# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln1.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln1.fasta

X06054.1/711-637        GGGCCCGUCGUCUAGCC.UGGUU.AGGACGCUGCCCUGACGCGGCAGAA.
AP000063.1/59179-59095  GCGGGGGUGCCCGAGCCU.GGCCAAAGGGGUCGGGCUCAGGACCCGAU.G
#=GC SS_cons            <<<<<<<..<<<<............>>>>.<<<<<.......>>>>>...

X06054.1/711-637        .........AUCCUGGGUUCAAGUCCCAGCGGGCCCA
AP000063.1/59179-59095  GCGUAGGCCUGCGUGGGUUCAAAUCCCACCCCCCGCA
#=GC SS_cons            ............<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln2.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln2.fasta

AP000989.1/73279-73354  GCGGCCGUCGUCUAGUCU.GGAUUAGGACGCUGGCCUUCCAAGCCAGUAA
X06054.1/711-637        GGGCCCGUCGUCUAGCC.UGGUU.AGGACGCUGCCCUGACGCGGCAGAAA
#=GC SS_cons            <<<<<<<..<<<<............>>>>.<<<<<.......>>>>>...

AP000989.1/73279-73354  UCCCGGGUUCAAAUCCCGGCGGCCGCA
X06054.1/711-637        UCCUGGGUUCAAGUCCCAGCGGGCCCA
#=GC SS_cons            ..<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln3.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln3.fasta

AE006696.1/291-218      GCCGCCGUAGCUCAGCC.CGGG..AGAGCGCCCGGCUGAAGACCGGGUU.
AP000063.1/59179-59095  GCGGGGGUGCCCGAGCCU.GGCCAAAGGGGUCGGGCUCAGGACCCGAU.G
#=GC SS_cons            <<<<<<<..<<<<............>>>>.<<<<<.......>>>>>...

AE006696.1/291-218      .........GUCCGGGGUUCAAGUCCCCGCGGCGGCA
AP000063.1/59179-59095  GCGUAGGCCUGCGUGGGUUCAAAUCCCACCCCCCGCA
#=GC SS_cons            ............<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln4.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln4.fasta

AE006696.1/291-218  GCCGCCGUAGCUCAGCCCGGG.AGAGCGCCCGGCUGAAGACCGGGUUGUCCGGG
X06054.1/711-637    GGGCCCGUCGUCUAGCCUGGUUAGGACGCUGCCCUGACGCGGCAGAAAUCCUGG
#=GC SS_cons        <<<<<<<..<<<<..........>>>>.<<<<<.......>>>>>.....<<<<

AE006696.1/291-218  GUUCAAGUCCCCGCGGCGGCA
X06054.1/711-637    GUUCAAGUCCCAGCGGGCCCA
#=GC SS_cons        <.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln5.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln5.fasta

AE006696.1/291-218      GCCGCCGUAGCUCAGCC.CGGG..AGAGCGCCCGGCUGAAGACCGGGUUG
AP000989.1/73279-73354  GCGGCCGUCGUCUAGUCU.GGAUUAGGACGCUGGCCUUCCAAGCCAGUAA
#=GC SS_cons            <<<<<<<..<<<<............>>>>.<<<<<.......>>>>>...

AE006696.1/291-218      UCCGGGGUUCAAGUCCCCGCGGCGGCA
AP000989.1/73279-73354  UCCCGGGUUCAAAUCCCGGCGGCCGCA
#=GC SS_cons            ..<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln6.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln6.fasta

AE006699.1/3409-3482    GGGCCCGUAGCUUAGCUCGGU..AGAGCGCUCGGCUCAUAACCGAGUG..
AP000063.1/59179-59095  GCGGGGGUGCCCGAGCCUGGCCAAAGGGGUCGGGCUCAGGACCCGAU.GG
#=GC SS_cons            <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>....

AE006699.1/3409-3482    ........GUCAGGGGUUCAAAUCCCCUCGGGCCCA
AP000063.1/59179-59095  CGUAGGCCUGCGUGGGUUCAAAUCCCACCCCCCGCA
#=GC SS_cons            ...........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln7.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln7.fasta

AE006699.1/3409-3482  GGGCCCGUAGCUUAGCUC.GGU.AGAGCGCUCGGCUCAUAACCGAGUGGUCA
X06054.1/711-637      GGGCCCGUCGUCUAGCC.UGGUUAGGACGCUGCCCUGACGCGGCAGAAAUCC
#=GC SS_cons          <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>.....<

AE006699.1/3409-3482  GGGGUUCAAAUCCCCUCGGGCCCA
X06054.1/711-637      UGGGUUCAAGUCCCAGCGGGCCCA
#=GC SS_cons          <<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln8.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln8.fasta

X14835.1/6927-7002      GCCGGGGUCGCCUAGCC.UGGUCAAGGGCGCCGGACUCAUAAUCCGGUC.
AP000063.1/59179-59095  GCGGGGGUGCCCGAGCCU.GGCCAAAGGGGUCGGGCUCAGGACCCGAU.G
#=GC SS_cons            <<<<<<<..<<<<............>>>>.<<<<<.......>>>>>...

X14835.1/6927-7002      .........UUCCCGGGUUCGAAUCCCGGCCCCGGCA
AP000063.1/59179-59095  GCGUAGGCCUGCGUGGGUUCAAAUCCCACCCCCCGCA
#=GC SS_cons            ............<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln9.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln9.fasta

X14835.1/6927-7002  GCCGGGGUCGCCUAGCCUGGUCAAGGGCGCCGGACUCAUAAUCCGGUCUUCCCG
X06054.1/711-637    GGGCCCGUCGUCUAGCCUGGUU.AGGACGCUGCCCUGACGCGGCAGAAAUCCUG
#=GC SS_cons        <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>.....<<<

X14835.1/6927-7002  GGUUCGAAUCCCGGCCCCGGCA
X06054.1/711-637    GGUUCAAGUCCCAGCGGGCCCA
#=GC SS_cons        <<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln10.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln10.fasta

X14835.1/6927-7002  GCCGGGGUCGCCUAGCCUGGUCAAGGGCGCCGGACUCAUAAUCCGGUCUUCCCG
AE006696.1/291-218  GCCGCCGUAGCUCAGCCCGGG..AGAGCGCCCGGCUGAAGACCGGGUUGUCCGG
#=GC SS_cons        <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>.....<<<

X14835.1/6927-7002  GGUUCGAAUCCCGGCCCCGGCA
AE006696.1/291-218  GGUUCAAGUCCCCGCGGCGGCA
#=GC SS_cons        <<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln11.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln11.fasta

X14835.1/6927-7002    GCCGGGGUCGCCUAGCC.UGGUCAAGGGCGCCGGACUCAUAAUCCGGUCUUC
AE006699.1/3409-3482  GGGCCCGUAGCUUAGCUC.GGU..AGAGCGCUCGGCUCAUAACCGAGUGGUC
#=GC SS_cons          <<<<<<<..<<<<............>>>>.<<<<<.......>>>>>.....

X14835.1/6927-7002    CCGGGUUCGAAUCCCGGCCCCGGCA
AE006699.1/3409-3482  AGGGGUUCAAAUCCCCUCGGGCCCA
#=GC SS_cons          <<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln13.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln13.fasta

AE009773.1/7700-7629  GGGCCGGUAGUCUAGC..GGAAGGAUGCCCGCCUCGCGCGCGGGAGAUCCCG
AE006696.1/291-218    GCCGCCGUAGCUCAGCCCGGGAGAGCGCCCGGCUGAAGACCGGGUUGUCCGG
#=GC SS_cons          <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>.....<<<

AE009773.1/7700-7629  GGUUCGAAUCCCGGCCGGUCCA
AE006696.1/291-218    GGUUCAAGUCCCCGCGGCGGCA
#=GC SS_cons          <<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln14.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln14.fasta

AE009773.1/7700-7629  GGGCCGGUAGUCUAGC..GGA..AGGAUGCCCGCCUCGCGCGCGGGAGAUCC
X14835.1/6927-7002    GCCGGGGUCGCCUAGCCUGGUCAAGGGCGCCGGACUCAUAAUCCGGUCUUCC
#=GC SS_cons          <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>.....<

AE009773.1/7700-7629  CGGGUUCGAAUCCCGGCCGGUCCA
X14835.1/6927-7002    CGGGUUCGAAUCCCGGCCCCGGCA
#=GC SS_cons          <<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln15.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln15.fasta

AE000965.1/156-85       GGGCUCGUAGCUCAGC..GGG..AGAGCGCCGCCUUUGCGAGGCGGAG..
AP000063.1/59179-59095  GCGGGGGUGCCCGAGCCUGGCCAAAGGGGUCGGGCUCAGGACCCGAU.GG
#=GC SS_cons            <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>....

AE000965.1/156-85       ........GCCGCGGGUUCAAAUCCCGCCGAGUCCA
AP000063.1/59179-59095  CGUAGGCCUGCGUGGGUUCAAAUCCCACCCCCCGCA
#=GC SS_cons            ...........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln16.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln16.fasta

AE000965.1/156-85  GGGCUCGUAGCUCAGC..GGG.AGAGCGCCGCCUUUGCGAGGCGGAGGCCGCGGG
X06054.1/711-637   GGGCCCGUCGUCUAGCCUGGUUAGGACGCUGCCCUGACGCGGCAGAAAUCCUGGG
#=GC SS_cons       <<<<<<<..<<<<..........>>>>.<<<<<.......>>>>>.....<<<<<

AE000965.1/156-85  UUCAAAUCCCGCCGAGUCCA
X06054.1/711-637   UUCAAGUCCCAGCGGGCCCA
#=GC SS_cons       .......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln17.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln17.fasta

AE000965.1/156-85       GGGCUCGUAGCUCAGC..GGG..AGAGCGCCGCCUUUGCGAGGCGGAGGC
AP000989.1/73279-73354  GCGGCCGUCGUCUAGUCUGGAUUAGGACGCUGGCCUUCCAAGCCAGUAAU
#=GC SS_cons            <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>....

