lowQualScore : 1111111111111111 11111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111 111111111111111111111111111111111
lowQualScore : 1 9999999999999999 1 1 111 111 222222 11 11 11111 1 1 44444444 1 1 333 111 111 111 111 11 11 11 66666666666 1 1 2222 1 1 9999999999999999 2 222 22222 1 22 1 55 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999 222 33333 11 1 5555555 4 2 66666666 333333333333333333 1 1 555 2 4 333333333333333333333333333333333 22
lowQualScore : 6 1 5555555555555555 3 5 66 0 5 111 6 2 5 1 5 5 6 99 6 6 5 5 5 5 5 000 6 333333 3 0 77 33 11 99999 99 3 3 8 4 88888888 7 3 3 000 1 222 444 4 8 444 777 77 0 88 6 00 22222222222 0 3 5 6666 3 3 3333333333333333 0 6 333 99999 3 3 11 6 5 00 00000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000 999 99999 88 7 0000000 0 6 99999999 7 666666666666666666 3 3 333 3 6 0 666666666666666666666666666666666 6 66 6
lowQualScore : . . ................ . . .. . . ... . . . . . . . .. . . . . . . . ... . ...... . . .. .. .. ..... .. . . . . ........ . . . ... . ... ... . . ... ... .. . .. . .. ........... . . . .... . . ................ . . ... ..... . . .. . . .. ............................................................................................................................................................................................ ... ..... .. . ....... . . ........ . .................. . . ... . . . ................................. . .. .
lowQualScore : 0 6 9999999999999999 9 0 99 8 7 777 7 5 7 4 7 2 7 22 7 7 7 7 7 7 7 000 7 000000 8 8 33 33 00 22222 77 3 3 3 7 33333333 3 3 3 000 2 222 555 0 0 000 555 00 7 33 7 33 77777777777 7 3 0 0000 3 3 2222222222222222 0 0 333 00000 3 5 77 7 3 00 55555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555 000 55555 55 0 7777777 0 7 77777777 3 777777777777777777 3 3 333 7 7 0 888888888888888888888888888888888 0 00 0
consensus : CACGGTGTGGAATGGGGACGGACTATCCGTGG-----------TT-TTTTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGANACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCC--CACAT--TCTTCAAAAAANCCTACACAAACTTG-GAAAATG-ATCGATTTCG--------TCAAATG-CCG-TCACGTNTTTTTCTAGAA--ATACATCGATTNTTCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-CAAAATGT--AATNTATANCTTAC--------T--TAGTAA-TCGACT-AAAGATC-A-AATCAT-ACAT-GCCTT----------GTTTTATTTTTGGAAAATGTTGAGTTTATCGT---AAACC----TTTGGCAAC-GGACTNTTTGTGTGCTCTGGTAATTGGTTCGAA-TTTTTGGCACCGGACT----------TTTCTG--------------TGTTTATAATATG-TA--TT-TGTATTGCAT-CAG--AATCA---AGAAGAAGGA-A-CANC---GT-G-G-TTGAACAGGCCAAAG-A-GAAGAAAAATG---TACCATT-ACGATAGTATA-TATTATCTGGGTACG-ACTAATTCGG--ACTAATACCCAAACTGACGAATATTTATGTTTTAACA------GTATACTTATT-GAAGCCTTGATAAATTAG-CGATAAATACATGCAT---T--ACA-TGC-A-AATATA-AG-CATGG--ATGA-TTTCAATATG-TGTCTGAA------AAA---GCAGTGTAGCATGTT---ATCCTTGATATGCGTGTG
Reference ( gi|2 ) : CACGGTGTGGAATAGGGAAGGACTATCCGTGGAGTTTTTTTTTTTGTTTTTTTTGCGCGGTT-CCAGACTAAGCGTG--CTCAGCAACCG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCC--CAATT--TCTTCAAAAAACTCTACACAAACTTG-GAAAATG-ATCGAATTTG--------TCAAATG-CCG-TCACTTTTTTTTTTAGAA--ATACATCGATTATTCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-AAAGATGT--AATCTATCGCTTAC--------T--TAGCAA-TCGACTCAAAGATC-A-TATCAT-ACAT-GCCTT----------ATTT--TTTTTGGAAAATGTTGA-TTTACCGT---AAACC----CTTGGCAAC-GGACTTTTTGTGTGCTCTGGTAATTGGTTCAAAATTTTTG--ACCGGACT---------TTTTTTG--------------TGTTTTAAATATGGTA--TT--GTATTGCATTT-GTTAATCAGATAGAAGAAGGA-A-TAAC---GT-GCG-TTGAATAGGCCAAAGCACGAAGAAAAATAGGGCACCATTTACGATAGGATAATATTATTTAGATGCTCACTA-T-CGGTTAC-ATTACCCAGACTG-CAACTATTTATGTATTAACA------ATATACTTATTAGAAGC-TTGATCTAT--A-CGATAAATACATGCAT---T--ACATTGC-ATAGTATA-AG-CATGGGTATGATTTTCAATATGTTGTCTGGA------AAA---ATAGC-TAAC-CATTAGGATCTTTAATAT-TGTATG
gi|12 : CACGGTGTGGAATGGGGACGGACTATCCGTG----------------TTTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TTGGACCAGAGAAACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGC-A--AGT-CT-TTTTCAGATCATTGT-C-ACA-GAATAT-CGTAATAT-CC---CAT-AG-TTATTGTTT------A-AAC----ATGATACC
gi|13 : tCACGGTGTGGAATGGGGACGGACTATCCGT---------------GTTTTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TTGGACCAGAGAAACATTATG-GACCCTA-CAGAAAGAAAAGAGTCGC-A--AGT-CT-TTTTCAGATCATTGT-C-ACA-GAATAT-CGTAATAT-CC---CAT
gi|16 : CACGGTGTGGAATGGGGACGGACTTTCCATG----------------TTATTTCACACAATT-CCAGACTAAGCATA--CTCAGCAACGG-ACTTTTCGTGGTTG---AAAAA-TCTGACCAGAGAAACAATTTG-GACTCTA-AAGA
gi|21 : atCACGGTGTGGAATGGGGACGGACTATC----GA-----------TGTTTTTATTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAATCc
gi|10 : tACGGTGTGGAATGGGGACGGACTATCCGTG------CTTTTTTT-TTTTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAATGG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAATAAATAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCC--AACAT--TCTTata
gi|22 : CGGTGTGGAATGGGGACGGATTATCCGTGG-----------TT-TTTTTTTTGCGCGTTT-CCAGACTAAGCGTG--TTCAGCAACTG-
gi|1 : TGTGGAATGGG--ACGACTATCCGTAG---------------CTTTTTTGCGCGTTTTCCAGA-TAAGCGTGACTTCAGCAACGG-GCTTTTCGAGGCTTTTAAAAAA-TCGGACCAGAGACACATTATGCGACCCTAACA-AAATAAAGAAGTCGT-A--AAC-TT-TTTTCAAATAATTTTCC-ACGCGAATATGCG-AATATCCC---CATGTG-ATAGTACTTTAATGAATACTTAACAT--TACCACATTGGGCCCACAATTTGTCCTTACAAAACCCTACACACACTAG-GAAAATGTATTCATTTTGATGGCGTATT-AATGTCCGCTCACGTATTTCTCTAGAGCCATACATCGAGTATTCTTATTCA-TGACGTGTCATATTTTTGTCGTTGTTACCAAAATGTTAAAACTATATCTGACACCCAACATTATAGTAATTCGACT-AAAGATCAA-AATCATGACATGGCCTTTGGA------GTTTTATTTTTAGAAAATGTTGAGTTTATCGTTAAAAACCTACTTTTTGCAACAGGACTTT
gi|7 : tcacTTTTTTTTTTGGCGCGTTT-CTAGACTAAGTGTG--CTCAGCAACGGGACTTTTCGGGGTTT---AAAAACTCGGAC-AGAGACACATTATG-GACCC-A-CAGAAAGAAA--AGTCGT-A--AGTTCTGTTTTCAAATCATTTT-CAACG-G-ATAT-CGTAATAT-CC---C-TGAGCATAGTATTT------TTAACTAA-ATG-TACCAAATTTGACC--CAAAT--TCTTCAAAAAAACCTACACAAACTTT-GAAAATG-ACCGAATTAG--------TCAAATG-CCG-TCAC--GTATTTCTAGAA--ATACATCGATCATTATTATTCACTGAC-TG---TATTT---TCGTTGTTA-aattagctactgaagagtgcttcgatgtaaatatcgttcgagagaattttgggcaccgatgcacctgattgggttattctgcaacaccgcgacttattgtgttaatatgattctgtaaagatgcatatataatcaagagaaattaaatcacttgtgtagattagaaaggatccaatgaacataaagaaacccgctaataatgaccattaaacattagtatccatatatagttcaagacggactaatatacggcataactaatacccaacttcttcactcaaatactggtatttgtcacaatgcatttaccactcataccttttattgaagcctattaaataacacttaagatgtacatgtattacatgtaacacactatacaacatggatgacttcgaaatacatctgtccctgaaatgattgtaaagtaatgactagcaattgttattttccataatcgccattggacaataaatcattaatcgcaccactg
gi|15 : TAAG-GACTTGA-GAGAAAGAAAGAAGTCGTTACTAGT-CT-TTTTCAAACCATTTT-C-ACG-AAATAG-CGTAATAT-CC---CATGGG-ATAGTATTT------ACAAGTAC-ATT-TATCAAATTTGGCC--CACAT--TCTTCA
gi|25 : aATCATTTT-C-ACG-GAATAT-CGTAATAT-CCCATCATGAG-ATAGTA
gi|17 : -ATT-TATCAAATATGGCC--CACAT--TCATCAAAAAATCACACAAAAACTTGCAAAAAAG-GTCGATTCCA--------TCAAATA-CCG-TCATGTTTCT------------------ATTTTTCTTATTCACTGGC-TA---TAT
gi|18 : TTTTCTAGAA--ATACATCGATTTTTCTTATTTACTGAC-TG---TAGTT---TTGTTGTAA-CAAACTGT--AATGTATAACTTAC--------T--TTACAC-TCGACTGAAAGATC-A-AATCAT-ACAT-GCTTT----------atatttttttta
gi|8 : CTTATTCACTGAC-TG---TATTT---TCGTTGTTA-AATGATGT--AATATATCGCTTAC--------C--TAGTAA-TCGACTCAAAGATC-ATTATCAT-ACAT-GCCTTGTTTTTTGGGGTTT--TTTTTGGAAAATGTTGA-TTTATCGT---AAACC----CTTGGCAAC-GGACTTTTTGTGTGCTCT-GTAATTGGTACAAACTTTTGGC-ACCGGAC-----------TATTTG--------------TGTTTATAATAT-GTATTTT--GTATTGCA----G--AATCA---AG-AGAAAGA-A--AACATTAT-G-G-TTGAACAGGCCAAAG-A-GAAGAAAA
gi|3 : ---AAATT----TTTGGCACC-GGACTATTTGTGT
gi|3 : ctgtttgtgtgctctgtaattggttcCTGTTTGTGTGCTCTG-TAATTGGTTCAAA-TTTTTGGCACCGGACT---------ATTT--G--------------TGTTTATAATATG-TA--TTTTGTATTGCATATAG--AATCA---AGAAAAAGAACA-CATT---GT-G-G-TTGAACAGGCCAAAG-A-GAAGAAAAATG----ACCATT-ACGATAG--TA-TATTATTTAGGTACG-ACTAAT-CGG--ACTAATACCCA-ACTGACAA-TATTT--GTTTTAACA-------TATACTTATT-GAAGCTTTGATA-AT--AGCGATAAATACATGCATTTAT--ACA-TGC-AATGTATA-AG-CATAG--ATGA-TTTCAATATG-TGTCTGAA------AAA---ttataatatgtattttgtattgcatatagaatcaagaaaaagaacacattgtggttgaacaggccaaagagaagaaaaatgaccattacgatagtatattatttaggtacgactaatcggactaatacccaactgacaatatttgttttaacatatacttattgaagctttgataatagcgataaatacatgcatttatacatgcaatgtataagcatagatgatttcaatatgtgtctgaaaaatgtacagtgtagcatgttatccttgatatgccatgtggacaatgaaacatcaatacactctgtgcatttataattgtgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngaatttacattaaggatacagactttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnacataatcatgttacatatacttaaacgagattgtatccttgaatcatgtgtaagaacgaaaagtacatgcatattgtgtatatactttggcgtgtacagtcttctagtgaagtactttgtatcttaaattaataaacaaatagtggctattattaaaaaacaataaaaa
gi|14 : GTAATTGGTT-GAAATTTTTGGCACCGGACTGATTGGATATTTTCTGCACCGGACTTATAGTGTTT---ATATG-TA--TTATGTATTGCATTCAG--AATCA---AGAGGAAGAA-AACATT---GT-G-G-TTGAACAGGCCAAAGtgtacagtgtagcatgttatccttgatatgccatgtggacaatgaaacatcaatacactctgtgcatttataattgtgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngaatttacattaaggatacagactttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnacataatcatgttacatatacttaaacgagattgtatccttgaatcatgtgtaagaacgaaaagtacatgcatattgtgtatatactttggcgtgtacagtcttctagtgaagtactttgtatcttaaattaataaacaaatagtggctattattaaaaaacaataaaaa
gi|23 : AGAAAGA-A--AAC---GTTGTGGTTGAACAGGCCAAGG-A-GAAGAAAAAT----TACCA-TTACGATAGTATA
gi|4 : ACCATT-ACGATAGTACA-------CTGGGTACG-ACTA-TTCGG--ACTAATACC-AAACTG-AGAATATTTATGTTTTAACATACACTGTATACTCATT-GAAGC-CTGATTAATTAG-TGAT--TTACAGGTAT---TTAACATTG--A-AATATA-AA-CATGG--ATGA-TTTCAATATA-TGTCTGAAATTTTTAAA---GTA---TAGCATGTT---ATCTTTGATAT-tt
gi|5 : ACC------ATATACTTATT-GAAGCCTTAATAAATTAG-CGATAAATATATGCAT---T--ACA-TGCAATAATATATAGCCATG---ATGATTTT--ATATG-TGTCT--A------AAATGTACAGTGTAGC-TGTT---ATCCTTGATATGCGTGTGgccatgtggacaatataatgaaacataaatgcaaactgtgtatttataattatatacatgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntaattattgttttaacatgatacataatcatgacaatactaaacgagattgtatccttagataatgtgtaagaacggaaagtataactactatggtgtctttacaaattaattactttatttatagtgtgaaattatttcagttaatgggttgatttcctccataaaatctatgttttatattaataaacaaaattgctttaaaaagaaaacaacaaaaaggaatcctt
6 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|6 ): TAATTATATAATTTCAATGTCTTATATTACAATTGTTTTATTGGAGTAAAAGAATTTACATTAAGAATGCAGACTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCATGTTACATATACTTAAACGAGATTGTATCCTTGGATCATGTGTAATCTTGAACGGAAAGTACATGGATATACATGTATACTTTGGCGTGTAAAGTCTTCTAGTGAATACTTGTTTTATATTA
Unaligned ( gi|9 ): AGTTATTGTTTAAACATGATACCGGTACATAATCATGTTACACATACTTAAACGACATTGTATCCTTGGATCATGTGTAAGAACGGAAAGTACATGTATATAAACTTTGGCGTGTACAGTCTTCTAGAGAATACTTGTAATGTTTTATATTAATAAACAAATTGCTATTAAAAAAAACAACAAAAAGGAATCCTTTGGTGAAGGCCTGGGAAGGTTGGACAAATTTGTTTATGTAAA
Unaligned ( gi|11 ): AGTAATTGTTAACACATGATACGGTACATAATCTGTTACACATACTTAAACGACATTGTATCCTTTGAATCATGTGTAAGAAGAAAGTACATGTATATAAACTTGGCGTGTACAGTCTTCTAGAGAATCTTGTAATTGTTTATATTAATAAAACAAATTGCTATAAAAAAAACAACAAAAAGGAATCCTTTGGTGAAGGCCTGGAAGGTTTGGACAAATTTGTTTATGTA
Unaligned ( gi|19 ): TAATTATTGTTTTAACATAATACATATTACATAATCATGTTACATACATGTATACTAAAAGAGATTGTATCCTTTGATCATGTGTAAGAACGGAAAATATATATCAATAAAC
Unaligned ( gi|20 ): AATGAGCTGATATCCTCCATAAAATCTATGTTTGATATGAATAAACAAATTGCTATAAAAAACAACAACAAAAAATCCTTTGATGAGGCCTGGGAAGGATGGACA
Unaligned ( gi|24 ): TTCTAGTGAATACTTGTTTTATATTAATAAAAACAAATTGCTATATTAAAAAAAAAACA
Alignments
lowQualScore : 1111111111111111111111111111111111111111111111111
lowQualScore : 444444444444444 11111 111 1 111111 11 111 1 1 2222222 11 1 1 1111 11 111 111 11 11 44444444444 1 3 1111 1 1 2222 55555555555 2 222 22222 1 11 4444444444 111 22222 111 1111111111111111111111111111111111111111111111111 222222 1 111 22222222 111 222 111 111 2222 44444444444444444 11 3333333 2 444444444444 44444444444444 222222 444444444 4444444 111 1 1111 222 444444 11 111 1111 66666666666666666666666 111 222 111 22
lowQualScore : 888888888888888 11111 4 66 5 000 5 1 5 0 5 3 5 77 5 5 0 5 5 888 5 5 999999 1 5 00 111 6 1 0 0 4 9999999 2 33 0 0 7777 0 11 1 6 111 444 22 33 1 44 44444444444 0 0 5555 0 0 1111 44444444444 3 333 99999 3 1 33 3333333333 55 444 8 77777 444 6666666666666666666666666666666666666666666666666 6 333333 8 0 88 6 8 444 11111111 444 222 6 99 111 111 6 99 6 5555 44444444444444444 8 11 3333333 55 4 0 000000000000 3 2 11111111111111 111111 000000000 1111111 8 444 8 0 6 222 22 7777 555 8 8 888888 8 3 11 8 111 7777 8 00000000000000000000000 444 111 444 22
lowQualScore : ............... ..... . .. . ... . . . . . . . .. . . . . . ... . . ...... . . .. ... . . . . . ....... . .. . . .... . .. . . ... ... .. .. . .. ........... . . .... . . .... ........... . ... ..... . . .. .......... .. ... . ..... ... ................................................. . ...... . . .. . . ... ........ ... ... . .. ... ... . .. . .... ................. . .. ....... .. . . ............ . . .............. ...... ......... ....... . ... . . . ... .. .... ... . . ...... . . .. . ... .... . ....................... ... ... ... ..
