lowQualScore                  :              1                     22222222   11           22222222222  111111                            11                                                             11                                1                         11         
lowQualScore                  :              5  8  1        1  1   99999999   00   999     44444444444  222222 4    7    66        2   8  66  0  99999 2  5 33    2   22 2 1          333     3  0  4    55    88888  4        0    66   7 3       77          1     11         
lowQualScore                  :              .  .  .        .  .   ........   ..   ...     ...........  ...... .    .    ..        .   .  ..  .  ..... .  . ..    .   .. . .          ...     .  .  .    ..    .....  .        .    ..   . .       ..          .     ..         
lowQualScore                  :              0  0  0        0  0   88888888   22   999     77777777777  888888 4    2    22        9   6  99  6  44444 9  4 99    9   55 9 4          666     0  8  7    66    33333  0        4    66   2 9       99          8     22         
consensus                     : TGCCAGACTGTTTGCA-GACGATTGCCTCCTGTAC---AGATTCAT-ACAATCCACCAG-G----G----ACA-----G-CAAGACTCTN-CAAGATGA-CCT-CAACAATCT---ACA-GANA--TGGG-AAGACA-ACTGGCAGATGTCG-TTCAATCCTGANAAATG-CGAG-----GTNATACGAATCACCANCAAANGNAAACCAC--TCCAATCTCCNTACAAAATACACAACA
Reference ( gi|32020 )        : TGCCAGACTGTTTTCA-GATGATTGCCTCCTGTAC---AGATACAT-ACAATCCACCAG-G----G----ACA-----G-CAAGGCTCTT-CAAGATGA-TCT-CACCAATCT---ACA-GACA--TGGG-AAAACA-ATTGGCAGATGTCA-TTCAATCCTGAGAAATT-TGAG-----GTAATACAAATCACCAACAAACGCAAACCAC--TCCAATCTCCTTACAAGGTACACAACA
gi|32019                      : TGCCAGACTGTTTGCA-GACGATTGCCTCCTGTAC---ATATTCAT-TCAATCCACCAG-G----G----ACA-----G-CAAGGCTCTT-CAAGATGA-TCT-CACCAATCT---ACA-GACA--TGGG-AAAACA-ATTGGCAGATGTCA-TTCAAGCCTGAGAACTG-CGAG-----GTAATACGAATCACCCACAAATGTAAACCAC--TCCAATCTCCTTACAAGATACACAACA
gi|32021                      : TGACAGACTGTTTGCA-GACGATTGCCTCCTGTAC---AGATGCAT-ACAATCCACCAG-G----G----ACA-----G-CAAGGCTCTT-CAAGATGA-CCT-CACCAATCT---ACA-GACA--TGGG-AAAACA-ATTGGCAGATTTCA-TTCTCTCCTGAGAAATG-TGAG-----GTAATACGAATCACCAGCAAACGTAAACCAC--ACCAATCTCCTTACAAGATTCACATCA
gi|32022                      : TGCCAGACTGTTTGCA-GACGACTGCATCCTGTAC---AGATTCAT-ACAACTCACCAA-G----G----ACA-----G-CAAGACTCTT-CAAGATGA-TCT-CACCAATCT---ACA-GACA--TGGGAAAAACA-ATTGACAGATGTCA-TTCAATCCTAAGAAATG-CGAG-----GTAATACGAATCACCAACAAATGTAGACCAC--TCCAATCTCCGTACAAAATACAAAACA
gi|32023                      :    CAGACTATTCGCAAGTTGACAGCCTGCTATACTGGAGA---AT--CAA---ATCAG-AATGCG----ACT-----GACA---TTCTG-CAGAAAGA-CCT-CAGAAGCCTGGAACA----A--TGGG-AAGCCA-ACTGGCAGATGCAG-TTCAATCC------ATC-TAAGTGCGTGTCATACGAATAAACCGCAAGAGGAAGCC
gi|32026                      :        CTTTTTGCA-GACGATTGCCTACTCTAC---CGAGTCATCAAAAGC--CCAGAA----G----ACC-----A-CACCACCCTC-CAACAGGA-CCTACAACAA-CT---AGA-GACA--TGGA-CAGATA-CATGGGGTATGCGT-TTTAATGCAAAGAAAT
gi|32029                      :                   ATGATTGTTTTGTTTAC--------CAT-AC---TCACCAG-AAT--G----ACGAAGATG-CCAGACTATTACAACATGA-CCT-CGACAGCCT---TCAAGATT--CGGG-GCAG-G-ACCGGCAGATGTTG-TTCCATC-TGAAGAATTGCAAA-----GTCATACAAATCAGTACCAAATGCAAgc
gi|32024                      :                                                      CACCAA-G----GTCCTACA-----A-GAAGAC-CTA-CAAGAAGA-CCT-GAACAGACT---CCA-GAAG--TGGG-AAGAAG-ACTGGATGATGTAA-TTCAATCC
gi|32030                      :                       acagtttgccgatggcagcctgttgtataagaaggttcgctctactgctga-----G-CAAGACTCTT-CAAGACAA-CCT-CACTGATCT---ACA-GACA--TTGA-AAAACA-CTTGGCAGAAGTCA-TTAAATCCTGAGAAATG-CGAA-----GTAATACAAATCACCAATAAATGTAAACCTC--TCCAATCTTCATAAAACATACACAACAcagtaagtgctgtgtaaaccgcatcacaaagaa
gi|32025                      :                                                                                -CAAG---CTA-CAAGATGA-TCT-------TCT---TGA-AAGA--TGGG-AAG-CAGACTGGCAGATGTTA-TTTCACCCTGACAAGTG-CAAG-----GTGATTCATATCACCACTAAA
gi|32027                      :                          cttttcgcagacgacacactgttgtatcattctgtccatgcacagtcggaacgactgcgaCTCTC-CCAAATGA-TCT-TAACACCCT---AGA-AAAT--TAGG-AAGAAA-ACTGGTCTATGGAA-TTCAAGGCAGATAAATG-TGAA-----GTCATAAGAAT-AACAA-AAAAGAAAAACACCGTCATATCCCCCTATAAATTACACAATA
