# STOCKHOLM 1.0

#=GF AC   RF01855
#=GF ID   Plant_SRP
#=GF DE   Plant signal recognition particle RNA
#=GF PI   SRP_euk_arch
#=GF AU   Gardner PP
#=GF SE   Published; PMID:19838050
#=GF SS   Published; PMID:19838050
#=GF GA   95.00
#=GF TC   95.05
#=GF NC   94.99
#=GF TP   Gene;
#=GF BM   cmbuild  -F CM SEED; cmcalibrate --mpi -s 1 CM
#=GF BM   cmsearch  -Z 169604 -E 1000000  --toponly  -g  CM SEQDB
#=GF DR   URL; http://rnp.uthscsa.edu/rnp/SRPDB/SRPDB.html
#=GF DR   SO:0000590 SO:SRP_RNA
#=GF DR   GO:0006617 GO:SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition
#=GF DR   GO:0005786 GO:signal recognition particle, endoplasmic reticulum targeting
#=GF DR   GO:0048501 GO:signal recognition particle, plasma membrane targeting
#=GF RN   [1]
#=GF RM   11839493
#=GF RT   Towards the structure of the mammalian signal recognition particle.
#=GF RA   Wild K, Weichenrieder O, Strub K, Sinning I, Cusack S;
#=GF RL   Curr Opin Struct Biol 2002;12:72-81.
#=GF RN   [2]
#=GF RM   10678824
#=GF RT   Crystal structure of the ribonucleoprotein core of the signal
#=GF RT   recognition particle.
#=GF RA   Batey RT, Rambo RP, Lucast L, Rha B, Doudna JA;
#=GF RL   Science 2000;287:1232-1239.
#=GF RN   [3]
#=GF RM   11243816
#=GF RT   Structural and energetic analysis of RNA recognition by a universally
#=GF RT   conserved protein from the signal recognition particle.
#=GF RA   Batey RT, Sagar MB, Doudna JA;
#=GF RL   J Mol Biol 2001;307:229-246.
#=GF RN   [4]
#=GF RM   12520023
#=GF RT   SRPDB: Signal Recognition Particle Database.
#=GF RA   Rosenblad MA, Gorodkin J, Knudsen B, Zwieb C, Samuelsson T;
#=GF RL   Nucleic Acids Res 2003;31:363-364.
#=GF RN   [5]
#=GF RM   12140321
#=GF RT   Prediction of signal recognition particle RNA genes.
#=GF RA   Regalia M, Rosenblad MA, Samuelsson T;
#=GF RL   Nucleic Acids Res 2002;30:3368-3377.
#=GF RN   [6]
#=GF RM   19838050
#=GF RT   Kinship in the SRP RNA family.
#=GF RA   Rosenblad MA, Larsen N, Samuelsson T, Zwieb C
#=GF RL   RNA Biol. 2009;6:508-16.
#=GF WK   http://en.wikipedia.org/wiki/Signal_recognition_particle_RNA
#=GF SQ   64

ABCN01005680.1/1602-1315                 GCC.GGCUGGAGUAACGACCAGUUGUCACCCGAG.UGGGGGC....CAAG
X71484.1/3-290                           GCC.GGCUGGAGUCACGUCCAGUUGUCACCCAUG.UGGGGGC....CAAG
AP008207.1/23319682-23319999             GCC.GAGCUCAGUAGCGAGAGCCUGUAACCCAAG.CGGGGGCACUAAAGG
AP003333.4/45380-45697                   GCC.GAGCUCAGUAGCGAGAGCCUGUAACCCAAG.CGGGGGCACUAAAGG
AP003253.3/106424-106741                 GCC.GAGCUCAGUAGCGAGAGCCUGUAACCCAAG.CGGGGGCACUAAAGG
ABRL01000488.1/5816-6128                 GCC.GAGCUCAGUAGUGAGAGCUUGUAACCCAUG.UGGGGGCAU.C.AGG
AC079888.10/27802-27492                  GCC.GAGCCAGGUAGCGUUGGCUUGUCACCCGAG.CGGGGGCAA.UAAGG
AAAA02010927.1/7990-7685                 GCC.GAGCUCAGCAGCGCGAGCUUGUAACCCGAG.CGGGGGCAU.UAAGG
U85037.1/1-298                           GCC.GCGAA..........UUCGCGGCG.CCGAG.CGGGGGCAA.UAAGG
X13914.1/1-303                           NCC.GAGCU.AGUUGCGGGAGCUUGUCACCCAUG.UGGGGGCAU.UGAGG
X13913.1/1-298                           NCC.GAGCU.AGUUGCGAGAGCUUGUAACCCGAG.UGGGGGCAUUAAAGU
ABXC01006351.1/33720-33416               .........CUGUAGCGGGAGCUUGUGACCCGAG.CGGGGGCAACAAGGU
X14661.1/23-309                          .......................UGUAACCCGA.GCGGGGGCAU.UAAGG
EU957112.1/2-304                         .CC.GAGCUCAGUAGCGAGAGCUUGUAACCUAAG.CGGGGGCAU.UAAGG
AM457057.2/4282-3977                     GCC.GAGUUCAGUCGCGGGAACUUGUAACCCAAG.UGGGGGCAU.UAAGG
FJ404770.1/43347-43044                   GCU.GAGCUCAGUAACGUGGGCUUGUAACCCAAG.UGGGGGCAU.UAAGG
Z46745.1/134-436                         GUC.GAGCUUAGUAACGUGGGCUUGUAAUCCAAG.UGGAGACAU.CAAAG
Z29099.1/1-304                           GCC.GAGCUCAGUAGCGUGGGCUUGUAACUCAAG.UGAGGGCAU.CAGUG
Z29260.1/92-303                          ..................................................
Z29109.1/1-240                           ..................................................
Z29107.1/3-303                           ...CGAGCUUAGUAACGUGGGCUUGUAAUCCAAG.UGGAGACAU.CAAAG
Z29110.1/1-274                           ..............................CAAG.UGGGGAUGU.UAAGG
Z46744.1/234-533                         ....GAGCUUAGUAACGUGGGCUUGUAAUCCAAG.UGGAGACAU.CAAAG
Z29261.1/1-303                           GCC.GAGCUUAGUAACGUGGGCUUGUAACCCAAG.UGGGGAUGU.UAAGG
Z29111.1/1-302                           GUU.GAGCUUAGUAACGUGGGCUUGUAACCCAAG.UGGGGAUGU.UAAUG
Z29104.1/1-304                           GCC.GAGCUUAGUAAUGUGGGCUUGUAACCCAAA.UGGGGGCAU.UAAUG
Z29106.1/1-302                           GCC.GAGCUUAGUAAUGUGGGCUUGUAACCCAAA.UGGGGGCAU.UAAUG
Z29101.1/1-303                           GUC.GAGCUUAGUAACGUGGGCUUGUAACCCAAG.UGGGGAUGU.UAAGG
Z29105.1/1-303                           GUU.GAGCUUAGUAACGUGGGCUUGUAAUCCAAG.UGGAGACAU.CAAAG
Z29112.1/1-303                           GUC.GAGCUUAGUAAUGUGGGCUUGUAACCCAAA.UGGGGGCAU.UAAUG
X13958.1/1-302                           GGC.GAGCUUAGUAACGUGGGCUUGUAAUCCAAG.UGGAGACAU.CAAAG
Z29103.1/1-304                           GCC.GAGCUUUGUAACGUGGGCUUGUAACCCGAG.UGGGGGCAA.CAAUG
AP009658.1/43412-43714                   GCC.GAGCUUG..CACGAUAGCUUGUAACCCGAA.UGGGGGCAC.CAAGA
AP006364.1/60840-60536                   GCC.GAGUUGGGUUACUCCAGCUUGUGACCCAAG.UGGGGGCAC.CAGGU
AP010413.1/68444-68724                   ...................AGCUUGUAACCCAAG.UGGGGGCAC.CAAGG
AB295118.1/595-292                       GCU.GAGCUGAGUAACGUUAGCUUGUAACCUAAG.UGGGGGCAA.UAAAG
AC190028.8/62420-62724                   GCC.GAGCUGAGUCACGUUAGCUUGUGACCCAAG.UGGGGGCAC.UAAGG
CT485797.2/99364-99662                   ....GAGUUGAUUUACACCAACUUGUAACCCAUG.UGGGAGCAA.CAAGG
AC146941.8/20211-20507                   ....GAGUUGAUUAACACCAACUUGUGACCCAUG.UGGGAGCAC.CAAGG
AC136507.19/79013-79284                  ...........................ACCCAUG.UGGGAGCAA.CAAAG
AC136507.19/21662-21924                  ....GAGUUGAAUAACACCAACUUGUAACCCAUG.UGGGAGCAU.CAAGG
AC146941.8/78907-78613                   ....GAGUUGAUUAACACCAACUUGUGACCCAUG.UGGGAGCAA.CAAAG
AASG02000222.1/20689-20386               GCC.GGGCUUGGCAACGCGAGCCUGUAACCUGAG.UAGGGGCAU.UAAGG
AARH01003811.1/60212-60278               ..................................................