lowQualScore : 777777777777777 11111 4 11 7 000 7 0 0 1 0 0 7 99 7 7 0 0 0 888 0 7 222222 7 7 00 777 7 0 0 0 0 0000000 5 88 0 0 6666 8 00 0 7 777 000 55 88 0 00 88888888888 0 0 0000 0 0 2222 33333333333 3 333 33333 3 0 88 8888888888 77 000 0 88888 000 6666666666666666666666666666666666666666666666666 0 000000 0 8 88 0 0 000 66666666 000 222 7 22 000 777 7 22 7 0000 22222222222222222 0 00 1111111 00 2 0 888888888888 2 5 55555555555555 888888 000000000 5555555 0 000 0 6 2 666 22 0000 000 0 0 000000 2 2 00 0 888 0000 0 00000000000000000000000 222 666 000 55
consensus : CACGGTGTGGAATGGGGACGGACTATCCGTGG-----------TT-TT-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGT-A--AGT-CT-TTTTCAAATCATTTTC-ACG-GAATAT-CGTAATATCC---C-ATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCCACA---T-TCTTCAAAAAACCCTACACAAACTTG-GAAAATG-ATCGANTT------CGTCA--AATG-CCG-TCACGTATTTTTCTAGAA--ATACATCGATTATTCTTATTCACTGAC-TGT---ATTTT---CGTTGTTAN-AAGATGT--AATNTATCGCTTAC---------T-TAGCAAT-CGACTCAAAGATCA-NA-TCAT-ACATG-CCTT----GTT--------TT-TTTTTGGAAAATGTTGA-TTTATCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCTGGT---AAT-TGGTTC----AAATTTTTGGCACCGG---ACT---------TT----------TTCTG----------------T-----GTTTATA------ATAT-GTA-TT-T-GTA---TTGCA-TATAG--AATCA---AGAGGAAG-AA-A--CA-TTGT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------AAT---GCACCA-TT--ACGATAGTAT--ATAT-TATTTAGGTAC-GACTAAT-T-CGGC---ACTAATACCCAA-------ACTGACGAATATT--TA--TGT---------TTTAACA------NT-ATAC---TTATT-GAAGCCTTGATNAATTAGCGATAAA----TACATGCATTTA-ACA-TGCA-ATA----ATATAAGCATGG--ATGA-TTTC--AATA----TG-TGTCTGAA--------A-----AA---G--CAGTG--TAGCA--TGTT---ATCTTTGATATGCCGTGTG
Reference ( family-1669 ) : CACGGTGTGGAATGGGGACGGACTATCCGTGG-----------TT-TT-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGANACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGT-A--AGT-CT-TTTTCAAATCATTTTC-ACG-GAATAT-CGTAATATCC---C-ATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCCACA---T-TCTTCAAAAAANCCTACACAAACTTG-GAAAATG-ATCGATTT------CGTCA--AATG-CCG-TCACGTNTTTTTCTAGAA--ATACATCGATTNTTCTTATTCACTGAC-TGT---ATTTT---CGTTGTTAC-AAAATGT--AATNTATANCTTAC---------T-TAGTAAT-CGACT-AAAGATCA-AA-TCAT-ACATG-CCTT----GTT--------TTATTTTTGGAAAATGTTGAGTTTATCGT---AAACC----TTTGGCAAC-GGACTNT--TT----------GTGTGCTCTGGT---AAT-TGGTTC----GAATTTTTGGCACCGG---AC----------TT----------TTCTG----------------T-----GTTTATA------ATAT-GTA-TT-T-GTA---TTGCA-T-CAG--AATCA---AGAAGAAG-GA-A--CA-NCGT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------AAT---GTACCA-TT--ACGATAGTAT--ATAT-TATCTGGGTAC-GACTAAT-T-CGG----ACTAATACCCAA-------ACTGACGAATATT--TA--TGT---------TTTAACA------GT-ATAC---TTATT-GAAGCCTTGATAAATTAGCGATAAA----TACATGCATT---ACA-TGCA-A------ATATAAGCATGG--ATGA-TTTC--AATA----TG-TGTCTGAA--------A-----AA---G--CAGTG--TAGCA--TGTT---ATCCTTGATATG-CGTGTG
gi|1 : TGTGGAATGGG-ACG-ACTATCCGTAG-----------CT-TT-----TTT---GCGCGTTTTCCAGA-TAAGCGTGACTTCAGCAACGG-GCTTTTCGAGGCTTTTAAAAAA-TCGGACCAGAGACACATTATGCGACCCTAACA-AAATAAAGAAGTCGT-A--AAC-TT-TTTTCAAATAATTTTCCACGCGAATATGCG-AATATCC---CCATGTG-ATAGTACTTTAATGAATACTTAACAT--TACCACATTGGGCCCACAATTTGTCCTTACAAAACCCTACACACACTAG-GAAAATGTATTCATTTTGATGGCGT-ATTAATGTCCGCTCACGTATTTCTCTAGAGCCATACATCGAGTATTCTTATTCA-TGACGTGTCATATTTTTGTCGTTGTTACCAAAATGTTAAAACTATATCTGACACCCAACATTATAGTAATTCGACT-AAAGATCA-AAATCATGACATGGCCTTTGGAGTT--------TTATTTTTAGAAAATGTTGAGTTTATCGTTAAAAACCTACTTTTTGCAACAGGACTTTAATTAGCTACTGAAGAGTGCTTCGATGTAAATATCGTTCGAGAGAATTTTGGGCACCGATGCAC----------CTGATTGGGTTATTCTGCAACACCGCGACTTATT-----GTGT-TA------ATAT-G-A-TTCT-GTAAAGATGCA-TATAT--AATCA---AGAGAAAT-TA-AATCACTTGTGTAG-ATTAGAAAGGATCCAATG-AACATAAAGAAACCCGCTAATAAT---G-ACCA-TTAAACATTAGTATCCATATATAGTTCAAGACGGACTAATATACGGCATAACTAATACCCAACTTCTTCACT--CAAATACTGGTATTTGTCACAATGCATTTACCA------CTCATACCTTTTATT-GAAGCCT--ATTAAATAACACTTAAGATGTACATGTATT---ACA-TGTA-ACACACTATACAA-CATGG--ATGA-CTTCGAAATACATCTG-TCCCTGAAATGATTGTA-----AA---G--TAATGACTAGCAATTGTT---ATTTTCCATA
gi|10 : tcacACGGTGTGGAATGGGGACGGACTATCCGTGC-----------TT-TTTTTTTTTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAATGG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAATAAATAAGTCGT-A--AGT-CT-TTTTCAAATCATTTTC-ACG-GAATAT-CGTAATATCC---C-ATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCAACA---T-TCTTatcgccattggacaataaatcattaatcgcaccactg
gi|12 : CACGGTGTGGAATGGGGACGGACTATCCGTG----------------T-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TTGGACCAGAGAAACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGC-A--AGT-CT-TTTTCAGATCATTGTC-ACA-GAATAT-CGTAATATCC---C-AT-AG-TTATTGTTT------A-AAC----ATGATACC
gi|13 : tCACGGTGTGGAATGGGGACGGACTATCCGTG---------------TT-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TTGGACCAGAGAAACATTATG-GACCCTA-CAGAAAGAAAAGAGTCGC-A--AGT-CT-TTTTCAGATCATTGTC-ACA-GAATAT-CGTAATATCC---C-AT
gi|14 : GT---AAT-TGGTTG----AAATTTTTGGCACCGG---ACTGATTGGATATT----------TTCTG----------------CACCGGACTTATAGTGTTTATAT-GTA-TTAT-GTA---TTGCATT-CAG--AATCA---AGAGGAAGAAA-A--CA-TTGT---G-GTTGAACAGG--CCAAAG-
gi|15 : TAAG-GACTTGA-GAGAAAGAAAGAAGTCGTTACTAGT-CT-TTTTCAAACCATTTTC-ACG-AAATAG-CGTAATATCC---C-ATGGG-ATAGTATTT------ACAAGTAC-ATT-TATCAAATTTGGCCCACA---T-TCTTCA
gi|16 : aCACGGTGTGGAATGGGGACGGACTTTCCATG----------------T-----TATTTCACACAATT-CCAGACTAAGCATA--CTCAGCAACGG-ACTTTTCGTGGTTG---AAAAA-TCTGACCAGAGAAACAATTTG-GACTCTA-AAGA
gi|17 : at-ATT-TATCAAATATGGCCCACA---T-TCATCAAAAAATCACACAAAAACTTGCAAAAAAG-GTCGATTC------CATCA--AATA-CCG-TCATG----TTTCT--------------ATTTTTCTTATTCACTGGC-TAT---ATc
gi|18 : TTTTCTAGAA--ATACATCGATTTTTCTTATTTACTGAC-TGT---AGTTT---TGTTGTAAC-AAACTGT--AATGTATAACTTAC---------T-TTACACT-CGACTGAAAGATCA-AA-TCAT-ACATG-CTTT----atatttttttta
gi|2 : CACGGTGTGGAATAGGGAAGGACTATCCGTGGAGTTTTTTTTTTTGTT-----TTTTTTGCGCGGTT-CCAGACTAAGCGTG--CTCAGCAACCG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGT-A--AGT-CT-TTTTCAAATCATTTTC-ACG-GAATAT-CGTAATATCC---C-ATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCCAAT---T-TCTTCAAAAAACTCTACACAAACTTG-GAAAATG-ATCGAATT------TGTCA--AATG-CCG-TCACTTTTTTTTTTAGAA--ATACATCGATTATTCTTATTCACTGAC-TGT---ATTTT---CGTTGTTAA-AAGATGT--AATCTATCGCTTAC---------T-TAGCAAT-CGACTCAAAGATCA-TA-TCAT-ACATG-CCTT----ATT--------T--TTTTTGGAAAATGTTGA-TTTACCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCTGGT---AAT-TGGTTCA---AAATTTTTG--ACCGG---ACT---------TT----------TTTTG----------------T-----GTTTTAA------ATATGGTA--T-T-GTA---TTGCA-T-TTGTTAATCAGATAGAAGAAG-GA-A--TA-ACGT---GCGTTGAATAGG--CCAAAGCAC---GAAGAAA---------AATAGGGCACCATTT--ACGATAGGATA-ATAT-TATTTAGATGCTCACTA---T-CGGTT--AC-ATTACCCAG-------ACTG-CAACTATT--TA--TGT---------ATTAACA------AT-ATAC---TTATTAGAAG-CTTGATCTAT--ACGATAAA----TACATGCATT---ACATTGCATA------GTATAAGCATGGGTATGATTTTC--AATA----TGTTGTCTGGA--------A-----AA---A--TAGC---TAAC---CATTAGGATCTTTAATAT--TGTATG
gi|21 : CACGGTGTGGAATGGGGACGGACTATCGATG---------------TT-----TTTATTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAA
gi|22 : tCGGTGTGGAATGGGGACGGATTATCCGTGG-----------TT-TT-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--TTCAGCAACtcata
gi|23 : AAGAA---A-A--CG-TTGT---G-GTTGAACAGG--CCAAGG-A----GAAGAAA---------AAT----TACCA-TT--ACGATAGTAT--ATtg
gi|25 : agaATCATTTTC-ACG-GAATAT-CGTAATATCCCATC-ATGAG-ATAGTAt
gi|3 : CTGT--TT----------GTGTGCTCTG-T---AAT-TGGTTC----AAATTTTTGGCACCGG---AC----------TA----------TT-TG----------------T-----GTTTATA------ATAT-GTA-TT-TTGTA---TTGCA-TATAG--AATCA---AGAAAAAG-AACA--CA-TTGT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------AAT---G-ACCA-TT--ACGATAGTAT--AT---TATTTAGGTAC-GACTAAT---CGG----ACTAATACCCAA--------CTGAC-AATATT--T----GT---------TTTAACA-------T-ATAC---TTATT-GAAGCTTTGATAA--TAGCGATAAA----TACATGCATTTATACA-TGCA-AT-----GTATAAGCATAG--ATGA-TTTC--AATA----TG-TGTCTGAA--------A-----AATGTA--CAGTG--TAGCA--TGTT---ATCCTTGATATGCCATGTG
gi|4 : ACCA-TT--ACGATAGTAC--A-------CTGGGTAC-GACTA-T-T-CGG----ACTAATACC-AA-------ACTGA-GAATATT--TA--TGT---------TTTAACATACACTGT-ATAC---TCATT-GAAGCCT-GATTAATTAGTGATT------TACAGGTATTTA-ACA-TTGA-A------ATATAAACATGG--ATGA-TTTC--AATA----TA-TGTCTGAA--------ATTTTTAA-------AGTA--TAGCA--TGTT---ATCTTTGATATGCCATGTGgacaatgaaacatcaatacactctgtgcatttataattgtgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngaatttacattaaggatacagactttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnacataatcatgttacatatacttaaacgagattgtatccttgaatcatgtgtaagaacgaaaagtacatgcatattgtgtatatactttggcgtgtacagtcttctagtgaagtactttgtatcttaaattaataaacaaatagtggctattattaaaaaacaataaaaa
gi|5 : T-ATAC---TTATT-GAAGCCTTAATAAATTAGCGATAAA----TATATGCATT---ACA-TGCA-ATAAT--ATATAGCCAT-G--ATGA-TTTT---ATA----TG-TGTCT-AA--------A-----AT---GTACAGTG--TAGC---TGTT---ATCCTTGATATG-CGTGTGgacaatataatgaaacataaatgcaaactgtgtatttataattatatacatgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntaattattgttttaacatgatacataatcatgacaatactaaacgagattgtatccttagataatgtgtaagaacggaaagtataactactatggtgtctttacaaattaattactttatttatagtgtgaaattatttcagttaatgggttgatttcctccataaaatctatgttttatattaataaacaaaattgctttaaaaagaaaacaacaaaaaggaatcctt
