lowQualScore                  :            11                  444444444444444444                                                                                                                                                           
lowQualScore                  :            22 4  1 1   4     1 111111111111111111           3        0 5    3   88888 1      77    3 3  9  3   3 3   9  33   3  33    0    33  2   1 555  2   33  0   66          2      77   3  555        
lowQualScore                  :            .. .  . .   .     . ..................           .        . .    .   ..... .      ..    . .  .  .   . .   .  ..   .  ..    .    ..  .   . ...  .   ..  .   ..          .      ..   .  ...        
lowQualScore                  :            22 4  1 9   4     1 333333333333333333           6        5 5    6   33333 6      99    3 3  3  3   1 1   2  33   1  55    6    99  9   5 000  9   99  1   88          7      99   3  888        
consensus                     :  TTTTATCAAT--A-TGGCAGCT-TCCATGG-ATTGT-AAAAA--T-TNGTTAATCTTTA-TGAAATATCTCCTTA-CTG-----AGGAAAGC--TACA-T-CTNTA-TGA-T-TTT-CAG-AAT-TC-ATTATATACA--TC-AAAAT---GA-CAA-TTTTAAA--CCCTTTGTCATATTTTC--ATG-AA---CACTTCCT
Reference ( gi|2 )            :  TTTTATCAAT--A-TGGCAGCT-TCCATGG-ATTGT-AAAAA--T-TAGTTAATCTTTA-TGAAATATCTTCTTA-CTG-----AGGAAAGC--TACA-T-CTGTA-TGA-T-TTT-CAA-AAT-TC-ATTATATACA--TC-AAAAT---GA-CAA-TTTTAAA--CCCTTTGTCATATTTTC--ATG-AA---CACTTCCT
gi|6                          :  TTTTATCAAA--AATGGCAGCT-TCCATGG-ATTGT-AAAGA--T-TTGCTAATCTTTA-TGAAATATCTCCTTA-CTGAAGATAAGAAAGC--TAGA-TCCTTTA-AGA-T-TTT-CAG-AAT-TC-ATTATATACA--TC-AAAAT---GA-CAA-TTTT--A--CCCCTTGTC
gi|5                          :  TTTCA-CAATTTA-TTGC-GCT-TCCATGG---T-T-AAAGA--T-TTGTTAATCTTTA-TTGAATAT-TCCTTA-CTG-----AAGAAAGC--TACA-T-CT-TA-TGAGT-TTT-CAG-AAT-TC-ATCAT-TACA--TC-AAAAT---GA-CAA-TTTTAAA--CCATTTGTC-TATTTTC--ATG-AA---CACT
gi|8                          :  TCTTATCAAT--A-TGGCAGCT-TTC------------------------CAATCTTTC-TGAAATATCTCCCTA-CTA-----ATGAAAGC--CACA-T-C-ATA-GGA-T-TTT-CAG-AAT-TC-ATT-TACACA--TC-AAAAG---GA-CAA--ATTAAA--CCC-TTGTTATATTTTC--ATGTTA---CACTTCTT
gi|11                         :  TTTTATCAAA--C-TGGCAGGC-TCCATGGTATTGTCAAAAA--T-TAGTTAATCTT-A-TGAA-TATCTCCTTA-CTG-----AGG-AAGCA-TACA-T-CTGGA-TG--T-TTT-CAA-AAT-TC--TTACATACtt
gi|3                          :  TTTCATCAATTTA-TG-C-GCT-TCCATGG-ATT-T-AAGAC--T-TTGTTAATCTTTATTGGAATATTCCTTTAGCTG-----AAG-AAGC--TACA-T-CT-T--TGA-TGTTT-CAG-AAT-TC--TCAGTTACA--TC-AAAAT---GACCAA-TTTTTAA--ACATTTGTCA-GTTTTC--ATG-AA---CA
gi|9                          :  TTTTATCAAT--A-CTGCAGCT-TCCAT----------------T-T-GTTAATCTT---------------------G-----ATGAAA------TA-T-CTCCA-T-------T-CAG-AAT-TC-ATTATATACA--TA-AAAAT---GG-CAA-TTTAAAA--CCCTTTGTCATATTTTC--ATG-AA---CACTTC
