lowQualScore                  :                                                 11111                                                                                            
lowQualScore                  :        33   2   2      2   4 4      44   2  4   77777  2   2   2     44 2       2 33    999999 2  2    33 4   666  4 2     2     2  9 6 2    2   
lowQualScore                  :        ..   .   .      .   . .      ..   .  .   .....  .   .   .     .. .       . ..    ...... .  .    .. .   ...  . .     .     .  . . .    .   
lowQualScore                  :        11   4   4      4   7 7      11   4  7   44444  2   2   2     99 2       2 11    444444 2  2    11 4   999  4 2     2     5  9 0 9    9   
consensus                     : CAAAGTT-CAAA-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAA---T-TA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TA-CGGT--A-TTC---AA-T-AGGGT-CTGCA-ACCATA-AGTA-AAA
Reference ( gi|90016 )        : CAAAGTT-CAAA-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAA---T-TA-CGG-TAG-ATTCTT-A-CGAGTGG-A--TACC------A-TA-CGGT--A-TTC---AA-T-AGGGT-CTGCA-ACAATA-AGTA-AAA
gi|90015                      : CAAAGTT-CAAA-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAA---T-TA-CGG-TAG-ATTCTT-A-CGAGTGG-A--TACC------A-TA-CGGT--A-TTC---AA-T-AGGGT-CTGCA-ACAATA-AGTA-AAA
gi|90017                      : CAAAGTT-CAAA-AAG-TGGAGA-CCA-A-CACCTT-CACG-TT-AAA---AATA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TG-CGGT--A-TTC---AA-T-AGGGT-CTGCA-ACCATA-AGTA-AAA
gi|90018                      : CAAAGTT-CAAT-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAAA--T-TA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TATCGATATTA-TA-CGGT--A-TTC---AA-T-AGGGT-CTGCA-ACCATA-AGTA-AAA
gi|90021                      : CAAAGTT-TAAA-AAC-TGGAGG-CCA-A-TACCTT-CTTG-TT-AAA---A-TA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TG-CAGT--A-TTC---AA-T-AGGGT-CTGCA-AC
gi|90019                      : CAAAGTT-CAAA-AAC-TGGCG--CCA-ACCACCTT--AGG-TTAAAA---T-TG-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TA-C-GT--A-TT----AA-T-AGGGT-CTGCA-ACCATA-AGTA-AA
gi|90020                      : CAAAGTT-CAAA-A-C-TGGAGA-CCA---CACCTT--AGG-TT-AAAA--T-TG-CGG-TAG-ATTCTC---CG-GTGG-A--TACC------A-TA-CGGTTAA-TTTCA-AA-T-AGGGT-CTGCA-A-AACATAGTA-AA
gi|90022                      : CAAAGTTATAAA-AAC-TGGAGA-CCA-AACACCGT-CAGGGTT-AAA---AATA-CA---AG-ATTCTC-A-CGAGTGG-GATTACC------A-TG-CGGT--A-T-C---AA-T-AGGGTTCTGCA-ACCATA-AGTA-AAA
gi|90023                      : CAAAGTT--AAA-AAC-TGGAGA-CTACA-CACC-T-GAGG-TT-AAA---A-TATCGG-TTG-ATTCTC-A-T-AGTGG-A--TACC------A-CG-TGGT--A-TTC---AA-T-AGGGT-CTGTA-TCCA-A-AGTA-
gi|90024                      : CAAAGTC---AA-AGC-TGGAGA-CCA-A-CA-CTT-GAGG-TTAAAA---T-TA-CGG-GCG-AATCTC-A-CGAGCGG-A--TACC------T-AA-CGGT--AGTTC---AA-T-AGGGT-CTG
gi|90025                      : CAAGTTT-CAAA-AAC-TGAA---CCA-A-CACTTT-CAGG-TT-AAA---T--A-CG--TAG-ATTCTT-A-CGAGTGG-A--TACA------ATTA-CGTT--T-TTTTAAAA-TCAATGT-C--CA-ACAAT--AGTA-AAA
gi|90026                      :  AAAGTT-CAAA-AAAATGGAGA-CCA-A-CACCTC-CAGG-TT-AAA---A-TT-CGG-TAGCATTCTC-ATCGAGT--------CCCA----A-TA-C-GT--A--TC---AATT-AAGGT-CTGCACACCATA-AGTA-AA
gi|90027                      :  AAATTT-CAAA-AAC-TGGAGA-CCA-A-CACCGT-CAGG-TT-AAA---