gi|7 : acca-----------TT-TT-----TTTTTGGCGCGTTT-CTAGACTAAGTGTG--CTCAGCAACGGGACTTTTCGGGGTTT---AAAAACTCGGAC-AGAGACACATTATG-GACCC-A-CAGAAAGAAA--AGTCGT-A--AGTTCTGTTTTCAAATCATTTTCAACG-G-ATAT-CGTAATATCC---C--TGAGCATAGTATTT------TTAACTAA-ATG-TACCAAATTTGACCCAAA---T-TCTTCAAAAAAACCTACACAAACTTT-GAAAATG-ACCGAATT------AGTCA--AATG-CCG-TCACGTA--TTTCTAGAA--ATACATCGATCATTATTATTCACTGAC-TGT---ATTTT---CGTTGTTAgacaatgaaacatcaatacaacactgtgcttatttataaatatacaaattctcaatgtcctatattatcaattgttttacttgataacaaagccattacgaatttaagaacagtcttttgtgacgttttgataaaagcgaagagcacttgaaagcatattttaatgatgtgaaatagtacaagaacttattaaagtgacttgaagttattgtttcaacatgaataccggtacataattcatgttacatatacttaatacgagatttgtaccctgtggaatcatgtgtaagaaacgcagaagtaacaattatcaaagtatcttttggacgtgtactgtctcgtagtgaatacctatgttttaacattaacttaaaaacacattctgaatagtaaacaaccgagaaaaaagaatcctttgggtggaagtgtctgggaagggttggaccattttatttatgtaa
gi|8 : tCTTATTCACTGAC-TGT---ATTTT---CGTTGTTAA-ATGATGT--AATATATCGCTTAC---------C-TAGTAAT-CGACTCAAAGATCATTA-TCAT-ACATG-CCTT----GTTTTTTGGGGTTTTTTTTGGAAAATGTTGA-TTTATCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCT-GT---AAT-TGGTAC----AAACTTTTGGCACCGG---AC----------TA----------TT-TG----------------T-----GTTTATA------ATAT-GTATTT-T-GTA---TTG-----CAG--AATCA---AGAGAAAGAAA-A--CA-TTAT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------A
6 sequences could not be aligned to this reference sequence:
Unaligned ( gi|6 ): TAATTATATAATTTCAATGTCTTATATTACAATTGTTTTATTGGAGTAAAAGAATTTACATTAAGAATGCAGACTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCATGTTACATATACTTAAACGAGATTGTATCCTTGGATCATGTGTAATCTTGAACGGAAAGTACATGGATATACATGTATACTTTGGCGTGTAAAGTCTTCTAGTGAATACTTGTTTTATATTA
Unaligned ( gi|9 ): AGTTATTGTTTAAACATGATACCGGTACATAATCATGTTACACATACTTAAACGACATTGTATCCTTGGATCATGTGTAAGAACGGAAAGTACATGTATATAAACTTTGGCGTGTACAGTCTTCTAGAGAATACTTGTAATGTTTTATATTAATAAACAAATTGCTATTAAAAAAAACAACAAAAAGGAATCCTTTGGTGAAGGCCTGGGAAGGTTGGACAAATTTGTTTATGTAAA
Unaligned ( gi|11 ): AGTAATTGTTAACACATGATACGGTACATAATCTGTTACACATACTTAAACGACATTGTATCCTTTGAATCATGTGTAAGAAGAAAGTACATGTATATAAACTTGGCGTGTACAGTCTTCTAGAGAATCTTGTAATTGTTTATATTAATAAAACAAATTGCTATAAAAAAAACAACAAAAAGGAATCCTTTGGTGAAGGCCTGGAAGGTTTGGACAAATTTGTTTATGTA
Unaligned ( gi|19 ): TAATTATTGTTTTAACATAATACATATTACATAATCATGTTACATACATGTATACTAAAAGAGATTGTATCCTTTGATCATGTGTAAGAACGGAAAATATATATCAATAAAC
Unaligned ( gi|20 ): AATGAGCTGATATCCTCCATAAAATCTATGTTTGATATGAATAAACAAATTGCTATAAAAAACAACAACAAAAAATCCTTTGATGAGGCCTGGGAAGGATGGACA
Unaligned ( gi|24 ): TTCTAGTGAATACTTGTTTTATATTAATAAAAACAAATTGCTATATTAAAAAAAAAACA
Alignments
lowQualScore : 444444444444444 11111 111 111111 11 111 1 1 2222222 11 1 1 1111 11 111 111 1 111 333333333333 1 1111 1 1 777777777777777 1 1 222 2222 1 11 4444444444 111 2222 22222222 999999999999999999999999999999999999999 222222 2222 111 111111 111 1111 111 2222 44444444444444444 11 11 111111 2 5555555555555 3333333333 2222 111111 333333333 2222222 111 1 1111 333 222222 11 11 111 1111 66666666666666666666666 111 222 111
lowQualScore : 888888888888888 11111 4 66 5 000 5 0 5 0 5 3 5 77 5 5 5 5 5 5 5 888 5 999999 1 5 00 6 111 0 0 0 1 9999999 2 33 0 0 6666 0 11 1 6 111 444 99 0 777 1 888888888888 33 0 8 2222 0 0 777777777777777 3 3 333 8888 3 33 3333333333 55 444 8 5555 99999999 999999999999999999999999999999999999999 6 333333 8 0 3333 444 0 111111 444 0 5555 888 6 111 6 99 6 5555 44444444444444444 8 11 5 99 444444 3 0 2222222222222 3 3333333333 0000 888888 222222222 6666666 6 111 8 0 1 222 22 7777 333 8 0 666666 8 11 3 11 8 111 7777 8 00000000000000000000000 444 111 444 6 0
lowQualScore : ............... ..... . .. . ... . . . . . . . .. . . . . . . . ... . ...... . . .. . ... . . . . ....... . .. . . .... . .. . . ... ... .. . ... . ............ .. . . .... . . ............... . . ... .... . .. .......... .. ... . .... ........ ....................................... . ...... . . .... ... . ...... ... . .... ... . ... . .. . .... ................. . .. . .. ...... . . ............. . .......... .... ...... ......... ....... . ... . . . ... .. .... ... . . ...... . .. . .. . ... .... . ....................... ... ... ... . .
lowQualScore : 777777777777777 11111 4 11 7 000 7 7 0 1 0 0 7 99 7 7 0 0 0 0 0 888 7 222222 7 7 00 7 777 2 0 0 0 0000000 5 88 0 0 6666 8 00 4 7 777 000 00 0 555 0 000000000000 22 0 8 0000 0 0 333333333333333 3 3 333 3333 3 88 8888888888 77 000 0 0000 00000000 222222222222222222222222222222222222222 0 000000 0 8 8888 000 8 888888 000 7 2222 777 7 777 7 22 7 0000 00000000000000000 0 00 6 00 222222 2 0 2222222222222 2 0000000000 7777 666666 000000000 7777777 7 777 0 6 0 666 22 0000 888 0 8 444444 0 22 2 00 0 888 0000 0 00000000000000000000000 222 666 000 7 7
consensus : CACGGTGTGGAATGGGGACGGACTATCCGTGG-----------TT-TT-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCCAC-AT---TCTTCAAAAAACCCTACACAAACTTG-GAAAATG-ATCGANTT------CGTCA--AATG-CCG-TCACGTATTTTTCTAGAA--ATACATCGATTATTCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-NAAGATG-TAA---TATATC--GC--------TTACTTAGCAA-TCGACTCAAAGATC-A-NATCAT-ACAT-GCCTT----GT---------TTT-TTTTTGGAAAATGTTGA-TTTATCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCTGGT---AAT-TGGTTC----AAATTTTTGGCACCG--------GACTG--------TT-TTCTG----------------T-----GTTTATA------ATAT-GTATTT-TGTA---TTGCATATAG--AATCA---AGAGAAA--G-AA-A-CA-TTGT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------AAT---GCACCA-TT--ACGATAGTAT--ATAT-TA-TTTAGGTAC-GACTAAT-T-CGG-C---ACTAATACCCAA-------ACTGACGAATATT--TA--TGT---------TTTAACAN------T-ATAC---TTATT-GAAGCCTTGATNAATTAGCGATAAA----TACATGCATTTA-ACA-TGCAATA----ATATA-AG-CATGG--ATGA-TTTC--AATA----TG-TGTCTGAA--------A-----AA---G--CAGTG--TAGCA--TGTT---ATCTTTGATATGCCGTGTG
Reference ( family-1669 ) : CACGGTGTGGAATGGGGACGGACTATCCGTGG-----------TT-TT-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCCAC-AT---TCTTCAAAAAACCCTACACAAACTTG-GAAAATG-ATCGANTT------CGTCA--AATG-CCG-TCACGTATTTTTCTAGAA--ATACATCGATTATTCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-NAAGATG-TAA---TNTATC--GC--------TTACTTAGCAA-TCGACTCAAAGATC-A-NATCAT-ACAT-GCCTT----GT---------TTT-TTTTTGGAAAATGTTGA-TTTATCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCTGGT---AAT-TGGTTC----AAATTTTTGGCACCG--------GACT---------TT-TTCTG----------------T-----GTTTATA------ATAT-GTA-TT-TGTA---TTGCATATAG--AATCA---AGAGGAA--G-AA-A-CA-TTGT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------AAT---GCACCA-TT--ACGATAGTAT--ATAT-TA-TTTAGGTAC-GACTAAT-T-CGG-C---ACTAATACCCAA-------ACTGACGAATATT--TA--TGT---------TTTAACAN------T-ATAC---TTATT-GAAGCCTTGATNAATTAGCGATAAA----TACATGCATTTA-ACA-TGCAATA----ATATA-AG-CATGG--ATGA-TTTC--AATA----TG-TGTCTGAA--------A-----AA---G--CAGTG--TAGCA--TGTT---ATCTTTGATATGCCGTGTG
gi|1 : TGTGGAATGGG-ACG-ACTATCCGTAG-----------CT-TT-----TTT---GCGCGTTTTCCAGA-TAAGCGTGACTTCAGCAACGG-GCTTTTCGAGGCTTTTAAAAAA-TCGGACCAGAGACACATTATGCGACCCTAACA-AAATAAAGAAGTCGT-A--AAC-TT-TTTTCAAATAATTTTCC-ACGCGAATATGCG-AATATCCC---CATGTG-ATAGTACTTTAATGAATACTTAACAT--TACCACATTGGGCCCACAATTTGTCCTTACAAAACCCTACACACACTAG-GAAAATGTATTCATTTTGATGGCGT-ATTAATGTCCGCTCACGTATTTCTCTAGAGCCATACATCGAGTATTCTTATTCA-TGACGTGTCATATTTTTGTCGTTGTTACCAAAATGTTAAAACTATATCTGACACCCAACATTA--TAGTAATTCGACT-AAAGATCAA-AATCATGACATGGCCTTTGGAGT---------TTTATTTTTAGAAAATGTTGAGTTTATCGTTAAAAACCTACTTTTTGCAACAGGACTTTAATTAGCTACTGAAGAGTGCTTCGATGTAAATATCGTTCGAGAGAATTTTGGGCACCGATGCACCTGATTGGG------TTATTCTGCAACACCGCGACTTATT-----GTGT-TA------ATAT-G-A-TTCTGTAAAGATGCATATAT--AATCA---AGAGAAATTA-AA-T-CACTTGTGTAG-ATTAGAAAGGATCCAATG-AACATAAAGAAACCCGCTAATAAT---G-ACCA-TTAAACATTAGTATCCATATATAGTTCAAG-ACGGACTAATATACGG-CATAACTAATACCCAACTTCTTCACT--CAAATACTGGTATTTGTCACAATGCATTTACCAC------TCATACCTTTTATT-GAAGCCT--ATTAAATAACACTTAAGATGTACATGTATT---ACA-TGTAACACACTATACA-A--CATGG--ATGA-CTTCGAAATACATCTG-TCCCTGAAATGATTGTA-----AA---G--TAATGACTAGCAATTGTT---ATTTTCCATA
gi|10 : tcacACGGTGTGGAATGGGGACGGACTATCCGTGC-----------TT-TTTTTTTTTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAATGG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAATAAATAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCAAC-AT---TCTTatcgccattggacaataaatcattaatcgcaccactg
gi|12 : CACGGTGTGGAATGGGGACGGACTATCCGTG----------------T-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TTGGACCAGAGAAACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGC-A--AGT-CT-TTTTCAGATCATTGT-C-ACA-GAATAT-CGTAATAT-CC---CAT-AG-TTATTGTTT------A-AAC----ATGATACC
gi|13 : tCACGGTGTGGAATGGGGACGGACTATCCGTG---------------TT-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TTGGACCAGAGAAACATTATG-GACCCTA-CAGAAAGAAAAGAGTCGC-A--AGT-CT-TTTTCAGATCATTGT-C-ACA-GAATAT-CGTAATAT-CC---CAT
