lowQualScore                  :                                                                              111111111                                      111                    1              1      1             44444444444444444444444                            66666       111             11                           222222222222222                1                        44444444     111111    1            
lowQualScore                  :       6                33    0                  2   444            5   5555  333333333   2  3             2         2 2  2  777 5                  0     999   2  6      3     0   2 2 88888888888888888888888    5 2  6666               77777       999   77        77  6       66               555555555555555            4   2              5  5      77777777     111111    7  5      5  
lowQualScore                  :       .                ..    .                  .   ...            .   ....  .........   .  .             .         . .  .  ... .                  .     ...   .  .      .     .   . . .......................    . .  ....               .....       ...   ..        ..  .       ..               ...............            .   .              .  .      ........     ......    .  .      .  
lowQualScore                  :       0                99    6                  7   777            5   7777  333333333   7  0             7         7 5  5  666 0                  2     333   7  7      7     8   9 9 00000000000000000000000    4 9  7777               88888       222   66        66  7       11               000000000000000            0   6              6  7      88888888     555555    0  0      3  
consensus                     :    TGTCCCTAATTTTGTGAGTA--GAAGGTTGAATTTCCAAAGTAAA-AGG---GGTTTGAAGGGGCAAA----CC---------GGA-GACGATCTGTGGTGAA-TTTTCATTG-T-TT-TT-A-T-GAAAAATAGACTGCATTATTTGTT---TAT-GAGACCCAACAATGTGGTC-T-A-T--T--AAAA-GT-AA------AAAANT-TG--CGTTTTGTGCCAAATTAA---AACTTCAT--TATTAAAACAAAATA-TG-TTTTTAACGGTATATCCTCAGCCC---------------ATAGTAGCCGGT-GGTCAGAACAAGAATTGCCGGNCGAAAT-------CCCCGG------CCCTTAGGGACAGCCCT
Reference ( gi|2 )            :    TGTTCCTAATTTTGTGAGTA--GAAGATTGAATTTCCAAAGTAAA-AGG---GGTTTGAAGGGGTAAA----CC---------GGA-GATAATCTGTGATGAA-TTTTCATTG-T-TT-TT-A-T-GAAAAATAGACTGCATTACTTGTT---TAT-GACACCCAAAAATGTGATC-T-A-T--C--AAAA-TTAAA------AAAAAT-TG--TGTTTTGTGCCAAATTAATTGAACTTCAT--AATTAAAACAAAATC-TG-TTTTTAACAGTATATCCTCAGCCC---------------ATAGTAGCCAGT-GGTAAGAACAAGAATTGCTGGGTGAAAT-------ACCCGG------CCCTAAGAGACAGCTCT
gi|4                          :    TGTCCCTTATTTTGTGAGTA--GAAGGTTGAATTTCCGAAGTAAA-AAG---GGTTTTAAGGGGAAAA----CT---------GGA-GACGATCTGTGATGAATTTTTCGTTG-T-TT-TTAA-T-GAAAACTAGACTGCATTATTTGTT---TAT-GAGGCCTAACAATGTGATC-T-G-T--TGGAAAG-T---A------AAAATT-TG--TGTTTTGTGCCAAATTA----AACTTCAT--TATTAGAACAAAATA-TGTTTTTTAATGGTATATCCTAAGCCC---------------TTAGTAGCAGAA-GGTCAGAATGAGAATTACAGGTTGAAAT-------CCTCGG------CTCTTATGGACAGCTCT
gi|5                          :   cTGTCCCTAATTTTTCGAGTA--GAAAGTTGAATTTCTAAAGTAAA-AGG---GGAATGAAGGGGCAAA----CC---------GGA-GACCATCTGTGATGAA-TTT--ATTG-T-TT-TTAA-T-GAAAAATAGACTGCATTTTTTTTA---TAT-GAGACCCAACATTGTGATC-T-G-TTGT--AAAA-GT---------AAAAAT-TG--TGTTTTGTGTCAAATCA----AACTTCAT--TGTTAAAACAAAATA-TGTTTTTTAACGTTTTATCCTCAGCCC---------------ATAGTAGCCAGT-GCTCAAAACAAGAAGTACCAGTTGAAAT-------CTCCGG------GGCTTAGGGACAGCACT
gi|7                          :  acTGTCCCTAATTTTGTGAGAA--GAAGATTGAATTTC-AAAGAAAA-AGG---GACTTGAAAAG-CAAA----CC---------AGA-GACAATATGTGATGAA-TTTTTATTG-T-TT-TT-AAT-GAAAAATAGACTGCATAATTTGTT---TAT-AAAAACCAATAATGTGATC-A-ACT--G--AAAA-GTAAA------AAT--T-TG--CGTTTTGCGCCAAATT---T-AACTTCAT--TATTACATCAAAATA-TG-TTTTTAACAGTTAATCTTCAGTCC---------------ATAGTAACCAGT-GGTCAGAACAAGAATTACCGGTTGAAAT--------CCAGG------CGCTTAGCAAAAGCCCT
gi|6                          :    TGTCATTAATTTTGC-AGGA--GAAGGTTGAATTT-------AAA-AGG---GGTTTGAAGAGGCAAA----CC---------AGA-GATGATCCGTGACGAT-TTTTCATTGGT-TT-TT-AAT-TACAAATAGATTGCATTGTTTGTT---TTC-GAGACCCAACAATGTAGTC-T-ACT--G--AAAA-GTAAA------AAT--T-TG--CAATTTGTGCCAAATTAA----ACTTCAT--TATTAAAACAAAATA-TG-TTTTTAATTTAATATCCTCGGTGG---------------ATAGTAGC-AGTTGGTCAGATCAAGAATTGCCGGGTGAAATCCACG--GCCCGG------CCCTTCTGGACAGTCCTg
gi|11                         :  gcTGTCCCTAATTTTGTGAGTATAGATGGTTGAGTTTCCAAAGTAAA-AAT---GGTTTGAAGGGGCAAA----CC---------GGA-GACA-TCTGTGATGAA-TTTTCAATG-T-CT-TC-AAT-GAAAA-TAGATTGCATTATTAGTT---TTT-GAGACCCAACAATGTCATC-T-G--------------------------------------TTGTGCCAAATTAA--------------------ACAAAATTATG-TTTT-AATGGTAT--CCTCAGCCC---------------ATAGTAGCCAGT-GGTCAGAACAAGAGTTACCGGTTTAAAT-------CTCCAG------CCCTTAAGTACAACCCTg
gi|12                         :   cTGTCCCTAATTTTGTAAGTA--GAAGAATGAATTTCCAAAATAAA-AGG---GGTATTAAGGGGCAAA----AT---------GTA-GACGAGCTATGGTGAA-CTTCCATAG-C-TT-TTAA-T-GAAAAATAGACTGCATTATTTGTT---TAT-GAGACCCAACAAT-CAATC-T-A-T--T--GAAA-AGAAA------AGAAAT-TG--TGTTTTGTGCCAAA-TAA---AACTCCAT--TATTCAAACAAAATA-TT-TTTTTAATGGTA
gi|16                         :    TGTCCCTAATTTTGTGAGTA--AAAAGTTGAATTTCCAAAGTAAA-AGG---GGTCTGAAGGGGCAAA----CT---------GGA-GACAATCTGTGATGAA-TTTTCATTG-TATT-TTAA-T-GAAAAATAGATTGCATGATTTATTTTATAT-GG-ACCCAACAATGTGg
gi|14                         :  gcTGTCCCTAATTTGGTAAGCA--GAAGGTTGAATTTCCCAAGTAAATGGG---GGGTTGAAGGCACAAA----CC---------GGA-GACGACCAGTGATGAA-TTT-CATTG-A-TT-TT-AAT-GAAAAATAGACTGCATTA-TTGTT---TAT-GAGACTAAACAATGTGATC-T-ATT--C--AAAAGTT---------AAAAAT-TG--CGTTTTg
gi|15                         :  gcTGTCCCTAACTTTGAGAGTA--GATGGTTGAATTTCt
gi|17                         : ggcTATCCCAAATTTTTTAAGTA--GATTGTTGACTTTCCAAAGTAAA-AAG---GATTTGAAGGGGCAAA----CC---------GGA-GATatgaaaaatagactgcattatttgttaaatagagacccaacaatgtaattactgaaaagtaaaaatttactttttgtgcaaaaataaaacttcattattaaaacaaaatatgttttatatg
gi|3                          :       ggaTAATTTTGTGATTA--GAAGATTTGATTTCCAAAGTTAG-AGG---GGTTTGAAGGGGCAAA----CTA--------GGA-GACGATCGGTGGTGAA-TTTTCAATT-T-TT-TT-A-TTGATAAATAGACTGCATTATTTGTT---TAT-GAGACCCAACCATGTAGTC-T-G-T--TG-AAAA-GT-AA------AAAAAT-TG--CATTTTGTGCCAAATCA----GACTTCAT--TATTAAAACAAAATA-TG-TTTTTAACAGTAGATCCT-AAACC---------------ATAGTAGCCGGT-GATCAGAACAAGTATTGTCAGGCAAAAG-------CCCCGGTTCCCACTCTTGGAGACAGCCCT
gi|1                          :            ATTTTGTGAGTA--GAAAGTTGAATTTCCAAAATAAA-ACA---GGTTTTAAGGGGCAAA----CC---------GAA-GACGATCTGTAATGAA-TTTTCGTTG-T-TT-TTAA-T-GAAACGTAGACTGCACTATTTGTT---TAT-GAGACCCAATAATGTGGTC-T-A-T--TG-AAAA-AGAAA------AAAAAA-TG--CATCTTGTGCCAAAGTA----AACTTCATTAAATTATAACAAAATA-TA-TTGTTAACGGTATATCCTCAGCCCATAATAAGTACTCAAATAGTAGCCAGT-GGTAAGAACAAAAATTGCTGGCTGATAT-------CCATGG------CCCga