gi|32031                      :                             ctctttgcagacgacactatagtgtacctaacaattaatacaatgtctgatccctaaaTCTT-CAAAATGA-TCT-TA-AAACCT----CA-GAAAATTGGG-AAGAAA-ATTGATAGATGGAA-TTCAAAGCAGATAAATG-TGAA-----GTCATAAGAATAACAAAAAGAAGAATACCA---TCATATTCTCTTATAAATTGCACAATA
gi|32032                      :                                                                                        CTA-CAAGACGA-TCTTCAA-AATCT---TGA-AAGA--TGGA-AAGCCG-ACTGGCAGATGTCG-TTTCACCCTGACAAGTG-CAAG-----GTGATCCATATGACCACTAAACG
gi|32033                      :                                                                                        CTA-CAAGATGGTTTT-CA-AAATCT---AGA-AAGA--TGAG-AAGCCA-ACTGGCATATGTCC-TTTCACACTGCCAAGTG-TGAG-----GTGATTCATATCACCATTAAAAG--AACCAC--T
gi|32034                      :                                                                                             AAGATGA-TCTTCAA-AATCT---TGA-AAGA--TTAG-AAACCG-ACTGGCAGATGTCCTTTCAA-CCTGACAAGTG-CGAA-----TTGATTCATATCACCACTAAAAG--AACC
1 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|32028 ): TTCGCAGATGACAGCCTGTTTTACAGAAGAATCAAATCAGAACGCGACTCTGAGATTCTGCAAGAAGGCATAAGAAGCCTGGAGCAATGGGAAACCGACTGGCAGATGCAATTCAATCCATCCAAGTGCAAAGTCATTCGAATAACCCGCAA






Alignments
lowQualScore                  :                       1111111             222222222222222222222222222222222222222222222222222222222222222222                           11111                                                                                                                               
lowQualScore                  :          0      4     1111111  3  66      888888888888888888888888888888888888888888888888888888888888888888    44   4444  1           11111  0  88   1 66 444   2   2  2            7777     1  0  1   2        1  1          3    1 4       66          1     11         
lowQualScore                  :          .      .     .......  .  ..      ..................................................................    ..   ....  .           .....  .  ..   . .. ...   .   .  .            ....     .  .  .   .        .  .          .    . .       ..          .     ..         
lowQualScore                  :          1      0     8888888  6  55      666666666666666666666666666666666666666666666666666666666666666666    66   7777  0           88888  4  00   0 99 444   5   5  5            9999     5  1  0   5        0  1          8    0 5       99          0     44         
consensus                     : TGCCAGACTGTTCGCA-GACGA-----CTGC-CT-NCTGTAC---A----GATTCA---T-ACAAT--C--CA-C---CAG--G----G----A-------CN-----GCAA--GAC--T-CTNCAAGATGACCT-CAACAATCTACAGANA--T---GGG-AAGACA-ACTGGCAGATGT-CG-TTCAATCCTGANAAG-TGCGAGGTNATACGAATCACCANCAAANGNAAACCAC--TCCAATCTCCTTACAAGATACACAACA
Reference ( family-921 )      : TGCCAGACTGTTTGCA-GACGA-----TTGC-CT-CCTGTAC---A----GATTCA---T-ACAAT--C--CA-C---CAG--G----G----A-------CA-----GCAA--GAC--T-CTNCAAGATGACCT-CAACAATCTACAGANA--T---GGG-AAGACA-ACTGGCAGATGT-CG-TTCAATCCTGANAAA-TGCGAGGTNATACGAATCACCANCAAANGNAAACCAC--TCCAATCTCCNTACAAAATACACAACA
gi|32019                      : TGCCAGACTGTTTGCA-GACGA-----TTGC-CT-CCTGTAC---A----TATTCA---T-TCAAT--C--CA-C---CAG--G----G----A-------CA-----GCAA--GGC--T-CTTCAAGATGATCT-CACCAATCTACAGACA--T---GGG-AAAACA-ATTGGCAGATGT-CA-TTCAAGCCTGAGAAC-TGCGAGGTAATACGAATCACCCACAAATGTAAACCAC--TCCAATCTCCTTACAAGATACACAACA
gi|32020                      : TGCCAGACTGTTTTCA-GATGA-----TTGC-CT-CCTGTAC---A----GATACA---T-ACAAT--C--CA-C---CAG--G----G----A-------CA-----GCAA--GGC--T-CTTCAAGATGATCT-CACCAATCTACAGACA--T---GGG-AAAACA-ATTGGCAGATGT-CA-TTCAATCCTGAGAAA-TTTGAGGTAATACAAATCACCAACAAACGCAAACCAC--TCCAATCTCCTTACAAGGTACACAACA
gi|32021                      : TGACAGACTGTTTGCA-GACGA-----TTGC-CT-CCTGTAC---A----GATGCA---T-ACAAT--C--CA-C---CAG--G----G----A-------CA-----GCAA--GGC--T-CTTCAAGATGACCT-CACCAATCTACAGACA--T---GGG-AAAACA-ATTGGCAGATTT-CA-TTCTCTCCTGAGAAA-TGTGAGGTAATACGAATCACCAGCAAACGTAAACCAC--ACCAATCTCCTTACAAGATTCACATCA
gi|32022                      : TGCCAGACTGTTTGCA-GACGA-----CTGC-AT-CCTGTAC---A----GATTCA---T-ACAAC--T--CA-C---CAA--G----G----A-------CA-----GCAA--GAC--T-CTTCAAGATGATCT-CACCAATCTACAGACA--T---GGGAAAAACA-ATTGACAGATGT-CA-TTCAATCCTAAGAAA-TGCGAGGTAATACGAATCACCAACAAATGTAGACCAC--TCCAATCTCCGTACAAAATACAAAACA