gi|14 : GT---AAT-TGGTTG----AAATTTTTGGCACCG--------GACTGATTGGATATT-TTCTG----------------CACCGGACTTATAGTGTTTATAT-GTA-TTATGTA---TTGCATTCAG--AATCA---AGAGGAA--GAAA-A-CA-TTGT---G-GTTGAACAGG--CCAAAG-
gi|15 : TAAG-GACTTGA-GAGAAAGAAAGAAGTCGTTACTAGT-CT-TTTTCAAACCATTTT-C-ACG-AAATAG-CGTAATAT-CC---CATGGG-ATAGTATTT------ACAAGTAC-ATT-TATCAAATTTGGCCCAC-AT---TCTTCA
gi|16 : aCACGGTGTGGAATGGGGACGGACTTTCCATG----------------T-----TATTTCACACAATT-CCAGACTAAGCATA--CTCAGCAACGG-ACTTTTCGTGGTTG---AAAAA-TCTGACCAGAGAAACAATTTG-GACTCTA-AAGA
gi|17 : at-ATT-TATCAAATATGGCCCAC-AT---TCATCAAAAAATCACACAAAAACTTGCAAAAAAG-GTCGATTC------CATCA--AATA-CCG-TCATG----TTTCT--------------ATTTTTCTTATTCACTGGC-TA---TATc
gi|18 : TTTTCTAGAA--ATACATCGATTTTTCTTATTTACTGAC-TG---TAGTT---TTGTTGTAA-CAAACTG-TAA---TGTATA--AC--------TTACTTTACAC-TCGACTGAAAGATC-A-AATCAT-ACAT-GCTTT----atatttttttta
gi|2 : CACGGTGTGGAATAGGGAAGGACTATCCGTGGAGTTTTTTTTTTTGTT-----TTTTTTGCGCGGTT-CCAGACTAAGCGTG--CTCAGCAACCG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCCAA-TT---TCTTCAAAAAACTCTACACAAACTTG-GAAAATG-ATCGAATT------TGTCA--AATG-CCG-TCACTTTTTTTTTTAGAA--ATACATCGATTATTCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-AAAGATG-TAA---TCTATC--GC--------TTACTTAGCAA-TCGACTCAAAGATC-A-TATCAT-ACAT-GCCTT----A----------TTT-TTTTTGGAAAATGTTGA-TTTACCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCTGGT---AAT-TGGTTCA---AAATTTTTG--ACCG--------GACT---------TT-TTTTG----------------T-----GTTTTAA------ATATGGTA--T-TGTA---TTGCAT-TTGTTAATCAGATAGAAGAA--G-GA-A-TA-ACGT---GCGTTGAATAGG--CCAAAGCAC---GAAGAAA---------AATAGGGCACCATTT--ACGATAGGATA-ATAT-TA-TTTAGATGCTCACTA---T-CGGTT---AC-ATTACCCAG-------ACTG-CAACTATT--TA--TGT---------ATTAACAA------T-ATAC---TTATTAGAAG-CTTGATCTAT--ACGATAAA----TACATGCATT---ACATTGC-ATA----GTATA-AG-CATGGGTATGATTTTC--AATA----TGTTGTCTGGA--------A-----AA---A--TAGC---TAAC---CATTAGGATCTTTAATAT
gi|21 : CACGGTGTGGAATGGGGACGGACTATCGATG---------------TT-----TTTATTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAAtgtatg
gi|22 : tCGGTGTGGAATGGGGACGGATTATCCGTGG-----------TT-TT-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--TTCAGCAACtcata
gi|23 : AGAAA--G-AA-AACG-TTGT---G-GTTGAACAGG--CCAAGG-A----GAAGAAA---------AAT----TACCA-TT--ACGATAGTAT--ATtg
gi|25 : ATCATTTT-C-ACG-GAATAT-CGTAATAT-CCCATCATGAG-ATAGTAt
gi|3 : CTGT--TT----------GTGTGCTCTG-T---AAT-TGGTTC----AAATTTTTGGCACCG--------GACT---------AT-T--TG----------------T-----GTTTATA------ATAT-GTATTT-TGTA---TTGCATATAG--AATCA---AGAAAAA--G-AACA-CA-TTGT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------AAT---G-ACCA-TT--ACGATAG--T--ATAT-TA-TTTAGGTAC-GACTAA--T-CGG-----ACTAATACCC-A-------ACTGAC-AATATT------TGT---------TTTAACA-------T-ATAC---TTATT-GAAGCTTTGATAA--TAGCGATAAA----TACATGCATTTATACA-TGCAAT-----GTATA-AG-CATAG--ATGA-TTTC--AATA----TG-TGTCTGAA--------A-----AATGTA--CAGTG--TAGCA--TGTT---ATCCTTGATATGCCATGTG
gi|4 : ACCA-TT--ACGATAGTAC--AC--------TGGGTAC-GACTA-T-T-CGG-----ACTAATACC-AA-------ACTGA-GAATATT--TA--TGT---------TTTAACATACACTGT-ATAC---TCATT-GAAGCCT-GATTAATTAGTGATT------TACAGGTATTTA-ACA-TTGAA------ATATA-AA-CATGG--ATGA-TTTC--AATA----TA-TGTCTGAA--------ATTTTTAA-------AGTA--TAGCA--TGTT---ATCTTTGATATGCCATGTGgacaatgaaacatcaatacactctgtgcatttataattgtgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngaatttacattaaggatacagactttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnacataatcatgttacatatacttaaacgagattgtatccttgaatcatgtgtaagaacgaaaagtacatgcatattgtgtatatactttggcgtgtacagtcttctagtgaagtactttgtatcttaaattaataaacaaatagtggctattattaaaaaacaataaaaa
gi|5 : ACCA------T-ATAC---TTATT-GAAGCCTTAATAAATTAGCGATAAA----TATATGCATT---ACA-TGCAATA----ATATATAGCCAT-G--ATGA-TTTT---ATA----TG-TGTCT-AA--------A-----AT---GTACAGTG--TAGC---TGTT---ATCCTTGATATG-CGTGTGgacaatataatgaaacataaatgcaaactgtgtatttataattatatacatgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntaattattgttttaacatgatacataatcatgacaatactaaacgagattgtatccttagataatgtgtaagaacggaaagtataactactatggtgtctttacaaattaattactttatttatagtgtgaaattatttcagttaatgggttgatttcctccataaaatctatgttttatattaataaacaaaattgctttaaaaagaaaacaacaaaaaggaatcctt
gi|5 : GAATACC--TA--TGT---------TTTAACAT------T-A-AC---TTAgacaatgaaacatcaatacaacactgtgcttatttataaatatacaaattctcaatgtcctatattatcaattgttttacttgataacaaagccattacgaatttaagaacagtcttttgtgacgttttgataaaagcgaagagcacttgaaagcatattttaatgatgtgaaatagtacaagaacttattaaagtgacttgaagttattgtttcaacatgaataccggtacataattcatgttacatatacttaatacgagatttgtaccctgtggaatcatgtgtaagaaacgcagaagtaacaattatcaaagtatcttttggacgtgtactgtctcgtagtgaatacctatgttttaacattaacttaaaaacacattctgaatagtaaacaaccgagaaaaaagaatcctttgggtggaagtgtctgggaagggttggaccattttatttatgtaa
gi|7 : accatatacttattgaagccttaataaattagcgataaatatatgcattacatgcaataatatatagccatgatgattttatatgtgtctaaaatgtacagtgtagctgttatccttgatatgcgtgtggacaatgaaacatcaatacaacactgtgcttatttataaatatacaaattctcaatgtcctatattatcaattgttttacttgataacaaagccattacgaatttaagaacagtcttttgtgacgttttgataaaagcgaagagcacttgaaagcatattttaatgatgtgaaatagtacaagaacttattaaagtgacttgaagttattgtttcaacatgaataccggtacataattcatgttacatatacttaatacgagatttgtaccctgtggaatcatgtgtaagaaacgcagaagtaacaattatcaaagtatcttttggacgtgtactgtctcgtagt-----------TT-TT-----TTTTTGGCGCGTTT-CTAGACTAAGTGTG--CTCAGCAACGGGACTTTTCGGGGTTT---AAAAACTCGGAC-AGAGACACATTATG-GACCC-A-CAGAAAGAAA--AGTCGT-A--AGTTCTGTTTTCAAATCATTTT-CAACG-G-ATAT-CGTAATAT-CC---C-TGAGCATAGTATTT------TTAACTAA-ATG-TACCAAATTTGACCCAA-AT---TCTTCAAAAAAACCTACACAAACTTT-GAAAATG-ACCGAATT------AGTCA--AATG-CCG-TCACGTA--TTTCTAGAA--ATACATCGATCATTATTATTCACTGAC-TG---TATTT---TCGTTGTTA-aaaacacattctgaatagtaaacaaccgagaaaaaagaatcctttgggtggaagtgtctgggaagggttggaccattttatttatgtaa
gi|8 : tCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-AATGATG-TAA---TATATC--GC--------TTACCTAGTAA-TCGACTCAAAGATC-ATTATCAT-ACAT-GCCTT----GTTTTTTGGGGTTT-TTTTTGGAAAATGTTGA-TTTATCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCT-GT---AAT-TGGTAC----AAACTTTTGGCACCG--------GACT---------AT-T--TG----------------T-----GTTTATA------ATAT-GTATTT-TGTA---TTGC----AG--AATCA---AGAGAAA--GAAA-A-CA-TTAT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------A
6 sequences could not be aligned to this reference sequence:
Unaligned ( gi|6 ): TAATTATATAATTTCAATGTCTTATATTACAATTGTTTTATTGGAGTAAAAGAATTTACATTAAGAATGCAGACTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCATGTTACATATACTTAAACGAGATTGTATCCTTGGATCATGTGTAATCTTGAACGGAAAGTACATGGATATACATGTATACTTTGGCGTGTAAAGTCTTCTAGTGAATACTTGTTTTATATTA
Unaligned ( gi|9 ): AGTTATTGTTTAAACATGATACCGGTACATAATCATGTTACACATACTTAAACGACATTGTATCCTTGGATCATGTGTAAGAACGGAAAGTACATGTATATAAACTTTGGCGTGTACAGTCTTCTAGAGAATACTTGTAATGTTTTATATTAATAAACAAATTGCTATTAAAAAAAACAACAAAAAGGAATCCTTTGGTGAAGGCCTGGGAAGGTTGGACAAATTTGTTTATGTAAA
Unaligned ( gi|11 ): AGTAATTGTTAACACATGATACGGTACATAATCTGTTACACATACTTAAACGACATTGTATCCTTTGAATCATGTGTAAGAAGAAAGTACATGTATATAAACTTGGCGTGTACAGTCTTCTAGAGAATCTTGTAATTGTTTATATTAATAAAACAAATTGCTATAAAAAAAACAACAAAAAGGAATCCTTTGGTGAAGGCCTGGAAGGTTTGGACAAATTTGTTTATGTA
Unaligned ( gi|19 ): TAATTATTGTTTTAACATAATACATATTACATAATCATGTTACATACATGTATACTAAAAGAGATTGTATCCTTTGATCATGTGTAAGAACGGAAAATATATATCAATAAAC
Unaligned ( gi|20 ): AATGAGCTGATATCCTCCATAAAATCTATGTTTGATATGAATAAACAAATTGCTATAAAAAACAACAACAAAAAATCCTTTGATGAGGCCTGGGAAGGATGGACA
Unaligned ( gi|24 ): TTCTAGTGAATACTTGTTTTATATTAATAAAAACAAATTGCTATATTAAAAAAAAAACA
Alignments
lowQualScore : 444444444444444 11111 111 111111 11 111 1 1 2222222 11 1 1 1111 11 111 111 1 111 333333333333 1 1111 1 1 777777777777777 1 1 222 2222 1 11 4444444444 111 2222 22222222 99999999999999999999999999999999999999999 222222 111 111111 111 1111 111 2222 44444444444444444 11 11 111111 2 5555555555555 3333333333 2222 111111 333333333 2222222 111 1 1111 333 222222 11 11 111 1111 66666666666666666666666 111 222 111
lowQualScore : 888888888888888 11111 4 66 5 000 5 0 5 0 5 3 5 77 5 5 5 5 5 5 5 888 5 999999 1 5 00 6 111 0 0 0 1 9999999 2 33 0 0 6666 0 11 1 6 111 444 99 0 777 0 888888888888 33 0 8 2222 0 0 777777777777777 3 3 333 8888 3 33 3333333333 55 444 8 5555 99999999 88888888888888888888888888888888888888888 6 333333 8 0 0 444 0 111111 444 5555 888 6 111 6 99 6 5555 44444444444444444 8 11 5 99 444444 3 0 2222222222222 3 3333333333 0000 888888 222222222 6666666 6 111 8 0 1 222 22 7777 333 8 0 666666 8 11 3 11 8 111 7777 8 00000000000000000000000 444 111 444 6 0
lowQualScore : ............... ..... . .. . ... . . . . . . . .. . . . . . . . ... . ...... . . .. . ... . . . . ....... . .. . . .... . .. . . ... ... .. . ... . ............ .. . . .... . . ............... . . ... .... . .. .......... .. ... . .... ........ ......................................... . ...... . . . ... . ...... ... .... ... . ... . .. . .... ................. . .. . .. ...... . . ............. . .......... .... ...... ......... ....... . ... . . . ... .. .... ... . . ...... . .. . .. . ... .... . ....................... ... ... ... . .