gi|8                          :              tcctttAATA--GAAGATTGAATTTACAAAGTAAA-AGG---GGGTTGAAGGGGTAAA----CC---------AGA-GACAGTCTGTGGTGAG-TTTTCATTG-T-TT-TA-A-T-GAAAAACAGACTGCATTATTTGTT---TAT-GAGACTCAACAATGTAGTC-T-A-T--TG-AAAA-GT--A------AAAATT-TG--CATTTTGTGCCAAGTTAACT----TTCAT--TATT---ACAAAATA-TA-TTCTTAATGGTATATTCTCAGCTT---------------ATAGTAGTCGGT-GGTCAAAACAAGAATTGCCGGACCAAATCCCCATCACCCGG------CCCTTAGctggctcttatggaaagccat
gi|9                          :                      TA--GAAGATTGAATTTACAAAGTAAA-AGG---GGGTTGAAGGGGTAAA----CC---------AGA-GACAGTCTGTGGTGAG-TTTTCATTG-T-TT-TA-A-T-GAAAAACAGACTGCATTATTTGTT---TAT-GAGACTCAACAATGCAGTC-A-A-T--TG-AAAA-GT--A------AAAATT-TG--CATTTTGTGCCAAGTTAAC----CTTCAT--TATT---ACAAAATA-TG-TTCTTAATGGTATATTCTCAGCTT---------------ATAGTAGCCGGT-GGTCAGAACAAAAATTGCCAAACAAAATCCCCATCACCCGG------CCCTTAGgaaaaaccttg
gi|10                         :                                    aTTCCAAAGTAAA-AGG---GGTTTAAAAGGGCAAA----CC---------AGA-GATAATCTGTGGTGAA-TTTTCATTG-T-TT-TT-T-TAGCAAAATAGACAGCATAATTTGTT---TAT-GAGACCCAACAGTGTAGTC-TAA-T--G--AAAA-GT--A------AAAATT-TG--CATTTTGTGCCAAATTA----AACTTCAT--TATTCAGACA-------G-TT-------G---ATCATCAGCCC---------------ATAGTATTTCGT-GGTCAGAACAAGAATAGCCTTGCGAAAT-------CCCTGG------CCCgaaaaaccttg
gi|13                         :                        gtcccttagattttgtgtgAGTGAG-AGATGCGGTTTGAAGGCGAAAATGTCCCTTGATCAGAGGATGACAAACTGTGGTGAA-TTTCCACAG-T-TT-TT-ACT-GAAAAATAGACTGCACT-TTTATT---TATGGAAACC--AAAAT---ATCTT-T-T--T--AAAA-TTGAAGATAATAAAAATCTGTCTGTTTccccagcccttggggacagccct
gi|18                         :                                                                                    gttttctatgtctatcTGGTGAA-TTTTCATTG-T-TTATA-A-T-GATTAATAGACTGCATTA-TTGTgatg
gi|15                         :                                                                                                                       -TT-TC-A-T-GAAAAATAGACTGCATTATTTGTTAAATA--GAGACCCAACAATGTAAT--T-ACT--G--AAAA-GT--A------AAAATT-TA--CTTTTTGTGCAAAAATAA---AACTTCAT--TATTAAAACAAAATA-TG-TTTT





Alignments
lowQualScore                  :                                                                                                              111111111                                        1                                                             22      11     11                   22222                                                      222222222222222                                        55555555555555555     111111                 
lowQualScore                  :                                         33             33                       2   444                5555  222222222   2   2                2     2 2  2  7 6 4                        888                  0    8888  33 77      00 2   11    0              33333 2 3      44   4        3    6       0                222222222222222                                 11     55555555555555555     000000                 
lowQualScore                  :                                         ..             ..                       .   ...                ....  .........   .   .                .     . .  .  . . .                        ...                  .    ....  .. ..      .. .   ..    .              ..... . .      ..   .        .    .       .                ...............                                 ..     .................     ......                 
lowQualScore                  :                                         99             44                       5   444                3333  555555555   5   5                5     5 4  4  1 5 7                        888                  1    3333  77 77      11 7   11    4              22222 2 1      22   1        1    2       1                777777777777777                                 22     99999999999999999     555555                 
consensus                     :                                  TGTCCCT--AATTTTGTGAGTA--GAAGGTTGAATTTCCAAAGTAAA-AGG---GGTTTGAAGGGGCAAA----CC---------GGA-GACGATCTGTGGTGAATTTT-CATTG-T-TT-TT-A-T-GAAAAATAGACTGCATTATTTGTT---TATGAGACCCAACAATGTGGTCT----AT--TG-AAAAGT-AA-AAAATTTGCGTTTTGTGCCAAATT-A---AAC-TTCATT--ATTAAAACAAAA-TATG-TTTTTAACGGTATATCCTCAGCCC---------------ATAGTAGCCGGTGGTCAGAACAAGAATTGCCGGNCGAAAT---------C-------CCCGG------CCCTTAGGGACAGCCCT
Reference ( family-2339 )     :                                  TGTCCCT--AATTTTGTGAGTA--GAAGGTTGAATTTCCAAAGTAAA-AGG---GGTTTGAAGGGGCAAA----CC---------GGA-GACGATCTGTGGTGAATTTT-CATTG-T-TT-TT-A-T-GAAAAATAGACTGCATTATTTGTT---TATGAGACCCAACAATGTGGTCT----AT--T--AAAAGT-AA-AAAANTTGCGTTTTGTGCCAAATTAA---AAC-TTCATT--ATTAAAACAAAA-TATG-TTTTTAACGGTATATCCTCAGCCC---------------ATAGTAGCCGGTGGTCAGAACAAGAATTGCCGGNCGAAAT---------C-------CCCGG------CCCTTAGGGACAGCCCT
gi|1                          :                                    TCCTT--TATTTTGTGAGTA--GAAAGTTGAATTTCCAAAATAAA-ACA---GGTTTTAAGGGGCAAA----CC---------GAA-GACGATCTGTAATGAATTTT-CGTTG-T-TT-TTAA-T-GAAACGTAGACTGCACTATTTGTT---TATGAGACCCAATAATGTGGTCT----AT--TGAAAAAGA-AA-AAAAAATGCATCTTGTGCCAAAGT-A---AAC-TTCATTAAATTATAACAAAA-TATA-TTGTTAACGGTATATCCTCAGCCCATAATAAGTACTCAAATAGTAGCCAGTGGTAAGAACAAAAATTGCTGGCTGATATCCATGGC--C-------CCTGG------CTCTTATGGAAAGCC
gi|10                         :                                   GTCCCTTAGATTTTGTG------------TG---TTCCAAAGTAAA-AGG---GGTTTAAAAGGGCAAA----CC---------AGA-GATAATCTGTGGTGAATTTT-CATTG-T-TT-TT-T-TAGCAAAATAGACAGCATAATTTGTT---TATGAGACCCAACAGTGTAGTCTA---AT--G--AAAAGT--A-AAAATTTGCATTTTGTGCCAAATT-A---AAC-TTCATT--ATTCAGACA-------G-TT------G----ATCATCAGCCC---------------ATAGTATTTCGTGGTCAGAACAAGAATAGCCTTGCGAAATCCCTGGCCCC-------CCCAG------CCCTTGGGGACAGCCCTat
gi|11                         :                                  TGTCCCT--AATTTTGTGAGTATAGATGGTTGAGTTTCCAAAGTAAA-AAT---GGTTTGAAGGGGCAAA----CC---------GGA-GAC-ATCTGTGATGAATTTT-CAATG-T-CT-TC-AAT-GAAAA-TAGATTGCATTATTAGTT---TTTGAGACCCAACAATGTCATCT----G----------------------------TTGTGCCAAATT---------------------AAACAAAATTATG--TTTTAATGG--TATCCTCAGCCC---------------ATAGTAGCCAGTGGTCAGAACAAGAGTTACCGGTTTAAAT---------C-------TCCAG------CCCTTAAGTACAACCCT
gi|12                         :                                 cTGTCCCT--AATTTTGTAAGTA--GAAGAATGAATTTCCAAAATAAA-AGG---GGTATTAAGGGGCAAA----AT---------GTA-GACGAGCTATGGTGAACTTC-CATAG-C-TT-TTAA-T-GAAAAATAGACTGCATTATTTGTT---TATGAGACCCAACAAT-CAATCT----AT--TG-AAAAGA-AA-AGAAATTGTGTTTTGTGCCAAA-TAA---AAC-TCCATT--ATTCAAACAAAA-TATT-TTTTTAATGGTA
gi|13                         :                                                                           AGTGAG-AGATGCGGTTTGAAGGCGAAAATGTCCCTTGATCAGAGGATGACAAACTGTGGTGAATTTC-CACAG-T-TT-TT-ACT-GAAAAATAGACTGCACT-TTTATT---TATGGAAACCAA-AATATCTTTTTAAAAT--T--GAAGAT-AATAAAAATg
