# STOCKHOLM 1.0
#=GF ID Pseudomonadales-1
#=GF AC RF03046
#=GF DE Pseudomonadales-1 RNA
#=GF AU Weinberg Z; 0000-0002-6681-3624
#=GF GA 68.0
#=GF NC 41.8
#=GF TC 69.3
#=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 30.00 -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 Pseudomonadales (Gammaproteobacteria). Big IGRs
#=GF WK Pseudomonadales-1_RNA_motif
#=GF SQ 54

URS0000D6B3CF_12908/1-161   CCUGUUAU---CUGACCAAUAACAGAAUGCACCACAGCGUAAAAU--CAU------------CUGAUUGGGUGAGUUGGUC-GCACCGCCAUUUG----ACGAACGAACGCCAAGCCUAAGCCGUCUU-U-GUGCAUU------AAGUGGGUAAAGG-UUGGU-UAGUAGCGGUU--UCCCC----C---ACGACAA---
URS0000D6942D_12908/1-162   CCUGUUAU---CUGACCAAUAACAGAAUGCACCACAGCGUAAAAU--CAU------------CUGAUUGGGUGAGUUGGUC-GCACCGCCAUUUG----ACGAACGAACGCCAAGCCUAAGCCGUCUU-U-GUGCAUU------AAGUGGGUAAAGG-UUGGUUUAGUAGCGGUU--UCCCC----C---ACGACAA---
URS0000D66CA6_857572/1-161  CCUGUUAU---CUGACCAAUAACAGAAUGCACCACAGCGUAAAAU--CAU------------CUGAUUGGGUGAGUUGGUC-GCACCAAUAUUUG----ACGAACGAACGCCAAGCCUAAGCCGUCUU-U-GUGCAUU------AAGUGGGUAAAGG-UUGGU-UAGUAGCGGUU--UCCCC----C---ACGACAA---
URS0000D66CA6_857573/1-161  CCUGUUAU---CUGACCAAUAACAGAAUGCACCACAGCGUAAAAU--CAU------------CUGAUUGGGUGAGUUGGUC-GCACCAAUAUUUG----ACGAACGAACGCCAAGCCUAAGCCGUCUU-U-GUGCAUU------AAGUGGGUAAAGG-UUGGU-UAGUAGCGGUU--UCCCC----C---ACGACAA---
URS0000D699B3_12908/1-160   CCUGUCG-C--UUGACCAAAGGCAGAAUGCACCAAAGCGUAAAAC--AAU------------CUGAUUGGGUGAGUUGGUC-GCACCACCAAAGA----GAGAACGAAAGCCGACACGCCUGCUGACCC-UGUGCAUU-----GGGU-GGCAGGUAUGGCGGU-UAGUAGCGUUC--GCCCACGACACA-----------
URS0000D671BD_1221247/1-172 CCCAUGC-AGUUCAUCGC-GCAUGGAUGGGAUAUGCAGGAAAUAC-----------------AUACCAGAUUGGGAGUGAU-GCCCCGCCCUAAAU---CGAGAUGAAAGCUGAAAC-GUAAAAU-ACU-GUGCCCAUC---CAGUGGUUUUAUAAAGUAAGU-GAGUAGCGGUAGGCCACAGU--ACUGUUAUAAA-GC
URS0000D674EE_903898/1-174  CCCAUGC-AGUUCAUCGC-GCAUGGAUGGGAUAUGCAGGAAAUAC-----------------AUACCAGAUUGGGAGUGAU-GCCCCGCCAUUAAAAU-AGAUCUGAAAGCUGAAAC-GUAAAAU-ACU-GUGCCCAUC---CAGUGAUUUUAUAAAGUAAGU-GAGUAGCGGUAGGCCACAGU--ACUGUUAUAAA-GC
URS0000D6B995_886890/1-174  CCCAUGC-AGUUCAUCGC-GCAUGGAUGGGAUAUGCAGGAAAUAC-----------------AUACCAGAUUGGGAGUGAU-GCCCCGCCAUUAAAAU-AGAUCUGAAAGCUGAAAC-GUAAAAU-ACU-GUGCCCAUC---CAGUGGUUUUAUAAAGUAAGU-GAGUAGCGGUAGGCCACAGU--ACUGUUAUAAA-GC