gi|4                          :   TTTATCAAT--A-TG-CA-CT-TCCATGG-ATTGT-AAAAA--TATAGTTAATCTTTA-TAAAAT---CTCCTA-CTG-----AGGAA-GC--TACA-T-CTGTA-TGG-T-TTTTCAA-AAT-TC-ATTATATACA--TC-AAA-T---GA-CAA-TTTTAAA--CCCTT-GTCATATTTTC--ATG-AA---CACTTC
gi|1                          :    TTCTCAAT--A-TGGCAGCTGTCCATGG-AGTGT-AAAACGTT-TAGTTAATCTTTA-TGAAA-ATCTCCGTA-CTG-----AGAAAGCC--TACAGT-CTGTA-TGA-T-TTT-CAA-AAT-TCGATTATATACA--TC-AAAAT---GA-CAATTTTTAAA--CCCTTTGTCATATTTTCCTATG-AA---CACTTCC
gi|10                         : ttaTTATCAAT--A-TGGCAG-T-TCCA-------------------------ATCTTTC-TGAAATATCTCCCTA-CTA-----ATGAAAGC--CACA-T-C-ATAGTGA-T-TTT-CAG-AAT-TC-ATTATACACA--TC-AAAAG---GA-CAA-ATTAAAA--CCCT
gi|7                          :                                           A--T-TTGTTAATCTTTA-AGAAATATCTCCTTA-CCG-----AAGAGAGCGCTATA-T-CTTTA-TGA-T-TTTGCAG-AAT-TC-ATTATATACA--TCTAGCCT---GA-CA---TTTAAAG-CCCTTTGTCATATTTTTA-ATG-AG----ACTT
gi|13                         :                                     ataacttgcaactgTTAATTTTTA-TGAAATATCTCCTTA-ATG-----GGGAAAGC--TACG-T-CTGTA-TGA-T-TTT-CAA-AAT-TC-CTTA-----------------------AA-CTTTA----------------TTTTC--ATG-AA---CACTTCCg
gi|12                         :                                                                                t-----AGAAAGGC--TACA-T-CTTTA-TCA-T-TTTTCAGGAATGTC-ATTATTTACAATTC-AAAATTTGGA-CAA-TTTTAAAAACCCTTTGTCAAATTTTC--ATG-AAAACCACTTCC
gi|15                         :                                                                                                              ga-T-TTT-CAA-AAT-TC-ATTATA--------------------CAA-TTAGAAA--CCCTTTGTCATATTTTC--ACG-AA---CAATTC
gi|14                         :                                                                                                                                        cACA--TC-CAAAT---GA-CAA-ATTAAAA--CTTTATGTTACATTTTC--ATG-TA---CCCTTCCT
gi|16                         :                                                                                                                                           A--TC-AAATT---GA-CAA-TTTAAAA--CCCTTTGTCAAATTTTC--ATG-AA---CAttaag





Alignments
lowQualScore                  :                         11                  2222222222222222                                                                                                                                                              
lowQualScore                  :                         11 4    0   4       3333333333333333 3           3               3   77777 0 0  44  3    3 3  4  3   2 2   8   2   2  44         33  2   0 444  2   33      66          1      77   3  555        
lowQualScore                  :                         .. .    .   .       ................ .           .               .   ..... . .  ..  .    . .  .  .   . .   .   .   .  ..         ..  .   . ...  .   ..      ..          .      ..   .  ...        