gi|14                         :                  gttttctatgtctatcTGTCCCT--AATTTGGTAAGCA--GAAGGTTGAATTTCCCAAGTAAATGGG---GGGTTGAAGGCACAAA----CC---------GGA-GACGACCAGTGATGAATTT--CATTG-A-TT-TT-AAT-GAAAAATAGACTGCATTA-TTGTT---TATGAGACTAAACAATGTGATCT----AT--TC-AAAAGT-TA-AAAA-TTGCGTTTTctgtctgtttgatg
gi|15                         :                                gcTGTCCCT--AACTTTGAGAGTA--GATGGTTGAATTTCt
gi|15                         :                                                                                                                                                    ggc-TT-TC-A-T-GAAAAATAGACTGCATTATTTGTTAAATA-GAGACCCAACAATGTAAT-T----AC--TG-AAAAGT-AA-AAA-TTTACTTTTTGTGCAAAAATAA---AAC-TTCATT--ATTAAAACAAAA-TATG-TTTTatgaaaaatagactgcattatttgttaaatagagacccaacaatgtaattactgaaaagtaaaaatttactttttgtgcaaaaataaaacttcattattaaaacaaaatatgttttatatg
gi|16                         : ggctgtccctaactttgagagtagatggttgaaTGTCCCT--AATTTTGTGAGTA--AAAAGTTGAATTTCCAAAGTAAA-AGG---GGTCTGAAGGGGCAAA----CT---------GGA-GACAATCTGTGATGAATTTT-CATTG-TATT-TTAA-T-GAAAAATAGATTGCATGATTTATTTTATATG-GACCCAACAATGTGGatatg
gi|17                         :                                gcTATCCCA--AATTTTTTAAGTA--GATTGTTGACTTTCCAAAGTAAA-AAG---GATTTGAAGGGGCAAA----CC---------GGA-GA
gi|18                         :                                                                                                                                 ggaTGGTGAATTTT-CATTG-T-TTATA-A-T-GATTAATAGACTGCATTATTt
gi|2                          :                                  TGTTCCT--AATTTTGTGAGTA--GAAGATTGAATTTCCAAAGTAAA-AGG---GGTTTGAAGGGGTAAA----CC---------GGA-GATAATCTGTGATGAATTTT-CATTG-T-TT-TT-A-T-GAAAAATAGACTGCATTACTTGTT---TATGACACCCAAAAATGTGATCT----AT--C--AAAATTAAA-AAAAATTGTGTTTTGTGCCAAATTAATTGAAC-TTCATA--ATTAAAACAAAA-TCTG-TTTTTAACAGTATATCCTCAGCCC---------------ATAGTAGCCAGTGGTAAGAACAAGAATTGCTGGGTGAAAT---------A-------CCCGG------CCCTAAGAGACAGCTCTgt
gi|3                          :                                        T--AATTTTGTGATTA--GAAGATTTGATTTCCAAAGTTAG-AGG---GGTTTGAAGGGGCAAA----CTA--------GGA-GACGATCGGTGGTGAATTTT-CAATT-T-TT-TT-A-TTGATAAATAGACTGCATTATTTGTT---TATGAGACCCAACCATGTAGTCT----GT--TG-AAAAGT-AA-AAAAATTGCATTTTGTGCCAAATC-A---GAC-TTCATT--ATTAAAACAAAA-TATG-TTTTTAACAGTAGATCCT-AAACC---------------ATAGTAGCCGGTGATCAGAACAAGTATTGTCAGGCAAAAG---------C-------CCCGGTTCCCACTCTTGGAGACAGCCCT
gi|4                          :                                  TGTCCCT--TATTTTGTGAGTA--GAAGGTTGAATTTCCGAAGTAAA-AAG---GGTTTTAAGGGGAAAA----CT---------GGA-GACGATCTGTGATGAATTTTTCGTTG-T-TT-TT-AAT-GAAAACTAGACTGCATTATTTGTT---TATGAGGCCTAACAATGTGATCT----GT--TG-GAAAGT--A-AAAATTTGTGTTTTGTGCCAAATT-A---AAC-TTCATT--ATTAGAACAAAA-TATGTTTTTTAATGGTATATCCTAAGCCC---------------TTAGTAGCAGAAGGTCAGAATGAGAATTACAGGTTGAAAT---------C-------CTCGG------CTCTTATGGACAGCTCTga
gi|5                          :                                 cTGTCCCT--AATTTTTCGAGTA--GAAAGTTGAATTTCTAAAGTAAA-AGG---GGAATGAAGGGGCAAA----CC---------GGA-GACCATCTGTGATGAATTT---ATTG-T-TT-TT-AAT-GAAAAATAGACTGCATTTTTTTTA---TATGAGACCCAACATTGTGATCT----GTTGT--AAAAGT-AA-AAA--TTGTGTTTTGTGTCAAATC-A---AAC-TTCATT--GTTAAAACAAAA-TATGTTTTTTAACGTTTTATCCTCAGCCC---------------ATAGTAGCCAGTGCTCAAAACAAGAAGTACCAGTTGAAAT---------C-------TCCGG------GGCTTAGGGACAGCACT
gi|6                          :                                acTGTCATT--AATTTTGC-AGGA--GAAGGTTGAATTT-------AAA-AGG---GGTTTGAAGAGGCAAA----CC---------AGA-GATGATCCGTGACGATTTTT-CATTGGT-TT-TT-AAT-TACAAATAGATTGCATTGTTTGTT---TTCGAGACCCAACAATGTAGTCT----AC--TG-AAAAGT-AA-AAA-TTTGCAATTTGTGCCAAATTAA---A-C-TTCATT--ATTAAAACAAAA-TATG-TTTTTAATTTAATATCCTCGGTGG---------------ATAGTAGCAGTTGGTCAGATCAAGAATTGCCGGGTGAAAT---------CCACGG--CCCGG------CCCTTCTGGACAGTCCT
gi|7                          :                                gcTGTCCCT--AATTTTGTGAGAA--GAAGATTGAATTTC-AAAGAAAA-AGG---GACTTGAAAAG-CAAA----CC---------AGA-GACAATATGTGATGAATTTT-TATTG-T-TT-TT-AAT-GAAAAATAGACTGCATAATTTGTT---TATAAAAACCAATAATGTGATCA----AC--TG-AAAAGT-AA-AAA-TTTGCGTTTTGCGCCAAATTTA---A-C-TTCATT--ATTACATCAAAA-TATG-TTTTTAACAGTTAATCTTCAGTCC---------------ATAGTAACCAGTGGTCAGAACAAGAATTACCGGTTGAAAT-----------------CCAGG------CGCTTAGCAAAAGCCCTg
gi|8                          :                                                    AATA--GAAGATTGAATTTACAAAGTAAA-AGG---GGGTTGAAGGGGTAAA----CC---------AGA-GACAGTCTGTGGTGAGTTTT-CATTG-T-TT-TA-A-T-GAAAAACAGACTGCATTATTTGTT---TATGAGACTCAACAATGTAGTCT----AT--TG-AAAAGT--A-AAAATTTGCATTTTGTGCCAAGTT-----AACTTTCATT--ATT---ACAAAA-TATA-TTCTTAATGGTATATTCTCAGCTT---------------ATAGTAGTCGGTGGTCAAAACAAGAATTGCCGGACCAAAT---------CCCCATCACCCGG------CCCTTAGGAAAAACCTTg
gi|9                          :                                                      TA--GAAGATTGAATTTACAAAGTAAA-AGG---GGGTTGAAGGGGTAAA----CC---------AGA-GACAGTCTGTGGTGAGTTTT-CATTG-T-TT-TA-A-T-GAAAAACAGACTGCATTATTTGTT---TATGAGACTCAACAATGCAGTCA----AT--TG-AAAAGT--A-AAAATTTGCATTTTGTGCCAAGTT-A---ACC-TTCATT--ATT---ACAAAA-TATG-TTCTTAATGGTATATTCTCAGCTT---------------ATAGTAGCCGGTGGTCAGAACAAAAATTGCCAAACAAAAT---------CCCCATCACCCGG------CCCTTAGGAAAAACCTTg





Alignments
lowQualScore                  :                                                                                                              111111111                                        1                                                                   1111                                                                                     222222222222222                                        55555555555555555     111111                 
lowQualScore                  :                                         33             33                       2   444                5555  222222222   2   2                2     2 2  2  7 6 4                        888                  0    5555    5      7777     4   33          3       6666         44   2            6       0                222222222222222                                 11     55555555555555555     000000                 
lowQualScore                  :                                         ..             ..                       .   ...                ....  .........   .   .                .     . .  .  . . .                        ...                  .    ....    .      ....     .   ..          .       ....         ..   .            .       .                ...............                                 ..     .................     ......                 