AE000965.1/156-85       CGCGGGUUCAAAUCCCGCCGAGUCCA
AP000989.1/73279-73354  CCCGGGUUCAAAUCCCGGCGGCCGCA
#=GC SS_cons            .<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln18.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln18.fasta

AE000965.1/156-85   GGGCUCGUAGCUCAGC..GGGAGAGCGCCGCCUUUGCGAGGCGGAGGCCGCGGG
AE006696.1/291-218  GCCGCCGUAGCUCAGCCCGGGAGAGCGCCCGGCUGAAGACCGGGUUGUCCGGGG
#=GC SS_cons        <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>.....<<<<<

AE000965.1/156-85   UUCAAAUCCCGCCGAGUCCA
AE006696.1/291-218  UUCAAGUCCCCGCGGCGGCA
#=GC SS_cons        .......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln19.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln19.fasta

AE000965.1/156-85   GGGCUCGUAGCUCAGC..GGG..AGAGCGCCGCCUUUGCGAGGCGGAGGCCGCG
X14835.1/6927-7002  GCCGGGGUCGCCUAGCCUGGUCAAGGGCGCCGGACUCAUAAUCCGGUCUUCCCG
#=GC SS_cons        <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>.....<<<

AE000965.1/156-85   GGUUCAAAUCCCGCCGAGUCCA
X14835.1/6927-7002  GGUUCGAAUCCCGGCCCCGGCA
#=GC SS_cons        <<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln20.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln20.fasta

M87833.1/353-437  GUCGUGGUAGCCAAGCCUGGCCCAAGGCGCAGGGUUGCUAACUCUGU.GGCGUACA
X06054.1/711-637  GGGCCCGUCGUCUAGCCUGGUU.AGGACGCUGCCCUGACGCGGCAGAA........
#=GC SS_cons      <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>..........

M87833.1/353-437  GCC.UCCGGGGUUCGAAUCCCCGCCACGACG
X06054.1/711-637  ...AUCCUGGGUUCAAGUCCCAGCGGGCCCA
#=GC SS_cons      ......<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln21.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln21.fasta

M87833.1/353-437        GUCGUGGUAGCCAAGCC.UGGCCCAAGGCGCAGGGUUGCUAACUCUGU.G
AP000989.1/73279-73354  GCGGCCGUCGUCUAGUCU.GGAUUAGGACGCUGGCCUUCCAAGCCAGUA.
#=GC SS_cons            <<<<<<<..<<<<............>>>>.<<<<<.......>>>>>...

M87833.1/353-437        GCGUACAGCC.UCCGGGGUUCGAAUCCCCGCCACGACG
AP000989.1/73279-73354  ..........AUCCCGGGUUCAAAUCCCGGCGGCCGCA
#=GC SS_cons            .............<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln22.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln22.fasta

M87833.1/353-437      GUCGUGGUAGCCAAGCC.UGGCCCAAGGCGCAGGGUUGCUAACUCUGU.GGC
AE006699.1/3409-3482  GGGCCCGUAGCUUAGCUC.GGU..AGAGCGCUCGGCUCAUAACCGAGUG...
#=GC SS_cons          <<<<<<<..<<<<............>>>>.<<<<<.......>>>>>.....

M87833.1/353-437      GUACAGCC.UCCGGGGUUCGAAUCCCCGCCACGACG
AE006699.1/3409-3482  ........GUCAGGGGUUCAAAUCCCCUCGGGCCCA
#=GC SS_cons          ...........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln23.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln23.fasta

M87833.1/353-437      GUCGUGGUAGCCAAGCCUGGCCCAAGGCGCAGGGUUGCUAACUCUGU.GGCG
AE009773.1/7700-7629  GGGCCGGUAGUCUAGC..GGA..AGGAUGCCCGCCUCGCGCGCGGGAG....
#=GC SS_cons          <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>......

M87833.1/353-437      UACAGCC.UCCGGGGUUCGAAUCCCCGCCACGACG
AE009773.1/7700-7629  .......AUCCCGGGUUCGAAUCCCGGCCGGUCCA
#=GC SS_cons          ..........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln24.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln24.fasta

M87833.1/353-437   GUCGUGGUAGCCAAGCCUGGCCCAAGGCGCAGGGUUGCUAACUCUGU.GGCGUAC
AE000965.1/156-85  GGGCUCGUAGCUCAGC..GGG..AGAGCGCCGCCUUUGCGAGGCGGAG.......
#=GC SS_cons       <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>.........

M87833.1/353-437   AGCC.UCCGGGGUUCGAAUCCCCGCCACGACG
AE000965.1/156-85  ....GCCGCGGGUUCAAAUCCCGCCGAGUCCA
#=GC SS_cons       .......<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln25.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln25.fasta

M87833.1/2781-2865      GCAGGGAUAGCCAAGUU.UGGCCAACGGCGCAGCGUUCAGGGCGCUGUCC
AP000063.1/59179-59095  GCGGGGGUGCCCGAGCCU.GGCCAAAGGGGUCGGGCUCAGGACCCGAUGG
#=GC SS_cons            <<<<<<<..<<<<............>>>>.<<<<<.......>>>>>...

M87833.1/2781-2865      CGUAGGGGUCCGCAGGUUCAAAUCCUGCUCCCUGCA
AP000063.1/59179-59095  CGUAGGCCUGCGUGGGUUCAAAUCCCACCCCCCGCA
#=GC SS_cons            ...........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln26.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln26.fasta

M87833.1/2781-2865  GCAGGGAUAGCCAAGUUUGGCCAACGGCGCAGCGUUCAGGGCGCUGU.CCCGUA
X06054.1/711-637    GGGCCCGUCGUCUAGCCUGGUU.AGGACGCUGCCCUGACGCGGCAGAA......
#=GC SS_cons        <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>........

M87833.1/2781-2865  GGGGUCCGCAGGUUCAAAUCCUGCUCCCUGCA
X06054.1/711-637    ....AUCCUGGGUUCAAGUCCCAGCGGGCCCA
#=GC SS_cons        .......<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln27.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln27.fasta

M87833.1/2781-2865      GCAGGGAUAGCCAAGUU.UGGCCAACGGCGCAGCGUUCAGGGCGCUGU.C
AP000989.1/73279-73354  GCGGCCGUCGUCUAGUCU.GGAUUAGGACGCUGGCCUUCCAAGCCAGUA.
#=GC SS_cons            <<<<<<<..<<<<............>>>>.<<<<<.......>>>>>...

M87833.1/2781-2865      CCGUAGGGGUCCGCAGGUUCAAAUCCUGCUCCCUGCA
AP000989.1/73279-73354  .........AUCCCGGGUUCAAAUCCCGGCGGCCGCA
#=GC SS_cons            ............<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln28.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln28.fasta

M87833.1/2781-2865  GCAGGGAUAGCCAAGUUUGGCCAACGGCGCAGCGUUCAGGGCGCUGU.CCCGUA
AE006696.1/291-218  GCCGCCGUAGCUCAGCCCGGG..AGAGCGCCCGGCUGAAGACCGGGUU......
#=GC SS_cons        <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>........

M87833.1/2781-2865  GGGGUCCGCAGGUUCAAAUCCUGCUCCCUGCA
AE006696.1/291-218  ....GUCCGGGGUUCAAGUCCCCGCGGCGGCA
#=GC SS_cons        .......<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln29.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln29.fasta

M87833.1/2781-2865    GCAGGGAUAGCCAAGUUUGGCCAACGGCGCAGCGUUCAGGGCGCUGU.CCCG
AE009773.1/7700-7629  GGGCCGGUAGUCUAGC..GGA..AGGAUGCCCGCCUCGCGCGCGGGAG....
#=GC SS_cons          <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>......

M87833.1/2781-2865    UAGGGGUCCGCAGGUUCAAAUCCUGCUCCCUGCA
AE009773.1/7700-7629  ......AUCCCGGGUUCGAAUCCCGGCCGGUCCA
#=GC SS_cons          .........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln30.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln30.fasta

M87833.1/2781-2865  GCAGGGAUAGCCAAGUUUGGCCAACGGCGCAGCGUUCAGGGCGCUGUCCCGUAG
M87833.1/353-437    GUCGUGGUAGCCAAGCCUGGCCCAAGGCGCAGGGUUGCUAACUCUGUGGCGUAC
#=GC SS_cons        <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>........

M87833.1/2781-2865  .GGGUCCGCAGGUUCAAAUCCUGCUCCCUGCA
M87833.1/353-437    AGCC.UCCGGGGUUCGAAUCCCCGCCACGACG
#=GC SS_cons        .......<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln31.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln31.fasta

AE005128.1/6659-6734    GCCAAGGUGGCAGAGUU.CGGCCUAACGCGGCGGCCUGCAGAGCCGCUC.
AP000063.1/59179-59095  GCGGGGGUGCCCGAGCCU.GGCCAAAGGGGUCGGGCUCAGGACCCGAU.G
#=GC SS_cons            <<<<<<<..<<<<............>>>>.<<<<<.......>>>>>...

