lowQualScore : 11111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111 11111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111 11111111111111111111111111111111111111111111111111111111111111111111111111111111 11111111 11111111111111111111111111111111111111111111111111 1111111111111111111111111111111111111111111111111111111111111111111111111111111
lowQualScore : 3333 44444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444 11111111 1 4444444444444444444444444444444 11 111 11111111111111111111 6666666666666666666666666666666666 111111111 55555555555555555555555555555555555555555555555555555555555555555555555555555555555555 11 1111111 22222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222 11111 222 2222222 11 22222 55555555555555 8888888888888888888888888888 11111111 1 11 111 111 22222222222222222222222222222222222222222222222222222222222222222222222222222222 1 1 11 1 11 44444444 1 1 00000000000000000000000000000000000000000000000000 11111 8888888888888888888888888888888888888888888888888888888888888888888888888888888 1 1 999999
lowQualScore : 3 1 5555 5 77 88888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888888 5 3 22222222 0 3 4444444444444444444444444444444 00 666 4 4 77777777777777777777 555 6666666666666666666666666666666666 222222222 3 3 99 5 77777777777777777777777777777777777777777777777777777777777777777777777777777777777777 1 4 55 66 55 3333333 4 4 44444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444444 2 11111 4 222 77 1111111 0 33 66 6 6 6 88888 6 6 2 22222222222222 7 2222222222222222222222222222 5 88 77 5 1 88888888 0 66 00 5 888 3 000 11111111111111111111111111111111111111111111111111111111111111111111111111111111 3 6 7 3 6 7 00 5 22 6 55555555 5 7 6 6 55555555555555555555555555555555555555555555555555 2 88888 6 3333333333333333333333333333333333333333333333333333333333333333333333333333333 6 5 5 111111 6
lowQualScore : . . .... . .. .................................................................................................................................................................................................................... . . ........ . . ............................... .. ... . . .................... ... .................................. ......... . . .. . ...................................................................................... . . .. .. .. ....... . . ................................................................................................................................... . ..... . ... .. ....... . .. .. . . . ..... . . . .............. . ............................ . .. .. . . ........ . .. .. . ... . ... ................................................................................ . . . . . . .. . .. . ........ . . . . .................................................. . ..... . ............................................................................... . . . ...... .
lowQualScore : 0 0 8888 1 11 55555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555 0 6 11111111 1 6 8888888888888888888888888888888 66 222 0 0 99999999999999999999 444 3333333333333333333333333333333333 333333333 1 1 22 5 33333333333333333333333333333333333333333333333333333333333333333333333333333333333333 6 0 55 22 55 0000000 0 4 55555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555 3 88888 4 111 99 7777777 3 22 33 7 7 7 11111 7 7 5 33333333333333 5 5555555555555555555555555555 7 44 99 7 4 11111111 6 99 11 7 333 8 555 22222222222222222222222222222222222222222222222222222222222222222222222222222222 3 7 3 0 0 0 00 0 00 0 00000000 0 0 0 0 00000000000000000000000000000000000000000000000000 2 22222 7 3333333333333333333333333333333333333333333333333333333333333333333333333333333 0 0 0 000000 0
consensus : NNNNNNNNNNTATANTGGAGATTC--AAGTTTGTTCAAAT-CATGG--------------CCCC-CGG----GGAT--AGT----GGGC-C-NCAA-TA--GGGATCA-AGT--TTTACATGC-GA--TGTA--GGGAAAATCTT--TAA-A-A-TCT--TCT--C--CAAGAACCACT-G-G---C--CAGAAAAGT-TGA--AATTTAT-A----T---A--A-AGC-TTC--CCT-GA-TAT-AGTGN-------A-GATTCAA-GTTTG--------TTCAAAT-CATGGCC---------------CC--GGG---GGTA-NGATG--GGGCC-N-CAA-TA-GGGG--------ATCA-AAGT--TT-T-ACATG-CGA---TTATATAGGGAA-A-T---TT------TCT---------TCT-C-AAGAAC--CATT----G--C--CAGAAAAGNTGGA-AT-T-T-----A-TA------TGA-A-AGC-TT--TCC---------TGATA-T-----AG-TGGA-GA--TTC-AAG--T-------TTGTTCAAAT-CAT-GG------------CC-CCCGG-GGT-AACGATG-GG----------GC--C--N-C--T-----A--GGGGATCA--A---G-T----------------TTTACATGCGAT----TATA-T--GGAAA--ATCTTTANAAATCTTCTTCTC-AAG-A-CCACTGG--GCCAGA-------AAAGTTGAAATTTATN-TG-AA-AGCT-TC-NTGATA-TAG-TGGAGAT-TNAA--G-----TTTGTTCAAAT----CATG--N--------------C--C-CCG-G--G-GTA--G--TG-TGGGGCCAC--AATAG-GGGAT-CAA-NATTTTACATGCAAATATATAGGGAA-TTCCT-TNNAA-AATCTTCT------C------CATT--GGACCANAAGAGC---G---AT---------T--TNTG--AA-AGCTTCCTGATATGGAGNAGATTCAAGTTTGTNCAGATCATGTCCTCCC--------AGTGTAGGGTAGGGCCACATTG---TAAATTCCCAATCTTCTGC-CTTTCTATGTGNGTA---GCT--C-CTCAGGTGAGCGATGTGGCCCATGGGCCTCTTGTT---ATTA-AT---T---ACGA-GTAA-CAATAA-AA-----TTT--AACA-TTAATTATAA-----TAATTTTAATA-GT-ATAAATTCAAAGTTTGAACATTCTTTTG-TGAATTAGTACTG
Reference ( gi|1 ) : CAAGATGCATTATATTAGAGAT-C--AAGTTTGTTCAAAT-CATGA--------------CCCC-TGG----GGATCCAAT----GGGC-C-CCGA-TA--GGGATTATAGT--TTTACATAT-GA--TATATGGGGAAAATCTT--TAA-A-A-TCT--TCT--C--CAAGAACAACT-G-G---C--CAGAAAAGC-TGA--AATTCAT-A----T---A--A-AGC-TTC--CCT-GA-TAT-A-TGC-------A-GATTCAA-GTTTG--------TTCATAT-CATGACC---------------CC--GGG---AGTA-CGATG--GGGCC-C-CAA-TA-GGGG--------ATCA-AAGT--TT-T-ACATA-TGA---TTATATAGGGAA-A-T---TT------TCT---------TCT-C-AAGAAC--CACT----G--C--CAGAGAAGCTGGA-AT-T-T-----A-TA------TGA-A-AGC-TT--TCC---------TGATA-T-----AG-TGGA-GA--TTC-CAG--T-------TTGTTCAAAT-CAT-GA------------CC-CTCGG-GGTTAACGATG-GG----------GC--C--C-C--T-----A--GGGGATTA--A---G-T----------------TTTACATATGAT----TATA-TA-GGAAA--ATCTTTATAAATCTTCTTCTC-AAG-A-CCACTGG--GCCAGA-------AAAGCTGAAATTTATA-TG-AA-AGCT-TC-CTG-TA-TAG-TGAAGA--TGAA--T-----TTTGTCCAAAT----C--G--A--------------C--C-CCG-G--G-GTA--A--TG-TGGGACCAC--AATAA-GGGAT-CAA-TATTTTACATGCAAATATATAGGGAAATTCTT-TTTAA-AATCTTCT------T------CATT--GAAC--GACGAGT---G---AT---------T--CCTG--AA-AGCTTCCTGATATGGAGTAGATTTATGTTTGTTTAGATAATACCTTCCCACACTCCGAGGGTTGGGTGGGGTCACATAGGATTAAAGTGCTA--CTACTGCGCTTTCTTTGTGAGTA---GTT--T-CTCAGGTGAGCGATGTGGCCCATGGACCTCTTGTT---ATTA-AT---T---ACTA-GTAATCAATAA-AA-----TTT--GACA-CTAATTATAGTTTTCTAATCCTTATATGTGACAAAT--AAGGTTTGAAAATTATTTTGCTG---TAGTATTGT
gi|2 : TATAGTGGAGATTC--AAGTTTGTTCAAAT-CATGA--------------CCCCATGGGTA-GGAT----G----GGGC-C-ACAA-TAG-GGGATGAAATT--TTTACATGCAAA--TATAAAGGGAAAATC----TAATA-A-TCT--TCT-----CAAGTACCATT-GAA---C--CAGAAGAGT-GGA--TATTTAT-C----TG--A--A-AGC-TT---CCT-CA-TATGA-AGT-------A-AATTCAA-GTTTG--------TACAGAT-CATGTCCT--------------CC--CAG---TGTA-GGGTA--GGGCC-A-CAA-AA-GGGG--------GCCA-GAAT--TT-G-ATATA-GGT---TTATATTGGGAA-C-TGTCTTAAAAAATCT---------TCT-C-ATCAAG--GACT----G--C--AAGTGCA----GA-GT-T-TGTCAAA-TAAAAACGTGG-A-AGC-CA--TCA---------TTGTA-T-----TG-TGAA-GA--TTC-AAGTTT-------TTGTTCAAAT-GGTGGG------------CC-CCCAG-GGTCAG-GATG-GGCCACAACTCTGG--C--C-C--T-----A--ATGACTTATTA---G-TTAAACAATCTAAATGATTTAGACATGATCCACTATG-T----AAA--ATTTTAAAAAA---TCTTCTC-AAG-A-
gi|14 : tttagcttcgacacctgaaccgaaggttcaagtgagctttttctgatctgccgttgtcatccgtctgtctgtaactttcacattttttgacttctccagaaccgcctctgccaaatttaacatattttggttacaaaatcaatcttgggtgaaggggatacaagttagttcaaatgaagaaccaggtccccatcaaaggcggagactaattcatgaaaatgcaaaaataaagtggtgtcatttaaaaatcttctcaacaagaaccattgggccagaaaagctgaaatttatatgaaagcttcctgaATTGTAGATTC--AAGTTTGTTCACA--CATGA---------------TCT-TGG----AGGTCGA-------GGCAC-TCCA-TA--AGGATTAaacattgagag
gi|6 : atatttgacatttattttaaagaacaagaaagttgaaatactagtattttggtgTAGAGAT-TTAAAGTTTCTTCAAATGCATGACCACCCCACCCCCCCCCC-CGGTTA-GGAT---GT----GTCC-A-CCAAGTAAGGGGATCA-AGTCATTTACATGC-AA--TA------------CTT----------TCT--TCT--C--TAAGAATCATT-GAA---C--CAGAATGAT-GGA--TATTTAT-C----TTG-A--ATAGC-TT----CT-GA-T-----TGG-------ATAATTCAA-a
gi|17 : tgatgtctaaaaagaactttatctcaggaaccactggaggccagaaaagttgaaatatattgaaaaggttcatattactagc--AAGTTTATTCG------TGG--------------CCCC-AGAT---GGATGT--T----GGGC-C-TCAA-TA--GGGATCATAA---TTTACAT--------------GGAAA---TT--TGC-ATA-TTT--TCTTAT--CAAGAACactatgaagatcacgctcccag
gi|16 : tgaggatttcagcaagtAGTTTGTTCATAT-CATGG--------------TTC--TGG----G--TCCAAT----A-------CGA-T----TGATT-T-GT--GTTACATG--GAAGTGTACTGGGAAAATCTC--TAA-T-A-TCT--TCT--T------GACAG-T-G-G---CAGCAGAAc
gi|4 : ttgTTGTTCAAAT-CATGG--------------CCCC-AAG----GGA---AATGATGGGGC-C-GCAG-TA--GAGA--A-AGT--TTAACATAT--A--TG-ATG-----AATTTTTGTAA-A-A-CATAATCT-----GAAGAACAGC---------------AATGCATGATTAA-TCATAA----T---GATA-AGCATTCATCCT-CAGGAA-G-TGT-------A-GATTTAA-GTTTC--------TTCAAAT-
gi|5 : attcaaatttgatgacacatgcacatcaaacgtttgaactagatgaggcctcgatggggagtatggaaattaatttgtacatatatttatgtattttttttcttcaagttcttcattgtcttaatttgtatagcttatccacgtgctatcgatatttacaagatagataatttacaatatataaaTTCAAAT-CATGA--------------CCTC-CGGGGTAGGGT---GT----GGGC-CAACAA-TAG-GGGATCAAAGG--TTTA
gi|14 : agtgagtgaccagtgactatgtatagttttcacctgagctgaaagctcttgaaagtgagcatttctaagcacctgttgtctgtcgtttgactttttctccagaaccacggtaccaaatttaagcaaacttggtacaaattatcctagggtgaaggggattgaagttttttaaaataaaggaccagacccctttcaaaggggaggtaatcacgaaaatgcaataaagggttatgtcatttaaaggcagctggagaATATT--TGA-C-A-TTTA-TTT--T--AAAGAACAA---------------GAAAGT-TGA--AATAC--------T---A--G-TAT-TTT--GGT-GA-T-----TGT-------A-GATTCAA-GTTTG--------TTCACA--CATGATC---------------TT--GGA---GGT--CGA-G--GCACT-C-C-A-TA--AGG--------ATTA-A
gi|2 : TT--TAA-A-AATCT--TCT--CAACAAGAACCATT-G-GG--C--CAGAAAAGC-TGA--AATTTAT-A----TG--A--A-AGC-TTC--C-T-GA-TAT-AGTGG-------A-GATTCAA-GTTTG--------TTCAAAT-CATGACC---------------CC--ATG---GGTA-GGATG--GGGCC-A-CAA-TA-GGGG--------ATGA-AATT--TT-T-ACATG-CAA---ATATAAAGGGAA-AAT---CTAATAA-TCT---------TCT-C-AAGTAC--CATT----GAAC--CAGAAGAG-TGGATAT-T-T-----A-TC------TGA-A-AGC-TT---CC---------TCATA-TGA---AG-T--A-AA--TTC-AAG--T-------TTGTACAGAT-CAT-GT------------CCTCCCAG-TGT--AGGGTA-GG----------GC--C--A-C--A-----AAAGGGGGCCAG-A---A-T----------------TTGATATAGGTT----TATA-TT-GGGAACTGTCTTAAAAAATCTTCTCATC-AAGGA-CTGCAAG--TGCAGAGTTTGTCAAA--TAAAA---ACG-TG-GA-AGCCATCATTG-TA-TTG-TGAAGAT-TCAAGTT-----TTTGTTCAAATGGTGG--G--C--------------C--C-CCA-G--G-GTC--A--GGATGGG-CCAC--AA
gi|18 : tttagcttcgacacctgaaccgaaggttcaagtgagctttttctgatctgccgttgtcatccgtctgtctgtaactttcacattttttgacttctccagaaccgcctctgccaaatttaacatattttggttacaaaatcaatcttgggtgaaggggatacaagttagttcaaatgaagaaccaggtccccatcaaaggcggagactaattcatgaaaatgcaaaaataaagtggtgtcaTT--TAA-A-AATCT--TCT-----CAAGAACCACTGG-G---C--CAGAAGAGC-TAA--AATTTAT-A----TA--A--A-AGC-TT---CAT-GA-CAT-AGTGG-------A-GATTCAA-GTTTG--------TTctctggccctaatgacttattagttaaacaatctaaatgatttagacatgatccactatgtaaaattttaaaaaatcttctcaagaaacattgagag
gi|6 : gAG-A-A-CTT--TAT--CT-CAGGAACCACT-G-GAGGC--CAGAAAAGT-TGA--AAT--AT-A----TTGAA--A-AGG-TTC-------A-TAT---TACTAGCTAGA-GATTTAAAGTTTC--------TTCAAATGCATGACCACCCCACCCCCCCCCCC--GGT-----TA-GGATG--TGTCCAC-CAAGTAAGGGG--------ATC--AAGTCATT-T-ACATG-CAA---T------------A-C---TT------TCT---------TCT-CTAAGAAT--CATT----GAAC--CAGA-ATGATGGATAT-T-T-----A-TCT-----TGA-ATAGC-TT----C---------TGAT-----------TGGATAA--TTC-acagtctatc
gi|13 : tgatgtctaaaaGAAAGTT-TGA--AAATGAT-AAGCAT---A--C-AGT-CAC--CCTCGG-T-T-AGTGC-------A-GACACAA-GTT-G--------TTTAAAT-CATTGTA---------------CT--GGG---AGGAATGGTG--GGACA-A-CAA-TA-AGGG--------ATCA-GCAT--TT-T-ACATaaactatgaagatcacgctcccag
gi|4 : ATTCAA-ATTTGATGACACATGCACAT-CA-AACG---------------TT--TGA---ACTA--GATG--AGGCC-T-CGA-TG-GGGAGTATGGAAATTA-A--T--TTGT-ACATA-TAT---TTATGTAT-------T---TT------TTT---------TCTTC-AAGTTCTTCATT----G--T--C-------TT--A-AT-T-T-----G-TA------T-----AGC-TTA-TCCACGTGCTATCGATA-TTTACAAGATAGA-TAATTTA-CAA--TATATAAATTGTTCAAAT-CAT-GG------------CC-C-CAA-GGGAAATGATG-GG----------GC--C--G-CAGT-----A--GAGA---A--A---G-T----------------TTAACATAT-AT----GAT--------GA--ATTTTTGTAAAACATAATCTG-AAG-A-ACA
gi|17 : CAA-GTAAG--------TTTAT-T-CGTGGCC---------------CC--AGA---TG----GATGTTGGGCC-T-CAA-TA-GGG---------ATCATAA----TT-T-ACATG--GAAATTTGCATA--------T---TT------TCT---------TAT-C-AAGAAC--Cgcaatgcatgattaatcataatgataagcattcatcctcaggaagtgtagatttaagtttcttcaaat