lowQualScore                  :                                         99             44                       5   444                3333  555555555   5   5                5     5 4  4  1 5 7                        888                  1    7777    3      0000     4   77          1       5555         22   2            2       1                777777777777777                                 22     99999999999999999     555555                 
consensus                     :                                  TGTCCCT--AATTTTGTGAGTA--GAAGGTTGAATTTCCAAAGTAAA-AGG---GGTTTGAAGGGGCAAA----CC---------GGA-GACGATCTGTGGTGAATTTT-CATTG-T-TT-TT-A-T-GAAAAATAGACTGCATTATTTGTT---TATGAGACCCAACAATGTGGTCT----ATTG-AAAAGT-A--AAAAATTTG--CGTTTTGTGC-CAAATTA----AACTTCATT--ATTAAAACAAAATATG-TTTTTAACGGTATATCCTCAGCCC---------------ATAGTAGCCGGTGGTCAGAACAAGAATTGCCGGNCGAAAT---------C-------CCCGG------CCCTTAGGGACAGCCCT
Reference ( family-2339 )     :                                  TGTCCCT--AATTTTGTGAGTA--GAAGGTTGAATTTCCAAAGTAAA-AGG---GGTTTGAAGGGGCAAA----CC---------GGA-GACGATCTGTGGTGAATTTT-CATTG-T-TT-TT-A-T-GAAAAATAGACTGCATTATTTGTT---TATGAGACCCAACAATGTGGTCT----ATTG-AAAAGT-A--AAAAATTTG--CGTTTTGTGC-CAAATTA----AACTTCATT--ATTAAAACAAAATATG-TTTTTAACGGTATATCCTCAGCCC---------------ATAGTAGCCGGTGGTCAGAACAAGAATTGCCGGNCGAAAT---------C-------CCCGG------CCCTTAGGGACAGCCCT
gi|1                          :                                    TCCTT--TATTTTGTGAGTA--GAAAGTTGAATTTCCAAAATAAA-ACA---GGTTTTAAGGGGCAAA----CC---------GAA-GACGATCTGTAATGAATTTT-CGTTG-T-TT-TTAA-T-GAAACGTAGACTGCACTATTTGTT---TATGAGACCCAATAATGTGGTCT----ATTGAAAAAGA-A--AAAAAAATG--CATCTTGTGC-CAAAGTA----AACTTCATTAAATTATAACAAAATATA-TTGTTAACGGTATATCCTCAGCCCATAATAAGTACTCAAATAGTAGCCAGTGGTAAGAACAAAAATTGCTGGCTGATATCCATGGC--C-------CCTGG------CTCTTATGGAAAGCC
gi|10                         :                                   GTCCCTTAGATTTTGTG------------TG---TTCCAAAGTAAA-AGG---GGTTTAAAAGGGCAAA----CC---------AGA-GATAATCTGTGGTGAATTTT-CATTG-T-TT-TT-T-TAGCAAAATAGACAGCATAATTTGTT---TATGAGACCCAACAGTGTAGTCT----AATG-AAAAGT----AAAAATTTG--CATTTTGTGC-CAAATTA----AACTTCATT--ATTCAGACA------G-TT------G----ATCATCAGCCC---------------ATAGTATTTCGTGGTCAGAACAAGAATAGCCTTGCGAAATCCCTGGCCCC-------CCCAG------CCCTTGGGGACAGCCCTat
gi|11                         :                                  TGTCCCT--AATTTTGTGAGTATAGATGGTTGAGTTTCCAAAGTAAA-AAT---GGTTTGAAGGGGCAAA----CC---------GGA-GAC-ATCTGTGATGAATTTT-CAATG-T-CT-TC-AAT-GAAAA-TAGATTGCATTATTAGTT---TTTGAGACCCAACAATGTCATCT----G-----------------------------TTGTGC-CAAATTA----AAC-----------AAAAT----TATG--TTTTAATGG--TATCCTCAGCCC---------------ATAGTAGCCAGTGGTCAGAACAAGAGTTACCGGTTTAAAT---------C-------TCCAG------CCCTTAAGTACAACCCT
gi|12                         :                                 cTGTCCCT--AATTTTGTAAGTA--GAAGAATGAATTTCCAAAATAAA-AGG---GGTATTAAGGGGCAAA----AT---------GTA-GACGAGCTATGGTGAACTTC-CATAG-C-TT-TTAA-T-GAAAAATAGACTGCATTATTTGTT---TATGAGACCCAACAAT-CAATCT----ATTG-AAAAGA-A--AAGAAATTG--TGTTTTGTGC-CAAATAA----AACTCCATT--ATTCAAACAAAATATT-TTTTTAATGGTA
gi|13                         :                                                                           AGTGAG-AGATGCGGTTTGAAGGCGAAAATGTCCCTTGATCAGAGGATGACAAACTGTGGTGAATTTC-CACAG-T-TT-TT-ACT-GAAAAATAGACTGCACT-TTTATT---TATGGAAACCAA-AATATCTTTTTAAAATTG-AAGA-T-AATAAAAATCTGTCTGTTTg
gi|14                         :                  gttttctatgtctatcTGTCCCT--AATTTGGTAAGCA--GAAGGTTGAATTTCCCAAGTAAATGGG---GGGTTGAAGGCACAAA----CC---------GGA-GACGACCAGTGATGAATTT--CATTG-A-TT-TT-AAT-GAAAAATAGACTGCATTA-TTGTT---TATGAGACTAAACAATGTGATCT----ATTC-AAAAGT-T--AAAAA-TTG--CGTTTTgatg
gi|15                         :                                gcTGTCCCT--AACTTTGAGAGTA--GATGGTTGAATTTCt
gi|15                         :                                                                                                                                                    ggc-TT-TC-A-T-GAAAAATAGACTGCATTATTTGTTAAATA-GAGACCCAACAATGTAAT-T----ACTG-AAAAGT----AAAAATTTA--CTTTTTGTGCAAAAATAA----AACTTCATT--ATTAAAACAAAATATG-TTTTatgaaaaatagactgcattatttgttaaatagagacccaacaatgtaattactgaaaagtaaaaatttactttttgtgcaaaaataaaacttcattattaaaacaaaatatgttttatatg
gi|16                         : ggctgtccctaactttgagagtagatggttgaaTGTCCCT--AATTTTGTGAGTA--AAAAGTTGAATTTCCAAAGTAAA-AGG---GGTCTGAAGGGGCAAA----CT---------GGA-GACAATCTGTGATGAATTTT-CATTG-TATT-TTAA-T-GAAAAATAGATTGCATGATTTATTTTATATG-GACCCAACAATGTGGatatg
gi|17                         :                                gcTATCCCA--AATTTTTTAAGTA--GATTGTTGACTTTCCAAAGTAAA-AAG---GATTTGAAGGGGCAAA----CC---------GGA-GA
gi|18                         :                                                                                                                                 ggaTGGTGAATTTT-CATTG-T-TTATA-A-T-GATTAATAGACTGCATTATTt
gi|2                          :                                  TGTTCCT--AATTTTGTGAGTA--GAAGATTGAATTTCCAAAGTAAA-AGG---GGTTTGAAGGGGTAAA----CC---------GGA-GATAATCTGTGATGAATTTT-CATTG-T-TT-TT-A-T-GAAAAATAGACTGCATTACTTGTT---TATGACACCCAAAAATGTGATCT----ATC--AAAATTAA--AAAAAATTG--TGTTTTGTGC-CAAATTAATTGAACTTCATA--ATTAAAACAAAATCTG-TTTTTAACAGTATATCCTCAGCCC---------------ATAGTAGCCAGTGGTAAGAACAAGAATTGCTGGGTGAAAT---------A-------CCCGG------CCCTAAGAGACAGCTCTgt
gi|3                          :                                        T--AATTTTGTGATTA--GAAGATTTGATTTCCAAAGTTAG-AGG---GGTTTGAAGGGGCAAA----CTA--------GGA-GACGATCGGTGGTGAATTTT-CAATT-T-TT-TT-A-TTGATAAATAGACTGCATTATTTGTT---TATGAGACCCAACCATGTAGTCT----GTTG-AAAAGT-A--AAAAAATTG--CATTTTGTGC-CAAATCA----GACTTCATT--ATTAAAACAAAATATG-TTTTTAACAGTAGATCCT-AAACC---------------ATAGTAGCCGGTGATCAGAACAAGTATTGTCAGGCAAAAG---------C-------CCCGGTTCCCACTCTTGGAGACAGCCCT
gi|4                          :                                  TGTCCCT--TATTTTGTGAGTA--GAAGGTTGAATTTCCGAAGTAAA-AAG---GGTTTTAAGGGGAAAA----CT---------GGA-GACGATCTGTGATGAATTTTTCGTTG-T-TT-TT-AAT-GAAAACTAGACTGCATTATTTGTT---TATGAGGCCTAACAATGTGATCT----GTTG-GAAAGT----AAAAATTTG--TGTTTTGTGC-CAAATTA----AACTTCATT--ATTAGAACAAAATATGTTTTTTAATGGTATATCCTAAGCCC---------------TTAGTAGCAGAAGGTCAGAATGAGAATTACAGGTTGAAAT---------C-------CTCGG------CTCTTATGGACAGCTCTga
