# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln1.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln1.fa

M23811.1/5-119            AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCCCCUUUCANC
AC005719.2/130462-130570  -UACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
AC009948.3/27597-27481    AUACUCUGGAUUCUCUUCA..GAUC--AUAUAUCUUUUGCCUUUUAUU
AC000104.1/17376-17496    AGCCAU-GUGGUGAGCACA..UAGCGAACUAUUCUUUCGCCUUUUACU
AL606646.3/46909-46786    AGCUGC-GCAGUGGGCACA..AAGCGAACUAUUCUUUCGCCUUUUACU
#=GC SS_cons              ..<<<<..<<<<<<<<<<<..........<<<<<<<<...........

M23811.1/5-119            AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAACCAAUUUU
AC005719.2/130462-130570  AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACUCAAUUUU
AC009948.3/27597-27481    AGA-AUUUCUAGAGAGAGGAUAA.AUUAU.GAGUUUGUAGCCAGUUUU
AC000104.1/17376-17496    AAAGAAUACCGUGUGCUCUCCAC.GCUAA.GUGGCAUACGCCUAUUUU
AL606646.3/46909-46786    AAAGAAUACCGUGUGCACGCUGC.AAAUA.GCAGCAUACUCUAAUUUU
#=GC SS_cons              >>>>>>>>...>>>>>>>>>>>........>>>>..............

M23811.1/5-119            UUGA-GCCUUGUu...CC-.....GGCAAGGCU
AC005719.2/130462-130570  UGUAUGAC----....CU-.....-----GGCU
AC009948.3/27597-27481    UUCUUUGCUUUUuau.UUUu....GGCAGGGUU
AC000104.1/17376-17496    UGGAGGGUUCCCac..UUUacug.UGGGUCCCA
AL606646.3/46909-46786    UUGAGGGGAUUUccuaUCUaaggaCAAACCCCA
#=GC SS_cons              ...<.<<<<<<...............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln2.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln2.fa

AC112161.9/38431-38546   AUACUCUGGUUUCUCUUCA...GAUCGUAUAAAUCUUUCGCCUUUUACU
Z69659.1/6667-6789       AAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUACU
AC002062.1/32951-32833   AGCCAU-GUGGUGAGCACA...AAGCGAACUAUUCUUUCGCCUUUUACU
AC123596.12/58889-59002  AGCUGU-GUGUUGAUCACA...UAGUAAACUAUUCUUUUGCCUUUUACU
K03164.1/1-115           AUACUCUGGUUUCUCUUCA...GAUCGUAUAAAUCUUUCGCCUUUUACU
#=GC SS_cons             ..<<<<..<<<<<<<<<<<...........<<<<<<<<...........

AC112161.9/38431-38546   AAAGAUUUCCGUGGAGAGGAACAACUCU.GAGUCUUAAACC...AAUUU
Z69659.1/6667-6789       AAAGAUUUCCGUGCAAAGGAGCAUACAUuGAGUAUUAUAUAc..AAUUU
AC002062.1/32951-32833   AAAGAAUACCGUGUGCUCUCCACGCUAA.GUGGCAUACGCC...UAUUU
AC123596.12/58889-59002  AAAGAAUACCUUGUGAGUGUUACAAUUA.GCGGUAGGGCUCugcAAUUU
K03164.1/1-115           AAAGAUUUCCGUGGAGAGGAACAACCAC.GAGUGUCGUGG-...AAUUU
#=GC SS_cons             >>>>>>>>...>>>>>>>>>>>.......>>>>................

AC112161.9/38431-38546   UUUGAGGCCUUGUc.UU-....GACAAGGCU
Z69659.1/6667-6789       UUGGA-GUCCCC-..UCGaaagAGCGGGACA
AC002062.1/32951-32833   UUGGA-GGGUCCUgcUUUcga.GUGGGCCCA
AC123596.12/58889-59002  UAGUUCAAUAU--..UUUcc..----UAUUC
K03164.1/1-115           UUUGAGGCUCCGCu.UC-....GGCGGAGCU
#=GC SS_cons             ....<.<<<<<<............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln3.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln3.fa

AC124037.5/99823-99938     AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUA
X01693.1/1-111             AUCACA-GAACUCAGCUCAAUACGCUUUAAUUUUUCGCCUUUUACUA
AC097478.2/120798-120909   AUACUCUGAUUUCUCUUGAGGUC--AUAAAUCCUCUGCCUUUU--UA
AL359543.13/42140-42256    -AUCCU-GGUUUCUCUUCAGAUCAUAUAAAUCUUGUGACUUUUACGA
AC083892.19/144818-144933  AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUA
#=GC SS_cons               ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>

AC124037.5/99823-99938     AA.GAUUUCCGUGGAGAGGAACAAUUCUGAGUCUUAACCCAAUUUUU
X01693.1/1-111             AA.GAUUACCGUGGGCUGGGUUCUACAAUGUGAAUUAUUAAAAUUUU
AC097478.2/120798-120909   AGaGAUCUAUGUGGAGAGGAACAACUCUGGGUCUUAAACGAAUUAUU
AL359543.13/42140-42256    AA.GAUUCCCAUGAAGAGGAACAACUCUGAGACUUAAACCAAUUUUU
AC083892.19/144818-144933  AA.GAUUUCCGUGGAGAGGAACAAUUCUGAGUCUUACACUAAUUUUU
#=GC SS_cons               >>.>>>>>...>>>>>>>>>>>......>>>>...............

AC124037.5/99823-99938     UGAGGUCCUGC...UCGu.-GCAGGGCU
X01693.1/1-111             UGA-GGAUU--...GUGu.GA--AUCCU
AC097478.2/120798-120909   GAG-GUCUUGUu..UU-..GGAAAGGCU
AL359543.13/42140-42256    CA--GCCUUGGugcUUUguAUAAAGGAU
AC083892.19/144818-144933  UGAGGCCUUGCu..UU-..AGCAAGGCU
#=GC SS_cons               ..<.<<<<<<...........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln4.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln4.fa

M10336.1/2-117            AUACUCUGGUUUCUCUUCA......................GAUCG.U
X01692.1/1-115            AUACUCUGGUUUCUCUUCA......................GAUCG.U
AC105129.4/181079-180964  AUACUCUGGUUUCUCUUCA......................GAUCG.U
AC091619.3/67508-67374    AGACUCUG---UCUCAACAaaaacaaaaaaaaagauaugguCAU--uA
X51386.1/284-412          ACUAUC-GAGUUGUUAGUAgagggggguuau..........UAGGG.U
#=GC SS_cons              ..<<<<..<<<<<<<<<<<.............................

M10336.1/2-117            A.UAAAUCUUUCGCCUUUUACUAAAGAUUUCCGUGGAGAGGAACA.AC
X01692.1/1-115            A.UAAAUCUUUCGCCUUUUACUAAAGAUUUCCGUGGAGAGGAACA.AC
AC105129.4/181079-180964  A.UAAAUCUUUCGCCUUUUACUAAAGAUUUCCGUGGAGAGGAACA.AC
AC091619.3/67508-67374    U.UAAAUCUUUCGCCUUUUACUAAAGAUUUCCGUGGAGAGGAACA.AU
X51386.1/284-412          GgAAAAUCUUUUGCCUUUUACUGAAUAUUUCCUUGCAAAGGAGCAuAC
#=GC SS_cons              ...<<<<<<<<...........>>>>>>>>...>>>>>>>>>>>....

M10336.1/2-117            UCUGAGUCUUAAACC.AAUUUUUUGAGGCCUUGUcUU-..GGCAAGGC
X01692.1/1-115            CACGAGUGUCGUGG-.AAUUUUUUGAGGCUCCGCuUC-..GACGGAGC
AC105129.4/181079-180964  UCUGAGUCUUAAGCU.AAUUUUUUGAGGCCUUGUuCC-..GACAAGGC
AC091619.3/67508-67374    UGUGAGUUCACCACCaAAUUUUUUGACGUCCUG-.CUUagAGG-GGGC
X51386.1/284-412          AUUGAGUAUUAUAUAcAAUUUUUGGAGUCCCCUU.GA-..GAAAGCGG
#=GC SS_cons              ...>>>>..................<.<<<<<<.........>>>>>>

M10336.1/2-117            U
X01692.1/1-115            U
AC105129.4/181079-180964  U
AC091619.3/67508-67374    U
X51386.1/284-412          A
#=GC SS_cons              >
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln5.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln5.fa

X00278.1/3-120          AGCCGU-GUGAUGAUGACA...UAGCGAACUA-UCUUUCGCCUUUUACUA
AB018115.1/5753-5643    AGCCGA-GCAGUGAAGACA...AAGCGAGCUAUUCUUUCGCCUUUUACUA
AL023594.2/7651-7766    GUCAAA-GCACUUUGCAAAagcUAACGUAUCUGUUUCUUGCCUUUUACCA
X67000.1/4-110          CGCGAC-GAGCUGAACGCG...UAGCGAAUAUCUCUUUCGCCUUUUACUA
AL133286.9/29071-28954  AUUCUCUGGUUUCUCUUCA...AAUUGUAUAAAUCUUUCGCCUUUUACUA
#=GC SS_cons            ..<<<<..<<<<<<<<<<<...........<<<<<<<<...........>

X00278.1/3-120          AAGAAUACUGUGUCAG.CGUCAC.AAUUA..GCGGCAUACGCU..AGUUU
AB018115.1/5753-5643    AAGAAUACCGUGUCUU.CUCUGCaUUUAA..UCGGCAUACGCC..UAUUU
AL023594.2/7651-7766    GAAACAGCCGUUUGUA.AGGUGU.GCUAA..UUUGACUGUAU-..AGUUU
X67000.1/4-110          AAGAGAUCCGCGAGUU.UUGCUC.ACGCA..GUCGCAUAUCCA..UCUUU
AL133286.9/29071-28954  AAGAUUUCCGUGGAGAcAGAGUC.UCGCUcuGUCACCCAGGCUggAGU--
#=GC SS_cons            >>>>>>>...>>>>>>.>>>>>.........>>>>...............

X00278.1/3-120          U.UGGGAGAGUCCUcUUCauuGAGGGCUCU
AB018115.1/5753-5643    U.UGGAAAGGUU--.UAUu..----ACCAA
AL023594.2/7651-7766    U.UGUA-AUCUUUUuCUU...-GAAACAUU
X67000.1/4-110          U.UGUGGGGC----.UUUu..-----GCCU
AL133286.9/29071-28954  -gUAGAGGCGAGAU.CUU...-GGUUCACU
#=GC SS_cons            .....<.<<<<<<..........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln6.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln6.fa

AC142391.2/39088-39198   AUACUCUGGUUUCUCUUCA......................GAUCA.UA
X04213.1/1-115           AUACUCUGGUUUCUCUUCA......................GAUCG.UA
AC120537.6/31230-31353   AGCUGC-GCGGUGAGCACA......................AAGCG.AA
AC091619.3/67508-67374   AGACUCUG---UCUCAACAaaaacaaaaaaaaagauaugguCAU--uAU
AL627223.23/85084-85197  CUGCUUGGUUUGCUCUUCA......................GGUCU.UG
#=GC SS_cons             ..<<<<..<<<<<<<<<<<..............................

AC142391.2/39088-39198   UAAAUCUUUCACCUUUUACUAAAGAUUCCUGUGGAGA.GU-----UUUU
X04213.1/1-115           UAAAUCUUUCGCCUUUCAUCAAAGAUUUCCGUGGAGA.GGAACAACUCU
AC120537.6/31230-31353   CUAUUCUUUCGCCUUUUACUAAAGAAUACCGUGUGCG.CGCCGCAAUUA
AC091619.3/67508-67374   UAAAUCUUUCGCCUUUUACUAAAGAUUUCCGUGGAGA.GGAACAAUUGU
AL627223.23/85084-85197  UAAAUCUUUCACCUUUUAUAAAAGAUUUC--UGGAGAaGGAAGCACUCU
#=GC SS_cons             .<<<<<<<<...........>>>>>>>>...>>>>>>.>>>>>......

AC142391.2/39088-39198   ..GAGUUUUUAGCU.AAUUUUUUGA-GCCUUUGc.....UUU....AGC
X04213.1/1-115           ..GAGUCUUAAACC.AAUUUUUUGA-GCCUUGUu.....CC-....GGC
AC120537.6/31230-31353   ..GCAGCAUACGCU.AAUUUUUGGA-GGGAACCgacucuUCUgaggAGG
AC091619.3/67508-67374   ..GAGUUCACCACCaAAUUUUUUGACGUCCUG-......CUUag..AGG
AL627223.23/85084-85197  ggAAGUCUUAACU-.GAUUUUUGU--GGCUGCUu.....CUU....-GG
#=GC SS_cons             ..>>>>..................<.<<<<<<................>

AC142391.2/39088-39198   AAGGCU
X04213.1/1-115           AAGGCU
AC120537.6/31230-31353   UACCCA
AC091619.3/67508-67374   -GGGCU
AL627223.23/85084-85197  UGGUUC
#=GC SS_cons             >>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln7.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln7.fa

M77838.1/1-102            NNGCUCUGGUUUCUCUUCA...AAUCGUAUAAAUCUUUCGCCUUUUAC
AP001021.5/117483-117367  AAGCUCUGGUUUCUUGUCA...GAACGACUACAUCUUUCACCUUUUAC
AC005719.2/126122-125996  --ACUCUGGUUUCUCUUCAau.UGUCGAAUAAAUCUUUCGCCUUUUAC
AC130810.11/42940-43058   AGCCGU-GUGAUGAGCACA...UAGCGAACUAUUCUUUCGCCUUUUAC
Z69659.1/6667-6789        AAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
#=GC SS_cons              ..<<<<..<<<<<<<<<<<...........<<<<<<<<..........

M77838.1/1-102            UAAAGAUUUCCGUGGAGAGAAACC.GUUUU.GAGU.UUCUAGCU.AAU
AP001021.5/117483-117367  UAAAGAUUCCCAUGGAGAGGGACA.GUUGU.GAGUuCAUAACCA.AAC
AC005719.2/126122-125996  UAAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGU.CUAAACAC.AAU
AC130810.11/42940-43058   UAAAGAAUACCGUGUGCACGUCAC.UAAAA.GCGG.CAUACGCU.AAU
Z69659.1/6667-6789        UAAAGAUUUCCGUGCAAAGGAGCA.UACAUuGAGU.AUUAUAUAcAAU
#=GC SS_cons              .>>>>>>>>...>>>>>>>>>>>........>>>>.............

M77838.1/1-102            UUUU..UGAAG------...CC-.....-------CU
AP001021.5/117483-117367  UUUU..UAAGGCCUUG-...CUUa....GGCAGGGCU
AC005719.2/126122-125996  UUUUauUGA-GGCCUGAuaaCUUaugcuAUCGGGCCA
AC130810.11/42940-43058   UUUU..GAAAGAGUCCUc..CUUaau..GAGGGUUCU
Z69659.1/6667-6789        UUUU..GGA-GUCCCC-...UCGaaag.AGCGGGACA
#=GC SS_cons              ........<.<<<<<<..............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln8.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln8.fa

AP006390.1/45876-45755  AGCCUC-GCAUGAAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAG
M10336.1/2-117          AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUAAAG
M10270.1/1-117          AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACNAAAG
AC004395.1/1698-1591    GUGUG-UGGGCCUAGCUCA----GAAUCCAUUUCUUGCCUUUUACCAGAG
AL606646.3/46909-46786  AGCUGC-GCAGUGGGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAG
#=GC SS_cons            ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>>>

AP006390.1/45876-45755  AAUACCGUGUGCUUGUUGCAACAAGAGGCAUACGCCAUUUUUUGAAGGGA
M10336.1/2-117          AUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACCAAUUUUUUGAGGCC
M10270.1/1-117          AUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACCAAUUUUUUGAGGCC
AC004395.1/1698-1591    AUGGCCGUGGGCCACGCAAAAUAC-CCUACUACCU-AAUCUUUGGA-AUC
AL606646.3/46909-46786  AAUACCGUGUGCACGCUGCAAAUAGCAGCAUACUCUAAUUUUUUGAGGGG
#=GC SS_cons            >>>>...>>>>>>>>>>>......>>>>.................<.<<<

AP006390.1/45876-45755  UUCUuccaUUUgga..AGGAACCCU
M10336.1/2-117          UUGUc...UU-.....GGCAAGGCU
M10270.1/1-117          UUGU....CUUg....AGCAAGGCU
AC004395.1/1698-1591    AUCUa...UC-.....GACAUAGUC
AL606646.3/46909-46786  AUUUccuaUCUaaggaCAAACCCCA
#=GC SS_cons            <<<...............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln9.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln9.fa

AL606646.3/45589-45467  AGCUGC-GCAGUGGGCACA............AAGCGAA.CUAUUCUUUCG
Z11883.1/951-832        AGCCAC-GCAGUGAGCACA............GAACGAA.CAGUUCUUUUG
Z68342.1/21317-21195    CAACUCUGGUUCCUCUGCAuuu.........AACCGUG.AAAAUCUUUCG
X01693.1/1-111          AUCACA-GAACUCAGCUCA............AUACGCU.UUAAUUUUUCG
X51386.1/284-412        ACUAUC-GAGUUGUUAGUAgagggggguuauUAGGGUGgAAAAUCUUUUG
#=GC SS_cons            ..<<<<..<<<<<<<<<<<.....................<<<<<<<<..

AL606646.3/45589-45467  CCUUUUACUAAAGAAUACCG.UGUGCUCGCUGC.AAUUA.GCAGCAUACU
Z11883.1/951-832        CCUUUUACUAAAGAAUACCCaUGUGCACUCUGC.AAAUA.GUGGGUUAUG
Z68342.1/21317-21195    CCUUUUACUAAAGAUUUCCG.UGCAAAGGAGCA.UACAUuGAGUAUUAUA
X01693.1/1-111          CCUUUUACUAAAGAUUACCG.UGGGCUGGGUUC.UACAA.UGUGAAUUAU
X51386.1/284-412        CCUUUUACUGAAUAUUUCCU.UGCAAAGGAGCAuACAUU.GAGUAUUAUA
#=GC SS_cons            .........>>>>>>>>....>>>>>>>>>>>........>>>>......

AL606646.3/45589-45467  CA.AAUUUUUUGAGGGGAUUUccaggaUUUgg.AGAACCCCA
Z11883.1/951-832        CC.UAUUUUUGGAGGGGUUCUc.....UCUauuGAGUGCCCC
Z68342.1/21317-21195    UAcAAUUUUUGGA-GUCCCCUu.....GAGaa.AGCGGGACA
X01693.1/1-111          UA.AAAUUUUUGA-GGAUU--......GUGu..GA--AUCCU
X51386.1/284-412        UAcAAUUUUUGGAGUCCCCUU......GA-...GAAAGCGGA
#=GC SS_cons            ............<.<<<<<<...............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln10.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln10.fa

U19467.1/274-143          AUAUUCUGCUUC-UCUUUC...UAUCAUAUAAAUCUUUCACCUUUUAC
AC113608.3/77837-77953    AUGCUCUAGUUUCUCUUCA...GAUCAUAUAAAUCUUUUGCCUUUUAC
AC084158.1/171270-171148  CAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
M23820.1/5-119            AUACUCUGGUUUCUCUUCA...GAUCGCAUAAAUCUUUCCCCUUUCAN
AF003148.2/24894-25016    CAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
#=GC SS_cons              ..<<<<..<<<<<<<<<<<...........<<<<<<<<..........

U19467.1/274-143          UAAAAAUUUCUGUGGAGAAGAAUAAUUCU.GAGUUCAAGAGGgagaug
AC113608.3/77837-77953    UAAAGAGUCCCAUGGAGAGGAACACCUCA.GACUUUUUAAACu.....
AC084158.1/171270-171148  UAAAGAUUUCCGUGCAAAGGAGCAUACAUuGAGUAUUAUACAc.....
M23820.1/5-119            CAAAGAUUUCCGUGGAGAGGAACAACUCU.GAGUCUUAACCC......
AF003148.2/24894-25016    UAAAGAUUUCCGUGCAAAGGAGCAUACAUuGAGUAUUACUUAg.....
#=GC SS_cons              .>>>>>>>>...>>>>>>>>>>>.......>>>>..............

U19467.1/274-143          auacauguauAAUUAUGGUU-GAUUUGUuUUGu...UAUACAUCA
AC113608.3/77837-77953    ..........AAUUUUUUGAGGUCUCGCuUU-....AGCAGGGCU
AC084158.1/171270-171148  ..........AAAUUUUGGA-GUCCCC-.UCGgaagAGCGGGACA
M23820.1/5-119            ..........AAUUUUUUGA-GCCUUGCcUU-....GGCAAGGCU
AF003148.2/24894-25016    ..........AAUUUUUGGA-GCCUUC-.UCGaaagAGCAAGGCA
#=GC SS_cons              ...................<.<<<<<<...........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln11.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln11.fa

M77838.1/1-102             NNGCUCUGGUUUCUCUUCA.AAUCGUAUAAAUCUUUCGCCUUUUACU
AL353701.15/102741-102841  AUGCUCUGGUUUCUCUUCA.AAUCGUAUAAAUCUUUCGCCUUUUACU
K02357.1/4-122             AGCCAU-GUGAUAAGUGCA.AAGCGAACUA-UCUUUCGCCUUUUACU
X01692.1/1-115             AUACUCUGGUUUCUCUUCA.GAUCGUAUAAAUCUUUCGCCUUUUACU
AF529186.1/1009-895        -AACUCUGGCAUCUCCUCAcUUGCGGACAAAUCUUUCGCCUUUUACU
#=GC SS_cons               ..<<<<..<<<<<<<<<<<.........<<<<<<<<...........

M77838.1/1-102             AAAGAUUUCCGUGGAGAGAAACC..GUUUUGAGUUUCUAGCU.AAUU
AL353701.15/102741-102841  AAAGAUUUCUGUGGAGA--AUCC..----UGGGUUCUUCUCC.AGGC
K02357.1/4-122             AAAGAAUACUGUGUACGUGUCAC..AAGCGGUGGCAUACGAGuAAUU
X01692.1/1-115             AAAGAUUUCCGUGGAGAGGAACA..ACCACGAGUGUCGUGG-.AAUU
AF529186.1/1009-895        AAAGAUUUCCGUGUGGAGGUGCAgcACAAUGAGUCUAUAGAGuCAUU
#=GC SS_cons               >>>>>>>>...>>>>>>>>>>>........>>>>.............

M77838.1/1-102             UUUUGA.AG------.CC-...-------CU
AL353701.15/102741-102841  UUCGU-.-GACAU--.UC-...----AGUCA
K02357.1/4-122             UUUGAA.UGAGUUCUcUUGuuaGAGAACUCU
X01692.1/1-115             UUUUGA.GGCUCCGCuUC-...GACGGAGCU
AF529186.1/1009-895        UUUGCAcUGCCCCG-.---...-ACGCGGCU
#=GC SS_cons               .....<..<<<<<<..........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln12.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln12.fa

Z14994.1/381-501          AGCUGC-GCAGUGGGCACA...AAGCGAACUAUUCUUUCGCCUUUUAC
X15934.1/3-121            AGCCGU-GUGAUGAUGACA...UAGCGAACUAUUCUUUCGCCUUUUAC
AC084765.9/80999-80876    AGCUGC-GCGGUGAGCACA...GAGCGAACUAUUCUUUCGCCUUUUAC
AC084158.1/171270-171148  CAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
AL163832.1/10814-10694    AGCCAU-GUGGUGAGCACA...AAGCGAACUAUUCUUUCGCCUUUUAC
#=GC SS_cons              ..<<<<..<<<<<<<<<<<...........<<<<<<<<..........

Z14994.1/381-501          UAAAGAAUACCGUGUGCCCGCUGCAAUAA.GCAGCAUACGCU.UAUUU
X15934.1/3-121            UAAAGAAUACCGUGUCAGCGUCACAAUUA.GCGGCAUACGCU.AGUUU
AC084765.9/80999-80876    UAAAGAAUACCGUGUGCGCGCCGCAAUUA.GCAGCAUACGCU.AAUUU
AC084158.1/171270-171148  UAAAGAUUUCCGUGCAAAGGAGCAUACAUuGAGUAUUAUACAcAAAUU
AL163832.1/10814-10694    UAAAGAAUACCGUGUGCUCUCCACGCUAA.GUGGCAUACGCC.UAUUU
#=GC SS_cons              .>>>>>>>>...>>>>>>>>>>>.......>>>>..............

Z14994.1/381-501          UUGGA-GGGUCCUcuca..UUUgug..AGAAGCCCA
X15934.1/3-121            UUGGAAGAGUUCUcaau..UUUg....AGG-GCUCU
AC084765.9/80999-80876    UUGGA-GGGAACCgacucuUUUgagg.AGGUCCCCA
AC084158.1/171270-171148  UUGGA-GUCCCC-......UCGgaag.AGCGGGACA
AL163832.1/10814-10694    UUGGAGGGAUCUCa.....CUUcacagUGGGACCCA
#=GC SS_cons              ....<.<<<<<<.................>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln13.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln13.fa

AC068303.10/12902-12788  -AACUCUUGUUUCUCUUCA...GAUCAUGUAAAUCUUUCGCCUUUUAUU
AC097725.2/33800-33915   --ACUCUGGUUUCUCUUCAau.UGUCGAAUAAAUCUUUCGCCUUUUACU
X15934.1/3-121           AGCCGU-GUGAUGAUGACA...UAGCGAACUAUUCUUUCGCCUUUUACU
AC000104.1/17376-17496   AGCCAU-GUGGUGAGCACA...UAGCGAACUAUUCUUUCGCCUUUUACU
AL023594.2/7651-7766     GUCAAA-GCACUUUGCAAAagcUAACGUAUCUGUUUCUUGCCUUUUACC
#=GC SS_cons             ..<<<<..<<<<<<<<<<<...........<<<<<<<<...........