lowQualScore : 777777777777777 11111 4 11 7 000 7 7 0 1 0 0 7 99 7 7 0 0 0 0 0 888 7 222222 7 7 00 7 777 2 0 0 0 0000000 5 88 0 0 6666 8 00 4 7 777 000 00 0 555 8 000000000000 22 0 8 0000 0 0 333333333333333 3 3 333 3333 3 88 8888888888 77 000 0 0000 00000000 88888888888888888888888888888888888888888 0 000000 0 8 8 000 8 888888 000 2222 777 7 777 7 22 7 0000 00000000000000000 0 00 6 00 222222 2 0 2222222222222 2 0000000000 7777 666666 000000000 7777777 7 777 0 6 0 666 22 0000 888 0 8 444444 0 22 2 00 0 888 0000 0 00000000000000000000000 222 666 000 7 7
consensus : CACGGTGTGGAATGGGGACGGACTATCCGTGG-----------TT-TT-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCCAC-AT---TCTTCAAAAAACCCTACACAAACTTG-GAAAATG-ATCGANTT------CGTCA--AATG-CCG-TCACGTATTTTTCTAGAA--ATACATCGATTATTCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-NAAGATG-TAA---TATATC--GC--------TTACTTAGCAA-TCGACTCAAAGATC-A-NATCAT-ACAT-GCCTT----GT---------TTT-TTTTTGGAAAATGTTGA-TTTATCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCTGGT---AAT-TGGTTC----AAATTTTTGGCACCG--------GACT--G--------TT-TTCTG----------------T-----GTTTATA------ATAT-GTATTTTGTA---TTGCATATAG--AATCA---AGAGAAA--G-AA-A-CA-TTGT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------AAT---GCACCA-TT--ACGATAGTAT--ATAT-TA-TTTAGGTAC-GACTAAT-T-CGG-C---ACTAATACCCAA-------ACTGACGAATATT--TA--TGT---------TTTAACAN------T-ATAC---TTATT-GAAGCCTTGATNAATTAGCGATAAA----TACATGCATTTA-ACA-TGCAATA----ATATA-AG-CATGG--ATGA-TTTC--AATA----TG-TGTCTGAA--------A-----AA---G--CAGTG--TAGCA--TGTT---ATCTTTGATATGCCGTGTG
Reference ( family-1669 ) : CACGGTGTGGAATGGGGACGGACTATCCGTGG-----------TT-TT-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCCAC-AT---TCTTCAAAAAACCCTACACAAACTTG-GAAAATG-ATCGANTT------CGTCA--AATG-CCG-TCACGTATTTTTCTAGAA--ATACATCGATTATTCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-NAAGATG-TAA---TATATC--GC--------TTACTTAGCAA-TCGACTCAAAGATC-A-NATCAT-ACAT-GCCTT----GT---------TTT-TTTTTGGAAAATGTTGA-TTTATCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCTGGT---AAT-TGGTTC----AAATTTTTGGCACCG--------GACT--G--------TT-TTCTG----------------T-----GTTTATA------ATAT-GTATTTTGTA---TTGCATATAG--AATCA---AGAGAAA--G-AA-A-CA-TTGT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------AAT---GCACCA-TT--ACGATAGTAT--ATAT-TA-TTTAGGTAC-GACTAAT-T-CGG-C---ACTAATACCCAA-------ACTGACGAATATT--TA--TGT---------TTTAACAN------T-ATAC---TTATT-GAAGCCTTGATNAATTAGCGATAAA----TACATGCATTTA-ACA-TGCAATA----ATATA-AG-CATGG--ATGA-TTTC--AATA----TG-TGTCTGAA--------A-----AA---G--CAGTG--TAGCA--TGTT---ATCTTTGATATGCCGTGTG
gi|1 : TGTGGAATGGG-ACG-ACTATCCGTAG-----------CT-TT-----TTT---GCGCGTTTTCCAGA-TAAGCGTGACTTCAGCAACGG-GCTTTTCGAGGCTTTTAAAAAA-TCGGACCAGAGACACATTATGCGACCCTAACA-AAATAAAGAAGTCGT-A--AAC-TT-TTTTCAAATAATTTTCC-ACGCGAATATGCG-AATATCCC---CATGTG-ATAGTACTTTAATGAATACTTAACAT--TACCACATTGGGCCCACAATTTGTCCTTACAAAACCCTACACACACTAG-GAAAATGTATTCATTTTGATGGCGT-ATTAATGTCCGCTCACGTATTTCTCTAGAGCCATACATCGAGTATTCTTATTCA-TGACGTGTCATATTTTTGTCGTTGTTACCAAAATGTTAAAACTATATCTGACACCCAACATTA--TAGTAATTCGACT-AAAGATCAA-AATCATGACATGGCCTTTGGAGT---------TTTATTTTTAGAAAATGTTGAGTTTATCGTTAAAAACCTACTTTTTGCAACAGGACTTTAATTAGCTACTGAAGAGTGCTTCGATGTAAATATCGTTCGAGAGAATTTTGGGCACCGATGCACCTGATTGGG--------TTATTCTGCAACACCGCGACTTATT-----GTGT-TA------ATAT-G-ATTCTGTAAAGATGCATATAT--AATCA---AGAGAAATTA-AA-T-CACTTGTGTAG-ATTAGAAAGGATCCAATG-AACATAAAGAAACCCGCTAATAAT---G-ACCA-TTAAACATTAGTATCCATATATAGTTCAAG-ACGGACTAATATACGG-CATAACTAATACCCAACTTCTTCACT--CAAATACTGGTATTTGTCACAATGCATTTACCAC------TCATACCTTTTATT-GAAGCCT--ATTAAATAACACTTAAGATGTACATGTATT---ACA-TGTAACACACTATACA-A--CATGG--ATGA-CTTCGAAATACATCTG-TCCCTGAAATGATTGTA-----AA---G--TAATGACTAGCAATTGTT---ATTTTCCATA
gi|10 : tcacACGGTGTGGAATGGGGACGGACTATCCGTGC-----------TT-TTTTTTTTTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAATGG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAATAAATAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCAAC-AT---TCTTatcgccattggacaataaatcattaatcgcaccactg
gi|12 : CACGGTGTGGAATGGGGACGGACTATCCGTG----------------T-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TTGGACCAGAGAAACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGC-A--AGT-CT-TTTTCAGATCATTGT-C-ACA-GAATAT-CGTAATAT-CC---CAT-AG-TTATTGTTT------A-AAC----ATGATACC
gi|13 : tCACGGTGTGGAATGGGGACGGACTATCCGTG---------------TT-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TTGGACCAGAGAAACATTATG-GACCCTA-CAGAAAGAAAAGAGTCGC-A--AGT-CT-TTTTCAGATCATTGT-C-ACA-GAATAT-CGTAATAT-CC---CAT
gi|14 : GT---AAT-TGGTTG----AAATTTTTGGCACCG--------GACT--GATTGGATATT-TTCTG----------------CACCGGACTTATAGTGTTTATAT-GTATTATGTA---TTGCATTCAG--AATCA---AGAGGAA--GAAA-A-CA-TTGT---G-GTTGAACAGG--CCAAAG-
gi|15 : TAAG-GACTTGA-GAGAAAGAAAGAAGTCGTTACTAGT-CT-TTTTCAAACCATTTT-C-ACG-AAATAG-CGTAATAT-CC---CATGGG-ATAGTATTT------ACAAGTAC-ATT-TATCAAATTTGGCCCAC-AT---TCTTCA
gi|16 : aCACGGTGTGGAATGGGGACGGACTTTCCATG----------------T-----TATTTCACACAATT-CCAGACTAAGCATA--CTCAGCAACGG-ACTTTTCGTGGTTG---AAAAA-TCTGACCAGAGAAACAATTTG-GACTCTA-AAGA
gi|17 : at-ATT-TATCAAATATGGCCCAC-AT---TCATCAAAAAATCACACAAAAACTTGCAAAAAAG-GTCGATTC------CATCA--AATA-CCG-TCATG----TTTCT--------------ATTTTTCTTATTCACTGGC-TA---TATc
gi|18 : TTTTCTAGAA--ATACATCGATTTTTCTTATTTACTGAC-TG---TAGTT---TTGTTGTAA-CAAACTG-TAA---TGTATA--AC--------TTACTTTACAC-TCGACTGAAAGATC-A-AATCAT-ACAT-GCTTT----atatttttttta
gi|2 : CACGGTGTGGAATAGGGAAGGACTATCCGTGGAGTTTTTTTTTTTGTT-----TTTTTTGCGCGGTT-CCAGACTAAGCGTG--CTCAGCAACCG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCCAA-TT---TCTTCAAAAAACTCTACACAAACTTG-GAAAATG-ATCGAATT------TGTCA--AATG-CCG-TCACTTTTTTTTTTAGAA--ATACATCGATTATTCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-AAAGATG-TAA---TCTATC--GC--------TTACTTAGCAA-TCGACTCAAAGATC-A-TATCAT-ACAT-GCCTT----A----------TTT-TTTTTGGAAAATGTTGA-TTTACCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCTGGT---AAT-TGGTTCA---AAATTTTTG--ACCG--------GACT-----------TT-TTTTG----------------T-----GTTTTAA------ATATGGTA--TTGTA---TTGCAT-TTGTTAATCAGATAGAAGAA--G-GA-A-TA-ACGT---GCGTTGAATAGG--CCAAAGCAC---GAAGAAA---------AATAGGGCACCATTT--ACGATAGGATA-ATAT-TA-TTTAGATGCTCACTA---T-CGGTT---AC-ATTACCCAG-------ACTG-CAACTATT--TA--TGT---------ATTAACAA------T-ATAC---TTATTAGAAG-CTTGATCTAT--ACGATAAA----TACATGCATT---ACATTGC-ATA----GTATA-AG-CATGGGTATGATTTTC--AATA----TGTTGTCTGGA--------A-----AA---A--TAGC---TAAC---CATTAGGATCTTTAATAT
gi|21 : CACGGTGTGGAATGGGGACGGACTATCGATG---------------TT-----TTTATTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAAtgtatg
gi|22 : tCGGTGTGGAATGGGGACGGATTATCCGTGG-----------TT-TT-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--TTCAGCAACtcata
gi|23 : AGAAA--G-AA-AACG-TTGT---G-GTTGAACAGG--CCAAGG-A----GAAGAAA---------AAT----TACCA-TT--ACGATAGTAT--ATtg
gi|25 : ATCATTTT-C-ACG-GAATAT-CGTAATAT-CCCATCATGAG-ATAGTAt
gi|3 : CTGT--TT----------GTGTGCTCTG-T---AAT-TGGTTC----AAATTTTTGGCACCG--------GACT--A--------TT-T---G----------------T-----GTTTATA------ATAT-GTATTTTGTA---TTGCATATAG--AATCA---AGAAAAA--G-AACA-CA-TTGT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------AAT---G-ACCA-TT--ACGATAG--T--ATAT-TA-TTTAGGTAC-GACTAA--T-CGG-----ACTAATACCC-A-------ACTGAC-AATATT------TGT---------TTTAACA-------T-ATAC---TTATT-GAAGCTTTGATAA--TAGCGATAAA----TACATGCATTTATACA-TGCAAT-----GTATA-AG-CATAG--ATGA-TTTC--AATA----TG-TGTCTGAA--------A-----AATGTA--CAGTG--TAGCA--TGTT---ATCCTTGATATGCCATGTG
gi|4 : ACCA-TT--ACGATAGTAC--AC--------TGGGTAC-GACTA-T-T-CGG-----ACTAATACC-AA-------ACTGA-GAATATT--TA--TGT---------TTTAACATACACTGT-ATAC---TCATT-GAAGCCT-GATTAATTAGTGATT------TACAGGTATTTA-ACA-TTGAA------ATATA-AA-CATGG--ATGA-TTTC--AATA----TA-TGTCTGAA--------ATTTTTAA-------AGTA--TAGCA--TGTT---ATCTTTGATATGCCATGTGgacaatgaaacatcaatacactctgtgcatttataattgtgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngaatttacattaaggatacagactttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnacataatcatgttacatatacttaaacgagattgtatccttgaatcatgtgtaagaacgaaaagtacatgcatattgtgtatatactttggcgtgtacagtcttctagtgaagtactttgtatcttaaattaataaacaaatagtggctattattaaaaaacaataaaaa
gi|5 : ACCA------T-ATAC---TTATT-GAAGCCTTAATAAATTAGCGATAAA----TATATGCATT---ACA-TGCAATA----ATATATAGCCAT-G--ATGA-TTTT---ATA----TG-TGTCT-AA--------A-----AT---GTACAGTG--TAGC---TGTT---ATCCTTGATATG-CGTGTGgacaatataatgaaacataaatgcaaactgtgtatttataattatatacatgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntaattattgttttaacatgatacataatcatgacaatactaaacgagattgtatccttagataatgtgtaagaacggaaagtataactactatggtgtctttacaaattaattactttatttatagtgtgaaattatttcagttaatgggttgatttcctccataaaatctatgttttatattaataaacaaaattgctttaaaaagaaaacaacaaaaaggaatcctt
gi|5 : GAATACC--TA--TGT---------TTTAACAT------T-A-AC---TTAgacaatgaaacatcaatacaacactgtgcttatttataaatatacaaattctcaatgtcctatattatcaattgttttacttgataacaaagccattacgaatttaagaacagtcttttgtgacgttttgataaaagcgaagagcacttgaaagcatattttaatgatgtgaaatagtacaagaacttattaaagtgacttgaagttattgtttcaacatgaataccggtacataattcatgttacatatacttaatacgagatttgtaccctgtggaatcatgtgtaagaaacgcagaagtaacaattatcaaagtatcttttggacgtgtactgtctcgtagtgaatacctatgttttaacattaacttaaaaacacattctgaatagtaaacaaccgagaaaaaagaatcctttgggtggaagtgtctgggaagggttggaccattttatttatgtaa
gi|7 : accatatacttattgaagccttaataaattagcgataaatatatgcattacatgcaataatatatagccatgatgattttatatgtgtctaaaatgtacagtgtagctgttatccttgatatgcgtgtggacaatgaaacatcaatacaacactgtgcttatttataaatatacaaattctcaatgtcctatattatcaattgttttacttgataacaaagccattacgaatttaagaacagtcttttgtgacgttttgataaaagcgaagagcacttgaaagcatattttaatgatgtgaaatagtacaagaacttattaaagtgacttgaagttattgtttcaacatgaataccggtacataattcatgttacatatacttaatacgagatttgtaccctgtggaatcatgtgtaagaaacgcagaagtaacaattatcaaagtatcttttggacgtgtactgtctcgtagt-----------TT-TT-----TTTTTGGCGCGTTT-CTAGACTAAGTGTG--CTCAGCAACGGGACTTTTCGGGGTTT---AAAAACTCGGAC-AGAGACACATTATG-GACCC-A-CAGAAAGAAA--AGTCGT-A--AGTTCTGTTTTCAAATCATTTT-CAACG-G-ATAT-CGTAATAT-CC---C-TGAGCATAGTATTT------TTAACTAA-ATG-TACCAAATTTGACCCAA-AT---TCTTCAAAAAAACCTACACAAACTTT-GAAAATG-ACCGAATT------AGTCA--AATG-CCG-TCACGTA--TTTCTAGAA--ATACATCGATCATTATTATTCACTGAC-TG---TATTT---TCGTTGTTA-aaaacacattctgaatagtaaacaaccgagaaaaaagaatcctttgggtggaagtgtctgggaagggttggaccattttatttatgtaa
gi|8 : tCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-AATGATG-TAA---TATATC--GC--------TTACCTAGTAA-TCGACTCAAAGATC-ATTATCAT-ACAT-GCCTT----GTTTTTTGGGGTTT-TTTTTGGAAAATGTTGA-TTTATCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCT-GT---AAT-TGGTAC----AAACTTTTGGCACCG--------GACT--A--------TT----TG----------------T-----GTTTATA------ATAT-GTATTTTGTA---TTGC----AG--AATCA---AGAGAAA--GAAA-A-CA-TTAT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------A
6 sequences could not be aligned to this reference sequence:
Unaligned ( gi|6 ): TAATTATATAATTTCAATGTCTTATATTACAATTGTTTTATTGGAGTAAAAGAATTTACATTAAGAATGCAGACTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCATGTTACATATACTTAAACGAGATTGTATCCTTGGATCATGTGTAATCTTGAACGGAAAGTACATGGATATACATGTATACTTTGGCGTGTAAAGTCTTCTAGTGAATACTTGTTTTATATTA
Unaligned ( gi|9 ): AGTTATTGTTTAAACATGATACCGGTACATAATCATGTTACACATACTTAAACGACATTGTATCCTTGGATCATGTGTAAGAACGGAAAGTACATGTATATAAACTTTGGCGTGTACAGTCTTCTAGAGAATACTTGTAATGTTTTATATTAATAAACAAATTGCTATTAAAAAAAACAACAAAAAGGAATCCTTTGGTGAAGGCCTGGGAAGGTTGGACAAATTTGTTTATGTAAA
Unaligned ( gi|11 ): AGTAATTGTTAACACATGATACGGTACATAATCTGTTACACATACTTAAACGACATTGTATCCTTTGAATCATGTGTAAGAAGAAAGTACATGTATATAAACTTGGCGTGTACAGTCTTCTAGAGAATCTTGTAATTGTTTATATTAATAAAACAAATTGCTATAAAAAAAACAACAAAAAGGAATCCTTTGGTGAAGGCCTGGAAGGTTTGGACAAATTTGTTTATGTA
Unaligned ( gi|19 ): TAATTATTGTTTTAACATAATACATATTACATAATCATGTTACATACATGTATACTAAAAGAGATTGTATCCTTTGATCATGTGTAAGAACGGAAAATATATATCAATAAAC
Unaligned ( gi|20 ): AATGAGCTGATATCCTCCATAAAATCTATGTTTGATATGAATAAACAAATTGCTATAAAAAACAACAACAAAAAATCCTTTGATGAGGCCTGGGAAGGATGGACA
Unaligned ( gi|24 ): TTCTAGTGAATACTTGTTTTATATTAATAAAAACAAATTGCTATATTAAAAAAAAAACA
Alignments
lowQualScore : 444444444444444 11111 111 111111 11 111 1 1 2222222 11 1 1 1111 11 111 111 1 111 333333333333 1 1111 1 1 777777777777777 1 1 222 2222 1 11 4444444444 111 2222 22222222 99999999999999999999999999999999999999999 222222 111 111111 111 1111 111 2222 44444444444444444 11 11 111111 2 5555555555555 3333333333 2222 111111 333333333 2222222 111 1 1111 333 222222 11 11 111 1111 66666666666666666666666 111 222 111
lowQualScore : 888888888888888 11111 4 66 5 000 5 0 5 0 5 3 5 77 5 5 5 5 5 5 5 888 5 999999 1 5 00 6 111 0 0 0 1 9999999 2 33 0 0 6666 0 11 1 6 111 444 99 0 777 0 888888888888 33 0 8 2222 0 0 777777777777777 3 3 333 8888 3 33 3333333333 55 444 8 5555 99999999 88888888888888888888888888888888888888888 6 333333 8 0 0 444 0 111111 444 5555 888 6 111 6 99 6 5555 44444444444444444 8 11 5 99 444444 3 0 2222222222222 3 3333333333 0000 888888 222222222 6666666 6 111 8 0 1 222 22 7777 333 8 0 666666 8 11 3 11 8 111 7777 8 00000000000000000000000 444 111 444 6 0
lowQualScore : ............... ..... . .. . ... . . . . . . . .. . . . . . . . ... . ...... . . .. . ... . . . . ....... . .. . . .... . .. . . ... ... .. . ... . ............ .. . . .... . . ............... . . ... .... . .. .......... .. ... . .... ........ ......................................... . ...... . . . ... . ...... ... .... ... . ... . .. . .... ................. . .. . .. ...... . . ............. . .......... .... ...... ......... ....... . ... . . . ... .. .... ... . . ...... . .. . .. . ... .... . ....................... ... ... ... . .
