lowQualScore                  :                                                                                                                1111111111111111111111111111111111111111111                                                                                           
lowQualScore                  :       888888888888888888888     333333      4444           4444          4444            1                     3333333333333333333333333333333333333333333                   333333    111       333           111      222              1           
lowQualScore                  :       999999999999999999999     777777  4   4444           2222          4444  3 66      3  6         6        5555555555555555555555555555555555555555555      0      0 6 1 999999    999     2 111           333   3  222          2   2   3       
lowQualScore                  :       .....................     ......  .   ....           ....          ....  . ..      .  .         .        ...........................................      .      . . . ......    ...     . ...           ...   .  ...          .   .   .       
lowQualScore                  :       555555555555555555555     555555  0   5555           5555          0000  0 55      3  7         7        3333333333333333333333333333333333333333333      2      7 7 0 000000    888     3 000           777   6  555          4   5   6       
consensus                     : TAATTT---TACCAAATTTGCNGTCATAGCAACCACAATTNTTTGTANGGCTGGAAAAAATAATGAAATGACCCGNCATNANNTCCTTA-TTNCTCTCTATCAACGTGCGAAGTTTCACGA---CA-CTTTGATACTTTTT-AGTAAT------TTTCCAGATGGACGCCAGACG----AACA--GATGGACG-NAGGGTAAACCTA-TAGTC-CCCTNCGGTGAAACCGGTAGGGG-ACTAATA
Reference ( gi|1 )            : TAATTTCCTTACCAG-CTTACAG--ATAGCAATCACAATTTTTTGTCTGACTGAAAAAA----TAAAATGACCTGT-ATTATCTCCTTA-TTGCTCTCTATCCACATGCAAAAGTTCACAACCCTAGCTTGAATACTTTTTGAGTAATT-----TTTCCAGATGGACGCCAAATG----AACA--AATGGATG-TTGGGTAAACCTA-TGGTC-CCTAACAGTGAAACCAGTATGGG-ACTAATA
gi|4                          : TAATTT---TACCAAATTTATTGTCATAGCAACCAC--TTTTTT---CGACTGAAAAAAATAATGAAATAACTCAG-ATGAAGTCCTTA-TTGCTCTTTATTCACGTGCAAAGTTTCACAAATGCAGCTTTGATACTTTTTGTGTAA----------CCAAATG
gi|3                          :                  TTGCAA--A-AGCAA-CA-AATTATTTGTAAGGCTGGAAAAA----TAAAATGACC-GTCATTATCTCCTTATTTTTTCTCTATCAACATGCAA-----------------------ATTTTTTTAGTAATA-----TTTCCGTACGGACGCCAGACGGACTGACA--GAGGGACG-TCGGG
gi|2                          :                                                                                         A-TTCCCGTCTATCAACATGTGAAGTTTCATGAC--TA-CTTTAATGC------AG-AATTCATATTTTCTAGATAGACAC-AAA------AACATGGATGGATG-AAATGTAAACCTA-AAGTC-CTCTATGCTGAAACCAGTACGAG-ACAAATAcgga
gi|5                          :                                                                                                                                          aataacttttgtaatgtttaaCAGATGGACAACAGATG----AACA--GATGCATG----GTTGAACCTA-AAACC-CCCTTCAGTGAAAGCAGTAGGGA-ACTAA
gi|7                          :                                                                                                                                                                                   tgACA--GATGGATA-GAGAATAAGCCTA-TAGTCACCTC-CAGTAAAACCAGTAACGA-ACTAATA
gi|12                         :                                                                                                                                                                                           ATGGA-----GGATAACCCTA-TAGTC-CCATACAGTGAAATGGGC-TGAGTACTAATA
gi|15                         :                                                                                                                                                                                            gGGATG-GAGGGTAAATCTA-AAGTC-TCTA-CGGTGTAACCAGTAGGGG-ACTAAa
gi|8                          :                                                                                                                                                                                             GGACGATCGGGCAAACCTA-AAGTT-CCCAGCAGTAAAAGCGGTAATGG-ACTAATAa
gi|9                          :                                                                                                                                                                                                    cGGGTAAACCTA-TAGTT-CCTTACGGTGAAACCCGTAGGGT-GCTAATaa
