SFE / raw_data /life /L017 /0012-RF01793.stockholm
Soptq's picture
Add files using upload-large-folder tool
06d2695 verified
# STOCKHOLM 1.0
#=GF ID ffh
#=GF AC RF01793
#=GF DE ffh sRNA
#=GF AU Meyer MM; 0000-0001-7014-9271
#=GF GA 35.0
#=GF NC 34.9
#=GF TC 35.0
#=GF SE Published; PMID:19531245
#=GF SS Published; PMID:19531245
#=GF TP Gene; sRNA;
#=GF BM cmbuild -F CM SEED
#=GF CB cmcalibrate --mpi CM
#=GF SM cmsearch --cpu 4 --verbose --nohmmonly -T 29.24 -Z 2958934 CM SEQDB
#=GF DR SO; 0000370; small_regulatory_ncRNA;
#=GF RN [1]
#=GF RM 19531245
#=GF RT Identification of candidate structured RNAs in the marine organism
#=GF RT 'Candidatus Pelagibacter ubique'.
#=GF RA Meyer MM, Ames TD, Smith DP, Weinberg Z, Schwalbach MS, Giovannoni SJ,
#=GF RA Breaker RR
#=GF RL BMC Genomics. 2009;10:268.
#=GF WK Pelagibacter_ubique
#=GF ** seedtax: Bacteria; unclassified sequences
#=GF SQ 89
ABEF01041528.1/252-304 -AAA-CAAA---GGUAUCG-ACACUAGU-CAGCGAGGGUUCGCCCACUAGUGC-GAUU-UUU
ABID01000001.1/620465-620516 UGACGUCG-----GGAUCG-CCCCCAGU-CAGCGCGU-UGCGCCCACUGGGGC-AUUU-GUG
CP000830.1/337335-337284 CUGUGCAG-----GGAUCG-CCACCCGU-CAGCGCGU-UGCGCCCACGGGUGC-CUUU-CCG
CP000264.1/722337-722286 CGUCCGCA-----GGAUCG-CCCCCCGU-CAGCGAGU-UUCGCCCACGGGGGC-AAAU-CUC
ABXE01000005.1/474503-474554 UUGCAUGA-----GGAUCG-CCACCAGU-CAGCGCGU-CGCGCCCACUGGUGC-GUUU-CUC
AATR01000007.1/128120-128172 CGGUCUCA-----GGAUCG-ACAUCAGU-CAGCGAGU-UUCGCCCACUGGUGUUAAUU-GCG
CP000577.1/2858994-2858943 CACGACCG-----GGAUCG-CCACCCAU-CAGCGCGA-UGCGCCCAUGGGUGC-CGUU-GUG
ABVS01000001.1/307524-307576 AAACAAAG-----AGAUCG-ACACUAGU-CAGCGAGGCUUCGCCCACUAGUGC-GAUU-ACU
ABSK01000020.1/158486-158537 CCACGCAA-----GGAUCG-CCCCCAGU-CAGCGCGU-UGCGCCCACUGGGGU-UAAA-CUG
AAMO01000005.1/155351-155300 CGUUGCGG-----GGAUCG-CCACCAGU-CAGCGCGU-CGCGCCCACUGGUGC-AAUC-GUC
AAOT01000022.1/32279-32331 GCCCGUCG-----GGAUCG-CCCCCCGU-CAGCGAGCGUUCGCCCACGGGGGC-GUUU-GCC
CP000084.1/260256-260205 AAACAAAG-----AGAUCA-ACACUAGU-CAGCGAUA-UUCGCCCACUAGUGC-GAAA-CUG
ABSH01000046.1/28800-28749 UAGACUGA-----GGAUCG-CCCCCCGU-CAGCGCGU-UGCGCCCACGGGGGC-UCUA-CUG
ABCL01000001.1/633361-633412 CUGUGUCG-----GGAUCG-CCCCCCGU-CAGCGCGU-UGCGCCCACGGGGGC-GUUU-AUC
ACOA01000003.1/1141569-1141620 AUGUUCAG-----GGAUCG-CCCCCCAC-CAGCGAGU-UUCGCCCGUGGGGGC-AUUU-GUG