X65991.1/1-303                           .....GGCCUAGCAACGUGGGCCUGUAACCCAAG.UGGGGGCAU.GUGGG
X65984.1/1-307                           GCC.GGUCUUAGCAACGUGGGCCUGUAACCCAAG.UGGGGGCAU.GUGGG
X65986.1/2-304                           .....GUCUUAGCAACUUGGUCCUGUAACCCAAG.UGGGGGCAU.GUGGG
AJ236705.1/163-430                       ..........AGCAACGUGGGCCUGUAACCCAAG.UGGGGGCAU.GAGGG
AJ236703.1/157-424                       ..........AGCAACGUGGGCCUGUAACCCAAG.UGGGGGCAU.GAGGG
X65985.1/1-303                           ....GGCCUUAGCAACGUGGGCCUGUAACCCAAG.UGGGGGCAU.GUGGG
X65990.1/1-301                           .....GGCCUAGCAACGUGGGCCUGUAACCCAAG.UGGGGGCAU.GUGGG
X65983.1/1-306                           GAC.GGGCUUAGCAACGUGGGCCUGUAACCCAAG.UGGGGGCAU.GUGGG
AJ236706.1/161-459                       .........UAGCAACGUGGGCCUGUAACCCAAG.UGGGGGCAU.GUGGG
X69901.1/3886-4191                       GUC.GAGCUAAGUAACAAUAGCUUGUAACCCAUG.UGGGGACAU.UAAGA
AL161495.2/164946-164641                 GUC.GAGCUAAGUAACAAUAGCUUGUAACCCAUG.UGGGGACAU.UAAGA
X72228.1/320-625                         GUC.GAGCUAAGUAACAAUAGCUUGUAACCCAUG.UGGGGACAU.UAAGA
AL161496.2/127430-127734                 GUC.GAGCGAAGUAACAUGAGCUUGUAACCCAUG.UGGGGACAU.UAAGA
AC005275.1/105500-105803                 GUC.GAGCUAAGUAACAUGAGCUUGUAACCCAUG.UGGGGACAU.UUAGA
AC005662.3/47366-47062                   GUC.GAACUCAGUAACGCGGGCUUGUGAUCCAAG.UGGAGACAA.UAAGG
X72229.1/323-627                         GUC.GAGCUAAGUAACAUGAGCUUGUAACCCAUG.UGGGGACAU.UUAGA
AF069442.1/64156-64461                   GUC.GAGCUAAGUAACAAUAGCUUGUAACCCAUG.UGGGGACAU.UAAGA
X55111.1/801-1106                        GUC.GAGCUAAGUAACAAUAGCUUGUAACCCAUG.UGGGGACAU.UAAGA
AC189438.2/31077-30776                   GUC.GAGCUCAGUAACAAGAGUUUGUGACCCAUG.UGGGGACAA.CAAGA
ABIM01017697.1/2595-2290                 GCC.GGGCCUGGCAACGCGGGCUUGUCACCCAAG.UGGGGGCAU.UAAGA
#=GC SS_cons                             <<<.<<<<<<<<....>>>>>>>>....<<<<...>>>>>>>...<<<<<
#=GC RF                                  GcC.gaGCucagUAACcugaGCuuGUAACCCaAG.uGGGGgCAu.aaagg

ABCN01005680.1/1602-1315                 CGGAU.G..GAGG.AAC....AUACGGC..........CCUUCGGUCGU.
X71484.1/3-290                           CGGAU.G..AAGG.AAC....AUAUGGC..........UCUCCGGUCGU.
AP008207.1/23319682-23319999             UGGCU.GCGGAUGU.UU...GGUGUGG....AUUCUGAUCCUGGGCCCC.
AP003333.4/45380-45697                   UGGCU.GCGGAUGU.UU...GGUGUGG....AUUCUGAUCCUGGGCCCC.
AP003253.3/106424-106741                 UGGCU.GCGGAUGUUUGGUGUGGAUUCU...GAUCCUGGGCCC.CAUGU.
ABRL01000488.1/5816-6128                 UGGUG.U.GGAUG.GUU...G.GUGCUG...AAUUUG.GGCUUGGGUUC.
AC079888.10/27802-27492                  UGGUG.UUGGAUGCCUGG.UCGUUUGCG.....CUUGGGGUCU.GCGCC.
AAAA02010927.1/7990-7685                 UGGUG.U.GGACG.UUG...CCGUAUGG...CUGCGG.GCCU.GGGUUG.
U85037.1/1-298                           UGGUGCG..GAUG.CCU....GGUCGUUUGCUCUUU..GGCCUGGGCCU.
X13914.1/1-303                           CGGUG.U.GGAUGCUUG....GUGCGGU....UUGUU.GGCCUGGGCUU.
X13913.1/1-298                           GAUGU.G..AACNCUGU...UGUA.GCG....CUGCG.GGCCUGGUCUG.
ABXC01006351.1/33720-33416               GGUGU.G..GAUG.CUG....UGCGACG...GUUUC...UCU.GGGCCU.
X14661.1/23-309                          UGGUG.C.GGAUUCUUU...GCGAUGG....CUUUCUGGGCCCGGGCUC.
EU957112.1/2-304                         UGGUG.U.GGAUGUUUC...CUGACGG.....AUUCUGGGCCUGGGCCU.
AM457057.2/4282-3977                     UGGGC.G..GAUG.UUG....GUUCGGU...UGAGCA.GGUA.GGGCCU.
FJ404770.1/43347-43044                   UUACU.G..AACG.UUG....GGCCGUU...CCAAUU.GGCU.GGACUC.
Z46745.1/134-436                         UGGUU.G..AAUA.UUG....GGCUUUA...CCAGAA.GGUU.GGGCUU.
Z29099.1/1-304                           UGGUG.G..AAUG.UUG....AACAUGC...CCAGAA.GGUA.GGGCUU.
Z29260.1/92-303                          ..................................................
Z29109.1/1-240                           ............G.UUG....GGUUGAC...CCAGAU.GGUU.GGGUUC.
Z29107.1/3-303                           UGGUU.G..AAUA.UUG....GGCUUUA...CCAGAA.GGUU.GGGCUU.
Z29110.1/1-274                           UGGUG.G..AAUA.UUG....GGCUGUC...CCAGAU.GGCU.GGGCUU.
Z46744.1/234-533                         UGGUU.G..AAUA.UUG....GGCUUUA...CCAGAA.GGUU.GGGCUU.
Z29261.1/1-303                           UGGUG.G..AAUA.UUG....GGCUGUC...CCAGAU.GGCU.GGGCUU.
Z29111.1/1-302                           UGGUG.G..AAUG.UUG....GGCUGUA...CCAGAU.GGUU.GGGCUU.
Z29104.1/1-304                           UGGUG.G..AAUG.UUG....GGCUGUA...CCAGAU.GGUU.GGGCUU.
Z29106.1/1-302                           UGGUG.G..AAUG.UUG....GGCUGUA...CCAGAU.GGUU.GGGCUU.
Z29101.1/1-303                           UGGUG.G..AAUA.UUG....GGCUGUC...CCAGAU.GGCU.GGGCUU.
Z29105.1/1-303                           UGGUU.G..AAUA.UUG....GGCUGUA...CCAGAU.GGUU.GGGCUU.
Z29112.1/1-303                           UGGUG.G..AAUG.UUG....GGCUGUA...CCAGAU.GGUU.GGGCUU.
X13958.1/1-302                           UGGUU.G..AAUA.UUG....GGCUUUA...CCAGAA.GGUU.GGGCUU.
Z29103.1/1-304                           UGGUG.G..AAUG.UUG....GGUCCAU...CUUGAUGGAU..GGGCUU.
AP009658.1/43412-43714                   UGGUG.G..AACAUGGC....UAUGAC....UUCACUGGGUU.GGU.CU.
AP006364.1/60840-60536                   UGAUG.G..AACAUGGU....UCUGGCU...UUCGUUAGGCU.GGG.CU.
AP010413.1/68444-68724                   UGAUG.G..AACAUGGC....UCUGGU....GUCGUUGGGCU.GGG.CU.
AB295118.1/595-292                       UGAUG.G..GACAU.GG....CUCGGGC..UAUGCUC.GGUC.GGGCUG.
AC190028.8/62420-62724                   UGGUG.G..AACA.GCU...CAUUGGCU...UUGCUG.GGUU.GGACUG.
CT485797.2/99364-99662                   UGAUG.G..AACAUGAU....UGUGU.....CUUAACAGGUU.GGG.CU.
AC146941.8/20211-20507                   UGAUG.G..AACA.UGG....CUGGUUU..GCUUAGCGGGUU.GGG.CU.
AC136507.19/79013-79284                  GGAUG.G..AACA.UGG....CUGUGU....CUUAACAGGUU.GGG.CU.
AC136507.19/21662-21924                  UGAUG.G..AACAUGGC....UGUGU.....CUUAACAGGUU.GGG.CU.
AC146941.8/78907-78613                   GGAUG.G..AACA.UGG....CUGUGU....CUUAACAGGUU.GGG.CU.
AASG02000222.1/20689-20386               UGGUG.G..GACG.UUA....CUCUGGC...CCAGUA.GGCU.GGAUUC.
AARH01003811.1/60212-60278               ..................................................
X65991.1/1-303                           AAAUG.G..GACU.UUA....GUUCGGC...CCAUUG.GAUC.GGAUCC.