gi|16 : tgaggatttcagA-GTTTG--------TTCATAT-CATGGTT---------------CT--GGGTCCAATA-CGAT
gi|4 : ttgTTG--------TTCAAAT-CATGGCC---------------CCAAGGG---AA-A-TGATG--GGGCC-G-CAG-TA-GAG------------A-AAGT--TT-A-ACATA-T-A---TGAT-----GAA-T-T---TT------TGTAAAACATAATCT-G-AAGAACAGCAAT----G--C--ATGA----TT--A-AT-CAT-----A--A------TGATA-AGCATTCATCC---------TCAGG-A-----AG-TGTA-GA--TTT-AAG--T-------TTCTTCAAAT-tgatttgtgttacatggaagtgtactgggaaaatctctaatatcttcttgacagtggcagcagaa
gi|5 : attcaaatttgatgacacatgcacatcaaacgtttgaactagatgaggcctcgatggggagtatggaaattaatttgtacatatatttatgtattttttttcttcaagttcttcattgtcttaatttgtatagcttatccacgtgctatcgatatttacaagatagataatttacaatatataaa--------TTCAAAT-CATGACC---------------TC--CGG---GGTA-GGGTGT-GGGCC-AACAA-TA-GGGG--------ATCA-AAGG--TT-T-A
gi|7 : agtgagtgaccagtgactatgtatagttttcacctgagctgaaagctcttgaaagtgagcatttctaagcacctgttgtctgtcgtttgactttttctccagaaccacggtaccaaatttaagcaaacttggtacaaattatcctagggtgaaggggattgaagttttttaaaataaaggaccagacccctttcaaaggggaggtaatcacgaaaatgcaataaagggttatgtcatttaaaggcagctggagaGGCC-A-TAA-TA-GGGG-------------GAGT--TT-TGATATACTGGTT-TTTTATTGGGAA-A-TA--TA------TCT---------TTT-T-AAAA
gi|38 : tcttaagttgcagttgataaaagtagaatttagtagcatccttcacgggactatgtagtataaagaactgtttgagagaccgacatgcgcccagagttgtagggtaAGGGAACA-T------------CT---------TCT-C-AAGAAC--CATT----G--CATCAGA-AGGGTGGcatcgtcccccttctgactgcaagtgctgagtttgctaagtaacatagaagcatcgt
gi|35 : aaGGAAA-A-T---CG------TCT---------TCT-C-AAAAAC--CATTAC--A--C--CAGA-AGGGTGGgt
gi|2 : agAA-A-T---CT------TCT---------CAA-C-AAGAAC--CATT----GGGC--CAGAAAAGCTGAA-AT-T-T-----A-TA------TGA-A-AGC-TT---CC---------TGATA-T-----AG-TGGA-GA--TTC-AAG--T-------TTGTTCAAAT-CAT-GA------------CC-CCATG-GGT--AGGATG-GG----------GC--C--A-CAAT-----A--GGGGATGA--A---ATT----------------TTTACATGCAAA----TATA-AAGGGAAA--ATC-TAATAA----TCTTCTC-AAGTA-CCATTGA--ACCAGA-------AGAGTGGATATTTATC-TG-AA-AGCT-TC-CT--CA-TA--TGAAG---TAAA--TTCAAGTTTGTACAGAT----CATG--T--------------CCTC-CCA-G--T-GTA--G--GG-TAGGGCCAC--AAAAG-GGGGC-CAG-AATTTGATATAGGTTTATATTGGGAACTGTCT-TAAAA-AATCTTC-------T------CATCAAGGAC--TGCAAGT---G---gtat
gi|14 : tttagcttcgacacctgaaccgaaggttcaagtgagctttttctgatctgccgttgtcatccgtctgtctgtaactttcacattttttgacttctccagaaccgcctctgccaaatttaacatattttggttacaaaatcaatcttgggtgaaggggatacaagttagttcaaatgaagaaccaggtccccatcaaaggcggagactaattcatgaaaatgcaaaaataaagtggtgtcatttaa---TT------TAT---------TTT-A-AAGAAC---A-------------AGA-AAGTTGAA-ATAC-T-----AGTA------T---------TT--TGG---------TGAT-----------TGTA-GA--TTC-AAG--T-------TTGTTCACA--CAT-GA------------TC-TTGGA-GGT---CGA-G-GC----------AC--T--C-CA-T-----A---AGGATTA--A---cagagtttgtcaaataaaaacgtggaagccatcattgtattgtgaagattcaagtttttgttcaaatggtgggcccccagggtcaggatgggccacaactctggccctaatgacttattagttaaacaatctaaatgatttagacatgatccactatgtaaaattttaaaaaatcttctcaagaaacattgagag
gi|18 : atatttgaca------TCT---------TCT-C-AAGAAC--CACT----GGGC--CAGAAGAGCTAAA-AT-T-T-----A-TA------TAA-A-AGC-TT---CA---------TGACA-T-----AG-TGGA-GA--TTC-AAG--T-------TTGTT
gi|6 : gtttaaaaa---------TCT-C-AGGAAC--CACTGGAGG--C--CAGAAAAGTTGAA-AT-A-T-----A-T-------TGA-A-AAG-GT--TCA---------TATTACT-----AGCTAGA-GA--TTTAAAG--T-------TTCTTCAAATGCAT-GACCACCCCACCCCCC-CCCCC-GGTTAG-GATG-TG----------TC--C--A-C--CAAGTAA--GGGGATCA--A---G-TCA--------------TTTACATGCAAT-----------------------------ACTTTCTTCTCTAAGAA-TCATTGA--ACCAGA-------ATGATGGATATTTATCTTG-AATAGCT-TC-acagtctatc
gi|13 : tgatgtctaaaaagaacttta-T-----AG-TGCA-GA--CAC-AAG--T-------T-GTTTAAAT-CAT-TG------------TA-CTGGGAGG--AATGGTG-GG----------ACAAC--A-A--T-----A--AGGGATCA--GC--A-T----------------TTTACATtgattggataattcaaactatgaagatcacgctcccag
gi|16 : gaaagtttgaaaatgataagcatacagtcaccctcggtAG--T-------TTGTTCATAT-CAT-GG------------TT-CT--G-GGTC--CAATA----------------------C--------------GATTG--ATTTG-T----------------GTTACATGGAAG----TGTACTG-GGAAA--ATCTCTA-ATATCTTCTT
gi|5 : ttgTTCAAAT-CAT-GA------------CC-TCCGG-GGT--AGGGTGTGG----------GC--CAACAA--T-----A--GGGGATCA--AAG-G-T----------------TTgacagtggcagcagaa
gi|2 : agtgagtgaccagtgactatgtatagttttcacctgagctgaaagctcttgaaagtgagcatttctaagcacctgttgtctgtcgtttgactttttctccagaaccacggtaccaaatttaagcaaacttggtacaaattatcctagggtgaaggggattgaagttttttaaaataaaggaccagacccctttcaaaggggaggtaatcacgaaaatgcaataaagggttatgtcatttaaaggcagctggagaTTTAAAAATCTTCTCAAC-AAG-AACCATTGG--GCCAGA-------AAAGCTGAAATTTATA-TG-AA-AGCT-TC-CTGATA-TAG-TGGAGAT-TCAA--G-----TTTGTTCAAAT----CATG--A--------------C--C-CCATG--G-GTA--G--GA-TGGGGCCAC--AATAG-GGGAT-GAA-ATTTTTACATGCAAATATAAAGGGAAAATC-----TAATAATCTTCTCAAGTAC------CATT--GAACCAGAAGAGT---GGATAT---------TTATCTG--AA-AGCTTCCTCATATGAAGTAAATTCAAGTTTGTACAGATCATGTCCTCCC--------AGTGTAGGGTAGGGCCACAa
gi|18 : tttagcttcgacacctgaaccgaaggttcaagtgagctttttctgatctgccgttgtcatccgtctgtctgtaactttcacattttttgacttctccagaaccgcctctgccaaatttaacatattttggttacaaaatcaatcttgggtgaaggggatacaagttagttcaaatgaagaaccaggtccccatcaaaggcggagactaattcatgaaaatgcaaaaataaagtggtgtcaTTTAAAAATCTTCT---C-AAG-AACCACTGG--GCCAGA-------AGAGCTAAAATTTATA-TA-AA-AGCT-TC-ATGACA-TAG-TGGAGAT-TCAA--G-----TTTGTaaagggggccagaatttgatataggtttatattgggaactgtcttaaaaaatcttctcatcaaggactgcaagtgcagagtttgtcaaataaaaacgtggaagccatcattgtattgtgaagattcaagtttttgttcaaatggtgggcccccagggtcaggatgggccacaactctggccctaatgacttattagttaaacaatctaaatgatttagacatgatccactatgtaaaattttaaaaaatcttctcaagaaacattgagag
gi|3 : gTTTGTA---CTTCTTCTC-CAG-ATCCACTGG--GCCAtacagtctatc
gi|6 : atgacccccacttatcgtacatggttaccagtcttattttcttattgatgaatgttcattgaaggtattggaagatgacagaggttaactctagtccatacctttgaatagtggcacattgtaaatcctaaacttctgttcttctcaatgaagcaaaatgttcaggtgagcgatgtggcccgtcagcctcttgttagcttacctgagctgaaaattcaagtgagctattctgatcacccgttgtctgtctgtctgtaaactttcacatCTTTATCTC-AGG-AACCACTGGAGGCCAGA-------AAAGTTGAAATATAT--TGAAA-AGGT-TC-ATATTACTAGCTAGAGATTTAAA--G-----TTTCTTCAAATGCA-T--G--ACCACCCCACCCCCCC--C-CCC-G--G-TTAGGA--TG-TGT--CCACCAAGTAAGGGGAT-CAAGTCATTTACATGC-AATAC-T-------TTCTTCTCTAAGAA------------T------CATT--GAAC--CA-GAAT---G---ATGGATATTTAT--CTTG--AATAGCTT-CTGAT-TGGAatttcaataaaccttggttcactacatcttggatgaaaggaattcaagtttattcaaatgaagagctatgcccttgccaaaggcataaataaaaggcataaatagggt
gi|13 : tgatgtctaaaaagaa-TAG-TGCAGA--CACA--A-----GTTGTTTAAAT----C--ATTG--------------T--A-CTG-G--GAGGA--A--TGGTGGGACAAC--AATAA-GGGAT-CAG-CATTTTACATtaattcaaactatgaagatcacgctcccag
gi|5 : gaaagtttgaaaatgataagcatacagtcaccctcggtTTCAAAT----CATG--A--------------C--CTCCG-G--G-GTA--GGGTG-TGGGCCAAC--AATAG-GGGAT-CAA-
gi|17 : agtgagtgaccagtgactatgtatagttttcacctgagctgaaagctcttgaaagtgagcatttctaagcacctgttgtctgtcgtttgactttttctccagaaccacggtaccaaatttaagcaaacttggtacaaattatcctagggtgaaggggattgaagttttttaaaataaaggaccagacccctttcaaaggggaggtaatcacgaaaatgcaataaagggttatgtcatttaaaggcagctggaga--G--G--------------C--C-CCA-GATG-G----A--TG-TTGGGCCTC--AATA--GGGAT-CA--TAATTTACATGGAAATaggttta
gi|11 : tgaggatttcagcaagtaagtttattcgtGGCCAC--AATAA-GGAATGTAA--ATTGTCCATGCAAATATATAGGGttgcatattttcttatcaagaacc
gi|18 : caatgaagaaacattgggccagaaatttcagtcttttacggttgtagaattatgagtgtaaaattgatggccttcttacatgtagtaggtttaT-TTAAA-AATCTTCT------CAAGAACCACT--GGGCCAGAAGAGCTAAA---AT---------T--TATATAAA-AGCTTCATGACATAGTGGAGATTCAAGTTTGTT
gi|8 : gCACATTG---TAAATTCCCAATCTTCTGC-CTTTCTATG-AAGCAAATGCT--C-TTCAGGTGAGGGATTTGGCCCATGGGCCTCTTGTacagtctatc
gi|10 : cctccatctattggtaccattggctctctgtctttttttcttttcttattttaattttattattcatttatgggtattggagataacagagggttaactttaacctaccttttgaatagtagTATGGGTA----------CTTAAGTGAGCAGTGTGGCCCACCGACCTCTTGT-----CTG-ATGGAT---ACGA-GTGA-CAATAA-AACAGACTTT--AACA--GAGTGAAAA-----TAATTTTAATA-GT-ATAAATTCAAAGTTTGAACATTCTTTTG-TGAATTAGTACTGct
gi|24 : GTGTGTA---GCTGCTGCTCAGGCGAGCCGTGTGGCCTATGGACTGCTTGT-----TCA-AT---C---ATCA-G-AAACAATAATTA-----TTT--A--A-TTAAGTATA
gi|41 : -CTCAGGTGAGCGATGTGGCCCATGGATCTCT
gi|3 : TCAGGTGAGCGATGTGGCCCGTCAGCCTCTTGTT---Aa
gi|27 : atgacccccacttatcgtacatggttaccagtcttattttcttattgatgaatgttcattgaaggtattggaagatgacagaggttaactctagtccatacctttgaatagtggcacattgtaaatcctaaacttctgttcttctcaatgaagcaaaatgtAGGTGAGTGATGTGGCCCATGGTCCTCTTG-T---ATTATGT---T---GCAA-ATAA--ATTGA-AA-----TGTACAACAGTTGATTATgcttacctgagctgaaaattcaagtgagctattctgatcacccgttgtctgtctgtctgtaaactttcacattttgtacttcttctccagatccactgggccaatttcaataaaccttggttcactacatcttggatgaaaggaattcaagtttattcaaatgaagagctatgcccttgccaaaggcataaataaaaggcataaatagggt
gi|40 : GGTGAGCGATGTGGTCCATGGGCTTCTTG-T---ATTA-
gi|39 : GCTATGTGGCCCATGGGCCTCTTGTTAGCATTG-GT---T---ACtgt
gi|34 : GATGTGGCCCATGGGCCTCTTGTT---ATTA-ATA--TAAAATTAGGTAATGAAT
18 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|9 ): TATCCGTGAACCCCAACCTATCATATGTGGTCTCGTCTATTCTTATCATTGATGAAATGTTCAGTTATGCATTAAAAAATGCAGAAATTAAACTTTTAGTACCATACCTCTGAATATGAACATTGTAAATCCCAACCTTAGTACTTCTCTATAAG
Unaligned ( gi|12 ): AAGCAAAACATGTACAATTGAATATTTCACCTGGCACGCAATTTTATTGGCCGACGTTGAGTTGAAAGGCCAAGTGAACTATTCTGGTCAAAATATCAGTATGTCCGTTTGGAAATTTTT
Unaligned ( gi|15 ): AGTGCAGAGTCTTATCAAATAAAGACTGGAGAGCAATCATTGTAATAGTAGAAAATCTAAGTTTGAACTCACAAGGGGGCGATTCGGCCCTGCGGTCAGGACGGGCGGCACA
Unaligned ( gi|19 ): TTTTAGTTTTACACGATTACTTATAAGTTCAGGTGAGCTTTTTTTGATCACCATTTGTCCAGTGTTGTATGTACAACATTTTTTTACTTCTCCAG
Unaligned ( gi|20 ): AAAGTTTGAGGTTTATTTGGGGAATTCAAACTATGTTTAAAAAAAGGCTTCTTCTGCAGAGTTTGTCAAATATTAACATGGAAGCATCATTGT
Unaligned ( gi|21 ): TTTTTAGTTTACCTGAGCTATAAAGTTCAAGTGAATTTTCTTATCACCTGTTCTCCATAGACTTTCCACATTATTGCTATTAGTTTTT
Unaligned ( gi|22 ): TCAAGATGACAGAGAATGATGTAGTCCATACCTTTAACATATTGGCACATTGAAATCTCGACTTTTGCATTCCTATGAAGCGAAGTG
Unaligned ( gi|23 ): CCTTTTGAATATGTTGAGCACATGTAAATCAAAACTCTCTATGAAGCAAGGTCAGGTGAGCAAATGTGGCTGTAAGTGGCCTCTTG
Unaligned ( gi|25 ): TTTTTAGCTCACCTGAGCTACATGTGTATAAACTCAAGGGAGCTTTCTGAAAGCCTGTTGTCTTTCAGACCGTAAACTT
Unaligned ( gi|26 ): CTTAATGATTCACCGAATCAAGTATGTGGTCCACGACACATCTTGTTAGCTCACCTGAACCGACGGTTCAAGTGAG
Unaligned ( gi|28 ): CTCATCTGAGCTATAAGCTCATGTTAGCTTTTCTGATCACCCACTGCTTACAATCTCTTCGTAAACTT
Unaligned ( gi|29 ): TTTAAAAATCTTGTCAAGAACCATCAGGACAGAAAGGACAAAACTTGATTTAAAAATTATTCATG
Unaligned ( gi|30 ): TGAATATAACTCCATTGATCTTTCCTGATCACCCATACTCTGTCTGTCTGTAAACTTTACATATT
Unaligned ( gi|31 ): ATTATTGTAGAGTATAGATTCATTTTTTTTAAATGGTGGTCCCCGGGGTCAAGATGG
Unaligned ( gi|32 ): TAGTTTCACCTGAGCTGAAAGTCAAGAGAGCTATTTGATAAAAATTGTCCGGTTG
Unaligned ( gi|33 ): AAGAACTGCAAGTGCAGAGTTTGTCAAGTATTGACAAGTAACCATCATGGT
Unaligned ( gi|36 ): TTAAGAACGGAAATTGTTTGTAGCTCACCTGAACCAAAGGTTTAAGT
Unaligned ( gi|37 ): GGGGGTAAACAAAACTAGTTCAAATGAAGGACCAGGCCCCCATCA
Alignments
lowQualScore : 1 7777777777777777777 1 4444444444444 666666666666666 1 1 33 333333 1111111 444444444444444444444444444444444444444444 2222222222222 11111111111 111111111111 111111111 11111 4444444444444444444444444444444444444444444444444444 11 22222222222222 11 111 111 5555555555555555555555555 1 2222222 1 1 2222 1 33333 2 11 1 555555555555555555 11 1 111 333333333 666666666666 1 1 11111 111 1111 1 888888888 111 333 22 2222 888888888888 111 222 11 1 44444444444444 111 11 1 22222 11 111 33333 1 1 222222
lowQualScore : 1 6 5 4 3 2222222222222222222 4 2222222222222 222222222222222 3 6 00 0 111111 8888888 2 777777777777777777777777777777777777777777 1 5 66 2 4 666 2222222222222 77 4 666666 88 77777777777 3 44 55 888888888888 3 555555555 3 33333 4 4 55 4444444444444444444444444444444444444444444444444444 4 4 11 66 99999999999999 0 66 666 111 8 7777777777777777777777777 6 66 3 6 1111111 6 8 0 2 1 5555 77 3 7 44444 6 4 88 1 3 8 6 1 777777777777777777 11 3 99 8 555 1 888888888 8 1 99 222222222222 1 0 3 5 6 3 66666 1 333 8888 0 22 000000000 999 3 555 1 77 4 1 4 1 2 7777 888888888888 4 111 333 7 0 55 3 7 0 1 55555555555555 999999 5 111 6 22 0 55555 33 3 444 33333 4 3 3 4 7 2 222222
lowQualScore : . . . . . ................... . ............. ............... . . .. . ...... ....... . .......................................... . . .. . . ... ............. .. . ...... .. ........... . .. .. ............ . ......... . ..... . . .. .................................................... . . .. .. .............. . .. ... ... . ......................... . .. . . ....... . . . . . .... .. . . ..... . . .. . . . . . .................. .. . .. . ... . ......... . . .. ............ . . . . . . ..... . ... .... . .. ......... ... . ... . .. . . . . . .... ............ . ... ... . . .. . . . . .............. ...... . ... . .. . ..... .. . ... ..... . . . . . . ......
