lowQualScore                  :                         111                                                                                             11                
lowQualScore                  :               2 33  5   222       2         444                    444 444                     22 333        0    33    77                
lowQualScore                  :               . ..  .   ...       .         ...                    ... ...                     .. ...        .    ..    ..                
lowQualScore                  :               7 77  1   999       2         444                    777 777                     99 777        8    77    22                
consensus                     : TGGTTGTATATCAT-A--TGCGCAA--TACTCATCACTATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCGGCTT--AAAAA-ATTATCTGGGGCTCTG
Reference ( gi|123626 )       : TGGTTGTATATCAT-A--TGTGCAT--TACTCATTACTATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCGGCTT--AAAAC-ATTATCTGGAGCTCTG
gi|123627                     : TGGTTGTATATCAT-A--TGCGCAT--TACTCATTACTATTCTG---AAAAACTCAAGAATACTCAT---C---TATTCTGATTTTGATGAGTAA--T---TACTCATCGGCTT--AAAAA-ATTATCTGGAACGCTG
gi|123628                     : TGGTTGTATATCAT-A--TGCGCAG--TACTCATTACTATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATTTTGACGAGTTA--T---TACTCATCGGCTT--AAAAA-ATTTACTGGAGCTCTG
gi|123629                     : TGGTTGTATATCAT-A--TGCGCAT--TACTCATTACTATTCTG---AAAAACCAAAGAATACTCAT---C---TACTCTGATTTTGATGAGTAATGT---CACTCATTGGCTT--ATAAA-ATTATCTGGAGCTCTG
gi|123630                     : TGGTTGTATATCTT-A--TGCGCAT--TACATATTACCATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATCTTGTTGAGTGA--T---TACTCATCGGCTT--AAAAA-ATTATCTGGAGCTCTG
gi|123631                     : TGGTTGTATATCATTA--TGCACAA--TACTCATCACTATTCTG---AAAAACTCT-GAGTACTCAT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCAGCTT--AAAAA-A-AATCTGGAGCTCTG
gi|123632                     : TGGTTGTATATCAT-A--TGCACAA--TACTCATCATTATTCTGGAGAAAAAT--AAGAAAACTCGT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCAACTT--AAAAA-ATTATCTTGGGCTCTG
gi|123633                     : TAGTTGTATATCAT-AATTATGCACAATACTCATCACTATTCTG---AAAAACTCACGAATACTCATATACATGTACTCTGATTTTAATGAGTAA--T---TACTCATCAGCTT--AAAAA-AATATCTGGGGCTCT
gi|123634                     : TGGTTGTATATCAT-A--TATGCAA--TATTCATCACTATTCTT---AAAAACATGTGAATACTCAT---C---TTCTCTGATTTTGATGAGTGA--T---TACTTATCAGCTT--AAAA----TATCTGGGGCTCTG
gi|123636                     : TAGTTGTAAATCAT-T--TGCACAA--TACTCATCACTATTTTA---AAAAACTGTTGAATATTCAT---C---TACTCTGATTTTGATGGGTAA--TTACTACTCATCAGCTT--AAAAC-ATTATCTGGGGCTCTG
gi|123635                     : TGGTTGTATATCAT-A--TGAGCAA--TGCTCATCACTATTCTG---AAAAACTCAAGAATATTCAT---C---TACTCTGATTTTGATGATTAA--T---TACTCATCAGTTC--A
gi|123637                     : TGGTTGTATACCAT-A--TGCGCAA--TACTCACCACTATTCTG---AAAAACTCAAGAAAACTCAT---T---T------ATTT--ATCAG-----------CTTAACAA-TT--AAAAA-AATATCTGGGGCTCTG
gi|123638                     : TGGTTGTTTATTAT-A--TGAGCAA--TACTCATGACTATTCTA---AACAA
gi|123639                     :  GGTTTTATATCAT-A--TGCATAA--TACTCATCCCTATTTTG---AAAA-CTCAAGAATACTCAT---C---TACTCTGATTTTAATGAGTAA--T---TACTCATCTGCTT--AAAAA-ATTATCTGGGGCTCTG
gi|123640                     :      GTATATCAT-A--TAGGCAT--TACTCATTGCTATTCTG---AAAAACTCAAGAATATTCAT---C---TACTCTGATTTTGTTGAGTAA--T---TACTCAACGGATT--AAAAA-ATTACCTGGAGCTCTG
gi|123641                     :         TATCAT-A--TGTACAA--TAC-----ACTATTCTG---AAAAACT-AAAAATACTCAC---A---TACTCTGATTTTGATAAGTAA--T---TACTCATTGGTTTGAAAAATAATTTTCTGGTGCTCTG
gi|123642                     :                                             ---AAAAACTCGAGAATACTAAT---C---TACTCTGATTTTGATGAGTAA---------------------AAA---ATTATCTGGAGCTCTG
