lowQualScore                  :                                                                                           11111111111111111111111111111111111111111111111111111111111                                                                                                                                                                                                 111111111111111111111111111111111111111                                                                                                                                                                                            
lowQualScore                  :                          1          1111                 222222                           88888888888888888888888888888888888888888888888888888888888                            444444444          555555555555555555555      222                             111111      1                            11111111             11           1           111111111111111111111111111111111111111                                          11   333     1        2               4     4             55555555                333   2222        22        2                      11           
lowQualScore                  :                 6        0     1 1  8888    66   66  55  222222   888        2  66        33333333333333333333333333333333333333333333333333333333333     888  4   2     7777 3  111111111      0   111111111111111111111      444    5      4         555 0   111111  5   6 0 3             1  8888    22222222    8    55  00           2    2   11 555555555555555555555555555555555555555  1 6         88       1       3  4 4     77   555   3 5   2    0               0     0             55555555                555   4444     2  77        0     555              99           
lowQualScore                  :                 .        .     . .  ....    ..   ..  ..  ......   ...        .  ..        ...........................................................     ...  .   .     .... .  .........      .   .....................      ...    .      .         ... .   ......  .   . . .             .  ....    ........    .    ..  ..           .    .   .. .......................................  . .         ..       .       .  . .     ..   ...   . .   .    .               .     .             ........                ...   ....     .  ..        .     ...              ..           
lowQualScore                  :                 7        8     4 7  1111    99   99  88  888888   888        8  99        66666666666666666666666666666666666666666666666666666666666     666  4   1     1111 3  999999999      8   000000000000000000000      222    5      0         999 4   999999  8   2 2 6             5  5555    11111111    3    55  55           2    2   55 111111111111111111111111111111111111111  0 7         00       0       0  0 0     55   000   0 5   5    0               0     0             00000000                000   0000     5  55        0     555              55           
consensus                     : GCATACAATATATTTTTTATGGGCGGCGGAAAGGGTAGAAAAAA--GAC--GTTAAT-G--CAAAA---CGAACAACCAA--TTTTCAAAA-A-ATACT----CGATT-CGTGAT--A---AATA----C-GACCAGCTT-T--A---AAAAAC--GAA-ATCGACAGA----C-TC---A-T-TAGCAAAATCAAAN-----GACT-CCG-TNG-AAAACGAA-GATCANCGATGC-AAAACCAACGG-TCATT--A---ACNGAATTGA-CGCTAGATGGCGTGCA----AAGA--------ACAGNCATT--ATCGGAATTAACGCTAGATGGCGCACGTA-TCT---TACGTAATTATACAGA-----TGCGTA---ATCANGACAACTCGCCACCAAGACATGTCGCNCCNANGGAAGCCCAGGGTCCTNATTTTNAAAGAACAGCTACTTGTATA-GTAAG-CCTAATAAACATATTAGCAGTACATTGTGAATGAAAGAAATTCTTGAAAGACNAAATGATATTTTAGTCAANCNTTTTCCCTTTCAATANTCAGCATCAGA
Reference ( gi|1 )            : GCATACAATATATTTTGTATGGGCGCCGGAAGAAATAGAGAAAA--GAC--GTTCAT-A--CCAAA---CGAACAACTAA--TTTTCAAAA-A-ATATT---TCGATTTCGTGAT--A---AATAT---CTGACTAGCTTTTTAAAAAAAAAAT--AAA-ATCGACAGA----C-TC---A-T-TAGCAAAATCAAAT-----GACT-CCG-TGG-AAAACGAA-GATCATCGATGC-AAAACCAACAA-TCATT--A---ACGGAAATGA-CGCTAGATGGCGTACA----AAGA--------ACAGACATT--ATCGGAATTAACGCTCGATGACGCATGTA-TCT---TACGTAATTATACAGATTGGGTGCGTAGACATTACGACAACTCGTAACCAAGATATGTTGCACCAAAAGAAACCCAG---CCTAATTTTCAAAG-ACAGCTACTTGTATATGTAAGCCCTAATAAACATA-TA-C--TACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|2                          : GCATACAATATATTTTGTATGGGCGCCGGAAGAAATAGAGAAAA--GAC--GTTCAT-A--CCAAA---CGAACAACTAA--TTTTCAAAA-A-ATATT---TCGATTTCGTGAT--A---AATAT---CTGACTAGCTTTTTAAAAAAAAAAT--AAA-ATCGACAGA----C-TC---A-T-TAGCAAAATCAAAT-----GACT-CCG-TGG-AAAACGAA-GATCATCGATGC-AAAACCAACAA-TCATT--A---ACGGAAATGA-CGCTAGATGGCGTACA----AAGA--------ACAGACATT--ATCGGAATTAACGCTCGATGACGCATGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATTACGACAACTCGTAACCAAGATATGTTGCACCAAAAGAAACCCAG---CCTAA-TTTCAAAG-ACAGCTACTTGTATA-GTAAG-CCTAATAAACATATTA-C---ACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|3                          :              TTTTTATGGGTGGTGGAAAGGGTA-AGAAAAACGAC--GT-CATTA--CAAAA---CGAACAACCAG--TTCTCAAAC-ACATACT---GAAATA-CATGAT--A---GATA-------AC-A-----TTAAGACAAAGCC--------CGACA-A----C-----------AGCAACAT-AGGT-----AATT-GCA-AAG-TAAACAAA----CTGCGTTGC-AAATTGAACGA-T------A---ACAGAACTGA-TGCTAAATAATATGCA----AAGA--------ACAGGCATT--AT-GCAATTAACGCTAGATGGCGTATG-A---C---TA-GTCATTA---AGA--------------ATCAAGACAACTCACCACCAAGACTTATCGTCCCTATGGAAG--CAGGGTCCTCATTTTAAAAGAACAACT
gi|14                         :           atcgTTTTATGGGCGGCGGAAAGGGTTAAAAAAA--GATATGTTAAT-G--CAACT---CAAACAGTCAA--TTTTCAAAA-cgatcaactatcaaaaataacaatcaacaatgatcaatatgttatgtattacatatagcagtacattatgaatgaaagaaattcaagacaaaatgatattttagtcaagcttttttcctttcaatttcagcattaga
gi|4                          :                 gTATGGGCGGCGGAAAGGGTAAA-AAAA--GAT--GTTAAT-G--CAAAA---CGAACAATCAA--TTTTCAAAA-CCATACT--------------A---A---AATACAAGCTAACCAGCTTAT---------AAT--GAA-ATCAACAGG----C-TCCAAA-T---GCAAAACCAA-C-----GATTGCCG--------ACGT--GAT-AT--ATGC-AAAAGCAACGG-TCATT--A---ACTGAATTGA-CGCTATATGGCGCGCACCCCAACACCCCCTCCCCCGACATC--ATCTGAATTAACGCTAGAGGGCGC---TAGTCTAGCTATATAATCATgcatac
gi|8                          :                  cATGGGCAGTGGAAAAGGTA---AAAT--GAT--GTTAAA-ATTCAAAA---CGAACAACTGA--TTTTCAAAATC-ACACCGAATTGAGTGAATGAT--AT--GATA------GATCAGCTC---------AAAAC--AAA-ATCAACAGG----C-TCT--G-T-T-GCAAAATCA
gi|12                         :                    TGGGCAGCGGGAAAGAT-GAAAATA--GAC--GTTAAT-G--CAAAA---CGAGTAAC--A--TTT--AAAA-A-AAA--------ATTAC-TGA---A---AA---------ACTAGCTT---------AAAAC--CAA-ATCAGCATA----CTTT---G-T-T-GCAAAACTAAccgacgtaaaaccaaccatca
gi|7                          :                               cGAAAGGGCAAAAA--GAC--GTGAAT----CAAAA---AGAACA--TAAATTTTTCAAA-----TAT-----CAAT-----GAT--ATGCAAAAA---CAAACCA-CTCTT------AAAAAT--ACACATCAACAGA----C-CC---C-C---GCATG-CCAAA-------ACC-----------AGCGAA---TCATCCATGC-AAAACCAACAG-TCATTTTA---CCCGAC-T---CACTAGATGGCGTcgatttcc
gi|10                         :                                      gggctgA--GAC--GTTCAA-A----AAAATCCGAACAATTTA--TTCTCAAAA------------CCAATCCGAAATGCA---AAAA-------ACAAACTT----AGGACAAAATCCAAA-ATCAATAGA----C-TC-------TA----AATCCA----------T-----TGC-AAAACGAATGATCAACAATGC-AAAATCATCGG-TCATT--A---ACAGAATTGg
gi|8                          :                                                                                                                                                        AAT--GAT-AT-GATAGATCAGC-TC---A-A--AACAAAATCAACA-----GGCT-CTG-TTG-CAAA------ATCACCGACGT-AAAACCAACCA-TCA
gi|6                          :                                                                              atgggcagtggaaaaggtaaaatgatgttaaaattcaaaacgaacaactgattttcaaaatcacaccgaattgagtg--AAA-A---ACATA----C-TG---A-A-AAGCAAAA-CAAACCAAGAGACT-CCG-TTGCAAAACCAACGATCACCGATAT-AAAACCAACAG-CCATT--A---ACCAAATTGA-CGCTAAATGGCGTGCA----AATA--------ACAATTAAT--ATCTGAATTAATGCTAGATGGCGC
gi|11                         :                                                                                                     tttatgggtggcagaaaggatggggaaaaaacaagtactctgtacatgcaaaacgattttccCAACAAA----T-TCCG-A-C-T-GCAAAATCAGAA-----GATT-CCG-TCACAAAACAA----TCAACGATAC-AAAAC--ACGAGTCATC--ACG-ACG----TGAACGCTAGATGGCGTGC-----GGGA--------ACAG-CATTGAAT-AAAATTGACGgctagtctatct
gi|9                          :                                                                                                                                                                     ATAGA----C-TC---AAT-TGG-AAAAGCAATG-----GATT-TCG-TTGCAAAACAAACGAT----AATGCCAAAACCAGCAA-T-ATT--TTTTACTGAATTGA-AGCTACATGGCGTGCA----A----------------------ATC-GAATTAATGCTAGATG
gi|5                          :                                                                                                                                                   aaaatatattgatatgcataAGA----C-TC---A-TATTGCAAAATCAA-------GATT-CTACTGT-TATACGAACGATCACCGATGT-AAAACCAAC----------------------------TAGATGGCGTACA----AAGA--------ACA-----------GGAATAAACGCTAGATTGCGCACGAG-TCT---TA---AA----AC--------TGTATA---ATCAGGACAACTCGCCATCAAGACAgtgtttgcgtagtc
gi|15                         :                                                                                                                                                                                                                                     acaaagccaagtAACCAATAG-TCATT--A---ATAGAATTAA-CGCTAGATGGCGTGCA----AAGA--------ACAGAaatccctcattgagaacaattcgcccctgaaagataactacagcacctgatgagcaaattgtattttagcagtgtattatgaataaa
gi|17                         :                                                                                                                                                                                                                                           cgctatAACCAATAG-TCATT--A---ATAGAATTAA-CGCTAGATGGCGTGCA----AAGA--------Atgtgaacaatg
gi|16                         :                                                                                                                                                                                                                                                                      tCGGAATTAA-CGCTAGATGACGCACA----A
gi|15                         :                                                                                                                                                                                                                                                                                            aacagactttctA--------ATAGTCATT--AATAGAATTAACGCTAGATGGCGtacataaacgattgg
gi|17                         :                                                                                                                                                                                                                                                                                              cgctataaccA--------ATAGTCATT--AATAGAATTAACGCTAGATGGCGtgcaaagaacagatgtgaacaatg
gi|16                         :                                                                                                                                                                                                                                                                                                   taaccA--------ACAGACTTT--CTCGGAATTAACGCTAGATGACGCAtgcaaagaa
gi|3                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             ACATA-TAGCAGTACATTATGAATGAAAGAAATTC----AAGACAAAATGATATTTTAGTCAAGCTTTTTTCCTTTCAAT-TTCAGCATTAGAcaatacataaacgattgg
1 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|13 ): GTATTCTATAGGTGGTGGAAAGGGTAAATGCAAACGATCAAAAAGTTAGTCAAAAAGCATATAATGAAATACCTGTAGATAAAATCAAGCTAACGATCATCGATACAAAAACATCATAG






Alignments
lowQualScore                  :                                                                                                                                                                    1111111111111111111111111111111111111111111111111111111111111                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
lowQualScore                  :                                                                                                   111               111111111111       11111                       1111111111111111111111111111111111111111111111111111111111111                           444444444                  2222222222222       11                                                                       11111111    1                                       111  1             77777777777777                                         222   44444  1111        2      444444444444444444444444444444444         888888888888888888888888888                   333               33        2                                   
lowQualScore                  :                                                                              0          4         333 1     55  55  222222222222 4     00000        5  55    4     9999999999999999999999999999999999999999999999999999999999999     4  9     99  3     3  111111111      0   55  1 3 1111111111111  4    99     2      4         66  0 44   555  2   0   3                8888    33333333    1    66  99                    00 6 8   444  3    0  5  3  55555555555555    1          2               1  1 33   111   44444  4444   1    7      666666666666666666666666666666666    0    222222222222222222222222222 2            2    777   7        1  00        3     222              88           
lowQualScore                  :                                                                              .          .         ... .     ..  ..  ............ .     .....        .  ..    .     .............................................................     .  .     ..  .     .  .........      .   ..  . . .............  .    ..     .      .         ..  . ..   ...  .   .   .                ....    ........    .    ..  ..                    .. . .   ...  .    .  .  .  ..............    .          .               .  . ..   ...   .....  ....   .    .      .................................    .    ........................... .            .    ...   .        .  ..        .     ...              ..           