AC068303.10/12902-12788  AAAGAUUUCCAUGGGGAGGAACA.GUUAU.GAGUCUUUAUCCAAUUUCU
AC097725.2/33800-33915   AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAAAU-AAUUUUU
X15934.1/3-121           AAAGAAUACCGUGUCAGCGUCAC.AAUUA.GCGGCAUACGCUAGUUUUU
AC000104.1/17376-17496   AAAGAAUACCGUGUGCUCUCCAC.GCUAA.GUGGCAUACGCCUAUUUUU
AL023594.2/7651-7766     AGAAACAGCCGUUUGUAAGGUGU.GCUAA.UUUGACUGUAU-AGUUUUU
#=GC SS_cons             >>>>>>>>...>>>>>>>>>>>........>>>>...............

AC068303.10/12902-12788  GAG-GCCUCGUg...UUU....CACCAGGCU
AC097725.2/33800-33915   AGUAGUGCCCU....GU-....CGCAAGACU
X15934.1/3-121           GGAAGAGUUCUcaauUUUg...AGG-GCUCU
AC000104.1/17376-17496   GGAGGGUUCCCac..UUUacugUGGGUCCCA
AL023594.2/7651-7766     GUA-AUCUUUUu...CUU....-GAAACAUU
#=GC SS_cons             ..<.<<<<<<..............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln14.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln14.fa

AB025639.1/12744-12628   AG.CCGU-GUGGUGAGCACA..AAG.CGAACUAUUCUUUCGCCUUUUAC
X06020.1/401-516         AU.ACUCUGGUUUCUCUUCA..AAUuCGAAUAAAUCUUUCGCCUUUUAC
AC010707.16/95419-95302  AUcACUCUGGUUUCUCUUCAauUGU.CGAAUAAAUCUUUCGCCUUUUAC
AC068213.7/527-412       AU.ACUCUGGUUUCUCUUCA..GAU.CGCAUAAAUCUUUCGCCUUUUAC
AL606646.3/46909-46786   AG.CUGC-GCAGUGGGCACA..AAG.CGAACUAUUCUUUCGCCUUUUAC
#=GC SS_cons             ...<<<<..<<<<<<<<<<<...........<<<<<<<<..........

AB025639.1/12744-12628   UAAAGAAUACCGUGUGCUCUCCAC.UUCAA.ACGGCAUACACCUAUUUU
X06020.1/401-516         UAAAGAUUUCCGUGGAGAGGAACG.ACCAU.GAGUUUCGUUC-AAUUUU
AC010707.16/95419-95302  UAAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACACAAUUUU
AC068213.7/527-412       UAAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAACCCAAUUUU
AL606646.3/46909-46786   UAAAGAAUACCGUGUGCACGCUGC.AAAUA.GCAGCAUACUCUAAUUUU
#=GC SS_cons             .>>>>>>>>...>>>>>>>>>>>........>>>>..............

AB025639.1/12744-12628   UGGAggagUAACUUCU....UCU.....--GAAGUUU
X06020.1/401-516         UUGA....AGCCUGGUu...CA-.....CACCAGGUA
AC010707.16/95419-95302  UUAU....UGAGGCCU....---.....GAUAACUUA
AC068213.7/527-412       UUGA....GGCCUUGCu...UU-.....GGCAAGGCU
AL606646.3/46909-46786   UUGA....GGGGAUUUccuaUCUaaggaCAAACCCCA
#=GC SS_cons             ...<.....<<<<<<...............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln15.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln15.fa

AC002396.1/4523-4407    AGCCAU-GUAGUGAGCACA..AAGCGAACUA.UUCUUUCGCCUUUUACUA
AC097725.2/33800-33915  --ACUCUGGUUUCUCUUCAauUGUCGAAUAA.AUCUUUCGCCUUUUACUA
X13012.1/682-801        AGCCAU-GUGGUGAGUACA..AAGCGAACUAuUUCUUUCGCCUUUUACUA
AC068213.7/527-412      AUACUCUGGUUUCUCUUCA..GAUCGCAUAA.AUCUUUCGCCUUUUACUA
X15934.1/3-121          AGCCGU-GUGAUGAUGACA..UAGCGAACUA.UUCUUUCGCCUUUUACUA
#=GC SS_cons            ..<<<<..<<<<<<<<<<<..........<<.<<<<<<...........>

AC002396.1/4523-4407    AAGAAUACCGUGUGCUCUCCAC.GCUAA.GUGGCAUACGCCUAUUUUUGG
AC097725.2/33800-33915  AAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAAAU-AAUUUUUAG
X13012.1/682-801        AAGAAUACCGUGUGCUCUCGAC.GCUAA.GUGCAUACGCC-UAUUUUUGG
AC068213.7/527-412      AAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAACCCAAUUUUUUG
X15934.1/3-121          AAGAAUACCGUGUCAGCGUCAC.AAUUA.GCGGCAUACGCUAGUUUUUGG
#=GC SS_cons            >>>>>>>...>>>>>>>>>>>........>>>>.................

AC002396.1/4523-4407    AGGGAUCUGc...CUUcGGGUAGACU
AC097725.2/33800-33915  UAGUGCCCU....GU-.CGCAAGACU
X13012.1/682-801        AGGGCUCCAcuucUCUgUGGAACCCA
AC068213.7/527-412      AGGCCUUGCu...UU-.GGCAAGGCU
X15934.1/3-121          AAGAGUUCUcaauUUUgAGG-GCUCU
#=GC SS_cons            <.<<<<<<...........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln16.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln16.fa

AC007202.3/14338-14454    AGCCGU-GUGGUGAAUACAAAGCGAACUAUUCUUUCGCCUUUUACUAA
M77839.1/1-120            NNACUCUGGUUUCUCUUCAAAUCGUAUAAAUCUUUCGCCUUUUACUAA
AC006287.1/102148-102034  AUUCUCCAGUUUCUUUUCAGAUCAGAUAAAUUUUUCUCCUUUUACUAA
AL138766.10/46864-46746   AUACUGUGGUUUCUCUUCAGAUUGUAUGAAUCGUUUGCCUUUUACUAA
AB018115.1/5753-5643      AGCCGA-GCAGUGAAGACAAAGCGAGCUAUUCUUUCGCCUUUUACUAA
#=GC SS_cons              ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>

AC007202.3/14338-14454    AGAAUACCGUGUGUUCUCCAC.GCUAAACGGCAUACACC......AAU
M77839.1/1-120            AGAUUUCCGUGGAGAGAAACG.AGUGUGAGUCUGAAACC......AAU
AC006287.1/102148-102034  UGAUUUUCAUGAAGAGGAACA.ACUCUGAGUCUUAAAUC......AAU
AL138766.10/46864-46746   AGAUUUCCAUGGAGAGGAACA.ACUCUGAAUACCAUGCAggacauAGG
AB018115.1/5753-5643      AGAAUACCGUGUCUUCUCUGCaUUUAAUCGGCAUACGCC......UAU
#=GC SS_cons              >>>>>>...>>>>>>>>>>>.......>>>>.................

AC007202.3/14338-14454    UUUUGGAggagUAACUUCA...UCU.--GAAGUUU
M77839.1/1-120            UUUUUGA....GGCCUUGCguuUUUuAGCAGGGCU
AC006287.1/102148-102034  UUUUGAG....-GCCUUAUu..UU-.GGCAAGGGU
AL138766.10/46864-46746   CAUGGGC....AAAGAC--...UU-.CAUGUCUAA
AB018115.1/5753-5643      UUUUGGA....AAGGUU--...UAUu----ACCAA
#=GC SS_cons              ......<.....<<<<<<..........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln17.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln17.fa

AL021155.1/93666-93785  AUACUCUGGUUUCUCUUCA..AAUCGUAUAAAUCUUUCGCCUUUUACUAA
AL163832.1/10814-10694  AGCCAU-GUGGUGAGCACA..AAGCGAACUAUUCUUUCGCCUUUUACUAA
AE003414.1/48847-48723  --ACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACUAA
AC113608.3/77837-77953  AUGCUCUAGUUUCUCUUCA..GAUCAUAUAAAUCUUUUGCCUUUUACUAA
AC068213.7/527-412      AUACUCUGGUUUCUCUUCA..GAUCGCAUAAAUCUUUCGCCUUUUACUAA
#=GC SS_cons            ..<<<<..<<<<<<<<<<<..........<<<<<<<<...........>>

AL021155.1/93666-93785  AGAUUUCCGUGGAGAGAAACG.AGUGU.GAGUCUGAAACC.AAUUUUUUG
AL163832.1/10814-10694  AGAAUACCGUGUGCUCUCCAC.GCUAA.GUGGCAUACGCC.UAUUUUUGG
AE003414.1/48847-48723  AGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAAAUAuUAUUUUGUA
AC113608.3/77837-77953  AGAGUCCCAUGGAGAGGAACA.CCUCA.GACUUUUUAAACuAAUUUUUUG
AC068213.7/527-412      AGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAACCC.AAUUUUUUG
#=GC SS_cons            >>>>>>...>>>>>>>>>>>........>>>>..................

AL021155.1/93666-93785  AGGCCUUGCg..UUUcuu..AGCAGGGCU
AL163832.1/10814-10694  AGGGAUCUCa..CUUcacagUGGGACCCA
AE003414.1/48847-48723  GUGCCCGGCgacUUUggu..AACUGGGCC
AC113608.3/77837-77953  AGGUCUCGCu..UU-.....AGCAGGGCU
AC068213.7/527-412      AGGCCUUGCu..UU-.....GGCAAGGCU
#=GC SS_cons            <.<<<<<<..............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln18.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln18.fa

AJ524412.1/158-42         AGCCGU-GCAAUAAGCACA...UAGCGAACUAUUCUUUCGCCUUUUAC
U40799.2/31529-31651      CAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
Z70270.1/4420-4302        -UUCUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCAUUUUAC
AC090772.9/131969-132084  AUACUCCAGUUACCCUUCA...GAUCAUAUAUAUCUUUCACCUUUUGC
AC011238.8/17195-17301    AUACUCUGGUUUCUCUUCA...GAUCAUAUAAAUCUUUUGCCUUUUAC
#=GC SS_cons              ..<<<<..<<<<<<<<<<<...........<<<<<<<<..........

AJ524412.1/158-42         UAAAGAAUACCGUGUGCUUGUCGUACCAU.GCGGCAUACGCC.UAUUU
U40799.2/31529-31651      UAAAGAUUUCCGUGCAAAGGAGCAUUUACuGAGUAUUACAUAcAAUUU
Z70270.1/4420-4302        UAAAGAUUUCCGUGCUAAGGAGCAUACAUuGAGUAUUAUAUAcAAUUU
AC090772.9/131969-132084  UAAAGAUUUCCAUGAAGGGGAACCACUCU.GAGUCUUAACCC.AAUUU
AC011238.8/17195-17301    UGAAGAUUUCCGUGGAGGGAA--------.CAGUCUUUACCC.AAUUU
#=GC SS_cons              .>>>>>>>>...>>>>>>>>>>>.......>>>>..............

AJ524412.1/158-42         UUGGA-GGGUUGUcUCUuaCUGAGACUA
U40799.2/31529-31651      UUGGA-GACUCCUuGAGaaAGCGGGUCA
Z70270.1/4420-4302        UUGGAGUUCCUU-.GAG..AAAACGAGA
AC090772.9/131969-132084  UUUGAGGCCCUGUaUCU..-GCAGGACU
AC011238.8/17195-17301    UUUGAGGCCUCUUgUUU..--AAGGAUU
#=GC SS_cons              ....<.<<<<<<.........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln19.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln19.fa

AC139354.5/49090-48982   AGCCGU-GUGAUGAUCACA...UAGCGAACUAUUCUUUCGCCUUUUACU
AC121233.13/19856-19974  AGCCGU-GUGAUGAUCACA...UAGCGAACUAUUCUUUCGCCUUUUACU
X15935.1/3-121           AGCCAU-GUGAUAAGUACA...AAGCGAACUAUUCUUUCGCCUUUUACU
AC002062.1/32951-32833   AGCCAU-GUGGUGAGCACA...AAGCGAACUAUUCUUUCGCCUUUUACU
Z68215.1/31924-32045     -AACUCUGGUUCCUCUGCAuuuAACCAUGAAAAUCUUUCGCCUUUUACU
#=GC SS_cons             ..<<<<..<<<<<<<<<<<...........<<<<<<<<...........

AC139354.5/49090-48982   AAAGAAUACCGUGUGAGCGUUACAAUUA.GCGGCAUACGCU.AGUUUUU
AC121233.13/19856-19974  AAAGAAUACCGUGUGAGCGUCACAAUUA.GCGGCAUACGCU.AGUUUUU
X15935.1/3-121           AAAGAAUACCGUGUACUUUUCACUAACA.GUGGCAUACGAU.AAUUUUU
AC002062.1/32951-32833   AAAGAAUACCGUGUGCUCUCCACGCUAA.GUGGCAUACGCC.UAUUUUU
Z68215.1/31924-32045     AAAGAUUUCCGUGCAAAGGAGCAUACAUuGAGUAUUGUAUAcAAUUUUU
#=GC SS_cons             >>>>>>>>...>>>>>>>>>>>.......>>>>................

AC139354.5/49090-48982   GGAAGAGU---...UC-...GG--GCUCU
AC121233.13/19856-19974  GGAAGAGUCUUc..UUUauuGAGGGCUCU
X15935.1/3-121           GAAUGAGCUCUcauGUUu..GAGAGCUCU
AC002062.1/32951-32833   GGA-GGGUCCUgc.UUUcgaGUGGGCCCA
Z68215.1/31924-32045     GGA-GUCCCCUu..GAGaa.AGCGGGACA
#=GC SS_cons             ..<.<<<<<<............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln20.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln20.fa

AP001021.5/117483-117367  AAGCUCUGGUUUCUUGUCA.GAACGACUACAUCUUUCACCUUUUACUA
AF529186.1/1009-895       -AACUCUGGCAUCUCCUCAcUUGCGGACAAAUCUUUCGCCUUUUACUA
AC084765.9/80999-80876    AGCUGC-GCGGUGAGCACA.GAGCGAACUAUUCUUUCGCCUUUUACUA
AC120537.6/31230-31353    AGCUGC-GCGGUGAGCACA.AAGCGAACUAUUCUUUCGCCUUUUACUA
AC007202.3/14338-14454    AGCCGU-GUGGUGAAUACA.AAGCGAACUAUUCUUUCGCCUUUUACUA
#=GC SS_cons              ..<<<<..<<<<<<<<<<<.........<<<<<<<<...........>

AP001021.5/117483-117367  AAGAUUCCCAUGGAGAGGGACA..GUUGUGAGUuCAUAACCA.AACUU
AF529186.1/1009-895       AAGAUUUCCGUGUGGAGGUGCAgcACAAUGAGU.CUAUAGAGuCAUUU
AC084765.9/80999-80876    AAGAAUACCGUGUGCGCGCCGC..AAUUAGCAG.CAUACGCU.AAUUU
AC120537.6/31230-31353    AAGAAUACCGUGUGCGCGCCGC..AAUUAGCAG.CAUACGCU.AAUUU
AC007202.3/14338-14454    AAGAAUACCGUGUGUUCUCCAC..GCUAAACGG.CAUACACC.AAUUU
#=GC SS_cons              >>>>>>>...>>>>>>>>>>>........>>>>...............

AP001021.5/117483-117367  UUUAA....GGCCUUG-......CUUa...GGCAGGGCU
AF529186.1/1009-895       UUGCAc...UGCCCCG-......---....-ACGCGGCU
AC084765.9/80999-80876    UUGGA....-GGGAACCgacucuUUUgaggAGGUCCCCA
AC120537.6/31230-31353    UUGGA....-GGGAACCgacucuUCUgaggAGGUACCCA
AC007202.3/14338-14454    UUGGAggagUAACUUCA......UCU....--GAAGUUU
#=GC SS_cons              ....<.....<<<<<<................>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln21.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln21.fa

AL590450.1/114087-114198  CACCCCUGgCCGCCUCGCCGAUAAGUACGAGUCUUUUGCCUUUUACUG
AC006287.1/102148-102034  AUUCUCCA.GUUUCUUUUCAGAUCAGAUAAAUUUUUCUCCUUUUACUA
AC121233.13/19856-19974   AGCCGU-G.UGAUGAUCACAUAGCGAACUAUUCUUUCGCCUUUUACUA
AC124037.5/120725-120840  AUACUCUG.GUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUA
AL359543.13/42140-42256   -AUCCU-G.GUUUCUCUUCAGAUCAUAUAAAUCUUGUGACUUUUACGA
#=GC SS_cons              ..<<<<...<<<<<<<<<<<........<<<<<<<<...........>

AL590450.1/114087-114198  AAGACUCCCAUGGCCAGGCAGUA----GUGCCCACCAC-AAUUUUUGG
AC006287.1/102148-102034  AUGAUUUUCAUGAAGAGGAACAACUCUGAGUCUUAAAUCAAUUUUUGA
AC121233.13/19856-19974   AAGAAUACCGUGUGAGCGUCACAAUUAGCGGCAUACGCUAGUUUUUGG
AC124037.5/120725-120840  AAGAUUUCCGUGGAGAGGAACAAAUCUGAGUCUUAACCCAAUUUUUUG
AL359543.13/42140-42256   AAGAUUCCCAUGAAGAGGAACAACUCUGAGACUUAAACCAAUUUUUCA
#=GC SS_cons              >>>>>>>...>>>>>>>>>>>......>>>>.................

AL590450.1/114087-114198  A-AUGCUGAc..UAGcu.--CAGCUUA
AC006287.1/102148-102034  G-GCCUUAUu..UU-...GGCAAGGGU
AC121233.13/19856-19974   AAGAGUCUUc..UUUauuGAGGGCUCU
AC124037.5/120725-120840  AGGUCUUGUg..CUU...-ACAAGACU
AL359543.13/42140-42256   --GCCUUGGugcUUUgu.AUAAAGGAU
#=GC SS_cons              <.<<<<<<............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln22.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln22.fa

X00277.1/3-121             AGCCGU-GUGAUGAUGACA...UAGCGAACUA-UCUUUCGCCUUUUA
AC112161.9/43555-43670     AUACUCUGGUUUCUCUUCA...GAUCGUAUAAAUCUUUCGCCUUUUA
AC113608.3/77837-77953     AUGCUCUAGUUUCUCUUCA...GAUCAUAUAAAUCUUUUGCCUUUUA
AC022080.37/144604-144490  AUACUCUGGUUUCUCUUCA...GAUCGUAUACGUCUUUUGUCUUUUA
Z70270.1/5918-5797         -AACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUA
#=GC SS_cons               ..<<<<..<<<<<<<<<<<...........<<<<<<<<.........

X00277.1/3-121             CUAAAGAAUACUGUGUCAGCGUCACAAUUA.GCGGCAUACGCU.AGU
AC112161.9/43555-43670     CUAAAGAUUUCCGUGGAGAGGAACAACUCU.GAGUCUUAAACC.AAU
AC113608.3/77837-77953     CUAAAGAGUCCCAUGGAGAGGAACACCUCA.GACUUUUUAAACuAAU
AC022080.37/144604-144490  CUAAAGAUUUCCGUGGAAGGGAACAAUUCU.GAGUUUUUGACU.AAG
Z70270.1/5918-5797         CUAAAGAUUUCCGUGCAAAGGAGCAUACAUuGAGUAUUAUAUAuAAU
#=GC SS_cons               ..>>>>>>>>...>>>>>>>>>>>.......>>>>............

X00277.1/3-121             UUUUGGAAGAGUUCUcaaguUUUg.AGG-GCUCU
AC112161.9/43555-43670     UUUUUGAGGCCUUGUu....UC-..GACAAGGCU
AC113608.3/77837-77953     UUUUUGAGGUCUCGCu....UU-..AGCAGGGCU
AC022080.37/144604-144490  UUUUGUU-UUGUUUUg....UUU..-GAGACGGA
Z70270.1/5918-5797         UUUUGGA-GUCCCCUu....GAGaaAGCGGGACA
#=GC SS_cons               ......<.<<<<<<.............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln23.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln23.fa

AL122004.17/100235-100120  AUGCUCUGGUUUCUCUUCAAAUCGUAUAAAUCUUUC.GCCUUUUACU
AL163792.1/27348-27227     AGCCGU-GCAAUAAGCACAUAGCGAACUAUUCUUUC.GCCUUUUACU
AC121754.6/24234-24123     AUACUCUGGCUUCUCUUCAGAUCAUAUAAAUCUUUC.ACCUUUUACU
AC004819.2/50140-50024     AUGCUCUGGUUUCUCUUCAUAAUGAAUAAAUCUUUUuGCCUUUUACU
AL606646.3/45589-45467     AGCUGC-GCAGUGGGCACAAAGCGAACUAUUCUUUC.GCCUUUUACU
#=GC SS_cons               ..<<<<..<<<<<<<<<<<........<<<<<<<<............

AL122004.17/100235-100120  AAAGAUUUCCGUGGAGAGAAACCGUUUU...GAGUUUCAAGCAAAUU
AL163792.1/27348-27227     AAAGAAUACCGUGUGCUUGUCGUACCAA...GCGGCAUACGCCUAUU
AC121754.6/24234-24123     AAAGAUUUCCAUGGAGAGGAACACCUCU...GAGUCUUAAGAUACCA
AC004819.2/50140-50024     AAAGAUUUCCGUGGAGAGUUGAGGCCUUgcuUAGGCAGGGGUAAAUA
AL606646.3/45589-45467     AAAGAAUACCGUGUGCUCGCUGCAAUUA...GCAGCAUACUCAAAUU
#=GC SS_cons               >>>>>>>>...>>>>>>>>>>>.........>>>>............

AL122004.17/100235-100120  UUUUGAAGCCCUAUg.....UU-.......GGUGGGGUU
AL163792.1/27348-27227     UUUGGA-GGGUUGUc.....UCUuacugagAUUAACUCU
AC121754.6/24234-24123     UCUCAU-GCCAGUU......---.......AGAAUGGCG
AC004819.2/50140-50024     UGAGA--AAGAAAA......AA-.......AAAGUCUUA
AL606646.3/45589-45467     UUUUGAGGGGAUUUccaggaUUUgg.....AGAACCCCA
#=GC SS_cons               .....<.<<<<<<...................>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln24.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln24.fa

AB018115.1/5753-5643      AGCCGA-GCAGUGAAGACAAAGCGAGCUAUUCUUUCGCCUUUUACUAA
AC090772.9/131969-132084  AUACUCCAGUUACCCUUCAGAUCAUAUAUAUCUUUCACCUUUUGCUAA
AK060566.1/5-125          AGCUGC-GCGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAA
X15934.1/3-121            AGCCGU-GUGAUGAUGACAUAGCGAACUAUUCUUUCGCCUUUUACUAA
AP006390.1/45876-45755    AGCCUC-GCAUGAAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAA
#=GC SS_cons              ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>

AB018115.1/5753-5643      AGAAUACCGUGUCUUCUCUGCaUUUAAUCGGCAUACGCCUAUUUUUGG
AC090772.9/131969-132084  AGAUUUCCAUGAAGGGGAACC.ACUCUGAGUCUUAACCCAAUUUUUUG
AK060566.1/5-125          AGAAUACCGUGUGCGCGCCGC.AAUUAGCAGCAUACGCUAAUUUUUGG
X15934.1/3-121            AGAAUACCGUGUCAGCGUCAC.AAUUAGCGGCAUACGCUAGUUUUUGG
AP006390.1/45876-45755    AGAAUACCGUGUGCUUGUUGC.AACAAGAGGCAUACGCCAUUUUUUGA
#=GC SS_cons              >>>>>>...>>>>>>>>>>>.......>>>>.................

AB018115.1/5753-5643      A...AAGGUU--....UAUu..----ACCAA
AC090772.9/131969-132084  A...GGCCCUGUa...UCU...-GCAGGACU
AK060566.1/5-125          AgggAACCGACUcu..UCUg..AGGAGGGAA
X15934.1/3-121            A...AGAGUUCUcaauUUUg..AGG-GCUCU
AP006390.1/45876-45755    A...GGGAUUCUuccaUUUggaAGGAACCCU
#=GC SS_cons              <....<<<<<<.............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln25.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln25.fa

X00279.1/3-119            AGCCGU-GUGAUGAACACAAAGCGAACUA-UCUUUCGCCUUUUACUAA
X74440.1/2-120            CACGCG-GCUUUCUCGGCAGAUCGAAUUAUUCUUUCGCCUUUUACUAA
X04215.1/1-115            AUACUCUGGUUUCUCUUCAGAUCGCAUAAAUCUUUCGCCUUUCAUCAA
AC011238.8/17195-17301    AUACUCUGGUUUCUCUUCAGAUCAUAUAAAUCUUUUGCCUUUUACUGA
AC097478.2/120798-120909  AUACUCUGAUUUCUCUUGAGGUC--AUAAAUCCUCUGCCUUUU--UAA
#=GC SS_cons              ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>

X00279.1/3-119            A.GAAUACUGUGUGUGCGUCACUAAAAGGCGCAUACGCCu..AAUUUU
X74440.1/2-120            A.GAAUACCGUGUCGGGGAUGCAUAUUUGCGUCUUUUGAucgAAUUUU
X04215.1/1-115            A.GAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAACCC...AAUUUU
AC011238.8/17195-17301    A.GAUUUCCGUGGAGGGAA--------CAGUCUUUACCC...AAUUUU
AC097478.2/120798-120909  GaGAUCUAUGUGGAGAGGAACAACUCUGGGUCUUAAACG...AAUUAU
#=GC SS_cons              >.>>>>>...>>>>>>>>>>>......>>>>.................

X00279.1/3-119            UGAAAGAGUUCUcUUUuGAGAGCUCU
X74440.1/2-120            UUGCGGCCACUC.UUUaUGAGUGGCU
X04215.1/1-115            UUGA-GCCUUGCcUU-.GGCAAGGCU
AC011238.8/17195-17301    UUGAGGCCUCUUgUUU.--AAGGAUU
AC097478.2/120798-120909  UGAG-GUCUUGUuUU-.GGAAAGGCU
#=GC SS_cons              ...<.<<<<<<........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln26.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln26.fa

AP001021.5/117483-117367   AAGCUCUGGUUUCUUGUCA..GAACGACUACAUCUUUCACCUUUUAC
AC022080.37/144604-144490  AUACUCUGGUUUCUCUUCA..GAUCGUAUACGUCUUUUGUCUUUUAC
M77838.1/1-102             NNGCUCUGGUUUCUCUUCA..AAUCGUAUAAAUCUUUCGCCUUUUAC
AC097725.2/33800-33915     --ACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUAC
X58841.1/1-113             AUCACA-GAACUCAGCUCA..UUACGCUUUAAUUUUUCGCCUUUUAC
#=GC SS_cons               ..<<<<..<<<<<<<<<<<..........<<<<<<<<..........