gi|123632                     :                                                                                     TTGATGAGTAA--T---TACTCATC
gi|123631                     :             tggttgtatatcatatgcacaatactcatcattattctggagaaaaataagaaaactcgtctactctgattttTGATGAGTAA--T---TACTCATCcttaaaaaattatcttgggctctg
gi|123633                     :              tggttgtatatcattatgcacaatactcatcactattctgaaaaactctgagtactcatctactctgattttTGATGAGTAA--T---TACTCATgcttaaaaaaaatctggagctctg
gi|123627                     :    tagttgtatatcataattatgcacaatactcatcactattctgaaaaactcacgaatactcatatacatgtactctgattttaGATGAGTAA--T---TACTCATCgcttaaaaaaatatctggggctct





Alignments
lowQualScore                  :               2 5555      0                 444                    444 444                     33 444        0        444          0      
lowQualScore                  :               . ....      .                 ...                    ... ...                     .. ...        .        ...          .      
lowQualScore                  :               5 3333      1                 111                    444 444                     44 444        1        777          2      
consensus                     : TGGTTGTATATCAT-A----TGCGCAATACTCATCACTATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCGGCTTAAAA---AATTATCTGGGGCTCTG
Reference ( family-877 )      : TGGTTGTATATCAT-A----TGCGCAATACTCATCACTATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCGGCTTAAAA---AATTATCTGGGGCTCTG
gi|123626                     : TGGTTGTATATCAT-A----TGTGCATTACTCATTACTATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCGGCTTAAAA---CATTATCTGGAGCTCTG
gi|123627                     : TGGTTGTATATCAT-A----TGCGCATTACTCATTACTATTCTG---AAAAACTCAAGAATACTCAT---C---TATTCTGATTTTGATGAGTAA--T---TACTCATCGGCTTAAAA---AATTATCTGGAACGCTG
gi|123628                     : TGGTTGTATATCAT-A----TGCGCAGTACTCATTACTATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATTTTGACGAGTTA--T---TACTCATCGGCTTAAAA---AATTTACTGGAGCTCTG
gi|123629                     : TGGTTGTATATCAT-A----TGCGCATTACTCATTACTATTCTG---AAAAACCAAAGAATACTCAT---C---TACTCTGATTTTGATGAGTAATGT---CACTCATTGGCTTATAA---AATTATCTGGAGCTCTG
gi|123630                     : TGGTTGTATATCTT-A----TGCGCATTACATATTACCATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATCTTGTTGAGTGA--T---TACTCATCGGCTTAAAA---AATTATCTGGAGCTCTG
gi|123631                     : TGGTTGTATATCATTA----TGCACAATACTCATCACTATTCTG---AAAAACTCT-GAGTACTCAT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCAGCTTAAAA---AA-AATCTGGAGCTCTG
gi|123632                     : TGGTTGTATATCAT-A----TGCACAATACTCATCATTATTCTGGAGAAAAAT--AAGAAAACTCGT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCAACTTAAAA---AATTATCTTGGGCTCTG
gi|123633                     : TAGTTGTATATCAT-AATTATGCACAATACTCATCACTATTCTG---AAAAACTCACGAATACTCATATACATGTACTCTGATTTTAATGAGTAA--T---TACTCATCAGCTTAAAA---AAATATCTGGGGCTCT
gi|123634                     : TGGTTGTATATCAT-A----TATGCAATATTCATCACTATTCTT---AAAAACATGTGAATACTCAT---C---TTCTCTGATTTTGATGAGTGA--T---TACTTATCAGCTTAAAA------TATCTGGGGCTCTG
gi|123635                     : TGGTTGTATATCAT-A----TGAGCAATGCTCATCACTATTCTG---AAAAACTCAAGAATATTCAT---C---TACTCTGATTTTGATGATTAA--T---TACTCATCAGTTCA
gi|123636                     : TAGTTGTAAATCAT-T----TGCACAATACTCATCACTATTTTA---AAAAACTGTTGAATATTCAT---C---TACTCTGATTTTGATGGGTAA--TTACTACTCATCAGCTTAAAA---CATTATCTGGGGCTCTG
gi|123637                     : TGGTTGTATACCAT-A----TGCGCAATACTCACCACTATTCTG---AAAAACTCAAGAAAACTCAT---T---T------ATTT--ATCAG-----------CTTAACAA-TTAAAA---AAATATCTGGGGCTCTG
gi|123638                     : TGGTTGTTTATTAT-A----TGAGCAATACTCATGACTATTCTA---AACAA
gi|123639                     :  GGTTTTATATCAT-A----TGCATAATACTCATCCCTATTTTG---AAAA-CTCAAGAATACTCAT---C---TACTCTGATTTTAATGAGTAA--T---TACTCATCTGCTTAAAA---AATTATCTGGGGCTCTG