lowQualScore                  :                                                                              6          4         999 3     55  55  666666666666 8     00000        5  55    0     0000000000000000000000000000000000000000000000000000000000000     4  0     55  6     6  888888888      8   22  0 6 5555555555555  0    44     4      0         88  4 66   888  2   6   6                5555    22222222    2    11  66                    66 0 0   000  2    8  6  2  22222222222222    0          5               0  0 00   888   22222  0000   0    8      222222222222222222222222222222222    8    000000000000000000000000000 5            0    777   3        0  77        7     777              33           
consensus                     :                                                              GCATACAATATATTTTTTATGGGCGGC-GGAAAGGGTA-GAGAAAAG--AC--GT------TA-A--TGCAAAA-----CGAACAACTAA--TTTT-CAAAA-A-ATACT-CGA--TT-CG------TGAT----A-AATAC-----GACCAGCTTT------AAAAA-ACAAAATC--GA-CAGAC-TC---A-T-T-GCAAAATCAAANGATT-C------CGTNGCAAA-ACGAA-GATCANCGATGC-AAAACCAACG-GTCA--TTA---ACNGAATTGA-CGCTAGATGGCGTGCA----AAGA--------ACAGACATT--ATCGGAATTAACGCTAGATGGCGCACGTA-TCT---TACGTAATTATACAGATTGG-TGCGTAGACATCANGACAACTCGCNACCAAGACATGTCGCNCCNAAAGAAACCCAG---GCCCTAATTTTNAAAG-ACAGCT------ACTTGT-----ATA-GCAAG-C--C--TGATAAACA-----TA--TT-------------AGCAGTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
Reference ( family-7811 )     :                                                              GCATACAATATATTTTTTATGGGCGGC-GGAAAGGGTA-GAAAAAAG--AC--GT------TA-A--TGCAAAA-----CGAACAACCAA--TTTT-CAAAA-A-ATACT-CGA--TT-CG------TGAT----A-AATAC-----GACCAGCTTT------AAAAA-ACGAAATC--GA-CAGAC-TC---A-T-TAGCAAAATCAAANGACT-C------CGTNG-AAA-ACGAA-GATCANCGATGC-AAAACCAACG-GTCA--TTA---ACNGAATTGA-CGCTAGATGGCGTGCA----AAGA--------ACAGNCATT--ATCGGAATTAACGCTAGATGGCGCACGTA-TCT---TACGTAATTATACAGA-----TGCGTA---ATCANGACAACTCGCCACCAAGACATGTCGCNCCNANGGAAGCCCAG--GGTCCTNATTTTNAAAGAACAGCT------ACTTGT-----ATA-GTAAG-C--C--TAATAAACA-----TA--TT-------------AGCAGTACATTGTGAATGAAAGAAATTCTTGAAAGACNAAATGATATTTTAGTCAANCNTTTTCCCTTTCAATANTCAGCATCAGA
gi|1                          :                                                              GCATACAATATATTTTGTATGGGCGCC-GGAAGAAATA-GAGAAAAG--AC--GT------TC-A--TACCAAA-----CGAACAACTAA--TTTT-CAAAA-A-ATATTTCGA--TTTCG------TGAT----A-AATATCT---GACTAGCTTTTTAAAAAAAAA-ATAAAATC--GA-CAGAC-TC---A-T-TAGCAAAATCAAATGACT-C------CGTGG-AAA-ACGAA-GATCATCGATGC-AAAACCAACA-ATCA--TTA---ACGGAAATGA-CGCTAGATGGCGTACA----AAGA--------ACAGACATT--ATCGGAATTAACGCTCGATGACGCATGTA-TCT---TACGTAATTATACAGATTGGGTGCGTAGACATTACGACAACTCGTAACCAAGATATGTTGCACCAAAAGAAACCCAG-----CCTAATTTTCAAAG-ACAGCT------ACTTGT-----ATATGTAAGCC--C--TAATAAACA-----TA--T-----------------ACTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|10                         :                                                                                                           AG--AC--GT------T-------CAAAAAAATCCGAACAATTTA--TTCT-CAAAA-------C-CAA--TC-CG--------------A-AATGC---------------------AAAAA-ACAAACTTAGGA-CAAAA-TC----------CAAAATCAATAGACT-CTAAATCCATTGCAAA-ACGAATGATCAACAATGC-AAAATCATCG-GTCA--TTA---ACAGAATTG
gi|11                         :                                                                                                                                                                                                                                              C--AA-CAAAT-TCCG-A-C-T-GCAAAATCAGAAGATT-C------CGTCACAAA-ACAA----TCAACGATAC-AAAAC--ACGAGTCA--TCA-----CGACGTGAACGCTAGATGGCGTGC-----GGGA--------ACAG-CATTGAAT-AAAATTGACG
gi|12                         :                                                                                 TGGGCAGC-GGGAAAGAT--GAAAATAG--AC--GT------TA-A--TGCAAAA-----CGAGTAAC--A--TTT---AAAA-A-AAA-----A--TT-AC------TGA-----A-AA---------ACTAGCTT---------AAA-ACCAAATC--AG-CATACTTT---G-T-T-GCAAAA-CTAACGATT-T------C
gi|14                         :                                                                           cTTTTATGGGCGGC-GGAAAGGGTT-AAAAAAAGATAT--GT------TA-A--TGCAACT-----CAAACAGTCAA--TTTT-CAAAA-GCATACc
gi|15                         :                                                                                                                                                                                                                                                                                                                           gAACCAATA-GTCA--TTA---ATAGAATTAA-CGCTAGATGGCGTGCA----AAGA--------ACAG
gi|16                         :                                                                                                                                                                                                                                                                                                                                                                             cgctatA--------ACAGACTTT--CTCGGAATTAACGCTAGATGACGCACatgtgaacaatg
gi|17                         :                                                                                                                                                                                                                                                                                                                            AACCAATA-GTCA--TTA---ATAGAATTAA-CGCTAGATGGCGTGCA----AAGA--------Aaatacataaacgattgg
gi|2                          :                                                             tGCATACAATATATTTTGTATGGGCGCC-GGAAGAAATA-GAGAAAAG--AC--GT------TC-A--TACCAAA-----CGAACAACTAA--TTTT-CAAAA-A-ATATTTCGA--TTTCG------TGAT----A-AATATCT---GACTAGCTTTTTAAAAAAAAA-ATAAAATC--GA-CAGAC-TC---A-T-TAGCAAAATCAAATGACT-C------CGTGG-AAA-ACGAA-GATCATCGATGC-AAAACCAACA-ATCA--TTA---ACGGAAATGA-CGCTAGATGGCGTACA----AAGA--------ACAGACATT--ATCGGAATTAACGCTCGATGACGCATGTA-TCT---TACGTAATTATACAGATTGG-TGCGTAGACATTACGACAACTCGTAACCAAGATATGTTGCACCAAAAGAAACCCAG-----CCTAA-TTTCAAAG-ACAGCT------ACTTGT-----ATA-GTAAG-C--C--TAATAAACA-----TA--TT-------------A----CACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|3                          :                                                                           TTTTTATGGGTGGT-GGAAAGGGTAAGAAAAACG--AC--GT------CA-T--TACAAAA-----CGAACAACCAG--TTCT-CAAAC-ACATACT--GAAATA-CA------TGAT----A-GATA-------AC-A---TT------AAGA---CAAAGCCC-GA-CA-AC-----------AGCAACAT-AGGTAATT-G------CAAAG-TAA-ACAAA----CTGCGTTGC-AAATTGAACG-AT------A---ACAGAACTGA-TGCTAAATAATATGCA----AAGA--------ACAGGCATT--AT-GCAATTAACGCTAGATGGCGTATG-A-C-----TA-GTCATTA---AGA--------------ATCAAGACAACTCACCACCAAGACTTATCGTCCCTATGGAAG--CAG--GGTCCTCATTTTAAAAGAACAACTCGATCAAC-TATCAAAAATA-ACAAT-CAACAATGATCAATA-----TG--TTATGTATTACATATAGCAGTACATTATGAATGAAAGAAATTC----AAGACAAAATGATATTTTAGTCAAGCTTTTTTCCTTTCAAT-TTCAGCATTAGA
gi|4                          :                                                                           atcgTATGGGCGGC-GGAAAGGGTA--AAAAAAG--AT--GT------TA-A--TGCAAAA-----CGAACAATCAA--TTTT-CAAAACC-ATACT---A---------------------A-AATACAAGCTAACCAGCTT---------ATA-ATGAAATC--AA-CAGGC-TCCAAA-T---GCAAAACC-AACGATTGC------CG--------ACG-T-GAT-AT--ATGC-AAAAGCAACG-GTCA--TTA---ACTGAATTGA-CGCTATATGGCGCGCACCCCAACACCCCCTCCCCCGACATC--ATCTGAATTAACGCTAGAGGGCGC---TAGTCTAGCTATATAATCAT
gi|5                          :                                                                                                                                                                                                                                     c-ACAAAGCC--AAGTAGAC-TC---A-TATTGCAAAATCAA--GATT-C------TACTG-TTATACGAACGATCACCGATGT-AAAACCAAC----------------------------TAGATGGCGTACA----AAGA--------ACAG-----------GAATAAACGCTAGATTGCGCACGAG-TCT---TA---AA----AC--------TGTATA---ATCAGGACAACTCGCCATCAAGACAAATCCCTCATTGAGAA---CAATTCGCCC-----CTGAAAG-ATAACT------AC-----------A-GCA---C--C--TGATGAGCAAATTGTATTTT-------------AGCAGTGTATTATGAATAAA
gi|6                          :                                                                             TTTATGGGTGGC-AGAAAGGATG-GGGAAAAA--ACAAGTACTCTGTACA--TGCAAAA-----CG--------A--TTTTCCAAAA-ACATACT-
gi|6                          :                                                                                                                                                                                                                                                                        AAACCAAGAGACT-C------CGTTGCAAA-ACCAACGATCACCGATAT-AAAACCAACA-GCCA--TTA---ACCAAATTGA-CGCTAAATGGCGTGCA----AATA--------ACAATTAAT--ATCTGAATTAATGCTAGATGGCGCGCgaaaagcaaaacaaaccaagagactccgttgcaaaaccaacgatcaccgatataaaaccaacagccattaaccaaattgacgctaaatggcgtgcaaataacaattaatatctgaattaatgctagatggcgcgctagtctatct
gi|7                          : tttatgggtggcagaaaggatggggaaaaaacaagtactctgtacatgcaaaacgattttccaaaaacatactgaaaagcaaaacGGCTGGAAAGGGCA----AAAAG--AC--GT------GA-A--T-CAAAA-----AGAACA--TAAATTTTT-C---A-A-ATA-T-CAA-------------TGATATGCA-AAAACA----AACCACTCTT------AAAAATAC-ACATC--AA-CAGAC-CC-------CCGC-ATGCCAAAA-----C------C-------A-GCGA---ATCATCCATGC-AAAACCAACA-GTCATTTTA---CCCGACT----CACTAGATGGCGTGtagtctatct
gi|8                          :                                                                               gATGGGCAGT-GGAAAAGGTA----AAATG--AT--GT------TA-AAATTCAAAA-----CGAACAACTGA--TTTT-CAAAATC-ACAC--CGA--AT-TGAGTGAATGAT----ATGATA------GATCAGCTC---------AAA-ACAAAATC--AA-CAGGC-TCT--G-T-T-GCAAAATCA
gi|9                          :                                                                                                                                                                                                                                                  A-TAGAC-TC---AAT-TGG-AAAAGCAATGGATT-T------CGTTGCAAA-ACAAACGAT----AATGCCAAAACCAGCA-AT-A--TTTTTTACTGAATTGA-AGCTACATGGCGTGCA----A----------------------ATC-GAATTAATGCTAGATGGTGccgacgtaaaaccaaccatca
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|13 ): GTATTCTATAGGTGGTGGAAAGGGTAAATGCAAACGATCAAAAAGTTAGTCAAAAAGCATATAATGAAATACCTGTAGATAAAATCAAGCTAACGATCATCGATACAAAAACATCATAG






Alignments
lowQualScore                  :                                                                                                       11111111111111111111111111111111111111111111111111111111111111                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
lowQualScore                  :                                       11111             111111111111       11111                      55555555555555555555555555555555555555555555555555555555555555                          333333333                          1111        1                                                                       11111111                                      222222222       22222222222222222222222                                        11     2222  1111        1      444444444444444444444444444444444         888888888888888888888888888                   222               11        1                                   
lowQualScore                  :                  0          4         44444     55  55  222222222222 4     00000        2  55         55555555555555555555555555555555555555555555555555555555555555    4     1  999 3     3  222222222      3   99    3 999999  1111     2  4     2      4         66  0 44   555  2   0  3                 8888    33333333    7    66  99                    00 666666666  9    33333333333333333333333    1          1               1  1 1   33  6  4444  2222   1    0      555555555555555555555555555555555    0    222222222222222222222222222 2                 333   7           88        3                      7            
lowQualScore                  :                  .          .         .....     ..  ..  ............ .     .....        .  ..         ..............................................................    .     .  ... .     .  .........      .   ..    . ......  ....     .  .     .      .         ..  . ..   ...  .   .  .                 ....    ........    .    ..  ..                    .. .........  .    .......................    .          .               .  . .   ..  .  ....  ....   .    .      .................................    .    ........................... .                 ...   .           ..        .                      .            