CP000661.1/172455-172506 CUUGUCCG-----GGAUCG-CCACCCAU-CAGCGCGA-UGCGCCCAUGGGUGC-CGUU-GUU
AATQ01000012.1/82408-82357 UUUGCCCG-----GGAUCG-CCCUCCGU-CAGCGCGU-UGCGCCCACGGGGGC-CAUU-CUG
CP000490.1/1013005-1013056 CUUGCCGG-----GGAUCG-CCCCCCGU-CAGCGCGU-UGCGCCCACGGGGGC-GUUA-CUG
AAMS01000004.1/308726-308675 CAUUCAGG-----GGAUCG-CCCUCCGU-CAGCGCGU-UGCGCCCACGGGGGC-GUUC-CUG
AAMT01000001.1/87588-87537 UUAUGCCG-----GGAUCG-CCCUCCGU-CAGCGCGU-UGCGCCCACGGGGGC-GCUA-CUG
ABCR01000008.1/127115-127064 UUUGGCCG-----GGAUCG-CCCCCCGU-CAGCGCGU-UGCGCCCACGGGGGA-GAUU-GGC
AAYA01000021.1/1331-1382 AUGGCCCG-----GGAUCG-CCCUCCGU-CAGCGCGU-UGCGCCCACGGGGGC-AUUU-CCG
ABXS01000046.1/690533-690482 GCAGCCAA-----AGAUCG-ACCCCCAC-CAGCGUGU-UACGCCCGUGGGGGC-AUUU-GUG
AALY01000001.1/1810888-1810837 CCUGCCCG-----GGAUCG-CCCCCCAC-CAGCGCGU-UGCGCCCGUGGGGGC-AAUU-GUG
ACNW01000095.1/91055-91106 UAUGCCCG-----GGAUCG-CCCUCCGU-CAGCGCGU-UGCGCCCACGGGGGC-UGUU-UCG
ACCW01000020.1/70965-70914 UCGUUCAG-----GGAUCG-CCCCCCAC-CAGCGAGU-UUCGCCCGUGGGGGC-AAUG-CCA
CP000362.1/1269963-1269912 UGCAACCG-----GGAUCG-CCCUCCGU-CAGCGCGU-UGCGCCCACGGGGGC-AAAA-CCA
AAXZ01000001.1/683078-683027 GAUGCUUG-----GGAUCG-CCCUCCAC-CAGCGUGU-UACGCCCGUGGGGGC-GUUU-GUG
AAYB01000002.1/428943-428892 AUAUCAGG-----GGAUCG-CCCUCCGU-CAGCGCGU-CGCGCCCACGGGGGC-GCUA-CUG
AALV01000001.1/423960-424011 GCGGCCAG-----AGAUCG-CCCCCCAC-CAGCGUGU-UACGCCCGUGGGGGC-AUUU-GCG
AANB01000002.1/544189-544138 CUUGUCGG-----GGAUCG-CCCUCCAC-CAGCGUGU-UACGCCCGUGGGGGC-AAUU-GCG
CP000377.1/2739930-2739981 UUUGCCAG-----GGAUCG-CCCUCCAC-CAGCGCGU-UGCGCCCGUGGGGGC-AAAC-CUU
ABIE01000022.1/29479-29428 AUUGCCGG-----GGAUCG-CCCUCCAC-CAGCGUGU-UACGCCCGUGGGGGU-GAUU-GCG
ABXL01000036.1/20582-20633 GAUCCCAG-----AGGUCA-ACACCCGA-CAGCGCGA-UGCGCCCUCGGGUGA-UUUU-UUG
CP000628.1/3527839-3527890 GAUCCCGG-----AGGUCA-ACACCCGA-CAGCGCGU-UGCGCCCUCGGGUGC-UUUU-UGG
ABOG01005133.1/88-35 GAAUUCCA-----GGAUCG-CCCCCCGUCCAGCGAGGUUUCGCUCACGGGGGU-AUUG-GUG
ABIA02000001.1/8978-8927 GAUCCCGG-----AGGUCA-CCACCCGA-CAGCGCGA-UGCGCCCUCGGGUGU-UGUU-UGG
AP009384.1/4516671-4516722 GGGUCCGG-----AGGUCA-CCGCCCGA-CAGCGCGU-UGCGCCCUCGGGCGC-GUUU-CUC
AL591688.1/3522329-3522379 GAGCCCGG-----AGGUCA-ACACCCGA-CAGCGCGU-UGCGCCCUCGGGUG--GUUU-UUG
CP000633.1/3538560-3538610 GUUCCCGG-----AGGUCA-ACACCCGA-CAGCGCGA-UGCGCCCUCGGGUG--AUUU-UUG