lowQualScore : 0 0 5 7 7 0000000000000000000 0 3333333333333 777777777777777 3 0 00 8 000000 6666666 5 222222222222222222222222222222222222222222 0 7 99 0 0 000 0000000000000 00 0 888888 66 33333333333 6 66 00 666666666666 6 222222222 6 22222 0 0 55 0000000000000000000000000000000000000000000000000000 0 0 00 11 66666666666666 7 88 666 888 0 4444444444444444444444444 7 22 3 7 7777777 7 0 0 8 0 3333 77 3 7 33333 7 7 33 0 8 0 0 0 222222222222222222 00 6 00 0 222 0 444444444 0 0 22 000000000000 0 7 3 3 7 2 77777 0 333 8888 5 00 000000000 000 0 000 0 55 0 0 0 0 5 5555 555555555555 0 555 333 3 7 00 3 7 8 0 44444444444444 888888 7 777 5 55 0 00000 88 2 000 33333 0 3 3 0 3 5 555555
consensus : NNNNNNNNNNTATATTAGAGATTCAAGTTTGTTCANATCATGNCC-CCCGG----GGGT--AGTGGGCC-CGATAGGGATTN-A---G--TTTTACATA-G---A--TATAC-GGGAAA-ATCTTTAAAAATCTTCTCA-CAAGAACCACTGG---C--CAGA-------AAAGTTGAAAT-TTA-TA----T---A-AAGCT-TCCCT-GATAT----AG-TGNAGATTCAA-GTTT--GTTCAAAT-CATGG--CC-------------CC-GGG-G--GTAGGATG--GG-----------GC-CN-C--AAT------------A-GGGG--------ATCA-AAGT--TT-T-A--CATG--C-GA---TTATATAGGGAA-A-T-TT-----T-------CT---------TCT-C-AAGAAC--CATT--G--C--CAG-AANGNTGGATATTTAT-A-TGA-A-AGC-TT--TCC---------TGATAT-----AG-TGGA-GATTCA-AGT-------T-TGTTCAAATCATGGCC-CCCGGGG-TAACGATGGGGCCGC-A--GGGGANNA-AGTTTNACATA-G-TTATAT-GGNAA--ATCTTTANAAATCTTCTTCTCAAG-A-CCACTGGGCCAG----A-------AAAGC-TAA--AATTTAT-ATGA-AAGC-T-TCAT------GGTAT-AGTGGAGATTCAAGT--TTGTTCAAAT-------CG---GNCCCCGGGGT-AG-GTGGGGCCACAATAAGGGATCAANATT-TACATGCAAATATATAGGG-GNNTCNTTTNAAAATCTTCTCAACAAGAACCATTGGGCCAGACGAGCTGAGATTCNTATGAAAGCTTCCTGATATGGNGNAGATTCANGTTTGTTCAGATNATGNCTTCCCACACTCCGATGGGTNGGGTGGGGNCACATTG---TAAATTCCTAA-CTTCTGC-CTTTCTNTGTGAGTA---GC----T-C--CTCAGGTGAGCGATGTGGCCCATGGGCCTCTTGTT---ATTA-AT---TACNAGTAA-CAATAA-AA-----TTT--AACA-TTAATTATAA-----TAATTNTAATA-GT-ANAAATTCAAAGTTTGAACATTNTTTTGCTGAATTAGTACTG
Reference ( family-965 ) : NNNNNNNNNNTATANTGGAGATTCAAGTTTGTTCAAATCATGGCC-CCCGG----GGAT--AGTGGGCCNCAATAGGGATCA-A---G--TTTTACATGCG---A--TGTA--GGGAAA-ATCTTTAAAA-TCTTCTC--CAAGAACCACTGG---C--CAGA-------AAAGTTGAAAT-TTA-TA----T---A-AAGCT-TCCCT-GATAT----AG-TGNAGATTCAA-GTTT--GTTCAAAT-CATGG--CC-------------CC-GGG-G--GTANGATG--GG-----------GC-CN-C--AAT------------A-GGGG--------ATCA-AAGT--TT-T-A--CATG--C-GA---TTATATAGGGAA-A-T-TT-----T-------CT---------TCT-C-AAGAAC--CATT--G--C--CAGAAAAGNTGGA-ATTTAT-A-TGA-A-AGC-TT--TCC---------TGATAT-----AG-TGGA-GATTCA-AGT-------T-TGTTCAAATCATGGCC-CCCGGGG-TAACGATGGGGCCNCTA--GGGGATCA-AGTTTTACATGCGATTATAT-GGAAA--ATCTTTANAAATCTTCTTCTCAAG-A-CCACTGGGCCAG----A-------AAAGT-TGA--AATTTAT-NTGA-AAGC-T-TCNT------GATAT-AGTGGAGATTNAAGT--TTGTTCAAAT-------CAT--GNCCCCGGGGT-AGTGTGGGGCCACAATAGGGGATCAANATTTTACATGCAAATATATAGGG-AATTCCTTNNAAAATCTTCTC---------CATTGGACCANAAGAGC---GATTTNT--GAAAGCTTCCTGATATGGAGNAGATTCAAGTTTGTNCAGATCATGTCCTCCC--------A-GTGTAGGGTAGGGCCACATTG---TAAATTCCCAATCTTCTGC-CTTTCTATGTGNGTA---GC----T-C--CTCAGGTGAGCGATGTGGCCCATGGGCCTCTTGTT---ATTA-AT---TACGAGTAA-CAATAA-AA-----TTT--AACA-TTAATTATAA-----TAATTTTAATA-GT-ATAAATTCAAAGTTTGAACATTCTTTTG-TGAATTAGTACTG
gi|1 : TATATTAGAGAT-CAAGTTTGTTCAAATCATGACC-CCTGG----GGATCCAATGGGCCCCGATAGGGATTATA---G--TTTTACATATG---A--TATATGGGGAAA-ATCTTTAAAA-TCTTCTC--CAAGAACAACTGG---C--CAGA-------AAAGCTGAAAT-TCA-TA----T---A-AAGCT-TCCCT-GATAT----A--TGCAGATTCAA-GTTT--GTTCATAT-CATGA--CC-------------CC-GGG-A--GTACGATG--GG-----------GC-CC-C--AAT------------A-GGGG--------ATCA-AAGT--TT-T-A--CATA--T-GA---TTATATAGGGAA-A-T-TT-----T-------CT---------TCT-C-AAGAAC--CACT--G--C--CAGAGAAGCTGGA-ATTTAT-A-TGA-A-AGC-TT--TCC---------TGATAT-----AG-TGGA-GATTCC-AGT-------T-TGTTCAAATCATGACC-CTCGGGGTTAACGATGGGGCCCCTA--GGGGATTA-AGTTTTACATATGATTATATAGGAAA--ATCTTTATAAATCTTCTTCTCAAG-A-CCACTGGGCCAG----A-------AAAGC-TGA--AATTTAT-ATGA-AAGC-T-TCCT------G-TAT-AGTGAAGA-TGAATT--TTGTCCAAAT-------C----GACCCCGGGGT-AATGTGGGACCACAATAAGGGATCAATATTTTACATGCAAATATATAGGGAAATTCTTTTTAAAATCTTCTT---------CATTGAAC--GACGAGT---GATTCCT--GAAAGCTTCCTGATATGGAGTAGATTTATGTTTGTTTAGATAATACCTTCCCACACTCCGA-GGGTTGGGTGGGGTCACATAGGATTAAAGTGCTA--CTACTGCGCTTTCTTTGTGAGTA---GT----T-T--CTCAGGTGAGCGATGTGGCCCATGGACCTCTTGTT---ATTA-AT---TACTAGTAATCAATAA-AA-----TTT--GACA-CTAATTATAGTTTTCTAATCCTTATATGTGACAAAT--AAGGTTTGAAAATTATTTTGCTG---TAGTATTG
gi|10 : caagatgcatTATGGGTA--------------CTTAAGTGAGCAGTGTGGCCCACCGACCTCTTGTC-----TG-ATGGATACGAGTGA-CAATAA-AACAGACTTT--AACA-G-AGTGAAAA-----TAATTTTAATA-GT-ATAAATTCAAAGTTTGAACATTCTTTTG-TGAATTAGTACTGt
gi|11 : GGCCACAATAAGGAATGTAAATTGTCCATGCAAATATATAGGG-
gi|13 : caatgaagaaacattgggccagaaatttcagtcttttacggttgtagaattatgagtgtaaaattgatggccttcttacatgtagtaggtttaGA-------AAGTTTGAAAA-TGA-TAAGCAT---A-CAGTC-ACCCTCGGT-T----AG-TGCAGACACAA-GTT---GTTTAAAT-CATTG--TA-------------CT-GGGAG--GAATGGTG--GG-----------AC-AA-C--AAT------------A-AGGG--------ATCA-GCAT--TT-T-A--CAT
gi|14 : --CAAG-------AAAGTTGAAATACTAGTA----T---------T-TTGGT-GAT---------TGTAGATTCAA-GTTT--GTTCACA--CATGA--TC-------------TT-GGA-G--GT----CG--AG-----------GCACT-C--CAT------------A--AGG--------ATTA-A
gi|15 : atatttgacatttattttaaagaaAA-----TCATTGTAATA-GT-AGAAAATCTAAGTTTGAAC
gi|16 : agtgcagagtcttatcaaataaagactggagagcAGTTTGTTCATATCATGGTT-C----------------TGGGTC-CAATACG-ATTG-ATTTG--TGTTACATG-G---AAGTGTACTGGGAAA-ATCTCTAATA-TCTTCTT-----GA--CAGTGG---CAGCAGA-------Atcacaagggggcgattcggccctgcggtcaggacgggcggcaca
gi|17 : ttgAA-GTTT--ATTCG------TGG--CC-------------CC-AGA-T--G---GATGTTGG-----------GC-CT-C--AAT------------A-GGG---------ATCATAA----TT-T-A--CATG----GAAATTTGCATA--------T-TT-----T-------CT---------TAT-C-AAGAAC--C
gi|18 : tgaggatttcagcaagtTTTAAAAATCTTCT---CAAG-AACCACTGGGCCAG----A-------AGAGC-TAA--AATTTAT-ATAA-AAGC-T-TCAT------GACAT-AGTGGAGATTCAAGT--TTGTT
gi|2 : gGGGGATACAAGT--TAGTTCAAATGAAGAACCAG--GTCCCCATCAA-AG-GCGGAGAC-TAAT------TCATGA----AAATGCAAAAATAAAGTG-GTGTCATTTAAAAATCTTCTCAACAAGAACCATTGGGCCAGAAAAGCTGAAATTTATATGAAAGCTTCCTGATATAGTGGAGATTCAAGTTTGTTCAAATCATGAC--CCC--------ATGGGTAGGATGGGGCCACAacagtctatc
gi|2 : tttagcttcgacacctgaaccgaaggttcaagtgagctttttctgatctgccgttgtcatccgtctgtctgtaactttcacattttttgacttctccagaaccgcctctgccaaatttaacatattttggttacaaaatcaatcttgggtgaaTTTAAAAATCTTCTCAACAAGAACCATTGGG--C--CAGA-------AAAGCTGAAAT-TTA-TA----TG--A-AAGCT-TCC-T-GATAT----AG-TGGAGATTCAA-GTTT--GTTCAAAT-CATGA--CC-------------CC-ATG-G--GTAGGATG--GG-----------GC-CA-C--AAT------------A-GGGG--------ATGA-AATT--TT-T-A--CATG--C-AA---ATATAAAGGGAA-AAT-CTAATAAT-------CT---------TCT-C-AAGTAC--CATT--GAAC--CAGAAGAG-TGGATATTTAT-C-TGA-A-AGC-TT---CC---------TCATATGA---AG-T--A-AATTCA-AGT-------T-TGTACAGATCATGTCCTCCCAGTG-TAG-GGTAGGGCCACAAAAGGGGGCCAGAATTTGATATAGGTTTATATTGGGAACTGTCTTAAAAAATCTTCTCATCAAGGA-CTGCAAGTGCAG----AGTTTGTCAAA---TAA--AA---AC-GTGG-AAGC-CATCAT------TGTAT-TGTGAAGATTCAAGTTTTTGTTCAAAT-------GGTGGGCCCCCAGGGTCAGGAT-GGGCCACAAataggggatgaaatttttacatgcaaatataaagggaaaatctaataatcttctcaagtaccattgaaccagaagagtggatatttatctgaaagcttcctcatatgaagtaaattcaagtttgtacagatcatgtcctcccagtgtagggtagggccacaaaagggggccagaatttgatataggtttatattgggaactgtcttaaaaaatcttctcatcaaggactgcaagtgcagagtttgtcaaataaaaacgtggaagccatcattgtattgtgaagattcaagtttttgttcaaatggtgggcccccagggtcaggatgggccacaactctggccctaatgacttattagttaaacaatctaaatgatttagacatgatccactatgtaaaattttaaaaaatcttctcaagaaacattgagag
gi|2 : tttagcttcgacacctgaaccgaaggttcaagtgagctttttctgatctgccgttgtcatccgtctgtctgtaactttcacattttttgacttctccagaaccgcctctgccaaatttaacatattttggttacaaaatcaatcttgggtgaaggggatacaagttagttcaaatgaagaaccaggtccccatcaaaggcggagactaattcatgaaaatgcaaaaataaagtggtgtcaAAATTCAAGTTTGTACAGATCATGTCCTCCCAGTGTAGGGT--AG--GGCCACAAAAGGGGGCC-A---GAATTTGATATAGGTTTA--TATT--GGGAACTGTCTTAAAAAATCTTCTCATCAAGGACTGCAAG---TG-CAGAGTTTGTCAAA--TAAAA----A-CG----T---GGAAGCCATCATT-G-TAT----TG-TGAAGATTCAA-GTTTTTGTTCAAAT-GGTGGGCCC-------------CC-AGG-G--TCAGGATG--GGCCACAACTCTGGC-CC-T--AATGACTTATTAGTTA-AACA--------ATCT-AAATGATT-T-AGACATGATC-CA---CTATGTA---AA-A-T-TT-----TAAAAAATCT---------TCT-C-AAGAAA--CATT--G--ctctggccctaatgacttattagttaaacaatctaaatgatttagacatgatccactatgtaaaattttaaaaaatcttctcaagaaacattgagag
gi|24 : tttagcttcgacacctgaaccgaaggttcaagtgagctttttctgatctgccgttgtcatccgtctgtctgtaactttcacattttttgacttctccagaaccgcctctgccaaatttaacatattttggttacaaaatcaatcttgggtgaaggggatacaagttagttcaaatgaagaaccaggtccccatcaaaggcggagactaattcatgaaaatgcaaaaataaagtggtgtcatttaaaaatcttctcaacaagaaccattgggccagaaaagctgaaatttatatgaaagcttcctgatatagtggagattcaagtttgttcaaatcatgaccccatgggtaggatggggccacaataggggatgaaatttttacatgcaaatataaagggaaaatctaataatcttctcaagtaccattgaaccagaagagtggatatttatctgaaagcttcctcatatgaagtGTGTGTA---GC----TGCTGCTCAGGCGAGCCGTGTGGCCTATGGACTGCTTGT-----TCA-AT---CATCAGAAA-CAATAATTA-----TTT--A--A-TTAAGTATAagag
gi|27 : AGGTGAGTGATGTGGCCCATGGTCCTCTTG-T---ATTATGT---TGCAAATAA--ATTGA-AA-----TGTACAACAGTTGATTAT
gi|3 : TAGTGGCACATTG---TAAAT-CCTAAACTTCTGT-TCTTCTCAATGA--A---GCAAAAT-G--TTCAGGTGAGCGATGTGGCCCGTCAGCCTCTTGTT---A
gi|3 : atgacccccacttatcgtacatggttaccagtcttattttcttattgatgaatgttcattgaaggtattggaagatgacagaggttaactctagtccatacctttgaaCTTCTTCTCCAG-ATCCACTGGGCCAATTTCA-------A-----TAA--ACCTTGG-TTCA-CTAC-A-TCTT------GG-ATGAAAGGA-ATTCAAGT--TTATTCAAAT-------gcttacctgagctgaaaattcaagtgagctattctgatcacccgttgtctgtctgtctgtaaactttcacattttgtacttcttctccagatccactgggccaatttcaataaaccttggttcactacatcttggatgaaaggaattcaagtttattcaaatgaagagctatgcccttgccaaaggcataaataaaaggcataaatagggt
gi|31 : atgacccccacttatcgtacatggttaccagtcttattttcttattgatgaatgttcattgaaggtattggaagatgacagaggttaactctagtccatacctttgaatagtggcacattgtaaatcctaaacttctgttcttctcaatgaagcaaaatgttcaggtgagcgatgtggcccgtcagcctcttgttagcttacctgagctgaaaattcaagtgagctattctgatcacccgttgtctgtctgtctgtaaactttcacattttgtaTAG-----AG-TATA-GATTCA--TT-------T-TTTTTAAATGGTGGTC-CCCGGGG-TCAAGATGGgaagagctatgcccttgccaaaggcataaataaaaggcataaatagggt
gi|34 : attattgGATGTGGCCCATGGGCCTCTTGTT---ATTA-AT---
gi|35 : GGAAA-A-T-CG-----T-------CT---------TCT-C-AAAAAC--CATTACA--C--CAG-AAGGGTGGataaaattaggtaatgaat
gi|38 : agAGGGAACA-T----------------CT---------TCT-C-AAGAAC--CATT--G--CATCAG-AAGGGTGGgtat
gi|39 : aaGCTATGTGGCCCATGGGCCTCTTGTTAGCATTG-GT---TACgt
gi|4 : GATG--AG-----------GC-CT-C--GAT------------G-GGGAGTATGGAAATTA-A--T--TTGT-A--CATA--T-AT---TTATGTAT-------T-TT-----T-------TT---------TCTTC-AAGTTCTTCATT--G--T--C-------TT--A-ATTTGT-A-T-----AGC-TTA-TCCACGTGCTATCGATATTTACAAGATAGATAATTTACAATATATAAAT-TGTTCAAATCATGGCC-CCAAGGG-AAATGATGGGGCCGC-A--GTAGAGAA-AGTTTAACA------TATAT-GATGA--ATTTTTGTAAAACATAATCTGAAG-A-ACA----GC---------------AATGCATGATTAA-TCATAATGATAAGCAT-TCATCCTCAGGA----AGTGTAGATTTAAGT--TTCTTCAAAT-------