lowQualScore                  :                  6          4         66666     55  55  666666666666 8     00000        8  55         66666666666666666666666666666666666666666666666666666666666666    0     3  666 3     3  888888888      7   22    3 666666  3333     0  5     4      0         88  4 66   888  2   6  3                 5555    22222222    3    11  66                    66 777777777  3    44444444444444444444444    0          0               0  0 2   88  5  8888  5555   0    0      888888888888888888888888888888888    8    000000000000000000000000000 5                 333   3           33        3                      3            
consensus                     :  GCATACAATATATTTTTTATGGGCGGC-GGAAAGGGTA-GAGAAAAG--AC--GT------TA-A--TGCAAAA-----CGAACAACTAA--TTTTCAAAA-A-ATACT-CGA--TT-CG------TGATA----AATAC-----GA-CCAGCTTT------AAAAA-ACAAAATC--GA-CAGAC-TC--A-T--T-GCAAAATCAAANGATT-C------CGTCGCAAAACGAA-GATCANCGATGC-AAAACCAACG-GTCA--TTA---ACNGAATTG-ACGCTAGATGGCGTGCA----AAGA--------ACAGACATT--ATCGGAATTAACGCTAGATGGCGCACGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATCANGACAACTCGCNACCAAGACATGTCGCNCCNAAAGA--AACCCGGGCCCTAATTTTNAAAG-ACAGCT------ACTTGT-----ATA-GCAAG-C--C--TGATAAACA-----TA--T-------------TAGCAGTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
Reference ( family-7811 )     :  GCATACAATATATTTTTTATGGGCGGC-GGAAAGGGTA-GAGAAAAG--AC--GT------TA-A--TGCAAAA-----CGAACAACTAA--TTTTCAAAA-A-ATACT-CGA--TT-CG------TGATA----AATAC-----GA-CCAGCTTT------AAAAA-ACAAAATC--GA-CAGAC-TC--A-T--T-GCAAAATCAAANGATT-C------CGTNGCAAAACGAA-GATCANCGATGC-AAAACCAACG-GTCA--TTA---ACNGAATTG-ACGCTAGATGGCGTGCA----AAGA--------ACAGACATT--ATCGGAATTAACGCTAGATGGCGCACGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATCANGACAACTCGCNACCAAGACATGTCGCNCCNAAAGA--AACCCAGGCCCTAATTTTNAAAG-ACAGCT------ACTTGT-----ATA-GCAAG-C--C--TGATAAACA-----TA--T-------------TAGCAGTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|1                          :  GCATACAATATATTTTGTATGGGCGCC-GGAAGAAATA-GAGAAAAG--AC--GT------TC-A--TACCAAA-----CGAACAACTAA--TTTTCAAAA-A-ATATTTCGA--TTTCG------TGATA----AATATCT---GA-CTAGCTTTTTAAAAAAAAA-ATAAAATC--GA-CAGAC-TC--A-T--TAGCAAAATCAAATGACT-C------CGTGG-AAAACGAA-GATCATCGATGC-AAAACCAACA-ATCA--TTA---ACGGAAATG-ACGCTAGATGGCGTACA----AAGA--------ACAGACATT--ATCGGAATTAACGCTCGATGACGCATGTA-TCT---TACGTAATTATACAGATTGGGTGCGTAGACATTACGACAACTCGTAACCAAGATATGTTGCACCAAAAGA--AACCCAG--CCTAATTTTCAAAG-ACAGCT------ACTTGT-----ATATGTAAGCC--C--TAATAAACA-----TA--T-----------------ACTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|10                         :                                               AG--AC--GT------T-------CAAAAAAATCCGAACAATTTA--TTCTCAAAA-------C-CAA--TC-CG----------A----AATGC----------------------AAAAA-ACAAACTTAGGA-CAAAA-TC----------CAAAATCAATAGACT-CTAAATCCATTGCAAAACGAATGATCAACAATGC-AAAATCATCG-GTCA--TTA---ACAGAATTG-
gi|11                         :                                                                                                                                                                                 C--AA-CAAAT-TCCGA-C--T-GCAAAATCAGAAGATT-C------CGTCACAAAAC----AATCAACGATAC-AAAAC--ACGAGTCA--TCA-----CGACGTGAACGCTAGATGGCGTGC-----GGGA--------ACAG-CATTGAAT-AAAATTGACG
gi|12                         :                     TGGGCAGC-GGGAAAGAT--GAAAATAG--AC--GT------TA-A--TGCAAAA-----CGAGTAAC--A--TTT--AAAA-A-AAA-----A--TT-AC------TGA-A----AA---------A-CTAGCTT---------AAA-ACCAAATC--AG-CATACTTT--G-T--T-GCAAAA-CTAACGATT-T------C
gi|14                         :               cTTTTATGGGCGGC-GGAAAGGGTT-AAAAAAAGATAT--GT------TA-A--TGCAACT-----CAAACAGTCAA--TTTTCAAAA-GCATACc
gi|15                         :                                                                                                                                                                                                                                                             gAACCAATA-GTCA--TTA---ATAGAATTA-ACGCTAGATGGCGTGCA----AAGA--------ACAGA
gi|16                         :                                                                                                                                                                                                                                                                                                               cgctatA--------ACAGACTTT--CTCGGAATTAACGCTAGATGACGCACA-A-------TACATAA----AC-GATT-GGtgtgaacaatg
gi|17                         :                                                                                                                                                                                                                                                              AACCAATA-GTCA--TTA---ATAGAATTA-ACGCTAGATGGCGTGCA----AAGA--------A
gi|2                          : tGCATACAATATATTTTGTATGGGCGCC-GGAAGAAATA-GAGAAAAG--AC--GT------TC-A--TACCAAA-----CGAACAACTAA--TTTTCAAAA-A-ATATTTCGA--TTTCG------TGATA----AATATCT---GA-CTAGCTTTTTAAAAAAAAA-ATAAAATC--GA-CAGAC-TC--A-T--TAGCAAAATCAAATGACT-C------CGTGG-AAAACGAA-GATCATCGATGC-AAAACCAACA-ATCA--TTA---ACGGAAATG-ACGCTAGATGGCGTACA----AAGA--------ACAGACATT--ATCGGAATTAACGCTCGATGACGCATGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATTACGACAACTCGTAACCAAGATATGTTGCACCAAAAGA--AACCCAG--CCTAA-TTTCAAAG-ACAGCT------ACTTGT-----ATA-GTAAG-C--C--TAATAAACA-----TA--T-------------TA----CACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|3                          :               TTTTTATGGGTGGT-GGAAAGGGTAAGAAAAACG--AC--GT------CA-T--TACAAAA-----CGAACAACCAG--TTCTCAAAC-ACATACT--GAAATA-CA------TGATA----GATA-------A-C-A---TT------AAGA---CAAAGCCC-GA-CAA----C--A------GCAACAT-AGGTAATT-G------CAAAGTAAA-CAAA----CTGCGTTGC-AAATTGAACG-AT------A---ACAGAACTG-ATGCTAAATAATATGCA----AAGA--------ACAGGCATT--AT-GCAATTAACGCTAGATGGCGTATG-A---C---TA-GTCATTA---AGA--------------ATCAAGACAACTCACCACCAAGACTTATCGTCCCTATGGA--AG-CAGGGTCCTCATTTTAAAAGAACAACTCGATCAAC-TATCAAAAATA-ACAAT-CAACAATGATCAATA-----TG--TTATGTATTACATATAGCAGTACATTATGAATGAAAGAAATTC----AAGACAAAATGATATTTTAGTCAAGCTTTTTTCCTTTCAAT-TTCAGCATTAGA
gi|4                          :               atcgTATGGGCGGC-GGAAAGGGTA-AA-AAAAG--AT--GT------TA-A--TGCAAAA-----CGAACAATCAA--TTTTCAAAACC-ATACT---A-----------------A----AATACAAGCTAA-CCAGCTT---------ATA-ATGAAATC--AA-CAGGC-TCCAA-A--T-GCAAAACC-AACGATTGC------CG-------ACG-T-GAT-AT--ATGC-AAAAGCAACG-GTCA--TTA---ACTGAATTG-ACGCTATATGGCGCGCACCCCAACACCCCCTCCCCCGACATC--ATCTGAATTAACGCTAGAGGGCGC---TAGTCTAGCTATATAATCAT
gi|5                          :                                                                                                                                                                        c-ACAAAGCC--AAGTAGAC-TC--A-TATT-GCAAAATCAA--GATT-C------TACTGTTATACGAACGATCACCGATGT-AAAACCAAC----------------------------TAGATGGCGTACA----AAGA--------ACAG-----------GAATAAACGCTAGATTGCGCACGAG-TCT---TA---AA----AC--------TGTATA---ATCAGGACAACTCGCCATCAAGACAAATCCCTCATTGAGAACAATTC--GCCC-----CTGAAAG-ATAACT------AC-----------A-GCA---C--C--TGATGAGCAAATTGTATTT-------------TAGCAGTGTATTATGAATAAA
gi|6                          :                 TTTATGGGTGGC-AGAAAGGATG-GGGAAAAA--ACAAGTACTCTGTACA--TGCAAAA-----CG--------A--TTTTCCAAA-A-AC------------------------------ATAC---------------T------GAAAA-GCAAA------A-CAAAC-------------CAAGA------GACT-C------CGTTGCAAAACCAACGATCACCGATAT-AAAACCAACA-GCCA--TTA---ACCAAATTG-ACGCTAAATGGCGTGCA----AATA--------ACAATTAAT--ATCTGAATTAATGCTAGATGGCGCGC
gi|7                          :                          GGCTGGAAAGGGCA----AAAAG--AC--GT------GA-A--T-CAAAA-----AGAACA--TAAATTTTTCAAA-----TA-T-CAA--T-----------GATATGCAAAAAC-----AAACCACTCTT------AAAAATAC-ACATC--AA-CAGAC-CC----C--C-GC-ATGCCAAAA-----C------C-------AGCGA---ATCATCCATGC-AAAACCAACA-GTCATTTTA---CCCGACT----CACTAGATGGCGTGtagtctatct
gi|8                          :                   gATGGGCAGT-GGAAAAGGTA----AAATG--AT--GT------TA-AAATTCAAAA-----CGAACAACTGA--TTTTCAAAATC-ACAC--CGA--AT-TGAGTGAATGATAT---GATA------GA-TCAGCTC---------AAA-ACAAAATC--AA-CAGGC-TCT-G-T--T-GCAAAATCA--------C------CGACGTAAAACCAA-
gi|9                          :                                                                                                                                                                                     A-TAGAC-TC--AAT--T-GGAAAAGCAATGGATT-T------CGTTGCAAAACAAACGAT----AATGCCAAAACCAGCA-AT-A--TTTTTTACTGAATTG-AAGCTACATGGCGTGCA----A----------------------ATC-GAATTAATGCTAGATGGTGccatca
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|13 ): GTATTCTATAGGTGGTGGAAAGGGTAAATGCAAACGATCAAAAAGTTAGTCAAAAAGCATATAATGAAATACCTGTAGATAAAATCAAGCTAACGATCATCGATACAAAAACATCATAG






Alignments
lowQualScore                  :                                                                                                       11111111111111111111111111111111111111111111111111111111111111                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
lowQualScore                  :                                       11111             111111111111       11111                      55555555555555555555555555555555555555555555555555555555555555                          333333333                111111111111          1                                                                       11111111                                      222222222       22222222222222222222222                                        11     2222  1111        1      444444444444444444444444444444444         888888888888888888888888888                   222               11        1                                   
lowQualScore                  :                  0          4         44444     55  55  222222222222 4     00000        2  55         55555555555555555555555555555555555555555555555555555555555555    4     1  999 3     3  222222222      3   99    333333333333 1     4  8     2      4         66  0 44   555  2   0  3                 8888    33333333    7    66  99                    00 666666666  9    33333333333333333333333    1          1               1  1 1   33  6  8888  2222   1    0      555555555555555555555555555555555    0    222222222222222222222222222 2                 333   7           88        3                      7            
lowQualScore                  :                  .          .         .....     ..  ..  ............ .     .....        .  ..         ..............................................................    .     .  ... .     .  .........      .   ..    ............ .     .  .     .      .         ..  . ..   ...  .   .  .                 ....    ........    .    ..  ..                    .. .........  .    .......................    .          .               .  . .   ..  .  ....  ....   .    .      .................................    .    ........................... .                 ...   .           ..        .                      .            