AE005128.1/6659-6734    .........AUCGCCGGUUCAAAUCCGGCCCUUGGCU
AP000063.1/59179-59095  GCGUAGGCCUGCGUGGGUUCAAAUCCCACCCCCCGCA
#=GC SS_cons            ............<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln32.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln32.fasta

AE005128.1/6659-6734  GCCAAGGUGGCAGAGUUCGGCCUAACGCGGCGGCCUGCAGAGCCGCUCAUCG
X06054.1/711-637      GGGCCCGUCGUCUAGCCUGGUU.AGGACGCUGCCCUGACGCGGCAGAAAUCC
#=GC SS_cons          <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>.....<

AE005128.1/6659-6734  CCGGUUCAAAUCCGGCCCUUGGCU
X06054.1/711-637      UGGGUUCAAGUCCCAGCGGGCCCA
#=GC SS_cons          <<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln33.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln33.fasta

AE005128.1/6659-6734    GCCAAGGUGGCAGAGUU.CGGCCUAACGCGGCGGCCUGCAGAGCCGCUCA
AP000989.1/73279-73354  GCGGCCGUCGUCUAGUCU.GGAUUAGGACGCUGGCCUUCCAAGCCAGUAA
#=GC SS_cons            <<<<<<<..<<<<............>>>>.<<<<<.......>>>>>...

AE005128.1/6659-6734    UCGCCGGUUCAAAUCCGGCCCUUGGCU
AP000989.1/73279-73354  UCCCGGGUUCAAAUCCCGGCGGCCGCA
#=GC SS_cons            ..<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln34.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln34.fasta

AE005128.1/6659-6734  GCCAAGGUGGCAGAGUU.CGGCCUAACGCGGCGGCCUGCAGAGCCGCUCAUC
AE006699.1/3409-3482  GGGCCCGUAGCUUAGCUC.GGU..AGAGCGCUCGGCUCAUAACCGAGUGGUC
#=GC SS_cons          <<<<<<<..<<<<............>>>>.<<<<<.......>>>>>.....

AE005128.1/6659-6734  GCCGGUUCAAAUCCGGCCCUUGGCU
AE006699.1/3409-3482  AGGGGUUCAAAUCCCCUCGGGCCCA
#=GC SS_cons          <<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln35.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln35.fasta

AE005128.1/6659-6734  GCCAAGGUGGCAGAGUUCGGCCUAACGCGGCGGCCUGCAGAGCCGCUCAUCG
AE000965.1/156-85     GGGCUCGUAGCUCAGC..GGG..AGAGCGCCGCCUUUGCGAGGCGGAGGCCG
#=GC SS_cons          <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>.....<

AE005128.1/6659-6734  CCGGUUCAAAUCCGGCCCUUGGCU
AE000965.1/156-85     CGGGUUCAAAUCCCGCCGAGUCCA
#=GC SS_cons          <<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln36.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln36.fasta

X02584.1/1-77     GCCAAGGUGGCAGAGUUCGGCCCAACGCAUCCGCCUGCAGAGCGGAACCCCCGCCG
X06054.1/711-637  GGGCCCGUCGUCUAGCCUGGUU.AGGACGCUGCCCUGACGCGGCAGAAAU.CCUGG
#=GC SS_cons      <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>......<<<<

X02584.1/1-77     GUUCAAAUCCGGCCCUUGGCU
X06054.1/711-637  GUUCAAGUCCCAGCGGGCCCA
#=GC SS_cons      <.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln37.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln37.fasta

X02584.1/1-77       GCCAAGGUGGCAGAGUUCGGCCCAACGCAUCCGCCUGCAGAGCGGAACCCCCGC
AE006696.1/291-218  GCCGCCGUAGCUCAGCCCGGG..AGAGCGCCCGGCUGAAGACCGGGUUGU.CCG
#=GC SS_cons        <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>......<<

X02584.1/1-77       CGGUUCAAAUCCGGCCCUUGGCU
AE006696.1/291-218  GGGUUCAAGUCCCCGCGGCGGCA
#=GC SS_cons        <<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln38.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln38.fasta

X02584.1/1-77         GCCAAGGUGGCAGAGUU.CGGCCCAACGCAUCCGCCUGCAGAGCGGAACCCC
AE006699.1/3409-3482  GGGCCCGUAGCUUAGCUC.GGU..AGAGCGCUCGGCUCAUAACCGAGUGGU.
#=GC SS_cons          <<<<<<<..<<<<............>>>>.<<<<<.......>>>>>.....

X02584.1/1-77         CGCCGGUUCAAAUCCGGCCCUUGGCU
AE006699.1/3409-3482  CAGGGGUUCAAAUCCCCUCGGGCCCA
#=GC SS_cons          .<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln39.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln39.fasta

X02584.1/1-77       GCCAAGGUGGCAGAGUUCGGCCCAACGCAUCCGCCUGCAGAGCGGAACCCCCGC
X14835.1/6927-7002  GCCGGGGUCGCCUAGCCUGGUCAAGGGCGCCGGACUCAUAAUCCGGUCUU.CCC
#=GC SS_cons        <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>......<<

X02584.1/1-77       CGGUUCAAAUCCGGCCCUUGGCU
X14835.1/6927-7002  GGGUUCGAAUCCCGGCCCCGGCA
#=GC SS_cons        <<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln40.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln40.fasta

X02584.1/1-77      GCCAAGGUGGCAGAGUUCGGCCCAACGCAUCCGCCUGCAGAGCGGAACCCCCGCC
AE000965.1/156-85  GGGCUCGUAGCUCAGC..GGG..AGAGCGCCGCCUUUGCGAGGCGGAGGC.CGCG
#=GC SS_cons       <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>......<<<

X02584.1/1-77      GGUUCAAAUCCGGCCCUUGGCU
AE000965.1/156-85  GGUUCAAAUCCCGCCGAGUCCA
#=GC SS_cons       <<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln41.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln41.fasta

K02528.1/1-74           GGGGCUGUGGCCAAUCCCGGC..AUGGCGACUGACUCCAGAUCAGUCG..
AP000063.1/59179-59095  GCGGGGGUGCCCGAGCCUGGCCAAAGGGGUCGGGCUCAGGACCCGAU.GG
#=GC SS_cons            <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>....

K02528.1/1-74           ........AUCGGGGGUUCGAAUCCCUCCGGCCCCA
AP000063.1/59179-59095  CGUAGGCCUGCGUGGGUUCAAAUCCCACCCCCCGCA
#=GC SS_cons            ...........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln42.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln42.fasta

K02528.1/1-74      GGGGCUGUGGCCAAUCCCGGCAUGGCGACUGACUCCAGAUCAGUCGAUCGGGGGU
AE000965.1/156-85  GGGCUCGUAGCUCAGC..GGGAGAGCGCCGCCUUUGCGAGGCGGAGGCCGCGGGU
#=GC SS_cons       <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>.....<<<<<.

K02528.1/1-74      UCGAAUCCCUCCGGCCCCA
AE000965.1/156-85  UCAAAUCCCGCCGAGUCCA
#=GC SS_cons       ......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln43.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln43.fasta

AB003409.1/96-167     GGGCCCAUAGCUCAGU..GGU..AGAGUGCCUCCUUUGCAAGGAGGAUGCCC
AE005128.1/6659-6734  GCCAAGGUGGCAGAGUUCGGCCUAACGCGGCGGCCUGCAGAGCCGCUCAUCG
#=GC SS_cons          <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>.....<

AB003409.1/96-167     UGGGUUCGAAUCCCAGUGGGUCCA
AE005128.1/6659-6734  CCGGUUCAAAUCCGGCCCUUGGCU
#=GC SS_cons          <<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln44.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln44.fasta

AB003409.1/96-167  GGGCCCAUAGCUCAGU..GGU..AGAGUGCCUCCUUUGCAAGGAGGAUGC.CCUG
X02584.1/1-77      GCCAAGGUGGCAGAGUUCGGCCCAACGCAUCCGCCUGCAGAGCGGAACCCCCGCC
#=GC SS_cons       <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>......<<<

AB003409.1/96-167  GGUUCGAAUCCCAGUGGGUCCA
X02584.1/1-77      GGUUCAAAUCCGGCCCUUGGCU
#=GC SS_cons       <<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln45.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln45.fasta

AE000930.1/11782-11855  GGGCCCGUAGCUCAGACUGGGAGAGCGCCGCCCUUGCAAGGCGGAGGCCC
AE000965.1/156-85       GGGCUCGUAGCUCAGC..GGGAGAGCGCCGCCUUUGCGAGGCGGAGGCCG
#=GC SS_cons            <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>.....<

AE000930.1/11782-11855  CGGGUUCAAAUCCCGGUGGGUCCA
AE000965.1/156-85       CGGGUUCAAAUCCCGCCGAGUCCA
#=GC SS_cons            <<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln46.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln46.fasta

M26978.1/1092-1174      GCGGGGGUGCCCGAGU..GGUCAAAGGGGACAGGCUUAGGACCUGUUGGC
AP000063.1/59179-59095  GCGGGGGUGCCCGAGCCUGGCCAAAGGGGUCGGGCUCAGGACCCGAUGGC
#=GC SS_cons            <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>....