AP001021.5/117483-117367   UAAAGAUUCCCAUGGAGAGGGACA.GUUGU.GAGUuCAUAACCA.AA
AC022080.37/144604-144490  UAAAGAUUUCCGUGGAAGGGAACA.AUUCU.GAGU.UUUUGACU.AA
M77838.1/1-102             UAAAGAUUUCCGUGGAGAGAAACC.GUUUU.GAGU.UUCUAGCU.AA
AC097725.2/33800-33915     UAAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGU.CUAAAAU-.AA
X58841.1/1-113             UAAAGAUUACCGUGGGCUGGGUUU.ACCAA.UGUG.AAUUAUUAaAA
#=GC SS_cons               .>>>>>>>>...>>>>>>>>>>>........>>>>............

AP001021.5/117483-117367   CUUUUUAAGGCCUUG-.CUUaGGCAGGGCU
AC022080.37/144604-144490  GUUUUGUU-UUGUUUUgUUU.-GAGACGGA
M77838.1/1-102             UUUUUUGAAG------.CC-.-------CU
AC097725.2/33800-33915     UUUUUAGUAGUGCCCU.GU-.CGCAAGACU
X58841.1/1-113             UUUUUGCA-GGAUUCU.UUU.--GAAUCCU
#=GC SS_cons               .......<.<<<<<<........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln27.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln27.fa

AL606646.3/41942-41820  AGCUGC-GCAGUGGGCACA...GAGCGAACUAUUCUUUCGCCUUUUACUA
Z68342.1/21317-21195    CAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUACUA
AP006382.1/4379-4501    AGCCUC-GCAUUAAGCACA...AAGCGAACUAUUCUUUCGCCUUUUACUA
X01693.1/1-111          AUCACA-GAACUCAGCUCA...AUACGCUUUAAUUUUUCGCCUUUUACUA
X15504.1/128-242        GUCAAA-GCACUUUGCAAAagcUAACGUAUCUGUUUCUUGCCUUUUACCA
#=GC SS_cons            ..<<<<..<<<<<<<<<<<...........<<<<<<<<...........>

AL606646.3/41942-41820  AAGAAUACCGUGUGCUCGCUGCAAAUA.GCAGCAUACUCU.AAUUUUUUG
Z68342.1/21317-21195    AAGAUUUCCGUGCAAAGGAGCAUACAUuGAGUAUUAUAUAcAAUUUUUGG
AP006382.1/4379-4501    AAGAAUACCGUGUGCUUGUUGCAAUAA.AAGGCAGACGCU.AAUUUUUUG
X01693.1/1-111          AAGAUUACCGUGGGCUGGGUUCUACAA.UGUGAAUUAUUA.AAAUUUUUG
X15504.1/128-242        GAAACAGCCGUUUGUAAGGUGUGCUAA.UUUGACUGUAU-.AGUUUUUGA
#=GC SS_cons            >>>>>>>...>>>>>>>>>>>.......>>>>..................

AL606646.3/41942-41820  AGGGGAUUUucua.UAUaaggAGAACCCCA
Z68342.1/21317-21195    A-GUCCCCUu....GAGaa..AGCGGGACA
AP006382.1/4379-4501    AAGGGAUUCuuucaUUUgaa.AGGAACCCU
X01693.1/1-111          A-GGAUU--.....GUGu...GA--AUCCU
X15504.1/128-242        --AUCUUUUu....CUU....-GAAACAUU
#=GC SS_cons            <.<<<<<<...............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln28.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln28.fa

AC104165.2/128430-128313   AUACUCU........GAUUUCUCCUGAGAUCGUAUAAAUCGUUCACC
AL358176.22/177459-177582  AAACUUUauuuauauGCUCAUUCUUUAGAAUGAAUAAGUUUUUUGCC
AC009948.3/27597-27481     AUACUCU........GGAUUCUCUUCAGAUC--AUAUAUCUUUUGCC
AL163792.1/27348-27227     AGCCGU-........GCAAUAAGCACAUAGCGAACUAUUCUUUCGCC
AL606646.3/48018-47896     AGCUGC-........GCAGUGGGCACAAAGCGAACUAUUCUUUCGCC
#=GC SS_cons               ..<<<<..........<<<<<<<<<<<........<<<<<<<<....

AC104165.2/128430-128313   UUUUACUAAAGAUUUCUGUGGAAAGGAAUAUCU-UGACAGACAGGUG
AL358176.22/177459-177582  AUUUACUAGAAGUUUCCAUGGAGA-GGAACAGUGUGAGUUGAUAACC
AC009948.3/27597-27481     UUUUAUUAGA-AUUUCUAGAGAGAGGAUAAAUUAUGAGUUUGUAGCC
AL163792.1/27348-27227     UUUUACUAAAGAAUACCGUGUGCUUGUCGUACCAAGCGGCAUACGCC
AL606646.3/48018-47896     UUUUACUAAAGAAUACCGUGUGCUCGCUGCAAAUAGCAGCAUACUCU
#=GC SS_cons               .......>>>>>>>>...>>>>>>>>>>>......>>>>........

AC104165.2/128430-128313   .UAUGUCUGCAUUUGUCCUc.....UUGcu.....GGUGACCCC
AL358176.22/177459-177582  aAAUUUUUUGAGGUCUUG-......CUUa......GGCAGGGCU
AC009948.3/27597-27481     .AGUUUUUUCUUUGCUUUUuau...UUUu......GGCAGGGUU
AL163792.1/27348-27227     .UAUUUUUGGA-GGGUUGUc.....UCUuacugagAUUAACUCU
AL606646.3/48018-47896     .AAUUUUUUGAGGGGAUUUccagcaUUUgg.....AGAACCCCA
#=GC SS_cons               ..........<.<<<<<<...................>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln29.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln29.fa

M77840.1/1-117             NAUCUCUGGUUUCUCUUCAUAACGAAUAAAUCUUUUGCCUUUUACUA
AF484446.1/13348-13237     AUACUCCAGUUUCUCUUCAGAUCAUAUAAAUAUUUUGCCUUUUACUA
AC022080.37/144604-144490  AUACUCUGGUUUCUCUUCAGAUCGUAUACGUCUUUUGUCUUUUACUA
AC090772.9/131969-132084   AUACUCCAGUUACCCUUCAGAUCAUAUAUAUCUUUCACCUUUUGCUA
X58841.1/1-113             AUCACA-GAACUCAGCUCAUUACGCUUUAAUUUUUCGCCUUUUACUA
#=GC SS_cons               ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>

M77840.1/1-117             AAGAUUUCCGUGGAGAGAAACAACUAUGAGUUUAUGGUUaAAUUUUU
AF484446.1/13348-13237     AAGACUUCUAUAGAGAGGAACAGCUCUGAGUUUUU----.AAUAUUG
AC022080.37/144604-144490  AAGAUUUCCGUGGAAGGGAACAAUUCUGAGUUUUUGACU.AAGUUUU
AC090772.9/131969-132084   AAGAUUUCCAUGAAGGGGAACCACUCUGAGUCUUAACCC.AAUUUUU
X58841.1/1-113             AAGAUUACCGUGGGCUGGGUUUACCAAUGUGAAUUAUUAaAAUUUUU
#=GC SS_cons               >>>>>>>...>>>>>>>>>>>......>>>>................

M77840.1/1-117             UGAAGUCUUGCcUA-GGCAAGGCU
AF484446.1/13348-13237     UGAGACCUUGCgUU-GGCAGGGCU
AC022080.37/144604-144490  GUU-UUGUUUUgUUU-GAGACGGA
AC090772.9/131969-132084   UGAGGCCCUGUaUCU-GCAGGACU
X58841.1/1-113             GCA-GGAUUCU.UUU--GAAUCCU
#=GC SS_cons               ..<.<<<<<<.......>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln30.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln30.fa

Z69665.1/26624-26745      -AACACUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
AC068303.10/12902-12788   -AACUCUUGUUUCUCUUCA...GAUCAUGUAAAUCUUUCGCCUUUUAU
AC123596.12/58889-59002   AGCUGU-GUGUUGAUCACA...UAGUAAACUAUUCUUUUGCCUUUUAC
AC005719.2/126122-125996  --ACUCUGGUUUCUCUUCAau.UGUCGAAUAAAUCUUUCGCCUUUUAC
AF529186.1/1009-895       -AACUCUGGCAUCUCCUCAc..UUGCGGACAAAUCUUUCGCCUUUUAC
#=GC SS_cons              ..<<<<..<<<<<<<<<<<...........<<<<<<<<..........

Z69665.1/26624-26745      UAAAGAUUUCCGUGCAAAGGAGCA.uACGUU.GAGUAUUAUAUAc..A
AC068303.10/12902-12788   UAAAGAUUUCCAUGGGGAGGAACA..GUUAU.GAGUCUUUAUCC...A
AC123596.12/58889-59002   UAAAGAAUACCUUGUGAGUGUUAC..AAUUA.GCGGUAGGGCUCugcA
AC005719.2/126122-125996  UAAAGAUUUCCGUGGAGAGGAACA.cUCUAAuGAGUCUAAACAC...A
AF529186.1/1009-895       UAAAGAUUUCCGUGUGGAGGUGCAgcACAAU.GAGUCUAUAGAGu..C
#=GC SS_cons              .>>>>>>>>...>>>>>>>>>>>.........>>>>............

Z69665.1/26624-26745      AUUUUU..GGA.-GUCCCC-...UCGaaag.AGCGGGACA
AC068303.10/12902-12788   AUUUCU..GAG.-GCCUCGUg..UUU.....CACCAGGCU
AC123596.12/58889-59002   AUUUUA..GUU.CAAUAU--...UUUcc...----UAUUC
AC005719.2/126122-125996  AUUUUUauUGA.-GGCCUGAuaaCUUaugcuAUCGGGCCA
AF529186.1/1009-895       AUUUUU..GCAcUGCCCCG-...---.....-ACGCGGCU
#=GC SS_cons              ..........<..<<<<<<..............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln31.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln31.fa

X01693.1/1-111            AUCACA-GAACUCAGCUCA.AUACGCUUUAAUUUUUCGCCUUUUACUA
AL606646.3/48018-47896    AGCUGC-GCAGUGGGCACA.AAGCGAACUAUUCUUUCGCCUUUUACUA
AC105129.4/181079-180964  AUACUCUGGUUUCUCUUCA.GAUCGUAUAAAUCUUUCGCCUUUUACUA
K03164.1/1-115            AUACUCUGGUUUCUCUUCA.GAUCGUAUAAAUCUUUCGCCUUUUACUA
K03096.1/1-119            AUACUCUGGUUUCUCUUCAaUGUCGAAUAAAUCUUUCGCCUUUUACUA
#=GC SS_cons              ..<<<<..<<<<<<<<<<<.........<<<<<<<<...........>

X01693.1/1-111            AAGAUUACCGUGGGCUGGGUUC.UACAAUGUGAAUUAUUAAAAUUUUU
AL606646.3/48018-47896    AAGAAUACCGUGUGCUCGCUGC.AAAUAGCAGCAUACUCUAAUUUUUU
AC105129.4/181079-180964  AAGAUUUCCGUGGAGAGGAACA.ACUCUGAGUCUUAAGCUAAUUUUUU
K03164.1/1-115            AAGAUUUCCGUGGAGAGGAACA.ACCACGAGUGUCGUGG-AAUUUUUU
K03096.1/1-119            AAGAUUUCCGUGGAGAGGAACAcUCUAAGAGUCUAAAACUAAUUUUUU
#=GC SS_cons              >>>>>>>...>>>>>>>>>>>.......>>>>................

X01693.1/1-111            GA-GGAUU--......GUGu.GA--AUCCU
AL606646.3/48018-47896    GAGGGGAUUUccagcaUUUggAGAACCCCA
AC105129.4/181079-180964  GAGGCCUUGUu.....CC-..GACAAGGCU
K03164.1/1-115            GAGGCUCCGCu.....UC-..GGCGGAGCU
K03096.1/1-119            AGUCAGUCUUg.....UCG..CAAGACUGG
#=GC SS_cons              .<.<<<<<<..............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln32.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln32.fa

M29240.1/2-114           AUACUCUGGUUUCUCUUCAGAUCGUAUAA.AUCUUUCGGC-UUUAC-AA
M77838.1/1-102           NNGCUCUGGUUUCUCUUCAAAUCGUAUAA.AUCUUUCGCCUUUUACUAA
X13012.1/682-801         AGCCAU-GUGGUGAGUACAAAGCGAACUAuUUCUUUCGCCUUUUACUAA
AF484446.1/13348-13237   AUACUCCAGUUUCUCUUCAGAUCAUAUAA.AUAUUUUGCCUUUUACUAA
AL138766.10/46864-46746  AUACUGUGGUUUCUCUUCAGAUUGUAUGA.AUCGUUUGCCUUUUACUAA
#=GC SS_cons             ..<<<<..<<<<<<<<<<<........<<.<<<<<<...........>>

M29240.1/2-114           AGA-UUCCGUGGAGAGGAACAAUUCUGAGUCUUAAACC......AAUUU
M77838.1/1-102           AGAUUUCCGUGGAGAGAAACCGUUUUGAGUUUCUAGCU......AAUUU
X13012.1/682-801         AGAAUACCGUGUGCUCUCGACGCUAAGUGCAUACGCC-......UAUUU
AF484446.1/13348-13237   AGACUUCUAUAGAGAGGAACAGCUCUGAGUUUUU----......AAUAU
AL138766.10/46864-46746  AGAUUUCCAUGGAGAGGAACAACUCUGAAUACCAUGCAggacauAGGCA
#=GC SS_cons             >>>>>>...>>>>>>>>>>>......>>>>...................

M29240.1/2-114           UUUGAGGUUCUGCu...CC-.AACAAGGCU
M77838.1/1-102           UUUGAAG------....CC-.-------CU
X13012.1/682-801         UUGGAGGGCUCCAcuucUCUgUGGAACCCA
AF484446.1/13348-13237   UGUGAGACCUUGCg...UU-.GGCAGGGCU
AL138766.10/46864-46746  UGGGCAAAGAC--....UU-.CAUGUCUAA
#=GC SS_cons             ....<.<<<<<<...........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln33.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln33.fa

AC124214.8/50660-50540     AGCUGC-GCGAUGAGCACA...AAGCGAACUAUUCUUUCGCCUUUUA
AC022080.37/144604-144490  AUACUCUGGUUUCUCUUCA...GAUCGUAUACGUCUUUUGUCUUUUA
AF529186.1/1009-895        -AACUCUGGCAUCUCCUCAc..UUGCGGACAAAUCUUUCGCCUUUUA
AL161667.1/30956-31076     AGCCAU-GUGGUAAGCACA...AAGCGAACUAUUCUUUCGCCUUUUA
U40799.2/31529-31651       CAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUA
#=GC SS_cons               ..<<<<..<<<<<<<<<<<...........<<<<<<<<.........

AC124214.8/50660-50540     CUAAAGAAUACCGUGUGAGCGUCGC..UUAAA.GCAGCAUACGAU.A
AC022080.37/144604-144490  CUAAAGAUUUCCGUGGAAGGGAACA..AUUCU.GAGUUUUUGACU.A
AF529186.1/1009-895        CUAAAGAUUUCCGUGUGGAGGUGCAgcACAAU.GAGUCUAUAGAGuC
AL161667.1/30956-31076     CUAAAGAAUACCGUGUGCUCUCCAC..GCUAA.GUGGCAUACGCC.U
U40799.2/31529-31651       CUAAAGAUUUCCGUGCAAAGGAGCA..UUUACuGAGUAUUACAUAcA
#=GC SS_cons               ..>>>>>>>>...>>>>>>>>>>>.........>>>>..........

AC124214.8/50660-50540     AUUUUUUAA.AGGAAACCuucaaAUGg...AGGAUUCCU
AC022080.37/144604-144490  AGUUUUGUU.-UUGUUUUg....UUU....-GAGACGGA
AF529186.1/1009-895        AUUUUUGCAcUGCCCCG-.....---....-ACGCGGCU
AL161667.1/30956-31076     AUUUUUGGA.GGGCUCUCac...UUUacagUGGGACCCA
U40799.2/31529-31651       AUUUUUGGA.-GACUCCUu....GAGaa..AGCGGGUCA
#=GC SS_cons               ........<..<<<<<<...............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln34.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln34.fa

AC124037.5/112409-112524  AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUAA
AC097478.2/120798-120909  AUACUCUGAUUUCUCUUGAGGUC--AUAAAUCCUCUGCCUUUU--UAA
AJ530044.1/114-224        AGCCGA-GCAGUGAAAACAAAGCGAACUAUUCUUUCGCCUUUUACUAA
AP006382.1/4379-4501      AGCCUC-GCAUUAAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAA
AC002062.1/32951-32833    AGCCAU-GUGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAA
#=GC SS_cons              ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>

AC124037.5/112409-112524  A.GAUUUCCGUGGAGAGGAACA.ACUCUGAGUCUUAACUCAAUUUUUU
AC097478.2/120798-120909  GaGAUCUAUGUGGAGAGGAACA.ACUCUGGGUCUUAAACGAAUUAUUG
AJ530044.1/114-224        A.GAAUACCGNGUCUUCUCUGCaUUUAAUCGGCAUACGCCUAUUUUUG
AP006382.1/4379-4501      A.GAAUACCGUGUGCUUGUUGC.AAUAAAAGGCAGACGCUAAUUUUUU
AC002062.1/32951-32833    A.GAAUACCGUGUGCUCUCCAC.GCUAAGUGGCAUACGCCUAUUUUUG
#=GC SS_cons              >.>>>>>...>>>>>>>>>>>.......>>>>................

AC124037.5/112409-112524  GAGGUCCUGCc....UACc..--CAGGACU
AC097478.2/120798-120909  AG-GUCUUGUu....UU-...GGAAAGGCU
AJ530044.1/114-224        GAAAGGUU--.....UAUu..----ACCAU
AP006382.1/4379-4501      GAAGGGAUUCuuucaUUUgaaAGGAACCCU
AC002062.1/32951-32833    GA-GGGUCCUgc...UUUcgaGUGGGCCCA
#=GC SS_cons              .<.<<<<<<..............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln35.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln35.fa

AL606646.3/48018-47896    AGCUGC-GCAGUGGGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAA
AC002396.1/4523-4407      AGCCAU-GUAGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAA
AL365317.22/27453-27338   AUACUCUGGUUUCUCUUCAGAUCGUACAAAUCUUUCGCCUUUUACUAA
AC142391.2/39088-39198    AUACUCUGGUUUCUCUUCAGAUCAUAUAAAUCUUUCACCUUUUACUAA
AL034351.1/112811-112925  -UACACUGGUUUCUCUUCAGAUCGAAUAAAUCUUUCGCCUUUUACUAA
#=GC SS_cons              ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>

AL606646.3/48018-47896    AGAAUACCGUGUGCUCGCUGCAAAUAGCAGCAUACUCUAAUUUUUUGA
AC002396.1/4523-4407      AGAAUACCGUGUGCUCUCCACGCUAAGUGGCAUACGCCUAUUUUUGGA
AL365317.22/27453-27338   AGAUUUCCGUGGAGAGGAACAUAUCUGAGUCAUUACC-AAUUUUUUGA
AC142391.2/39088-39198    AGAUUCCUGUGGAGAGU-----UUUUGAGUUUUUAGCUAAUUUUUUGA
AL034351.1/112811-112925  AGAUUUCCGUGGAGAGAAACAAAUCAGU-UAUAAGCU-AAUUUUUUGU
#=GC SS_cons              >>>>>>...>>>>>>>>>>>......>>>>.................<

AL606646.3/48018-47896    GGGGAUUUccagcaUUUggAGAACCCCA
AC002396.1/4523-4407      GGGAUCUGc.....CUUc.GGGUAGACU
AL365317.22/27453-27338   GGUCUUGCu.....UCUu.-GCAAGGCU
AC142391.2/39088-39198    -GCCUUUGc.....UUU..AGCAAGGCU
AL034351.1/112811-112925  AAGCCUUGc.....CCUg.GGGAGGCAG
#=GC SS_cons              .<<<<<<..............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln36.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln36.fa

AC083892.19/144818-144933  AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUA
X04213.1/1-115             AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUCAUCA
AC120537.6/31230-31353     AGCUGC-GCGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUA
X01692.1/1-115             AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUA
AB025639.1/12744-12628     AGCCGU-GUGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUA
#=GC SS_cons               ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>

AC083892.19/144818-144933  AAGAUUUCCGUGGAGAGGAACAAUUCUGAGUCUUACACUAAUUUUUU
X04213.1/1-115             AAGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACCAAUUUUUU
AC120537.6/31230-31353     AAGAAUACCGUGUGCGCGCCGCAAUUAGCAGCAUACGCUAAUUUUUG
X01692.1/1-115             AAGAUUUCCGUGGAGAGGAACAACCACGAGUGUCGUGG-AAUUUUUU
AB025639.1/12744-12628     AAGAAUACCGUGUGCUCUCCACUUCAAACGGCAUACACCUAUUUUUG
#=GC SS_cons               >>>>>>>...>>>>>>>>>>>......>>>>................

AC083892.19/144818-144933  GA....GGCCUUGCu.....UU-....AGCAAGGCU
X04213.1/1-115             GA....-GCCUUGUu.....CC-....GGCAAGGCU
AC120537.6/31230-31353     GA....-GGGAACCgacucuUCUgaggAGGUACCCA
X01692.1/1-115             GA....GGCUCCGCu.....UC-....GACGGAGCU
AB025639.1/12744-12628     GAggagUAACUUCU......UCU....--GAAGUUU
#=GC SS_cons               .<.....<<<<<<................>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln37.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln37.fa

AC124037.5/99823-99938   AUACUCUGGUUUCUCUUCA...GAUCGUAUAAAUCUUUCGCCUUUUACU
AC121233.13/19856-19974  AGCCGU-GUGAUGAUCACA...UAGCGAACUAUUCUUUCGCCUUUUACU
X01692.1/1-115           AUACUCUGGUUUCUCUUCA...GAUCGUAUAAAUCUUUCGCCUUUUACU
AC000104.1/17376-17496   AGCCAU-GUGGUGAGCACA...UAGCGAACUAUUCUUUCGCCUUUUACU
Z69659.1/6667-6789       AAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUACU
#=GC SS_cons             ..<<<<..<<<<<<<<<<<...........<<<<<<<<...........

AC124037.5/99823-99938   AAAGAUUUCCGUGGAGAGGAACAAUUCU.GAGUCUUAACCC.AAUUUUU
AC121233.13/19856-19974  AAAGAAUACCGUGUGAGCGUCACAAUUA.GCGGCAUACGCU.AGUUUUU
X01692.1/1-115           AAAGAUUUCCGUGGAGAGGAACAACCAC.GAGUGUCGUGG-.AAUUUUU
AC000104.1/17376-17496   AAAGAAUACCGUGUGCUCUCCACGCUAA.GUGGCAUACGCC.UAUUUUU
Z69659.1/6667-6789       AAAGAUUUCCGUGCAAAGGAGCAUACAUuGAGUAUUAUAUAcAAUUUUU
#=GC SS_cons             >>>>>>>>...>>>>>>>>>>>.......>>>>................

AC124037.5/99823-99938   UGAGGUCCUGC..UCGu...-GCAGGGCU
AC121233.13/19856-19974  GGAAGAGUCUUc.UUUauu.GAGGGCUCU
X01692.1/1-115           UGAGGCUCCGCu.UC-....GACGGAGCU
AC000104.1/17376-17496   GGAGGGUUCCCacUUUacugUGGGUCCCA
Z69659.1/6667-6789       GGA-GUCCCC-..UCGaaagAGCGGGACA
#=GC SS_cons             ..<.<<<<<<............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln38.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln38.fa

M77839.1/1-120        NNACUCUGGUUUCUCUUCA..AAUCGUAUAA.AUCUUUCGCCUUUUACUAAA
AB018115.1/5753-5643  AGCCGA-GCAGUGAAGACA..AAGCGAGCUA.UUCUUUCGCCUUUUACUAAA
X13012.1/682-801      AGCCAU-GUGGUGAGUACA..AAGCGAACUAuUUCUUUCGCCUUUUACUAAA
L22251.1/140-256      CAGCUCUGGUUCCUCUGCAucCACCGAGAAA.UUCUUUCGCCUUUUACUAAA
AC007230.2/9775-9895  AGCCAU-GUGGUGAGCACA..AAGCGAACUA.UUCUUUCGCCUUUUACUAAA
#=GC SS_cons          ..<<<<..<<<<<<<<<<<..........<<.<<<<<<...........>>>

M77839.1/1-120        GAUUUCCGUGGAGAGAAACG.AGUGUGAGUCUGAAACCAAUUUUUUGAGGCC
AB018115.1/5753-5643  GAAUACCGUGUCUUCUCUGCaUUUAAUCGGCAUACGCCUAUUUUUGGAAAGG
X13012.1/682-801      GAAUACCGUGUGCUCUCGAC.GCUAAGUGCAUACGCC-UAUUUUUGGAGGGC
L22251.1/140-256      GAUUUCCGUGCAGAGGAACG.UUUAUGAGUAUACGCC-AAUUUUUGGAGUCC
AC007230.2/9775-9895  GAAUACCGUGUGCUCUCCAC.GCUAAGUGGCAUACGCCUAUUUUUGGAGGGC
#=GC SS_cons          >>>>>...>>>>>>>>>>>.......>>>>.................<.<<<

M77839.1/1-120        UUGCguu.UUUu....AGCAGGGCU
AB018115.1/5753-5643  UU--....UAUu....----ACCAA
X13012.1/682-801      UCCAcuucUCUg....UGGAACCCA
L22251.1/140-256      CAGCu...UC-.....GGCUAGGGA
AC007230.2/9775-9895  UCUCa...CGUaacagUGAGUCCCA
#=GC SS_cons          <<<...............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln39.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln39.fa

AC097478.2/120798-120909  AUACUCUGAUUUCUCUUGA.GGUC--AUAAAUCCUCUGCCUUUU--UA
K03167.1/1-115            AUACUCUGGUUUCUCUUCA.GAUCGCAUAAAUCUUUCGCCUUUUACUA
AC004395.1/1698-1591      GUGUG-UGGGCCUAGCUCA.----GAAUCCAUUUCUUGCCUUUUACCA
AC105129.4/181079-180964  AUACUCUGGUUUCUCUUCA.GAUCGUAUAAAUCUUUCGCCUUUUACUA
K03096.1/1-119            AUACUCUGGUUUCUCUUCAaUGUCGAAUAAAUCUUUCGCCUUUUACUA
#=GC SS_cons              ..<<<<..<<<<<<<<<<<.........<<<<<<<<...........>

AC097478.2/120798-120909  AGaGAUCUAUGUGGAGAGGAACA.ACUCUGGGUCUUAAACGAAUUAUU
K03167.1/1-115            AA.GAUUUCCGUGGAGAGGAACA.ACUCUGAGUCUUAACCCAAUUUUU
AC004395.1/1698-1591      GA.GAUGGCCGUGGGCCACGCAA.AAUAC-CCUACUACCU-AAUCUUU
AC105129.4/181079-180964  AA.GAUUUCCGUGGAGAGGAACA.ACUCUGAGUCUUAAGCUAAUUUUU
K03096.1/1-119            AA.GAUUUCCGUGGAGAGGAACAcUCUAAGAGUCUAAAACUAAUUUUU
#=GC SS_cons              >>.>>>>>...>>>>>>>>>>>.......>>>>...............

