lowQualScore                  :               33         88 777   2 2        2   333    44 22      4  2   2    888888888 22 22 888888 0       77 2   2     2  2   3   444    2 2      2    
lowQualScore                  :               ..         .. ...   . .        .   ...    .. ..      .  .   .    ......... .. .. ...... .       .. .   .     .  .   .   ...    . .      .    
lowQualScore                  :               77         77 333   4 4        1   555    88 88      2  1   1    444444444 99 99 999999 1       99 1   1     2  2   1   222    2 2      5    
consensus                     :   NAATGTCAATCA--ATTTCTATC-AT---CCA-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-TCCC
Reference ( gi|7 )            :   CAATGTCAATCA--ATTTCTATC-CT---CCA-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-TCCC
gi|5                          :    AATGTCAATCA--ATTTCTATC-AT---CCA-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGGCCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCTCTCCC
gi|12                         :  taAATGTCAATCA--ATTTCTATC-AT---CCA-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTT
gi|13                         :  taAATGTCAATCC--ATTTCTATC-AT---CCA-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-gt
gi|4                          :  taAATGTCAATCA--ATTTCCATA-AT---CCA-A-TATAAAGG-TAA---ATTG--C--AAATGA-CTTAAC-AGTG---------G--T--A------CGTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-
gi|3                          :  taAATGTCAATCA--ATTTTTATC-CTG--CCACA-TATAAAGG-TAA---AT----C--ACATGAACT-GAC-AGTG---------G--T--A------CCTAGACCAG-G-GTAGAATTT-GA-GGGAGGT-G-GCTTAA-TTTTCT-CCCCcggcc
gi|9                          :  taAACGTCAATCA--GTTTCAATC-AT---CCA-A-TAGAAAGG-TAA---ATTT--C--AACTGA-CT-GAC-AGTG---------G--T--A------CATAGACCA--G-GTA-AATTT-GA-GGGCGGT---GCTT-A-TTTTCT-
gi|14                         : ttaAATGACACTCA--ATTTTGAGC-AT---CCA-T-TCTGAGGC-TTA---ATTC--T--ACCTGA-TT-GAC-AAAG---------G--TTGA------C--AGACCA--A-GTA-AATTT-GA-AGGCGGT---ACTT-A-TTTGCT-c
gi|11                         :  ctaATGTCAATCA---TTTCTATCTCT---CCA-A--ATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCACGG-GTA-AATTT-GAGGGGAGGT-G-GCTT-A-TTTTCT-TC
gi|15                         :     ATGTCAATCA--ATTTTTATC-AT---CCA-A-TATAAAGG-TAA---ATTG--T--AAATGA-CT-GAG-AGTG---------A--T--A------CCTAGATCA--G-GT---------------GGT-G-GCTT-A-TTTTTT-
gi|6                          :    atTGTCA-TCACAATTTCTATC-AT---CCA-A-TATAAAGGGTAA---ATTG--C--AAATGAACT-GACCAGTG---------G--T--AAC----CTTAGACCATTG-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-tt
gi|21                         :      TGTCAATCA--GTTTCTATC-CT---CCA-A-TATAAAGG-TAA---ATTG--C--Ac
gi|8                          :      TGACAATCA--ATTTCTGGC-AT---CCA-A-TGTGAAGC-TTATTTTTTC--C--A---GA-TT-AAC-AGTG---------G--C--T------CATAGAACA--G-TTA-AATTT-GA-AGG-CGT-T-GTTT-A-TTTCCT-
gi|16                         : ctaatTGTCAGTTA--ATTTCTAAT-TT---TCA-G-TCTGAAGC-T------TTA--C--C--TGA-TT-GAC-AGGA---------G--T--T------CACACACCA--G-ATA-AATTT-GA-AGGCAGT---GCTT-A-Tca
gi|10                         :      ttTCAATCA--ATT-CTATC-CT---CCA-A-TATAAAGG-TAA----TTG--C--AGCTGA--T-GAC-AGTG---------G--T--A------CCTAGAACA--G-GTA-A-TTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-CCCC
gi|2                          :   ctaaaTCAATCA--ATTTCTATC-CTCCTCCA-A-TATAGAGG-TAA---ATTG--CAAAAATGA-CT-GAC-AGCA---------GGCT--A------CCTAGACCA--GTGTA-AATTT-GA-GGGAGGTGG-GCTT-A-TTTTCT-tt
gi|1                          :                             acgcCA-ACTATAAAGG-TAA---ATTGGCC--AAATGA-CT-GAC-CATA---------G--T--ATTTGGACCTAGACCA--G-GTA-AATTTGGA-GTGAAGC-GTGCTT-ATTTTTCT-ACCCt
gi|18                         :    tccaaaatcaatattgaactaatccgtgcaA-A-TATAAAGG-TAA---ATTG--A--AAATGA-CT-GAC-AGTG---------A--C--A------CCTAGACCA--G-GT---------------GGT-G-GCTT-A-TTTTTT-t
