Alignments

lowQualScore                  :                                                                                                                                                                                                                                                                                                                                                                                      111111111111111111                                                    2222222222222222                                                                                                                              111111                                                                                                                                                                                                                                                                                   1111111111111111111111111111111111                                                                                
lowQualScore                  :                     1           11                22           1    7777777777777777                   66666666                        1                      11                      1111       2222                                            11  1                              22    4           1                          22222                        1                      222222222222222222         33333                               1      1111111111111111                  1    11                             1                      1                                                111111       4                           1                   11       222           11111    2                                                                                                                                                                                           3333333333333333333333333333333333                              1   1                                             
lowQualScore                  :            2        0           11  8             11           5  2 5555555555555555                   00000000      1      6          7 6  6     6 0         88 6            7       0000       8888                      1                   0 22  7                       6      11    0           5    6         4     66    33333  4         55          5                      777777777777777777         33333       6    6  6          6 6  5      7777777777777777 6                5    22 6      6             6      7   6 6     6   6      5      6   6          6              6      6    555555       0    6 6                 6  5                   66 6     111           55555    3                                                                                                                                                                                           4444444444444444444444444444444444   9999                       5   4 3     44    1            555                
lowQualScore                  :            .        .           ..  .             ..           .  . ................                   ........      .      .          . .  .     . .         .. .            .       ....       ....                      .                   . ..  .                       .      ..    .           .    .         .     ..    .....  .         ..          .                      ..................         .....       .    .  .          . .  .      ................ .                .    .. .      .             .      .   . .     .   .      .      .   .          .              .      .    ......       .    . .                 .  .                   .. .     ...           .....    .                                                                                                                                                                                           ..................................   ....                       .   . .     ..    .            ...                
lowQualScore                  :            2        5           00  0             00           0  2 0000000000000000                   77777777      0      7          0 0  0     0 7         33 7            3       7777       3333                      0                   7 00  0                       0      00    0           0    0         0     55    00000  0         55          5                      555555555555555555         00000       0    0  0          0 0  0      0000000000000000 0                0    00 0      0             0      0   0 0     0   0      0      0   0          0              0      0    000000       0    0 0                 0  0                   77 0     777           00000    3                                                                                                                                                                                           0000000000000000000000000000000000   4444                       0   3 3     66    9            888                
consensus                     :      AATTTGCTAACGGTCNTGATCAATACC--AT-GATAATTGGTTACTAGTAAGGTGACAAGCGT-------TCTTACCTGTTGACATCTATTGAAGTGTAAT-A-TGGTTTTCCGATAATAATGTTGTTTGAATAGTTTTTCGCGACTATAAAC--ACAAACAAGATGCTAGTATATT-CTAGAGTTGT----TATACCTAACAGTTTGTTTGTGGCCATTCTGTGTACATTAATTATGGATAAAACTCCTTTAAAAAGAAAGTCGTACTCTTGAGAGAAAAAAAGTGGACATTATTGAGTTTTANAAAGANNGTAGNGNCTCANTATAAAACTNNTAAACAATTCAATTTGAACACTAAAACTTTAATNA--ATGGTGAAATTTGAGAGTAAAATATCTTGAGTCACCGAAAGGAGCTTGGAAAATGGATACTGGCAG-----------ATCGGCGTTAATGGAGAAAAGGTGAAATGGGAACTTTTTAGAATTGCCCGCTAAAGGATAAAAGATCAAACACTGGTGGTTTTGCACAAGATTGGAGCAATTATACATATTCTGATATGGCTGACAGTGATTACAGTAAGACGATATCCCGCTGGCATCTCTTATCAATTGTGATCAAAATAAAGCAACATAGCGGCAATGTGGACCTAAAACTGTGTTGAACT-TATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAGTTTAGTGGTT--CAGTATAA--------C---------------AAT----AATAAGCGCATAAAAGTGTCACTAAAATT-AATAT--AAGCGCATACGCTTATT---TACCAGATTCTACAGT
Reference ( gi|2 )            :      AATTTGTTAATGGTCGTGATCAATACC--AT-GATAATTGGTTACTAGTAAGGTGATACGCAT-------T-------ATTGACATCTATTGAAGTGTTATCATTAGTTTTCTGATAATCATGTTGTTTGTACAGCTTTTCACGACTATAAAC--ACAAACAAGATGCTAGTATATTGCTCGAGTTGT----TATACCTAACAGTTTGTTTGTGACCATTCTGTGTACATTAATCACAGAAAAAACTCCTTTAAAAAGAAAATCATACTCTCCAGAG-AAAAAAGTGGAGATTACTGAGTTTTATAAAAACTGTAGAAGC-CAATATAAAACTTGTAAACAATTTAATTTGAACACTAAAACTTTAATGAGAATGGTGAAATCGGGGAGTAAAATATCCCGAGTCACTGAAAAGAACTTGGAAAATAGGTAGTGGCAGAACATCATTCTATC--CATTAATGGAGAAAAGGTTAAATAAGGACTTTTCAGAATTGCCCGCTGAAGGATTAAAAACCAAACGCTGATGGTTTGGCACAAAATTAGAGCAATTATGCATATTCTGATATGACTGACAATGAT----G-AAGACGA-ATCCTGTTGGCATCTCTTATCAATCGTTATCAAAATAAAGCAACATAAAGACAATGCAAACCTAAAACTGCATCAAACTGTATTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAGTTTAGTGGTT--C---------------C---------------AAT----AATAAGCGCATAAAAGTGTCACTCAAAAT-AATAT--AAGCACATACGCTTATT---TACCAGATTCTACAGT
gi|5                          :      AATTTGTTAATGGTCATGATCAATACCTGATCAATAATTGGTTACTAGTAAGGGGACAAGCTT-------TCTTACCTGTTGCCATCTATTGGAGTGTAAT----GGTTTTCTGATAATCATGTTGTTTGAATAGTTTTTTGCGACTATAAAC--ACAAACTAGATGTTAGTATATTGCTAGAGTTGT----TATACTTAACAACTTGTTTGGGGCCATTCTGTGTACATTCATTATGGATAAAACTCCTTTAAAAAGAAAGT
gi|6                          :    taaATTTGCTAATGATCAAGATCAATGCC--AT-GAAAATTGGTTACTAGTAAGGTGACAAGTGTTCTTACCT-------GTTGACATATATTAAAGTGT----AATGGTTTTCCGATAGTAATGTTGTTTGAATAGTTTATCGCAACTATAAACTTA-AAACAAGATGCTAGTATATTCCTAGAGTTGTTATGTATACCTAACAGTATGTTTGTGAACATTCTGTGTACATTATCTATGGATAAAAagtgtctcattataaaactggtaaacaatttaatttgaacactaaaactttaatgatggtgaaatttgagagtaaaattcttgagtca
gi|15                         : gcttaacTTTGCTAACGGTCTTGATCAACACC--AT-GATAATTGGTTAC---TAAGGTGATAAACAT-------T-------
gi|14                         :        TTTGCTAACGGTCTTGATCAACACC--AT-GATAATTGGTTAC---TAAGGTGATAAACAT-------T-------ctaac
gi|1                          :                      TGCTTAATACT--GT-GACGATTGATTACT-GTAAGGTGACAAGCGT-------TCTTACCTGTTGACATCTATTGATATGTAATCATT----TTCCGATAATAATGTTGTTTGAATAGTTTTTCGCAACTATAAAT--ACAAACAAGATGCT-----------CGAGTTGT----TATACCTAACAGTTTGATTGTGGCCATTCTGTGTACATTAATCATGGATAAAACTCCTTTAAAAAGAAAATCGTACTCTTGAGAGAAAAAAAGTGGACATTATTGAGTTTTATAAAAACTGTAGAAAC-CAATATAAAACTTTTAAACAATTC-ATTTGAACATTAAAACTTTAATTA----------------GAGTAAAATA-CTTGAGTCACCGAAAGGAGCTTGGAAAATGGATACTGGCAG-----------ATCGGCGTTAATGGAGAAAAGGTGAAATGGGAACTTTTTAGAATTGCCCGCTAAAGGATAAAAGATCAAACACTGGTGGTTTTGCACAAGATTGGAGCAATTATACATATTCTGATATGGCTGACAGTGATTACAGTAAGACGATATCCCGCTGGCATCTCTTATCAATTGTGATCAAAATAGAGCAACATATAGGCTATGTGTACCTAAAACTGTGTTGAACTGTATctaac
gi|5                          :                                                                                                                                                                                                                                                                                                     gcggcttacaattTTTAAAAAGAAAGTAGTGTCTCATTATAAAACTGGTAAACAATTTAATTTGAACACTAAAACTTTAATG---ATGGTGAAATTTGAGAGTAAAAT-TCTTGAGTCAannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtttagtggttccgtataagcgcataccaataataagcacatgaaagtgtcactaaaattaatataagcgcatatgcctatttcaagattccacagtaactcatagactgtcta
gi|3                          :                                                                                                                                                                                                                                                                                                                                                                                                                taaaatttgttaatggtcatgatcaatacctgatcaataattggttactagtaaggggacaagctttcttacctgttgccatctattggagtgtaatggttttctgataatcatgttgtttgaatagttttttgcgactataaacacaaactagatgttagtatattgctagagttgttatacttaacaacttgtttggggccattctgtgtacattcattatggataaaactccTAAAGCAACATAGCGGCAATGTGGACCTAAAACTGTGTTGAACT-TAT
gi|4                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            AAAGCAACATAGCGGCAATGTGGACCTAAAACTGTGTTGAACT-TATatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtttagtggttcagtataagcgcttaccaataataagcgcacaaaagtgtcactaaaattaatataagcacatacgcatatttaccagattctacagtatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacaca
gi|1                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      TAGTTTAGTGGTT--C---------------CGTATAAGCGCATACCAAT----AATAAGCACATGAAAGTGTCACTAAAATT-AATAT--AAGCGCATATGCCTATT---T-CAAGATTCCACAGTatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtttagtggttcagtataagcgcttaccaataataagcgcacaaaagtgtcactaaaattaatataagcacatacgcatatttaccagattctacagtatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacacaa
gi|4                          :                                                                 gcggcttacaatttgcttaatactgtgacgattgattactgtaaggtgacaagcgttcttacctgttgacatctattgatatgtaatcattttccgataataatgttgtttgaatagtttttcgcaactataaatacaaacaagatgctcgagttgttatacctaacagtttgattgtggccattctgtgtacattaatcatggataaaactcctttaaaaagaaaatcgtactcttgagagaaaaaaagtggacattattgagttttataaaaactgtagaaaccaatataaaacttttaaacaattcatttgaacattaaaactttaattagagtaaaatacttgagtcaccgaaaggagcttggaaaatggatactggcagatcggcgttaatggagaaaaggtgaaatgggaactttttagaattgcccgctaaaggataaaagatcaaacactggtggttttgcacaagattggagcaattatacatattctgatatggctgacagtgattacagtaagacgatatcccgctggcatctcttatcaattgtgatcaaaatagagcaacatataggctatgtgtacctaaaactgtgttgaactgtatannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnTAGTTTAGTGGTT--CAGTATAAGCGCTTACC---------------AAT----AATAAGCGCACAAAAGTGTCACTAAAATT-AATAT--AAGCACATACGCATATT---TACCAGATTCTACAGTaactcatagactgtcta
gi|3                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    aaagcaacatagcggcaatgtggacctaaaactgtgttgaacttatatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnTAGTTTAGTGGTT--CAGTATAAGCGCTTACC---------------AAT----AATAAGCGCACAAAAGTGTCACTAAAATT-AATAT--AAGCACATACGCATATT---TACCAGATTCTACAGTatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacacaa
gi|7                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   taaagcaacatagcggcaatgtggacctaaaactgtgttgaacttatatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnTAGTTTAGTGGTT--CAGTATAATAGCTTACC---------------AAT----AATAAGCACATAAAAGTGTCACTCAGATT-AATAT--AAGTTCATACACTTATT---TACCAGATTCTACAGTatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacaca
gi|9                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       AGTTCAGTGGTT--CAATATAAGC------T---------------AAT----AATAAGTGCATAAAAGTGCAACTAAAATT-ATTAT--AAGCGCATATGCTTATT---TACTAGATTCTACAGTatatttataaactgaatcttttgttttaaagccagaatttggagatatgagattctttctaaatcttacttgagtaagattgtaatacttaaatatagtcaaattaagac
gi|8                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                taagcgcatatcaaatataggcacacTTAGATGTTAAC---------------C---------------AAT----AATAAGCACATGTAAGTGTCACTAAAACT-AATAT--AAGCACATAAGTTTCTT---TACTAGATTTTACAATt
gi|12                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        agTTAGTGTTT-----------------------------------ATTGTAAATATGTGCATAAACGTGTCCCTAAAATT-GATAT--CAGTGTATACACTTATTTTATACCAGATTCTACAGatttgtcgaagtgtttcccagttacttcttaaacagagatttctaaatt
gi|11                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           aAGCGTTTA-C---------------C---------------ATT----AATAAGCACATAAAAATGCCATT-AAAATCAATAT--AAGCGCATACACTTATA---TACCAGATTCTACAG
gi|10                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         agttgagtggttcagtataAGCGTTTA-C---------------C---------------AAA----AATAAACGCATAAGAGTGTCACTAAAACT-AATAA--AAGAGCATACGCTTATT---AACCAGATTCTACA
gi|18                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    agtttagtgattcagtataAAAAGTGTCACTAAAATT-AATAT--AAGTACATACGCTTATT---TACCAGATGCTc
gi|17                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       AAAAGTGTCACTAAAATT-AATATCAAAGTGCATACGCTTATA---TACCATATTCTACA
gi|16                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        T-AATAT--AAGTGCATATGCTTAGT---TACAAGATTCTACAGT