gi|32023                      :    CAGACTATTCGCAAGTTGA-----CAGC-CT-GCTATACTGGA----GAATCA-------AAT--C--------------A----G----A-------AT-----GCGACTGACATT-CTGCAGAAAGACCT-CAGAAGCCTGGAACAA--T---GGG-AAGCCA-ACTGGCAGATGC-AG-TTCAATCCATCTAAG-TGCG-TGTCATACGAATAAACCGCAAGAGGAAGCC
gi|32024                      :       ACAGTTTGCC-GATGG-----CAGC-CT-GTTGTAT---AAGAAGGTTCGCTCT-ACTGC--TGACA-C---CAA--G----GTCCTA-------CA-----AGAA--GAC----CTACAAGAAGACCT-GAACAGACTCCAGAAG--T---GGG-AAGAAG-ACTGGATGATGT-AA-TTCAATCCCAGTAAG-TGCTGTGTAAACCGCATCAC
gi|32025                      :        CTTTTCGCA-GACGA-----C-ACACT-GTTGTA------------TCA---T-TCTGT--C--CA-TGCACAGTCG----G----AACGACTGCG-----ACAA--G------CTACAAGATGATCT-------TCTTGAAAGA--T---GGG-AAG-CAGACTGGCAGATGT-TA-TTTCACCCTGACAAG-TGCAAGGTGATTCATATCACCACTAAAaaagaa
gi|32026                      :        CTTTTTGCA-GACGA-----TTGC-CT-ACTCTAC---C----GAGTCA---TCAAAAG--C-----C---CAGA-A----G----A-------CC-----ACAC--CAC--C-CTCCAACAGGACCTACAACAA-CTAGAGACA--T---GGA-CAGATA-CATGGGGTATG--CGTTTTAATGCAAAGAAA-TGC
gi|32027                      :        CTCTTTGCA-GACGACACTATAGT-GTACCTA-AC---A-----ATTAA---T-ACAATGTC--T----------------G----A-------TC-----CCTA--AAC--T-CTCCCAAATGATCT-TAACACCCTA--GAAAATT---AGG-AAGAAA-ACTGGTCTATGG-AA-TTCAAGGCAGATAAA-TGTGAAGTCATAAGAATAACAA--AAAAGAAAAACACCGTCATATCCCCCTATAAATTACACAATA
gi|32028                      :           TTCGCA-GATGA-----CAGC-CT-GTTTTAC---A----GA---------AGAAT--C--AAAT---CAG--AACGCG----A-------CT-----CTGA--GAT--T-CTGCAAGAAGGCAT-AAGAAGCCTGGAGCAA--T---GGG-AAACCG-ACTGGCAGATGC-AA-TTCAATCCATCCAAG-TGCAAAGTCATTCGAATAACCCGCAA
gi|32029                      :                   ATGA-----TTGT-TT-TGTTTAC------------CA---T-AC-----T--CA-C---CAG--AAT--G----A-------CGAAGATGCCA--GAC--TATTACAACATGACCT-CGACAGCCTTCA-AGA--TTCGGGG-CAGG---ACCGGCAGATGT-TG-TTCCAT-CTGAAGAATTGCAAAGTCATACAAATCAGTACCAAATGCAA
gi|32030                      :                                                                                                        -----GCAA--GAC--T-CTTCAAGACAACCT-CACTGATCTACAGACA--T---TGA-AAAACA-CTTGGCAGAAGT-CA-TTAAATCCTGAGAAA-TGCGAAGTAATACAAATCACCAATAAATGTAAACCTC--TCCAATCTTCATAAAACATACACAACA
gi|32031                      :                                                                                                                      --T-CTTCAAAATGATCT-TAA-AACCT-CAGAAAATT---GGG-AAGAAA-ATTGATAGATGG-AA-TTCAAAGCAGATAAA-TGTGAAGTCATAAGAATAACAAAAAGAAGAATACCA---TCATATTCTCTTATAAATTGCACAATA
gi|32032                      :                                                                                                                         -CTACAAGACGATCTTCAA-AATCTTGAAAGA--T---GGA-AAGCCG-ACTGGCAGATGT-CG-TTTCACCCTGACAAG-TGCAAGGTGATCCATATGACCACTAAACG
gi|32033                      :                                                                                                                         -CTACAAGATGGTTTTCAA-AATCTAGAAAGA--T---GAG-AAGCCA-ACTGGCATATGT-CC-TTTCACACTGCCAAG-TGTGAGGTGATTCATATCACCATTAAAAG--AACCAC--T
gi|32034                      :                                                                                                                              AAGATGATCTTCAA-AATCTTGAAAGA--T---TAG-AAACCG-ACTGGCAGATGTCCT-TTCAA-CCTGACAAG-TGCGAATTGATTCATATCACCACTAAAAGAA





Alignments
lowQualScore                  :                                      33333333333333333333333333333333333333333333333                                        11111                                                                                                                              
lowQualScore                  :          0  1   4      8  4 4 1      00000000000000000000000000000000000000000000000 7777  999999    44   4444  1           11111  0  88   1 66 444   2   2  2            7777     1  1  1  0        1  1          3    1 4       66          0     11         
lowQualScore                  :          .  .   .      .  . . .      ............................................... ....  ......    ..   ....  .           .....  .  ..   . .. ...   .   .  .            ....     .  .  .  .        .  .          .    . .       ..          .     ..         
