# STOCKHOLM 1.0
#=GF ID osmY
#=GF AC RF03036
#=GF DE osmY RNA
#=GF AU Weinberg Z; 0000-0002-6681-3624
#=GF GA 46.9
#=GF NC 44.2
#=GF TC 47.2
#=GF SE Weinberg Z
#=GF SS Published; PMID:28977401;
#=GF TP Gene; sRNA;
#=GF BM cmbuild -F CM SEED
#=GF CB cmcalibrate --mpi CM
#=GF SM cmsearch --cpu 4 --verbose --nohmmonly -T 22.54 -Z 2958934 CM SEQDB
#=GF DR SO; 0000370; small_regulatory_ncRNA;
#=GF RN [1]
#=GF RM 28977401
#=GF RT Detection of 224 candidate structured RNAs by comparative analysis of
#=GF RT specific subsets of intergenic regions.
#=GF RA Weinberg Z, Lunse CE, Corbino KA, Ames TD, Nelson JW, Roth A, Perkins KR,
#=GF RA Sherlock ME, Breaker RR
#=GF RL Nucleic Acids Res. 2017;45:10811-10823.
#=GF CC Enterobacteriaceae (Gammaproteobacteria). Downstream gene
#=GF WK OsmY_RNA_motif
#=GF SQ 38

URS0000D6CC47_1229485/1-71 GUCGCCACGAC-CAUGUGGUGUACAGAGU-CCUAAAUUUUGG-GGCUCCCAA-ACUGUU--AAGGAAGAAAUCGAUG
URS0000D6A972_12908/1-71   GUCGUCACCAC-CAUGUGACGUAAAGAGC-UUUCAGAUUGAG-AGCUGACAA-ACUGUU--AAGGAAGAAAUCGAUG
URS0000D69F05_932213/1-71  GUCGUCACGAC-CAUGUGACGGAAACAGC-UCUCAGAUUAUG-AGCUGCCAA-ACUGUU--AAGGAAGAAAUCGAUG
URS0000D65CA1_1274722/1-73 ACAGUUACGCCGUUUGUAGCU-GUAAAGC-CCACGGUU-GUGGGGCGUAUCA-ACAGGUAGAAGGAAUAUAUCGAUG
URS0000D66495_1255309/1-70 ACAGUCACGUCGUUUGUGGCU-GAAAAAC-UCACCGUU-GUG-AGUGAACCA-A--GACAAAAGGAACAAAUCGAUG
URS0000D66495_1255310/1-70 ACAGUCACGUCGUUUGUGGCU-GAAAAAC-UCACCGUU-GUG-AGUGAACCA-A--GACAAAAGGAACAAAUCGAUG
URS0000D66495_665029/1-70  ACAGUCACGUCGUUUGUGGCU-GAAAAAC-UCACCGUU-GUG-AGUGAACCA-A--GACAAAAGGAACAAAUCGAUG
URS0000D6A08C_465817/1-70  ACAGUCACGUCGUUUGUGGCU-GAAAAGC-UCACCGUU-GUG-AGUUGUCUA-A--GACUAAAGGAACAAAUCGAUG
URS0000D68F39_634499/1-70  ACAGUCACGUCGUUUGUGGCU-GAAAAGC-UCACCGUU-GUG-AGUUGUCUA-A--GACAAAAGGAACAAAUCGAUG
URS0000D67321_12908/1-70   GCAGUCACGUCGUUUGUGACU-GAAA-GC-UCACACUU-GUG-AGUGUAAUA-ACAUGAAGAAGGAAU-GAUCGAUG
URS0000D6B417_634500/1-71  GCAGUCACGCCGUUUGUGACU-GAAAC-C-UCACAGUU-GUG-AGUGCAAAACACAUGAAGAAGGAAU-AAUCGAUG
URS0000D6A189_1044999/1-69 ACAGCCACGUCGUUUGUGGCU-GAAA-GC-UCACAGUU-GUG-AAUGCAAUA-ACAUGAAGAAGGAAG--UGUCAUG
URS0000D65F33_12908/1-72   GCAGCAGCGCCGUUUGCUGCU-GUUGCGC-CCACGGUU-GUG-GGUGAGCUC-ACUGACAGAAGGAAGAUAUCGAUG
URS0000D69CED_517433/1-72  GCAGCGGCCUUUGUUGCCUCU-GUUUCGC-CCACAGUU-UUG-GGUGAGUUA-ACUGAUAGAAGGAAGAUAUCGAUG
URS0000D68BFA_12908/1-70   GCAGCGGCACC-UGUGCUGCU-GUUUCGUCCCACAGUU--UG--GUGAGUUA-ACUGAUAGAAGGAAGAUAUCGAUG
URS0000D6B357_12908/1-72   GCAGCGGCACC-UGUGCCUCU-GUUGCGC-CCACAGUUUUUG-GGUGAGUUA-ACUGAUAGAAGGAAGAUAUCGAUG