X65984.1/1-307                           AAAUG.G..GACU.UUG....GGUCAAC...CUAGUG.GAUC.GGGUCC.
X65986.1/2-304                           AAAUG.G..AACU.UUG....GGUCAAC...CCAGUG.GUNC.GGGNCC.
AJ236705.1/163-430                       AAAUG.A..GACU.UUG....GGCCAGC...CCAGAG.AGUC.GGAUUC.
AJ236703.1/157-424                       AAAUG.A..GACU.UUG....GGCCGAC...CCGAGA.GAUC.GGAUUC.
X65985.1/1-303                           AAAUG.G..AACA.UUG....GGUCAGC...CCAGUG.GAUC.GGGUCC.
X65990.1/1-301                           AGAUG.G..GACU.UUG....GGUCAGC...CCAUUG.GAUC.GGGUCC.
X65983.1/1-306                           AAAUG.G..GACU.UUG....GGUCAAC...CUAGUG.GAUC.GGGUCC.
AJ236706.1/161-459                       AAUUG.G..GACU.UUG....GGUCAAC...CCAGUG.GAUC.GGGUCC.
X69901.1/3886-4191                       UGGUG.G..GACACUGG....UUCGG.....UUCCUCGGAUC.GGUUCU.
AL161495.2/164946-164641                 UGGUG.G..GACACUGG....UUCGG.....UUCCUCGGAUC.GGUUCU.
X72228.1/320-625                         UGGUG.G..GACACUG.....GUUCGGU....UCCUCGGAUC.GGUUCU.
AL161496.2/127430-127734                 UGGUG.G..AACACUGG....UUCGG.....GUCCACGGGCC.GGUUCU.
AC005275.1/105500-105803                 UGGUG.G..AACACUG.....GUUCGGG...UCCACG.GGCC.GGUUCU.
AC005662.3/47366-47062                   GGAUG.G..GACG.UUG....GGUCGAU..CUCAUUG.GGCC.GGGUUC.
X72229.1/323-627                         UGGUG.G..AACACUGG....UUCGG.....GUCCACGGGCC.GGUUCU.
AF069442.1/64156-64461                   UGGUG.G..GACACUGG....UUCGG.....UUCCUCGGAUC.GGUUCU.
X55111.1/801-1106                        UGGUG.G..GACACUG.....GUUCGGU...UCCUCG.GAUC.GGUUCU.
AC189438.2/31077-30776                   UGGUG.G..AACA.CUG....UCCCGGC...CCACC..GGUC.GGUUCU.
ABIM01017697.1/2595-2290                 UGGUU.G..GAGG.UUG....GAUAGGU...CCAGAA.GGUU.GGGCUUC
#=GC SS_cons                             <<<<<.<...<<<.<<<....<<<<<<....<<<<<<.<<<<.<<<<<<.
#=GC RF                                  uGgug.G..auca.uug....ggugggu...ccagua.Ggcc.GGgCcu.

ABCN01005680.1/1602-1315                 GAUC.G.CUCCCGU..........C...GAUAGCGU.GUCCUCUGUGAGU
X71484.1/3-290                           GAAC.G.CUUCCGU..........C...GAUAGCGU.GUCCUCUUCGAGU
AP008207.1/23319682-23319999             AUGU.U.GUUGUA...........AUCUUGCUGGCUUGCCCGUUCCAAGU
AP003333.4/45380-45697                   AUGU.U.GUUGUA...........AUCUUGCUGGCUUGCCCGUUCCAAGU
AP003253.3/106424-106741                 UGU....UGUAAU...........C.UUGCUGGCUU.GCCCGUUCCAAGU
ABRL01000488.1/5816-6128                 AUGU.UGUUGUUAA..........CUAUGCUGGCUU.GCCCGUUCCAAGU
AC079888.10/27802-27492                  UGUG.G.UUUGCA...........C.UAUGCGGCCC.GCCCGUUCCAAGU
AAAA02010927.1/7990-7685                 GCA....GUGCCA.............UAGAUGGCCC.GCCCGUUCCAAGU
U85037.1/1-298                           GUGG.U.UCGCUC.............UAUGCGGCCC.GCCCGUUCCAAGU
X13914.1/1-303                           GUGA.U.GUAACC.............UUGCUGGCCU.GCCCGUUCCAAGU
X13913.1/1-298                           GG...U.GUGCUA.............CUGCUGGCCC.GCCCGUUCCAAGU
ABXC01006351.1/33720-33416               G....G.GCCUGUGGUGUGCCUUUGCUUGCUGGCCU.GCCCGUCCC.AAG
X14661.1/23-309                          GCU.AU.GUGCCU...........U.UGGCCGGCCU.GCCCGUCCCAAGU
EU957112.1/2-304                         G.UA.U.GUGCCA...........C.UGGCCGGCCU.GCCCGUUCCAAGU
AM457057.2/4282-3977                     GAUG...GGGUUA............AAUGCUGGCCU.GCCCGUUCCAAGU
FJ404770.1/43347-43044                   AA...G.GUGCUA............UUUACUGGCCC.GCCCGUUCCAAGC
Z46745.1/134-436                         GG...U.GGGCUU............AGUUCUGGCCU.GCCCUGUCCAAGC
Z29099.1/1-304                           GUG....UGACAA............UUCUCUGGCCU.GCCCUGUCCAAGC
Z29260.1/92-303                          ...........UA............G.UUCUGGCCU.GCCCUGUCCAAGC
Z29109.1/1-240                           GG...U.AGGCUU...........AUAGUCUGGCCU.GCCCUCUCCAAGC
Z29107.1/3-303                           GG...U.GGGCUU............AGUUCUGGCCU.GCCCUGUCCAAGC
Z29110.1/1-274                           GG...U.GGGCUA............AUUUCUGGCCU.GCCCUGUCCAAGC
Z46744.1/234-533                         GG...U.GGGCUU............AGUUCUGGCCU.GCCCUGUCCAAGC
Z29261.1/1-303                           GG...U.GGGCUA............AUUUCUGGCCU.GCCCUAUCCAAGC
Z29111.1/1-302                           GG...U.GGGCUA............AUUUCUGACUU.GCCCUAUCCAAGC
Z29104.1/1-304                           GG...U.GGGCUA............AUUUCUGGCCU.GCCCUAUCCAAGC
Z29106.1/1-302                           GG...U.GGGCUA............AUUUCUGACUU.GCCCUAUCCAAGC
Z29101.1/1-303                           GG...U.GGGCUA............AUUUCUGGCCU.GCCCUAUCCAAGU
Z29105.1/1-303                           GG...U.GGGCUA............AUUUCUGACUU.GCCCUAUCCAAGC
Z29112.1/1-303                           GGU....GGGCUA............AUUUCUGACUU.GCCCUAUCCAAGC
X13958.1/1-302                           GGU....GGGCUU............AGUUCUGGCCU.GCCCUGUCCAAGC
Z29103.1/1-304                           GA...A.GGGCUA...........AUGUUCUGGCCU.GCCCUGUCCAAGC
AP009658.1/43412-43714                   GGUG.G.UUGCAC............CUUGUUGGCCU.GCCCGCUCCAAGU
AP006364.1/60840-60536                   GUUA.G.AUGCAA............UAUUCUGGCCU.GCCCACUCCAAGU
AP010413.1/68444-68724                   GUUA.G.CUGCAA............UAAG.UGGCCU.GCCCACUCCAAGU
AB295118.1/595-292                       UU.A.G.AUGCAU............AAUUCUGGCCU.GCCCGCUCCAAGU
AC190028.8/62420-62724                   UG...G.CUGCAA............UAAGUUGGCCU.GCCCACUCCAAGU
CT485797.2/99364-99662                   GUAG.G.GUACAU............UAUGCUGGCCU.GCCCACUCCAAGU
AC146941.8/20211-20507                   GUAG.G.GUACAC............UAUGCUGGCCU.GCCCACUCCAAGU
AC136507.19/79013-79284                  GUAG.G.GUACAC............UAAGCUGGCUU.GCCCACUCCAAGU
AC136507.19/21662-21924                  GUAG.G.GUACAU............UAUGCUGGCCU.GCCCACUCCAAGU
AC146941.8/78907-78613                   GUAG.G.GUACAC............UAAGCUGGCUU.GCCCACUCCAAGU
AASG02000222.1/20689-20386               GGCG...UGACUA............UGAUCUGGCUC.GCCCGUUCCAAGC
AARH01003811.1/60212-60278               ..................................................