URS0000D6B995_1149135/1-174 CCCAUGC-AGUUCAUCGC-GCAUGGAUGGGAUAUGCAGGAAAUAC-----------------AUACCAGAUUGGGAGUGAU-GCCCCGCCAUUAAAAU-AGAUCUGAAAGCUGAAAC-GUAAAAU-ACU-GUGCCCAUC---CAGUGGUUUUAUAAAGUAAGU-GAGUAGCGGUAGGCCACAGU--ACUGUUAUAAA-GC
URS0000D6A00C_421052/1-175  CCCACAC-AGUUCAUCGA-GUGUGAAUAGGAUAUGCAGGAAAGUG---------------AAAAUCUAAAUUGGGAGUGAU-GCCCC-ACACAAAAUUGAAUGAUGAAACUGAAAAGUAAAGAAU-ACUG-UGCCUAUU---CAGUGGUUCUUUAAA-GUAGG-GAGUAGCUAUG--GGCCACAG-CAUAGAUCUU-CUG
URS0000D6C5FB_421052/1-174  CCCACAC-AGUUCAUCGA-GUGUGAAUAGGAUAUGCAGGAAAGUGAUAAUCU---------------GAAUUGGGAGUGAU-GCCCCACCAUAAA-UUGAAUGAUGAAA-CCGAAAGUAAAGAAU-ACUG-UGCCUAUU---CAGUGGUUCUUUAAAGUAGG--GAGUAGCUAUG--GACCACAG-CAUAGAUAUU-CUG
URS0000D6716A_12908/1-173   CCCAUGC-AGUUCAUCGA-GCAUGAAUAGGAUAUGCAGGAAAGUG----------------AAAUCAGAAUUGGGAGUGAU-GCCCCGCCGAAAAAU--CAGAACGAAACCGAAAAAUUGAUUAGUACCG-UGCCUAUU---AGGUGGCAAUCAAA--GUAGG-GAGUAGCUAUG--GACCACAGCAUAGAUCUA--CUG
URS0000D68A46_1217714/1-168 CCCAUGC-AGUUUAUCGC-GCAUGGAUGGGAUAUGCAGGAAAGCAAUAAU----------------CAAGUUGGGAGUGAU-GCCCCGCCAUACAUG--CAGAACGAAAGCUGAAAACUAAAAAUACUG--UGCCCAUC----CAGUGGUUUUUAAAGUAGGU-GAGUAGCGUCU--AGCCC----CGCGAGAGAUU---
URS0000D66378_1120927/1-174 CCCAUGC-AGUUCAUCGA-GCAUGGAUAGGAUAUGCAGGAAAGCAAGAAUCA---------------GAUUUGGGAGUGAU-GCCCCGCCAAAAAAU--GAAUACGAAAGCUGAAAACUAAAAAUACUGU--GCCUAU----CCAGUGGUUUUUAAAGUAAGC-GAGUAGCCGUG--GACCACAG-CACUGAGCUU-CUG
URS0000D6C480_1120927/1-174 CCCAUGC-AGUUCAUCGA-GCAUGGAUAGGAUAUGCAGGAAAGCAAGAAUCA---------------GAUUUGGGAGUGAU-GCCCCGCCAAAAAAU--GAAUACGAAAGCUGAAAACUAAAAAUACUG--UGCCUAUC----CAGUGGUUUUUAAAGUAAGC-GAGUAGCCGUG--GACCACAG-CACUGAGCUU-CUG
URS0000D6B657_903945/1-174  CCCGUGC-AGUUCAUCGA-GCAUGAAUAGGAUAAGCAGGAAAGCGACAAUCA---------------GACUUGGGAGUGAU-GCCCCGCCUUAAAUUA-UGAUUCGAAACCGAAAAUUGAUUAGUACC-A-UGCCUAUA---A-GGUGGCAAUCAAAG-UAGG-GAGUAGCUAUG--GACCACAG-CAUAGAGCUU-CUG
URS0000D6CB3B_12908/1-173   CCCAUGC-AGUUCAUCGA-GCAUGAAUAGGAUAUGCAGGAAAGUAACUAUCA---------------GAUUUGGGAGUGAU-GCCCCGCCUUAAAAU--GACAACGAAACCGAAAAUUGAUUAGUACUG--UGCCUAUU----CAGUGGCAAUCAAA-GUAGG-GAGUAGCUAUG--GACCACAGCAUAGGACUU--CUG