gi|123640                     :      GTATATCAT-A----TAGGCATTACTCATTGCTATTCTG---AAAAACTCAAGAATATTCAT---C---TACTCTGATTTTGTTGAGTAA--T---TACTCAACGGATTAAAA---AATTACCTGGAGCTCTG
gi|123641                     :         TATCAT-A----TGTACAATAC-----ACTATTCTG---AAAAACT-AAAAATACTCAC---A---TACTCTGATTTTGATAAGTAA--T---TACTCATTGGTTTGAAAAATAATTTTCTGGTGCTCTG
gi|123642                     :                                             ---AAAAACTCGAGAATACTAAT---C---TACTCTGATTTTGATGAG---------------------TAAAA---AATTATCTGGAGCTCTG





Alignments
lowQualScore                  :               2 5555      0                 444                    444 444                     33 444        0        444          0      
lowQualScore                  :               . ....      .                 ...                    ... ...                     .. ...        .        ...          .      
lowQualScore                  :               5 3333      1                 111                    444 444                     44 444        1        777          2      
consensus                     : TGGTTGTATATCAT-A----TGCGCAATACTCATCACTATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCGGCTTAAAA---AATTATCTGGGGCTCTG
Reference ( family-877 )      : TGGTTGTATATCAT-A----TGCGCAATACTCATCACTATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCGGCTTAAAA---AATTATCTGGGGCTCTG
gi|123626                     : TGGTTGTATATCAT-A----TGTGCATTACTCATTACTATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCGGCTTAAAA---CATTATCTGGAGCTCTG
gi|123627                     : TGGTTGTATATCAT-A----TGCGCATTACTCATTACTATTCTG---AAAAACTCAAGAATACTCAT---C---TATTCTGATTTTGATGAGTAA--T---TACTCATCGGCTTAAAA---AATTATCTGGAACGCTG
gi|123628                     : TGGTTGTATATCAT-A----TGCGCAGTACTCATTACTATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATTTTGACGAGTTA--T---TACTCATCGGCTTAAAA---AATTTACTGGAGCTCTG
gi|123629                     : TGGTTGTATATCAT-A----TGCGCATTACTCATTACTATTCTG---AAAAACCAAAGAATACTCAT---C---TACTCTGATTTTGATGAGTAATGT---CACTCATTGGCTTATAA---AATTATCTGGAGCTCTG
gi|123630                     : TGGTTGTATATCTT-A----TGCGCATTACATATTACCATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATCTTGTTGAGTGA--T---TACTCATCGGCTTAAAA---AATTATCTGGAGCTCTG
gi|123631                     : TGGTTGTATATCATTA----TGCACAATACTCATCACTATTCTG---AAAAACTCT-GAGTACTCAT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCAGCTTAAAA---AA-AATCTGGAGCTCTG
gi|123632                     : TGGTTGTATATCAT-A----TGCACAATACTCATCATTATTCTGGAGAAAAAT--AAGAAAACTCGT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCAACTTAAAA---AATTATCTTGGGCTCTG
gi|123633                     : TAGTTGTATATCAT-AATTATGCACAATACTCATCACTATTCTG---AAAAACTCACGAATACTCATATACATGTACTCTGATTTTAATGAGTAA--T---TACTCATCAGCTTAAAA---AAATATCTGGGGCTCT
gi|123634                     : TGGTTGTATATCAT-A----TATGCAATATTCATCACTATTCTT---AAAAACATGTGAATACTCAT---C---TTCTCTGATTTTGATGAGTGA--T---TACTTATCAGCTTAAAA------TATCTGGGGCTCTG
gi|123635                     : TGGTTGTATATCAT-A----TGAGCAATGCTCATCACTATTCTG---AAAAACTCAAGAATATTCAT---C---TACTCTGATTTTGATGATTAA--T---TACTCATCAGTTCA
gi|123636                     : TAGTTGTAAATCAT-T----TGCACAATACTCATCACTATTTTA---AAAAACTGTTGAATATTCAT---C---TACTCTGATTTTGATGGGTAA--TTACTACTCATCAGCTTAAAA---CATTATCTGGGGCTCTG
gi|123637                     : TGGTTGTATACCAT-A----TGCGCAATACTCACCACTATTCTG---AAAAACTCAAGAAAACTCAT---T---T------ATTT--ATCAG-----------CTTAACAA-TTAAAA---AAATATCTGGGGCTCTG
gi|123638                     : TGGTTGTTTATTAT-A----TGAGCAATACTCATGACTATTCTA---AACAA
gi|123639                     :  GGTTTTATATCAT-A----TGCATAATACTCATCCCTATTTTG---AAAA-CTCAAGAATACTCAT---C---TACTCTGATTTTAATGAGTAA--T---TACTCATCTGCTTAAAA---AATTATCTGGGGCTCTG