gi|5                          :                                 cTGTCCCT--AATTTTTCGAGTA--GAAAGTTGAATTTCTAAAGTAAA-AGG---GGAATGAAGGGGCAAA----CC---------GGA-GACCATCTGTGATGAATTT---ATTG-T-TT-TT-AAT-GAAAAATAGACTGCATTTTTTTTA---TATGAGACCCAACATTGTGATCT----GTTGTAAAAGT-A--AAAA--TTG--TGTTTTGTGT-CAAATCA----AACTTCATT--GTTAAAACAAAATATGTTTTTTAACGTTTTATCCTCAGCCC---------------ATAGTAGCCAGTGCTCAAAACAAGAAGTACCAGTTGAAAT---------C-------TCCGG------GGCTTAGGGACAGCACT
gi|6                          :                                acTGTCATT--AATTTTGC-AGGA--GAAGGTTGAATTT-------AAA-AGG---GGTTTGAAGAGGCAAA----CC---------AGA-GATGATCCGTGACGATTTTT-CATTGGT-TT-TT-AAT-TACAAATAGATTGCATTGTTTGTT---TTCGAGACCCAACAATGTAGTCT----ACTG-AAAAGT-A--AAAA-TTTG--CAATTTGTGC-CAAATTA----AACTTCATT--ATTAAAACAAAATATG-TTTTTAATTTAATATCCTCGGTGG---------------ATAGTAGCAGTTGGTCAGATCAAGAATTGCCGGGTGAAAT---------CCACGG--CCCGG------CCCTTCTGGACAGTCCT
gi|7                          :                                gcTGTCCCT--AATTTTGTGAGAA--GAAGATTGAATTTC-AAAGAAAA-AGG---GACTTGAAAAG-CAAA----CC---------AGA-GACAATATGTGATGAATTTT-TATTG-T-TT-TT-AAT-GAAAAATAGACTGCATAATTTGTT---TATAAAAACCAATAATGTGATCA----ACTG-AAAAGT-A--AAA-ATTTG--CGTTTTGCGC-CAAATTT----AACTTCATT--ATTACATCAAAATATG-TTTTTAACAGTTAATCTTCAGTCC---------------ATAGTAACCAGTGGTCAGAACAAGAATTACCGGTTGAAAT-----------------CCAGG------CGCTTAGCAAAAGCCCTg
gi|8                          :                                                    AATA--GAAGATTGAATTTACAAAGTAAA-AGG---GGGTTGAAGGGGTAAA----CC---------AGA-GACAGTCTGTGGTGAGTTTT-CATTG-T-TT-TA-A-T-GAAAAACAGACTGCATTATTTGTT---TATGAGACTCAACAATGTAGTCT----ATTG-AAAAGT----AAAAATTTG--CATTTTGTGC-CAAGTTA----ACTTTCATT--ATT---ACAAAATATA-TTCTTAATGGTATATTCTCAGCTT---------------ATAGTAGTCGGTGGTCAAAACAAGAATTGCCGGACCAAAT---------CCCCATCACCCGG------CCCTTAGGAAAAACCTTg
gi|9                          :                                                      TA--GAAGATTGAATTTACAAAGTAAA-AGG---GGGTTGAAGGGGTAAA----CC---------AGA-GACAGTCTGTGGTGAGTTTT-CATTG-T-TT-TA-A-T-GAAAAACAGACTGCATTATTTGTT---TATGAGACTCAACAATGCAGTCA----ATTG-AAAAGT----AAAAATTTG--CATTTTGTGC-CAAGTTA----ACCTTCATT--ATT---ACAAAATATG-TTCTTAATGGTATATTCTCAGCTT---------------ATAGTAGCCGGTGGTCAGAACAAAAATTGCCAAACAAAAT---------CCCCATCACCCGG------CCCTTAGGAAAAACCTTg





Alignments
lowQualScore                  :                                                                                                              111111111                                        1                                                                   1111                                                                                     222222222222222                                        55555555555555555     111111                 
lowQualScore                  :                                         33             33                       2   444                5555  222222222   2   2                2     2 2  2  7 6 4                        888                  0    5555    5      7777     4   33          3       6666         44   2            6       0                222222222222222                                 11     55555555555555555     000000                 
lowQualScore                  :                                         ..             ..                       .   ...                ....  .........   .   .                .     . .  .  . . .                        ...                  .    ....    .      ....     .   ..          .       ....         ..   .            .       .                ...............                                 ..     .................     ......                 
lowQualScore                  :                                         99             44                       5   444                3333  555555555   5   5                5     5 4  4  1 5 7                        888                  1    7777    3      0000     4   77          1       5555         22   2            2       1                777777777777777                                 22     99999999999999999     555555                 
consensus                     :                                  TGTCCCT--AATTTTGTGAGTA--GAAGGTTGAATTTCCAAAGTAAA-AGG---GGTTTGAAGGGGCAAA----CC---------GGA-GACGATCTGTGGTGAATTTT-CATTG-T-TT-TT-A-T-GAAAAATAGACTGCATTATTTGTT---TATGAGACCCAACAATGTGGTCT----ATTG-AAAAGT-A--AAAAATTTG--CGTTTTGTGC-CAAATTA----AACTTCATT--ATTAAAACAAAATATG-TTTTTAACGGTATATCCTCAGCCC---------------ATAGTAGCCGGTGGTCAGAACAAGAATTGCCGGNCGAAAT---------C-------CCCGG------CCCTTAGGGACAGCCCT
Reference ( family-2339 )     :                                  TGTCCCT--AATTTTGTGAGTA--GAAGGTTGAATTTCCAAAGTAAA-AGG---GGTTTGAAGGGGCAAA----CC---------GGA-GACGATCTGTGGTGAATTTT-CATTG-T-TT-TT-A-T-GAAAAATAGACTGCATTATTTGTT---TATGAGACCCAACAATGTGGTCT----ATTG-AAAAGT-A--AAAAATTTG--CGTTTTGTGC-CAAATTA----AACTTCATT--ATTAAAACAAAATATG-TTTTTAACGGTATATCCTCAGCCC---------------ATAGTAGCCGGTGGTCAGAACAAGAATTGCCGGNCGAAAT---------C-------CCCGG------CCCTTAGGGACAGCCCT
gi|1                          :                                    TCCTT--TATTTTGTGAGTA--GAAAGTTGAATTTCCAAAATAAA-ACA---GGTTTTAAGGGGCAAA----CC---------GAA-GACGATCTGTAATGAATTTT-CGTTG-T-TT-TTAA-T-GAAACGTAGACTGCACTATTTGTT---TATGAGACCCAATAATGTGGTCT----ATTGAAAAAGA-A--AAAAAAATG--CATCTTGTGC-CAAAGTA----AACTTCATTAAATTATAACAAAATATA-TTGTTAACGGTATATCCTCAGCCCATAATAAGTACTCAAATAGTAGCCAGTGGTAAGAACAAAAATTGCTGGCTGATATCCATGGC--C-------CCTGG------CTCTTATGGAAAGCC
gi|10                         :                                   GTCCCTTAGATTTTGTG------------TG---TTCCAAAGTAAA-AGG---GGTTTAAAAGGGCAAA----CC---------AGA-GATAATCTGTGGTGAATTTT-CATTG-T-TT-TT-T-TAGCAAAATAGACAGCATAATTTGTT---TATGAGACCCAACAGTGTAGTCT----AATG-AAAAGT----AAAAATTTG--CATTTTGTGC-CAAATTA----AACTTCATT--ATTCAGACA------G-TT------G----ATCATCAGCCC---------------ATAGTATTTCGTGGTCAGAACAAGAATAGCCTTGCGAAATCCCTGGCCCC-------CCCAG------CCCTTGGGGACAGCCCTat
gi|11                         :                                  TGTCCCT--AATTTTGTGAGTATAGATGGTTGAGTTTCCAAAGTAAA-AAT---GGTTTGAAGGGGCAAA----CC---------GGA-GAC-ATCTGTGATGAATTTT-CAATG-T-CT-TC-AAT-GAAAA-TAGATTGCATTATTAGTT---TTTGAGACCCAACAATGTCATCT----G-----------------------------TTGTGC-CAAATTA----AAC-----------AAAAT----TATG--TTTTAATGG--TATCCTCAGCCC---------------ATAGTAGCCAGTGGTCAGAACAAGAGTTACCGGTTTAAAT---------C-------TCCAG------CCCTTAAGTACAACCCT
gi|12                         :                                 cTGTCCCT--AATTTTGTAAGTA--GAAGAATGAATTTCCAAAATAAA-AGG---GGTATTAAGGGGCAAA----AT---------GTA-GACGAGCTATGGTGAACTTC-CATAG-C-TT-TTAA-T-GAAAAATAGACTGCATTATTTGTT---TATGAGACCCAACAAT-CAATCT----ATTG-AAAAGA-A--AAGAAATTG--TGTTTTGTGC-CAAATAA----AACTCCATT--ATTCAAACAAAATATT-TTTTTAATGGTA
