# STOCKHOLM 1.0
#=GF ID Lacto-phage-1
#=GF AC RF03004
#=GF DE Lacto-phage-1 RNA
#=GF AU Weinberg Z; 0000-0002-6681-3624
#=GF GA 50.0
#=GF NC 38.9
#=GF TC 69.0
#=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 26.67 -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 Lactobacillales (Firmicutes). Lineage (Lactobacillaceae)
#=GF WK Lacto-phage-1_RNA_motif
#=GF SQ 9

URS0000D6CCC1_12908/1-83   GCCGGCUCUGCUAGUUUCACGGCAACCACGUUGAAAUUACAACGAAAGAAGCUCGCACUCAACUUCAACGGCUUA-ACGAGUGC
URS0000D68D5E_12908/1-83   GCCGGCUCUGCUAGUCUCACGGCAACCACGUUGAAAUGACAACGAAAGAAGUUCGCACUCAACUUCAACGGCUUA-ACGAGUGC
URS0000D66835_12908/1-83   GCCGGCUCUGCUAGUCUCACGGCAACCACGUUGAAAUUACAACGAAAGAAGUUCGCACUCAACUUCAACGGCUUA-ACGAGUGC
URS0000D666B4_1423814/1-83 ACCGUCUCUGCUAGUCUCACGGUAACCACGUUGAAAUCGCAACGAAAGAAGCUCGCACUCAACUUCAACGGCUUA-ACGAGUGC
URS0000D69A97_1423814/1-81 ACCGGCUCUGCUAGUCUCACGGUAGCCGUGCUGUUAU--CAGCAGAAGAGUACUGUAAUCUUACUCAACGGCUAA-AGGAUUGC
URS0000D6ADFF_12908/1-79   GUUAC-UCUGAUAGUCUCGUAGCAACCGUGCUGUAAU--CAGCAGAAGAGUAU-GUAAUCUAACUCAGCGGCUAA-AGGAUUAC
URS0000D66A4A_12908/1-79   GCUAC-UCUGAUAGUCUCGUAGCAACCGUGCUGUAAU--CAGCAGAAGAGUAC-GUAAUCUAACUCAACGGCUAA-AGGAUUAC
URS0000D65D60_349123/1-79  GCUAC-UCUGAUAGUCUCGUAGCAACCGUGCUGUAAU--CAGCAGAAGAGUAC-GUAAUUUAACUCAACGGCUAA-AGGAUUAC
URS0000D6814D_349123/1-80  GCUAC-UCUGAUAGUCUCGUAGCAACCGUGCUGUAAU--CAGCAGAAGAGUAC-GUAAUCUAACUCAGCGGCUUAGAGGAUUAC
#=GC SS_cons               <<<<_______________>>>>:::::<<<<<____..>>>>>:::<<<<___AAAAAA__>>>>:::::::::.::aaaaaa
#=GC RF                    GCcggCUCUGaUAGUCUCacgGCAACCgcGcUGuAAU..CAgCggAAGAggaucGuAaUCuAccUCAACGGCUuA.AgGAuUgC
//