CP000494.1/368234-368183 GAGGCCGG-----AGGUCA-ACGCCCGA-CAGCGCUA-UGCGCCCUCGGGCGC-AAAU-GUG
CP000250.1/397403-397351 GAGACCGG-----AGGUCA-ACGCCCGA-CAGCGCGA-UGCGCCCUCGGGCGC-CAUAAGUG
CP000781.1/1675762-1675712 GGGUCCGG-----AGGUCA-CCGCCCGA-CAGCGCGU-UGCGCCCUCGGGCGC-GAU--CUG
AAFX01130413.1/507-455 GCGCCCAA-----GGGUGC-ACGCCGGU-CAGCGAGGUUUCGCCCACCGGCGU-CUUU-GUC
CP001096.1/263306-263254 GAGGCCGG-----AGGUCA-ACGUCCGA-CAGCGCGA-UGCGCCCUCGGGCGC-AAUAAGUG
CP000758.1/1121355-1121406 GAUCCCGG-----AGGUCC-ACAUCCGA-CAGCGCGA-UGCGCCCUCGGGUGC-UGUA-UCG
CP000283.1/583300-583249 GAGGCCGG-----AGGUCA-ACGCCCGA-CAGCGCGA-UGCGCCCUCGGGCGC-GAAC-GUG
ACCU01000015.1/1002967-1002917 UUCCCGGA-----GGUUC--ACAUCCGA-CAGCGCGA-UGCGCCCUCGGGUGU-CAAA-CUG
CP001488.1/1778730-1778679 GAUCCCGG-----AGGUCC-ACACCCGA-CAGCGCGA-UGCGCCCUCGGGUGC-CGUG-ACC
AACY023196554.1/144-92 CAUGUUCA-----GGAUCG-CCCCCCGU-CAGCGAGGUUUCGCCCACGGGGUC-AAUU-UUG
AACY023876466.1/1379-1328 -----UAGCAGUUGGAUCG-CCCCCCGU-CAGCGAGU-UUCGCCCACGGGGGU-AAUU-ACG
AACY020558092.1/912-963 UAAC----AG-UUGGAUCG-CCCCCCGU-CAGCGAGU-UUCGCCCACGGGGGUAAGU--GGG
AACY020314903.1/269-217 GGUCCAUA-----AGAUCG-CCGUUCGU-CAACGAGGCUUCGUACACGAACGC-AAUA-CUU
AACY020277128.1/1252-1200 UUCAAAAG-----GAAUCG-CCAUCCGU-CAACGAGGGUUCGUCCACGGAUGC-UUUU-GUU
AACY023061866.1/133-185 UUCACAAU-----GAAUCG-CCAUCCGU-CAACGAGGGUUCGUCCACGGAUGU-UUUU-GUU
EU016673.1/15743-15714 ---------------------CACUAGU-CAGCGAGGGUUCGCCCACUAGUG----------
AACY023081810.1/148-96 UUCACAAU-----GAAUCG-CCAUCCGU-CAACGAGGGUUCGUCCACGGGUGC-UUUU-GUU
AACY020537384.1/5298-5349 GAUCGCGG-----GGAUC-ACCACCGGU-CGGCGAGU-UUCGCCCACCGGUG--CAUUUUGC
AACY021910620.1/877-825 UUCACAGU-----GAAUCG-CCAUCCGU-CAACGAGGGUUCGUCCACGGAUGC-UUUU-GUU
AACY022176703.1/377-428 CCCUCUUU-----GGAUCU-ACAUCCGU-CAGCGUUG-UACGCCCGCGGGUGC-CAUU-ACG
AAFX01131867.1/488-457 ------------------A-CCGCCCGA-CAGCGCAA-UGCGCCCUCGGGCGU---------
AACY023681284.1/528-562 -----------------CG-ACACUAGU-CAGCGAGGCUUCGCCCACUAGUGC-G-------
AACY020533898.1/2363-2414 UUGGGCAG-----GGAUCG-CCCCCCGU-CAGCGCGU-UGCGCCCACGGGGGC-GUCU-GUG
AACY020307803.1/379-431 AAGUGCCG-----GGAUCGCCCCCCCAC-CAGCGUGU-UACGCCCGUGGGGGC-GCUU-GUG
AACY021683092.1/259-208 UUGCCCAA-----GGAUCG-CCACCCGU-CAGCGCGU-UGCGCCCACGGGUGC-GUUU-UUG
AACY020400269.1/2767-2715 -GAA-CAAA---GAGAUCG-ACACUAGU-CAGCGAGGGUUCGCCCACUAGUGC-GAUUACU-