X65991.1/1-303                           AGUG.U.UAGCUG............CUUGCUGGGCU.GCCCAUUCCAAGC
X65984.1/1-307                           AGUG.U.UAGCUG............CUUACUGGUCU.GCCCAUUCCAAGC
X65986.1/2-304                           AGUG.C.UAGCUG............CUUACCCGGCU.GCCCAUUCCAAGC
AJ236705.1/163-430                       AGUG.U.CGGCUG............AUUACUGGUUC.GCCCGUUCCAAGC
AJ236703.1/157-424                       AGUG.U.CGGCUG............AUUACUGGUUC.GCCCGUUCCAAGC
X65985.1/1-303                           AGUG.U.UAGCUG............CUUACUGGUCU.GCCCAUUCCAAGC
X65990.1/1-301                           AGUG.U.UAGCUG............CUUGCUGGUCU.GCCCAUUCCAAGC
X65983.1/1-306                           AGUG.U.UAGCUG............CUUACUGGUCU.GCCCAUUCCAAGC
AJ236706.1/161-459                       AGUG.C.UAGCUG............CUUACUGGUCU.GCCCAUUCCAAGC
X69901.1/3886-4191                       GAUG.U.GGGCAU............GUUUCUGAGCU.GCCCAGUCCAAGC
AL161495.2/164946-164641                 GAUG.U.GGGCAU............GUUUCUGAGCU.GCCCAGUCCAAGC
X72228.1/320-625                         GAUG.U.GGGCAU............GUUUCUGAGCU.GCCCAGUCCAAGC
AL161496.2/127430-127734                 GUUG.C.UGGCAU............GUUUCUGGGCU.GCCCAGUCCAAGC
AC005275.1/105500-105803                 GUUG.U.UGGCAU............GUUUCUGGGCU.GCCCAGUCCAAGC
AC005662.3/47366-47062                   GGGU.U.GGGCUA............UAUUCUGGCCC.GCCCAUUCCAAGU
X72229.1/323-627                         GUUG.U.UGGCAU............GUUUCUGGGCU.GCCCAGUCCAAGC
AF069442.1/64156-64461                   GAUG.U.GGGCAU............GUUUCUGAGCU.GCCCAGUCCAAGC
X55111.1/801-1106                        GAUG.U.GGGCAU............GUUUCUGAGCU.GCCCAGUCCAAGC
AC189438.2/31077-30776                   GU...C.UGGCAU.............CUUCUGGACC.GCCCAGUCCAAAC
ABIM01017697.1/2595-2290                 GAAG.G.GAUUAA............AAAUCUGACCC.GCCCGUUCCAAGA
#=GC SS_cons                             <<.<...<<<.<<................<<<<<<<.<<<<.<<<<<<<<
#=GC RF                                  ggug.u.gugcca............uuuuccgGCCc.GcCCauuCCAagc

ABCN01005680.1/1602-1315                 UC.ACAGU...CGGCA..AGGUCAUCGCCCUGACGGGU.GAUUGAC.CU.
X71484.1/3-290                           CC.ACAGU...CGGCA..AGGUCGCUGCCCUGAUGGGU.GGCUGAC.CU.
AP008207.1/23319682-23319999             UGCGUAGU..GGGCCG.GAGGGGCUUU.GGCGAAGGCC.UUUG.CU.UUG
AP003333.4/45380-45697                   UGCGUAGU..GGGCCG.GAGGGGCUUU.GGCGAAGGCC.UUUG.CU.UUG
AP003253.3/106424-106741                 UGCGUAGU..GGGCCG.GAGGGGCUUU.GGCGAAGGCC.UUUGCUU.UGC
ABRL01000488.1/5816-6128                 UGAGUAGU.GGGUGGG..AGGGGCUUC.GGCGAAAGCCUUGGGUCU.CU.
AC079888.10/27802-27492                  UGCGUAGCG.UGUGUG..GGGCGCCUG.GGCGAAGGCU.CGAGCGU.CCC
AAAA02010927.1/7990-7685                 UGCGUAGU.UGGGCCG.GCGGGGCUUG.AGCGAAAGCU.CUGGCCU.CA.
U85037.1/1-298                           UGCGUAGC..GUGUAU.GGGGCGCCCU.GGCGAAAGCU.AGAGCGU.CC.
X13914.1/1-303                           UG.GUAGU..GGGCUG..GGUGGCUGG.GGCGAAAGCU.UCGCCUU.CU.
X13913.1/1-298                           UGCGUAGU..GGACCGCCUGGGGCUUA.UGCGAAAGC..UGGGUCU.CA.
ABXC01006351.1/33720-33416               UU.GGUAG.UGGUUGG..CGGGGCUCU.UGCGAAGGCU.UGGGCCU.CU.
X14661.1/23-309                          UG.GUAGU..GGCUGG.CGGAGGCUUU.AGCGGAAGCU.UUGGUCU.CU.
EU957112.1/2-304                         UG.GUUGU..GGCUGG.UGG.GGCUCG.GGCGAAGGCC.UGGGCCU.CU.
AM457057.2/4282-3977                     UG.GGAGA.UGAGUCU..CGACAUCCG.GGCGAAGGCC.UGGGUGG.CG.
FJ404770.1/43347-43044                   GG.GGAGU.UGGCCCA..CGGAAUCCA.GGCGAAGGCU.UGGGCUU.CG.
Z46745.1/134-436                         AC.AGAGU.UGGAUCA..CGAGGCCCA.AAUGAAAAUA.UGGGCUU.CU.
Z29099.1/1-304                           AA.AGAGU.UGGGUCU..UGUGGGCCA.AGCGAAGGCU.UGGGCUG.CU.
Z29260.1/92-303                          AC.AGAGU.AGGAUCA..CGAGGCCCA.AAUGAAAAUA.UGGGCUU.CU.
Z29109.1/1-240                           AU.GGAGU.UGGAUCA..CGUGGCUUA.GUCGAAAGACCUGGGUUG.CU.
Z29107.1/3-303                           AC.AGAGU.UGGAUCA..CGAGGCCCA.AAUGAAAAUA.UGGGCUU.CU.
Z29110.1/1-274                           AC.AGAGU.UGGAUCA..CGAGGCCCA.AAUGAAAAUA.UGGGCUU.CU.
Z46744.1/234-533                         AC.AGAGU.AGGAUCA..CGAGGCCCA.AAUGAAAAUA.UGGGCUU.CU.
Z29261.1/1-303                           AC.AGAGU.UGGAUCA..UGUGGUCCA.AUUGAAAGAA.UGGGCUA.CU.
Z29111.1/1-302                           UU.AGAGU.UGGAUCA..UGUGGCCCA.AUUGAAGAAA.UGGACUA.CU.
Z29104.1/1-304                           AC.AGAGU.UGGAUCA..UGUGGUCCA.AUUGAAAGAA.UGGGCUA.CU.
Z29106.1/1-302                           UU.AGAGU.UGGAUCA..UGUGGCCCA.AUUGAAGAAA.UGGACUA.CU.
Z29101.1/1-303                           AC.AGAGU.UGGAUCA..UGUGGUCCA.AUUGAAAGAA.UGGGCUA.CU.
Z29105.1/1-303                           UU.AGAGU.UGGAUCA..UGUGGCCCA.AUUGAAGAAA.UGGACUA.CU.
Z29112.1/1-303                           UU.AGAGU.UGGAUCA..UGUGGCCCA.AUUGAAGAAA.UGGACUA.CU.
X13958.1/1-302                           AC.AGAGU.UGGAUCA..CGAGGCCCA.AAUGAAAAUA.UGGGCUU.CU.
Z29103.1/1-304                           AC.AGAGU.UGGGUCA..AGUGGUCUA.UACGAAAGUA.UAG.CCA.CU.
AP009658.1/43412-43714                   CG.AGAGG.UGGGCCA.UGU.GUCUUU.AGUGAAAGCU.AAGGUCU.UG.
AP006364.1/60840-60536                   UG.AGAGU.UGGACCG.UGG.GGCUUG.GGCGAAGGCC.CUUGUCU.CU.
AP010413.1/68444-68724                   UG.AGAGU.UGGGCCA.UGG.GGCUUU.AGCGAAGGCU.CUAGCUU.CC.
AB295118.1/595-292                       UA.AGAGC.UGAGUCA..UGGGAUUUG.GGCGAAGGCU.CAGGUCU.CU.
AC190028.8/62420-62724                   UG.AGAAU.UGAAUCA..UGGGACUUAAAGCGAAGGCA.UAGGUCU.CC.
CT485797.2/99364-99662                   UG.AGAGU.UGGGCCA.UGG.GAUUUG.GGCGAAGGCU.CAGAUCU.CC.
AC146941.8/20211-20507                   UG.AGAGU.UGGGCCA.UGG.GAUUUG.GGCGAAGGCU.CAGAUCU.CC.
AC136507.19/79013-79284                  UG.AGAGU.UGGGCCA.UGG.GAUUUG.GGCGAAGGCU.CAGGUCU.CC.
AC136507.19/21662-21924                  UG.AGAGU.UGGGCCA.UGG.GAUUUG.GGCGAAGGCU.CAGAUCU.CC.
AC146941.8/78907-78613                   UG.AGAGU.UGGGCCA.UGG.GAUUUG.GGCGAAGGCU.CAGGUCU.CC.
AASG02000222.1/20689-20386               UA.AGAGU.UGAUCCA..UGUGGCUUG.GGCGAAGGCC.CGGGCUC.CA.
AARH01003811.1/60212-60278               ..................................................
X65991.1/1-303                           CG.AGAGU.UGAGCUG..UGUGAGCCG.GACGAAGGUC.UGGCUUG.GU.
X65984.1/1-307                           CG.GGAGU.UGGGCUG..AGUGACCUG.GGCGAAGGGC.UGGGUUG.CG.
X65986.1/2-304                           CG.GGAGG.UGGGCUG..AGGGACCUG.GGCGAAGGCU.NNNGGNNGCG.