lowQualScore                  :                         00 0    8   0       4444444444444444 5           3               3   77777 7 4  22  1    1 1  0  1   9 9   6   9   9  44         77  7   8 777  7   66      33          8      33   1  444        
consensus                     :               TTTTATCAAT--A-TGGCAGCT-TCCATGG-ATTGT-AAAAA--T-TNGTTAATCTTTA-TGAAATATCTCCTTA-CTG-----AGGAAA--GC-TACA-T-CTNTA-TGA-T-TTT-CAG-AAT-TC-ATTATATACA--TC-AAAAT---GA-CAA-TTTTAAA--CCCTTTGTCATATTTTC--ATG-AA---CACTTCCT
Reference ( family-348 )      :               TTTTATCAAT--A-TGGCAGCT-TCCATGG-ATTGT-AAAAA--T-TNGTTAATCTTTA-TGAAATATCTCCTTA-CTG-----AGGAAA--GC-TACA-T-CTNTA-TGA-T-TTT-CAG-AAT-TC-ATTATATACA--TC-AAAAT---GA-CAA-TTTTAAA--CCCTTTGTCATATTTTC--ATG-AA---CACTTCCT
gi|1                          :                 TTCTCAAT--A-TGGCAGCTGTCCATGG-AGTGT-AAAACGTT-TAGTTAATCTTTA-TGAAA-ATCTCCGTA-CTG-----AGAAAG--CC-TACAGT-CTGTA-TGA-T-TTT-CAA-AAT-TCGATTATATACA--TC-AAAAT---GA-CAATTTTTAAA--CCCTTTGTCATATTTTCCTATG-AA---CACTTCC
gi|10                         :              ttaTTATCAAT--A-TGGCAG-T-TCCA-------------------------ATCTTTC-TGAAATATCTCCCTA-CTA-----ATGAAA--GC-CACA-T-C-ATAGTGA-T-TTT-CAG-AAT-TC-ATTATACACA--TC-AAAAG---GA-CAA-ATTAAAA--CCCT
gi|11                         :               TTTTATCAAA--C-TGGCAGGC-TCCATGGTATTGTCAAAAA--T-TAGTTAATCTT-A-TGAA-TATCTCCTTA-CTG-----AGG-AA--GCATACA-T-CTGGA-TG--T-TTT-CAA-AAT-TC--TTACATAC
gi|12                         :                                                                                              -----AGAAAG--GC-TACA-T-CTTTA-TCA-T-TTTTCAGGAATGTC-ATTATTTACAATTC-AAAATTTGGA-CAA-TTTTAAAAACCCTTTGTCAAATTTTC--ATG-AAAACCACTTCC
gi|13                         :                                                              gaTTAATTTTTA-TGAAATATCTCCTTA-ATG-----GGGAAA--GC-TACG-T-CTGTA-TGA-T-TTT-CAA-AAT-TC--------------------------------CTTAAA----CTTT-----ATTTTC--ATG-AA---CACTTCC
gi|14                         :                                                                                                                                                      tACA--TC-CAAAT---GA-CAA-ATTAAAA--CTTTATGTTACATTTTC--ATG-TA---CCCTTCCT
gi|15                         :                                                                                                                              -T-TTT-CAA-AAT-TC-ATTATA--------------------CAA-TTAGAAA--CCCTTTGTCATATTTTC--ACG-AA---CAATTCttaag
gi|16                         :                                                                                                                                                        cA--TC-AAATT---GA-CAA-TTTAAAA--CCCTTTGTCAAATTTTC--ATG-AA---CA
gi|2                          :               TTTTATCAAT--A-TGGCAGCT-TCCATGG-ATTGT-AAAAA--T-TAGTTAATCTTTA-TGAAATATCTTCTTA-CTG-----AGGAAA--GC-TACA-T-CTGTA-TGA-T-TTT-CAA-AAT-TC-ATTATATACA--TC-AAAAT---GA-CAA-TTTTAAA--CCCTTTGTCATATTTTC--ATG-AA---CACTTCCT
gi|3                          :               TTTCATCAATTTA-TG-C-GCT-TCCATGG-ATT-T-AAGAC--T-TTGTTAATCTTTATTGGAATATTCCTTTAGCTG-----AAG-AA--GC-TACA-T-CTT---TGA-TGTTT-CAG-AAT-TC--TCAGTTACA--TC-AAAAT---GACCAA-TTTTTAA--ACATTTGTCA-GTTTTC--ATG-AA---CA
gi|4                          :                TTTATCAAT--A-TG-CA-CT-TCCATGG-ATTGT-AAAAA--TATAGTTAATCTTTA-TAAAAT--CTCCT-A-CTG-----AGGAA---GC-TACA-T-CTGTA-TGG-T-TTTTCAA-AAT-TC-ATTATATACA--TC-AAA-T---GA-CAA-TTTTAAA--CCCTT-GTCATATTTTC--ATG-AA---CACTTC