lowQualScore                  :          1  2   0      6  0 0 0      11111111111111111111111111111111111111111111111 7777  333333    66   7777  0           88888  4  00   0 99 444   5   5  5            9999     5  6  0  1        0  1          8    0 5       99          3     00         
consensus                     : TGCCAGACTGTTCGCA-GACGACTGC-C-TNCTGTAC---A----GATTCA---T-ACAAT--C--CA-C---CAG---G----G----ACN-----GCGA--GAC--T-CTNCAAGATGACCT-CAACAATCTACAGANA--T---GGG-AAGACA-ACTGGCAGATGT-CG-TTCAATCCTGANAAGTGCGAGGTNATACGAATCACCANCAAANGNAAACCAC--TCCAATCTCCTTACAAGATACACAACA
Reference ( family-921 )      : TGCCAGACTGTTCGCA-GACGACTGC-C-TNCTGTAC---A----GATTCA---T-ACAAT--C--CA-C---CAG---G----G----ACN-----GCAA--GAC--T-CTNCAAGATGACCT-CAACAATCTACAGANA--T---GGG-AAGACA-ACTGGCAGATGT-CG-TTCAATCCTGANAAGTGCGAGGTNATACGAATCACCANCAAANGNAAACCAC--TCCAATCTCCTTACAAGATACACAACA
gi|32019                      : TGCCAGACTGTTTGCA-GACGATTGC-C-TCCTGTAC---A----TATTCA---T-TCAAT--C--CA-C---CAG---G----G----ACA-----GCAA--GGC--T-CTTCAAGATGATCT-CACCAATCTACAGACA--T---GGG-AAAACA-ATTGGCAGATGT-CA-TTCAAGCCTGAGAACTGCGAGGTAATACGAATCACCCACAAATGTAAACCAC--TCCAATCTCCTTACAAGATACACAACA
gi|32020                      : TGCCAGACTGTTTTCA-GATGATTGC-C-TCCTGTAC---A----GATACA---T-ACAAT--C--CA-C---CAG---G----G----ACA-----GCAA--GGC--T-CTTCAAGATGATCT-CACCAATCTACAGACA--T---GGG-AAAACA-ATTGGCAGATGT-CA-TTCAATCCTGAGAAATTTGAGGTAATACAAATCACCAACAAACGCAAACCAC--TCCAATCTCCTTACAAGGTACACAACA
gi|32021                      : TGACAGACTGTTTGCA-GACGATTGC-C-TCCTGTAC---A----GATGCA---T-ACAAT--C--CA-C---CAG---G----G----ACA-----GCAA--GGC--T-CTTCAAGATGACCT-CACCAATCTACAGACA--T---GGG-AAAACA-ATTGGCAGATTT-CA-TTCTCTCCTGAGAAATGTGAGGTAATACGAATCACCAGCAAACGTAAACCAC--ACCAATCTCCTTACAAGATTCACATCA
gi|32022                      : TGCCAGACTGTTTGCA-GACGACTGC-A-TCCTGTAC---A----GATTCA---T-ACAAC--T--CA-C---CAA---G----G----ACA-----GCAA--GAC--T-CTTCAAGATGATCT-CACCAATCTACAGACA--T---GGGAAAAACA-ATTGACAGATGT-CA-TTCAATCCTAAGAAATGCGAGGTAATACGAATCACCAACAAATGTAGACCAC--TCCAATCTCCGTACAAAATACAAAACA
gi|32023                      :    CAGACTATTCGCAAGTTGACAGC-C-TGCTATACTGGA----GAATCA-------AAT--C---------------A----G----AAT-----GCGACTGACATT-CTGCAGAAAGACCT-CAGAAGCCTGGAACAA--T---GGG-AAGCCA-ACTGGCAGATGC-AG-TTCAATCCATCTAAGTGCG-TGTCATACGAATAAACCGCAAGAGGAAGCC
gi|32024                      :       ACAGTTTGCC-GATGGCAGC-C-TGTTGTAT---AAGAAGGTTCGCTCT-ACTGC--TGACA-C---CAA---G----GTCCTACA-----AGAA--GAC----CTACAAGAAGACCT-GAACAGACTCCAGAAG--T---GGG-AAGAAG-ACTGGATGATGT-AA-TTCAATCCCAGTAAGTGCTGTGTAAACCGCATCAC
gi|32025                      :        CTTTTCGCA-GACGAC-ACAC-TGTTGTA------------TCA---T-TCTGT--C--CA-TGCACAGTCGGAAC-G----ACT-----GCGA--CAA--G-CTACAAGATGATCT-------TCTTGAAAGA--T---GGG-AAG-CAGACTGGCAGATGT-TA-TTTCACCCTGACAAGTGCAAGGTGATTCATATCACCACTAAAaaagaa
gi|32026                      :        CTTTTTGCA-GACGATTGC-C-TACTCTAC---C----GAGTCA---TCAAAAG--C-----C---CAGA--A----G----ACC-----ACAC--CAC--C-CTCCAACAGGACCTACAACAA-CTAGAGACA--T---GGA-CAGATA-CATGGGGTATG--CGTTTTAATGCAAAGAAATGC
gi|32027                      :        CTCTTTGCA-GACGAC-AC-TATAGTGTACCTAAC---AATTAA---T-ACAATGTC--T-----------------G----ATC-----CCTA--AAC--T-CTCCCAAATGATCT-TAACACCCTA--GAAAATT---AGG-AAGAAA-ACTGGTCTATGG-AA-TTCAAGGCAGATAAATGTGAAGTCATAAGAATAACAA--AAAAGAAAAACACCGTCATATCCCCCTATAAATTACACAATA
gi|32028                      :           TTCGCA-GATGACAGC-C-TGTTTTAC---A----GA---------AGAAT--C--AAAT---CAG---AACGCG----ACT-----CTGA--GAT--T-CTGCAAGAAGGCAT-AAGAAGCCTGGAGCAA--T---GGG-AAACCG-ACTGGCAGATGC-AA-TTCAATCCATCCAAGTGCAAAGTCATTCGAATAACCCGCAA
gi|32029                      :                                                  CA---T-AC-----T--CA-C---CAG---AAT--G----ACGAAGATGCCA--GAC--TATTACAACATGACCT-CGACAGCCTTCA-AGA--TTCGGGG-CAGG---ACCGGCAGATGT-TG-TTCCATCTGAAGAATTGCAAAGTCATACAAATCAGTACCAAATGCAA
gi|32030                      :                                                                            atgattgttttgtttac-----GCAA--GAC--T-CTTCAAGACAACCT-CACTGATCTACAGACA--T---TGA-AAAACA-CTTGGCAGAAGT-CA-TTAAATCCTGAGAAATGCGAAGTAATACAAATCACCAATAAATGTAAACCTC--TCCAATCTTCATAAAACATACACAACA
gi|32031                      :                                                                                                           --T-CTTCAAAATGATCT-TAA-AACCT-CAGAAAATT---GGG-AAGAAA-ATTGATAGATGG-AA-TTCAAAGCAGATAAATGTGAAGTCATAAGAATAACAAAAAGAAGAATACCA---TCATATTCTCTTATAAATTGCACAATA