AACY020080831.1/570-622 GGUCCAAA-----AGAUCG-CCGUUCGU-CAACGAGGCUUCGUACACGAACGC-GAUA-CUU
AAYC01000003.1/36039-36090 CCUGUCAG-----GGAUCG-CCCCCCAC-CAGCGUGU-UACGCCCGUGGGGGC-AAUU-CUG
CP000031.1/3449415-3449466 UUGUCCGG-----GGAUCG-CCCUCCAC-CAGCGUGU-UACGCCCGUGGAGGC-GAUU-GUG
ABXM01000014.1/117294-117243 CGUGCCAG-----GGAUCG-CCCCCCAC-CAGCGUGU-UACGCCCGUGGGGGC-AAUU-GCG
ABXF01000044.1/222593-222644 CGUGCCAG-----GGAUCG-CCCCCCAC-CAGCGUGU-UACGCCCGUGGGGGC-AAAC-UCG
ACNZ01000021.1/2003-2054 UGGGUCGG-----GGAUCG-CCCUCCAC-CAGCGCGU-UGCGCCCGUGGGGGC-AAAC-CUU
CP000390.1/3614033-3613982 GAUCCCGG-----AGGUCA-ACACCCGG-CAGCGCAA-UGCGCCCCCGGGUGC-UUUU-CGG
AAUW01000013.1/152797-152746 GAUCCCGG-----AGGUUA-CCAUCCGA-CAGCGCGU-UGCGCCCUCGGGUGU-CAAA-CUG
CP001029.1/673842-673894 GAGGCCGG-----AGGUCA-ACGUCCGA-CAGCGCGUCUGCGCCCUCGGGCGC-CCUU-GUC
CP000524.1/76871-76922 GAUCCCAG-----AGGUCA-ACACCCGA-CGACGCGU-UGCGUUCUCGGGUGU-UAUU-UUG
CP000463.1/366625-366676 GAGACCGG-----AGGUUA-ACGCCCGA-CAGCGCUG-UGCGCCCUCGGGCGC-AAAA-UUG
BA000012.4/3476818-3476869 GAUCCUGG-----AGGCCA-ACACCCGG-CAGCGCAA-UGCGCCCCCGGGUGC-UUUU-UGG
ABPX01008569.1/496-547 AGGAGACA-----GAAUGA-CCAUCCGC-CAGCGCGU-UGCGCCCGCGGGUGC-UGCU-UUG
CP000115.1/3019357-3019408 GGGGCCGG-----AGGUCA-ACGCCCGA-CAGCGCUG-UGCGCCCUCGGGCGC-AAAC-GUG
CP000738.1/3241936-3241986 GAGCCAGG-----AGGUCA-ACAUCCGA-CAGCGCGU-GGCGCCCUCGGGUG--GUUU-UUG
CP001196.1/260758-260809 GACGCCGG-----AGGCCA-ACGCCCGA-CAGCGCUG-UGCGCCCUCGGGCGU-AAAC-GUG
CP001001.1/3845723-3845671 GAGGCCGG-----AGGUCA-ACGCCCGA-CAGCGCGUCCGCGCCCUCGGGCGC-GAUG-GGC
AM260525.1/2496302-2496251 GAUCUCAG-----AGGUCA-ACAUUCGA-CGGCGCGA-UGCGUUCUCGGGUGC-UAUU-UUG
BX897700.1/1505050-1504999 GAUCUCAG-----AGGUCA-ACAUCCGA-CGGCGCGA-UGCGUUCUCGGAUGC-CACU-UUA
AATP01000001.1/786255-786204 CCGCCCGG-----AGGUCA-CCAUCCGC-CAGCGAGU-UUCGCCCGCGGAUGG-CGUU-UUG
BX897699.1/1849078-1849027 GAUCUCAG-----AGGUCA-ACAUCCGA-CGGCGCGG-UGCGUUCUCGGAUGC-UGCU-UUG
CP001349.1/2975644-2975695 GAGGCUGG-----AGGCCA-ACGCCCGA-CAGCGCGA-UGCGCCCUCGGGCGC-GUCC-GGC
CP001016.1/3804515-3804563 AAACCCCG-----G---CC-ACGCCCGG-CAGCGCGU-UGCGCCCCCGGGCGC-GUUU-UGC
#=GC SS_cons ::::::::.....::::::.:<<<<<<<.--<<<<__._>>>>-->>>>>>>:.::::.:::
#=GC RF gaucCCgG.....GGAUCG.CCaCCCGu.CAGCGCGu.UGCGCCCaCGGGuGC.aaUU.gUG
//