# STOCKHOLM 1.0
#=GF ID EF1368_EF1369
#=GF AC RF02636
#=GF DE Enterococcus sRNA EF1368_EF1369
#=GF AU Argasinska J; 0000-0003-2678-2824
#=GF GA 730.0
#=GF NC 94.9
#=GF TC 738.6
#=GF SE Argasinska J
#=GF SS Predicted; RNAfold;
#=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 21912655
#=GF RT Genome-wide identification of small RNAs in the opportunistic pathogen
#=GF RT Enterococcus faecalis V583.
#=GF RA Shioya K, Michaux C, Kuenne C, Hain T, Verneuil N, Budin-Verneuil A,
#=GF RA Hartsch T, Hartke A, Giard JC
#=GF RL PLoS One. 2011;6:e23948.
#=GF RN [2]
#=GF RM 24914223
#=GF RT Involvement of Enterococcus faecalis small RNAs in stress response and
#=GF RT virulence.
#=GF RA Michaux C, Hartke A, Martini C, Reiss S, Albrecht D, Budin-Verneuil A,
#=GF RA Sanguinetti M, Engelmann S, Hain T, Verneuil N, Giard JC
#=GF RL Infect Immun. 2014;82:3599-3611.
#=GF CC Expressed during exponential phase. Involvement in stress response and
#=GF CC virulence.
#=GF WK Enterococcus_faecalis
#=GF SQ 4

AE016830.1/1345556-1346183   UGCCAAUUAUCCCGAAUUGGUUUUUUCAUACUUACUCCUACCAAGAGUAAAUAACAACCUUCAUUUCCACCACAGACGACGGUCGUGGUGGUUUUUUUUGUUUAGGUGCUAGUUUUUUUGCUAUCAAUUGACUAGGAGAAGUGAACGUUCUUUAAGAAUUUGUCAUUUCAAAUUUACGGAACCGCAAGAAACGAUUUGCU
CP002491.1/1791527-1792152   UGCCAAUUAUCCCGAAUUGGUUUUUUCAUACUUACUCCUACCAAGAGUAAAUAACAACCUUCAUUUCCACCACAGACGACGGUCGUGGUGGUUUUUUUUGUUUAGGUUCUAGUUU--UUGCUAUCAAUUGACUAGGAGAAGUGAACGUUCUUUAAGAAUUUGUCAUUUCAAAUUUACGGAACCGCAAGAAACGAUUUGCU
AECB01000048.1/138833-139458 UGCCAAUUAUCCCGAAUUGGUUUUUUCAUACUUACUCCUACCAAGAGUAAAUAACAACCUUCAUUUCCACCACAGACGACGGUCGUGGUGGUUUUUUUUGUUUAGGUUCUAGUUU--UUGCUAUCAAUUGACUAGGAGAAGUGAACGUUCUUUAAGAAUUUGUCAUUUCAAAUUUACGGAACCGCAAGAAACGAUUUGCU
CP002621.1/1209639-1210263   UGCCAAUUAUCCCGAAUUGGUUUUUUCAUACUUACUCCUACCAAGAGUAAAUAACAACCUUCAUUUCCACCACAGACGACGGUCGUGGUGGUUU-UUUUGUUUAGGUUCUAGUUU--UUGCUAUCAAUUGACUAGGAGAAGUGAACGUUCUUUAAGAAUUUGUCAUUUCAAAUUUACGGAACCGCAAGAAACGAUUUGCU
#=GC SS_cons                 :<<<<<<<______>>>>>>>:{{{{{,,,,<<<<<<_______>>>>>>,,,{{{{{{{{{-{{{<<<<<<<-<<<____>>>>>>>>>><<<<<<<<<-<<<<-<<-<<<<__..__>>>>->>->>>>->>>>>>>>>,<<<<>>>>,,,,,<<<<<<<______>>>>>>>{{{{{{-{{{{{{----{{{{{{[[
#=GC RF                      UgCCaauuAUCCCGaauuGGcUuuuuCAUACuuaCuCCUACCAAGaGuaaAUAaCaaCCuuCAcuuCCaCCaCAGaCGACGGuCGuGGuGGcuucuccugUucagGugCuaGcUU..UUgCuaUcaAcugaCcaggagaagUGaaCGuuCUUUAAgaauuuGUCAUUUCaaauucaCGGaaCCgCaaGAAACGacuuGCc