2 sequences could not be aligned to this particular reference sequence:

Unaligned ( gi|13 ): TTTAGTATAAGCGCATACCTATAAGCGCATAAACATTTTCACTAAAATTAATGCTACATTACG
Unaligned ( gi|19 ): TTTGCCAAAAAGCTTCTTAACTACTTCTAAAACAAAGCTAAATAGA

Alignments

lowQualScore                  :                                                                                                                                                                                                                                                                                        11                                             3333333                                               11                      3          2222                                                                                     1                                          2                                               333333333333333333         11                                         99999999999   11                                                                                                                              222222       1                                                                               2                                                                                                                                                                                                   88888888                                                                                  
lowQualScore                  :                                                                                                                                                                                                                                                          1           99  6             44              2    3                         9999999             3                                 33 2            3       0 66       1111                                                                     0          2    5           2              1   0 22    222 3  1         22         0 7                     666666666666666666         44                                  2      55555555555   77                  2                                   4                      3                                                999999       5                           2                   22         0                    0                                                                                                                                                                                                   77777777 3 3   666             3                    44                 555                
lowQualScore                  :                                                                                                                                                                                                                                                          .           ..  .             ..              .    .                         .......             .                                 .. .            .       . ..       ....                                                                     .          .    .           .              .   . ..    ... .  .         ..         . .                     ..................         ..                                  .      ...........   ..                  .                                   .                      .                                                ......       .                           .                   ..         .                    .                                                                                                                                                                                                   ........ . .   ...             .                    ..                 ...                
lowQualScore                  :                                                                                                                                                                                                                                                          0           22  7             55              2    7                         0000000             0                                 88 5            2       0 22       2222                                                                     7          5    5           5              0   7 00    777 7  0         00         7 3                     333333333333333333         77                                  5      00000000000   55                  5                                   0                      0                                                555555       5                           5                   88         2                    0                                                                                                                                                                                                   77777777 6 6   444             1                    22                 444                
consensus                     :                                                                                                                                                                                                                                           AATTTGCTAACGGTCNTGATCAATACC--AT-GATAATTGGTTACTAGTAAGGTGACAAGCGTTCTTACCTGTTGACATCTATTGAAGTGTAAT-AT-GGTTTTCCGATAATNATGTTGTTTGAATAGTTTTTCGCGACTATAAAC--ACAAACAAGATGCTAGTATATTGCTAGAGTTGT----TATACCTAACAGTTTGTTTGTGGCCATTCTGTGTACATTAATCACGGATAAAACTCCTTTAAAAAGAAAATCGTACTCTCGAGAGAAAAAAAGTGGANATTACTGAGTTTTATAAAAACTGTAGAANC-CAATATAAAACTTGTAAACAATTTAATTTGAACACTAAAACTTTAAT--GAATGGTGAAATC-GGGAGTAAAATATCTCGAGTCACCGAAAGGAGCTTGGAAAATGGGTANTGGCAGAACATCATTCTATCGGCGTTAATGGAGAAAAGGTNAAATGGGGACTTTTCAGAATTGCCCGCTGAAGGATNAAAGACCAAACGCTGGTGGTTTNGCACAAGATTGGAGCAATTATGCATATTCTGATATGGCTGACAGTGATTACAGTAAGACGATATCCCGCTGGCATCTCTTATCAATCGTNATCAAAATAAAGCAACATAGNGGCAATGCGGACCTAAAACTGCGTCGAACTGTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAGTTTAGTGGTTCAGTATAAGCGCTTACC-A-ATA---ATAAGCGCATAAA-AGTGTCACTAAAATTAATAT--AAGCGCATACGCTTATT---TACCAGATTCTACAGT
Reference ( family-60 )       :                                                                                                                                                                                                                                           AATTTGCTAACGGTCNTGATCAATACC--AT-GATAATTGGTTACTAGTAAGGTGACAAGCGTTCTTACCTGTTGACATCTATTGAAGTGTAAT-AT-GGTTTTCCGATAATAATGTTGTTTGAATAGTTTTTCGCGACTATAAAC--ACAAACAAGATGCTAGTATATT-CTAGAGTTGT----TATACCTAACAGTTTGTTTGTGGCCATTCTGTGTACATTAATTATGGATAAAACTCCTTTAAAAAGAAAGTCGTACTCTTGAGAGAAAAAAAGTGGACATTATTGAGTTTTANAAAGANNGTAGNGNCTCANTATAAAACTNNTAAACAATTCAATTTGAACACTAAAACTTTAAT--NAATGGTGAAATTTGAGAGTAAAATATCTTGAGTCACCGAAAGGAGCTTGGAAAATGGATACTGGCAG-----------ATCGGCGTTAATGGAGAAAAGGTGAAATGGGAACTTTTTAGAATTGCCCGCTAAAGGATAAAAGATCAAACACTGGTGGTTTTGCACAAGATTGGAGCAATTATACATATTCTGATATGGCTGACAGTGATTACAGTAAGACGATATCCCGCTGGCATCTCTTATCAATTGTGATCAAAATAAAGCAACATAGCGGCAATGTGGACCTAAAACTGTGTTGAACT-TATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAGTTTAGTGGTTCAGTATAA--------C-A-ATA---ATAAGCGCATAAA-AGTGTCACTAAAATTAATAT--AAGCGCATACGCTTATT---TACCAGATTCTACAGT
gi|1                          :                                                                                                                                                                                                                                                GCTTACAAT-TTGCTTAATACT--GT-GACGATTGATTACT-GTAAGGTGACAAGCGTTCTTACCTGTTGACATCTATTGATATGTAAT-C---ATTTTCCGATAATAATGTTGTTTGAATAGTTTTTCGCAACTATAAAT--ACAAACAAGATGCT---------C--GAGTTGT----TATACCTAACAGTTTGATTGTGGCCATTCTGTGTACATTAATCATGGATAAAACTCCTTTAAAAAGAAAATCGTACTCTTGAGAGAAAAAAAGTGGACATTATTGAGTTTTATAAAAACTGTAGAAAC-CAATATAAAACTTTTAAACAATTCA-TTTGAACATTAAAACTTTAAT--TA--------------GAGTAAAATA-CTTGAGTCACCGAAAGGAGCTTGGAAAATGGATACTGGCAG-----------ATCGGCGTTAATGGAGAAAAGGTGAAATGGGAACTTTTTAGAATTGCCCGCTAAAGGATAAAAGATCAAACACTGGTGGTTTTGCACAAGATTGGAGCAATTATACATATTCTGATATGGCTGACAGTGATTACAGTAAGACGATATCCCGCTGGCATCTCTTATCAATTGTGATCAAAATAGAGCAACATATAGGCTATGTGTACCTAAAACTGTGTTGAACTGTAT
gi|1                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 gcgTAGTTTAGTGGTTCCGTATAAGCGCATACC-A-ATA---ATAAGCACATGAA-AGTGTCACTAAAATTAATAT--AAGCGCATATGCCTATT---T-CAAGATTCCACAGTannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtttagtggttccgtataagcgcataccaataataagcacatgaaagtgtcactaaaattaatataagcgcatatgcctatttcaagattccacagtaactcatagactgtcta
gi|10                         :                                                                                                                                                                                                                                                                                                gcggcttacaatttgcttaatactgtgacgattgattactgtaaggtgacaagcgttcttacctgttgacatctattgatatgtaatcattttccgataataatgttgtttgaatagtttttcgcaactataaatacaaacaagatgctcgagttgttatacctaacagtttgattgtggccattctgtgtacattaatcatggataaaactcctttaaaaagaaaatcgtactcttgagagaaaaaaagtggacattattgagttttataaaaactgtagaaaccaatataaaacttttaaacaattcatttgaacattaaaactttaattagagtaaaatacttgagtcaccgaaaggagcttggaaaatggatactggcagatcggcgttaatggagaaaaggtgaaatgggaactttttagaattgcccgctaaaggataaaagatcaaacactggtggttttgcacaagattggagcaattatacatattctgatatggctgacagtgattacagtaagacgatatcccgctggcatctcttatcaattgtgatcaaaatagagcaacatataggctatgtgtacctaaaactgtgttgaactgtatannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnAGTTTAGTGATTCAGTATAAGCGTTTACC-A-AAA---ATAAACGCATAAG-AGTGTCACTAAAACTAATAA--AAGAGCATACGCTTATT---AACCAGATTCTACAaactcatagactgtcta
gi|11                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     AGTTGAGTGGTTCAGTATAAGCGTTTACC-A-TTA---ATAAGCACATAAA-AATGCCATTAAAATCAATAT--AAGCGCATACACTTATA---TACCAGATTCTACAGc
gi|12                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        TTAGTG-TTTATTGTAA------------------ATATGTGCATAAA-CGTGTCCCTAAAATTGATAT--CAGTGTATACACTTATTTTATACCAGATTCTACAG
gi|13                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              aTTTAGTATAAG-------C-GCATACCTATAAGCGCATAAACATTTTCACTAAAATTAAT
gi|14                         :                                                                                                                                                                                                                                             TTTGCTAACGGTCTTGATCAACACC--AT-GATAATTGGTTAC---TAAGGTGATAAACATTCTAACgctacattacg
gi|15                         :                                                                                                                                                                                                                                             TTTGCTAACGGTCTTGATCAACACC--AT-GATAATTGGTTAC---TAAGGTGATAAACATTCTAAC
gi|16                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     ATTAATAT--AAGTGCATATGCTTAGT---TACAAGATTCTACAGT
gi|17                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     AAA-AGTGTCACTAAAATTAATATCAAAGTGCATACGCTTATA---TACCATATTCTACAaggtatattgttaactg
gi|18                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     AAA-AGTGTCACTAAAATTAATAT--AAGTACATACGCTTATT---TACCAGATGCT
gi|2                          :                                                                                                                                                                                                                                           AATTTGTTAATGGTCGTGATCAATACC--AT-GATAATTGGTTACTAGTAAGGTGATACGCATT-------ATTGACATCTATTGAAGTGTTATCATTAGTTTTCTGATAATCATGTTGTTTGTACAGCTTTTCACGACTATAAAC--ACAAACAAGATGCTAGTATATTGCTCGAGTTGT----TATACCTAACAGTTTGTTTGTGACCATTCTGTGTACATTAATCACAGAAAAAACTCCTTTAAAAAGAAAATCATACTCTCCAGAG-AAAAAAGTGGAGATTACTGAGTTTTATAAAAACTGTAGAAGC-CAATATAAAACTTGTAAACAATTTAATTTGAACACTAAAACTTTAATGAGAATGGTGAAATCGGGGAGTAAAATATCCCGAGTCACTGAAAAGAACTTGGAAAATAGGTAGTGGCAGAACATCATTCTATC--CATTAATGGAGAAAAGGTTAAATAAGGACTTTTCAGAATTGCCCGCTGAAGGATTAAAAACCAAACGCTGATGGTTTGGCACAAAATTAGAGCAATTATGCATATTCTGATATGACTGACAATGAT----G-AAGACGA-ATCCTGTTGGCATCTCTTATCAATCGTTATCAAAATAAAGCAACATAAAGACAATGCAAACCTAAAACTGCATCAAACTGTAT
gi|2                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    TAGTTTAGTGGTTC---------------C-A-ATA---ATAAGCGCATAAA-AGTGTCACTCAAAATAATAT--AAGCACATACGCTTATT---TACCAGATTCTACAGTttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtttagtggttccaataataagcgcataaaagtgtcactcaaaataatataagcacatacgcttatttaccagattctacagt
gi|3                          :                                          aatttgttaatggtcgtgatcaataccatgataattggttactagtaaggtgatacgcattattgacatctattgaagtgttatcattagttttctgataatcatgttgtttgtacagcttttcacgactataaacacaaacaagatgctagtatattgctcgagttgttatacctaacagtttgtttgtgaccattctgtgtacattaatcacagaaaaaactcctttaaaaagaaaatcatactctccagagaaaaaagtggagattactgagttttataaaaactgtagaagccaatataaaacttgtaaacaatttaatttgaacactaaaactttaatgagaatggtgaaatcggggagtaaaatatcccgagtcactgaaaagaacttggaaaataggtagtggcagaacatcattctatccattaatggagaaaaggttaaataaggacttttcagaattgcccgctgaaggattaaaaaccaaacgctgatggtttggcacaaaattagagcaattatgcatattctgatatgactgacaatgatgaagacgaatcctgttggcatctcttatcaatcgttatcaaaataaagcaacataaagacaatgcaaacctaaaactgcatcaaactgtatttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnTAAAGCAACATAGCGGCAATGTGGACCTAAAACTGTGTTGAACT-TAT
gi|3                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    TAGTTTAGTGGTTCAGTATAAGCGCTTACC-A-ATA---ATAAGCGCACAAA-AGTGTCACTAAAATTAATAT--AAGCACATACGCATATT---TACCAGATTCTACAGTatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtttagtggttcagtataagcgcttaccaataataagcgcacaaaagtgtcactaaaattaatataagcacatacgcatatttaccagattctacagtatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacaca
gi|4                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       taaagcaacatagcggcaatgtggacctaaaactgtgttgaacttatatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnAAAGCAACATAGCGGCAATGTGGACCTAAAACTGTGTTGAACT-TATatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacaca
gi|4                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    TAGTTTAGTGGTTCAGTATAAGCGCTTACC-A-ATA---ATAAGCGCACAAA-AGTGTCACTAAAATTAATAT--AAGCACATACGCATATT---TACCAGATTCTACAGTatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtttagtggttcagtataagcgcttaccaataataagcgcacaaaagtgtcactaaaattaatataagcacatacgcatatttaccagattctacagtatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacacaa
gi|5                          :         aaagcaacatagcggcaatgtggacctaaaactgtgttgaacttatatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnAATTTGTTAATGGTCATGATCAATACCTGATCAATAATTGGTTACTAGTAAGGGGACAAGCTTTCTTACCTGTTGCCATCTATTGGAGTGTAAT----GGTTTTCTGATAATCATGTTGTTTGAATAGTTTTTTGCGACTATAAAC--ACAAACTAGATGTTAGTATATTGCTAGAGTTGT----TATACTTAACAACTTGTTTGGGGCCATTCTGTGTACATTCATTATGGATAAAACTCCTTTAAAAAGAAAGTAGTatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacacaa
gi|5                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             taaTTTAAAAAGAAAGTAGTGTCTCATTATAAAACTGGTAAACAATTTAATTTGAACACTAAAACTTTAAT--G-ATGGTGAAATTTGAGAGTAAAAT-TCTTGAGTCAgtctcattataaaactggtaaacaatttaatttgaacactaaaactttaatgatggtgaaatttgagagtaaaattcttgagtca
gi|6                          : taaaatttgttaatggtcatgatcaatacctgatcaataattggttactagtaaggggacaagctttcttacctgttgccatctattggagtgtaatggttttctgataatcatgttgtttgaatagttttttgcgactataaacacaaactagatgttagtatattgctagagttgttatacttaacaacttgtttggggccattctgtgtacattcattatggataaaactccATTTGCTAATGATCAAGATCAATGCC--AT-GAAAATTGGTTACTAGTAAGGTGACAAGTGTTCTTACCTGTTGACATATATTAAAGTGTA---AT-GGTTTTCCGATAGTAATGTTGTTTGAATAGTTTATCGCAACTATAAACTTA-AAACAAGATGCTAGTATATTCCTAGAGTTGTTATGTATACCTAACAGTATGTTTGTGAACATTCTGTGTACATTATCTATGGATAAAA
gi|7                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             gcttaacTAGTTTAGTGGTTCAGTATAATAGCTTACC-A-ATA---ATAAGCACATAAA-AGTGTCACTCAGATTAATAT--AAGTTCATACACTTATT---TACCAGATTCTACAGT
gi|8                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      TAA--------CCA-ATA---ATAAGCACATGTA-AGTGTCACTAAAACTAATAT--AAGCACATAAGTTTCTT---TACTAGATTTTACAATatatttataaactgaatcttttgttttaaagccagaatttggagatatgagattctttctaaatcttacttgagtaagattgtaatacttaaatatagtcaaattaagac
gi|9                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           agttagatgtAGTTCAGTGGTTCAATATAAGC------T-A-ATA---ATAAGTGCATAAA-AGTGCAACTAAAATTATTAT--AAGCGCATATGCTTATT---TACTAGATTCTACAGTatttgtcgaagtgtttcccagttacttcttaaacagagatttctaaatt

1 sequences could not be aligned to this reference sequence:

Unaligned ( gi|19 ): TTTGCCAAAAAGCTTCTTAACTACTTCTAAAACAAAGCTAAATAGA

Alignments

lowQualScore                  :                                                                                                                                                                                                                                                                                        11                                             3333333                                               11                                 2222                                                                                     1                                          1                                               5555555555555555555         11                                         44444444444   11                                                                                                                              222222       1                                                                               1                                                                                                                                                                                                                                                                                              
lowQualScore                  :                                                                                                                                                                                                                                                          1           99  6             44              2    3                         9999999             1                                 33 2            3       2 66       1111                                            2                              6    2    5           1                            1 3                        7                      2222222222222222222         44  0                               1      44444444444   77                  1                                   1                      1                                                999999       5                           1                   11       2 0           2  2     5                                                                                                                                                                                                       3                    33 2    33      2        2  33                 555                
lowQualScore                  :                                                                                                                                                                                                                                                          .           ..  .             ..              .    .                         .......             .                                 .. .            .       . ..       ....                                            .                              .    .    .           .                            . .                        .                      ...................         ..  .                               .      ...........   ..                  .                                   .                      .                                                ......       .                           .                   ..       . .           .  .     .                                                                                                                                                                                                       .                    .. .    ..      .        .  ..                 ...                
lowQualScore                  :                                                                                                                                                                                                                                                          0           22  7             55              2    7                         0000000             0                                 88 5            2       5 22       2222                                            0                              7    5    5           0                            0 3                        3                      7777777777777777777         77  7                               0      00000000000   55                  0                                   0                      0                                                555555       5                           0                   22       0 2           0  0     0                                                                                                                                                                                                       6                    99 9    99      9        7  99                 444                
consensus                     :                                                                                                                                                                                                                                           AATTTGCTAACGGTCNTGATCAATACC--AT-GATAATTGGTTACTAGTAAGGTGACAAGCGTTCTTACCTGTTGACATCTATTGAAGTGTAAT-AT-GGTTTTCCGATAATNATGTTGTTTGAATAGTTTTTCGCGACTATAAAC--ACAAACAAGATGCTAGTATATTGCTAGAGTTGT----TATACCTAACAGTTTGTTTGTGGCCATTCTGTGTACATTAATCACGGATAAAACTCCTTTAAAAAGAAAATCGTACTCTCGAGAGAAAAAAAGTGGANATTACTGAGTTTTATAAAAACTGTAGAANC-CAATATAAAACTTGTAAACAATTTAATTTGAACACTAAAACTTTAAT--GAATGGTGAAA-TC-GGGAGTAAAATATCTCGAGTCACCGAAAGGAGCTTGGAAAATGGGTANTGGCAGAACATCATTCTATCGGCGTTAATGGAGAAAAGGTNAAATGGGGACTTTTCAGAATTGCCCGCTGAAGGATNAAAGACCAAACGCTGGTGGTTTNGCACAAGATTGGAGCAATTATGCATATTCTGATATGGCTGACAGTGATTACAGTAAGACGATATCCCGCTGGCATCTCTTATCAATCGTNATCAAAATAAAGCAACATAGNGGCAATGCGGACCTAAAACTGCGTCGAACTGTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAGTTTAGTGGTTCAGTATAAGCGCTTACCAATAATAAGCGCATAA--A-AGTG--TCACTA-AAATTAAT-AT--AAGCGCATACGCTTATT---TACCAGATTCTACAGT
Reference ( family-60 )       :                                                                                                                                                                                                                                           AATTTGCTAACGGTCNTGATCAATACC--AT-GATAATTGGTTACTAGTAAGGTGACAAGCGTTCTTACCTGTTGACATCTATTGAAGTGTAAT-AT-GGTTTTCCGATAATNATGTTGTTTGAATAGTTTTTCGCGACTATAAAC--ACAAACAAGATGCTAGTATATTGCTAGAGTTGT----TATACCTAACAGTTTGTTTGTGGCCATTCTGTGTACATTAATCACGGATAAAACTCCTTTAAAAAGAAAATCGTACTCTCGAGAGAAAAAAAGTGGANATTACTGAGTTTTATAAAAACTGTAGAANC-CAATATAAAACTTGTAAACAATTTAATTTGAACACTAAAACTTTAAT--GAATGGTGAAA-TC-GGGAGTAAAATATCTCGAGTCACCGAAAGGAGCTTGGAAAATGGGTANTGGCAGAACATCATTCTATCGGCGTTAATGGAGAAAAGGTNAAATGGGGACTTTTCAGAATTGCCCGCTGAAGGATNAAAGACCAAACGCTGGTGGTTTNGCACAAGATTGGAGCAATTATGCATATTCTGATATGGCTGACAGTGATTACAGTAAGACGATATCCCGCTGGCATCTCTTATCAATCGTNATCAAAATAAAGCAACATAGNGGCAATGCGGACCTAAAACTGCGTCGAACTGTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAGTTTAGTGGTTCAGTATAAGCGCTTACCAATAATAAGCGCATAA--A-AGTG--TCACTA-AAATTAAT-AT--AAGCGCATACGCTTATT---TACCAGATTCTACAGT
gi|1                          :                                                                                                                                                                                                                                                GCTTACAAT-TTGCTTAATACT--GT-GACGATTGATTACT-GTAAGGTGACAAGCGTTCTTACCTGTTGACATCTATTGATATGTAAT-C---ATTTTCCGATAATAATGTTGTTTGAATAGTTTTTCGCAACTATAAAT--ACAAACAAGATGCT---------C--GAGTTGT----TATACCTAACAGTTTGATTGTGGCCATTCTGTGTACATTAATCATGGATAAAACTCCTTTAAAAAGAAAATCGTACTCTTGAGAGAAAAAAAGTGGACATTATTGAGTTTTATAAAAACTGTAGAAAC-CAATATAAAACTTTTAAACAATTC-ATTTGAACATTAAAACTTTAAT--TA---------------GAGTAAAATA-CTTGAGTCACCGAAAGGAGCTTGGAAAATGGATACTGGCAG-----------ATCGGCGTTAATGGAGAAAAGGTGAAATGGGAACTTTTTAGAATTGCCCGCTAAAGGATAAAAGATCAAACACTGGTGGTTTTGCACAAGATTGGAGCAATTATACATATTCTGATATGGCTGACAGTGATTACAGTAAGACGATATCCCGCTGGCATCTCTTATCAATTGTGATCAAAATAGAGCAACATATAGGCTATGTGTACCTAAAACTGTGTTGAACTGTAT
gi|1                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  gcgTAGTTTAGTGGTTCCGTATAAGCGCATACCAATAATAAGCACATGA--A-AGTG--TCACTA-AAATTAAT-AT--AAGCGCATATGCCTATT---T-CAAGATTCCACAGTannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtttagtggttccgtataagcgcataccaataataagcacatgaaagtgtcactaaaattaatataagcgcatatgcctatttcaagattccacagtaactcatagactgtcta
gi|10                         :                                                                                                                                                                                                                                                                                                 gcggcttacaatttgcttaatactgtgacgattgattactgtaaggtgacaagcgttcttacctgttgacatctattgatatgtaatcattttccgataataatgttgtttgaatagtttttcgcaactataaatacaaacaagatgctcgagttgttatacctaacagtttgattgtggccattctgtgtacattaatcatggataaaactcctttaaaaagaaaatcgtactcttgagagaaaaaaagtggacattattgagttttataaaaactgtagaaaccaatataaaacttttaaacaattcatttgaacattaaaactttaattagagtaaaatacttgagtcaccgaaaggagcttggaaaatggatactggcagatcggcgttaatggagaaaaggtgaaatgggaactttttagaattgcccgctaaaggataaaagatcaaacactggtggttttgcacaagattggagcaattatacatattctgatatggctgacagtgattacagtaagacgatatcccgctggcatctcttatcaattgtgatcaaaatagagcaacatataggctatgtgtacctaaaactgtgttgaactgtatannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnAGTTTAGTGATTCAGTATAAGCGTTTACCAAAAATAAACGCATAA--G-AGTG--TCACTA-AAACTAAT-AA--AAGAGCATACGCTTATT---AACCAGATTCTACAaactcatagactgtcta
gi|11                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      AGTTGAGTGGTTCAGTATAAGCGTTTACCATTAATAAGCACATAA--A-AATG--CCATTA-AAATCAAT-AT--AAGCGCATACACTTATA---TACCAGATTCTACAGc
gi|12                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      AATATGTGCATAA--A-CGTG--TCCCTA-AAATTGAT-AT--CAGTGTATACACTTATTTTATACCAGATTCTACAG
gi|13                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                attagtgtttattgtaTTTAGTATAAGCGCATACC--T-ATAAGCGCATAA--ACATTT--TCACTA-AAATTAAT-
gi|14                         :                                                                                                                                                                                                                                             TTTGCTAACGGTCTTGATCAACACC--AT-GATAATTGGTTAC---TAAGGTGATAAACATTCTAACgctacattacg
gi|15                         :                                                                                                                                                                                                                                             TTTGCTAACGGTCTTGATCAACACC--AT-GATAATTGGTTAC---TAAGGTGATAAACATTCTAAC
gi|16                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      ATTAAT-AT--AAGTGCATATGCTTAGT---TACAAGATTCTACAGT
gi|17                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 AA--A-AGTG--TCACTA-AAATTAAT-ATCAAAGTGCATACGCTTATA---TACCATATTCTACAaggtatattgttaactg
gi|18                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 AA--A-AGTG--TCACTA-AAATTAAT-AT--AAGTACATACGCTTATT---TACCAGATGCT
gi|2                          :                                                                                                                                                                                                                                           AATTTGTTAATGGTCGTGATCAATACC--AT-GATAATTGGTTACTAGTAAGGTGATACGCATT-------ATTGACATCTATTGAAGTGTTATCATTAGTTTTCTGATAATCATGTTGTTTGTACAGCTTTTCACGACTATAAAC--ACAAACAAGATGCTAGTATATTGCTCGAGTTGT----TATACCTAACAGTTTGTTTGTGACCATTCTGTGTACATTAATCACAGAAAAAACTCCTTTAAAAAGAAAATCATACTCTCCAGAG-AAAAAAGTGGAGATTACTGAGTTTTATAAAAACTGTAGAAGC-CAATATAAAACTTGTAAACAATTTAATTTGAACACTAAAACTTTAATGAGAATGGTGAAA-TCGGGGAGTAAAATATCCCGAGTCACTGAAAAGAACTTGGAAAATAGGTAGTGGCAGAACATCATTCTATC--CATTAATGGAGAAAAGGTTAAATAAGGACTTTTCAGAATTGCCCGCTGAAGGATTAAAAACCAAACGCTGATGGTTTGGCACAAAATTAGAGCAATTATGCATATTCTGATATGACTGACAATGAT----G-AAGACGA-ATCCTGTTGGCATCTCTTATCAATCGTTATCAAAATAAAGCAACATAAAGACAATGCAAACCTAAAACTGCATCAAACTGTAT
gi|2                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TAGTTTAGTGGTTC---------------CAATAATAAGCGCATAA--A-AGTG--TCACTC-AAAATAAT-AT--AAGCACATACGCTTATT---TACCAGATTCTACAGTttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtttagtggttccaataataagcgcataaaagtgtcactcaaaataatataagcacatacgcttatttaccagattctacagt
gi|3                          :                                           aatttgttaatggtcgtgatcaataccatgataattggttactagtaaggtgatacgcattattgacatctattgaagtgttatcattagttttctgataatcatgttgtttgtacagcttttcacgactataaacacaaacaagatgctagtatattgctcgagttgttatacctaacagtttgtttgtgaccattctgtgtacattaatcacagaaaaaactcctttaaaaagaaaatcatactctccagagaaaaaagtggagattactgagttttataaaaactgtagaagccaatataaaacttgtaaacaatttaatttgaacactaaaactttaatgagaatggtgaaatcggggagtaaaatatcccgagtcactgaaaagaacttggaaaataggtagtggcagaacatcattctatccattaatggagaaaaggttaaataaggacttttcagaattgcccgctgaaggattaaaaaccaaacgctgatggtttggcacaaaattagagcaattatgcatattctgatatgactgacaatgatgaagacgaatcctgttggcatctcttatcaatcgttatcaaaataaagcaacataaagacaatgcaaacctaaaactgcatcaaactgtatttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnTAAAGCAACATAGCGGCAATGTGGACCTAAAACTGTGTTGAACT-TAT
gi|3                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TAGTTTAGTGGTTCAGTATAAGCGCTTACCAATAATAAGCGCACAA--A-AGTG--TCACTA-AAATTAAT-AT--AAGCACATACGCATATT---TACCAGATTCTACAGTatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtttagtggttcagtataagcgcttaccaataataagcgcacaaaagtgtcactaaaattaatataagcacatacgcatatttaccagattctacagtatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacaca
gi|4                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        taaagcaacatagcggcaatgtggacctaaaactgtgttgaacttatatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnAAAGCAACATAGCGGCAATGTGGACCTAAAACTGTGTTGAACT-TATatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacaca
gi|4                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TAGTTTAGTGGTTCAGTATAAGCGCTTACCAATAATAAGCGCACAA--A-AGTG--TCACTA-AAATTAAT-AT--AAGCACATACGCATATT---TACCAGATTCTACAGTatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtttagtggttcagtataagcgcttaccaataataagcgcacaaaagtgtcactaaaattaatataagcacatacgcatatttaccagattctacagtatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacacaa
gi|5                          :         aaagcaacatagcggcaatgtggacctaaaactgtgttgaacttatatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnAATTTGTTAATGGTCATGATCAATACCTGATCAATAATTGGTTACTAGTAAGGGGACAAGCTTTCTTACCTGTTGCCATCTATTGGAGTGTAAT----GGTTTTCTGATAATCATGTTGTTTGAATAGTTTTTTGCGACTATAAAC--ACAAACTAGATGTTAGTATATTGCTAGAGTTGT----TATACTTAACAACTTGTTTGGGGCCATTCTGTGTACATTCATTATGGATAAAACTCCTTTAAAAAGAAAGTAGTG-TCTCatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacacaa
gi|5                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             taaTTTAAAAAGAAAGTAGTGTCTCATTATAAAACTGGTAAACAATTTAATTTGAACACTAAAACTTTAAT--G-ATGGTGAAATTT-GAGAGTAAAAT-TCTTGAGTCAattataaaactggtaaacaatttaatttgaacactaaaactttaatgatggtgaaatttgagagtaaaattcttgagtca
gi|6                          : taaaatttgttaatggtcatgatcaatacctgatcaataattggttactagtaaggggacaagctttcttacctgttgccatctattggagtgtaatggttttctgataatcatgttgtttgaatagttttttgcgactataaacacaaactagatgttagtatattgctagagttgttatacttaacaacttgtttggggccattctgtgtacattcattatggataaaactccATTTGCTAATGATCAAGATCAATGCC--AT-GAAAATTGGTTACTAGTAAGGTGACAAGTGTTCTTACCTGTTGACATATATTAAAGTGTA---AT-GGTTTTCCGATAGTAATGTTGTTTGAATAGTTTATCGCAACTATAAACTTA-AAACAAGATGCTAGTATATTCCTAGAGTTGTTATGTATACCTAACAGTATGTTTGTGAACATTCTGTGTACATTATCTATGGATAAAA
gi|7                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              gcttaacTAGTTTAGTGGTTCAGTATAATAGCTTACCAATAATAAGCACATAA--A-AGTG--TCACTC-AGATTAAT-AT--AAGTTCATACACTTATT---TACCAGATTCTACAGT
gi|8                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                ACCAATAATAAGCACATGT--A-AGTG--TCACTA-AAACTAAT-AT--AAGCACATAAGTTTCTT---TACTAGATTTTACAATatatttataaactgaatcttttgttttaaagccagaatttggagatatgagattctttctaaatcttacttgagtaagattgtaatacttaaatatagtcaaattaagac
gi|9                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           agttagatgttaTAAGCGCATATCAAATATAGGCACACAGTTC-AGTGGTTCAATATAAGCTAATAAT--AAGTGCATAatttgtcgaagtgtttcccagttacttcttaaacagagatttctaaatt
gi|9                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      AGTTCAGTGGTTCAATATAAGC------TAATAATAAGTGCATAA--A-AGTG--CAACTA-AAATTATT-AT--AAGCGCATATGCTTATT---TACTAGATTCTACAGTaaagtgcaactaaaattattataagcgcatatgcttatttactagattctacagtt