AJ236705.1/163-430                       AA.AGAGC.UGGGCUG..GGUGAGUUG.GACGAAGGUC.UGGCUUA.CU.
AJ236703.1/157-424                       AA.AGAGC.UGGGCUG..GGUGAGUUG.GACGAAGGUC.UGGCUUA.CU.
X65985.1/1-303                           CG.GGAGU.UGGGCUG..AGUGACCUG.GGCGAAGGCC.UGGGUUG.CG.
X65990.1/1-301                           CG.AGAGU.UGGGCUG..UGUGAUCUG.GGCGAAGGCU.GGGGUCG.CA.
X65983.1/1-306                           CG.GGAGU.UGGGCUG..AGUGACCUG.GGCGAAGGCU..GGGUUG.CG.
AJ236706.1/161-459                       CG.GGAGU.UGGGCUG..AGUGACCUG.GGCGAAGGCC.UGGGUUG.CG.
X69901.1/3886-4191                       UG.UGAGU..AAUUAG.UGUUGAGUUG.AGCGAAGGCU.UGGCUCA.UG.
AL161495.2/164946-164641                 UG.UGAGU..AAUUAG.UGUUGAGUUG.AGCGAAGGCU.UGGCUCA.UG.
X72228.1/320-625                         UG.UGAGU..AAUUAGUGUUGAGU.UG.AGCGAAGGCU.UGGCUCA.UG.
AL161496.2/127430-127734                 UG.UGAGU..AAGACG.UGU.GUGUCA.AGCGAAGGCU.UGGCUCA.AA.
AC005275.1/105500-105803                 UG.UGAGU..AAGACG..UGUGUGUCA.AGCGAAGGCU.UGGCUCA.AA.
AC005662.3/47366-47062                   UG.GGAGU.UGAGGCA..UGGGCUUCG.AGCGAAGGCU.CGGGUCU.CA.
X72229.1/323-627                         UG.UGAGU..AAGACG.UGU.GUGUCA.AGCGAAGGCU.UGGCUCA.AA.
AF069442.1/64156-64461                   UG.UGAGU..AAUUAG.UGUUGAGUUG.AGCGAAGGCU.UGGCUCA.UG.
X55111.1/801-1106                        UG.UGAGU..AAUUAG.UGUUGAGUUG.AGCGAAGGCU.UGGCUCA.UG.
AC189438.2/31077-30776                   CG.AGAGU..GAUCCG..UUUGUGUUA.GGCGAAGGCU.UGACUCA.GG.
ABIM01017697.1/2595-2290                 GG.AGAGU.UGAGUUG..CGUGCCCUCCAGCGUAGGCU.UGGGGCU.CG.
#=GC SS_cons                             <<.<<<<<..<<<<<<..<<<<<<<<<.<<<....>>>.>>>>>>>.>>.
#=GC RF                                  cg.ggAGc.Ugggcca..aGgggccca.aGCGAAGGCu.ugggccc.Cu.

ABCN01005680.1/1602-1315                 GGUUG.....AU.GA.UU.AGUCCCGCACCGCGUGAGGCAGGAA..ACUG
X71484.1/3-290                           GGUUG.....AU.GA.UU.AGUCCCGCACCGCGUGAGGCAGGAA..ACUG
AP008207.1/23319682-23319999             CUUCUCCGGCCCUAA.AG.UGGCAGGCACAGCGUGAGGCUGGCUUCACAG
AP003333.4/45380-45697                   CUUCUCCGGCCCUAA.AG.UGGCAGGCACAGCGUGAGGCUGGCUUCACAG
AP003253.3/106424-106741                 UUCUCCGGCCCU.AA.AG.UGGCAGGCACAGCGUGAGGCUGGCUUCACAG
ABRL01000488.1/5816-6128                 CCGGCC....CU.GA.AGUUGGCAGGCACGGCGUGAGGCUGGCUUCACAG
AC079888.10/27802-27492                  UGCAC.....CU.AG.AG.UGGCGGGUAUUGCGUGAGGCUGGUUUCACAG
AAAA02010927.1/7990-7685                 CGUUUC...CCU.AG.AG.UGGCAGGCAUUGCGUGAGGCUGGCUUCACAG
U85037.1/1-298                           CUGCAC....CU.AG.AG.UGGCGGGUAUUGCGUGAGGCUGGUUUCACAG
X13914.1/1-303                           CAGGC.....CU.UA.AG.UGGCAGGCACCACGUUAGGCUGGUUUCACAG
X13913.1/1-298                           CGGUC.....CAUAA.UG.UGGCAGGCACAGCGUGAGGCUGGCUUCACAG
ABXC01006351.1/33720-33416               CCGAAC....CU.AA.AG.CGGCAGGAAUGGCGUGAGGCUGGCUUCACAG
X14661.1/23-309                          CCAGA.....CCUGA.AG.UGGCAGGAAUGGCGUGAGGCUGGCUUCACAG
EU957112.1/2-304                         UUAGA.....CCUGA.AG.CGGCAGGCAUGGCGUGAGGCUGGCUUCACAG
AM457057.2/4282-3977                     UGGCUC....CU.AG.AGUUGGAGGAAACCGCGUGAGGCUGGUUUCACAG
FJ404770.1/43347-43044                   AGGGCC....UU.AG.AG.AGGAGGGCACCGCGUCAGGCUGGAUUUACAG
Z46745.1/134-436                         UGAUUC....CU.AA.AG.UGGGGCGGACCGCAUGAGGCUGGCUUCACAG
Z29099.1/1-304                           GGGCUC....CU.AA.AG.UGGGGUGGACUGCGUGAGGCUGGUUUCACAG
Z29260.1/92-303                          UGAUUC....CU.AA.AG.CGGGGCGGACCGCAUGAGGCUGGCUUCACAG
Z29109.1/1-240                           UGAUUC....CU.AA.AG.UGGGGUGGACUGCGUGAGGCUGGUUUCACAG
Z29107.1/3-303                           UGAUUC....CU.AA.AG.UGGGGCGGACCGCAUGAGGCUGGCUUCACAG
Z29110.1/1-274                           UGAUUC....CU.AA.AG.UGGGGCGGACCGCAUGAGGCUGGCUUCACAG
Z46744.1/234-533                         UGAUUC....CU.AA.AG.CGGGGCGGACCGCAUGAGGCUGGCUUCACAG
Z29261.1/1-303                           AGAUUC....CU.AA.AG.UGGGGUGGACCGCGUGAGGCUGGUUUCACAG
Z29111.1/1-302                           UGAUUC....GU.AA.AG.UGGGGCGGAAUGCGUGAGGCUGGUUUCACAG
Z29104.1/1-304                           AGAUUC....CU.AA.AG.UGGGGUGGACCGCGUGAGGCUGGUUUCACAG
Z29106.1/1-302                           UGAUUC....GU.AA.AG.UGGGGCGGAAUGCGUGAGGCUGGUUUCACAG
Z29101.1/1-303                           AGAUUC....CU.AA.AG.UGGGGUGGAC.CCGUGAGGCUGGUUUCACAG
Z29105.1/1-303                           UGAUUC....GU.AA.AG.UGGGGCGGAAUGCGUGAGGCUGGUUUCACAG
Z29112.1/1-303                           UGAUUC....GU.AA.AG.UGGGGCGGAAUGCGUGAGGCUGGUUUCACAG
X13958.1/1-302                           UGAUUC....CU.AA.AG.UGGGGCGGACCGCAUGAGGCUGGCUUCACAG
Z29103.1/1-304                           UGGCCU....UU.AG.AG.UGGGAUGGACUGCGUGAGGCUGGUUUCACAG
AP009658.1/43412-43714                   UGGUUC....CU.AG.AC.AGGAGGGCAAAGCGUGAGGCUGGUGUCACAG
AP006364.1/60840-60536                   CGGCCC....CU.AA.AC.UGGAGGGCAAAGCGUGAGGCUGGUUUCACAG
AP010413.1/68444-68724                   UGGUUC....CU.AA.AC.UGGAGGGCACGGCGUGAGGCUGGUUUCACAG
AB295118.1/595-292                       UGGCUC....CU.AA.AC.UGGAGGGCACAGCGUGAGGCUGGUUUAACAG
AC190028.8/62420-62724                   UGGUUC....UU.AG.AG.UGGAGGGCACUGCGUGAGGCUGGUUUCACAG
CT485797.2/99364-99662                   UGGUCA....CU.AG.AA.CGGAGGGAUCCGCAUGAGGCUGGUUUCACAG
AC146941.8/20211-20507                   UGGUCA....CU.AG.AA.UGGAGGGAUCCGCAUGAGGCUGGUUUUACAG
AC136507.19/79013-79284                  UGGUCC....CU.AG.AA.CGGAGGGAACCGCAUGAGGCUGGUUUCACAG
AC136507.19/21662-21924                  UGGUCA....CU.AG.AA.CGGAGGGAUCCGCAUGAGGCUGGUUUCACAG
AC146941.8/78907-78613                   UGGUCC....CU.AG.AA.CGGAGGGAACCGCAUGAGGCUGGUUUCACAG
AASG02000222.1/20689-20386               UGGGUC....CU.AG.AG.CGGAGGGCACAGCGUUAGGCUGGUUUCACAG
AARH01003811.1/60212-60278               .......................GGGCAAUGCGUGAGGCUGGUUUCACAG
X65991.1/1-303                           CAGCUC....CU.AA.AG.CGGAGGGCAAUGCGUGAGGCUGGUUUCACAG