gi|90028                      :   AAGTT-CAAA-AAC-TGGAGAACCAGA-CACCTT-CAGG-TT-AAAA--T-TA-CGGGTAG-ATTCTC-A-CGAGTGGGA--TACC------A-TATCGGT--AATTC---AA-T-AGGGT-CTGCA-ACCATA-AGTA-AAA
gi|90029                      :   AAGTC-CAAA---C-TTGAAA-CCA-A-AAC-------A-TT-AAAAGTT-TG-CGG-AAA-ATTCCC-A-TGAGTAG-A--TACC------A-TA-TGGC--A-TTC---AA-T-AGGGT-CTG
gi|90030                      :     GTT-AAAACAGC-TGGAGG-CCA-A-CACCTC-GAGG-TT-TAA---TATA-TGG-ATG-AATCTC-A-CGAGTGG-A--TACT------G-CA-CAGT--A-TTC---AA-C-AGGGT-CTGTA-TCCA-A-AGTA-AAA
gi|90031                      :          AAA-ATC-TGGAGA-CTA-A-CACCTT-CAGG-TT-AAA---A--A-CAC-TAG-ATTCTC-A-CTAGTGG-A--TACC------A-TG-TGGT--A-TTC---AA-T-AGGGT-GTGCA-ACCAGA-AGTA-AAA
gi|90032                      :           AA-AAC-TGGAGA-CCA-A-CACCTTGCAGT-TT-AAT---T-TG-TGG-AAG-ATTCTT-A-CAAGTGG-A--TACC------A-TG-CAGT--A-TTC---AG-T-AGTAT-CTGGA-TCCA-A-AGTATAAA
gi|90033                      :                                               AA---T-GA-TGG-TAG-ATTTTTTA-GGAGTGG-A--TACC------T-TA--GGT--A-TTC---AATT-TGGGT-CTGTA-
gi|90034                      :                                                     -TA-CGG-TAA-ATTCTC-A-CAAGAGG-A--TACT------A-TG-TGGT----TTC---AA-T-GCGGT-CTGCA-ACCAGA-AGTA-GAttataatta





Alignments
lowQualScore                  :                                                 11111                                                                                            
lowQualScore                  :        2    2   2      2   4 4      33   2  4   66666  2   2   2      2 2       2 22    888888 2  2    22 4   666  4 2     2    2 2    3     2   
lowQualScore                  :        .    .   .      .   . .      ..   .  .   .....  .   .   .      . .       . ..    ...... .  .    .. .   ...  . .     .    . .    .     .   
lowQualScore                  :        5    2   2      2   4 4      33   2  4   00000  1   1   1      1 1       1 99    999999 1  1    99 2   666  2 1     1    4 4    2     5   
consensus                     : CAAAGTT-CAAA-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAA---T-TA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TA-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACCATAAGTA-AAA
Reference ( family-764 )      : CAAAGTT-CAAA-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAA---T-TA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TA-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACCATAAGTA-AAA
gi|90015                      : CAAAGTT-CAAA-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAA---T-TA-CGG-TAG-ATTCTT-A-CGAGTGG-A--TACC------A-TA-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACAATAAGTA-AAA
gi|90016                      : CAAAGTT-CAAA-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAA---T-TA-CGG-TAG-ATTCTT-A-CGAGTGG-A--TACC------A-TA-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACAATAAGTA-AAA
gi|90017                      : CAAAGTT-CAAA-AAG-TGGAGA-CCA-A-CACCTT-CACG-TT-AAA---AATA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TG-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACCATAAGTA-AAA
gi|90018                      : CAAAGTT-CAAT-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAAA--T-TA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TATCGATATTA-TA-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACCATAAGTA-AAA