gi|20                         :                                       ATAAAGG-TAA---ATTGG-C--AAATGA-CT-GAG-AGTGGTGCCTAATG--T--A------CCTAGACCA--G-GTA-AAcggc
gi|17                         :                                          AAGG-TAA---ATTG--C--AAATGA-CT-GAC-AATG---------G--A--A------CCTAGATCA--G-GTA-AATGT-GA-AGACGGT-G-GCTA-A-TTTTCT-at
gi|19                         :                                                 A---ATTT--C--AAATGA-CT-GAC-AGTA---------G--T--A------CATAGACCA--G-GTA-AATTT-TA-GGGCGGT-G-GTTA-A-TTTCCT-cggcc





Alignments
lowQualScore                  :                                  33             44 2  333 2 2        2   333    44 22      4  2   2    888888888 22 22 888888         77 2   2     2  2   2   333    2 2      2    
lowQualScore                  :                                  ..             .. .  ... . .        .   ...    .. ..      .  .   .    ......... .. .. ......         .. .   .     .  .   .   ...    . .      .    
lowQualScore                  :                                  44             11 5  999 2 2        0   333    55 66      0  0   0    000000000 88 88 555555         55 0   0     1  1   4   444    1 1      4    
consensus                     :                          NAATGTCA--ATCAATTTCTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-TCCC
Reference ( family-479 )      :                          NAATGTCA--ATCAATTTCTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-TCCC
gi|1                          :                                                      C---A-ACTATAAAGG-TAA---ATTGGCC--AAATGA-CT-GAC-CATA---------G--T--ATTTGGACCTAGACCA--G-GTA-AATTTGGA-GTGAAGC-GTGCTT-ATTTTTCT-ACCC
gi|10                         : tccaaaatcaatattgaactaatccgtgcaTCA--ATCAATT-CTATC-CT-CC---A-A-TATAAAGG-TAA----TTG--C--AGCTGA--T-GAC-AGTG---------G--T--A------CCTAGAACA--G-GTA-A-TTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-CCCCt
gi|11                         :                       ctaaaATGTCA--ATCA-TTTCTATCTCT-CC---A-A--ATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCACGG-GTA-AATTT-GAGGGGAGGT-G-GCTT-A-TTTTCT-TCtt
gi|12                         :                           AATGTCA--ATCAATTTCTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTT
gi|13                         :                         taAATGTCA--ATCCATTTCTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-gt
gi|14                         :                         taAATGACA--CTCAATTTTGAGC-AT-CC---A-T-TCTGAGGC-TTA---ATTC--T--ACCTGA-TT-GAC-AAAG---------G--TTGA------C--AGACCA--A-GTA-AATTT-GA-AGGCGGT---ACTT-A-TTTGCT-
gi|15                         :                         ctaATGTCA--ATCAATTTTTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--T--AAATGA-CT-GAG-AGTG---------A--T--A------CCTAGATCA--G-GT---------------GGT-G-GCTT-A-TTTTTT-
gi|16                         :                           atTGTCA--GTTAATTTCTAAT-TT-TC---A-G-TCTGAAGC-T------TTA--C--C--TGA-TT-GAC-AGGA---------G--T--T------CACACACCA--G-ATA-AATTT-GA-AGGCAGT---GCTT-A-Ttt
gi|17                         :                                                                ttAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AATG---------G--A--A------CCTAGATCA--G-GTA-AATGT-GA-AGACGGT-G-GCTA-A-TTTTCT-
gi|18                         :                                                       ---A-A-TATAAAGG-TAA---ATTG--A--AAATGA-CT-GAC-AGTG---------A--C--A------CCTAGACCA--G-GT---------------GGT-G-GCTT-A-TTTTTT-cggcc
gi|19                         :                                                                         A---ATTT--C--AAATGA-CT-GAC-AGTA---------G--T--A------CATAGACCA--G-GTA-AATTT-TA-GGGCGGT-G-GTTA-A-TTTCCT-cggc