gi|5                          :               TTTCA-CAATTTA-TTGC-GCT-TCCATGG---T-T-AAAGA--T-TTGTTAATCTTTA-TTGAATAT-TCCTTA-CTG-----AAGAAA--GC-TACA-T-CT-TA-TGAGT-TTT-CAG-AAT-TC-ATCAT-TACA--TC-AAAAT---GA-CAA-TTTTAAA--CCATTTGTC-TATTTTC--ATG-AA---CACT
gi|6                          :               TTTTATCAAA--AATGGCAGCT-TCCATGG-ATTGT-AAAGA--T-TTGCTAATCTTTA-TGAAATATCTCCTTA-CTGAAGATAAGAAA--GC-TAGA-TCCTTTA-AGA-T-TTT-CAG-AAT-TC-ATTATATACA--TC-AAAAT---GA-CAA-TTTT--A--CCCCTTGTC
gi|7                          :                                                        A--T-TTGTTAATCTTTA-AGAAATATCTCCTTA-CCG-----AAGAGAGCGC-TATA-T-CTTTA-TGA-T-TTTGCAG-AAT-TC-ATTATATACA--TCTAGCCT---GA-CA---TTTAAAG-CCCTTTGTCATATTTTTA-ATG-AG----ACTT
gi|8                          : ataacttgcaactgTCTTATCAAT--A-TGGCAGCT-TTC------------------------CAATCTTTC-TGAAATATCTCCCTA-CTA-----ATGAAA--GC-CACA-T-C-ATA-GGA-T-TTT-CAG-AAT-TC-ATT-TACACA--TC-AAAAG---GA-CAA--ATTAAA--CCC-TTGTTATATTTTC--ATGTTA---CACTTCTTg
gi|9                          :               TTTTATCAAT--A-CTGCAGCT-TCCAT------------------TTGTTAATCTTGA-TGAAATA---------------------------------T-CTCCA-T-------T-CAG-AAT-TC-ATTATATACA--TA-AAAAT---GG-CAA-TTTAAAA--CCCTTTGTCATATTTTC--ATG-AA---CACTTCtt





Alignments
lowQualScore                  :                         11                  2222222222222222                                                                                                                                                              
lowQualScore                  :                         11 4    0   4       3333333333333333 3           3               3   77777 0 0  44  3    3 3  4  3   2 2   8   2   2  44         33  2   0 444  2   33      66          1      77   3  555        
lowQualScore                  :                         .. .    .   .       ................ .           .               .   ..... . .  ..  .    . .  .  .   . .   .   .   .  ..         ..  .   . ...  .   ..      ..          .      ..   .  ...        
lowQualScore                  :                         00 0    8   0       4444444444444444 5           3               3   77777 7 4  22  1    1 1  0  1   9 9   6   9   9  44         77  7   8 777  7   66      33          8      33   1  444        
consensus                     :               TTTTATCAAT--A-TGGCAGCT-TCCATGG-ATTGT-AAAAA--T-TNGTTAATCTTTA-TGAAATATCTCCTTA-CTG-----AGGAAA--GC-TACA-T-CTNTA-TGA-T-TTT-CAG-AAT-TC-ATTATATACA--TC-AAAAT---GA-CAA-TTTTAAA--CCCTTTGTCATATTTTC--ATG-AA---CACTTCCT
Reference ( family-348 )      :               TTTTATCAAT--A-TGGCAGCT-TCCATGG-ATTGT-AAAAA--T-TNGTTAATCTTTA-TGAAATATCTCCTTA-CTG-----AGGAAA--GC-TACA-T-CTNTA-TGA-T-TTT-CAG-AAT-TC-ATTATATACA--TC-AAAAT---GA-CAA-TTTTAAA--CCCTTTGTCATATTTTC--ATG-AA---CACTTCCT
gi|1                          :                 TTCTCAAT--A-TGGCAGCTGTCCATGG-AGTGT-AAAACGTT-TAGTTAATCTTTA-TGAAA-ATCTCCGTA-CTG-----AGAAAG--CC-TACAGT-CTGTA-TGA-T-TTT-CAA-AAT-TCGATTATATACA--TC-AAAAT---GA-CAATTTTTAAA--CCCTTTGTCATATTTTCCTATG-AA---CACTTCC
gi|10                         :              ttaTTATCAAT--A-TGGCAG-T-TCCA-------------------------ATCTTTC-TGAAATATCTCCCTA-CTA-----ATGAAA--GC-CACA-T-C-ATAGTGA-T-TTT-CAG-AAT-TC-ATTATACACA--TC-AAAAG---GA-CAA-ATTAAAA--CCCT
gi|11                         :               TTTTATCAAA--C-TGGCAGGC-TCCATGGTATTGTCAAAAA--T-TAGTTAATCTT-A-TGAA-TATCTCCTTA-CTG-----AGG-AA--GCATACA-T-CTGGA-TG--T-TTT-CAA-AAT-TC--TTACATAC