1 sequences could not be aligned to this reference sequence:

Unaligned ( gi|19 ): TTTGCCAAAAAGCTTCTTAACTACTTCTAAAACAAAGCTAAATAGA

Alignments

lowQualScore                  :                                                                                                                                                                                                                                                                                        11                                             3333333                                               11                                 2222                                                                                     1                                          1                                               5555555555555555555         11                                         44444444444   11                                                                                                                              222222       1                                                                               1                                                                                                                                                                                                                                                                                              
lowQualScore                  :                                                                                                                                                                                                                                                          1           99  6             44              2    3                         9999999             1                                 33 2            3       2 66       1111                                            2                              6    2    5           1                            1 3                        7                      2222222222222222222         44  0                               1      44444444444   77                  1                                   1                      1                                                999999       5                           1                   11       2 0           2  2     5                                                                                                                                                                                                       3                    33 2    33      2        2  33                 555                
lowQualScore                  :                                                                                                                                                                                                                                                          .           ..  .             ..              .    .                         .......             .                                 .. .            .       . ..       ....                                            .                              .    .    .           .                            . .                        .                      ...................         ..  .                               .      ...........   ..                  .                                   .                      .                                                ......       .                           .                   ..       . .           .  .     .                                                                                                                                                                                                       .                    .. .    ..      .        .  ..                 ...                
lowQualScore                  :                                                                                                                                                                                                                                                          0           22  7             55              2    7                         0000000             0                                 88 5            2       5 22       2222                                            0                              7    5    5           0                            0 3                        3                      7777777777777777777         77  7                               0      00000000000   55                  0                                   0                      0                                                555555       5                           0                   22       0 2           0  0     0                                                                                                                                                                                                       6                    99 9    99      9        7  99                 444                
consensus                     :                                                                                                                                                                                                                                           AATTTGCTAACGGTCNTGATCAATACC--AT-GATAATTGGTTACTAGTAAGGTGACAAGCGTTCTTACCTGTTGACATCTATTGAAGTGTAAT-AT-GGTTTTCCGATAATNATGTTGTTTGAATAGTTTTTCGCGACTATAAAC--ACAAACAAGATGCTAGTATATTGCTAGAGTTGT----TATACCTAACAGTTTGTTTGTGGCCATTCTGTGTACATTAATCACGGATAAAACTCCTTTAAAAAGAAAATCGTACTCTCGAGAGAAAAAAAGTGGANATTACTGAGTTTTATAAAAACTGTAGAANC-CAATATAAAACTTGTAAACAATTTAATTTGAACACTAAAACTTTAAT--GAATGGTGAAA-TC-GGGAGTAAAATATCTCGAGTCACCGAAAGGAGCTTGGAAAATGGGTANTGGCAGAACATCATTCTATCGGCGTTAATGGAGAAAAGGTNAAATGGGGACTTTTCAGAATTGCCCGCTGAAGGATNAAAGACCAAACGCTGGTGGTTTNGCACAAGATTGGAGCAATTATGCATATTCTGATATGGCTGACAGTGATTACAGTAAGACGATATCCCGCTGGCATCTCTTATCAATCGTNATCAAAATAAAGCAACATAGNGGCAATGCGGACCTAAAACTGCGTCGAACTGTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAGTTTAGTGGTTCAGTATAAGCGCTTACCAATAATAAGCGCATAA--A-AGTG--TCACTA-AAATTAAT-AT--AAGCGCATACGCTTATT---TACCAGATTCTACAGT
Reference ( family-60 )       :                                                                                                                                                                                                                                           AATTTGCTAACGGTCNTGATCAATACC--AT-GATAATTGGTTACTAGTAAGGTGACAAGCGTTCTTACCTGTTGACATCTATTGAAGTGTAAT-AT-GGTTTTCCGATAATNATGTTGTTTGAATAGTTTTTCGCGACTATAAAC--ACAAACAAGATGCTAGTATATTGCTAGAGTTGT----TATACCTAACAGTTTGTTTGTGGCCATTCTGTGTACATTAATCACGGATAAAACTCCTTTAAAAAGAAAATCGTACTCTCGAGAGAAAAAAAGTGGANATTACTGAGTTTTATAAAAACTGTAGAANC-CAATATAAAACTTGTAAACAATTTAATTTGAACACTAAAACTTTAAT--GAATGGTGAAA-TC-GGGAGTAAAATATCTCGAGTCACCGAAAGGAGCTTGGAAAATGGGTANTGGCAGAACATCATTCTATCGGCGTTAATGGAGAAAAGGTNAAATGGGGACTTTTCAGAATTGCCCGCTGAAGGATNAAAGACCAAACGCTGGTGGTTTNGCACAAGATTGGAGCAATTATGCATATTCTGATATGGCTGACAGTGATTACAGTAAGACGATATCCCGCTGGCATCTCTTATCAATCGTNATCAAAATAAAGCAACATAGNGGCAATGCGGACCTAAAACTGCGTCGAACTGTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAGTTTAGTGGTTCAGTATAAGCGCTTACCAATAATAAGCGCATAA--A-AGTG--TCACTA-AAATTAAT-AT--AAGCGCATACGCTTATT---TACCAGATTCTACAGT
gi|1                          :                                                                                                                                                                                                                                                GCTTACAAT-TTGCTTAATACT--GT-GACGATTGATTACT-GTAAGGTGACAAGCGTTCTTACCTGTTGACATCTATTGATATGTAAT-C---ATTTTCCGATAATAATGTTGTTTGAATAGTTTTTCGCAACTATAAAT--ACAAACAAGATGCT---------C--GAGTTGT----TATACCTAACAGTTTGATTGTGGCCATTCTGTGTACATTAATCATGGATAAAACTCCTTTAAAAAGAAAATCGTACTCTTGAGAGAAAAAAAGTGGACATTATTGAGTTTTATAAAAACTGTAGAAAC-CAATATAAAACTTTTAAACAATTC-ATTTGAACATTAAAACTTTAAT--TA---------------GAGTAAAATA-CTTGAGTCACCGAAAGGAGCTTGGAAAATGGATACTGGCAG-----------ATCGGCGTTAATGGAGAAAAGGTGAAATGGGAACTTTTTAGAATTGCCCGCTAAAGGATAAAAGATCAAACACTGGTGGTTTTGCACAAGATTGGAGCAATTATACATATTCTGATATGGCTGACAGTGATTACAGTAAGACGATATCCCGCTGGCATCTCTTATCAATTGTGATCAAAATAGAGCAACATATAGGCTATGTGTACCTAAAACTGTGTTGAACTGTAT
gi|1                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  gcgTAGTTTAGTGGTTCCGTATAAGCGCATACCAATAATAAGCACATGA--A-AGTG--TCACTA-AAATTAAT-AT--AAGCGCATATGCCTATT---T-CAAGATTCCACAGTannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtttagtggttccgtataagcgcataccaataataagcacatgaaagtgtcactaaaattaatataagcgcatatgcctatttcaagattccacagtaactcatagactgtcta
gi|10                         :                                                                                                                                                                                                                                                                                                 gcggcttacaatttgcttaatactgtgacgattgattactgtaaggtgacaagcgttcttacctgttgacatctattgatatgtaatcattttccgataataatgttgtttgaatagtttttcgcaactataaatacaaacaagatgctcgagttgttatacctaacagtttgattgtggccattctgtgtacattaatcatggataaaactcctttaaaaagaaaatcgtactcttgagagaaaaaaagtggacattattgagttttataaaaactgtagaaaccaatataaaacttttaaacaattcatttgaacattaaaactttaattagagtaaaatacttgagtcaccgaaaggagcttggaaaatggatactggcagatcggcgttaatggagaaaaggtgaaatgggaactttttagaattgcccgctaaaggataaaagatcaaacactggtggttttgcacaagattggagcaattatacatattctgatatggctgacagtgattacagtaagacgatatcccgctggcatctcttatcaattgtgatcaaaatagagcaacatataggctatgtgtacctaaaactgtgttgaactgtatannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnAGTTTAGTGATTCAGTATAAGCGTTTACCAAAAATAAACGCATAA--G-AGTG--TCACTA-AAACTAAT-AA--AAGAGCATACGCTTATT---AACCAGATTCTACAaactcatagactgtcta
gi|11                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      AGTTGAGTGGTTCAGTATAAGCGTTTACCATTAATAAGCACATAA--A-AATG--CCATTA-AAATCAAT-AT--AAGCGCATACACTTATA---TACCAGATTCTACAGc
gi|12                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      AATATGTGCATAA--A-CGTG--TCCCTA-AAATTGAT-AT--CAGTGTATACACTTATTTTATACCAGATTCTACAG
gi|13                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                attagtgtttattgtaTTTAGTATAAGCGCATACC--T-ATAAGCGCATAA--ACATTT--TCACTA-AAATTAAT-
gi|14                         :                                                                                                                                                                                                                                             TTTGCTAACGGTCTTGATCAACACC--AT-GATAATTGGTTAC---TAAGGTGATAAACATTCTAACgctacattacg
gi|15                         :                                                                                                                                                                                                                                             TTTGCTAACGGTCTTGATCAACACC--AT-GATAATTGGTTAC---TAAGGTGATAAACATTCTAAC
gi|16                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      ATTAAT-AT--AAGTGCATATGCTTAGT---TACAAGATTCTACAGT
gi|17                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 AA--A-AGTG--TCACTA-AAATTAAT-ATCAAAGTGCATACGCTTATA---TACCATATTCTACAaggtatattgttaactg