lowQualScore : 777777777777777 11111 4 11 7 000 7 7 0 1 0 0 7 99 7 7 0 0 0 0 0 888 7 222222 7 7 00 7 777 2 0 0 0 0000000 5 88 0 0 6666 8 00 4 7 777 000 00 0 555 8 000000000000 22 0 8 0000 0 0 333333333333333 3 3 333 3333 3 88 8888888888 77 000 0 0000 00000000 88888888888888888888888888888888888888888 0 000000 0 8 8 000 8 888888 000 2222 777 7 777 7 22 7 0000 00000000000000000 0 00 6 00 222222 2 0 2222222222222 2 0000000000 7777 666666 000000000 7777777 7 777 0 6 0 666 22 0000 888 0 8 444444 0 22 2 00 0 888 0000 0 00000000000000000000000 222 666 000 7 7
consensus : CACGGTGTGGAATGGGGACGGACTATCCGTGG-----------TT-TT-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCCAC-AT---TCTTCAAAAAACCCTACACAAACTTG-GAAAATG-ATCGANTT------CGTCA--AATG-CCG-TCACGTATTTTTCTAGAA--ATACATCGATTATTCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-NAAGATG-TAA---TATATC--GC--------TTACTTAGCAA-TCGACTCAAAGATC-A-NATCAT-ACAT-GCCTT----GT---------TTT-TTTTTGGAAAATGTTGA-TTTATCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCTGGT---AAT-TGGTTC----AAATTTTTGGCACCG--------GACT--G--------TT-TTCTG----------------T-----GTTTATA------ATAT-GTATTTTGTA---TTGCATATAG--AATCA---AGAGAAA--G-AA-A-CA-TTGT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------AAT---GCACCA-TT--ACGATAGTAT--ATAT-TA-TTTAGGTAC-GACTAAT-T-CGG-C---ACTAATACCCAA-------ACTGACGAATATT--TA--TGT---------TTTAACAN------T-ATAC---TTATT-GAAGCCTTGATNAATTAGCGATAAA----TACATGCATTTA-ACA-TGCAATA----ATATA-AG-CATGG--ATGA-TTTC--AATA----TG-TGTCTGAA--------A-----AA---G--CAGTG--TAGCA--TGTT---ATCTTTGATATGCCGTGTG
Reference ( family-1669 ) : CACGGTGTGGAATGGGGACGGACTATCCGTGG-----------TT-TT-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCCAC-AT---TCTTCAAAAAACCCTACACAAACTTG-GAAAATG-ATCGANTT------CGTCA--AATG-CCG-TCACGTATTTTTCTAGAA--ATACATCGATTATTCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-NAAGATG-TAA---TATATC--GC--------TTACTTAGCAA-TCGACTCAAAGATC-A-NATCAT-ACAT-GCCTT----GT---------TTT-TTTTTGGAAAATGTTGA-TTTATCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCTGGT---AAT-TGGTTC----AAATTTTTGGCACCG--------GACT--G--------TT-TTCTG----------------T-----GTTTATA------ATAT-GTATTTTGTA---TTGCATATAG--AATCA---AGAGAAA--G-AA-A-CA-TTGT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------AAT---GCACCA-TT--ACGATAGTAT--ATAT-TA-TTTAGGTAC-GACTAAT-T-CGG-C---ACTAATACCCAA-------ACTGACGAATATT--TA--TGT---------TTTAACAN------T-ATAC---TTATT-GAAGCCTTGATNAATTAGCGATAAA----TACATGCATTTA-ACA-TGCAATA----ATATA-AG-CATGG--ATGA-TTTC--AATA----TG-TGTCTGAA--------A-----AA---G--CAGTG--TAGCA--TGTT---ATCTTTGATATGCCGTGTG
gi|1 : TGTGGAATGGG-ACG-ACTATCCGTAG-----------CT-TT-----TTT---GCGCGTTTTCCAGA-TAAGCGTGACTTCAGCAACGG-GCTTTTCGAGGCTTTTAAAAAA-TCGGACCAGAGACACATTATGCGACCCTAACA-AAATAAAGAAGTCGT-A--AAC-TT-TTTTCAAATAATTTTCC-ACGCGAATATGCG-AATATCCC---CATGTG-ATAGTACTTTAATGAATACTTAACAT--TACCACATTGGGCCCACAATTTGTCCTTACAAAACCCTACACACACTAG-GAAAATGTATTCATTTTGATGGCGT-ATTAATGTCCGCTCACGTATTTCTCTAGAGCCATACATCGAGTATTCTTATTCA-TGACGTGTCATATTTTTGTCGTTGTTACCAAAATGTTAAAACTATATCTGACACCCAACATTA--TAGTAATTCGACT-AAAGATCAA-AATCATGACATGGCCTTTGGAGT---------TTTATTTTTAGAAAATGTTGAGTTTATCGTTAAAAACCTACTTTTTGCAACAGGACTTTAATTAGCTACTGAAGAGTGCTTCGATGTAAATATCGTTCGAGAGAATTTTGGGCACCGATGCACCTGATTGGG--------TTATTCTGCAACACCGCGACTTATT-----GTGT-TA------ATAT-G-ATTCTGTAAAGATGCATATAT--AATCA---AGAGAAATTA-AA-T-CACTTGTGTAG-ATTAGAAAGGATCCAATG-AACATAAAGAAACCCGCTAATAAT---G-ACCA-TTAAACATTAGTATCCATATATAGTTCAAG-ACGGACTAATATACGG-CATAACTAATACCCAACTTCTTCACT--CAAATACTGGTATTTGTCACAATGCATTTACCAC------TCATACCTTTTATT-GAAGCCT--ATTAAATAACACTTAAGATGTACATGTATT---ACA-TGTAACACACTATACA-A--CATGG--ATGA-CTTCGAAATACATCTG-TCCCTGAAATGATTGTA-----AA---G--TAATGACTAGCAATTGTT---ATTTTCCATA
gi|10 : tcacACGGTGTGGAATGGGGACGGACTATCCGTGC-----------TT-TTTTTTTTTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAATGG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAATAAATAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCAAC-AT---TCTTatcgccattggacaataaatcattaatcgcaccactg
gi|12 : CACGGTGTGGAATGGGGACGGACTATCCGTG----------------T-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TTGGACCAGAGAAACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGC-A--AGT-CT-TTTTCAGATCATTGT-C-ACA-GAATAT-CGTAATAT-CC---CAT-AG-TTATTGTTT------A-AAC----ATGATACC
gi|13 : tCACGGTGTGGAATGGGGACGGACTATCCGTG---------------TT-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TTGGACCAGAGAAACATTATG-GACCCTA-CAGAAAGAAAAGAGTCGC-A--AGT-CT-TTTTCAGATCATTGT-C-ACA-GAATAT-CGTAATAT-CC---CAT
gi|14 : GT---AAT-TGGTTG----AAATTTTTGGCACCG--------GACT--GATTGGATATT-TTCTG----------------CACCGGACTTATAGTGTTTATAT-GTATTATGTA---TTGCATTCAG--AATCA---AGAGGAA--GAAA-A-CA-TTGT---G-GTTGAACAGG--CCAAAG-
gi|15 : TAAG-GACTTGA-GAGAAAGAAAGAAGTCGTTACTAGT-CT-TTTTCAAACCATTTT-C-ACG-AAATAG-CGTAATAT-CC---CATGGG-ATAGTATTT------ACAAGTAC-ATT-TATCAAATTTGGCCCAC-AT---TCTTCA
gi|16 : aCACGGTGTGGAATGGGGACGGACTTTCCATG----------------T-----TATTTCACACAATT-CCAGACTAAGCATA--CTCAGCAACGG-ACTTTTCGTGGTTG---AAAAA-TCTGACCAGAGAAACAATTTG-GACTCTA-AAGA
gi|17 : at-ATT-TATCAAATATGGCCCAC-AT---TCATCAAAAAATCACACAAAAACTTGCAAAAAAG-GTCGATTC------CATCA--AATA-CCG-TCATG----TTTCT--------------ATTTTTCTTATTCACTGGC-TA---TATc
gi|18 : TTTTCTAGAA--ATACATCGATTTTTCTTATTTACTGAC-TG---TAGTT---TTGTTGTAA-CAAACTG-TAA---TGTATA--AC--------TTACTTTACAC-TCGACTGAAAGATC-A-AATCAT-ACAT-GCTTT----atatttttttta
gi|2 : CACGGTGTGGAATAGGGAAGGACTATCCGTGGAGTTTTTTTTTTTGTT-----TTTTTTGCGCGGTT-CCAGACTAAGCGTG--CTCAGCAACCG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCCAA-TT---TCTTCAAAAAACTCTACACAAACTTG-GAAAATG-ATCGAATT------TGTCA--AATG-CCG-TCACTTTTTTTTTTAGAA--ATACATCGATTATTCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-AAAGATG-TAA---TCTATC--GC--------TTACTTAGCAA-TCGACTCAAAGATC-A-TATCAT-ACAT-GCCTT----A----------TTT-TTTTTGGAAAATGTTGA-TTTACCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCTGGT---AAT-TGGTTCA---AAATTTTTG--ACCG--------GACT-----------TT-TTTTG----------------T-----GTTTTAA------ATATGGTA--TTGTA---TTGCAT-TTGTTAATCAGATAGAAGAA--G-GA-A-TA-ACGT---GCGTTGAATAGG--CCAAAGCAC---GAAGAAA---------AATAGGGCACCATTT--ACGATAGGATA-ATAT-TA-TTTAGATGCTCACTA---T-CGGTT---AC-ATTACCCAG-------ACTG-CAACTATT--TA--TGT---------ATTAACAA------T-ATAC---TTATTAGAAG-CTTGATCTAT--ACGATAAA----TACATGCATT---ACATTGC-ATA----GTATA-AG-CATGGGTATGATTTTC--AATA----TGTTGTCTGGA--------A-----AA---A--TAGC---TAAC---CATTAGGATCTTTAATAT
gi|21 : CACGGTGTGGAATGGGGACGGACTATCGATG---------------TT-----TTTATTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAAtgtatg
gi|22 : tCGGTGTGGAATGGGGACGGATTATCCGTGG-----------TT-TT-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--TTCAGCAACtcata
gi|23 : AGAAA--G-AA-AACG-TTGT---G-GTTGAACAGG--CCAAGG-A----GAAGAAA---------AAT----TACCA-TT--ACGATAGTAT--ATtg
gi|25 : ATCATTTT-C-ACG-GAATAT-CGTAATAT-CCCATCATGAG-ATAGTAt
gi|3 : CTGT--TT----------GTGTGCTCTG-T---AAT-TGGTTC----AAATTTTTGGCACCG--------GACT--A--------TT-T---G----------------T-----GTTTATA------ATAT-GTATTTTGTA---TTGCATATAG--AATCA---AGAAAAA--G-AACA-CA-TTGT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------AAT---G-ACCA-TT--ACGATAG--T--ATAT-TA-TTTAGGTAC-GACTAA--T-CGG-----ACTAATACCC-A-------ACTGAC-AATATT------TGT---------TTTAACA-------T-ATAC---TTATT-GAAGCTTTGATAA--TAGCGATAAA----TACATGCATTTATACA-TGCAAT-----GTATA-AG-CATAG--ATGA-TTTC--AATA----TG-TGTCTGAA--------A-----AATGTA--CAGTG--TAGCA--TGTT---ATCCTTGATATGCCATGTG
gi|4 : ACCA-TT--ACGATAGTAC--AC--------TGGGTAC-GACTA-T-T-CGG-----ACTAATACC-AA-------ACTGA-GAATATT--TA--TGT---------TTTAACATACACTGT-ATAC---TCATT-GAAGCCT-GATTAATTAGTGATT------TACAGGTATTTA-ACA-TTGAA------ATATA-AA-CATGG--ATGA-TTTC--AATA----TA-TGTCTGAA--------ATTTTTAA-------AGTA--TAGCA--TGTT---ATCTTTGATATGCCATGTGgacaatgaaacatcaatacactctgtgcatttataattgtgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngaatttacattaaggatacagactttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnacataatcatgttacatatacttaaacgagattgtatccttgaatcatgtgtaagaacgaaaagtacatgcatattgtgtatatactttggcgtgtacagtcttctagtgaagtactttgtatcttaaattaataaacaaatagtggctattattaaaaaacaataaaaa
gi|5 : ACCA------T-ATAC---TTATT-GAAGCCTTAATAAATTAGCGATAAA----TATATGCATT---ACA-TGCAATA----ATATATAGCCAT-G--ATGA-TTTT---ATA----TG-TGTCT-AA--------A-----AT---GTACAGTG--TAGC---TGTT---ATCCTTGATATG-CGTGTGgacaatataatgaaacataaatgcaaactgtgtatttataattatatacatgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntaattattgttttaacatgatacataatcatgacaatactaaacgagattgtatccttagataatgtgtaagaacggaaagtataactactatggtgtctttacaaattaattactttatttatagtgtgaaattatttcagttaatgggttgatttcctccataaaatctatgttttatattaataaacaaaattgctttaaaaagaaaacaacaaaaaggaatcctt
gi|5 : GAATACC--TA--TGT---------TTTAACAT------T-A-AC---TTAgacaatgaaacatcaatacaacactgtgcttatttataaatatacaaattctcaatgtcctatattatcaattgttttacttgataacaaagccattacgaatttaagaacagtcttttgtgacgttttgataaaagcgaagagcacttgaaagcatattttaatgatgtgaaatagtacaagaacttattaaagtgacttgaagttattgtttcaacatgaataccggtacataattcatgttacatatacttaatacgagatttgtaccctgtggaatcatgtgtaagaaacgcagaagtaacaattatcaaagtatcttttggacgtgtactgtctcgtagtgaatacctatgttttaacattaacttaaaaacacattctgaatagtaaacaaccgagaaaaaagaatcctttgggtggaagtgtctgggaagggttggaccattttatttatgtaa
gi|7 : accatatacttattgaagccttaataaattagcgataaatatatgcattacatgcaataatatatagccatgatgattttatatgtgtctaaaatgtacagtgtagctgttatccttgatatgcgtgtggacaatgaaacatcaatacaacactgtgcttatttataaatatacaaattctcaatgtcctatattatcaattgttttacttgataacaaagccattacgaatttaagaacagtcttttgtgacgttttgataaaagcgaagagcacttgaaagcatattttaatgatgtgaaatagtacaagaacttattaaagtgacttgaagttattgtttcaacatgaataccggtacataattcatgttacatatacttaatacgagatttgtaccctgtggaatcatgtgtaagaaacgcagaagtaacaattatcaaagtatcttttggacgtgtactgtctcgtagt-----------TT-TT-----TTTTTGGCGCGTTT-CTAGACTAAGTGTG--CTCAGCAACGGGACTTTTCGGGGTTT---AAAAACTCGGAC-AGAGACACATTATG-GACCC-A-CAGAAAGAAA--AGTCGT-A--AGTTCTGTTTTCAAATCATTTT-CAACG-G-ATAT-CGTAATAT-CC---C-TGAGCATAGTATTT------TTAACTAA-ATG-TACCAAATTTGACCCAA-AT---TCTTCAAAAAAACCTACACAAACTTT-GAAAATG-ACCGAATT------AGTCA--AATG-CCG-TCACGTA--TTTCTAGAA--ATACATCGATCATTATTATTCACTGAC-TG---TATTT---TCGTTGTTA-aaaacacattctgaatagtaaacaaccgagaaaaaagaatcctttgggtggaagtgtctgggaagggttggaccattttatttatgtaa
gi|8 : tCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-AATGATG-TAA---TATATC--GC--------TTACCTAGTAA-TCGACTCAAAGATC-ATTATCAT-ACAT-GCCTT----GTTTTTTGGGGTTT-TTTTTGGAAAATGTTGA-TTTATCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCT-GT---AAT-TGGTAC----AAACTTTTGGCACCG--------GACT--A--------TT----TG----------------T-----GTTTATA------ATAT-GTATTTTGTA---TTGC----AG--AATCA---AGAGAAA--GAAA-A-CA-TTAT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------A
blockSeqs : GAGTTTTTTTTTTTG TTTTT . . G . C . . T T CT T G . A . . . CAT C . T . GA . . C . T C C . . . TTTT . T . . . C . . AC CT . G ATT . . GTTTTTTGGGG . . . . . . . GG . . A . GATTGGATATTTTCTGCACCGG A GTGTTT G . TTGTT GAT GA AA . . C . C C AATAGGGC T . G A ATTA T T TCGGTT T CAG GCA TA . TACACTG . . A T C ATT AA . TAT T TA T GC G GT T A . T AAATGTAC G A AGG C
blockSeqs : CTT . . . . . . . . G . . . . . . . . . . . . C . G . . . . A T C . . . TA . T . . . A . . GC CT . C AA . . A . . . . . . . G . . . . TTTTTTGT T . . . TCAG . GA CA . . . . . . AATT . . T . ATTA T . ATCGG T CA GAC TA . A . . . T A ATT AA . TA . TA . G A . . A . . ATTTTTAA A A . .