gi|12                         :                                                                                              -----AGAAAG--GC-TACA-T-CTTTA-TCA-T-TTTTCAGGAATGTC-ATTATTTACAATTC-AAAATTTGGA-CAA-TTTTAAAAACCCTTTGTCAAATTTTC--ATG-AAAACCACTTCC
gi|13                         :                                                              gaTTAATTTTTA-TGAAATATCTCCTTA-ATG-----GGGAAA--GC-TACG-T-CTGTA-TGA-T-TTT-CAA-AAT-TC--------------------------------CTTAAA----CTTT-----ATTTTC--ATG-AA---CACTTCC
gi|14                         :                                                                                                                                                      tACA--TC-CAAAT---GA-CAA-ATTAAAA--CTTTATGTTACATTTTC--ATG-TA---CCCTTCCT
gi|15                         :                                                                                                                              -T-TTT-CAA-AAT-TC-ATTATA--------------------CAA-TTAGAAA--CCCTTTGTCATATTTTC--ACG-AA---CAATTCttaag
gi|16                         :                                                                                                                                                        cA--TC-AAATT---GA-CAA-TTTAAAA--CCCTTTGTCAAATTTTC--ATG-AA---CA
gi|2                          :               TTTTATCAAT--A-TGGCAGCT-TCCATGG-ATTGT-AAAAA--T-TAGTTAATCTTTA-TGAAATATCTTCTTA-CTG-----AGGAAA--GC-TACA-T-CTGTA-TGA-T-TTT-CAA-AAT-TC-ATTATATACA--TC-AAAAT---GA-CAA-TTTTAAA--CCCTTTGTCATATTTTC--ATG-AA---CACTTCCT
gi|3                          :               TTTCATCAATTTA-TG-C-GCT-TCCATGG-ATT-T-AAGAC--T-TTGTTAATCTTTATTGGAATATTCCTTTAGCTG-----AAG-AA--GC-TACA-T-CTT---TGA-TGTTT-CAG-AAT-TC--TCAGTTACA--TC-AAAAT---GACCAA-TTTTTAA--ACATTTGTCA-GTTTTC--ATG-AA---CA
gi|4                          :                TTTATCAAT--A-TG-CA-CT-TCCATGG-ATTGT-AAAAA--TATAGTTAATCTTTA-TAAAAT--CTCCT-A-CTG-----AGGAA---GC-TACA-T-CTGTA-TGG-T-TTTTCAA-AAT-TC-ATTATATACA--TC-AAA-T---GA-CAA-TTTTAAA--CCCTT-GTCATATTTTC--ATG-AA---CACTTC
gi|5                          :               TTTCA-CAATTTA-TTGC-GCT-TCCATGG---T-T-AAAGA--T-TTGTTAATCTTTA-TTGAATAT-TCCTTA-CTG-----AAGAAA--GC-TACA-T-CT-TA-TGAGT-TTT-CAG-AAT-TC-ATCAT-TACA--TC-AAAAT---GA-CAA-TTTTAAA--CCATTTGTC-TATTTTC--ATG-AA---CACT
gi|6                          :               TTTTATCAAA--AATGGCAGCT-TCCATGG-ATTGT-AAAGA--T-TTGCTAATCTTTA-TGAAATATCTCCTTA-CTGAAGATAAGAAA--GC-TAGA-TCCTTTA-AGA-T-TTT-CAG-AAT-TC-ATTATATACA--TC-AAAAT---GA-CAA-TTTT--A--CCCCTTGTC
gi|7                          :                                                        A--T-TTGTTAATCTTTA-AGAAATATCTCCTTA-CCG-----AAGAGAGCGC-TATA-T-CTTTA-TGA-T-TTTGCAG-AAT-TC-ATTATATACA--TCTAGCCT---GA-CA---TTTAAAG-CCCTTTGTCATATTTTTA-ATG-AG----ACTT
gi|8                          : ataacttgcaactgTCTTATCAAT--A-TGGCAGCT-TTC------------------------CAATCTTTC-TGAAATATCTCCCTA-CTA-----ATGAAA--GC-CACA-T-C-ATA-GGA-T-TTT-CAG-AAT-TC-ATT-TACACA--TC-AAAAG---GA-CAA--ATTAAA--CCC-TTGTTATATTTTC--ATGTTA---CACTTCTTg
gi|9                          :               TTTTATCAAT--A-CTGCAGCT-TCCAT------------------TTGTTAATCTTGA-TGAAATA---------------------------------T-CTCCA-T-------T-CAG-AAT-TC-ATTATATACA--TA-AAAAT---GG-CAA-TTTAAAA--CCCTTTGTCATATTTTC--ATG-AA---CACTTCtt