gi|18                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 AA--A-AGTG--TCACTA-AAATTAAT-AT--AAGTACATACGCTTATT---TACCAGATGCT
gi|2                          :                                                                                                                                                                                                                                           AATTTGTTAATGGTCGTGATCAATACC--AT-GATAATTGGTTACTAGTAAGGTGATACGCATT-------ATTGACATCTATTGAAGTGTTATCATTAGTTTTCTGATAATCATGTTGTTTGTACAGCTTTTCACGACTATAAAC--ACAAACAAGATGCTAGTATATTGCTCGAGTTGT----TATACCTAACAGTTTGTTTGTGACCATTCTGTGTACATTAATCACAGAAAAAACTCCTTTAAAAAGAAAATCATACTCTCCAGAG-AAAAAAGTGGAGATTACTGAGTTTTATAAAAACTGTAGAAGC-CAATATAAAACTTGTAAACAATTTAATTTGAACACTAAAACTTTAATGAGAATGGTGAAA-TCGGGGAGTAAAATATCCCGAGTCACTGAAAAGAACTTGGAAAATAGGTAGTGGCAGAACATCATTCTATC--CATTAATGGAGAAAAGGTTAAATAAGGACTTTTCAGAATTGCCCGCTGAAGGATTAAAAACCAAACGCTGATGGTTTGGCACAAAATTAGAGCAATTATGCATATTCTGATATGACTGACAATGAT----G-AAGACGA-ATCCTGTTGGCATCTCTTATCAATCGTTATCAAAATAAAGCAACATAAAGACAATGCAAACCTAAAACTGCATCAAACTGTAT
gi|2                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TAGTTTAGTGGTTC---------------CAATAATAAGCGCATAA--A-AGTG--TCACTC-AAAATAAT-AT--AAGCACATACGCTTATT---TACCAGATTCTACAGTttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtttagtggttccaataataagcgcataaaagtgtcactcaaaataatataagcacatacgcttatttaccagattctacagt
gi|3                          :                                           aatttgttaatggtcgtgatcaataccatgataattggttactagtaaggtgatacgcattattgacatctattgaagtgttatcattagttttctgataatcatgttgtttgtacagcttttcacgactataaacacaaacaagatgctagtatattgctcgagttgttatacctaacagtttgtttgtgaccattctgtgtacattaatcacagaaaaaactcctttaaaaagaaaatcatactctccagagaaaaaagtggagattactgagttttataaaaactgtagaagccaatataaaacttgtaaacaatttaatttgaacactaaaactttaatgagaatggtgaaatcggggagtaaaatatcccgagtcactgaaaagaacttggaaaataggtagtggcagaacatcattctatccattaatggagaaaaggttaaataaggacttttcagaattgcccgctgaaggattaaaaaccaaacgctgatggtttggcacaaaattagagcaattatgcatattctgatatgactgacaatgatgaagacgaatcctgttggcatctcttatcaatcgttatcaaaataaagcaacataaagacaatgcaaacctaaaactgcatcaaactgtatttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnTAAAGCAACATAGCGGCAATGTGGACCTAAAACTGTGTTGAACT-TAT
gi|3                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TAGTTTAGTGGTTCAGTATAAGCGCTTACCAATAATAAGCGCACAA--A-AGTG--TCACTA-AAATTAAT-AT--AAGCACATACGCATATT---TACCAGATTCTACAGTatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtttagtggttcagtataagcgcttaccaataataagcgcacaaaagtgtcactaaaattaatataagcacatacgcatatttaccagattctacagtatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacaca
gi|4                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        taaagcaacatagcggcaatgtggacctaaaactgtgttgaacttatatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnAAAGCAACATAGCGGCAATGTGGACCTAAAACTGTGTTGAACT-TATatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacaca
gi|4                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TAGTTTAGTGGTTCAGTATAAGCGCTTACCAATAATAAGCGCACAA--A-AGTG--TCACTA-AAATTAAT-AT--AAGCACATACGCATATT---TACCAGATTCTACAGTatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtttagtggttcagtataagcgcttaccaataataagcgcacaaaagtgtcactaaaattaatataagcacatacgcatatttaccagattctacagtatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacacaa
gi|5                          :         aaagcaacatagcggcaatgtggacctaaaactgtgttgaacttatatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnAATTTGTTAATGGTCATGATCAATACCTGATCAATAATTGGTTACTAGTAAGGGGACAAGCTTTCTTACCTGTTGCCATCTATTGGAGTGTAAT----GGTTTTCTGATAATCATGTTGTTTGAATAGTTTTTTGCGACTATAAAC--ACAAACTAGATGTTAGTATATTGCTAGAGTTGT----TATACTTAACAACTTGTTTGGGGCCATTCTGTGTACATTCATTATGGATAAAACTCCTTTAAAAAGAAAGTAGTG-TCTCatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacacaa
gi|5                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             taaTTTAAAAAGAAAGTAGTGTCTCATTATAAAACTGGTAAACAATTTAATTTGAACACTAAAACTTTAAT--G-ATGGTGAAATTT-GAGAGTAAAAT-TCTTGAGTCAattataaaactggtaaacaatttaatttgaacactaaaactttaatgatggtgaaatttgagagtaaaattcttgagtca
gi|6                          : taaaatttgttaatggtcatgatcaatacctgatcaataattggttactagtaaggggacaagctttcttacctgttgccatctattggagtgtaatggttttctgataatcatgttgtttgaatagttttttgcgactataaacacaaactagatgttagtatattgctagagttgttatacttaacaacttgtttggggccattctgtgtacattcattatggataaaactccATTTGCTAATGATCAAGATCAATGCC--AT-GAAAATTGGTTACTAGTAAGGTGACAAGTGTTCTTACCTGTTGACATATATTAAAGTGTA---AT-GGTTTTCCGATAGTAATGTTGTTTGAATAGTTTATCGCAACTATAAACTTA-AAACAAGATGCTAGTATATTCCTAGAGTTGTTATGTATACCTAACAGTATGTTTGTGAACATTCTGTGTACATTATCTATGGATAAAA
gi|7                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              gcttaacTAGTTTAGTGGTTCAGTATAATAGCTTACCAATAATAAGCACATAA--A-AGTG--TCACTC-AGATTAAT-AT--AAGTTCATACACTTATT---TACCAGATTCTACAGT
gi|8                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                ACCAATAATAAGCACATGT--A-AGTG--TCACTA-AAACTAAT-AT--AAGCACATAAGTTTCTT---TACTAGATTTTACAATatatttataaactgaatcttttgttttaaagccagaatttggagatatgagattctttctaaatcttacttgagtaagattgtaatacttaaatatagtcaaattaagac
gi|9                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           agttagatgttaTAAGCGCATATCAAATATAGGCACACAGTTC-AGTGGTTCAATATAAGCTAATAAT--AAGTGCATAatttgtcgaagtgtttcccagttacttcttaaacagagatttctaaatt
gi|9                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      AGTTCAGTGGTTCAATATAAGC------TAATAATAAGTGCATAA--A-AGTG--CAACTA-AAATTATT-AT--AAGCGCATATGCTTATT---TACTAGATTCTACAGTaaagtgcaactaaaattattataagcgcatatgcttatttactagattctacagtt


blockSeqs                     :                                                                                                                                                                                                                                                          T           TG  C             TA              A    A                         ATCATTA             C                                 TT C            A       G TC       TATG                                            C                              C    C    .           G                            G T                        A                      GAGAATGGTGAAATCGGG          AT                                  G      AACATCATTCT   .                   T                                   T                      G                                                G            .                           T                   AA       C             C  C     G                                                                                                                                                                                                       T                    TT C    GT      T        A  CA                 TTA
blockSeqs                     :                                                                                                                                                                                                                                                          T           .   .             TA              A    A                         ATG                 C                                 .  C            A       G TA       .                                               T                              .                                                  T .                        A                      GATGGTGAAATTTGA             T                                                                                                                                                                                                                                                     GC       T             T  T     .                                                                                                                                                                                                       T                    .  .    .       .        .  .                  .  
blockSeqs                     :                                                                                                                                                                                                                                                          G           .   .             TA              A    T                         ATG                 A                                 .  .            A       C TA       .                                               T                                                                                                                                                                                                                                                                                                                                                                                                                     GC       T             T  T     .                                                                                                                                                                                                       A                    .  .    .       .        .  .                  .  
blockSeqs                     :                                                                                                                                                                                                                                                          A           .   .             .               T    T                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                T                    .  .    .       .        .  .                  .  
blockSeqs                     :                                                                                                                                                                                                                                                          A           .   .             .               G    .                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                T                    .  .    .       .        .  .                  .  
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              T                    .  .    .       .        .  .                  .  
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              A                    .  .    .       .        .  .                  .  
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              .                    .  .    .       .        .  .                  .  
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              .                    .  .    .       .        .  .                  .  
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   .  .    .       .        .  .                  .  
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   .  .    .       .        .  .                  .  
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   .  .    .       .        .  .                  .  
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   .  .    .       .        .  .                     
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            .                        