URS0000D66F03_1217656/1-173 CCCAUGC-AGUUCAUCGA-GCAUGAAUAGGAUAUGCAGGAAAGCGACAAUCA---------------GAAUUGGGAGUGAU-GCCCCGCACUAAAUU--GACAUCGAAACUGAAAAUUGAUUAGUACC-A-UGCCUAUA---A-GGUGGCAAUCAAAG-UAGG-GAGUAGCUAUG--GACCACAGCAUAGGACUU--CUG
URS0000D6C8DA_12908/1-175   CCCAUGU-AGUUCAUCGA-GCAUGAAUAGGAUAUGCAGGAAAGCG----------------AAAUCAGAUUUGGGGGUGAU-GCCCCGCCAUUAAAUAAGAUAAUGAAACUGAAAAUUGAUUAGUAGUG--UGCCUAUU----CACUGGCAAUCAAA-GUAGG-GAGUAGCUAUG--GACCACAGCUAUAGAUCUU-CUG
URS0000D6579E_903890/1-161  CCAGUAUGAUUUCGUCA-CAUGCUGAGUUAGCCUCAGAGUGCUAA------------------------UUUGUGGGUUAC-ACCCCAACCUAA-----GAA-UUGAAAGACACCAAAGCAGAUU--GAUAGCUAACU-----UUGAGAAGUGCAU-AGUGUU-GAGUAGCCUUA--GGCCACAG-UGCGGAUAAUGCUG
URS0000D68A8B_1217663/1-154 CCAAUGUGAUUUCGUCA-CAUAUUGAGUUAGCCUUAGAGCCAUAA------------------------AUUGUGGGUGAC-ACCCCGACUAAU-----CAAGAUGAAAGACAC--AAAGCGGAUCAA-UAGCUAACU------UUGAGAAGUUUAUUGUGUC-GAGUAGCGGUA--GAUCAGU--U---GCCGA---GC
URS0000D6C042_1257043/1-154 CCAAUGUGAUUUCGUCA-CACAUUGAGUUAGCCUCAGAGCCUCAA------------------------AUUGUGGGUGAC-UCCCCAACCAAU-----GGAAUUGAAAGACAC--AGAGCAGAUCAA-UAGCUAACU------UUAAAAUGUUUGUCGUGUU-GAGUAGCGGUA--GAUCAG--AU---GCCGAG---C
URS0000D68ECF_1217655/1-154 CCAAUGUGAUUUCGUCA-CACAUUGAGUUAGCCUCAGAGCCCUAA------------------------GCUGUGGGUGAC-UCCCCGACCAAA-----GAGAUUGAAAGACAC--AGAGCAGAUCAA-UAGCUAACU------UUGAGAUGUUUGUCGUGUU-GAGUAGCGGUA--GAUCAGU--U---GCCGA---GC
URS0000D65A6F_1029823/1-154 CCAAUGUGAUUUCGUCA-CACAUUGAGUUAGCCUCAGAGCCUCAA------------------------AUUGUGGGUGAC-ACCCCGACCAAA-----GAGAAUGAAAGACAC--AGAGCGGAUCAA-UAGCUAACU------UUGAGAUGUUUGUCGUGUU-GAGUAGCGGUA--GAUCAGU--U---GCCGA---GC
URS0000D6C8E8_1029823/1-154 CCAAUGUGAUUUCGUCA-CACAUUGAGUUAGCCUCAGAGCCUCAA------------------------AUUGUGGGUGAC-ACCCCGACCAAA-----GAGAAUGAAAGGCAC--AAAGCAGAUCAA-UAGCUAACU------UUGAGAUGUUUGUCGUGUU-GAGUAGCGGUA--GAUCAGU--U---GCCGA---GC
URS0000D6D416_1217655/1-154 CCAAUGUGAUUUCGUCA-CACAUUGAGUUAGCCUCAGAGCCUUAA------------------------AUUGUGGGUGAC-UCCCCGACCAAU-----GGAAUUGAAAGACACA--GAACAGAUCAA-UAGCUAACU------UUGAGAUGUUUGUCGUGUU-GAGUAGCGGUA--GAUCAGU--U---GCCGA---GC
URS0000D67CCA_12908/1-154   CCAAUGUGAUUUCGUCA-CACAUUGAGUUAGCCUCAGAGCCUUAA------------------------AGAGUGGGUGAC-GCCCCGACCAAU-----GGAAUUGAAAGACAC--AGAGCAGAUCAA-UAGCUAACU------UUGAUAUGUUUGUUGUGUU-GAGUAGCGGUA--GAUCAGU--U---GCCGA---GC
