lowQualScore                  :                                                                                                                                                                                                                                                                                                                                                                                                                                        1    1    11   11       111111    11     1111                              111                  33333333333333333333333                                                111            222222222       33333333333     1     44444444444444444       22                                        11111               11111111                               11      11     3333                1111                333333333                                                111111111                            888888888888888888888888888                    111111111                       1111111111111111                        
lowQualScore                  :                                                                                                                                                                                                                                                                                                                                                                                                                                        3    3    33   88    6  666666 0  77   2 5555    66  888 0   777           888    1 4           77777777777777777777777   0 88888     666     1      0        3  8 33  999         2  222222222       22222222222     0     66666666666666666   0   44  5  7777   11  777 4 4  7 77      99   22222 3 1    5      77777777 5          7       5 0  888   11  0   33     4444     0 3      3 1111      99        222222222       2  1    3333    44   1      1  77777 22  777777777 3333 55 55 777777777   22  444444444444444444444444444 333      555 66 22 777777777  22 44444  1 0    88  3333333333333333 1  4     33            
lowQualScore                  :                                                                                                                                                                                                                                                                                                                                                                                                                                        .    .    ..   ..    .  ...... .  ..   . ....    ..  ... .   ...           ...    . .           .......................   . .....     ...     .      .        .  . ..  ...         .  .........       ...........     .     .................   .   ..  .  ....   ..  ... . .  . ..      ..   ..... . .    .      ........ .          .       . .  ...   ..  .   ..     ....     . .      . ....      ..        .........       .  .    ....    ..   .      .  ..... ..  ......... .... .. .. .........   ..  ........................... ...      ... .. .. .........  .. .....  . .    ..  ................ .  .     ..            
lowQualScore                  :                                                                                                                                                                                                                                                                                                                                                                                                                                        3    3    88   66    7  444444 3  11   0 6666    99  888 8   888           000    1 4           99999999999999999999999   1 66666     222     1      8        3  7 66  666         0  555555555       55555555555     8     44444444444444444   2   66  0  6666   66  888 4 4  0 99      00   44444 6 4    0      99999999 7          9       7 1  777   00  6   88     8888     2 2      2 6666      00        000000000       0  9    9999    77   9      8  00000 55  555555555 8888 00 00 333333333   55  666666666666666666666666666 000      777 88 55 555555555  55 55555  8 1    77  0000000000000000 5  1     77            
consensus                     :                                                                                                                                                                                                                                                                                                                                                                                                                                   AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAG-AAAAC----AATA--CA---ATCAC---TATAAGGTCTT-CCGTTGTA-GACGGAAGACCG----TTTA-ATAAT--AAA---AAGAA--A--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GAC-GGAAGACCTTAATA--AT-----AAGAAAC---AAAA----TAAAAACAATATNCG-TCC---------AAACTTT-GTT-TG-GG-AACATAA---T-A-ATAA--AGAAACAAAGTCA---AAAACAAT-ATGTTC--CC----A-AACTTTGTTTGGGGAACA-TAATAATAAT--AATAAG--AAACAAGTTAAAAACAATATGTTCC--CAAAACTTT-GTTTGGGG---------AACATAA-TT-AGAT----CCTTT-GAT-CCGCTC-CC-----A--TA---------C-T--A--T--C---------GCT--AC------C-----C----T-G-CG---TG-T-GTAGCG---A--TA-G---------TA--T-----GG-GAGCGG-ATC---------------AAAGGATCTAAT-TTTAATTAGATT
Reference ( gi|2 )            :                                                                                                                                                                                                                                                                                                                                                                                                                                   AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAG-AAAAC----AATA--CA---ATCAC---TATAAGGTCTT-C-GTTGTA-GACGGAAGACCA----TTTA-ATAAT--AAA---AAGAA--A--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGGGAAGACCTTAATA--AT-----AAGAAAC---AGAG----TAAAACCAATATTTG-TCC---------AAACTTTCGTT-TG-GG-AACATAA---T-A-ATAA--AGAAACAGAGTTA---AAAACAAT-ATGTTC--CC----A-AACTTTGTTTGGGGAACA-TAATAATAAT--AATAAG--AAACAGATAAAAAACAATATGTTCC--CAAAACTTT-GTTTGGGG---------AACATAA-TT-AGAT----CCTTT-GAT-CCGCTC-CC-----A--TA---------C-T--A--T--C---------GCT--AC------C-----T----TTG-TG---TG-T-GTAGCG---A--TA-G---------TA--T-----GG-GAGCGG-GTC---------------AAAGGGTCTAAT-TTTAATTAGATT
gi|1                          :                                                                                                                                                                                                                                                                                                                                                                                                                                   AATAA-GATA-ATAA--TAA--TAAT-AG------ATAA--AAAAC----TTAA--GA---ATAAC---AATAAG-TTTT-C-CTTGGA-AACGGA-GACC-------TATATAAA--AAACTTAAGAATAA--CAATA--T--TCA-----------TCCGT-TG-A-AACG---AAACCTTAATATAATTAAAGAAGAAAC---A-AG----TAAAAACAATATGTC-CCC---------AAACTTT-GTT-TGTGG-GAC---A---T-A-ATCA--AGACCCAAGGTCAACCAAGACAAG-AT
gi|13                         : tatggtcgaaacgttgtaattacctacaactttgtatttgataagtttaacaaaatatttctgtatgaaaatacgatatggacaaaatgttgcaaaaatgcagtgaaagtgttgacgtttttcggtcaggcagctttgacgcttttcgcagtgaatgaatttgattaccctgtgcacaattatgaaatctcagtctacaatccactgaaaattggaagtggatctctacagcttccaaacacttcggacaaactgacacccaaattacaaaacgtcaatattgagtaaatatttgacgtttcgaaaaagcaaaaaaatccgtataaaaattcaaagtgaatatctattcaatccctgaaaattgacaaattggacgacgcatattcgataatcgctgcacagaattttaagaaaaaaaAATAATAATATATAAATTAAAATAATTAA------AAAAG-AAAGCC---AATAAACA---ATCAC---TATTA-GTCTTCC-GTTGTA-GACGGAAGACC
gi|3                          :                                                                                                                                                                                                                                                                                                                                                                                                                                        -AATA-ATAA--TAAA-TAAT-AATAATTTAGAAGAAAAACACAGAGTA--GA---AAAAC---AGTAAGGTCTTCC-GCAGAG-GACGGAAGACCAAGACCTTA-AT-----------AAG--------AATA---AATC---GTACGATCTTCCGTCTG-A-AAC-GGAAGACCTTAA
gi|22                         :                                                                                                                                                                                                                                                                                                                                                                  aatacatctttcctgaaaatttcatgaaagtcgatcgagaaacggctgggaaaatcgaggggactgtgtaggaaaatTAA--TAA--TAAT-AA------ACAGG-AAA-C----AATA--CA---ATCAC---TAT-AGGTCTT-C-GTTGTAGGACGAA
gi|9                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                      AA-TAAT-AA------GAAA------C----AATA--CA---AACAC---TATAAGGTCTTCC-GTTGTA-GACGGAAGACC
gi|26                         :                                                                                                                                                                                                                                                                                                                                                                                                            aacaatacaaacactataaggtcttccgttgtagacggaagaccttAAT-AA------AAAG---AAAC----AATA--CA---ATCAC---TATAAGGTCTT-C-t
gi|6                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                               g------AACAG-AAAAC----CATA--TATTGATTGCATTTGTAAGGTCTT-CCGTCTTC-CACGGAAGACCA----TATA-cg
gi|9                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                              AAC----AATA--CA---AACAC---TATAAGGTCTT-CCGTTGTA-GACGGAAGACC------TTA-ATAAT--AA------GAA--A--CAATA--CAAACACTATAAGGTCTTCCGT-TGTA-GAC-GGAAGACCTgaagaagcaaagtcaacacaatatattcaaaagtttgttatgggaacata
gi|6                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     ---TATATGGTCTT-CCGTGGAA-GACGGAAGACC-----TT---ACA---------------------AATG--CAATCAATATATGGTTTTCTGT-TG------------------------------AAGAAGC---AAAG----TCAACACAATA--TA-TTC---------AAAAGTTTGTTATG-GG-AACATA
gi|3                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          TAAGGTCTT-CCGTTTCA-GACGGAAGATCG----T
gi|1                          :                                                                                                                                                                                                                                                                                                                                                          aatacatctttcctgaaaatttcatgaaagtcgatcgagaaacggctgggaaaatcgaggggactgtgtaggaaaataataataataaataataataatttagaagaaaaacacagagtagaaaaacagtaaggtcttccgcagaggacggaagaccaagaccttaataagaataaatcgtTA-ATAAT--AGAT--AAAAA--A--CTTAA--GAATAACAATAAG-TTTTCC-T-TGGA-AACGG--AGACCT--ATA---T-----AAAAAACTTAAGAA----TAA---CAATATTCA-TCCGTTGAAACGAAACCTT-----------AATATAA---TTA-AAGA--AGAAACA-AGT-A---AAAACAAT-ATGTCC--CC----A-AACTTTGTTTGTGGGACA-TAATa
gi|22                         :                                                                                                tatggtcgaaacgttgtaattacctacaactttgtatttgataagtttaacaaaatatttctgtatgaaaatacgatatggacaaaatgttgcaaaaatgcagtgaaagtgttgacgtttttcggtcaggcagctttgacgcttttcgcagtgaatgaatttgattaccctgtgcacaattatgaaatctcagtctacaatccactgaaaattggaagtggatctctacagcttccaaacacttcggacaaactgacacccaaattacaaaacgtcaatattgagtaaatatttgacgtttcgaaaaagcaaaaaaatccgtataaaaattcaaagtgaatatctattcaatccctgaaaattgacaaattggacgacgcatattcgataatcgctgcacagaattttaagaaaaaaaaataagataataaTA-ATAAT--AAAC--AGGAA--A--CAATA--CAATCACTAT-AGGTCTT-CGT-TGTAGGACGcaagacccaaggtcaaccaagacaagat
gi|13                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             taaA-ATAATTAAAA---AAGAA--AGCCAATAAACAATCACTATTAG-TCTTCCGT-TGTA-GAC-GGAAGACCaa
gi|26                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                aataataatatataaattaaAAT--AAA---AAGAA--A--CAATA--CAATCACTATAAGGTCTTCCG
gi|9                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  gA--A--CAATA--CAAACACTATAAGGTCTTCCGT-TGTA-GAC-GGAAGACCTTAATA--AT-----AAGAAAC-----AA----TACAAACACTAT
gi|6                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       TATATGGTCTTCCGT-GGAA-GACGG-AAGACCTTA------------------C---AAA-----TGCAATCAATATATG---------------GTTTTCTGT-TG---------------------A--AGAAGCAAAGTCA---ACA-CAAT-ATATTC--A-----A-AAGTTTGTTATGGGAACA-TAaaggtcttccgttgtagacggaagacct