AE016830.1/1345556-1346183   UCUUCCUCUAACUGAGUAAUUUCUUCUUCUGUUAACUCUUCCGUAGUAAUGUGAAUAUGUAACUCUUUUUGUGUGCUUUUCAUAGGUGCCUGAUGAUUAAUCUCUGUUUGUUGGGUGCGGCCCAUUAAAUAGUCCAAGGAGACAGAAAAAUAGUCUGCUAUUUUUAAAAGAUUCUCUACUUUAGGCGAAGAGGUAUCCCA
CP002491.1/1791527-1792152   UCUUCCUCUAACUGAGUAAUUUCUUCUUCUGUUAACUCUUCCGUAGUAAUGUGAAUAUGUAACUCUUUUUGUGUGCUUGUCAUAGGUGCCUGAUGAUUAAUCUCUGUUUGUUGGGUGCGGCCCAUUAAAUAGUCCAAGGAGACAGAAAAAUAGUCUGCUAUUUUUAAAAGAUUCUCUACUUUAGGCGAAGAGGUAUCCCA
AECB01000048.1/138833-139458 UCUUCCUCUAACUGAGUAAUUUCUUCUUCUGUUAACUCUUCCGUAGUAAUGUGAAUAUGUAACUCUUUUUGUGUGCUUGUCAUAGGUGACUGAUGAUUGAUCUCUGUUUGUUGGGUGCGGCCCAUUAAAUAGUCCAAGGAAACAGAAAAAUAGUCUGCUAUUUUUAAAAGAUUCUCUACUUUAGGCGAAGAGGUAUCCCA
CP002621.1/1209639-1210263   UCUUCCUCUAACUGAGUAAUUUCUUCUUCUGUUAACUCUUCCGUAGUAAUGUGAAUAUGUAACUCUUUUUGUGUGCUUGUCAUAGGUGCCUGAUGAUUGAUCUCUGUUUGUUGGGUGCGGCCCAUUAAAUAGUCCAAGGAAACAGAAAAAUAGUCUGCUAUUUUUAAAAGAUUCUCUACUUUAGGCGAAGAGGUAUCCCA
#=GC SS_cons                 [[[[[-[[[[[--[[[-[[[[[,,,,,((((((--((,,,,,,,,<<<-<<<<<<---<<<<<_______>>->>>-->>>>>>-->>>,,<<<_____>>>,<<<<<<<-<<<<<___>>>>>->>>>>>>,,,,))--))))))<<<<<<<____>>>>>>>,,,,]]]]]]]]----]]]]]-]]]]]]],,,,<<<
#=GC RF                      uCuuCCcCuaaCUGaGUaaucuCUUCUuCuGucAACuCUUCCGUAgcaAuguGagUAUGcaaCUCUUUUUGuGugCUUcuCacaGGugcCUGauGAUUaauCUCuguuugUuGGGcGCGgCCCaUcaaacaGUCCAaGGAgaCaGaaaaauaGUCUGCuauuuuUAAAagauuCuCUACUuuaGgCGaaGagGUAUCCCa

AE016830.1/1345556-1346183   ACGACGAAUUUGUCCAUUGGAAAUGCCGACGUUUCUUUCUAAUUGGGCGAGGGUUAGUUGCUUUGACUGAGCUAAUUGUUUAAUGCGAGAAAUUAAGGUCAUUUCAAGUCCUCCUUGUGUUUUCCGUUUGCUAAUUUUAAAUUAGCGUAAAAGCGAAUGGUUGUCAAUUGCGAGCGUGUAAUAAGAAGGUGAACAUCUCA
CP002491.1/1791527-1792152   ACGACGAAUUUGUCCAUUGGAAAUGCCGACGUUUCUUUCUAAUUGGGCGAGGGUUAGUUGCCUUGACUGAGCUAAUUGUUUAAUGCGAGAAAUUAAGGUCAUUUCAAGUCCUCCUUGUGUUUUCCGUUUGCUAAUUUUAAAUUAGCGUAAAAGCGAAUGGUUGUCAAUUGCGAGCGUGUAAUAAGAAGGUGAACAUCUCA
AECB01000048.1/138833-139458 ACGACGAAUUUGUCCAUUGGAAAUGCCGACGUUUCUUUCUAAUUGGGCGAGGGUUAAUUGCUUUGACUGAGCUAGUUGUUUAAUGCGAGAAAUUAAGGUCAUUUCAAGUCCUCCUUGCGUUUUCCGUUUGCUAAUUUUAAAUUAGCGUAAAAGCGAAUGGUUGUCAAUUGCGAGCGUGUAAUAAGAAGGUGAACAUCUCA
CP002621.1/1209639-1210263   ACGACGAAUUUGUCCAUUGGAAAUGCCGACGUUUCUUUCUAAUUGGGCGAGGGUUAAUUGCUUUGACUGAGCUAGUUGUUUAAUGCGAGAAAUUAAGGUCAUUUCAAGUCCUCCUUGCGUUUUCCGUUUGCUAAUUUUAAAUUAGCGUAAAAGCGAAUGGUUGUCAAUUGUGAGCGUGUAAUAAGAAGGUGAACAUCUCA
#=GC SS_cons                 <-<<<<____>>>>-->>>><<<<<<<---<<<<<<<----<<<<<<<<<<<-<<<<<<_____>>>>>>->>-->>>>>>>>>-->>>>>>>--->>->>>>>}}}}}}---}}}}}}--}}}}}},<<<<<<<<___>>>>>>>>,,,}}}-}}}-}}}}}},,<<<<<______>>>>>,<<<<<<<--<<-<<___
#=GC RF                      aCGaCgAAUUcGuCCAuuGGaaauGCCGACguuuCucUCUAauugggCgagGGucagucGCuUUgacugaGCcAaucGcccaauGCgaGaaacUAAGGUCauuuCaaguCCUCCuuGcGUUuuCCGuUcGCuaauuUUAaauuaGCgUAAaagCGaaUGGuuGuCAauugcGAGCGUgcaauAagaagguGAaCAuCUCA

AE016830.1/1345556-1346183   UGAGUGAUUUUUUAGAAAAUUUCCGAUG
CP002491.1/1791527-1792152   UGAGUGAUUUUUUAGAAAAUUUCCGAUG
AECB01000048.1/138833-139458 UGAGUGAUUUUUUAGAAAAUUUCCGAUG
CP002621.1/1209639-1210263   UGAGUGAUUUUUUAGAAAAUUUCCGAUG
#=GC SS_cons                 _>>>>->>>>>>>,}}}}}:::::::::
#=GC RF                      UGaGuGaccuucuAGaaaaUUUCCGAUG
//