URS0000D6636F_1217656/1-154 CCAAUGUGAUUUCGUCA-CACAUUGAGUUAGCCUCAGAGCCUUAA------------------------AGCGUCGGUGAC-UCCCCGACCAAU-----GGAAUUGAAAGACAC--AGAGCGGAUCAA-UAGCUAACU------UUGAGAUGUUUGUUGUGUU-GAGUAGCGGUA--GAUCAGU--U---GCCGA---GC
URS0000D6636F_12908/1-154   CCAAUGUGAUUUCGUCA-CACAUUGAGUUAGCCUCAGAGCCUUAA------------------------AGCGUCGGUGAC-UCCCCGACCAAU-----GGAAUUGAAAGACAC--AGAGCGGAUCAA-UAGCUAACU------UUGAGAUGUUUGUUGUGUU-GAGUAGCGGUA--GAUCAGU--U---GCCGA---GC
URS0000D68C36_1217655/1-159 CCUAUGUGGUUUCGUCA-CACAUUGAGUUAGCCUCAGAGCCUUAA------------------------AUUGUGGGUGAC-UCCCCGACCAAA-----GAGAUUGAAAGACACAGAGCAGAUCAAU---AGCUAACUUUGAGAAGUUUG-UUGUGUUGUGUU-GAGUAGCGGUA--GAUCGGU--A---GCCGA---GC
URS0000D69D41_575588/1-156  CCAGUGCGAUUUCGUCA-CGUACUGAGUGGGCCUAAGAGAAAUAC---------------------UAGAUCUGGGAUGAC-AACCCGACCCAUAC---AGG-ACGAAAGUUAAGAAGUCAGAUUGA--UAGCCCAUU-------UCGAGAUGAUGGAUUAAU-GAGUAGCGUUU--GGCCC----U---GCGAAAA---
URS0000D6C3DD_1173062/1-156 CCAGUGCGAUUUCGUCA-CGUACUGAGUGGGCCUAAGAGAAAUAC---------------------UAGAUCUGGGAUGAC-AACCCGACCCAUA----CAGAACGAAAGUUAAGAAGUCAGAUCGG--UAGCCCAUU-------UCGAGAUGAUGGAUUAAU-GAGUAGCGCCU--GGCCC----C---GCGGAGA---
URS0000D6CC49_1217693/1-156 CCAGCAUGAUUUAGUCA-CGUGCUGAGUGGGCCUAAGAGAAAUAC---------------------UAGAUCUGGGAUGAC-AACCCGACCCAUA----CAGAACGAAAGUUAAGAAGUCAGAUUGA--UAGCCCAUU-------UCGAGAUGAUGGAUUAAU-GAGUAGCGUCU--AGCCC----C---GCGGAGA---
URS0000D6A57D_1217693/1-163 CCAGUGCGAUUUCGUCA-CGUACUGAGUGAGCCUCAGAGUAAAUCAUAA------------------AAUUGGGGAGUGACUCUCCCGACCUUAAA---AGAAUUGAAAGCCAAGAAGUUAGAUUGA--UAGCUCAUU-------UCGAGAUGAUGGGUUGGU-GAGUAGCGGUA--GAUCAGU--U---GCCGA---GC
URS0000D67B67_1217662/1-172 CCUGUGAG--UGUGCCGGCUUACAGAACAUGCCUU-GAGUAAACGCCUAGUUAUUUUAGGCAAUUCCAGCUAGGGCUUGGC-AACCCGACCUUAAU---GAGAAUGAAAGCAAGUGAAGUUGACC----GUGCAUGUA--------AGGUUGAUGU-GAUUGU-GAGUAGCGUUU--GGCCC----C---GCGGAGA---
URS0000D6594D_1217663/1-174 CCUGUGAG--UGUGCCAGCUUACAGAACAUGCCUU-GAGUAAACGCCUAGAUGGUUUAGGCAAUUCCAGCUAGGGCUUGGC-AACCCGACCUUAAA---GAGAAUGAAAGCAAGUAAAGUUAACC----GUGCAUGUA--------AGGUUGAUGU-GAUUGU-GAGUAGCGGUA--GAUCAGU--U---GCCGA---GC