gi|90019                      : CAAAGTT-CAAA-AAC-TGGCG--CCA-ACCACCTT--AGG-TTAAAA---T-TG-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TA-C-GT--A-TT----AA-T-AGGGT-CTGC-A-ACCATAAGTA-AA
gi|90020                      : CAAAGTT-CAAA-A-C-TGGAGA-CCA---CACCTT--AGG-TT-AAAA--T-TG-CGG-TAG-ATTCTC---CG-GTGG-A--TACC------A-TA-CGGTTAA-TTTCA-AA-T-AGGGT-CTGCAA-AACAT-AGTA-AA
gi|90021                      : CAAAGTT-TAAA-AAC-TGGAGG-CCA-A-TACCTT-CTTG-TT-AAA---A-TA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TG-CAGT--A-TTC---AA-T-AGGGT-CTGC-A-AC
gi|90022                      : CAAAGTTATAAA-AAC-TGGAGA-CCA-AACACCGT-CAGGGTT-AAA---AATA-CA---AG-ATTCTC-A-CGAGTGG-GATTACC------A-TG-CGGT--A-T-C---AA-T-AGGGTTCTGC-A-ACCATAAGTA-AAA
gi|90023                      : CAAAGTT--AAA-AAC-TGGAGA-CTACA-CACC-T-GAGG-TT-AAA---A-TATCGG-TTG-ATTCTC-A-T-AGTGG-A--TACC------A-CG-TGGT--A-TTC---AA-T-AGGGT-CTGT-A-TCCA-AAGTA-
gi|90024                      : CAAAGTC---AA-AGC-TGGAGA-CCA-A-CA-CTT-GAGG-TTAAAA---T-TA-CGG-GCG-AATCTC-A-CGAGCGG-A--TACC------T-AA-CGGT--AGTTC---AA-T-AGGGT-CTG
gi|90025                      : CAAGTTT-CAAA-AAC-TGAA---CCA-A-CACTTT-CAGG-TT-AAA---T--A-CG--TAG-ATTCTT-A-CGAGTGG-A--TACA------ATTA-CGTT--T-TTTTAAAA-TCAATGT-C--C-A-ACAAT-AGTA-AAA
gi|90026                      :  AAAGTT-CAAA-AAAATGGAGA-CCA-A-CACCTC-CAGG-TT-AAA---A-TT-CGG-TAGCATTCTC-ATCGAGT--------CCCA----A-TA-C-GT--A--TC---AATT-AAGGT-CTGC-ACACCATAAGTA-AA
gi|90027                      :  AAATTT-CAAA-AAC-TGGAGA-CCA-A-CACCGT-CAGG-TT-AAA---
gi|90028                      :   AAGTT-CAAA-AAC-TGGAGAACCAGA-CACCTT-CAGG-TT-AAAA--T-TA-CGGGTAG-ATTCTC-A-CGAGTGGGA--TACC------A-TATCGGT--AATTC---AA-T-AGGGT-CTGC-A-ACCATAAGTA-AAA
gi|90029                      :   AAGTC-CAAA---C-TTGAAA-CCA-A-AAC-------A-TT-AAAAGTT-TG-CGG-AAA-ATTCCC-A-TGAGTAG-A--TACC------A-TA-TGGC--A-TTC---AA-T-AGGGT-CTG
gi|90030                      :     GTT-AAAACAGC-TGGAGG-CCA-A-CACCTC-GAGG-TT-TAA---TATA-TGG-ATG-AATCTC-A-CGAGTGG-A--TACT------G-CA-CAGT--A-TTC---AA-C-AGGGT-CTGT-A-TCCA-AAGTA-AAA
gi|90031                      :          AAA-ATC-TGGAGA-CTA-A-CACCTT-CAGG-TT-AAA---A--A-CAC-TAG-ATTCTC-A-CTAGTGG-A--TACC------A-TG-TGGT--A-TTC---AA-T-AGGGT-GTGC-A-ACCAGAAGTA-AAA
gi|90032                      :           AA-AAC-TGGAGA-CCA-A-CACCTTGCAGT-TT-AAT---T-TG-TGG-AAG-ATTCTT-A-CAAGTGG-A--TACC------A-TG-CAGT--A-TTC---AG-T-AGTAT-CTGG-A-TCCA-AAGTATAAA
gi|90033                      :                                               AA---T-GA-TGG-TAG-ATTTTTTA-GGAGTGG-A--TACC------T-TA--GGT--A-TTC---AATT-TGGGT-CTGT---ATTATAATTA-
gi|90034                      :                                                     -TA-CGG-TAA-ATTCTC-A-CAAGAGG-A--TACT------A-TG-TGGT----TTC---AA-T-GCGGT-CTGC-A-ACCAGAAGTA-GA





Alignments
lowQualScore                  :                                                 11111                                                                                            
lowQualScore                  :        2    2   2      2   4 4      33   2  4   66666  2   2   2      2 2       2 22    888888 2  2    22 4   666  4 2     2    2 2    3     2   
lowQualScore                  :        .    .   .      .   . .      ..   .  .   .....  .   .   .      . .       . ..    ...... .  .    .. .   ...  . .     .    . .    .     .   