gi|6                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       TGTAAGGTCTTCCGT-CTTC-CAC-GGAAGACCATA
gi|9                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       taTAAGGTCTTCCGT-C-TA-CAACGGAAGACCTTAaatgcaatcaatatatggttttctgttgaagaagcaaagtcaacacaatatattcaaaagtttgttatgggaacata
gi|3                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         aacaatacaaacactaTAAGGTCTTCCGT-TTCA-GAC-GGAAGATCGTAataataagaaacaatacaaacactataaggtcttccgttgtagacggaagacct
gi|1                          :                                                                                                                                                                                                                                                                                                                                                                                                                                     aatacatctttcctgaaaatttcatgaaagtcgatcgagaaacggctgggaaaatcgaggggactgtgtaggaaaataataataataaataataataatttagaagaaaaacacagagtagaaaaacagtaaggtcttccgcagaggacggaagaccaagaccttaataagaataaatcgTAATA--AT-----AATAGAT---AAAAAACTTAAGAATAACAAT---------------AAGTTTTC-CT-TG-GA-AACGGAGACCT-ATATAA--A-AAAC----TTA---AGAATAACAATATTCATCCGTTGA-AAC---------GAAACCTTAAT-ATAATTAAAGAAG--AAACAAGT-AAAAACAATATGTCCC--C-AAACTTT-GTTTGTGG---------GACATAA-TCAAGAC----CCa
gi|17                         :                                                                                                                                                                             tatggtcgaaacgttgtaattacctacaactttgtatttgataagtttaacaaaatatttctgtatgaaaatacgatatggacaaaatgttgcaaaaatgcagtgaaagtgttgacgtttttcggtcaggcagctttgacgcttttcgcagtgaatgaatttgattaccctgtgcacaattatgaaatctcagtctacaatccactgaaaattggaagtggatctctacagcttccaaacacttcggacaaactgacacccaaattacaaaacgtcaatattgagtaaatatttgacgtttcgaaaaagcaaaaaaatccgtataaaaattcaaagtgaatatctattcaatccctgaaaattgacaaattggacgacgcatattcgataatcgctgcacagaattttaagaaaaaaaaataagataaTAATA--AG-----AAGAAAC---AGAA----TAAAAATAATATGTT-CCC---------AAACTTT-GTT-TG-GGAAACATAA---C-A-Aaaggtcaaccaagacaagat
gi|10                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     ataaTATTA--AT-----AAGAAAC------------AAAACCAAAACATGTTTC---------AAAACTTGATT-TG-GG-AACAAGA---T-A-Agataatttt
gi|10                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      atattcgcagactttgttttgggagcaATATTCG---C---------AGACTTTGTTT-TG-GG-AGCATAT---T-A-AT-A--AGAAACAAAACCA---A----AAC-ATGTTT--CA----A-AACTTGATTT-GGGAACA-AGATAAggtattttgat
gi|17                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          ATAA---T-A-ATAAGAAGAAACAGAAT-A---AAAATAAT-ATGTTC--CC----A-AACTTTGTTTGGGAAACA-TAACAA-GAT--AATggtattttgat
gi|21                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           TAA---T-A-ATAA--GGAAAACGAGTTA---AAAAC-AT-ATGTTC--CC----ACCATTTTTTATGGAAGACA-TAATAttt
gi|10                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   -ATATTC--GC----A-GACTTTGTTTTGGGAGCA-T-AT-----T--AATAAG--AAACA---AAACCAAAACATGTT-T--CAAAACTTG-ATTT-GGG---------AACAAGA-TA-AGGT----ATTTT-GAT-
gi|17                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         ATAATAAT--AAGAAG--AAACAGAATAAAAATAATATGTTCC--C-AAACTTT-GTTTGGGA---------AACATAA-CA-AGAT----
gi|21                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             TAAT--AATAAGGAAAACGAGTTAAAAACA-TATGTTCC--CACCATTTT-TTATGGAA---------GACATAA-Taatttt
gi|4                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             ATGTTTCTCCAAAAATTAAGCTTGGGGTTTATTACCAATGTAA-TG-AAA------CTTA-GAT-CCGCTC-AC-----A--CA---------C----A--T--T---------GCT--AC------A-----CAAGGTAG-CT---TG-T-GCAGAG---A--TA-AA--------TA--T-----GT-GAGCGG-ATC---------------AAAGGATa
gi|11                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   CATAAATT-AAA------ATTA-GAT-CTA-TC-CC-----A--TAT--------C-A--A--T--C---------GCT--AC------CAAAGGT----TTG-T-------C-GTAG--------TA-----------TA--T-----GG-GAGCGG-ATC----------------AAGAATCTGA--TTTAAT
gi|16                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TAA-TT-AGAT----CCTTT-GAT--CGCTCTCC-----A--TA---------C-T--A--T--C---------GCT--AC-------------------------------------------------------------------G-GGGCGG-ATC---------------AAAGGATCTAAT-TTTAATTAGATTa
gi|7                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  aatTAA-TT-AAATGAAACTTGTAGAT-CCGCTC-CTCCACGA--TA---------CGC--A--T--C---------AAT--ACAGTACGC-----T----TTG-TG---TG------GCG---A--TA-G---------TA--T-----GT-GAACGG-ATC---------------AAAGGATCTAAC-TT-AATTAGATT
gi|16                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   atcAA-TT-AGAT----CCTTT-GAT-CCGCCC-C-------------------------------------------------------------------------------GTAGCG---A--TA-G---------TA--T-----GGAGAGC-G-ATC---------------AAAGGATCTAA---TTAATT
gi|7                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      AG-TT-AGAT----CCTTT-GAT-CCGTTC-AC-----A--TA---------C-T--A--T--C---------GCC--ACA-----C-----A----AAG-CG---TACT-GTATTG---A--TGCG---------TA--TCGTGGAG-GAGCGG-ATC---------------TACAAGTTTCA--TTTAATTAGATttaattagatt
gi|5                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      AA-TC-AGAT----CCTC--GAT-CCGCTC-CT-----A--TATTTTTTGG-C-T--G--T--C---------GCT--AC------------------TA-CT---CG-T-GTAGCG---A--CA-GCAAAAAAAATG--T-----AG-GAGCGG-ATC----------------GAGGATCCGAT-TTTAATCAGAtaattagatt
gi|5                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      AA-TC-GGAT----CCTC--GAT-CCGCTC-CT-----A--CATTTTTTTTGC-T--G--T--C---------GCT--AC-------------------A-CG---AG-TAGTAGCG---A--CA-GCCAAAAAA-TA--T-----AG-GAGCGG-ATC---------------GA-GGATCTGAT-TTTAATCAGATTttaatcagattg
gi|24                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             tctgattaaAA-TT-AGAT----ACTTT-GAC-CCGCTC-CC-----A--TA---------A-T--A--T--C---------ACT--AC------g
gi|12                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  atgtAA-TT-AGAT----CCTTT-GAT-CCGGGT-CC-----A--TA---------C-T--A--T--C---------CCT--AC------A-----C----AAA-GG---CG-T-GTAGCGTT-AACTA-G---------TA--T------------------------------------GGATCTAAT-TTTAATTAGttaatta
gi|11                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   taaAA-TC-AGAT----TCTT--GAT-CCGCTC-CCAT---A--TA---------C-T--A-----C---------GACAAAC------C-----T----TTG-----------GTAGCG---A--TT-GA--------TA--T-----GG-GA------T-------------------AGATCTAAT-TTTAATT
gi|23                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  attaAA-TT-AGAT----CCTTT-GAT-TTGCTC-CC-----T--TA---------C-T--A--T--C---------GCT--AC------tatga
gi|8                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      AA-TT-A-AT----CCTT--GAT-CCGC-C-TC-----A--CG---------T-TAGA--T--C---------GC---ACA-----C-----T----------------T-GTAGCG---A--T--C---------TAACT-----AG-AAGCGG-ATC---------------AAA--GTCTAAT-ttttttagattg
gi|25                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      AA-TT-AGAC----CCTTT-GAT-CCGCCC-CC-----A---A---------C----A--T--C---------TCT--AC------tattaaaggatctaattttaattagattg
gi|27                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    atAG-TT-AGAT----CCTTT-GAT-CCGCTC-ctaatcag
gi|8                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       A-TT-AGA------CTTT-GAT-CCGCTT-CT-----AGTTA-----------G--A--T--C---------GCT--AC-------------------A-AG---TG-T----GCG---ATCTA-A---------CG--T-----GA-G-GCGG-ATCAAGGATTAATTTATTAAAGGATCTAAT-TTTAATTAGATTctaattagatt
gi|18                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          T-AGAT----CCATT-GAT-CCGCTC-CC-----A--TA---------C-T--A--T--C---------GCT--ACA-----C-----A----TAGCTA---TG-T-GTAGCT---A--TA-G---------TA--T-----g
gi|15                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        aaT-AGAT----CCATT-GATTCCGCTC-CC-----A--TA---------C-T--A--T--C---------GCT--AC------CACA--T----CAG-CGTAATG-T-GTAGCtttaattttaatt
gi|4                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             aAT----CCTTT-GAT-CCGCTC-AC-----A--TAT--------T-T--A--T--CTCTGCACAAGCT--AC------C-----T-------------TG-T-GTAGCA---A--T--G---------TG--T-----GT-GAGC------------------------GGATCTAAG-TTTCATTACATTttgtctaattagattgcg
gi|19                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   atgtttctccaaaaattaagcttggggtttattaccTT-GAT-CCGGGT-CC-----A--TA---------C-T--A--T--C---------CCT--AC------A-----C----AAA-GG---CG-T-GTAGCGTTAAC-TA-G---------TA--T-----GG-A------------------------------TCTAAT-TTTAATTAGAT
gi|12                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    -CC-----A--TA---------C-T--AGTTAAC---------GCT--ACACG---C-----C----TT-------TG-T-GTAGGG---A--TA-G---------TA--T-----GG-ACCCGG-ATC---------------AAAGGATCTAAT-TTTA
gi|19                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    -CC-----A--TA---------C-T--AGTTAAC---------GCT--ACACG---C-----C----TT-------TG-T-GTAGGG---A--TA-G---------TA--T-----GG-ACCCGG-ATC---------------AAatctaattttaattag
gi|18                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       -----A--TA---------C-T--A--T--A---------GCT--ACA-----C-----A----TAGCTA---TG-T-GTAGCG---A--TA-G---------TA--T-----GG-GAGCGG-ATC---------------AATGGATCTAatctaattttaattagat
gi|15                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        aa-TG---TG---GTAGCG---A--TA-G---------TA--T-----GG-GAGCGGAATC---------------AATGGATCTATTGTCTAATTAGATTtttaattttaatt
gi|24                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           agctacacattacgctga---TG-T-GTAGTG---A--TA-T---------TA--T-----GG-GAGCGG-GTC---------------AAAGTATCTAAT-TTTAATTAgcg
gi|25                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 a-T-GTAGAG---A--T--G---------T---T-----GG-GGGCGG-ATC---------------AAAGGGTCTAAT-TCTAATCAG
gi|23                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   a-GTAGCG---A--TA-G---------TA--A-----GG-GAGCAA-ATC---------------AAAGGATCTAAT-TTTTTTTAGATT
gi|27                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          -GAGCGG-ATC---------------AAAGGATCTAAC-TCTAATTAGATTg
2 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|14 ): AAATACATTTTTCCTGAAATTTCATGAAAATTGATTAAGAAATGGTTCAGAAAATCGTGAGGTAAATCAAGGAAAATA
Unaligned ( gi|20 ): AATCTGATTAAAATCAAATCCTCGATCCATTCCTATGAGCTGAGCGGATCGAGGATCTGATCTTCATCAGATT






Alignments
lowQualScore                  :                                                                                                                                                                                                                                                 1    1    11    1    1  333333         111 1  11  11                                     444444        111111                                                        222222                          4444444444444       2222222           1     111          1                                                    22                1        11         1        555555555            11111                  11111     11111111           666666666666666666        11111      111111111              11111111111111111                      
lowQualScore                  :                                                                                                                                                                                                                                                 3    3    88    3    3  888888         777 0  33  33   4                  1 1            555555      0 555555   0  66     66          0  4        5  888     5 3     222222         4 1            1 2222222222222       3333333           0     777       3  9  3  0                      2             7         77        4       5        88     3   3        333333333            33333    99         4  55555 55  44444444 4         999999999999999999        22222   5  000000000 11      2    66666666666666666         2            
lowQualScore                  :                                                                                                                                                                                                                                                 .    .    ..    .    .  ......         ... .  ..  ..   .                  . .            ......      . ......   .  ..     ..          .  .        .  ...     . .     ......         . .            . .............       .......           .     ...       .  .  .  .                      .             .         ..        .       .        ..     .   .        .........            .....    ..         .  ..... ..  ........ .         ..................        .....   .  ......... ..      .    .................         .            