URS0000D6A044_12908/1-174   CCUGUGAG--UGUGCCAGCUUACAGAACAUGCCUU-GAGUAAACGCCUAGAUGGUUUAGGCAAUUCCAGCUAGGGCUUGGC-AACCCGACCUUAAA---GAGAAUGAAAGCAAGUAAAGUUAACC----GUGCAUGUA--------AGGUUGAUGU-GAUUGU-GAGUAGCGGUA--GUUCAGU--U---GCCGA---GC
URS0000D68F9D_12908/1-174   CCUGUGAG--UGUGCCAGCUUGCAGUACAUGCCUU-GAGUAAAUGCCUAGAUCAUUUAGGCAAUUCCAGCUAGGGCUUGGC-AACCCGACCUUAAA---GAGAACGAAAGCAAGUGAAAUUGACC----GUGCAUGUA--------AGGUUGAUGU-GAUUGU-GAGUAGCGGUA--GUUCAGU--U---GCCGA---GC
URS0000D6A8B0_1071390/1-177 CCUGCAAG--UGUGCCAGCUUGCAGAACAUGCCUU-GAGUAAACGCCUAGAUGUUGUAGGCA-UUCUGGCUAGGGCUUGGC-AACCCGACCUUUAAA--GAGAGUGAAAGCAAGUAAAGCAGACC----GUGCAUGUU--------AGGUUUGUGU-GAUUGU-GAGUAGU---GCGGGCCACAG-CGUAGACCA--CUG
URS0000D6B8AC_280145/1-157  CCUACUGG--AGUGCCGACCAGUAGAGCAUGCCUUCGAGUAAAACCACAA------------------AGCAGGGUUUGGC-AACCCGACUAAAAG---AGGAUUGAAAGCAAGUGAAGCAGACC----GCGCAUGUU--------AGGUUUGUGU-GAUUGU-GAGUAGCGGUG--GACUAGU--U---GCCGA---GC
URS0000D6B8AC_1217658/1-157 CCUACUGG--AGUGCCGACCAGUAGAGCAUGCCUUCGAGUAAAACCACAA------------------AGCAGGGUUUGGC-AACCCGACUAAAAG---AGGAUUGAAAGCAAGUGAAGCAGACC----GCGCAUGUU--------AGGUUUGUGU-GAUUGU-GAGUAGCGGUG--GACUAGU--U---GCCGA---GC
URS0000D6801E_1311804/1-168 CCUACUGG--AGUGCUGACCAGCGGAACAUGCCUUCGAGUAAACUUCCUUCGGGAAUCUAGA-------CUAGGGAGUAGC-GUCCCGACCUAAAG---AGGAUUGAAAGCAAGUAAAGCAGACC----GUGCAUGUU--------AGGUGUGUGU-GAUUGU-GAGUAGCGGUA--GAUCGGU--U---GCCGA---GC
URS0000D6AFBF_1217710/1-168 CCUACUGG--AGUGCUGACCAGUGGAACAUGCCUUUGAGUAAACUUCCUUCGGGAAUCUAGA-------CUAGGGAGUAGC-GUCCCGACCUAAAG---AGGAUUGAAAGCAAGUAAAGCAGACC----GUGCAUGUU--------AGGUGUGUGU-GAUUGU-GAGUAGCGGUA--GAUCAGU--U---GCCGA---GC
URS0000D67783_1217663/1-168 CCUACUGG--AGUGCUGACCAGUGGAACAUGCCAUCGAGUAAACUUCCCUCGGGAAUCUAGA-------CUAGGGAGUAGC-GUCCCGACCUAAAG---AGGAUUGAAAGCAAGUAAAGCAGACC----GUGCAUGUU--------AGGUGUGUGU-GAUUGU-GAGUAGCGGUA--GAUCAGU--U---GCCGA---UC
URS0000D6BBC6_1221296/1-168 CCUGCUGG--AGUGCUGACCAGUGGAACAUGCCUUCGAGUAAACCUCCUUCGGGAAUUCAGA-------CUAGGGAGUAGC-GCCCCGACCUAAAG---AGGAUUGAAAGCAAGUAAAGCAGACC----GUGCAUGUU--------AGGUGUGUGU-GAUUGU-GAGUAGCGGUA--GAUCAGU--U---GCCGA---GC
