses. Usually, each virus harbors two xrRNAs, xrRNA1 and xrRNA2, in the beginning of the 3' UTR [1]. The formation of these stem-loops, especially xrRNA1, is vital to ensure resistance against XRN1 activity [2]. The Y-shaped stem-loop is also termed SL II and SL IV, respectively. In order to function as xrRNA, the sequence downstream is needed as well, since the upper loop region forms a pseudoknot (PK) with the single-stranded region directly downstream to its respective hairpin. In some species, the region downstream also forms a small hairpin. In such cases, the PK interactions takes place between the two loop regions. Conserved formation of these structures were observed in mammalian cells but not in mosquito cells, suggesting this region has varying functions in different hosts[3][4]. In plant-viruses, xrRNA elements have been observed as well, showing some similarities to flaviviral xrRNAs[5][6]. However, plant-virus xrRNA and flaviviral xrRNA are distinguishable by their underlying three-dimensional folds[7]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 3 0 0 Cis-reg; Predicted; LocARNA 2.0.0RC8 4 0 \N 0.60548 -5.03539 1600000 247486 175 84 1 -2.80260 0.73195 2020-09-11 21:29:32 2022-10-29 16:55:17 RF03540 Flavi_NKV_CRE 2754 No-Known-Vector Flavivirus 3' UTR cis-acting replication element (CRE) Lamkiewicz K Lamkiewicz K 50.00 83.90 40.60 Flavi_NKV_CRE is a Flavivirus family were the vector is not known. Flavivirus 3' UTR cis-acting replication element (CRE) plays a crucial role in the virus replication and is thought to be needed for the formation of a "replication complex" [1], it is composed of a small hairpin (sHP) and a larger structural element (3'SL). It has been shown that mutations in sHP are lethal for the virus [2]. CRE is involved in the 5'-3' UTR interation of flaviviruses [3] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Cis-reg; Predicted; LocARNA 2.0.0RC8 2 0 \N 0.54383 -5.42231 1600000 263768 194 96 1 -2.96970 0.72778 2020-09-11 21:54:05 2022-10-29 16:55:17 RF03541 Flavi_ISFV_xrRNA 2754 Insect-specific Flavivirus exoribonuclease-resistant RNA element Lamkiewicz K Lamkiewicz K 50.00 54.80 32.90 The exoribonuclease-resistant RNA elements (xrRNA) are described throughout all groups of flaviviruses. Usually, each virus harbors two xrRNAs, xrRNA1 and xrRNA2, in the beginning of the 3' UTR [1]. The formation of these stem-loops, especially xrRNA1, is vital to ensure resistance against XRN1 activity [2]. The Y-shaped stem-loop is also termed SL II and SL IV, respectively. In order to function as xrRNA, the sequence downstream is needed as well, since the upper loop region forms a pseudoknot (PK) with the single-stranded region directly downstream to its respective hairpin. In some species, the region downstream also forms a small hairpin. In such cases, the PK interactions takes place between the two loop regions. Conserved formation of these structures were observed in mammalian cells but not in mosquito cells, suggesting this region has varying functions in different hosts[3][4]. In plant-viruses, xrRNA elements have been observed as well, showing some similarities to flaviviral xrRNAs[5][6]. However, plant-virus xrRNA and flaviviral xrRNA are distinguishable by their underlying three-dimensional folds[7]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 9 0 0 Cis-reg; Predicted; LocARNA 2.0.0RC8 5 0 \N 0.57956 -7.51800 1600000 255500 173 89 1 -3.65310 0.71860 2020-09-11 21:54:39 2022-10-29 16:55:17 RF03542 Flavi_ISFV_repeat_Ra_Rb 2754 Insect-Specific Flavivirus 3' UTR repeats Ra and Rb elements Lamkiewicz K, Wolfinger MT Lamkiewicz K 50.00 50.50 41.30 3' UTRs in insect specific flavivirus families present three to four repeats of conserved element Ra and Rb [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 12 40 0 0 Cis-reg; Predicted; LocARNA 2.0.0RC8 4 0 \N 0.48191 -9.15151 1600000 280805 188 100 1 -3.69810 0.71863 2020-09-11 21:55:16 2022-10-29 16:55:17 RF03543 Flavi_ISFV_repeat_Rb 2754 Insect-Specific Flavivirus 3' UTR repeats Rb Lamkiewicz K, Wolfinger MT Lamkiewicz K 43.00 43.00 37.90 3' UTRs in insect specific flavivirus families present three to four repeats of conserved element Rb [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 19 5 0 0 Cis-reg; Predicted; LocARNA 2.0.0RC8 4 0 \N 0.63859 -4.95306 1600000 422355 115 47 1 -3.49050 0.71953 2020-09-12 11:32:22 2022-10-29 16:55:17 RF03544 Flavi_ISFV_repeat_Ra 2754 Insect-Specific Flavivirus 3' UTR repeats Ra Lamkiewicz K, Wolfinger MT Lamkiewicz K 41.00 41.80 39.00 3' UTR in insect specific flavivirus families present three to four repeats of conserved element Ra [1,2]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 30 7 0 0 Cis-reg; Predicted; LocARNA 2.0.0RC8 4 0 \N 0.53535 -6.78572 1600000 332951 125 58 1 -3.94260 0.71911 2020-09-12 11:32:54 2022-10-29 16:55:17 RF03545 Flavi_ISFV_CRE 2754 Insect-specific Flavivirus 3' UTR cis-acting replication element (CRE) Lamkiewicz K Lamkiewicz K 41.00 41.80 40.90 Flavi_ISFV_CRE is a Insect specific Flavivirus family. Flavivirus 3' UTR cis-acting replication element (CRE) plays a crucial role in the virus replication and is thought to be needed for the formation of a "replication complex" [1], it is composed of a small hairpin (sHP) and a larger structural element (3'SL). It has been shown that mutations in sHP are lethal for viruses [2]. CRE is involved in the 5'-3' UTR interaction of flaviviruses [3]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 16 4 0 0 Cis-reg; Predicted; LocARNA 2.0.0RC8 20 0 \N 0.52608 -5.39216 1600000 229632 207 89 1 -3.06070 0.72988 2020-09-12 11:39:29 2022-10-29 16:42:08 RF03546 Flavivirus-5UTR 2760 Flavivirus 5' UTR Lamkiewicz K Lamkiewicz K 80.00 83.60 79.30 The 5' UTR of flaviviruses are highly structured, has a length of approximately 100 nucleotides and harbors two conserved RNA secondary structures vital for the viral life cycle[1][2]. During replication, a long-range RNA-RNA interaction between 5' UTR and 3' UTR of the genome is formed to initiate synthesis of new viral replicates and viral protein translation. In direct adjacency to the 5' UTR, already part of the coding region, lies the cHP structure, which is essential for the viral replication[3][4]. The first structural element is termed 5'SLA and comprises three stems (S1, S2, S3) folded as Y-shaped-like stem structure, and a side structure domain (SSD). Its overall length is around 70 nucleotides. Viral replication is stopped by disruption of S1 and S2. Further, via RNA-protein interaction with NS5, SLA serves as a promoter for RNA synthesis during circularization of the viral genome[5][6]. Despite the diversity of SSD, its stable structure is essential for infectivity[3]. The second structural element is termed 5'SLB. At its top region of the stem loop lies the translation initiation codon. It further contains the 5'UAR (upstream AUG region), which is essential for the circularization of the genome[8]. The 5'UAR interacts with the 3'UAR, which is located at the 3' UTR of the genome to form the long-range RNA-RNA interaction[8]. At the start of the coding region lies the capsid-coding hairpin region (cHP), which is followed by the 5'CS (conserved sequence). The 5'CS forms an additional long-range RNA-RNA interaction with the 3' UTR (3'CS)[5]. The cHP further aids in the start codon recognition and thus in viral replication. Studies show that the function of cHP is sequence-independent but structure-dependent[9]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 1 0 0 Cis-reg; Predicted; LocARNA 2.0.0RC8 9 0 \N 0.56466 -7.90607 1600000 264399 264 156 1 -3.04050 0.71786 2020-09-12 11:51:34 2021-07-05 13:43:57 RF03547 Flavi_xrRNA 2754 General Flavivirus exoribonuclease-resistant RNA element Lamkiewicz K Lamkiewicz K 37.00 40.30 36.90 The exoribonuclease-resistant RNA elements (xrRNA) are described throughout all groups of flaviviruses. Usually, each virus harbors two xrRNAs, xrRNA1 and xrRNA2, in the beginning of the 3' UTR [1]. The formation of these stem-loops, especially xrRNA1, is vital to ensure resistance against XRN1 activity [2]. The Y-shaped stem-loop is also termed SL II and SL IV, respectively. In order to function as xrRNA, the sequence downstream is needed as well, since the upper loop region forms a pseudoknot (PK) with the single-stranded region directly downstream to its respective hairpin. In some species, the region downstream also forms a small hairpin. In such cases, the PK interactions takes place between the two loop regions. Conserved formation of these structures were observed in mammalian cells but not in mosquito cells, suggesting this region has varying functions in different hosts[3][4]. In plant-viruses, xrRNA elements have been observed as well, showing some similarities to flaviviral xrRNAs[5][6]. However, plant-virus xrRNA and flaviviral xrRNA are distinguishable by their underlying three-dimensional folds[7]. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 48 22 0 0 Cis-reg; Predicted; LocARNA 2.0.0RC8 29 0 \N 0.46945 -6.30662 1600000 205262 226 82 1 -1.94240 0.74559 2020-09-12 11:55:42 2022-10-29 16:55:17 RF03548 mir-302_2 1287 mir-302_2 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 91.10 59.30 This family represents the microRNA (miRNA) precursor mir-302 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.65204 -2.66235 1600000 195227 156 68 1 -3.65960 0.71911 2020-09-18 14:08:35 2021-07-05 13:43:57 RF03549 mir-15_2 1287 mir-15_2 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 90.10 54.80 This family represents the microRNA (miRNA) precursor mir-15_2 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.62956 -4.27373 1600000 291309 141 56 1 -3.35890 0.72836 2020-09-18 14:44:43 2021-07-05 13:43:57 RF03550 mir-31_2 1287 mir-31_2 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 97.00 97.50 79.40 This family represents the microRNA (miRNA) precursor mir-31_2 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.62560 -3.31882 1600000 209734 177 83 1 -3.31030 0.72167 2020-09-18 14:56:21 2021-07-05 13:43:57 RF03552 mir-43_2 1287 mir-43_2 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.50 60.90 This family represents the microRNA (miRNA) precursor mir-43_2 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.69298 -2.63526 1600000 187981 167 78 1 -3.67170 0.71899 2020-10-16 16:54:55 2020-11-05 15:43:42 RF03553 mir-190_2 1287 mir-190_2 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 129.00 129.20 106.90 This family represents the microRNA (miRNA) precursor mir-190_2 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.66371 -3.02589 1600000 189865 233 123 1 -3.34860 0.71833 2020-10-16 17:07:10 2021-07-05 13:43:57 RF03554 mir-92_2 1721 mir-92_2 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 70.00 43.90 This family represents the microRNA (miRNA) precursor mir-92_2 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.59169 -3.97051 1600000 208863 175 82 1 -3.09150 0.72872 2020-10-16 17:17:48 2020-11-05 15:44:19 RF03555 mir-2_2 1287 mir-2_2 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 94.00 94.40 77.80 This family represents the microRNA (miRNA) precursor mir-2_2 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.63718 -3.48885 1600000 250171 171 78 1 -3.50450 0.71973 2020-10-16 17:42:49 2021-07-05 13:43:57 RF03556 mir-559 1287 mir-559 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 95.40 94.30 This family represents the microRNA (miRNA) precursor mir-559 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 7 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.60430 -4.04772 1600000 263700 189 91 1 -3.30150 0.71892 2020-11-26 11:07:08 2021-07-05 13:43:57 RF03557 MIR6019 1287 MIR6019 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 125.30 63.50 This family represents the microRNA (miRNA) precursor MIR6019 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.62271 -3.44905 1600000 184391 217 111 1 -3.19510 0.71862 2020-11-26 11:08:18 2021-07-05 13:43:57 RF03558 mir-629 1287 mir-629 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 72.00 72.30 71.80 This family represents the microRNA (miRNA) precursor mir-629 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.51353 -5.60133 1600000 222332 178 83 1 -3.15490 0.71909 2020-11-26 11:09:23 2021-07-05 13:43:57 RF03559 mir-8303 1287 mir-8303 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 91.80 37.20 This family represents the microRNA (miRNA) precursor mir-8303 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64416 -4.20428 1600000 331632 144 58 1 -3.33030 0.72679 2020-11-26 11:09:40 2020-12-09 15:48:42 RF03560 mir-3926 1287 mir-3926 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 82.00 82.00 61.20 This family represents the microRNA (miRNA) precursor mir-3926 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 12 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.57637 -4.79181 1600000 284986 151 63 1 -2.89820 0.72702 2020-11-26 11:10:03 2020-12-09 15:48:42 RF03561 mir-3533 1287 mir-3533 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 104.00 104.10 103.50 This family represents the microRNA (miRNA) precursor mir-3533 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 56 0 0 Gene; miRNA; Predicted; RNAalifold 44 0 \N 0.63801 -3.21219 1600000 240574 179 84 1 -3.70070 0.71893 2020-11-26 11:11:14 2020-12-09 15:48:42 RF03562 mir-2004 1287 mir-2004 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 115.70 59.00 This family represents the microRNA (miRNA) precursor mir-2004 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.58891 -3.48744 1600000 175361 200 98 1 -3.39010 0.71875 2020-11-26 11:11:33 2021-07-05 13:43:57 RF03563 mir-BART16 1287 mir-BART16 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 103.40 54.30 This family represents the microRNA (miRNA) precursor mir-BART16 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63497 -2.63688 1600000 208934 182 87 1 -3.53400 0.71964 2020-11-26 11:11:51 2021-07-05 13:43:57 RF03564 mir-9416 1287 mir-9416 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 101.40 94.40 This family represents the microRNA (miRNA) precursor mir-9416 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60935 -4.20377 1600000 285695 157 68 1 -3.38440 0.72226 2020-11-26 11:12:08 2020-12-09 15:48:42 RF03565 mir-1282 1287 mir-1282 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 107.00 107.20 106.50 This family represents the microRNA (miRNA) precursor mir-1282 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 45 0 0 Gene; miRNA; Predicted; RNAalifold 37 0 \N 0.61404 -3.73526 1600000 194227 203 101 1 -3.50010 0.71867 2020-11-26 11:13:22 2021-07-05 13:43:57 RF03566 mir-4875 1287 mir-4875 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 94.40 73.40 This family represents the microRNA (miRNA) precursor mir-4875 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64477 -3.01130 1600000 241756 164 73 1 -2.85530 0.72758 2020-11-26 11:13:44 2020-12-09 15:48:42 RF03567 MIR8024 1287 MIR8024 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 57.30 57.30 57.10 This family represents the microRNA (miRNA) precursor MIR8024 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 377 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.63012 -2.91310 1600000 212692 182 86 1 -3.38980 0.71873 2020-11-26 11:14:28 2020-12-09 15:48:42 RF03568 mir-3204 1287 mir-3204 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.10 61.00 This family represents the microRNA (miRNA) precursor mir-3204 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 16 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64700 -3.06699 1600000 244396 167 75 1 -3.51260 0.72039 2020-11-26 11:14:47 2020-12-09 15:48:42 RF03569 mir-7973 1287 mir-7973 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 92.90 77.30 This family represents the microRNA (miRNA) precursor mir-7973 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.62449 -4.20026 1600000 264714 165 74 1 -2.76410 0.72527 2020-11-26 11:15:05 2020-12-09 15:48:42 RF03570 mir-8286 1287 mir-8286 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 72.80 33.70 This family represents the microRNA (miRNA) precursor mir-8286 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 13 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64247 -4.21848 1600000 318724 141 56 1 -3.28360 0.72839 2020-11-26 11:15:22 2020-12-09 15:48:42 RF03571 mir-734 1287 mir-734 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 114.10 60.70 This family represents the microRNA (miRNA) precursor mir-734 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61284 -3.53874 1600000 228110 193 93 1 -3.55490 0.71887 2020-11-26 11:15:39 2021-07-05 13:43:57 RF03572 MIR2109 1287 MIR2109 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 104.80 51.40 This family represents the microRNA (miRNA) precursor MIR2109 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.64227 -3.46927 1600000 262214 161 71 1 -3.23090 0.72030 2020-11-26 11:15:56 2020-12-09 15:48:42 RF03573 mir-1954 1287 mir-1954 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 99.00 99.50 84.40 This family represents the microRNA (miRNA) precursor mir-1954 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66675 -3.19041 1600000 211278 176 82 1 -3.28180 0.72267 2020-11-26 11:16:17 2020-12-09 15:48:42 RF03574 mir-4847 1287 mir-4847 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 102.80 50.60 This family represents the microRNA (miRNA) precursor mir-4847 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.70854 -1.89697 1600000 193509 172 79 1 -3.24680 0.72038 2020-11-26 11:16:33 2021-07-05 13:43:57 RF03575 mir-rL1-14 1287 mir-rL1-14 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 68.30 42.30 This family represents the microRNA (miRNA) precursor mir-rL1-14 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.59529 -3.70701 1600000 204348 181 87 1 -3.55720 0.71899 2020-11-26 11:16:53 2021-07-05 13:43:57 RF03576 mir-4435 1287 mir-4435 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 58.00 58.90 53.70 This family represents the microRNA (miRNA) precursor mir-4435 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.67365 -3.11959 1600000 243318 165 74 1 -3.39700 0.71897 2020-11-26 11:17:19 2020-12-09 15:48:42 RF03577 mir-9193 1287 mir-9193 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 55.00 55.00 54.90 This family represents the microRNA (miRNA) precursor mir-9193 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 3294 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.56537 -4.40855 1600000 209124 165 74 1 -3.07600 0.72291 2020-11-26 11:18:16 2021-07-05 13:43:57 RF03578 mir-3910 1287 mir-3910 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 97.30 94.40 This family represents the microRNA (miRNA) precursor mir-3910 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.62319 -3.43301 1600000 212496 176 82 1 -3.38030 0.72015 2020-11-26 11:18:45 2020-12-09 15:48:42 RF03579 mir-2058 1287 mir-2058 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 92.00 46.80 This family represents the microRNA (miRNA) precursor mir-2058 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.59217 -4.26060 1600000 258180 162 72 1 -3.27760 0.72287 2020-11-26 11:19:15 2021-07-05 13:43:57 RF03580 mir-928 1287 mir-928 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 108.00 96.80 This family represents the microRNA (miRNA) precursor mir-928 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.64913 -2.93982 1600000 208920 200 100 1 -3.23500 0.71857 2020-11-26 11:22:45 2021-07-05 13:43:57 RF03581 mir-4878 1287 mir-4878 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 106.60 46.60 This family represents the microRNA (miRNA) precursor mir-4878 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63154 -3.74380 1600000 212486 164 73 1 -3.41070 0.72018 2020-11-26 11:23:02 2021-07-05 13:43:57 RF03582 mir-m22-1 1287 mir-m22-1 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 82.90 44.80 This family represents the microRNA (miRNA) precursor mir-m22-1 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.53001 -5.78902 1600000 301404 156 67 1 -2.23680 0.73437 2020-11-26 11:23:19 2020-12-09 15:48:42 RF03583 MIR781 1287 MIR781 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 88.00 88.80 81.70 This family represents the microRNA (miRNA) precursor MIR781 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.60724 -2.61659 1600000 150122 191 94 1 -3.01380 0.71878 2020-11-26 11:23:39 2021-07-05 13:43:57 RF03584 mir-2290 1287 mir-2290 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 50.00 56.80 39.80 This family represents the microRNA (miRNA) precursor mir-2290 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.56410 -4.15053 1600000 269414 174 80 1 -3.38390 0.71895 2020-11-26 11:24:00 2021-07-05 13:43:57 RF03585 mir-3938 1287 mir-3938 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 94.00 94.80 93.20 This family represents the microRNA (miRNA) precursor mir-3938 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.63472 -3.25936 1600000 192655 184 88 1 -2.95330 0.71900 2020-11-26 11:24:28 2021-07-05 13:43:57 RF03586 mir-5132 1287 mir-5132 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 101.90 67.80 This family represents the microRNA (miRNA) precursor mir-5132 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.53523 -4.59524 1600000 274287 161 71 1 -3.07590 0.72134 2020-11-26 11:24:51 2020-12-09 15:48:43 RF03587 mir-1202 1287 mir-1202 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 81.80 66.50 This family represents the microRNA (miRNA) precursor mir-1202 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.62172 -3.57484 1600000 206176 174 80 1 -2.82900 0.71904 2020-11-26 11:25:40 2021-07-05 13:43:57 RF03588 mir-2319 1287 mir-2319 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 89.00 89.50 65.00 This family represents the microRNA (miRNA) precursor mir-2319 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63943 -3.36801 1600000 233770 161 71 1 -3.10230 0.72430 2020-11-26 11:26:02 2020-12-09 15:48:43 RF03589 mir-5583 1287 mir-5583 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 81.80 77.40 This family represents the microRNA (miRNA) precursor mir-5583 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 11 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.54312 -4.79352 1600000 273369 145 59 1 -3.00120 0.73288 2020-11-26 11:26:24 2020-12-09 15:48:43 RF03590 mir-2009 1287 mir-2009 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 97.40 59.30 This family represents the microRNA (miRNA) precursor mir-2009 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 1 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.68769 -2.38143 1600000 194008 176 83 1 -3.75020 0.71893 2020-11-26 11:26:43 2021-07-05 13:43:57 RF03591 mir-3117 1287 mir-3117 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.60 54.60 This family represents the microRNA (miRNA) precursor mir-3117 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.63070 -3.28195 1600000 235567 171 78 1 -3.18300 0.71907 2020-11-26 11:27:10 2020-12-09 15:48:43 RF03592 mir-2567 1287 mir-2567 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 79.00 79.70 77.60 This family represents the microRNA (miRNA) precursor mir-2567 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 14 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.63762 -1.97653 1600000 188352 176 83 1 -3.69890 0.71887 2020-11-26 11:27:36 2021-07-05 13:43:57 RF03593 mir-2331 1287 mir-2331 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 104.50 68.50 This family represents the microRNA (miRNA) precursor mir-2331 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.56360 -4.61509 1600000 266118 161 71 1 -3.57380 0.72066 2020-11-26 11:27:54 2021-07-05 13:43:57 RF03594 mir-3817 1287 mir-3817 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 95.20 68.00 This family represents the microRNA (miRNA) precursor mir-3817 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60259 -3.77246 1600000 186563 185 89 1 -3.10560 0.72106 2020-11-26 11:28:10 2020-12-09 15:48:43 RF03595 mir-3569 1287 mir-3569 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 50.00 52.30 42.20 This family represents the microRNA (miRNA) precursor mir-3569 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.60471 -4.77756 1600000 279115 144 58 1 -2.88060 0.72993 2020-11-26 11:28:30 2020-12-09 15:48:43 RF03596 mir-5880 1287 mir-5880 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 97.00 97.30 66.50 This family represents the microRNA (miRNA) precursor mir-5880 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.63329 -3.44999 1600000 236250 172 79 1 -3.12890 0.72295 2020-11-26 11:28:47 2020-12-09 15:48:43 RF03597 MIR6438 1287 MIR6438 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 58.00 58.20 51.50 This family represents the microRNA (miRNA) precursor MIR6438 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.57384 -3.66565 1600000 210377 199 100 1 -3.15590 0.71879 2020-11-26 11:29:04 2020-12-09 15:48:43 RF03598 MIR6024 1287 MIR6024 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 72.00 72.40 65.60 This family represents the microRNA (miRNA) precursor MIR6024 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.63954 -3.09709 1600000 183292 199 99 1 -3.08470 0.71876 2020-11-26 11:29:24 2021-07-05 13:43:57 RF03599 MIR1883 1287 MIR1883 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 128.00 128.60 127.00 This family represents the microRNA (miRNA) precursor MIR1883 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.55008 -4.71820 1600000 158433 226 118 1 -3.07460 0.71849 2020-11-26 11:29:43 2021-07-05 13:43:57 RF03600 MIR3627 1287 MIR3627 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 64.00 64.60 61.60 This family represents the microRNA (miRNA) precursor MIR3627 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.69059 -2.50161 1600000 188651 181 89 1 -3.41690 0.71889 2020-11-26 11:30:49 2021-07-05 13:43:57 RF03601 MIR7993 1287 MIR7993 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 100.00 99.60 This family represents the microRNA (miRNA) precursor MIR7993 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 19 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.57963 -3.95352 1600000 218072 253 138 1 -2.87330 0.71833 2020-11-26 11:31:20 2020-12-09 15:48:43 RF03602 mir-8250 1287 mir-8250 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 83.10 37.40 This family represents the microRNA (miRNA) precursor mir-8250 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.59617 -4.55502 1600000 311231 140 60 1 -3.72660 0.71935 2020-11-26 11:31:42 2020-12-09 15:48:43 RF03603 mir-4899 1287 mir-4899 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 85.00 85.60 42.00 This family represents the microRNA (miRNA) precursor mir-4899 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61257 -3.01742 1600000 158818 182 87 1 -3.30090 0.71939 2020-11-26 11:32:02 2021-07-05 13:43:57 RF03604 mir-5728 1287 mir-5728 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 106.30 94.60 This family represents the microRNA (miRNA) precursor mir-5728 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61661 -2.89789 1600000 200096 179 84 1 -3.45170 0.71899 2020-11-26 11:32:20 2020-12-09 15:48:43 RF03605 MIR4221 1287 MIR4221 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 129.80 72.10 This family represents the microRNA (miRNA) precursor MIR4221 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.62181 -4.02182 1600000 229793 243 132 1 -3.06510 0.71821 2020-11-26 11:32:38 2021-07-05 13:43:57 RF03606 mir-2071 1287 mir-2071 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 106.70 37.70 This family represents the microRNA (miRNA) precursor mir-2071 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.73439 -2.20700 1600000 273707 165 74 1 -3.46050 0.71907 2020-11-26 11:32:56 2021-07-05 13:43:57 RF03607 mir-9447 1287 mir-9447 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 67.00 67.50 66.10 This family represents the microRNA (miRNA) precursor mir-9447 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60145 -4.42565 1600000 264121 157 68 1 -3.38890 0.72238 2020-11-26 11:33:31 2020-12-09 15:48:43 RF03608 mir-9440 1287 mir-9440 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.70 79.10 This family represents the microRNA (miRNA) precursor mir-9440 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 355 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.67976 -2.66487 1600000 215982 156 68 1 -3.92560 0.71904 2020-11-26 11:33:54 2020-12-09 15:48:43 RF03609 mir-5470 1287 mir-5470 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 98.00 98.00 56.10 This family represents the microRNA (miRNA) precursor mir-5470 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.64151 -3.13858 1600000 193464 174 81 1 -3.35420 0.72124 2020-11-26 11:34:20 2020-12-09 15:48:43 RF03610 mir-H7 1287 mir-H7 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 94.00 94.00 51.10 This family represents the microRNA (miRNA) precursor mir-H7 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.54728 -5.41723 1600000 293985 158 69 1 -3.49440 0.72356 2020-11-26 11:34:37 2021-07-05 13:43:57 RF03611 mir-7147 1287 mir-7147 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 93.30 75.40 This family represents the microRNA (miRNA) precursor mir-7147 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.64897 -3.99412 1600000 284629 144 58 1 -3.32080 0.72649 2020-11-26 11:34:55 2021-07-05 13:43:57 RF03612 mir-608 1287 mir-608 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 96.20 78.70 This family represents the microRNA (miRNA) precursor mir-608 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.55606 -4.92865 1600000 254480 177 82 1 -3.47270 0.71885 2020-11-26 11:35:24 2021-07-05 13:43:57 RF03613 MIR6234 1287 MIR6234 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.00 89.20 This family represents the microRNA (miRNA) precursor MIR6234 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 11 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.68653 -3.51292 1600000 248213 265 146 1 -3.31810 0.71831 2020-11-26 11:35:42 2020-12-09 15:48:43 RF03614 mir-3431 1287 