blockSeqCons                  :                                                                                                                                                                                                                                                                                        TA
originalCons                  :                                                                                                                                                                                                                                           AATTTGCTAACGGTCNTGATCAATACC--AT-GATAATTGGTTACTAGTAAGGTGACAAGCGTTCTTACCTGTTGACATCTATTGAAGTGTAAT-AT-GGTTTTCCGATAATNATGTTGTTTGAATAGTTTTTCGCGACTATAAAC--ACAAACAAGATGCTAGTATATTGCTAGAGTTGT----TATACCTAACAGTTTGTTTGTGGCCATTCTGTGTACATTAATCACGGATAAAACTCCTTTAAAAAGAAAATCGTACTCTCGAGAGAAAAAAAGTGGANATTACTGAGTTTTATAAAAACTGTAGAANC-CAATATAAAACTTGTAAACAATTTAATTTGAACACTAAAACTTTAAT--GAATGGTGAAA-TC-GGGAGTAAAATATCTCGAGTCACCGAAAGGAGCTTGGAAAATGGGTANTGGCAGAACATCATTCTATCGGCGTTAATGGAGAAAAGGTNAAATGGGGACTTTTCAGAATTGCCCGCTGAAGGATNAAAGACCAAACGCTGGTGGTTTNGCACAAGATTGGAGCAATTATGCATATTCTGATATGGCTGACAGTGATTACAGTAAGACGATATCCCGCTGGCATCTCTTATCAATCGTNATCAAAATAAAGCAACATAGNGGCAATGCGGACCTAAAACTGCGTCGAACTGTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAGTTTAGTGGTTCAGTATAAGCGCTTACCAATAATAAGCGCATAA--A-AGTG--TCACTA-AAATTAAT-AT--AAGCGCATACGCTTATT---TACCAGATTCTACAGT
finalCons                     :                                                                                                                                                                                                                                           AATTTGCTAACGGTCNTGATCAATACC--AT-GATAATTGGTTACTAGTAAGGTGACAAGCGTTCTTACCTGTTGACATCTATTGAAGTGTAAT-AT-GGTTTTCCGATAATNATGTTGTTTGAATAGTTTTTCGCGACTATAAAC--ACAAACAAGATGCTAGTATATTGCTAGAGTTGT----TATACCTAACAGTTTGTTTGTGGCCATTCTGTGTACATTAATCACGGATAAAACTCCTTTAAAAAGAAAATCGTACTCTCGAGAGAAAAAAAGTGGANATTACTGAGTTTTATAAAAACTGTAGAANC-CAATATAAAACTTGTAAACAATTTAATTTGAACACTAAAACTTTAAT--GAATGGTGAAA-TC-GGGAGTAAAATATCTCGAGTCACCGAAAGGAGCTTGGAAAATGGGTANTGGCAGAACATCATTCTATCGGCGTTAATGGAGAAAAGGTNAAATGGGGACTTTTCAGAATTGCCCGCTGAAGGATNAAAGACCAAACGCTGGTGGTTTNGCACAAGATTGGAGCAATTATGCATATTCTGATATGGCTGACAGTGATTACAGTAAGACGATATCCCGCTGGCATCTCTTATCAATCGTNATCAAAATAAAGCAACATAGNGGCAATGCGGACCTAAAACTGCGTCGAACTGTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAGTTTAGTGGTTCAGTATAAGCGCTTACCAATAATAAGCGCATAA--A-AGTG--TCACTA-AAATTAAT-AT--AAGCGCATACGCTTATT---TACCAGATTCTACAGT

1 sequences could not be aligned to this reference sequence:

Unaligned ( gi|19 ): TTTGCCAAAAAGCTTCTTAACTACTTCTAAAACAAAGCTAAATAGA

Alignments

lowQualScore                  :                                                                                                                                                                                                                                                                                        11                                             3333333                                               11                                 2222                                                                                     1                                          1                                               5555555555555555555         11                                         44444444444   11                                                                                                                              222222       1                                                                               1                                                                                                                                                                                                                                                                                              
lowQualScore                  :                                                                                                                                                                                                                                                          1           99  6             44              2    3                         9999999             1                                 33 2            3       2 66       1111                                            2                              6    2    5           1                            1 3                        7                      2222222222222222222         44  0                               1      44444444444   77                  1                                   1                      1                                                999999       5                           1                   11       2 0           2  2     5                                                                                                                                                                                                       3                    33 2    33      2        2  33                 555                
lowQualScore                  :                                                                                                                                                                                                                                                          .           ..  .             ..              .    .                         .......             .                                 .. .            .       . ..       ....                                            .                              .    .    .           .                            . .                        .                      ...................         ..  .                               .      ...........   ..                  .                                   .                      .                                                ......       .                           .                   ..       . .           .  .     .                                                                                                                                                                                                       .                    .. .    ..      .        .  ..                 ...                
lowQualScore                  :                                                                                                                                                                                                                                                          0           22  7             55              2    7                         0000000             0                                 88 5            2       5 22       2222                                            0                              7    5    5           0                            0 3                        3                      7777777777777777777         77  7                               0      00000000000   55                  0                                   0                      0                                                555555       5                           0                   22       0 2           0  0     0                                                                                                                                                                                                       6                    99 9    99      9        7  99                 444                
consensus                     :                                                                                                                                                                                                                                           AATTTGCTAACGGTCNTGATCAATACC--AT-GATAATTGGTTACTAGTAAGGTGACAAGCGTTCTTACCTGTTGACATCTATTGAAGTGTAAT-AT-GGTTTTCCGATAATNATGTTGTTTGAATAGTTTTTCGCGACTATAAAC--ACAAACAAGATGCTAGTATATTGCTAGAGTTGT----TATACCTAACAGTTTGTTTGTGGCCATTCTGTGTACATTAATCACGGATAAAACTCCTTTAAAAAGAAAATCGTACTCTCGAGAGAAAAAAAGTGGANATTACTGAGTTTTATAAAAACTGTAGAANC-CAATATAAAACTTGTAAACAATTTAATTTGAACACTAAAACTTTAAT--GAATGGTGAAA-TC-GGGAGTAAAATATCTCGAGTCACCGAAAGGAGCTTGGAAAATGGGTANTGGCAGAACATCATTCTATCGGCGTTAATGGAGAAAAGGTNAAATGGGGACTTTTCAGAATTGCCCGCTGAAGGATNAAAGACCAAACGCTGGTGGTTTNGCACAAGATTGGAGCAATTATGCATATTCTGATATGGCTGACAGTGATTACAGTAAGACGATATCCCGCTGGCATCTCTTATCAATCGTNATCAAAATAAAGCAACATAGNGGCAATGCGGACCTAAAACTGCGTCGAACTGTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAGTTTAGTGGTTCAGTATAAGCGCTTACCAATAATAAGCGCATAA--A-AGTG--TCACTA-AAATTAAT-AT--AAGCGCATACGCTTATT---TACCAGATTCTACAGT
Reference ( family-60 )       :                                                                                                                                                                                                                                           AATTTGCTAACGGTCNTGATCAATACC--AT-GATAATTGGTTACTAGTAAGGTGACAAGCGTTCTTACCTGTTGACATCTATTGAAGTGTAAT-AT-GGTTTTCCGATAATNATGTTGTTTGAATAGTTTTTCGCGACTATAAAC--ACAAACAAGATGCTAGTATATTGCTAGAGTTGT----TATACCTAACAGTTTGTTTGTGGCCATTCTGTGTACATTAATCACGGATAAAACTCCTTTAAAAAGAAAATCGTACTCTCGAGAGAAAAAAAGTGGANATTACTGAGTTTTATAAAAACTGTAGAANC-CAATATAAAACTTGTAAACAATTTAATTTGAACACTAAAACTTTAAT--GAATGGTGAAA-TC-GGGAGTAAAATATCTCGAGTCACCGAAAGGAGCTTGGAAAATGGGTANTGGCAGAACATCATTCTATCGGCGTTAATGGAGAAAAGGTNAAATGGGGACTTTTCAGAATTGCCCGCTGAAGGATNAAAGACCAAACGCTGGTGGTTTNGCACAAGATTGGAGCAATTATGCATATTCTGATATGGCTGACAGTGATTACAGTAAGACGATATCCCGCTGGCATCTCTTATCAATCGTNATCAAAATAAAGCAACATAGNGGCAATGCGGACCTAAAACTGCGTCGAACTGTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAGTTTAGTGGTTCAGTATAAGCGCTTACCAATAATAAGCGCATAA--A-AGTG--TCACTA-AAATTAAT-AT--AAGCGCATACGCTTATT---TACCAGATTCTACAGT
gi|1                          :                                                                                                                                                                                                                                                GCTTACAAT-TTGCTTAATACT--GT-GACGATTGATTACT-GTAAGGTGACAAGCGTTCTTACCTGTTGACATCTATTGATATGTAAT-C---ATTTTCCGATAATAATGTTGTTTGAATAGTTTTTCGCAACTATAAAT--ACAAACAAGATGCT---------C--GAGTTGT----TATACCTAACAGTTTGATTGTGGCCATTCTGTGTACATTAATCATGGATAAAACTCCTTTAAAAAGAAAATCGTACTCTTGAGAGAAAAAAAGTGGACATTATTGAGTTTTATAAAAACTGTAGAAAC-CAATATAAAACTTTTAAACAATTC-ATTTGAACATTAAAACTTTAAT--TA---------------GAGTAAAATA-CTTGAGTCACCGAAAGGAGCTTGGAAAATGGATACTGGCAG-----------ATCGGCGTTAATGGAGAAAAGGTGAAATGGGAACTTTTTAGAATTGCCCGCTAAAGGATAAAAGATCAAACACTGGTGGTTTTGCACAAGATTGGAGCAATTATACATATTCTGATATGGCTGACAGTGATTACAGTAAGACGATATCCCGCTGGCATCTCTTATCAATTGTGATCAAAATAGAGCAACATATAGGCTATGTGTACCTAAAACTGTGTTGAACTGTAT
gi|1                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  gcgTAGTTTAGTGGTTCCGTATAAGCGCATACCAATAATAAGCACATGA--A-AGTG--TCACTA-AAATTAAT-AT--AAGCGCATATGCCTATT---T-CAAGATTCCACAGTannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtttagtggttccgtataagcgcataccaataataagcacatgaaagtgtcactaaaattaatataagcgcatatgcctatttcaagattccacagtaactcatagactgtcta