lowQualScore                  :        5    2   2      2   4 4      33   2  4   00000  1   1   1      1 1       1 99    999999 1  1    99 2   666  2 1     1    4 4    2     5   
consensus                     : CAAAGTT-CAAA-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAA---T-TA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TA-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACCATAAGTA-AAA
Reference ( family-764 )      : CAAAGTT-CAAA-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAA---T-TA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TA-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACCATAAGTA-AAA
gi|90015                      : CAAAGTT-CAAA-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAA---T-TA-CGG-TAG-ATTCTT-A-CGAGTGG-A--TACC------A-TA-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACAATAAGTA-AAA
gi|90016                      : CAAAGTT-CAAA-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAA---T-TA-CGG-TAG-ATTCTT-A-CGAGTGG-A--TACC------A-TA-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACAATAAGTA-AAA
gi|90017                      : CAAAGTT-CAAA-AAG-TGGAGA-CCA-A-CACCTT-CACG-TT-AAA---AATA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TG-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACCATAAGTA-AAA
gi|90018                      : CAAAGTT-CAAT-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAAA--T-TA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TATCGATATTA-TA-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACCATAAGTA-AAA
gi|90019                      : CAAAGTT-CAAA-AAC-TGGCG--CCA-ACCACCTT--AGG-TTAAAA---T-TG-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TA-C-GT--A-TT----AA-T-AGGGT-CTGC-A-ACCATAAGTA-AA
gi|90020                      : CAAAGTT-CAAA-A-C-TGGAGA-CCA---CACCTT--AGG-TT-AAAA--T-TG-CGG-TAG-ATTCTC---CG-GTGG-A--TACC------A-TA-CGGTTAA-TTTCA-AA-T-AGGGT-CTGCAA-AACAT-AGTA-AA
gi|90021                      : CAAAGTT-TAAA-AAC-TGGAGG-CCA-A-TACCTT-CTTG-TT-AAA---A-TA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TG-CAGT--A-TTC---AA-T-AGGGT-CTGC-A-AC
gi|90022                      : CAAAGTTATAAA-AAC-TGGAGA-CCA-AACACCGT-CAGGGTT-AAA---AATA-CA---AG-ATTCTC-A-CGAGTGG-GATTACC------A-TG-CGGT--A-T-C---AA-T-AGGGTTCTGC-A-ACCATAAGTA-AAA
gi|90023                      : CAAAGTT--AAA-AAC-TGGAGA-CTACA-CACC-T-GAGG-TT-AAA---A-TATCGG-TTG-ATTCTC-A-T-AGTGG-A--TACC------A-CG-TGGT--A-TTC---AA-T-AGGGT-CTGT-A-TCCA-AAGTA-
gi|90024                      : CAAAGTC---AA-AGC-TGGAGA-CCA-A-CA-CTT-GAGG-TTAAAA---T-TA-CGG-GCG-AATCTC-A-CGAGCGG-A--TACC------T-AA-CGGT--AGTTC---AA-T-AGGGT-CTG
gi|90025                      : CAAGTTT-CAAA-AAC-TGAA---CCA-A-CACTTT-CAGG-TT-AAA---T--A-CG--TAG-ATTCTT-A-CGAGTGG-A--TACA------ATTA-CGTT--T-TTTTAAAA-TCAATGT-C--C-A-ACAAT-AGTA-AAA
gi|90026                      :  AAAGTT-CAAA-AAAATGGAGA-CCA-A-CACCTC-CAGG-TT-AAA---A-TT-CGG-TAGCATTCTC-ATCGAGT--------CCCA----A-TA-C-GT--A--TC---AATT-AAGGT-CTGC-ACACCATAAGTA-AA