AC097478.2/120798-120909  GAG-GUCUUGUuUU-GGAAAGGCU
K03167.1/1-115            UGA-GCCUUGCuCC-GACAAGGCU
AC004395.1/1698-1591      GGA-AUCAUCUaUC-GACAUAGUC
AC105129.4/181079-180964  UGAGGCCUUGUuCC-GACAAGGCU
K03096.1/1-119            UAGUCAGUCUUgUCGCAAGACUGG
#=GC SS_cons              ..<.<<<<<<.......>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln40.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln40.fa

X00277.1/3-121            AGCCGU-GUGAUGAUGACA..UAGCGAACUA-UCUUUCGCCUUUUACU
M23820.1/5-119            AUACUCUGGUUUCUCUUCA..GAUCGCAUAAAUCUUUCCCCUUUCANC
AC005554.2/21798-21916    -UACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
AC104165.2/128430-128313  AUACUCUGAUUUCUCCUGA..GAUCGUAUAAAUCGUUCACCUUUUACU
X01691.1/1-115            AUACUCUGGUUUCUCUUCA..GAUCGCAUAAAUCUUUCGCCUUUUACU
#=GC SS_cons              ..<<<<..<<<<<<<<<<<..........<<<<<<<<...........

X00277.1/3-121            AAAGAAUACUGUGUCAGCGUCAC.AAUUA.GCGGCAUACGCUAGUUUU
M23820.1/5-119            AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAACCCAAUUUU
AC005554.2/21798-21916    AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACACAAUUUU
AC104165.2/128430-128313  AAAGAUUUCUGUGGAAAGGAAUA.UCU-U.GACAGACAGGUGUAUGUC
X01691.1/1-115            AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAACCCAAUUUU
#=GC SS_cons              >>>>>>>>...>>>>>>>>>>>........>>>>..............

X00277.1/3-121            UGGAAGAGUUCUcaaguUUUg.AGG-GCUCU
M23820.1/5-119            UUGA-GCCUUGCc....UU-..GGCAAGGCU
AC005554.2/21798-21916    UGCU-UAGAGCC.....CCGa.UGGCAUUUG
AC104165.2/128430-128313  UGCAUUUGUCCUc....UUGcuGGUGACCCC
X01691.1/1-115            UUGA-GCCUUGCc....UU-..GGCAAGGCU
#=GC SS_cons              ...<.<<<<<<.............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln41.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln41.fa

AL627223.23/85084-85197   CUGCUUGGUUUGCUCUUCAGGUCUUGUAAAUCUUUCACCUUUUAUAAA
AB017066.1/16062-15941    AGCCGU-GCAGUGAGGGCAUAGCGAACUAUUCUUUCGCCUUUUACUAA
AE014823.1/125450-125571  GGUGUGUGUACUUACUACAUAACGAAUCAAUCUUUCGCCUUUUACUAA
AP006390.1/45876-45755    AGCCUC-GCAUGAAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAA
AC004395.1/1698-1591      GUGUG-UGGGCCUAGCUCA----GAAUCCAUUUCUUGCCUUUUACCAG
#=GC SS_cons              ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>

AL627223.23/85084-85197   AGAUUUC--UGGAGAaGGAAGC.ACUCUggAAGUCUUAACU-..GAUU
AB017066.1/16062-15941    AGAAUAUCGUGUUCU.CUCUGCuUUUAA..ACGGCAUACGCC..UAUU
AE014823.1/125450-125571  AGAUUGCCGUGUAGU.AAGUAU.GUUAA.aUACAAUAUACCAcgAAUU
AP006390.1/45876-45755    AGAAUACCGUGUGCU.UGUUGC.AACAA..GAGGCAUACGCC..AUUU
AC004395.1/1698-1591      AGAUGGCCGUGGGCC.ACGCAA.AAUAC..-CCUACUACCU-..AAUC
#=GC SS_cons              >>>>>>...>>>>>>.>>>>>.........>>>>..............

AL627223.23/85084-85197   UUUGU-.-GGCUGCUu....CUU....-GGUGGUUC
AB017066.1/16062-15941    UUUGGAaAGGUUUAUu....ACUaaauAAUAAACCU
AE014823.1/125450-125571  UUUGUC.-GCGCCUAuuaagUU-....AGGUGCUCA
AP006390.1/45876-45755    UUUGAA.GGGAUUCUucca.UUUgga.AGGAACCCU
AC004395.1/1698-1591      UUUGGA.-AUCAUCUa....UC-....GACAUAGUC
#=GC SS_cons              .....<..<<<<<<...............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln42.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln42.fa

AC004819.2/50140-50024   AUGCUCUGGUUUCUCUUCAUAA.UGAAUAAAUCUUUUuGCCUUUUACUA
X06020.1/401-516         AUACUCUGGUUUCUCUUCAAAUuCGAAUAAAUCUUUC.GCCUUUUACUA
M10270.1/1-117           AUACUCUGGUUUCUCUUCAGAU.CGUAUAAAUCUUUC.GCCUUUUACNA
AL627223.23/85084-85197  CUGCUUGGUUUGCUCUUCAGGU.CUUGUAAAUCUUUC.ACCUUUUAUAA
M29240.1/2-114           AUACUCUGGUUUCUCUUCAGAU.CGUAUAAAUCUUUC.GGC-UUUAC-A
#=GC SS_cons             ..<<<<..<<<<<<<<<<<.........<<<<<<<<............>

AC004819.2/50140-50024   AAGAUUUCCGUGGAGA.GUUGAGGCCUUgcuUAGGCAGGGGUAAAUAUG
X06020.1/401-516         AAGAUUUCCGUGGAGA.GGAACGACCAU...GAGUUUCGUUC-AAUUUU
M10270.1/1-117           AAGAUUUCCGUGGAGA.GGAACAACUCU...GAGUCUUAAACCAAUUUU
AL627223.23/85084-85197  AAGAUUUC--UGGAGAaGGAAGCACUCU.ggAAGUCUUAACU-GAUUUU
M29240.1/2-114           AAGA-UUCCGUGGAGA.GGAACAAUUCU...GAGUCUUAAACCAAUUUU
#=GC SS_cons             >>>>>>>...>>>>>>.>>>>>.........>>>>..............

AC004819.2/50140-50024   AGA--AAGAAAA.AA-.AAAGUCUUA
X06020.1/401-516         UUGAAGCCUGGUuCA-.CACCAGGUA
M10270.1/1-117           UUGAGGCCUUGU.CUUgAGCAAGGCU
AL627223.23/85084-85197  UGU--GGCUGCUuCUU.-GGUGGUUC
M29240.1/2-114           UUGAGGUUCUGCuCC-.AACAAGGCU
#=GC SS_cons             ...<.<<<<<<........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln43.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln43.fa

AC121754.6/24234-24123    AUACUCU......GGCUUCUCUUCAGAUCAUAUAAAUCUUUCACCUUU
AL357512.15/42300-42179   AAACUAUcauuauGGUUUCUCUUCAGAAUGAAUAAAUCUUUUGCCUUU
X00278.1/3-120            AGCCGU-......GUGAUGAUGACAUAGCGAACUA-UCUUUCGCCUUU
AC123596.12/62488-62606   AGCCGU-......GUGAUGAUCACAUAGCGAACUAUUCUUUCGCCUUU
AE014823.1/125450-125571  GGUGUGU......GUACUUACUACAUAACGAAUCAAUCUUUCGCCUUU
#=GC SS_cons              ..<<<<........<<<<<<<<<<<........<<<<<<<<.......

AC121754.6/24234-24123    UACUAAAGAUUUCCAUGGAGAGGAACACCUCU.GAGUCUUAAGAU..A
AL357512.15/42300-42179   UAUUAAAGAUUUCCAUGAAGAGGAACAGAUGG.GAGUUAGUAAGA..A
X00278.1/3-120            UACUAAAGAAUACUGUGUCAGCGUCACAAUUA.GCGGCAUACGCU..A
AC123596.12/62488-62606   UACUAAAGAAUACUGUGUGAGUGUCACAAUUA.GCGGCAUACGCU..A
AE014823.1/125450-125571  UACUAAAGAUUGCCGUGUAGUAAGUAUGUUAAaUACAAUAUACCAcgA
#=GC SS_cons              ....>>>>>>>>...>>>>>>>>>>>.......>>>>...........

AC121754.6/24234-24123    CCAUCUCAU-GCCAGUU.....---....AGAAUGGCG
AL357512.15/42300-42179   AUGUUUUGAAGUCCUG-.....CUUg...AGCAGGGCC
X00278.1/3-120            GUUUUUGGGAGAGUCCUc....UUCauu.GAGGGCUCU
AC123596.12/62488-62606   GUUUUUGGAAGAGUCCU.....CCUcaccGAAGGCUCU
AE014823.1/125450-125571  AUUUUUGUC-GCGCCUAuuaagUU-....AGGUGCUCA
#=GC SS_cons              ........<.<<<<<<...............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln44.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln44.fa

AC104165.2/128430-128313   AUACUCUGAUUUCUCCUGAGAUCGUAUAAAUCGUUCACCUUUUACUA
AL122004.17/100235-100120  AUGCUCUGGUUUCUCUUCAAAUCGUAUAAAUCUUUCGCCUUUUACUA
AC130810.11/42940-43058    AGCCGU-GUGAUGAGCACAUAGCGAACUAUUCUUUCGCCUUUUACUA
M10336.1/2-117             AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUA
AL163792.1/27348-27227     AGCCGU-GCAAUAAGCACAUAGCGAACUAUUCUUUCGCCUUUUACUA
#=GC SS_cons               ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>

AC104165.2/128430-128313   AAGAUUUCUGUGGAAAGGAAUAUCU-UGACAGACAGGUGUAUGUCUG
AL122004.17/100235-100120  AAGAUUUCCGUGGAGAGAAACCGUUUUGAGUUUCAAGCAAAUUUUUU
AC130810.11/42940-43058    AAGAAUACCGUGUGCACGUCACUAAAAGCGGCAUACGCUAAUUUUUG
M10336.1/2-117             AAGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACCAAUUUUUU
AL163792.1/27348-27227     AAGAAUACCGUGUGCUUGUCGUACCAAGCGGCAUACGCCUAUUUUUG
#=GC SS_cons               >>>>>>>...>>>>>>>>>>>......>>>>................

AC104165.2/128430-128313   CAUUUGUCCUcUUGcu.....GGUGACCCC
AL122004.17/100235-100120  GAAGCCCUAUgUU-.......GGUGGGGUU
AC130810.11/42940-43058    AAAGAGUCCUcCUUaau....GAGGGUUCU
M10336.1/2-117             GAGGCCUUGUcUU-.......GGCAAGGCU
AL163792.1/27348-27227     GA-GGGUUGUcUCUuacugagAUUAACUCU
#=GC SS_cons               .<.<<<<<<..............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln45.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln45.fa

AC142391.2/39088-39198    AUACUCUGGUUUCUCUUCA..GAUCAUAUAAAUCUUUCACCUUUUACU
AF484446.1/13348-13237    AUACUCCAGUUUCUCUUCA..GAUCAUAUAAAUAUUUUGCCUUUUACU
AE014823.1/125450-125571  GGUGUGUGUACUUACUACA..UAACGAAUCAAUCUUUCGCCUUUUACU
AP006390.1/45876-45755    AGCCUC-GCAUGAAGCACA..AAGCGAACUAUUCUUUCGCCUUUUACU
AC005554.2/21798-21916    -UACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
#=GC SS_cons              ..<<<<..<<<<<<<<<<<..........<<<<<<<<...........

AC142391.2/39088-39198    AAAGAUUCCUGUGGAGAGU----.-UUUU.GAGUUUUUAGCU..AAUU
AF484446.1/13348-13237    AAAGACUUCUAUAGAGAGGAACA.GCUCU.GAGUUUUU----..AAUA
AE014823.1/125450-125571  AAAGAUUGCCGUGUAGUAAGUAU.GUUAAaUACAAUAUACCAcgAAUU
AP006390.1/45876-45755    AAAGAAUACCGUGUGCUUGUUGC.AACAA.GAGGCAUACGCC..AUUU
AC005554.2/21798-21916    AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACAC..AAUU
#=GC SS_cons              >>>>>>>>...>>>>>>>>>>>........>>>>..............

AC142391.2/39088-39198    UUUUGA-GCCUUUGc....UUU...AGCAAGGCU
AF484446.1/13348-13237    UUGUGAGACCUUGCg....UU-...GGCAGGGCU
AE014823.1/125450-125571  UUUGUC-GCGCCUAuuaagUU-...AGGUGCUCA
AP006390.1/45876-45755    UUUGAAGGGAUUCUucca.UUUggaAGGAACCCU
AC005554.2/21798-21916    UUUGCU-UAGAGCC.....CCGa..UGGCAUUUG
#=GC SS_cons              .....<.<<<<<<..............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln46.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln46.fa

AL023594.2/7651-7766    GUCAAA-GCACUUUGCAAAagcUAACGUAUCUGUUUCUUGCCUUUUACCA
X15934.1/3-121          AGCCGU-GUGAUGAUGACA...UAGCGAACUAUUCUUUCGCCUUUUACUA
AC016162.5/51286-51175  AGCUGU-GCAGUGAAGACA...AAGCGAACUGUUCUUUCGCCUUUUACUA
AL133286.9/29071-28954  AUUCUCUGGUUUCUCUUCA...AAUUGUAUAAAUCUUUCGCCUUUUACUA
AC009340.4/34027-34152  -UACUCUGGUUUCUCUUCAau.UGUCGAAUAAAUCUUUCGCCUUUUACUA
#=GC SS_cons            ..<<<<..<<<<<<<<<<<...........<<<<<<<<...........>

AL023594.2/7651-7766    GAAACAGCCGUUUGUA.AGGUGU.GCUAA..UUUGACUGUAU-..AGUUU
X15934.1/3-121          AAGAAUACCGUGUCAG.CGUCAC.AAUUA..GCGGCAUACGCU..AGUUU
AC016162.5/51286-51175  AAGAAUACCGUGUCUU.CUCUGU.UCUUA..GCGGCAUACGCC..UAUUU
AL133286.9/29071-28954  AAGAUUUCCGUGGAGAcAGAGUC.UCGCUcuGUCACCCAGGCUggAGU--
AC009340.4/34027-34152  AAGAUUUCCGUGGAGA.GGAACAcUCUAA.uGAGUCUAAAAU-..AAUCU
#=GC SS_cons            >>>>>>>...>>>>>>.>>>>>.........>>>>...............

AL023594.2/7651-7766    U.UGUA..-AUCUUUUu...CUU....-GAAACAUU
X15934.1/3-121          U.UGGA..AGAGUUCUcaauUUUg...AGG-GCUCU
AC016162.5/51286-51175  U.UGGA..-AAGGUUUa...UU-....--AACCAUU
AL133286.9/29071-28954  -gUAGA..GGCGAGAU....CUU....-GGUUCACU
AC009340.4/34027-34152  U.UUGUagUGCCCGGCga..CUUcgguAGCUGGGCC
#=GC SS_cons            .....<...<<<<<<..............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln47.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln47.fa

AC123596.12/58889-59002   AGCUGU-GUGUUGAUCACA..UAGUAAACUAUUCUUUUGCCUUUUACU
AJ524412.1/158-42         AGCCGU-GCAAUAAGCACA..UAGCGAACUAUUCUUUCGCCUUUUACU
M10270.1/1-117            AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUACN
AC005719.2/130462-130570  -UACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
AC005554.2/21798-21916    -UACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
#=GC SS_cons              ..<<<<..<<<<<<<<<<<..........<<<<<<<<...........

AC123596.12/58889-59002   AAAGAAUACCUUGUGAGUGUUAC.AAUUA.GCGGUAGGGCUCugcAAU
AJ524412.1/158-42         AAAGAAUACCGUGUGCUUGUCGU.ACCAU.GCGGCAUACGCC...UAU
M10270.1/1-117            AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAACC...AAU
AC005719.2/130462-130570  AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACUC...AAU
AC005554.2/21798-21916    AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACAC...AAU
#=GC SS_cons              >>>>>>>>...>>>>>>>>>>>........>>>>..............

AC123596.12/58889-59002   UUUAGUUCAAUAU--.UUUcc----UAUUC
AJ524412.1/158-42         UUUUGGA-GGGUUGUcUCUuaCUGAGACUA
M10270.1/1-117            UUUUUGAGGCCUUGU.CUUg.AGCAAGGCU
AC005719.2/130462-130570  UUUUGUAUGAC----.CU-..-----GGCU
AC005554.2/21798-21916    UUUUGCU-UAGAGCC.CCGa.UGGCAUUUG
#=GC SS_cons              ......<.<<<<<<.........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln48.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln48.fa

X00278.1/3-120            AGCCGU-GUGAUGAUGACA...UAGCGAACUA-UCUUUC.GCCUUUUA
Z68215.1/31924-32045      -AACUCUGGUUCCUCUGCAuuuAACCAUGAAAAUCUUUC.GCCUUUUA
AC004819.2/50140-50024    AUGCUCUGGUUUCUCUUCA...UAAUGAAUAAAUCUUUUuGCCUUUUA
M10336.1/2-117            AUACUCUGGUUUCUCUUCA...GAUCGUAUAAAUCUUUC.GCCUUUUA
AC084884.2/111501-111612  AGCUGC-GCAGUGGGCACA...GAGCGAACUAUUCUUUC.GCCUUUUA
#=GC SS_cons              ..<<<<..<<<<<<<<<<<...........<<<<<<<<..........

X00278.1/3-120            CUAAAGAAUACUGUGUCAGCGUCACAAUUA...GCGGCAUACGCU...
Z68215.1/31924-32045      CUAAAGAUUUCCGUGCAAAGGAGCAUACAU..uGAGUAUUGUAUAc..
AC004819.2/50140-50024    CUAAAGAUUUCCGUGGAGAGUUGAGGCCUUgcuUAGGCAGGGGUA...
M10336.1/2-117            CUAAAGAUUUCCGUGGAGAGGAACAACUCU...GAGUCUUAAACC...
AC084884.2/111501-111612  CUAAAGAAUACCGUGUGCUCGCUGCAAAUA...GCAGCAUUGCAAgca
#=GC SS_cons              ..>>>>>>>>...>>>>>>>>>>>.........>>>>...........

X00278.1/3-120            AGUUUUUGGGAGAGUCCUcUUCauuGAGGGCUCU
Z68215.1/31924-32045      AAUUUUUGGA-GUCCCCUuGAGaa.AGCGGGACA
AC004819.2/50140-50024    AAUAUGAGA--AAGAAAA.AA-...AAAGUCUUA
M10336.1/2-117            AAUUUUUUGAGGCCUUGUcUU-...GGCAAGGCU
AC084884.2/111501-111612  UACUUGUGUA-GUAU---.UA-...AG-CAUGCU
#=GC SS_cons              .........<.<<<<<<..........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln49.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln49.fa

AC009340.4/34027-34152   -UACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACUA
AF484446.1/13348-13237   AUACUCCAGUUUCUCUUCA..GAUCAUAUAAAUAUUUUGCCUUUUACUA
AL365317.22/27453-27338  AUACUCUGGUUUCUCUUCA..GAUCGUACAAAUCUUUCGCCUUUUACUA
X00277.1/3-121           AGCCGU-GUGAUGAUGACA..UAGCGAACUA-UCUUUCGCCUUUUACUA
AC011238.8/17195-17301   AUACUCUGGUUUCUCUUCA..GAUCAUAUAAAUCUUUUGCCUUUUACUG
#=GC SS_cons             ..<<<<..<<<<<<<<<<<..........<<<<<<<<...........>

AC009340.4/34027-34152   AAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAAAU-AAUCUUUU
AF484446.1/13348-13237   AAGACUUCUAUAGAGAGGAACA.GCUCU.GAGUUUUU----AAUAUUGU
AL365317.22/27453-27338  AAGAUUUCCGUGGAGAGGAACA.UAUCU.GAGUCAUUACC-AAUUUUUU
X00277.1/3-121           AAGAAUACUGUGUCAGCGUCAC.AAUUA.GCGGCAUACGCUAGUUUUUG
AC011238.8/17195-17301   AAGAUUUCCGUGGAGGGAA---.-----.CAGUCUUUACCCAAUUUUUU
#=GC SS_cons             >>>>>>>...>>>>>>>>>>>........>>>>................

AC009340.4/34027-34152   GUagUGCCCGGCga...CUUcgguAGCUGGGCC
AF484446.1/13348-13237   GA..GACCUUGCg....UU-....GGCAGGGCU
AL365317.22/27453-27338  GA..GGUCUUGCu....UCUu...-GCAAGGCU
X00277.1/3-121           GA..AGAGUUCUcaaguUUUg...AGG-GCUCU
AC011238.8/17195-17301   GA..GGCCUCUUg....UUU....--AAGGAUU
#=GC SS_cons             .<...<<<<<<...............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln50.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln50.fa

AF529186.1/1009-895     -AACUCUGGCAUCUCCUCAc..UUGCGGACAAAUCUUUCGCCUUUUACUA
AB017066.1/16062-15941  AGCCGU-GCAGUGAGGGCA...UAGCGAACUAUUCUUUCGCCUUUUACUA
AL023594.2/7651-7766    GUCAAA-GCACUUUGCAAAagcUAACGUAUCUGUUUCUUGCCUUUUACCA
AL021155.1/95440-95321  -UACUCUAGUUUCUCUUCA...UAUCGCAUAAAUCUUUCGCCUUUUACUA
AP006390.1/45876-45755  AGCCUC-GCAUGAAGCACA...AAGCGAACUAUUCUUUCGCCUUUUACUA
#=GC SS_cons            ..<<<<..<<<<<<<<<<<...........<<<<<<<<...........>

AF529186.1/1009-895     AAGAUUUCCGUGUGGAGGUGCAgcACAAUGAGUCUAUAGAGuCAUUUUUG
AB017066.1/16062-15941  AAGAAUAUCGUGUUCUCUCUGC.uUUUAAACGGCAUACGCC.UAUUUUUG
AL023594.2/7651-7766    GAAACAGCCGUUUGUAAGGUGU..GCUAAUUUGACUGUAU-.AGUUUUUG
AL021155.1/95440-95321  AAGAUUUCCGUGGAGAGGAAUA..AUUCUGAGUUUUAAACC.AAUUUUUU
AP006390.1/45876-45755  AAGAAUACCGUGUGCUUGUUGC..AACAAGAGGCAUACGCC.AUUUUUUG
#=GC SS_cons            >>>>>>>...>>>>>>>>>>>........>>>>.................

AF529186.1/1009-895     .CAcUGCCCCG-....---....-ACGCGGCU
AB017066.1/16062-15941  .GAaAGGUUUAUu...ACUaaauAAUAAACCU
AL023594.2/7651-7766    .UA.-AUCUUUUu...CUU....-GAAACAUU
AL021155.1/95440-95321  aGA.GGUCUUGCauu.UUUu...AGCAAGGCU
AP006390.1/45876-45755  .AA.GGGAUUCUuccaUUUgga.AGGAACCCU
#=GC SS_cons            ..<..<<<<<<..............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln51.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln51.fa

Z11883.1/951-832          AGCCAC-GCAGUGAGCACA...........GAACGAA.CAGUUCUUUU
Z68493.1/12769-12642      ACUAUC-GAGUUGUUAGUAgaggggguuauUAGGGUGgAAAAUCUUUU
AC084158.1/171270-171148  CAACUCUGGUUCCUCUGCAuuu........AACCGUG.AAAAUCUUUC
AC084765.9/80999-80876    AGCUGC-GCGGUGAGCACA...........GAGCGAA.CUAUUCUUUC
K02358.1/4-122            AGCCAU-GUGAUAAGUGCA...........AAGCGAA.CUA-UCUUUC
#=GC SS_cons              ..<<<<..<<<<<<<<<<<....................<<<<<<<<.

Z11883.1/951-832          GCCUUUUACUAAAGAAUACCCaUGUGCACUCUGC.AAAUA.GUGGGUU
Z68493.1/12769-12642      GCCUUUUACUGAAUAUUUCCU.UGCAAAGGAGCAuACAUU.GAGUAUU
AC084158.1/171270-171148  GCCUUUUACUAAAGAUUUCCG.UGCAAAGGAGCA.UACAUuGAGUAUU
AC084765.9/80999-80876    GCCUUUUACUAAAGAAUACCG.UGUGCGCGCCGC.AAUUA.GCAGCAU
K02358.1/4-122            GCCUUUUACUAAAGAAUACUG.UGUACGUGUCAC.AAGCG.GUGGCAU
#=GC SS_cons              ..........>>>>>>>>....>>>>>>>>>>>........>>>>...