M26978.1/1092-1174      GUUAGGCUU.CCAGGGUUCGAAUCCCUGCCCCCGCA
AP000063.1/59179-59095  GUAG.GCCUGCGUGGGUUCAAAUCCCACCCCCCGCA
#=GC SS_cons            ...........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln47.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln47.fasta

M26978.1/1092-1174  GCGGGGGUGCCCGAGU..GGUCAAAGGGGACAGGCUUAGGACCUGUU.GGCGUU
X14835.1/6927-7002  GCCGGGGUCGCCUAGCCUGGUCAAGGGCGCCGGACUCAUAAUCCGGUC......
#=GC SS_cons        <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>........

M26978.1/1092-1174  AGGCUU.CCAGGGUUCGAAUCCCUGCCCCCGCA
X14835.1/6927-7002  .....UUCCCGGGUUCGAAUCCCGGCCCCGGCA
#=GC SS_cons        ........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln48.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln48.fasta

M26978.1/1092-1174  GCGGGGGUGCCCGAGUGGUCAAAGGGGACAGGCUUAGGACCUGUU.GGCGUUAG
AE000965.1/156-85   GGGCUCGUAGCUCAGCGGG..AGAGCGCCGCCUUUGCGAGGCGGAG........
#=GC SS_cons        <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>..........

M26978.1/1092-1174  GCUU.CCAGGGUUCGAAUCCCUGCCCCCGCA
AE000965.1/156-85   ...GCCGCGGGUUCAAAUCCCGCCGAGUCCA
#=GC SS_cons        ......<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln49.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln49.fasta

M26977.1/557-628   GCCCUGGUGGUGUAGUGGCUAUCAUGCGGGCCUGUCGAGCCCGCGA.CUCGGGUU
AB003409.1/96-167  GGGCCCAUAGCUCAGUGGU.AGAGUGCCUCCUUUGCAAGGAGGAUGCCCUGGGUU
#=GC SS_cons       <<<<<<<..<<<<........>>>>.<<<<<.......>>>>>.....<<<<<..

M26977.1/557-628   CAAUUCCCGGCCAGGGCG
AB003409.1/96-167  CGAAUCCCAGUGGGUCCA
#=GC SS_cons       .....>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln50.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln50.fasta

M26978.1/1192-1264  GCCGGGGUGGGGUAGUUGGCCAUCCUUCGGGACUGUGGAUCCCGCGA.CUCGGG
AE000965.1/156-85   GGGCUCGUAGCUCAGC.GGG.AGAGCGCCGCCUUUGCGAGGCGGAGGCCGCGGG
#=GC SS_cons        <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>.....<<<<<

M26978.1/1192-1264  UUCAAAUCCCGGCCCUGGCC
AE000965.1/156-85   UUCAAAUCCCGCCGAGUCCA
#=GC SS_cons        .......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln51.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln51.fasta

M26978.1/1192-1264  GCCGGGGUGGGGUAGUUGGCCAUCCUUCGGGACUGUGGAUCCCGCGA.CUCGGG
AB003409.1/96-167   GGGCCCAUAGCUCAGU.GGU.AGAGUGCCUCCUUUGCAAGGAGGAUGCCCUGGG
#=GC SS_cons        <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>.....<<<<<

M26978.1/1192-1264  UUCAAAUCCCGGCCCUGGCC
AB003409.1/96-167   UUCGAAUCCCAGUGGGUCCA
#=GC SS_cons        .......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln52.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln52.fasta

M26978.1/1192-1264  GCCGGGGUGGGGUAGUUGGCCAUCCUUCGGGACUGUGGAUCCCGCGACUCGGGU
M26977.1/557-628    GCCCUGGUGGUGUAGU.GGCUAUCAUGCGGGCCUGUCGAGCCCGCGACUCGGGU
#=GC SS_cons        <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>....<<<<<.

M26978.1/1192-1264  UCAAAUCCCGGCCCUGGCC
M26977.1/557-628    UCAAUUCCCGGCCAGGGCG
#=GC SS_cons        ......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln53.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln53.fasta

M32222.1/1277-1363  GCCGGGGUGGCCCAGCCUGGU..AGGGCGUCGGCCUGCUAAGCCGAU.GAUCCG
X14835.1/6927-7002  GCCGGGGUCGCCUAGCCUGGUCAAGGGCGCCGGACUCAUAAUCCGGUC......
#=GC SS_cons        <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>........

M32222.1/1277-1363  UUAAGGAUCG.CGCGGGUUCAAAUCCCGUCCCCGGCG
X14835.1/6927-7002  .........UUCCCGGGUUCGAAUCCCGGCCCCGGCA
#=GC SS_cons        ............<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln54.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln54.fasta

M32222.1/1277-1363  GCCGGGGUGGCCCAGCCUGGU..AGGGCGUCGGCCUGCUAAGCCGAUGAUCCGU
M87833.1/353-437    GUCGUGGUAGCCAAGCCUGGCCCAAGGCGCAGGGUUGCUAACUCUGUGGC..GU
#=GC SS_cons        <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>........

M32222.1/1277-1363  UAAGGAUCG.CGCGGGUUCAAAUCCCGUCCCCGGCG
M87833.1/353-437    ACA..GCC.UCCGGGGUUCGAAUCCCCGCCACGACG
#=GC SS_cons        ...........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln55.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln55.fasta

M26978.1/994-1068       GCUCCGGUGGUGUAGCC.CGGCCAAUCAUUUCGGCCUUUCGAGCCGAAG.
AP000063.1/59179-59095  GCGGGGGUGCCCGAGCCU.GGCCAAAGGGGUCGGGCUCAGGACCCGAU.G
#=GC SS_cons            <<<<<<<..<<<<............>>>>.<<<<<.......>>>>>...

M26978.1/994-1068       .........A.CUCGGGUUCAAAUCCCGACCGGAGCA
AP000063.1/59179-59095  GCGUAGGCCUGCGUGGGUUCAAAUCCCACCCCCCGCA
#=GC SS_cons            ............<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln56.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln56.fasta

M26978.1/907-980      GGGCCCAUAGCUUAGCC.AGGUAGAGCGCCCGGCUCAUAACCGGGCGGUCAU
AE006699.1/3409-3482  GGGCCCGUAGCUUAGCUC.GGUAGAGCGCUCGGCUCAUAACCGAGUGGUCAG
#=GC SS_cons          <<<<<<<..<<<<..........>>>>.<<<<<.......>>>>>.....<<

M26978.1/907-980      GGGUUCGAAUCCCAUUGGGCCCA
AE006699.1/3409-3482  GGGUUCAAAUCCCCUCGGGCCCA
#=GC SS_cons          <<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln57.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln57.fasta

M26977.1/276-348  GCCUCGGUAGCUCAGCU.GGU..AGAGCGCGAGACUUGUAAUCUCGUG........
M87833.1/353-437  GUCGUGGUAGCCAAGCCUGGCCCAAGGCGCAGGGUUGCUAACUCUGU.GGCGUACA
#=GC SS_cons      <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>..........

M26977.1/276-348  ...GUCGCGGGUUCAAAUCCCGCCCGAGGCU
M87833.1/353-437  GCC.UCCGGGGUUCGAAUCCCCGCCACGACG
#=GC SS_cons      ......<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln58.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln58.fasta

M26978.1/826-899    GCCGCCGUAGCUCAGUA.GGUAGGAGCGCUCGGCUGUUAACCGAGUG.......
M32222.1/1277-1363  GCCGGGGUGGCCCAGCCUGGU.AGGGCGUCGGCCUGCUAAGCCGAU.GAUCCGU
#=GC SS_cons        <<<<<<<..<<<<..........>>>>.<<<<<.......>>>>>.........

M26978.1/826-899    ........GUCGCAGGUUCGAGUCCUGCCGGCGGCG
M32222.1/1277-1363  UAAGGAUCG.CGCGGGUUCAAAUCCCGUCCCCGGCG
#=GC SS_cons        ...........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln59.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln59.fasta

U67492.1/3051-3122  ...CCCGUAGCCUAGCCU.GGAUAGGGCACCGGCCUUCUAAGCCGGGG......
M32222.1/1277-1363  GCCGGGGUGGCCCAGCC.UGGU.AGGGCGUCGGCCUGCUAAGCCGAU.GAUCCG
#=GC SS_cons        <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>........

U67492.1/3051-3122  .........GUCGGGGGUUCAAAUCCCCUCGGGUCCG
M32222.1/1277-1363  UUAAGGAUCG.CGCGGGUUCAAAUCCCGUCCCCGGCG
#=GC SS_cons        ............<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln60.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln60.fasta

U67538.1/10143-10207  .....CAUGGUCUAGCU.GGCUAUGACGUCGCCCUUACAAGGCGAAG.....
M32222.1/1277-1363    GCCGGGGUGGCCCAGCCUGGU.AGGGCGUCGGCCUGCUAAGCCGAU.GAUCC
#=GC SS_cons          <<<<<<<..<<<<..........>>>>.<<<<<.......>>>>>.......

U67538.1/10143-10207  ..........GUCGCCGGUUCGAAUCCGGCUGGG....
M32222.1/1277-1363    GUUAAGGAUCG.CGCGGGUUCAAAUCCCGUCCCCGGCG
#=GC SS_cons          .............<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln61.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln61.fasta

U67517.1/7511-7582  GCCGGGGUGGGGUAGUGGCCAUCCUGGGGGACUGUGGAUCCCCUGA.CCCGGGU
AB003409.1/96-167   GGGCCCAUAGCUCAGUGGU.AGAGUGCCUCCUUUGCAAGGAGGAUGCCCUGGGU
#=GC SS_cons        <<<<<<<..<<<<........>>>>.<<<<<.......>>>>>.....<<<<<.