gi|11                         :                                                                                                                                                                                             cagttggaGGGTAAACCTA-TAGTC-TGTTCCAG-GAAACCTGTAGGGG-ACTAACAgaca
gi|13                         :                                                                                                                                                                                             cagacagaGGGTAAACCTAATAGTC-CCCTCTGGTGAAACTGATAGGGA-ACTAATA
gi|10                         :                                                                                                                                                                                                 atagaGGTAAACCTA-TAGTC-CCTTAAGGTGAAACCGGTAAGGG-ACTAACA
gi|14                         :                                                                                                                                                                                           gacggacggaaGGTAAACCTAATAGTC-CCCTCTGGTGAAACTGATAGGGA-ACTAATA
4 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|6 ): GGACAGATGTCAGACCAACGAAGGGTAAAGCTATAGTCCCGTCTGATGAAACTAGCAGGGATAAG
Unaligned ( gi|16 ): GCTTCGATACTTTTCGAGTAATATATTTTTAAATAATCTTTCTGGCCGGA
Unaligned ( gi|17 ): GCTTTGATACTTTTCGAGTAATATTTTTTTAAATAATCTTTCTGGCCAGA
Unaligned ( gi|18 ): TTGGATATTTTTCGGGTACTTAATCTTTCCGGACAG






Alignments
lowQualScore                  :              333      1       11          11       1111     1         11          22            1                   1        666666666666666666666666666     222    111111                222222                                                                
lowQualScore                  :              555      5   6 1 88        6 44   1   3333 0   2   7     11      6   44  1 22      0  1         3  2   0     3  555555555555555555555555555     777    444444           8    888888    77        55            6       2 1          1              
lowQualScore                  :              ...      .   . . ..        . ..   .   .... .   .   .     ..      .   ..  . ..      .  .         .  .   .     .  ...........................     ...    ......           .    ......    ..        ..            .       . .          .              
lowQualScore                  :              000      5   0 0 00        7 00   0   7777 7   0   3     00      7   33  0 00      0  0         0  0   5     2  555555555555555555555555555     000    222222           8    000000    99        00            2       6 0          2              
consensus                     :        TAATTTCCTTACCAGACTTACNGTCATAGCAACCACAATTTTTTGT-CGACTGGAAAAAATAATGAAATGACCCGT-ATTATCTCCTTA-TTNCTCTCTATCNACATGCGAAGTTTCACGA---C-A-CT---TTGA-TAC----TTTTT-A-GTAAT-TTT-CCAGATGGACGCCAGACG----AACA--GACGGACGG-AGGGTAAACCTA-TAGTCCCCTNCGGTGAAACCGGTAGGGGACTAATA
Reference ( family-9956 )     :        TAATTT---TACCAAATTTGCNGTCATAGCAACCACAATTNTTTGTANGGCTGGAAAAAATAATGAAATGACCCGNCATNANNTCCTTA-TTNCTCTCTATCAACGTGCGAAGTTTCACGA---C-A-CT---TTGA-TAC----TTTTT-A-GTAAT-TTT-CCAGATGGACGCCAGACG----AACA--GATGGACGN-AGGGTAAACCTA-TAGTCCCCTNCGGTGAAACCGGTAGGGGACTAATA
gi|1                          :        TAATTTCCTTACCAG-CTTACAG--ATAGCAATCACAATTTTTTGTCTGACTG-AAAAAATAA---AATGACCTGT-ATTATCTCCTTA-TTGCTCTCTATCCACATGCAAAAGTTCACAA---C-C-CTAGCTTGAATAC----TTTTTGA-GTAAT-TTTTCCAGATGGACGCCAAATG----AACA--AATGGATGT-TGGGTAAACCTA-TGGTCCCTAACAGTGAAACCAGTATGGGACTAATA
gi|10                         :                                                                                                                                                                                                     --GACGGACGG-AAGGTAAACCTA-TAGTCCCTTAAGGTGAAACCGGTAAGGGACTAACA
gi|11                         :                                                                                                                                                                                                           GACAG-AGGGTAAACCTA-TAGTCTGTTCCAG-GAAACCTGTAGGGGACTAACA
gi|12                         :                                                                                                                                                                                                         caGATGG-AGGATAACCCTA-TAGTCCCATACAGTGAAATGGGCTGAGTACTAATA