gi|32032                      :                                                                                                              -CTACAAGACGATCTTCAA-AATCTTGAAAGA--T---GGA-AAGCCG-ACTGGCAGATGT-CG-TTTCACCCTGACAAGTGCAAGGTGATCCATATGACCACTAAACG
gi|32033                      :                                                                                                              -CTACAAGATGGTTTTCAA-AATCTAGAAAGA--T---GAG-AAGCCA-ACTGGCATATGT-CC-TTTCACACTGCCAAGTGTGAGGTGATTCATATCACCATTAAAAG--AACCAC--T
gi|32034                      :                                                                                                                   AAGATGATCTTCAA-AATCTTGAAAGA--T---TAG-AAACCG-ACTGGCAGATGTCCT-TTCAA-CCTGACAAGTGCGAATTGATTCATATCACCACTAAAAGAA





Alignments
lowQualScore                  :                                      33333333333333333333333333333333333333333333333                                        11111                                                                                                                              
lowQualScore                  :          0  1   4      8  4 4 1      00000000000000000000000000000000000000000000000 7777  999999  3 44   4444  1           11111  0  88   1 66 444   2   2  2            7777     1  1  1  0        1  1          3    1 4       66          0     11         
lowQualScore                  :          .  .   .      .  . . .      ............................................... ....  ......  . ..   ....  .           .....  .  ..   . .. ...   .   .  .            ....     .  .  .  .        .  .          .    . .       ..          .     ..         
lowQualScore                  :          1  2   0      6  0 0 0      11111111111111111111111111111111111111111111111 7777  333333  5 66   7777  0           88888  4  00   0 99 444   5   5  5            9999     5  6  0  1        0  1          8    0 5       99          3     00         
consensus                     : TGCCAGACTGTTCGCA-GACGACTGC-C-TNCTGTAC---A----GATTCA---T-ACAAT--C--CA-C---CAG---G----G----ACN-----GCGA--GAC--T-CTNCAAGATGACCT-CAACAATCTACAGANA--T---GGG-AAGACA-ACTGGCAGATGT-CG-TTCAATCCTGANAAGTGCGAGGTNATACGAATCACCANCAAANGNAAACCAC--TCCAATCTCCTTACAAGATACACAACA
Reference ( family-921 )      : TGCCAGACTGTTCGCA-GACGACTGC-C-TNCTGTAC---A----GATTCA---T-ACAAT--C--CA-C---CAG---G----G----ACN-----GCGA--GAC--T-CTNCAAGATGACCT-CAACAATCTACAGANA--T---GGG-AAGACA-ACTGGCAGATGT-CG-TTCAATCCTGANAAGTGCGAGGTNATACGAATCACCANCAAANGNAAACCAC--TCCAATCTCCTTACAAGATACACAACA
gi|32019                      : TGCCAGACTGTTTGCA-GACGATTGC-C-TCCTGTAC---A----TATTCA---T-TCAAT--C--CA-C---CAG---G----G----ACA-----GCAA--GGC--T-CTTCAAGATGATCT-CACCAATCTACAGACA--T---GGG-AAAACA-ATTGGCAGATGT-CA-TTCAAGCCTGAGAACTGCGAGGTAATACGAATCACCCACAAATGTAAACCAC--TCCAATCTCCTTACAAGATACACAACA
gi|32020                      : TGCCAGACTGTTTTCA-GATGATTGC-C-TCCTGTAC---A----GATACA---T-ACAAT--C--CA-C---CAG---G----G----ACA-----GCAA--GGC--T-CTTCAAGATGATCT-CACCAATCTACAGACA--T---GGG-AAAACA-ATTGGCAGATGT-CA-TTCAATCCTGAGAAATTTGAGGTAATACAAATCACCAACAAACGCAAACCAC--TCCAATCTCCTTACAAGGTACACAACA
gi|32021                      : TGACAGACTGTTTGCA-GACGATTGC-C-TCCTGTAC---A----GATGCA---T-ACAAT--C--CA-C---CAG---G----G----ACA-----GCAA--GGC--T-CTTCAAGATGACCT-CACCAATCTACAGACA--T---GGG-AAAACA-ATTGGCAGATTT-CA-TTCTCTCCTGAGAAATGTGAGGTAATACGAATCACCAGCAAACGTAAACCAC--ACCAATCTCCTTACAAGATTCACATCA
gi|32022                      : TGCCAGACTGTTTGCA-GACGACTGC-A-TCCTGTAC---A----GATTCA---T-ACAAC--T--CA-C---CAA---G----G----ACA-----GCAA--GAC--T-CTTCAAGATGATCT-CACCAATCTACAGACA--T---GGGAAAAACA-ATTGACAGATGT-CA-TTCAATCCTAAGAAATGCGAGGTAATACGAATCACCAACAAATGTAGACCAC--TCCAATCTCCGTACAAAATACAAAACA
gi|32023                      :    CAGACTATTCGCAAGTTGACAGC-C-TGCTATACTGGA----GAATCA-------AAT--C---------------A----G----AAT-----GCGACTGACATT-CTGCAGAAAGACCT-CAGAAGCCTGGAACAA--T---GGG-AAGCCA-ACTGGCAGATGC-AG-TTCAATCCATCTAAGTGCG-TGTCATACGAATAAACCGCAAGAGGAAGCC
gi|32024                      :       ACAGTTTGCC-GATGGCAGC-C-TGTTGTAT---AAGAAGGTTCGCTCT-ACTGC--TGACA-C---CAA---G----GTCCTACA-----AGAA--GAC----CTACAAGAAGACCT-GAACAGACTCCAGAAG--T---GGG-AAGAAG-ACTGGATGATGT-AA-TTCAATCCCAGTAAGTGCTGTGTAAACCGCATCAC
gi|32025                      :        CTTTTCGCA-GACGAC-ACAC-TGTTGTA------------TCA---T-TCTGT--C--CA-TGCACAGTCGGAAC-G----ACT-----GCGA--CAA--G-CTACAAGATGATCT-------TCTTGAAAGA--T---GGG-AAG-CAGACTGGCAGATGT-TA-TTTCACCCTGACAAGTGCAAGGTGATTCATATCACCACTAAAaaagaa