lowQualScore                  :                  6          4         66666     55  55  666666666666 8     00000        8  55         66666666666666666666666666666666666666666666666666666666666666    0     3  666 3     3  888888888      7   22    888888888888 2     3  2     4      0         88  4 66   888  2   6  3                 5555    22222222    3    11  66                    66 777777777  3    44444444444444444444444    0          0               0  0 2   88  5  2222  5555   0    0      888888888888888888888888888888888    8    000000000000000000000000000 5                 333   3           33        3                      3            
consensus                     :  GCATACAATATATTTTTTATGGGCGGC-GGAAAGGGTA-GAGAAAAG--AC--GT------TA-A--TGCAAAA-----CGAACAACTAA--TTTTCAAAA-A-ATACT-CGA--TT-CG------TGATA----AATAC-----GA-CCAGCTTT------AAAAA-ACAAAATC--GA-CAGAC-TC--A-T--T-GCAAAATCAAANGATT-C------CGTCGCAAAACGAACGATCANCGATGC-AAAACCAACG-GTCA--TTA---ACNGAATTG-ACGCTAGATGGCGTGCA----AAGA--------ACAGACATT--ATCGGAATTAACGCTAGATGGCGCACGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATCANGACAACTCGCNACCAAGACATGTCGCNCCNAAAGA--AACCCGGGCCCTAATTTTNAAAG-ACAGCT------ACTTGT-----ATA-GCAAG-C--C--TGATAAACA-----TA--T-------------TAGCAGTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
Reference ( family-7811 )     :  GCATACAATATATTTTTTATGGGCGGC-GGAAAGGGTA-GAGAAAAG--AC--GT------TA-A--TGCAAAA-----CGAACAACTAA--TTTTCAAAA-A-ATACT-CGA--TT-CG------TGATA----AATAC-----GA-CCAGCTTT------AAAAA-ACAAAATC--GA-CAGAC-TC--A-T--T-GCAAAATCAAANGATT-C------CGTCGCAAAACGAA-GATCANCGATGC-AAAACCAACG-GTCA--TTA---ACNGAATTG-ACGCTAGATGGCGTGCA----AAGA--------ACAGACATT--ATCGGAATTAACGCTAGATGGCGCACGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATCANGACAACTCGCNACCAAGACATGTCGCNCCNAAAGA--AACCCGGGCCCTAATTTTNAAAG-ACAGCT------ACTTGT-----ATA-GCAAG-C--C--TGATAAACA-----TA--T-------------TAGCAGTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|1                          :  GCATACAATATATTTTGTATGGGCGCC-GGAAGAAATA-GAGAAAAG--AC--GT------TC-A--TACCAAA-----CGAACAACTAA--TTTTCAAAA-A-ATATTTCGA--TTTCG------TGATA----AATATCT---GA-CTAGCTTTTTAAAAAAAAA-ATAAAATC--GA-CAGAC-TC--A-T--TAGCAAAATCAAATGACT-C------CGT-GGAAAACGAA-GATCATCGATGC-AAAACCAACA-ATCA--TTA---ACGGAAATG-ACGCTAGATGGCGTACA----AAGA--------ACAGACATT--ATCGGAATTAACGCTCGATGACGCATGTA-TCT---TACGTAATTATACAGATTGGGTGCGTAGACATTACGACAACTCGTAACCAAGATATGTTGCACCAAAAGA--AACCCAG--CCTAATTTTCAAAG-ACAGCT------ACTTGT-----ATATGTAAGCC--C--TAATAAACA-----TA--T-----------------ACTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|10                         :                                               AG--AC--GT------T-------CAAAAAAATCCGAACAATTTA--TTCTCAAAA-------C-CAA--TC-CG----------A----AATGC----------------------AAAAA-ACAAACTTAGGA-CAAAA-TC----------CAAAATCAATAGACT-CTAAATCCATTGCAAAACGAATGATCAACAATGC-AAAATCATCG-GTCA--TTA---ACAGAATTG-
gi|11                         :                                                                                                                                                                                 C--AA-CAAAT-TCCGA-C--T-GCAAAATCAGAAGATT-C------CGTCACAAAAC----AATCAACGATAC-AAAAC--ACGAGTCA--TCA-----CGACGTGAACGCTAGATGGCGTGC-----GGGA--------ACAG-CATTGAAT-AAAATTGACG
gi|12                         :                     TGGGCAGC-GGGAAAGAT--GAAAATAG--AC--GT------TA-A--TGCAAAA-----CGAGTAAC--A--TTT--AAAA-A-AAA-----A--TT-AC------TGA-A----AA---------A-CTAGCTT---------AAA-ACCAAATC--AG-CATACTTT--G-T--T-GCAAAA-CTAACGATT-T------C
gi|14                         :               cTTTTATGGGCGGC-GGAAAGGGTT-AAAAAAAGATAT--GT------TA-A--TGCAACT-----CAAACAGTCAA--TTTTCAAAA-GCATACc
gi|15                         :                                                                                                                                                                                                                                                             gAACCAATA-GTCA--TTA---ATAGAATTA-ACGCTAGATGGCGTGCA----AAGA--------ACAGA
gi|16                         :                                                                                                                                                                                                                                                                                                               cgctatA--------ACAGACTTT--CTCGGAATTAACGCTAGATGACGCACA-A-------TACATAA----AC-GATT-GGtgtgaacaatg
gi|17                         :                                                                                                                                                                                                                                                              AACCAATA-GTCA--TTA---ATAGAATTA-ACGCTAGATGGCGTGCA----AAGA--------A
gi|2                          : tGCATACAATATATTTTGTATGGGCGCC-GGAAGAAATA-GAGAAAAG--AC--GT------TC-A--TACCAAA-----CGAACAACTAA--TTTTCAAAA-A-ATATTTCGA--TTTCG------TGATA----AATATCT---GA-CTAGCTTTTTAAAAAAAAA-ATAAAATC--GA-CAGAC-TC--A-T--TAGCAAAATCAAATGACT-C------CGT-GGAAAACGAA-GATCATCGATGC-AAAACCAACA-ATCA--TTA---ACGGAAATG-ACGCTAGATGGCGTACA----AAGA--------ACAGACATT--ATCGGAATTAACGCTCGATGACGCATGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATTACGACAACTCGTAACCAAGATATGTTGCACCAAAAGA--AACCCAG--CCTAA-TTTCAAAG-ACAGCT------ACTTGT-----ATA-GTAAG-C--C--TAATAAACA-----TA--T-------------TA----CACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|3                          :               TTTTTATGGGTGGT-GGAAAGGGTAAGAAAAACG--AC--GT------CA-T--TACAAAA-----CGAACAACCAG--TTCTCAAAC-ACATACT--GAAATA-CA------TGATA----GATA-------A-C-A---TT------AAGA---CAAAGCCC-GA-CAA----C--A------GCAACAT-AGGTAATT------------GCAAAGTAAACAAACTGCGTTGC-AAATTGAACG-AT------A---ACAGAACTG-ATGCTAAATAATATGCA----AAGA--------ACAGGCATT--AT-GCAATTAACGCTAGATGGCGTATG-A---C---TA-GTCATTA---AGA--------------ATCAAGACAACTCACCACCAAGACTTATCGTCCCTATGGA--AG-CAGGGTCCTCATTTTAAAAGAACAACTCGATCAAC-TATCAAAAATA-ACAAT-CAACAATGATCAATA-----TG--TTATGTATTACATATAGCAGTACATTATGAATGAAAGAAATTC----AAGACAAAATGATATTTTAGTCAAGCTTTTTTCCTTTCAAT-TTCAGCATTAGA
gi|4                          :               atcgTATGGGCGGC-GGAAAGGGTA-AA-AAAAG--AT--GT------TA-A--TGCAAAA-----CGAACAATCAA--TTTTCAAAACC-ATACT---A-----------------A----AATACAAGCTAA-CCAGCTT---------ATA-ATGAAATC--AA-CAGGC-TCCAA-A--T-GCAAAACC-AACGATTGC------CGACGT---------GAT-AT--ATGC-AAAAGCAACG-GTCA--TTA---ACTGAATTG-ACGCTATATGGCGCGCACCCCAACACCCCCTCCCCCGACATC--ATCTGAATTAACGCTAGAGGGCGC---TAGTCTAGCTATATAATCAT
gi|5                          :                                                                                                                                                                        c-ACAAAGCC--AAGTAGAC-TC--A-TATT-GCAAAATCAA--GATT-C------TACTGTTATACGAACGATCACCGATGT-AAAACCAAC----------------------------TAGATGGCGTACA----AAGA--------ACAG-----------GAATAAACGCTAGATTGCGCACGAG-TCT---TA---AA----AC--------TGTATA---ATCAGGACAACTCGCCATCAAGACAAATCCCTCATTGAGAACAATTC--GCCC-----CTGAAAG-ATAACT------AC-----------A-GCA---C--C--TGATGAGCAAATTGTATTT-------------TAGCAGTGTATTATGAATAAA
gi|6                          :                 TTTATGGGTGGC-AGAAAGGATG-GGGAAAAA--ACAAGTACTCTGTACA--TGCAAAA-----CG--------A--TTTTCCAAA-A-AC------------------------------ATAC---------------T------GAAAA-GCAAA------A-CAAAC-------------CAAGA------GACT-C------CGTTGCAAAACCAACGATCACCGATAT-AAAACCAACA-GCCA--TTA---ACCAAATTG-ACGCTAAATGGCGTGCA----AATA--------ACAATTAAT--ATCTGAATTAATGCTAGATGGCGCGC
gi|7                          :                          GGCTGGAAAGGGCA----AAAAG--AC--GT------GA-A--T-CAAAA-----AGAACA--TAAATTTTTCAAA-----TA-T-CAA--T-----------GATATGCAAAAAC-----AAACCACTCTT------AAAAATAC-ACATC--AA-CAGAC-CC----C--C-GC-ATGCCAAAA-----C------C-------AGCGA---ATCATCCATGC-AAAACCAACA-GTCATTTTA---CCCGACT----CACTAGATGGCGTGtagtctatct
gi|8                          :                   gATGGGCAGT-GGAAAAGGTA----AAATG--AT--GT------TA-AAATTCAAAA-----CGAACAACTGA--TTTTCAAAATC-ACAC--CGA--AT-TGAGTGAATGATAT---GATA------GA-TCAGCTC---------AAA-ACAAAATC--AA-CAGGC-TCT-G-T--T-GCAAAATCA--------C------CGACGTAAAACCAA-
gi|9                          :                                                                                                                                                                                     A-TAGAC-TC--AAT--T-GGAAAAGCAATGGATT-T------CGTTGCAAAACAAACGAT----AATGCCAAAACCAGCA-AT-A--TTTTTTACTGAATTG-AAGCTACATGGCGTGCA----A----------------------ATC-GAATTAATGCTAGATGGTGccatca
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|13 ): GTATTCTATAGGTGGTGGAAAGGGTAAATGCAAACGATCAAAAAGTTAGTCAAAAAGCATATAATGAAATACCTGTAGATAAAATCAAGCTAACGATCATCGATACAAAAACATCATAG






Alignments
lowQualScore                  :                                                                                                       11111111111111111111111111111111111111111111111111111111111111                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
lowQualScore                  :                                       11111             111111111111       11111                      55555555555555555555555555555555555555555555555555555555555555                          333333333      111111    1111111111111                                      111                                      11111111                                      222222222       22222222222222222222222                                        11     2222  1111        1      444444444444444444444444444444444         888888888888888888888888888                   222               11        1                                   
lowQualScore                  :                  0          4         44444     55  55  222222222222 4     00000        2  55         55555555555555555555555555555555555555555555555555555555555555    4     1  999 3     3  222222222      777777    3333333333333     2  2 3    2     4          44  0 000     2   0  3                 8888    33333333    4    66  66                    00 666666666  9    33333333333333333333333    1          1               1  1 1   33  6  8888  2222   1    0      555555555555555555555555555555555    0    222222222222222222222222222 2                 333   7           88        3                      7            
lowQualScore                  :                  .          .         .....     ..  ..  ............ .     .....        .  ..         ..............................................................    .     .  ... .     .  .........      ......    .............     .  . .    .     .          ..  . ...     .   .  .                 ....    ........    .    ..  ..                    .. .........  .    .......................    .          .               .  . .   ..  .  ....  ....   .    .      .................................    .    ........................... .                 ...   .           ..        .                      .            