URS0000D6A3D8_1311804/1-168 CCUACUGG--AGUGCUGACCAGUGGAACAUGCCAUCGAGUAAACUUCCUUCGGGAAUCUAGA-------CCAGGGAGUAGC-GCCCCGACCUAAAG---AGGAUUGAAAGCAAGUAAAGCAGACC----GUGCAUGUU--------AGGUGUGUGU-GAUUGU-GAGUAGCGGUA--GAUCAGU--U---GCCAA---GC
URS0000D69C77_1144673/1-168 CCUGCUGG--AGUGCUGACCAGUGGAACAUGCCAUCGAGUAAACCUCCUUCGGGAAUCUAGA-------CCAGGGAGUAGC-GCCCCGACCUAAAG---AGGAUUGAAAGCAAGUAAAGCAGACC----GUGCAUGUU--------AGGUGUGUGU-GAUUGU-GAGUAGCGGUA--GAUCAGU--U---GCCGA---GC
URS0000D68C8B_1311804/1-168 CCUUCUGG--AGUGCCGAGCAGUGGAACAUGCCAUCGAGUAAACUUCCUUCGGGAAUUUAGA-------CUAGGGAGUAGC-GUCCCGACCUAAAG---AGGAUUGAAAGCAAGUAAAGCGGACC----GUGCAUGUU--------AGGUGUGUGG-GAUUGU-GAGUAGCGGUA--GAUCAGU--U---GCCGA---GC
URS0000D65C61_1144662/1-166 CCUACUGG--AGUGCUGACCAGCGGAACAUGCCUUCGAGUAAACUUCCUUCGGGAAUCUAGA-------CUAGGGAGUAGC-GUCCCGACCUAAAG---AGGAUUGAAAGCAAGUAAAGCAGACC----GUGCAUGUU--------AGGUGUGU-GUGAUUGU-GAGUAGCGUCU--GGCCC----U---GCGAAAA---
URS0000D68A97_1144674/1-166 CCUACUGG--AGUGCUGACCAGUGGAACAUGCCUUCGAGUAAACUUCCUUCGGGAAUCUAGA-------CUAGGGAGUAGC-GUCCCGACCUAAAG---AGGAUUGAAAGCAAGUAAAGCAGACC----GUGCAUGUU--------AGGUGUGU-GUGAUUGU-GAGUAGCGUUU--GGCCC----U---GCGAAAA---
URS0000D6AEC8_12908/1-166   CCUACUGG--AGUGCAGACCAGUGGAACAUGCCUUCGAGUAAACUUCCUUCGGGAAUCUAGA-------CUAGGGAGUAGC-GUCCCGACCUAAAG---AGGAUUGAAAGCAAGUAAAGCAGACC----GUGCAUGUU--------AGGUGUGUGU-GAUUGU-GAGUAGCGUCU--GGCCC----C---GCGAAGA---
URS0000D6675C_981327/1-166  CCUGCUGG--AGUGCUGACCAGUGGAACAUGCCUUUGAGUAAACUUCCUUCGGGAAUCUAGA-------CUAGGGAGUAGC-GUCCCGACCUAAAG---AGGAUUGAAAGCAAGUAAAGCAGACC----GUGCAUGUU--------AGGUGUGUGU-GAUUGU-GAGUAGCGUCU--GGCCC----U---GCGAAAA---
URS0000D6C9F2_1392540/1-160 CCUGUAG--AUUUACCAC-CUACAGAACAUGCCAUCGAGUAAAACCCCGAACU----------------AGGGUUAUUGGU-AUGCCCACCUUAAU---GAA-UCGAAAGCAAGUAAAGUUAGCC----AUGCAUGUA--------GGGCGGAUGU-GAUUGU-GAGUAGCGGUG--UAUUAGC--AGUGGCCGA---GC
URS0000D6B762_1222033/1-161 CCUAUAGG--CUGACCA-CCUGUAGAACAUGCCAUCGAGUAAAAACCAUCCCAGU--------------AGGGUUAUUGGU-ACGCCCGCCAUUAAA--GAGAUUGAAAGCAAGUGAAAUUGACC----GUGCAUGUU--------AGGUAUGUGU-GAUUGU-GAGUAGCGGUA--GAUCAGU--U---GCCGA---GC
#=GC SS_cons                :<<<<<<<_____AAAA_>>>>>>>::BBBBB:::::::::::::..:::.................<<-<<<<<<<aaaa.>>>>>>>->>::::...::::<<<---<<<<<<<<<<<<<<<<<<<.-<bbbbb_>......>>>>>>>>>>>>>>>>>>>.------>>>::..<<<<<<<.._..._____...>>