gi|10                         :                                                                                                                                                                                                                                                                                                 gcggcttacaatttgcttaatactgtgacgattgattactgtaaggtgacaagcgttcttacctgttgacatctattgatatgtaatcattttccgataataatgttgtttgaatagtttttcgcaactataaatacaaacaagatgctcgagttgttatacctaacagtttgattgtggccattctgtgtacattaatcatggataaaactcctttaaaaagaaaatcgtactcttgagagaaaaaaagtggacattattgagttttataaaaactgtagaaaccaatataaaacttttaaacaattcatttgaacattaaaactttaattagagtaaaatacttgagtcaccgaaaggagcttggaaaatggatactggcagatcggcgttaatggagaaaaggtgaaatgggaactttttagaattgcccgctaaaggataaaagatcaaacactggtggttttgcacaagattggagcaattatacatattctgatatggctgacagtgattacagtaagacgatatcccgctggcatctcttatcaattgtgatcaaaatagagcaacatataggctatgtgtacctaaaactgtgttgaactgtatannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnAGTTTAGTGATTCAGTATAAGCGTTTACCAAAAATAAACGCATAA--G-AGTG--TCACTA-AAACTAAT-AA--AAGAGCATACGCTTATT---AACCAGATTCTACAaactcatagactgtcta
gi|11                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      AGTTGAGTGGTTCAGTATAAGCGTTTACCATTAATAAGCACATAA--A-AATG--CCATTA-AAATCAAT-AT--AAGCGCATACACTTATA---TACCAGATTCTACAGc
gi|12                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      AATATGTGCATAA--A-CGTG--TCCCTA-AAATTGAT-AT--CAGTGTATACACTTATTTTATACCAGATTCTACAG
gi|13                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                attagtgtttattgtaTTTAGTATAAGCGCATACC--T-ATAAGCGCATAA--ACATTT--TCACTA-AAATTAAT-
gi|14                         :                                                                                                                                                                                                                                             TTTGCTAACGGTCTTGATCAACACC--AT-GATAATTGGTTAC---TAAGGTGATAAACATTCTAACgctacattacg
gi|15                         :                                                                                                                                                                                                                                             TTTGCTAACGGTCTTGATCAACACC--AT-GATAATTGGTTAC---TAAGGTGATAAACATTCTAAC
gi|16                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      ATTAAT-AT--AAGTGCATATGCTTAGT---TACAAGATTCTACAGT
gi|17                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 AA--A-AGTG--TCACTA-AAATTAAT-ATCAAAGTGCATACGCTTATA---TACCATATTCTACAaggtatattgttaactg
gi|18                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 AA--A-AGTG--TCACTA-AAATTAAT-AT--AAGTACATACGCTTATT---TACCAGATGCT
gi|2                          :                                                                                                                                                                                                                                           AATTTGTTAATGGTCGTGATCAATACC--AT-GATAATTGGTTACTAGTAAGGTGATACGCATT-------ATTGACATCTATTGAAGTGTTATCATTAGTTTTCTGATAATCATGTTGTTTGTACAGCTTTTCACGACTATAAAC--ACAAACAAGATGCTAGTATATTGCTCGAGTTGT----TATACCTAACAGTTTGTTTGTGACCATTCTGTGTACATTAATCACAGAAAAAACTCCTTTAAAAAGAAAATCATACTCTCCAGAG-AAAAAAGTGGAGATTACTGAGTTTTATAAAAACTGTAGAAGC-CAATATAAAACTTGTAAACAATTTAATTTGAACACTAAAACTTTAATGAGAATGGTGAAA-TCGGGGAGTAAAATATCCCGAGTCACTGAAAAGAACTTGGAAAATAGGTAGTGGCAGAACATCATTCTATC--CATTAATGGAGAAAAGGTTAAATAAGGACTTTTCAGAATTGCCCGCTGAAGGATTAAAAACCAAACGCTGATGGTTTGGCACAAAATTAGAGCAATTATGCATATTCTGATATGACTGACAATGAT----G-AAGACGA-ATCCTGTTGGCATCTCTTATCAATCGTTATCAAAATAAAGCAACATAAAGACAATGCAAACCTAAAACTGCATCAAACTGTAT
gi|2                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TAGTTTAGTGGTTC---------------CAATAATAAGCGCATAA--A-AGTG--TCACTC-AAAATAAT-AT--AAGCACATACGCTTATT---TACCAGATTCTACAGTttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtttagtggttccaataataagcgcataaaagtgtcactcaaaataatataagcacatacgcttatttaccagattctacagt
gi|3                          :                                           aatttgttaatggtcgtgatcaataccatgataattggttactagtaaggtgatacgcattattgacatctattgaagtgttatcattagttttctgataatcatgttgtttgtacagcttttcacgactataaacacaaacaagatgctagtatattgctcgagttgttatacctaacagtttgtttgtgaccattctgtgtacattaatcacagaaaaaactcctttaaaaagaaaatcatactctccagagaaaaaagtggagattactgagttttataaaaactgtagaagccaatataaaacttgtaaacaatttaatttgaacactaaaactttaatgagaatggtgaaatcggggagtaaaatatcccgagtcactgaaaagaacttggaaaataggtagtggcagaacatcattctatccattaatggagaaaaggttaaataaggacttttcagaattgcccgctgaaggattaaaaaccaaacgctgatggtttggcacaaaattagagcaattatgcatattctgatatgactgacaatgatgaagacgaatcctgttggcatctcttatcaatcgttatcaaaataaagcaacataaagacaatgcaaacctaaaactgcatcaaactgtatttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnTAAAGCAACATAGCGGCAATGTGGACCTAAAACTGTGTTGAACT-TAT
gi|3                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TAGTTTAGTGGTTCAGTATAAGCGCTTACCAATAATAAGCGCACAA--A-AGTG--TCACTA-AAATTAAT-AT--AAGCACATACGCATATT---TACCAGATTCTACAGTatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtttagtggttcagtataagcgcttaccaataataagcgcacaaaagtgtcactaaaattaatataagcacatacgcatatttaccagattctacagtatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacaca
gi|4                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        taaagcaacatagcggcaatgtggacctaaaactgtgttgaacttatatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnAAAGCAACATAGCGGCAATGTGGACCTAAAACTGTGTTGAACT-TATatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacaca
gi|4                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TAGTTTAGTGGTTCAGTATAAGCGCTTACCAATAATAAGCGCACAA--A-AGTG--TCACTA-AAATTAAT-AT--AAGCACATACGCATATT---TACCAGATTCTACAGTatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagtttagtggttcagtataagcgcttaccaataataagcgcacaaaagtgtcactaaaattaatataagcacatacgcatatttaccagattctacagtatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacacaa
gi|5                          :         aaagcaacatagcggcaatgtggacctaaaactgtgttgaacttatatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnAATTTGTTAATGGTCATGATCAATACCTGATCAATAATTGGTTACTAGTAAGGGGACAAGCTTTCTTACCTGTTGCCATCTATTGGAGTGTAAT----GGTTTTCTGATAATCATGTTGTTTGAATAGTTTTTTGCGACTATAAAC--ACAAACTAGATGTTAGTATATTGCTAGAGTTGT----TATACTTAACAACTTGTTTGGGGCCATTCTGTGTACATTCATTATGGATAAAACTCCTTTAAAAAGAAAGTAGTG-TCTCatatatggaattctaaaacaataaatcaatgtctgattgattcatctgtctcaaaaatattgacacaa
gi|5                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             taaTTTAAAAAGAAAGTAGTGTCTCATTATAAAACTGGTAAACAATTTAATTTGAACACTAAAACTTTAAT--G-ATGGTGAAATTT-GAGAGTAAAAT-TCTTGAGTCAattataaaactggtaaacaatttaatttgaacactaaaactttaatgatggtgaaatttgagagtaaaattcttgagtca
gi|6                          : taaaatttgttaatggtcatgatcaatacctgatcaataattggttactagtaaggggacaagctttcttacctgttgccatctattggagtgtaatggttttctgataatcatgttgtttgaatagttttttgcgactataaacacaaactagatgttagtatattgctagagttgttatacttaacaacttgtttggggccattctgtgtacattcattatggataaaactccATTTGCTAATGATCAAGATCAATGCC--AT-GAAAATTGGTTACTAGTAAGGTGACAAGTGTTCTTACCTGTTGACATATATTAAAGTGTA---AT-GGTTTTCCGATAGTAATGTTGTTTGAATAGTTTATCGCAACTATAAACTTA-AAACAAGATGCTAGTATATTCCTAGAGTTGTTATGTATACCTAACAGTATGTTTGTGAACATTCTGTGTACATTATCTATGGATAAAA
gi|7                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              gcttaacTAGTTTAGTGGTTCAGTATAATAGCTTACCAATAATAAGCACATAA--A-AGTG--TCACTC-AGATTAAT-AT--AAGTTCATACACTTATT---TACCAGATTCTACAGT
gi|8                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                ACCAATAATAAGCACATGT--A-AGTG--TCACTA-AAACTAAT-AT--AAGCACATAAGTTTCTT---TACTAGATTTTACAATatatttataaactgaatcttttgttttaaagccagaatttggagatatgagattctttctaaatcttacttgagtaagattgtaatacttaaatatagtcaaattaagac
gi|9                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           agttagatgttaTAAGCGCATATCAAATATAGGCACACAGTTC-AGTGGTTCAATATAAGCTAATAAT--AAGTGCATAatttgtcgaagtgtttcccagttacttcttaaacagagatttctaaatt
gi|9                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      AGTTCAGTGGTTCAATATAAGC------TAATAATAAGTGCATAA--A-AGTG--CAACTA-AAATTATT-AT--AAGCGCATATGCTTATT---TACTAGATTCTACAGTaaagtgcaactaaaattattataagcgcatatgcttatttactagattctacagtt

1 sequences could not be aligned to this reference sequence:

Unaligned ( gi|19 ): TTTGCCAAAAAGCTTCTTAACTACTTCTAAAACAAAGCTAAATAGA