# STOCKHOLM 1.0
#=GF ID NLPC-P60
#=GF AC RF03033
#=GF DE NLPC-P60 RNA
#=GF AU Weinberg Z; 0000-0002-6681-3624
#=GF GA 53.7
#=GF NC 52.3
#=GF TC 54.8
#=GF SE Weinberg Z
#=GF SS Published; PMID:28977401;
#=GF TP Cis-reg;
#=GF BM cmbuild -F CM SEED
#=GF CB cmcalibrate --mpi CM
#=GF SM cmsearch --cpu 4 --verbose --nohmmonly -T 29.16 -Z 2958934 CM SEQDB
#=GF DR SO; 0005836; regulatory_region;
#=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 Streptomyces (Actinobacteria). Downstream gene
#=GF WK NLPC-P60_RNA_motif
#=GF SQ 17

URS0000D6A3B8_1156841/1-105 CGGUGCUUGCAUCACC-UGACAC--CGGAUGACCGGAUUAAUCGGAUUAGCUCGCUCACUUG----UGGACGA-GCCCG-------CAUCUUC---------CGGG-UCC--CGUCCCUCCGUCACGGAGGU
URS0000D697F5_1303692/1-103 CGGUGCUUGCAUCACC-CGACAC--CGAGUGACCGGAUUAAUCGGAUUAGCUCGCUCACUUG----UGGACGAGCCCG--------AAUCAUC----------CGG-GCCCG-GUCU--CCGUCACGGAGGU
URS0000D67639_1155715/1-102 CGGUGCUUGCAUCACC-UGACAC--CGGGUGACCGGAUU--AAUCG--GAUGAGAUCCCUUGCCCAGGGACG-GGUCCGG------CUUCU----------CCGGG-GC---CGUCC--CCGUCACGGAGGU
URS0000D6933D_1085628/1-102 CGGUGCUUGCAUCACC-UGACAC--CGGGUGACCGGAUU--AAUCG--GAUGAGAUCCCUUGCCCAGGGACGGGUCCGG-------CUUCU-----------CCGGGGC---CGUCU--CCGUCACGGAGGU
URS0000D67720_455632/1-95   CGGUGCUUGCAUCGCC-UGACAU--CACAUGACCGGAU---GAUCG--GAUUCGCCCAUGUA----UGGACG-AGUCCG-------UAGC------------CGGG-CUC--CGUCU--CCGUCCCGGAGGU
URS0000D6C67B_1609288/1-95  CGGUGCUUGCAUCGCC-UGACAC--CACAUGACCGGAU---GAUCG--GAUUCGCCCAUGUA----UGGACG-AGUCCG-------UAGC------------CGGG-CUC--CGUCU--CCGUCCCGGAGGU
URS0000D67411_1169156/1-95  CGGUGCUUGCAUCACC-UGACAC--CACGUGACCGGAU---UAUCG--GAUUCGCCCAUGUA----UGGACG-AGCCCG-------UAGC------------CGGG-CUA--CGUCU--CCGUCACGGAGGU
URS0000D65EE2_1055352/1-95  CGGUGCUUGCGUCACC-UGACAU--CACGUGACCGGAU---UAUCG--GAUUCGCCCAUUUA----UGGACG-AGCCCG-------UAGC------------CGGG-CUA--CGUCU--CCGUCACGGAGGU
URS0000D6739A_1172567/1-96  CGGUGCUUGCAUCACC-CGACAC--CGAGUGACCGGAUU--AAUAG--GAUUCGCUCACUUA----UGGACG-GGUCCG-------UUGC------------CGGG-CCG--CGUCU--CCGUCACGGAGGU
URS0000D65DB3_457431/1-96   CGGUGCUUGCAUCACC-CGACGC--CGAGUGACCGGAUU--AAUAG--GAUUCGCUCACUUA----UGGACG-GGUCCG-------CUGC------------CGGG-CCA--CGUCU--CCGUCACGGAGGU
URS0000D68677_1157635/1-91  GGGUUCUUGCAUCGCC-CGGCGC--CGGGUGAGCGUAUG--GAUGG--AUUGCGCUCACUCA----UGGGGU-AGUC---------GCAC--------------GA-UUC--GCCCC---GGUCGUGGAGGU
URS0000D6AB79_1156843/1-93  GGCUUCUUGCAUCGCCCCGUCGC-ACGGGUGAGCGUAUG--GACGC--AUUGCGCUCACUCA----UGGGGU-AGUC---------GCAC--------------GA-UUC--ACCCC---GGUUCCGGAGGU
URS0000D677B9_1157633/1-92  GGGUUCUUGCAUCACC-UCCCGCCACGGGUGAGCGUAUG--GACGA--AUUGCGCUCACUCA----UGGGGU-AGUC---------GCAC--------------GA-UUC--ACCCC----GUUUCGGAGGU
URS0000D67E80_591167/1-98   CGGUCCUUGCAUCACC-CGGCGC--CGGGUGACCGGAUG--GACGA--CAUCCGAGCACUUG----UGGGGUUGUCCGA-------UUAA------------UCGGCAUC--ACCCC--UGACACCGGAGGU
URS0000D6CB8A_1265601/1-98  CGGUCCUUGCAUCACC-CGGGGC--CGGGUGACCGGAUG--GACGA--CAUCCGAGCACUUG----UGGGGUUGUCCGA-------UUAA------------UCGGCAUG--ACCCC--UGACACCGGAGGU
URS0000D6C8A9_862751/1-117  CGGUGCUUGCCUCACC-UGACAC--CGAGUGACCGGAUG--GACAG--GAUCCGAUCAUUUG----UGGGGUAGUCCGCCGAUCCGAUUCACCUACGGAAGGGCGG-GCCCGGCCCC---GUCACCGGAGGU
URS0000D679B5_12908/1-116   CGGUGCUUGCCUCACC-UGACAC--CGAGUGACCGGAUG--GACAG--GAUCCGAUCAUUUG----UGGGGUAGUCCGCCGAUCCGAUUCACCUACGGAAGGGCGG-GCCCGGCCCC----UCACCGGAGGU
#=GC SS_cons                ::::::::::::::::.::::::..::<<<<--<<<<<<.._____..>>>>>>-->>>>::....:<<<<<.<<<<<<.......____............>>>>.>>-..>>>>>..:::::::::::::
#=GC RF                     cGGUgCUUGCAUCACC.uGaCaC..CGgguGAcCGgauc..gAugg..gaucCGcuCaccUa....UGGggg.ggcCgg.......uuaC............ccGg.ccc..cccCC..ccgUcaCGGAGGU
//