U67517.1/7511-7582  UCAAUUCCCGGUCCCGGCC
AB003409.1/96-167   UCGAAUCCCAGUGGGUCCA
#=GC SS_cons        ......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln62.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln62.fasta

U67517.1/7511-7582  GCCGGGGUGGGGUAGU.GGCCAUCCUGGGGGACUGUGGAUCCCCUGACCCGGGU
M26978.1/1192-1264  GCCGGGGUGGGGUAGUUGGCCAUCCUUCGGGACUGUGGAUCCCGCGACUCGGGU
#=GC SS_cons        <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>....<<<<<.

U67517.1/7511-7582  UCAAUUCCCGGUCCCGGCC
M26978.1/1192-1264  UCAAAUCCCGGCCCUGGCC
#=GC SS_cons        ......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln63.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln63.fasta

U67517.1/7511-7582  GCCGGGGUGGGGUAGU..GGCCAUCCUGGGGGACUGUGGAUCCCCUG.......
M32222.1/1277-1363  GCCGGGGUGGCCCAGCCUGGU.AGGGCGUCGGCCUGCUAAGCCGAU.GAUCCGU
#=GC SS_cons        <<<<<<<..<<<<..........>>>>.<<<<<.......>>>>>.........

U67517.1/7511-7582  ........ACCCGGGUUCAAUUCCCGGUCCCGGCC
M32222.1/1277-1363  UAAGGAUCGCGCGGGUUCAAAUCCCGUCCCCGGCG
#=GC SS_cons        ..........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln64.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln64.fasta

U67537.1/160-234  GGGCCUGUGGGGUAGCCU.GGUCUAUCCUUUGGGAUUUGGGAUCCUGAGACCCCAG
M26977.1/379-453  GGGGCCAUAGGGUAGCC.UGGUCUAUCCUUUGGGCUUUGGGAGCCUGAGACCCCGG
#=GC SS_cons      <<<<<<<..<<<<............>>>>.<<<<<.......>>>>>....<<<<<

U67537.1/160-234  UUCAAAUCUGGGCAGGCCCA
M26977.1/379-453  UUCAAAUCCGGGUGGCCCCA
#=GC SS_cons      .......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln65.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln65.fasta

U67537.1/160-234  GGGCCUGUGGGGUAGCCUGGUCUAUCCUUUGGGAUUUGGGAUCCUGAGA.CCCCAG
M26978.1/826-899  GCCGCCGUAGCUCAGUA.GGUA.GGAGCGCUCGGCUGUUAACCGAGUGGUCGCAGG
#=GC SS_cons      <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>.....<<<<<

U67537.1/160-234  UUCAAAUCUGGGCAGGCCCA
M26978.1/826-899  UUCGAGUCCUGCCGGCGGCG
#=GC SS_cons      .......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln66.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln66.fasta

U67517.1/7412-7496      GCAGGGGUCGCCAAGCCUGGCCAAAGGCGCUGGGCCUAGGACCCAGUCCC
AP000063.1/59179-59095  GCGGGGGUGCCCGAGCCUGGCCAAAGGGGUCGGGCUCAGGACCCGAUGGC
#=GC SS_cons            <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>....

U67517.1/7412-7496      GUAGGGGUUCCAGGGUUCAAAUCCCUGCCCCUGCA
AP000063.1/59179-59095  GUAGGCCUGCGUGGGUUCAAAUCCCACCCCCCGCA
#=GC SS_cons            ..........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln67.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln67.fasta

U67528.1/1042-969   GCCUCGGUAGCUCAGCCU.GGCGGAGCGCCUGCUUGGUAAGCAGGAG.......
M32222.1/1277-1363  GCCGGGGUGGCCCAGCC.UGGUAGGGCGUCGGCCUGCUAAGCCGAU.GAUCCGU
#=GC SS_cons        <<<<<<<..<<<<..........>>>>.<<<<<.......>>>>>.........

U67528.1/1042-969   ........GUCGCGGGUUCAAACCCCGCCCGAGGCU
M32222.1/1277-1363  UAAGGAUCG.CGCGGGUUCAAAUCCCGUCCCCGGCG
#=GC SS_cons        ...........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln68.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln68.fasta

X00916.1/823-889    GCCUCGGUGGCUCAGCCU.GGUAGAGCGCCUGACUUGUAAUCAGGUG.......
M32222.1/1277-1363  GCCGGGGUGGCCCAGCC.UGGUAGGGCGUCGGCCUGCUAAGCCGAU.GAUCCGU
#=GC SS_cons        <<<<<<<..<<<<..........>>>>.<<<<<.......>>>>>.........

X00916.1/823-889    ........GUCGGGGGUUCGAAUCCCCCC.......
M32222.1/1277-1363  UAAGGAUCG.CGCGGGUUCAAAUCCCGUCCCCGGCG
#=GC SS_cons        ...........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln69.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln69.fasta

X51423.1/1802-1874  GGGCUUGUAGCUCAGCUGGU.AGAGCGCCGCCUUUGCAAGGCGGAGGCCCUGGG
U67517.1/7511-7582  GCCGGGGUGGGGUAGU.GGCCAUCCUGGGGGACUGUGGAUCCCCUGA.CCCGGG
#=GC SS_cons        <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>.....<<<<<

X51423.1/1802-1874  UCCGAAUCCCAGCAAGUCCA
U67517.1/7511-7582  UUCAAUUCCCGGUCCCGGCC
#=GC SS_cons        .......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln70.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln70.fasta

X68198.1/9818-9745  AGCGGGGUGGGGUAGUCAGGAAAUCCGAUGGGCUCAUAACCCGUAGAUCGAUGG
AB003409.1/96-167   GGGCCCAUAGCUCAGU..GGUAGAGUGCCUCCUUUGCAAGGAGGAUGCCCUGGG
#=GC SS_cons        <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>.....<<<<<

X68198.1/9818-9745  UUCAAAUCCAUCCCCCGCUA
AB003409.1/96-167   UUCGAAUCCCAGUGGGUCCA
#=GC SS_cons        .......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln71.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln71.fasta

X65556.1/351-423    GCGGACGUAGCUCAGUU.GGUAGAGCGCAACCUUGCCAAGGUUGAGGUCGCGAG
X68198.1/9818-9745  AGCGGGGUGGGGUAGUCAGGAAAUCCGAUGGGCUCAUAACCCGUAGAUCGAUGG
#=GC SS_cons        <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>.....<<<<<

X65556.1/351-423    UUCGAGCCUCGUCGUCCGCU
X68198.1/9818-9745  UUCAAAUCCAUCCCCCGCUA
#=GC SS_cons        .......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln72.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln72.fasta

X53649.1/160-231   UGGGCUAUGGUGUAAUUGGCAGCACGACUGAUUCUGGUUCAGUUAG.UCUAGGUU
AE000965.1/156-85  GGGCUCGUAGCUCAGC.GGGAGAGCGCCGCCUUUGCGAGGCGGAGGCCGCGGGUU
#=GC SS_cons       <<<<<<<..<<<<........>>>>.<<<<<.......>>>>>.....<<<<<..

X53649.1/160-231   CGAGUCCUGGUAGCCCAG
AE000965.1/156-85  CAAAUCCCGCCGAGUCCA
#=GC SS_cons       .....>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln73.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln73.fasta

X53649.1/160-231  UGGGCUAUGGUGUAAUUGGCAGCACGACUGAUUCUGGUUCAGUUAG.UCUAGGUUC
M26977.1/276-348  GCCUCGGUAGCUCAGCUGGUAGAGCGCGAGACUUGUAAUCUCGUGGUCGCGGGUUC
#=GC SS_cons      <<<<<<<..<<<<........>>>>.<<<<<.......>>>>>.....<<<<<...

X53649.1/160-231  GAGUCCUGGUAGCCCAG
M26977.1/276-348  AAAUCCCGCCCGAGGCU
#=GC SS_cons      ....>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln74.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln74.fasta

X53649.1/160-231  UGGGCUAUGGUGUAAUUGGCAGCACGACUGAUUCUGGUUCAGUUAG.UCUAGGUUC
X00083.1/99-171   GGGCCCGUAGCUCAGUUGGGAGAGCGCUGCCCUUGCAAGGCAGAGGCCGUGGGUUC
#=GC SS_cons      <<<<<<<..<<<<........>>>>.<<<<<.......>>>>>.....<<<<<...

X53649.1/160-231  GAGUCCUGGUAGCCCAG
X00083.1/99-171   AAAUCCCGCCGGGUCCA
#=GC SS_cons      ....>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln75.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln75.fasta

X51824.1/381-453  GCUCGCGUAGCUCAGCAGGUAGAGCACACCCUUGGUAAGGGUGAGGUCGCCGGUUC
X53649.1/160-231  UGGGCUAUGGUGUAAUUGGCAGCACGACUGAUUCUGGUUCAGUUAG.UCUAGGUUC
#=GC SS_cons      <<<<<<<..<<<<........>>>>.<<<<<.......>>>>>.....<<<<<...