lowQualScore                  :                                                                                                                                                                                                                                                 3    3    33    3    3  333333         555 0  88  88   0                  0 4            000000      1 999999   1  99     99          4  5        7  666     7 2     666666         7 0            0 2222222222222       5555555           0     000       2  0  2  2                      5             3         55        0       5        33     7   3        333333333            99999    22         4  55555 55  55555555 0         333333333333333333        44444   7  777777777 55      4    99999999999999999         7            
consensus                     :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAANCACTATAAGGTCTTCCGTTGTAGACGGAAGACCA----TTTAATAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTTAATA-TAAGAAACANAGTAAAAACAATATTCGTCC---------AAACTTT-GTT-T-GGGAACATAAT-AATAA--AGAAACAGAGTCAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAGGAAAACGGGTNAAAAACAATATGTTCC--CAAAANTTT-GTTTGGGG---------AACGTAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TA--------C-TATCGCTACA-C----T-G-C-G---CGTGTAGCG--A--TAG-TA---------TGGGAGCGG-ATCA---------------AAGGATCTAAT-TTTAATTAGATT
Reference ( family-244 )      :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAATCACTATAAGGTCTTCCGTTGTAGACGGAAGACCG----TTTAATAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTTAATAATAAGAAACAAAATAAAAACAATATNCGTCC---------AAACTTT-GTT-T-GGGAACATAAT-AATAA--AGAAACAAAGTCAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAG--AAACAAGTTAAAAACAATATGTTCC--CAAAACTTT-GTTTGGGG---------AACATAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TA--------C-TATCGCTACC-C----T-G-C-G---TGTGTAGCG--A--TAG-TA---------TGGGAGCGG-ATCA---------------AAGGATCTAAT-TTTAATTAGATT
gi|1                          :                                                                                                                                                                                                                                                                                                                                                 TAATAAT--AGATAAAAAA--CTTAA--GAATAACAATAAG-TTTTCC-T-TGGA-AACGG-A-GACCT--ATA-TAAAAAACTTAAGAATAACAATATTCATCCGTTGAAACGAAACCTT----------AATATAATTAAAGA--AGAAACAA-GT-AAAAACAATATGTCCCCAAACTTTGTTTGTGGGACATAAT
gi|10                         : tatggtcgaaacgttgtaattacctacaactttgtatttgataagtttaacaaaatatttctgtatgaaaatacgatatggacaaaatgttgcaaaaatgcagtgaaagtgttgacgtttttcggtcaggcagctttgacgcttttcgcagtgaatgaatttgattaccctgtgcacaattatgaaatctcagtctacaatccactgaaaattggaagtggatctctacagcttccaaacacttcggacaaactgacacccaaattacaaaacgtcaatattgagtaaatatttgacgtttcgaaaaagcaaaaaaatccgtataaaaattcaaagtgaatatctattcaatccctgaaaattgacaaattggacgacgcatattcgataatcgctgcacagaattttaagaaaaaaaaataagataataaATATTCG--C---------AGACTTT-GTT-TTGGGAGCATATT-AATAA---GAAACAAAACCAA----AACATGTTTCAAAACTTGATTT-GGGAACAAGATAAcaagacccaaggtcaaccaagacaagat
gi|11                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 AATCAGAT----TCTT--GATCCGCTC-CCAT---A--TA--------C-TACGACAAAC-C----T-T-T-G------GTAGCG--A--TTGATA---------TG-----GG-AT-------------------AGATCTAAT-TTTAATTggtattttgat
gi|12                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             attaAATTAGAT----CCTTT-GATCCGGGT-CC-----A--TA--------C-TATCCCTACA-CAA--A-G---G---CGTGTAGCGTTAACTAG-TA---------T------------------------------GGATCTAAT-TTTAATTAGtatga
gi|13                         :                                                                                                                                                                                                                                         taaAATAATAATATATAAATTAAAATAATTAA------AAAAGAAAG---CCAA--TAAACAATCACTATTAG-TCTTCCGTTGTAGACGGAAGACC
gi|13                         :                                                                                                                                                                                                                                                                                                                                                  AATAATTAAAA-AAGAAAGCCAATAAACAATCACTATTAG-TCTTCCGT-TGTA-GACGG-AAGACC
gi|15                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     aataataatatataaattaaTACG-C----T-GAT-G---TG-GTAGCG--A--TAG-TA---------TGGGAGCGGAATCA---------------ATGGATCTATTGTCTAATTAGATT
gi|16                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      agctacacatTAATTAGAT----CCTTT-GATC-GCTCTCC-----A--TA--------C-TATCGCTAC------------------------------------------------GGGGCGG-ATCA---------------AAGGATCTAAT-TTTAATTAGATTgcg
gi|17                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    aatATAAT-AATAAGAAGAAACAGAAT-AAAAATAATATGTTCCCAAACTTTGTTTGGGAAACATAACAA-GATAAT
gi|18                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               -----A--TA--------C-TATAGCTACA-CA---TAG-CTA---TGTGTAGCG--A--TAG-TA---------TGGGAGCGG-ATCA---------------ATGGATCTAttt
gi|19                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              aaTT-GATCCGGGT-CC-----A--TA--------C-TATCCCTACA-CAA--A-G---G---CGTGTAGCGTTAACTAG-TA---------T------------------------------GGATCTAAT-TTTAATTAGATtttaattttaatt
gi|2                          :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAATCACTATAAGGTCTTC-GTTGTAGACGGAAGACCA----TTTAATAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGGGAAGACCTTAATAATAAGAAACAGAGTAAAACCAATATTTGTCC---------AAACTTTCGTT-T-GGGAACATAAT-AATAA--AGAAACAGAGTTAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAG--AAACAGATAAAAAACAATATGTTCC--CAAAACTTT-GTTTGGGG---------AACATAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TA--------C-TATCGCTACCTT----T-G-T-G---TGTGTAGCG--A--TAG-TA---------TGGGAGCGG-GTCA---------------AAGGGTCTAAT-TTTAATTAGATT
gi|20                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                A---------TAGGAATGG-ATCG---------------A-GGATTTGAT-TTTAATCAGATT
gi|20                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             GAGCGG-ATCG---------------A-GGATCTGAT-CTTCATCAGATTgagctgagcggatcgaggatctgatcttcatcagatt
gi|21                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 aatctgattaaaatcaaatcctcgatccattcctatgagctTAATAATAAGGAAAACGAGTTAAAAACA-TATGTTCC--CACCATTTT-TTATGGAA---------GACATAAT
gi|22                         :                                                                                                                                                                                                                                                                                                                                                 TAATAAT--AAACAGGAAA--CAATA--CAATCACTAT-AGGTCTT-CGT-TGTAGGACGA-Aa
gi|23                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             taaGTAGCG--A--TAG-TA---------AGGGAGCAA-ATCA---------------AAGGATCTAAT-TTTTTTTAGATT
gi|24                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          ---TGTGTAGTG--A--TAT-TA---------TGGGAGCGG-GTCA---------------AAGTATCTAAT-TTTAATTAg
gi|25                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              aTGTAGAG--A--T-G-T----------TGGGGGCGG-ATCA---------------AAGGGTCTAAT-TCTAATCAG
gi|26                         :                                                                                                                                                                                                                                                                                                                                                    aAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCG
gi|27                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            gGAGCGG-ATCA---------------AAGGATCTAAC-TCTAATTAGATT
gi|3                          :                                                                                                                                                                                                                                                 -AATA-ATAA--TAAA-TAAT-AATAATTTAGAAGAAAAACAC-AGAGTA--GAAAAACAGTAAGGTCTTCCGCAGAGGACGGAAGACCAAGACCTTAAT---------AAG------AATA---AATC---GTACGATCTTCCGTCTG-A-AACGG-AAGACCTTAA
gi|4                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           aatacatctttcctgaaaatttcatgaaagtcgatcgagaaacggctgggaaaatcgaggggactgtgtaggaaaatATGTTTCTCCAAAAATTAAGCTTGGGGTTTATTACCAATGTAATGAAA------CTTA-GATCCGCTC-AC-----A--CA--------C--ATTGCTACA-CAAGGTAG-C-T---TGTGCAGAG--A--TAAATA---------TGTGAGCGG-ATCA---------------AAGGAT
gi|5                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 AATCAGAT----CCTC--GATCCGCTC-CT-----A--TATTTTTTGGC-TGTCGCTAC-------T-A-C-T---CGTGTAGCG--A--CAG-CAAAAAAAATGTAGGAGCGG-ATCG---------------A-GGATCCGAT-TTTAATCAGA
gi|6                          :                                                                                                                                                                                                                                                                                                            TATATGGTCTTCCGTGGAAGACGGAAGACC-----TT--ACA-----------------AATG--CAATCAATATATGGTTTTCTGT-TG-----------------------AAGAAGCAAAGTCAACACAATATAT-TCA---------AAAGTTT-GTTAT-GGGAACATAttaatcagattg
gi|7                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                TAATTAAATGAAACTTGTAGATCCGCTC-CTCCACGA--TA--------CGCATCAATACA-G----T-A-C-GCTTTGTGTGGCG--A--TAG-TA---------TGTGAACGG-ATCA---------------AAGGATCTAA--CTTAATTAGATT
gi|8                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               atcATTAGA------CTTT-GATCCGCTT-CT-----AGTTA----------GATCGCTAC---------A-A-G---TGT---GCG--ATCTAA-CG---------TGAG-GCGG-ATCAAGGATTAATTTATTAAAGGATCTAAT-TTTAATTAGATT
gi|9                          :                                                                                                                                                                                                                                                                                      AA---C-AA--TA--CAAACACTATAAGGTCTTCCGTTGTAGACGGAAGACC------TTAATAAT--AA----GAAA--CAATA--CAAACACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTg
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|14 ): AAATACATTTTTCCTGAAATTTCATGAAAATTGATTAAGAAATGGTTCAGAAAATCGTGAGGTAAATCAAGGAAAATA






Alignments
lowQualScore                  :                                                                                                                                                                                                                                                 1    1    11    1    1  333333         111 1  11  11                                     333333        111111                                                        222222                        4444444444444444       2222222           1     11           1                                                    11               1         11         1        555555555            11111                  11111     1111111111         888888888888888888888         11111      111111111              11111111111111111                      
lowQualScore                  :                                                                                                                                                                                                                                                 3    3    88    3    3  888888         777 0  33  33   1                  1 1            777777      0 555555   0  66     66          0  4        5  888     5 3     000000         1              3333333333333333       3333333           0   7 33       6   9  3  0                      2             7         88        1      5         88     1   3        333333333   0        33333    99         4  00000 55  8888888888         111111111111111111111   2     22222   5  000000000 11      2    66666666666666666         2            
lowQualScore                  :                                                                                                                                                                                                                                                 .    .    ..    .    .  ......         ... .  ..  ..   .                  . .            ......      . ......   .  ..     ..          .  .        .  ...     . .     ......         .              ................       .......           .   . ..       .   .  .  .                      .             .         ..        .      .         ..     .   .        .........   .        .....    ..         .  ..... ..  ..........         .....................   .     .....   .  ......... ..      .    .................         .            