gi|13                         :                                                                           AGTGAG-AGATGCGGTTTGAAGGCGAAAATGTCCCTTGATCAGAGGATGACAAACTGTGGTGAATTTC-CACAG-T-TT-TT-ACT-GAAAAATAGACTGCACT-TTTATT---TATGGAAACCAA-AATATCTTTTTAAAATTG-AAGA-T-AATAAAAATCTGTCTGTTTg
gi|14                         :                  gttttctatgtctatcTGTCCCT--AATTTGGTAAGCA--GAAGGTTGAATTTCCCAAGTAAATGGG---GGGTTGAAGGCACAAA----CC---------GGA-GACGACCAGTGATGAATTT--CATTG-A-TT-TT-AAT-GAAAAATAGACTGCATTA-TTGTT---TATGAGACTAAACAATGTGATCT----ATTC-AAAAGT-T--AAAAA-TTG--CGTTTTgatg
gi|15                         :                                gcTGTCCCT--AACTTTGAGAGTA--GATGGTTGAATTTCt
gi|15                         :                                                                                                                                                    ggc-TT-TC-A-T-GAAAAATAGACTGCATTATTTGTTAAATA-GAGACCCAACAATGTAAT-T----ACTG-AAAAGT----AAAAATTTA--CTTTTTGTGCAAAAATAA----AACTTCATT--ATTAAAACAAAATATG-TTTTatgaaaaatagactgcattatttgttaaatagagacccaacaatgtaattactgaaaagtaaaaatttactttttgtgcaaaaataaaacttcattattaaaacaaaatatgttttatatg
gi|16                         : ggctgtccctaactttgagagtagatggttgaaTGTCCCT--AATTTTGTGAGTA--AAAAGTTGAATTTCCAAAGTAAA-AGG---GGTCTGAAGGGGCAAA----CT---------GGA-GACAATCTGTGATGAATTTT-CATTG-TATT-TTAA-T-GAAAAATAGATTGCATGATTTATTTTATATG-GACCCAACAATGTGGatatg
gi|17                         :                                gcTATCCCA--AATTTTTTAAGTA--GATTGTTGACTTTCCAAAGTAAA-AAG---GATTTGAAGGGGCAAA----CC---------GGA-GA
gi|18                         :                                                                                                                                 ggaTGGTGAATTTT-CATTG-T-TTATA-A-T-GATTAATAGACTGCATTATTt
gi|2                          :                                  TGTTCCT--AATTTTGTGAGTA--GAAGATTGAATTTCCAAAGTAAA-AGG---GGTTTGAAGGGGTAAA----CC---------GGA-GATAATCTGTGATGAATTTT-CATTG-T-TT-TT-A-T-GAAAAATAGACTGCATTACTTGTT---TATGACACCCAAAAATGTGATCT----ATC--AAAATTAA--AAAAAATTG--TGTTTTGTGC-CAAATTAATTGAACTTCATA--ATTAAAACAAAATCTG-TTTTTAACAGTATATCCTCAGCCC---------------ATAGTAGCCAGTGGTAAGAACAAGAATTGCTGGGTGAAAT---------A-------CCCGG------CCCTAAGAGACAGCTCTgt
gi|3                          :                                        T--AATTTTGTGATTA--GAAGATTTGATTTCCAAAGTTAG-AGG---GGTTTGAAGGGGCAAA----CTA--------GGA-GACGATCGGTGGTGAATTTT-CAATT-T-TT-TT-A-TTGATAAATAGACTGCATTATTTGTT---TATGAGACCCAACCATGTAGTCT----GTTG-AAAAGT-A--AAAAAATTG--CATTTTGTGC-CAAATCA----GACTTCATT--ATTAAAACAAAATATG-TTTTTAACAGTAGATCCT-AAACC---------------ATAGTAGCCGGTGATCAGAACAAGTATTGTCAGGCAAAAG---------C-------CCCGGTTCCCACTCTTGGAGACAGCCCT
gi|4                          :                                  TGTCCCT--TATTTTGTGAGTA--GAAGGTTGAATTTCCGAAGTAAA-AAG---GGTTTTAAGGGGAAAA----CT---------GGA-GACGATCTGTGATGAATTTTTCGTTG-T-TT-TT-AAT-GAAAACTAGACTGCATTATTTGTT---TATGAGGCCTAACAATGTGATCT----GTTG-GAAAGT----AAAAATTTG--TGTTTTGTGC-CAAATTA----AACTTCATT--ATTAGAACAAAATATGTTTTTTAATGGTATATCCTAAGCCC---------------TTAGTAGCAGAAGGTCAGAATGAGAATTACAGGTTGAAAT---------C-------CTCGG------CTCTTATGGACAGCTCTga
gi|5                          :                                 cTGTCCCT--AATTTTTCGAGTA--GAAAGTTGAATTTCTAAAGTAAA-AGG---GGAATGAAGGGGCAAA----CC---------GGA-GACCATCTGTGATGAATTT---ATTG-T-TT-TT-AAT-GAAAAATAGACTGCATTTTTTTTA---TATGAGACCCAACATTGTGATCT----GTTGTAAAAGT-A--AAAA--TTG--TGTTTTGTGT-CAAATCA----AACTTCATT--GTTAAAACAAAATATGTTTTTTAACGTTTTATCCTCAGCCC---------------ATAGTAGCCAGTGCTCAAAACAAGAAGTACCAGTTGAAAT---------C-------TCCGG------GGCTTAGGGACAGCACT
gi|6                          :                                acTGTCATT--AATTTTGC-AGGA--GAAGGTTGAATTT-------AAA-AGG---GGTTTGAAGAGGCAAA----CC---------AGA-GATGATCCGTGACGATTTTT-CATTGGT-TT-TT-AAT-TACAAATAGATTGCATTGTTTGTT---TTCGAGACCCAACAATGTAGTCT----ACTG-AAAAGT-A--AAAA-TTTG--CAATTTGTGC-CAAATTA----AACTTCATT--ATTAAAACAAAATATG-TTTTTAATTTAATATCCTCGGTGG---------------ATAGTAGCAGTTGGTCAGATCAAGAATTGCCGGGTGAAAT---------CCACGG--CCCGG------CCCTTCTGGACAGTCCT
gi|7                          :                                gcTGTCCCT--AATTTTGTGAGAA--GAAGATTGAATTTC-AAAGAAAA-AGG---GACTTGAAAAG-CAAA----CC---------AGA-GACAATATGTGATGAATTTT-TATTG-T-TT-TT-AAT-GAAAAATAGACTGCATAATTTGTT---TATAAAAACCAATAATGTGATCA----ACTG-AAAAGT-A--AAA-ATTTG--CGTTTTGCGC-CAAATTT----AACTTCATT--ATTACATCAAAATATG-TTTTTAACAGTTAATCTTCAGTCC---------------ATAGTAACCAGTGGTCAGAACAAGAATTACCGGTTGAAAT-----------------CCAGG------CGCTTAGCAAAAGCCCTg
gi|8                          :                                                    AATA--GAAGATTGAATTTACAAAGTAAA-AGG---GGGTTGAAGGGGTAAA----CC---------AGA-GACAGTCTGTGGTGAGTTTT-CATTG-T-TT-TA-A-T-GAAAAACAGACTGCATTATTTGTT---TATGAGACTCAACAATGTAGTCT----ATTG-AAAAGT----AAAAATTTG--CATTTTGTGC-CAAGTTA----ACTTTCATT--ATT---ACAAAATATA-TTCTTAATGGTATATTCTCAGCTT---------------ATAGTAGTCGGTGGTCAAAACAAGAATTGCCGGACCAAAT---------CCCCATCACCCGG------CCCTTAGGAAAAACCTTg
gi|9                          :                                                      TA--GAAGATTGAATTTACAAAGTAAA-AGG---GGGTTGAAGGGGTAAA----CC---------AGA-GACAGTCTGTGGTGAGTTTT-CATTG-T-TT-TA-A-T-GAAAAACAGACTGCATTATTTGTT---TATGAGACTCAACAATGCAGTCA----ATTG-AAAAGT----AAAAATTTG--CATTTTGTGC-CAAGTTA----ACCTTCATT--ATT---ACAAAATATG-TTCTTAATGGTATATTCTCAGCTT---------------ATAGTAGCCGGTGGTCAGAACAAAAATTGCCAAACAAAAT---------CCCCATCACCCGG------CCCTTAGGAAAAACCTTg


blockSeqs                     :                                         TA             TA                       T   TGC                TGTC  TTGATCAGA   T   A                T     G A  A  A A A                        AAA                       TAAA    T      AAT      T   TC          A       ATTG         .    C            T                        .                                               GC     CCCTGGCCCC            TTCCCA
blockSeqs                     :                                         .              .                        .   .                  .     A           .   G                .     . .  .  A C T                        TTA                       .       .      AA       A   .           .       .            .    A            T                        .                                               TT     CCCCATCA              .     