X65984.1/1-307                           CACGUC....CU.AG.AG.UGGAGGGCAAUGCGUGAGGCUGGCUUCACAG
X65986.1/2-304                           CA.CUC....CU.AG.AC.UGGAGGGCAAUGCGUGAGGCUGGCUUCACAG
AJ236705.1/163-430                       CAGCUC....CU.AA.AG.CGGUGGGUAACGCGUGAGGCUGGCUUCACAG
AJ236703.1/157-424                       CAGCUC....CU.AA.AG.CGGUGGGUAACGCGUGAGGCUGGCUUCACAG
X65985.1/1-303                           CAGCUC....CU.AG.AG.UGGAGGGCAAUGCGUGAGGCUGGUUUCACAG
X65990.1/1-301                           CAGCUC....CU.AA.AG.AGGAGGGCAAUGCGUGAGGCUGGUUUCACAG
X65983.1/1-306                           CAGCUC....CU.AG.AG.UGGAGGGCAAUGCGUGAGGCUGGCUUCACAG
AJ236706.1/161-459                       CAGCUC....CU.AG.AG.UGGAGGGCAAUGCGUGAGGCUGGCUUCACAG
X69901.1/3886-4191                       CAGGUU....CU.AG.AGUCGGAGGGUAAUGCGUGAGGCUGGCUUCACAG
AL161495.2/164946-164641                 CAGGUU....CU.AG.AGUCGGAGGGUAAUGCGUGAGGCUGGCUUCACAG
X72228.1/320-625                         CAGGU.....UCUAG.AGUCGGAGGGUAAUGCGUGAGGCUGGCUUCACAG
AL161496.2/127430-127734                 CGGCUG....CU.AA.AGUUGGAGGGCAAUGCGUGAGGCUGGUUUCACAG
AC005275.1/105500-105803                 CGGCUU....CU.AA.AGUUGGAGGGUAAUGCGUGAGGCUGGUUUCACAG
AC005662.3/47366-47062                   UGUCUU....CU.AG.AG.UGGGGGAGACCGCGUGAGGCUGGUUUCACAG
X72229.1/323-627                         CGGCUU....CU.AA.AGUUGGAGGGUAAUGCGUGAGGCUGGUUUCACAG
AF069442.1/64156-64461                   CAGGUU....CU.AG.AGUCGGAGGGUAAUGCGUGAGGCUGGCUUCACAG
X55111.1/801-1106                        CAGGUU....CU.AG.AGUCGGAGGGUAAUGCGUGAGGCUGGCUUCACAG
AC189438.2/31077-30776                   CGUUUC....CUAAAGAG.GGGAGGGCAAUGCGUGAGGCUGGUUUCACAG
ABIM01017697.1/2595-2290                 CCUCUC....UU.AG.AG.CGGAGGGGACCGCGUGAGGCUGGAA..ACAG
#=GC SS_cons                             >>>>>>....<<....>>.<<<<<<<...<<<<<....<<<......>>>
#=GC RF                                  uggccc....Cu.AA.aG.gGGagggaAaggCGuGAGGCuGGuUUCACaG

ABCN01005680.1/1602-1315                 AGCAGCGAAAAGG.GGCA.GCUGC.GGACGGCACAAGGAUC.GCAUGCUU
X71484.1/3-290                           AGCAGCGAAAAGG.GACA.GCUGC.GGACGGCGAAAGGAUC.GCAUGCUU
AP008207.1/23319682-23319999             AGCAGCGAUCACU.GCCC.GCUUC.CAUCGGUGGAAGGAUA.ACAGGCUG
AP003333.4/45380-45697                   AGCAGCGAUCACU.GCCC.GCUUC.CAUCGGUGGAAGGAUA.ACAGGCUG
AP003253.3/106424-106741                 AGCAGCGAUCACU.GCCC.GCUUC.CAUCGGUGGAAGGAUA.ACAGGCUG
ABRL01000488.1/5816-6128                 AGCAGCGAUCACU.GCUC.GCUUC.CAACUGUGGAAGGAUAAACAGGCCG
AC079888.10/27802-27492                  AGCAGCGAGUACC.GCCC.GCUUC.CAACGGUGGAAGGAUA.ACGGGCCG
AAAA02010927.1/7990-7685                 AGCAGCGAAUACU.GUCC.GCUUC.CAACGGUGGAAGGAUA.ACGGGCCG
U85037.1/1-298                           AGCAGCGAGUACC.GCCC.GCUUC.CAACGGUGGAAGGAUU.ACGGGCCG
X13914.1/1-303                           AGCAGCGACAACU.GCC.CGCUUC.CAACGGUGGAAGGAUA.ACAGGCCG
X13913.1/1-298                           AGCAGCGACAACU.GCCC.GCUUC.CAACGGUGGAAGGAUA.AUGGGCCG
ABXC01006351.1/33720-33416               AGCAGCGAUCACU.GCCC.GCUUCCAACGG.UGGGAGGAUA.ACAGGCCG
X14661.1/23-309                          AGCAGCGAUCACUCGCCC.GCUUC.CAACGGUGGGAGGAUA.ACGGGCCG
EU957112.1/2-304                         AGCAGCGAUCACU.GCCC.GCUUC.CAACGGUGGGAGGAUA.ACAGGCCG
AM457057.2/4282-3977                     AGCAGCGUCCACC.UCCC.GCUCC.CGUCGGUGGAAGGAUA.ACUGGCCG
FJ404770.1/43347-43044                   AGCAGCGAUAACU.UCCC.ACUCU.CUGCAGUUGAAGGAUA.ACGGGCCG
Z46745.1/134-436                         AGCAGUGAACAGC.UCCC.GCUCU.GUGCAGUGGAAGGAUA.AUGGGUCG
Z29099.1/1-304                           AGCAACGAAUAGC.UCCC.GCUCU.GUGCAGUGGAAGGAUA.ACGAGCCA
Z29260.1/92-303                          AGCAGUGAACAGC.UCCC.GCUCU.GUGCAGUGGAAGGAUA.AUGGGUCG
Z29109.1/1-240                           AGCAACGAACAGC.UUCC.GCUCU.GUGCAGUGGAAGGAUA.ACGGGUCA
Z29107.1/3-303                           AGCAGUGAACAGC.UCCC.GCUCU.GUGCAGUGGAAGGAUA.AUGGGUCG
Z29110.1/1-274                           AGCAGUGAACAGC.UCCC.GCUCU.GUGCAGUGGAAGGAUA.AUGGGUCG
Z46744.1/234-533                         AGCAGUGAACAGC.UCCC.GCUCU.GUGCAGUGGAAGGAUA.AUGGGUCG
Z29261.1/1-303                           AGCAACGAAAAAC.UUCC.GCUUU.GUGCAGUGGAAGGAUA.ACGGACCG
Z29111.1/1-302                           AGCAACGAUAAG..UUUC.GCUCU.AAGCGGUGGAAGGAUA.ACGAGUCG
Z29104.1/1-304                           AGCAACGAAAAAC.UUCC.GCUUU.GUGCAGUGGAAGGAUA.ACGGACCG
Z29106.1/1-302                           AGCAACGAUAAG..UUUC.GCUCU.AAGCGGUGGAAGGAUA.ACGAGUCG
Z29101.1/1-303                           AGCAACGAAAAAC.UUCC.GCUUU.GUGCAGUGGAAGGAUA.ACGGACCG
Z29105.1/1-303                           AGCAGUGAACAGC.UCCC.GCUCU.GUGCAGUGGAAGGAUA.AUGGGUCG
Z29112.1/1-303                           AGCAACGAUAAGU.UUCC.GCUCU.AAGCGGUGGAAGGAUA.ACGAGUCG
X13958.1/1-302                           AGCAGUGAA.CGC.UCCC.GCUCU.GUGCAGUGGAAGGAUA.AUGGGUCG
Z29103.1/1-304                           AGCAACGACUAGU.CCCC.GCUCU.GUGCAGUGGAAGGAUC.ACGGGCUA
AP009658.1/43412-43714                   AGCAGCGAACACU.UCUG.GCUCC.UGACAGUGGAGGGAUA.ACAGGCUG
AP006364.1/60840-60536                   AGCAGCGAAUACC.UCUG.GCUCC.UGACAGUGGAGGGAUA.ACAGGCUG
AP010413.1/68444-68724                   AGCAGCGAUAACC.UCCG.GCUCC.UGACAGUGGAGGGAUA.ACGGGCCG
AB295118.1/595-292                       AGCAGCGAGCACC.UCCG.GCUCC.UGACAGUGGAGGGAUA.ACAGGCUG
AC190028.8/62420-62724                   AACAGCGAACACC.UCCC.AUUCC.CAACAGUGGAGGGAUA.ACAGGUUG
CT485797.2/99364-99662                   AGCAGUGAACACU.UCCU.UCUCU.UGACAGUGGAGGGAUC.ACAGGCUG
AC146941.8/20211-20507                   AGCAGUGAACACU.UCCU.UCUCU.UGACAGUGGAGGGAUC.ACAGGCUG
AC136507.19/79013-79284                  AGCAGUGAACACU.UCCU.UCUCU.CGACAGUGGAGGGAUU.ACAGGCUG
AC136507.19/21662-21924                  AGCAGUGAUCACU.UCCU.UCUCU.UGACAGUGGAGGGAUU.ACAGGCUG
AC146941.8/78907-78613                   AGCAGUGAACACU.UCCU.UCUCU.CGACAGUGGAGGGAUU.ACAGGCUG
AASG02000222.1/20689-20386               AGCAGCGAUAACC.UCCC.UCUCU.UGGCAGUGGAAGGAUA.ACGGACCG
AARH01003811.1/60212-60278               AGCAGCGACAACC.UCCC.GCUCC.UGGCAGUGGAAGGAUA.AC......