lowQualScore                  :                                                                                                                                                                                                                                                 3    3    33    3    3  333333         555 0  88  88   0                  0 4            555555      1 999999   1  99     99          4  5        7  666     7 2     666666         0              5555555555555555       5555555           0   0 88       5   0  2  2                      5             3         00        0      5         33     0   3        333333333   7        99999    22         4  00000 55  5555555555         444444444444444444444   9     44444   7  777777777 55      4    99999999999999999         7            
consensus                     :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAANCACTATAAGGTCTTCCGTTGTAGACGGAAGACCA----TTTAATAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTTAATA-TAAGAAACANAGTAAAAACAATAT-TCGTCC---------AAACTTT-GTT-T-GGGAACATAAT-AATAA--AGAAACAGAGTCAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAGGAAAACGGGTNAAAAACAATATGTTCC--CAAAANTTT-GTTTGGGG---------AACGTAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-A---CA---T-GC-GC----GTG-TAGCG--A--TAG-TA---------TGGGAGCGG-ATCA---------------AAGGATCTAAT-TTTAATTAGATT
Reference ( family-244 )      :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAANCACTATAAGGTCTTCCGTTGTAGACGGAAGACCA----TTTAATAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTTAATA-TAAGAAACANAGTAAAAACAATAT-TCGTCC---------AAACTTT-GTT-T-GGGAACATAAT-AATAA--AGAAACAGAGTCAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAGGAAAACGGGTNAAAAACAATATGTTCC--CAAAANTTT-GTTTGGGG---------AACGTAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-A---C----T-GC-GC----GTG-TAGCG--A--TAG-TA---------TGGGAGCGG-ATCA---------------AAGGATCTAAT-TTTAATTAGATT
gi|1                          :                                                                                                                                                                                                                                                                                                                                                 TAATAAT--AGATAAAAAA--CTTAA--GAATAACAATAAG-TTTTCC-T-TGGA-AACGG-A-GACCT--ATA-TAAAAAACTTAAGAATAACAATAT-TCATCCGTTGAAACGAAACCTT----------AATATAATTAAAGA--AGAAACA-AGT-AAAAACAATATGTCCCCAAACTTTGTTTGTGGGACATAAT
gi|10                         : tatggtcgaaacgttgtaattacctacaactttgtatttgataagtttaacaaaatatttctgtatgaaaatacgatatggacaaaatgttgcaaaaatgcagtgaaagtgttgacgtttttcggtcaggcagctttgacgcttttcgcagtgaatgaatttgattaccctgtgcacaattatgaaatctcagtctacaatccactgaaaattggaagtggatctctacagcttccaaacacttcggacaaactgacacccaaattacaaaacgtcaatattgagtaaatatttgacgtttcgaaaaagcaaaaaaatccgtataaaaattcaaagtgaatatctattcaatccctgaaaattgacaaattggacgacgcatattcgataatcgctgcacagaattttaagaaaaaaaaataagataataaATAT-TCG--C---------AGACTTT-GTT-TTGGGAGCATATT-AAT-A--AGAAACAAAACCAA----AACATGTTTCAAAACTTGATTT-GGGAACAAGATAAcaagacccaaggtcaaccaagacaagat
gi|11                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  AATCAGAT----TCTT--GATCCGCTC-CC-----A--TA----------TACTACGAC-AAACC----T-TT-G-------G-TAGCG--A--TTGATA---------TG-----GG-AT-------------------AGATCTAAT-TTTAATTggtattttgat
gi|12                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              attaAATTAGAT----CCTTT-GATCCGGGT-CC-----A--TA--------C-TATCCCTAC-A---CAA--A-G--GC----GTG-TAGCGTTAACTAG-TA---------T------------------------------GGATCTAAT-TTTAATTAGtatga
gi|13                         :                                                                                                                                                                                                                                         taaAATAATAATATATAAATTAAAATAATTAA------AAAAGAAAG---CCAA--TAAACAATCACTATTAG-TCTTCCGTTGTAGACGGAAGACC
gi|13                         :                                                                                                                                                                                                                                                                                                                                                  AATAATTAAAA-AAGAAAGCCAATAAACAATCACTATTAG-TCTTCCGT-TGTA-GACGG-AAGACC
gi|15                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    aataataatatataaattaaGCTAC-A---CAT--T-AC-GCTGATGTGGTAGCG--A--TAG-TA---------TGGGAGCGGAATCA---------------ATGGATCTATTGTCTAATTAGATT
gi|16                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                aTAATTAGAT----CCTTT-GATC-GCTCTCC-----A--TA--------C-TATCGCTAC----------------------------------------------------GGGGCGG-ATCA---------------AAGGATCTAAT-TTTAATTAGATTgcg
gi|17                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     aatATAAT-AATAAGAAGAAACAGAAT-AAAAATAATATGTTCCCAAACTTTGTTTGGGAAACATAACAA-GATAAT
gi|18                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                -----A--TA--------C-TATAGCTAC-A---CA---TAGCTAT----GTG-TAGCG--A--TAG-TA---------TGGGAGCGG-ATCA---------------ATGGATCTAttt
gi|19                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               aaTT-GATCCGGGT-CC-----A--TA--------C-TATCCCTAC-A---CAA--A-G--GC----GTG-TAGCGTTAACTAG-TA---------T------------------------------GGATCTAAT-TTTAATTAGATtttaattttaatt
gi|2                          :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAATCACTATAAGGTCTTC-GTTGTAGACGGAAGACCA----TTTAATAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGGGAAGACCTTAATAATAAGAAACAGAGTAAAACCAATAT-TTGTCC---------AAACTTTCGTT-T-GGGAACATAAT-AATAA--AGAAACAGAGTTAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAG--AAACAGATAAAAAACAATATGTTCC--CAAAACTTT-GTTTGGGG---------AACATAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-----CTT--T-GT-GT----GTG-TAGCG--A--TAG-TA---------TGGGAGCGG-GTCA---------------AAGGGTCTAAT-TTTAATTAGATT
gi|20                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     A---------TAGGAATGG-ATCG---------------A-GGATTTGAT-TTTAATCAGATT
gi|20                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  GAGCGG-ATCG---------------A-GGATCTGAT-CTTCATCAGATTgagctgagcggatcgaggatctgatcttcatcagatt
gi|21                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  aatctgattaaaatcaaatcctcgatccattcctatgagctTAATAATAAGGAAAACGAGTTAAAAAC-ATATGTTCC--CACCATTTT-TTATGGAA---------GACATAAT
gi|22                         :                                                                                                                                                                                                                                                                                                                                                 TAATAAT--AAACAGGAAA--CAATA--CAATCACTAT-AGGTCTT-CGT-TGTAGGACGA-Aa
gi|23                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 taaG-TAGCG--A--TAG-TA---------AGGGAGCAA-ATCA---------------AAGGATCTAAT-TTTTTTTAGATT
gi|24                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              ----GTG-TAGTG--A--TAT-TA---------TGGGAGCGG-GTCA---------------AAGTATCTAAT-TTTAATTAg
gi|25                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 atTG-TAGAG--A--T-G-T----------TGGGGGCGG-ATCA---------------AAGGGTCTAAT-TCTAATCAG
gi|26                         :                                                                                                                                                                                                                                                                                                                                                    aAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCG
gi|27                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 gGAGCGG-ATCA---------------AAGGATCTAAC-TCTAATTAGATT
gi|3                          :                                                                                                                                                                                                                                                 -AATA-ATAA--TAAA-TAAT-AATAATTTAGAAGAAAAACAC-AGAGTA--GAAAAACAGTAAGGTCTTCCGCAGAGGACGGAAGACCAAGACCTTAAT---------AAG------AATA---AATC---GTACGATCTTCCGTCTG-A-AACGG-AAGACCTTAA
gi|4                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            aatacatctttcctgaaaatttcatgaaagtcgatcgagaaacggctgggaaaatcgaggggactgtgtaggaaaatATGTTTCTCCAAAAATTAAGCTTGGGGTTTATTACCAATGTAATGAAA------CTTA-GATCCGCTC-AC-----A--CA--------C--ATTGCTAC-A---CAAGGTAGC-TT----GTG-CAGAG--A--TAAATA---------TGTGAGCGG-ATCA---------------AAGGAT
gi|5                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  AATCAGAT----CCTC--GATCCGCTC-CT-----A--TATTTTTTGGC-TGTCGCTACTA---C----T-----C----GTG-TAGCG--A--CAG-CAAAAAAAATGTAGGAGCGG-ATCG---------------A-GGATCCGAT-TTTAATCAGA
gi|6                          :                                                                                                                                                                                                                                                                                                            TATATGGTCTTCCGTGGAAGACGGAAGACC-----TT--ACA-----------------AATG--CAATCAATATATGGTTTTCTGT-TG-----------------------AAGAAGCAAAGTCAACACAATATAT--TCA---------AAAGTTT-GTTAT-GGGAACATAttaatcagattg
gi|7                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 TAATTAAATGAAACTTGTAGATCCGCTC-CTCCACGA--TA--------CGCATCAATAC-A---G----T-AC-GCTTT-GTG-TGGCG--A--TAG-TA---------TGTGAACGG-ATCA---------------AAGGATCTAA--CTTAATTAGATT
gi|8                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                atcATTAGA------CTTT-GATCCGCTT-CT-----AGTTA----------GATCGCTAC-A--------------A----GTG-T-GCG--ATCTAA-CG---------TGAG-GCGG-ATCAAGGATTAATTTATTAAAGGATCTAAT-TTTAATTAGATT
gi|9                          :                                                                                                                                                                                                                                                                                      AA---C-AA--TA--CAAACACTATAAGGTCTTCCGTTGTAGACGGAAGACC------TTAATAAT--AA----GAAA--CAATA--CAAACACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTg
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|14 ): AAATACATTTTTCCTGAAATTTCATGAAAATTGATTAAGAAATGGTTCAGAAAATCGTGAGGTAAATCAAGGAAAATA






Alignments
lowQualScore                  :                                                                                                                                                                                                                                                 1    1    11    1    1  333333         111 1  11  11                                     333333        111111                                                        222222                        4444444444444444       2222222           1     11           1                                                    11               1         11         1        555555555            11111                  11111     1111111111         444444444444444444            11111111111111111111              11111111111111111                      
lowQualScore                  :                                                                                                                                                                                                                                                 3    3    88    3    3  888888         777 0  33  33   1                  1 1            777777      0 555555   0  66     66          0  4        5  888     5 3     000000         1              3333333333333333       3333333           0   7 33       6   9  3  0                      2             7         88        1      5         88     1   3        333333333   0        11111    77         4  00000 55  8888888888         333333333333333333 3 33 2     33333333333333333333 33 0    2    77777777777777777         2            
lowQualScore                  :                                                                                                                                                                                                                                                 .    .    ..    .    .  ......         ... .  ..  ..   .                  . .            ......      . ......   .  ..     ..          .  .        .  ...     . .     ......         .              ................       .......           .   . ..       .   .  .  .                      .             .         ..        .      .         ..     .   .        .........   .        .....    ..         .  ..... ..  ..........         .................. . .. .     .................... .. .    .    .................         .            
