# STOCKHOLM 1.0
#=GF ID ncr1241
#=GF AC RF02451
#=GF DE Bacillus sRNA ncr1241
#=GF AU Eberhardt R; 0000-0001-6152-1369
#=GF GA 60.0
#=GF NC 59.4
#=GF TC 61.4
#=GF SE Eberhardt R
#=GF SS Published; PMID:20525796
#=GF TP Gene; sRNA;
#=GF BM cmbuild -F CM SEED
#=GF CB cmcalibrate --mpi CM
#=GF SM cmsearch --cpu 4 --verbose --nohmmonly -T 32.25 -Z 2958934 CM SEQDB
#=GF DR SO; 0000370; small_regulatory_ncRNA;
#=GF RN [1]
#=GF RM 20525796
#=GF RT Identification of regulatory RNAs in Bacillus subtilis.
#=GF RA Irnov I, Sharma CM, Vogel J, Winkler WC
#=GF RL Nucleic Acids Res. 2010;38:6637-6651.
#=GF WK Bacterial_small_RNA
#=GF SQ 8

AE017333.1/3179758-3179821         ACUAAGGCUUUCUAGUAUUCCCCCCUUAUG---UU-G-AUGCGGACCU---UUCAGGUGCGCAUUUUUUUAU
ACMQ01000197.1/2566-2628           CACAUGGCUUUCUAGUAUUCCCCCCCUUUU---AU-GGACAAAACGUAUUA-----CGUUUUGUCCUUUUUU
AAES01000037.1/8058-8119           CACAUGGCUUUCUAGUAUUCCCCCCUUUUA---U--GGACAAAACGUAUUG-----UGUUUUGUCCUUUUUU
ACPC01000020.1/24344-24408         AUCAAGGCUUUCUAGUAUUCCC-CCUUUUG---UUAGGACCAAAUCCACGUU---GGAUUUGGUCCCUUUUU
#=GR ACPC01000020.1/24344-24408 PP *******************987.6666677...777**********974435...6****************
ACWD01000017.1/5705-5768           UGUAAGGCUUUCUAGUAUUCCCCCCUUUUUGAAGU-UGACAAUCUGU--UG-----CGGAUUGUCCUUUUUU
#=GR ACWD01000017.1/5705-5768   PP ***************************99522235.57999999888..78.....889999999*******
AL009126.3/3225711-3225773         CCAAAGGCUUUCUAGUAUUCCCCCCUUUUA---UU-GGAUGCGAACAAAAG-----GUUCGUAUCUUUUUUU
CP000560.1/2969063-2969124         ACGAAGGCUUUCUAGUAUUCCCCCCUUUUA---UUUGGAUGCGAACC--GG-----GUUCGUAUCUUUUUUU
AEFP01000013.1/50292-50353         CCAAAGGCUUUCUAGUAUUCCCCCCUUU-A---UU-GGAUGCGAACUGACA-----GUUCGUAUCUUUUUUU
#=GC SS_cons                       ::<<<<<________________>>>>>::...::.<<<<<<<<<<_____.....>>>>>>>>>>::::::
#=GC RF                            acuAaGGCUUUCUAGUAUUCCCCCCuUaUa...UU.gGAcgcgaccuauug.....ggucgcgUCcUUUUUU
//