blockSeqs : GTT . . . . . . . . A . . . . . . . . . . . . T . T . . . . A A C . . . . . A . . . A . . GC CC . C AT . . . . G . . . . ATTTGT A . . . ATAG . G A . . . . . . AATG . . T . . T . TTCGG . AA GAG TA . A . . . T T AT AA . . . T . G G . . A . . AATGTAC G . .
blockSeqs : . . . . . . . . . G . . . . . . . . . . . . T . T . . . A . . . . . . . ATTTGT A . . . AG . G A . . . . . . . . . . . . T . . . . A T T . . . . . A . . . . . . AAAAT . . .
blockSeqs : . . . . . . . . . G . . . . . . . . . . . . . . G . . . . G A . . . . . . . .
blockSeqs : . . . . . . . . . . . . . . . . . . . . . . G
blockSeqs : . . . . . . . . . . . .
blockSeqs : . . .
blockSeqCons : *************** ** *** ****** G* *** ** *** *** *** **** ******** ATTTTCGT********************************* *** G*** *** ** **** ** ** TA**** ********* *** **** T***** G* A** **** AATTAN***************** G** ***
originalCons : CACGGTGTGGAATGGGGACGGACTATCCGTGG-----------TT-TT-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCCAC-AT---TCTTCAAAAAACCCTACACAAACTTG-GAAAATG-ATCGANTT------CGTCA--AATG-CCG-TCACGTATTTTTCTAGAA--ATACATCGATTATTCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-NAAGATG-TAA---TATATC--GC--------TTACTTAGCAA-TCGACTCAAAGATC-A-NATCAT-ACAT-GCCTT----GT---------TTT-TTTTTGGAAAATGTTGA-TTTATCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCTGGT---AAT-TGGTTC----AAATTTTTGGCACCG--------GACT--G--------TT-TTCTG----------------T-----GTTTATA------ATAT-GTATTTTGTA---TTGCATATAG--AATCA---AGAGAAA--G-AA-A-CA-TTGT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------AAT---GCACCA-TT--ACGATAGTAT--ATAT-TA-TTTAGGTAC-GACTAAT-T-CGG-C---ACTAATACCCAA-------ACTGACGAATATT--TA--TGT---------TTTAACAN------T-ATAC---TTATT-GAAGCCTTGATNAATTAGCGATAAA----TACATGCATTTA-ACA-TGCAATA----ATATA-AG-CATGG--ATGA-TTTC--AATA----TG-TGTCTGAA--------A-----AA---G--CAGTG--TAGCA--TGTT---ATCTTTGATATGCCGTGTG
finalCons : CACGGTGTGGAATGGGGACGGACTATCCGTG---------------TT-----TTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCCAC-AT---TCTTCAAAAAACCCTACACAAACTTG-GAAAATG-ATCGANTT------CGTCA--AATG-CCG-TCACGTATTTTTCTAGAA--ATACATCGATTATTCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-NAAGATG-TAA---TATATC--GC--------TTACTTAGCAA-TCGACTCAAAGATC-A-NATCAT-ACAT-GCCTT----GT---------TTT-TTTTTGGAAAATGTTGA-TTTATCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCTGGT---AAT-TGGTTC----AAATTTTTGGCACCG--------GACTATTTTCGT---------------------------------GTTTATA------ATAT-GTATTTTGTA---TTGCATATAG--AATCA---AGAGAAAG---AA-A-CA-TTGT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------AAT---GCACCA-TT--ACGATAGTAT--ATAT-TA-TTTAGGTAC-GACTAAT-T-CGG-C---ACTAATACCCAA-------ACTGACGAATATTTA----TGT---------TTTAACAN------T-ATAC---TTATT-GAAGCCTTGATNAATTAGCGATAAA----TACATGCATTTA-ACA-TGCAAT-----ATATA-AG-CATGG--ATGA-TTTCA--ATA----TG-TGTCTGAAAATTAN-----------------AGTG--TAGC---TGTT---ATCTTTGATATGCCGTGTG
6 sequences could not be aligned to this reference sequence:
Unaligned ( gi|6 ): TAATTATATAATTTCAATGTCTTATATTACAATTGTTTTATTGGAGTAAAAGAATTTACATTAAGAATGCAGACTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCATGTTACATATACTTAAACGAGATTGTATCCTTGGATCATGTGTAATCTTGAACGGAAAGTACATGGATATACATGTATACTTTGGCGTGTAAAGTCTTCTAGTGAATACTTGTTTTATATTA
Unaligned ( gi|9 ): AGTTATTGTTTAAACATGATACCGGTACATAATCATGTTACACATACTTAAACGACATTGTATCCTTGGATCATGTGTAAGAACGGAAAGTACATGTATATAAACTTTGGCGTGTACAGTCTTCTAGAGAATACTTGTAATGTTTTATATTAATAAACAAATTGCTATTAAAAAAAACAACAAAAAGGAATCCTTTGGTGAAGGCCTGGGAAGGTTGGACAAATTTGTTTATGTAAA
Unaligned ( gi|11 ): AGTAATTGTTAACACATGATACGGTACATAATCTGTTACACATACTTAAACGACATTGTATCCTTTGAATCATGTGTAAGAAGAAAGTACATGTATATAAACTTGGCGTGTACAGTCTTCTAGAGAATCTTGTAATTGTTTATATTAATAAAACAAATTGCTATAAAAAAAACAACAAAAAGGAATCCTTTGGTGAAGGCCTGGAAGGTTTGGACAAATTTGTTTATGTA
Unaligned ( gi|19 ): TAATTATTGTTTTAACATAATACATATTACATAATCATGTTACATACATGTATACTAAAAGAGATTGTATCCTTTGATCATGTGTAAGAACGGAAAATATATATCAATAAAC
Unaligned ( gi|20 ): AATGAGCTGATATCCTCCATAAAATCTATGTTTGATATGAATAAACAAATTGCTATAAAAAACAACAACAAAAAATCCTTTGATGAGGCCTGGGAAGGATGGACA
Unaligned ( gi|24 ): TTCTAGTGAATACTTGTTTTATATTAATAAAAACAAATTGCTATATTAAAAAAAAAACA
Alignments
lowQualScore : 444444444444444444444444 111 111111 11 111 1 1 2222222 11 1 1 1111 11 111 111 1 111 333333333333 1 1111 1 1 777777777777777 1 1 222 2222 1 11 4444444444 111 2222 666666666666666666666666666666666666666 33333333333333 111 111111 111 1111 111 2222 44444444444444444 11 11 111111 2 5555555555555 3333333333 2222 111111 333333333 2222222 111 1 1111 333 2222222222 11 111 1111 111 444444 222222 333 111
lowQualScore : 777777777777777777777777 4 66 5 000 5 0 5 0 5 3 5 77 5 5 5 5 5 5 5 888 5 999999 1 5 00 6 111 0 0 0 1 9999999 2 33 0 0 6666 0 11 1 6 111 444 99 0 777 0 888888888888 33 0 8 2222 0 0 777777777777777 3 3 333 8888 3 33 3333333333 55 444 8 5555 666666666666666666666666666666666666666 8 33333333333333 8 0 0 444 0 111111 444 5555 888 6 111 6 99 6 5555 44444444444444444 8 11 5 99 444444 3 0 2222222222222 3 3333333333 0000 888888 222222222 6666666 6 111 8 0 1 222 22 7777 333 8 5555555555 8 1 3 11 8 111 7777 8 666 666666 1 666666 000 444 6 0
lowQualScore : ........................ . .. . ... . . . . . . . .. . . . . . . . ... . ...... . . .. . ... . . . . ....... . .. . . .... . .. . . ... ... .. . ... . ............ .. . . .... . . ............... . . ... .... . .. .......... .. ... . .... ....................................... . .............. . . . ... . ...... ... .... ... . ... . .. . .... ................. . .. . .. ...... . . ............. . .......... .... ...... ......... ....... . ... . . . ... .. .... ... . .......... . . . .. . ... .... . ... ...... . ...... ... ... . .