gi|90027                      :  AAATTT-CAAA-AAC-TGGAGA-CCA-A-CACCGT-CAGG-TT-AAA---
gi|90028                      :   AAGTT-CAAA-AAC-TGGAGAACCAGA-CACCTT-CAGG-TT-AAAA--T-TA-CGGGTAG-ATTCTC-A-CGAGTGGGA--TACC------A-TATCGGT--AATTC---AA-T-AGGGT-CTGC-A-ACCATAAGTA-AAA
gi|90029                      :   AAGTC-CAAA---C-TTGAAA-CCA-A-AAC-------A-TT-AAAAGTT-TG-CGG-AAA-ATTCCC-A-TGAGTAG-A--TACC------A-TA-TGGC--A-TTC---AA-T-AGGGT-CTG
gi|90030                      :     GTT-AAAACAGC-TGGAGG-CCA-A-CACCTC-GAGG-TT-TAA---TATA-TGG-ATG-AATCTC-A-CGAGTGG-A--TACT------G-CA-CAGT--A-TTC---AA-C-AGGGT-CTGT-A-TCCA-AAGTA-AAA
gi|90031                      :          AAA-ATC-TGGAGA-CTA-A-CACCTT-CAGG-TT-AAA---A--A-CAC-TAG-ATTCTC-A-CTAGTGG-A--TACC------A-TG-TGGT--A-TTC---AA-T-AGGGT-GTGC-A-ACCAGAAGTA-AAA
gi|90032                      :           AA-AAC-TGGAGA-CCA-A-CACCTTGCAGT-TT-AAT---T-TG-TGG-AAG-ATTCTT-A-CAAGTGG-A--TACC------A-TG-CAGT--A-TTC---AG-T-AGTAT-CTGG-A-TCCA-AAGTATAAA
gi|90033                      :                                               AA---T-GA-TGG-TAG-ATTTTTTA-GGAGTGG-A--TACC------T-TA--GGT--A-TTC---AATT-TGGGT-CTGT---ATTATAATTA-
gi|90034                      :                                                     -TA-CGG-TAA-ATTCTC-A-CAAGAGG-A--TACT------A-TG-TGGT----TTC---AA-T-GCGGT-CTGC-A-ACCAGAAGTA-GA


blockSeqs                     :        A    C   A      A   C C      GC   G  A   AGTT   T   G   C      T T       G AT    GATATT T  T    TA G   TAA  T C     T    A C    T     T
blockSeqs                     :        .    .   .      .   G A      C    .  A   AA     .   .   .      . .       . .     CA     .  .    .  A   CA   T .     .    . .    T     .
blockSeqs                     :        .    .   .      .   . .      C    .  .   AT     .   .   .      . .       . .     .      .  .    .  .   .    . .     .    . .    T     .
blockSeqs                     :        .    .   .      .   . .      C    .  .   AT     .   .   .      . .       . .     .      .  .    .  .   .    . .     .    . .    T     .
blockSeqs                     :        .    .   .      .   . .      C    .  .   AA     .   .   .      . .       . .     .      .  .    .  .   .    . .     .    . .    T     .
blockSeqs                     :        .    .   .      .   . .      C    .  .   AT     .   .   .      . .       . .     .      .  .    .  .   .    . .     .    . .    T     .
blockSeqs                     :        .    .   .      .   . .      G    .  .   TA     .   .   .      . .       . .     .      .  .    .  .   .    . .     .    . .    T     .
blockSeqs                     :        .    .   .      .   . .      G    .  .   T      .   .   .      . .       . .     .      .  .    .  .   .    . .     .    . .    T     .
blockSeqs                     :        .    .   .      .   . .      C    .  .   T      .   .   .      . .       . .     .      .  .    .  .   .    . .     .    . .    T     .