X51824.1/381-453  GAGCCCGGCCGCGAGCU
X53649.1/160-231  GAGUCCUGGUAGCCCAG
#=GC SS_cons      ....>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln76.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln76.fasta

D17540.1/1-73       GCGGGAGUAGCUCAGUU.GGUAGAGCAUCGGCUUCCCAAGCCGAGG........
M32222.1/1277-1363  GCCGGGGUGGCCCAGCCUGGUAGGGCGUCGGCCUGCUAAGCCGAU.GAUCCGUU
#=GC SS_cons        <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>..........

D17540.1/1-73       .......GUCGCGGGUUCGAGUCCCGUCUCCCGCU
M32222.1/1277-1363  AAGGAUCG.CGCGGGUUCAAAUCCCGUCCCCGGCG
#=GC SS_cons        ..........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln77.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln77.fasta

X61068.1/651-734      GCCCGGGUGGUGAAAUCGGUAGACACGCAGGACUUAAAAUCCUGUGGCA.UA
AB031211.1/7799-7884  GCCGGGGUGGUGGAAUUGGCAGACACACAGGACUUAAAAUCCUGCGGUAGGU
#=GC SS_cons          <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>........

X61068.1/651-734      AA.AGCCAUGUCGGUUCAAGUCCGACCCCGGGCA
AB031211.1/7799-7884  GACUACCGUGCCGGUUCAAGUCCGGCCCUCGGCA
#=GC SS_cons          .........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln78.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln78.fasta

X61067.1/334-415      GCGGGUGUGGCGAAAUUGGCAGACGCACUAGACUUAGGAUCUAGCGCU.UUA
AF008220.1/5629-5712  GCGGAUGUGGCGGAAUUGGCAGACGCGCUAGAAUCAGGCUCUAGUGUCUUUA
#=GC SS_cons          <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>........

X61067.1/334-415      C.GGCAUGCAGGUUCAAGUCCUGUCACCCGCA
AF008220.1/5629-5712  CAGACGUGGGGGUUCAAGUCCCUUCAUCCGCA
#=GC SS_cons          .......<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln79.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln79.fasta

X61068.1/1060-1145    GGAGGAAUACCCAAGA..GGCUGAAGGGAUCGGUCUUGAAAACCGACAGGGU
AF008220.1/6334-6422  GGAGGAAUACCCAAGUCUGGCUGAAGGGAUCGGUCUUGAAAACCGAC.AGGG
#=GC SS_cons          <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>......

X61068.1/1060-1145    ..GUAAA..AGCCGCGGGGGUUCAAAUCCCUCUUCCUCCG
AF008220.1/6334-6422  UGUCAA.AGCCCG.CGGGGGUUCGAAUCCCUCUUCCUCCG
#=GC SS_cons          ...............<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln80.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln80.fasta

X61067.1/232-303  AGGCCCAUAGCCAAGCGGU.AAGGCAACGGACUUUGACUCCGUCACUCGUAGGUUC
X61063.1/119-188  GUCGGUGUCGUAUAU.GGUUAUUAC.AGGCCUUGCCAAGGCUUAGA.CGGCAGUUC
#=GC SS_cons      <<<<<<<..<<<<........>>>>.<<<<<.......>>>>>.....<<<<<...

X61067.1/232-303  AAAUCCUGCUGGGCCUG
X61063.1/119-188  GAUCCUGCUCACCGGCU
#=GC SS_cons      ....>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln81.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln81.fasta

X03715.1/667-740  GGACCCUUAGCUCAGUUGGUU.AGAGCAUCCGGCUCAUAACCGGAUGGUCACUGGU
X61063.1/119-188  GUCGGUGUCGUAUAU..GGU.UAUUAC.AGGCCUUGCCAAGGCUUAGA.CGGCAGU
#=GC SS_cons      <<<<<<<..<<<<..........>>>>.<<<<<.......>>>>>.....<<<<<.

X03715.1/667-740  UCAAGUCCAGUAGGGUCCA
X61063.1/119-188  UCGAUCCUGCUCACCGGCU
#=GC SS_cons      ......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln82.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln82.fasta

D00550.1/152-232      GGGGGAUUGGCGGAAUUGGCAGACGCACUAGACUUAGGAUCUAGCGUC.UUU
AF008220.1/5629-5712  GCGGAUGUGGCGGAAUUGGCAGACGCGCUAGAAUCAGGCUCUAGUGUCUUUA
#=GC SS_cons          <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>........

D00550.1/152-232      ..GACGUAAGGGUUCAAGUCCCUUAUCCCCCA
AF008220.1/5629-5712  CAGACGUGGGGGUUCAAGUCCCUUCAUCCGCA
#=GC SS_cons          .......<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln83.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln83.fasta

D00550.1/152-232  GGGGGAUUGGCGGAAUUGGCA.GACGCACUAGACUUAGGAUCUAGC.GUCUUUGAC
X61063.1/119-188  GUCGGUGUCGUAUAU..GGU.UAUUAC.AGGCCUUGCCAAGGCUUAG.........
#=GC SS_cons      <<<<<<<..<<<<..........>>>>.<<<<<.......>>>>>...........

D00550.1/152-232  GUAAGGGUUCAAGUCCCUUAUCCCCCA
X61063.1/119-188  ACGGCAGUUCGAUCCUGCUCACCGGCU
#=GC SS_cons      ..<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln84.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln84.fasta

X17113.1/351-433  GCCCAAGUGGCGGAAU.GGUAGACGCAUGGGAUUUAAGAUCCCACGCUAGCAA.UA
X16754.1/1-86     CCCCAAGUGGCGGAAUAGGUAGACGCAUUGGACUUAAAAUCCAACGGGCUUAAUAU
#=GC SS_cons      <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>............

X17113.1/351-433  GCG.UGCCGGUUCAAGUCCGGCUUUGGGCA
X16754.1/1-86     CCUGUGCCGGUUCAAGUCCGGCCUUGGGGA
#=GC SS_cons      .....<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln85.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln85.fasta

X16763.1/1-89         GGAAGAUUACCCAAGUCCGGCUGAAGGGAUCGGUCUUGAAAACCGAGAGUCG
AF008220.1/6334-6422  GGAGGAAUACCCAAGUCUGGCUGAAGGGAUCGGUCUUGAAAACCGAC.AGGG
#=GC SS_cons          <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>......

X16763.1/1-89         G.GGAAA.CCGAGCGGGGGUUCGAAUCCCUCAUCUUCCG
AF008220.1/6334-6422  UGUCAA.AGCCCGCGGGGGUUCGAAUCCCUCUUCCUCCG
#=GC SS_cons          ..............<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln86.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln86.fasta

X16763.1/1-89     GGAAGAUUACCCAAGUCCGGCUGAAGGGAUCGGUCUUGAAAACCGAGAGUCGG.GG
X03715.1/779-868  GGAAGAUUACCCAAGUCUGGUUGAAGGGAUCGGUCUUGAAAAUUGACAGGCGGUGA
#=GC SS_cons      <<<<<<<..<<<<...........>>>>.<<<<<.......>>>>>..........

X16763.1/1-89     AAA.CCGAGCGGGGGUUCGAAUCCCUCAUCUUCCG
X03715.1/779-868  AA.GCCGCGCGGGGGUUCGAAUCCCUCAUCUUCCG
#=GC SS_cons      ..........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln87.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln87.fasta

X16763.1/1-89       GGAAGAUUACCCAAGUC.CGGCUGAAGGGAUCGGUCUUGAAAACCGAGA.GUCG
M91385.1/1291-1381  GGAAGUAUACCCAAGUCUCGGUUGAAGGGGGCGGUCUCGAAAACCGUUAGAUGG
#=GC SS_cons        <<<<<<<..<<<<............>>>>.<<<<<.......>>>>>.......

X16763.1/1-89       GGGAAACCGAG.CGGGGGUUCGAAUCCCUCAUCUUCCG
M91385.1/1291-1381  AGUAA.UCCAUGCAAGAGUUCGAAUCUCUUUACUUCCG
#=GC SS_cons        .............<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln88.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln88.fasta

X16752.1/1-74       CGGAAUAUAGCUCAGCUGGUUAGAGCAUUCCGCUGAUAACGGAGAGGUCGUUGG
U67517.1/7511-7582  GCCGGGGUGGGGUAGU.GGCCAUCCUGGGGGACUGUGGAUCCCCUGA.CCCGGG
#=GC SS_cons        <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>.....<<<<<

X16752.1/1-74       UUCAAGUCCAAUUAUUCCGA
U67517.1/7511-7582  UUCAAUUCCCGGUCCCGGCC
#=GC SS_cons        .......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln89.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln89.fasta

D00552.1/73-146   GCCCAUGUAGCUCAGUAGGAUAGAGCACGCGCCUUCUAAGCGUGAGGUCGGAAGUU
X53649.1/160-231  UGGGCUAUGGUGUAAUUGGC.AGCACGACUGAUUCUGGUUCAGUUAG.UCUAGGUU
#=GC SS_cons      <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>.....<<<<<..