mir-3431 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 114.30 97.60 This family represents the microRNA (miRNA) precursor mir-3431 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.68830 -2.08198 1600000 186729 183 86 1 -3.38770 0.71901 2020-11-26 11:36:00 2021-07-05 13:43:57 RF03615 mir-4877 1287 mir-4877 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 110.00 51.00 This family represents the microRNA (miRNA) precursor mir-4877 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.59439 -3.84085 1600000 184124 183 87 1 -3.39350 0.71890 2020-11-26 11:36:17 2021-07-05 13:43:57 RF03616 MIR1888 1287 MIR1888 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 72.00 72.20 71.80 This family represents the microRNA (miRNA) precursor MIR1888 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 20 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.62728 -2.77543 1600000 198811 202 101 1 -3.21890 0.71881 2020-11-26 11:36:46 2020-12-09 15:48:43 RF03617 MIR8757 1287 MIR8757 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 83.00 83.00 78.20 This family represents the microRNA (miRNA) precursor MIR8757 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 12 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.65468 -3.26878 1600000 211619 163 72 1 -2.87430 0.72575 2020-11-26 11:37:08 2020-12-09 15:48:43 RF03618 mir-5592 1287 mir-5592 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 82.00 82.80 54.40 This family represents the microRNA (miRNA) precursor mir-5592 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.55682 -5.10227 1600000 292453 154 66 1 -3.25220 0.72620 2020-11-26 11:37:26 2020-12-09 15:48:43 RF03619 mir-5729 1287 mir-5729 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 41.00 41.90 40.20 This family represents the microRNA (miRNA) precursor mir-5729 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63599 -2.98453 1600000 191580 172 79 1 -3.34860 0.71912 2020-11-26 11:37:47 2020-12-09 15:48:43 RF03620 mir-1233 1287 mir-1233 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 87.00 87.50 86.70 This family represents the microRNA (miRNA) precursor mir-1233 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 111 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.54916 -4.59183 1600000 187694 177 82 1 -3.30350 0.71891 2020-11-26 11:38:32 2021-07-05 13:43:57 RF03621 MIR4245 1287 MIR4245 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 74.00 74.10 71.10 This family represents the microRNA (miRNA) precursor MIR4245 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.55127 -4.83614 1600000 211651 238 128 1 -2.95670 0.71838 2020-11-26 11:38:55 2021-07-05 13:43:57 RF03622 mir-731 1287 mir-731 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 70.10 69.90 This family represents the microRNA (miRNA) precursor mir-731 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.60370 -3.21674 1600000 211266 186 90 1 -3.21170 0.72121 2020-11-26 11:39:15 2020-12-09 15:48:43 RF03623 mir-1252 1287 mir-1252 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 78.60 68.30 This family represents the microRNA (miRNA) precursor mir-1252 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.54561 -4.90047 1600000 292485 151 65 1 -3.40040 0.71924 2020-11-26 11:39:47 2021-07-05 13:43:57 RF03624 mir-5345 1287 mir-5345 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 95.60 45.30 This family represents the microRNA (miRNA) precursor mir-5345 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.65476 -3.49792 1600000 223331 168 76 1 -3.40270 0.72155 2020-11-26 11:40:08 2020-12-09 15:48:43 RF03625 MIR6152 1287 MIR6152 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 57.00 57.10 56.90 This family represents the microRNA (miRNA) precursor MIR6152 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4031 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.61205 -2.83478 1600000 180637 198 97 1 -3.11410 0.71854 2020-11-26 11:44:09 2020-12-09 15:48:43 RF03626 mir-9791 1287 mir-9791 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 74.30 49.30 This family represents the microRNA (miRNA) precursor mir-9791 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64441 -3.39200 1600000 238030 172 79 1 -3.29080 0.71891 2020-11-26 11:44:40 2020-12-09 15:48:43 RF03627 mir-9168 1287 mir-9168 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 120.10 40.40 This family represents the microRNA (miRNA) precursor mir-9168 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64734 -2.52453 1600000 197466 195 95 1 -3.46680 0.71869 2020-11-26 11:45:01 2020-12-09 15:48:43 RF03628 mir-2355 1287 mir-2355 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.20 78.80 This family represents the microRNA (miRNA) precursor mir-2355 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 27 0 0 Gene; miRNA; Predicted; RNAalifold 27 0 \N 0.66161 -2.81100 1600000 214660 161 71 1 -3.48370 0.72218 2020-11-26 11:46:02 2020-12-09 15:48:43 RF03629 mir-641 1287 mir-641 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 103.50 74.10 This family represents the microRNA (miRNA) precursor mir-641 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.59078 -3.97599 1600000 184148 199 98 1 -3.49340 0.71871 2020-11-26 11:46:25 2020-12-09 15:48:43 RF03630 mir-2818 1287 mir-2818 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.10 89.90 This family represents the microRNA (miRNA) precursor mir-2818 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 947 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66247 -3.18803 1600000 285506 147 60 1 -3.17630 0.72556 2020-11-26 11:46:51 2020-12-09 15:48:43 RF03631 MIR3440 1287 MIR3440 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 105.00 115.40 104.30 This family represents the microRNA (miRNA) precursor MIR3440 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.65365 -3.49614 1600000 190212 238 127 1 -3.08920 0.71858 2020-11-26 11:47:10 2021-07-05 13:43:57 RF03632 MIR1882 1287 MIR1882 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 107.00 107.30 105.40 This family represents the microRNA (miRNA) precursor MIR1882 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 8 97 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.61786 -3.69850 1600000 173326 243 131 1 -2.97760 0.71857 2020-11-26 11:47:51 2021-07-05 13:43:57 RF03633 mir-5882 1287 mir-5882 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 95.80 90.60 This family represents the microRNA (miRNA) precursor mir-5882 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.59695 -3.39822 1600000 234116 169 77 1 -3.02160 0.72637 2020-11-26 11:48:14 2020-12-09 15:48:44 RF03634 mir-3524 1287 mir-3524 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 99.00 99.60 87.90 This family represents the microRNA (miRNA) precursor mir-3524 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.68205 -2.46970 1600000 214579 179 84 1 -3.09270 0.72660 2020-11-26 11:48:33 2020-12-09 15:48:44 RF03635 mir-2066 1287 mir-2066 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 104.20 47.10 This family represents the microRNA (miRNA) precursor mir-2066 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.60885 -4.05917 1600000 229394 163 72 1 -3.29710 0.72051 2020-11-26 11:48:51 2021-07-05 13:43:57 RF03636 MIR4376 1287 MIR4376 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 60.60 54.70 This family represents the microRNA (miRNA) precursor MIR4376 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.64029 -3.37037 1600000 192111 184 88 1 -3.43550 0.71880 2020-11-26 11:49:13 2020-12-09 15:48:44 RF03637 mir-5879 1287 mir-5879 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 97.00 97.70 71.40 This family represents the microRNA (miRNA) precursor mir-5879 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.68219 -2.48213 1600000 215394 168 76 1 -2.99070 0.72429 2020-11-26 11:49:32 2020-12-09 15:48:44 RF03638 mir-1537 1287 mir-1537 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 63.00 63.30 60.00 This family represents the microRNA (miRNA) precursor mir-1537 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.63594 -3.63695 1600000 288127 148 61 1 -3.33790 0.72650 2020-11-26 11:50:01 2021-07-05 13:43:57 RF03639 mir-619 1287 mir-619 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 81.90 50.70 This family represents the microRNA (miRNA) precursor mir-619 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.66963 -3.41785 1600000 265316 159 70 1 -3.29560 0.71916 2020-11-26 11:50:34 2021-07-05 13:43:57 RF03640 mir-3747 1287 mir-3747 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 63.00 63.80 61.40 This family represents the microRNA (miRNA) precursor mir-3747 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62876 -3.81512 1600000 258387 156 67 1 -2.61580 0.72869 2020-11-26 11:50:56 2020-12-09 15:48:44 RF03641 mir-991 1287 mir-991 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 109.00 58.10 This family represents the microRNA (miRNA) precursor mir-991 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.64548 -2.87929 1600000 231471 184 88 1 -2.95260 0.71882 2020-11-26 11:51:14 2020-12-09 15:48:44 RF03642 MIR5743 1287 MIR5743 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 111.00 111.60 60.20 This family represents the microRNA (miRNA) precursor MIR5743 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61693 -2.97136 1600000 215153 175 81 1 -3.50160 0.71903 2020-11-26 11:51:34 2020-12-09 15:48:44 RF03643 mir-2056 1287 mir-2056 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 102.40 47.10 This family represents the microRNA (miRNA) precursor mir-2056 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61366 -3.88130 1600000 226506 165 74 1 -3.29100 0.72093 2020-11-26 11:51:51 2021-07-05 13:43:57 RF03644 mir-2064 1287 mir-2064 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 101.90 51.10 This family represents the microRNA (miRNA) precursor mir-2064 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.67387 -3.44369 1600000 256545 160 70 1 -3.64100 0.72179 2020-11-26 11:52:09 2021-07-05 13:43:57 RF03645 mir-9080 1287 mir-9080 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 100.50 80.10 This family represents the microRNA (miRNA) precursor mir-9080 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.67494 -2.25398 1600000 191789 208 107 1 -3.29850 0.71862 2020-11-26 11:52:34 2020-12-09 15:48:44 RF03646 MIR9776 1287 MIR9776 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 110.30 75.70 This family represents the microRNA (miRNA) precursor MIR9776 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.53614 -4.91763 1600000 228538 180 84 1 -3.22830 0.71900 2020-11-26 11:52:51 2021-07-05 13:43:57 RF03647 mir-7640 1287 mir-7640 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 94.00 42.80 This family represents the microRNA (miRNA) precursor mir-7640 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.69480 -2.78588 1600000 290959 147 60 1 -3.36340 0.72625 2020-11-26 11:53:09 2020-12-09 15:48:44 RF03648 mir-9413 1287 mir-9413 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 101.40 62.60 This family represents the microRNA (miRNA) precursor mir-9413 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62514 -3.64074 1600000 277366 157 68 1 -3.21040 0.72253 2020-11-26 11:53:26 2020-12-09 15:48:44 RF03649 MIR5643 1287 MIR5643 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 94.00 94.40 93.90 This family represents the microRNA (miRNA) precursor MIR5643 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 32 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62133 -3.17042 1600000 220787 178 83 1 -3.29480 0.71880 2020-11-26 11:53:45 2020-12-09 15:48:44 RF03650 mir-1290 1287 mir-1290 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 82.00 82.00 81.80 This family represents the microRNA (miRNA) precursor mir-1290 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 21 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.66075 -2.86650 1600000 272974 168 76 1 -3.55220 0.71906 2020-11-26 11:54:33 2021-07-05 13:43:57 RF03651 mir-2070 1287 mir-2070 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 95.40 47.70 This family represents the microRNA (miRNA) precursor mir-2070 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.64314 -4.04766 1600000 273958 161 71 1 -3.42010 0.72460 2020-11-26 11:54:57 2021-07-05 13:43:57 RF03652 mir-2329 1287 mir-2329 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 97.30 62.70 This family represents the microRNA (miRNA) precursor mir-2329 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62852 -3.44540 1600000 258687 155 66 1 -3.42360 0.72545 2020-11-26 11:55:15 2020-12-09 15:48:44 RF03653 mir-971 1287 mir-971 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 53.00 53.50 52.90 This family represents the microRNA (miRNA) precursor mir-971 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 39 0 0 Gene; miRNA; Predicted; RNAalifold 40 0 \N 0.61730 -3.65035 1600000 140562 161 77 1 -3.82820 0.71897 2020-11-26 11:55:40 2021-07-05 13:43:57 RF03654 MIR4239 1287 MIR4239 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 118.50 84.30 This family represents the microRNA (miRNA) precursor MIR4239 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.63085 -3.58840 1600000 190715 228 120 1 -3.21000 0.71858 2020-11-26 11:56:03 2021-07-05 13:43:57 RF03655 MIR1887 1287 MIR1887 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 97.00 55.90 This family represents the microRNA (miRNA) precursor MIR1887 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.65608 -2.56544 1600000 235529 151 63 1 -3.13190 0.72485 2020-11-26 11:56:21 2021-07-05 13:43:57 RF03656 mir-2432 1287 mir-2432 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 101.90 52.50 This family represents the microRNA (miRNA) precursor mir-2432 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.63069 -3.73124 1600000 250877 157 68 1 -3.44540 0.72211 2020-11-26 11:56:42 2021-07-05 13:43:57 RF03657 MIR6145 1287 MIR6145 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 53.40 53.40 53.20 This family represents the microRNA (miRNA) precursor MIR6145 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 27 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.62886 -3.66426 1600000 246574 171 78 1 -3.31150 0.72645 2020-11-26 11:57:03 2020-12-09 15:48:44 RF03658 mir-2300 1287 mir-2300 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 99.20 80.00 This family represents the microRNA (miRNA) precursor mir-2300 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.65272 -3.14896 1600000 252635 165 74 1 -3.28080 0.72285 2020-11-26 11:57:20 2020-12-09 15:48:44 RF03659 MIR2871 1287 MIR2871 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 99.00 99.30 65.00 This family represents the microRNA (miRNA) precursor MIR2871 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 15 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.57442 -4.77726 1600000 218411 227 118 1 -3.25890 0.71855 2020-11-26 11:57:48 2021-07-05 13:43:57 RF03660 mir-4018 1287 mir-4018 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 66.00 66.60 44.00 This family represents the microRNA (miRNA) precursor mir-4018 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63854 -3.48700 1600000 211959 138 54 1 -2.55380 0.74562 2020-11-26 11:58:05 2020-12-09 15:48:44 RF03661 mir-933 1287 mir-933 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 101.20 69.90 This family represents the microRNA (miRNA) precursor mir-933 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.65790 -2.97524 1600000 173248 169 77 1 -3.43440 0.71904 2020-11-26 11:58:35 2021-07-05 13:43:57 RF03662 mir-2060 1287 mir-2060 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 54.50 54.50 54.40 This family represents the microRNA (miRNA) precursor mir-2060 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 901 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.67325 -2.58381 1600000 153280 191 94 1 -3.58250 0.71876 2020-11-26 11:59:08 2021-07-05 13:43:57 RF03663 mir-5911 1287 mir-5911 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 84.00 84.00 83.90 This family represents the microRNA (miRNA) precursor mir-5911 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 17 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63517 -3.76556 1600000 258780 162 74 1 -3.50090 0.71911 2020-11-26 11:59:48 2020-12-09 15:48:44 RF03664 MIR6288 1287 MIR6288 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 74.00 74.00 73.80 This family represents the microRNA (miRNA) precursor MIR6288 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 43 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61976 -3.30418 1600000 182303 189 92 1 -3.20900 0.71892 2020-11-26 12:00:11 2020-12-09 15:48:44 RF03665 MIR4359 1287 MIR4359 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 75.00 75.00 74.90 This family represents the microRNA (miRNA) precursor MIR4359 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 101 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.62472 -2.76858 1600000 270246 156 67 1 -2.66690 0.72991 2020-11-26 12:00:40 2020-12-09 15:48:44 RF03666 MIR7724 1287 MIR7724 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 197.00 89.80 This family represents the microRNA (miRNA) precursor MIR7724 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.59893 -6.17884 1600000 256533 294 169 1 -3.01830 0.71604 2020-11-26 12:00:59 2020-12-09 15:48:44 RF03667 MIR1031 1287 MIR1031 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 197.80 57.80 This family represents the microRNA (miRNA) precursor MIR1031 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.59869 -9.04170 1600000 325240 308 183 1 -3.22370 0.71406 2020-11-26 12:01:15 2020-12-09 15:48:44 RF03668 mir-1788 1287 mir-1788 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 57.00 57.70 55.00 This family represents the microRNA (miRNA) precursor mir-1788 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 55 0 0 Gene; miRNA; Predicted; RNAalifold 55 0 \N 0.65422 -3.47570 1600000 150515 160 77 1 -3.48480 0.71922 2020-11-26 12:02:05 2021-07-05 13:43:57 RF03669 mir-2767 1287 mir-2767 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 69.00 69.10 59.10 This family represents the microRNA (miRNA) precursor mir-2767 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 4 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.62272 -2.87879 1600000 224583 167 80 1 -3.53840 0.71903 2020-11-26 12:02:37 2021-07-05 13:43:57 RF03670 MIR3932 1287 MIR3932 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 150.00 153.10 71.70 This family represents the microRNA (miRNA) precursor MIR3932 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60430 -3.67648 1600000 189789 233 123 1 -3.42740 0.71838 2020-11-26 12:02:58 2020-12-09 15:48:44 RF03671 MIR3522 1287 MIR3522 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 107.20 54.90 This family represents the microRNA (miRNA) precursor MIR3522 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.60414 -3.88450 1600000 204677 186 89 1 -3.14020 0.71876 2020-11-26 12:03:14 2020-12-09 15:48:44 RF03672 MIR840 1287 MIR840 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 150.00 158.90 140.10 This family represents the microRNA (miRNA) precursor MIR840 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.55763 -5.27737 1600000 207247 266 147 1 -3.31560 0.71821 2020-11-26 12:03:31 2021-07-05 13:43:57 RF03673 mir-2822 1287 mir-2822 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 84.00 84.10 83.90 This family represents the microRNA (miRNA) precursor mir-2822 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 554 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.59368 -3.77369 1600000 259854 156 67 1 -3.36860 0.72396 2020-11-26 12:03:53 2020-12-09 15:48:44 RF03674 MIR5387 1287 MIR5387 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 69.00 69.00 68.90 This family represents the microRNA (miRNA) precursor MIR5387 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 968 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.61061 -3.81696 1600000 172935 194 96 1 -3.11990 0.71877 2020-11-26 12:05:35 2020-12-09 15:48:44 RF03675 mir-1001 1287 mir-1001 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 117.10 52.40 This family represents the microRNA (miRNA) precursor mir-1001 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.59699 -4.03698 1600000 210567 188 90 1 -2.97410 0.71875 2020-11-26 12:05:54 2021-07-05 13:43:57 RF03676 MIR5148 1287 MIR5148 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 93.50 93.60 93.40 This family represents the microRNA (miRNA) precursor MIR5148 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 306 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.62029 -3.40015 1600000 185915 170 78 1 -3.31250 0.71895 2020-11-26 12:07:03 2021-07-05 13:43:57 RF03677 mir-1304 1287 mir-1304 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.80 87.70 This family represents the microRNA (miRNA) precursor mir-1304 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.61935 -3.37456 1600000 193480 183 87 1 -3.40090 0.71903 2020-11-26 12:07:30 2021-07-05 13:43:57 RF03678 mir-3956 1287 mir-3956 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 119.60 90.50 This family represents the microRNA (miRNA) precursor mir-3956 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.57415 -3.96842 1600000 179381 199 98 1 -3.46360 0.71879 2020-11-26 12:07:49 2020-12-09 15:48:45 RF03679 MIR2084 1287 MIR2084 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 119.70 73.50 This family represents the microRNA (miRNA) precursor MIR2084 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.67820 -1.82389 1600000 145241 209 107 1 -3.47320 0.71873 2020-11-26 12:08:06 2020-12-09 15:48:45 RF03680 mir-9465 1287 mir-9465 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 63.00 63.20 36.70 This family represents the microRNA (miRNA) precursor mir-9465 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62828 -4.08107 1600000 212007 165 74 1 -3.27800 0.72065 2020-11-26 12:08:23 2020-12-09 15:48:45 RF03681 mir-1295 1287 mir-1295 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 102.80 73.00 This family represents the microRNA (miRNA) precursor mir-1295 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 8 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.59550 -4.14414 1600000 236619 171 78 1 -3.68790 0.71908 2020-11-26 12:08:55 2021-07-05 13:43:57 RF03682 mir-3912 1287 mir-3912 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 95.10 92.50 This family represents the microRNA (miRNA) precursor mir-3912 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.61081 -3.57602 1600000 201009 189 91 1 -3.30660 0.71892 2020-11-26 12:09:27 2021-07-05 13:43:57 RF03683 mir-462 1287 mir-462 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 98.80 47.30 This family represents the microRNA (miRNA) precursor mir-462 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63343 -3.94073 1600000 243203 152 64 1 -3.48060 0.72376 2020-11-26 12:09:56 2021-07-05 13:43:57 RF03684 mir-1990 1287 mir-1990 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 63.00 63.70 62.10 This family represents the microRNA (miRNA) precursor mir-1990 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 2 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.68437 -3.13395 1600000 142860 158 75 1 -3.22880 0.72003 2020-11-26 12:10:15 2021-07-05 13:43:57 RF03685 MIR9677 1287 MIR9677 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 94.00 63.10 This family represents the microRNA (miRNA) precursor MIR9677 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.59348 -3.94107 1600000 225965 184 87 1 -3.16530 0.71889 2020-11-26 12:10:34 2021-07-05 13:43:57 RF03686 mir-9424 1287 mir-9424 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 97.10 60.10 This family represents the microRNA (miRNA) precursor mir-9424 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66250 -2.78550 1600000 220391 157 68 1 -3.35380 0.72582 2020-11-26 12:10:51 2020-12-09 15:48:45 RF03687 mir-2011 1287 mir-2011 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 83.50 59.40 This family represents the microRNA (miRNA) precursor mir-2011 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 1 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.61145 -3.50325 1600000 196824 174 83 1 -3.69970 0.71909 2020-11-26 12:11:29 2021-07-05 13:43:57 RF03688 mir-3045 1287 mir-3045 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.00 88.30 This family represents the microRNA (miRNA) precursor mir-3045 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66600 -3.09365 1600000 277725 166 75 1 -3.21590 0.72295 2020-11-26 12:11:50 2020-12-09 15:48:45 RF03689 mir-5892 1287 mir-5892 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 82.00 82.50 64.90 This family represents the microRNA (miRNA) precursor mir-5892 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.62882 -3.28014 1600000 221514 188 90 1 -3.42500 0.71895 2020-11-26 12:12:07 2020-12-09 15:48:45 RF03690 mir-9058 1287 mir-9058 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.00 79.90 This family represents the microRNA (miRNA) precursor mir-9058 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 895 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.57942 -3.48973 1600000 179504 198 97 1 -3.21130 0.71880 2020-11-26 12:14:47 2020-12-09 15:48:45 RF03691 mir-2765 1287 mir-2765 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 58.00 58.80 55.90 This family represents the microRNA (miRNA) precursor mir-2765 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 53 0 0 Gene; miRNA; Predicted; RNAalifold 53 0 \N 0.65451 -2.45379 1600000 150561 170 83 1 -3.72920 0.71895 2020-11-26 12:15:16 2021-07-05 13:43:57 RF03692 MIR827 1287 MIR827 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 65.00 65.10 63.90 This family represents the microRNA (miRNA) precursor MIR827 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 31 0 0 Gene; miRNA; Predicted; RNAalifold 30 0 \N 0.58969 -3.84076 1600000 186227 227 125 1 -2.90450 0.71836 2020-11-26 12:15:52 2021-07-05 13:43:57 RF03693 MIR1919 1287 MIR1919 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 85.00 85.90 68.40 This family represents the microRNA (miRNA) precursor MIR1919 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 13 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.62660 -3.26607 1600000 168172 561 123 1 -3.25260 0.71829 2020-11-26 12:16:24 2021-07-05 13:43:57 RF03694 mir-266 1287 mir-266 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.00 79.90 This family represents the microRNA (miRNA) precursor mir-266 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 33 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.59938 -4.36560 1600000 244776 177 83 1 -3.14370 0.72244 2020-11-26 12:16:47 2020-12-09 15:48:45 RF03695 MIR6151 1287 MIR6151 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 71.00 71.30 70.70 This family represents the microRNA (miRNA) precursor MIR6151 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 9 612 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.68458 -3.10399 1600000 204670 158 71 1 -4.03070 0.71917 2020-11-26 12:17:43 2020-12-09 15:48:45 RF03696 mir-4904 1287 mir-4904 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 109.20 43.80 This family represents the microRNA (miRNA) precursor mir-4904 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.59138 -4.21691 1600000 205749 172 79 1 -3.61720 0.71895 2020-11-26 12:18:07 2021-07-05 13:43:57 RF03697 mir-722 1287 mir-722 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 81.00 81.00 55.30 This family represents the microRNA (miRNA) precursor mir-722 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 28 0 0 Gene; miRNA; Predicted; RNAalifold 15 0 \N 0.62768 -3.26947 1600000 285511 154 67 1 -3.50100 0.71918 2020-11-26 12:18:38 2021-07-05 13:43:57 RF03698 mir-2861 1287 mir-2861 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 89.00 89.30 56.20 This family represents the microRNA (miRNA) precursor mir-2861 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 21 0 0 Gene; miRNA; Predicted; RNAalifold 21 0 \N 0.56417 -3.79218 1600000 219619 176 82 1 -2.92250 0.71891 2020-11-26 12:19:24 2020-12-09 15:48:45 RF03699 mir-729 1287 mir-729 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 61.00 61.70 60.90 This family represents the microRNA (miRNA) precursor mir-729 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.62897 -2.74616 1600000 178212 181 87 1 -3.22060 0.72145 2020-11-26 12:21:20 2020-12-09 15:48:45 RF03700 mir-1923 1287 mir-1923 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 94.00 94.00 92.80 This family represents the microRNA (miRNA) precursor mir-1923 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 46 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.66446 -2.61188 1600000 215222 177 83 1 -3.08470 0.71876 2020-11-26 12:21:36 2020-12-09 15:48:45 RF03701 mir-4041 1287 mir-4041 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 74.00 74.80 51.70 This family represents the microRNA (miRNA) precursor mir-4041 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60807 -3.36900 1600000 279678 138 54 1 -2.94870 0.73871 2020-11-26 12:21:53 2020-12-09 15:48:45 RF03702 MIR851 1287 MIR851 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 92.80 77.60 This family represents the microRNA (miRNA) precursor MIR851 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.60790 -3.78423 1600000 210144 211 108 1 -3.02260 0.71864 2020-11-26 12:22:10 2021-07-05 13:43:57 RF03703 mir-3622 1287 mir-3622 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 78.00 78.50 72.10 This family represents the microRNA (miRNA) precursor mir-3622 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.56621 -4.60823 1600000 216220 178 84 1 -2.84720 0.71926 2020-11-26 12:22:31 2020-12-09 15:48:45 RF03704 MIR4380 1287 MIR4380 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 83.00 83.50 82.90 This family represents the microRNA (miRNA) precursor MIR4380 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 7 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61562 -3.39388 1600000 155433 173 82 1 -4.03990 0.71909 2020-11-26 12:22:51 