lowQualScore                  :                                                                                                                                                                                                                                                 3    3    33    3    3  333333         555 0  88  88   0                  0 4            555555      1 999999   1  99     99          4  5        7  666     7 2     666666         0              5555555555555555       5555555           0   0 88       5   0  2  2                      5             3         00        0      5         33     0   3        333333333   7        33333    44         0  00000 55  5555555555         333333333333333333 1 99 9     11111111111111111111 11 4    5    44444444444444444         7            
consensus                     :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAANCACTATAAGGTCTTCCGTTGTAGACGGAAGACCA----TTTAATAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTTAATA-TAAGAAACANAGTAAAAACAATAT-TCGTCC---------AAACTTT-GTT-T-GGGAACATAAT-AATAA--AGAAACAGAGTCAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAGGAAAACGGGTNAAAAACAATATGTTCC--CAAAANTTT-GTTTGGGG---------AACGTAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-ACG---T-AC-GC----G-T--G-TAGCG--A--TAG-TA---------TGGGAGCGG-ATCA---------------AAGGATCTAAT-TTTAATTAGATT
Reference ( family-244 )      :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAANCACTATAAGGTCTTCCGTTGTAGACGGAAGACCA----TTTAATAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTTAATA-TAAGAAACANAGTAAAAACAATAT-TCGTCC---------AAACTTT-GTT-T-GGGAACATAAT-AATAA--AGAAACAGAGTCAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAGGAAAACGGGTNAAAAACAATATGTTCC--CAAAANTTT-GTTTGGGG---------AACGTAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-ACA---T-GC-GC----G-T--G-TAGCG--A--TAG-TA---------TGGGAGCGG-ATCA---------------AAGGATCTAAT-TTTAATTAGATT
gi|1                          :                                                                                                                                                                                                                                                                                                                                                 TAATAAT--AGATAAAAAA--CTTAA--GAATAACAATAAG-TTTTCC-T-TGGA-AACGG-A-GACCT--ATA-TAAAAAACTTAAGAATAACAATAT-TCATCCGTTGAAACGAAACCTT----------AATATAATTAAAGA--AGAAACA-AGT-AAAAACAATATGTCCCCAAACTTTGTTTGTGGGACATAAT
gi|10                         : tatggtcgaaacgttgtaattacctacaactttgtatttgataagtttaacaaaatatttctgtatgaaaatacgatatggacaaaatgttgcaaaaatgcagtgaaagtgttgacgtttttcggtcaggcagctttgacgcttttcgcagtgaatgaatttgattaccctgtgcacaattatgaaatctcagtctacaatccactgaaaattggaagtggatctctacagcttccaaacacttcggacaaactgacacccaaattacaaaacgtcaatattgagtaaatatttgacgtttcgaaaaagcaaaaaaatccgtataaaaattcaaagtgaatatctattcaatccctgaaaattgacaaattggacgacgcatattcgataatcgctgcacagaattttaagaaaaaaaaataagataataaATAT-TCG--C---------AGACTTT-GTT-TTGGGAGCATATT-AAT-A--AGAAACAAAACCAA----AACATGTTTCAAAACTTGATTT-GGGAACAAGATAAcaagacccaaggtcaaccaagacaagat
gi|11                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  AATCAGAT----TCTT--GATCCGCTC-CC-----A--TA----------TA---CTACGACA---A-AC--C----T-TTGG-TAGCG--A--TTGATA---------TG-----GG-AT-------------------AGATCTAAT-TTTAATTggtattttgat
gi|12                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              attaAATTAGAT----CCTTT-GATCCGGGT-CC-----A--TA--------C-TATCCCTAC-ACA---A-AG-GC----G-T--G-TAGCGTTAACTAG-TA---------T------------------------------GGATCTAAT-TTTAATTAGtatga
gi|13                         :                                                                                                                                                                                                                                         taaAATAATAATATATAAATTAAAATAATTAA------AAAAGAAAG---CCAA--TAAACAATCACTATTAG-TCTTCCGTTGTAGACGGAAGACC
gi|13                         :                                                                                                                                                                                                                                                                                                                                                  AATAATTAAAA-AAGAAAGCCAATAAACAATCACTATTAG-TCTTCCGT-TGTA-GACGG-AAGACC
gi|15                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    aataataatatataaattaaGCTAC-ACA---TTAC-GCTGATG-T--GGTAGCG--A--TAG-TA---------TGGGAGCGGAATCA---------------ATGGATCTATTGTCTAATTAGATT
gi|16                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                aTAATTAGAT----CCTTT-GATC-GCTCTCC-----A--TA--------C-TATCGCTAC----------------------------------------------------GGGGCGG-ATCA---------------AAGGATCTAAT-TTTAATTAGATTgcg
gi|17                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     aatATAAT-AATAAGAAGAAACAGAAT-AAAAATAATATGTTCCCAAACTTTGTTTGGGAAACATAACAA-GATAAT
gi|18                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TAGAT----CCATT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-ACA---TAGCTAT----G-T--G-TAGCT--A--TAG-TA---------Tttt
gi|19                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               aaTT-GATCCGGGT-CC-----A--TA--------C-TATCCCTAC-ACA---A-AG-GC----G-T--G-TAGCGTTAACTAG-TA---------T------------------------------GGATCTAAT-TTTAATTAGATtttaattttaatt
gi|2                          :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAATCACTATAAGGTCTTC-GTTGTAGACGGAAGACCA----TTTAATAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGGGAAGACCTTAATAATAAGAAACAGAGTAAAACCAATAT-TTGTCC---------AAACTTTCGTT-T-GGGAACATAAT-AATAA--AGAAACAGAGTTAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAG--AAACAGATAAAAAACAATATGTTCC--CAAAACTTT-GTTTGGGG---------AACATAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-CTT---T-GT-GT----G-T--G-TAGCG--A--TAG-TA---------TGGGAGCGG-GTCA---------------AAGGGTCTAAT-TTTAATTAGATT
gi|20                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     A---------TAGGAATGG-ATCG---------------A-GGATTTGAT-TTTAATCAGATT
gi|20                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  GAGCGG-ATCG---------------A-GGATCTGAT-CTTCATCAGATTgagctgagcggatcgaggatctgatcttcatcagatt
gi|21                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  aatctgattaaaatcaaatcctcgatccattcctatgagctTAATAATAAGGAAAACGAGTTAAAAAC-ATATGTTCC--CACCATTTT-TTATGGAA---------GACATAAT
gi|22                         :                                                                                                                                                                                                                                                                                                                                                 TAATAAT--AAACAGGAAA--CAATA--CAATCACTAT-AGGTCTT-CGT-TGTAGGACGA-Aa
gi|23                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               taa--G-TAGCG--A--TAG-TA---------AGGGAGCAA-ATCA---------------AAGGATCTAAT-TTTTTTTAGATT
gi|24                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           ----G-T--G-TAGTG--A--TAT-TA---------TGGGAGCGG-GTCA---------------AAGTATCTAAT-TTTAATTAg
gi|25                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              at-T--G-TAGAG--A--T-G-T----------TGGGGGCGG-ATCA---------------AAGGGTCTAAT-TCTAATCAG
gi|26                         :                                                                                                                                                                                                                                                                                                                                                    aAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCG
gi|27                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 gGAGCGG-ATCA---------------AAGGATCTAAC-TCTAATTAGATT
gi|3                          :                                                                                                                                                                                                                                                 -AATA-ATAA--TAAA-TAAT-AATAATTTAGAAGAAAAACAC-AGAGTA--GAAAAACAGTAAGGTCTTCCGCAGAGGACGGAAGACCAAGACCTTAAT---------AAG------AATA---AATC---GTACGATCTTCCGTCTG-A-AACGG-AAGACCTTAA
gi|4                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            aatacatctttcctgaaaatttcatgaaagtcgatcgagaaacggctgggaaaatcgaggggactgtgtaggaaaatATGTTTCTCCAAAAATTAAGCTTGGGGTTTATTACCAATGTAATGAAA------CTTA-GATCCGCTC-AC-----A--CA--------C--ATTGCTAC-ACAAGGTAGC-TT----G-T--G-CAGAG--A--TAAATA---------TGTGAGCGG-ATCA---------------AAGGAT
gi|5                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  AATCAGAT----CCTC--GATCCGCTC-CT-----A--TATTTTTTGGC-TGTCGCTAC-------T-AC-TC----G-T--G-TAGCG--A--CAG-CAAAAAAAATGTAGGAGCGG-ATCG---------------A-GGATCCGAT-TTTAATCAGA
gi|6                          :                                                                                                                                                                                                                                                                                                            TATATGGTCTTCCGTGGAAGACGGAAGACC-----TT--ACA-----------------AATG--CAATCAATATATGGTTTTCTGT-TG-----------------------AAGAAGCAAAGTCAACACAATATAT--TCA---------AAAGTTT-GTTAT-GGGAACATAttaatcagattg
gi|7                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 TAATTAAATGAAACTTGTAGATCCGCTC-CTCCACGA--TA--------CGCATCAATAC-A-G---T-AC-GCTTT-G-T--G-TGGCG--A--TAG-TA---------TGTGAACGG-ATCA---------------AAGGATCTAA--CTTAATTAGATT
gi|8                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                atcATTAGA------CTTT-GATCCGCTT-CT-----AGTTA----------GATCGCTAC-AAG---T-GT-GC----GAT--C-TAACG--------------------TGAG-GCGG-ATCAAGGATTAATTTATTAAAGGATCTAAT-TTTAATTAGATT
gi|9                          :                                                                                                                                                                                                                                                                                      AA---C-AA--TA--CAAACACTATAAGGTCTTCCGTTGTAGACGGAAGACC------TTAATAAT--AA----GAAA--CAATA--CAAACACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTg
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|14 ): AAATACATTTTTCCTGAAATTTCATGAAAATTGATTAAGAAATGGTTCAGAAAATCGTGAGGTAAATCAAGGAAAATA






Alignments
lowQualScore                  :                                                                                                                                                                                                                                                 1    1    11    1    1  333333         111 1  11  11                                     333333        111111                                                        222222                        4444444444444444       2222222           1     11           1                                                    11               1         11         1        555555555            11111                  11111     1111111111         44444444444444444            11111111111111111111              11111111111111111                      
lowQualScore                  :                                                                                                                                                                                                                                                 3    3    88    3    3  888888         777 0  33  33   1                  1 1            777777      0 555555   0  66     66          0  4        5  888     5 3     000000         1              3333333333333333       3333333           0   7 33       6   9  3  0                      2             7         88        1      5         88     1   3        333333333   0        11111    77         4  00000 55  8888888888         33333333333333333 3 33 2     33333333333333333333 33 0    2    77777777777777777         2            
lowQualScore                  :                                                                                                                                                                                                                                                 .    .    ..    .    .  ......         ... .  ..  ..   .                  . .            ......      . ......   .  ..     ..          .  .        .  ...     . .     ......         .              ................       .......           .   . ..       .   .  .  .                      .             .         ..        .      .         ..     .   .        .........   .        .....    ..         .  ..... ..  ..........         ................. . .. .     .................... .. .    .    .................         .            