gi|13                         :                                                                                                                                                                                                                -AGGGTAAACCTAATAGTCCCCTCTGGTGAAACTGATAGGGAACTAATAa
gi|14                         :                                                                                                                                                                                                            atag-AAGGTAAACCTAATAGTCCCCTCTGGTGAAACTGATAGGGAACTAATA
gi|15                         :                                                                                                                                                                                                       tagGGATGG-AGGGTAAATCTA-AAGTCTC-TACGGTGTAACCAGTAGGGGACTAA
gi|2                          :                                                                                                A-TTCCCGTCTATCAACATGTGAAGTTTCATGA---CTA-CT---TTAA-TGCAGAATTCAT------AT-TTT-CTAGATAGACA-CAAA------AACATGGATGGATGA-AATGTAAACCTA-AAGTCCTCTATGCTGAAACCAGTACGAGACAAATAa
gi|3                          :              aataacttttgtaatgtttaaAGCAAC-A-AATTATTTGTAAGGCTGGAAA----AATAAAATGA-CCGTCATTATCTCCTTATTTTTTCTCTATCAACATGC-AAATT------------------------------TTTTT-A-GTAATATTT-CCGTACGGACGCCAGACGGACTGACA--GAGGGACGT-CGGG
gi|4                          : ttgcaaaTAATTT---TACCAAATTTATTGTCATAGCAACCAC--TTTTTT---CGACTGAAAAAAATAATGAAATAACTCAG-ATGAAGTCCTTA-TTGCTCTTTATTCACGTGCAAAGTTTCACAAATGC-AGCT---TTGA-TAC----TTTTT-GTGTAA------CCAAATGcgga
gi|5                          :                                                                                                                                                                            CAGATGGACAACAGATG----AACA--GATGCAT----GGTTGAACCTA-AAACCCCCTTCAGTGAAAGCAGTAGGGAACTAA
gi|6                          :                                                                                                                                                                                                 tgCA--GACCAACGA-AGGGTAAAGCTA-TAGTCCCGTCTGATGAAACTAGCAGGG
gi|7                          :                                                                                                                                                                                        ggacagatgtACA--GATGGATAG-AGAATAAGCCTA-TAGTCACCTCCAGTAAAACCAGTAACGAACTAATAataag
gi|8                          :                                                                                                                                                                                                          GGACGATCGGGCAAACCTA-AAGTTCCCAGCAGTAAAAGCGGTAATGGACTAATA
gi|9                          :                                                                                                                                                                                                             cGG-AGGGTAAACCTA-TAGTTCCTTACGGTGAAACCCGTAGGGTGCTAATaa
3 sequences could not be aligned to this reference sequence:
Unaligned ( gi|16 ): GCTTCGATACTTTTCGAGTAATATATTTTTAAATAATCTTTCTGGCCGGA
Unaligned ( gi|17 ): GCTTTGATACTTTTCGAGTAATATTTTTTTAAATAATCTTTCTGGCCAGA
Unaligned ( gi|18 ): TTGGATATTTTTCGGGTACTTAATCTTTCCGGACAG






Alignments
lowQualScore                  :              222      1       11          11          2     1     111111        1111            1                   1        666666666666666666666666666     222    111111                1                                                                 
lowQualScore                  :              000      5     1 88        6 44       6  6     2     555555        9999            0  1         1      0     3  555555555555555555555555555     777    444444           8    0     77      1  2            6       2 1          1              
lowQualScore                  :              ...      .     . ..        . ..       .  .     .     ......        ....            .  .         .      .     .  ...........................     ...    ......           .    .     ..      .  .            .       . .          .              