lowQualScore                  :                  6          4         66666     55  55  666666666666 8     00000        8  55         66666666666666666666666666666666666666666666666666666666666666    0     3  666 3     3  888888888      999999    3333333333333     0  0 6    4     0          88  4 444     2   6  3                 5555    22222222    8    11  88                    66 777777777  3    44444444444444444444444    0          0               0  0 2   88  5  2222  5555   0    0      888888888888888888888888888888888    8    000000000000000000000000000 5                 333   3           33        3                      3            
consensus                     :  GCATACAATATATTTTTTATGGGCGGC-GGAAAGGGTA-GAGAAAAG--AC--GT------TA-A--TGCAAAA-----CGAACAACTAA--TTTTCAAAA-A-ATACT-CGA--TT-CG------TGATA----AATAC-----GA-CCAGCTTT------AAAAA-ACAAAATC--GA-CAGAC-TC--A-T--T-GCAAAATCAAA-GATTC------CGTCGCAAAACGAACG-ATCANCGATG-CAAAACCAACG-GTCA---TTAACNGAATTG-ACGCTAGATGGCGTGCA----AAGA--------ACAGACATT--ATCGGAATTAACGCTAGATGGCGCACGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATCANGACAACTCGCNACCAAGACATGTCGCNCCNAAAGA--AACCCGGGCCCTAATTTTNAAAG-ACAGCT------ACTTGT-----ATA-GCAAG-C--C--TGATAAACA-----TA--T-------------TAGCAGTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
Reference ( family-7811 )     :  GCATACAATATATTTTTTATGGGCGGC-GGAAAGGGTA-GAGAAAAG--AC--GT------TA-A--TGCAAAA-----CGAACAACTAA--TTTTCAAAA-A-ATACT-CGA--TT-CG------TGATA----AATAC-----GA-CCAGCTTT------AAAAA-ACAAAATC--GA-CAGAC-TC--A-T--T-GCAAAATCAAANGATTC------CGTCGCAAAACGAACG-ATCANCGATG-CAAAACCAACG-GTCA---TTAACNGAATTG-ACGCTAGATGGCGTGCA----AAGA--------ACAGACATT--ATCGGAATTAACGCTAGATGGCGCACGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATCANGACAACTCGCNACCAAGACATGTCGCNCCNAAAGA--AACCCGGGCCCTAATTTTNAAAG-ACAGCT------ACTTGT-----ATA-GCAAG-C--C--TGATAAACA-----TA--T-------------TAGCAGTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|1                          :  GCATACAATATATTTTGTATGGGCGCC-GGAAGAAATA-GAGAAAAG--AC--GT------TC-A--TACCAAA-----CGAACAACTAA--TTTTCAAAA-A-ATATTTCGA--TTTCG------TGATA----AATATCT---GA-CTAGCTTTTTAAAAAAAAA-ATAAAATC--GA-CAGAC-TC--A-T--TAGCAAAATCAAATGACTC------CGTGG-AAAACGAA-G-ATCATCGATG-CAAAACCAACA-ATCA---TTAACGGAAATG-ACGCTAGATGGCGTACA----AAGA--------ACAGACATT--ATCGGAATTAACGCTCGATGACGCATGTA-TCT---TACGTAATTATACAGATTGGGTGCGTAGACATTACGACAACTCGTAACCAAGATATGTTGCACCAAAAGA--AACCCAG--CCTAATTTTCAAAG-ACAGCT------ACTTGT-----ATATGTAAGCC--C--TAATAAACA-----TA--T-----------------ACTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|10                         :                                               AG--AC--GT------T-------CAAAAAAATCCGAACAATTTA--TTCTCAAAA-------C-CAA--TC-CG----------A----AATGC----------------------AAAAA-ACAAACTTAGGA-CAAAA-TC----------CAAAATCAATAGACTCTAAATCCATTGCAAAACGAATG-ATCAACAATG-CAAAATCATCG-GTCA---TTAACAGAATTG-
gi|11                         :                                                                                                                                                                                 C--AA-CAAAT-TCCGA-C--T-GCAAAATCAGAAGATTC------CGTCACAA----AACA-ATCAACGATA-CAAAAC--ACGAGTCA---TCA--CGACGTGAACGCTAGATGGCGTGC-----GGGA--------ACAG-CATTGAAT-AAAATTGACG
gi|12                         :                     TGGGCAGC-GGGAAAGAT--GAAAATAG--AC--GT------TA-A--TGCAAAA-----CGAGTAAC--A--TTT--AAAA-A-AAA-----A--TT-AC------TGA-A----AA---------A-CTAGCTT---------AAA-ACCAAATC--AG-CATACTTT--G-T--T-GCAAAA-CTAACGATTT------C
gi|14                         :               cTTTTATGGGCGGC-GGAAAGGGTT-AAAAAAAGATAT--GT------TA-A--TGCAACT-----CAAACAGTCAA--TTTTCAAAA-GCATACc
gi|15                         :                                                                                                                                                                                                                                                             gAACCAATA-GTCA---TTAATAGAATTA-ACGCTAGATGGCGTGCA----AAGA--------ACAGA
gi|16                         :                                                                                                                                                                                                                                                                                                             cgctatA--------ACAGACTTT--CTCGGAATTAACGCTAGATGACGCACA-A-------TACATAA----AC-GATT-GGtgtgaacaatg
gi|17                         :                                                                                                                                                                                                                                                              AACCAATA-GTCA---TTAATAGAATTA-ACGCTAGATGGCGTGCA----AAGA--------A
gi|2                          : tGCATACAATATATTTTGTATGGGCGCC-GGAAGAAATA-GAGAAAAG--AC--GT------TC-A--TACCAAA-----CGAACAACTAA--TTTTCAAAA-A-ATATTTCGA--TTTCG------TGATA----AATATCT---GA-CTAGCTTTTTAAAAAAAAA-ATAAAATC--GA-CAGAC-TC--A-T--TAGCAAAATCAAATGACTC------CGTGG-AAAACGAA-G-ATCATCGATG-CAAAACCAACA-ATCA---TTAACGGAAATG-ACGCTAGATGGCGTACA----AAGA--------ACAGACATT--ATCGGAATTAACGCTCGATGACGCATGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATTACGACAACTCGTAACCAAGATATGTTGCACCAAAAGA--AACCCAG--CCTAA-TTTCAAAG-ACAGCT------ACTTGT-----ATA-GTAAG-C--C--TAATAAACA-----TA--T-------------TA----CACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|3                          :               TTTTTATGGGTGGT-GGAAAGGGTAAGAAAAACG--AC--GT------CA-T--TACAAAA-----CGAACAACCAG--TTCTCAAAC-ACATACT--GAAATA-CA------TGATA----GATA-------A-C-A---TT------AAGA---CAAAGCCC-GA-CAA----C--A------GCAACAT-AGGTAATT-----------GCAAAGTAAACA-AACTGCGTTG-CAAATTGAACG-AT-------AACAGAACTG-ATGCTAAATAATATGCA----AAGA--------ACAGGCATT--AT-GCAATTAACGCTAGATGGCGTATG-A---C---TA-GTCATTA---AGA--------------ATCAAGACAACTCACCACCAAGACTTATCGTCCCTATGGA--AG-CAGGGTCCTCATTTTAAAAGAACAACTCGATCAAC-TATCAAAAATA-ACAAT-CAACAATGATCAATA-----TG--TTATGTATTACATATAGCAGTACATTATGAATGAAAGAAATTC----AAGACAAAATGATATTTTAGTCAAGCTTTTTTCCTTTCAAT-TTCAGCATTAGA
gi|4                          :               atcgTATGGGCGGC-GGAAAGGGTA-AA-AAAAG--AT--GT------TA-A--TGCAAAA-----CGAACAATCAA--TTTTCAAAACC-ATACT---A-----------------A----AATACAAGCTAA-CCAGCTT---------ATA-ATGAAATC--AA-CAGGC-TCCAA-A--T-GCAAAACC-AACGATT--------GCCG----ACG--TG-AT-AT--ATG-CAAAAGCAACG-GTCA---TTAACTGAATTG-ACGCTATATGGCGCGCACCCCAACACCCCCTCCCCCGACATC--ATCTGAATTAACGCTAGAGGGCGC---TAGTCTAGCTATATAATCAT
gi|5                          :                                                                                                                                                                        c-ACAAAGCC--AAGTAGAC-TC--A-TATT-GCAAAATCAA--GATTC------TACTGTTATACGAACG-ATCACCGATG-TAAAACCAA--------------------------CTAGATGGCGTACA----AAGA--------ACA-----------GGAATAAACGCTAGATTGCGCACGAG-TCT---TA---AA----AC--------TGTATA---ATCAGGACAACTCGCCATCAAGACAAATCCCTCATTGAGAACAATTC--GCCC-----CTGAAAG-ATAACT------AC-----------A-GCA---C--C--TGATGAGCAAATTGTATTT-------------TAGCAGTGTATTATGAATAAA
gi|6                          :                 TTTATGGGTGGC-AGAAAGGATG-GGGAAAAA--ACAAGTACTCTGTACA--TGCAAAA-----CG--------A--TTTTCCAAA-A-AC------------------------------ATAC---------------T------GAAAA-GCAAA------A-CAAAC-------------CAAGA------GACTC------CGTTGCAAAACCAACG-ATCACCGATA-TAAAACCAACA-GCCA---TTAACCAAATTG-ACGCTAAATGGCGTGCA----AATA--------ACAATTAAT--ATCTGAATTAATGCTAGATGGCGCGC
gi|7                          :                          GGCTGGAAAGGGCA----AAAAG--AC--GT------GA-A--T-CAAAA-----AGAACA--TAAATTTTTCAAA-----TA-T-CAA--T-----------GATATGCAAAAAC-----AAACCACTCTT------AAAAATAC-ACATC--AA-CAGAC-CC----C--C-GC-----------ATGC-----------CAAAACCAGCGAATCATCCATG-CAAAACCAACA-GTCATT-TTACCCGACT----CACTAGATGGCGTGtagtctatct
gi|8                          :                   gATGGGCAGT-GGAAAAGGTA----AAATG--AT--GT------TA-AAATTCAAAA-----CGAACAACTGA--TTTTCAAAATC-ACAC--CGA--AT-TGAGTGAATGATAT---GATA------GA-TCAGCTC---------AAA-ACAAAATC--AA-CAGGC-TCT-G-T--T-GCAAAATCA-------C------CGACGTAAAACCAACC-ATCA
gi|9                          :                                                                                                                                                                                     A-TAGAC-TC--AAT--T-GGAAAAGCAATGGATTT------CGTTGCAAAACAAACG-AT----AATGCCAAAACCAGCA-AT-ATTTTTTACTGAATTG-AAGCTACATGGCGTGCA----A----------------------ATC-GAATTAATGCTAGATGGTG
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|13 ): GTATTCTATAGGTGGTGGAAAGGGTAAATGCAAACGATCAAAAAGTTAGTCAAAAAGCATATAATGAAATACCTGTAGATAAAATCAAGCTAACGATCATCGATACAAAAACATCATAG






Alignments
lowQualScore                  :                                                                                                       11111111111111111111111111111111111111111111111111111111111111                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
lowQualScore                  :                                       11111             111111111111       11111                      55555555555555555555555555555555555555555555555555555555555555                          333333333         22222     1111111111                                                                                   11111111                                      222222222       22222222222222222222222                                        11     2222  1111        1      444444444444444444444444444444444         888888888888888888888888888                   222               11        1                                   
lowQualScore                  :                  0          4         44444     55  55  222222222222 4     00000        2  55         55555555555555555555555555555555555555555555555555555555555555    4     1  999 3     3  222222222      1  44444     2222222222 2     2  2 3    2      4         44  0 44   555  2   0  3                 8888    33333333    4    66  66                    00 666666666  9    33333333333333333333333    1          1               1  1 1   33  6  8888  2222   1    0      555555555555555555555555555555555    0    222222222222222222222222222 2                 333   7           88        3                      7            
lowQualScore                  :                  .          .         .....     ..  ..  ............ .     .....        .  ..         ..............................................................    .     .  ... .     .  .........      .  .....     .......... .     .  . .    .      .         ..  . ..   ...  .   .  .                 ....    ........    .    ..  ..                    .. .........  .    .......................    .          .               .  . .   ..  .  ....  ....   .    .      .................................    .    ........................... .                 ...   .           ..        .                      .            