lowQualScore : 111111111111111111111111 4 11 7 000 7 7 0 1 0 0 7 99 7 7 0 0 0 0 0 888 7 222222 7 7 00 7 777 2 0 0 0 0000000 5 88 0 0 6666 8 00 4 7 777 000 00 0 555 8 000000000000 22 0 8 0000 0 0 333333333333333 3 3 333 3333 3 88 8888888888 77 000 0 0000 222222222222222222222222222222222222222 0 22222222222222 0 8 8 000 8 888888 000 2222 777 7 777 7 22 7 0000 00000000000000000 0 00 6 00 222222 2 0 2222222222222 2 0000000000 7777 666666 000000000 7777777 7 777 0 6 0 666 22 0000 888 0 6666666666 0 4 2 00 0 888 0000 0 000 000000 0 444444 000 000 7 7
consensus : CACGGTGTGGAATGGGGACGGACTATCCGT---------------G--------TTTTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCCAC-AT---TCTTCAAAAAACCCTACACAAACTTG-GAAAATG-ATCGANTT------CGTCA--AATG-CCG-TCACGTATTTTTCTAGAA--ATACATCGATTATTCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-NAAGATG-TAA---TATATC--GC--------TTACTTAGCAA-TCGACTCAAAGATC-A-NATCAT-ACAT-GCCTT----GT---------TTT-TTTTTGGAAAATGTTGA-TTTATCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCTGGT---AAT-TGGTTC----AAATTTTTGGCACC-------------GGAC--------TATTTT-------CGCG-TTTA------TA------ATAT-GTATTTTGTA---TTGCATATAG--AATCA---AGAGAAA--G-AA-A-CA-TTGT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------AAT---GCACCA-TT--ACGATAGTAT--ATAT-TA-TTTAGGTAC-GACTAAT-T-CGG-C---ACTAATACCCAA-------ACTGACGAATATT--TA--TGT---------TTTAACAN------T-ATAC---TTATT-GAAGCCTTGATNAATTAGCGATAAA----TACATGCATTTA-ACA-TGC---AATA---TATA-AGCATGG--ATGA-TTTC--AATA----TG-TGTCT-G-AAAT-ATG-TANAGTG-----TAGCA--TGTT---ATCTTTGATATGCCGTGTG
Reference ( family-1669 ) : CACGGTGTGGAATGGGGACGGACTATCCGT---------------G--------TTTTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCCAC-AT---TCTTCAAAAAACCCTACACAAACTTG-GAAAATG-ATCGANTT------CGTCA--AATG-CCG-TCACGTATTTTTCTAGAA--ATACATCGATTATTCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-NAAGATG-TAA---TATATC--GC--------TTACTTAGCAA-TCGACTCAAAGATC-A-NATCAT-ACAT-GCCTT----GT---------TTT-TTTTTGGAAAATGTTGA-TTTATCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCTGGT---AAT-TGGTTC----AAATTTTTGGCACC-------------GGAC--------TATTTT-------CGTG-TTTA------TA------ATAT-GTATTTTGTA---TTGCATATAG--AATCA---AGAGAAA--G-AA-A-CA-TTGT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------AAT---GCACCA-TT--ACGATAGTAT--ATAT-TA-TTTAGGTAC-GACTAAT-T-CGG-C---ACTAATACCCAA-------ACTGACGAATATT--TA--TGT---------TTTAACAN------T-ATAC---TTATT-GAAGCCTTGATNAATTAGCGATAAA----TACATGCATTTA-ACA-TGC---AATA---TATA-AGCATGG--ATGA-TTTC--AATA----TG-TGTCT-G-AAA--AT--TANAGTG-----TAGC---TGTT---ATCTTTGATATGCCGTGTG
gi|1 : TGTGGAATGGG-ACG-ACTATCCGT---------------A--------GCTTTTTTGCGCGTTTTCCAGA-TAAGCGTGACTTCAGCAACGG-GCTTTTCGAGGCTTTTAAAAAA-TCGGACCAGAGACACATTATGCGACCCTAACA-AAATAAAGAAGTCGT-A--AAC-TT-TTTTCAAATAATTTTCC-ACGCGAATATGCG-AATATCCC---CATGTG-ATAGTACTTTAATGAATACTTAACAT--TACCACATTGGGCCCACAATTTGTCCTTACAAAACCCTACACACACTAG-GAAAATGTATTCATTTTGATGGCGT-ATTAATGTCCGCTCACGTATTTCTCTAGAGCCATACATCGAGTATTCTTATTCA-TGACGTGTCATATTTTTGTCGTTGTTACCAAAATGTTAAAACTATATCTGACACCCAACATTA--TAGTAATTCGACT-AAAGATCAA-AATCATGACATGGCCTTTGGAGT---------TTTATTTTTAGAAAATGTTGAGTTTATCGTTAAAAACCTACTTTTTGCAACAGGACTTTAATTAGCTACTGAAGAGTGCTTCGATGTAAATATCGTTCGAGAGAATTTTGGGCACCGATGCACCTGATTGGGT--------TATTCTGCAACACCGCGACTTATTGTGTTA------ATAT-G-ATTCTGTAAAGATGCATATAT--AATCA---AGAGAAATTA-AA-T-CACTTGTGTAG-ATTAGAAAGGATCCAATG-AACATAAAGAAACCCGCTAATAAT---G-ACCA-TTAAACATTAGTATCCATATATAGTTCAAG-ACGGACTAATATACGG-CATAACTAATACCCAACTTCTTCACT--CAAATACTGGTATTTGTCACAATGCATTTACCAC------TCATACCTTTTATT-GAAGCCT--ATTAAATAACACTTAAGATGTACATGTATT---ACA-TGT---AACACACTATACAACATGG--ATGA-CTTCGAAATACATCTG-TCCCT-G-AAATGATTGTAAAGTAATGACTAGCAATTGTT---ATTTTCCATA
gi|10 : tcacACGGTGTGGAATGGGGACGGACTATCCGT---------------GCTTTTTTTTTTTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAATGG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAATAAATAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCAAC-AT---TCTTatcgccattggacaataaatcattaatcgcaccactg
gi|12 : CACGGTGTGGAATGGGGACGGACTATCCGT---------------G--------TTTT-TTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TTGGACCAGAGAAACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGC-A--AGT-CT-TTTTCAGATCATTGT-C-ACA-GAATAT-CGTAATAT-CC---CAT-AG-TTATTGTTT------A-AAC----ATGATACC
gi|13 : tCACGGTGTGGAATGGGGACGGACTATCCGT---------------G--------TTTTTTTTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAACGG-ACTTTTCGGGGTTT---AAAAA-TTGGACCAGAGAAACATTATG-GACCCTA-CAGAAAGAAAAGAGTCGC-A--AGT-CT-TTTTCAGATCATTGT-C-ACA-GAATAT-CGTAATAT-CC---CAT
gi|14 : GT---AAT-TGGTTG----AAATTTTTGGCACC-------------GGACTGATTGGATATTTTCTGCAC-CGGA-CTTA------TAGTGTTTATAT-GTATTATGTA---TTGCATTCAG--AATCA---AGAGGAA--GAAA-A-CA-TTGT---G-GTTGAACAGG--CCAAAG-
gi|15 : TAAG-GACTTGA-GAGAAAGAAAGAAGTCGTTACTAGT-CT-TTTTCAAACCATTTT-C-ACG-AAATAG-CGTAATAT-CC---CATGGG-ATAGTATTT------ACAAGTAC-ATT-TATCAAATTTGGCCCAC-AT---TCTTCA
gi|16 : aCACGGTGTGGAATGGGGACGGACTTTCCAT---------------G--------TTATTTC-ACACAATT-CCAGACTAAGCATA--CTCAGCAACGG-ACTTTTCGTGGTTG---AAAAA-TCTGACCAGAGAAACAATTTG-GACTCTA-AAGA
gi|17 : at-ATT-TATCAAATATGGCCCAC-AT---TCATCAAAAAATCACACAAAAACTTGCAAAAAAG-GTCGATTC------CATCA--AATA-CCG-TCATG----TTTCT--------------ATTTTTCTTATTCACTGGC-TA---TATc
gi|18 : TTTTCTAGAA--ATACATCGATTTTTCTTATTTACTGAC-TG---TAGTT---TTGTTGTAA-CAAACTG-TAA---TGTATA--AC--------TTACTTTACAC-TCGACTGAAAGATC-A-AATCAT-ACAT-GCTTT----atatttttttta
gi|2 : CACGGTGTGGAATAGGGAAGGACTATCCGTGGAGTTTTTTTTTTTG--------TTTTTTTTGCGCGGTT-CCAGACTAAGCGTG--CTCAGCAACCG-ACTTTTCGGGGTTT---AAAAA-TCGGACCAGAGACACATTATG-GACCCTA-CAGAAAGAAAGAAGTCGT-A--AGT-CT-TTTTCAAATCATTTT-C-ACG-GAATAT-CGTAATAT-CC---CATGAG-ATAGTATTT------ATAACTAA-ATG-TACCAAATTTGGCCCAA-TT---TCTTCAAAAAACTCTACACAAACTTG-GAAAATG-ATCGAATT------TGTCA--AATG-CCG-TCACTTTTTTTTTTAGAA--ATACATCGATTATTCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-AAAGATG-TAA---TCTATC--GC--------TTACTTAGCAA-TCGACTCAAAGATC-A-TATCAT-ACAT-GCCTT----A----------TTT-TTTTTGGAAAATGTTGA-TTTACCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCTGGT---AAT-TGGTTCA---AAATTTTTG--ACC-------------GGAC--------TTTTTT-------TGTG-TTTT------AA------ATATGGTA--TTGTA---TTGCAT-TTGTTAATCAGATAGAAGAA--G-GA-A-TA-ACGT---GCGTTGAATAGG--CCAAAGCAC---GAAGAAA---------AATAGGGCACCATTT--ACGATAGGATA-ATAT-TA-TTTAGATGCTCACTA---T-CGGTT---AC-ATTACCCAG-------ACTG-CAACTATT--TA--TGT---------ATTAACAA------T-ATAC---TTATTAGAAG-CTTGATCTAT--ACGATAAA----TACATGCATT---ACATTGC----ATAG--TATA-AGCATGGGTATGATTTTC--AATA----TGTTGTCTGG-AAA--A----ATAGC------TAAC---CATTAGGATCTTTAATAT
gi|21 : CACGGTGTGGAATGGGGACGGACTATCGAT---------------G--------TTTTTATTGCGCGTTT-CCAGACTAAGCGTG--CTCAGCAAtgtatg
gi|22 : tCGGTGTGGAATGGGGACGGATTATCCGT---------------GGTT-----TTTTTTTTGCGCGTTT-CCAGACTAAGCGTG--TTCAGCAACtcata
gi|23 : AGAAA--G-AA-AACG-TTGT---G-GTTGAACAGG--CCAAGG-A----GAAGAAA---------AAT----TACCA-TT--ACGATAGTAT--ATtg
gi|25 : ATCATTTT-C-ACG-GAATAT-CGTAATAT-CCCATCATGAG-ATAGTAt
gi|3 : CTGT--TT----------GTGTGCTCTG-T---AAT-TGGTTC----AAATTTTTGGCACC-------------GGAC--------TATTT---------GTG-TTTA------TA------ATAT-GTATTTTGTA---TTGCATATAG--AATCA---AGAAAAA--G-AACA-CA-TTGT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------AAT---G-ACCA-TT--ACGATAG--T--ATAT-TA-TTTAGGTAC-GACTAA--T-CGG-----ACTAATACCC-A-------ACTGAC-AATATT------TGT---------TTTAACA-------T-ATAC---TTATT-GAAGCTTTGATAA--TAGCGATAAA----TACATGCATTTATACA-TGC---AATG---TATA-AGCATAG--ATGA-TTTC--AATA----TG-TGTCT-GAAAA--ATG-TACAGTG-----TAGCA--TGTT---ATCCTTGATATGCCATGTG
gi|4 : ACCA-TT--ACGATAGTAC--AC--------TGGGTAC-GACTA-T-T-CGG-----ACTAATACC-AA-------ACTGA-GAATATT--TA--TGT---------TTTAACATACACTGT-ATAC---TCATT-GAAGCCT-GATTAATTAGTGATT------TACAGGTATTTA-ACA-TTG---AA-A---TATA-AACATGG--ATGA-TTTC--AATA----TA-TGTCT-G-AAATTTT--TAAAGTA-----TAGCA--TGTT---ATCTTTGATATGCCATGTGgacaatgaaacatcaatacactctgtgcatttataattgtgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngaatttacattaaggatacagactttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnacataatcatgttacatatacttaaacgagattgtatccttgaatcatgtgtaagaacgaaaagtacatgcatattgtgtatatactttggcgtgtacagtcttctagtgaagtactttgtatcttaaattaataaacaaatagtggctattattaaaaaacaataaaaa
gi|5 : ACCA------T-ATAC---TTATT-GAAGCCTTAATAAATTAGCGATAAA----TATATGCATT---ACA-TGCAATAATA---TATA-GCCAT-G--ATGA-TTTT---ATA----TG-TGTCT---AAA--ATG-TACAGTG-----TAGC---TGTT---ATCCTTGATATG-CGTGTGgacaatataatgaaacataaatgcaaactgtgtatttataattatatacatgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntaattattgttttaacatgatacataatcatgacaatactaaacgagattgtatccttagataatgtgtaagaacggaaagtataactactatggtgtctttacaaattaattactttatttatagtgtgaaattatttcagttaatgggttgatttcctccataaaatctatgttttatattaataaacaaaattgctttaaaaagaaaacaacaaaaaggaatcctt
gi|5 : GAATACC--TA--TGT---------TTTAACAT------T-A-AC---TTAgacaatgaaacatcaatacaacactgtgcttatttataaatatacaaattctcaatgtcctatattatcaattgttttacttgataacaaagccattacgaatttaagaacagtcttttgtgacgttttgataaaagcgaagagcacttgaaagcatattttaatgatgtgaaatagtacaagaacttattaaagtgacttgaagttattgtttcaacatgaataccggtacataattcatgttacatatacttaatacgagatttgtaccctgtggaatcatgtgtaagaaacgcagaagtaacaattatcaaagtatcttttggacgtgtactgtctcgtagtgaatacctatgttttaacattaacttaaaaacacattctgaatagtaaacaaccgagaaaaaagaatcctttgggtggaagtgtctgggaagggttggaccattttatttatgtaa
gi|7 : accatatacttattgaagccttaataaattagcgataaatatatgcattacatgcaataatatatagccatgatgattttatatgtgtctaaaatgtacagtgtagctgttatccttgatatgcgtgtggacaatgaaacatcaatacaacactgtgcttatttataaatatacaaattctcaatgtcctatattatcaattgttttacttgataacaaagccattacgaatttaagaacagtcttttgtgacgttttgataaaagcgaagagcacttgaaagcatattttaatgatgtgaaatagtacaagaacttattaaagtgacttgaagttattgtttcaacatgaataccggtacataattcatgttacatatacttaatacgagatttgtaccctgtggaatcatgtgtaagaaacgcagaagtaacaattatcaaagtatcttttggacgtgtactgtctcgtagt--------TTTTTTTGGCGCGTTT-CTAGACTAAGTGTG--CTCAGCAACGGGACTTTTCGGGGTTT---AAAAACTCGGAC-AGAGACACATTATG-GACCC-A-CAGAAAGAAA--AGTCGT-A--AGTTCTGTTTTCAAATCATTTT-CAACG-G-ATAT-CGTAATAT-CC---C-TGAGCATAGTATTT------TTAACTAA-ATG-TACCAAATTTGACCCAA-AT---TCTTCAAAAAAACCTACACAAACTTT-GAAAATG-ACCGAATT------AGTCA--AATG-CCG-TCACGTA--TTTCTAGAA--ATACATCGATCATTATTATTCACTGAC-TG---TATTT---TCGTTGTTA-aaaacacattctgaatagtaaacaaccgagaaaaaagaatcctttgggtggaagtgtctgggaagggttggaccattttatttatgtaa
gi|8 : tttCTTATTCACTGAC-TG---TATTT---TCGTTGTTA-AATGATG-TAA---TATATC--GC--------TTACCTAGTAA-TCGACTCAAAGATC-ATTATCAT-ACAT-GCCTT----GTTTTTTGGGGTTT-TTTTTGGAAAATGTTGA-TTTATCGT---AAACC----CTTGGCAAC-GGACTTT--TT----------GTGTGCTCT-GT---AAT-TGGTAC----AAACTTTTGGCACC-------------GGAC--------TATTT---------GTG-TTTA------TA------ATAT-GTATTTTGTA---TTGC----AG--AATCA---AGAGAAA--GAAA-A-CA-TTAT---G-GTTGAACAGG--CCAAAG-A----GAAGAAA---------A
6 sequences could not be aligned to this reference sequence:
Unaligned ( gi|6 ): TAATTATATAATTTCAATGTCTTATATTACAATTGTTTTATTGGAGTAAAAGAATTTACATTAAGAATGCAGACTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCATGTTACATATACTTAAACGAGATTGTATCCTTGGATCATGTGTAATCTTGAACGGAAAGTACATGGATATACATGTATACTTTGGCGTGTAAAGTCTTCTAGTGAATACTTGTTTTATATTA
Unaligned ( gi|9 ): AGTTATTGTTTAAACATGATACCGGTACATAATCATGTTACACATACTTAAACGACATTGTATCCTTGGATCATGTGTAAGAACGGAAAGTACATGTATATAAACTTTGGCGTGTACAGTCTTCTAGAGAATACTTGTAATGTTTTATATTAATAAACAAATTGCTATTAAAAAAAACAACAAAAAGGAATCCTTTGGTGAAGGCCTGGGAAGGTTGGACAAATTTGTTTATGTAAA
Unaligned ( gi|11 ): AGTAATTGTTAACACATGATACGGTACATAATCTGTTACACATACTTAAACGACATTGTATCCTTTGAATCATGTGTAAGAAGAAAGTACATGTATATAAACTTGGCGTGTACAGTCTTCTAGAGAATCTTGTAATTGTTTATATTAATAAAACAAATTGCTATAAAAAAAACAACAAAAAGGAATCCTTTGGTGAAGGCCTGGAAGGTTTGGACAAATTTGTTTATGTA
Unaligned ( gi|19 ): TAATTATTGTTTTAACATAATACATATTACATAATCATGTTACATACATGTATACTAAAAGAGATTGTATCCTTTGATCATGTGTAAGAACGGAAAATATATATCAATAAAC
Unaligned ( gi|20 ): AATGAGCTGATATCCTCCATAAAATCTATGTTTGATATGAATAAACAAATTGCTATAAAAAACAACAACAAAAAATCCTTTGATGAGGCCTGGGAAGGATGGACA
Unaligned ( gi|24 ): TTCTAGTGAATACTTGTTTTATATTAATAAAAACAAATTGCTATATTAAAAAAAAAACA