lowQualScore                  :              555      5     0 00        7 00       7  7     0     333333        7777            0  0         0      5     2  555555555555555555555555555     000    222222           8    5     99      0  9            2       6 0          2              
consensus                     :        TAATTTCCTTACCAGACTTACNGTCATAGCAACCACAATTTTTTGTC-GACTGGAAAAAATAATGAAATGACCCGT-ATTATCTCCTTA-TTNCTCTCTATCNACATGCGAAGTTTCACGA---C-A-CT---TTGA-TAC----TTTTT-A-GTAAT-TTT-CCAGATGGACGCCAGACGAACA--GACGGACGG-AGGGTAAACCTA-TAGTCCCCTNCGGTGAAACCGGTAGGGGACTAATA
Reference ( family-9956 )     :        TAATTTCCTTACCAGACTTACNGTCATAGCAACCACAATTTTTTGTC-GACTGGAAAAAATAATGAAATGACCCGT-ATTATCTCCTTA-TTNCTCTCTATCNACATGCGAAGTTTCACGA---C-A-CT---TTGA-TAC----TTTTT-A-GTAAT-TTT-CCAGATGGACGCCAGACGAACA--GACGGACGG-AGGGTAAACCTA-TAGTCCCCTNCGGTGAAACCGGTAGGGGACTAATA
gi|1                          :        TAATTTCCTTACCAG-CTTACAG--ATAGCAATCACAATTTTTTGTCTGACTG-AAAAAATAA---AATGACCTGT-ATTATCTCCTTA-TTGCTCTCTATCCACATGCAAAAGTTCACAA---C-C-CTAGCTTGAATAC----TTTTTGA-GTAAT-TTTTCCAGATGGACGCCAAATGAACA--AATGGATGT-TGGGTAAACCTA-TGGTCCCTAACAGTGAAACCAGTATGGGACTAATA
gi|10                         :                                                                                                                                                                                                 --GACGGACGG-AAGGTAAACCTA-TAGTCCCTTAAGGTGAAACCGGTAAGGGACTAACA
gi|11                         :                                                                                                                                                                                                     CAGACAG-AGGGTAAACCTA-TAGTCTGTTCCAG-GAAACCTGTAGGGGACTAACA
gi|12                         :                                                                                                                                                                                                       GATGG-AGGATAACCCTA-TAGTCCCATACAGTGAAATGGGCTGAGTACTAATA
gi|13                         :                                                                                                                                                                                                           G-AGGGTAAACCTAATAGTCCCCTCTGGTGAAACTGATAGGGAACTAATAa
gi|14                         :                                                                                                                                                                                                        ataG-AAGGTAAACCTAATAGTCCCCTCTGGTGAAACTGATAGGGAACTAATA
gi|15                         :                                                                                                                                                                                                    taGGATGG-AGGGTAAATCTA-AAGTCTC-TACGGTGTAACCAGTAGGGGACTAA
gi|2                          :                                                                                                A-TTCCCGTCTATCAACATGTGAAGTTTCATGA---CTA-CT---TTAA-TGCAGAATTCAT------AT-TTT-CTAGATAGACA-CAAA--AACATGGATGGATGA-AATGTAAACCTA-AAGTCCTCTATGCTGAAACCAGTACGAGACAAATAa
gi|3                          :              aataacttttgtaatgtttaaAGCAAC-A-AATTATTTGTAAGGCTGGAAAAA----TAAAATGACC-GTCATTATCTCCTTATTTTTTCTCTATCAACATGC-AAATT------------------------------TTTTT-A-GTAATATTT-CCGTACGGACGCCAGACGGACT--GACAGAGGG-A
gi|4                          : ttgcaaaTAATTT---TACCAAATTTATTGTCATAGCAACCAC---TTTTT-TC-GACTGAAAAAAATAATGAAATAACTCAG-ATGAAGTCCTTA-TTGCTCTTTATTCACGTGCAAAGTTTCACAAATGC-AGCT---TTGA-TAC----TTTTT-GTGTAA------CCAAATGcgtcgggcgga
gi|5                          :                                                                                                                                                                            CAGATGGACAACAGATGAACA--GATGCAT----GGTTGAACCTA-AAACCCCCTTCAGTGAAAGCAGTAGGGAACTAA
gi|6                          :                                                                                                                                                                                             tgCA--GACCAACGA-AGGGTAAAGCTA-TAGTCCCGTCTGATGAAACTAGCAGGG
gi|7                          :                                                                                                                                                                                    ggacagatgtACA--GATGGATAG-AGAATAAGCCTA-TAGTCACCTCCAGTAAAACCAGTAACGAACTAATAataag
gi|8                          :                                                                                                                                                                                                     CGGACGATCGGGCAAACCTA-AAGTTCCCAGCAGTAAAAGCGGTAATGGACTAATA
gi|9                          :                                                                                                                                                                                                          GG-AGGGTAAACCTA-TAGTTCCTTACGGTGAAACCCGTAGGGTGCTAATaa