gi|32026                      :        CTTTTTGCA-GACGATTGC-C-TACTCTAC---C----GAGTCA---TCAAAAG--C-----C---CAGA--A----G----ACC-----ACAC--CAC--C-CTCCAACAGGACCTACAACAA-CTAGAGACA--T---GGA-CAGATA-CATGGGGTATG--CGTTTTAATGCAAAGAAATGC
gi|32027                      :        CTCTTTGCA-GACGAC-AC-TATAGTGTACCTAAC---AATTAA---T-ACAATGTC--T-----------------G----ATC-----CCTA--AAC--T-CTCCCAAATGATCT-TAACACCCTA--GAAAATT---AGG-AAGAAA-ACTGGTCTATGG-AA-TTCAAGGCAGATAAATGTGAAGTCATAAGAATAACAA--AAAAGAAAAACACCGTCATATCCCCCTATAAATTACACAATA
gi|32028                      :           TTCGCA-GATGACAGC-C-TGTTTTAC---A----GA---------AGAAT--C--AAAT---CAG---AACGCG----ACT-----CTGA--GAT--T-CTGCAAGAAGGCAT-AAGAAGCCTGGAGCAA--T---GGG-AAACCG-ACTGGCAGATGC-AA-TTCAATCCATCCAAGTGCAAAGTCATTCGAATAACCCGCAA
gi|32029                      :                                                  CA---T-AC-----T--CA-C---CAG---AAT--G----ACGAAGATGCCA--GAC--TATTACAACATGACCT-CGACAGCCTTCA-AGA--TTCGGGG-CAGG---ACCGGCAGATGT-TG-TTCCATCTGAAGAATTGCAAAGTCATACAAATCAGTACCAAATGCAA
gi|32030                      :                                                                            atgattgttttgtttac-----GCAA--GAC--T-CTTCAAGACAACCT-CACTGATCTACAGACA--T---TGA-AAAACA-CTTGGCAGAAGT-CA-TTAAATCCTGAGAAATGCGAAGTAATACAAATCACCAATAAATGTAAACCTC--TCCAATCTTCATAAAACATACACAACA
gi|32031                      :                                                                                                           --T-CTTCAAAATGATCT-TAA-AACCT-CAGAAAATT---GGG-AAGAAA-ATTGATAGATGG-AA-TTCAAAGCAGATAAATGTGAAGTCATAAGAATAACAAAAAGAAGAATACCA---TCATATTCTCTTATAAATTGCACAATA
gi|32032                      :                                                                                                              -CTACAAGACGATCTTCAA-AATCTTGAAAGA--T---GGA-AAGCCG-ACTGGCAGATGT-CG-TTTCACCCTGACAAGTGCAAGGTGATCCATATGACCACTAAACG
gi|32033                      :                                                                                                              -CTACAAGATGGTTTTCAA-AATCTAGAAAGA--T---GAG-AAGCCA-ACTGGCATATGT-CC-TTTCACACTGCCAAGTGTGAGGTGATTCATATCACCATTAAAAG--AACCAC--T
gi|32034                      :                                                                                                                   AAGATGATCTTCAA-AATCTTGAAAGA--T---TAG-AAACCG-ACTGGCAGATGTCCT-TTCAA-CCTGACAAGTGCGAATTGATTCATATCACCACTAAAAGAA


blockSeqs                     :             T   A      T  A A C      AAGAAGGTTCGCTCTACTGCTGACACCAAG                  TCCT  GAAGAT  A CT   ATT   T           ACAAC     AC   C AT TCG   A   A  G            CGT      T  T  G           A  A          A    C C       CG                GG
blockSeqs                     :             T   .      T  . . C      TCATTCTGTCCATGCACAGTCGGAAC                      .     A       A .    TA    T           CACC      AC   C AT .     .   A  .            CCT      T  T  G           A  A          G    C T       .                 GA
blockSeqs                     :             T   .      T  . . C      AGATACATACAATCCACCAGG                           .     A       A .    T     T           CACC      AC   C .  .     .   A  .            CA       T  T  G           A  A          A    T T       .                 AA
blockSeqs                     :             C   .      A  . . G      AGATGCATACAATCCACCAGG                           .     A       G .    T     G           CACC      GG   A .  .     .   C  .            CA       T  A  T           C  A          G    A G       .                 AT
blockSeqs                     :             T   .      A  . . G      AGATTCATACAACTCACCAAG                           .     T       A .    T     A           CAGA      CC   A .  .     .   A  .            CA       T  C  T           A  C          C    A A       .                 CA
blockSeqs                     :             C   .      T  . . G      CGAGTCATCAAAAGCCCAGAA                           .     A       G .    G     A           GAAC      TG   G .  .     .   A  .            AG       C  T  C           G  T          G    T C       .                 AT
blockSeqs                     :             T   .      A  . . A      CTAACAATTAATACAATGTCT                           .     T       A .    C     C           TAAC      AG   C .  .     .   A  .            AA       T  A  G           C  A          C    T T       .                   