X65991.1/1-303                           AGCAGCGACAACC.UCCC.GCUCU.CGGCAGUGGAAGGAUA.ACGGGCCG
X65984.1/1-307                           AGCAGCGACUACC.UCCC.GCUCU.CGGCAGUGGAAGGAUA.ACGGGCCG
X65986.1/2-304                           AGCAGCGACUACC.UCCC.GCUCU.CGGCAGUGGAAGGAUA.ACGGGCCG
AJ236705.1/163-430                       AGCAGCGACUACC.UCCC.GUUCU.UGGCAGUGGAAGGACA.ACGAGCCG
AJ236703.1/157-424                       AGCAGCGACUACC.UCCC.GUUCU.UGGCAGUGGAAGGACA.ACGAGCCG
X65985.1/1-303                           AGCAGCGACUACC.UCCC.GCUCC.CGGCAGUGGAAGGAUA.ACGGGCCG
X65990.1/1-301                           AGCAGCGACCACC.UCCC.GCUCU.CGGCAGUGGAAGGAUA.ACGGGUCG
X65983.1/1-306                           AGCAGCGACUACC.UCCC.GCUCU.CGGCAGUGGAAGGAUA.ACGGGCCG
AJ236706.1/161-459                       AGCAGCGACUACC.UCCC.GCUCU.CGGCAGUGGAAGGAUA.ACGGGCCG
X69901.1/3886-4191                       AGCAGCGACUACU.UCCC.GCUUA.CAGCAGUGGACGGAUC.ACGGUUUA
AL161495.2/164946-164641                 AGCAGCGACUACU.UCCC.GCUUA.CAGCAGUGGACGGAUC.ACGGUUUA
X72228.1/320-625                         AGCAGCGACUACU.UCCC.GCUUA.CAGCAGUGGACGGAUC.ACGGUUUA
AL161496.2/127430-127734                 AGCAGCGAUUACU.UCCC.GCUUA.CAGCAGUGGACGGAUC.ACAGUUUG
AC005275.1/105500-105803                 AGCAGCGACUACU.UCCC.GCUUA.CAGCAGUGGACGGAUC.ACAGUUUA
AC005662.3/47366-47062                   AGCAGCGUCCACC.UCCC.GCUCU.UGACGGUGGAAGGAUU.ACGGGCCA
X72229.1/323-627                         AGCAGCGACUACU.UCCC.GCUUA.CAGCAGUGGACGGAUC.ACAGUUUA
AF069442.1/64156-64461                   AGCAGCGACUACU.UCCC.GCUUA.CAGCAGUGGACGGAUC.ACGGUUUA
X55111.1/801-1106                        AGCAGCGACUACU.UCCC.GCUUA.CAGCAGUGGACGGAUC.ACGGUUUA
AC189438.2/31077-30776                   AGCAGCGAUCACC.UCCC.UCUCU.CGGCAGUGGACGGAUA.ACGGAUGA
ABIM01017697.1/2595-2290                 AGCAACGAAAACC.UCCC.GCUCU.CUUCAGUGGAAGGAUU.ACGGGCCG
#=GC SS_cons                             ....>>>>>.>>>.>>>>.>>>>>.>>>>>.>>>>>>>....>>>>>>>>
#=GC RF                                  AGCAgCGacaacc.uCCc.gCUcc.cggcaGUGGaaGGAUA.aCgGGCcg

ABCN01005680.1/1602-1315                 GAGGGAGUG.GCAUGG.CCACCC.GAGGG.GUCC....UC.UGU..GGG.
X71484.1/3-290                           GAGGAGGUG.CCACGA.CCACCC.GGGGG.GUCC....UC.UGU..GGG.
AP008207.1/23319682-23319999             CUG.CAC.C.UUGGGC.CCGCUUCUGGCCC.AGAGU...CCCUC.UACA.
AP003333.4/45380-45697                   CUG.CAC.C.UUGGGC.CCGCUUCUGGCCC.AGAGU...CCCUC.UACA.
AP003253.3/106424-106741                 CUG.CAC.C.UUGGGC.CCGCUUCUGGCC.CAGAGU.C.CCUCUA.CAA.
ABRL01000488.1/5816-6128                 CUG.CAC.C.AUGGGC.CCGCUUCUGGCC.CAGAGU..UCCAC..UAUU.
AC079888.10/27802-27492                  CUG.CAG.C.CCUGGC.CCGCUUCCGGCC..CAAGU..GCCUUC.CAUG.
AAAA02010927.1/7990-7685                 CCG.CAC.U.GCUGGC.CCGCU.UGGGUC.UCGCAG..CCUACU.CCAA.
U85037.1/1-298                           CUG.CAG.C.CCUGGC.CCGCUUCCGGCC..CAUGU..GCCUUC.CAUG.
X13914.1/1-303                           CUG.CAG.C.AUGGGC.CCGCUCUGGGCC.UCCUA...CCCCGCCAU.A.
X13913.1/1-298                           CUG.CAC.U.CCUAGGACCAAU.UGGGCCUCGCAG....CCUAC.UCCA.
ABXC01006351.1/33720-33416               C.UGCACC..AUUAGC.CCAACUUAGGGCCCAGAGC..CUCACU.AUAG.
X14661.1/23-309                          CUG.CAC.U.UCGAGC.CCAACUCAGGCC.CAGAG...CC.UCA.CUAA.
EU957112.1/2-304                         CUG.CAU.U.GCAAGC.CCAACUCGG.UC.CAGAG...CC.UCA.UUAA.
AM457057.2/4282-3977                     GUG.CUC.C.ACAGGU.CCAAC.AACGCC.UCCUGA.GCCGCUC.ACAA.
FJ404770.1/43347-43044                   GUG.CUCC..UUGGGU.CCAAC.AAAGCC.AGUUGA.AUCGGUC.UUAA.
Z46745.1/134-436                         GUGUCUUA..UCAAGU.UCAGU.AACGCC.UAAUGG..GUUGCU.CCAA.
Z29099.1/1-304                           GUG.UCA..UAUAAGU.UCAACGAAUGUC.UGAUGG..GCUGUU.CUAG.
Z29260.1/92-303                          GUG.UCUU.AUCAAGU.UCAGU.AACGCC.UAAUGG..GUUGCU.CCAA.
Z29109.1/1-240                           GUG.CUCA..GCGAGU.CCAGUUAACGCCCUGAUGG..GCUGCU.CCAA.
Z29107.1/3-303                           GUGUCUUA..UCAAGU.UCAGU.AACGCC.UAAUGG..GUUGCU.CCAA.
Z29110.1/1-274                           GUGUCUUA..UCAAGU.UCAGU.AACGCC.UAAUGG..GUUGCU.CCAA.
Z46744.1/234-533                         GUGUCUUA..UCAAGU.UCAGU.AACGCC.UAAUGG..GUUGCU.CCAA.
Z29261.1/1-303                           GUGCCUU...CCAAGU.UCCAUUAAUGCC.UGAUGG..GCUGCU.CCAA.
Z29111.1/1-302                           GUGUUCU...CUGAGU.CCAGU.AACGCC.UGAUGG..GUUGCU.CCAA.
Z29104.1/1-304                           GUGCCUU...CCAAGU.UCCAUUAAUGCC.UGAUGG..GCUGCU.CCAA.
Z29106.1/1-302                           GUGUUCU...CUGAGU.CCAGU.AACGCC.UGAUGG..GUUGCU.CCAA.
Z29101.1/1-303                           GUGCCUU...CCAAGU.UCCAUUAAUGCC.UGAUGG..GCUGUU.CUAG.
Z29105.1/1-303                           GUGUCUUA..UCAAGU.UCAGU.AACGCC.UAAUGG..GUUGCU.CCAA.
Z29112.1/1-303                           GUG.UUC..UCUGAGU.CCAGU.AAUGCC.UGAUGG..GCUGCU.CUAA.
X13958.1/1-302                           GUG.UCU.UAUCAAGU.UCAGU.AACGCC.UAAUGG..GUUGCU.CCAA.
Z29103.1/1-304                           GUGCUCU...UUGAGU.CCUAACAAAAACCUGAUAG..GUUGCC..UAA.