lowQualScore                  :                                                                                                                                                                                                                                                 3    3    33    3    3  333333         555 0  88  88   0                  0 4            555555      1 999999   1  99     99          4  5        7  666     7 2     666666         0              5555555555555555       5555555           0   0 88       5   0  2  2                      5             3         00        0      5         33     0   3        333333333   7        33333    44         0  00000 55  5555555555         88888888888888888 1 99 9     11111111111111111111 11 4    5    44444444444444444         7            
consensus                     :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAANCACTATAAGGTCTTCCGTTGTAGACGGAAGACCA----TTTAATAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTTAATA-TAAGAAACANAGTAAAAACAATAT-TCGTCC---------AAACTTT-GTT-T-GGGAACATAAT-AATAA--AGAAACAGAGTCAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAGGAAAACGGGTNAAAAACAATATGTTCC--CAAAANTTT-GTTTGGGG---------AACGTAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-AC---GT-ACGC----G-T--G-TAGCG--A--TAG-TA---------TGGGAGCGG-ATCA---------------AAGGATCTAAT-TTTAATTAGATT
Reference ( family-244 )      :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAANCACTATAAGGTCTTCCGTTGTAGACGGAAGACCA----TTTAATAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTTAATA-TAAGAAACANAGTAAAAACAATAT-TCGTCC---------AAACTTT-GTT-T-GGGAACATAAT-AATAA--AGAAACAGAGTCAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAGGAAAACGGGTNAAAAACAATATGTTCC--CAAAANTTT-GTTTGGGG---------AACGTAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-AC---GT-ACGC----G-T--G-TAGCG--A--TAG-TA---------TGGGAGCGG-ATCA---------------AAGGATCTAAT-TTTAATTAGATT
gi|1                          :                                                                                                                                                                                                                                                                                                                                                 TAATAAT--AGATAAAAAA--CTTAA--GAATAACAATAAG-TTTTCC-T-TGGA-AACGG-A-GACCT--ATA-TAAAAAACTTAAGAATAACAATAT-TCATCCGTTGAAACGAAACCTT----------AATATAATTAAAGA--AGAAACA-AGT-AAAAACAATATGTCCCCAAACTTTGTTTGTGGGACATAAT
gi|10                         : tatggtcgaaacgttgtaattacctacaactttgtatttgataagtttaacaaaatatttctgtatgaaaatacgatatggacaaaatgttgcaaaaatgcagtgaaagtgttgacgtttttcggtcaggcagctttgacgcttttcgcagtgaatgaatttgattaccctgtgcacaattatgaaatctcagtctacaatccactgaaaattggaagtggatctctacagcttccaaacacttcggacaaactgacacccaaattacaaaacgtcaatattgagtaaatatttgacgtttcgaaaaagcaaaaaaatccgtataaaaattcaaagtgaatatctattcaatccctgaaaattgacaaattggacgacgcatattcgataatcgctgcacagaattttaagaaaaaaaaataagataataaATAT-TCG--C---------AGACTTT-GTT-TTGGGAGCATATT-AAT-A--AGAAACAAAACCAA----AACATGTTTCAAAACTTGATTT-GGGAACAAGATAAcaagacccaaggtcaaccaagacaagat
gi|11                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  AATCAGAT----TCTT--GATCCGCTC-CC-----A--TA----------TA---CTACGAC---AA-AC-C----T-TTGG-TAGCG--A--TTGATA---------TG-----GG-AT-------------------AGATCTAAT-TTTAATTggtattttgat
gi|12                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              attaAATTAGAT----CCTTT-GATCCGGGT-CC-----A--TA--------C-TATCCCTAC-AC---AA-AGGC----G-T--G-TAGCGTTAACTAG-TA---------T------------------------------GGATCTAAT-TTTAATTAGtatga
gi|13                         :                                                                                                                                                                                                                                         taaAATAATAATATATAAATTAAAATAATTAA------AAAAGAAAG---CCAA--TAAACAATCACTATTAG-TCTTCCGTTGTAGACGGAAGACC
gi|13                         :                                                                                                                                                                                                                                                                                                                                                  AATAATTAAAA-AAGAAAGCCAATAAACAATCACTATTAG-TCTTCCGT-TGTA-GACGG-AAGACC
gi|15                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    aataataatatataaattaaGCTAC-AC---ATTACGCTGATG-T--GGTAGCG--A--TAG-TA---------TGGGAGCGGAATCA---------------ATGGATCTATTGTCTAATTAGATT
gi|16                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                aTAATTAGAT----CCTTT-GATC-GCTCTCC-----A--TA--------C-TATCGCTAC---------------------------------------------------GGGGCGG-ATCA---------------AAGGATCTAAT-TTTAATTAGATTgcg
gi|17                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     aatATAAT-AATAAGAAGAAACAGAAT-AAAAATAATATGTTCCCAAACTTTGTTTGGGAAACATAACAA-GATAAT
gi|18                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TAGAT----CCATT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-AC---AT-A-GCTAT-G-T--G-TAGCT--A--TAG-TA---------Tttt
gi|19                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               aaTT-GATCCGGGT-CC-----A--TA--------C-TATCCCTAC-AC---AA-AGGC----G-T--G-TAGCGTTAACTAG-TA---------T------------------------------GGATCTAAT-TTTAATTAGATtttaattttaatt
gi|2                          :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAATCACTATAAGGTCTTC-GTTGTAGACGGAAGACCA----TTTAATAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGGGAAGACCTTAATAATAAGAAACAGAGTAAAACCAATAT-TTGTCC---------AAACTTTCGTT-T-GGGAACATAAT-AATAA--AGAAACAGAGTTAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAG--AAACAGATAAAAAACAATATGTTCC--CAAAACTTT-GTTTGGGG---------AACATAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-CT---TT-GTGT----G-T--G-TAGCG--A--TAG-TA---------TGGGAGCGG-GTCA---------------AAGGGTCTAAT-TTTAATTAGATT
gi|20                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    A---------TAGGAATGG-ATCG---------------A-GGATTTGAT-TTTAATCAGATT
gi|20                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 GAGCGG-ATCG---------------A-GGATCTGAT-CTTCATCAGATTgagctgagcggatcgaggatctgatcttcatcagatt
gi|21                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  aatctgattaaaatcaaatcctcgatccattcctatgagctTAATAATAAGGAAAACGAGTTAAAAAC-ATATGTTCC--CACCATTTT-TTATGGAA---------GACATAAT
gi|22                         :                                                                                                                                                                                                                                                                                                                                                 TAATAAT--AAACAGGAAA--CAATA--CAATCACTAT-AGGTCTT-CGT-TGTAGGACGA-Aa
gi|23                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              taa--G-TAGCG--A--TAG-TA---------AGGGAGCAA-ATCA---------------AAGGATCTAAT-TTTTTTTAGATT
gi|24                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          ----G-T--G-TAGTG--A--TAT-TA---------TGGGAGCGG-GTCA---------------AAGTATCTAAT-TTTAATTAg
gi|25                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             at-T--G-TAGAG--A--T-G-T----------TGGGGGCGG-ATCA---------------AAGGGTCTAAT-TCTAATCAG
gi|26                         :                                                                                                                                                                                                                                                                                                                                                    aAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCG
gi|27                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                gGAGCGG-ATCA---------------AAGGATCTAAC-TCTAATTAGATT
gi|3                          :                                                                                                                                                                                                                                                 -AATA-ATAA--TAAA-TAAT-AATAATTTAGAAGAAAAACAC-AGAGTA--GAAAAACAGTAAGGTCTTCCGCAGAGGACGGAAGACCAAGACCTTAAT---------AAG------AATA---AATC---GTACGATCTTCCGTCTG-A-AACGG-AAGACCTTAA
gi|4                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            aatacatctttcctgaaaatttcatgaaagtcgatcgagaaacggctgggaaaatcgaggggactgtgtaggaaaatATGTTTCTCCAAAAATTAAGCTTGGGGTTTATTACCAATGTAATGAAA------CTTA-GATCCGCTC-AC-----A--CA--------C--ATTGCTAC-ACAAGGT-A-GCTT--G-T--G-CAGAG--A--TAAATA---------TGTGAGCGG-ATCA---------------AAGGAT
gi|5                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  AATCAGAT----CCTC--GATCCGCTC-CT-----A--TATTTTTTGGC-TGTCGCTAC-------T-ACTC----G-T--G-TAGCG--A--CAG-CAAAAAAAATGTAGGAGCGG-ATCG---------------A-GGATCCGAT-TTTAATCAGA
gi|6                          :                                                                                                                                                                                                                                                                                                            TATATGGTCTTCCGTGGAAGACGGAAGACC-----TT--ACA-----------------AATG--CAATCAATATATGGTTTTCTGT-TG-----------------------AAGAAGCAAAGTCAACACAATATAT--TCA---------AAAGTTT-GTTAT-GGGAACATAttaatcagattg
gi|7                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 TAATTAAATGAAACTTGTAGATCCGCTC-CTCCACGA--TA--------CGCATCAATAC-A----GT-ACGCTTT-G-T--G-TGGCG--A--TAG-TA---------TGTGAACGG-ATCA---------------AAGGATCTAA--CTTAATTAGATT
gi|8                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                atcATTAGA------CTTT-GATCCGCTT-CT-----AGTTA----------GATCGCTAC-AA---GT-GTGC----GAT--C-TAACG--------------------TGAG-GCGG-ATCAAGGATTAATTTATTAAAGGATCTAAT-TTTAATTAGATT
gi|9                          :                                                                                                                                                                                                                                                                                      AA---C-AA--TA--CAAACACTATAAGGTCTTCCGTTGTAGACGGAAGACC------TTAATAAT--AA----GAAA--CAATA--CAAACACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTg
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|14 ): AAATACATTTTTCCTGAAATTTCATGAAAATTGATTAAGAAATGGTTCAGAAAATCGTGAGGTAAATCAAGGAAAATA






Alignments
lowQualScore                  :                                                                                                                                                                                                                                                 1    1    11    1    1  333333         111 1  11  11                                     333333        111111                                                        222222                        4444444444444444       2222222           1     11           1                                                    11               1         11         1        555555555            11111                  11111     1111111111         44444444444444444            11111111111111111111              11111111111111111                      
lowQualScore                  :                                                                                                                                                                                                                                                 3    3    88    3    3  888888         777 0  33  33   1                  1 1            777777      0 555555   0  66     66          0  4        5  888     5 3     000000         1              3333333333333333       3333333           0   7 33       6   9  3  0                      2             7         88        1      5         88     1   3        333333333   0        11111    77         4  00000 55  8888888888         33333333333333333 3 33 2     33333333333333333333 33 0    2    77777777777777777         2            
lowQualScore                  :                                                                                                                                                                                                                                                 .    .    ..    .    .  ......         ... .  ..  ..   .                  . .            ......      . ......   .  ..     ..          .  .        .  ...     . .     ......         .              ................       .......           .   . ..       .   .  .  .                      .             .         ..        .      .         ..     .   .        .........   .        .....    ..         .  ..... ..  ..........         ................. . .. .     .................... .. .    .    .................         .            