gi|123640                     :      GTATATCAT-A----TAGGCATTACTCATTGCTATTCTG---AAAAACTCAAGAATATTCAT---C---TACTCTGATTTTGTTGAGTAA--T---TACTCAACGGATTAAAA---AATTACCTGGAGCTCTG
gi|123641                     :         TATCAT-A----TGTACAATAC-----ACTATTCTG---AAAAACT-AAAAATACTCAC---A---TACTCTGATTTTGATAAGTAA--T---TACTCATTGGTTTGAAAAATAATTTTCTGGTGCTCTG
gi|123642                     :                                             ---AAAAACTCGAGAATACTAAT---C---TACTCTGATTTTGATGAG---------------------TAAAA---AATTATCTGGAGCTCTG


blockSeqs                     :               T ATTA                        GAG                    ATA ATG                     TG TAC                 AAT
blockSeqs                     :               . .                           .                      .   .                       .  .                   .  
blockSeqs                     :               . .                           .                      .   .                       .  .                   .  
blockSeqs                     :               . .                           .                      .   .                       .  .                   .  
blockSeqs                     :               . .                           .                      .   .                       .  .                   .  
blockSeqs                     :               . .                           .                      .   .                       .  .                   .  
blockSeqs                     :               . .                           .                      .   .                       .  .                   .  
blockSeqs                     :               . .                           .                      .   .                       .  .                   .  
blockSeqs                     :               . .                           .                      .   .                       .  .                   .  
blockSeqs                     :               . .                           .                      .   .                       .  .                   .  
blockSeqs                     :               . .                           .                      .   .                       .  .                   .  
blockSeqs                     :               . .                           .                      .   .                       .  .                   .  
blockSeqs                     :               . .                           .                      .   .                       .  .                   .  
blockSeqs                     :               . .                           .                      .   .                       .  .                   .  
blockSeqs                     :               . .                           .                      .   .                       .  .                      
blockSeqs                     :                                             .                                                                            


blockSeqCons                  : 
originalCons                  : TGGTTGTATATCAT-A----TGCGCAATACTCATCACTATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCGGCTTAAAA---AATTATCTGGGGCTCTG
finalCons                     : TGGTTGTATATCAT-A----TGCGCAATACTCATCACTATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCGGCTTAAAA---AATTATCTGGGGCTCTG





Alignments
lowQualScore                  :               2 5555      0                 444                    444 444                     33 444        0        444          0      
lowQualScore                  :               . ....      .                 ...                    ... ...                     .. ...        .        ...          .      