gi|4 : attcaaatttgatgacacatgcacatcaaacgtttgaactaTT--GTTCAAAT-CATGG--CC-------------CCAAGG-G--AAATGATG--GG-----------GC-CG-C--AGT------------A-GAG------------A-AAGT--TT-A-A--CA------------TATATGATGAA-T-T-TT-----T-------GTAAAACATAATCT-G-AAGAACAGCAAT--G--C-------ATGATTAA---TCATAA-TGATA-AGCATTCATCC---------TCAGGA-----AG-TGTA-GATTTA-AGT-------T-TCTTCAAAT
gi|40 : attcaaatttgatgacacatgcacatcaaacgtttgaactagatgaggcctcgatggggagtatggaaattaatttgtacatatatttatgtattttttttcttcaagttcttcattgtcttaatttgtatagcttatccacgtgctatcgatatttacaagatagataatttacaatatataaaGGTGAGCGATGTGGTCCATGGGCTTCTTG-T---ATTA-
gi|41 : --CTCAGGTGAGCGATGTGGCCCATGGATCTCTtgt
gi|5 : TTCAAAT-CATGA--CC-------------TC-CGG-G--GTAGGGTGT-GG-----------GC-CAAC--AAT------------A-GGGG--------ATCA-AAGG--TT-T-A--a
gi|6 : agtgagtgaccagtgactatgtatagttttcacctgagctgaaagctcttgaaagtgagcatttctaagcacctgttgtctgtcgtttgactttttctccagaaccacggtaccaaatttaagcaaacttggtacaaattatcctagggtgaaggggattgaagttttttaaaataaaggaccagacccctttcaaaggggaggtaatcacgaaaatgcaataaagggttatgtcatttaaaggcagctggagaAGAA-CTTTATCT-CAGGAACCACTGGAGGC--CAGA-------AAAGTTGAAAT---A-TA----TTGAA-AAGGT-TC-----ATATTACTAGCTAGAGATTTAAAGTTT--CTTCAAATGCATGA--CCACCCCACCCCCCCCC-CCG-G--TTAGGATG--TG-----------TC-CA-CCAAGT------------AAGGGG--------ATCA-A-GTCATT-T-A--CATG--C-AA---T------------A-C-TT-----T-------CT---------TCT-CTAAGAAT--CATT--GAAC--CAG-AATGATGGATATTTAT-CTTGA-ATAGC-TT----C---------TGAT----------TGGATAATTCA-AAC-------TATG--AAGATCAC-GCT-CCCAG
gi|7 : tgatgtctaaaa-CATGC--GC-------------CC-AGA-GTTGTAGGGTA--GG------------C-CA-T--AAT------------A-GGGG-------------GAGT--TT-TGA--TATA--CTGGTT-TTTTATTGGGAA-A-TATA-----T-------CT---------TTT-T-AAAA----CATC--G--T--C
gi|8 : tcttaagttgcagttgataaaagtagaatttagtagcatccttcacgggactatgtagtataaagaactgtttgagagaccgaGTAG---CACATTG---TAAATTCCCAATCTTCTGC-CTTTCTATG-AAGCAAATGC----T-C--TTCAGGTGAGGGATTTGGCCCATGGGCCTCTTGTccccttctgactgcaagtgctgagtttgctaagtaacatagaagcatcgt
16 sequences could not be aligned to this reference sequence:
Unaligned ( gi|9 ): TATCCGTGAACCCCAACCTATCATATGTGGTCTCGTCTATTCTTATCATTGATGAAATGTTCAGTTATGCATTAAAAAATGCAGAAATTAAACTTTTAGTACCATACCTCTGAATATGAACATTGTAAATCCCAACCTTAGTACTTCTCTATAAG
Unaligned ( gi|12 ): AAGCAAAACATGTACAATTGAATATTTCACCTGGCACGCAATTTTATTGGCCGACGTTGAGTTGAAAGGCCAAGTGAACTATTCTGGTCAAAATATCAGTATGTCCGTTTGGAAATTTTT
Unaligned ( gi|19 ): TTTTAGTTTTACACGATTACTTATAAGTTCAGGTGAGCTTTTTTTGATCACCATTTGTCCAGTGTTGTATGTACAACATTTTTTTACTTCTCCAG
Unaligned ( gi|20 ): AAAGTTTGAGGTTTATTTGGGGAATTCAAACTATGTTTAAAAAAAGGCTTCTTCTGCAGAGTTTGTCAAATATTAACATGGAAGCATCATTGT
Unaligned ( gi|21 ): TTTTTAGTTTACCTGAGCTATAAAGTTCAAGTGAATTTTCTTATCACCTGTTCTCCATAGACTTTCCACATTATTGCTATTAGTTTTT
Unaligned ( gi|22 ): TCAAGATGACAGAGAATGATGTAGTCCATACCTTTAACATATTGGCACATTGAAATCTCGACTTTTGCATTCCTATGAAGCGAAGTG
Unaligned ( gi|23 ): CCTTTTGAATATGTTGAGCACATGTAAATCAAAACTCTCTATGAAGCAAGGTCAGGTGAGCAAATGTGGCTGTAAGTGGCCTCTTG
Unaligned ( gi|25 ): TTTTTAGCTCACCTGAGCTACATGTGTATAAACTCAAGGGAGCTTTCTGAAAGCCTGTTGTCTTTCAGACCGTAAACTT
Unaligned ( gi|26 ): CTTAATGATTCACCGAATCAAGTATGTGGTCCACGACACATCTTGTTAGCTCACCTGAACCGACGGTTCAAGTGAG
Unaligned ( gi|28 ): CTCATCTGAGCTATAAGCTCATGTTAGCTTTTCTGATCACCCACTGCTTACAATCTCTTCGTAAACTT
Unaligned ( gi|29 ): TTTAAAAATCTTGTCAAGAACCATCAGGACAGAAAGGACAAAACTTGATTTAAAAATTATTCATG
Unaligned ( gi|30 ): TGAATATAACTCCATTGATCTTTCCTGATCACCCATACTCTGTCTGTCTGTAAACTTTACATATT
Unaligned ( gi|32 ): TAGTTTCACCTGAGCTGAAAGTCAAGAGAGCTATTTGATAAAAATTGTCCGGTTG
Unaligned ( gi|33 ): AAGAACTGCAAGTGCAGAGTTTGTCAAGTATTGACAAGTAACCATCATGGT
Unaligned ( gi|36 ): TTAAGAACGGAAATTGTTTGTAGCTCACCTGAACCAAAGGTTTAAGT
Unaligned ( gi|37 ): GGGGGTAAACAAAACTAGTTCAAATGAAGGACCAGGCCCCCATCA
Alignments
lowQualScore : 1 7777777777777777777 1111 3333333333333 1 22222 11 1 11 333 222222 1111111 4444444444444444444444444444444444444444444 2222222222222 11111111111 222222222222 11111111 11111 44444444444444444444444444444444444444444 11111 22222222 333333333333333 2222222 2222222 11111 333333 1 666666666666666666 22222222222 2 333333333333 1111 111 22222222 2222222 11 1 1 2222 2222222 1 4444444 77777777 444444444444 666666666 222 1111 1 44444444444444 111 11 1 22222 11 111 33333 1 1 1 222
lowQualScore : 5 1 1 1111111111111111111 7777 4444444444444 3 77777 44 3 88 000 6 888888 6666666 33 1111111111111111111111111111111111111111111 1 5 77 3 44 777 4444444444444 2 7777 1 99 99999999999 4 55 55 000000000000 4 44444444 4 77777 4 4 66 88888888888888888888888888888888888888888 4 4 55 777 66 33333 0 5 555 6 44444444 88 888 3 111111111111111 6 1111111 6 1111111 1 6 6 22222 0 222222 22 0 6 1 333333333333333333 22222222222 8 1 66 6 0 1 000000000000 333 1 4444 6 111 3 44444444 6 99 8888888 1 44 0 0 0000 4444444 3 0000000 1 22222222 11 6 2 444444444444 2 1 1 1 4 1 1 111111111 2 1 0 1 333 6666 3 1 0 55555555555555 999999 5 111 1 22 0 55555 33 3 444 33333 1 3 3 1 7 1 5 111
lowQualScore : . . . ................... .... ............. . ..... .. . .. ... . ...... ....... .. ........................................... . . .. . .. ... ............. . .... . .. ........... . .. .. ............ . ........ . ..... . . .. ......................................... . . .. ... .. ..... . . ... . ........ .. ... . ............... . ....... . ....... . . . ..... . ...... .. . . . .................. ........... . . .. . . . ............ ... . .... . ... . ........ . .. ....... . .. . . .... ....... . ....... . ........ .. . . ............ . . . . . . . ......... . . . . ... .... . . . .............. ...... . ... . .. . ..... .. . ... ..... . . . . . . . ...
lowQualScore : 5 0 0 7777777777777777777 3333 3333333333333 3 77777 00 3 33 000 7 777777 2222222 11 3333333333333333333333333333333333333333333 0 7 99 4 66 888 4444444444444 7 9999 9 55 00000000000 0 00 55 555555555555 0 55555555 0 88888 4 4 11 66666666666666666666666666666666666666666 0 0 55 888 11 11111 7 7 000 7 66666666 88 222 2 777777777777777 7 7777777 7 7777777 7 7 3 22222 8 888888 00 0 5 0 222222222222222222 22222222222 0 0 77 7 0 0 888888888888 555 7 2222 7 222 3 33333333 7 22 7777777 0 00 0 0 0000 7777777 3 3333333 0 33333333 33 7 5 000000000000 5 0 0 0 0 0 0 555555555 5 0 7 0 333 3333 3 0 8 44444444444444 888888 7 777 0 55 0 00000 88 2 000 33333 0 3 3 0 3 0 0 555
consensus : NNNNNNNNNNTATATTAGAGATTCAAGTTTGTTCANATCATGNCC-CCCGG----GGGT--AGTGGGCC-C-GATAGG---GATTN-AG--TTTTACATA-GA--T--ATAC-GGG-AAA--ATCTTTAAAAATCTTCTC--CAAGAACCA-CTGG---C--CAGA-------AAAGTTGAAAT-TT-A-TA----T---A-AAGCT-TCCCT-GATAT----AG-TGNAGATTCAA-GTTT--GTTCAAAT-CATGA--CC-------------CCGGG-G--GTAGGATG--GG-----------GC-C-NC--AAT------------A-GGGG--------ATCA-AAGT--TT-T-A--CATG--C-GA---TTATATAGGG-AA-AT-TT-----T-------CTTCT-C-AAGAAC--CAT---T--G--C--CAGA-ANGNTGGATA-TTTA---T--A-CGAA-AGCTTTCCTGATAT-----AG-TGGA-GATTCA-AGT-------T-TGTTCAAAT-------CATGGCC-CCCGGGG-TAACGATGGGGCCGC---AGGGGACTA-AGTTTNA--------CATA--A--TTATA-T-GGNGA--ATC-TTTAAAAATCTTCTTCTCAA-GA-CCACTGGGCCAG----A-------AAAGCTAAAATTTAT----ATGA-AAGC-T-TCNT-----GGTAT-AGTGGAGATTCAAG--TTTGTTCAAA---TCG-GACCCCG-GGGT-AG-G-TN-GGGCCACAATAAGGGAT-NAATA-TT-TACATGCAAATATATAGGG-AANTCNTTTAAAAATCTTCT---CAAG-ACCATCGAACCAGANGAGTGGANATTCNTCTGAAAGCTTCCTNATATGGAGTAGATTCANGTTTGTNCAGATNATGCCCTCCCACACTCCGA-GNGTTGGGTAGGGNCACATTG---TAAATTCCNAA-CTTCTGC-CTTTCTNTGTGAGTA---GC----T-C--CTCAGGTGAGCGATGTGGCCCATGGGCCTCTTGTT---ATTA-AT---TACNAGTAA-CAATAA-AA-----TTT--AACA-TTAATTATAA-----TAATTNTAATA-GT-ANAAATTCAAAGTTTGAACATTNTTTTGCTGAATTAGTACTG
Reference ( family-965 ) : NNNNNNNNNNTATATTAGAGATTCAAGTTTGTTCANATCATGNCC-CCCGG----GGGT--AGTGGGCC-C-GATAGG---GATTN-AG--TTTTACATA-GA--T--ATAC-GGG-AAA--ATCTTTAAAAATCTTCTCA-CAAGAACCA-CTGG---C--CAGA-------AAAGTTGAAAT-TT-A-TA----T---A-AAGCT-TCCCT-GATAT----AG-TGNAGATTCAA-GTTT--GTTCAAAT-CATGG--CC-------------CCGGG-G--GTAGGATG--GG-----------GC-C-NC--AAT------------A-GGGG--------ATCA-AAGT--TT-T-A--CATG--C-GA---TTATATAGGG-AA-AT-TT-----T-------CTTCT-C-AAGAAC--CAT---T--G--C--CAGA-ANGNTGGATA-TTTA---T--A-TGAA-AGCTTTCCTGATAT-----AG-TGGA-GATTCA-AGT-------T-TGTTCAAAT-------CATGGCC-CCCGGGG-TAACGATGGGGCCGC---AGGGGANNA-AGTTTNA--------CATA--G--TTATA-T-GGNAA--ATC-TTTANAAATCTTCTTCTCAA-GA-CCACTGGGCCAG----A-------AAAGCTAAAATTTAT----ATGA-AAGC-T-TCAT-----GGTAT-AGTGGAGATTCAAG--TTTGTTCAAA---TCG-GNCCCCG-GGGT-AG-G-TG-GGGCCACAATAAGGGAT-CAANA-TT-TACATGCAAATATATAGGG-GNNTCNTTTNAAAATCTTCTCAACAAGAACCATTGGGCCAGACGAGCTGAGATTCNTATGAAAGCTTCCTGATATGGNGNAGATTCANGTTTGTTCAGATNATGNCTTCCCACACTCCGATGGGTNGGGTGGGGNCACATTG---TAAATTCCTAA-CTTCTGC-CTTTCTNTGTGAGTA---GC----T-C--CTCAGGTGAGCGATGTGGCCCATGGGCCTCTTGTT---ATTA-AT---TACNAGTAA-CAATAA-AA-----TTT--AACA-TTAATTATAA-----TAATTNTAATA-GT-ANAAATTCAAAGTTTGAACATTNTTTTGCTGAATTAGTACTG
gi|1 : TATATTAGAGAT-CAAGTTTGTTCAAATCATGACC-CCTGG----GGATCCAATGGGCC-CCGATAGG---GATTATAG--TTTTACATATGA--T--ATAT-GGGGAAA--ATCTTTAAAA-TCTTCTC--CAAGAACAA-CTGG---C--CAGA-------AAAGCTGAAAT-TC-A-TA----T---A-AAGCT-TCCCT-GATAT----A--TGCAGATTCAA-GTTT--GTTCATAT-CATGA--CC-------------CCGGG-A--GTACGATG--GG-----------GC-C-CC--AAT------------A-GGGG--------ATCA-AAGT--TT-T-A--CATA--T-GA---TTATATAGGG-AA-AT-TT-----T-------CTTCT-C-AAGAAC--CAC---T--G--C--CAGAGAAGCTGGA-A-TTTA---T--A-TGAA-AGCTTTCCTGATAT-----AG-TGGA-GATTCC-AGT-------T-TGTTCAAAT-------CATGACC-CTCGGGGTTAACGATGGGGCCCCT--AGGGGATTA-AGTTTTA--------CATATGA--TTATA-TAGGAAA--ATC-TTTATAAATCTTCTTCTCAA-GA-CCACTGGGCCAG----A-------AAAGCTGAAATTTAT----ATGA-AAGC-T-TCCT------GTAT-AGTGAAGA-TGAAT--TTTGTCCAAA---TC--GACCCCG-GGGT-AATG-TG-GGACCACAATAAGGGAT-CAATATTT-TACATGCAAATATATAGGGAAATTCTTTTTAAAATCTTCT---------TCATTGAAC--GACGAGT---GATTCC--TGAAAGCTTCCTGATATGGAGTAGATTTATGTTTGTTTAGATAATACCTTCCCACACTCCGA-GGGTTGGGTGGGGTCACATAGGATTAAAGTGCT-A-CTACTGCGCTTTCTTTGTGAGTA---GT----T-T--CTCAGGTGAGCGATGTGGCCCATGGACCTCTTGTT---ATTA-AT---TACTAGTAATCAATAA-AA-----TTT--GACA-CTAATTATAGTTTTCTAATCCTTATATGTGACAAAT--AAGGTTTGAAAATTATTTTGCTG---TAGTATTG
gi|10 : caagatgcatTATGGGTA--------------CTTAAGTGAGCAGTGTGGCCCACCGACCTCTTGTC-----TG-ATGGATACGAGTGA-CAATAA-AACAGACTTT--AACA-G-AGTGAAAA-----TAATTTTAATA-GT-ATAAATTCAAAGTTTGAACATTCTTTTG-TGAATTAGTACTGt
gi|11 : GT-AG-G-TTTAGGCCACAATAAGGAAT-GTAAA-TTGTCCATGCAAATATATAGGG-
gi|13 : caatgaagaaacattgggccagaaatttcagtcttttacggttgtagaattatgagtgtaaaattgatggccttcttacatgtaGA-------AAGTTTGAAAA-TG-A-TAAGCAT---A-CAGTC-ACCCTCGGT-T----AG-TGCAGACACAA-GTT---GTTTAAAT-CATTG--TA-------------CTGGGAG--GAATGGTG--GG-----------AC-A-AC--AAT------------A-AGGG--------ATCA-GCAT--TT-T-A--CAT
gi|14 : --CAAG-------AAAGTTGAAATACT-AGTA----T---------T-TTGGT-GAT---------TGTAGATTCAA-GTTT--GTTCACA--CATGA--TC-------------TTGGA-G--GT----CG--AG-----------GCAC-TC--CAT------------A--AGG--------ATTA-A