D00552.1/73-146   CGAGCCUUCUCGUGGGCA
X53649.1/160-231  CGAGUCCUGGUAGCCCAG
#=GC SS_cons      .....>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln90.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln90.fasta

L00194.1/554-627    AGGCCUGUAGCUCAGGUGGUUAGAGCGUACGCCUGAUAAGCGUAAGGUCGGCAG
M26978.1/1192-1264  GCCGGGGUGGGGUAGUUGGCCAUCCUUCGGGACUGUGGAUCCCGCGA.CUCGGG
#=GC SS_cons        <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>.....<<<<<

L00194.1/554-627    UUCGAGUCUGCCUAGGCCUA
M26978.1/1192-1264  UUCAAAUCCCGGCCCUGGCC
#=GC SS_cons        .......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln91.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln91.fasta

X12977.1/475-548  CGGUGAUUAGCGCAGCCCGGU.AGCGCAUCUGGUUUGGGACCAGAGGGUCAAAGGU
X61063.1/119-188  GUCGGUGUCGUAUAU...GGUUAUUAC.AGGCCUUGCCAAGGCUUAGA.CGGCAGU
#=GC SS_cons      <<<<<<<..<<<<..........>>>>.<<<<<.......>>>>>.....<<<<<.

X12977.1/475-548  UCGAAUCCUUUAUCACCGA
X61063.1/119-188  UCGAUCCUGCUCACCGGCU
#=GC SS_cons      ......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln92.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln92.fasta

AE005314.1/4287-4216    GGUGAGGUGUCCGAGU.GGCUGAAGGAGCACGCCUGGAAAGUGUGU.A.U
AF142677.4/47404-47332  GAGCCAUUAGCUCAGUUGGU..AGAGCAUCUGACUUUUAAUCAGAGGGUC
#=GC SS_cons            <<<<<<<..<<<<..........>>>>.<<<<<.......>>>>>.....

AE005314.1/4287-4216    ACGGCAACGUAUCGGGGGUUCGAAU
AF142677.4/47404-47332  GAAGGUUCGAGUCCUUCAUGGCUCA
#=GC SS_cons            <<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln93.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln93.fasta

AE005314.1/4287-4216  GGUGAGGUGUCCGAGUGGCUGAAGGAGCACGCCUGGAAAGUGUGU.AUACGG
AB031215.1/9125-9195  AGGGGCAUAGUUUAACGGU..AGAACAGAGGUCUCCAAAACCUCCGGUGUGG
#=GC SS_cons          <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>....<<<<

AE005314.1/4287-4216  CAACGUAUCGGGGGUUCGAAU
AB031215.1/9125-9195  GUUCGAUUCCUACUGCCCCUG
#=GC SS_cons          <.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln94.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln94.fasta

AE008883.1/15626-15696  GCGAAGGUGGCGGAAUUGGUAGACGCGCUAGCUUCAGGUGUUAGUGUCCU
AF008220.1/5629-5712    GCGGAUGUGGCGGAAUUGGCAGACGCGCUAGAAUCAGGCUCUAGUGUCU.
#=GC SS_cons            <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>......

AE008883.1/15626-15696  U....ACGGACGUGGGGGUUCAAGU.............
AF008220.1/5629-5712    .UUAC..AGACGUGGGGGUUCAAGUCCCUUCAUCCGCA
#=GC SS_cons            .............<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln95.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln95.fasta

M14092.1/414-480   GCUGCUUGAAUGGU.....UUCAGUGUGGGCUCAUUUCCCAUUACUAUAAAGUUC
AE000965.1/156-85  GGGCUCGUAGCUCAGCGGGAGAGCGCCGCCUUUGCGAGGCGGAGGCCGCGGGUUC
#=GC SS_cons       <<<<<<<..<<<<.......>>>>.<<<<<.......>>>>>.....<<<<<...

M14092.1/414-480   GAUUCUUUAAAGCGGCC
AE000965.1/156-85  AAAUCCCGCCGAGUCCA
#=GC SS_cons       ....>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln96.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln96.fasta

M14092.1/414-480   GCUGCUUGAAUGGU.....UUCAGUGUGGGCUCAUUUCCCAUUACUAUAAAGUUC
AB003409.1/96-167  GGGCCCAUAGCUCAGUGGUAGAGUGCCUCCUUUGCAAGGAGGAUGCCCUGGGUUC
#=GC SS_cons       <<<<<<<..<<<<.......>>>>.<<<<<.......>>>>>.....<<<<<...

M14092.1/414-480   GAUUCUUUAAAGCGGCC
AB003409.1/96-167  GAAUCCCAGUGGGUCCA
#=GC SS_cons       ....>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln97.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln97.fasta

AF396436.1/47447-47513  GCCGCUUGGAUGGU.....UCCGGUGUGGGCUCAUUUCCCAUAACUAUAA
AE000965.1/156-85       GGGCUCGUAGCUCAGCGGGAGAGCGCCGCCUUUGCGAGGCGGAGGCCGCG
#=GC SS_cons            <<<<<<<..<<<<.......>>>>.<<<<<.......>>>>>.....<<<

AF396436.1/47447-47513  AGUUCGAUUCUUUAAAGUGGCU
AE000965.1/156-85       GGUUCAAAUCCCGCCGAGUCCA
#=GC SS_cons            <<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln98.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln98.fasta

X04175.1/1-71           AGGGGAGUAGUUCAACGGAAAAACUUUAGUCUUCAAAACUGAC.AUCGUG
AF396436.1/47447-47513  GCCGCUUGGAUGGU.....UCCGGUGUGGGCUCAUUUCCCAUAACUAUAA
#=GC SS_cons            <<<<<<<..<<<<.......>>>>.<<<<<.......>>>>>.....<<<

X04175.1/1-71           GGUUCGACUCCCGCCUCCCUUG
AF396436.1/47447-47513  AGUUCGAUUCUUUAAAGUGGCU
#=GC SS_cons            <<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln99.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln99.fasta

X70810.2/102679-102606  GGGCUUGUAGCUCAGUGGACUAGAGCACGUGGCUACGAACUACGGAGUCA
K00634.1/531-596        GCAGCAAGGGUGGU.......CUCAACCUGGGUUCAUUCCCCAGCUA.AU
#=GC SS_cons            <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>.....<

X70810.2/102679-102606  GGGGUUCGAAUCCCUUCUUGCCCG
K00634.1/531-596        AAAGUUCGAUUCUUUGUAGCGGCU
#=GC SS_cons            <<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln100.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln100.fasta

V00158.1/694-623  GCAGAUGUAGCUCAGUGGUAGAGCGCAACCUUGCCAAGGUUGAUGCCAUGGGUUCG
M14092.1/414-480  GCUGCUUGAAUGGU.....UUCAGUGUGGGCUCAUUUCCCAUUACUAUAAAGUUCG
#=GC SS_cons      <<<<<<<..<<<<.......>>>>.<<<<<.......>>>>>.....<<<<<....

V00158.1/694-623  AGUCCCAUUAUCUGCU
M14092.1/414-480  AUUCUUUAAAGCGGCC
#=GC SS_cons      ...>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln101.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln101.fasta

V00158.1/694-623        GCAGAUGUAGCUCAGUGGUAGAGCGCAACCUUGCCAAGGUUGAUGCCAUG
AF396436.1/47447-47513  GCCGCUUGGAUGGU.....UCCGGUGUGGGCUCAUUUCCCAUAACUAUAA
#=GC SS_cons            <<<<<<<..<<<<.......>>>>.<<<<<.......>>>>>.....<<<

V00158.1/694-623        GGUUCGAGUCCCAUUAUCUGCU
AF396436.1/47447-47513  AGUUCGAUUCUUUAAAGUGGCU
#=GC SS_cons            <<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln102.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln102.fasta

M22010.1/3034-3106  GCCCCCAUCGUCUAGAGGCCUAGGACAUCUCCCUUUCACGGAGGCAA.CGGGGA
M14092.1/414-480    GCUGCUUGAAUGGU.......UUCAGUGUGGGCUCAUUUCCCAUUACUAUAAAG
#=GC SS_cons        <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>.....<<<<<

M22010.1/3034-3106  UUCGAAUUCCCCUGGGGGUA
M14092.1/414-480    UUCGAUUCUUUAAAGCGGCC
#=GC SS_cons        .......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln103.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln103.fasta

M22010.1/3034-3106      GCCCCCAUCGUCUAGAGGCCUAGGACAUCUCCCUUUCACGGAGGCAA.CG
AF396436.1/47447-47513  GCCGCUUGGAUGGU.......UCCGGUGUGGGCUCAUUUCCCAUAACUAU
#=GC SS_cons            <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>.....<

M22010.1/3034-3106      GGGAUUCGAAUUCCCCUGGGGGUA
AF396436.1/47447-47513  AAAGUUCGAUUCUUUAAAGUGGCU
#=GC SS_cons            <<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln104.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln104.fasta

X12890.1/1972-2045  GGGCUAUUAGCUCAGUUGGUUAGAGCAUACCCUUGAUAAGGGUAAGGUCGCUAG
M14092.1/414-480    GCUGCUUGAAUGGU.......UUCAGUGUGGGCUCAUUUCCCAUUACUAUAAAG
#=GC SS_cons        <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>.....<<<<<

X12890.1/1972-2045  UUCAAGUCUAGCAUGGCCCU
M14092.1/414-480    UUCGAUUCUUUAAAGCGGCC
#=GC SS_cons        .......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln105.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln105.fasta

X14822.1/1-73     UGAAUCGUAGACUAAUAGGUAAGUCACCAAAAUUUGAGUUUGGAAUUUGUUUGUUC
M14092.1/414-480  GCUGCUUGAAUGGU......UUCAGUGUGGGCUCAUUUCCCAUUACUAUAAAGUUC
#=GC SS_cons      <<<<<<<..<<<<........>>>>.<<<<<.......>>>>>.....<<<<<...