lowQualScore                  :               5 3333      1                 111                    444 444                     44 444        1        777          2      
consensus                     : TGGTTGTATATCAT-A----TGCGCAATACTCATCACTATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCGGCTTAAAA---AATTATCTGGGGCTCTG
Reference ( family-877 )      : TGGTTGTATATCAT-A----TGCGCAATACTCATCACTATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCGGCTTAAAA---AATTATCTGGGGCTCTG
gi|123626                     : TGGTTGTATATCAT-A----TGTGCATTACTCATTACTATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCGGCTTAAAA---CATTATCTGGAGCTCTG
gi|123627                     : TGGTTGTATATCAT-A----TGCGCATTACTCATTACTATTCTG---AAAAACTCAAGAATACTCAT---C---TATTCTGATTTTGATGAGTAA--T---TACTCATCGGCTTAAAA---AATTATCTGGAACGCTG
gi|123628                     : TGGTTGTATATCAT-A----TGCGCAGTACTCATTACTATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATTTTGACGAGTTA--T---TACTCATCGGCTTAAAA---AATTTACTGGAGCTCTG
gi|123629                     : TGGTTGTATATCAT-A----TGCGCATTACTCATTACTATTCTG---AAAAACCAAAGAATACTCAT---C---TACTCTGATTTTGATGAGTAATGT---CACTCATTGGCTTATAA---AATTATCTGGAGCTCTG
gi|123630                     : TGGTTGTATATCTT-A----TGCGCATTACATATTACCATTCTG---AAAAACTCAAGAATACTCAT---C---TACTCTGATCTTGTTGAGTGA--T---TACTCATCGGCTTAAAA---AATTATCTGGAGCTCTG
gi|123631                     : TGGTTGTATATCATTA----TGCACAATACTCATCACTATTCTG---AAAAACTCT-GAGTACTCAT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCAGCTTAAAA---AA-AATCTGGAGCTCTG
gi|123632                     : TGGTTGTATATCAT-A----TGCACAATACTCATCATTATTCTGGAGAAAAAT--AAGAAAACTCGT---C---TACTCTGATTTTGATGAGTAA--T---TACTCATCAACTTAAAA---AATTATCTTGGGCTCTG
gi|123633                     : TAGTTGTATATCAT-AATTATGCACAATACTCATCACTATTCTG---AAAAACTCACGAATACTCATATACATGTACTCTGATTTTAATGAGTAA--T---TACTCATCAGCTTAAAA---AAATATCTGGGGCTCT
gi|123634                     : TGGTTGTATATCAT-A----TATGCAATATTCATCACTATTCTT---AAAAACATGTGAATACTCAT---C---TTCTCTGATTTTGATGAGTGA--T---TACTTATCAGCTTAAAA------TATCTGGGGCTCTG
gi|123635                     : TGGTTGTATATCAT-A----TGAGCAATGCTCATCACTATTCTG---AAAAACTCAAGAATATTCAT---C---TACTCTGATTTTGATGATTAA--T---TACTCATCAGTTCA
gi|123636                     : TAGTTGTAAATCAT-T----TGCACAATACTCATCACTATTTTA---AAAAACTGTTGAATATTCAT---C---TACTCTGATTTTGATGGGTAA--TTACTACTCATCAGCTTAAAA---CATTATCTGGGGCTCTG
gi|123637                     : TGGTTGTATACCAT-A----TGCGCAATACTCACCACTATTCTG---AAAAACTCAAGAAAACTCAT---T---T------ATTT--ATCAG-----------CTTAACAA-TTAAAA---AAATATCTGGGGCTCTG
gi|123638                     : TGGTTGTTTATTAT-A----TGAGCAATACTCATGACTATTCTA---AACAA
gi|123639                     :  GGTTTTATATCAT-A----TGCATAATACTCATCCCTATTTTG---AAAA-CTCAAGAATACTCAT---C---TACTCTGATTTTAATGAGTAA--T---TACTCATCTGCTTAAAA---AATTATCTGGGGCTCTG
gi|123640                     :      GTATATCAT-A----TAGGCATTACTCATTGCTATTCTG---AAAAACTCAAGAATATTCAT---C---TACTCTGATTTTGTTGAGTAA--T---TACTCAACGGATTAAAA---AATTACCTGGAGCTCTG
gi|123641                     :         TATCAT-A----TGTACAATAC-----ACTATTCTG---AAAAACT-AAAAATACTCAC---A---TACTCTGATTTTGATAAGTAA--T---TACTCATTGGTTTGAAAAATAATTTTCTGGTGCTCTG
gi|123642                     :                                             ---AAAAACTCGAGAATACTAAT---C---TACTCTGATTTTGATGAG---------------------TAAAA---AATTATCTGGAGCTCTG