gi|2                          :                               TCA--ATCAATTTCTATC-CT-CCTCCA-A-TATAGAGG-TAA---ATTG--CAAAAATGA-CT-GAC-AGCA---------GGCT--A------CCTAGACCA--GTGTA-AATTT-GA-GGGAGGTGG-GCTT-A-TTTTCT-cg
gi|20                         :                                                           acgcATAAAGG-TAA---ATTGG-C--AAATGA-CT-GAG-AGTGGTGCCTAATG--T--A------CCTAGACCA--G-GTA-AAt
gi|21                         :                             TGTCA--ATCAGTTTCTATC-CT-CC---A-A-TATAAAGG-TAA---ATTG--C--Aat
gi|3                          :                           AATGTCA--ATCAATTTTTATC-CTGCC---ACA-TATAAAGG-TAA---AT----C--ACATGAACT-GAC-AGTG---------G--T--A------CCTAGACCAG-G-GTAGAATTT-GA-GGGAGGT-G-GCTTAA-TTTTCT-CCCC
gi|4                          :                         taAATGTCA--ATCAATTTCCATA-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CTTAAC-AGTG---------G--T--A------CGTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-
gi|5                          :                         taAATGTCA--ATCAATTTCTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGGCCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCTCTCCCcggcc
gi|6                          :                           taTGTCATCA-CAATTTCTATC-AT-CC---A-A-TATAAAGGGTAA---ATTG--C--AAATGAACT-GACCAGTG---------G--T--AAC----CTTAGACCATTG-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-
gi|7                          :                           AATGTCA--ATCAATTTCTATC-CT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-TCCCc
gi|8                          :                            cTGACA--ATCAATTTCTGGC-AT-CC---A-A-TGTGAAGC-TTATTTTTTC--C--A---GA-TT-AAC-AGTG---------G--C--T------CATAGAACA--G-TTA-AATTT-GA-AGG-CGT-T-GTTT-A-TTTCCT-
gi|9                          :                      ctaatAACGTCA--ATCAGTTTCAATC-AT-CC---A-A-TAGAAAGG-TAA---ATTT--C--AACTGA-CT-GAC-AGTG---------G--T--A------CATAGACCA--G-GTA-AATTT-GA-GGGCGGT---GCTT-A-TTTTCT-ca





Alignments
lowQualScore                  :                                  33             44 2  333 2 2        2   333    44 22      4  2   2    888888888 22 22 888888         77 2   2     2  2   2   333    2 2      2    
lowQualScore                  :                                  ..             .. .  ... . .        .   ...    .. ..      .  .   .    ......... .. .. ......         .. .   .     .  .   .   ...    . .      .    
lowQualScore                  :                                  44             11 5  999 2 2        0   333    55 66      0  0   0    000000000 88 88 555555         55 0   0     1  1   4   444    1 1      4    
consensus                     :                          NAATGTCA--ATCAATTTCTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-TCCC
Reference ( family-479 )      :                          NAATGTCA--ATCAATTTCTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-TCCC
gi|1                          :                                                      C---A-ACTATAAAGG-TAA---ATTGGCC--AAATGA-CT-GAC-CATA---------G--T--ATTTGGACCTAGACCA--G-GTA-AATTTGGA-GTGAAGC-GTGCTT-ATTTTTCT-ACCC
gi|10                         : tccaaaatcaatattgaactaatccgtgcaTCA--ATCAATT-CTATC-CT-CC---A-A-TATAAAGG-TAA----TTG--C--AGCTGA--T-GAC-AGTG---------G--T--A------CCTAGAACA--G-GTA-A-TTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-CCCCt
gi|11                         :                       ctaaaATGTCA--ATCA-TTTCTATCTCT-CC---A-A--ATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCACGG-GTA-AATTT-GAGGGGAGGT-G-GCTT-A-TTTTCT-TCtt
gi|12                         :                           AATGTCA--ATCAATTTCTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTT
gi|13                         :                         taAATGTCA--ATCCATTTCTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-gt