URS0000D6B357_1332072/1-72 GCAGCGGCACC-UGUGCCUCU-GUUGCGC-CCACAGUUUUUG-GGUGAGUUA-ACUGAUAGAAGGAAGAUAUCGAUG
URS0000D6B357_549/1-72     GCAGCGGCACC-UGUGCCUCU-GUUGCGC-CCACAGUUUUUG-GGUGAGUUA-ACUGAUAGAAGGAAGAUAUCGAUG
URS0000D6B357_1110694/1-72 GCAGCGGCACC-UGUGCCUCU-GUUGCGC-CCACAGUUUUUG-GGUGAGUUA-ACUGAUAGAAGGAAGAUAUCGAUG
URS0000D68C5E_712898/1-71  GCAGCGGCACC-UGUGCCUCU-GUUUCGC-CCACAGUU-UUG-GGUGAGUUA-ACUGAUAGAAGGAAGAUAUCGAUG
URS0000D6900F_593105/1-71  GCAGCGGCACC-UGUGCUGCU-GUUUCGC-CCACAGUU-UUG-GGUGAGUUA-ACUGAUAGAAGGAAGAUAUCGAUG
URS0000D6900F_12908/1-71   GCAGCGGCACC-UGUGCUGCU-GUUUCGC-CCACAGUU-UUG-GGUGAGUUA-ACUGAUAGAAGGAAGAUAUCGAUG
URS0000D65DCA_660596/1-72  GCAGUAGCGUUGUUUGCUGCU-CUUGCGC-CCACAGUC-UGG-GGCGAAUUA-ACAGAUAGAAGGAUGAUAUCGAUG
URS0000D659E6_932677/1-72  GCAGCAGCACUGUUUGCUGCU-CUUGCGC-CCACAGUU-UUG-GGCGAGUUA-ACAGAUAGAAGGAUGAUAUCGAUG
URS0000D659E6_706191/1-72  GCAGCAGCACUGUUUGCUGCU-CUUGCGC-CCACAGUU-UUG-GGCGAGUUA-ACAGAUAGAAGGAUGAUAUCGAUG
URS0000D659E6_1123863/1-72 GCAGCAGCACUGUUUGCUGCU-CUUGCGC-CCACAGUU-UUG-GGCGAGUUA-ACAGAUAGAAGGAUGAUAUCGAUG
URS0000D6A730_1332069/1-72 GCAGCAACGCCGUUUGUUGCU-GGCUCAU-UCGCGGUU-GCG-GAUGCGUAA-ACGGAUAGAAGGAUGAUAUCGAUG
URS0000D6A730_12908/1-72   GCAGCAACGCCGUUUGUUGCU-GGCUCAU-UCGCGGUU-GCG-GAUGCGUAA-ACGGAUAGAAGGAUGAUAUCGAUG
URS0000D69F9A_1144341/1-72 UCAGCAACGCCGUUCGUUGCU-GGCGCAU-CCGCGAUA-ACG-GAUGAGUUA-ACUGAUAGAAGGAUGAUAUCGAUG
URS0000D69F9A_1144320/1-72 UCAGCAACGCCGUUCGUUGCU-GGCGCAU-CCGCGAUA-ACG-GAUGAGUUA-ACUGAUAGAAGGAUGAUAUCGAUG
URS0000D6838F_12908/1-72   GCAGCAACGUGGUGUGUUGCU-GGCGCAU-UCGCGGUU-GCG-AGUGGGUUA-ACUGAUAGAAGGAUGAUAUCGAUG
URS0000D6838F_1358411/1-72 GCAGCAACGUGGUGUGUUGCU-GGCGCAU-UCGCGGUU-GCG-AGUGGGUUA-ACUGAUAGAAGGAUGAUAUCGAUG
URS0000D67DFB_592316/1-72  GCAGCAACGCCGUUUGUUGCU-GGCGCAU-CCGCAGGU-GCG-GAUGAGUUA-ACUGAUAGAAGGAUGAUAUCGAUG
URS0000D678DA_12908/1-72   GCAGCAACGCCGUUCGUUGCU-GGCGCAU-UCGCGAUU-GCG-AGUGAGUUA-ACUGAUAGAAGGAUGAUAUCGAUG
URS0000D6C4FB_12908/1-72   GCAGCGACGCCGUUUGUUGCU-GGCGCAU-UCGCAGUU-GCG-AGUGAGUUA-ACUGAUAGAAGGAUGAUAUCGAUG
URS0000D6CD9E_12908/1-72   GCAGCAACGCCGUUUGUUGCU-GGCGCAU-UCGCAGUU-GCG-AGUGAGUUA-ACUGAUAGAAGGAUGAUAUCGAUG
URS0000D6C22C_1225184/1-72 GCAGUGACGCCGUUUGUCGCU-GCCG--C-UUUCAGCUUGAA-AGCCAAUAACACUGACAGAAGGAAUUUAUCGAUG
URS0000D6C22C_12908/1-72   GCAGUGACGCCGUUUGUCGCU-GCCG--C-UUUCAGCUUGAA-AGCCAAUAACACUGACAGAAGGAAUUUAUCGAUG
#=GC SS_cons               :<<<<<<<<_____>>>>>>>.>:::<<<.<<<_____._>>.>>>>:::::.::::::::::::::::::::::::
#=GC RF                    GCAGccaCgcCGUuuGuggCU.Gaagcgc.cCgCAGUU.gcG.ggcgaguuA.ACuGAUAGAAGGAAGAuAUCGAUG
//