blockSeqs                     :             T   .      .  . . A      AGAAGAATCAAATCAGAACGC                           .     C       T .    T     C           AAGA      GG   A .  .     .   C  .            TA       G  A  T           C  T          A    A A                           
blockSeqs                     :             C   .      .  . . G      TGGAGAATCAAATCA                                 .     C       G .    T     G           CGAC      TC   A .  .     .   G  .            AA       T  A  C           C  A          A    C A                           
blockSeqs                     :                                                                                      .     T       C .    T     A           CACT      AC   G .  .     .   A  .            AA       T  G  G           A  A          C    A .                           
blockSeqs                     :                                                                                                    A .    T     T           TCAA      TG   C .  .     .   A  .            TG       T  T  G           C  A          T    A                             
blockSeqs                     :                                                                                                           .     T           TCAA      AG   A .  .     .   C  .            CA       A  A  T           G  C          C                                  
blockSeqs                     :                                                                                                                 A           TCAA      TG   G .  .     .   C  .            AA       C  T  C           G  T          .                                  
blockSeqs                     :                                                                                                                 A           TAA       A    G .  .     .   C  .            CG       C  T  C           G  T                                             
blockSeqs                     :                                                                                                                             .         C    G .  .     .   .  .            CC       .  T  C                                                            


blockSeqCons                  : 
originalCons                  : TGCCAGACTGTTCGCA-GACGACTGC-C-TNCTGTAC---A----GATTCA---T-ACAAT--C--CA-C---CAG---G----G----ACN-----GCGA--GAC--T-CTNCAAGATGACCT-CAACAATCTACAGANA--T---GGG-AAGACA-ACTGGCAGATGT-CG-TTCAATCCTGANAAGTGCGAGGTNATACGAATCACCANCAAANGNAAACCAC--TCCAATCTCCTTACAAGATACACAACA
finalCons                     : TGCCAGACTGTTCGCA-GACGACTGC-C-TNCTGTAC---A----GATTCA---T-ACAAT--C--CA-C---CAG---G----G----ACN-----GCGA--GAC--T-CTNCAAGATGACCT-CAACAATCTACAGANA--T---GGG-AAGACA-ACTGGCAGATGT-CG-TTCAATCCTGANAAGTGCGAGGTNATACGAATCACCANCAAANGNAAACCAC--TCCAATCTCCTTACAAGATACACAACA





Alignments
lowQualScore                  :                                      33333333333333333333333333333333333333333333333                                        11111                                                                                                                              
lowQualScore                  :          0  1   4      8  4 4 1      00000000000000000000000000000000000000000000000 7777  999999  3 44   4444  1           11111  0  88   1 66 444   2   2  2            7777     1  1  1  0        1  1          3    1 4       66          0     11         
lowQualScore                  :          .  .   .      .  . . .      ............................................... ....  ......  . ..   ....  .           .....  .  ..   . .. ...   .   .  .            ....     .  .  .  .        .  .          .    . .       ..          .     ..         
lowQualScore                  :          1  2   0      6  0 0 0      11111111111111111111111111111111111111111111111 7777  333333  5 66   7777  0           88888  4  00   0 99 444   5   5  5            9999     5  6  0  1        0  1          8    0 5       99          3     00         
consensus                     : TGCCAGACTGTTCGCA-GACGACTGC-C-TNCTGTAC---A----GATTCA---T-ACAAT--C--CA-C---CAG---G----G----ACN-----GCGA--GAC--T-CTNCAAGATGACCT-CAACAATCTACAGANA--T---GGG-AAGACA-ACTGGCAGATGT-CG-TTCAATCCTGANAAGTGCGAGGTNATACGAATCACCANCAAANGNAAACCAC--TCCAATCTCCTTACAAGATACACAACA