AP009658.1/43412-43714                   CUG.CAC.C.UUCAGC.CCACA.AAUGCC.UAGUGA.A.CCCAG.CUACC
AP006364.1/60840-60536                   AUG.CAC.U.CUCAGC.CCAUU..GUGCC.UAGUGG.G.CCUGG.CCUCU
AP010413.1/68444-68724                   CUG.CAC.U.CUCAGC.CCACU..ACGCC.CGGUGA.G.CCUGG.CCUCU
AB295118.1/595-292                       CAG.CAC.U.UUCAGC.CCACC.AUGACC.GGGUGU..ACCAAG.CUC..
AC190028.8/62420-62724                   CUG.CAAC..CACAGU.CCACC.AUGGCC.UGGUGA..GCCUAG.AUGC.
CT485797.2/99364-99662                   CAG.UAU.U.CUCAGC.CCAUA..UGGCC.UGGUGA.G.CCUAG.CC.AU
AC146941.8/20211-20507                   CAG.UAU.U.CUUGGC.UUAUA..UGGCC.UGGUGA.G.CCUAG.CACAC
AC136507.19/79013-79284                  CUG.CAU.U.CUCGGU.CCAUA..UAGCC.UGGUGA.G.CCUAG.CCCAU
AC136507.19/21662-21924                  CUG.UAU.U.CUCAGC.CCAUA............................
AC146941.8/78907-78613                   CUG.CAU.U.CUCGGU.CCAUA..UAGCC.UGGUGA.G.CCUAG.CCCAU
AASG02000222.1/20689-20386               GUG.UUA.C.CCGGAG.CCAUA.GAAGCC.UAAUGG..ACCGUG.UGAA.
AARH01003811.1/60212-60278               ..................................................
X65991.1/1-303                           GUG.CUG.C.UUGGAC.CCACC.AUGGUU.CACUGA.GCUGACUCUUAA.
X65984.1/1-307                           GUG.CUA.C.CUGGGU.CCACC.AUGCUU.CACUAG.GCUGACUCUUAA.
X65986.1/2-304                           GUG.CGC.C.UUGAGC.CAACA.CUGUUC.AACUGG.GCUGACUCUUAA.
AJ236705.1/163-430                       GUG.CUG.C.CUGGGC.UCACC.AUGGUU.CACU................
AJ236703.1/157-424                       GUG.CUG.C.CUGGGC.UCACC.AUGGUU.CACU................
X65985.1/1-303                           GUG.CUA.C.UUGGUC.CA.CC.AUGU.U.CACUGGUCCUGACUCUUAA.
X65990.1/1-301                           GUG.CUA.C.UUGGGC.CA.CC.AUGG.U.CACUGC.AUGCACUCUUAAU
X65983.1/1-306                           GUG.CUA.C.CUGGAU.CCACC.AUGCUU.CACUGG.GCUGACUCUUAA.
AJ236706.1/161-459                       GUG.CUA.C.CUGGAU.CCACC.AUGCUU.CACUGG.GCUGACUCUUAA.
X69901.1/3886-4191                       GCG.UCG.C.UCAGAA.CCACU.AUGGCC.UGCUGG.U.CCGAU.CUCAU
AL161495.2/164946-164641                 GCG.UCG.C.UCAGAA.CCACU.AUGGCC.UGCUGG.U.CCGAU.CUCAU
X72228.1/320-625                         GCG.UCG.C.UCAGAA.CCACU.AUGGCC.UGCUGG..UCCGAU.CUCAU
AL161496.2/127430-127734                 GCG.UCG.C.UCAGAA.CCACU.AUGGCC.UGCUGG.U.CCGAU.CUCAU
AC005275.1/105500-105803                 GCG.UCG.C.UCAGAA.CCACU.AUGGCC.UGCUGG..UCCGAU.CUCAU
AC005662.3/47366-47062                   UUG.CCU...UCCGAG.CCCACUAUGACC.CAAUAA.G.CCGCU.CCGA.
X72229.1/323-627                         GCG.UCG.C.UCAGAA.CCACU.AUGGCC.UGCUGG.U.CCGAU.CUCAU
AF069442.1/64156-64461                   GCG.UCG.C.UCAGAA.CCACU.AUGGCC.UGCUGG.U.CCGAU.CUCAU
X55111.1/801-1106                        GCG.UCG.C.UCAGAA.CCACU.AUGGCC.UGCUGG..UCCGAU.CUCAU
AC189438.2/31077-30776                   AAG.CCAC..UCAGAU.CCACA..UGGCC.UGGUGG..CUCGUACCCAG.
ABIM01017697.1/2595-2290                 GUG.CUC.A.UCAGGU.CCAUU.AACGCC.UGAUGG..ACCCUCCACAA.
#=GC SS_cons                             >>>.>>>.>.>>>>>>.>>......>>>>.>>>>>>..>>>>>>..>>>.
#=GC RF                                  gug.cac.c.ccagGc.CCAau.aaggcC.uacugg..cccacc.ccaa.

ABCN01005680.1/1602-1315                 ACCAACUACCGUUU...
X71484.1/3-290                           ACCAACUACCGUUU...
AP008207.1/23319682-23319999             ACAGACCACCAUCUUU.
AP003333.4/45380-45697                   ACAGACCACCAUCUUU.
AP003253.3/106424-106741                 .CAGACCACCAUCUUU.
ABRL01000488.1/5816-6128                 ACAGACCACCAUCUUU.
AC079888.10/27802-27492                  GCAGACCACCACCUUU.
AAAA02010927.1/7990-7685                 .CGGACCACCACUUUU.
U85037.1/1-298                           GCAGACCCCCAUCUUU.
X13914.1/1-303                           GCAGACCACCAUCUUU.
X13913.1/1-298                           GCAGACCACC.......
ABXC01006351.1/33720-33416               .CAG.ACCACCAUCUUU
X14661.1/23-309                          GCAGACCACCAUCUUU.
EU957112.1/2-304                         ACAGACCACCAUCUUU.
AM457057.2/4282-3977                     UCUGACAUCCACCUUU.
FJ404770.1/43347-43044                   UUGGACAGUAACCUUU.
Z46745.1/134-436                         .UAAACAACCACCUUU.
Z29099.1/1-304                           UUAAACUACCACAUUU.
Z29260.1/92-303                          .UAAACAACCACCUUU.
Z29109.1/1-240                           CUAAA............
Z29107.1/3-303                           UAAA.CAACCACCUUU.
Z29110.1/1-274                           .UAAACAACCACCUUU.
Z46744.1/234-533                         UAAA.CAACCACCUUU.
Z29261.1/1-303                           UUAAACCACCACUUU..
Z29111.1/1-302                           UUAAACCACCAUUUUU.
Z29104.1/1-304                           UUAAACCACCACUUUU.
Z29106.1/1-302                           UUAAACCACCAUUUUU.
Z29101.1/1-303                           UUAAACUACCACAUUU.
Z29105.1/1-303                           UAAACAACCACCUUU..
Z29112.1/1-303                           UUAAACCACCACUUUU.
X13958.1/1-302                           .UAAACAACCACCUUU.
Z29103.1/1-304                           UUAAACCAUCACUUUU.
AP009658.1/43412-43714                   .UGAACUAUCAUUUUC.
AP006364.1/60840-60536                   .UGAACCAUCAUCUUU.
AP010413.1/68444-68724                   .UGAACCAUCAU.....
AB295118.1/595-292                       CUGAACCAUCAUUUUU.
AC190028.8/62420-62724                   UUGGACCAUCACUUUU.
CT485797.2/99364-99662                   .UGAACCAUCAUUUUU.
AC146941.8/20211-20507                   .UGAACCAUCA......
AC136507.19/79013-79284                  .UGAACCAUCA......
AC136507.19/21662-21924                  .................
AC146941.8/78907-78613                   .UGAACCAUCA......
AASG02000222.1/20689-20386               CUGGACCAUCAUUUUU.
AARH01003811.1/60212-60278               .................
X65991.1/1-303                           UAGGACCAUUUCUUUU.
X65984.1/1-307                           UAGGACCAUUUCUUUU.
X65986.1/2-304                           UAGGACCAUUUCUUUU.
AJ236705.1/163-430                       .................
AJ236703.1/157-424                       .................
X65985.1/1-303                           UCGGACCAUUUCCUUU.
X65990.1/1-301                           CAGA.CCAUCUCUUUU.
X65983.1/1-306                           UAGGACCAUUUCUUUU.
AJ236706.1/161-459                       UAGGACCAUUUCUUUU.
X69901.1/3886-4191                       AUGAACCACCAUUUU..
AL161495.2/164946-164641                 AUGAACCACCAUUUU..
X72228.1/320-625                         AUGAACCACCAUUUU..
AL161496.2/127430-127734                 CUGAACCACCAUUUU..
AC005275.1/105500-105803                 AUGAACCACCAUUU...
AC005662.3/47366-47062                   UUGGACCAUCACUUU..
X72229.1/323-627                         AUGAACCACCAUUUU..
AF069442.1/64156-64461                   AUGAACCACCAUUUU..
X55111.1/801-1106                        AUGAACCACCAUUUU..
AC189438.2/31077-30776                   CUGAACCACCAUCUUU.
ABIM01017697.1/2595-2290                 UUCAACAACCAUCUUU.
#=GC SS_cons                             .>>>.>>>>>>>>>>>.
#=GC RF                                  augaACcacCaccuuu.
//