gi|15 : atatttgacatttattttaaagaaAA-----TCATTGTAATA-GT-AGAAAATCTAAGTTTGAAC
gi|16 : agtgcagagtcttatcaaataaagactggagagcAGTTTGTTCATATCATGGTT-C----------------TGGGTC-C-AATACGATTGATTT--G--TGTTACATG-GAAGT--GTACTGGG-AAA--ATCTCT-AATATCTTCTT-----GA--CA-GTGG---CAGCAGA-------Atcacaagggggcgattcggccctgcggtcaggacgggcggcaca
gi|17 : ttgAA-GTTT--ATTCG------TGG--CC-------------CCAGA-----T-GGATGTTGG-----------GC-C-TC--AAT------------A-GGG---------ATCATAA----TT-T-A--CATG----GAAATTTGCATA--------T-TT-----T-------CTTAT-C-AAGAAC--C
gi|18 : tgaggatttcagcaagt-TTTAAAAATCTTCT---CAA-GAACCACTGGGCCAG----A-------AGAGCTAAAATTTAT----ATAA-AAGC-T-TCAT-----GACAT-AGTGGAGATTCAAG--TTTGTT
gi|2 : gT-TT-----TGA-----CTTCT-C-CAGAAC--CGCCTCT--G--C--CA-A-ATTTAACATA-TTTTGGTT--A-CAAA-ATCAATCTTGG-GT-----GA-AGGG-GATACA-AGT-------T-AGTTCAAATGAAGAACCA-GGTC-CCC------ATCAA--AGGC-------GGAGACTA-A--TTCATGAAAATGCAAA--A--ATAAAGT-GGTG----TCATTTAAAAATCTTCTCAACAA-GAACCATTGGGCCAG----A-------AAAGCTGAAATTTAT----ATGA-AAGC-T-TCCT-----GATAT-AGTGGAGATTCAAG--TTTGTTCAAA---TCATGACCCCATGGGT-AG-GATG-GGGCCACAATAGGGGATGAAATT-TT-TACATGCAAATATAAAGGG-AAA--ATCTAATAATCTTCT---CAAGTACCATTGAACCAGAAGAGTGGATATTTATCTGAAAGCTTCCTCATATGAAGTAAATTCAAGTTTGTACAGATCATGTCCTCCCA---------GTGTAGGGTAGGGCCACAacagtctatc
gi|2 : tttagcttcgacacctgaaccgaaggttcaagtgagctttttctgatctgccgttgtcatccgtctgtctgtaactttcacattTTTAAAAATCTTCTCAACAAGAACCA-TTGGG--C--CAGA-------AAAGCTGAAAT-TT-A-TA----TG--A-AAGCT-T-CCT-GATAT----AG-TGGAGATTCAA-GTTT--GTTCAAAT-CATGA--CC-------------CCATG-G--GTAGGATG--GG-----------GC-C-AC--AAT------------A-GGGG--------ATGA-AATT--TT-T-A--CATG--C-AA---ATATAAAGGGAAA-AT-CTAATAAT-------CTTCT-C-AAGTAC--CAT---T--GAAC--CAGA-AGAGTGGATA-TTTA---T--C-TGAA-AGC-TTCCTCATATGA---AG-T--A-AATTCA-AGT-------T-TGTACAGAT-------CATGTCCTCCCAGTG-TAG-GGTAGGGCCACAAAAGGGGGCCAGAATTTGA--------TATA--GGTTTATATT-GGGAACTGTC-TTAAAAAATCTTCTCATCAAGGA-CTGCAAGTGCAG----AGTTTGTCAAA--TAAAA---AC----GTGG-AAGC-CATCAT-----TGTAT-TGTGAAGATTCAAGTTTTTGTTCAAATGGTGG-GCCCCCA-GGGTCAG-G-AT-GGGCCACAAaaagggggccagaatttgatataggtttatattgggaactgtcttaaaaaatcttctcatcaaggactgcaagtgcagagtttgtcaaataaaaacgtggaagccatcattgtattgtgaagattcaagtttttgttcaaatggtgggcccccagggtcaggatgggccacaactctggccctaatgacttattagttaaacaatctaaatgatttagacatgatccactatgtaaaattttaaaaaatcttctcaagaaacattgagag
gi|2 : tttagcttcgacacctgaaccgaaggttcaagtgagctttttctgatctgccgttgtcatccgtctgtctgtaactttcacattttttgacttctccagaaccgcctctgccaaatttaacatattttggttacaaaatcaatcttgggtgaaggggatacaagttagttcaaatgaagaaccaggtccccatcaaaggcggagactaattcatgaaaatgcaaaaataaagtggtgtcaAAATTCAAGTTTGTACAGATCATGTCCTCCCAGTGTAGGGT--AG--GGCCAC-AAAAGG---GGGCC-AGAATTTGATATA-GG--TTTATAT-TGG-GAACTGTCTTAAAAAATCTTCTCATCAAGGACTG-CAAG---TG-CAGAGTTTGTCAAA--TAAAA-----A-CG----T---GGAAGCCATCATT-G-TAT----TG-TGAAGATTCAA-GTTTTTGTTCAAAT-GGTGGGCCC-------------CCAGG-G--TCAGGATG--GGCCACAACTCTGGC-C-CT--AATGACTTATTAGTTA-AACA--------ATCT-AAATGATT-T-AGACATGATC-CA---CTATGTA----AA-AT-TT-----TAAAAAATCTTCT-C-AAGAAA--CAT---T--G--ctctggccctaatgacttattagttaaacaatctaaatgatttagacatgatccactatgtaaaattttaaaaaatcttctcaagaaacattgagag
gi|24 : tttagcttcgacacctgaaccgaaggttcaagtgagctttttctgatctgccgttgtcatccgtctgtctgtaactttcacattttttgacttctccagaaccgcctctgccaaatttaacatattttggttacaaaatcaatcttgggtgaaggggatacaagttagttcaaatgaagaaccaggtccccatcaaaggcggagactaattcatgaaaatgcaaaaataaagtggtgtcatttaaaaatcttctcaacaagaaccattgggccagaaaagctgaaatttatatgaaagcttcctgatatagtggagattcaagtttgttcaaatcatgaccccatgggtaggatggggccacaataggggatgaaatttttacatgcaaatataaagggaaaatctaataatcttctcaagtaccattgaaccagaagagtggatatttatctgaaagcttcctcatatgaagtGTGTGTA---GC----TGCTGCTCAGGCGAGCCGTGTGGCCTATGGACTGCTTGT-----TCA-AT---CATCAGAAA-CAATAATTA-----TTT--A--A-TTAAGTATAagag
gi|27 : AGGTGAGTGATGTGGCCCATGGTCCTCTTG-T---ATTATGT---TGCAAATAA--ATTGA-AA-----TGTACAACAGTTGATTAT
gi|29 : TTTAAAAATCTTGT---CAAGAACCATCAGGACAGA
gi|29 : TTTAAAAATCTTGT---CAAGAACCATCAGG---A--CAGA-------AAGGACAAAAC-TTGA-TT----T---A-AAaaggacaaaacttgatttaaaaattattcatg
gi|3 : TTGAATAGTGGCACATTG---TAAATCCTAAA-CTTCTGT-TCTTCTCAATGA--A---GCAAAAT-G--TTCAGGTGAGCGATGTGGCCCGTCAGCCTCTTGTT---Aaattattcatg
gi|3 : atgacccccacttatcgtacatggttaccagtcttattttcttattgatgaatgttcattgaaggtattggaagatgacagaggttaactctagtccatacctCTTCTTCTCCA-GATCCACTGGGCCAATTTCA-------A----TAAACCTTGG----TTCA-CTAC-A-TCTT-----GG-ATGAAAGGA-ATTCAAG--TTTATTCAAA---Tgcttacctgagctgaaaattcaagtgagctattctgatcacccgttgtctgtctgtctgtaaactttcacattttgtacttcttctccagatccactgggccaatttcaataaaccttggttcactacatcttggatgaaaggaattcaagtttattcaaatgaagagctatgcccttgccaaaggcataaataaaaggcataaatagggt
gi|31 : atgacccccacttatcgtacatggttaccagtcttattttcttattgatgaatgttcattgaaggtattggaagatgacagaggttaactctagtccatacctttgaatagtggcacattgtaaatcctaaacttctgttcttctcaatgaagcaaaatgttcaggtgagcgatgtggcccgtcagcctcttgttagcttacctgagctgaaaattcaagtgagctattctgatcacccgttgtctgtctgtctgtaaactttcacattttgtaTAG-----AG-TATA-GATTCA--TT-------T-TTTTTAAAT-------GGTGGTC-CCCGGGG-TCAAGATGGgaagagctatgcccttgccaaaggcataaataaaaggcataaatagggt
gi|34 : attattgGATGTGGCCCATGGGCCTCTTGTT---ATTA-AT---
gi|35 : GGA-AA-AT-CG-----T-------CTTCT-C-AAAAAC--CAT---TACA--C--CAGA-AGGGTGGGTA-Tataaaattaggtaatgaat
gi|38 : agAGGG-AACAT----------------CTTCT-C-AAGAAC--CAT---T--G--CATCAGA-AGGGTGGGT
gi|39 : aaGCTATGTGGCCCATGGGCCTCTTGTTAGCATTG-GT---TAC
gi|4 : GATG--AG-----------GC-C-TC--GAT------------G-GGGAGTATGGAAATTA-A--T--TTGT-A--CATA--T-AT---TTATGTAT-------T-TT-----T-------TTTCTTC-AAGTTCTTCAT---T--G--T--CTTA-AT-TTGTATAGCTTA---TCCA-CGT---GCTATC--GATATTTACAAGATAGATAATTTACAATATATAAAT-TGTTCAAAT-------CATGGCC-CCAAGGG-AAATGATGGGGCCGC---AGTAGAGAA-AGTTTAA--------CA--------TATA-T-GATGA--ATT-TTTGTAAAACATAATCTGAA-GA-ACA----GC---------------AATGC-ATGATTAATCATAATGATAAGCAT-TCATCCTCAGG-A--AGTGTAGATTTAAG--TTTCTTCAAA---T
gi|40 : attcaaatttgatgacacatgcacatcaaacgtttgaactaGGTGAGCGATGTGGTCCATGGGCTTCTTG-T---ATTA-
gi|41 : --CTCAGGTGAGCGATGTGGCCCATGGATCTCTtgt
gi|5 : TTCAAAT-CATGA--CC-------------TCCGG-G--GTAGGGTGT-GG-----------GC-CAAC--AAT------------A-GGGG--------ATCA-AAGG--TT-T-A--a
gi|6 : agtgagtgaccagtgactatgtatagttttcacctgagctgaaagctcttgaaagtgagcatttctaagcacctgttgtctgtcgtttgactttttctccagaaccacggtaccaaatttaagcaaacttggtacaaattatcctagggtgaaggggattgaagttttttaaaataaaggaccagacccctttcaaaggggaggtaatcacgaaaatgcaataaagggttatgtcatttaaaggcagctggagaAAGAACTTTATCT-CAGGAACCA-CTGGAGGC--CAGA-------AAAGTTGAAAT----A-TA----TTGAA-AAGGT-TC-----ATATTACTAGCTAGAGATTTAAAGTTT--CTTCAAATGCATGA--CCACCCCACCCCCCCCCCCG-G--TTAGGATG--TG-----------TC-C-ACCAAGT------------AAGGGG--------ATCA-A-GTCATT-T-A--CATG--C-AA---T-------------AC-TT-----T-------CTTCT-CTAAGAAT--CAT---T--GAAC--CAGA-ATGATGGATA-TTTA---T--CTTGAATAGCTT--CTGAT----------TGGATAATTCA-AAC-------TATG--AAGAT-------CAC-GCT-CCCAG
gi|7 : tgatgtctaaa-CATGC--GC-------------CCAGA-GTTGTAGGGTA--GG------------C-C-AT--AAT------------A-GGGG-------------GAGT--TT-TGA--TATA--CTGGTT-TTTTATTGGG-AA-ATATA-----T-------CTTTT-T-AAAA----CAT---C--G--T--C
gi|8 : tcttaagttgcagttgataaaagtagaatttagtagcatccttcacgggactatgtagtataaagaactgtttgagagaccgaCACATTG---TAAATTCCCAATCTTCTGC-CTTTCTATG-AAGCAAATGC----T-C--TTCAGGTGAGGGATTTGGCCCATGGGCCTCTTGTccccttctgactgcaagtgctgagtttgctaagtaacatagaagcatcgt
15 sequences could not be aligned to this reference sequence:
Unaligned ( gi|9 ): TATCCGTGAACCCCAACCTATCATATGTGGTCTCGTCTATTCTTATCATTGATGAAATGTTCAGTTATGCATTAAAAAATGCAGAAATTAAACTTTTAGTACCATACCTCTGAATATGAACATTGTAAATCCCAACCTTAGTACTTCTCTATAAG
Unaligned ( gi|12 ): AAGCAAAACATGTACAATTGAATATTTCACCTGGCACGCAATTTTATTGGCCGACGTTGAGTTGAAAGGCCAAGTGAACTATTCTGGTCAAAATATCAGTATGTCCGTTTGGAAATTTTT
Unaligned ( gi|19 ): TTTTAGTTTTACACGATTACTTATAAGTTCAGGTGAGCTTTTTTTGATCACCATTTGTCCAGTGTTGTATGTACAACATTTTTTTACTTCTCCAG
Unaligned ( gi|20 ): AAAGTTTGAGGTTTATTTGGGGAATTCAAACTATGTTTAAAAAAAGGCTTCTTCTGCAGAGTTTGTCAAATATTAACATGGAAGCATCATTGT
Unaligned ( gi|21 ): TTTTTAGTTTACCTGAGCTATAAAGTTCAAGTGAATTTTCTTATCACCTGTTCTCCATAGACTTTCCACATTATTGCTATTAGTTTTT
Unaligned ( gi|22 ): TCAAGATGACAGAGAATGATGTAGTCCATACCTTTAACATATTGGCACATTGAAATCTCGACTTTTGCATTCCTATGAAGCGAAGTG
Unaligned ( gi|23 ): CCTTTTGAATATGTTGAGCACATGTAAATCAAAACTCTCTATGAAGCAAGGTCAGGTGAGCAAATGTGGCTGTAAGTGGCCTCTTG
Unaligned ( gi|25 ): TTTTTAGCTCACCTGAGCTACATGTGTATAAACTCAAGGGAGCTTTCTGAAAGCCTGTTGTCTTTCAGACCGTAAACTT
Unaligned ( gi|26 ): CTTAATGATTCACCGAATCAAGTATGTGGTCCACGACACATCTTGTTAGCTCACCTGAACCGACGGTTCAAGTGAG
Unaligned ( gi|28 ): CTCATCTGAGCTATAAGCTCATGTTAGCTTTTCTGATCACCCACTGCTTACAATCTCTTCGTAAACTT
Unaligned ( gi|30 ): TGAATATAACTCCATTGATCTTTCCTGATCACCCATACTCTGTCTGTCTGTAAACTTTACATATT
Unaligned ( gi|32 ): TAGTTTCACCTGAGCTGAAAGTCAAGAGAGCTATTTGATAAAAATTGTCCGGTTG
Unaligned ( gi|33 ): AAGAACTGCAAGTGCAGAGTTTGTCAAGTATTGACAAGTAACCATCATGGT
Unaligned ( gi|36 ): TTAAGAACGGAAATTGTTTGTAGCTCACCTGAACCAAAGGTTTAAGT
Unaligned ( gi|37 ): GGGGGTAAACAAAACTAGTTCAAATGAAGGACCAGGCCCCCATCA
Alignments
lowQualScore : 4 999999999999 2 333 333 22222 2 2 222 222222 2222222222222222 11111 333333333 2222222222222 1111 11 11111111 11111 3333333333333333333333333333333 111111111111 2222222222 333333333333333 2222222 2222222 11111 333333 1 555555555555555555 111 11111 2 333333333333 1111 111 22222222 2222222 11 1 1 1111 777777777777777777777777777777777777777777 1111 11 1 2222 3333333 11 222 22 33333333 111 1 11111 55555555555555 111 11 1 22222 11 111 33333 1 1 1 222
lowQualScore : 0 1 1 000000000000 0 2 555 666 3 88888 0 0 0 0 222 0 8 666666 0 4444444444444444 3 22222 222222222 1 6 5 66 7777777777777 2 0000 3 00 0 4 55 66 4 66666666 4 44444 5 5 6666666666666666666666666666666 66 4 4 66 555555555555 0 5 555 6 9999999999 88 888 3 111111111111111 6 1111111 6 1111111 1 6 6 22222 0 222222 11 0 6 1 999999999999999999 111 1 77777 8 1 66 6 0 1 000000000000 333 1 4444 6 111 1 44444444 6 99 8888888 44 0 0 8888 111111111111111111111111111111111111111111 4444 33 2 0 4444 2222222 6 88 1 666 33 1 1 1 1 44444444 1 1 9 777 99 44 0 33333 1 7 77777777777777 3 3 3 999999 5 111 1 22 0 55555 33 3 444 33333 1 3 3 1 7 1 5 111
lowQualScore : . . . ............ . . ... ... . ..... . . . . ... . . ...... . ................ . ..... ......... . . . .. ............. . .... . .. . . .. .. . ........ . ..... . . ............................... .. . . .. ............ . . ... . .......... .. ... . ............... . ....... . ....... . . . ..... . ...... .. . . . .................. ... . ..... . . .. . . . ............ ... . .... . ... . ........ . .. ....... .. . . .... .......................................... .... .. . . .... ....... . .. . ... .. . . . . ........ . . . ... .. .. . ..... . . .............. . . . ...... . ... . .. . ..... .. . ... ..... . . . . . . . ...