gi|14                         :                         taAATGACA--CTCAATTTTGAGC-AT-CC---A-T-TCTGAGGC-TTA---ATTC--T--ACCTGA-TT-GAC-AAAG---------G--TTGA------C--AGACCA--A-GTA-AATTT-GA-AGGCGGT---ACTT-A-TTTGCT-
gi|15                         :                         ctaATGTCA--ATCAATTTTTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--T--AAATGA-CT-GAG-AGTG---------A--T--A------CCTAGATCA--G-GT---------------GGT-G-GCTT-A-TTTTTT-
gi|16                         :                           atTGTCA--GTTAATTTCTAAT-TT-TC---A-G-TCTGAAGC-T------TTA--C--C--TGA-TT-GAC-AGGA---------G--T--T------CACACACCA--G-ATA-AATTT-GA-AGGCAGT---GCTT-A-Ttt
gi|17                         :                                                                ttAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AATG---------G--A--A------CCTAGATCA--G-GTA-AATGT-GA-AGACGGT-G-GCTA-A-TTTTCT-
gi|18                         :                                                       ---A-A-TATAAAGG-TAA---ATTG--A--AAATGA-CT-GAC-AGTG---------A--C--A------CCTAGACCA--G-GT---------------GGT-G-GCTT-A-TTTTTT-cggcc
gi|19                         :                                                                         A---ATTT--C--AAATGA-CT-GAC-AGTA---------G--T--A------CATAGACCA--G-GTA-AATTT-TA-GGGCGGT-G-GTTA-A-TTTCCT-cggc
gi|2                          :                               TCA--ATCAATTTCTATC-CT-CCTCCA-A-TATAGAGG-TAA---ATTG--CAAAAATGA-CT-GAC-AGCA---------GGCT--A------CCTAGACCA--GTGTA-AATTT-GA-GGGAGGTGG-GCTT-A-TTTTCT-cg
gi|20                         :                                                           acgcATAAAGG-TAA---ATTGG-C--AAATGA-CT-GAG-AGTGGTGCCTAATG--T--A------CCTAGACCA--G-GTA-AAt
gi|21                         :                             TGTCA--ATCAGTTTCTATC-CT-CC---A-A-TATAAAGG-TAA---ATTG--C--Aat
gi|3                          :                           AATGTCA--ATCAATTTTTATC-CTGCC---ACA-TATAAAGG-TAA---AT----C--ACATGAACT-GAC-AGTG---------G--T--A------CCTAGACCAG-G-GTAGAATTT-GA-GGGAGGT-G-GCTTAA-TTTTCT-CCCC
gi|4                          :                         taAATGTCA--ATCAATTTCCATA-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CTTAAC-AGTG---------G--T--A------CGTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-
gi|5                          :                         taAATGTCA--ATCAATTTCTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGGCCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCTCTCCCcggcc
gi|6                          :                           taTGTCATCA-CAATTTCTATC-AT-CC---A-A-TATAAAGGGTAA---ATTG--C--AAATGAACT-GACCAGTG---------G--T--AAC----CTTAGACCATTG-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-
gi|7                          :                           AATGTCA--ATCAATTTCTATC-CT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-TCCCc
gi|8                          :                            cTGACA--ATCAATTTCTGGC-AT-CC---A-A-TGTGAAGC-TTATTTTTTC--C--A---GA-TT-AAC-AGTG---------G--C--T------CATAGAACA--G-TTA-AATTT-GA-AGG-CGT-T-GTTT-A-TTTCCT-
gi|9                          :                      ctaatAACGTCA--ATCAGTTTCAATC-AT-CC---A-A-TAGAAAGG-TAA---ATTT--C--AACTGA-CT-GAC-AGTG---------G--T--A------CATAGACCA--G-GTA-AATTT-GA-GGGCGGT---GCTT-A-TTTTCT-ca


blockSeqs                     :                                  TC             TC G  TCC C .        G   TTT    G  AA      A  T   C    GTGCCTAAT GC TG AC             CG T   G     .  G   A   GG     A .      C
blockSeqs                     :                                  .              A  .  .   . .        .   .      .  .       A  .   .    .         .  .  .              TT .   .     .  .   A   G      . .      .
blockSeqs                     :                                  .              A  .  .   . .        .   .      .  .       .  .   .    .         .  .  .              G  .   .     .  .   A   G      . .      .