Z11883.1/951-832          AUGCC.UAUUUUUGGAGGGGUUCUc.....UCUauu.GAGUGCCCC
Z68493.1/12769-12642      AUAUAcAAUUUUUGGAGUCCCCUU......GA-....GAAAGCGGA
AC084158.1/171270-171148  AUACAcAAAUUUUGGA-GUCCCC-......UCGgaagAGCGGGACA
AC084765.9/80999-80876    ACGCU.AAUUUUUGGA-GGGAACCgacucuUUUgaggAGGUCCCCA
K02358.1/4-122            ACGAGuAAUUUUUGAAUGAGUUCUc.....UUGuua.GAGAGCUCU
#=GC SS_cons              ...............<.<<<<<<................>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln52.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln52.fa

M77839.1/1-120           NNACUCUGGUUUCUCUUCAAAUCGUAUAAAUCUUUCGCCUUUUACUAAA
AP004334.2/12563-12444   AGCUGC-GUGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAA
AC123596.12/58889-59002  AGCUGU-GUGUUGAUCACAUAGUAAACUAUUCUUUUGCCUUUUACUAAA
AJ524412.1/158-42        AGCCGU-GCAAUAAGCACAUAGCGAACUAUUCUUUCGCCUUUUACUAAA
K02358.1/4-122           AGCCAU-GUGAUAAGUGCAAAGCGAACUA-UCUUUCGCCUUUUACUAAA
#=GC SS_cons             ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>>

M77839.1/1-120           GAUUUCCGUGGAGAGAAACGAGUGUGAGUCUGAAACC...AAUUUUUUG
AP004334.2/12563-12444   GAAUACCGUGUGCGCGCCACAUUAAGCAGCAUACGCU...AAUUUUUGG
AC123596.12/58889-59002  GAAUACCUUGUGAGUGUUACAAUUAGCGGUAGGGCUCugcAAUUUUAGU
AJ524412.1/158-42        GAAUACCGUGUGCUUGUCGUACCAUGCGGCAUACGCC...UAUUUUUGG
K02358.1/4-122           GAAUACUGUGUACGUGUCACAAGCGGUGGCAUACGAGu..AAUUUUUGA
#=GC SS_cons             >>>>>...>>>>>>>>>>>......>>>>....................

M77839.1/1-120           AGGCCUUGCguuUUUu..AGCAGGGCU
AP004334.2/12563-12444   AGGGCGCCCuc.UCUcagAGAGGGCCC
AC123596.12/58889-59002  UCAAUAU--...UUUcc.----UAUUC
AJ524412.1/158-42        A-GGGUUGUc..UCUua.CUGAGACUA
K02358.1/4-122           AUGAGUUCUc..UUGuuaGAGAGCUCU
#=GC SS_cons             <.<<<<<<............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln53.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln53.fa

AC000104.1/17376-17496     AGCCAU-........GUGGUGAGCACAUAGCGAACUAUUCUUUCGCC
X04213.1/1-115             AUACUCU........GGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCC
AL358176.22/177459-177582  AAACUUUauuuauauGCUCAUUCUUUAGAAUGAAUAAGUUUUUUGCC
AL122004.17/90967-90851    GAUCUCU........GGUUUCUCUUCAUAACGAAUAAAUCUUUCGCC
AC007202.3/14338-14454     AGCCGU-........GUGGUGAAUACAAAGCGAACUAUUCUUUCGCC
#=GC SS_cons               ..<<<<..........<<<<<<<<<<<........<<<<<<<<....

AC000104.1/17376-17496     UUUUACUAAAGAAUACCGUGUGCUCUCCACGCUAAGUGGCAUACGCC
X04213.1/1-115             UUUCAUCAAAGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACC
AL358176.22/177459-177582  AUUUACUAGAAGUUUCCAUGGAGA-GGAACAGUGUGAGUUGAUAACC
AL122004.17/90967-90851    UUUUACUAAAGAUUUCCGUGGAGAAAAACAACUAUGAGUUUAUGGUU
AC007202.3/14338-14454     UUUUACUAAAGAAUACCGUGUGUUCUCCACGCUAAACGGCAUACACC
#=GC SS_cons               .......>>>>>>>>...>>>>>>>>>>>......>>>>........

AC000104.1/17376-17496     .UAUUUUUGGA....GGGUUCCCacUUUacugUGGGUCCCA
X04213.1/1-115             .AAUUUUUUGA....-GCCUUGUu.CC-....GGCAAGGCU
AL358176.22/177459-177582  aAAUUUUUUGA....GGUCUUG-..CUUa...GGCAGGGCU
AL122004.17/90967-90851    aAAUUUUUUGA....AGUCUUGCc.UA-....GGCAAGGCU
AC007202.3/14338-14454     .AAUUUUUGGAggagUAACUUCA..UCU....--GAAGUUU
#=GC SS_cons               ..........<.....<<<<<<............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln54.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln54.fa

X15934.1/3-121           AGCCGU-GUGAUGAUGACAUAGCGAACUAUUCUUUC.GCCUUUUACUAA
AC004819.2/50140-50024   AUGCUCUGGUUUCUCUUCAUAAUGAAUAAAUCUUUUuGCCUUUUACUAA
AK060548.1/5-124         AGCUGC-GUGGUGAGCACAAAGCGAACUAUUCUUUC.GCCUUUUACUAA
AC130810.11/42940-43058  AGCCGU-GUGAUGAGCACAUAGCGAACUAUUCUUUC.GCCUUUUACUAA
AB025639.1/12744-12628   AGCCGU-GUGGUGAGCACAAAGCGAACUAUUCUUUC.GCCUUUUACUAA
#=GC SS_cons             ..<<<<..<<<<<<<<<<<........<<<<<<<<............>>

X15934.1/3-121           AGAAUACCGUGUCAGCGUCACAAUUA...GCGGCAUACGCU.AGUUU..
AC004819.2/50140-50024   AGAUUUCCGUGGAGAGUUGAGGCCUUgcuUAGGCAGGGGUA.AAUAU..
AK060548.1/5-124         AGAAUACCGUGUGCGCGCCACAAUUA...GCAGCAUACGCUaAAUUUaa
AC130810.11/42940-43058  AGAAUACCGUGUGCACGUCACUAAAA...GCGGCAUACGCU.AAUUU..
AB025639.1/12744-12628   AGAAUACCGUGUGCUCUCCACUUCAA...ACGGCAUACACC.UAUUU..
#=GC SS_cons             >>>>>>...>>>>>>>>>>>.........>>>>................

X15934.1/3-121           .UUGGA....AGAGUUCUcaauUUUg..AGG-GCUCU
AC004819.2/50140-50024   .GAGA-....-AAGAAAA....AA-...AAAGUCUUA
AK060548.1/5-124         aUUUAA....-AGCUUUGu...UUUa..CUAAAUCUU
AC130810.11/42940-43058  .UUGAA....AGAGUCCUc...CUUaauGAGGGUUCU
AB025639.1/12744-12628   .UUGGAggagUAACUUCU....UCU...--GAAGUUU
#=GC SS_cons             .....<.....<<<<<<.............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln55.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln55.fa

AL133286.9/29071-28954   AUUCUC.UGGUUUCUCUUCAAAUUGUAUAAAUCUUUCGCCUUUUACUAA
AL591593.11/58611-58496  ACACUCaUG-UUUCUCUUCAUAUCGAAUAAGUCUUUCGCCUUUUACUAA
AL122004.17/90967-90851  GAUCUC.UGGUUUCUCUUCAUAACGAAUAAAUCUUUCGCCUUUUACUAA
X67000.1/4-110           CGCGAC.-GAGCUGAACGCGUAGCGAAUAUCUCUUUCGCCUUUUACUAA
AL627223.23/85084-85197  CUGCUU.GGUUUGCUCUUCAGGUCUUGUAAAUCUUUCACCUUUUAUAAA
#=GC SS_cons             ..<<<<...<<<<<<<<<<<........<<<<<<<<...........>>

AL133286.9/29071-28954   AGAUUUCCGUGGAGAcAGAGUCUCGCUcuGUCACCCAGGCUggAGU---
AL591593.11/58611-58496  AGAUUUCCAUGGAGA.GGAA-CACCUU..GAGUAUUUACU-..AAUUUU
AL122004.17/90967-90851  AGAUUUCCGUGGAGA.AAAACAACUAU..GAGUUUAUGGUUa.AAUUUU
X67000.1/4-110           AGAGAUCCGCGAGUU.UUGCUCACGCA..GUCGCAUAUCCA..UCUUUU
AL627223.23/85084-85197  AGAUUUC--UGGAGAaGGAAGCACUCUggAAGUCUUAACU-..GAUUUU
#=GC SS_cons             >>>>>>...>>>>>>.>>>>>........>>>>................

AL133286.9/29071-28954   gUAGAGGCGAGAU.CUU..-GGUUCACU
AL591593.11/58611-58496  .UUGAUGUCCUGG.UUCaaUGUAGGAUU
AL122004.17/90967-90851  .UUGAAGUCUUGCcUA-..GGCAAGGCU
X67000.1/4-110           .UGUGGGGC----.UUUu.-----GCCU
AL627223.23/85084-85197  .UGU--GGCUGCUuCUU..-GGUGGUUC
#=GC SS_cons             ....<.<<<<<<.........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln56.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln56.fa

Z14994.1/381-501          AGCUGC-GCAGUGGGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAA
AP006382.1/4379-4501      AGCCUC-GCAUUAAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAA
AC124214.8/50660-50540    AGCUGC-GCGAUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAA
AC084884.2/111501-111612  AGCUGC-GCAGUGGGCACAGAGCGAACUAUUCUUUCGCCUUUUACUAA
AC004106.1/125034-124919  AUGCUCUGGUUUCUCUUCAGAACAAAUAAAUAUUUGGCCUUUUACUAA
#=GC SS_cons              ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>

Z14994.1/381-501          AGAAUACCGUGUGCCCGCUGCAAUAA.GCAGCAUACGCU...UAUUUU
AP006382.1/4379-4501      AGAAUACCGUGUGCUUGUUGCAAUAA.AAGGCAGACGCU...AAUUUU
AC124214.8/50660-50540    AGAAUACCGUGUGAGCGUCGCUUAAA.GCAGCAUACGAU...AAUUUU
AC084884.2/111501-111612  AGAAUACCGUGUGCUCGCUGCAAAUA.GCAGCAUUGCAAgcaUACUUG
AC004106.1/125034-124919  AGAUUUCCAUGGAGAGGAACAAUUAUuAAUUAAUAACCA...AAUUUU
#=GC SS_cons              >>>>>>...>>>>>>>>>>>.......>>>>.................

Z14994.1/381-501          UGGA-GGGUCCUcuca.UUUgugAGAAGCCCA
AP006382.1/4379-4501      UUGAAGGGAUUCuuucaUUUgaaAGGAACCCU
AC124214.8/50660-50540    UUAAAGGAAACCuucaaAUGg..AGGAUUCCU
AC084884.2/111501-111612  UGUA-GUAU---.....UA-...AG-CAUGCU
AC004106.1/125034-124919  UGAG-GUCCUG-.....CUUa..GGCAGGGCC
#=GC SS_cons              ...<.<<<<<<..............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln57.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln57.fa

AC139354.5/49090-48982  AGCCGU-GUGAUGAUCACA..UAGCGAACUAUUCUUUCGCCUUUUACUAA
AE003414.1/48847-48723  --ACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACUAA
AF271469.1/310-192      CGACUCUGGUUUCUCUUCA..UUACGCACAAGCCUUUCGCCUUUUACUAA
X00278.1/3-120          AGCCGU-GUGAUGAUGACA..UAGCGAACUA-UCUUUCGCCUUUUACUAA
X15935.1/3-121          AGCCAU-GUGAUAAGUACA..AAGCGAACUAUUCUUUCGCCUUUUACUAA
#=GC SS_cons            ..<<<<..<<<<<<<<<<<..........<<<<<<<<...........>>

AC139354.5/49090-48982  AGAAUACCGUGUGAGCGUUAC.AAUUA.GCGGCAUACGCU.AGUUUUUGG
AE003414.1/48847-48723  AGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAAAUAuUAUUUUGUA
AF271469.1/310-192      AGACUUCCGUGGAGAGGAACA.CUUAC.GAGUUCAACGU-.-AUUUUUGG
X00278.1/3-120          AGAAUACUGUGUCAGCGUCAC.AAUUA.GCGGCAUACGCU.AGUUUUUGG
X15935.1/3-121          AGAAUACCGUGUACUUUUCAC.UAACA.GUGGCAUACGAU.AAUUUUUGA
#=GC SS_cons            >>>>>>...>>>>>>>>>>>........>>>>..................

AC139354.5/49090-48982  AAGAGU---...UC-...GG--GCUCU
AE003414.1/48847-48723  GUGCCCGGCgacUUUgguAACUGGGCC
AF271469.1/310-192      AAGGGCUUUgcuUCUgg.CAGAGCCCG
X00278.1/3-120          GAGAGUCCUc..UUCauuGAGGGCUCU
X15935.1/3-121          AUGAGCUCUcauGUUu..GAGAGCUCU
#=GC SS_cons            <.<<<<<<............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln58.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln58.fa

Z69665.1/27633-27754    -AACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUACUA
X01691.1/1-115          AUACUCUGGUUUCUCUUCA...GAUCGCAUAAAUCUUUCGCCUUUUACUA
X67000.1/4-110          CGCGAC-GAGCUGAACGCG...UAGCGAAUAUCUCUUUCGCCUUUUACUA
Z14995.1/799-919        AGCUGC-GCAGUGGGCACA...AAGCGAACUAUUCUUUCGCCUUUUACUA
AC112161.9/38431-38546  AUACUCUGGUUUCUCUUCA...GAUCGUAUAAAUCUUUCGCCUUUUACUA
#=GC SS_cons            ..<<<<..<<<<<<<<<<<...........<<<<<<<<...........>

Z69665.1/27633-27754    AAGAUUUCCGUGCAAAGGAGCAUACAUuGAGUAUUAUAUAcAAUUUUUGG
X01691.1/1-115          AAGAUUUCCGUGGAGAGGAACAACUCU.GAGUCUUAACCC.AAUUUUUUG
X67000.1/4-110          AAGAGAUCCGCGAGUUUUGCUCACGCA.GUCGCAUAUCCA.UCUUUUUGU
Z14995.1/799-919        AAGAAUACCGUGUGCCCGCUGCAACAA.GCAGCAUACGCC.UAUUUUUGA
AC112161.9/38431-38546  AAGAUUUCCGUGGAGAGGAACAACUCU.GAGUCUUAAACC.AAUUUUUUG
#=GC SS_cons            >>>>>>>...>>>>>>>>>>>.......>>>>..................

Z69665.1/27633-27754    A-GUCCCCUc..GAGag..AGCGGGACA
X01691.1/1-115          A-GCCUUGCc..UU-....GGCAAGGCU
X67000.1/4-110          GGGGC----...UUUu...-----GCCU
Z14995.1/799-919        A-GGGUUCUcucCUUggugAGAAGCCCA
AC112161.9/38431-38546  AGGCCUUGUc..UU-....GACAAGGCU
#=GC SS_cons            <.<<<<<<.............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln59.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln59.fa

X00277.1/3-121            AGCCGU-G.UGAUGAUGACAUAGCGAACUA-UCUUUCGCCUUUUACUA
AC124037.5/99823-99938    AUACUCUG.GUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUA
K00783.1/2-117            AUACUCUG.GUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUAUCA
AL590450.1/114087-114198  CACCCCUGgCCGCCUCGCCGAUAAGUACGAGUCUUUUGCCUUUUACUG
AC121754.6/24234-24123    AUACUCUG.GCUUCUCUUCAGAUCAUAUAAAUCUUUCACCUUUUACUA
#=GC SS_cons              ..<<<<...<<<<<<<<<<<........<<<<<<<<...........>

X00277.1/3-121            AAGAAUACUGUGUCAGCGUCACAAUUAGCGGCAUACGCUAGUUUUUGG
AC124037.5/99823-99938    AAGAUUUCCGUGGAGAGGAACAAUUCUGAGUCUUAACCCAAUUUUUUG
K00783.1/2-117            AAGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACCAAUUUUUUG
AL590450.1/114087-114198  AAGACUCCCAUGGCCAGGCAGUA----GUGCCCACCAC-AAUUUUUGG
AC121754.6/24234-24123    AAGAUUUCCAUGGAGAGGAACACCUCUGAGUCUUAAGAUACCAUCUCA
#=GC SS_cons              >>>>>>>...>>>>>>>>>>>......>>>>.................

X00277.1/3-121            AAGAGUUCUcaaguUUUg.AGG-GCUCU
AC124037.5/99823-99938    AGGUCCUGC.....UCGu.-GCAGGGCU
K00783.1/2-117            AGGCCUUGUc....UU-..GACAAGGCU
AL590450.1/114087-114198  A-AUGCUGAc....UAGcu--CAGCUUA
AC121754.6/24234-24123    U-GCCAGUU.....---..AGAAUGGCG
#=GC SS_cons              <.<<<<<<.............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln60.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln60.fa

U19467.1/274-143         AUAUUCUGCUUC-UCUUUCUAUCAUAUAAAUCUUUCACCUUUUACUAAA
M10336.1/2-117           AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUAAA
AC004395.1/1698-1591     GUGUG-UGGGCCUAGCUCA----GAAUCCAUUUCUUGCCUUUUACCAGA
AC123596.12/65039-65157  AGCCGU-GUGAUGAACACAUAGCGAACUAUUCUUUCGCCUUUUACUAAA
AC084765.9/80999-80876   AGCUGC-GCGGUGAGCACAGAGCGAACUAUUCUUUCGCCUUUUACUAAA
#=GC SS_cons             ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>>

U19467.1/274-143         AAUUUCUGUGGAGAAGAAUAAUUCUGAGUUCAAGAGGgagaugauacau
M10336.1/2-117           GAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACC............
AC004395.1/1698-1591     GAUGGCCGUGGGCCACGCAAAAUAC-CCUACUACCU-............
AC123596.12/65039-65157  GAAUACCGUGUGAGCGUCACAAUGAGUGGCAUACGUU............
AC084765.9/80999-80876   GAAUACCGUGUGCGCGCCGCAAUUAGCAGCAUACGCU............
#=GC SS_cons             >>>>>...>>>>>>>>>>>......>>>>....................

U19467.1/274-143         guauAAUUAUGGUU-GAUUUGUu.....UUGu...UAUACAUCA
M10336.1/2-117           ....AAUUUUUUGAGGCCUUGUc.....UU-....GGCAAGGCU
AC004395.1/1698-1591     ....AAUCUUUGGA-AUCAUCUa.....UC-....GACAUAGUC
AC123596.12/65039-65157  ....AGUUUUUGGAAGAGUUCUc.....UUUauggAGG-GCUCU
AC084765.9/80999-80876   ....AAUUUUUGGA-GGGAACCgacucuUUUgaggAGGUCCCCA
#=GC SS_cons             .............<.<<<<<<................>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln61.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln61.fa

AC123596.12/65039-65157  AGCCGU-GUGAUGAACACAUAGCGAACUAUUCUUUCGCCUUUUACUAAA
K03167.1/1-115           AUACUCUGGUUUCUCUUCAGAUCGCAUAAAUCUUUCGCCUUUUACUAAA
AL138766.10/46864-46746  AUACUGUGGUUUCUCUUCAGAUUGUAUGAAUCGUUUGCCUUUUACUAAA
M23811.1/5-119           AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCCCCUUUCANCAAA
K03164.1/1-115           AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUAAA
#=GC SS_cons             ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>>

AC123596.12/65039-65157  GAAUACCGUGUGAGCGUCACAAUGAGUGGCAUACGUU......AGUUUU
K03167.1/1-115           GAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAACCC......AAUUUU
AL138766.10/46864-46746  GAUUUCCAUGGAGAGGAACAACUCUGAAUACCAUGCAggacauAGGCAU
M23811.1/5-119           GAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACC......AAUUUU
K03164.1/1-115           GAUUUCCGUGGAGAGGAACAACCACGAGUGUCGUGG-......AAUUUU
#=GC SS_cons             >>>>>...>>>>>>>>>>>......>>>>....................

AC123596.12/65039-65157  UGGAAGAGUUCUcUUUauggAGG-GCUCU
K03167.1/1-115           UUGA-GCCUUGCuCC-....GACAAGGCU
AL138766.10/46864-46746  GGGCAAAGAC--.UU-....CAUGUCUAA
M23811.1/5-119           UUGA-GCCUUGUuCC-....GGCAAGGCU
K03164.1/1-115           UUGAGGCUCCGCuUC-....GGCGGAGCU
#=GC SS_cons             ...<.<<<<<<...........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln62.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln62.fa

AC005554.2/21798-21916    -UACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
AC097725.2/33800-33915    --ACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
AL034351.1/112811-112925  -UACACUGGUUUCUCUUCA..GAUCGAAUAAAUCUUUCGCCUUUUACU
AL122004.17/90967-90851   GAUCUCUGGUUUCUCUUCA..UAACGAAUAAAUCUUUCGCCUUUUACU
AC113608.3/77837-77953    AUGCUCUAGUUUCUCUUCA..GAUCAUAUAAAUCUUUUGCCUUUUACU
#=GC SS_cons              ..<<<<..<<<<<<<<<<<..........<<<<<<<<...........

AC005554.2/21798-21916    AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACAC.AAUUU
AC097725.2/33800-33915    AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAAAU-.AAUUU
AL034351.1/112811-112925  AAAGAUUUCCGUGGAGAGAAACA.AAUCA.GU-UAUAAGCU-.AAUUU
AL122004.17/90967-90851   AAAGAUUUCCGUGGAGAAAAACA.ACUAU.GAGUUUAUGGUUaAAUUU
AC113608.3/77837-77953    AAAGAGUCCCAUGGAGAGGAACA.CCUCA.GACUUUUUAAACuAAUUU
#=GC SS_cons              >>>>>>>>...>>>>>>>>>>>........>>>>..............

AC005554.2/21798-21916    UUGCU-UAGAGCC.CCGaUGGCAUUUG
AC097725.2/33800-33915    UUAGUAGUGCCCU.GU-.CGCAAGACU
AL034351.1/112811-112925  UUUGUAAGCCUUGcCCUgGGGAGGCAG
AL122004.17/90967-90851   UUUGAAGUCUUGCcUA-.GGCAAGGCU
AC113608.3/77837-77953    UUUGAGGUCUCGCuUU-.AGCAGGGCU
#=GC SS_cons              ....<.<<<<<<........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln63.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln63.fa

AL021155.1/95440-95321     -UACUCUAGUUUCUCUUCAUAUCGCAUAAAUCUUUCGCCUUUUACUA
X04215.1/1-115             AUACUCUGGUUUCUCUUCAGAUCGCAUAAAUCUUUCGCCUUUCAUCA
AL021155.1/93666-93785     AUACUCUGGUUUCUCUUCAAAUCGUAUAAAUCUUUCGCCUUUUACUA
AC083892.19/144818-144933  AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUA
AC068213.7/527-412         AUACUCUGGUUUCUCUUCAGAUCGCAUAAAUCUUUCGCCUUUUACUA
#=GC SS_cons               ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>

AL021155.1/95440-95321     AAGAUUUCCGUGGAGAGGAAUAAUUCUGAGUUUUAAACCAAUUUUUU
X04215.1/1-115             AAGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAACCCAAUUUUUU
AL021155.1/93666-93785     AAGAUUUCCGUGGAGAGAAACGAGUGUGAGUCUGAAACCAAUUUUUU
AC083892.19/144818-144933  AAGAUUUCCGUGGAGAGGAACAAUUCUGAGUCUUACACUAAUUUUUU
AC068213.7/527-412         AAGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAACCCAAUUUUUU
#=GC SS_cons               >>>>>>>...>>>>>>>>>>>......>>>>................

AL021155.1/95440-95321     aGAGGUCUUGCauuUUUu..AGCAAGGCU
X04215.1/1-115             .GA-GCCUUGCc..UU-...GGCAAGGCU
AL021155.1/93666-93785     .GAGGCCUUGCg..UUUcuuAGCAGGGCU
AC083892.19/144818-144933  .GAGGCCUUGCu..UU-...AGCAAGGCU
AC068213.7/527-412         .GAGGCCUUGCu..UU-...GGCAAGGCU
#=GC SS_cons               ..<.<<<<<<............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln64.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln64.fa

AC010707.16/95419-95302   AUcACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUAC
K03164.1/1-115            AU.ACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUAC
M23822.1/5-119            AU.ACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCCCCUUUCAN
M10270.1/1-117            AU.ACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUAC
AC102945.2/126759-126873  AU.ACUCUGGUUUCUCUUCA..GAUCAUACAAAUCUCUCACCUUUUAC
#=GC SS_cons              ...<<<<..<<<<<<<<<<<..........<<<<<<<<..........

AC010707.16/95419-95302   UAAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACACAAUUU
K03164.1/1-115            UAAAGAUUUCCGUGGAGAGGAACA.ACCAC.GAGUGUCGUGG-AAUUU
M23822.1/5-119            CAAAGAUUUCCGUGGAGAGGAAUA.ACUCU.GAGUCUUAAGCUAAUUU
M10270.1/1-117            NAAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAACCAAUUU
AC102945.2/126759-126873  UAAAGAUUUCUUCAGAGAGUAAUA.AUUCU.AAGUCUUAACCCAAUUU
#=GC SS_cons              .>>>>>>>>...>>>>>>>>>>>........>>>>.............