X14822.1/1-73     GAAUCAAACCGGUUCAA
M14092.1/414-480  GAUUCUUUAAAGCGGCC
#=GC SS_cons      ....>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln106.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln106.fasta

D10745.1/410-483  UGAAUUGUAGACUAAUAGGUAAGUCCCCAAAAUUUGAGUUUGGCUUAUGGUGUGUU
M14092.1/414-480  GCUGCUUGAAUGGU......UUCAGUGUGGGCUCAUUUCCCAUUA.CUAUAAAGUU
#=GC SS_cons      <<<<<<<..<<<<........>>>>.<<<<<.......>>>>>......<<<<<..

D10745.1/410-483  CGAAUCACCCCAAUUCAA
M14092.1/414-480  CGAUUCUUUAAAGCGGCC
#=GC SS_cons      .....>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln107.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln107.fasta

D10745.1/410-483        UGAAUUGUAGACUAAUAGGUAAGUCCCCAAAAUUUGAGUUUGGCUUAUGG
AF396436.1/47447-47513  GCCGCUUGGAUGGU......UCCGGUGUGGGCUCAUUUCCCAUAA.CUAU
#=GC SS_cons            <<<<<<<..<<<<........>>>>.<<<<<.......>>>>>......<

D10745.1/410-483        UGUGUUCGAAUCACCCCAAUUCAA
AF396436.1/47447-47513  AAAGUUCGAUUCUUUAAAGUGGCU
#=GC SS_cons            <<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln108.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln108.fasta

X02173.1/617-699  GGAAAAUUCACCAUAGGUA.AGGUAAAUUAUUUGCUAUGUAAUUGAAU.UUAUU.A
K02229.1/1-83     GGAAAAUUAACUAUAGGU.AAAGUGGAUUAUUUGCUAAGUAAUUGAAUUGUA..AA
#=GC SS_cons      <<<<<<<..<<<<.......>>>>..<<<<<.......>>>>>.............

X02173.1/617-699  UUCUUAUGAGUUCGAAUCUCAUAUUUUCCG
K02229.1/1-83     UUCUUAUGAGUUCGAAUCUCAUAUUUUCCG
#=GC SS_cons      .....<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln109.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln109.fasta

X00432.1/816-751        AUUCAAAUAGCUUAUAUUUAGAGUAUGACACUGAAGAUGUUAUGG.AGAU
AF396436.1/47447-47513  GCCGCUUGGAUGGU.....UCCGGUGUGGGCUCAUUUCCCAUAACUAUAA
#=GC SS_cons            <<<<<<<..<<<<.......>>>>.<<<<<.......>>>>>.....<<<

X00432.1/816-751        U..AAUU...AAUCUUUGAAUA
AF396436.1/47447-47513  AGUUCGAUUCUUUAAAGUGGCU
#=GC SS_cons            <<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln110.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln110.fasta

X00432.1/665-732    AUUUAUAUAGUUUAAAAU.AAAACCUUACAUUUUCAUUGUAAUAA.UAAAAU.A
Z75101.1/9634-9705  AGCGCCGUGGCGCAGUGGAAGCGCGCAGGGCUCAUAACCCUGAUGUCCUCGGAU
#=GC SS_cons        <<<<<<<..<<<<.......>>>>.<<<<<.......>>>>>.....<<<<<..

X00432.1/665-732    AUUU.AUUUUUAUAAAUU
Z75101.1/9634-9705  CGAAACCGAGCGGCGCUA
#=GC SS_cons        .....>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln111.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln111.fasta

AE003471.3/169154-169225  UCCCAUAUUGUCUAGUGGUUAGGAUAUCCGGCUCUCACCCGGAAGGCC
X03240.1/6071-6134        GAAUAUGAAGCGAUUA....AUUGCAGUUAGUUUCGACCUAACCUUAG
#=GC SS_cons              <<<<<<<..<<<<........>>>>.<<<<<.......>>>>>....<

AE003471.3/169154-169225  CGGGUUCAAUUCCCGGUAUGGGAA
X03240.1/6071-6134        GUA..UUAUA..UACCCUUAUUUU
#=GC SS_cons              <<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln112.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln112.fasta

AE003556.3/16759-16677  GUCAGGAUGGCCGAGUGGUCUAAGGCGCUGCGUUCAGGUCGCAGU.CUAC
X03240.1/1267-1333      AAGGCUUUAAGUUAA.CU...AAACUAAUAGCCUUCAAAGCUGUAA....
#=GC SS_cons            <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>......

AE003556.3/16759-16677  UCUGUAGGCGUGGGUUCGAAUCCCACUUCUGACA
X03240.1/1267-1333      .......AUAAAGG.GUAUU.CCUUUAAGUCUUA
#=GC SS_cons            .........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln113.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln113.fasta

AC099014.1/146549-146620  GCCGUGAUCGUCUAGUGGUUAGGACCCCACGUUGUGGCCGUGGUAACC
X03240.1/6071-6134        GAAUAUGAAGCGAUUA....AUUGCAGUUAGUUUCGACCUAACCUUAG
#=GC SS_cons              <<<<<<<..<<<<........>>>>.<<<<<.......>>>>>....<

AC099014.1/146549-146620  CAGGUUCGAAUCCUGGUCACGGCA
X03240.1/6071-6134        GUA..UUAUA..UACCCUUAUUUU
#=GC SS_cons              <<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln114.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln114.fasta

AC099014.1/146549-146620  GCCGUGAUCGUCUAGUGGUUAGGACCCCACGUUGUGGCCGUGGUAACC
AF164586.1/93-158         AGUUAAUGAGCUUG..AA..CAAGCGUAUGUUUUGAAAACAUAAGAUA
#=GC SS_cons              <<<<<<<..<<<<........>>>>.<<<<<.......>>>>>....<

AC099014.1/146549-146620  CAGGUUCGAAUCCUGGUCACGGCA
AF164586.1/93-158         GAA.UUUAAUU.UUCUAUUAACUU
#=GC SS_cons              <<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln115.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln115.fasta

L76657.1/1-67     UUAAUUGAAACCAAAAAGAGGUAUAUCACUGUUAAUGAUAUAAUUGAAUA.UUAU.
K00634.1/531-596  GCAGCAAGGGUGGU...CUCAACCUGGGUUCAUUCCCCAGCUA.AUAAAGUUCGAU
#=GC SS_cons      <<<<<<<..<<<<.....>>>>.<<<<<.......>>>>>.....<<<<<......

L76657.1/1-67     .UAUUCCAAUUAAG
K00634.1/531-596  UCUUUGUAGCGGCU
#=GC SS_cons      .>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln116.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln116.fasta

X03499.1/37-110  GGUCGGAUGGUGUAGUCGGUUAUCACGGUUGCUUUACACGCAACAGGUCUCGAGUUC
L76657.1/1-67    UUAAUUGAAACCAAA..AA..GAGGUAUAUCACUGUUAAUGAUAUAAUUGAAUA.UU
#=GC SS_cons     <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>.....<<<<<...

X03499.1/37-110  GAUCCUCGGUCGGAUCA
L76657.1/1-67    AU..UAUUCCAAUUAAG
#=GC SS_cons     ....>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln117.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln117.fasta

X15901.1/44438-44524  GGAGAGAUGGCCGAGCGGUUCAAGGCGUAGCAUUGGAACUGCUAUGUAGACU
X07924.1/110-197      GGAGAGAUGGCCGAGUGGUUGAAGGCGCAGCACUGGAAAUGCUGUUUAAGGU
#=GC SS_cons          <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>........

X15901.1/44438-44524  UUU.GUUUACCGAGGGUUCGAAUCCCUCUCUUUCCG
X07924.1/110-197      UUUCCCUUAACGAGGGUUCGAAUCCCUCUCUCUCCG
#=GC SS_cons          ...........<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln118.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln118.fasta

X05295.1/313-226  GGAGAGAUGGCUGAGUGGUUGAUAGCUCCGGUCUUGAAAACCGGUAUAGUUCUAGG
M20966.1/1-88     GGAGAGAUGGCCGAGUGGUUUAUGGCGUCGGUCUUGAAAACCGAUAUAGUUUUUAA
#=GC SS_cons      <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>............

X05295.1/313-226  AACUAUCGAGGGUUCGAAUCCCUCUCUCUCCU
M20966.1/1-88     GAUUAUCGAGGGUUCAAAUCCCUCUCUCUCCU
#=GC SS_cons      .......<<<<<.......>>>>>>>>>>>>.
//
# STOCKHOLM 1.0

#=GF AC  RF00005|BRAliBaseII/data-set2/unaligned/aln119.fasta
#=GF ID  tRNA|BRAliBaseII/data-set2/unaligned/aln119.fasta

X00476.1/1-85  GGGGAUAUGGCGAAAUUGGUAGACGCUACGGACUUAAAAUCCGUCGACU.UAAGA.AAU
M20957.1/1-85  GGGGGUAUGGCGAAAUUGGUAGACGCUGCGGACUUAAAAUCCGUUGGCUUUAA..AGAC
#=GC SS_cons   <<<<<<<..<<<<.........>>>>.<<<<<.......>>>>>...............

X00476.1/1-85  CAUGAGGGUUCAAGUCCCUCUAUCCCCA
M20957.1/1-85  CGUGAGGGUUCAAGUCCCUCUACCCCCA
#=GC SS_cons   ...<<<<<.......>>>>>>>>>>>>.
//