2020-12-09 15:48:45 RF03705 mir-1278 1287 mir-1278 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 61.00 61.60 60.40 This family represents the microRNA (miRNA) precursor mir-1278 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 13 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.64235 -3.47909 1600000 252784 169 77 1 -3.89010 0.71906 2020-11-26 12:23:21 2020-12-09 15:48:45 RF03706 mir-2253 1287 mir-2253 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 47.00 47.70 46.90 This family represents the microRNA (miRNA) precursor mir-2253 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62614 -4.41206 1600000 297930 137 57 1 -3.91690 0.71944 2020-11-26 12:23:40 2020-12-09 15:48:45 RF03707 mir-1892 1287 mir-1892 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 86.00 86.70 82.40 This family represents the microRNA (miRNA) precursor mir-1892 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.67018 -3.16062 1600000 262459 173 80 1 -3.38710 0.72108 2020-11-26 12:24:02 2020-12-09 15:48:45 RF03709 MIR1878 1287 MIR1878 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 77.90 62.60 This family represents the microRNA (miRNA) precursor MIR1878 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 20 0 0 Gene; miRNA; Predicted; RNAalifold 20 0 \N 0.60988 -3.09858 1600000 196608 200 100 1 -3.05730 0.71864 2020-11-26 12:24:40 2021-07-05 13:43:57 RF03710 mir-1451 1287 mir-1451 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 85.00 87.30 84.50 This family represents the microRNA (miRNA) precursor mir-1451 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 46 0 0 Gene; miRNA; Predicted; RNAalifold 46 0 \N 0.50973 -5.21452 1600000 212436 190 92 1 -3.08510 0.71897 2020-11-26 12:25:08 2020-12-09 15:48:45 RF03711 mir-784 1287 mir-784 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 94.00 94.10 53.00 This family represents the microRNA (miRNA) precursor mir-784 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63434 -3.29102 1600000 196208 169 77 1 -3.34080 0.72417 2020-11-26 12:25:26 2020-12-09 15:48:45 RF03712 MIR6450 1287 MIR6450 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 70.20 69.70 This family represents the microRNA (miRNA) precursor MIR6450 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 41 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.62775 -3.29271 1600000 207089 208 107 1 -3.07520 0.71869 2020-11-26 12:25:46 2020-12-09 15:48:45 RF03713 mir-1756 1287 mir-1756 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 100.50 97.10 This family represents the microRNA (miRNA) precursor mir-1756 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.60868 -3.80340 1600000 222391 186 90 1 -3.16680 0.72189 2020-11-26 12:26:06 2020-12-09 15:48:45 RF03714 MIR774 1287 MIR774 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 81.90 69.20 This family represents the microRNA (miRNA) precursor MIR774 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 4 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.59704 -3.60160 1600000 181947 195 98 1 -3.72990 0.71879 2020-11-26 12:26:26 2021-07-05 13:43:57 RF03715 mir-977 1287 mir-977 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 109.00 109.80 59.60 This family represents the microRNA (miRNA) precursor mir-977 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61672 -3.22713 1600000 168556 187 90 1 -3.52270 0.71892 2020-11-26 12:26:46 2020-12-09 15:48:45 RF03716 mir-7131 1287 mir-7131 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 74.00 74.80 73.90 This family represents the microRNA (miRNA) precursor mir-7131 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 41 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64581 -2.86489 1600000 208512 178 84 1 -3.32550 0.71916 2020-11-26 12:27:05 2020-12-09 15:48:45 RF03717 mir-3119 1287 mir-3119 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 87.30 70.50 This family represents the microRNA (miRNA) precursor mir-3119 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 16 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.66555 -2.33936 1600000 214679 180 85 1 -2.90390 0.72041 2020-11-26 12:27:41 2020-12-09 15:48:45 RF03718 mir-2804 1287 mir-2804 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 86.00 86.50 84.30 This family represents the microRNA (miRNA) precursor mir-2804 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 118 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64953 -2.09129 1600000 231217 170 78 1 -3.59560 0.71909 2020-11-26 12:28:03 2020-12-09 15:48:45 RF03719 mir-3914 1287 mir-3914 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 97.00 97.60 91.60 This family represents the microRNA (miRNA) precursor mir-3914 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.68453 -1.84591 1600000 185579 193 95 1 -3.40990 0.71909 2020-11-26 12:28:26 2020-12-09 15:48:45 RF03720 MIR4228 1287 MIR4228 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 180.00 180.90 104.80 This family represents the microRNA (miRNA) precursor MIR4228 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.70953 -3.27369 1600000 219098 272 152 1 -3.15410 0.71820 2020-11-26 12:28:47 2021-07-05 13:43:57 RF03721 mir-3478 1287 mir-3478 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 66.00 66.10 43.60 This family represents the microRNA (miRNA) precursor mir-3478 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.66650 -3.36076 1600000 223967 170 78 1 -3.37420 0.72328 2020-11-26 12:29:05 2021-07-05 13:43:57 RF03722 MIR4378 1287 MIR4378 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 98.40 76.80 This family represents the microRNA (miRNA) precursor MIR4378 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.57676 -4.14956 1600000 207432 187 91 1 -3.04610 0.72196 2020-11-26 12:29:24 2020-12-09 15:48:45 RF03723 MIR7125 1287 MIR7125 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 115.90 73.00 This family represents the microRNA (miRNA) precursor MIR7125 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.68242 -2.21689 1600000 201497 210 107 1 -2.99500 0.71876 2020-11-26 12:29:40 2021-07-05 13:43:57 RF03724 mir-1013 1287 mir-1013 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 66.80 36.70 This family represents the microRNA (miRNA) precursor mir-1013 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.60353 -4.06196 1600000 251833 148 61 1 -3.25670 0.72500 2020-11-26 12:29:58 2020-12-09 15:48:45 RF03725 mir-7094 1287 mir-7094 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 93.30 72.10 This family represents the microRNA (miRNA) precursor mir-7094 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64426 -4.03450 1600000 271348 147 60 1 -3.49050 0.72611 2020-11-26 12:30:17 2020-12-09 15:48:46 RF03726 mir-m21-1 1287 mir-m21-1 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 84.00 84.40 47.80 This family represents the microRNA (miRNA) precursor mir-m21-1 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.60844 -3.92173 1600000 243649 165 74 1 -2.68690 0.73257 2020-11-26 12:30:33 2020-12-09 15:48:46 RF03727 mir-3477 1287 mir-3477 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 108.00 108.60 100.90 This family represents the microRNA (miRNA) precursor mir-3477 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.62117 -3.07611 1600000 206634 189 92 1 -3.24830 0.71874 2020-11-26 12:30:49 2021-07-05 13:43:57 RF03728 MIR1511 1287 MIR1511 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 102.20 59.70 This family represents the microRNA (miRNA) precursor MIR1511 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.59856 -3.86578 1600000 217624 180 85 1 -3.49860 0.72193 2020-11-26 12:31:09 2021-07-05 13:43:57 RF03729 mir-2363 1287 mir-2363 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 99.30 69.00 This family represents the microRNA (miRNA) precursor mir-2363 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60065 -3.36669 1600000 241980 163 72 1 -2.79180 0.72454 2020-11-26 12:31:30 2020-12-09 15:48:46 RF03730 mir-7615 1287 mir-7615 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 98.40 45.20 This family represents the microRNA (miRNA) precursor mir-7615 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.67957 -2.98348 1600000 270172 152 64 1 -3.23910 0.72389 2020-11-26 12:31:47 2020-12-09 15:48:46 RF03731 mir-7371 1287 mir-7371 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 62.60 62.60 57.30 This family represents the microRNA (miRNA) precursor mir-7371 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 10 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.59638 -3.35586 1600000 263342 135 59 1 -3.66980 0.71938 2020-11-26 12:32:15 2020-12-09 15:48:46 RF03732 mir-2057 1287 mir-2057 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 100.80 50.70 This family represents the microRNA (miRNA) precursor mir-2057 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.62627 -3.73174 1600000 248026 163 72 1 -3.49710 0.72168 2020-11-26 12:32:39 2021-07-05 13:43:57 RF03733 mir-BART14 1287 mir-BART14 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 95.00 57.80 This family represents the microRNA (miRNA) precursor mir-BART14 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63090 -3.10924 1600000 210736 170 78 1 -3.30860 0.72363 2020-11-26 12:32:57 2021-07-05 13:43:57 RF03734 mir-4773 1287 mir-4773 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 100.60 73.40 This family represents the microRNA (miRNA) precursor mir-4773 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.56061 -4.85900 1600000 235993 171 78 1 -3.30650 0.71987 2020-11-26 12:33:34 2020-12-09 15:48:46 RF03735 mir-1502 1287 mir-1502 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 66.00 66.20 54.70 This family represents the microRNA (miRNA) precursor mir-1502 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.55109 -3.48155 1600000 232700 145 59 1 -2.08550 0.74162 2020-11-26 12:33:50 2020-12-09 15:48:46 RF03736 mir-3130 1287 mir-3130 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 95.00 83.10 This family represents the microRNA (miRNA) precursor mir-3130 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.61066 -3.80649 1600000 227729 167 75 1 -3.28110 0.72142 2020-11-26 12:34:11 2020-12-09 15:48:46 RF03737 mir-8315 1287 mir-8315 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 86.10 35.40 This family represents the microRNA (miRNA) precursor mir-8315 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.65430 -3.68011 1600000 293574 146 60 1 -3.09600 0.72912 2020-11-26 12:34:32 2020-12-09 15:48:46 RF03738 mir-2320 1287 mir-2320 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 95.80 68.60 This family represents the microRNA (miRNA) precursor mir-2320 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.59580 -4.14519 1600000 234636 166 75 1 -3.42900 0.71960 2020-11-26 12:34:51 2020-12-09 15:48:46 RF03739 mir-4529 1287 mir-4529 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 88.00 88.00 74.60 This family represents the microRNA (miRNA) precursor mir-4529 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 10 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.58976 -4.20005 1600000 193188 176 83 1 -3.35040 0.71916 2020-11-26 12:35:40 2021-07-05 13:43:57 RF03740 mir-921 1287 mir-921 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 86.20 70.30 This family represents the microRNA (miRNA) precursor mir-921 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.63390 -4.09111 1600000 292201 141 56 1 -2.85470 0.72819 2020-11-26 12:36:05 2021-07-05 13:43:57 RF03741 mir-325 1287 mir-325 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 89.00 89.50 68.10 This family represents the microRNA (miRNA) precursor mir-325 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 8 28 0 0 Gene; miRNA; Predicted; RNAalifold 28 0 \N 0.59202 -4.33076 1600000 169643 198 98 1 -3.28050 0.71860 2020-11-26 12:36:47 2021-07-05 13:43:57 RF03742 mir-2162 1287 mir-2162 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 65.00 68.10 60.60 This family represents the microRNA (miRNA) precursor mir-2162 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.61345 -4.12275 1600000 245741 168 76 1 -3.22250 0.72139 2020-11-26 12:37:17 2021-07-05 13:43:57 RF03743 MIR7696 1287 MIR7696 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 83.00 83.80 72.90 This family represents the microRNA (miRNA) precursor MIR7696 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.59707 -3.85834 1600000 219622 184 88 1 -2.99920 0.71895 2020-11-26 12:37:37 2020-12-09 15:48:46 RF03744 MIR3704 1287 MIR3704 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 78.20 57.40 This family represents the microRNA (miRNA) precursor MIR3704 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.58726 -4.01108 1600000 206018 254 108 1 -3.06410 0.71858 2020-11-26 12:37:57 2021-07-05 13:43:57 RF03745 mir-2063 1287 mir-2063 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 107.60 44.80 This family represents the microRNA (miRNA) precursor mir-2063 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.60444 -3.42780 1600000 246638 169 77 1 -3.53780 0.71913 2020-11-26 12:38:32 2021-07-05 13:43:57 RF03746 mir-2318 1287 mir-2318 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 92.70 78.10 This family represents the microRNA (miRNA) precursor mir-2318 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.65715 -3.04532 1600000 223247 171 79 1 -3.20940 0.72076 2020-11-26 12:38:51 2021-07-05 13:43:57 RF03747 mir-4536 1287 mir-4536 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 76.00 76.30 71.20 This family represents the microRNA (miRNA) precursor mir-4536 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 14 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.57201 -4.44655 1600000 242525 182 88 1 -3.20550 0.71887 2020-11-26 12:39:16 2020-12-09 15:48:46 RF03748 mir-2772 1287 mir-2772 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 110.00 112.80 37.30 This family represents the microRNA (miRNA) precursor mir-2772 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 3 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.67753 -2.41748 1600000 213630 182 86 1 -3.57940 0.71880 2020-11-26 12:39:42 2020-12-09 15:48:46 RF03749 MIR2617 1287 MIR2617 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 46.50 46.50 46.40 This family represents the microRNA (miRNA) precursor MIR2617 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 1170 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.54663 -4.38868 1600000 238240 181 86 1 -3.38830 0.71871 2020-11-26 12:40:57 2020-12-09 15:48:46 RF03750 mir-2489 1287 mir-2489 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 112.30 44.50 This family represents the microRNA (miRNA) precursor mir-2489 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.68660 -1.97815 1600000 196687 195 95 1 -3.20610 0.71879 2020-11-26 12:41:56 2020-12-09 15:48:46 RF03751 mir-7445 1287 mir-7445 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 79.00 79.90 58.50 This family represents the microRNA (miRNA) precursor mir-7445 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.59302 -2.99481 1600000 265569 147 60 1 -3.21670 0.73147 2020-11-26 12:42:15 2020-12-09 15:48:46 RF03752 MIR5292 1287 MIR5292 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 105.00 105.00 104.90 This family represents the microRNA (miRNA) precursor MIR5292 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 103 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60281 -2.61892 1600000 177074 193 94 1 -3.31630 0.71864 2020-11-26 12:42:42 2020-12-09 15:48:46 RF03753 mir-1986 1287 mir-1986 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 50.00 50.60 43.10 This family represents the microRNA (miRNA) precursor mir-1986 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.58090 -5.57900 1600000 383440 147 60 1 -2.94520 0.72979 2020-11-26 12:43:38 2021-07-05 13:43:57 RF03754 mir-3116 1287 mir-3116 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 65.00 65.00 63.20 This family represents the microRNA (miRNA) precursor mir-3116 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.65427 -3.15810 1600000 244918 157 68 1 -2.94240 0.72603 2020-11-26 12:44:02 2020-12-09 15:48:46 RF03755 mir-4005 1287 mir-4005 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 86.80 48.30 This family represents the microRNA (miRNA) precursor mir-4005 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63504 -4.11013 1600000 275072 138 54 1 -3.11610 0.73096 2020-11-26 12:44:21 2020-12-09 15:48:46 RF03756 mir-4891 1287 mir-4891 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 109.90 52.20 This family represents the microRNA (miRNA) precursor mir-4891 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.64242 -3.30735 1600000 193330 185 88 1 -3.39980 0.71886 2020-11-26 12:45:13 2021-07-05 13:43:57 RF03757 mir-6536 1287 mir-6536 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 102.70 91.60 This family represents the microRNA (miRNA) precursor mir-6536 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61784 -3.62289 1600000 216099 174 81 1 -3.51460 0.71967 2020-11-26 12:45:31 2020-12-09 15:48:46 RF03758 mir-2756 1287 mir-2756 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 61.00 61.30 60.30 This family represents the microRNA (miRNA) precursor mir-2756 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.67939 -2.48799 1600000 188992 170 78 1 -2.90810 0.72680 2020-11-26 12:45:59 2021-07-05 13:43:57 RF03759 MIR8703 1287 MIR8703 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 94.00 94.10 93.80 This family represents the microRNA (miRNA) precursor MIR8703 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 98 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.59315 -2.13714 1600000 239163 177 83 1 -3.06330 0.71889 2020-11-26 12:46:33 2020-12-09 15:48:46 RF03760 mir-2041 1287 mir-2041 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 70.30 67.90 This family represents the microRNA (miRNA) precursor mir-2041 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 25 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.59645 -4.44839 1600000 275518 154 68 1 -3.12040 0.71930 2020-11-26 12:46:54 2020-12-09 15:48:46 RF03761 mir-5897 1287 mir-5897 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 94.40 50.90 This family represents the microRNA (miRNA) precursor mir-5897 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.68243 -2.55835 1600000 246863 179 84 1 -3.76670 0.71931 2020-11-26 12:47:14 2020-12-09 15:48:46 RF03762 MIR859 1287 MIR859 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 130.00 138.40 84.90 This family represents the microRNA (miRNA) precursor MIR859 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.58364 -4.44516 1600000 212009 239 128 1 -3.16800 0.71833 2020-11-26 12:47:31 2022-10-29 16:42:07 RF03763 mir-2568 1287 mir-2568 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 92.40 58.50 This family represents the microRNA (miRNA) precursor mir-2568 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.66982 -2.60655 1600000 206188 184 88 1 -3.08460 0.72185 2020-11-26 12:47:49 2021-07-05 13:43:57 RF03764 mir-647 1287 mir-647 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 93.00 93.00 86.60 This family represents the microRNA (miRNA) precursor mir-647 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.54671 -4.43665 1600000 205409 183 86 1 -3.15390 0.71885 2020-11-26 12:48:09 2021-07-05 13:43:57 RF03765 mir-2059 1287 mir-2059 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 97.50 50.10 This family represents the microRNA (miRNA) precursor mir-2059 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61512 -4.25020 1600000 291232 157 68 1 -3.37570 0.72534 2020-11-26 12:48:31 2021-07-05 13:43:57 RF03766 mir-3155 1287 mir-3155 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 71.30 69.60 This family represents the microRNA (miRNA) precursor mir-3155 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.62159 -4.37657 1600000 230982 141 56 1 -2.46860 0.73611 2020-11-26 12:48:51 2020-12-09 15:48:46 RF03767 mir-3432 1287 mir-3432 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 81.20 74.00 This family represents the microRNA (miRNA) precursor mir-3432 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63578 -3.07340 1600000 210910 166 78 1 -3.55400 0.71896 2020-11-26 12:49:12 2021-07-05 13:43:57 RF03768 mir-1329 1287 mir-1329 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 101.20 101.20 101.10 This family represents the microRNA (miRNA) precursor mir-1329 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 47 0 0 Gene; miRNA; Predicted; RNAalifold 47 0 \N 0.61117 -3.55573 1600000 185270 179 85 1 -3.71030 0.71898 2020-11-26 12:49:49 2020-12-09 15:48:46 RF03769 mir-3913 1287 mir-3913 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 103.70 83.80 This family represents the microRNA (miRNA) precursor mir-3913 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.60780 -3.88710 1600000 197684 202 100 1 -3.40270 0.71899 2020-11-26 12:50:14 2020-12-09 15:48:46 RF03770 mir-125 1287 mir-125 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 88.00 88.80 57.60 This family represents the microRNA (miRNA) precursor mir-125 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.61840 -3.64534 1600000 219504 178 84 1 -3.01680 0.72024 2020-11-26 12:50:33 2021-07-05 13:43:57 RF03771 mir-341 1287 mir-341 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.40 65.20 This family represents the microRNA (miRNA) precursor mir-341 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.66611 -2.32053 1600000 143522 197 96 1 -3.43260 0.71872 2020-11-26 12:51:19 2020-12-09 15:48:46 RF03772 mir-4867 1287 mir-4867 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 93.00 93.70 36.50 This family represents the microRNA (miRNA) precursor mir-4867 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.65032 -2.64893 1600000 199086 164 73 1 -3.39930 0.72359 2020-11-26 12:51:40 2021-07-05 13:43:57 RF03773 mir-978 1287 mir-978 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 112.80 71.40 This family represents the microRNA (miRNA) precursor mir-978 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61617 -3.92579 1600000 251042 182 86 1 -3.34180 0.71893 2020-11-26 12:52:08 2021-07-05 13:43:57 RF03774 mir-2110 1287 mir-2110 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 97.90 84.00 This family represents the microRNA (miRNA) precursor mir-2110 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.58721 -4.19122 1600000 266317 167 75 1 -3.67310 0.71939 2020-11-26 12:52:35 2021-07-05 13:43:57 RF03775 mir-7578 1287 mir-7578 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 61.50 43.60 This family represents the microRNA (miRNA) precursor mir-7578 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.67103 -3.09265 1600000 232813 176 82 1 -3.39550 0.71898 2020-11-26 12:52:57 2020-12-09 15:48:47 RF03776 mir-2068 1287 mir-2068 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 99.00 99.60 51.80 This family represents the microRNA (miRNA) precursor mir-2068 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.68106 -3.07004 1600000 264204 157 68 1 -3.58040 0.72311 2020-11-26 12:53:12 2021-07-05 13:43:57 RF03777 MIR533 1287 MIR533 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.80 76.50 This family represents the microRNA (miRNA) precursor MIR533 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 5 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63282 -4.46499 1600000 216344 296 125 1 -3.39160 0.71833 2020-11-26 12:53:35 2020-12-09 15:48:47 RF03778 mir-483 1287 mir-483 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 66.60 56.00 This family represents the microRNA (miRNA) precursor mir-483 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 8 28 0 0 Gene; miRNA; Predicted; RNAalifold 30 0 \N 0.54847 -6.03630 1600000 222623 162 75 1 -3.83360 0.71920 2020-11-26 12:54:19 2021-07-05 13:43:57 RF03779 mir-1805 1287 mir-1805 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 64.00 64.30 58.00 This family represents the microRNA (miRNA) precursor mir-1805 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 61 0 0 Gene; miRNA; Predicted; RNAalifold 59 0 \N 0.67715 -2.72485 1600000 217797 178 84 1 -3.55150 0.71884 2020-11-26 12:55:03 2020-12-09 15:48:47 RF03780 mir-3389 1287 mir-3389 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 75.00 75.10 74.80 This family represents the microRNA (miRNA) precursor mir-3389 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 147 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.58269 -3.96580 1600000 187212 158 69 1 -2.86880 0.72588 2020-11-26 12:55:30 2021-07-05 13:43:57 RF03781 mir-4524 1287 mir-4524 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 68.00 68.60 66.30 This family represents the microRNA (miRNA) precursor mir-4524 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 10 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.66116 -2.52642 1600000 146963 176 84 1 -3.41380 0.71901 2020-11-26 12:55:53 2021-07-05 13:43:57 RF03782 mir-3661 1287 mir-3661 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 77.00 77.20 76.20 This family represents the microRNA (miRNA) precursor mir-3661 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 48 0 0 Gene; miRNA; Predicted; RNAalifold 32 0 \N 0.64028 -3.10715 1600000 191848 179 84 1 -3.45970 0.71899 2020-11-26 12:56:57 2021-07-05 13:43:57 RF03783 mir-4854 1287 mir-4854 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 110.60 56.90 This family represents the microRNA (miRNA) precursor mir-4854 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.58131 -3.88750 1600000 223844 186 89 1 -3.48120 0.71885 2020-11-26 12:57:16 2021-07-05 13:43:57 RF03784 mir-2240 1287 mir-2240 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 93.50 93.50 75.90 This family represents the microRNA (miRNA) precursor mir-2240 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 1 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61175 -3.02544 1600000 190264 195 97 1 -3.37490 0.71874 2020-11-26 12:57:39 2020-12-09 15:48:47 RF03785 mir-974 1287 mir-974 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 96.60 66.40 This family represents the microRNA (miRNA) precursor mir-974 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60968 -3.52061 1600000 227758 187 91 1 -3.60720 0.71874 2020-11-26 12:57:59 2020-12-09 15:48:47 RF03786 mir-9449 1287 mir-9449 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 102.00 54.90 This family represents the microRNA (miRNA) precursor mir-9449 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62560 -3.35670 1600000 232506 157 68 1 -3.49780 0.72257 2020-11-26 12:58:23 2020-12-09 15:48:47 RF03787 mir-2010 1287 mir-2010 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 66.00 66.80 46.60 This family represents the microRNA (miRNA) precursor mir-2010 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.56563 -4.55365 1600000 243557 168 76 1 -3.27150 0.72095 2020-11-26 12:58:40 2021-07-05 13:43:57 RF03788 MIR5304 1287 MIR5304 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 75.00 75.90 72.30 This family represents the microRNA (miRNA) precursor MIR5304 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.67892 -2.69649 1600000 220754 173 80 1 -3.40920 0.71939 2020-11-26 12:58:57 2020-12-09 15:48:47 RF03789 MIR5269 1287 MIR5269 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 60.00 59.90 This family represents the microRNA (miRNA) precursor MIR5269 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 371 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.59436 -3.46356 1600000 224328 173 80 1 -3.11820 0.72193 2020-11-26 12:59:45 2020-12-09 15:48:47 RF03790 MIR8008 1287 MIR8008 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 66.00 66.00 65.90 This family represents the microRNA (miRNA) precursor MIR8008 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 137 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63755 -4.06529 1600000 325742 140 55 1 -3.20040 0.73516 2020-11-26 13:00:07 2020-12-09 15:48:47 RF03791 mir-4526 1287 mir-4526 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 102.60 98.90 This family represents the microRNA (miRNA) precursor mir-4526 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.60360 -3.04350 1600000 191636 184 87 1 -3.15610 0.71886 2020-11-26 13:00:29 2021-07-05 13:43:57 RF03792 MIR6462 1287 MIR6462 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 96.00 96.20 72.00 This family represents the microRNA (miRNA) precursor MIR6462 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 14 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.54789 -5.07601 1600000 202137 226 119 1 -3.17740 0.71852 2020-11-26 13:00:53 2020-12-09 15:48:47 RF03793 MIR810 1287 MIR810 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 170.00 179.30 129.40 This family represents the microRNA (miRNA) precursor MIR810 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.57320 -6.25668 1600000 205243 360 223 1 -3.36990 0.71050 2020-11-26 13:01:14 2021-07-05 13:43:57 RF03794 MIR5298 1287 MIR5298 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 70.10 69.70 This family represents the microRNA (miRNA) precursor MIR5298 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 269 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.51436 -3.83245 1600000 182203 182 88 1 -3.47510 0.71869 2020-11-26 13:01:50 2020-12-09 15:48:47 RF03795 MIR6201 1287 MIR6201 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 69.00 69.80 65.50 This family represents the microRNA (miRNA) precursor MIR6201 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.64347 -3.69488 1600000 166065 213 109 1 -3.17010 0.71855 2020-11-26 13:02:10 2021-07-05 13:43:57 RF03796 mir-5984 1287 mir-5984 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 95.90 66.20 This family represents the microRNA (miRNA) precursor mir-5984 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63037 -2.49422 1600000 163104 165 74 1 -3.18820 0.72281 2020-11-26 13:02:28 2020-12-09 15:48:47 RF03797 mir-9235 1287 mir-9235 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 95.10 93.10 This family represents the microRNA (miRNA) precursor mir-9235 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.66102 -2.96187 1600000 260422 160 70 1 -3.16180 0.72601 2020-11-26 13:02:44 2021-07-05 13:43:57 RF03798 MIR4227 1287 MIR4227 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 121.40 75.60 This family represents the microRNA (miRNA) precursor MIR4227 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.63294 -2.59854 1600000 157132 231 122 1 -3.41450 0.71836 2020-11-26 13:03:02 2021-07-05 13:43:57 RF03799 mir-3202 1287 mir-3202 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.00 72.00 This family represents the microRNA (miRNA) precursor mir-3202 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 14 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.66194 -2.47313 1600000 227449 172 79 1 -3.03810 0.72214 2020-11-26 13:03:32 2020-12-09 15:48:47 RF03800 mir-4477 1287 mir-4477 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 74.00 74.90 73.70 This family represents the microRNA (miRNA) precursor mir-4477 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 87 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.60279 -3.78101 1600000 199124 175 81 1 -3.17010 0.72171 2020-11-26 13:04:05 2020-12-09 15:48:47 RF03801 mir-7143 1287 mir-7143 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 93.70 88.70 This family represents the microRNA (miRNA) precursor mir-7143 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63171 -4.36890 1600000 300027 148 61 1 -3.22970 0.72654 2020-11-26 13:04:22 2020-12-09 15:48:47 RF03802 MIR5649 1287 MIR5649 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 108.90 85.10 This family represents the microRNA (miRNA) precursor MIR5649 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62291 -3.28522 1600000 190406 202 101 1 -3.00440 0.71878 2020-11-26 13:04:40 2020-12-09 15:48:47 RF03803 MIR1886 1287 MIR1886 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 62.00 62.00 61.90 This family represents the microRNA (miRNA) precursor MIR1886 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 628 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.62724 -4.27788 1600000 296654 132 54 1 -3.93400 0.71965 2020-11-26 13:05:30 2020-12-09 15:48:47 RF03804 mir-4989 1287 mir-4989 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 49.00 49.10 45.20 This family represents the microRNA (miRNA) precursor mir-4989 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.65785 -2.90880 1600000 176903 174 80 1 -3.21790 0.71896 2020-11-26 13:05:51 2020-12-09 15:48:47 RF03805 bpcv-mir-B1 1287 bpcv-mir-B1 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 97.90 42.90 This family represents the microRNA (miRNA) precursor bpcv-mir-B1 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.68816 -2.72787 1600000 241477 162 72 1 -3.37160 0.72206 2020-11-26 13:06:09 2021-07-05 13:43:57 RF03806 mir-2007 1287 mir-2007 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 105.80 50.00 This family represents the microRNA (miRNA) precursor mir-2007 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.64160 -2.95520 1600000 212883 187 90 1 -3.70230 0.71890 2020-11-26 13:06:25 2021-07-05 13:43:57 RF03807 mir-4890 1287 mir-4890 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 111.90 42.20 This family represents the microRNA (miRNA) precursor mir-4890 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.67786 -2.42987 1600000 159972 190 91 1 -3.40830 0.71881 2020-11-26 13:06:44 2021-07-05 13:43:57 RF03808 mir-3957 1287 mir-3957 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 84.00 84.10 50.40 This family represents the microRNA (miRNA) precursor mir-3957 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.57894 -4.53555 1600000 229099 170 77 1 -3.23840 0.71902 2020-11-26 13:07:01 2020-12-09 15:48:47 RF03809 mir-1203 1287 mir-1203 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 102.90 99.00 This family represents the microRNA (miRNA) precursor mir-1203 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.54732 -4.45790 1600000 250740 180 84 1 -3.07320 0.71898 2020-11-26 13:07:21 2020-12-09 15:48:47 RF03810 mir-8932 1287 mir-8932 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 50.00 58.90 38.30 This family represents the microRNA (miRNA) precursor mir-8932 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.52651 -4.97763 1600000 263934 169 76 1 -3.12020 0.71910 2020-11-26 13:08:08 2020-12-09 15:48:47 RF03811 mir-1896 1287 mir-1896 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 108.40 75.00 This family represents the microRNA (miRNA) precursor mir-1896 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.62687 -3.50151 1600000 199922 175 81 1 -3.57110 0.71894 2020-11-26 13:08:25 2020-12-09 15:48:47 RF03812 mir-BART19 1287 mir-BART19 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 102.50 63.30 This family represents the microRNA (miRNA) precursor mir-BART19 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.62435 -3.43075 1600000 181056 190 93 1 -3.36440 0.72090 2020-11-26 13:08:56 2021-07-05 13:43:57 RF03813 MIR8041 1287 MIR8041 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.00 79.60 This family represents the microRNA (miRNA) precursor MIR8041 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 231 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.62798 -3.51573 1600000 237376 161 71 1 -3.37370 0.72114 2020-11-26 13:09:34 2020-12-09 15:48:47 RF03814 mir-2797 1287 mir-2797 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 74.00 74.00 61.50 This family represents the microRNA (miRNA) precursor mir-2797 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.60309 -3.28230 1600000 249704 159 77 1 -3.72760 0.71904 2020-11-26 13:09:55 2021-07-05 13:43:57 RF03815 mir-3051 1287 mir-3051 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 103.30 48.80 This family represents the microRNA (miRNA) precursor mir-3051 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.58092 -3.29300 1600000 241179 169 77 1 -3.08320 0.72053 2020-11-26 13:10:14 2020-12-09 15:48:47 RF03816 MIR6297 1287 MIR6297 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 114.00 114.20 113.60 This family represents the microRNA (miRNA) precursor MIR6297 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 28 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.57812 -4.53225 1600000 236067 210 107 1 -3.10720 0.71863 2020-11-26 13:10:33 2020-12-09 15:48:47 RF03817 mir-3836 1287 mir-3836 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 110.50 79.00 This family represents the microRNA (miRNA) precursor mir-3836 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.58996 -3.04555 1600000 184229 189 91 1 -3.31780 0.71881 2020-11-26 13:10:49 2020-12-09 15:48:47 RF03818 MIR7994 1287 MIR7994 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 101.40 99.50 This family represents the microRNA (miRNA) precursor MIR7994 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.59954 -3.90255 1600000 204261 187 90 1 -3.21100 0.71892 2020-11-26 13:11:05 2020-12-09 15:48:47 RF03819 mir-Ro6-3 1287 mir-Ro6-3 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 79.00 79.10 60.40 This family represents the microRNA (miRNA) precursor mir-Ro6-3 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.52741 -4.22438 1600000 182872 162 72 1 -3.01690 0.72572 2020-11-26 13:11:21 2021-07-05 13:43:57 RF03820 mir-5429 1287 mir-5429 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 89.20 72.50 This family represents the microRNA (miRNA) precursor mir-5429 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60775 -3.94917 1600000 239887 177 83 1 -2.83000 0.72417 2020-11-26 13:11:40 2020-12-09 15:48:48 RF03821 mir-2002 1287 mir-2002 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 49.00 49.30 46.70 This family represents the microRNA (miRNA) precursor mir-2002 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.65260 -2.48892 1600000 251115 157 68 1 -3.49650 0.72320 2020-11-26 13:11:56 2021-07-05 13:43:57 RF03822 mir-3931 1287 mir-3931 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 49.00 49.10 48.80 This family represents the microRNA (miRNA) precursor mir-3931 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.61910 -3.62201 1600000 211621 168 76 1 -2.94300 0.72578 2020-11-26 13:12:12 2020-12-09 15:48:48 RF03823 mir-1814 1287 mir-1814 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 97.40 73.20 This family represents the microRNA (miRNA) precursor mir-1814 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.62293 -4.88542 1600000 255248 160 70 1 -3.35340 0.72233 2020-11-26 13:12:30 2021-07-05 13:43:57 RF03824 MIR5285 1287 MIR5285 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 88.50 88.70 88.30 This family represents the microRNA (miRNA) precursor MIR5285 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 196 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.67611 -3.04600 1600000 276904 151 63 1 -2.98730 0.72585 2020-11-26 13:12:58 2020-12-09 15:48:48 RF03825 mir-2335 1287 mir-2335 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 96.70 46.00 This family represents the microRNA (miRNA) precursor mir-2335 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.64167 -2.58164 1600000 239816 159 69 1 -3.01080 0.72259 2020-11-26 13:13:15 2021-07-05 13:43:57 RF03826 MIR825 1287 MIR825 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 160.00 168.60 138.90 This family represents the microRNA (miRNA) precursor MIR825 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.60337 -3.40773 1600000 262490 264 146 1 -3.02570 0.71809 2020-11-26 13:13:32 2021-07-05 13:43:57 RF03827 mir-2229 1287 mir-2229 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 65.00 65.60 38.30 This family represents the microRNA (miRNA) precursor mir-2229 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66260 -3.31969 1600000 264041 145 62 1 -3.45700 0.72302 2020-11-26 13:13:49 2020-12-09 15:48:48 RF03828 MIR831 1287 MIR831 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 159.00 89.80 This family represents the microRNA (miRNA) precursor MIR831 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.62082 -5.38978 1600000 228137 306 180 1 -3.50030 0.71459 2020-11-26 13:14:05 2021-07-05 13:43:57 RF03829 mir-1257 1287 mir-1257 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 50.00 53.00 40.80 This family represents the microRNA (miRNA) precursor mir-1257 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.56976 -4.67452 1600000 201209 225 117 1 -3.11770 0.71836 2020-11-26 13:14:25 2021-07-05 13:43:57 RF03830 mir-1003 1287 mir-1003 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.90 58.00 This family represents the microRNA (miRNA) precursor mir-1003 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.65611 -4.03040 1600000 346274 141 56 1 -3.16230 0.72816 2020-11-26 13:14:42 2020-12-09 15:48:48 RF03831 mir-627 1287 mir-627 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 86.00 86.50 84.00 This family represents the microRNA (miRNA) precursor mir-627 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 8 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.70473 -1.68835 1600000 174784 183 87 1 -3.65670 0.71890 2020-11-26 13:15:03 2021-07-05 13:43:57 RF03832 mir-H4 1287 mir-H4 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 96.30 53.60 This family represents the microRNA (miRNA) precursor mir-H4 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.51703 -5.39105 1600000 254073 168 76 1 -2.62100 0.72687 2020-11-26 13:15:21 2021-07-05 13:43:57 RF03833 mir-5928 1287 mir-5928 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 59.00 59.00 58.90 This family represents the microRNA (miRNA) precursor mir-5928 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 4139 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.63757 -3.43138 1600000 282208 161 75 1 -3.39440 0.71910 2020-11-26 13:16:47 2020-12-09 15:48:48 RF03834 mir-3173 1287 mir-3173 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 84.00 84.00 81.10 This family represents the microRNA (miRNA) precursor mir-3173 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 8 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.56911 -4.21486 1600000 206539 173 80 1 -3.21010 0.71913 2020-11-26 13:17:22 2021-07-05 13:43:57 RF03835 mir-955 1287 mir-955 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 50.00 61.30 47.70 This family represents the microRNA (miRNA) precursor mir-955 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.69615 -2.31126 1600000 202028 175 81 1 -3.81480 0.71896 2020-11-26 13:17:43 2020-12-09 15:48:48 RF03836 mir-3547 1287 mir-3547 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 77.00 77.90 48.30 This family represents the microRNA (miRNA) precursor mir-3547 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.56444 -4.37706 1600000 201487 185 88 1 -3.29450 0.71887 2020-11-26 13:18:00 2020-12-09 15:48:48 RF03837 mir-3138 1287 mir-3138 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 98.60 82.70 This family represents the microRNA (miRNA) precursor mir-3138 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.50956 -6.22899 1600000 273130 177 82 1 -3.26060 0.71893 2020-11-26 13:18:47 2021-07-05 13:43:57 RF03838 MIR8032 1287 MIR8032 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 78.00 78.00 77.60 This family represents the microRNA (miRNA) precursor MIR8032 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 59 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66001 -4.67606 1600000 413214 125 48 1 -3.77860 0.71957 2020-11-26 13:19:15 2020-12-09 15:48:48 RF03839 MIR2599 1287 MIR2599 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 120.00 120.00 119.30 This family represents the microRNA (miRNA) precursor MIR2599 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 86 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.57620 -5.06549 1600000 216133 243 132 1 -2.94350 0.71834 2020-11-26 13:19:42 2020-12-09 15:48:48 RF03840 mir-3064 1287 mir-3064 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 76.00 76.10 73.80 This family represents the microRNA (miRNA) precursor mir-3064 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 93 0 0 Gene; miRNA; Predicted; RNAalifold 90 0 \N 0.67254 -3.61341 1600000 258130 154 67 1 -3.77840 0.71917 2020-11-26 13:20:31 2020-12-09 15:48:48 RF03841 mir-8941 1287 mir-8941 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 87.40 65.90 This family represents the microRNA (miRNA) precursor mir-8941 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.53091 -4.91173 1600000 239311 180 84 1 -3.44910 0.71899 2020-11-26 13:21:01 2020-12-09 15:48:48 RF03842 MIR2680 1287 MIR2680 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 155.00 155.60 151.80 This family represents the microRNA (miRNA) precursor MIR2680 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 243 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.58716 -6.85889 1600000 257505 293 168 1 -3.25970 0.71590 2020-11-26 13:21:34 2020-12-09 15:48:48 RF03843 MIR2600 1287 MIR2600 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 98.00 98.20 97.70 This family represents the microRNA (miRNA) precursor MIR2600 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 54 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62163 -3.92989 1600000 267683 179 85 1 -3.32100 0.71899 2020-11-26 13:22:03 2020-12-09 15:48:48 RF03844 mir-3190 1287 mir-3190 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 81.00 81.60 69.00 This family represents the microRNA (miRNA) precursor mir-3190 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 12 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.52570 -5.77169 1600000 295740 169 77 1 -2.60560 0.72425 2020-11-26 13:22:25 2020-12-09 15:48:48 RF03845 mir-3327 1287 mir-3327 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 85.00 85.20 57.80 This family represents the microRNA (miRNA) precursor mir-3327 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.59948 -2.53262 1600000 176793 185 89 1 -3.32210 0.71873 2020-11-26 13:23:27 2021-07-05 13:43:57 RF03846 mir-4861 1287 mir-4861 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 110.10 65.40 This family represents the microRNA (miRNA) precursor mir-4861 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.64164 -2.99619 1600000 158809 193 94 1 -3.12110 0.71866 2020-11-26 13:23:44 2021-07-05 13:43:57 RF03847 mir-1538 1287 mir-1538 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 78.00 78.10 69.10 This family represents the microRNA (miRNA) precursor mir-1538 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.61452 -4.51029 1600000 304962 144 58 1 -2.86480 0.72865 2020-11-26 13:24:08 2021-07-05 13:43:57 RF03848 mir-1549 1287 mir-1549 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 91.00 91.70 43.70 This family represents the microRNA (miRNA) precursor mir-1549 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.57633 -5.23245 1600000 224328 151 63 1 -3.19320 0.72816 2020-11-26 13:24:31 2020-12-09 15:48:48 RF03849 MIR1219 1287 MIR1219 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 79.00 79.90 64.80 This family represents the microRNA (miRNA) precursor MIR1219 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 5 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63030 -3.61354 1600000 201056 178 82 1 -3.53910 0.71898 2020-11-26 13:24:57 2020-12-09 15:48:48 RF03850 mir-961 1287 mir-961 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 104.00 63.10 This family represents the microRNA (miRNA) precursor mir-961 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.60247 -3.71467 1600000 216266 180 85 1 -3.72270 0.71906 2020-11-26 13:25:14 2020-12-09 15:48:48 RF03851 mir-1002 1287 mir-1002 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 85.00 85.80 58.50 This family represents the microRNA (miRNA) precursor mir-1002 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 10 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.61096 -1.20123 1600000 153966 180 89 1 -2.99170 0.71879 2020-11-26 13:25:34 2021-07-05 13:43:57 RF03852 mir-610 1287 mir-610 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 98.90 73.20 This family represents the microRNA (miRNA) precursor mir-610 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.67767 -2.82667 1600000 260551 167 75 1 -3.40220 0.71959 2020-11-26 13:26:11 2021-07-05 13:43:57 RF03853 mir-2013 1287 mir-2013 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 74.90 56.60 This family represents the microRNA (miRNA) precursor mir-2013 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 2 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.63767 -3.39051 1600000 202764 171 83 1 -3.56090 0.71894 2020-11-26 13:26:30 2021-07-05 13:43:57 RF03854 mir-1949 1287 mir-1949 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 102.00 97.00 This family represents the microRNA (miRNA) precursor mir-1949 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.66660 -3.54032 1600000 258403 160 70 1 -3.25030 0.72166 2020-11-26 13:26:51 2020-12-09 15:48:48 RF03855 MIR5241 1287 MIR5241 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 85.00 85.10 78.40 This family represents the microRNA (miRNA) precursor MIR5241 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 13 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.67403 -1.88461 1600000 196145 166 75 1 -3.73050 0.71901 2020-11-26 13:27:11 2020-12-09 15:48:48 RF03856 mir-1188 1287 mir-1188 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 106.00 106.50 103.00 This family represents the microRNA (miRNA) precursor mir-1188 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.66986 -2.68996 1600000 209821 177 82 1 -2.94570 0.71888 2020-11-26 13:27:34 2020-12-09 15:48:48 RF03857 mir-3129 1287 mir-3129 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 92.30 85.20 This family represents the microRNA (miRNA) precursor mir-3129 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 3 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.61638 -3.60768 1600000 173203 176 82 1 -3.44650 0.71899 2020-11-26 13:28:09 2021-07-05 13:43:57 RF03858 mir-1991 1287 mir-1991 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 66.00 66.70 42.10 This family represents the microRNA (miRNA) precursor mir-1991 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.61347 -3.20999 1600000 228224 155 66 1 -2.67130 0.73046 2020-11-26 13:28:27 2021-07-05 13:43:57 RF03859 mir-6132 1287 mir-6132 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 112.00 112.60 110.50 This family represents the microRNA (miRNA) precursor mir-6132 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 12 0 0 Gene; miRNA; Predicted; RNAalifold 12 0 \N 0.70908 -1.81925 1600000 185775 194 94 1 -3.18230 0.71868 2020-11-26 13:29:03 2020-12-09 15:48:48 RF03860 MIR1520 1287 MIR1520 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 53.00 53.00 52.90 This family represents the microRNA (miRNA) precursor MIR1520 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 18 1781 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.47778 -6.39457 1600000 342908 222 122 1 -2.83220 0.71819 2020-11-26 13:30:53 2020-12-09 15:48:48 RF03861 mir-4484 1287 mir-4484 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.60 63.30 This family represents the microRNA (miRNA) precursor mir-4484 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 8 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.56753 -4.06551 1600000 194827 186 89 1 -3.48340 0.71896 2020-11-26 13:31:42 2021-07-05 13:43:57 RF03862 MIR5274 1287 MIR5274 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 102.40 71.70 This family represents the microRNA (miRNA) precursor MIR5274 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.65100 -2.96204 1600000 216917 194 95 1 -3.26960 0.71894 2020-11-26 13:32:02 2020-12-09 15:48:48 RF03863 mir-1258 1287 mir-1258 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 74.00 74.20 61.10 This family represents the microRNA (miRNA) precursor mir-1258 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 14 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.57691 -4.73995 1600000 282228 163 72 1 -3.44510 0.72020 2020-11-26 13:32:28 2020-12-09 15:48:48 RF03864 mir-BART9 1287 mir-BART9 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 50.00 57.20 44.30 This family represents the microRNA (miRNA) precursor mir-BART9 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.61490 -3.34129 1600000 193969 184 88 1 -3.25330 0.72258 2020-11-26 13:32:46 2021-07-05 13:43:57 RF03865 mir-7637 1287 mir-7637 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 88.00 88.90 43.50 This family represents the microRNA (miRNA) precursor mir-7637 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61806 -3.83299 1600000 266011 157 68 1 -3.03030 0.72349 2020-11-26 13:33:02 2020-12-09 15:48:48 RF03866 mir-1889 1287 mir-1889 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 88.50 59.50 This family represents the microRNA (miRNA) precursor mir-1889 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.62257 -4.74480 1600000 192200 237 128 1 -3.01700 0.71829 2020-11-26 13:33:19 2020-12-09 15:48:49 RF03867 mir-4081 1287 mir-4081 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 70.10 64.00 This family represents the microRNA (miRNA) precursor mir-4081 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60783 -3.53754 1600000 264862 134 51 1 -2.94160 0.74058 2020-11-26 13:33:37 2020-12-09 15:48:49 RF03868 mir-H2 1287 mir-H2 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 92.00 92.00 58.70 This family represents the microRNA (miRNA) precursor mir-H2 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.53543 -4.97772 1600000 247330 169 77 1 -2.45430 0.72789 2020-11-26 13:33:57 2021-07-05 13:43:57 RF03869 mir-2834 1287 mir-2834 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 87.00 87.00 86.90 This family represents the microRNA (miRNA) precursor mir-2834 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 569 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63913 -3.99921 1600000 240395 151 63 1 -3.29760 0.72383 2020-11-26 13:34:18 2020-12-09 15:48:49 RF03870 mir-2040 1287 mir-2040 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 51.00 51.80 50.30 This family represents the microRNA (miRNA) precursor mir-2040 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60515 -3.58932 1600000 256046 175 81 1 -3.36890 0.71899 2020-11-26 13:34:35 2020-12-09 15:48:49 RF03871 mir-5681 1287 mir-5681 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 88.00 88.50 73.30 This family represents the microRNA (miRNA) precursor mir-5681 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.66967 -2.97820 1600000 271120 148 61 1 -3.09450 0.72931 2020-11-26 13:35:14 2020-12-09 15:48:49 RF03872 MIR6426 1287 MIR6426 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 96.00 96.90 95.80 This family represents the microRNA (miRNA) precursor MIR6426 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 14 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60698 -3.98949 1600000 203098 179 84 1 -3.54340 0.71900 2020-11-26 13:36:01 2020-12-09 15:48:49 RF03873 mir-3192 1287 mir-3192 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 87.40 67.70 This family represents the microRNA (miRNA) precursor mir-3192 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.62827 -3.58059 1600000 257688 169 77 1 -3.48030 0.71905 2020-11-26 13:36:20 2020-12-09 15:48:49 RF03874 mir-8834 1287 mir-8834 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 39.00 39.00 38.90 This family represents the microRNA (miRNA) precursor mir-8834 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 3831 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.54884 -4.54368 1600000 189673 210 105 1 -3.02970 0.71861 2020-11-26 13:42:50 2020-12-09 15:48:49 RF03875 MIR5272 1287 MIR5272 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 64.50 64.50 64.40 This family represents the microRNA (miRNA) precursor MIR5272 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 236 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.48783 -5.56752 1600000 322619 161 74 1 -3.43090 0.71891 2020-11-26 13:43:30 2020-12-09 15:48:49 RF03876 mir-7132 1287 mir-7132 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 77.60 64.50 This family represents the microRNA (miRNA) precursor mir-7132 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.61100 -4.54570 1600000 387277 146 60 1 -2.98110 0.72924 2020-11-26 13:43:53 2021-07-05 13:43:57 RF03877 mir-3937 1287 mir-3937 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 84.00 84.50 78.70 This family represents the microRNA (miRNA) precursor mir-3937 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.61986 -3.25086 1600000 156516 205 102 1 -2.85140 0.71875 2020-11-26 13:44:15 2020-12-09 15:48:49 RF03878 mir-B6 1287 mir-B6 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 89.00 89.60 66.10 This family represents the microRNA (miRNA) precursor mir-B6 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.45552 -6.12697 1600000 237840 177 83 1 -2.74640 0.72254 2020-11-26 13:44:33 2020-12-09 15:48:49 RF03879 mir-2831 1287 mir-2831 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 98.50 88.30 This family represents the microRNA (miRNA) precursor mir-2831 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62278 -3.58336 1600000 228720 166 75 1 -3.50250 0.72159 2020-11-26 13:44:49 2020-12-09 15:48:49 RF03880 mir-1684 1287 mir-1684 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 61.10 59.70 This family represents the microRNA (miRNA) precursor mir-1684 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61888 -3.79037 1600000 210781 184 87 1 -3.47980 0.71893 2020-11-26 13:45:07 2020-12-09 15:48:49 RF03881 mir-59 1287 mir-59 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.30 55.20 This family represents the microRNA (miRNA) precursor mir-59 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 5 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.62650 -4.29313 1600000 277292 150 66 1 -3.51020 0.71921 2020-11-26 13:45:26 2020-12-09 15:48:49 RF03882 mir-4889 1287 mir-4889 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 91.90 59.10 This family represents the microRNA (miRNA) precursor mir-4889 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63523 -2.49537 1600000 170427 175 84 1 -3.65700 0.71891 2020-11-26 13:45:48 2021-07-05 13:43:57 RF03883 mir-9256 1287 mir-9256 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 81.20 79.10 This family represents the microRNA (miRNA) precursor mir-9256 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 5 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.62823 -3.50168 1600000 222086 152 67 1 -3.76330 0.71923 2020-11-26 13:46:16 2021-07-05 13:43:57 RF03884 mir-725 1287 mir-725 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 76.00 76.70 66.20 This family represents the microRNA (miRNA) precursor mir-725 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63721 -4.39160 1600000 303552 137 56 1 -3.24980 0.72485 2020-11-26 13:46:44 2020-12-09 15:48:49 RF03885 mir-4178 1287 mir-4178 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 93.40 57.30 This family represents the microRNA (miRNA) precursor mir-4178 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63078 -3.61098 1600000 293814 147 60 1 -2.97440 0.72797 2020-11-26 13:47:12 2020-12-09 15:48:49 RF03886 mir-1993 1287 mir-1993 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 82.00 82.50 51.30 This family represents the microRNA (miRNA) precursor mir-1993 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.64000 -3.27726 1600000 205427 157 68 1 -2.85980 0.72891 2020-11-26 13:47:35 2021-07-05 13:43:57 RF03887 mir-2511 1287 mir-2511 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 103.90 91.40 This family represents the microRNA (miRNA) precursor mir-2511 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.63217 -3.16944 1600000 226576 181 85 1 -3.76170 0.71885 2020-11-26 13:48:08 2021-07-05 13:43:57 RF03888 mir-3160 1287 mir-3160 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 85.80 70.80 This family represents the microRNA (miRNA) precursor mir-3160 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.52177 -5.65559 1600000 253365 177 83 1 -3.15290 0.71915 2020-11-26 13:48:37 