AC010707.16/95419-95302   UUUAUUGAGGCCU.---.GAUAACUUA
K03164.1/1-115            UUUGAGGCUCCGCuUC-.GGCGGAGCU
M23822.1/5-119            UUUGA-GCCUUGCuCC-.GACAAGGCU
M10270.1/1-117            UUUGAGGCCUUGU.CUUgAGCAAGGCU
AC102945.2/126759-126873  UUGAG-GCCCUGCaUCU.-GCAAGGCU
#=GC SS_cons              ....<.<<<<<<........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln65.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln65.fa

AL034351.1/112811-112925  -UACACUGGUUUCUCUUCAGAUCGAAUAAAUCUUUCGCCUUUUACUAA
M10270.1/1-117            AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACNAA
X04213.1/1-115            AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUCAUCAA
X01691.1/1-115            AUACUCUGGUUUCUCUUCAGAUCGCAUAAAUCUUUCGCCUUUUACUAA
AC105129.4/181079-180964  AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUAA
#=GC SS_cons              ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>

AL034351.1/112811-112925  AGAUUUCCGUGGAGAGAAACAAAUCAGU-UAUAAGCU-AAUUUUUUGU
M10270.1/1-117            AGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACCAAUUUUUUGA
X04213.1/1-115            AGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACCAAUUUUUUGA
X01691.1/1-115            AGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAACCCAAUUUUUUGA
AC105129.4/181079-180964  AGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAGCUAAUUUUUUGA
#=GC SS_cons              >>>>>>...>>>>>>>>>>>......>>>>.................<

AL034351.1/112811-112925  AAGCCUUGcCCUgGGGAGGCAG
M10270.1/1-117            GGCCUUGU.CUUgAGCAAGGCU
X04213.1/1-115            -GCCUUGUuCC-.GGCAAGGCU
X01691.1/1-115            -GCCUUGCcUU-.GGCAAGGCU
AC105129.4/181079-180964  GGCCUUGUuCC-.GACAAGGCU
#=GC SS_cons              .<<<<<<........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln66.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln66.fa

AC142391.2/39088-39198  AUACUCUGGUUUCUCUUCA..GAU.CAUAUAAAUCUUUCACCUUUUACUA
AC068213.7/527-412      AUACUCUGGUUUCUCUUCA..GAU.CGCAUAAAUCUUUCGCCUUUUACUA
AC124037.5/99823-99938  AUACUCUGGUUUCUCUUCA..GAU.CGUAUAAAUCUUUCGCCUUUUACUA
X06020.1/401-516        AUACUCUGGUUUCUCUUCA..AAUuCGAAUAAAUCUUUCGCCUUUUACUA
AC005554.2/21798-21916  -UACUCUGGUUUCUCUUCAauUGU.CGAAUAAAUCUUUCGCCUUUUACUA
#=GC SS_cons            ..<<<<..<<<<<<<<<<<...........<<<<<<<<...........>

AC142391.2/39088-39198  AAGAUUCCUGUGGAGAGU----.-UUUU.GAGUUUUUAGCUAAUUUUUUG
AC068213.7/527-412      AAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAACCCAAUUUUUUG
AC124037.5/99823-99938  AAGAUUUCCGUGGAGAGGAACA.AUUCU.GAGUCUUAACCCAAUUUUUUG
X06020.1/401-516        AAGAUUUCCGUGGAGAGGAACG.ACCAU.GAGUUUCGUUC-AAUUUUUUG
AC005554.2/21798-21916  AAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACACAAUUUUUGC
#=GC SS_cons            >>>>>>>...>>>>>>>>>>>........>>>>.................

AC142391.2/39088-39198  A-GCCUUUGcUUU.AGCAAGGCU
AC068213.7/527-412      AGGCCUUGCuUU-.GGCAAGGCU
AC124037.5/99823-99938  AGGUCCUGC.UCGu-GCAGGGCU
X06020.1/401-516        AAGCCUGGUuCA-.CACCAGGUA
AC005554.2/21798-21916  U-UAGAGCC.CCGaUGGCAUUUG
#=GC SS_cons            <.<<<<<<........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln67.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln67.fa

M29240.1/2-114            AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGGC-UUUAC-
AE003414.1/48847-48723    --ACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
M10336.1/2-117            AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUACU
AC006287.1/102148-102034  AUUCUCCAGUUUCUUUUCA..GAUCAGAUAAAUUUUUCUCCUUUUACU
K00783.1/2-117            AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUAUC
#=GC SS_cons              ..<<<<..<<<<<<<<<<<..........<<<<<<<<...........

M29240.1/2-114            AAAGA-UUCCGUGGAGAGGAACA.AUUCU.GAGUCUUAAACC.AAUUU
AE003414.1/48847-48723    AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAAAUAuUAUUU
M10336.1/2-117            AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAACC.AAUUU
AC006287.1/102148-102034  AAUGAUUUUCAUGAAGAGGAACA.ACUCU.GAGUCUUAAAUC.AAUUU
K00783.1/2-117            AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAACC.AAUUU
#=GC SS_cons              >>>>>>>>...>>>>>>>>>>>........>>>>..............

M29240.1/2-114            UUUGAGGUUCUGCu..CC-...AACAAGGCU
AE003414.1/48847-48723    UGUAGUGCCCGGCgacUUUgguAACUGGGCC
M10336.1/2-117            UUUGAGGCCUUGUc..UU-...GGCAAGGCU
AC006287.1/102148-102034  UUGAG-GCCUUAUu..UU-...GGCAAGGGU
K00783.1/2-117            UUUGAGGCCUUGUc..UU-...GACAAGGCU
#=GC SS_cons              ....<.<<<<<<............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln68.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln68.fa

X01691.1/1-115            AUACUCUGGUUUCUCUUCA..GAUCGCAUAAAUCUUUCGCCUUUUACU
AC005719.2/126122-125996  --ACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
AC142391.2/39088-39198    AUACUCUGGUUUCUCUUCA..GAUCAUAUAAAUCUUUCACCUUUUACU
AL021155.1/95440-95321    -UACUCUAGUUUCUCUUCA..UAUCGCAUAAAUCUUUCGCCUUUUACU
K00783.1/2-117            AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUAUC
#=GC SS_cons              ..<<<<..<<<<<<<<<<<..........<<<<<<<<...........

X01691.1/1-115            AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAACCCAAUUUU
AC005719.2/126122-125996  AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACACAAUUUU
AC142391.2/39088-39198    AAAGAUUCCUGUGGAGAGU----.-UUUU.GAGUUUUUAGCUAAUUUU
AL021155.1/95440-95321    AAAGAUUUCCGUGGAGAGGAAUA.AUUCU.GAGUUUUAAACCAAUUUU
K00783.1/2-117            AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAACCAAUUUU
#=GC SS_cons              >>>>>>>>...>>>>>>>>>>>........>>>>..............

X01691.1/1-115            U..U.GA-GCCUUGCc..UU-.....GGCAAGGCU
AC005719.2/126122-125996  UauU.GA-GGCCUGAuaaCUUaugcuAUCGGGCCA
AC142391.2/39088-39198    U..U.GA-GCCUUUGc..UUU.....AGCAAGGCU
AL021155.1/95440-95321    U..UaGAGGUCUUGCauuUUUu....AGCAAGGCU
K00783.1/2-117            U..U.GAGGCCUUGUc..UU-.....GACAAGGCU
#=GC SS_cons              ......<.<<<<<<..............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln69.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln69.fa

AC068303.10/12902-12788  -AACUCUUGUUUCUCUUCAGAUCAUGUAAAUCUUUCGCCUUUUAUUAAA
X01691.1/1-115           AUACUCUGGUUUCUCUUCAGAUCGCAUAAAUCUUUCGCCUUUUACUAAA
AL021155.1/95440-95321   -UACUCUAGUUUCUCUUCAUAUCGCAUAAAUCUUUCGCCUUUUACUAAA
M23811.1/5-119           AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCCCCUUUCANCAAA
AL122004.17/90967-90851  GAUCUCUGGUUUCUCUUCAUAACGAAUAAAUCUUUCGCCUUUUACUAAA
#=GC SS_cons             ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>>

AC068303.10/12902-12788  GAUUUCCAUGGGGAGGAACAGUUAUGAGUCUUUAUCC.AAUUUCUG.AG
X01691.1/1-115           GAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAACCC.AAUUUUUU.GA
AL021155.1/95440-95321   GAUUUCCGUGGAGAGGAAUAAUUCUGAGUUUUAAACC.AAUUUUUUaGA
M23811.1/5-119           GAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACC.AAUUUUUU.GA
AL122004.17/90967-90851  GAUUUCCGUGGAGAAAAACAACUAUGAGUUUAUGGUUaAAUUUUUU.GA
#=GC SS_cons             >>>>>...>>>>>>>>>>>......>>>>...................<

AC068303.10/12902-12788  -GCCUCGUg..UUU.CACCAGGCU
X01691.1/1-115           -GCCUUGCc..UU-.GGCAAGGCU
AL021155.1/95440-95321   GGUCUUGCauuUUUuAGCAAGGCU
M23811.1/5-119           -GCCUUGUu..CC-.GGCAAGGCU
AL122004.17/90967-90851  AGUCUUGCc..UA-.GGCAAGGCU
#=GC SS_cons             .<<<<<<..........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln70.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln70.fa

K03164.1/1-115            AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUAA
AC124037.5/112409-112524  AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUAA
AC006287.1/102148-102034  AUUCUCCAGUUUCUUUUCAGAUCAGAUAAAUUUUUCUCCUUUUACUAA
M23811.1/5-119            AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCCCCUUUCANCAA
AL021155.1/93666-93785    AUACUCUGGUUUCUCUUCAAAUCGUAUAAAUCUUUCGCCUUUUACUAA
#=GC SS_cons              ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>

K03164.1/1-115            AGAUUUCCGUGGAGAGGAACAACCACGAGUGUCGUGG-AAUUUUUUGA
AC124037.5/112409-112524  AGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAACUCAAUUUUUUGA
AC006287.1/102148-102034  UGAUUUUCAUGAAGAGGAACAACUCUGAGUCUUAAAUCAAUUUUUGAG
M23811.1/5-119            AGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACCAAUUUUUUGA
AL021155.1/93666-93785    AGAUUUCCGUGGAGAGAAACGAGUGUGAGUCUGAAACCAAUUUUUUGA
#=GC SS_cons              >>>>>>...>>>>>>>>>>>......>>>>.................<

K03164.1/1-115            GGCUCCGCuUC-...GGCGGAGCU
AC124037.5/112409-112524  GGUCCUGCcUACc..--CAGGACU
AC006287.1/102148-102034  -GCCUUAUuUU-...GGCAAGGGU
M23811.1/5-119            -GCCUUGUuCC-...GGCAAGGCU
AL021155.1/93666-93785    GGCCUUGCgUUUcuuAGCAGGGCU
#=GC SS_cons              .<<<<<<..........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln71.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln71.fa

X04213.1/1-115            AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUCAUC
AC097725.2/33800-33915    --ACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
AC124037.5/120725-120840  AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUACU
K00783.1/2-117            AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUAUC
K03170.1/1-115            AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUACU
#=GC SS_cons              ..<<<<..<<<<<<<<<<<..........<<<<<<<<...........

X04213.1/1-115            AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAACCAAUUUU
AC097725.2/33800-33915    AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAAAU-AAUUUU
AC124037.5/120725-120840  AAAGAUUUCCGUGGAGAGGAACA.AAUCU.GAGUCUUAACCCAAUUUU
K00783.1/2-117            AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAACCAAUUUU
K03170.1/1-115            AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAACCAAUUUU
#=GC SS_cons              >>>>>>>>...>>>>>>>>>>>........>>>>..............

X04213.1/1-115            UUGA-GCCUUGUuCC-GGCAAGGCU
AC097725.2/33800-33915    UAGUAGUGCCCU.GU-CGCAAGACU
AC124037.5/120725-120840  UUGAGGUCUUGUgCUU-ACAAGACU
K00783.1/2-117            UUGAGGCCUUGUcUU-GACAAGGCU
K03170.1/1-115            UUGA-GCCUUGUuCC-GACAAGGCU
#=GC SS_cons              ...<.<<<<<<.......>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln72.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln72.fa

M77839.1/1-120            NNACUCUGGUUUCUCUUCA..AAUCGUAUAAAUCUUUCGCCUUUUACU
AE003414.1/48847-48723    --ACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
AL021155.1/95440-95321    -UACUCUAGUUUCUCUUCA..UAUCGCAUAAAUCUUUCGCCUUUUACU
AC124037.5/120725-120840  AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUACU
AC005554.2/21798-21916    -UACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
#=GC SS_cons              ..<<<<..<<<<<<<<<<<..........<<<<<<<<...........

M77839.1/1-120            AAAGAUUUCCGUGGAGAGAAACG.AGUGU.GAGUCUGAAACC.AAUUU
AE003414.1/48847-48723    AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAAAUAuUAUUU
AL021155.1/95440-95321    AAAGAUUUCCGUGGAGAGGAAUA.AUUCU.GAGUUUUAAACC.AAUUU
AC124037.5/120725-120840  AAAGAUUUCCGUGGAGAGGAACA.AAUCU.GAGUCUUAACCC.AAUUU
AC005554.2/21798-21916    AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACAC.AAUUU
#=GC SS_cons              >>>>>>>>...>>>>>>>>>>>........>>>>..............

M77839.1/1-120            UUU.GAGGCCUUGCguuUUUu..AGCAGGGCU
AE003414.1/48847-48723    UGU.AGUGCCCGGCgacUUUgguAACUGGGCC
AL021155.1/95440-95321    UUUaGAGGUCUUGCauuUUUu..AGCAAGGCU
AC124037.5/120725-120840  UUU.GAGGUCUUGUg..CUU...-ACAAGACU
AC005554.2/21798-21916    UUG.CU-UAGAGCC...CCGa..UGGCAUUUG
#=GC SS_cons              .....<.<<<<<<............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln73.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln73.fa

M10270.1/1-117           AU.ACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUACN
AL021155.1/95440-95321   -U.ACUCUAGUUUCUCUUCA..UAUCGCAUAAAUCUUUCGCCUUUUACU
AC010707.16/95419-95302  AUcACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
M77840.1/1-117           NA.UCUCUGGUUUCUCUUCA..UAACGAAUAAAUCUUUUGCCUUUUACU
AC112161.9/43555-43670   AU.ACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUACU
#=GC SS_cons             ...<<<<..<<<<<<<<<<<..........<<<<<<<<...........

M10270.1/1-117           AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAACC.AAUUUU
AL021155.1/95440-95321   AAAGAUUUCCGUGGAGAGGAAUA.AUUCU.GAGUUUUAAACC.AAUUUU
AC010707.16/95419-95302  AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACAC.AAUUUU
M77840.1/1-117           AAAGAUUUCCGUGGAGAGAAACA.ACUAU.GAGUUUAUGGUUaAAUUUU
AC112161.9/43555-43670   AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAACC.AAUUUU
#=GC SS_cons             >>>>>>>>...>>>>>>>>>>>........>>>>...............

M10270.1/1-117           UU.GAGGCCUUGU...CUUgAGCAAGGCU
AL021155.1/95440-95321   UUaGAGGUCUUGCauuUUUuAGCAAGGCU
AC010707.16/95419-95302  UU.AUUGAGGCCU...---.GAUAACUUA
M77840.1/1-117           UU.GAAGUCUUGCc..UA-.GGCAAGGCU
AC112161.9/43555-43670   UU.GAGGCCUUGUu..UC-.GACAAGGCU
#=GC SS_cons             ....<.<<<<<<..........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln74.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln74.fa

AC010707.16/95419-95302   AUcACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUAC
X04213.1/1-115            AU.ACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUCAU
AC105129.4/181079-180964  AU.ACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUAC
X01691.1/1-115            AU.ACUCUGGUUUCUCUUCA..GAUCGCAUAAAUCUUUCGCCUUUUAC
AC005719.2/130462-130570  -U.ACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUAC
#=GC SS_cons              ...<<<<..<<<<<<<<<<<..........<<<<<<<<..........

AC010707.16/95419-95302   UAAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACACAAUUU
X04213.1/1-115            CAAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAACCAAUUU
AC105129.4/181079-180964  UAAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAGCUAAUUU
X01691.1/1-115            UAAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAACCCAAUUU
AC005719.2/130462-130570  UAAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACUCAAUUU
#=GC SS_cons              .>>>>>>>>...>>>>>>>>>>>........>>>>.............

AC010707.16/95419-95302   UUUAUUGAGGCCU.--GAUAACUUA
X04213.1/1-115            UUUGA-GCCUUGUuCCGGCAAGGCU
AC105129.4/181079-180964  UUUGAGGCCUUGUuCCGACAAGGCU
X01691.1/1-115            UUUGA-GCCUUGCcUUGGCAAGGCU
AC005719.2/130462-130570  UUGUAUGAC----.CU-----GGCU
#=GC SS_cons              ....<.<<<<<<......>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln75.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln75.fa

AE003414.1/48847-48723    --ACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
AC102945.2/126759-126873  AUACUCUGGUUUCUCUUCA..GAUCAUACAAAUCUCUCACCUUUUACU
AL034351.1/112811-112925  -UACACUGGUUUCUCUUCA..GAUCGAAUAAAUCUUUCGCCUUUUACU
AC142391.2/39088-39198    AUACUCUGGUUUCUCUUCA..GAUCAUAUAAAUCUUUCACCUUUUACU
AC009340.4/34027-34152    -UACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
#=GC SS_cons              ..<<<<..<<<<<<<<<<<..........<<<<<<<<...........

AE003414.1/48847-48723    AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAAAUAuUAUUU
AC102945.2/126759-126873  AAAGAUUUCUUCAGAGAGUAAUA.AUUCU.AAGUCUUAACCC.AAUUU
AL034351.1/112811-112925  AAAGAUUUCCGUGGAGAGAAACA.AAUCA.GU-UAUAAGCU-.AAUUU
AC142391.2/39088-39198    AAAGAUUCCUGUGGAGAGU----.-UUUU.GAGUUUUUAGCU.AAUUU
AC009340.4/34027-34152    AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAAAU-.AAUCU
#=GC SS_cons              >>>>>>>>...>>>>>>>>>>>........>>>>..............

AE003414.1/48847-48723    UGUAG..UGCCCGGCgacUUUggu.AACUGGGCC
AC102945.2/126759-126873  UUGAG..-GCCCUGCa..UCU....-GCAAGGCU
AL034351.1/112811-112925  UUUGU..AAGCCUUGc..CCUg...GGGAGGCAG
AC142391.2/39088-39198    UUUGA..-GCCUUUGc..UUU....AGCAAGGCU
AC009340.4/34027-34152    UUUGUagUGCCCGGCga.CUUcgguAGCUGGGCC
#=GC SS_cons              ....<...<<<<<<.............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln76.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln76.fa

K03167.1/1-115            AUACUCUGGUUUCUCUUCA..GAUCGCAUAAAUCUUUCGCCUUUUACU
M10336.1/2-117            AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUACU
M23820.1/5-119            AUACUCUGGUUUCUCUUCA..GAUCGCAUAAAUCUUUCCCCUUUCANC
X04293.1/1-115            AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUCAUC
AC005719.2/130462-130570  -UACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
#=GC SS_cons              ..<<<<..<<<<<<<<<<<..........<<<<<<<<...........

K03167.1/1-115            AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAACCCAAUUUU
M10336.1/2-117            AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAACCAAUUUU
M23820.1/5-119            AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAACCCAAUUUU
X04293.1/1-115            AAAGAUUUCCGUGGAGAGGAAUA.ACUCU.GAGUCUUAAGCUAAUUUU
AC005719.2/130462-130570  AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACUCAAUUUU
#=GC SS_cons              >>>>>>>>...>>>>>>>>>>>........>>>>..............

K03167.1/1-115            UUGA-GCCUUGCuCCGACAAGGCU
M10336.1/2-117            UUGAGGCCUUGUcUUGGCAAGGCU
M23820.1/5-119            UUGA-GCCUUGCcUUGGCAAGGCU
X04293.1/1-115            UUGA-GCCUUGCuCCGACAAGGCU
AC005719.2/130462-130570  UGUAUGAC----.CU-----GGCU
#=GC SS_cons              ...<.<<<<<<......>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln77.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln77.fa

AC124037.5/112409-112524  AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUACU
M23822.1/5-119            AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCCCCUUUCANC
AE003414.1/48847-48723    --ACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
AC009340.4/34027-34152    -UACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
AC006287.1/102148-102034  AUUCUCCAGUUUCUUUUCA..GAUCAGAUAAAUUUUUCUCCUUUUACU
#=GC SS_cons              ..<<<<..<<<<<<<<<<<..........<<<<<<<<...........

AC124037.5/112409-112524  AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAACUC.AAUUU
M23822.1/5-119            AAAGAUUUCCGUGGAGAGGAAUA.ACUCU.GAGUCUUAAGCU.AAUUU
AE003414.1/48847-48723    AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAAAUAuUAUUU
AC009340.4/34027-34152    AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAAAU-.AAUCU
AC006287.1/102148-102034  AAUGAUUUUCAUGAAGAGGAACA.ACUCU.GAGUCUUAAAUC.AAUUU
#=GC SS_cons              >>>>>>>>...>>>>>>>>>>>........>>>>..............

AC124037.5/112409-112524  UUUGA..GGUCCUGCc..UACc...--CAGGACU
M23822.1/5-119            UUUGA..-GCCUUGCu..CC-....GACAAGGCU
AE003414.1/48847-48723    UGUAG..UGCCCGGCgacUUUggu.AACUGGGCC
AC009340.4/34027-34152    UUUGUagUGCCCGGCga.CUUcgguAGCUGGGCC
AC006287.1/102148-102034  UUGAG..-GCCUUAUu..UU-....GGCAAGGGU
#=GC SS_cons              ....<...<<<<<<.............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln78.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln78.fa

AC124037.5/112409-112524  AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUAA
M23820.1/5-119            AUACUCUGGUUUCUCUUCAGAUCGCAUAAAUCUUUCCCCUUUCANCAA
AL122004.17/90967-90851   GAUCUCUGGUUUCUCUUCAUAACGAAUAAAUCUUUCGCCUUUUACUAA
AC112161.9/43555-43670    AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUAA
K00783.1/2-117            AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUAUCAA
#=GC SS_cons              ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>

AC124037.5/112409-112524  AGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAACUC.AAUUUUUUG
M23820.1/5-119            AGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAACCC.AAUUUUUUG
AL122004.17/90967-90851   AGAUUUCCGUGGAGAAAAACAACUAUGAGUUUAUGGUUaAAUUUUUUG
AC112161.9/43555-43670    AGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACC.AAUUUUUUG
K00783.1/2-117            AGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACC.AAUUUUUUG
#=GC SS_cons              >>>>>>...>>>>>>>>>>>......>>>>..................

AC124037.5/112409-112524  AGGUCCUGCcUACc--CAGGACU
M23820.1/5-119            A-GCCUUGCcUU-.GGCAAGGCU
AL122004.17/90967-90851   AAGUCUUGCcUA-.GGCAAGGCU
AC112161.9/43555-43670    AGGCCUUGUuUC-.GACAAGGCU
K00783.1/2-117            AGGCCUUGUcUU-.GACAAGGCU
#=GC SS_cons              <.<<<<<<........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln79.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln79.fa

M23822.1/5-119          AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCCCCUUUCANCAA
X01692.1/1-115          AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUACUAA
AC124037.5/99823-99938  AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUACUAA
AC009340.4/34027-34152  -UACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACUAA
AC097725.2/33800-33915  --ACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACUAA
#=GC SS_cons            ..<<<<..<<<<<<<<<<<..........<<<<<<<<...........>>

M23822.1/5-119          AGAUUUCCGUGGAGAGGAAUA.ACUCU.GAGUCUUAAGCUAAUUUUUUGA
X01692.1/1-115          AGAUUUCCGUGGAGAGGAACA.ACCAC.GAGUGUCGUGG-AAUUUUUUGA
AC124037.5/99823-99938  AGAUUUCCGUGGAGAGGAACA.AUUCU.GAGUCUUAACCCAAUUUUUUGA
AC009340.4/34027-34152  AGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAAAU-AAUCUUUUGU
AC097725.2/33800-33915  AGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAAAU-AAUUUUUAGU
#=GC SS_cons            >>>>>>...>>>>>>>>>>>........>>>>.................<

M23822.1/5-119          ..-GCCUUGCu.CC-....GACAAGGCU
X01692.1/1-115          ..GGCUCCGCu.UC-....GACGGAGCU
AC124037.5/99823-99938  ..GGUCCUGC..UCGu...-GCAGGGCU
AC009340.4/34027-34152  agUGCCCGGCgaCUUcgguAGCUGGGCC
AC097725.2/33800-33915  ..AGUGCCCU..GU-....CGCAAGACU
#=GC SS_cons            ...<<<<<<............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln80.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln80.fa

M23820.1/5-119             AUACUCUGGUUUCUCUUCAGAUCGCAUAAAUCUUUCCCCUUUCANCA
AC083892.19/144818-144933  AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUA
AC124037.5/112409-112524   AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUA
X04213.1/1-115             AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUCAUCA
AL021155.1/93666-93785     AUACUCUGGUUUCUCUUCAAAUCGUAUAAAUCUUUCGCCUUUUACUA
#=GC SS_cons               ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>

M23820.1/5-119             AAGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAACCCAAUUUUUU
AC083892.19/144818-144933  AAGAUUUCCGUGGAGAGGAACAAUUCUGAGUCUUACACUAAUUUUUU
AC124037.5/112409-112524   AAGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAACUCAAUUUUUU
X04213.1/1-115             AAGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACCAAUUUUUU
AL021155.1/93666-93785     AAGAUUUCCGUGGAGAGAAACGAGUGUGAGUCUGAAACCAAUUUUUU
#=GC SS_cons               >>>>>>>...>>>>>>>>>>>......>>>>................