lowQualScore : 0 0 0 000000000000 0 5 000 555 0 55555 0 0 8 8 222 8 0 222222 3 0000000000000000 2 00000 222222222 0 7 1 44 5555555555555 2 1111 2 66 1 4 44 11 4 11111111 4 66666 0 0 4444444444444444444444444444444 11 4 4 11 111111111111 7 7 000 7 0000000000 88 222 2 777777777777777 7 7777777 7 7777777 7 7 3 22222 8 888888 55 0 5 0 888888888888888888 000 0 88888 0 4 77 7 0 0 888888888888 555 7 2222 7 222 0 33333333 7 22 7777777 00 0 0 5555 222222222222222222222222222222222222222222 8888 88 5 0 3333 3333333 0 00 0 000 55 0 0 0 0 00000000 0 0 8 555 55 22 0 88888 0 3 22222222222222 6 6 6 888888 7 777 0 55 0 00000 88 2 000 33333 0 3 3 0 3 0 0 555
consensus : NNNNNNNNNNTATATTAGAGAT-CAAGTTTGTTCANATCATGGCCCCTGGGGATCCAATGGGCCCCGATANGATTGATTNTAGTNTTACATGTGAAGTGTACTGGGGAAAATCTTTAAAAATCTTCTC--CAAGAACCA-CTGG---C--CAGAAAAGTTGAAAT-TT-A-TA----T---AAAGCTTCCCT-GATAT----AG-TGNAGATTCAA-GTTTGTTCAAAT-CATGACC-------------CCGGG-G--GTAGGATG--GGGC-C-NC--AATA-GGGG--------ATCA-AAGT--TT-T-ACATGC-GA---TTATATAGGG-AA-AT-TT-----T--CTTCT-C-AAGAAC--CAT---T--G--C--CAGA-ANGNTGGATA-TTTA---T--AC--GAA-AGCTTTCCTGATAT-----AG-TGGA-GATTCA-AGT-------T-TGTTCAAAT-------CATGGCC-CCCGGGG-TAACGATGGGGCCGC---AGGGGACTA-AGTTTNA--------CATA--A--TTATA-T-GGNGAA---TC-TTTAAAAATCTTCTTCTCAA-GA-CCACTGGGCCAG----A-------AAAGCTAAAATTTAT----ATGA-AAGC-T-TCNT-----GGTAT-AGTGGAGATTCAAG--TTTGTTCAAA---TCG-GACCCCG-GGGT-AG-G-TN-GGGCCACAA---------TAAGGG---AT-NAAT---------------A-TT-T--ACATG--CAAATATATAGGG-AAAT-TTTTAAAAATCTTCTCAAG-ANCATTGAACCAGANGAGTGGATATTCATCTGAAAGCTTCCTNATATGGAGTAGATTCANGTTTGTNCAGATNATGCCCTCCCACACTCCGAGNGTTGGGTAGGGGCACATTG---TAAATTCCNAA-CTTCTGC-CTTTCTNTGTGAGTA---GC----T-C--CTCAGGTGAGC-GATGTGGCC-CATG-GGCCTCTTGTT---ATTA-AT---TACNAGTAA-CAATAA-AA-----TTT--AACA-TTAATTATAA-----TAATTNTAATA-GT-ANAAATTCAAAGTTTGAACATTNTTTTGCTGAATTAGTACTG
Reference ( family-965 ) : NNNNNNNNNNTATATTAGAGATTCAAGTTTGTTCANATCATGNCCCCCGGGGGT--AGTGGGCCC-GATAGG---GATTN-AGTTTTACATA-GA--TATAC-GGG-AAAATCTTTAAAAATCTTCTC--CAAGAACCA-CTGG---C--CAGAAAAGTTGAAAT-TT-A-TA----T---AAAGCTTCCCT-GATAT----AG-TGNAGATTCAA-GTTTGTTCAAAT-CATGACC-------------CCGGG-G--GTAGGATG--GGGC-C-NC--AATA-GGGG--------ATCA-AAGT--TT-T-ACATGC-GA---TTATATAGGG-AA-AT-TT-----T--CTTCT-C-AAGAAC--CAT---T--G--C--CAGA-ANGNTGGATA-TTTA---T--AC--GAA-AGCTTTCCTGATAT-----AG-TGGA-GATTCA-AGT-------T-TGTTCAAAT-------CATGGCC-CCCGGGG-TAACGATGGGGCCGC---AGGGGACTA-AGTTTNA--------CATA--A--TTATA-T-GGNGAA---TC-TTTAAAAATCTTCTTCTCAA-GA-CCACTGGGCCAG----A-------AAAGCTAAAATTTAT----ATGA-AAGC-T-TCNT-----GGTAT-AGTGGAGATTCAAG--TTTGTTCAAA---TCG-GACCCCG-GGGT-AG-G-TN-GGGCCACAA---------TAAGGG---AT-NAAT---------------A-TT-T--ACATG--CAAATATATAGGG-AANTCNTTTAAAAATCTTCTCAAG-ACCATCGAACCAGANGAGTGGANATTCNTCTGAAAGCTTCCTNATATGGAGTAGATTCANGTTTGTNCAGATNATGCCCTCCCACACTCCGAGNGTTGGGTAGGGNCACATTG---TAAATTCCNAA-CTTCTGC-CTTTCTNTGTGAGTA---GC----T-C--CTCAGGTGAGC-GATGTGGCC-CATG-GGCCTCTTGTT---ATTA-AT---TACNAGTAA-CAATAA-AA-----TTT--AACA-TTAATTATAA-----TAATTNTAATA-GT-ANAAATTCAAAGTTTGAACATTNTTTTGCTGAATTAGTACTG
gi|1 : TATATTAGAGAT-CAAGTTTGTTCAAATCATGACCCCTGGGGATCCAATGGGCCCCGATAGG---GATTATAGTTTTACATATGA--TATAT-GGGGAAAATCTTTAAAA-TCTTCTC--CAAGAACAA-CTGG---C--CAGAAAAGCTGAAAT-TC-A-TA----T---AAAGCTTCCCT-GATAT----A--TGCAGATTCAA-GTTTGTTCATAT-CATGACC-------------CCGGG-A--GTACGATG--GGGC-C-CC--AATA-GGGG--------ATCA-AAGT--TT-T-ACATAT-GA---TTATATAGGG-AA-AT-TT-----T--CTTCT-C-AAGAAC--CAC---T--G--C--CAGAGAAGCTGGA-A-TTTA---T--AT--GAA-AGCTTTCCTGATAT-----AG-TGGA-GATTCC-AGT-------T-TGTTCAAAT-------CATGACC-CTCGGGGTTAACGATGGGGCCCCT--AGGGGATTA-AGTTTTA--------CATATGA--TTATA-TAGGAAAA---TC-TTTATAAATCTTCTTCTCAA-GA-CCACTGGGCCAG----A-------AAAGCTGAAATTTAT----ATGA-AAGC-T-TCCT------GTAT-AGTGAAGA-TGAAT--TTTGTCCAAA---TC--GACCCCG-GGGT-AATG-TG-GGACCACAA---------TAAGGG---AT-CAAT---------------ATTT-T--ACATG--CAAATATATAGGGAAATTCTTTTTAAAATCTTCT------TCATTGAAC--GACGAGTG---ATTC--CTGAAAGCTTCCTGATATGGAGTAGATTTATGTTTGTTTAGATAATACCTTCCCACACTCCGAGGGTTGGGTGGGGTCACATAGGATTAAAGTGCT-A-CTACTGCGCTTTCTTTGTGAGTA---GT----T-T--CTCAGGTGAGC-GATGTGGCC-CATG-GACCTCTTGTT---ATTA-AT---TACTAGTAATCAATAA-AA-----TTT--GACA-CTAATTATAGTTTTCTAATCCTTATATGTGACAAAT--AAGGTTTGAAAATTATTTTGCTG---TAGTATTG
gi|10 : caagatgcatTATGGGTA--------------CTTAAGTGAGC-AGTGTGGCC-CACC-GACCTCTTGTC-----TG-ATGGATACGAGTGA-CAATAA-AACAGACTTT--AACA-G-AGTGAAAA-----TAATTTTAATA-GT-ATAAATTCAAAGTTTGAACATTCTTTTG-TGAATTAGTACTGt
gi|11 : GT-AG-G-TTTAGGCCACAA---------TAAGGA---AT-GTAA---------------A-TTGT--CCATG--CAAATATATAGGG-
gi|13 : caatgaagaaacattgggccagaaatttcagtcttttacggttgtagaattatgagtgtaaaattgatggccttcttacatgtaGAAAGTTTGAAAA-TG-A-TAAGCAT---ACAGTCACCCTCGGT-T----AG-TGCAGACACAA-GTT-GTTTAAAT-CATTGTA-------------CTGGGAG--GAATGGTG--GGAC-A-AC--AATA-AGGG--------ATCA-GCAT--TT-T-ACAT
gi|14 : --CAAGAAAGTTGAAATACT-AGTA----T--------TTTGGT-GAT---------TGTAGATTCAA-GTTTGTTCACA--CATGATC-------------TTGGA-G--GT----CG--AGGCAC-TC--CATA--AGG--------ATTA-A
gi|15 : atatttgacatttattttaaagaaAA-----TCATTGTAATA-GT-AGAAAATCTAAGTTTGAAC
gi|16 : agtgcagagtcttatcaaataaagactggagagcAGTTTGTTCATATCATGGTTC------------TGGGTCC-AATACGATTGATTT--GTGTTACATG-GAAGTGTACTGGG-AAAATCTCT-AATATCTTCTT-----GA--CA-GTGG---CAGCAGAAtcacaagggggcgattcggccctgcggtcaggacgggcggcaca
gi|17 : ttgAA-GTTTATTCG------TGGCC-------------CCAGA-----T-GGATGTTGGGC-C-TC--AATA-GGG---------ATCATAA----TT-T-ACATG--GAAATTTGCATA--------T-TT-----T--CTTAT-C-AAGAAC--C
gi|18 : tgaggatttcagcaagt-TTTAAAAATCTTCT---CAA-GAACCACTGGGCCAG----A-------AGAGCTAAAATTTAT----ATAA-AAGC-T-TCAT-----GACAT-AGTGGAGATTCAAG--TTTGTT
gi|2 : gT-TT-----TGACTTCT-C-CAGAAC--CGCCTCT--G--C--CA-A-ATTTAACATA-TTTTGGTT--AC--AAA-ATCAATCTTGG-GT-----GA-AGGG-GATACA-AGT-------T-AGTTCAAATGAAGAACCA-GGTC-CCC------ATCAA--AGGC-------GGAGACTA-A--TTCATGAAAATGCAAA--A--ATAAAGT-GGTG-----TCATTTAAAAATCTTCTCAACAA-GAACCATTGGGCCAG----A-------AAAGCTGAAATTTAT----ATGA-AAGC-T-TCCT-----GATAT-AGTGGAGATTCAAG--TTTGTTCAAA---TCATGACCCCATGGGT-AG-GATG-GGGCCACAA---------TAGGGG---ATGAAAT---------------T-TT-T--ACATG--CAAATATAAAGGG-AAA--ATCTAATAATCTTCTCAAGTACCATTGAACCAGAAGAGTGGATATTTATCTGAAAGCTTCCTCATATGAAGTAAATTCAAGTTTGTACAGATCATGTCCTCCC--------AGTGTAGGGTAGGGCCACAacagtctatc
gi|2 : tttagcttcgacacctgaaccgaaggttcaagtgagctttttctgatctgccgttgtcatccgtctgtctgtaactttcacattTTTAAAAATCTTCTCAACAAGAACCA-TTGGG--C--CAGAAAAGCTGAAAT-TT-A-TA----TG--AAAGCTT-CCT-GATAT----AG-TGGAGATTCAA-GTTTGTTCAAAT-CATGACC-------------CCATG-G--GTAGGATG--GGGC-C-AC--AATA-GGGG--------ATGA-AATT--TT-T-ACATGC-AA---ATATAAAGGGAAA-AT-CTAATAAT--CTTCT-C-AAGTAC--CAT---T--GAAC--CAGA-AGAGTGGATA-TTTA---T--CT--GAA-AGC-TTCCTCATATGA---AG-T--A-AATTCA-AGT-------T-TGTACAGAT-------CATGTCCTCCCAGTG-TAG-GGTAGGGCCACAAAAGGGGGCCAGAATTTGA--------TATA--GGTTTATA-T-TGGGAACTGTC-TTAAAAAATCTTCTCATCAAGGA-CTGCAAGTGCAG----AGTTTGTCAAA--TAAAA---AC----GTGG-AAGC-CATCAT-----TGTAT-TGTGAAGATTCAAGTTTTTGTTCAAATGGTGG-GCCCCCA-GGGTCAG-G-AT-GGGCCACAACTCTGGCCCTAATGACTTAT-TAGTTAAACAATCTAAATGA-TT-TAGACATGATCCACTATGTA----AAAT-TTTAAAAAATCTTCTCAAGAAACATTGAaaagggggccagaatttgatataggtttatattgggaactgtcttaaaaaatcttctcatcaaggactgcaagtgcagagtttgtcaaataaaaacgtggaagccatcattgtattgtgaagattcaagtttttgttcaaatggtgggcccccagggtcaggatgggccacaactctggccctaatgacttattagttaaacaatctaaatgatttagacatgatccactatgtaaaattttaaaaaatcttctcaagaaacattgagag
gi|23 : tttagcttcgacacctgaaccgaaggttcaagtgagctttttctgatctgccgttgtcatccgtctgtctgtaactttcacattttttgacttctccagaaccgcctctgccaaatttaacatattttggttacaaaatcaatcttgggtgaaggggatacaagttagttcaaatgaagaaccaggtccccatcaaaggcggagactaattcatgaaaatgcaaaaataaagtggtgtcaGAGCACAT-G---TAAAT--CAAA-ACTCT-------CTATG-AAGCAAG-G-----------TCAGGTGAGCAAATGTGGCTGTAAGTGGCCTCTTGgag
gi|24 : ccttttgaatatgttGTGTGTA---GC----TGCTGCTCAGGCGAGC-CGTGTGGCC-TATG-GACTGCTTGT-----TCA-AT---CATCAGAAA-CAATAATTA-----TTT--A--A-TTAAGTATA
gi|27 : AGGTGAGT-GATGTGGCC-CATG-GTCCTCTTG-T---ATTATGT---TGCAAATAA--ATTGA-AA-----TGTACAACAGTTGATTAT
gi|29 : TTTAAAAATCTTGT---CAAGAACCATCAGG---A--CAGAAAGGACAAAAC-TTGA-TT----T---AAA
gi|3 : TTGAATAGTGGCACATTG---TAAATCCTAAA-CTTCTGT-TCTTCTCAATGA--A---GCAAAAT-G--TTCAGGTGAGC-GATGTGGCC-CGTC-AGCCTCTTGTT---Aaattattcatg
gi|3 : atgacccccacttatcgtacatggttaccagtcttattttcttattgatgaatgttcattgaaggtattggaagatgacagaggttaactctagtccatacctCTTCTTCTCCA-GATCCACTGGGCCAATTTCA-------A----TAAACCTTGG----TTCA-CTAC-A-TCTT-----GG-ATGAAAGGA-ATTCAAG--TTTATTCAAA---Tgcttacctgagctgaaaattcaagtgagctattctgatcacccgttgtctgtctgtctgtaaactttcacattttgtacttcttctccagatccactgggccaatttcaataaaccttggttcactacatcttggatgaaaggaattcaagtttattcaaatgaagagctatgcccttgccaaaggcataaataaaaggcataaatagggt
gi|31 : atgacccccacttatcgtacatggttaccagtcttattttcttattgatgaatgttcattgaaggtattggaagatgacagaggttaactctagtccatacctttgaatagtggcacattgtaaatcctaaacttctgttcttctcaatgaagcaaaatgttcaggtgagcgatgtggcccgtcagcctcttgttagcttacctgagctgaaaattcaagtgagctattctgatcacccgttgtctgtctgtctgtaaactttcacattttgtaTAG-----AG-TATA-GATTCA--TT-------T-TTTTTAAAT-------GGTGGTC-CCCGGGG-TCAAGATGGgaagagctatgcccttgccaaaggcataaataaaaggcataaatagggt
gi|34 : attattg-GATGTGGCC-CATG-GGCCTCTTGTT---ATTA-AT---
gi|35 : GGA-AA-AT-CG-----T--CTTCT-C-AAAAAC--CAT---TACA--C--CAGA-AGGGTGGGTA-Tataaaattaggtaatgaat
gi|38 : agAGGG-AACAT-----------CTTCT-C-AAGAAC--CAT---T--G--CATCAGA-AGGGTGGGT
gi|39 : aaGC-TATGTGGCC-CATG-GGCCTCTTGTTAGCATTG-GT---TAC
gi|4 : GATG--AGGC-C-TC--GATG-GGGAGTATGGAAATTA-A--T--TTGT-ACATAT-AT---TTATGTAT-------T-TT-----T--TTTCTTC-AAGTTCTTCAT---T--G--T--CTTA-AT-TTGTATAGCTTA---TCCAC--GT---GCTATC--GATATTTACAAGATAGATAATTTACAATATATAAAT-TGTTCAAAT-------CATGGCC-CCAAGGG-AAATGATGGGGCCGC---AGTAGAGAA-AGTTTAA--------CA--------TATA-T-GATGAA---TT-TTTGTAAAACATAATCTGAA-GA-ACA----GC---------------AATGC-ATGATTAATCATAATGATAAGCAT-TCATCCTCAGG-A--AGTGTAGATTTAAG--TTTCTTCAAA---T
gi|40 : attcaaatttgatgacacatgcacatcaaacgtttgaactaGGTGAGC-GATGTGGTC-CATG-GGCTTCTTG-T---ATTA-
gi|41 : --CTCAGGTGAGC-GATGTGGCC-CATG-GATCTCTtgt
gi|5 : TTCAAAT-CATGACC-------------TCCGG-G--GTAGGGTGT-GGGC-CAAC--AATA-GGGG--------ATCA-AAGG--TT-T-Aa
gi|6 : agtgagtgaccagtgactatgtatagttttcacctgagctgaaagctcttgaaagtgagcatttctaagcacctgttgtctgtcgtttgactttttctccagaaccacggtaccaaatttaagcaaacttggtacaaattatcctagggtgaaggggattgaagttttttaaaataaaggaccagacccctttcaaaggggaggtaatcacgaaaatgcaataaagggttatgtcatttaaaggcagctggagaAAGAACTTTATCT-CAGGAACCA-CTGGAGGC--CAGAAAAGTTGAAAT----A-TA----TTGAAAAGGTTC-----ATATTACTAGCTAGAGATTTAAAGTTTCTTCAAATGCATGACCACCCCACCCCCCCCCCCG-G--TTAGGATG--TGTC-C-ACCAAGTAAGGGG--------ATCA-A-GTCATT-T-ACATGC-AA---T-------------AC-TT-----T--CTTCT-CTAAGAAT--CAT---T--GAAC--CAGA-ATGATGGATA-TTTA---T---CTTGAATAGCTT--CTGAT----------TGGATAATTCA-AAC-------TATG--AAGAT-------CAC-GCT-CCCAG
