# STOCKHOLM 1.0
#=GF ID Ysr141
#=GF AC RF02675
#=GF DE Yersinia sRNA 141
#=GF AU Argasinska J; 0000-0003-2678-2824
#=GF GA 196.0
#=GF NC 193.9
#=GF TC 249.1
#=GF SE Argasinska J
#=GF SS Predicted; PMID:24532772;
#=GF TP Gene; sRNA;
#=GF BM cmbuild -F CM SEED
#=GF CB cmcalibrate --mpi CM
#=GF SM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 2958934 CM SEQDB
#=GF DR SO; 0000370; small_regulatory_ncRNA;
#=GF RN [1]
#=GF RM 24532772
#=GF RT Genome-wide analysis of small RNAs expressed by Yersinia pestis identifies
#=GF RT a regulator of the Yop-Ysc type III secretion system.
#=GF RA Schiano CA, Koo JT, Schipma MJ, Caulfield AJ, Jafari N, Lathem WW
#=GF RL J Bacteriol. 2014;196:1659-1670.
#=GF CC Shown to regulate the synthesis of the type III secretion system (T3SS)
#=GF CC effector protein YopJ.The Yop-Ysc T3SS is a critical component of
#=GF CC virulence for Yersinia species.
#=GF WK Yersinia_pestis
#=GF SQ 4

BX936398.1/45948-46202     CUUUCCCCUUUUGCUUGCCAGCCAACCAGCCGACA-CUAAACCCAAGAGGCUCCAGCCAUUGACGGAAAGUAGUGGCGUGCUGUUCUGCCAGCAGUUCGGUCGGUGCCAUCAGGGCAACCUGCUUACCGUGAGCGAUGGCCCGUAGCGCGGCCAGUGCGGCUACCAGUGUUUUACCGGAACCGACAUCCCCCUGAAUCAG
ACCA01000027.1/27609-27863 CUUUGCCUUUUUGUUUCCCAGCCAGCCAGCCGACUUGUAAA-CCUAACGGCUCCAGCCAUUGACGAAAAGUAUUGGCAUGCUGUUCAGCCAGUAACUCAGUGGGAGCCAUCAACGCGACCUGCUUACCGUGGGCAAUAGCACGCAGUGCGGCCAGUGCGGCAACCAAUGUUUUACCCGAGCCGACAUCUCCUUGAAUCAA
AALF02000032.1/19444-19190 CUUUACCUUUUUGCUUGCCAGCCAGCCAGCCCACU-UGCAGCCCUAAGGGUUCGAGCCAUUGGCGAAAAGUGGUGGCAUGCUGUUCUGCCAGUAACUCGGUGGGUGCCAUUAAGGCAACCUGCUUGCCGUGAGCAAUGGCACGCAGUGCGGCCAGUGCUGCAACCAAUGUUUUCCCGGAGCCAACAUCCCCUUGAAUCAA
AL590842.1/48532-48786     CUUUCCCCUUUUGCUUGCCAGCCAACCAGCCGACA-CUAAACCCAAGAGGCUCCAGCCAUUGACGGAAAGUAGUGGCGUGCUGUUCUGCCAGCAGUUCGGUCGGUGCCAUCAGGGCAACCUGCUUACCGUGAGCGAUGGCCCGUAGCGCGGCCAGUGCGGCUACCAGUGUUUUACCGGAACCUACAUCCCCCUGAAUCAG
#=GC SS_cons               :((((((,,,,<<<<-<<-<<-----<<<<<<-<<.<<<--<<<<<--<<<____>>>->>>-->>---->>>>>->>->>>>-->>>>->>>><<<<<--<<<<<----<<<<____>>>>-->>>>>>>>>>,,<<<<<<<___>>->>>>><<<<<<<<--<<<-<-------<<<_______>>>>->>>---->>
#=GC RF                    CuuucCCuUUUugcuUgCCaGCCAaCCaGCcgACa.cuaAacCCaaaaGGcUCcAgCCAuuGaCGgAAAGuaguGGcgUGCuGUUCuGcCagcagcuCgGUcGGugCCAUcaggGCaAccugCUuaCCgcGagcaAugGCcCguAGcGCgGCcaguGCggcuACCagUGUUUUaCCgGaaCCaACAuCcCCcuGAAUCag

BX936398.1/45948-46202     UCGCAUCAUCGGGAAACUUUGGGUCAUAUCCCGUUCAAUUUCGGCGACGACCCGUU
ACCA01000027.1/27609-27863 CCGCAUCAUAGGGAAAUCAUGGGUCAUAUCUUGUUCGAUUUCCGCGACAACCCGCU
AALF02000032.1/19444-19190 UCGCAUCAUUGGGAAGUUAUGGGCCAUAUCUUGCUCGAUCUCCGCCACUACUCGUU
AL590842.1/48532-48786     UCGCAUCAUCGGGAAACUUUGGGUCAUAUCCCGUUCAAUUUCGGCGACGACCCGUU
#=GC SS_cons               >>>>>>,,,,)))))):::<<<<<<---<<<<<________>>>->>->>>>>>::
#=GC RF                    ccGCauCAUuGGgaaauuauGGGucAUAucccGuUCaAUuUCggCgaCgaCCCguU
//