2020-12-09 15:48:49 RF03889 mir-4776 1287 mir-4776 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 97.00 97.80 74.40 This family represents the microRNA (miRNA) precursor mir-4776 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.60025 -3.98981 1600000 226716 173 80 1 -3.24970 0.71982 2020-11-26 13:49:16 2020-12-09 15:48:49 RF03890 mir-B8 1287 mir-B8 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 98.00 46.20 This family represents the microRNA (miRNA) precursor mir-B8 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.52820 -5.38916 1600000 348213 156 67 1 -3.21660 0.72315 2020-11-26 13:49:42 2021-07-05 13:43:57 RF03891 mir-2545 1287 mir-2545 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 94.00 94.20 90.70 This family represents the microRNA (miRNA) precursor mir-2545 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.57933 -4.38551 1600000 206653 227 118 1 -3.22070 0.71861 2020-11-26 13:50:12 2021-07-05 13:43:57 RF03892 mir-4860 1287 mir-4860 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 104.60 48.00 This family represents the microRNA (miRNA) precursor mir-4860 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63055 -3.73768 1600000 234903 165 74 1 -3.74980 0.71953 2020-11-26 13:50:40 2021-07-05 13:43:57 RF03893 mir-4879 1287 mir-4879 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 105.30 46.20 This family represents the microRNA (miRNA) precursor mir-4879 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.66383 -2.95240 1600000 197925 167 75 1 -3.51610 0.72020 2020-11-26 13:51:30 2021-07-05 13:43:57 RF03894 mir-5736 1287 mir-5736 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 96.20 58.30 This family represents the microRNA (miRNA) precursor mir-5736 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63765 -2.04968 1600000 182622 173 80 1 -3.25600 0.72146 2020-11-26 13:51:55 2020-12-09 15:48:49 RF03895 MIR2679 1287 MIR2679 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 97.00 97.50 64.70 This family represents the microRNA (miRNA) precursor MIR2679 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 25 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62095 -3.50555 1600000 200379 228 119 1 -3.18890 0.71843 2020-11-26 13:52:26 2020-12-09 15:48:49 RF03896 MIR2275 1287 MIR2275 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.50 60.50 60.40 This family represents the microRNA (miRNA) precursor MIR2275 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 13 297 0 0 Gene; miRNA; Predicted; RNAalifold 40 0 \N 0.58361 -3.47111 1600000 146014 209 98 1 -2.88180 0.71865 2020-11-26 13:53:30 2021-07-05 13:43:57 RF03897 mir-4077 1287 mir-4077 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 83.00 83.70 43.90 This family represents the microRNA (miRNA) precursor mir-4077 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 3 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.57426 -4.15742 1600000 275628 137 56 1 -3.53200 0.71999 2020-11-26 13:54:07 2020-12-09 15:48:49 RF03898 mir-7616 1287 mir-7616 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 101.10 40.50 This family represents the microRNA (miRNA) precursor mir-7616 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62099 -3.20797 1600000 222658 156 67 1 -3.42420 0.72253 2020-11-26 13:54:37 2020-12-09 15:48:49 RF03899 mir-5912 1287 mir-5912 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 88.00 88.40 38.30 This family represents the microRNA (miRNA) precursor mir-5912 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.68014 -3.08028 1600000 173529 184 88 1 -3.41910 0.71875 2020-11-26 13:55:01 2020-12-09 15:48:49 RF03900 mir-9242 1287 mir-9242 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 62.00 62.00 61.90 This family represents the microRNA (miRNA) precursor mir-9242 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 568 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.55812 -4.94558 1600000 330328 154 66 1 -2.89560 0.72696 2020-11-26 13:55:30 2021-07-05 13:43:57 RF03901 mir-BART18 1287 mir-BART18 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 98.00 98.00 49.70 This family represents the microRNA (miRNA) precursor mir-BART18 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61984 -3.33392 1600000 239119 177 83 1 -2.98850 0.72189 2020-11-26 13:55:50 2021-07-05 13:43:57 RF03902 MIR7784 1287 MIR7784 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 130.00 130.80 127.70 This family represents the microRNA (miRNA) precursor MIR7784 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61024 -3.80463 1600000 218366 234 123 1 -3.28840 0.71851 2020-11-26 13:56:09 2020-12-09 15:48:49 RF03903 mir-679 1287 mir-679 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 83.20 47.80 This family represents the microRNA (miRNA) precursor mir-679 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.67105 -3.02832 1600000 264812 165 74 1 -3.77740 0.72077 2020-11-26 13:56:40 2020-12-09 15:48:49 RF03904 MIR7991 1287 MIR7991 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 58.00 58.90 57.70 This family represents the microRNA (miRNA) precursor MIR7991 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 42 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.65591 -3.62801 1600000 311711 129 47 1 -2.92040 0.73496 2020-11-26 13:57:00 2020-12-09 15:48:49 RF03905 MIR6149 1287 MIR6149 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 106.40 72.70 This family represents the microRNA (miRNA) precursor MIR6149 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.62350 -2.82119 1600000 185642 199 99 1 -3.18140 0.71861 2020-11-26 13:57:20 2021-07-05 13:43:57 RF03906 mir-3199 1287 mir-3199 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 100.70 96.80 This family represents the microRNA (miRNA) precursor mir-3199 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.56176 -4.25104 1600000 224329 183 87 1 -2.98220 0.71911 2020-11-26 13:57:39 2020-12-09 15:48:49 RF03907 mir-4428 1287 mir-4428 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 91.20 89.80 This family represents the microRNA (miRNA) precursor mir-4428 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.56957 -4.60057 1600000 240281 164 73 1 -3.32140 0.71950 2020-11-26 13:58:15 2020-12-09 15:48:49 RF03908 MIR6459 1287 MIR6459 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 103.10 68.80 This family represents the microRNA (miRNA) precursor MIR6459 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.68640 -2.29681 1600000 179304 182 87 1 -2.98750 0.72258 2020-11-26 13:59:35 2020-12-09 15:48:49 RF03909 mir-3804 1287 mir-3804 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 98.90 44.80 This family represents the microRNA (miRNA) precursor mir-3804 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62742 -3.04736 1600000 170464 176 82 1 -3.19010 0.72382 2020-11-26 13:59:51 2020-12-09 15:48:49 RF03910 mir-H5 1287 mir-H5 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 94.30 46.90 This family represents the microRNA (miRNA) precursor mir-H5 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.46241 -6.37468 1600000 226319 173 80 1 -2.68040 0.72414 2020-11-26 14:00:09 2021-07-05 13:43:57 RF03911 mir-1910 1287 mir-1910 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 79.10 62.30 This family represents the microRNA (miRNA) precursor mir-1910 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.66061 -3.27419 1600000 202492 174 80 1 -3.55150 0.71877 2020-11-26 14:00:36 2021-07-05 13:43:57 RF03912 mir-4659 1287 mir-4659 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 92.00 92.10 63.60 This family represents the microRNA (miRNA) precursor mir-4659 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 18 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.65071 -2.65946 1600000 221544 164 73 1 -2.95460 0.72479 2020-11-26 14:00:56 2020-12-09 15:48:50 RF03913 mir-992 1287 mir-992 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 79.00 79.30 56.50 This family represents the microRNA (miRNA) precursor mir-992 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.63525 -3.13055 1600000 242724 180 86 1 -3.32900 0.72124 2020-11-26 14:01:13 2020-12-09 15:48:50 RF03914 mir-BART21 1287 mir-BART21 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 77.80 49.40 This family represents the microRNA (miRNA) precursor mir-BART21 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.61400 -4.11160 1600000 272932 168 76 1 -2.89580 0.72481 2020-11-26 14:01:33 2021-07-05 13:43:57 RF03915 MIR5286 1287 MIR5286 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 93.00 93.20 92.90 This family represents the microRNA (miRNA) precursor MIR5286 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 191 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64712 -3.48363 1600000 221182 171 78 1 -3.04800 0.71946 2020-11-26 14:02:05 2020-12-09 15:48:50 RF03916 MIR400 1287 MIR400 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 83.00 83.90 73.00 This family represents the microRNA (miRNA) precursor MIR400 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.65136 -2.45448 1600000 157175 206 103 1 -3.29800 0.71866 2020-11-26 14:02:24 2021-07-05 13:43:57 RF03917 mir-4449 1287 mir-4449 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 71.00 71.00 70.40 This family represents the microRNA (miRNA) precursor mir-4449 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.52463 -4.96434 1600000 237501 158 69 1 -2.75490 0.72241 2020-11-26 14:02:47 2020-12-09 15:48:50 RF03918 mir-4922 1287 mir-4922 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 82.00 82.40 47.80 This family represents the microRNA (miRNA) precursor mir-4922 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.56684 -4.29655 1600000 261757 153 65 1 -2.63950 0.72694 2020-11-26 14:03:15 2020-12-09 15:48:50 RF03919 mir-1540 1287 mir-1540 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 94.10 44.80 This family represents the microRNA (miRNA) precursor mir-1540 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.64703 -3.78836 1600000 279195 145 59 1 -3.43130 0.72612 2020-11-26 14:03:37 2020-12-09 15:48:50 RF03920 mir-237 1287 mir-237 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.90 70.10 This family represents the microRNA (miRNA) precursor mir-237 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.66892 -2.95233 1600000 175995 167 79 1 -3.52190 0.71899 2020-11-26 14:04:24 2020-12-09 15:48:50 RF03921 MIR860 1287 MIR860 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 89.00 89.00 81.60 This family represents the microRNA (miRNA) precursor MIR860 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 11 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.62162 -3.74523 1600000 211831 221 115 1 -3.58640 0.71859 2020-11-26 14:04:51 2021-07-05 13:43:57 RF03922 MIR2119 1287 MIR2119 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 73.00 73.00 70.70 This family represents the microRNA (miRNA) precursor MIR2119 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 15 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.52171 -5.31885 1600000 246412 263 148 1 -2.93260 0.71801 2020-11-26 14:05:13 2020-12-09 15:48:50 RF03923 mir-964 1287 mir-964 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 114.20 62.10 This family represents the microRNA (miRNA) precursor mir-964 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63250 -2.99919 1600000 213674 188 90 1 -3.35240 0.71873 2020-11-26 14:05:32 2020-12-09 15:48:50 RF03924 mir-1228 1287 mir-1228 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 88.00 88.40 44.20 This family represents the microRNA (miRNA) precursor mir-1228 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.53199 -5.35904 1600000 257685 164 73 1 -3.21290 0.72026 2020-11-26 14:05:58 2021-07-05 13:43:57 RF03925 mir-1011 1287 mir-1011 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 60.00 58.60 This family represents the microRNA (miRNA) precursor mir-1011 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.60003 -4.59414 1600000 315862 138 54 1 -2.95390 0.72961 2020-11-26 14:06:16 2020-12-09 15:48:50 RF03926 MIR1435 1287 MIR1435 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 94.00 94.00 93.90 This family represents the microRNA (miRNA) precursor MIR1435 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 1062 0 0 Gene; miRNA; Predicted; RNAalifold 20 0 \N 0.47855 -6.54351 1600000 244886 422 186 1 -3.11790 0.71376 2020-11-26 14:12:01 2021-07-05 13:43:57 RF03927 MIR538 1287 MIR538 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 122.40 82.30 This family represents the microRNA (miRNA) precursor MIR538 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 3 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62595 -4.42103 1600000 226475 292 160 1 -3.58940 0.71730 2020-11-26 14:12:29 2020-12-09 15:48:50 RF03929 mir-6579 1287 mir-6579 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 47.00 47.20 46.00 This family represents the microRNA (miRNA) precursor mir-6579 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.58005 -4.70473 1600000 302060 157 68 1 -3.32570 0.72142 2020-11-26 14:13:15 2020-12-09 15:48:50 RF03930 mir-1909 1287 mir-1909 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 84.90 77.10 This family represents the microRNA (miRNA) precursor mir-1909 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.65412 -3.40940 1600000 270831 163 72 1 -3.20240 0.72062 2020-11-26 14:13:33 2021-07-05 13:43:57 RF03931 mir-2061 1287 mir-2061 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 104.40 36.90 This family represents the microRNA (miRNA) precursor mir-2061 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.59903 -3.85666 1600000 197023 165 74 1 -3.30630 0.72010 2020-11-26 14:13:48 2021-07-05 13:43:57 RF03932 mir-1597 1287 mir-1597 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 93.00 93.00 92.80 This family represents the microRNA (miRNA) precursor mir-1597 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 40 0 0 Gene; miRNA; Predicted; RNAalifold 39 0 \N 0.62952 -2.63075 1600000 241953 164 73 1 -3.22040 0.72227 2020-11-26 14:14:13 2020-12-09 15:48:50 RF03933 MIR6445 1287 MIR6445 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 103.20 69.10 This family represents the microRNA (miRNA) precursor MIR6445 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61621 -3.85385 1600000 222548 223 117 1 -3.05960 0.71856 2020-11-26 14:14:31 2020-12-09 15:48:50 RF03934 mir-m107-1 1287 mir-m107-1 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 83.00 83.40 48.20 This family represents the microRNA (miRNA) precursor mir-m107-1 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.57118 -5.32579 1600000 307082 153 65 1 -2.64020 0.73457 2020-11-26 14:14:46 2020-12-09 15:48:50 RF03935 mir-763 1287 mir-763 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 112.00 98.30 This family represents the microRNA (miRNA) precursor mir-763 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 36 0 0 Gene; miRNA; Predicted; RNAalifold 36 0 \N 0.65313 -2.83079 1600000 192150 230 120 1 -2.88150 0.71851 2020-11-26 14:15:28 2020-12-09 15:48:50 RF03936 mir-4079 1287 mir-4079 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 62.00 62.40 51.70 This family represents the microRNA (miRNA) precursor mir-4079 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.69429 -2.42871 1600000 273846 134 51 1 -2.60660 0.74080 2020-11-26 14:15:46 2020-12-09 15:48:50 RF03937 mir-9456 1287 mir-9456 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 81.90 76.30 This family represents the microRNA (miRNA) precursor mir-9456 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60052 -4.50631 1600000 269882 157 68 1 -3.32720 0.72368 2020-11-26 14:16:03 2020-12-09 15:48:50 RF03938 mir-4662 1287 mir-4662 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 97.00 97.20 93.40 This family represents the microRNA (miRNA) precursor mir-4662 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.64541 -2.93096 1600000 265596 156 67 1 -2.98780 0.72599 2020-11-26 14:16:27 2020-12-09 15:48:50 RF03939 mir-4868 1287 mir-4868 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 72.70 54.30 This family represents the microRNA (miRNA) precursor mir-4868 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.62831 -3.77262 1600000 179073 163 78 1 -3.86930 0.71893 2020-11-26 14:16:54 2021-07-05 13:43:57 RF03940 MIR9563 1287 MIR9563 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.00 89.90 This family represents the microRNA (miRNA) precursor MIR9563 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3495 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.60968 -3.86989 1600000 208709 234 125 1 -2.51450 0.71841 2020-11-26 14:19:25 2021-07-05 13:43:57 RF03941 mir-3158 1287 mir-3158 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 97.00 97.20 70.80 This family represents the microRNA (miRNA) precursor mir-3158 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.56545 -4.78102 1600000 231930 175 81 1 -3.32480 0.72009 2020-11-26 14:19:50 2020-12-09 15:48:50 RF03942 mir-5727 1287 mir-5727 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 102.30 90.80 This family represents the microRNA (miRNA) precursor mir-5727 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62345 -2.67842 1600000 194884 189 92 1 -3.24200 0.72099 2020-11-26 14:20:06 2020-12-09 15:48:50 RF03943 mir-1824 1287 mir-1824 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 97.90 40.40 This family represents the microRNA (miRNA) precursor mir-1824 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.65906 -3.38892 1600000 270167 151 63 1 -3.45770 0.72454 2020-11-26 14:20:23 2020-12-09 15:48:50 RF03944 mir-935 1287 mir-935 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 73.00 73.60 58.90 This family represents the microRNA (miRNA) precursor mir-935 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 21 0 0 Gene; miRNA; Predicted; RNAalifold 21 0 \N 0.48328 -5.22356 1600000 200971 189 91 1 -3.09220 0.71887 2020-11-26 14:20:54 2021-07-05 13:43:57 RF03945 mir-4876 1287 mir-4876 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 112.50 49.10 This family represents the microRNA (miRNA) precursor mir-4876 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.56856 -3.86187 1600000 159652 190 92 1 -3.11760 0.71887 2020-11-26 14:21:18 2021-07-05 13:43:57 RF03946 mir-3132 1287 mir-3132 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 84.00 84.90 52.60 This family represents the microRNA (miRNA) precursor mir-3132 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.55033 -4.93045 1600000 267611 167 75 1 -3.53860 0.71929 2020-11-26 14:21:55 2020-12-09 15:48:50 RF03947 mir-658 1287 mir-658 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 82.00 82.50 81.90 This family represents the microRNA (miRNA) precursor mir-658 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 14 0 0 Gene; miRNA; Predicted; RNAalifold 15 0 \N 0.52364 -4.73485 1600000 226594 201 100 1 -2.84370 0.71882 2020-11-26 14:22:21 2021-07-05 13:43:57 RF03948 mir-5045 1287 mir-5045 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.10 47.60 This family represents the microRNA (miRNA) precursor mir-5045 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.63653 -4.09044 1600000 318926 142 57 1 -2.48230 0.73158 2020-11-26 14:22:42 2021-07-05 13:43:57 RF03949 mir-8830 1287 mir-8830 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 76.00 76.80 67.00 This family represents the microRNA (miRNA) precursor mir-8830 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.54655 -4.07752 1600000 162481 194 95 1 -3.23050 0.71883 2020-11-26 14:26:49 2020-12-09 15:48:50 RF03950 mir-4928 1287 mir-4928 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 107.90 57.30 This family represents the microRNA (miRNA) precursor mir-4928 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.59832 -3.82835 1600000 209860 172 79 1 -3.46330 0.71905 2020-11-26 14:27:07 2021-07-05 13:43:57 RF03951 MIR7725 1287 MIR7725 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 77.00 77.70 76.20 This family represents the microRNA (miRNA) precursor MIR7725 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.55752 -5.35159 1600000 215877 260 142 1 -3.27080 0.71825 2020-11-26 14:27:25 2020-12-09 15:48:50 RF03952 mir-3718 1287 mir-3718 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 78.00 78.30 68.00 This family represents the microRNA (miRNA) precursor mir-3718 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.69598 -2.14562 1600000 202745 189 92 1 -3.38080 0.72166 2020-11-26 14:27:42 2020-12-09 15:48:50 RF03953 mir-5350 1287 mir-5350 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 91.80 69.70 This family represents the microRNA (miRNA) precursor mir-5350 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.62354 -3.82431 1600000 239865 165 74 1 -3.08190 0.72548 2020-11-26 14:27:59 2020-12-09 15:48:50 RF03954 mir-8993 1287 mir-8993 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 99.00 99.10 64.90 This family represents the microRNA (miRNA) precursor mir-8993 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61500 -3.57006 1600000 190790 195 95 1 -2.96020 0.71868 2020-11-26 14:28:19 2020-12-09 15:48:50 RF03955 MIR2934 1287 MIR2934 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 123.50 77.90 This family represents the microRNA (miRNA) precursor MIR2934 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.58571 -3.98004 1600000 203718 216 113 1 -2.86330 0.71853 2020-11-26 14:28:35 2020-12-09 15:48:50 RF03956 mir-737 1287 mir-737 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 60.30 56.10 This family represents the microRNA (miRNA) precursor mir-737 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 37 0 0 Gene; miRNA; Predicted; RNAalifold 38 0 \N 0.54037 -4.16222 1600000 270137 145 63 1 -3.36370 0.71933 2020-11-26 14:29:04 2021-07-05 13:43:57 RF03957 mir-5856 1287 mir-5856 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 91.70 67.50 This family represents the microRNA (miRNA) precursor mir-5856 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.65167 -3.26173 1600000 211554 160 70 1 -3.11770 0.72573 2020-11-26 14:29:25 2020-12-09 15:48:50 RF03958 mir-959 1287 mir-959 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 85.00 85.10 58.70 This family represents the microRNA (miRNA) precursor mir-959 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 11 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.61487 -2.68108 1600000 203075 188 91 1 -3.53650 0.71873 2020-11-26 14:29:42 2021-07-05 13:43:57 RF03959 mir-303 1287 mir-303 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 77.00 77.60 53.40 This family represents the microRNA (miRNA) precursor mir-303 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.59569 -2.77490 1600000 225303 160 70 1 -2.87660 0.72758 2020-11-26 14:30:14 2020-12-09 15:48:50 RF03960 mir-6644 1287 mir-6644 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 82.00 82.40 52.20 This family represents the microRNA (miRNA) precursor mir-6644 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66628 -3.04916 1600000 247528 156 67 1 -3.14630 0.72297 2020-11-26 14:30:30 2020-12-09 15:48:51 RF03961 mir-9033 1287 mir-9033 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 106.10 83.90 This family represents the microRNA (miRNA) precursor mir-9033 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63321 -3.47583 1600000 198495 163 72 1 -3.21180 0.71972 2020-11-26 14:30:47 2020-12-09 15:48:51 RF03962 mir-958 1287 mir-958 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 78.00 78.00 53.20 This family represents the microRNA (miRNA) precursor mir-958 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 10 0 0 Gene; miRNA; Predicted; RNAalifold 11 0 \N 0.68311 -2.32694 1600000 179226 189 92 1 -3.57070 0.71881 2020-11-26 14:31:07 2021-07-05 13:43:57 RF03963 mir-2996 1287 mir-2996 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 107.00 74.90 This family represents the microRNA (miRNA) precursor mir-2996 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63971 -4.10025 1600000 245262 163 72 1 -3.18450 0.72057 2020-11-26 14:31:26 2020-12-09 15:48:51 RF03964 mir-H1 1287 mir-H1 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 97.00 97.10 60.20 This family represents the microRNA (miRNA) precursor mir-H1 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.51859 -5.35384 1600000 197963 180 85 1 -3.02490 0.72687 2020-11-26 14:32:23 2021-07-05 13:43:57 RF03965 mir-8927 1287 mir-8927 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 160.00 160.20 120.00 This family represents the microRNA (miRNA) precursor mir-8927 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60898 -5.28156 1600000 249149 264 145 1 -2.97070 0.71838 2020-11-26 14:32:38 2020-12-09 15:48:51 RF03966 mir-76 1287 mir-76 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 75.00 75.70 68.70 This family represents the microRNA (miRNA) precursor mir-76 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.63901 -3.09210 1600000 164362 174 80 1 -3.84260 0.71906 2020-11-26 14:32:59 2020-12-09 15:48:51 RF03967 mir-1270 1287 mir-1270 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.10 88.80 This family represents the microRNA (miRNA) precursor mir-1270 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 25 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.66028 -3.05162 1600000 215977 177 83 1 -3.65390 0.71891 2020-11-26 14:33:38 2021-07-05 13:43:57 RF03968 mir-8934 1287 mir-8934 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 110.50 48.80 This family represents the microRNA (miRNA) precursor mir-8934 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.49947 -5.22236 1600000 202540 186 88 1 -3.17790 0.71888 2020-11-26 14:33:55 2020-12-09 15:48:51 RF03969 mir-622 1287 mir-622 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 86.00 86.00 85.80 This family represents the microRNA (miRNA) precursor mir-622 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 157 0 0 Gene; miRNA; Predicted; RNAalifold 12 0 \N 0.67305 -3.14589 1600000 217565 162 72 1 -3.76430 0.71912 2020-11-26 14:37:48 2021-07-05 13:43:57 RF03970 mir-2766 1287 mir-2766 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 61.70 57.50 This family represents the microRNA (miRNA) precursor mir-2766 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.67594 -3.43689 1600000 269098 157 68 1 -3.17700 0.72520 2020-11-26 14:38:12 2021-07-05 13:43:57 RF03971 mir-3572 1287 mir-3572 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 108.70 79.10 This family represents the microRNA (miRNA) precursor mir-3572 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.65695 -3.22435 1600000 222536 182 86 1 -3.13920 0.71897 2020-11-26 14:38:30 2020-12-09 15:48:51 RF03972 mir-3150 1287 mir-3150 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 102.40 81.10 This family represents the microRNA (miRNA) precursor mir-3150 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.55856 -5.05174 1600000 231178 173 80 1 -3.09360 0.72257 2020-11-26 14:38:51 2020-12-09 15:48:51 RF03973 mir-5615 1287 mir-5615 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 82.00 82.90 62.70 This family represents the microRNA (miRNA) precursor mir-5615 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61345 -4.24230 1600000 264455 148 61 1 -2.81230 0.72629 2020-11-26 14:39:08 2020-12-09 15:48:51 RF03974 MIR838 1287 MIR838 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 190.00 196.80 183.90 This family represents the microRNA (miRNA) precursor MIR838 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.56257 -6.15130 1600000 214299 295 170 1 -3.40790 0.71590 2020-11-26 14:42:25 2021-07-05 13:43:57 RF03975 mir-5881 1287 mir-5881 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 87.00 87.90 73.60 This family represents the microRNA (miRNA) precursor mir-5881 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.74837 -1.37049 1600000 187800 156 67 1 -3.07160 0.72785 2020-11-26 14:42:53 2020-12-09 15:48:51 RF03976 MIR898 1287 MIR898 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 75.00 75.90 73.90 This family represents the microRNA (miRNA) precursor MIR898 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61684 -4.86838 1600000 219533 273 154 1 -3.07590 0.71823 2020-11-26 14:43:11 2020-12-09 15:48:51 RF03977 mir-976 1287 mir-976 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 112.40 55.50 This family represents the microRNA (miRNA) precursor mir-976 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.58085 -3.96445 1600000 229375 181 85 1 -3.54030 0.71882 2020-11-26 14:43:33 2020-12-09 15:48:51 RF03978 mir-1269 1287 mir-1269 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 110.00 98.50 This family represents the microRNA (miRNA) precursor mir-1269 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.51784 -5.76743 1600000 236752 188 90 1 -2.86870 0.71884 2020-11-26 14:44:03 2021-07-05 13:43:57 RF03979 mir-2006 1287 mir-2006 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 92.00 55.80 This family represents the microRNA (miRNA) precursor mir-2006 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 1 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.65743 -2.92059 1600000 189182 187 91 1 -3.35350 0.71878 2020-11-26 14:44:23 2021-07-05 13:43:57 RF03980 mir-2012 1287 mir-2012 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.50 70.10 This family represents the microRNA (miRNA) precursor mir-2012 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.60785 -3.80621 1600000 210801 178 84 1 -3.18200 0.72408 2020-11-26 14:44:42 2021-07-05 13:43:57 RF03981 mir-8799 1287 mir-8799 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 46.20 46.20 46.10 This family represents the microRNA (miRNA) precursor mir-8799 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 4760 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.52472 -4.02381 1600000 185310 185 90 1 -3.10050 0.71890 2020-11-26 14:53:18 2020-12-09 15:48:51 RF03982 mir-4865 1287 mir-4865 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 110.20 46.80 This family represents the microRNA (miRNA) precursor mir-4865 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.60775 -3.80976 1600000 216283 179 84 