lowQualScore                  :                  6          4         66666     55  55  666666666666 8     00000        8  55         66666666666666666666666666666666666666666666666666666666666666    0     3  666 3     3  888888888      6  11111     8888888888 0     0  0 6    4      0         88  4 66   888  2   6  3                 5555    22222222    8    11  88                    66 777777777  3    44444444444444444444444    0          0               0  0 2   88  5  2222  5555   0    0      888888888888888888888888888888888    8    000000000000000000000000000 5                 333   3           33        3                      3            
consensus                     :  GCATACAATATATTTTTTATGGGCGGC-GGAAAGGGTA-GAGAAAAG--AC--GT------TA-A--TGCAAAA-----CGAACAACTAA--TTTTCAAAA-A-ATACT-CGA--TT-CG------TGATA----AATAC-----GA-CCAGCTTT------AAAAA-ACAAAATC--GA-CAGAC-TC--A-T--T-GCAAAATCA-A-A-GATTC------CGTCGCAAAACGAACG-ATCANCGATGC-AAAACCAACG-GTCA--TTA---ACNGAATTG-ACGCTAGATGGCGTGCA----AAGA--------ACAGACATT--ATCGGAATTAACGCTAGATGGCGCACGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATCANGACAACTCGCNACCAAGACATGTCGCNCCNAAAGA--AACCCGGGCCCTAATTTTNAAAG-ACAGCT------ACTTGT-----ATA-GCAAG-C--C--TGATAAACA-----TA--T-------------TAGCAGTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
Reference ( family-7811 )     :  GCATACAATATATTTTTTATGGGCGGC-GGAAAGGGTA-GAGAAAAG--AC--GT------TA-A--TGCAAAA-----CGAACAACTAA--TTTTCAAAA-A-ATACT-CGA--TT-CG------TGATA----AATAC-----GA-CCAGCTTT------AAAAA-ACAAAATC--GA-CAGAC-TC--A-T--T-GCAAAATCA-A-A-GATTC------CGTCGCAAAACGAACG-ATCANCGATGC-AAAACCAACG-GTCA--TTA---ACNGAATTG-ACGCTAGATGGCGTGCA----AAGA--------ACAGACATT--ATCGGAATTAACGCTAGATGGCGCACGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATCANGACAACTCGCNACCAAGACATGTCGCNCCNAAAGA--AACCCGGGCCCTAATTTTNAAAG-ACAGCT------ACTTGT-----ATA-GCAAG-C--C--TGATAAACA-----TA--T-------------TAGCAGTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|1                          :  GCATACAATATATTTTGTATGGGCGCC-GGAAGAAATA-GAGAAAAG--AC--GT------TC-A--TACCAAA-----CGAACAACTAA--TTTTCAAAA-A-ATATTTCGA--TTTCG------TGATA----AATATCT---GA-CTAGCTTTTTAAAAAAAAA-ATAAAATC--GA-CAGAC-TC--A-T--TAGCAAAATCA-A-ATGACTC------CGT-GGAAAACGAA-G-ATCATCGATGC-AAAACCAACA-ATCA--TTA---ACGGAAATG-ACGCTAGATGGCGTACA----AAGA--------ACAGACATT--ATCGGAATTAACGCTCGATGACGCATGTA-TCT---TACGTAATTATACAGATTGGGTGCGTAGACATTACGACAACTCGTAACCAAGATATGTTGCACCAAAAGA--AACCCAG--CCTAATTTTCAAAG-ACAGCT------ACTTGT-----ATATGTAAGCC--C--TAATAAACA-----TA--T-----------------ACTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|10                         :                                               AG--AC--GT------T-------CAAAAAAATCCGAACAATTTA--TTCTCAAAA-------C-CAA--TC-CG----------A----AATGC----------------------AAAAA-ACAAACTTAGGA-CAAAA-TC----------CAAAATCA-ATA-GACTCTAAATCCATTGCAAAACGAATG-ATCAACAATGC-AAAATCATCG-GTCA--TTA---ACAGAATTG-
gi|11                         :                                                                                                                                                                                 C--AA-CAAAT-TCCGA-C--T-GCAAAATCAGA-A-GATTC------CGTCACAA----AACA-ATCAACGATAC-AAAAC--ACGAGTCA--TCA-----CGACGTGAACGCTAGATGGCGTGC-----GGGA--------ACAG-CATTGAAT-AAAATTGACG
gi|12                         :                     TGGGCAGC-GGGAAAGAT--GAAAATAG--AC--GT------TA-A--TGCAAAA-----CGAGTAAC--A--TTT--AAAA-A-AAA-----A--TT-AC------TGA-A----AA---------A-CTAGCTT---------AAA-ACCAAATC--AG-CATACTTT--G-T--T-GCAAAACTA-A-C-GATTT------C
gi|14                         :               cTTTTATGGGCGGC-GGAAAGGGTT-AAAAAAAGATAT--GT------TA-A--TGCAACT-----CAAACAGTCAA--TTTTCAAAA-GCATACc
gi|15                         :                                                                                                                                                                                                                                                               gAACCAATA-GTCA--TTA---ATAGAATTA-ACGCTAGATGGCGTGCA----AAGA--------ACAGA
gi|16                         :                                                                                                                                                                                                                                                                                                                 cgctatA--------ACAGACTTT--CTCGGAATTAACGCTAGATGACGCACA-A-------TACATAA----AC-GATT-GGtgtgaacaatg
gi|17                         :                                                                                                                                                                                                                                                                AACCAATA-GTCA--TTA---ATAGAATTA-ACGCTAGATGGCGTGCA----AAGA--------A
gi|2                          : tGCATACAATATATTTTGTATGGGCGCC-GGAAGAAATA-GAGAAAAG--AC--GT------TC-A--TACCAAA-----CGAACAACTAA--TTTTCAAAA-A-ATATTTCGA--TTTCG------TGATA----AATATCT---GA-CTAGCTTTTTAAAAAAAAA-ATAAAATC--GA-CAGAC-TC--A-T--TAGCAAAATCA-A-ATGACTC------CGT-GGAAAACGAA-G-ATCATCGATGC-AAAACCAACA-ATCA--TTA---ACGGAAATG-ACGCTAGATGGCGTACA----AAGA--------ACAGACATT--ATCGGAATTAACGCTCGATGACGCATGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATTACGACAACTCGTAACCAAGATATGTTGCACCAAAAGA--AACCCAG--CCTAA-TTTCAAAG-ACAGCT------ACTTGT-----ATA-GTAAG-C--C--TAATAAACA-----TA--T-------------TA----CACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|3                          :               TTTTTATGGGTGGT-GGAAAGGGTAAGAAAAACG--AC--GT------CA-T--TACAAAA-----CGAACAACCAG--TTCTCAAAC-ACATACT--GAAATA-CA------TGATA----GATA-------A-C-A---TT------AAGA---CAAAGCCC-GA-CAA----C--A------GCAACAT-----A-GGT--------AATTGCAAAGTAAACA-AACTGCGTTGC-AAATTGAACG-AT------A---ACAGAACTG-ATGCTAAATAATATGCA----AAGA--------ACAGGCATT--AT-GCAATTAACGCTAGATGGCGTATG-A---C---TA-GTCATTA---AGA--------------ATCAAGACAACTCACCACCAAGACTTATCGTCCCTATGGA--AG-CAGGGTCCTCATTTTAAAAGAACAACTCGATCAAC-TATCAAAAATA-ACAAT-CAACAATGATCAATA-----TG--TTATGTATTACATATAGCAGTACATTATGAATGAAAGAAATTC----AAGACAAAATGATATTTTAGTCAAGCTTTTTTCCTTTCAAT-TTCAGCATTAGA
gi|4                          :               atcgTATGGGCGGC-GGAAAGGGTA-AA-AAAAG--AT--GT------TA-A--TGCAAAA-----CGAACAATCAA--TTTTCAAAACC-ATACT---A-----------------A----AATACAAGCTAA-CCAGCTT---------ATA-ATGAAATC--AA-CAGGC-TCCAA-A--T-GCAAAACCA-A-C-GATT--------GCCG----ACG--TG-AT-AT--ATGC-AAAAGCAACG-GTCA--TTA---ACTGAATTG-ACGCTATATGGCGCGCACCCCAACACCCCCTCCCCCGACATC--ATCTGAATTAACGCTAGAGGGCGC---TAGTCTAGCTATATAATCAT
gi|5                          :                                                                                                                                                                        c-ACAAAGCC--AAGTAGAC-TC--A-TATT-GCAAAATCA-A---GATTC------TACTGTTATACGAACG-ATCACCGATGT-AAAACCAA----------------------------CTAGATGGCGTACA----AAGA--------ACA-----------GGAATAAACGCTAGATTGCGCACGAG-TCT---TA---AA----AC--------TGTATA---ATCAGGACAACTCGCCATCAAGACAAATCCCTCATTGAGAACAATTC--GCCC-----CTGAAAG-ATAACT------AC-----------A-GCA---C--C--TGATGAGCAAATTGTATTT-------------TAGCAGTGTATTATGAATAAA
gi|6                          :                 TTTATGGGTGGC-AGAAAGGATG-GGGAAAAA--ACAAGTACTCTGTACA--TGCAAAA-----CG--------A--TTTTCCAAA-A-AC------------------------------ATAC---------------T------GAAAA-GCAAA------A-CAAAC-------------CAAGA--------GACTC------CGTTGCAAAACCAACG-ATCACCGATAT-AAAACCAACA-GCCA--TTA---ACCAAATTG-ACGCTAAATGGCGTGCA----AATA--------ACAATTAAT--ATCTGAATTAATGCTAGATGGCGCGC
gi|7                          :                          GGCTGGAAAGGGCA----AAAAG--AC--GT------GA-A--T-CAAAA-----AGAACA--TAAATTTTTCAAA-----TA-T-CAA--T-----------GATATGCAAAAAC-----AAACCACTCTT------AAAAATAC-ACATC--AA-CAGAC-CC----C--C-GC-------------ATGC-----------CAAAACCAGCGAATCATCCATGC-AAAACCAACA-GTCATTTTA---CCCGACT----CACTAGATGGCGTGtagtctatct
gi|8                          :                   gATGGGCAGT-GGAAAAGGTA----AAATG--AT--GT------TA-AAATTCAAAA-----CGAACAACTGA--TTTTCAAAATC-ACAC--CGA--AT-TGAGTGAATGATAT---GATA------GA-TCAGCTC---------AAA-ACAAAATC--AA-CAGGC-TCT-G-T--T-GCAAAATCA---------C------CGACGTAAAACCAACC-ATCA
gi|9                          :                                                                                                                                                                                     A-TAGAC-TC--AAT--T-GGAAAAGCA-ATG-GATTT------CGTTGCAAAACAAACG-AT----AATGCCAAAACCAGCA-AT-A--TTTTTTACTGAATTG-AAGCTACATGGCGTGCA----A----------------------ATC-GAATTAATGCTAGATGGTG
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|13 ): GTATTCTATAGGTGGTGGAAAGGGTAAATGCAAACGATCAAAAAGTTAGTCAAAAAGCATATAATGAAATACCTGTAGATAAAATCAAGCTAACGATCATCGATACAAAAACATCATAG






Alignments
lowQualScore                  :                                                                                                       11111111111111111111111111111111111111111111111111111111111111                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
lowQualScore                  :                                       11111             111111111111       11111                      55555555555555555555555555555555555555555555555555555555555555                          333333333         22222     1111111111                                                                                   11111111                                      222222222       22222222222222222222222                                        11     2222  1111        1      444444444444444444444444444444444         888888888888888888888888888                   222               11        1                                   
lowQualScore                  :                  0          4         44444     55  55  222222222222 4     00000        2  55         55555555555555555555555555555555555555555555555555555555555555    4     1  999 3     3  222222222      1  44444     2222222222 2     2  2 3    2      4         44  0 44   555  2   0  3                 8888    33333333    4    66  66                    00 666666666  9    33333333333333333333333    1          1               1  1 1   33  6  8888  2222   1    0      555555555555555555555555555555555    0    222222222222222222222222222 2                 333   7           88        3                      7            
lowQualScore                  :                  .          .         .....     ..  ..  ............ .     .....        .  ..         ..............................................................    .     .  ... .     .  .........      .  .....     .......... .     .  . .    .      .         ..  . ..   ...  .   .  .                 ....    ........    .    ..  ..                    .. .........  .    .......................    .          .               .  . .   ..  .  ....  ....   .    .      .................................    .    ........................... .                 ...   .           ..        .                      .            