3 sequences could not be aligned to this reference sequence:
Unaligned ( gi|16 ): GCTTCGATACTTTTCGAGTAATATATTTTTAAATAATCTTTCTGGCCGGA
Unaligned ( gi|17 ): GCTTTGATACTTTTCGAGTAATATTTTTTTAAATAATCTTTCTGGCCAGA
Unaligned ( gi|18 ): TTGGATATTTTTCGGGTACTTAATCTTTCCGGACAG






Alignments
lowQualScore                  :              222      1       11          11          2     1     111111        1111            1                   1        666666666666666666666666666     222    111111                1                                                                 
lowQualScore                  :              000      5     1 88        6 44       6  6     2     555555        9999            0  1         1      0     3  555555555555555555555555555     777    444444           8    0     77      1  2            6       2 1          1              
lowQualScore                  :              ...      .     . ..        . ..       .  .     .     ......        ....            .  .         .      .     .  ...........................     ...    ......           .    .     ..      .  .            .       . .          .              
lowQualScore                  :              555      5     0 00        7 00       7  7     0     333333        7777            0  0         0      5     2  555555555555555555555555555     000    222222           8    5     99      0  9            2       6 0          2              
consensus                     :        TAATTTCCTTACCAGACTTACNGTCATAGCAACCACAATTTTTTGTC-GACTGGAAAAAATAATGAAATGACCCGT-ATTATCTCCTTA-TTNCTCTCTATCNACATGCGAAGTTTCACGA---C-A-CT---TTGA-TAC----TTTTT-A-GTAAT-TTT-CCAGATGGACGCCAGACGAACA--GACGGACGG-AGGGTAAACCTA-TAGTCCCCTNCGGTGAAACCGGTAGGGGACTAATA
Reference ( family-9956 )     :        TAATTTCCTTACCAGACTTACNGTCATAGCAACCACAATTTTTTGTC-GACTGGAAAAAATAATGAAATGACCCGT-ATTATCTCCTTA-TTNCTCTCTATCNACATGCGAAGTTTCACGA---C-A-CT---TTGA-TAC----TTTTT-A-GTAAT-TTT-CCAGATGGACGCCAGACGAACA--GACGGACGG-AGGGTAAACCTA-TAGTCCCCTNCGGTGAAACCGGTAGGGGACTAATA
gi|1                          :        TAATTTCCTTACCAG-CTTACAG--ATAGCAATCACAATTTTTTGTCTGACTG-AAAAAATAA---AATGACCTGT-ATTATCTCCTTA-TTGCTCTCTATCCACATGCAAAAGTTCACAA---C-C-CTAGCTTGAATAC----TTTTTGA-GTAAT-TTTTCCAGATGGACGCCAAATGAACA--AATGGATGT-TGGGTAAACCTA-TGGTCCCTAACAGTGAAACCAGTATGGGACTAATA
gi|10                         :                                                                                                                                                                                                 --GACGGACGG-AAGGTAAACCTA-TAGTCCCTTAAGGTGAAACCGGTAAGGGACTAACA
gi|11                         :                                                                                                                                                                                                     CAGACAG-AGGGTAAACCTA-TAGTCTGTTCCAG-GAAACCTGTAGGGGACTAACA
gi|12                         :                                                                                                                                                                                                       GATGG-AGGATAACCCTA-TAGTCCCATACAGTGAAATGGGCTGAGTACTAATA
gi|13                         :                                                                                                                                                                                                           G-AGGGTAAACCTAATAGTCCCCTCTGGTGAAACTGATAGGGAACTAATAa
gi|14                         :                                                                                                                                                                                                        ataG-AAGGTAAACCTAATAGTCCCCTCTGGTGAAACTGATAGGGAACTAATA
gi|15                         :                                                                                                                                                                                                    taGGATGG-AGGGTAAATCTA-AAGTCTC-TACGGTGTAACCAGTAGGGGACTAA
gi|2                          :                                                                                                A-TTCCCGTCTATCAACATGTGAAGTTTCATGA---CTA-CT---TTAA-TGCAGAATTCAT------AT-TTT-CTAGATAGACA-CAAA--AACATGGATGGATGA-AATGTAAACCTA-AAGTCCTCTATGCTGAAACCAGTACGAGACAAATAa
gi|3                          :              aataacttttgtaatgtttaaAGCAAC-A-AATTATTTGTAAGGCTGGAAAAA----TAAAATGACC-GTCATTATCTCCTTATTTTTTCTCTATCAACATGC-AAATT------------------------------TTTTT-A-GTAATATTT-CCGTACGGACGCCAGACGGACT--GACAGAGGG-A
gi|4                          : ttgcaaaTAATTT---TACCAAATTTATTGTCATAGCAACCAC---TTTTT-TC-GACTGAAAAAAATAATGAAATAACTCAG-ATGAAGTCCTTA-TTGCTCTTTATTCACGTGCAAAGTTTCACAAATGC-AGCT---TTGA-TAC----TTTTT-GTGTAA------CCAAATGcgtcgggcgga