Reference ( family-921 )      : TGCCAGACTGTTCGCA-GACGACTGC-C-TNCTGTAC---A----GATTCA---T-ACAAT--C--CA-C---CAG---G----G----ACN-----GCGA--GAC--T-CTNCAAGATGACCT-CAACAATCTACAGANA--T---GGG-AAGACA-ACTGGCAGATGT-CG-TTCAATCCTGANAAGTGCGAGGTNATACGAATCACCANCAAANGNAAACCAC--TCCAATCTCCTTACAAGATACACAACA
gi|32019                      : TGCCAGACTGTTTGCA-GACGATTGC-C-TCCTGTAC---A----TATTCA---T-TCAAT--C--CA-C---CAG---G----G----ACA-----GCAA--GGC--T-CTTCAAGATGATCT-CACCAATCTACAGACA--T---GGG-AAAACA-ATTGGCAGATGT-CA-TTCAAGCCTGAGAACTGCGAGGTAATACGAATCACCCACAAATGTAAACCAC--TCCAATCTCCTTACAAGATACACAACA
gi|32020                      : TGCCAGACTGTTTTCA-GATGATTGC-C-TCCTGTAC---A----GATACA---T-ACAAT--C--CA-C---CAG---G----G----ACA-----GCAA--GGC--T-CTTCAAGATGATCT-CACCAATCTACAGACA--T---GGG-AAAACA-ATTGGCAGATGT-CA-TTCAATCCTGAGAAATTTGAGGTAATACAAATCACCAACAAACGCAAACCAC--TCCAATCTCCTTACAAGGTACACAACA
gi|32021                      : TGACAGACTGTTTGCA-GACGATTGC-C-TCCTGTAC---A----GATGCA---T-ACAAT--C--CA-C---CAG---G----G----ACA-----GCAA--GGC--T-CTTCAAGATGACCT-CACCAATCTACAGACA--T---GGG-AAAACA-ATTGGCAGATTT-CA-TTCTCTCCTGAGAAATGTGAGGTAATACGAATCACCAGCAAACGTAAACCAC--ACCAATCTCCTTACAAGATTCACATCA
gi|32022                      : TGCCAGACTGTTTGCA-GACGACTGC-A-TCCTGTAC---A----GATTCA---T-ACAAC--T--CA-C---CAA---G----G----ACA-----GCAA--GAC--T-CTTCAAGATGATCT-CACCAATCTACAGACA--T---GGGAAAAACA-ATTGACAGATGT-CA-TTCAATCCTAAGAAATGCGAGGTAATACGAATCACCAACAAATGTAGACCAC--TCCAATCTCCGTACAAAATACAAAACA
gi|32023                      :    CAGACTATTCGCAAGTTGACAGC-C-TGCTATACTGGA----GAATCA-------AAT--C---------------A----G----AAT-----GCGACTGACATT-CTGCAGAAAGACCT-CAGAAGCCTGGAACAA--T---GGG-AAGCCA-ACTGGCAGATGC-AG-TTCAATCCATCTAAGTGCG-TGTCATACGAATAAACCGCAAGAGGAAGCC
gi|32024                      :       ACAGTTTGCC-GATGGCAGC-C-TGTTGTAT---AAGAAGGTTCGCTCT-ACTGC--TGACA-C---CAA---G----GTCCTACA-----AGAA--GAC----CTACAAGAAGACCT-GAACAGACTCCAGAAG--T---GGG-AAGAAG-ACTGGATGATGT-AA-TTCAATCCCAGTAAGTGCTGTGTAAACCGCATCAC
gi|32025                      :        CTTTTCGCA-GACGAC-ACAC-TGTTGTA------------TCA---T-TCTGT--C--CA-TGCACAGTCGGAAC-G----ACT-----GCGA--CAA--G-CTACAAGATGATCT-------TCTTGAAAGA--T---GGG-AAG-CAGACTGGCAGATGT-TA-TTTCACCCTGACAAGTGCAAGGTGATTCATATCACCACTAAAaaagaa
gi|32026                      :        CTTTTTGCA-GACGATTGC-C-TACTCTAC---C----GAGTCA---TCAAAAG--C-----C---CAGA--A----G----ACC-----ACAC--CAC--C-CTCCAACAGGACCTACAACAA-CTAGAGACA--T---GGA-CAGATA-CATGGGGTATG--CGTTTTAATGCAAAGAAATGC
gi|32027                      :        CTCTTTGCA-GACGAC-AC-TATAGTGTACCTAAC---AATTAA---T-ACAATGTC--T-----------------G----ATC-----CCTA--AAC--T-CTCCCAAATGATCT-TAACACCCTA--GAAAATT---AGG-AAGAAA-ACTGGTCTATGG-AA-TTCAAGGCAGATAAATGTGAAGTCATAAGAATAACAA--AAAAGAAAAACACCGTCATATCCCCCTATAAATTACACAATA
gi|32028                      :           TTCGCA-GATGACAGC-C-TGTTTTAC---A----GA---------AGAAT--C--AAAT---CAG---AACGCG----ACT-----CTGA--GAT--T-CTGCAAGAAGGCAT-AAGAAGCCTGGAGCAA--T---GGG-AAACCG-ACTGGCAGATGC-AA-TTCAATCCATCCAAGTGCAAAGTCATTCGAATAACCCGCAA
gi|32029                      :                                                  CA---T-AC-----T--CA-C---CAG---AAT--G----ACGAAGATGCCA--GAC--TATTACAACATGACCT-CGACAGCCTTCA-AGA--TTCGGGG-CAGG---ACCGGCAGATGT-TG-TTCCATCTGAAGAATTGCAAAGTCATACAAATCAGTACCAAATGCAA
gi|32030                      :                                                                            atgattgttttgtttac-----GCAA--GAC--T-CTTCAAGACAACCT-CACTGATCTACAGACA--T---TGA-AAAACA-CTTGGCAGAAGT-CA-TTAAATCCTGAGAAATGCGAAGTAATACAAATCACCAATAAATGTAAACCTC--TCCAATCTTCATAAAACATACACAACA
gi|32031                      :                                                                                                           --T-CTTCAAAATGATCT-TAA-AACCT-CAGAAAATT---GGG-AAGAAA-ATTGATAGATGG-AA-TTCAAAGCAGATAAATGTGAAGTCATAAGAATAACAAAAAGAAGAATACCA---TCATATTCTCTTATAAATTGCACAATA
gi|32032                      :                                                                                                              -CTACAAGACGATCTTCAA-AATCTTGAAAGA--T---GGA-AAGCCG-ACTGGCAGATGT-CG-TTTCACCCTGACAAGTGCAAGGTGATCCATATGACCACTAAACG
gi|32033                      :                                                                                                              -CTACAAGATGGTTTTCAA-AATCTAGAAAGA--T---GAG-AAGCCA-ACTGGCATATGT-CC-TTTCACACTGCCAAGTGTGAGGTGATTCATATCACCATTAAAAG--AACCAC--T
gi|32034                      :                                                                                                                   AAGATGATCTTCAA-AATCTTGAAAGA--T---TAG-AAACCG-ACTGGCAGATGTCCT-TTCAA-CCTGACAAGTGCGAATTGATTCATATCACCACTAAAAGAA