lowQualScore                  :                  6          4         66666     55  55  666666666666 8     00000        8  55         66666666666666666666666666666666666666666666666666666666666666    0     3  666 3     3  888888888      6  11111     8888888888 0     0  0 6    4      0         88  4 66   888  2   6  3                 5555    22222222    8    11  88                    66 777777777  3    44444444444444444444444    0          0               0  0 2   88  5  2222  5555   0    0      888888888888888888888888888888888    8    000000000000000000000000000 5                 333   3           33        3                      3            
consensus                     :  GCATACAATATATTTTTTATGGGCGGC-GGAAAGGGTA-GAGAAAAG--AC--GT------TA-A--TGCAAAA-----CGAACAACTAA--TTTTCAAAA-A-ATACT-CGA--TT-CG------TGATA----AATAC-----GA-CCAGCTTT------AAAAA-ACAAAATC--GA-CAGAC-TC--A-T--T-GCAAAATCA-A-A-GATTC------CGTCGCAAAACGAACG-ATCANCGATGC-AAAACCAACG-GTCA--TTA---ACNGAATTG-ACGCTAGATGGCGTGCA----AAGA--------ACAGACATT--ATCGGAATTAACGCTAGATGGCGCACGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATCANGACAACTCGCNACCAAGACATGTCGCNCCNAAAGA--AACCCGGGCCCTAATTTTNAAAG-ACAGCT------ACTTGT-----ATA-GCAAG-C--C--TGATAAACA-----TA--T-------------TAGCAGTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
Reference ( family-7811 )     :  GCATACAATATATTTTTTATGGGCGGC-GGAAAGGGTA-GAGAAAAG--AC--GT------TA-A--TGCAAAA-----CGAACAACTAA--TTTTCAAAA-A-ATACT-CGA--TT-CG------TGATA----AATAC-----GA-CCAGCTTT------AAAAA-ACAAAATC--GA-CAGAC-TC--A-T--T-GCAAAATCA-A-A-GATTC------CGTCGCAAAACGAACG-ATCANCGATGC-AAAACCAACG-GTCA--TTA---ACNGAATTG-ACGCTAGATGGCGTGCA----AAGA--------ACAGACATT--ATCGGAATTAACGCTAGATGGCGCACGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATCANGACAACTCGCNACCAAGACATGTCGCNCCNAAAGA--AACCCGGGCCCTAATTTTNAAAG-ACAGCT------ACTTGT-----ATA-GCAAG-C--C--TGATAAACA-----TA--T-------------TAGCAGTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|1                          :  GCATACAATATATTTTGTATGGGCGCC-GGAAGAAATA-GAGAAAAG--AC--GT------TC-A--TACCAAA-----CGAACAACTAA--TTTTCAAAA-A-ATATTTCGA--TTTCG------TGATA----AATATCT---GA-CTAGCTTTTTAAAAAAAAA-ATAAAATC--GA-CAGAC-TC--A-T--TAGCAAAATCA-A-ATGACTC------CGT-GGAAAACGAA-G-ATCATCGATGC-AAAACCAACA-ATCA--TTA---ACGGAAATG-ACGCTAGATGGCGTACA----AAGA--------ACAGACATT--ATCGGAATTAACGCTCGATGACGCATGTA-TCT---TACGTAATTATACAGATTGGGTGCGTAGACATTACGACAACTCGTAACCAAGATATGTTGCACCAAAAGA--AACCCAG--CCTAATTTTCAAAG-ACAGCT------ACTTGT-----ATATGTAAGCC--C--TAATAAACA-----TA--T-----------------ACTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|10                         :                                               AG--AC--GT------T-------CAAAAAAATCCGAACAATTTA--TTCTCAAAA-------C-CAA--TC-CG----------A----AATGC----------------------AAAAA-ACAAACTTAGGA-CAAAA-TC----------CAAAATCA-ATA-GACTCTAAATCCATTGCAAAACGAATG-ATCAACAATGC-AAAATCATCG-GTCA--TTA---ACAGAATTG-
gi|11                         :                                                                                                                                                                                 C--AA-CAAAT-TCCGA-C--T-GCAAAATCAGA-A-GATTC------CGTCACAA----AACA-ATCAACGATAC-AAAAC--ACGAGTCA--TCA-----CGACGTGAACGCTAGATGGCGTGC-----GGGA--------ACAG-CATTGAAT-AAAATTGACG
gi|12                         :                     TGGGCAGC-GGGAAAGAT--GAAAATAG--AC--GT------TA-A--TGCAAAA-----CGAGTAAC--A--TTT--AAAA-A-AAA-----A--TT-AC------TGA-A----AA---------A-CTAGCTT---------AAA-ACCAAATC--AG-CATACTTT--G-T--T-GCAAAACTA-A-C-GATTT------C
gi|14                         :               cTTTTATGGGCGGC-GGAAAGGGTT-AAAAAAAGATAT--GT------TA-A--TGCAACT-----CAAACAGTCAA--TTTTCAAAA-GCATACc
gi|15                         :                                                                                                                                                                                                                                                               gAACCAATA-GTCA--TTA---ATAGAATTA-ACGCTAGATGGCGTGCA----AAGA--------ACAGA
gi|16                         :                                                                                                                                                                                                                                                                                                                 cgctatA--------ACAGACTTT--CTCGGAATTAACGCTAGATGACGCACA-A-------TACATAA----AC-GATT-GGtgtgaacaatg
gi|17                         :                                                                                                                                                                                                                                                                AACCAATA-GTCA--TTA---ATAGAATTA-ACGCTAGATGGCGTGCA----AAGA--------A
gi|2                          : tGCATACAATATATTTTGTATGGGCGCC-GGAAGAAATA-GAGAAAAG--AC--GT------TC-A--TACCAAA-----CGAACAACTAA--TTTTCAAAA-A-ATATTTCGA--TTTCG------TGATA----AATATCT---GA-CTAGCTTTTTAAAAAAAAA-ATAAAATC--GA-CAGAC-TC--A-T--TAGCAAAATCA-A-ATGACTC------CGT-GGAAAACGAA-G-ATCATCGATGC-AAAACCAACA-ATCA--TTA---ACGGAAATG-ACGCTAGATGGCGTACA----AAGA--------ACAGACATT--ATCGGAATTAACGCTCGATGACGCATGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATTACGACAACTCGTAACCAAGATATGTTGCACCAAAAGA--AACCCAG--CCTAA-TTTCAAAG-ACAGCT------ACTTGT-----ATA-GTAAG-C--C--TAATAAACA-----TA--T-------------TA----CACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|3                          :               TTTTTATGGGTGGT-GGAAAGGGTAAGAAAAACG--AC--GT------CA-T--TACAAAA-----CGAACAACCAG--TTCTCAAAC-ACATACT--GAAATA-CA------TGATA----GATA-------A-C-A---TT------AAGA---CAAAGCCC-GA-CAA----C--A------GCAACAT-----A-GGT--------AATTGCAAAGTAAACA-AACTGCGTTGC-AAATTGAACG-AT------A---ACAGAACTG-ATGCTAAATAATATGCA----AAGA--------ACAGGCATT--AT-GCAATTAACGCTAGATGGCGTATG-A---C---TA-GTCATTA---AGA--------------ATCAAGACAACTCACCACCAAGACTTATCGTCCCTATGGA--AG-CAGGGTCCTCATTTTAAAAGAACAACTCGATCAAC-TATCAAAAATA-ACAAT-CAACAATGATCAATA-----TG--TTATGTATTACATATAGCAGTACATTATGAATGAAAGAAATTC----AAGACAAAATGATATTTTAGTCAAGCTTTTTTCCTTTCAAT-TTCAGCATTAGA
gi|4                          :               atcgTATGGGCGGC-GGAAAGGGTA-AA-AAAAG--AT--GT------TA-A--TGCAAAA-----CGAACAATCAA--TTTTCAAAACC-ATACT---A-----------------A----AATACAAGCTAA-CCAGCTT---------ATA-ATGAAATC--AA-CAGGC-TCCAA-A--T-GCAAAACCA-A-C-GATT--------GCCG----ACG--TG-AT-AT--ATGC-AAAAGCAACG-GTCA--TTA---ACTGAATTG-ACGCTATATGGCGCGCACCCCAACACCCCCTCCCCCGACATC--ATCTGAATTAACGCTAGAGGGCGC---TAGTCTAGCTATATAATCAT
gi|5                          :                                                                                                                                                                        c-ACAAAGCC--AAGTAGAC-TC--A-TATT-GCAAAATCA-A---GATTC------TACTGTTATACGAACG-ATCACCGATGT-AAAACCAA----------------------------CTAGATGGCGTACA----AAGA--------ACA-----------GGAATAAACGCTAGATTGCGCACGAG-TCT---TA---AA----AC--------TGTATA---ATCAGGACAACTCGCCATCAAGACAAATCCCTCATTGAGAACAATTC--GCCC-----CTGAAAG-ATAACT------AC-----------A-GCA---C--C--TGATGAGCAAATTGTATTT-------------TAGCAGTGTATTATGAATAAA
gi|6                          :                 TTTATGGGTGGC-AGAAAGGATG-GGGAAAAA--ACAAGTACTCTGTACA--TGCAAAA-----CG--------A--TTTTCCAAA-A-AC------------------------------ATAC---------------T------GAAAA-GCAAA------A-CAAAC-------------CAAGA--------GACTC------CGTTGCAAAACCAACG-ATCACCGATAT-AAAACCAACA-GCCA--TTA---ACCAAATTG-ACGCTAAATGGCGTGCA----AATA--------ACAATTAAT--ATCTGAATTAATGCTAGATGGCGCGC
gi|7                          :                          GGCTGGAAAGGGCA----AAAAG--AC--GT------GA-A--T-CAAAA-----AGAACA--TAAATTTTTCAAA-----TA-T-CAA--T-----------GATATGCAAAAAC-----AAACCACTCTT------AAAAATAC-ACATC--AA-CAGAC-CC----C--C-GC-------------ATGC-----------CAAAACCAGCGAATCATCCATGC-AAAACCAACA-GTCATTTTA---CCCGACT----CACTAGATGGCGTGtagtctatct
gi|8                          :                   gATGGGCAGT-GGAAAAGGTA----AAATG--AT--GT------TA-AAATTCAAAA-----CGAACAACTGA--TTTTCAAAATC-ACAC--CGA--AT-TGAGTGAATGATAT---GATA------GA-TCAGCTC---------AAA-ACAAAATC--AA-CAGGC-TCT-G-T--T-GCAAAATCA---------C------CGACGTAAAACCAACC-ATCA
gi|9                          :                                                                                                                                                                                     A-TAGAC-TC--AAT--T-GGAAAAGCA-ATG-GATTT------CGTTGCAAAACAAACG-AT----AATGCCAAAACCAGCA-AT-A--TTTTTTACTGAATTG-AAGCTACATGGCGTGCA----A----------------------ATC-GAATTAATGCTAGATGGTG


blockSeqs                     :                             T         AAGAA     AT  AA  ACTCTGTACA   G     AAATC        T  AT         AATATTTCGATTTCGTGATAAATATCTGACTAGCTTTTTAAAAA                      T     C  AGG G     T  CGACT          T  ATA       TAAATCCATT C     G  T A    A      C         GA    TT   TTT  A      A                 CCCC    CCCCCTCC    A    GA  CG                       TAGTCTAGC  C    TTATACAGATTGGTGCGTAGAC     C          A               A  A A   AC  C  GGGT  TCAT   C    A      CGATCAACTATCAAAAATAACAATCAACAA            TGTTATGTATTACATATAGC        G                 AAA   T           AT        A                      A
blockSeqs                     :                             .         TAAA      .   .   TAAAA        G     .            C  .          TCACACCGAATTGAGTGAATGATATGATAGATCAGCTC                            .     A  CG  .     .  CAAAT          T  GAA       CGTC       C     G  C .    A      .         G     .    .    C      .                 .       .           A    .   CG                       TATCT      C    ACTGTATA                   A          C               C  T T   .   T  AG    TAA    A    .      ACTTGTATAGTAAGCC                          AATTGTATTTTAGC              G                 .     .           .         .                      .
blockSeqs                     :                             .         AGAG      .   .   TAA          A     .            T  .          TATCAATGATATGCAAAAACAAACCACTCTTA                                  .     A  A   .     .  ATATT          C  AAT       AATT       G     A  C .    T      .         A     .    .    A      .                 .       .           A    .   CT                       AGTCT      T    TTAAGA                     G          C               T  T G   .   .  GC    .      G    .      ACAGCACC                                  TATTA                       .                                                                     
blockSeqs                     :                             .         GGGG      .   .   TAA          A     .            C  .          ACATACTGAAATACATGATAGATAACATTA                                    .     G  A   .     .  ATTA           T  ATG       TACT       C     G  T .    G      .         A     .    .    A      .                 .       .           G    .   CT                       AC         .                                                                                                                                                                                                                                               
blockSeqs                     :                             .         GAA       .   .   TCA          G     .            C  .          CCATACTAAAATACAAGCTAACCAGCTT                                      .     A  G   .     .  TGTT           T  AC        CGTT       T     G  C .    T      .         A     .    .    G      .                 .       .           A    .   A                        A          .                                                                                                                                                                                                                                               
blockSeqs                     :                             .         AAA       .   .   CAT          G     .            T  .          AAAAATTACTGAAAAACTAGCTT                                           .     G  A   .     .  AATT           C  AC        CGAC       C     C  C .    C      .         G     .    .    A      .                 .       .           T    .   G                                                                                                                                                                                                                                                                                   
blockSeqs                     :                             .         A         .   .   TAA          T     .            T  .          CCAATCCGAAATGCA                                                   .     A  A   .     .  GTT            T  A         CGTT       C     C  C .    C      .         G     .    .    T      .                 .       .           .    .   G                                                                                                                                                                                                                                                                                   
blockSeqs                     :                             .         A         .   .   GAA          .     .            .  .          AACATACTG                                                         .     A  A   .     .  CC             T  A         CGT        T     C  C .    T      .         A     .    .    C      .                 .       .           .    .   C                                                                                                                                                                                                                                                                                   
blockSeqs                     :                                                 .   .   T            .     .            .  .                                                                            .     .  A   .     .  A              G  .         GCC        C     A  C .    .      .         A     .    .    C      .                 .       .           .                                                                                                                                                                                                                                                                                            
blockSeqs                     :                                                                                                                                                                                  .   .     .  .              .  .         .          .     .  . .                     A     .    .    T      .                         .                                                                                                                                                                                                                                                                                                        
blockSeqs                     :                                                                                                                                                                                      .     .  .              .  .                                                     .     .    .    .      .                                                                                                                                                                                                                                                                                                                                  


blockSeqCons                  :                                                                                                                                                                                               ATT******                   CGTT******
originalCons                  :  GCATACAATATATTTTTTATGGGCGGC-GGAAAGGGTA-GAGAAAAG--AC--GT------TA-A--TGCAAAA-----CGAACAACTAA--TTTTCAAAA-A-ATACT-CGA--TT-CG------TGATA----AATAC-----GA-CCAGCTTT------AAAAA-ACAAAATC--GA-CAGAC-TC--A-T--T-GCAAAATCA-A-A-GATTC------CGTCGCAAAACGAACG-ATCANCGATGC-AAAACCAACG-GTCA--TTA---ACNGAATTG-ACGCTAGATGGCGTGCA----AAGA--------ACAGACATT--ATCGGAATTAACGCTAGATGGCGCACGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATCANGACAACTCGCNACCAAGACATGTCGCNCCNAAAGA--AACCCGGGCCCTAATTTTNAAAG-ACAGCT------ACTTGT-----ATA-GCAAG-C--C--TGATAAACA-----TA--T-------------TAGCAGTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
finalCons                     :  GCATACAATATATTTTTTATGGGCGGC-GGAAAGGGTA-GAGAAAAG--AC--GT------TA-A--TGCAAAA-----CGAACAACTAA--TTTTCAAAA-A-ATACT-CGA--TT-CG------TGATA----AATAC-----GA-CCAGCTTT------AAAAA-ACAAAATC--GA-CAGAC-TCATT------GCAAAATCA-A-A-GATTCCGTT------GCAAAACGAACG-ATCANCGATGC-AAAACCAACG-GTCA--TTA---ACNGAATTG-ACGCTAGATGGCGTGCA----AAGA--------ACAGACATT--ATCGGAATTAACGCTAGATGGCGCACGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATCANGACAACTCGCNACCAAGACATGTCGCNCCNAAAGA--AACCCGGGCCCTAATTTTNAAAG-ACAGCT------ACTTGT-----ATA-GCAAG-C--C--TGATAAACA-----TA--T-------------TAGCAGTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|13 ): GTATTCTATAGGTGGTGGAAAGGGTAAATGCAAACGATCAAAAAGTTAGTCAAAAAGCATATAATGAAATACCTGTAGATAAAATCAAGCTAACGATCATCGATACAAAAACATCATAG






Alignments
lowQualScore                  :                                                                                                       11111111111111111111111111111111111111111111111111111111111111                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
lowQualScore                  :                                       11111             111111111111       11111                      55555555555555555555555555555555555555555555555555555555555555                          333333333         22222222222222222222                                                                                     11111111                                      222222222       22222222222222222222222                                        11     2222  1111        1      444444444444444444444444444444444         888888888888888888888888888                   222               11        1                                   
lowQualScore                  :                  0          4         44444     55  55  222222222222 4     00000        2  55         55555555555555555555555555555555555555555555555555555555555555    4     1  999 3     3  222222222      1  55555555555555555555  3      1  4 3    2      4         44  0 44   555  2   0   3                8888    33333333    4    66  66                    00 666666666  9    33333333333333333333333    1          1               1  1 1   33  6  8888  2222   1    0      555555555555555555555555555555555    0    222222222222222222222222222 2                 333   7           88        3                      7            
lowQualScore                  :                  .          .         .....     ..  ..  ............ .     .....        .  ..         ..............................................................    .     .  ... .     .  .........      .  ....................  .      .  . .    .      .         ..  . ..   ...  .   .   .                ....    ........    .    ..  ..                    .. .........  .    .......................    .          .               .  . .   ..  .  ....  ....   .    .      .................................    .    ........................... .                 ...   .           ..        .                      .            