1 -3.35280 0.71891 2020-11-26 14:53:40 2021-07-05 13:43:57 RF03983 MIR5284 1287 MIR5284 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 93.00 93.60 92.40 This family represents the microRNA (miRNA) precursor MIR5284 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 8 143 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63677 -2.92993 1600000 142771 215 111 1 -3.31810 0.71869 2020-11-26 14:54:17 2020-12-09 15:48:51 RF03984 MIR2933 1287 MIR2933 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 78.80 62.30 This family represents the microRNA (miRNA) precursor MIR2933 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 15 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.65677 -3.26000 1600000 228193 219 112 1 -3.18830 0.71844 2020-11-26 14:54:41 2020-12-09 15:48:51 RF03985 mir-9250 1287 mir-9250 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 95.80 74.70 This family represents the microRNA (miRNA) precursor mir-9250 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.56793 -4.36257 1600000 267671 151 63 1 -3.07830 0.72437 2020-12-04 11:17:32 2021-07-05 13:43:57 RF03986 mir-6095 1287 mir-6095 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 106.70 62.60 This family represents the microRNA (miRNA) precursor mir-6095 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61367 -2.28734 1600000 214554 177 83 1 -3.48160 0.71884 2020-12-04 11:18:02 2021-07-05 13:43:57 RF03987 MIR6136 1287 MIR6136 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 99.00 99.10 80.80 This family represents the microRNA (miRNA) precursor MIR6136 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.56374 -4.31126 1600000 180581 207 105 1 -3.06480 0.71885 2020-12-04 11:18:31 2021-07-05 13:43:57 RF03988 mir-6301 1287 mir-6301 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 99.10 55.50 This family represents the microRNA (miRNA) precursor mir-6301 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.70043 -2.33694 1600000 242565 170 78 1 -3.55610 0.72174 2020-12-04 11:18:59 2021-07-05 13:43:57 RF03989 mir-7950 1287 mir-7950 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 82.00 82.00 40.90 This family represents the microRNA (miRNA) precursor mir-7950 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63591 -3.68361 1600000 280360 145 59 1 -3.16080 0.72977 2020-12-04 11:19:28 2021-07-05 13:43:57 RF03990 mir-4888 1287 mir-4888 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 99.00 47.30 This family represents the microRNA (miRNA) precursor mir-4888 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.57235 -4.40677 1600000 250027 164 73 1 -3.51850 0.72200 2020-12-04 11:19:53 2021-07-05 13:43:57 RF03991 mir-9209 1287 mir-9209 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.30 78.80 This family represents the microRNA (miRNA) precursor mir-9209 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64585 -3.75997 1600000 265312 161 72 1 -3.38850 0.71914 2020-12-04 11:20:18 2021-07-05 13:43:57 RF03992 mir-6302 1287 mir-6302 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 97.00 54.30 This family represents the microRNA (miRNA) precursor mir-6302 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66563 -2.93251 1600000 220491 172 79 1 -3.26780 0.72499 2020-12-04 11:20:48 2022-10-29 16:42:07 RF03993 mir-8536 1287 mir-8536 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 102.30 63.30 This family represents the microRNA (miRNA) precursor mir-8536 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.67225 -1.73698 1600000 134160 181 86 1 -3.08560 0.72434 2020-12-04 11:21:18 2021-07-05 13:43:57 RF03994 mir-7558 1287 mir-7558 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.80 73.60 This family represents the microRNA (miRNA) precursor mir-7558 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60583 -4.63500 1600000 347160 134 51 1 -2.65670 0.73423 2020-12-04 11:21:47 2021-07-05 13:43:57 RF03995 mir-7957 1287 mir-7957 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 76.00 76.60 46.20 This family represents the microRNA (miRNA) precursor mir-7957 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61623 -3.46566 1600000 286698 140 59 1 -3.67080 0.71928 2020-12-04 11:22:13 2021-07-05 13:43:57 RF03996 mir-3012 1287 mir-3012 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 92.00 59.70 This family represents the microRNA (miRNA) precursor mir-3012 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61089 -3.32880 1600000 291197 157 68 1 -3.30870 0.72455 2020-12-04 11:22:45 2021-07-05 13:43:57 RF03997 mir-8510 1287 mir-8510 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 92.50 44.20 This family represents the microRNA (miRNA) precursor mir-8510 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64951 -3.33937 1600000 221738 155 67 1 -3.33450 0.71913 2020-12-04 11:23:14 2021-07-05 13:43:57 RF03998 mir-2160 1287 mir-2160 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 119.00 53.20 This family represents the microRNA (miRNA) precursor mir-2160 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.59762 -1.96225 1600000 189755 192 93 1 -3.21500 0.71863 2020-12-04 11:23:38 2021-07-05 13:43:57 RF03999 mir-7883 1287 mir-7883 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 50.00 52.90 49.40 This family represents the microRNA (miRNA) precursor mir-7883 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61063 -3.70233 1600000 284984 143 57 1 -3.37830 0.72793 2020-12-04 11:24:02 2021-07-05 13:43:57 RF04000 MIR8139 1287 MIR8139 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.00 37.60 This family represents the microRNA (miRNA) precursor MIR8139 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66993 -3.69034 1600000 317320 141 58 1 -3.73770 0.71941 2020-12-04 11:24:30 2021-07-05 13:43:57 RF04001 mir-7918 1287 mir-7918 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.70 41.30 This family represents the microRNA (miRNA) precursor mir-7918 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.65973 -3.81712 1600000 329808 138 58 1 -3.53230 0.71933 2020-12-04 11:25:15 2021-07-05 13:43:57 RF04002 MIR6143 1287 MIR6143 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 75.00 75.50 69.10 This family represents the microRNA (miRNA) precursor MIR6143 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61053 -3.39202 1600000 204739 185 89 1 -3.33220 0.72156 2020-12-04 11:25:42 2021-07-05 13:43:57 RF04003 mir-4841 1287 mir-4841 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 109.60 58.10 This family represents the microRNA (miRNA) precursor mir-4841 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63464 -2.38316 1600000 172945 181 86 1 -3.37510 0.71945 2020-12-04 11:26:05 2021-07-05 13:43:57 RF04004 mir-7940 1287 mir-7940 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.20 36.40 This family represents the microRNA (miRNA) precursor mir-7940 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64627 -3.40817 1600000 279141 142 57 1 -2.80150 0.73440 2020-12-04 11:26:27 2021-07-05 13:43:57 RF04005 mir-4599 1287 mir-4599 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 103.10 44.40 This family represents the microRNA (miRNA) precursor mir-4599 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.72270 -2.16138 1600000 164709 176 82 1 -3.06950 0.72253 2020-12-04 11:26:50 2021-07-05 13:43:57 RF04006 mir-9338 1287 mir-9338 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 98.00 98.50 92.30 This family represents the microRNA (miRNA) precursor mir-9338 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.67537 -3.02539 1600000 205790 154 67 1 -3.65710 0.71919 2020-12-04 11:27:15 2021-07-05 13:43:57 RF04007 mir-8489 1287 mir-8489 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 99.00 99.80 71.60 This family represents the microRNA (miRNA) precursor mir-8489 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64764 -2.50737 1600000 164758 186 90 1 -3.22020 0.72061 2020-12-04 11:27:40 2021-07-05 13:43:57 RF04008 mir-4880 1287 mir-4880 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 100.00 48.70 This family represents the microRNA (miRNA) precursor mir-4880 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63573 -3.78197 1600000 265816 166 75 1 -3.29290 0.72108 2020-12-04 11:28:09 2021-07-05 13:43:57 RF04009 mir-754 1287 mir-754 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 84.00 84.80 56.60 This family represents the microRNA (miRNA) precursor mir-754 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62109 -3.15601 1600000 235755 170 78 1 -3.66230 0.71905 2020-12-04 11:28:39 2021-07-05 13:43:57 RF04010 mir-3003 1287 mir-3003 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 70.90 61.30 This family represents the microRNA (miRNA) precursor mir-3003 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.58989 -2.73345 1600000 191039 168 76 1 -2.97120 0.72149 2020-12-04 11:29:10 2021-07-05 13:43:57 RF04011 mir-8515 1287 mir-8515 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 106.00 73.30 This family represents the microRNA (miRNA) precursor mir-8515 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.57350 -4.41356 1600000 154492 189 92 1 -3.36960 0.71888 2020-12-04 11:29:30 2021-07-05 13:43:57 RF04012 MIR7532 1287 MIR7532 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 123.50 45.80 This family represents the microRNA (miRNA) precursor MIR7532 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.55487 -4.30449 1600000 210764 211 106 1 -3.24850 0.71866 2020-12-04 11:29:50 2021-07-05 13:43:57 RF04013 mir-4818 1287 mir-4818 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 92.00 92.50 53.70 This family represents the microRNA (miRNA) precursor mir-4818 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66877 -2.60055 1600000 195465 185 89 1 -3.41470 0.72497 2020-12-04 11:30:15 2021-07-05 13:43:57 RF04014 mir-8338 1287 mir-8338 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 81.10 52.30 This family represents the microRNA (miRNA) precursor mir-8338 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63971 -4.11586 1600000 283598 148 61 1 -2.81690 0.73121 2020-12-04 11:30:35 2021-07-05 13:43:57 RF04015 MIR946 1287 MIR946 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 190.00 193.70 154.10 This family represents the microRNA (miRNA) precursor MIR946 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.57341 -7.78576 1600000 249314 316 189 1 -3.57010 0.71348 2020-12-04 11:30:57 2021-07-05 13:43:57 RF04016 mir-4873 1287 mir-4873 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 103.80 47.90 This family represents the microRNA (miRNA) precursor mir-4873 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.59115 -4.12381 1600000 238430 171 78 1 -3.47620 0.71951 2020-12-04 11:31:21 2021-07-05 13:43:57 RF04017 mir-4864 1287 mir-4864 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 107.40 38.70 This family represents the microRNA (miRNA) precursor mir-4864 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.60610 -4.13573 1600000 214946 175 81 1 -3.40260 0.71892 2020-12-04 11:31:44 2021-07-05 13:43:57 RF04018 mir-5316 1287 mir-5316 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 103.20 39.90 This family represents the microRNA (miRNA) precursor mir-5316 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.69045 -2.49404 1600000 196577 185 89 1 -3.26670 0.71882 2020-12-04 11:32:05 2021-07-05 13:43:57 RF04019 MIR950 1287 MIR950 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 97.50 89.80 This family represents the microRNA (miRNA) precursor MIR950 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 0 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.60612 -3.74248 1600000 237694 190 92 1 -3.13560 0.71886 2020-12-04 11:32:36 2021-07-05 13:43:57 RF04020 mir-4859 1287 mir-4859 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 109.20 47.00 This family represents the microRNA (miRNA) precursor mir-4859 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.60377 -3.54186 1600000 193252 174 80 1 -3.39870 0.71889 2020-12-04 11:32:59 2021-07-05 13:43:57 RF04021 mir-3492 1287 mir-3492 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 44.00 44.00 43.90 This family represents the microRNA (miRNA) precursor mir-3492 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 14778 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.64026 -3.48689 1600000 226783 172 79 1 -3.38460 0.72267 2020-12-04 11:37:00 2021-07-05 13:43:57 RF04022 mir-4863 1287 mir-4863 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 118.40 46.80 This family represents the microRNA (miRNA) precursor mir-4863 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61884 -3.52291 1600000 175936 192 93 1 -3.61190 0.71888 2020-12-04 11:37:30 2021-07-05 13:43:57 RF04023 MIR1314 1287 MIR1314 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 108.00 108.50 90.20 This family represents the microRNA (miRNA) precursor MIR1314 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.66160 -2.85746 1600000 213849 206 104 1 -3.14420 0.71862 2020-12-04 11:37:49 2021-07-05 13:43:57 RF04024 mir-9571 1287 mir-9571 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 108.60 47.80 This family represents the microRNA (miRNA) precursor mir-9571 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60617 -3.67559 1600000 197062 182 86 1 -3.09270 0.71894 2020-12-04 11:38:09 2021-07-05 13:43:57 RF04025 mir-7964 1287 mir-7964 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 83.70 36.90 This family represents the microRNA (miRNA) precursor mir-7964 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62714 -4.35949 1600000 334147 134 51 1 -3.09530 0.73310 2020-12-04 11:38:34 2021-07-05 13:43:57 RF04026 mir-8499 1287 mir-8499 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 105.90 56.90 This family represents the microRNA (miRNA) precursor mir-8499 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61779 -3.71318 1600000 208189 169 77 1 -3.10930 0.71974 2020-12-04 11:38:53 2021-07-05 13:43:57 RF04027 mir-1422 1287 mir-1422 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 60.70 54.40 This family represents the microRNA (miRNA) precursor mir-1422 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 18 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.56998 -3.76576 1600000 187399 165 84 1 -3.48610 0.71889 2020-12-04 11:39:41 2021-07-05 13:43:57 RF04028 mir-7948 1287 mir-7948 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 82.00 82.40 38.60 This family represents the microRNA (miRNA) precursor mir-7948 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63916 -3.67196 1600000 232804 147 63 1 -3.95620 0.71927 2020-12-04 11:40:18 2021-07-05 13:43:57 RF04029 mir-8521 1287 mir-8521 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 81.80 45.80 This family represents the microRNA (miRNA) precursor mir-8521 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 15 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64812 -3.45673 1600000 194893 155 68 1 -3.45190 0.71926 2020-12-04 11:40:59 2021-07-05 13:43:57 RF04030 mir-6096 1287 mir-6096 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 111.70 51.70 This family represents the microRNA (miRNA) precursor mir-6096 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64616 -3.18084 1600000 199406 181 85 1 -3.18240 0.71897 2020-12-04 11:41:29 2021-07-05 13:43:57 RF04031 mir-2686 1287 mir-2686 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.30 40.90 This family represents the microRNA (miRNA) precursor mir-2686 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63983 -3.47541 1600000 255424 157 68 1 -3.31900 0.73001 2020-12-04 11:42:00 2021-07-05 13:43:57 RF04032 MIR2912 1287 MIR2912 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 54.00 54.30 53.20 This family represents the microRNA (miRNA) precursor MIR2912 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3999 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.58336 -6.36193 1600000 245995 277 156 1 -3.24300 0.71779 2020-12-04 11:43:24 2021-07-05 13:43:57 RF04033 mir-8512 1287 mir-8512 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 95.90 37.30 This family represents the microRNA (miRNA) precursor mir-8512 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.67931 -3.30973 1600000 264495 148 61 1 -3.38850 0.72547 2020-12-04 11:43:50 2021-07-05 13:43:57 RF04035 mir-7910 1287 mir-7910 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 83.00 83.60 50.60 This family represents the microRNA (miRNA) precursor mir-7910 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.58703 -3.77441 1600000 322414 146 60 1 -2.95280 0.72992 2020-12-04 11:44:26 2021-07-05 13:43:57 RF04036 mir-2076 1287 mir-2076 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 97.90 56.60 This family represents the microRNA (miRNA) precursor mir-2076 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.64081 -3.59136 1600000 271794 157 68 1 -3.47690 0.72341 2020-12-04 11:44:45 2021-07-05 13:43:57 RF04037 mir-7911 1287 mir-7911 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 81.50 38.30 This family represents the microRNA (miRNA) precursor mir-7911 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.56796 -5.28826 1600000 275572 146 63 1 -3.48130 0.72192 2020-12-04 11:45:15 2021-07-05 13:43:57 RF04038 mir-5985 1287 mir-5985 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 101.90 95.20 This family represents the microRNA (miRNA) precursor mir-5985 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60964 -3.62462 1600000 240113 165 74 1 -3.45750 0.72118 2020-12-04 11:45:34 2021-07-05 13:43:57 RF04039 mir-2242 1287 mir-2242 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 112.40 57.50 This family represents the microRNA (miRNA) precursor mir-2242 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.73468 -1.12144 1600000 167593 194 95 1 -3.84900 0.71881 2020-12-04 11:45:58 2021-07-05 13:43:57 RF04040 mir-4866 1287 mir-4866 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 109.50 57.10 This family represents the microRNA (miRNA) precursor mir-4866 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63381 -3.24853 1600000 207453 177 82 1 -3.27380 0.71903 2020-12-04 11:46:16 2021-07-05 13:43:57 RF04041 MIR6154 1287 MIR6154 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 103.20 44.80 This family represents the microRNA (miRNA) precursor MIR6154 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.67776 -2.61555 1600000 209018 169 77 1 -3.53740 0.71908 2020-12-04 11:46:44 2021-07-05 13:43:57 RF04042 mir-7961 1287 mir-7961 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 91.20 47.30 This family represents the microRNA (miRNA) precursor mir-7961 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66723 -2.61081 1600000 273639 141 56 1 -3.34700 0.72880 2020-12-04 11:47:04 2021-07-05 13:43:57 RF04043 mir-2062 1287 mir-2062 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 97.90 48.40 This family represents the microRNA (miRNA) precursor mir-2062 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.65330 -3.66650 1600000 299171 163 72 1 -3.07140 0.72178 2020-12-04 11:47:27 2021-07-05 13:43:57 RF04044 mir-7939 1287 mir-7939 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 75.00 75.80 42.80 This family represents the microRNA (miRNA) precursor mir-7939 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 10 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63303 -4.44107 1600000 294989 142 61 1 -3.72740 0.71924 2020-12-04 11:48:00 2021-07-05 13:43:57 RF04045 mir-2147 1287 mir-2147 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 88.70 44.20 This family represents the microRNA (miRNA) precursor mir-2147 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.67133 -2.19876 1600000 205813 175 85 1 -3.40480 0.71890 2020-12-04 11:48:30 2021-07-05 13:43:57 RF04046 mir-2154 1287 mir-2154 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 115.40 50.70 This family represents the microRNA (miRNA) precursor mir-2154 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62080 -1.94700 1600000 186812 198 97 1 -3.44150 0.71874 2020-12-04 11:48:56 2021-07-05 13:43:57 RF04047 mir-9228 1287 mir-9228 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 112.40 76.70 This family represents the microRNA (miRNA) precursor mir-9228 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.67040 -2.85926 1600000 151523 181 85 1 -3.58250 0.71891 2020-12-04 11:49:29 2021-07-05 13:43:57 RF04048 mir-7927 1287 mir-7927 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 75.00 75.00 41.40 This family represents the microRNA (miRNA) precursor mir-7927 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62101 -4.26059 1600000 251087 135 56 1 -3.66840 0.71942 2020-12-04 11:50:11 2021-07-05 13:43:57 RF04049 MIR7127 1287 MIR7127 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 164.90 77.20 This family represents the microRNA (miRNA) precursor MIR7127 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.58084 -4.93862 1600000 221780 246 132 1 -3.38420 0.71828 2020-12-04 11:50:37 2021-07-05 13:43:57 RF04050 mir-2072 1287 mir-2072 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 101.20 48.60 This family represents the microRNA (miRNA) precursor mir-2072 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.66698 -2.67103 1600000 245929 156 67 1 -3.20520 0.72238 2020-12-04 11:50:59 2021-07-05 13:43:57 RF04051 mir-8517 1287 mir-8517 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 78.00 58.20 This family represents the microRNA (miRNA) precursor mir-8517 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66712 -2.49218 1600000 205348 211 108 1 -3.38760 0.71859 2020-12-04 11:51:23 2021-07-05 13:43:57 RF04052 mir-466 1287 mir-466 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 85.00 85.60 79.70 This family represents the microRNA (miRNA) precursor mir-466 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 11 15 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61427 -3.48577 1600000 233386 173 80 1 -3.74670 0.71898 2021-05-19 14:27:04 2021-06-14 14:02:18 RF04053 mir-95 1287 mir-95 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 67.50 67.50 67.30 This family represents the microRNA (miRNA) precursor mir-95 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 34 75 0 0 Gene; miRNA; Predicted; RNAalifold 41 0 \N 0.61508 -3.44188 1600000 214161 167 79 1 -3.22910 0.71914 2021-05-19 14:33:57 2021-07-05 13:43:57 RF04054 mir-2944 1287 mir-2944 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 56.00 56.00 55.90 This family represents the microRNA (miRNA) precursor mir-2944 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 46 0 0 Gene; miRNA; Predicted; RNAalifold 31 0 \N 0.67186 -1.38978 1600000 137004 169 82 1 -3.86390 0.71907 2021-05-19 14:43:17 2021-06-14 14:02:18 RF04055 mir-1261 1287 mir-1261 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 91.00 91.30 90.20 This family represents the microRNA (miRNA) precursor mir-1261 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 6 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.59348 -4.02906 1600000 217037 176 82 1 -3.75660 0.71886 2021-05-19 14:43:40 2021-07-05 13:43:57 RF04056 mir-982 1287 mir-982 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 82.80 57.50 This family represents the microRNA (miRNA) precursor mir-982 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.59754 -2.83015 1600000 201720 184 89 1 -3.09110 0.71883 2021-05-19 14:43:59 2021-06-14 14:02:18 RF04057 MIR1432 1287 MIR1432 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 100.50 76.10 This family represents the microRNA (miRNA) precursor MIR1432 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 2 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.58029 -4.14364 1600000 215147 186 89 1 -3.38120 0.71896 2021-05-19 14:44:27 2021-07-05 13:43:57 RF04059 MIR5020 1287 MIR5020 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 73.00 73.30 70.80 This family represents the microRNA (miRNA) precursor MIR5020 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63986 -2.90490 1600000 188268 305 109 1 -3.29840 0.71856 2021-05-19 14:45:44 2021-06-14 14:02:18 RF04060 mir-703 1287 mir-703 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 88.00 88.80 85.30 This family represents the microRNA (miRNA) precursor mir-703 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 7 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.64268 -2.28904 1600000 236393 154 67 1 -3.71400 0.71922 2021-05-19 14:46:03 2021-07-05 13:43:57 RF04061 mir-1420 1287 mir-1420 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 79.10 57.30 This family represents the microRNA (miRNA) precursor mir-1420 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66107 -2.64280 1600000 162249 173 87 1 -3.78480 0.71881 2021-05-19 14:46:23 2021-07-05 13:43:57 RF04062 MIR949 1287 MIR949 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 121.40 61.50 This family represents the microRNA (miRNA) precursor MIR949 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 0 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.58050 -4.08754 1600000 157571 207 106 1 -3.29350 0.71870 2021-05-19 14:46:59 2021-07-05 13:43:57 RF04063 MIR2629 1287 MIR2629 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 60.00 59.90 This family represents the microRNA (miRNA) precursor MIR2629 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 653 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.72155 -3.16054 1600000 174997 146 67 1 -3.73450 0.71922 2021-05-19 14:47:22 2021-06-14 14:02:18 RF04064 MIR5267 1287 MIR5267 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 87.00 87.00 86.90 This family represents the microRNA (miRNA) precursor MIR5267 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 194 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.58784 -2.86053 1600000 224062 174 81 1 -3.46710 0.71886 2021-05-19 14:47:54 2021-06-14 14:02:18 RF04065 mir-7563 1287 mir-7563 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 86.60 72.40 This family represents the microRNA (miRNA) precursor mir-7563 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60623 -4.23937 1600000 258659 181 76 1 -3.55970 0.71914 2021-05-19 14:48:22 2021-07-05 13:43:57 RF04066 mir-1256 1287 mir-1256 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 88.90 65.30 This family represents the microRNA (miRNA) precursor mir-1256 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 8 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.65886 -3.01118 1600000 245725 156 70 1 -3.23820 0.71934 2021-05-19 14:48:40 2021-07-05 13:43:57 RF04067 mir-4520 1287 mir-4520 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.10 89.10 This family represents the microRNA (miRNA) precursor mir-4520 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 7 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.66314 -3.59993 1600000 150281 156 70 1 -3.77100 0.71921 2021-05-19 14:49:09 2021-07-05 13:43:57 RF04068 mir-3927 1287 mir-3927 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.50 88.30 This family represents the microRNA (miRNA) precursor mir-3927 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 10 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.56274 -4.51870 1600000 208085 179 85 1 -3.47480 0.71909 2021-05-19 14:49:32 2021-07-05 13:43:57 RF04069 MIR6135 1287 MIR6135 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 99.00 99.90 90.30 This family represents the microRNA (miRNA) precursor MIR6135 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 11 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.58192 -2.25600 1600000 186854 257 122 1 -2.85060 0.71862 2021-05-19 14:49:57 2021-07-05 13:43:57 RF04070 MIR6440 1287 MIR6440 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 95.10 94.60 This family represents the microRNA (miRNA) precursor MIR6440 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 13 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.58587 -4.32746 1600000 196048 212 108 1 -3.41370 0.71871 2021-05-19 14:50:29 2021-06-14 14:02:18 RF04071 MIR2863 1287 MIR2863 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 94.00 94.10 93.40 This family represents the microRNA (miRNA) precursor MIR2863 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 24 0 0 Gene; miRNA; Predicted; RNAalifold 11 0 \N 0.63400 -3.08840 1600000 194114 227 113 1 -3.02080 0.71872 2021-05-19 14:50:47 2021-07-05 13:43:57 RF04072 mir-7386 1287 mir-7386 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 44.00 44.20 43.70 This family represents the microRNA (miRNA) precursor mir-7386 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 14 38 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.59266 -4.54272 1600000 227505 127 59 1 -3.98730 0.71962 2021-05-19 14:51:14 2021-06-14 14:02:18 RF04073 mir-727 1287 mir-727 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 104.00 104.00 103.00 This family represents the microRNA (miRNA) precursor mir-727 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 18 0 0 Gene; miRNA; Predicted; RNAalifold 14 0 \N 0.62186 -3.10548 1600000 203258 187 91 1 -3.49850 0.71889 2021-05-19 14:51:45 2021-07-05 13:43:57 RF04074 mir-1199 1287 mir-1199 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 82.50 71.70 This family represents the microRNA (miRNA) precursor mir-1199 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 22 0 0 Gene; miRNA; Predicted; RNAalifold 23 0 \N 0.48489 -5.18455 1600000 197671 200 100 1 -3.24570 0.71882 2021-05-19 14:52:10 2021-07-05 13:43:57 RF04075 mir-1545 1287 mir-1545 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 78.00 78.10 76.60 This family represents the microRNA (miRNA) precursor mir-1545 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 6 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.69669 -3.07562 1600000 273307 138 58 1 -3.81670 0.71934 2021-05-19 14:52:44 2021-06-14 14:02:18 RF04076 mir-H11 1287 mir-H11 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 70.80 68.40 This family represents the microRNA (miRNA) precursor mir-H11 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 50 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.59215 -3.55461 1600000 253973 159 72 1 -3.59480 0.71931 2021-05-19 14:53:05 2021-07-05 13:43:57 RF04077 