blockSeqs                     :                         TT A        .       TATTGTCAAAAAT    A           T               G   AAGAT      GC  A    . C  A  G   G G   T   G   G  A          AT  T     TTG  C   A       AA          A      A    T  AAC
blockSeqs                     :                         TT .        .       ATTGTAAAAATA     A           .               .   .          .   .    . .  G  .   . .   T   .   .  A          .   .     .    .   T       G           C      .    .  .  
blockSeqs                     :                         .  .        .       ATTGTAAAAAT      T           .               .   .          .   .    . .  T  .   . .   G   .   .  A          .   .     .    .   A       .           T      .    .  .  
blockSeqs                     :                         .  .        .       ATTGTAAAGAT      A           .               .   .          .   .    . .  G  .   . .   .   .   .  A          .   .     .    .   T       .           A      .    .  .  
blockSeqs                     :                         .  .        .       ATTTAAGACT       T           .               .   .          .   .    . .  G  .   . .   .   .   .  A          .   .     .    .   T       .           T      .    .  .  
blockSeqs                     :                         .  .        .       TTAAAGAT         T           .               .   .          .   .    . .  T  .   . .   .   .   .  A          .   .     .    .   T       .           T      .    .  .  
blockSeqs                     :                         .  .        .       .                T           .               .   .          .   .    . .  G  .   . .   .   .   .  A          .   .     .    .   T       .           T      .    .  .  
blockSeqs                     :                         .  .        .       .                T           .               .   .          .   .    . .  T  .   . .   .   .   .  A          .   .     .    .   T       .           T      .    .  .  
blockSeqs                     :                         .  .        .       .                .           .               .   .          .   .    . .  T  .   . .   .   .   .  A          .   .     .    .   T       .           T      .    .  .  
blockSeqs                     :                                                              .           .               .   .          .   .    . .  A  .   . .   .   .   .  A          .   .     .    .   T       .           T      .    .  .  
blockSeqs                     :                                                                          .               .   .          .   .    . .  C  .   . .   .   .   .  .          .   .     .    .   T       .           .      .    .  .  
blockSeqs                     :                                                                                              .          .   .    . .  .  .   . .   .   .   .  .          .   .     .    .   .       .           .      .    .  .  
blockSeqs                     :                                                                                                                              . .   .   .   .  .          .   .     .    .   .       .                             
blockSeqs                     :                                                                                                                                                          .   .     .    .   .       .                             