lowQualScore                  :                  6          4         66666     55  55  666666666666 8     00000        8  55         66666666666666666666666666666666666666666666666666666666666666    0     3  666 3     3  888888888      6  77777777777777777777  6      2  3 6    4      0         88  4 66   888  2   6   6                5555    22222222    8    11  88                    66 777777777  3    44444444444444444444444    0          0               0  0 2   88  5  2222  5555   0    0      888888888888888888888888888888888    8    000000000000000000000000000 5                 333   3           33        3                      3            
consensus                     :  GCATACAATATATTTTTTATGGGCGGC-GGAAAGGGTA-GAGAAAAG--AC--GT------TA-A--TGCAAAA-----CGAACAACTAA--TTTTCAAAA-A-ATACT-CGA--TT-CG------TGATA----AATAC-----GA-CCAGCTTT------AAAAA-ACAAAATC--GA-CAGAC-TC--A-T--T-GCAAAATCA-A-A-GATT-C------CGTTG-CAAAACGAACG-ATCANCGATGC-AAAACCAACG-GTCA--TTA---ACNGAATTGA-CGCTAGATGGCGTGCA----AAGA--------ACAGACATT--ATCGGAATTAACGCTAGATGGCGCACGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATCANGACAACTCGCNACCAAGACATGTCGCNCCNAAAGA--AACCCGGGCCCTAATTTTNAAAG-ACAGCT------ACTTGT-----ATA-GCAAG-C--C--TGATAAACA-----TA--T-------------TAGCAGTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
Reference ( family-7811 )     :  GCATACAATATATTTTTTATGGGCGGC-GGAAAGGGTA-GAGAAAAG--AC--GT------TA-A--TGCAAAA-----CGAACAACTAA--TTTTCAAAA-A-ATACT-CGA--TT-CG------TGATA----AATAC-----GA-CCAGCTTT------AAAAA-ACAAAATC--GA-CAGAC-TC--A-T--T-GCAAAATCA-A-A-GATT-C------CGTTG-CAAAACGAACG-ATCANCGATGC-AAAACCAACG-GTCA--TTA---ACNGAATTGA-CGCTAGATGGCGTGCA----AAGA--------ACAGACATT--ATCGGAATTAACGCTAGATGGCGCACGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATCANGACAACTCGCNACCAAGACATGTCGCNCCNAAAGA--AACCCGGGCCCTAATTTTNAAAG-ACAGCT------ACTTGT-----ATA-GCAAG-C--C--TGATAAACA-----TA--T-------------TAGCAGTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|1                          :  GCATACAATATATTTTGTATGGGCGCC-GGAAGAAATA-GAGAAAAG--AC--GT------TC-A--TACCAAA-----CGAACAACTAA--TTTTCAAAA-A-ATATTTCGA--TTTCG------TGATA----AATATCT---GA-CTAGCTTTTTAAAAAAAAA-ATAAAATC--GA-CAGAC-TC--A-T--TAGCAAAATCA-A-ATGACT-C------CG-TG-GAAAACGAA-G-ATCATCGATGC-AAAACCAACA-ATCA--TTA---ACGGAAATGA-CGCTAGATGGCGTACA----AAGA--------ACAGACATT--ATCGGAATTAACGCTCGATGACGCATGTA-TCT---TACGTAATTATACAGATTGGGTGCGTAGACATTACGACAACTCGTAACCAAGATATGTTGCACCAAAAGA--AACCCAG--CCTAATTTTCAAAG-ACAGCT------ACTTGT-----ATATGTAAGCC--C--TAATAAACA-----TA--T-----------------ACTACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|10                         :                                               AG--AC--GT------T-------CAAAAAAATCCGAACAATTTA--TTCTCAAAA-------C-CAA--TC-CG----------A----AATGC----------------------AAAAA-ACAAACTTAGGA-CAAAA-TC----------CAAAATCA-ATA-GACT-CTAAATCCATTG-CAAAACGAATG-ATCAACAATGC-AAAATCATCG-GTCA--TTA---ACAGAATTG
gi|11                         :                                                                                                                                                                                 C--AA-CAAAT-TCCGA-C--T-GCAAAATCAGA-A-GATT-C------CGTCA-CAAAACAA-----TCAACGATAC-AAAAC--ACGAGTCA--TCA-----CGACGTGAACGCTAGATGGCGTGC-----GGGA--------ACAG-CATTGAAT-AAAATTGACG
gi|12                         :                     TGGGCAGC-GGGAAAGAT--GAAAATAG--AC--GT------TA-A--TGCAAAA-----CGAGTAAC--A--TTT--AAAA-A-AAA-----A--TT-AC------TGA-A----AA---------A-CTAGCTT---------AAA-ACCAAATC--AG-CATACTTT--G-T--T-GCAAAACTA-A-C-GATT-T------C
gi|14                         :               cTTTTATGGGCGGC-GGAAAGGGTT-AAAAAAAGATAT--GT------TA-A--TGCAACT-----CAAACAGTCAA--TTTTCAAAA-GCATACc
gi|15                         :                                                                                                                                                                                                                                                                 gAACCAATA-GTCA--TTA---ATAGAATTAA-CGCTAGATGGCGTGCA----AAGA--------ACAGA
gi|16                         :                                                                                                                                                                                                                                                                                                                   cgctatA--------ACAGACTTT--CTCGGAATTAACGCTAGATGACGCACA-A-------TACATAA----AC-GATT-GGtgtgaacaatg
gi|17                         :                                                                                                                                                                                                                                                                  AACCAATA-GTCA--TTA---ATAGAATTAA-CGCTAGATGGCGTGCA----AAGA--------A
gi|2                          : tGCATACAATATATTTTGTATGGGCGCC-GGAAGAAATA-GAGAAAAG--AC--GT------TC-A--TACCAAA-----CGAACAACTAA--TTTTCAAAA-A-ATATTTCGA--TTTCG------TGATA----AATATCT---GA-CTAGCTTTTTAAAAAAAAA-ATAAAATC--GA-CAGAC-TC--A-T--TAGCAAAATCA-A-ATGACT-C------CG-TG-GAAAACGAA-G-ATCATCGATGC-AAAACCAACA-ATCA--TTA---ACGGAAATGA-CGCTAGATGGCGTACA----AAGA--------ACAGACATT--ATCGGAATTAACGCTCGATGACGCATGTA-TCT---TACGTAATTATACAGATT-GGTGCGTAGACATTACGACAACTCGTAACCAAGATATGTTGCACCAAAAGA--AACCCAG--CCTAA-TTTCAAAG-ACAGCT------ACTTGT-----ATA-GTAAG-C--C--TAATAAACA-----TA--T-------------TA----CACATTGTGAATAAAAG---TTCTTGAAAGACCAA--GATATTTT-GTCAATTATTTTCCCTTTCAATAATCAGCATCAGA
gi|3                          :               TTTTTATGGGTGGT-GGAAAGGGTAAGAAAAACG--AC--GT------CA-T--TACAAAA-----CGAACAACCAG--TTCTCAAAC-ACATACT--GAAATA-CA------TGATA----GATA-------A-C-A---TT------AAGA---CAAAGCCC-GA-CAA----C--A------GCAACAT-----A-GGT---------AATTG-CAAAGTAAACA-AACTGCGTTGC-AAATTGAACG-AT------A---ACAGAACTGA-TGCTAAATAATATGCA----AAGA--------ACAGGCATT--AT-GCAATTAACGCTAGATGGCGTATG-A---C---TA-GTCATTA---AGA--------------ATCAAGACAACTCACCACCAAGACTTATCGTCCCTATGGA--AG-CAGGGTCCTCATTTTAAAAGAACAACTCGATCAAC-TATCAAAAATA-ACAAT-CAACAATGATCAATA-----TG--TTATGTATTACATATAGCAGTACATTATGAATGAAAGAAATTC----AAGACAAAATGATATTTTAGTCAAGCTTTTTTCCTTTCAAT-TTCAGCATTAGA
gi|4                          :               atcgTATGGGCGGC-GGAAAGGGTA-AA-AAAAG--AT--GT------TA-A--TGCAAAA-----CGAACAATCAA--TTTTCAAAACC-ATACT---A-----------------A----AATACAAGCTAA-CCAGCTT---------ATA-ATGAAATC--AA-CAGGC-TCCAA-A--T-GCAAAACCA-A-C-GATTGC------CG--------ACG--TG-AT-AT--ATGC-AAAAGCAACG-GTCA--TTA---ACTGAATTGA-CGCTATATGGCGCGCACCCCAACACCCCCTCCCCCGACATC--ATCTGAATTAACGCTAGAGGGCGC---TAGTCTAGCTATATAATCAT
gi|5                          :                                                                                                                                                                        c-ACAAAGCC--AAGTAGAC-TC--A-TATT-GCAAAATCA-A---GATT-C------TACTG-TTATACGAACG-ATCACCGATGT-AAAACCAA----------------------------CTAGATGGCGTACA----AAGA--------ACA-----------GGAATAAACGCTAGATTGCGCACGAG-TCT---TA---AA----AC--------TGTATA---ATCAGGACAACTCGCCATCAAGACAAATCCCTCATTGAGAACAATTC--GCCC-----CTGAAAG-ATAACT------AC-----------A-GCA---C--C--TGATGAGCAAATTGTATTT-------------TAGCAGTGTATTATGAATAAA
gi|6                          :                 TTTATGGGTGGC-AGAAAGGATG-GGGAAAAA--ACAAGTACTCTGTACA--TGCAAAA-----CG--------A--TTTTCCAAA-A-AC------------------------------ATAC---------------T------GAAAA-GCAAA------A-CAAAC-------------CAAGA--------GACT-C------CGTTG-CAAAACCAACG-ATCACCGATAT-AAAACCAACA-GCCA--TTA---ACCAAATTGA-CGCTAAATGGCGTGCA----AATA--------ACAATTAAT--ATCTGAATTAATGCTAGATGGCGCGC
gi|7                          :                          GGCTGGAAAGGGCA----AAAAG--AC--GT------GA-A--T-CAAAA-----AGAACA--TAAATTTTTCAAA-----TA-T-CAA--T-----------GATATGCAAAAAC-----AAACCACTCTT------AAAAATAC-ACATC--AA-CAGAC-CC----C--C-GCA--------------------------TGCCAAAACCAGCGAATCATCCATGC-AAAACCAACA-GTCATTTTA---CCCGACT----CACTAGATGGCGTGtagtctatct
gi|8                          :                   gATGGGCAGT-GGAAAAGGTA----AAATG--AT--GT------TA-AAATTCAAAA-----CGAACAACTGA--TTTTCAAAATC-ACAC--CGA--AT-TGAGTGAATGATAT---GATA------GA-TCAGCTC---------AAA-ACAAAATC--AA-CAGGC-TCT-G-T--T-GCAAAATCA----------C------CGACG-TAAAACCAACC-ATCA
gi|9                          :                                                                                                                                                                                     A-TAGAC-TC--AAT--T-GGAAAAGCA-ATG-GATT-T------CGTTG-CAAAACAAACG-AT----AATGCCAAAACCAGCA-AT-A--TTTTTTACTGAATTGA-AGCTACATGGCGTGCA----A----------------------ATC-GAATTAATGCTAGATGGTG
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|13 ): GTATTCTATAGGTGGTGGAAAGGGTAAATGCAAACGATCAAAAAGTTAGTCAAAAAGCATATAATGAAATACCTGTAGATAAAATCAAGCTAACGATCATCGATACAAAAACATCATAG