mir-1245 1287 mir-1245 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 79.00 79.40 62.20 This family represents the microRNA (miRNA) precursor mir-1245 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 16 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.64063 -1.90024 1600000 236428 154 69 1 -3.63700 0.71918 2021-05-19 14:53:28 2021-07-05 13:43:57 RF04078 mir-1905 1287 mir-1905 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 83.00 83.00 82.70 This family represents the microRNA (miRNA) precursor mir-1905 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 112 0 0 Gene; miRNA; Predicted; RNAalifold 54 0 \N 0.59687 -3.97512 1600000 172559 161 73 1 -3.69090 0.71909 2021-05-19 14:53:57 2021-06-14 14:02:18 RF04079 MIR161 1287 MIR161 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 93.20 83.70 This family represents the microRNA (miRNA) precursor MIR161 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 10 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.65505 -3.57800 1600000 225227 249 136 1 -3.29800 0.71834 2021-05-19 14:54:20 2021-07-05 13:43:57 RF04080 mir-762 1287 mir-762 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.50 68.70 This family represents the microRNA (miRNA) precursor mir-762 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 27 0 0 Gene; miRNA; Predicted; RNAalifold 19 0 \N 0.47409 -6.21165 1600000 293715 164 75 1 -3.30340 0.71901 2021-05-19 14:54:43 2021-07-05 13:43:57 RF04081 mir-1992 1287 mir-1992 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 82.70 65.60 This family represents the microRNA (miRNA) precursor mir-1992 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 1 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.70849 -2.28590 1600000 165714 161 75 1 -3.62760 0.72139 2021-05-19 14:55:15 2021-07-05 13:43:57 RF04082 mir-54 1287 mir-54 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 70.90 65.30 This family represents the microRNA (miRNA) precursor mir-54 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 8 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.60372 -4.17364 1600000 203468 176 88 1 -3.52620 0.71887 2021-05-19 14:55:42 2021-06-14 14:02:18 RF04083 MIR528 1287 MIR528 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 62.00 62.90 54.30 This family represents the microRNA (miRNA) precursor MIR528 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 7 23 0 0 Gene; miRNA; Predicted; RNAalifold 22 0 \N 0.59685 -5.77545 1600000 292672 179 89 1 -2.91980 0.71905 2021-05-19 14:56:17 2021-07-05 13:43:57 RF04084 mir-595 1287 mir-595 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 90.00 53.40 This family represents the microRNA (miRNA) precursor mir-595 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 7 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.68270 -2.58172 1600000 172534 181 86 1 -3.40210 0.71886 2021-05-19 14:56:45 2021-07-05 13:43:57 RF04085 mir-1271 1287 mir-1271 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.50 80.50 80.20 This family represents the microRNA (miRNA) precursor mir-1271 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 13 29 0 0 Gene; miRNA; Predicted; RNAalifold 33 0 \N 0.68831 -2.76357 1600000 197000 190 77 1 -3.55760 0.71909 2021-05-19 14:57:12 2021-07-05 13:43:57 RF04087 MIR5565 1287 MIR5565 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.00 79.90 This family represents the microRNA (miRNA) precursor MIR5565 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 7 1903 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.66730 -2.99951 1600000 182834 210 109 1 -3.52220 0.71874 2021-05-19 14:58:08 2021-06-14 14:02:18 RF04088 MIR812 1287 MIR812 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.00 79.90 This family represents the microRNA (miRNA) precursor MIR812 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 22 58318 0 0 Gene; miRNA; Predicted; RNAalifold 15 0 \N 0.41409 -9.32100 1600000 568614 324 205 1 -3.33650 0.71176 2021-05-19 14:59:32 2022-10-29 16:42:07 RF04089 mir-753 1287 mir-753 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 62.00 62.40 56.50 This family represents the microRNA (miRNA) precursor mir-753 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.68867 -1.26920 1600000 231590 145 62 1 -3.90390 0.71933 2021-05-19 15:00:28 2021-07-05 13:43:57 RF04090 mir-6529 1287 mir-6529 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 71.00 71.40 51.50 This family represents the microRNA (miRNA) precursor mir-6529 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 32 0 0 Gene; miRNA; Predicted; RNAalifold 32 0 \N 0.62900 -3.25193 1600000 199285 171 79 1 -3.56370 0.71905 2021-05-19 15:00:50 2021-06-14 14:02:18 RF04091 mir-72 1287 mir-72 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.00 60.10 59.20 This family represents the microRNA (miRNA) precursor mir-72 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 51 0 0 Gene; miRNA; Predicted; RNAalifold 50 0 \N 0.64674 -4.51374 1600000 190681 428 71 1 -3.45550 0.71905 2021-05-19 15:01:20 2021-07-05 13:43:57 RF04092 MIR1508 1287 MIR1508 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 89.70 69.50 This family represents the microRNA (miRNA) precursor MIR1508 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 88.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61327 -3.65409 1600000 174891 188 91 1 -3.41350 0.71890 2021-05-19 16:58:34 2021-06-14 14:02:18 RF04093 mir-1784 1287 mir-1784 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 98.00 98.50 97.10 This family represents the microRNA (miRNA) precursor mir-1784 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 49 0 0 Gene; miRNA; Predicted; RNAalifold 49 0 \N 0.62097 -3.32752 1600000 166587 191 92 1 -3.37190 0.71879 2021-05-20 10:54:35 2021-06-14 14:02:18 RF04094 MIR537 1287 MIR537 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 123.30 82.90 This family represents the microRNA (miRNA) precursor MIR537 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66082 -4.46206 1600000 181062 436 151 1 -3.09880 0.71823 2021-05-20 10:54:51 2021-06-14 14:02:18 RF04095 MIR9746 1287 MIR9746 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 79.00 79.10 77.10 This family represents the microRNA (miRNA) precursor MIR9746 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 28 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61484 -3.08537 1600000 167082 216 110 1 -3.38520 0.71858 2021-05-20 10:55:07 2021-06-14 14:02:18 RF04096 mir-4433 1287 mir-4433 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 77.00 77.30 74.40 This family represents the microRNA (miRNA) precursor mir-4433 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 12 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.60593 -4.06154 1600000 199298 176 83 1 -3.10930 0.72146 2021-05-20 10:55:28 2021-06-14 14:02:18 RF04097 MIR2630 1287 MIR2630 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 144.00 144.00 142.00 This family represents the microRNA (miRNA) precursor MIR2630 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 23 288 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.55941 -7.69661 1600000 243129 364 229 1 -3.09200 0.70994 2021-05-20 10:55:58 2021-06-14 14:02:18 RF04098 MIR9471 1287 MIR9471 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 150.00 156.70 139.90 This family represents the microRNA (miRNA) precursor MIR9471 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66383 -3.29112 1600000 190686 250 135 1 -3.00120 0.71835 2021-05-20 10:56:39 2021-06-14 14:02:18 RF04099 MIR837 1287 MIR837 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 117.00 117.60 93.50 This family represents the microRNA (miRNA) precursor MIR837 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.62000 -3.79285 1600000 214936 231 122 1 -3.21730 0.71861 2021-05-20 10:56:55 2021-07-05 13:43:57 RF04100 mir-493 1287 mir-493 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 68.00 68.00 57.40 This family represents the microRNA (miRNA) precursor mir-493 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 35 0 0 Gene; miRNA; Predicted; RNAalifold 38 0 \N 0.54655 -4.84854 1600000 151908 186 89 1 -3.49990 0.71877 2021-05-20 10:57:16 2021-07-05 13:43:57 RF04101 mir-8864 1287 mir-8864 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 120.00 128.20 113.50 This family represents the microRNA (miRNA) precursor mir-8864 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.55852 -4.33950 1600000 188805 216 110 1 -3.00270 0.71868 2021-05-20 10:57:49 2021-06-14 14:02:18 RF04102 MIR6457 1287 MIR6457 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 140.00 140.30 126.20 This family represents the microRNA (miRNA) precursor MIR6457 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 14 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.57508 -5.74056 1600000 209700 304 177 1 -3.50790 0.71511 2021-05-20 10:58:04 2021-06-14 14:02:18 RF04103 mir-8356 1287 mir-8356 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 86.60 40.70 This family represents the microRNA (miRNA) precursor mir-8356 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.65052 -2.33677 1600000 240278 153 65 1 -3.35230 0.72761 2021-05-20 10:58:19 2021-06-14 14:02:18 RF04104 MIR918 1287 MIR918 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 268.00 268.40 180.60 This family represents the microRNA (miRNA) precursor MIR918 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.49719 -8.95554 1600000 184207 412 265 1 -3.34830 0.70777 2021-05-20 10:58:34 2021-06-14 14:02:18 RF04105 mir-3165 1287 mir-3165 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.80 67.60 This family represents the microRNA (miRNA) precursor mir-3165 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.57080 -4.38659 1600000 276999 167 75 1 -3.29540 0.71959 2021-05-20 10:58:50 2021-06-14 14:02:18 RF04106 mir-1303 1287 mir-1303 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 107.00 107.90 101.20 This family represents the microRNA (miRNA) precursor mir-1303 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 4 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.59450 -4.26437 1600000 243329 180 85 1 -3.64980 0.71903 2021-05-20 10:59:08 2021-07-05 13:43:57 RF04107 mir-5391 1287 mir-5391 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 99.30 99.30 99.00 This family represents the microRNA (miRNA) precursor mir-5391 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.65139 -3.46967 1600000 222805 157 68 1 -3.02860 0.72295 2021-05-20 10:59:25 2021-06-14 14:02:18 RF04108 mir-2513 1287 mir-2513 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 89.00 89.70 88.20 This family represents the microRNA (miRNA) precursor mir-2513 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.59414 -4.37011 1600000 224790 227 120 1 -2.92080 0.71853 2021-05-20 10:59:41 2021-07-05 13:43:57 RF04109 mir-1305 1287 mir-1305 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 63.00 63.50 59.20 This family represents the microRNA (miRNA) precursor mir-1305 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 18 0 0 Gene; miRNA; Predicted; RNAalifold 19 0 \N 0.59603 -3.75391 1600000 185693 178 83 1 -3.36260 0.71884 2021-05-20 10:59:55 2021-07-05 13:43:57 RF04110 MIR5084 1287 MIR5084 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 110.00 110.20 109.80 This family represents the microRNA (miRNA) precursor MIR5084 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 75 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.58450 -4.59506 1600000 217449 230 122 1 -3.25440 0.71853 2021-05-20 11:00:10 2021-07-05 13:43:57 RF04111 MIR6274 1287 MIR6274 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 80.00 79.90 This family represents the microRNA (miRNA) precursor MIR6274 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 62 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64812 -1.48669 1600000 161552 209 107 1 -3.01460 0.71865 2021-05-20 11:00:27 2021-06-14 14:02:18 RF04112 MIR5512 1287 MIR5512 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 139.00 139.60 138.70 This family represents the microRNA (miRNA) precursor MIR5512 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 14 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.59565 -3.39543 1600000 180034 244 132 1 -2.82170 0.71831 2021-05-20 11:00:43 2021-07-05 13:43:57 RF04113 MIR1523 1287 MIR1523 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 96.00 96.00 67.00 This family represents the microRNA (miRNA) precursor MIR1523 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.64480 -2.25619 1600000 178298 189 92 1 -2.94770 0.72142 2021-05-20 11:00:58 2021-06-14 14:02:18 RF04114 MIR4374 1287 MIR4374 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 105.00 105.00 104.70 This family represents the microRNA (miRNA) precursor MIR4374 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 62 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.64282 -3.32906 1600000 151967 224 119 1 -2.90680 0.71860 2021-05-20 11:01:13 2021-06-14 14:02:18 RF04115 mir-6130 1287 mir-6130 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 117.00 117.00 78.50 This family represents the microRNA (miRNA) precursor mir-6130 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 7 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.63195 -2.64866 1600000 195853 206 103 1 -3.54700 0.71864 2021-05-20 11:01:32 2021-06-14 14:02:18 RF04116 MIR9672 1287 MIR9672 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 74.00 74.40 72.90 This family represents the microRNA (miRNA) precursor MIR9672 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.59101 -4.31375 1600000 226403 230 120 1 -3.04760 0.71850 2021-05-20 11:01:55 2021-07-05 13:43:57 RF04117 MIR5200 1287 MIR5200 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 71.40 69.40 This family represents the microRNA (miRNA) precursor MIR5200 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 39 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.61464 -3.37267 1600000 148943 186 92 1 -3.17340 0.71886 2021-05-20 11:02:11 2021-07-05 13:43:57 RF04118 MIR9481 1287 MIR9481 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 130.00 141.50 117.70 This family represents the microRNA (miRNA) precursor MIR9481 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63246 -3.86383 1600000 195707 248 135 1 -2.70140 0.71828 2021-05-20 11:02:29 2021-06-14 14:02:18 RF04119 MIR1858 1287 MIR1858 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 137.00 137.80 135.50 This family represents the microRNA (miRNA) precursor MIR1858 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 21 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.52087 -5.85350 1600000 177369 330 197 1 -3.23770 0.71298 2021-05-20 11:02:43 2021-07-05 13:43:57 RF04120 MIR5998 1287 MIR5998 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 180.00 188.10 93.00 This family represents the microRNA (miRNA) precursor MIR5998 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60019 -7.12507 1600000 263209 295 173 1 -3.00950 0.71554 2021-05-20 11:02:58 2021-06-14 14:02:18 RF04121 mir-1289 1287 mir-1289 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 66.00 66.70 64.00 This family represents the microRNA (miRNA) precursor mir-1289 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 15 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.65069 -2.33495 1600000 156347 189 91 1 -3.52070 0.71876 2021-05-20 11:03:15 2021-07-05 13:43:57 RF04122 mir-1204 1287 mir-1204 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 70.60 65.80 This family represents the microRNA (miRNA) precursor mir-1204 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 4 11 0 0 Gene; miRNA; Predicted; RNAalifold 12 0 \N 0.62897 -4.12747 1600000 251195 154 67 1 -3.56480 0.71922 2021-05-20 11:03:36 2021-07-05 13:43:57 RF04123 mir-3127 1287 mir-3127 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 82.00 82.90 65.00 This family represents the microRNA (miRNA) precursor mir-3127 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 7 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.54702 -4.36175 1600000 201305 184 87 1 -3.65720 0.71889 2021-05-20 11:03:54 2021-07-05 13:43:57 RF04124 MIR8565 1287 MIR8565 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 136.00 136.00 135.90 This family represents the microRNA (miRNA) precursor MIR8565 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 456 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.54256 -5.14464 1600000 173812 271 154 1 -3.15730 0.71836 2021-05-20 11:04:14 2021-06-14 14:02:18 RF04125 MIR9408 1287 MIR9408 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 120.90 79.20 This family represents the microRNA (miRNA) precursor MIR9408 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.60519 -3.75204 1600000 171532 224 117 1 -3.15460 0.71851 2021-05-20 11:04:36 2021-07-05 13:43:57 RF04126 mir-9198 1287 mir-9198 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 92.00 92.00 91.90 This family represents the microRNA (miRNA) precursor mir-9198 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 29 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.56490 -5.18843 1600000 246163 169 79 1 -3.44300 0.71891 2021-05-20 11:04:54 2021-07-05 13:43:57 RF04127 MIR8007 1287 MIR8007 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 195.00 195.00 194.90 This family represents the microRNA (miRNA) precursor MIR8007 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 60 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.53295 -9.02955 1600000 321497 363 226 1 -3.43230 0.71023 2021-05-20 11:05:15 2021-06-14 14:02:18 RF04128 MIR8562 1287 MIR8562 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 211.00 211.20 210.90 This family represents the microRNA (miRNA) precursor MIR8562 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 36 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.51268 -10.07302 1600000 402243 381 242 1 -3.63800 0.70898 2021-05-20 11:05:32 2021-06-14 14:02:18 RF04129 MIR4240 1287 MIR4240 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 200.00 235.00 181.90 This family represents the microRNA (miRNA) precursor MIR4240 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.59527 -8.33286 1600000 334737 339 205 1 -3.49280 0.71206 2021-05-20 11:05:48 2021-07-05 13:43:57 RF04130 MIR7996 1287 MIR7996 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 119.00 119.00 113.90 This family represents the microRNA (miRNA) precursor MIR7996 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 114 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.51300 -8.02454 1600000 244341 321 190 1 -3.06290 0.71346 2021-05-20 11:06:04 2021-06-14 14:02:18 RF04131 mir-2032 1287 mir-2032 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 108.70 53.80 This family represents the microRNA (miRNA) precursor mir-2032 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62180 -3.43709 1600000 255258 169 77 1 -3.45560 0.71892 2021-05-20 11:06:20 2021-06-14 14:02:18 RF04132 mir-4436 1287 mir-4436 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 74.00 74.80 64.10 This family represents the microRNA (miRNA) precursor mir-4436 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 32 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.63739 -3.69529 1600000 194176 180 85 1 -2.99650 0.72368 2021-05-20 11:06:35 2021-06-14 14:02:18 RF04133 MIR2646 1287 MIR2646 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 245.00 245.10 231.10 This family represents the microRNA (miRNA) precursor MIR2646 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 9 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.58867 -8.37397 1600000 279297 401 256 1 -4.02350 0.70819 2021-05-20 11:06:50 2021-06-14 14:02:18 RF04134 MIR7504 1287 MIR7504 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 83.00 83.00 82.90 This family represents the microRNA (miRNA) precursor MIR7504 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 1767 0 0 Gene; miRNA; Predicted; RNAalifold 12 0 \N 0.56954 -3.57902 1600000 192169 226 124 1 -2.92980 0.71843 2021-05-20 11:07:10 2021-06-14 14:02:18 RF04135 MIR5062 1287 MIR5062 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 140.00 141.40 105.30 This family represents the microRNA (miRNA) precursor MIR5062 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.57088 -6.24240 1600000 266391 281 158 1 -3.38480 0.71763 2021-05-20 11:07:37 2021-07-05 13:43:57 RF04136 MIR1862 1287 MIR1862 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 84.00 84.00 83.80 This family represents the microRNA (miRNA) precursor MIR1862 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 82 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.60060 -4.30272 1600000 205838 188 90 1 -3.64280 0.71899 2021-05-20 11:07:58 2021-07-05 13:43:57 RF04137 MIR834 1287 MIR834 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 200.00 216.60 81.40 This family represents the microRNA (miRNA) precursor MIR834 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.62960 -6.31303 1600000 266701 308 180 1 -3.27920 0.71445 2021-05-20 11:08:18 2021-07-05 13:43:57 RF04138 mir-9243 1287 mir-9243 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 83.00 83.00 82.50 This family represents the microRNA (miRNA) precursor mir-9243 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.61952 -3.18349 1600000 180721 180 86 1 -3.29420 0.72196 2021-05-20 11:08:32 2021-07-05 13:43:57 RF04139 MIR841 1287 MIR841 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 200.00 207.00 197.60 This family represents the microRNA (miRNA) precursor MIR841 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 5 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.59147 -7.00724 1600000 355916 347 212 1 -3.59290 0.71138 2021-05-20 11:08:49 2021-07-05 13:43:57 RF04140 mir-3118 1287 mir-3118 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 89.00 89.60 88.70 This family represents the microRNA (miRNA) precursor mir-3118 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 26 0 0 Gene; miRNA; Predicted; RNAalifold 7 0 \N 0.63936 -2.51162 1600000 223363 168 76 1 -3.26130 0.72032 2021-05-20 11:09:07 2021-06-14 14:02:18 RF04141 MIR8622 1287 MIR8622 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 197.00 197.10 196.90 This family represents the microRNA (miRNA) precursor MIR8622 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 77 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.50225 -9.82650 1600000 231098 346 212 1 -3.09860 0.71146 2021-05-20 11:09:23 2021-06-14 14:02:18 RF04142 mir-1299 1287 mir-1299 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 89.00 89.00 88.90 This family represents the microRNA (miRNA) precursor mir-1299 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 67 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.61038 -3.75647 1600000 212423 176 83 1 -3.47050 0.71894 2021-05-20 11:09:39 2021-07-05 13:43:57 RF04143 MIR869 1287 MIR869 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 330.00 336.50 186.40 This family represents the microRNA (miRNA) precursor MIR869 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.60960 -9.42086 1600000 350222 449 296 1 -4.22130 0.70619 2021-05-20 11:09:56 2021-07-05 13:43:57 RF04144 MIR9783 1287 MIR9783 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 100.20 99.80 This family represents the microRNA (miRNA) precursor MIR9783 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.63992 -2.25806 1600000 151385 193 95 1 -3.50840 0.71877 2021-05-20 11:10:12 2021-07-05 13:43:57 RF04145 MIR8706 1287 MIR8706 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 97.70 94.60 This family represents the microRNA (miRNA) precursor MIR8706 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.60801 -3.37578 1600000 179247 203 101 1 -3.04940 0.71871 2021-05-20 11:10:27 2021-06-14 14:02:18 RF04146 mir-4742 1287 mir-4742 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 85.00 85.10 63.00 This family represents the microRNA (miRNA) precursor mir-4742 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 10 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.58271 -3.69971 1600000 193455 181 85 1 -3.23410 0.71892 2021-05-20 11:10:44 2021-06-14 14:02:18 RF04147 MIR6224 1287 MIR6224 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 171.00 171.00 168.90 This family represents the microRNA (miRNA) precursor MIR6224 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 8 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.55050 -8.16902 1600000 269019 301 176 1 -3.35820 0.71509 2021-05-20 11:11:00 2021-06-14 14:02:18 RF04148 MIR844 1287 MIR844 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 70.80 67.10 This family represents the microRNA (miRNA) precursor MIR844 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.66010 -2.56669 1600000 171472 220 114 1 -3.34900 0.71856 2021-05-20 11:11:16 2021-07-05 13:43:57 RF04149 MIR447 1287 MIR447 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 200.00 225.80 125.00 This family represents the microRNA (miRNA) precursor MIR447 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 3 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.54709 -9.57088 1600000 340851 375 236 1 -3.65210 0.70947 2021-05-20 11:11:31 2021-06-14 14:02:18 RF04150 MIR2655 1287 MIR2655 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 122.00 122.00 121.70 This family represents the microRNA (miRNA) precursor MIR2655 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 25 445 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.42707 -14.08953 1600000 644474 414 267 1 -3.65350 0.70739 2021-05-20 11:12:01 2021-06-14 14:02:18 RF04151 MIR4387 1287 MIR4387 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 84.00 84.40 83.90 This family represents the microRNA (miRNA) precursor MIR4387 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 94 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.61661 -3.64222 1600000 163458 208 109 1 -3.06820 0.71869 2021-05-20 11:12:49 2021-06-14 14:02:18 RF04152 mir-3618 1287 mir-3618 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 99.00 99.80 82.60 This family represents the microRNA (miRNA) precursor mir-3618 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 114 0 0 Gene; miRNA; Predicted; RNAalifold 108 0 \N 0.67022 -2.43983 1600000 221354 183 88 1 -3.65450 0.71879 2021-05-20 11:13:10 2021-07-05 13:43:57 RF04153 MIR856 1287 MIR856 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 297.00 297.80 193.10 This family represents the microRNA (miRNA) precursor MIR856 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.61922 -9.21451 1600000 311337 404 258 1 -4.02390 0.70814 2021-05-20 11:13:29 2021-07-05 13:43:57 RF04154 mir-1277 1287 mir-1277 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 81.00 81.50 74.60 This family represents the microRNA (miRNA) precursor mir-1277 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 7 28 0 0 Gene; miRNA; Predicted; RNAalifold 31 0 \N 0.60103 -3.37962 1600000 229918 170 78 1 -3.74830 0.71898 2021-05-20 11:14:20 2021-07-05 13:43:57 RF04155 mir-9236 1287 mir-9236 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 98.00 98.00 97.90 This family represents the microRNA (miRNA) precursor mir-9236 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 209 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.60608 -2.35739 1600000 272616 176 83 1 -3.17270 0.71888 2021-05-20 11:14:54 2021-07-05 13:43:57 RF04156 MIR2670 1287 MIR2670 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 117.00 117.10 116.90 This family represents the microRNA (miRNA) precursor MIR2670 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 7 187 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.58734 -7.95261 1600000 293494 328 200 1 -3.46910 0.71249 2021-05-20 11:15:15 2021-06-14 14:02:18 RF04157 MIR9486 1287 MIR9486 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 107.70 91.70 This family represents the microRNA (miRNA) precursor MIR9486 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62851 -3.70599 1600000 183025 221 116 1 -3.01000 0.71850 2021-05-20 11:15:40 2021-06-14 14:02:18 RF04158 mir-568 1287 mir-568 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 75.00 75.90 66.20 This family represents the microRNA (miRNA) precursor mir-568 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 9 37 0 0 Gene; miRNA; Predicted; RNAalifold 38 0 \N 0.55196 -3.26262 1600000 168830 190 93 1 -3.60120 0.71884 2021-05-20 11:16:10 2021-07-05 13:43:57 RF04159 MIR1437 1287 MIR1437 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 168.00 168.00 138.60 This family represents the microRNA (miRNA) precursor MIR1437 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.50574 -6.96185 1600000 167776 321 192 1 -2.79300 0.71341 2021-05-20 11:16:47 2021-07-05 13:43:57 RF04160 MIR868 1287 MIR868 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 200.00 209.60 111.20 This family represents the microRNA (miRNA) precursor MIR868 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.56397 -6.73001 1600000 242337 323 193 1 -3.51700 0.71314 2021-05-20 11:17:01 2021-07-05 13:43:57 RF04161 mir-3688 1287 mir-3688 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 84.00 84.60 81.10 This family represents the microRNA (miRNA) precursor mir-3688 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 18 0 0 Gene; miRNA; Predicted; RNAalifold 9 0 \N 0.64087 -3.08883 1600000 222050 183 88 1 -3.37660 0.71921 2021-05-20 11:17:20 2021-06-14 14:02:18 RF04162 MIR9662 1287 MIR9662 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 80.00 108.40 69.60 This family represents the microRNA (miRNA) precursor MIR9662 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.53259 -4.58205 1600000 163531 202 100 1 -2.98400 0.71882 2021-05-20 11:17:37 2021-06-14 14:02:18 RF04163 mir-8364 1287 mir-8364 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 67.00 67.00 66.90 This family represents the microRNA (miRNA) precursor mir-8364 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 2083 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.56691 -5.33356 1600000 360620 139 61 1 -3.51840 0.71930 2021-05-20 11:18:00 2021-06-14 14:02:18 RF04164 MIR1507 1287 MIR1507 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 73.00 