gi|5                          :                                                                                                                                                                            CAGATGGACAACAGATGAACA--GATGCAT----GGTTGAACCTA-AAACCCCCTTCAGTGAAAGCAGTAGGGAACTAA
gi|6                          :                                                                                                                                                                                             tgCA--GACCAACGA-AGGGTAAAGCTA-TAGTCCCGTCTGATGAAACTAGCAGGG
gi|7                          :                                                                                                                                                                                    ggacagatgtACA--GATGGATAG-AGAATAAGCCTA-TAGTCACCTCCAGTAAAACCAGTAACGAACTAATAataag
gi|8                          :                                                                                                                                                                                                     CGGACGATCGGGCAAACCTA-AAGTTCCCAGCAGTAAAAGCGGTAATGGACTAATA
gi|9                          :                                                                                                                                                                                                          GG-AGGGTAAACCTA-TAGTTCCTTACGGTGAAACCCGTAGGGTGCTAATaa


blockSeqs                     :              .        A     T TC        C A        G  A     G     ATAATG        GTC             T  C         A      G     T  TGACTACTTTAATGCAGAA             GT     TATTT            C    C     TG      C  T            A       T A          G
blockSeqs                     :                                         . C        .  .     A     TA            CAG             .  T         A      A     T  CAAATGCAGCTTTGATAC              A      TTTT             A    T     .       C  .            A       T C          T
blockSeqs                     :                                                                                                 .  G         C      .     .  .                               .      .                .    .     .       T  .            .       A A          G
blockSeqs                     :                                                                                                                                                                                                 .       T  .            .       C C          G
blockSeqs                     :                                                                                                                                                                                                 .       T  .            .       C C          G
blockSeqs                     :                                                                                                                                                                                                 .       G  .            .       C A          A
blockSeqs                     :                                                                                                                                                                                                         T  .            .       C A          A
blockSeqs                     :                                                                                                                                                                                                         C  .            .       G T          A
blockSeqs                     :                                                                                                                                                                                                         T  .            .       C C          A
blockSeqs                     :                                                                                                                                                                                                         C  .            .       C C          A
blockSeqs                     :                                                                                                                                                                                                            .            .       T G          G
blockSeqs                     :                                                                                                                                                                                                            .            .       . A          C
blockSeqs                     :                                                                                                                                                                                                            .                                  