lowQualScore                  :                                                                                                                                                                                                                                                 3    3    33    3    3  333333         555 0  88  88   0                  0 4            555555      1 999999   1  99     99          4  5        7  666     7 2     666666         0              5555555555555555       5555555           0   0 88       5   0  2  2                      5             3         00        0      5         33     0   3        333333333   7        33333    44         0  00000 55  5555555555         88888888888888888 1 99 9     11111111111111111111 11 4    5    44444444444444444         7            
consensus                     :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAANCACTATAAGGTCTTCCGTTGTAGACGGAAGACCA----TTTAATAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTTAATA-TAAGAAACANAGTAAAAACAATAT-TCGTCC---------AAACTTT-GTT-T-GGGAACATAAT-AATAA--AGAAACAGAGTCAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAGGAAAACGGGTNAAAAACAATATGTTCC--CAAAANTTT-GTTTGGGG---------AACGTAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-AC---GT-ACGC----G-T--G-TAGCG--A--TAG-TA---------TGGGAGCGG-ATCA---------------AAGGATCTAAT-TTTAATTAGATT
Reference ( family-244 )      :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAANCACTATAAGGTCTTCCGTTGTAGACGGAAGACCA----TTTAATAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTTAATA-TAAGAAACANAGTAAAAACAATAT-TCGTCC---------AAACTTT-GTT-T-GGGAACATAAT-AATAA--AGAAACAGAGTCAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAGGAAAACGGGTNAAAAACAATATGTTCC--CAAAANTTT-GTTTGGGG---------AACGTAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-AC---GT-ACGC----G-T--G-TAGCG--A--TAG-TA---------TGGGAGCGG-ATCA---------------AAGGATCTAAT-TTTAATTAGATT
gi|1                          :                                                                                                                                                                                                                                                                                                                                                 TAATAAT--AGATAAAAAA--CTTAA--GAATAACAATAAG-TTTTCC-T-TGGA-AACGG-A-GACCT--ATA-TAAAAAACTTAAGAATAACAATAT-TCATCCGTTGAAACGAAACCTT----------AATATAATTAAAGA--AGAAACA-AGT-AAAAACAATATGTCCCCAAACTTTGTTTGTGGGACATAAT
gi|10                         : tatggtcgaaacgttgtaattacctacaactttgtatttgataagtttaacaaaatatttctgtatgaaaatacgatatggacaaaatgttgcaaaaatgcagtgaaagtgttgacgtttttcggtcaggcagctttgacgcttttcgcagtgaatgaatttgattaccctgtgcacaattatgaaatctcagtctacaatccactgaaaattggaagtggatctctacagcttccaaacacttcggacaaactgacacccaaattacaaaacgtcaatattgagtaaatatttgacgtttcgaaaaagcaaaaaaatccgtataaaaattcaaagtgaatatctattcaatccctgaaaattgacaaattggacgacgcatattcgataatcgctgcacagaattttaagaaaaaaaaataagataataaATAT-TCG--C---------AGACTTT-GTT-TTGGGAGCATATT-AAT-A--AGAAACAAAACCAA----AACATGTTTCAAAACTTGATTT-GGGAACAAGATAAcaagacccaaggtcaaccaagacaagat
gi|11                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  AATCAGAT----TCTT--GATCCGCTC-CC-----A--TA----------TA---CTACGAC---AA-AC-C----T-TTGG-TAGCG--A--TTGATA---------TG-----GG-AT-------------------AGATCTAAT-TTTAATTggtattttgat
gi|12                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              attaAATTAGAT----CCTTT-GATCCGGGT-CC-----A--TA--------C-TATCCCTAC-AC---AA-AGGC----G-T--G-TAGCGTTAACTAG-TA---------T------------------------------GGATCTAAT-TTTAATTAGtatga
gi|13                         :                                                                                                                                                                                                                                         taaAATAATAATATATAAATTAAAATAATTAA------AAAAGAAAG---CCAA--TAAACAATCACTATTAG-TCTTCCGTTGTAGACGGAAGACC
gi|13                         :                                                                                                                                                                                                                                                                                                                                                  AATAATTAAAA-AAGAAAGCCAATAAACAATCACTATTAG-TCTTCCGT-TGTA-GACGG-AAGACC
gi|15                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    aataataatatataaattaaGCTAC-AC---ATTACGCTGATG-T--GGTAGCG--A--TAG-TA---------TGGGAGCGGAATCA---------------ATGGATCTATTGTCTAATTAGATT
gi|16                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                aTAATTAGAT----CCTTT-GATC-GCTCTCC-----A--TA--------C-TATCGCTAC---------------------------------------------------GGGGCGG-ATCA---------------AAGGATCTAAT-TTTAATTAGATTgcg
gi|17                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     aatATAAT-AATAAGAAGAAACAGAAT-AAAAATAATATGTTCCCAAACTTTGTTTGGGAAACATAACAA-GATAAT
gi|18                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TAGAT----CCATT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-AC---AT-A-GCTAT-G-T--G-TAGCT--A--TAG-TA---------Tttt
gi|19                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               aaTT-GATCCGGGT-CC-----A--TA--------C-TATCCCTAC-AC---AA-AGGC----G-T--G-TAGCGTTAACTAG-TA---------T------------------------------GGATCTAAT-TTTAATTAGATtttaattttaatt
gi|2                          :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAATCACTATAAGGTCTTC-GTTGTAGACGGAAGACCA----TTTAATAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGGGAAGACCTTAATAATAAGAAACAGAGTAAAACCAATAT-TTGTCC---------AAACTTTCGTT-T-GGGAACATAAT-AATAA--AGAAACAGAGTTAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAG--AAACAGATAAAAAACAATATGTTCC--CAAAACTTT-GTTTGGGG---------AACATAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-CT---TT-GTGT----G-T--G-TAGCG--A--TAG-TA---------TGGGAGCGG-GTCA---------------AAGGGTCTAAT-TTTAATTAGATT
gi|20                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    A---------TAGGAATGG-ATCG---------------A-GGATTTGAT-TTTAATCAGATT
gi|20                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 GAGCGG-ATCG---------------A-GGATCTGAT-CTTCATCAGATTgagctgagcggatcgaggatctgatcttcatcagatt
gi|21                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  aatctgattaaaatcaaatcctcgatccattcctatgagctTAATAATAAGGAAAACGAGTTAAAAAC-ATATGTTCC--CACCATTTT-TTATGGAA---------GACATAAT
gi|22                         :                                                                                                                                                                                                                                                                                                                                                 TAATAAT--AAACAGGAAA--CAATA--CAATCACTAT-AGGTCTT-CGT-TGTAGGACGA-Aa
gi|23                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              taa--G-TAGCG--A--TAG-TA---------AGGGAGCAA-ATCA---------------AAGGATCTAAT-TTTTTTTAGATT
gi|24                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          ----G-T--G-TAGTG--A--TAT-TA---------TGGGAGCGG-GTCA---------------AAGTATCTAAT-TTTAATTAg
gi|25                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             at-T--G-TAGAG--A--T-G-T----------TGGGGGCGG-ATCA---------------AAGGGTCTAAT-TCTAATCAG
gi|26                         :                                                                                                                                                                                                                                                                                                                                                    aAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCG
gi|27                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                gGAGCGG-ATCA---------------AAGGATCTAAC-TCTAATTAGATT
gi|3                          :                                                                                                                                                                                                                                                 -AATA-ATAA--TAAA-TAAT-AATAATTTAGAAGAAAAACAC-AGAGTA--GAAAAACAGTAAGGTCTTCCGCAGAGGACGGAAGACCAAGACCTTAAT---------AAG------AATA---AATC---GTACGATCTTCCGTCTG-A-AACGG-AAGACCTTAA
gi|4                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            aatacatctttcctgaaaatttcatgaaagtcgatcgagaaacggctgggaaaatcgaggggactgtgtaggaaaatATGTTTCTCCAAAAATTAAGCTTGGGGTTTATTACCAATGTAATGAAA------CTTA-GATCCGCTC-AC-----A--CA--------C--ATTGCTAC-ACAAGGT-A-GCTT--G-T--G-CAGAG--A--TAAATA---------TGTGAGCGG-ATCA---------------AAGGAT
gi|5                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  AATCAGAT----CCTC--GATCCGCTC-CT-----A--TATTTTTTGGC-TGTCGCTAC-------T-ACTC----G-T--G-TAGCG--A--CAG-CAAAAAAAATGTAGGAGCGG-ATCG---------------A-GGATCCGAT-TTTAATCAGA
gi|6                          :                                                                                                                                                                                                                                                                                                            TATATGGTCTTCCGTGGAAGACGGAAGACC-----TT--ACA-----------------AATG--CAATCAATATATGGTTTTCTGT-TG-----------------------AAGAAGCAAAGTCAACACAATATAT--TCA---------AAAGTTT-GTTAT-GGGAACATAttaatcagattg
gi|7                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 TAATTAAATGAAACTTGTAGATCCGCTC-CTCCACGA--TA--------CGCATCAATAC-A----GT-ACGCTTT-G-T--G-TGGCG--A--TAG-TA---------TGTGAACGG-ATCA---------------AAGGATCTAA--CTTAATTAGATT
gi|8                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                atcATTAGA------CTTT-GATCCGCTT-CT-----AGTTA----------GATCGCTAC-AA---GT-GTGC----GAT--C-TAACG--------------------TGAG-GCGG-ATCAAGGATTAATTTATTAAAGGATCTAAT-TTTAATTAGATT
gi|9                          :                                                                                                                                                                                                                                                                                      AA---C-AA--TA--CAAACACTATAAGGTCTTCCGTTGTAGACGGAAGACC------TTAATAAT--AA----GAAA--CAATA--CAAACACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTg


blockSeqs                     :                                                                                                                                                                                                                                                 .    .    .     .    .  TAATTT         ACA .  AG  .    T                  T T            AAGACC        TAAAA       GC     AA             G        C  TAG     G A     TAATAA         G              TTGTCC                 GTTTT             .   A GA       A   C  A                         G             T         GA        T      .         TC     T   A        TTTATTACC            TGAAA    TA         T  CCACG GT  TTTTTTGGC          ACATTACGCTGAT     A .  G     ACAGCAAAAAAAATG      GG      A    AGGATTAATTTATTAAA         G
blockSeqs                     :                                                                                                                                                                                                                                                 .    .    .     .    .  .              .   .  .   .    A                  A A            T             AAAC        .      .              G        .  TA      . A     .              A              ATTCA                  CGTTT             .   A .        G   T  A                         G             T                                    .      A   .        .                    T        T          .  .     .   CG                 ACAAGGTAGCTT      . .  .     TTAACTAGTA           GG      .    AT                        .
blockSeqs                     :                                                                                                                                                                                                                                                                                        .   .  .   .    A                  G A            .             AAA         .      .              G        .  TA      . A                                   TCGC                   GTTAT             .   . .        G   .  .                         .                                                                                           T        T          .  .     .   C                  ACATAGCTAT        . .  .     TTAACTAGTA           AG      .    AA                        .
blockSeqs                     :                                                                                                                                                                                                                                                                                                                           T T                          AAA         .      .              A        .  TA      . A                                                                                                                                                                                                                        T        T          .  .     .   C                  AGTACGCTTT        . .  .     ATAAATA              GG      .    AA                        .
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                        AA          .      .              G        .  A       . .                                                                                                                                                                                                                        T        T          .  .     .   C                  ACAAAGGC          . .  .     ATAGTA               GG      .    AA                        .
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                        .           .      .              G        .  .       .                                                                                                                                                                                                                          T        T          .  .     .   C                  ACAAAGGC          . .  .     ATAGTA               GG      .    AA                        .
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                        .           .      .              .                                                                                                                                                                                                                                              .        A          .  .     .   C                  CTTTGTGT          . .  .     ATAGTA               GT      .    AA                        .
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         .        T          .  .     .   C                  AAGTGTGC          . .  .     ATAGTA               AG      .    AA                        .
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  .          .  .     .   .                  TACTC             . .  .     ATATTA               GT      .    AA                        .
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             .                 . .  .     ATAGTA               GA      .    AA                        .
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               . .  .     ATGT                 G       .    A                         .
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               . .  .     .                    .       .    A                         .
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 .  .     .                    .       .    A                         .
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       .    .                         .
blockSeqs                     :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       .    .                          