gi|7 : tgatgtctaaa-CATGCGC-------------CCAGA-GTTGTAGGGTA--GG-C-C-AT--AATA-GGGG-------------GAGT--TT-TGATATACTGGTT-TTTTATTGGG-AA-ATATA-----T--CTTTT-T-AAAA----CAT---C--G--T--C
gi|8 : tcttaagttgcagttgataaaagtagaatttagtagcatccttcacgggactatgtagtataaagaactgtttgagagaccgaTTGAATAGTAGCACATTG---TAAATTCCCAATCTTCTGC-CTTTCTATG-AAGCAAATGC----T-C--TTCAGGTGAGG-GATTTGGCC-CATG-GGCCTCTTGTccccttctgactgcaagtgctgagtttgctaagtaacatagaagcatcgt
14 sequences could not be aligned to this reference sequence:
Unaligned ( gi|9 ): TATCCGTGAACCCCAACCTATCATATGTGGTCTCGTCTATTCTTATCATTGATGAAATGTTCAGTTATGCATTAAAAAATGCAGAAATTAAACTTTTAGTACCATACCTCTGAATATGAACATTGTAAATCCCAACCTTAGTACTTCTCTATAAG
Unaligned ( gi|12 ): AAGCAAAACATGTACAATTGAATATTTCACCTGGCACGCAATTTTATTGGCCGACGTTGAGTTGAAAGGCCAAGTGAACTATTCTGGTCAAAATATCAGTATGTCCGTTTGGAAATTTTT
Unaligned ( gi|19 ): TTTTAGTTTTACACGATTACTTATAAGTTCAGGTGAGCTTTTTTTGATCACCATTTGTCCAGTGTTGTATGTACAACATTTTTTTACTTCTCCAG
Unaligned ( gi|20 ): AAAGTTTGAGGTTTATTTGGGGAATTCAAACTATGTTTAAAAAAAGGCTTCTTCTGCAGAGTTTGTCAAATATTAACATGGAAGCATCATTGT
Unaligned ( gi|21 ): TTTTTAGTTTACCTGAGCTATAAAGTTCAAGTGAATTTTCTTATCACCTGTTCTCCATAGACTTTCCACATTATTGCTATTAGTTTTT
Unaligned ( gi|22 ): TCAAGATGACAGAGAATGATGTAGTCCATACCTTTAACATATTGGCACATTGAAATCTCGACTTTTGCATTCCTATGAAGCGAAGTG
Unaligned ( gi|25 ): TTTTTAGCTCACCTGAGCTACATGTGTATAAACTCAAGGGAGCTTTCTGAAAGCCTGTTGTCTTTCAGACCGTAAACTT
Unaligned ( gi|26 ): CTTAATGATTCACCGAATCAAGTATGTGGTCCACGACACATCTTGTTAGCTCACCTGAACCGACGGTTCAAGTGAG
Unaligned ( gi|28 ): CTCATCTGAGCTATAAGCTCATGTTAGCTTTTCTGATCACCCACTGCTTACAATCTCTTCGTAAACTT
Unaligned ( gi|30 ): TGAATATAACTCCATTGATCTTTCCTGATCACCCATACTCTGTCTGTCTGTAAACTTTACATATT
Unaligned ( gi|32 ): TAGTTTCACCTGAGCTGAAAGTCAAGAGAGCTATTTGATAAAAATTGTCCGGTTG
Unaligned ( gi|33 ): AAGAACTGCAAGTGCAGAGTTTGTCAAGTATTGACAAGTAACCATCATGGT
Unaligned ( gi|36 ): TTAAGAACGGAAATTGTTTGTAGCTCACCTGAACCAAAGGTTTAAGT
Unaligned ( gi|37 ): GGGGGTAAACAAAACTAGTTCAAATGAAGGACCAGGCCCCCATCA
Alignments
lowQualScore : 1 11 3333333333 222 111 1 11 222 222 222222 2222222222222222 11111 333333333 2222222222222 1111 11 11111111 11111 3333333333333333333333333333333 111111111111 2222222222 333333333333333 2222222 2222222 11111 333333 1 555555555555555555 111 11111 2 333333333333 1111 111 22222222 2222222 11 1 1 1111 444444444 111 7777777777777777777 1111 11 222 22222 11 222 11 33333333 111 1 11111 55555555555555 111 11 1 22222 11 111 33333 1 1 1 222
lowQualScore : 1 5 88 8888888888 1 111 999 1 5 88 111 0 0 222 0 8 666666 0 4444444444444444 3 22222 222222222 1 6 5 66 7777777777777 2 0000 3 00 0 4 55 66 4 66666666 4 44444 5 5 6666666666666666666666666666666 66 4 4 66 555555555555 0 5 555 6 9999999999 88 888 3 111111111111111 6 1111111 6 1111111 1 6 6 22222 0 222222 11 0 6 1 999999999999999999 111 1 77777 8 1 66 6 0 1 000000000000 333 1 4444 6 111 1 44444444 6 99 8888888 44 0 0 8888 000000000 777 1 7777777777777777777 4444 33 2 555 99999 1 88 1 111 88 1 1 1 1 44444444 1 9 777 99 44 0 33333 1 7 77777777777777 3 3 3 999999 5 111 1 22 0 55555 33 3 444 33333 1 3 3 1 7 1 5 111
lowQualScore : . . .. .......... . ... ... . . .. ... . . ... . . ...... . ................ . ..... ......... . . . .. ............. . .... . .. . . .. .. . ........ . ..... . . ............................... .. . . .. ............ . . ... . .......... .. ... . ............... . ....... . ....... . . . ..... . ...... .. . . . .................. ... . ..... . . .. . . . ............ ... . .... . ... . ........ . .. ....... .. . . .... ......... ... . ................... .... .. . ... ..... . .. . ... .. . . . . ........ . . ... .. .. . ..... . . .............. . . . ...... . ... . .. . ..... .. . ... ..... . . . . . . . ...
lowQualScore : 0 0 00 5555555555 0 555 555 0 5 00 000 8 8 222 8 0 222222 3 0000000000000000 2 00000 222222222 0 7 1 44 5555555555555 2 1111 2 66 1 4 44 11 4 11111111 4 66666 0 0 4444444444444444444444444444444 11 4 4 11 111111111111 7 7 000 7 0000000000 88 222 2 777777777777777 7 7777777 7 7777777 7 7 3 22222 8 888888 55 0 5 0 888888888888888888 000 0 88888 0 4 77 7 0 0 888888888888 555 7 2222 7 222 0 33333333 7 22 7777777 00 0 0 5555 000000000 555 0 5555555555555555555 8888 88 5 777 77777 0 00 0 000 55 0 0 0 0 00000000 0 8 555 55 22 0 88888 0 3 22222222222222 6 6 6 888888 7 777 0 55 0 00000 88 2 000 33333 0 3 3 0 3 0 0 555
consensus : NNNNNNNNNNTATATTAGAGATCAAGTTTGTTCANATCATGGCCCCTGGGGATCCAATGGGCCCCGATANGATTGATTNTAGTNTTACATGTGAAGTGTACTGGGGAAAATCTTTAAAAATCTTCTC--CAAGAACCA-CTGG---C--CAGAAAAGTTGAAAT-TT-A-TA----T---AAAGCTTCCCT-GATAT----AG-TGNAGATTCAA-GTTTGTTCAAAT-CATGACC-------------CCGGG-G--GTAGGATG--GGGC-C-NC--AATA-GGGG--------ATCA-AAGT--TT-T-ACATGC-GA---TTATATAGGG-AA-AT-TT-----T--CTTCT-C-AAGAAC--CAT---T--G--C--CAGA-ANGNTGGATA-TTTA---T--AC--GAA-AGCTTTCCTGATAT-----AG-TGGA-GATTCA-AGT-------T-TGTTCAAAT-------CATGGCC-CCCGGGG-TAACGATGGGGCCGC---AGGGGACTA-AGTTTNA--------CATA--A--TTATA-T-GGNGAA---TC-TTTAAAAATCTTCTTCTCAA-GA-CCACTGGGCCAG----A-------AAAGCTAAAATTTAT----ATGA-AAGC-T-TCNT-----GGTAT-AGTGGAGATTCAAG--TTTGTTCAAA---TCG-GACCCCG-GGGT-AG-G-TN-GGGCCACAA---------TAAGGG---ATNAA-T---------------A-TT-T--ACATG--CAAATATATAGGGAAAT--TTTTAAAAATCTTCTCAAG-ANCATTGAACCAGANGAGTGGATATTCATCTGAAAGCTTCCTNATATGGAGTAGATTCANGTTTGTNCAGATNATGCCCTCCCACACTCCGAGNGTTGGGTAGGGGCACATTG---TAAATTCCNAA-CTTCTGC-CTTTCTNTGTGAGTA---GC----T-C--CTCAGGTGAGC-GATGTGGCC-CATG-GGCCTCTTGTT---ATTA-AT---TACNAGTAA-CAATAA-AA-----TTT--AACA-TTAATTATAA-----TAATTNTAATA-GT-ANAAATTCAAAGTTTGAACATTNTTTTGCTGAATTAGTACTG
Reference ( family-965 ) : NNNNNNNNNNTATATTAGAGATCAAGTTTGTTCANATCATGGCCCCTGGGGATCCAATGGGCCCCGATANGATTGATTNTAGTNTTACATGTGAAGTGTACTGGGGAAAATCTTTAAAAATCTTCTC--CAAGAACCA-CTGG---C--CAGAAAAGTTGAAAT-TT-A-TA----T---AAAGCTTCCCT-GATAT----AG-TGNAGATTCAA-GTTTGTTCAAAT-CATGACC-------------CCGGG-G--GTAGGATG--GGGC-C-NC--AATA-GGGG--------ATCA-AAGT--TT-T-ACATGC-GA---TTATATAGGG-AA-AT-TT-----T--CTTCT-C-AAGAAC--CAT---T--G--C--CAGA-ANGNTGGATA-TTTA---T--AC--GAA-AGCTTTCCTGATAT-----AG-TGGA-GATTCA-AGT-------T-TGTTCAAAT-------CATGGCC-CCCGGGG-TAACGATGGGGCCGC---AGGGGACTA-AGTTTNA--------CATA--A--TTATA-T-GGNGAA---TC-TTTAAAAATCTTCTTCTCAA-GA-CCACTGGGCCAG----A-------AAAGCTAAAATTTAT----ATGA-AAGC-T-TCNT-----GGTAT-AGTGGAGATTCAAG--TTTGTTCAAA---TCG-GACCCCG-GGGT-AG-G-TN-GGGCCACAA---------TAAGGG---ATNAA-T---------------A-TT-T--ACATG--CAAATATATAGGGAAAT--TTTTAAAAATCTTCTCAAG-ANCATTGAACCAGANGAGTGGATATTCATCTGAAAGCTTCCTNATATGGAGTAGATTCANGTTTGTNCAGATNATGCCCTCCCACACTCCGAGNGTTGGGTAGGGGCACATTG---TAAATTCCNAA-CTTCTGC-CTTTCTNTGTGAGTA---GC----T-C--CTCAGGTGAGC-GATGTGGCC-CATG-GGCCTCTTGTT---ATTA-AT---TACNAGTAA-CAATAA-AA-----TTT--AACA-TTAATTATAA-----TAATTNTAATA-GT-ANAAATTCAAAGTTTGAACATTNTTTTGCTGAATTAGTACTG
gi|1 : TATATTAGAGATCAAGTTTGTTCAAATCATGACCCCTGGGGATCCAATGGGCCCCGATAGG---GATTATAGTTTTACATATGA--TATA-TGGGGAAAATCTTTAAAA-TCTTCTC--CAAGAACAA-CTGG---C--CAGAAAAGCTGAAAT-TC-A-TA----T---AAAGCTTCCCT-GATAT----A--TGCAGATTCAA-GTTTGTTCATAT-CATGACC-------------CCGGG-A--GTACGATG--GGGC-C-CC--AATA-GGGG--------ATCA-AAGT--TT-T-ACATAT-GA---TTATATAGGG-AA-AT-TT-----T--CTTCT-C-AAGAAC--CAC---T--G--C--CAGAGAAGCTGGA-A-TTTA---T--AT--GAA-AGCTTTCCTGATAT-----AG-TGGA-GATTCC-AGT-------T-TGTTCAAAT-------CATGACC-CTCGGGGTTAACGATGGGGCCCCT--AGGGGATTA-AGTTTTA--------CATATGA--TTATA-TAGGAAAA---TC-TTTATAAATCTTCTTCTCAA-GA-CCACTGGGCCAG----A-------AAAGCTGAAATTTAT----ATGA-AAGC-T-TCCT------GTAT-AGTGAAGA-TGAAT--TTTGTCCAAA---TC--GACCCCG-GGGT-AATG-TG-GGACCACAA---------TAAGGG---ATCAA-T---------------ATTT-T--ACATG--CAAATATATAGGGAAATTCTTTTTAAAATCTTCT------TCATTGAAC--GACGAGTG---ATTC--CTGAAAGCTTCCTGATATGGAGTAGATTTATGTTTGTTTAGATAATACCTTCCCACACTCCGAGGGTTGGGTGGGGTCACATAGGATTAAAGTGCT-A-CTACTGCGCTTTCTTTGTGAGTA---GT----T-T--CTCAGGTGAGC-GATGTGGCC-CATG-GACCTCTTGTT---ATTA-AT---TACTAGTAATCAATAA-AA-----TTT--GACA-CTAATTATAGTTTTCTAATCCTTATATGTGACAAAT--AAGGTTTGAAAATTATTTTGCTG---TAGTATTG
gi|10 : caagatgcatTATGGGTA--------------CTTAAGTGAGC-AGTGTGGCC-CACC-GACCTCTTGTC-----TG-ATGGATACGAGTGA-CAATAA-AACAGACTTT--AACA-G-AGTGAAAA-----TAATTTTAATA-GT-ATAAATTCAAAGTTTGAACATTCTTTTG-TGAATTAGTACTGt
gi|11 : GT-AG-G-TTTAGGCCACAA---------TAAGGA---ATGTA-A---------------A-TTGT--CCATG--CAAATATATAGGG
gi|13 : caatgaagaaacattgggccagaaatttcagtcttttacggttgtagaattatgagtgtaaaattgatggccttcttacatgtaGAAAGTTTGAAAA-TG-A-TAAGCAT---ACAGTCACCCTCGGT-T----AG-TGCAGACACAA-GTT-GTTTAAAT-CATTGTA-------------CTGGGAG--GAATGGTG--GGAC-A-AC--AATA-AGGG--------ATCA-GCAT--TT-T-ACAT
gi|14 : --CAAGAAAGTTGAAATACT-AGTA----T--------TTTGGT-GAT---------TGTAGATTCAA-GTTTGTTCACA--CATGATC-------------TTGGA-G--GT----CG--AGGCAC-TC--CATA--AGG--------ATTA-A
gi|15 : atatttgacatttattttaaagaaAA-----TCATTGTAATA-GT-AGAAAATCTAAGTTTGAAC
gi|16 : agtgcagagtcttatcaaataaagactggagagcAGTTTGTTCATATCATGG-TTCTGGG--TCCA----------ATACGATTGATTT--GTGTTACATG-GAAGTGTACT-GGGAAAATCTCT-AATATCTTCTT-----GA--CA-GTGG---CAGCAGAAtcacaagggggcgattcggccctgcggtcaggacgggcggcaca
gi|17 : ttgAA-GTTTATTCG------TGGCC-------------CCAGA-----T-GGATGTTGGGC-C-TC--AATA-GGG---------ATCATAA----TT-T-ACATG--GAAATTTGCATA--------T-TT-----T--CTTAT-C-AAGAAC--C
gi|18 : tgaggatttcagcaagt-TTTAAAAATCTTCT---CAA-GAACCACTGGGCCAG----A-------AGAGCTAAAATTTAT----ATAA-AAGC-T-TCAT-----GACAT-AGTGGAGATTCAAG--TTTGTT
gi|2 : gT-TT-----TGACTTCT-C-CAGAAC--CGCCTCT--G--C--CA-A-ATTTAACATA-TTTTGGTT--AC--AAA-ATCAATCTTGG-GT-----GA-AGGG-GATACA-AGT-------T-AGTTCAAATGAAGAACCA-GGTC-CCC------ATCAA--AGGC-------GGAGACTA-A--TTCATGAAAATGCAAA--A--ATAAAGT-GGTG-----TCATTTAAAAATCTTCTCAACAA-GAACCATTGGGCCAG----A-------AAAGCTGAAATTTAT----ATGA-AAGC-T-TCCT-----GATAT-AGTGGAGATTCAAG--TTTGTTCAAA---TCATGACCCCATGGGT-AG-GATG-GGGCCACAA---------TAGGGG---ATGAAAT---------------T-TT-T--ACATG--CAAATATAAAGGGAAA---ATCTAATAATCTTCTCAAGTACCATTGAACCAGAAGAGTGGATATTTATCTGAAAGCTTCCTCATATGAAGTAAATTCAAGTTTGTACAGATCATGTCCTCCC--------AGTGTAGGGTAGGGCCACAacagtctatc