blockSeqCons                  :                                             ATTGTAAAAAT*****                                                                                  A*                            T*                         **
originalCons                  :               TTTTATCAAT--A-TGGCAGCT-TCCATGG-ATTGT-AAAAA--T-TNGTTAATCTTTA-TGAAATATCTCCTTA-CTG-----AGGAAA--GC-TACA-T-CTNTA-TGA-T-TTT-CAG-AAT-TC-ATTATATACA--TC-AAAAT---GA-CAA-TTTTAAA--CCCTTTGTCATATTTTC--ATG-AA---CACTTCCT
finalCons                     :               TTTTATCAAT--A-TGGCAGCT-TCCATGGATTGTAAAAAT-----TNGTTAATCTTTA-TGAAATATCTCCTTA-CTG-----AGGAAA--GC-TACA-T-CTNTA-TGA-T-TTT-CAG-AAT-TCA-TTATATACA--TC-AAAAT---GA-CAAT-TTTAAA--CCCTTTGTCATATTTTC--ATG-AA---CACTTCCT





Alignments
lowQualScore                  :                         11                  2222222222222222                                                                                                                                                              
lowQualScore                  :                         11 4    0   4       3333333333333333 3           3               3   77777 0 0  44  3    3 3  4  3   2 2   8   2   2  44         33  2   0 444  2   33      66          1      77   3  555        
lowQualScore                  :                         .. .    .   .       ................ .           .               .   ..... . .  ..  .    . .  .  .   . .   .   .   .  ..         ..  .   . ...  .   ..      ..          .      ..   .  ...        
lowQualScore                  :                         00 0    8   0       4444444444444444 5           3               3   77777 7 4  22  1    1 1  0  1   9 9   6   9   9  44         77  7   8 777  7   66      33          8      33   1  444        
consensus                     :               TTTTATCAAT--A-TGGCAGCT-TCCATGG-ATTGT-AAAAA--T-TNGTTAATCTTTA-TGAAATATCTCCTTA-CTG-----AGGAAA--GC-TACA-T-CTNTA-TGA-T-TTT-CAG-AAT-TC-ATTATATACA--TC-AAAAT---GA-CAA-TTTTAAA--CCCTTTGTCATATTTTC--ATG-AA---CACTTCCT
Reference ( family-348 )      :               TTTTATCAAT--A-TGGCAGCT-TCCATGG-ATTGT-AAAAA--T-TNGTTAATCTTTA-TGAAATATCTCCTTA-CTG-----AGGAAA--GC-TACA-T-CTNTA-TGA-T-TTT-CAG-AAT-TC-ATTATATACA--TC-AAAAT---GA-CAA-TTTTAAA--CCCTTTGTCATATTTTC--ATG-AA---CACTTCCT
gi|1                          :                 TTCTCAAT--A-TGGCAGCTGTCCATGG-AGTGT-AAAACGTT-TAGTTAATCTTTA-TGAAA-ATCTCCGTA-CTG-----AGAAAG--CC-TACAGT-CTGTA-TGA-T-TTT-CAA-AAT-TCGATTATATACA--TC-AAAAT---GA-CAATTTTTAAA--CCCTTTGTCATATTTTCCTATG-AA---CACTTCC
gi|10                         :              ttaTTATCAAT--A-TGGCAG-T-TCCA-------------------------ATCTTTC-TGAAATATCTCCCTA-CTA-----ATGAAA--GC-CACA-T-C-ATAGTGA-T-TTT-CAG-AAT-TC-ATTATACACA--TC-AAAAG---GA-CAA-ATTAAAA--CCCT
gi|11                         :               TTTTATCAAA--C-TGGCAGGC-TCCATGGTATTGTCAAAAA--T-TAGTTAATCTT-A-TGAA-TATCTCCTTA-CTG-----AGG-AA--GCATACA-T-CTGGA-TG--T-TTT-CAA-AAT-TC--TTACATAC
gi|12                         :                                                                                              -----AGAAAG--GC-TACA-T-CTTTA-TCA-T-TTTTCAGGAATGTC-ATTATTTACAATTC-AAAATTTGGA-CAA-TTTTAAAAACCCTTTGTCAAATTTTC--ATG-AAAACCACTTCC