blockSeqs                     :                                         .              .                        .   .                  .     .           .   A                .     . .  .  . A .                        .                         .       .      A        T   .           .       .            .    C            .                        .                                               GT     CCCCATCA              .     
blockSeqs                     :                                         .              .                        .   .                  .     .           .   G                .     . .  .  . A .                        .                         .       .      T        T   .           .       .            .    A            .                        .                                               GC     CCACGG                .     
blockSeqs                     :                                         .              .                        .   .                  .     .           .   A                .     . .  .  . A .                        .                         .       .      A        A   .           .       .            .    A            .                        .                                               TT     C                     .     
blockSeqs                     :                                         .              .                        .   .                  .     .           .   A                .     . .  .  . A .                        .                         .       .      A        A   .           .       .            .    A            .                        .                                               TT     A                     .     
blockSeqs                     :                                         .              .                        .   .                  .     .           .   G                .     . .  .  . A .                        .                         .       .      A        T   .           .       .            .    A            .                        .                                               GT     C                     .     
blockSeqs                     :                                         .              .                        .   .                  .     .           .   G                .     . .  .  . . .                        .                         .       .      A        T   .           .       .            .    A            .                        .                                               TT     C                     .     
blockSeqs                     :                                         .              .                        .   .                  .     .           .   C                .     . .  .  . . .                        .                         .       .      .        T   .           .       .            .    A            .                        .                                               AC     C                     .     
blockSeqs                     :                                         .              .                        .   .                  .     .           .   G                .     . .  .  . . .                        .                         .       .      .        T   .           .       .            .    A            .                        .                                               AC     .                     .     
blockSeqs                     :                                         .              .                        .   .                  .     .           .   A                .     . .  .  . . .                        .                         .       .      .        T   .           .       .            .    .            .                                                                                                           
blockSeqs                     :                                         .              .                        .   .                  .     .           .   A                .     . .  .  . . .                        .                         .       .      .        .   .           .       .            .    .            .                                                                                                           
blockSeqs                     :                                         .              .                        .   .                  .     .           .   A                .     . .  .  . . .                        .                         .       .      .        .   .                                                                                                                                                              
blockSeqs                     :                                                        .                        .   .                  .     .           .   .                .     . .  .  . . .                        .                         .       .      .        .   .                                                                                                                                                              
blockSeqs                     :                                                        .                        .   .                  .     .           .                    .     . .  .  . . .                        .                                                                                                                                                                                                                    
blockSeqs                     :                                                                                                                                                       .  .  . . .                                                                                                                                                                                                                                             


blockSeqCons                  :                                                                                                                                                                                                                                                                                 **                                         ***************                                        C****************
originalCons                  :                                  TGTCCCT--AATTTTGTGAGTA--GAAGGTTGAATTTCCAAAGTAAA-AGG---GGTTTGAAGGGGCAAA----CC---------GGA-GACGATCTGTGGTGAATTTT-CATTG-T-TT-TT-A-T-GAAAAATAGACTGCATTATTTGTT---TATGAGACCCAACAATGTGGTCT----ATTG-AAAAGT-A--AAAAATTTG--CGTTTTGTGC-CAAATTA----AACTTCATT--ATTAAAACAAAATATG-TTTTTAACGGTATATCCTCAGCCC---------------ATAGTAGCCGGTGGTCAGAACAAGAATTGCCGGNCGAAAT---------C-------CCCGG------CCCTTAGGGACAGCCCT
finalCons                     :                                  TGTCCCT--AATTTTGTGAGTA--GAAGGTTGAATTTCCAAAGTAAA-AGG---GGTTTGAAGGGGCAAA----CC---------GGA-GACGATCTGTGGTGAATTTT-CATTG-T-TT-TT-A-T-GAAAAATAGACTGCATTATTTGTT---TATGAGACCCAACAATGTGGTCT----ATTG-AAAAGT-A--AAAAATTTG--CGTTTTGTGC-CAAATTA----AACTTCATT--ATTAAAACAAAATATG-TTTTTAACGGTATATCCTCAGCCC---------------ATAGTAGCCGGTGGTCAGAACAAGAATTGCCGGNCGAAATC----------------CCCGG------CCCTTAGGGACAGCCCT





Alignments
lowQualScore                  :                                                                                                              111111111                                        1                                                                   1111                                                                                     222222222222222                                        55555555555555555     111111                 
lowQualScore                  :                                         33             33                       2   444                5555  222222222   2   2                2     2 2  2  7 6 4                        888                  0    5555    5      7777     4   33          3       6666         44   2            6       0                222222222222222                                 11     55555555555555555     000000                 
lowQualScore                  :                                         ..             ..                       .   ...                ....  .........   .   .                .     . .  .  . . .                        ...                  .    ....    .      ....     .   ..          .       ....         ..   .            .       .                ...............                                 ..     .................     ......                 