#=GC RF                     CCcgugcGAuUUcGuCgACgcacgGAauguGCCUucGaGuAAaaa..caU.................agaucGGGguUGaC.acCCCgaCcuAAAa...aagAccGAAAGccAaccaugcaaaccccc.uaGcacauu......ggggguuugcaugguUggU.GAGUAGCggUa..gacCaGu..u...GccgA...gC

URS0000D6B3CF_12908/1-161   GGGGU
URS0000D6942D_12908/1-162   GGGGU
URS0000D66CA6_857572/1-161  GGGGU
URS0000D66CA6_857573/1-161  GGGGU
URS0000D699B3_12908/1-160   --GGC
URS0000D671BD_1221247/1-172 UGUGG
URS0000D674EE_903898/1-174  UGUGG
URS0000D6B995_886890/1-174  UGUGG
URS0000D6B995_1149135/1-174 UGUGG
URS0000D6A00C_421052/1-175  UGGUA
URS0000D6C5FB_421052/1-174  UGGUA
URS0000D6716A_12908/1-173   UGGUG
URS0000D68A46_1217714/1-168 GGGCA
URS0000D66378_1120927/1-174 UGGUU
URS0000D6C480_1120927/1-174 UGGUA
URS0000D6B657_903945/1-174  UGGUG
URS0000D6CB3B_12908/1-173   UGGUG
URS0000D66F03_1217656/1-173 UGGUG
URS0000D6C8DA_12908/1-175   UGGUG
URS0000D6579E_903890/1-161  UGGCA
URS0000D68A8B_1217663/1-154 UGGUC
URS0000D6C042_1257043/1-154 UGAUC
URS0000D68ECF_1217655/1-154 UGAUC
URS0000D65A6F_1029823/1-154 UGAUC
URS0000D6C8E8_1029823/1-154 UGAUC
URS0000D6D416_1217655/1-154 UGAUC
URS0000D67CCA_12908/1-154   UGAUC
URS0000D6636F_1217656/1-154 UGAUC
URS0000D6636F_12908/1-154   UGAUC
URS0000D68C36_1217655/1-159 UGAUC
URS0000D69D41_575588/1-156  GGGCU
URS0000D6C3DD_1173062/1-156 GGGCU
URS0000D6CC49_1217693/1-156 GGGCU
URS0000D6A57D_1217693/1-163 UGGUC
URS0000D67B67_1217662/1-172 GGGCU
URS0000D6594D_1217663/1-174 UGAUU
URS0000D6A044_12908/1-174   UGAUU
URS0000D68F9D_12908/1-174   UGAUU
URS0000D6A8B0_1071390/1-177 UGGC-
URS0000D6B8AC_280145/1-157  UGGUU
URS0000D6B8AC_1217658/1-157 UGGUU
URS0000D6801E_1311804/1-168 CGAUU
URS0000D6AFBF_1217710/1-168 UGGUC
URS0000D67783_1217663/1-168 UGGUC
URS0000D6BBC6_1221296/1-168 UGGUC
URS0000D6A3D8_1311804/1-168 UGGUC
URS0000D69C77_1144673/1-168 UGGUC
URS0000D68C8B_1311804/1-168 UGGUC
URS0000D65C61_1144662/1-166 GGGCU
URS0000D68A97_1144674/1-166 GGGCU
URS0000D6AEC8_12908/1-166   GGGCU
URS0000D6675C_981327/1-166  GGGCU
URS0000D6C9F2_1392540/1-160 UAAUA
URS0000D6B762_1222033/1-161 UGGUC
#=GC SS_cons                >>>>>
#=GC RF                     uGguc
//