blockSeqCons                  :        
originalCons                  :        TAATTTCCTTACCAGACTTACNGTCATAGCAACCACAATTTTTTGTC-GACTGGAAAAAATAATGAAATGACCCGT-ATTATCTCCTTA-TTNCTCTCTATCNACATGCGAAGTTTCACGA---C-A-CT---TTGA-TAC----TTTTT-A-GTAAT-TTT-CCAGATGGACGCCAGACGAACA--GACGGACGG-AGGGTAAACCTA-TAGTCCCCTNCGGTGAAACCGGTAGGGGACTAATA
finalCons                     :        TAATTTCCTTACCAGACTTACNGTCATAGCAACCACAATTTTTTGTC-GACTGGAAAAAATAATGAAATGACCCGT-ATTATCTCCTTA-TTNCTCTCTATCNACATGCGAAGTTTCACGA---C-A-CT---TTGA-TAC----TTTTT-A-GTAAT-TTT-CCAGATGGACGCCAGACGAACA--GACGGACGG-AGGGTAAACCTA-TAGTCCCCTNCGGTGAAACCGGTAGGGGACTAATA
3 sequences could not be aligned to this reference sequence:
Unaligned ( gi|16 ): GCTTCGATACTTTTCGAGTAATATATTTTTAAATAATCTTTCTGGCCGGA
Unaligned ( gi|17 ): GCTTTGATACTTTTCGAGTAATATTTTTTTAAATAATCTTTCTGGCCAGA
Unaligned ( gi|18 ): TTGGATATTTTTCGGGTACTTAATCTTTCCGGACAG






Alignments
lowQualScore                  :              222      1       11          11          2     1     111111        1111            1                   1        666666666666666666666666666     222    111111                1                                                                 
lowQualScore                  :              000      5     1 88        6 44       6  6     2     555555        9999            0  1         1      0     3  555555555555555555555555555     777    444444           8    0     77      1  2            6       2 1          1              
lowQualScore                  :              ...      .     . ..        . ..       .  .     .     ......        ....            .  .         .      .     .  ...........................     ...    ......           .    .     ..      .  .            .       . .          .              
lowQualScore                  :              555      5     0 00        7 00       7  7     0     333333        7777            0  0         0      5     2  555555555555555555555555555     000    222222           8    5     99      0  9            2       6 0          2              
consensus                     :        TAATTTCCTTACCAGACTTACNGTCATAGCAACCACAATTTTTTGTC-GACTGGAAAAAATAATGAAATGACCCGT-ATTATCTCCTTA-TTNCTCTCTATCNACATGCGAAGTTTCACGA---C-A-CT---TTGA-TAC----TTTTT-A-GTAAT-TTT-CCAGATGGACGCCAGACGAACA--GACGGACGG-AGGGTAAACCTA-TAGTCCCCTNCGGTGAAACCGGTAGGGGACTAATA
Reference ( family-9956 )     :        TAATTTCCTTACCAGACTTACNGTCATAGCAACCACAATTTTTTGTC-GACTGGAAAAAATAATGAAATGACCCGT-ATTATCTCCTTA-TTNCTCTCTATCNACATGCGAAGTTTCACGA---C-A-CT---TTGA-TAC----TTTTT-A-GTAAT-TTT-CCAGATGGACGCCAGACGAACA--GACGGACGG-AGGGTAAACCTA-TAGTCCCCTNCGGTGAAACCGGTAGGGGACTAATA
gi|1                          :        TAATTTCCTTACCAG-CTTACAG--ATAGCAATCACAATTTTTTGTCTGACTG-AAAAAATAA---AATGACCTGT-ATTATCTCCTTA-TTGCTCTCTATCCACATGCAAAAGTTCACAA---C-C-CTAGCTTGAATAC----TTTTTGA-GTAAT-TTTTCCAGATGGACGCCAAATGAACA--AATGGATGT-TGGGTAAACCTA-TGGTCCCTAACAGTGAAACCAGTATGGGACTAATA
gi|10                         :                                                                                                                                                                                                 --GACGGACGG-AAGGTAAACCTA-TAGTCCCTTAAGGTGAAACCGGTAAGGGACTAACA
gi|11                         :                                                                                                                                                                                                     CAGACAG-AGGGTAAACCTA-TAGTCTGTTCCAG-GAAACCTGTAGGGGACTAACA