M23820.1/5-119             GA-GCCUUGCcUU-...GGCAAGGCU
AC083892.19/144818-144933  GAGGCCUUGCuUU-...AGCAAGGCU
AC124037.5/112409-112524   GAGGUCCUGCcUACc..--CAGGACU
X04213.1/1-115             GA-GCCUUGUuCC-...GGCAAGGCU
AL021155.1/93666-93785     GAGGCCUUGCgUUUcuuAGCAGGGCU
#=GC SS_cons               .<.<<<<<<..........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln81.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln81.fa

X01692.1/1-115  AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUAAAGAUUUCCGU
X04293.1/1-115  AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUCAUCAAAGAUUUCCGU
K00783.1/2-117  AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUAUCAAAGAUUUCCGU
M23820.1/5-119  AUACUCUGGUUUCUCUUCAGAUCGCAUAAAUCUUUCCCCUUUCANCAAAGAUUUCCGU
X01691.1/1-115  AUACUCUGGUUUCUCUUCAGAUCGCAUAAAUCUUUCGCCUUUUACUAAAGAUUUCCGU
#=GC SS_cons    ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>>>>>>>...>

X01692.1/1-115  GGAGAGGAACAACCACGAGUGUCGUGG-AAUUUUUUGAGGCUCCGCuUCGACGGAGCU
X04293.1/1-115  GGAGAGGAAUAACUCUGAGUCUUAAGCUAAUUUUUUGA-GCCUUGCuCCGACAAGGCU
K00783.1/2-117  GGAGAGGAACAACUCUGAGUCUUAAACCAAUUUUUUGAGGCCUUGUcUUGACAAGGCU
M23820.1/5-119  GGAGAGGAACAACUCUGAGUCUUAACCCAAUUUUUUGA-GCCUUGCcUUGGCAAGGCU
X01691.1/1-115  GGAGAGGAACAACUCUGAGUCUUAACCCAAUUUUUUGA-GCCUUGCcUUGGCAAGGCU
#=GC SS_cons    >>>>>>>>>>......>>>>.................<.<<<<<<......>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln82.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln82.fa

M23820.1/5-119            AUACUCUGGUUUCUCUUCAGAUCGCAUAAAUCUUUCCCCUUUCANCAA
AC105129.4/181079-180964  AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUAA
AL365317.22/27453-27338   AUACUCUGGUUUCUCUUCAGAUCGUACAAAUCUUUCGCCUUUUACUAA
M23811.1/5-119            AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCCCCUUUCANCAA
K03164.1/1-115            AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUAA
#=GC SS_cons              ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>

M23820.1/5-119            AGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAACCCAAUUUUUUGA
AC105129.4/181079-180964  AGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAGCUAAUUUUUUGA
AL365317.22/27453-27338   AGAUUUCCGUGGAGAGGAACAUAUCUGAGUCAUUACC-AAUUUUUUGA
M23811.1/5-119            AGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACCAAUUUUUUGA
K03164.1/1-115            AGAUUUCCGUGGAGAGGAACAACCACGAGUGUCGUGG-AAUUUUUUGA
#=GC SS_cons              >>>>>>...>>>>>>>>>>>......>>>>.................<

M23820.1/5-119            -GCCUUGCcUU-.GGCAAGGCU
AC105129.4/181079-180964  GGCCUUGUuCC-.GACAAGGCU
AL365317.22/27453-27338   GGUCUUGCuUCUu-GCAAGGCU
M23811.1/5-119            -GCCUUGUuCC-.GGCAAGGCU
K03164.1/1-115            GGCUCCGCuUC-.GGCGGAGCU
#=GC SS_cons              .<<<<<<........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln83.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln83.fa

AC112161.9/43555-43670    AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUAA
K03164.1/1-115            AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUAA
AC124037.5/112409-112524  AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUAA
M77840.1/1-117            NAUCUCUGGUUUCUCUUCAUAACGAAUAAAUCUUUUGCCUUUUACUAA
AC102945.2/126759-126873  AUACUCUGGUUUCUCUUCAGAUCAUACAAAUCUCUCACCUUUUACUAA
#=GC SS_cons              ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>

AC112161.9/43555-43670    AGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACC.AAUUUUUUG
K03164.1/1-115            AGAUUUCCGUGGAGAGGAACAACCACGAGUGUCGUGG-.AAUUUUUUG
AC124037.5/112409-112524  AGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAACUC.AAUUUUUUG
M77840.1/1-117            AGAUUUCCGUGGAGAGAAACAACUAUGAGUUUAUGGUUaAAUUUUUUG
AC102945.2/126759-126873  AGAUUUCUUCAGAGAGUAAUAAUUCUAAGUCUUAACCC.AAUUUUUGA
#=GC SS_cons              >>>>>>...>>>>>>>>>>>......>>>>..................

AC112161.9/43555-43670    AGGCCUUGUuUC-.GACAAGGCU
K03164.1/1-115            AGGCUCCGCuUC-.GGCGGAGCU
AC124037.5/112409-112524  AGGUCCUGCcUACc--CAGGACU
M77840.1/1-117            AAGUCUUGCcUA-.GGCAAGGCU
AC102945.2/126759-126873  G-GCCCUGCaUCU.-GCAAGGCU
#=GC SS_cons              <.<<<<<<........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln84.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln84.fa

M23822.1/5-119             AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCCCCUUUCAN
X04213.1/1-115             AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUCAU
AC083892.19/144818-144933  AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUAC
AC005719.2/126122-125996   --ACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUAC
X04293.1/1-115             AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUCAU
#=GC SS_cons               ..<<<<..<<<<<<<<<<<..........<<<<<<<<..........

M23822.1/5-119             CAAAGAUUUCCGUGGAGAGGAAUA.ACUCU.GAGUCUUAAGCUAAUU
X04213.1/1-115             CAAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAACCAAUU
AC083892.19/144818-144933  UAAAGAUUUCCGUGGAGAGGAACA.AUUCU.GAGUCUUACACUAAUU
AC005719.2/126122-125996   UAAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACACAAUU
X04293.1/1-115             CAAAGAUUUCCGUGGAGAGGAAUA.ACUCU.GAGUCUUAAGCUAAUU
#=GC SS_cons               .>>>>>>>>...>>>>>>>>>>>........>>>>............

M23822.1/5-119             UUU..UGA-GCCUUGCu..CC-.....GACAAGGCU
X04213.1/1-115             UUU..UGA-GCCUUGUu..CC-.....GGCAAGGCU
AC083892.19/144818-144933  UUU..UGAGGCCUUGCu..UU-.....AGCAAGGCU
AC005719.2/126122-125996   UUUauUGA-GGCCUGAuaaCUUaugcuAUCGGGCCA
X04293.1/1-115             UUU..UGA-GCCUUGCu..CC-.....GACAAGGCU
#=GC SS_cons               .......<.<<<<<<..............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln85.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln85.fa

K00783.1/2-117          AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUAUCAAAG
M23820.1/5-119          AUACUCUGGUUUCUCUUCAGAUCGCAUAAAUCUUUCCCCUUUCANCAAAG
K03170.1/1-115          AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUAAAG
AC112161.9/38431-38546  AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUAAAG
AC113608.3/77837-77953  AUGCUCUAGUUUCUCUUCAGAUCAUAUAAAUCUUUUGCCUUUUACUAAAG
#=GC SS_cons            ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>>>

K00783.1/2-117          AUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACC.AAUUUUUUGAGGC
M23820.1/5-119          AUUUCCGUGGAGAGGAACAACUCUGAGUCUUAACCC.AAUUUUUUGA-GC
K03170.1/1-115          AUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACC.AAUUUUUUGA-GC
AC112161.9/38431-38546  AUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACC.AAUUUUUUGAGGC
AC113608.3/77837-77953  AGUCCCAUGGAGAGGAACACCUCAGACUUUUUAAACuAAUUUUUUGAGGU
#=GC SS_cons            >>>>...>>>>>>>>>>>......>>>>..................<.<<

K00783.1/2-117          CUUGUcUUGACAAGGCU
M23820.1/5-119          CUUGCcUUGGCAAGGCU
K03170.1/1-115          CUUGUuCCGACAAGGCU
AC112161.9/38431-38546  CUUGUcUUGACAAGGCU
AC113608.3/77837-77953  CUCGCuUUAGCAGGGCU
#=GC SS_cons            <<<<......>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln86.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln86.fa

AL021155.1/93666-93785    AUACUCUGGUUUCUCUUCAAAUCGUAUAAAUCUUUCGCCUUUUACUAA
AC068213.7/527-412        AUACUCUGGUUUCUCUUCAGAUCGCAUAAAUCUUUCGCCUUUUACUAA
M10270.1/1-117            AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACNAA
K03167.1/1-115            AUACUCUGGUUUCUCUUCAGAUCGCAUAAAUCUUUCGCCUUUUACUAA
AC124037.5/120725-120840  AUACUCUGGUUUCUCUUCAGAUCGUAUAAAUCUUUCGCCUUUUACUAA
#=GC SS_cons              ..<<<<..<<<<<<<<<<<........<<<<<<<<...........>>

AL021155.1/93666-93785    AGAUUUCCGUGGAGAGAAACGAGUGUGAGUCUGAAACCAAUUUUUUGA
AC068213.7/527-412        AGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAACCCAAUUUUUUGA
M10270.1/1-117            AGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACCAAUUUUUUGA
K03167.1/1-115            AGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAACCCAAUUUUUUGA
AC124037.5/120725-120840  AGAUUUCCGUGGAGAGGAACAAAUCUGAGUCUUAACCCAAUUUUUUGA
#=GC SS_cons              >>>>>>...>>>>>>>>>>>......>>>>.................<

AL021155.1/93666-93785    GGCCUUGCgUUUcuuAGCAGGGCU
AC068213.7/527-412        GGCCUUGCuUU-...GGCAAGGCU
M10270.1/1-117            GGCCUUGU.CUUg..AGCAAGGCU
K03167.1/1-115            -GCCUUGCuCC-...GACAAGGCU
AC124037.5/120725-120840  GGUCUUGUgCUU...-ACAAGACU
#=GC SS_cons              .<<<<<<..........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln87.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln87.fa

AC105129.4/181079-180964  AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUACU
AC112161.9/38431-38546    AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUACU
K03167.1/1-115            AUACUCUGGUUUCUCUUCA..GAUCGCAUAAAUCUUUCGCCUUUUACU
X04215.1/1-115            AUACUCUGGUUUCUCUUCA..GAUCGCAUAAAUCUUUCGCCUUUCAUC
AC005719.2/126122-125996  --ACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
#=GC SS_cons              ..<<<<..<<<<<<<<<<<..........<<<<<<<<...........

AC105129.4/181079-180964  AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAGCUAAUUUU
AC112161.9/38431-38546    AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAACCAAUUUU
K03167.1/1-115            AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAACCCAAUUUU
X04215.1/1-115            AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAACCCAAUUUU
AC005719.2/126122-125996  AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACACAAUUUU
#=GC SS_cons              >>>>>>>>...>>>>>>>>>>>........>>>>..............

AC105129.4/181079-180964  U..UGAGGCCUUGUu..CC-.....GACAAGGCU
AC112161.9/38431-38546    U..UGAGGCCUUGUc..UU-.....GACAAGGCU
K03167.1/1-115            U..UGA-GCCUUGCu..CC-.....GACAAGGCU
X04215.1/1-115            U..UGA-GCCUUGCc..UU-.....GGCAAGGCU
AC005719.2/126122-125996  UauUGA-GGCCUGAuaaCUUaugcuAUCGGGCCA
#=GC SS_cons              .....<.<<<<<<..............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln88.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln88.fa

AC068303.10/12902-12788    -AACUCUUGUUUCUCUUCAGAU.CAUGUAAAUCUUUCGCCUUUUAUU
K03167.1/1-115             AUACUCUGGUUUCUCUUCAGAU.CGCAUAAAUCUUUCGCCUUUUACU
X06020.1/401-516           AUACUCUGGUUUCUCUUCAAAUuCGAAUAAAUCUUUCGCCUUUUACU
AC124037.5/99823-99938     AUACUCUGGUUUCUCUUCAGAU.CGUAUAAAUCUUUCGCCUUUUACU
AC083892.19/144818-144933  AUACUCUGGUUUCUCUUCAGAU.CGUAUAAAUCUUUCGCCUUUUACU
#=GC SS_cons               ..<<<<..<<<<<<<<<<<.........<<<<<<<<...........

AC068303.10/12902-12788    AAAGAUUUCCAUGGGGAGGAACAGUUAUGAGUCUUUAUCCAAUUUCU
K03167.1/1-115             AAAGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAACCCAAUUUUU
X06020.1/401-516           AAAGAUUUCCGUGGAGAGGAACGACCAUGAGUUUCGUUC-AAUUUUU
AC124037.5/99823-99938     AAAGAUUUCCGUGGAGAGGAACAAUUCUGAGUCUUAACCCAAUUUUU
AC083892.19/144818-144933  AAAGAUUUCCGUGGAGAGGAACAAUUCUGAGUCUUACACUAAUUUUU
#=GC SS_cons               >>>>>>>>...>>>>>>>>>>>......>>>>...............

AC068303.10/12902-12788    GAG-GCCUCGUgUUU.CACCAGGCU
K03167.1/1-115             UGA-GCCUUGCuCC-.GACAAGGCU
X06020.1/401-516           UGAAGCCUGGUuCA-.CACCAGGUA
AC124037.5/99823-99938     UGAGGUCCUGC.UCGu-GCAGGGCU
AC083892.19/144818-144933  UGAGGCCUUGCuUU-.AGCAAGGCU
#=GC SS_cons               ..<.<<<<<<........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln89.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln89.fa

AC124037.5/99823-99938    AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUACU
M10270.1/1-117            AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUACN
AC005719.2/130462-130570  -UACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
AC068303.10/12902-12788   -AACUCUUGUUUCUCUUCA..GAUCAUGUAAAUCUUUCGCCUUUUAUU
AC102945.2/126759-126873  AUACUCUGGUUUCUCUUCA..GAUCAUACAAAUCUCUCACCUUUUACU
#=GC SS_cons              ..<<<<..<<<<<<<<<<<..........<<<<<<<<...........

AC124037.5/99823-99938    AAAGAUUUCCGUGGAGAGGAACA.AUUCU.GAGUCUUAACCCAAUUUU
M10270.1/1-117            AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAACCAAUUUU
AC005719.2/130462-130570  AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACUCAAUUUU
AC068303.10/12902-12788   AAAGAUUUCCAUGGGGAGGAACA.GUUAU.GAGUCUUUAUCCAAUUUC
AC102945.2/126759-126873  AAAGAUUUCUUCAGAGAGUAAUA.AUUCU.AAGUCUUAACCCAAUUUU
#=GC SS_cons              >>>>>>>>...>>>>>>>>>>>........>>>>..............

AC124037.5/99823-99938    UUGAGGUCCUGC.UCGu-GCAGGGCU
M10270.1/1-117            UUGAGGCCUUGU.CUUgAGCAAGGCU
AC005719.2/130462-130570  UGUAUGAC----.CU-.-----GGCU
AC068303.10/12902-12788   UGAG-GCCUCGUgUUU.CACCAGGCU
AC102945.2/126759-126873  UGAG-GCCCUGCaUCU.-GCAAGGCU
#=GC SS_cons              ...<.<<<<<<........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln90.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln90.fa

AC006287.1/102148-102034  AUUCUCCAGUUUCUUUUCAGAU.CAGAUAAAUUUUUCUCCUUUUACUA
X04293.1/1-115            AUACUCUGGUUUCUCUUCAGAU.CGUAUAAAUCUUUCGCCUUUCAUCA
AC112161.9/38431-38546    AUACUCUGGUUUCUCUUCAGAU.CGUAUAAAUCUUUCGCCUUUUACUA
AC113608.3/77837-77953    AUGCUCUAGUUUCUCUUCAGAU.CAUAUAAAUCUUUUGCCUUUUACUA
X06020.1/401-516          AUACUCUGGUUUCUCUUCAAAUuCGAAUAAAUCUUUCGCCUUUUACUA
#=GC SS_cons              ..<<<<..<<<<<<<<<<<.........<<<<<<<<...........>

AC006287.1/102148-102034  AUGAUUUUCAUGAAGAGGAACAACUCUGAGUCUUAAAUC.AAUUUUUG
X04293.1/1-115            AAGAUUUCCGUGGAGAGGAAUAACUCUGAGUCUUAAGCU.AAUUUUUU
AC112161.9/38431-38546    AAGAUUUCCGUGGAGAGGAACAACUCUGAGUCUUAAACC.AAUUUUUU
AC113608.3/77837-77953    AAGAGUCCCAUGGAGAGGAACACCUCAGACUUUUUAAACuAAUUUUUU
X06020.1/401-516          AAGAUUUCCGUGGAGAGGAACGACCAUGAGUUUCGUUC-.AAUUUUUU
#=GC SS_cons              >>>>>>>...>>>>>>>>>>>......>>>>.................

AC006287.1/102148-102034  AG-GCCUUAUuUUGGCAAGGGU
X04293.1/1-115            GA-GCCUUGCuCCGACAAGGCU
AC112161.9/38431-38546    GAGGCCUUGUcUUGACAAGGCU
AC113608.3/77837-77953    GAGGUCUCGCuUUAGCAGGGCU
X06020.1/401-516          GAAGCCUGGUuCACACCAGGUA
#=GC SS_cons              .<.<<<<<<......>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln91.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln91.fa

AC142391.2/39088-39198    AUACUCUGGUUUCUCUUCA..GAUCAUAUAAAUCUUUCACCUUUUACU
M23820.1/5-119            AUACUCUGGUUUCUCUUCA..GAUCGCAUAAAUCUUUCCCCUUUCANC
AC005719.2/130462-130570  -UACUCUGGUUUCUCUUCAauUGUCGAAUAAAUCUUUCGCCUUUUACU
AC112161.9/38431-38546    AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUACU
K03170.1/1-115            AUACUCUGGUUUCUCUUCA..GAUCGUAUAAAUCUUUCGCCUUUUACU
#=GC SS_cons              ..<<<<..<<<<<<<<<<<..........<<<<<<<<...........

AC142391.2/39088-39198    AAAGAUUCCUGUGGAGAGU----.-UUUU.GAGUUUUUAGCUAAUUUU
M23820.1/5-119            AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAACCCAAUUUU
AC005719.2/130462-130570  AAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACUCAAUUUU
AC112161.9/38431-38546    AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAACCAAUUUU
K03170.1/1-115            AAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAACCAAUUUU
#=GC SS_cons              >>>>>>>>...>>>>>>>>>>>........>>>>..............

AC142391.2/39088-39198    UUGA-GCCUUUGcUUUAGCAAGGCU
M23820.1/5-119            UUGA-GCCUUGCcUU-GGCAAGGCU
AC005719.2/130462-130570  UGUAUGAC----.CU------GGCU
AC112161.9/38431-38546    UUGAGGCCUUGUcUU-GACAAGGCU
K03170.1/1-115            UUGA-GCCUUGUuCC-GACAAGGCU
#=GC SS_cons              ...<.<<<<<<.......>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln92.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln92.fa

X04293.1/1-115           AU.ACUCUGGUUUCUCUUCA..GAU.CGUAUAAAUCUUUCGCCUUUCAU
X06020.1/401-516         AU.ACUCUGGUUUCUCUUCA..AAUuCGAAUAAAUCUUUCGCCUUUUAC
AL365317.22/27453-27338  AU.ACUCUGGUUUCUCUUCA..GAU.CGUACAAAUCUUUCGCCUUUUAC
AC112161.9/38431-38546   AU.ACUCUGGUUUCUCUUCA..GAU.CGUAUAAAUCUUUCGCCUUUUAC
AC010707.16/95419-95302  AUcACUCUGGUUUCUCUUCAauUGU.CGAAUAAAUCUUUCGCCUUUUAC
#=GC SS_cons             ...<<<<..<<<<<<<<<<<...........<<<<<<<<..........

X04293.1/1-115           CAAAGAUUUCCGUGGAGAGGAAUA.ACUCU.GAGUCUUAAGCUAAUUUU
X06020.1/401-516         UAAAGAUUUCCGUGGAGAGGAACG.ACCAU.GAGUUUCGUUC-AAUUUU
AL365317.22/27453-27338  UAAAGAUUUCCGUGGAGAGGAACA.UAUCU.GAGUCAUUACC-AAUUUU
AC112161.9/38431-38546   UAAAGAUUUCCGUGGAGAGGAACA.ACUCU.GAGUCUUAAACCAAUUUU
AC010707.16/95419-95302  UAAAGAUUUCCGUGGAGAGGAACAcUCUAAuGAGUCUAAACACAAUUUU
#=GC SS_cons             .>>>>>>>>...>>>>>>>>>>>........>>>>..............

X04293.1/1-115           UUGA-GCCUUGCuCC-.GACAAGGCU
X06020.1/401-516         UUGAAGCCUGGUuCA-.CACCAGGUA
AL365317.22/27453-27338  UUGAGGUCUUGCuUCUu-GCAAGGCU
AC112161.9/38431-38546   UUGAGGCCUUGUcUU-.GACAAGGCU
AC010707.16/95419-95302  UUAUUGAGGCCU.---.GAUAACUUA
#=GC SS_cons             ...<.<<<<<<........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln93.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln93.fa

AC007230.2/9775-9895    AGCCAUGUGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
Z14994.1/381-501        AGCUGCGCAGUGGGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AL163832.1/10814-10694  AGCCAUGUGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AC000104.1/17376-17496  AGCCAUGUGGUGAGCACAUAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AL606646.3/48018-47896  AGCUGCGCAGUGGGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
#=GC SS_cons            ..<<<<.<<<<<<<<<<<........<<<<<<<<...........>>>>>

AC007230.2/9775-9895    AUACCGUGUGCUCUCCACGCUAAGUGGCAUACGCCUAUUUUUGGAGGGCU
Z14994.1/381-501        AUACCGUGUGCCCGCUGCAAUAAGCAGCAUACGCUUAUUUUUGGA-GGGU
AL163832.1/10814-10694  AUACCGUGUGCUCUCCACGCUAAGUGGCAUACGCCUAUUUUUGGAGGGAU
AC000104.1/17376-17496  AUACCGUGUGCUCUCCACGCUAAGUGGCAUACGCCUAUUUUUGGAGGGUU
AL606646.3/48018-47896  AUACCGUGUGCUCGCUGCAAAUAGCAGCAUACUCUAAUUUUUUGAGGGGA
#=GC SS_cons            >>>...>>>>>>>>>>>......>>>>.................<.<<<<

AC007230.2/9775-9895    CUCa.....CGUaacagUGAGUCCCA
Z14994.1/381-501        CCUcuca..UUUgug..AGAAGCCCA
AL163832.1/10814-10694  CUCa.....CUUcacagUGGGACCCA
AC000104.1/17376-17496  CCCac....UUUacug.UGGGUCCCA
AL606646.3/48018-47896  UUUccagcaUUUgg...AGAACCCCA
#=GC SS_cons            <<.................>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln94.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln94.fa

AC000104.1/17376-17496  AGCCAUGUGGUGAGCACAUAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AK060566.1/5-125        AGCUGCGCGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AL163832.1/10814-10694  AGCCAUGUGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AL161667.1/30956-31076  AGCCAUGUGGUAAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
Z14995.1/799-919        AGCUGCGCAGUGGGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
#=GC SS_cons            ..<<<<.<<<<<<<<<<<........<<<<<<<<...........>>>>>

AC000104.1/17376-17496  AUACCGUGUGCUCUCCACGCUAAGUGGCAUACGCCUAUUUUUGGA...GG
AK060566.1/5-125        AUACCGUGUGCGCGCCGCAAUUAGCAGCAUACGCUAAUUUUUGGAgggAA
AL163832.1/10814-10694  AUACCGUGUGCUCUCCACGCUAAGUGGCAUACGCCUAUUUUUGGA...GG
AL161667.1/30956-31076  AUACCGUGUGCUCUCCACGCUAAGUGGCAUACGCCUAUUUUUGGA...GG
Z14995.1/799-919        AUACCGUGUGCCCGCUGCAACAAGCAGCAUACGCCUAUUUUUGAA...-G
#=GC SS_cons            >>>...>>>>>>>>>>>......>>>>.................<....<

AC000104.1/17376-17496  GUUCCCac.UUUacug.UGGGUCCCA
AK060566.1/5-125        CCGACUcu.UCUg....AGGAGGGAA
AL163832.1/10814-10694  GAUCUCa..CUUcacagUGGGACCCA
AL161667.1/30956-31076  GCUCUCac.UUUacag.UGGGACCCA
Z14995.1/799-919        GGUUCUcucCUUggug.AGAAGCCCA
#=GC SS_cons            <<<<<..............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln95.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln95.fa

AP004334.2/12563-12444  AGCUGCGUGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AL161667.1/30956-31076  AGCCAUGUGGUAAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AC007230.2/9775-9895    AGCCAUGUGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AC007202.3/14338-14454  AGCCGUGUGGUGAAUACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
Z14994.1/1543-1663      AGCUGCGCAGUGGGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
#=GC SS_cons            ..<<<<.<<<<<<<<<<<........<<<<<<<<...........>>>>>

AP004334.2/12563-12444  AUACCGUGUGCGCGCCACAUUAAGCAGCAUACGCUAAUUUUUGGA....G
AL161667.1/30956-31076  AUACCGUGUGCUCUCCACGCUAAGUGGCAUACGCCUAUUUUUGGA....G
AC007230.2/9775-9895    AUACCGUGUGCUCUCCACGCUAAGUGGCAUACGCCUAUUUUUGGA....G
AC007202.3/14338-14454  AUACCGUGUGUUCUCCACGCUAAACGGCAUACACCAAUUUUUGGAggagU
Z14994.1/1543-1663      AUACCGUGUGCCCGCUGCAAUUAGCAGCAUACGCAUAUUUUUGGA....-
#=GC SS_cons            >>>...>>>>>>>>>>>......>>>>.................<.....

AP004334.2/12563-12444  GGCGCCCuc..UCUcag..AGAGGGCCC
AL161667.1/30956-31076  GGCUCUCac..UUUacag.UGGGACCCA
AC007230.2/9775-9895    GGCUCUCa...CGUaacagUGAGUCCCA
AC007202.3/14338-14454  AACUUCA....UCU.....--GAAGUUU
Z14994.1/1543-1663      GGGUUCUcucuUUUgug..AGAAGCCCA
#=GC SS_cons            <<<<<<...............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln96.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln96.fa

AC120537.6/31230-31353  AGCUGCGCGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AL606646.3/45589-45467  AGCUGCGCAGUGGGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AC007202.3/14338-14454  AGCCGUGUGGUGAAUACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
Z14995.1/799-919        AGCUGCGCAGUGGGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AC000104.1/17376-17496  AGCCAUGUGGUGAGCACAUAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
#=GC SS_cons            ..<<<<.<<<<<<<<<<<........<<<<<<<<...........>>>>>

AC120537.6/31230-31353  AUACCGUGUGCGCGCCGCAAUUAGCAGCAUACGCUAAUUUUUGGA....-
AL606646.3/45589-45467  AUACCGUGUGCUCGCUGCAAUUAGCAGCAUACUCAAAUUUUUUGA....G
AC007202.3/14338-14454  AUACCGUGUGUUCUCCACGCUAAACGGCAUACACCAAUUUUUGGAggagU
Z14995.1/799-919        AUACCGUGUGCCCGCUGCAACAAGCAGCAUACGCCUAUUUUUGAA....-
AC000104.1/17376-17496  AUACCGUGUGCUCUCCACGCUAAGUGGCAUACGCCUAUUUUUGGA....G
#=GC SS_cons            >>>...>>>>>>>>>>>......>>>>.................<.....