blockSeqs                     :        .    .   .      .   . .      C    .  .   A      .   .   .      . .       . .     .      .  .    .  .   .    . .     .    . .    G     .
blockSeqs                     :        .    .   .      .   . .      C    .  .   A      .   .   .      . .       . .     .      .  .    .  .   .    . .     .    . .    T     .
blockSeqs                     :        .    .   .      .   . .      C    .  .   T      .   .   .      . .       . .     .      .  .    .  .   .    . .     .    . .    G     .
blockSeqs                     :        .    .   .      .   . .      G    .  .   T      .   .   .      . .       . .     .      .  .    .  .   .    . .     .    . .    .     .
blockSeqs                     :        .    .   .      .   . .      C    .  .   A      .   .   .      . .       . .     .      .  .    .  .   .    . .     .    . .    .     .
blockSeqs                     :        .    .   .      .   . .      .    .  .   A      .   .   .      . .       . .     .      .  .    .  .   .    . .     .    . .    .     .
blockSeqs                     :             .   .      .   . .      .    .  .   T      .   .   .      . .       . .     .      .  .    .  .   .    . .     .    . .           
blockSeqs                     :             .   .      .   . .      .    .  .   T      .   .   .      . .       . .     .      .  .    .  .   .    . .     .                  
blockSeqs                     :                                                        .   .   .      . .       . .     .      .  .    .  .   .    . .     .                  


blockSeqCons                  : 
originalCons                  : CAAAGTT-CAAA-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAA---T-TA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TA-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACCATAAGTA-AAA
finalCons                     : CAAAGTT-CAAA-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAA---T-TA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TA-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACCATAAGTA-AAA





Alignments
lowQualScore                  :                                                 11111                                                                                            
lowQualScore                  :        2    2   2      2   4 4      33   2  4   66666  2   2   2      2 2       2 22    888888 2  2    22 4   666  4 2     2    2 2    3     2   
lowQualScore                  :        .    .   .      .   . .      ..   .  .   .....  .   .   .      . .       . ..    ...... .  .    .. .   ...  . .     .    . .    .     .   
lowQualScore                  :        5    2   2      2   4 4      33   2  4   00000  1   1   1      1 1       1 99    999999 1  1    99 2   666  2 1     1    4 4    2     5   
consensus                     : CAAAGTT-CAAA-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAA---T-TA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TA-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACCATAAGTA-AAA
Reference ( family-764 )      : CAAAGTT-CAAA-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAA---T-TA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TA-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACCATAAGTA-AAA
gi|90015                      : CAAAGTT-CAAA-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAA---T-TA-CGG-TAG-ATTCTT-A-CGAGTGG-A--TACC------A-TA-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACAATAAGTA-AAA