73.20 65.10 This family represents the microRNA (miRNA) precursor MIR1507 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 22 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.70075 -2.16011 1600000 131799 204 107 1 -3.82640 0.71871 2021-05-20 11:18:33 2021-07-05 13:43:57 RF04165 mir-2483 1287 mir-2483 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 75.00 75.90 64.60 This family represents the microRNA (miRNA) precursor mir-2483 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 5 12 0 0 Gene; miRNA; Predicted; RNAalifold 13 0 \N 0.61800 -3.35603 1600000 238935 173 80 1 -3.54520 0.71900 2021-05-20 11:18:58 2021-07-05 13:43:57 RF04166 mir-2278 1287 mir-2278 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 93.00 93.80 73.70 This family represents the microRNA (miRNA) precursor mir-2278 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.57939 -3.75508 1600000 160843 196 96 1 -3.44800 0.71879 2021-05-20 11:19:18 2021-07-05 13:43:57 RF04167 mir-1972 1287 mir-1972 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 90.20 89.90 This family represents the microRNA (miRNA) precursor mir-1972 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 14 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.61661 -3.85981 1600000 257813 174 81 1 -2.67190 0.72375 2021-05-20 11:19:36 2021-06-14 14:02:18 RF04168 MIR839 1287 MIR839 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 200.00 267.00 199.60 This family represents the microRNA (miRNA) precursor MIR839 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.56458 -7.83123 1600000 276262 414 267 1 -4.14100 0.70761 2021-05-20 11:19:51 2021-07-05 13:43:57 RF04169 mir-2235 1287 mir-2235 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 61.00 61.80 47.30 This family represents the microRNA (miRNA) precursor mir-2235 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 14 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.66116 -2.52550 1600000 198073 181 87 1 -3.92030 0.71882 2021-05-20 11:20:10 2021-06-14 14:02:18 RF04170 MIR7723 1287 MIR7723 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 200.00 203.00 145.00 This family represents the microRNA (miRNA) precursor MIR7723 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.56835 -7.32620 1600000 292133 370 235 1 -3.73720 0.70945 2021-05-20 11:20:31 2021-06-14 14:02:18 RF04171 MIR1509 1287 MIR1509 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 87.00 87.40 86.60 This family represents the microRNA (miRNA) precursor MIR1509 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 8 15 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.61515 -3.61849 1600000 226426 222 121 1 -2.95860 0.71842 2021-05-20 11:20:49 2021-07-05 13:43:57 RF04172 MIR8675 1287 MIR8675 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.80 90.80 90.70 This family represents the microRNA (miRNA) precursor MIR8675 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 32 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.62766 -2.34116 1600000 177648 192 95 1 -3.40880 0.72028 2021-05-20 11:21:13 2021-06-14 14:02:18 RF04173 MIR847 1287 MIR847 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 184.00 184.80 95.10 This family represents the microRNA (miRNA) precursor MIR847 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.60763 -5.92778 1600000 242077 286 163 1 -3.42250 0.71671 2021-05-20 11:21:28 2021-07-05 13:43:57 RF04174 MIR4208 1287 MIR4208 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 140.00 141.10 137.90 This family represents the microRNA (miRNA) precursor MIR4208 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 7 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.48039 -7.63075 1600000 357488 323 191 1 -3.24060 0.71325 2021-05-20 11:21:45 2021-07-05 13:43:57 RF04175 mir-1260b 1287 mir-1260b microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 81.00 81.20 59.60 This family represents the microRNA (miRNA) precursor mir-1260b imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 28 0 0 Gene; miRNA; Predicted; RNAalifold 30 0 \N 0.60293 -3.44880 1600000 131558 212 108 1 -3.48980 0.71870 2021-05-20 11:22:03 2021-07-05 13:43:57 RF04176 mir-3149 1287 mir-3149 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 112.20 89.00 This family represents the microRNA (miRNA) precursor mir-3149 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.59388 -4.04921 1600000 237107 178 83 1 -3.96230 0.71889 2021-05-20 11:22:45 2021-06-14 14:02:18 RF04177 BTnc201 2761 Bacteroides sRNA BTnc201 Prezza, G, Ryan, D, Madler, G, Barquist, L, Westermann, A Published; PMID:PMC7366714; 105.00 105.00 79.10 An uncharacterized small RNA discovered in Bacteroides thetaiotaomicron [1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; sRNA; Published; PMID:PMC7366714; 10 0 \N 0.53599 -6.59342 1600000 276764 200 99 1 -3.61130 0.71850 2021-05-21 15:25:35 2021-11-19 11:53:19 RF04178 BTnc005 2761 Bacteroides sRNA BTnc005 Prezza, G, Ryan, D, Madler, G, Barquist, L, Westermann, A Published; PMID:32678091; 174.80 179.30 174.30 An uncharacterized small RNA discovered in Bacteroides thetaiotaomicron [1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 3 2 0 0 Gene; sRNA; Published; PMID:32678091; 4 0 \N 0.61499 -8.58473 1600000 418549 336 205 1 -3.17900 0.71185 2021-05-21 16:28:00 2021-11-19 11:53:19 RF04179 BTnc049 2761 Bacteroides sRNA BTnc049 Prezza, G, Ryan, D, Madler, G, Barquist, L, Westermann, A Published; PMID:PMC7366714; 81.90 81.90 67.40 An uncharacterized small RNA discovered in Bacteroides thetaiotaomicron [1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 9 30 0 0 Gene; sRNA; Published; PMID:PMC7366714; 38 0 \N 0.51364 -7.83296 1600000 349632 211 111 1 -3.51340 0.71839 2021-05-21 19:07:32 2021-11-19 11:53:19 RF04180 BTnc231 2761 Bacteroides sRNA BTnc231 Prezza, G, Ryan, D, Madler, G, Barquist, L, Westermann, A Published; PMID:32678091; 80.40 80.40 60.00 An uncharacterized small RNA discovered in Bacteroides thetaiotaomicron [1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 7 21 0 0 Gene; sRNA; Published; PMID:32678091; 28 0 \N 0.56862 -7.94235 1600000 301676 357 153 1 -3.27020 0.71805 2021-05-21 20:58:32 2021-11-19 11:53:19 RF04181 rteR 2761 rteR sRNA Prezza, G, Ryan, D, Madler, G, Barquist, L, Westermann, A Published; PMID:32678091; PMID:22821972; 72.00 72.00 58.00 A small RNA discovered in Bacteroides fragilis that has been shown to repress a transposon operon [1,2] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 10 16 0 0 Gene; sRNA; Published; PMID:32678091; PMID:22821972; 23 0 \N 0.49212 -6.81156 1600000 295233 173 84 1 -3.33290 0.71888 2021-05-21 21:33:11 2021-11-19 11:53:19 RF04182 GibS 2761 GibS sRNA Prezza, G, Ryan, D, Madler, G, Barquist, L, Westermann, A Published; PMID:PMC7366714; 94.70 94.70 83.40 A small RNA with a conserved region in the 5' region, it appears to play a role in carbon metabolism [1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 13 20 0 0 Gene; sRNA; Published; PMID:PMC7366714; 29 0 \N 0.42228 -10.93694 1600000 370933 250 142 1 -2.84580 0.71800 2021-05-24 12:36:10 2021-11-19 11:53:19 RF04183 Bacteroidales_small_SRP 1315 Bacteroidales small SRP Prezza, G, Ryan, D, Madler, G, Barquist, L, Westermann, A Published; PMID:PMC7366714; 55.20 55.20 54.60 The non-coding component of the signal recognition particle in Bacteroides [1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 31 611 0 0 Gene; Published; PMID:PMC7366714 637 0 \N 0.58797 -5.33175 1600000 207735 206 107 1 -3.57180 0.71837 2021-05-24 14:08:45 2021-07-05 13:43:57 RF04184 BTnc060 2761 Bacteroides sRNA BTnc060 Prezza, G, Ryan, D, Madler, G, Barquist, L, Westermann, A Published; PMID:32678091; 228.90 228.90 198.30 An uncharacterized small RNA discovered in Bacteroides thetaiotaomicron [1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 6 7 0 0 Gene; sRNA; Published; PMID:32678091; 13 0 \N 0.46331 -10.39877 1600000 422115 348 213 1 -3.48980 0.71103 2021-05-24 14:57:40 2021-11-19 11:53:19 RF04185 MIR2118_2 1287 MIR2118_2 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 120.00 121.10 61.20 This family represents the microRNA (miRNA) precursor MIR2118_2 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.60254 -4.36988 1600000 231093 210 106 1 -3.51440 0.71862 2021-05-27 11:10:17 2021-07-05 13:43:57 RF04186 mir-278_2 1287 mir-278_2 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 96.10 45.50 This family represents the microRNA (miRNA) precursor mir-278_2 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.66331 -2.79520 1600000 198061 172 79 1 -3.23640 0.72437 2021-05-27 14:17:17 2021-07-05 13:43:57 RF04187 MIR862 1287 MIR862 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 119.00 97.10 This family represents the microRNA (miRNA) precursor MIR862 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.64922 -2.87481 1600000 196840 215 110 1 -3.30090 0.71848 2021-05-27 14:51:19 2021-07-05 13:43:57 RF04188 Hovlinc 2762 Hovlinc ribozyme (hominin vlincRNA-located) Fei Q, Kapranov P Published; PMID:33753927 42.30 42.30 36.20 Hovlinc is a recently evolved class of self-cleaving ribozyme found in a very long non coding RNA (vlincRNA) in hominins, including humans (genus Homo), and chimpanzees and bonobos (genus Pan), but missing in gorillas (genus Gorilla). [1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 74 7 0 0 Gene; ribozyme; Published; PMID:33753927 75 0 \N 0.55829 -8.23714 1600000 343412 277 170 1 -3.21160 0.71559 2021-06-10 16:19:15 2021-12-03 12:41:14 RF04189 icd-II 2763 icd-II ncRNA motif Brewer, KI, Ontiveros-Palacios N Published; PMID:33970790 99.00 99.20 34.00 icd-II ncRNA motif was located upstream of icd gene, which codes for NADP+-dependent isocitrate dehydrogenase (IDH) enzyme. icd-II has been proposed as a strong candidate riboswitch [1]. Part of the secondary structure of icd-II includes the ribosomal binding site (RBS) of the adjacent gene wish suggest that this element can be regulating translation initiation of its associated transcript. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 15 3 0 0 Cis-reg; Published; PMID:33970790 15 0 \N 0.53208 -6.87475 1600000 354440 241 133 1 -2.54720 0.71819 2021-10-20 12:22:47 2021-11-19 10:36:03 RF04190 Hairpin-meta1 1240 Hairpin ribozyme 1 from viruses-like metatranscriptomes Eckert I, Weinberg Z Published; PMID:34096583 40.00 40.90 38.50 Hairpin-meta ribozymes were recognised in metatranscriptomic sequences of viruses-like organisms, it was proved by co-transcriptional assays that hairpin-meta1 and hairpin-meta2 non-coding RNA (ncRNAs) are catalytically active and it is suggested that they likely replicate as circular single-stranded RNAs [1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 84 2 0 0 Gene; ribozyme; Published; PMID:34096583 3 0 \N 0.51468 -6.95927 1600000 218734 462 118 1 -3.90370 0.71823 2021-10-26 12:44:42 2021-11-19 10:36:02 RF04191 Hairpin-meta2 1240 Hairpin ribozyme 2 from viruses-like metatranscriptomes Eckert I, Weinberg Z Published; PMID:34096583 210.00 212.60 35.70 Hairpin-meta ribozymes were recognised in metatranscriptomic sequences of viruses-like organisms, it was proved by co-transcriptional assays that hairpin-meta1 and hairpin-meta2 non-coding RNA (ncRNAs) are catalytically active and it is suggested that they likely replicate as circular single-stranded RNAs. [1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 48 0 0 0 Gene; ribozyme; Published; PMID:34096583 1 0 \N 0.71949 -8.91262 1600000 355941 678 269 1 -3.71430 0.70732 2021-10-26 14:43:41 2022-05-06 11:43:43 RF04192 carA 2764 carA ncRNA motif Brewer, KI, Ontiveros-Palacios N Published; PMID:33970790 100.00 100.30 37.80 carA ncRNA motif was reported as a Strong Riboswitch Candidate [1] CarA ncRNA motif was located upstream of carA gene which codes for the small subunit of carbamoyl phosphate synthase, which is an enzyme that catalyses the first committed step in pyrimidine and arginine biosynthesis. It is proposed as a possible cis-regulatory element. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 35 2 0 0 Cis-reg; Published; PMID:33970790 28 0 \N 0.50873 -10.54347 1600000 371574 325 202 1 -3.71850 0.71208 2021-11-01 11:25:47 2021-11-19 11:53:19 RF04193 mir-51 1287 mir-51 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 70.00 78.10 62.50 This family represents the microRNA (miRNA) precursor mir-51 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 7 0 0 Gene; miRNA; Predicted; RNAalifold 5 0 \N 0.63863 -3.59502 1600000 244397 144 62 1 -3.47240 0.71928 2022-03-14 12:07:38 2022-05-06 11:43:49 RF04194 mir-57 1287 mir-57 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 44.00 44.20 43.70 This family represents the microRNA (miRNA) precursor mir-57 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 46 0 0 Gene; miRNA; Predicted; RNAalifold 42 0 \N 0.63713 -3.41856 1600000 133956 172 84 1 -3.82660 0.71885 2022-03-14 17:06:08 2022-05-06 11:43:49 RF04195 MIR6217 1287 MIR6217 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 110.00 110.20 109.00 This family represents the microRNA (miRNA) precursor MIR6217 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 198 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.59690 -8.44703 1600000 322318 367 228 1 -3.12350 0.71006 2022-03-15 10:26:22 2022-10-29 16:42:07 RF04196 MIR5638 1287 MIR5638 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 500.00 510.40 236.20 This family represents the microRNA (miRNA) precursor MIR5638 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.65664 -10.88808 1600000 438008 648 464 1 -4.53090 0.70145 2022-03-15 10:26:30 2022-05-06 11:43:49 RF04197 mir-9457 1287 mir-9457 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 93.80 64.80 This family represents the microRNA (miRNA) precursor mir-9457 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 2 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.61896 -3.98059 1600000 286388 157 68 1 -3.29850 0.72266 2022-03-15 10:26:39 2022-05-06 11:43:49 RF04198 MIR8670 1287 MIR8670 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 150.00 150.60 104.20 This family represents the microRNA (miRNA) precursor MIR8670 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.57824 -4.67562 1600000 172011 258 142 1 -3.19270 0.71848 2022-03-15 10:26:45 2022-05-06 11:43:49 RF04199 MIR6027 1287 MIR6027 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 95.00 98.10 85.10 This family represents the microRNA (miRNA) precursor MIR6027 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 3 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.62394 -4.70716 1600000 190852 280 158 1 -2.66510 0.71751 2022-03-15 10:26:52 2022-05-06 11:43:49 RF04200 mir-9437 1287 mir-9437 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 82.30 82.30 82.20 This family represents the microRNA (miRNA) precursor mir-9437 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 277 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64682 -4.28367 1600000 258551 156 68 1 -3.60830 0.71901 2022-03-15 10:26:56 2022-05-06 11:43:49 RF04201 MIR7510 1287 MIR7510 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 93.00 93.00 92.60 This family represents the microRNA (miRNA) precursor MIR7510 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 8 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.59903 -4.00033 1600000 186938 172 79 1 -2.94630 0.72375 2022-03-15 10:27:09 2022-05-06 11:43:49 RF04202 MIR5380 1287 MIR5380 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 150.00 153.50 129.80 This family represents the microRNA (miRNA) precursor MIR5380 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 4 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.60848 -4.08774 1600000 216042 253 137 1 -3.13050 0.71839 2022-03-15 10:27:16 2022-05-06 11:43:49 RF04203 MIR1144 1287 MIR1144 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 93.30 85.70 This family represents the microRNA (miRNA) precursor MIR1144 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.50564 -10.12667 1600000 283509 330 199 1 -3.44310 0.71260 2022-03-15 10:55:46 2022-05-06 11:43:49 RF04204 mir-3473 1287 mir-3473 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 71.80 71.80 71.70 This family represents the microRNA (miRNA) precursor mir-3473 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 181 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.62751 -3.92890 1600000 205718 168 78 1 -2.95310 0.71928 2022-03-15 12:18:45 2022-05-06 11:43:49 RF04205 MIR2606 1287 MIR2606 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 139.70 139.70 139.50 This family represents the microRNA (miRNA) precursor MIR2606 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 216 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.49396 -5.58651 1600000 250218 328 165 1 -3.01260 0.71646 2022-03-15 12:20:02 2022-05-06 11:43:49 RF04206 MIR9555 1287 MIR9555 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 119.00 119.00 118.90 This family represents the microRNA (miRNA) precursor MIR9555 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 30 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.57456 -4.16485 1600000 232252 250 137 1 -3.31110 0.71833 2022-03-15 12:20:57 2022-05-06 11:43:49 RF04207 MIR5048 1287 MIR5048 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 160.00 168.80 130.80 This family represents the microRNA (miRNA) precursor MIR5048 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 5 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.58719 -11.42266 1600000 603504 521 356 1 -4.10480 0.70399 2022-03-15 12:23:48 2022-05-06 11:43:49 RF04208 MIR8742 1287 MIR8742 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 130.00 132.60 87.30 This family represents the microRNA (miRNA) precursor MIR8742 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 6 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.64329 -3.58402 1600000 176555 242 131 1 -3.09480 0.71843 2022-03-15 12:23:51 2022-05-06 11:43:49 RF04209 MIR7533 1287 MIR7533 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 250.00 268.00 233.30 This family represents the microRNA (miRNA) precursor MIR7533 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.56049 -7.76730 1600000 205237 388 248 1 -3.67760 0.70875 2022-03-15 12:23:56 2022-05-06 11:43:49 RF04210 MIR8643 1287 MIR8643 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 135.00 135.20 134.70 This family represents the microRNA (miRNA) precursor MIR8643 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 250 0 0 Gene; miRNA; Predicted; RNAalifold 3 0 \N 0.61253 -4.59222 1600000 241795 270 150 1 -3.11580 0.71801 2022-03-15 12:23:59 2022-05-06 11:43:49 RF04211 MIR5185 1287 MIR5185 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 101.70 101.70 101.50 This family represents the microRNA (miRNA) precursor MIR5185 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 13 37 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.58389 -4.23836 1600000 132340 213 111 1 -3.19720 0.71880 2022-03-15 12:27:48 2022-05-06 11:43:49 RF04212 mir-8904 1287 mir-8904 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 96.90 96.90 96.80 This family represents the microRNA (miRNA) precursor mir-8904 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 7 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.57953 -3.77538 1600000 178461 200 99 1 -3.07250 0.71875 2022-03-15 12:30:55 2022-05-06 11:43:49 RF04213 MIR7807 1287 MIR7807 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 96.20 83.90 This family represents the microRNA (miRNA) precursor MIR7807 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62448 -4.13982 1600000 220602 243 133 1 -3.20510 0.71846 2022-03-15 12:38:54 2022-05-06 11:43:49 RF04214 MIR7526 1287 MIR7526 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 110.00 113.80 93.80 This family represents the microRNA (miRNA) precursor MIR7526 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 8 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63218 -3.42397 1600000 196088 308 113 1 -3.15770 0.71857 2022-03-15 13:10:11 2022-05-06 11:43:49 RF04215 mir-9214 1287 mir-9214 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 77.20 77.20 77.10 This family represents the microRNA (miRNA) precursor mir-9214 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 60 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.67186 -3.33857 1600000 261083 167 75 1 -3.52070 0.72094 2022-03-15 16:21:45 2022-05-06 11:43:49 RF04216 mir-509 1287 mir-509 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 60.30 60.30 60.10 This family represents the microRNA (miRNA) precursor mir-509 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 38 138 0 0 Gene; miRNA; Predicted; RNAalifold 39 0 \N 0.66540 -2.71985 1600000 190168 169 82 1 -3.32420 0.71887 2022-03-16 12:26:43 2022-05-06 11:43:49 RF04217 mir-297 1287 mir-297 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 91.20 84.00 This family represents the microRNA (miRNA) precursor mir-297 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 11 4 0 0 Gene; miRNA; Predicted; RNAalifold 6 0 \N 0.55642 -4.84580 1600000 271401 151 71 1 -3.88580 0.71922 2022-03-24 11:22:20 2022-05-06 11:43:49 RF04218 HCV_5BSL1 2418 Hepatitis C virus stem-loop I Lamkiewicz K, Triebel S, Marz M Kevin Lamkiewicz, Sandra Triebel, Manja Marz 47.00 47.00 46.50 Genetic modification of RNA structures in Hepatitis C virus (HCV) genome affects replication and infectivity [1] Long distant RNA-RNA interactions in HCV RNAs are involved in translation to virion budding [2] It has been proposed that the 5'-3' UTR base-pairing in the HCV genome might play an important role in viral RNA replication [3] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 49 1 0 0 Cis-reg; Predicted; BM VeGETA v. 0.4, LocARNA 2.0.0RC8, RNAfold 10 0 \N 0.52860 -7.52372 1600000 429551 101 42 1 -3.97700 0.71958 2022-04-20 12:55:13 2022-05-06 11:43:54 RF04219 HCV_J750 2418 J750 non-coding RNA (containing SLSL761 and SL783) Lamkiewicz K, Triebel S, Marz M Kevin Lamkiewicz, Sandra Triebel, Manja Marz 75.00 75.70 40.00 Genetic modification of RNA structures in Hepatitis C virus (HCV) genome affects replication and infectivity [1] Long distant RNA-RNA interactions in HCV RNAs are involved in translation to virion budding [2] It has been proposed that the 5'-3' UTR base-pairing in the HCV genome might play an important role in viral RNA replication [3] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 49 1 0 0 Cis-reg; Predicted; BM VeGETA v. 0.4, LocARNA 2.0.0RC8, RNAfold 10 0 \N 0.75479 -2.64367 1600000 238711 174 84 1 -3.24750 0.71879 2022-04-20 13:10:40 2022-05-06 11:43:54 RF04220 HCV_SL588 2418 SL588 non-coding RNA Lamkiewicz K, Triebel S, Marz M Kevin Lamkiewicz, Sandra Triebel, Manja Marz 70.00 77.70 49.90 Genetic modification of RNA structures in Hepatitis C virus (HCV) genome affects replication and infectivity [1] Long distant RNA-RNA interactions in HCV RNAs are involved in translation to virion budding [2] It has been proposed that the 5'-3' UTR base-pairing in the HCV genome might play an important role in viral RNA replication [3] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 49 1 0 0 Cis-reg; Predicted; BM VeGETA v. 0.4, LocARNA 2.0.0RC8, RNAfold 10 0 \N 0.55062 -4.46087 1600000 248933 168 80 1 -2.90690 0.71908 2022-04-20 13:20:35 2022-05-06 11:43:54 RF04221 HCV_SL669 2418 SL669 non-coding RNA Lamkiewicz K, Triebel S, Marz M Kevin Lamkiewicz, Sandra Triebel, Manja Marz 80.00 87.10 38.00 Genetic modification of RNA structures in Hepatitis C virus (HCV) genome affects replication and infectivity [1] Long distant RNA-RNA interactions in HCV RNAs are involved in translation to virion budding [2] It has been proposed that the 5'-3' UTR base-pairing in the HCV genome might play an important role in viral RNA replication [3] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 49 1 0 0 Cis-reg; Predicted; BM VeGETA v. 0.4, LocARNA 2.0.0RC8, RNAfold 10 0 \N 0.64537 -3.20625 1600000 173179 175 83 1 -3.23350 0.71884 2022-04-20 16:23:42 2022-05-06 11:43:54 RF04222 PLRV_xrRNA 2765 Potato leading responsible virus exoribonuclease-resistant RNA Steckelberg A, Vicens Q, Jeffrey K Vicens Q 32.40 32.40 32.10 Potato leading responsible virus exoribonuclease-resistant RNA (PLRV-xrRNA) is a non-coding RNA (ncRNA) that blocks the progression of 5' to 3' exoribonuclease using only a folded RNA element, these elements were first reported in Flavivirus. Insights into the mechanism of programmed exoribonuclease resistance in PLRV has been reported using X-ray crystallography and in vitro assays of exoribonuclease resistance [1,2]. The structure of PLRV_xrRNA is reported in PDB 7JJU [1] \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 742849.287494 CM SEQDB 44 40 0 0 Cis-reg; Published; PMID:32848042 61 0 \N 0.53031 -7.27708 1600000 271575 211 57 1 -3.38860 0.72516 2022-04-26 11:57:24 2022-10-29 16:42:08 RF04223 MIR2619 1287 MIR2619 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 113.00 113.00 112.90 This family represents the microRNA (miRNA) precursor MIR2619 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 1173 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.64157 -6.70192 1600000 227766 330 202 1 -3.43820 0.71225 2022-09-07 16:58:24 2022-10-29 16:42:07 RF04224 mir-9229 1287 mir-9229 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 71.00 71.00 70.90 This family represents the microRNA (miRNA) precursor mir-9229 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 7 11544 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.62767 -3.76607 1600000 272721 166 76 1 -3.69000 0.71915 2022-09-08 10:11:19 2022-10-29 16:42:07 RF04225 MIR7502 1287 MIR7502 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 71.00 71.00 70.90 This family represents the microRNA (miRNA) precursor MIR7502 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 6 17675 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.41382 -6.21518 1600000 202747 249 143 1 -2.46350 0.71812 2022-09-08 10:36:08 2022-10-29 16:42:07 RF04226 mir-9186 1287 mir-9186 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 73.00 73.40 72.90 This family represents the microRNA (miRNA) precursor mir-9186 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 31 65 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.59521 -4.53352 1600000 240217 167 80 1 -3.56100 0.71899 2022-09-08 11:32:41 2022-10-29 16:42:07 RF04227 mir-9215 1287 mir-9215 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 88.00 88.30 87.70 This family represents the microRNA (miRNA) precursor mir-9215 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 5 4 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.64782 -2.68392 1600000 183191 179 85 1 -3.30000 0.71894 2022-09-09 15:38:37 2022-10-29 16:42:07 RF04228 MIR6140 1287 MIR6140 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 140.00 143.70 114.90 This family represents the microRNA (miRNA) precursor MIR6140 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.56798 -4.99518 1600000 196189 285 165 1 -3.15440 0.71642 2022-09-16 11:46:29 2022-10-29 16:42:07 RF04229 mir-9279 1287 mir-9279 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 85.00 85.20 47.20 This family represents the microRNA (miRNA) precursor mir-9279 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 4 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.58389 -3.78710 1600000 203194 163 74 1 -3.31790 0.71912 2022-09-16 13:54:45 2022-10-29 16:42:07 RF04230 mir-9261 1287 mir-9261 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 86.00 97.20 85.50 This family represents the microRNA (miRNA) precursor mir-9261 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 3 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.63375 -3.36758 1600000 237536 188 92 1 -3.15400 0.71886 2022-09-16 13:58:02 2022-10-29 16:42:07 RF04231 mir-9191 1287 mir-9191 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 100.00 102.30 39.70 This family represents the microRNA (miRNA) precursor mir-9191 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.62627 -3.34703 1600000 285388 164 73 1 -3.06110 0.72141 2022-09-16 14:04:44 2022-10-29 16:42:07 RF04232 mir-9318 1287 mir-9318 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 90.00 99.30 87.90 This family represents the microRNA (miRNA) precursor mir-9318 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 0 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 0 0 0 Gene; miRNA; Predicted; RNAalifold 1 0 \N 0.65006 -3.67477 1600000 228175 167 76 1 -3.20760 0.72175 2022-09-16 14:07:53 2022-10-29 16:42:07 RF04233 mir-680 1287 mir-680 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 104.00 104.30 103.90 This family represents the microRNA (miRNA) precursor mir-680 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 25.00 -Z 742849.287494 CM SEQDB 2 195 0 0 Gene; miRNA; Predicted; RNAalifold 2 0 \N 0.59514 -3.76745 1600000 199265 203 101 1 -3.28050 0.71868 2022-10-18 12:39:38 2022-10-29 16:42:07 RF04234 mir-1421 1287 mir-1421 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 45.00 45.50 44.90 This family represents the microRNA (miRNA) precursor mir-1421 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 40.00 -Z 742849.287494 CM SEQDB 53 34 0 0 Gene; miRNA; Predicted; RNAalifold 4 0 \N 0.60604 -4.36710 1600000 246573 155 74 1 -3.69220 0.71900 2022-10-19 21:30:34 2022-10-29 16:42:07 RF04235 mir-242_2 1287 microRNA mir-242_2 Griffiths-Jones SR Griffiths-Jones SR 56.00 56.30 54.70 This family represents the microRNA (miRNA) precursor mir-1421 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 40.00 -Z 742849.287494 CM SEQDB 9 7 0 0 Gene; miRNA; Predicted; RNAalifold 8 0 \N 0.72229 -1.90634 1600000 134988 158 81 1 -4.29200 0.71884 2022-10-19 23:18:40 2022-10-29 16:42:07 RF04236 mir-1285 1287 mir-1285 microRNA precursor family Griffiths-Jones SR Griffiths-Jones SR 56.00 56.00 55.90 This family represents the microRNA (miRNA) precursor mir-1421 imported from miRBase. \N cmbuild -F CM SEED cmcalibrate --mpi CM cmsearch --cpu 4 --verbose --nohmmonly -T 40.00 -Z 742849.287494 CM SEQDB 5 101 0 0 Gene; miRNA; Predicted; RNAalifold 10 0 \N 0.59214 -4.59783 1600000 208590 150 68 1 -3.45680 0.71909 2022-10-19 23:25:38 2022-10-29 16:42:07