AC120537.6/31230-31353  GGGAACCgacucuUCUgaggAGGUACCCA
AL606646.3/45589-45467  GGGAUUUccaggaUUUgg..AGAACCCCA
AC007202.3/14338-14454  AACUUCA......UCU....--GAAGUUU
Z14995.1/799-919        GGGUUCUcuc...CUUggugAGAAGCCCA
AC000104.1/17376-17496  GGUUCCCac....UUUacugUGGGUCCCA
#=GC SS_cons            <<<<<<................>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln97.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln97.fa

AC002330.1/96468-96588  AGCUAUGUGGUGAGCACAAAGCGAACUA.UUCUUUCGCCUUUUACUAAAG
X13012.1/682-801        AGCCAUGUGGUGAGUACAAAGCGAACUAuUUCUUUCGCCUUUUACUAAAG
AC002396.1/4523-4407    AGCCAUGUAGUGAGCACAAAGCGAACUA.UUCUUUCGCCUUUUACUAAAG
AL163832.1/14540-14420  AGCCAUGUGGUGAGCACAAAGCGAACUA.CUCUUUCGCCUUUUACUAAAG
AL606646.3/46909-46786  AGCUGCGCAGUGGGCACAAAGCGAACUA.UUCUUUCGCCUUUUACUAAAG
#=GC SS_cons            ..<<<<.<<<<<<<<<<<........<<.<<<<<<...........>>>>

AC002330.1/96468-96588  AAUACCGUGUGCUCUCCACGCCAAGUGGCUUACGCCUAUUUUUGGAGGGC
X13012.1/682-801        AAUACCGUGUGCUCUCGACGCUAAGUGCAUACGCC-UAUUUUUGGAGGGC
AC002396.1/4523-4407    AAUACCGUGUGCUCUCCACGCUAAGUGGCAUACGCCUAUUUUUGGAGGGA
AL163832.1/14540-14420  AAUACCGUGUGCUCUCCACGCCAAGUGGCAUACGCCUAUUUUUGGAGGGC
AL606646.3/46909-46786  AAUACCGUGUGCACGCUGCAAAUAGCAGCAUACUCUAAUUUUUUGAGGGG
#=GC SS_cons            >>>>...>>>>>>>>>>>......>>>>.................<.<<<

AC002330.1/96468-96588  CCUUa...CUUaaucgUGAGGCCCA
X13012.1/682-801        UCCAcuucUCUg....UGGAACCCA
AC002396.1/4523-4407    UCUGc...CUUc....GGGUAGACU
AL163832.1/14540-14420  UCUCa...CGUaaaugUGAGACCCA
AL606646.3/46909-46786  AUUUccuaUCUaaggaCAAACCCCA
#=GC SS_cons            <<<...............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln98.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln98.fa

AL606646.3/46909-46786  AGCUGCGCAGUGGGCACAAAGCGAACUA.UUCUUUCGCCUUUUACUAAAG
AC002330.1/96468-96588  AGCUAUGUGGUGAGCACAAAGCGAACUA.UUCUUUCGCCUUUUACUAAAG
X13012.1/682-801        AGCCAUGUGGUGAGUACAAAGCGAACUAuUUCUUUCGCCUUUUACUAAAG
AC120537.6/31230-31353  AGCUGCGCGGUGAGCACAAAGCGAACUA.UUCUUUCGCCUUUUACUAAAG
AL606646.3/48018-47896  AGCUGCGCAGUGGGCACAAAGCGAACUA.UUCUUUCGCCUUUUACUAAAG
#=GC SS_cons            ..<<<<.<<<<<<<<<<<........<<.<<<<<<...........>>>>

AL606646.3/46909-46786  AAUACCGUGUGCACGCUGCAAAUAGCAGCAUACUCUAAUUUUUUGAGGGG
AC002330.1/96468-96588  AAUACCGUGUGCUCUCCACGCCAAGUGGCUUACGCCUAUUUUUGGAGGGC
X13012.1/682-801        AAUACCGUGUGCUCUCGACGCUAAGUGCAUACGCC-UAUUUUUGGAGGGC
AC120537.6/31230-31353  AAUACCGUGUGCGCGCCGCAAUUAGCAGCAUACGCUAAUUUUUGGA-GGG
AL606646.3/48018-47896  AAUACCGUGUGCUCGCUGCAAAUAGCAGCAUACUCUAAUUUUUUGAGGGG
#=GC SS_cons            >>>>...>>>>>>>>>>>......>>>>.................<.<<<

AL606646.3/46909-46786  AUUUccua..UCUaaggaCAAACCCCA
AC002330.1/96468-96588  CCUUa.....CUUaaucgUGAGGCCCA
X13012.1/682-801        UCCAcuuc..UCUg....UGGAACCCA
AC120537.6/31230-31353  AACCgacucuUCUgagg.AGGUACCCA
AL606646.3/48018-47896  AUUUccagcaUUUgg...AGAACCCCA
#=GC SS_cons            <<<.................>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln99.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln99.fa

AC000104.1/17376-17496  AGCCAUGUGGUGAGCACAUAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AC002396.1/4523-4407    AGCCAUGUAGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AC120537.6/31230-31353  AGCUGCGCGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AL163832.1/14540-14420  AGCCAUGUGGUGAGCACAAAGCGAACUACUCUUUCGCCUUUUACUAAAGA
AL163832.1/10814-10694  AGCCAUGUGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
#=GC SS_cons            ..<<<<.<<<<<<<<<<<........<<<<<<<<...........>>>>>

AC000104.1/17376-17496  AUACCGUGUGCUCUCCACGCUAAGUGGCAUACGCCUAUUUUUGGAGGGUU
AC002396.1/4523-4407    AUACCGUGUGCUCUCCACGCUAAGUGGCAUACGCCUAUUUUUGGAGGGAU
AC120537.6/31230-31353  AUACCGUGUGCGCGCCGCAAUUAGCAGCAUACGCUAAUUUUUGGA-GGGA
AL163832.1/14540-14420  AUACCGUGUGCUCUCCACGCCAAGUGGCAUACGCCUAUUUUUGGAGGGCU
AL163832.1/10814-10694  AUACCGUGUGCUCUCCACGCUAAGUGGCAUACGCCUAUUUUUGGAGGGAU
#=GC SS_cons            >>>...>>>>>>>>>>>......>>>>.................<.<<<<

AC000104.1/17376-17496  CCCac....UUUacug.UGGGUCCCA
AC002396.1/4523-4407    CUGc.....CUUc....GGGUAGACU
AC120537.6/31230-31353  ACCgacucuUCUgagg.AGGUACCCA
AL163832.1/14540-14420  CUCa.....CGUaaaugUGAGACCCA
AL163832.1/10814-10694  CUCa.....CUUcacagUGGGACCCA
#=GC SS_cons            <<.................>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln100.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln100.fa

AL163832.1/14540-14420  AGCCAUGUGGUGAGCACAAAGCGAACUA.CUCUUUCGCCUUUUACUAAAG
AP004334.2/12563-12444  AGCUGCGUGGUGAGCACAAAGCGAACUA.UUCUUUCGCCUUUUACUAAAG
AC120537.6/31230-31353  AGCUGCGCGGUGAGCACAAAGCGAACUA.UUCUUUCGCCUUUUACUAAAG
X13012.1/682-801        AGCCAUGUGGUGAGUACAAAGCGAACUAuUUCUUUCGCCUUUUACUAAAG
AC104179.1/34632-34752  AGCUGCGUGGUGAACACAAAGCGAACUA.UUCUUUCGCCUUUUACUAAAG
#=GC SS_cons            ..<<<<.<<<<<<<<<<<........<<.<<<<<<...........>>>>

AL163832.1/14540-14420  AAUACCGUGUGCUCUCCACGCCAAGUGGCAUACGCCUAUUUUUGGA...G
AP004334.2/12563-12444  AAUACCGUGUGCGCGCCACAUUAAGCAGCAUACGCUAAUUUUUGGA...G
AC120537.6/31230-31353  AAUACCGUGUGCGCGCCGCAAUUAGCAGCAUACGCUAAUUUUUGGA...-
X13012.1/682-801        AAUACCGUGUGCUCUCGACGCUAAGUGCAUACGCC-UAUUUUUGGA...G
AC104179.1/34632-34752  AAUACCGUGUGCGCGCCACAUUAAGCAGCAUACCUUUAUUUUUGGAgggU
#=GC SS_cons            >>>>...>>>>>>>>>>>......>>>>.................<....

AL163832.1/14540-14420  GGCUCUCa.....CGUaaaugUGAGACCCA
AP004334.2/12563-12444  GGCGCCCuc....UCUcag..AGAGGGCCC
AC120537.6/31230-31353  GGGAACCgacucuUCUgagg.AGGUACCCA
X13012.1/682-801        GGCUCCAcuuc..UCUg....UGGAACCCA
AC104179.1/34632-34752  GCUUUUCc.....UAUca...GGAAAGGCC
#=GC SS_cons            <<<<<<.................>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln101.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln101.fa

AB025639.1/12744-12628  AGCCGUGUGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AC002330.1/96468-96588  AGCUAUGUGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
Z14994.1/381-501        AGCUGCGCAGUGGGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AL606646.3/41942-41820  AGCUGCGCAGUGGGCACAGAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AP004334.2/12563-12444  AGCUGCGUGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
#=GC SS_cons            ..<<<<.<<<<<<<<<<<........<<<<<<<<...........>>>>>

AB025639.1/12744-12628  AUACCGUGUGCUCUCCACUUCAAACGGCAUACACCUAUUUUUGGAggagU
AC002330.1/96468-96588  AUACCGUGUGCUCUCCACGCCAAGUGGCUUACGCCUAUUUUUGGA....G
Z14994.1/381-501        AUACCGUGUGCCCGCUGCAAUAAGCAGCAUACGCUUAUUUUUGGA....-
AL606646.3/41942-41820  AUACCGUGUGCUCGCUGCAAAUAGCAGCAUACUCUAAUUUUUUGA....G
AP004334.2/12563-12444  AUACCGUGUGCGCGCCACAUUAAGCAGCAUACGCUAAUUUUUGGA....G
#=GC SS_cons            >>>...>>>>>>>>>>>......>>>>.................<.....

AB025639.1/12744-12628  AACUUCU....UCU.....--GAAGUUU
AC002330.1/96468-96588  GGCCCUUa...CUUaaucgUGAGGCCCA
Z14994.1/381-501        GGGUCCUcucaUUUgug..AGAAGCCCA
AL606646.3/41942-41820  GGGAUUUucuaUAUaagg.AGAACCCCA
AP004334.2/12563-12444  GGCGCCCuc..UCUcag..AGAGGGCCC
#=GC SS_cons            <<<<<<...............>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln102.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln102.fa

AB025639.1/12744-12628  AGCCGUGUGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AC002396.1/4523-4407    AGCCAUGUAGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AL163832.1/14540-14420  AGCCAUGUGGUGAGCACAAAGCGAACUACUCUUUCGCCUUUUACUAAAGA
AL163832.1/10814-10694  AGCCAUGUGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AL606646.3/48018-47896  AGCUGCGCAGUGGGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
#=GC SS_cons            ..<<<<.<<<<<<<<<<<........<<<<<<<<...........>>>>>

AB025639.1/12744-12628  AUACCGUGUGCUCUCCACUUCAAACGGCAUACACCUAUUUUUGGAggagU
AC002396.1/4523-4407    AUACCGUGUGCUCUCCACGCUAAGUGGCAUACGCCUAUUUUUGGA....G
AL163832.1/14540-14420  AUACCGUGUGCUCUCCACGCCAAGUGGCAUACGCCUAUUUUUGGA....G
AL163832.1/10814-10694  AUACCGUGUGCUCUCCACGCUAAGUGGCAUACGCCUAUUUUUGGA....G
AL606646.3/48018-47896  AUACCGUGUGCUCGCUGCAAAUAGCAGCAUACUCUAAUUUUUUGA....G
#=GC SS_cons            >>>...>>>>>>>>>>>......>>>>.................<.....

AB025639.1/12744-12628  AACUUCU......UCU.....--GAAGUUU
AC002396.1/4523-4407    GGAUCUGc.....CUUc....GGGUAGACU
AL163832.1/14540-14420  GGCUCUCa.....CGUaaaugUGAGACCCA
AL163832.1/10814-10694  GGAUCUCa.....CUUcacagUGGGACCCA
AL606646.3/48018-47896  GGGAUUUccagcaUUUgg...AGAACCCCA
#=GC SS_cons            <<<<<<.................>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln103.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln103.fa

AL606646.3/46909-46786  AGCUGCGCAGUGGGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AC002062.1/32951-32833  AGCCAUGUGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AC002396.1/4523-4407    AGCCAUGUAGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AC084765.9/80999-80876  AGCUGCGCGGUGAGCACAGAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
AP004334.2/12563-12444  AGCUGCGUGGUGAGCACAAAGCGAACUAUUCUUUCGCCUUUUACUAAAGA
#=GC SS_cons            ..<<<<.<<<<<<<<<<<........<<<<<<<<...........>>>>>

AL606646.3/46909-46786  AUACCGUGUGCACGCUGCAAAUAGCAGCAUACUCUAAUUUUUUGAGGGGA
AC002062.1/32951-32833  AUACCGUGUGCUCUCCACGCUAAGUGGCAUACGCCUAUUUUUGGA-GGGU
AC002396.1/4523-4407    AUACCGUGUGCUCUCCACGCUAAGUGGCAUACGCCUAUUUUUGGAGGGAU
AC084765.9/80999-80876  AUACCGUGUGCGCGCCGCAAUUAGCAGCAUACGCUAAUUUUUGGA-GGGA
AP004334.2/12563-12444  AUACCGUGUGCGCGCCACAUUAAGCAGCAUACGCUAAUUUUUGGAGGGCG
#=GC SS_cons            >>>...>>>>>>>>>>>......>>>>.................<.<<<<

AL606646.3/46909-46786  UUUccua..UCUaaggaCAAACCCCA
AC002062.1/32951-32833  CCUgc....UUUcga..GUGGGCCCA
AC002396.1/4523-4407    CUGc.....CUUc....GGGUAGACU
AC084765.9/80999-80876  ACCgacucuUUUgagg.AGGUCCCCA
AP004334.2/12563-12444  CCCuc....UCUcag..AGAGGGCCC
#=GC SS_cons            <<.................>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln104.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln104.fa

AC084158.1/171270-171148  CAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
AF003148.2/24894-25016    CAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
Z68342.1/21317-21195      CAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
Z70270.1/5918-5797        -AACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
Z70270.1/4420-4302        -UUCUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCAUUUUAC
#=GC SS_cons              ..<<<<..<<<<<<<<<<<...........<<<<<<<<..........

AC084158.1/171270-171148  UAAAGAUUUCCGUGCAAAGGAGCAUACAUuGAGUAUUAUACAcAAAUU
AF003148.2/24894-25016    UAAAGAUUUCCGUGCAAAGGAGCAUACAUuGAGUAUUACUUAgAAUUU
Z68342.1/21317-21195      UAAAGAUUUCCGUGCAAAGGAGCAUACAUuGAGUAUUAUAUAcAAUUU
Z70270.1/5918-5797        UAAAGAUUUCCGUGCAAAGGAGCAUACAUuGAGUAUUAUAUAuAAUUU
Z70270.1/4420-4302        UAAAGAUUUCCGUGCUAAGGAGCAUACAUuGAGUAUUAUAUAcAAUUU
#=GC SS_cons              .>>>>>>>>...>>>>>>>>>>>.......>>>>..............

AC084158.1/171270-171148  UUGGA-GUCCCC-.UCGgaagAGCGGGACA
AF003148.2/24894-25016    UUGGA-GCCUUC-.UCGaaagAGCAAGGCA
Z68342.1/21317-21195      UUGGA-GUCCCCUuGAGaa..AGCGGGACA
Z70270.1/5918-5797        UUGGA-GUCCCCUuGAGaa..AGCGGGACA
Z70270.1/4420-4302        UUGGAGUUCCUU-.GAG....AAAACGAGA
#=GC SS_cons              ....<.<<<<<<...........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln105.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln105.fa

Z68342.1/21317-21195  CAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUACUAAA
Z69659.1/6667-6789    AAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUACUAAA
Z68215.1/31924-32045  -AACUCUGGUUCCUCUGCAuuuAACCAUGAAAAUCUUUCGCCUUUUACUAAA
Z69665.1/26624-26745  -AACACUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUACUAAA
Z70270.1/5918-5797    -AACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUACUAAA
#=GC SS_cons          ..<<<<..<<<<<<<<<<<...........<<<<<<<<...........>>>

Z68342.1/21317-21195  GAUUUCCGUGCAAAGGAGCA.UACAUuGAGUAUUAUAUAcAAUUUUUGGAGU
Z69659.1/6667-6789    GAUUUCCGUGCAAAGGAGCA.UACAUuGAGUAUUAUAUAcAAUUUUUGGAGU
Z68215.1/31924-32045  GAUUUCCGUGCAAAGGAGCA.UACAUuGAGUAUUGUAUAcAAUUUUUGGAGU
Z69665.1/26624-26745  GAUUUCCGUGCAAAGGAGCAuACGUU.GAGUAUUAUAUAcAAUUUUUGGAGU
Z70270.1/5918-5797    GAUUUCCGUGCAAAGGAGCA.UACAUuGAGUAUUAUAUAuAAUUUUUGGAGU
#=GC SS_cons          >>>>>...>>>>>>>>>>>........>>>>..................<<<

Z68342.1/21317-21195  CCCCUuGAGaa..AGCGGGACA
Z69659.1/6667-6789    CCCC-.UCGaaagAGCGGGACA
Z68215.1/31924-32045  CCCCUuGAGaa..AGCGGGACA
Z69665.1/26624-26745  CCCC-.UCGaaagAGCGGGACA
Z70270.1/5918-5797    CCCCUuGAGaa..AGCGGGACA
#=GC SS_cons          <<<<...........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln106.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln106.fa

AC084158.1/171270-171148  CAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
U40799.2/31529-31651      CAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
Z68342.1/21317-21195      CAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
Z69659.1/6667-6789        AAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
Z69665.1/27633-27754      -AACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
#=GC SS_cons              ..<<<<..<<<<<<<<<<<...........<<<<<<<<..........

AC084158.1/171270-171148  UAAAGAUUUCCGUGCAAAGGAGCAUACAUuGAGUAUUAUACAcAAAUU
U40799.2/31529-31651      UAAAGAUUUCCGUGCAAAGGAGCAUUUACuGAGUAUUACAUAcAAUUU
Z68342.1/21317-21195      UAAAGAUUUCCGUGCAAAGGAGCAUACAUuGAGUAUUAUAUAcAAUUU
Z69659.1/6667-6789        UAAAGAUUUCCGUGCAAAGGAGCAUACAUuGAGUAUUAUAUAcAAUUU
Z69665.1/27633-27754      UAAAGAUUUCCGUGCAAAGGAGCAUACAUuGAGUAUUAUAUAcAAUUU
#=GC SS_cons              .>>>>>>>>...>>>>>>>>>>>.......>>>>..............

AC084158.1/171270-171148  UUGGAGUCCCC-.UCGgaagAGCGGGACA
U40799.2/31529-31651      UUGGAGACUCCUuGAGaa..AGCGGGUCA
Z68342.1/21317-21195      UUGGAGUCCCCUuGAGaa..AGCGGGACA
Z69659.1/6667-6789        UUGGAGUCCCC-.UCGaaagAGCGGGACA
Z69665.1/27633-27754      UUGGAGUCCCCUcGAGag..AGCGGGACA
#=GC SS_cons              ....<<<<<<<...........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln107.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln107.fa

AC084158.1/171270-171148  CAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
Z68215.1/31924-32045      -AACUCUGGUUCCUCUGCAuuuAACCAUGAAAAUCUUUCGCCUUUUAC
Z69665.1/26624-26745      -AACACUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
Z70270.1/5918-5797        -AACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
Z70270.1/4420-4302        -UUCUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCAUUUUAC
#=GC SS_cons              ..<<<<..<<<<<<<<<<<...........<<<<<<<<..........

AC084158.1/171270-171148  UAAAGAUUUCCGUGCAAAGGAGCA.UACAUuGAGUAUUAUACAcAAAU
Z68215.1/31924-32045      UAAAGAUUUCCGUGCAAAGGAGCA.UACAUuGAGUAUUGUAUAcAAUU
Z69665.1/26624-26745      UAAAGAUUUCCGUGCAAAGGAGCAuACGUU.GAGUAUUAUAUAcAAUU
Z70270.1/5918-5797        UAAAGAUUUCCGUGCAAAGGAGCA.UACAUuGAGUAUUAUAUAuAAUU
Z70270.1/4420-4302        UAAAGAUUUCCGUGCUAAGGAGCA.UACAUuGAGUAUUAUAUAcAAUU
#=GC SS_cons              .>>>>>>>>...>>>>>>>>>>>........>>>>.............

AC084158.1/171270-171148  UUUGGA-GUCCCC-.UCGgaagAGCGGGACA
Z68215.1/31924-32045      UUUGGA-GUCCCCUuGAGaa..AGCGGGACA
Z69665.1/26624-26745      UUUGGA-GUCCCC-.UCGaaagAGCGGGACA
Z70270.1/5918-5797        UUUGGA-GUCCCCUuGAGaa..AGCGGGACA
Z70270.1/4420-4302        UUUGGAGUUCCUU-.GAG....AAAACGAGA
#=GC SS_cons              .....<.<<<<<<...........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln108.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln108.fa

AC084158.1/171270-171148  CAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
U40799.2/31529-31651      CAACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
Z69665.1/26624-26745      -AACACUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
Z70270.1/5918-5797        -AACUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCCUUUUAC
Z70270.1/4420-4302        -UUCUCUGGUUCCUCUGCAuuuAACCGUGAAAAUCUUUCGCAUUUUAC
#=GC SS_cons              ..<<<<..<<<<<<<<<<<...........<<<<<<<<..........

AC084158.1/171270-171148  UAAAGAUUUCCGUGCAAAGGAGCA.UACAUuGAGUAUUAUACAcAAAU
U40799.2/31529-31651      UAAAGAUUUCCGUGCAAAGGAGCA.UUUACuGAGUAUUACAUAcAAUU
Z69665.1/26624-26745      UAAAGAUUUCCGUGCAAAGGAGCAuACGUU.GAGUAUUAUAUAcAAUU
Z70270.1/5918-5797        UAAAGAUUUCCGUGCAAAGGAGCA.UACAUuGAGUAUUAUAUAuAAUU
Z70270.1/4420-4302        UAAAGAUUUCCGUGCUAAGGAGCA.UACAUuGAGUAUUAUAUAcAAUU
#=GC SS_cons              .>>>>>>>>...>>>>>>>>>>>........>>>>.............

AC084158.1/171270-171148  UUUGGA-GUCCCC-.UCGgaagAGCGGGACA
U40799.2/31529-31651      UUUGGA-GACUCCUuGAGaa..AGCGGGUCA
Z69665.1/26624-26745      UUUGGA-GUCCCC-.UCGaaagAGCGGGACA
Z70270.1/5918-5797        UUUGGA-GUCCCCUuGAGaa..AGCGGGACA
Z70270.1/4420-4302        UUUGGAGUUCCUU-.GAG....AAAACGAGA
#=GC SS_cons              .....<.<<<<<<...........>>>>>>>
//
# STOCKHOLM 1.0

#=GF AC  RF00020|BRAliBaseII/data-set1/U5/unaligned/aln109.fa
#=GF ID  U5|BRAliBaseII/data-set1/U5/unaligned/aln109.fa

AC121233.13/19856-19974  AGCCGUGUGAUGAUCACAUAGCGAACUAUUCUUUCGCCUUUUACUAAAG
X00277.1/3-121           AGCCGUGUGAUGAUGACAUAGCGAACUA-UCUUUCGCCUUUUACUAAAG
X15934.1/3-121           AGCCGUGUGAUGAUGACAUAGCGAACUAUUCUUUCGCCUUUUACUAAAG
X00279.1/3-119           AGCCGUGUGAUGAACACAAAGCGAACUA-UCUUUCGCCUUUUACUAAAG
AC139354.5/49090-48982   AGCCGUGUGAUGAUCACAUAGCGAACUAUUCUUUCGCCUUUUACUAAAG
#=GC SS_cons             ..<<<<.<<<<<<<<<<<........<<<<<<<<...........>>>>

AC121233.13/19856-19974  AAUACCGUGUGAGCGUCACAAUUAGCGGCAUACGCU.AGUUUUUGGAAG
X00277.1/3-121           AAUACUGUGUCAGCGUCACAAUUAGCGGCAUACGCU.AGUUUUUGGAAG
X15934.1/3-121           AAUACCGUGUCAGCGUCACAAUUAGCGGCAUACGCU.AGUUUUUGGAAG
X00279.1/3-119           AAUACUGUGUGUGCGUCACUAAAAGGCGCAUACGCCuAAUUUUUGAAAG
AC139354.5/49090-48982   AAUACCGUGUGAGCGUUACAAUUAGCGGCAUACGCU.AGUUUUUGGAAG
#=GC SS_cons             >>>>...>>>>>>>>>>>......>>>>..................<.<

AC121233.13/19856-19974  AGUCUUc....UUUauuGAGGGCUCU
X00277.1/3-121           AGUUCUcaaguUUUg..AGG-GCUCU
X15934.1/3-121           AGUUCUcaau.UUUg..AGG-GCUCU
X00279.1/3-119           AGUUCUc....UUUu..GAGAGCUCU
AC139354.5/49090-48982   AGU---.....UC-...GG--GCUCU
#=GC SS_cons             <<<<<..............>>>>>>>
//