blockSeqs                     :                                  .              A  .  .   . .        .   .      .  .       .  .   .    .         .  .  .              .  .   .     .  .   A   G      . .      .
blockSeqs                     :                                  .              A  .  .   . .        .   .      .  .       .  .   .    .         .  .  .              .  .   .     .  .   C   G      . .      .
blockSeqs                     :                                  .              T  .  .   . .        .   .      .  .       .  .   .    .         .  .  .              .  .   .     .  .   C   G      . .      .
blockSeqs                     :                                  .              C  .  .   . .        .   .      .  .       .  .   .    .         .  .  .              .  .   .     .  .   C   G      . .      .
blockSeqs                     :                                  .              C  .  .   . .        .   .      .  .       .  .   .    .         .  .  .              .  .   .     .  .   C   G      . .      .
blockSeqs                     :                                  .              C  .  .   . .        .   .      .  .       .  .   .    .         .  .  .              .  .   .     .  .   A   G      . .      .
blockSeqs                     :                                  .              A  .  .   . .        .   .      .  .       .  .   .    .         .  .  .              .  .   .     .  .   A   G      . .      .
blockSeqs                     :                                  .              A  .  .   . .        .   .      .  .       .  .   .    .         .  .  .              .  .   .     .  .   A   G      . .      .
blockSeqs                     :                                  .              A  .  .   . .        .   .      .  .       .  .   .    .         .  .  .              .  .   .     .  .   A   G      . .      .
blockSeqs                     :                                  .              C  .  .   . .        .   .      .  .       .  .   .    .         .  .  .              .  .   .     .  .   A   G      . .      .
blockSeqs                     :                                  .              A  .  .   . .        .   .      .  .       .  .   .    .         .  .  .              .  .   .     .  .   A   G      . .      .
blockSeqs                     :                                  .              A  .  .   . .        .   .      .  .       .  .   .    .         .  .  .              .  .   .     .  .   C   T      . .      .
blockSeqs                     :                                                       .   . .        .   .      .  .       .  .   .    .         .  .  .              .  .   .     .  .   .   .      . .      .
blockSeqs                     :                                                       .   . .        .   .      .  .       .  .   .    .         .  .  .              .  .   .     .  .   .   .      . .       
blockSeqs                     :                                                                      .   .      .  .       .  .   .    .         .  .  .              .  .   .     .  .   .   .      . .       
blockSeqs                     :                                                                      .   .      .  .       .  .   .    .         .  .  .              .  .   .                                 
blockSeqs                     :                                                                          .      .  .                                                                                           


blockSeqCons                  :                                                                                 **                                     ******                                 G**
originalCons                  :                          NAATGTCA--ATCAATTTCTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-TCCC
finalCons                     :                          NAATGTCA--ATCAATTTCTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGTG--GCTT-A-TTTTCT-TCCC





Alignments
lowQualScore                  :                                  33             44 2  333 2 2        2   333    44 22      4  2   2    888888888 22 22 888888         77 2   2     2  2   2   333    2 2      2    
lowQualScore                  :                                  ..             .. .  ... . .        .   ...    .. ..      .  .   .    ......... .. .. ......         .. .   .     .  .   .   ...    . .      .    