blockSeqCons                  :                                                                                                                                                                                                                                                                                                                                                        AAA***                                                                                                                                                                                                                                                                                    T*                      C*********                             **       ATAGTA************** GG           AA***************
originalCons                  :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAANCACTATAAGGTCTTCCGTTGTAGACGGAAGACCA----TTTAATAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTTAATA-TAAGAAACANAGTAAAAACAATAT-TCGTCC---------AAACTTT-GTT-T-GGGAACATAAT-AATAA--AGAAACAGAGTCAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAGGAAAACGGGTNAAAAACAATATGTTCC--CAAAANTTT-GTTTGGGG---------AACGTAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-AC---GT-ACGC----G-T--G-TAGCG--A--TAG-TA---------TGGGAGCGG-ATCA---------------AAGGATCTAAT-TTTAATTAGATT
finalCons                     :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAANCACTATAAGGTCTTCCGTTGTAGACGGAAGACCA----TTTAATAATAAA---AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTTAATA-TAAGAAACANAGTAAAAACAATAT-TCGTCC---------AAACTTT-GTT-T-GGGAACATAAT-AATAA--AGAAACAGAGTCAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAGGAAAACGGGTNAAAAACAATATGTTCC--CAAAANTTT-GTTTGGGG---------AACGTAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TAC---------TATCGCTAC-AC---GT-ACGC----G-T--G-TAGCGATAGTA--------------TGGGAGCGG-ATCAAA---------------GGATCTAAT-TTTAATTAGATT
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|14 ): AAATACATTTTTCCTGAAATTTCATGAAAATTGATTAAGAAATGGTTCAGAAAATCGTGAGGTAAATCAAGGAAAATA






Alignments
lowQualScore                  :                                                                                                                                                                                                                                                 1    1    11    1    1  333333         111 1  11  11                                     333333        111111                                                        222222                        4444444444444444       2222222           1     11           1                                                    11               1         11         1        555555555            11111                  11111     1111111111         44444444444444444            11111111111111111111              11111111111111111                      
lowQualScore                  :                                                                                                                                                                                                                                                 3    3    88    3    3  888888         777 0  33  33   1                  1 1            777777      0 555555   0  66     66          0  4        5  888     5 3     000000         1              3333333333333333       3333333           0   7 33       6   9  3  0                      2             7         88        1      5         88     1   3        333333333   0        11111    77         4  00000 55  8888888888         33333333333333333 3 33 2     33333333333333333333 33 0    2    77777777777777777         2            
lowQualScore                  :                                                                                                                                                                                                                                                 .    .    ..    .    .  ......         ... .  ..  ..   .                  . .            ......      . ......   .  ..     ..          .  .        .  ...     . .     ......         .              ................       .......           .   . ..       .   .  .  .                      .             .         ..        .      .         ..     .   .        .........   .        .....    ..         .  ..... ..  ..........         ................. . .. .     .................... .. .    .    .................         .            
lowQualScore                  :                                                                                                                                                                                                                                                 3    3    33    3    3  333333         555 0  88  88   0                  0 4            555555      1 999999   1  99     99          4  5        7  666     7 2     666666         0              5555555555555555       5555555           0   0 88       5   0  2  2                      5             3         00        0      5         33     0   3        333333333   7        33333    44         0  00000 55  5555555555         88888888888888888 1 99 9     11111111111111111111 11 4    5    44444444444444444         7            
consensus                     :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAANCACTATAAGGTCTTCCGTTGTAGACGGAAGACCA----TTTAATAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTTAATA-TAAGAAACANAGTAAAAACAATAT-TCGTCC---------AAACTTT-GTT-T-GGGAACATAAT-AATAA--AGAAACAGAGTCAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAGGAAAACGGGTNAAAAACAATATGTTCC--CAAAANTTT-GTTTGGGG---------AACGTAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-AC---GT-ACGC----G-T--G-TAGCG--A--TAG-TA---------TGGGAGCGG-ATCA---------------AAGGATCTAAT-TTTAATTAGATT
Reference ( family-244 )      :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAANCACTATAAGGTCTTCCGTTGTAGACGGAAGACCA----TTTAATAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTTAATA-TAAGAAACANAGTAAAAACAATAT-TCGTCC---------AAACTTT-GTT-T-GGGAACATAAT-AATAA--AGAAACAGAGTCAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAGGAAAACGGGTNAAAAACAATATGTTCC--CAAAANTTT-GTTTGGGG---------AACGTAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-AC---GT-ACGC----G-T--G-TAGCG--A--TAG-TA---------TGGGAGCGG-ATCA---------------AAGGATCTAAT-TTTAATTAGATT
gi|1                          :                                                                                                                                                                                                                                                                                                                                                 TAATAAT--AGATAAAAAA--CTTAA--GAATAACAATAAG-TTTTCC-T-TGGA-AACGG-A-GACCT--ATA-TAAAAAACTTAAGAATAACAATAT-TCATCCGTTGAAACGAAACCTT----------AATATAATTAAAGA--AGAAACA-AGT-AAAAACAATATGTCCCCAAACTTTGTTTGTGGGACATAAT
gi|10                         : tatggtcgaaacgttgtaattacctacaactttgtatttgataagtttaacaaaatatttctgtatgaaaatacgatatggacaaaatgttgcaaaaatgcagtgaaagtgttgacgtttttcggtcaggcagctttgacgcttttcgcagtgaatgaatttgattaccctgtgcacaattatgaaatctcagtctacaatccactgaaaattggaagtggatctctacagcttccaaacacttcggacaaactgacacccaaattacaaaacgtcaatattgagtaaatatttgacgtttcgaaaaagcaaaaaaatccgtataaaaattcaaagtgaatatctattcaatccctgaaaattgacaaattggacgacgcatattcgataatcgctgcacagaattttaagaaaaaaaaataagataataaATAT-TCG--C---------AGACTTT-GTT-TTGGGAGCATATT-AAT-A--AGAAACAAAACCAA----AACATGTTTCAAAACTTGATTT-GGGAACAAGATAAcaagacccaaggtcaaccaagacaagat
gi|11                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  AATCAGAT----TCTT--GATCCGCTC-CC-----A--TA----------TA---CTACGAC---AA-AC-C----T-TTGG-TAGCG--A--TTGATA---------TG-----GG-AT-------------------AGATCTAAT-TTTAATTggtattttgat
gi|12                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              attaAATTAGAT----CCTTT-GATCCGGGT-CC-----A--TA--------C-TATCCCTAC-AC---AA-AGGC----G-T--G-TAGCGTTAACTAG-TA---------T------------------------------GGATCTAAT-TTTAATTAGtatga
gi|13                         :                                                                                                                                                                                                                                         taaAATAATAATATATAAATTAAAATAATTAA------AAAAGAAAG---CCAA--TAAACAATCACTATTAG-TCTTCCGTTGTAGACGGAAGACC
gi|13                         :                                                                                                                                                                                                                                                                                                                                                  AATAATTAAAA-AAGAAAGCCAATAAACAATCACTATTAG-TCTTCCGT-TGTA-GACGG-AAGACC
gi|15                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    aataataatatataaattaaGCTAC-AC---ATTACGCTGATG-T--GGTAGCG--A--TAG-TA---------TGGGAGCGGAATCA---------------ATGGATCTATTGTCTAATTAGATT
gi|16                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                aTAATTAGAT----CCTTT-GATC-GCTCTCC-----A--TA--------C-TATCGCTAC---------------------------------------------------GGGGCGG-ATCA---------------AAGGATCTAAT-TTTAATTAGATTgcg
gi|17                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     aatATAAT-AATAAGAAGAAACAGAAT-AAAAATAATATGTTCCCAAACTTTGTTTGGGAAACATAACAA-GATAAT
gi|18                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TAGAT----CCATT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-AC---AT-A-GCTAT-G-T--G-TAGCT--A--TAG-TA---------Tttt
gi|19                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               aaTT-GATCCGGGT-CC-----A--TA--------C-TATCCCTAC-AC---AA-AGGC----G-T--G-TAGCGTTAACTAG-TA---------T------------------------------GGATCTAAT-TTTAATTAGATtttaattttaatt
gi|2                          :                                                                                                                                                                                                                                            AATAA-AATA-ATAA--TAAA-TAAT-AA------AAAAGAAAA---C-AA--TA--CAATCACTATAAGGTCTTC-GTTGTAGACGGAAGACCA----TTTAATAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCGT-TGTA-GACGGGAAGACCTTAATAATAAGAAACAGAGTAAAACCAATAT-TTGTCC---------AAACTTTCGTT-T-GGGAACATAAT-AATAA--AGAAACAGAGTTAAAAACAATATGTTCCCAAACTTTGTTTGGGGAACATAATAATAATAATAAG--AAACAGATAAAAAACAATATGTTCC--CAAAACTTT-GTTTGGGG---------AACATAATTAGAT----CCTTT-GATCCGCTC-CC-----A--TA--------C-TATCGCTAC-CT---TT-GTGT----G-T--G-TAGCG--A--TAG-TA---------TGGGAGCGG-GTCA---------------AAGGGTCTAAT-TTTAATTAGATT
gi|20                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    A---------TAGGAATGG-ATCG---------------A-GGATTTGAT-TTTAATCAGATT
gi|20                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 GAGCGG-ATCG---------------A-GGATCTGAT-CTTCATCAGATTgagctgagcggatcgaggatctgatcttcatcagatt
gi|21                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  aatctgattaaaatcaaatcctcgatccattcctatgagctTAATAATAAGGAAAACGAGTTAAAAAC-ATATGTTCC--CACCATTTT-TTATGGAA---------GACATAAT
gi|22                         :                                                                                                                                                                                                                                                                                                                                                 TAATAAT--AAACAGGAAA--CAATA--CAATCACTAT-AGGTCTT-CGT-TGTAGGACGA-Aa
gi|23                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              taa--G-TAGCG--A--TAG-TA---------AGGGAGCAA-ATCA---------------AAGGATCTAAT-TTTTTTTAGATT
gi|24                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          ----G-T--G-TAGTG--A--TAT-TA---------TGGGAGCGG-GTCA---------------AAGTATCTAAT-TTTAATTAg
gi|25                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             at-T--G-TAGAG--A--T-G-T----------TGGGGGCGG-ATCA---------------AAGGGTCTAAT-TCTAATCAG
gi|26                         :                                                                                                                                                                                                                                                                                                                                                    aAAT--AAA-AAGAAA--CAATA--CAATCACTATAAGGTCTTCCG
gi|27                         :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                gGAGCGG-ATCA---------------AAGGATCTAAC-TCTAATTAGATT
gi|3                          :                                                                                                                                                                                                                                                 -AATA-ATAA--TAAA-TAAT-AATAATTTAGAAGAAAAACAC-AGAGTA--GAAAAACAGTAAGGTCTTCCGCAGAGGACGGAAGACCAAGACCTTAAT---------AAG------AATA---AATC---GTACGATCTTCCGTCTG-A-AACGG-AAGACCTTAA
gi|4                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            aatacatctttcctgaaaatttcatgaaagtcgatcgagaaacggctgggaaaatcgaggggactgtgtaggaaaatATGTTTCTCCAAAAATTAAGCTTGGGGTTTATTACCAATGTAATGAAA------CTTA-GATCCGCTC-AC-----A--CA--------C--ATTGCTAC-ACAAGGT-A-GCTT--G-T--G-CAGAG--A--TAAATA---------TGTGAGCGG-ATCA---------------AAGGAT
gi|5                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  AATCAGAT----CCTC--GATCCGCTC-CT-----A--TATTTTTTGGC-TGTCGCTAC-------T-ACTC----G-T--G-TAGCG--A--CAG-CAAAAAAAATGTAGGAGCGG-ATCG---------------A-GGATCCGAT-TTTAATCAGA
gi|6                          :                                                                                                                                                                                                                                                                                                            TATATGGTCTTCCGTGGAAGACGGAAGACC-----TT--ACA-----------------AATG--CAATCAATATATGGTTTTCTGT-TG-----------------------AAGAAGCAAAGTCAACACAATATAT--TCA---------AAAGTTT-GTTAT-GGGAACATAttaatcagattg
gi|7                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 TAATTAAATGAAACTTGTAGATCCGCTC-CTCCACGA--TA--------CGCATCAATAC-A----GT-ACGCTTT-G-T--G-TGGCG--A--TAG-TA---------TGTGAACGG-ATCA---------------AAGGATCTAA--CTTAATTAGATT
gi|8                          :                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                atcATTAGA------CTTT-GATCCGCTT-CT-----AGTTA----------GATCGCTAC-AA---GT-GTGC----GAT--C-TAACG--------------------TGAG-GCGG-ATCAAGGATTAATTTATTAAAGGATCTAAT-TTTAATTAGATT
gi|9                          :                                                                                                                                                                                                                                                                                      AA---C-AA--TA--CAAACACTATAAGGTCTTCCGTTGTAGACGGAAGACC------TTAATAAT--AA----GAAA--CAATA--CAAACACTATAAGGTCTTCCGT-TGTA-GACGG-AAGACCTg
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|14 ): AAATACATTTTTCCTGAAATTTCATGAAAATTGATTAAGAAATGGTTCAGAAAATCGTGAGGTAAATCAAGGAAAATA