gi|90016                      : CAAAGTT-CAAA-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAA---T-TA-CGG-TAG-ATTCTT-A-CGAGTGG-A--TACC------A-TA-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACAATAAGTA-AAA
gi|90017                      : CAAAGTT-CAAA-AAG-TGGAGA-CCA-A-CACCTT-CACG-TT-AAA---AATA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TG-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACCATAAGTA-AAA
gi|90018                      : CAAAGTT-CAAT-AAC-TGGAGA-CCA-A-CACCTT-CAGG-TT-AAAA--T-TA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TATCGATATTA-TA-CGGT--A-TTC---AA-T-AGGGT-CTGC-A-ACCATAAGTA-AAA
gi|90019                      : CAAAGTT-CAAA-AAC-TGGCG--CCA-ACCACCTT--AGG-TTAAAA---T-TG-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TA-C-GT--A-TT----AA-T-AGGGT-CTGC-A-ACCATAAGTA-AA
gi|90020                      : CAAAGTT-CAAA-A-C-TGGAGA-CCA---CACCTT--AGG-TT-AAAA--T-TG-CGG-TAG-ATTCTC---CG-GTGG-A--TACC------A-TA-CGGTTAA-TTTCA-AA-T-AGGGT-CTGCAA-AACAT-AGTA-AA
gi|90021                      : CAAAGTT-TAAA-AAC-TGGAGG-CCA-A-TACCTT-CTTG-TT-AAA---A-TA-CGG-TAG-ATTCTC-A-CGAGTGG-A--TACC------A-TG-CAGT--A-TTC---AA-T-AGGGT-CTGC-A-AC
gi|90022                      : CAAAGTTATAAA-AAC-TGGAGA-CCA-AACACCGT-CAGGGTT-AAA---AATA-CA---AG-ATTCTC-A-CGAGTGG-GATTACC------A-TG-CGGT--A-T-C---AA-T-AGGGTTCTGC-A-ACCATAAGTA-AAA
gi|90023                      : CAAAGTT--AAA-AAC-TGGAGA-CTACA-CACC-T-GAGG-TT-AAA---A-TATCGG-TTG-ATTCTC-A-T-AGTGG-A--TACC------A-CG-TGGT--A-TTC---AA-T-AGGGT-CTGT-A-TCCA-AAGTA-
gi|90024                      : CAAAGTC---AA-AGC-TGGAGA-CCA-A-CA-CTT-GAGG-TTAAAA---T-TA-CGG-GCG-AATCTC-A-CGAGCGG-A--TACC------T-AA-CGGT--AGTTC---AA-T-AGGGT-CTG
gi|90025                      : CAAGTTT-CAAA-AAC-TGAA---CCA-A-CACTTT-CAGG-TT-AAA---T--A-CG--TAG-ATTCTT-A-CGAGTGG-A--TACA------ATTA-CGTT--T-TTTTAAAA-TCAATGT-C--C-A-ACAAT-AGTA-AAA
gi|90026                      :  AAAGTT-CAAA-AAAATGGAGA-CCA-A-CACCTC-CAGG-TT-AAA---A-TT-CGG-TAGCATTCTC-ATCGAGT--------CCCA----A-TA-C-GT--A--TC---AATT-AAGGT-CTGC-ACACCATAAGTA-AA
gi|90027                      :  AAATTT-CAAA-AAC-TGGAGA-CCA-A-CACCGT-CAGG-TT-AAA---
gi|90028                      :   AAGTT-CAAA-AAC-TGGAGAACCAGA-CACCTT-CAGG-TT-AAAA--T-TA-CGGGTAG-ATTCTC-A-CGAGTGGGA--TACC------A-TATCGGT--AATTC---AA-T-AGGGT-CTGC-A-ACCATAAGTA-AAA
gi|90029                      :   AAGTC-CAAA---C-TTGAAA-CCA-A-AAC-------A-TT-AAAAGTT-TG-CGG-AAA-ATTCCC-A-TGAGTAG-A--TACC------A-TA-TGGC--A-TTC---AA-T-AGGGT-CTG
gi|90030                      :     GTT-AAAACAGC-TGGAGG-CCA-A-CACCTC-GAGG-TT-TAA---TATA-TGG-ATG-AATCTC-A-CGAGTGG-A--TACT------G-CA-CAGT--A-TTC---AA-C-AGGGT-CTGT-A-TCCA-AAGTA-AAA
gi|90031                      :          AAA-ATC-TGGAGA-CTA-A-CACCTT-CAGG-TT-AAA---A--A-CAC-TAG-ATTCTC-A-CTAGTGG-A--TACC------A-TG-TGGT--A-TTC---AA-T-AGGGT-GTGC-A-ACCAGAAGTA-AAA
gi|90032                      :           AA-AAC-TGGAGA-CCA-A-CACCTTGCAGT-TT-AAT---T-TG-TGG-AAG-ATTCTT-A-CAAGTGG-A--TACC------A-TG-CAGT--A-TTC---AG-T-AGTAT-CTGG-A-TCCA-AAGTATAAA
gi|90033                      :                                               AA---T-GA-TGG-TAG-ATTTTTTA-GGAGTGG-A--TACC------T-TA--GGT--A-TTC---AATT-TGGGT-CTGT---ATTATAATTA-
gi|90034                      :                                                     -TA-CGG-TAA-ATTCTC-A-CAAGAGG-A--TACT------A-TG-TGGT----TTC---AA-T-GCGGT-CTGC-A-ACCAGAAGTA-GA