lowQualScore                  :                                  44             11 5  999 2 2        0   333    55 66      0  0   0    000000000 88 88 555555         55 0   0     1  1   4   444    1 1      4    
consensus                     :                          NAATGTCA--ATCAATTTCTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-TCCC
Reference ( family-479 )      :                          NAATGTCA--ATCAATTTCTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-TCCC
gi|1                          :                                                      C---A-ACTATAAAGG-TAA---ATTGGCC--AAATGA-CT-GAC-CATA---------G--T--ATTTGGACCTAGACCA--G-GTA-AATTTGGA-GTGAAGC-GTGCTT-ATTTTTCT-ACCC
gi|10                         : tccaaaatcaatattgaactaatccgtgcaTCA--ATCAATT-CTATC-CT-CC---A-A-TATAAAGG-TAA----TTG--C--AGCTGA--T-GAC-AGTG---------G--T--A------CCTAGAACA--G-GTA-A-TTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-CCCCt
gi|11                         :                       ctaaaATGTCA--ATCA-TTTCTATCTCT-CC---A-A--ATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCACGG-GTA-AATTT-GAGGGGAGGT-G-GCTT-A-TTTTCT-TCtt
gi|12                         :                           AATGTCA--ATCAATTTCTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTT
gi|13                         :                         taAATGTCA--ATCCATTTCTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-gt
gi|14                         :                         taAATGACA--CTCAATTTTGAGC-AT-CC---A-T-TCTGAGGC-TTA---ATTC--T--ACCTGA-TT-GAC-AAAG---------G--TTGA------C--AGACCA--A-GTA-AATTT-GA-AGGCGGT---ACTT-A-TTTGCT-
gi|15                         :                         ctaATGTCA--ATCAATTTTTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--T--AAATGA-CT-GAG-AGTG---------A--T--A------CCTAGATCA--G-GT---------------GGT-G-GCTT-A-TTTTTT-
gi|16                         :                           atTGTCA--GTTAATTTCTAAT-TT-TC---A-G-TCTGAAGC-T------TTA--C--C--TGA-TT-GAC-AGGA---------G--T--T------CACACACCA--G-ATA-AATTT-GA-AGGCAGT---GCTT-A-Ttt
gi|17                         :                                                                ttAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AATG---------G--A--A------CCTAGATCA--G-GTA-AATGT-GA-AGACGGT-G-GCTA-A-TTTTCT-
gi|18                         :                                                       ---A-A-TATAAAGG-TAA---ATTG--A--AAATGA-CT-GAC-AGTG---------A--C--A------CCTAGACCA--G-GT---------------GGT-G-GCTT-A-TTTTTT-cggcc
gi|19                         :                                                                         A---ATTT--C--AAATGA-CT-GAC-AGTA---------G--T--A------CATAGACCA--G-GTA-AATTT-TA-GGGCGGT-G-GTTA-A-TTTCCT-cggc
gi|2                          :                               TCA--ATCAATTTCTATC-CT-CCTCCA-A-TATAGAGG-TAA---ATTG--CAAAAATGA-CT-GAC-AGCA---------GGCT--A------CCTAGACCA--GTGTA-AATTT-GA-GGGAGGTGG-GCTT-A-TTTTCT-cg
gi|20                         :                                                           acgcATAAAGG-TAA---ATTGG-C--AAATGA-CT-GAG-AGTGGTGCCTAATG--T--A------CCTAGACCA--G-GTA-AAt
gi|21                         :                             TGTCA--ATCAGTTTCTATC-CT-CC---A-A-TATAAAGG-TAA---ATTG--C--Aat
gi|3                          :                           AATGTCA--ATCAATTTTTATC-CTGCC---ACA-TATAAAGG-TAA---AT----C--ACATGAACT-GAC-AGTG---------G--T--A------CCTAGACCAG-G-GTAGAATTT-GA-GGGAGGT-G-GCTTAA-TTTTCT-CCCC
gi|4                          :                         taAATGTCA--ATCAATTTCCATA-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CTTAAC-AGTG---------G--T--A------CGTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-
gi|5                          :                         taAATGTCA--ATCAATTTCTATC-AT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGGCCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCTCTCCCcggcc
gi|6                          :                           taTGTCATCA-CAATTTCTATC-AT-CC---A-A-TATAAAGGGTAA---ATTG--C--AAATGAACT-GACCAGTG---------G--T--AAC----CTTAGACCATTG-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-
gi|7                          :                           AATGTCA--ATCAATTTCTATC-CT-CC---A-A-TATAAAGG-TAA---ATTG--C--AAATGA-CT-GAC-AGTG---------G--T--A------CCTAGACCA--G-GTA-AATTT-GA-GGGAGGT-G-GCTT-A-TTTTCT-TCCCc
gi|8                          :                            cTGACA--ATCAATTTCTGGC-AT-CC---A-A-TGTGAAGC-TTATTTTTTC--C--A---GA-TT-AAC-AGTG---------G--C--T------CATAGAACA--G-TTA-AATTT-GA-AGG-CGT-T-GTTT-A-TTTCCT-
gi|9                          :                      ctaatAACGTCA--ATCAGTTTCAATC-AT-CC---A-A-TAGAAAGG-TAA---ATTT--C--AACTGA-CT-GAC-AGTG---------G--T--A------CATAGACCA--G-GTA-AATTT-GA-GGGCGGT---GCTT-A-TTTTCT-ca