gi|13                         :                                                              gaTTAATTTTTA-TGAAATATCTCCTTA-ATG-----GGGAAA--GC-TACG-T-CTGTA-TGA-T-TTT-CAA-AAT-TC--------------------------------CTTAAA----CTTT-----ATTTTC--ATG-AA---CACTTCC
gi|14                         :                                                                                                                                                      tACA--TC-CAAAT---GA-CAA-ATTAAAA--CTTTATGTTACATTTTC--ATG-TA---CCCTTCCT
gi|15                         :                                                                                                                              -T-TTT-CAA-AAT-TC-ATTATA--------------------CAA-TTAGAAA--CCCTTTGTCATATTTTC--ACG-AA---CAATTCttaag
gi|16                         :                                                                                                                                                        cA--TC-AAATT---GA-CAA-TTTAAAA--CCCTTTGTCAAATTTTC--ATG-AA---CA
gi|2                          :               TTTTATCAAT--A-TGGCAGCT-TCCATGG-ATTGT-AAAAA--T-TAGTTAATCTTTA-TGAAATATCTTCTTA-CTG-----AGGAAA--GC-TACA-T-CTGTA-TGA-T-TTT-CAA-AAT-TC-ATTATATACA--TC-AAAAT---GA-CAA-TTTTAAA--CCCTTTGTCATATTTTC--ATG-AA---CACTTCCT
gi|3                          :               TTTCATCAATTTA-TG-C-GCT-TCCATGG-ATT-T-AAGAC--T-TTGTTAATCTTTATTGGAATATTCCTTTAGCTG-----AAG-AA--GC-TACA-T-CTT---TGA-TGTTT-CAG-AAT-TC--TCAGTTACA--TC-AAAAT---GACCAA-TTTTTAA--ACATTTGTCA-GTTTTC--ATG-AA---CA
gi|4                          :                TTTATCAAT--A-TG-CA-CT-TCCATGG-ATTGT-AAAAA--TATAGTTAATCTTTA-TAAAAT--CTCCT-A-CTG-----AGGAA---GC-TACA-T-CTGTA-TGG-T-TTTTCAA-AAT-TC-ATTATATACA--TC-AAA-T---GA-CAA-TTTTAAA--CCCTT-GTCATATTTTC--ATG-AA---CACTTC
gi|5                          :               TTTCA-CAATTTA-TTGC-GCT-TCCATGG---T-T-AAAGA--T-TTGTTAATCTTTA-TTGAATAT-TCCTTA-CTG-----AAGAAA--GC-TACA-T-CT-TA-TGAGT-TTT-CAG-AAT-TC-ATCAT-TACA--TC-AAAAT---GA-CAA-TTTTAAA--CCATTTGTC-TATTTTC--ATG-AA---CACT
gi|6                          :               TTTTATCAAA--AATGGCAGCT-TCCATGG-ATTGT-AAAGA--T-TTGCTAATCTTTA-TGAAATATCTCCTTA-CTGAAGATAAGAAA--GC-TAGA-TCCTTTA-AGA-T-TTT-CAG-AAT-TC-ATTATATACA--TC-AAAAT---GA-CAA-TTTT--A--CCCCTTGTC
gi|7                          :                                                        A--T-TTGTTAATCTTTA-AGAAATATCTCCTTA-CCG-----AAGAGAGCGC-TATA-T-CTTTA-TGA-T-TTTGCAG-AAT-TC-ATTATATACA--TCTAGCCT---GA-CA---TTTAAAG-CCCTTTGTCATATTTTTA-ATG-AG----ACTT
gi|8                          : ataacttgcaactgTCTTATCAAT--A-TGGCAGCT-TTC------------------------CAATCTTTC-TGAAATATCTCCCTA-CTA-----ATGAAA--GC-CACA-T-C-ATA-GGA-T-TTT-CAG-AAT-TC-ATT-TACACA--TC-AAAAG---GA-CAA--ATTAAA--CCC-TTGTTATATTTTC--ATGTTA---CACTTCTTg
gi|9                          :               TTTTATCAAT--A-CTGCAGCT-TCCAT------------------TTGTTAATCTTGA-TGAAATA---------------------------------T-CTCCA-T-------T-CAG-AAT-TC-ATTATATACA--TA-AAAAT---GG-CAA-TTTAAAA--CCCTTTGTCATATTTTC--ATG-AA---CACTTCtt