lowQualScore                  :                                         99             44                       5   444                3333  555555555   5   5                5     5 4  4  1 5 7                        888                  1    7777    3      0000     4   77          1       5555         22   2            2       1                777777777777777                                 22     99999999999999999     555555                 
consensus                     :                                  TGTCCCT--AATTTTGTGAGTA--GAAGGTTGAATTTCCAAAGTAAA-AGG---GGTTTGAAGGGGCAAA----CC---------GGA-GACGATCTGTGGTGAATTTT-CATTG-T-TT-TT-A-T-GAAAAATAGACTGCATTATTTGTT---TATGAGACCCAACAATGTGGTCT----ATTG-AAAAGT-A--AAAAATTTG--CGTTTTGTGC-CAAATTA----AACTTCATT--ATTAAAACAAAATATG-TTTTTAACGGTATATCCTCAGCCC---------------ATAGTAGCCGGTGGTCAGAACAAGAATTGCCGGNCGAAAT---------C-------CCCGG------CCCTTAGGGACAGCCCT
Reference ( family-2339 )     :                                  TGTCCCT--AATTTTGTGAGTA--GAAGGTTGAATTTCCAAAGTAAA-AGG---GGTTTGAAGGGGCAAA----CC---------GGA-GACGATCTGTGGTGAATTTT-CATTG-T-TT-TT-A-T-GAAAAATAGACTGCATTATTTGTT---TATGAGACCCAACAATGTGGTCT----ATTG-AAAAGT-A--AAAAATTTG--CGTTTTGTGC-CAAATTA----AACTTCATT--ATTAAAACAAAATATG-TTTTTAACGGTATATCCTCAGCCC---------------ATAGTAGCCGGTGGTCAGAACAAGAATTGCCGGNCGAAAT---------C-------CCCGG------CCCTTAGGGACAGCCCT
gi|1                          :                                    TCCTT--TATTTTGTGAGTA--GAAAGTTGAATTTCCAAAATAAA-ACA---GGTTTTAAGGGGCAAA----CC---------GAA-GACGATCTGTAATGAATTTT-CGTTG-T-TT-TTAA-T-GAAACGTAGACTGCACTATTTGTT---TATGAGACCCAATAATGTGGTCT----ATTGAAAAAGA-A--AAAAAAATG--CATCTTGTGC-CAAAGTA----AACTTCATTAAATTATAACAAAATATA-TTGTTAACGGTATATCCTCAGCCCATAATAAGTACTCAAATAGTAGCCAGTGGTAAGAACAAAAATTGCTGGCTGATATCCATGGC--C-------CCTGG------CTCTTATGGAAAGCC
gi|10                         :                                   GTCCCTTAGATTTTGTG------------TG---TTCCAAAGTAAA-AGG---GGTTTAAAAGGGCAAA----CC---------AGA-GATAATCTGTGGTGAATTTT-CATTG-T-TT-TT-T-TAGCAAAATAGACAGCATAATTTGTT---TATGAGACCCAACAGTGTAGTCT----AATG-AAAAGT----AAAAATTTG--CATTTTGTGC-CAAATTA----AACTTCATT--ATTCAGACA------G-TT------G----ATCATCAGCCC---------------ATAGTATTTCGTGGTCAGAACAAGAATAGCCTTGCGAAATCCCTGGCCCC-------CCCAG------CCCTTGGGGACAGCCCTat
gi|11                         :                                  TGTCCCT--AATTTTGTGAGTATAGATGGTTGAGTTTCCAAAGTAAA-AAT---GGTTTGAAGGGGCAAA----CC---------GGA-GAC-ATCTGTGATGAATTTT-CAATG-T-CT-TC-AAT-GAAAA-TAGATTGCATTATTAGTT---TTTGAGACCCAACAATGTCATCT----G-----------------------------TTGTGC-CAAATTA----AAC-----------AAAAT----TATG--TTTTAATGG--TATCCTCAGCCC---------------ATAGTAGCCAGTGGTCAGAACAAGAGTTACCGGTTTAAAT---------C-------TCCAG------CCCTTAAGTACAACCCT
gi|12                         :                                 cTGTCCCT--AATTTTGTAAGTA--GAAGAATGAATTTCCAAAATAAA-AGG---GGTATTAAGGGGCAAA----AT---------GTA-GACGAGCTATGGTGAACTTC-CATAG-C-TT-TTAA-T-GAAAAATAGACTGCATTATTTGTT---TATGAGACCCAACAAT-CAATCT----ATTG-AAAAGA-A--AAGAAATTG--TGTTTTGTGC-CAAATAA----AACTCCATT--ATTCAAACAAAATATT-TTTTTAATGGTA
gi|13                         :                                                                           AGTGAG-AGATGCGGTTTGAAGGCGAAAATGTCCCTTGATCAGAGGATGACAAACTGTGGTGAATTTC-CACAG-T-TT-TT-ACT-GAAAAATAGACTGCACT-TTTATT---TATGGAAACCAA-AATATCTTTTTAAAATTG-AAGA-T-AATAAAAATCTGTCTGTTTg
gi|14                         :                  gttttctatgtctatcTGTCCCT--AATTTGGTAAGCA--GAAGGTTGAATTTCCCAAGTAAATGGG---GGGTTGAAGGCACAAA----CC---------GGA-GACGACCAGTGATGAATTT--CATTG-A-TT-TT-AAT-GAAAAATAGACTGCATTA-TTGTT---TATGAGACTAAACAATGTGATCT----ATTC-AAAAGT-T--AAAAA-TTG--CGTTTTgatg
gi|15                         :                                gcTGTCCCT--AACTTTGAGAGTA--GATGGTTGAATTTCt
gi|15                         :                                                                                                                                                    ggc-TT-TC-A-T-GAAAAATAGACTGCATTATTTGTTAAATA-GAGACCCAACAATGTAAT-T----ACTG-AAAAGT----AAAAATTTA--CTTTTTGTGCAAAAATAA----AACTTCATT--ATTAAAACAAAATATG-TTTTatgaaaaatagactgcattatttgttaaatagagacccaacaatgtaattactgaaaagtaaaaatttactttttgtgcaaaaataaaacttcattattaaaacaaaatatgttttatatg
gi|16                         : ggctgtccctaactttgagagtagatggttgaaTGTCCCT--AATTTTGTGAGTA--AAAAGTTGAATTTCCAAAGTAAA-AGG---GGTCTGAAGGGGCAAA----CT---------GGA-GACAATCTGTGATGAATTTT-CATTG-TATT-TTAA-T-GAAAAATAGATTGCATGATTTATTTTATATG-GACCCAACAATGTGGatatg
gi|17                         :                                gcTATCCCA--AATTTTTTAAGTA--GATTGTTGACTTTCCAAAGTAAA-AAG---GATTTGAAGGGGCAAA----CC---------GGA-GA
gi|18                         :                                                                                                                                 ggaTGGTGAATTTT-CATTG-T-TTATA-A-T-GATTAATAGACTGCATTATTt
gi|2                          :                                  TGTTCCT--AATTTTGTGAGTA--GAAGATTGAATTTCCAAAGTAAA-AGG---GGTTTGAAGGGGTAAA----CC---------GGA-GATAATCTGTGATGAATTTT-CATTG-T-TT-TT-A-T-GAAAAATAGACTGCATTACTTGTT---TATGACACCCAAAAATGTGATCT----ATC--AAAATTAA--AAAAAATTG--TGTTTTGTGC-CAAATTAATTGAACTTCATA--ATTAAAACAAAATCTG-TTTTTAACAGTATATCCTCAGCCC---------------ATAGTAGCCAGTGGTAAGAACAAGAATTGCTGGGTGAAAT---------A-------CCCGG------CCCTAAGAGACAGCTCTgt
gi|3                          :                                        T--AATTTTGTGATTA--GAAGATTTGATTTCCAAAGTTAG-AGG---GGTTTGAAGGGGCAAA----CTA--------GGA-GACGATCGGTGGTGAATTTT-CAATT-T-TT-TT-A-TTGATAAATAGACTGCATTATTTGTT---TATGAGACCCAACCATGTAGTCT----GTTG-AAAAGT-A--AAAAAATTG--CATTTTGTGC-CAAATCA----GACTTCATT--ATTAAAACAAAATATG-TTTTTAACAGTAGATCCT-AAACC---------------ATAGTAGCCGGTGATCAGAACAAGTATTGTCAGGCAAAAG---------C-------CCCGGTTCCCACTCTTGGAGACAGCCCT
gi|4                          :                                  TGTCCCT--TATTTTGTGAGTA--GAAGGTTGAATTTCCGAAGTAAA-AAG---GGTTTTAAGGGGAAAA----CT---------GGA-GACGATCTGTGATGAATTTTTCGTTG-T-TT-TT-AAT-GAAAACTAGACTGCATTATTTGTT---TATGAGGCCTAACAATGTGATCT----GTTG-GAAAGT----AAAAATTTG--TGTTTTGTGC-CAAATTA----AACTTCATT--ATTAGAACAAAATATGTTTTTTAATGGTATATCCTAAGCCC---------------TTAGTAGCAGAAGGTCAGAATGAGAATTACAGGTTGAAAT---------C-------CTCGG------CTCTTATGGACAGCTCTga
gi|5                          :                                 cTGTCCCT--AATTTTTCGAGTA--GAAAGTTGAATTTCTAAAGTAAA-AGG---GGAATGAAGGGGCAAA----CC---------GGA-GACCATCTGTGATGAATTT---ATTG-T-TT-TT-AAT-GAAAAATAGACTGCATTTTTTTTA---TATGAGACCCAACATTGTGATCT----GTTGTAAAAGT-A--AAAA--TTG--TGTTTTGTGT-CAAATCA----AACTTCATT--GTTAAAACAAAATATGTTTTTTAACGTTTTATCCTCAGCCC---------------ATAGTAGCCAGTGCTCAAAACAAGAAGTACCAGTTGAAAT---------C-------TCCGG------GGCTTAGGGACAGCACT
gi|6                          :                                acTGTCATT--AATTTTGC-AGGA--GAAGGTTGAATTT-------AAA-AGG---GGTTTGAAGAGGCAAA----CC---------AGA-GATGATCCGTGACGATTTTT-CATTGGT-TT-TT-AAT-TACAAATAGATTGCATTGTTTGTT---TTCGAGACCCAACAATGTAGTCT----ACTG-AAAAGT-A--AAAA-TTTG--CAATTTGTGC-CAAATTA----AACTTCATT--ATTAAAACAAAATATG-TTTTTAATTTAATATCCTCGGTGG---------------ATAGTAGCAGTTGGTCAGATCAAGAATTGCCGGGTGAAAT---------CCACGG--CCCGG------CCCTTCTGGACAGTCCT
gi|7                          :                                gcTGTCCCT--AATTTTGTGAGAA--GAAGATTGAATTTC-AAAGAAAA-AGG---GACTTGAAAAG-CAAA----CC---------AGA-GACAATATGTGATGAATTTT-TATTG-T-TT-TT-AAT-GAAAAATAGACTGCATAATTTGTT---TATAAAAACCAATAATGTGATCA----ACTG-AAAAGT-A--AAA-ATTTG--CGTTTTGCGC-CAAATTT----AACTTCATT--ATTACATCAAAATATG-TTTTTAACAGTTAATCTTCAGTCC---------------ATAGTAACCAGTGGTCAGAACAAGAATTACCGGTTGAAAT-----------------CCAGG------CGCTTAGCAAAAGCCCTg
gi|8                          :                                                    AATA--GAAGATTGAATTTACAAAGTAAA-AGG---GGGTTGAAGGGGTAAA----CC---------AGA-GACAGTCTGTGGTGAGTTTT-CATTG-T-TT-TA-A-T-GAAAAACAGACTGCATTATTTGTT---TATGAGACTCAACAATGTAGTCT----ATTG-AAAAGT----AAAAATTTG--CATTTTGTGC-CAAGTTA----ACTTTCATT--ATT---ACAAAATATA-TTCTTAATGGTATATTCTCAGCTT---------------ATAGTAGTCGGTGGTCAAAACAAGAATTGCCGGACCAAAT---------CCCCATCACCCGG------CCCTTAGGAAAAACCTTg
gi|9                          :                                                      TA--GAAGATTGAATTTACAAAGTAAA-AGG---GGGTTGAAGGGGTAAA----CC---------AGA-GACAGTCTGTGGTGAGTTTT-CATTG-T-TT-TA-A-T-GAAAAACAGACTGCATTATTTGTT---TATGAGACTCAACAATGCAGTCA----ATTG-AAAAGT----AAAAATTTG--CATTTTGTGC-CAAGTTA----ACCTTCATT--ATT---ACAAAATATG-TTCTTAATGGTATATTCTCAGCTT---------------ATAGTAGCCGGTGGTCAGAACAAAAATTGCCAAACAAAAT---------CCCCATCACCCGG------CCCTTAGGAAAAACCTTg