gi|12                         :                                                                                                                                                                                                       GATGG-AGGATAACCCTA-TAGTCCCATACAGTGAAATGGGCTGAGTACTAATA
gi|13                         :                                                                                                                                                                                                           G-AGGGTAAACCTAATAGTCCCCTCTGGTGAAACTGATAGGGAACTAATAa
gi|14                         :                                                                                                                                                                                                        ataG-AAGGTAAACCTAATAGTCCCCTCTGGTGAAACTGATAGGGAACTAATA
gi|15                         :                                                                                                                                                                                                    taGGATGG-AGGGTAAATCTA-AAGTCTC-TACGGTGTAACCAGTAGGGGACTAA
gi|2                          :                                                                                                A-TTCCCGTCTATCAACATGTGAAGTTTCATGA---CTA-CT---TTAA-TGCAGAATTCAT------AT-TTT-CTAGATAGACA-CAAA--AACATGGATGGATGA-AATGTAAACCTA-AAGTCCTCTATGCTGAAACCAGTACGAGACAAATAa
gi|3                          :              aataacttttgtaatgtttaaAGCAAC-A-AATTATTTGTAAGGCTGGAAAAA----TAAAATGACC-GTCATTATCTCCTTATTTTTTCTCTATCAACATGC-AAATT------------------------------TTTTT-A-GTAATATTT-CCGTACGGACGCCAGACGGACT--GACAGAGGG-A
gi|4                          : ttgcaaaTAATTT---TACCAAATTTATTGTCATAGCAACCAC---TTTTT-TC-GACTGAAAAAAATAATGAAATAACTCAG-ATGAAGTCCTTA-TTGCTCTTTATTCACGTGCAAAGTTTCACAAATGC-AGCT---TTGA-TAC----TTTTT-GTGTAA------CCAAATGcgtcgggcgga
gi|5                          :                                                                                                                                                                            CAGATGGACAACAGATGAACA--GATGCAT----GGTTGAACCTA-AAACCCCCTTCAGTGAAAGCAGTAGGGAACTAA
gi|6                          :                                                                                                                                                                                             tgCA--GACCAACGA-AGGGTAAAGCTA-TAGTCCCGTCTGATGAAACTAGCAGGG
gi|7                          :                                                                                                                                                                                    ggacagatgtACA--GATGGATAG-AGAATAAGCCTA-TAGTCACCTCCAGTAAAACCAGTAACGAACTAATAataag
gi|8                          :                                                                                                                                                                                                     CGGACGATCGGGCAAACCTA-AAGTTCCCAGCAGTAAAAGCGGTAATGGACTAATA
gi|9                          :                                                                                                                                                                                                          GG-AGGGTAAACCTA-TAGTTCCTTACGGTGAAACCCGTAGGGTGCTAATaa
3 sequences could not be aligned to this reference sequence:
Unaligned ( gi|16 ): GCTTCGATACTTTTCGAGTAATATATTTTTAAATAATCTTTCTGGCCGGA
Unaligned ( gi|17 ): GCTTTGATACTTTTCGAGTAATATTTTTTTAAATAATCTTTCTGGCCAGA
Unaligned ( gi|18 ): TTGGATATTTTTCGGGTACTTAATCTTTCCGGACAG