gi|2 : tttagcttcgacacctgaaccgaaggttcaagtgagctttttctgatctgccgttgtcatccgtctgtctgtaactttcacattTTTAAAAATCTTCTCAACAAGAACCA-TTGGG--C--CAGAAAAGCTGAAAT-TT-A-TA----TG--AAAGCTT-CCT-GATAT----AG-TGGAGATTCAA-GTTTGTTCAAAT-CATGACC-------------CCATG-G--GTAGGATG--GGGC-C-AC--AATA-GGGG--------ATGA-AATT--TT-T-ACATGC-AA---ATATAAAGGGAAA-AT-CTAATAAT--CTTCT-C-AAGTAC--CAT---T--GAAC--CAGA-AGAGTGGATA-TTTA---T--CT--GAA-AGC-TTCCTCATATGA---AG-T--A-AATTCA-AGT-------T-TGTACAGAT-------CATGTCCTCCCAGTG-TAG-GGTAGGGCCACAAAAGGGGGCCAGAATTTGA--------TATA--GGTTTATA-T-TGGGAACTGTC-TTAAAAAATCTTCTCATCAAGGA-CTGCAAGTGCAG----AGTTTGTCAAA--TAAAA---AC----GTGG-AAGC-CATCAT-----TGTAT-TGTGAAGATTCAAGTTTTTGTTCAAATGGTGG-GCCCCCA-GGGTCAG-G-AT-GGGCCACAACTCTGGCCCTAATGACTTATTAG-TTAAACAATCTAAATGA-TT-TAGACATGATCCACTATGTA---AAAT--TTTAAAAAATCTTCTCAAGAAACATTGAaaagggggccagaatttgatataggtttatattgggaactgtcttaaaaaatcttctcatcaaggactgcaagtgcagagtttgtcaaataaaaacgtggaagccatcattgtattgtgaagattcaagtttttgttcaaatggtgggcccccagggtcaggatgggccacaactctggccctaatgacttattagttaaacaatctaaatgatttagacatgatccactatgtaaaattttaaaaaatcttctcaagaaacattgagag
gi|23 : tttagcttcgacacctgaaccgaaggttcaagtgagctttttctgatctgccgttgtcatccgtctgtctgtaactttcacattttttgacttctccagaaccgcctctgccaaatttaacatattttggttacaaaatcaatcttgggtgaaggggatacaagttagttcaaatgaagaaccaggtccccatcaaaggcggagactaattcatgaaaatgcaaaaataaagtggtgtcaGAGCACAT-G---TAAAT--CAAA-ACTCT-------CTATG-AAGCAAG-G-----------TCAGGTGAGCAAATGTGGCTGTAAGTGGCCTCTTGgag
gi|24 : ccttttgaatatgttGTGTGTA---GC----TGCTGCTCAGGCGAGC-CGTGTGGCC-TATG-GACTGCTTGT-----TCA-AT---CATCAGAAA-CAATAATTA-----TTT--A--A-TTAAGTATA
gi|27 : AGGTGAGT-GATGTGGCC-CATG-GTCCTCTTG-T---ATTATGT---TGCAAATAA--ATTGA-AA-----TGTACAACAGTTGATTAT
gi|29 : TTTAAAAATCTTGT---CAAGAACCATCAGG---A--CAGAAAGGACAAAAC-TTGA-TT----T---AAA
gi|3 : TTGAATAGTGGCACATTG---TAAATCCTAAA-CTTCTGT-TCTTCTCAATGA--A---GCAAAAT-G--TTCAGGTGAGC-GATGTGGCC-CGTC-AGCCTCTTGTT---Aaattattcatg
gi|3 : atgacccccacttatcgtacatggttaccagtcttattttcttattgatgaatgttcattgaaggtattggaagatgacagaggttaactctagtccatacctCTTCTTCTCCA-GATCCACTGGGCCAATTTCA-------A----TAAACCTTGG----TTCA-CTAC-A-TCTT-----GG-ATGAAAGGA-ATTCAAG--TTTATTCAAA---Tgcttacctgagctgaaaattcaagtgagctattctgatcacccgttgtctgtctgtctgtaaactttcacattttgtacttcttctccagatccactgggccaatttcaataaaccttggttcactacatcttggatgaaaggaattcaagtttattcaaatgaagagctatgcccttgccaaaggcataaataaaaggcataaatagggt
gi|31 : atgacccccacttatcgtacatggttaccagtcttattttcttattgatgaatgttcattgaaggtattggaagatgacagaggttaactctagtccatacctttgaatagtggcacattgtaaatcctaaacttctgttcttctcaatgaagcaaaatgttcaggtgagcgatgtggcccgtcagcctcttgttagcttacctgagctgaaaattcaagtgagctattctgatcacccgttgtctgtctgtctgtaaactttcacattttgtaTAG-----AG-TATA-GATTCA--TT-------T-TTTTTAAAT-------GGTGGTC-CCCGGGG-TCAAGATGGgaagagctatgcccttgccaaaggcataaataaaaggcataaatagggt
gi|34 : attattg-GATGTGGCC-CATG-GGCCTCTTGTT---ATTA-AT---
gi|35 : GGA-AA-AT-CG-----T--CTTCT-C-AAAAAC--CAT---TACA--C--CAGA-AGGGTGGGTA-Tataaaattaggtaatgaat
gi|38 : agAGGG-AACAT-----------CTTCT-C-AAGAAC--CAT---T--G--CATCAGA-AGGGTGGGT
gi|39 : aaGC-TATGTGGCC-CATG-GGCCTCTTGTTAGCATTG-GT---TAC
gi|4 : GATG--AGGC-C-TC--GATG-GGGAGTATGGAAATTA-A--T--TTGT-ACATAT-AT---TTATGTAT-------T-TT-----T--TTTCTTC-AAGTTCTTCAT---T--G--T--CTTA-AT-TTGTATAGCTTA---TCCAC--GT---GCTATC--GATATTTACAAGATAGATAATTTACAATATATAAAT-TGTTCAAAT-------CATGGCC-CCAAGGG-AAATGATGGGGCCGC---AGTAGAGAA-AGTTTAA--------CA--------TATA-T-GATGAA---TT-TTTGTAAAACATAATCTGAA-GA-ACA----GC---------------AATGC-ATGATTAATCATAATGATAAGCAT-TCATCCTCAGG-A--AGTGTAGATTTAAG--TTTCTTCAAA---T
gi|40 : attcaaatttgatgacacatgcacatcaaacgtttgaactaGGTGAGC-GATGTGGTC-CATG-GGCTTCTTG-T---ATTA-
gi|41 : --CTCAGGTGAGC-GATGTGGCC-CATG-GATCTCTtgt
gi|5 : TTCAAAT-CATGACC-------------TCCGG-G--GTAGGGTGT-GGGC-CAAC--AATA-GGGG--------ATCA-AAGG--TT-T-Aa
gi|6 : agtgagtgaccagtgactatgtatagttttcacctgagctgaaagctcttgaaagtgagcatttctaagcacctgttgtctgtcgtttgactttttctccagaaccacggtaccaaatttaagcaaacttggtacaaattatcctagggtgaaggggattgaagttttttaaaataaaggaccagacccctttcaaaggggaggtaatcacgaaaatgcaataaagggttatgtcatttaaaggcagctggagaAAGAACTTTATCT-CAGGAACCA-CTGGAGGC--CAGAAAAGTTGAAAT----A-TA----TTGAAAAGGTTC-----ATATTACTAGCTAGAGATTTAAAGTTTCTTCAAATGCATGACCACCCCACCCCCCCCCCCG-G--TTAGGATG--TGTC-C-ACCAAGTAAGGGG--------ATCA-A-GTCATT-T-ACATGC-AA---T-------------AC-TT-----T--CTTCT-CTAAGAAT--CAT---T--GAAC--CAGA-ATGATGGATA-TTTA---T---CTTGAATAGCTT--CTGAT----------TGGATAATTCA-AAC-------TATG--AAGAT-------CAC-GCT-CCCAG
gi|7 : tgatgtctaaa-CATGCGC-------------CCAGA-GTTGTAGGGTA--GG-C-C-AT--AATA-GGGG-------------GAGT--TT-TGATATACTGGTT-TTTTATTGGG-AA-ATATA-----T--CTTTT-T-AAAA----CAT---C--G--T--C
gi|8 : tcttaagttgcagttgataaaagtagaatttagtagcatccttcacgggactatgtagtataaagaactgtttgagagaccgaTTGAATAGTAGCACATTG---TAAATTCCCAATCTTCTGC-CTTTCTATG-AAGCAAATGC----T-C--TTCAGGTGAGG-GATTTGGCC-CATG-GGCCTCTTGTccccttctgactgcaagtgctgagtttgctaagtaacatagaagcatcgt
14 sequences could not be aligned to this reference sequence:
Unaligned ( gi|9 ): TATCCGTGAACCCCAACCTATCATATGTGGTCTCGTCTATTCTTATCATTGATGAAATGTTCAGTTATGCATTAAAAAATGCAGAAATTAAACTTTTAGTACCATACCTCTGAATATGAACATTGTAAATCCCAACCTTAGTACTTCTCTATAAG
Unaligned ( gi|12 ): AAGCAAAACATGTACAATTGAATATTTCACCTGGCACGCAATTTTATTGGCCGACGTTGAGTTGAAAGGCCAAGTGAACTATTCTGGTCAAAATATCAGTATGTCCGTTTGGAAATTTTT
Unaligned ( gi|19 ): TTTTAGTTTTACACGATTACTTATAAGTTCAGGTGAGCTTTTTTTGATCACCATTTGTCCAGTGTTGTATGTACAACATTTTTTTACTTCTCCAG
Unaligned ( gi|20 ): AAAGTTTGAGGTTTATTTGGGGAATTCAAACTATGTTTAAAAAAAGGCTTCTTCTGCAGAGTTTGTCAAATATTAACATGGAAGCATCATTGT
Unaligned ( gi|21 ): TTTTTAGTTTACCTGAGCTATAAAGTTCAAGTGAATTTTCTTATCACCTGTTCTCCATAGACTTTCCACATTATTGCTATTAGTTTTT
Unaligned ( gi|22 ): TCAAGATGACAGAGAATGATGTAGTCCATACCTTTAACATATTGGCACATTGAAATCTCGACTTTTGCATTCCTATGAAGCGAAGTG
Unaligned ( gi|25 ): TTTTTAGCTCACCTGAGCTACATGTGTATAAACTCAAGGGAGCTTTCTGAAAGCCTGTTGTCTTTCAGACCGTAAACTT
Unaligned ( gi|26 ): CTTAATGATTCACCGAATCAAGTATGTGGTCCACGACACATCTTGTTAGCTCACCTGAACCGACGGTTCAAGTGAG
Unaligned ( gi|28 ): CTCATCTGAGCTATAAGCTCATGTTAGCTTTTCTGATCACCCACTGCTTACAATCTCTTCGTAAACTT
Unaligned ( gi|30 ): TGAATATAACTCCATTGATCTTTCCTGATCACCCATACTCTGTCTGTCTGTAAACTTTACATATT
Unaligned ( gi|32 ): TAGTTTCACCTGAGCTGAAAGTCAAGAGAGCTATTTGATAAAAATTGTCCGGTTG
Unaligned ( gi|33 ): AAGAACTGCAAGTGCAGAGTTTGTCAAGTATTGACAAGTAACCATCATGGT
Unaligned ( gi|36 ): TTAAGAACGGAAATTGTTTGTAGCTCACCTGAACCAAAGGTTTAAGT
Unaligned ( gi|37 ): GGGGGTAAACAAAACTAGTTCAAATGAAGGACCAGGCCCCCATCA
Alignments
lowQualScore : 1 11 3333333333 222 111 1 11 222 222 222222 2222222222222222 11111 333333333 2222222222222 1111 11 11111111 11111 3333333333333333333333333333333 111111111111 2222222222 333333333333333 2222222 2222222 11111 333333 1 555555555555555555 111 11111 2 333333333333 1111 111 22222222 2222222 11 1 1 1111 444444444 111 7777777777777777777 1111 11 222 22222 11 222 11 33333333 111 1 11111 55555555555555 111 11 1 22222 11 111 33333 1 1 1 222
lowQualScore : 1 5 88 8888888888 1 111 999 1 5 88 111 0 0 222 0 8 666666 0 4444444444444444 3 22222 222222222 1 6 5 66 7777777777777 2 0000 3 00 0 4 55 66 4 66666666 4 44444 5 5 6666666666666666666666666666666 66 4 4 66 555555555555 0 5 555 6 9999999999 88 888 3 111111111111111 6 1111111 6 1111111 1 6 6 22222 0 222222 11 0 6 1 999999999999999999 111 1 77777 8 1 66 6 0 1 000000000000 333 1 4444 6 111 1 44444444 6 99 8888888 44 0 0 8888 000000000 777 1 7777777777777777777 4444 33 2 555 99999 1 88 1 111 88 1 1 1 1 44444444 1 9 777 99 44 0 33333 1 7 77777777777777 3 3 3 999999 5 111 1 22 0 55555 33 3 444 33333 1 3 3 1 7 1 5 111
lowQualScore : . . .. .......... . ... ... . . .. ... . . ... . . ...... . ................ . ..... ......... . . . .. ............. . .... . .. . . .. .. . ........ . ..... . . ............................... .. . . .. ............ . . ... . .......... .. ... . ............... . ....... . ....... . . . ..... . ...... .. . . . .................. ... . ..... . . .. . . . ............ ... . .... . ... . ........ . .. ....... .. . . .... ......... ... . ................... .... .. . ... ..... . .. . ... .. . . . . ........ . . ... .. .. . ..... . . .............. . . . ...... . ... . .. . ..... .. . ... ..... . . . . . . . ...
lowQualScore : 0 0 00 5555555555 0 555 555 0 5 00 000 8 8 222 8 0 222222 3 0000000000000000 2 00000 222222222 0 7 1 44 5555555555555 2 1111 2 66 1 4 44 11 4 11111111 4 66666 0 0 4444444444444444444444444444444 11 4 4 11 111111111111 7 7 000 7 0000000000 88 222 2 777777777777777 7 7777777 7 7777777 7 7 3 22222 8 888888 55 0 5 0 888888888888888888 000 0 88888 0 4 77 7 0 0 888888888888 555 7 2222 7 222 0 33333333 7 22 7777777 00 0 0 5555 000000000 555 0 5555555555555555555 8888 88 5 777 77777 0 00 0 000 55 0 0 0 0 00000000 0 8 555 55 22 0 88888 0 3 22222222222222 6 6 6 888888 7 777 0 55 0 00000 88 2 000 33333 0 3 3 0 3 0 0 555
consensus : NNNNNNNNNNTATATTAGAGATCAAGTTTGTTCANATCATGGCCCCTGGGGATCCAATGGGCCCCGATANGATTGATTNTAGTNTTACATGTGAAGTGTACTGGGGAAAATCTTTAAAAATCTTCTC--CAAGAACCA-CTGG---C--CAGAAAAGTTGAAAT-TT-A-TA----T---AAAGCTTCCCT-GATAT----AG-TGNAGATTCAA-GTTTGTTCAAAT-CATGACC-------------CCGGG-G--GTAGGATG--GGGC-C-NC--AATA-GGGG--------ATCA-AAGT--TT-T-ACATGC-GA---TTATATAGGG-AA-AT-TT-----T--CTTCT-C-AAGAAC--CAT---T--G--C--CAGA-ANGNTGGATA-TTTA---T--AC--GAA-AGCTTTCCTGATAT-----AG-TGGA-GATTCA-AGT-------T-TGTTCAAAT-------CATGGCC-CCCGGGG-TAACGATGGGGCCGC---AGGGGACTA-AGTTTNA--------CATA--A--TTATA-T-GGNGAA---TC-TTTAAAAATCTTCTTCTCAA-GA-CCACTGGGCCAG----A-------AAAGCTAAAATTTAT----ATGA-AAGC-T-TCNT-----GGTAT-AGTGGAGATTCAAG--TTTGTTCAAA---TCG-GACCCCG-GGGT-AG-G-TN-GGGCCACAA---------TAAGGG---ATNAA-T---------------A-TT-T--ACATG--CAAATATATAGGGAAAT--TTTTAAAAATCTTCTCAAG-ANCATTGAACCAGANGAGTGGATATTCATCTGAAAGCTTCCTNATATGGAGTAGATTCANGTTTGTNCAGATNATGCCCTCCCACACTCCGAGNGTTGGGTAGGGGCACATTG---TAAATTCCNAA-CTTCTGC-CTTTCTNTGTGAGTA---GC----T-C--CTCAGGTGAGC-GATGTGGCC-CATG-GGCCTCTTGTT---ATTA-AT---TACNAGTAA-CAATAA-AA-----TTT--AACA-TTAATTATAA-----TAATTNTAATA-GT-ANAAATTCAAAGTTTGAACATTNTTTTGCTGAATTAGTACTG
Reference ( family-965 ) : NNNNNNNNNNTATATTAGAGATCAAGTTTGTTCANATCATGGCCCCTGGGGATCCAATGGGCCCCGATANGATTGATTNTAGTNTTACATGTGAAGTGTACTGGGGAAAATCTTTAAAAATCTTCTC--CAAGAACCA-CTGG---C--CAGAAAAGTTGAAAT-TT-A-TA----T---AAAGCTTCCCT-GATAT----AG-TGNAGATTCAA-GTTTGTTCAAAT-CATGACC-------------CCGGG-G--GTAGGATG--GGGC-C-NC--AATA-GGGG--------ATCA-AAGT--TT-T-ACATGC-GA---TTATATAGGG-AA-AT-TT-----T--CTTCT-C-AAGAAC--CAT---T--G--C--CAGA-ANGNTGGATA-TTTA---T--AC--GAA-AGCTTTCCTGATAT-----AG-TGGA-GATTCA-AGT-------T-TGTTCAAAT-------CATGGCC-CCCGGGG-TAACGATGGGGCCGC---AGGGGACTA-AGTTTNA--------CATA--A--TTATA-T-GGNGAA---TC-TTTAAAAATCTTCTTCTCAA-GA-CCACTGGGCCAG----A-------AAAGCTAAAATTTAT----ATGA-AAGC-T-TCNT-----GGTAT-AGTGGAGATTCAAG--TTTGTTCAAA---TCG-GACCCCG-GGGT-AG-G-TN-GGGCCACAA---------TAAGGG---ATNAA-T---------------A-TT-T--ACATG--CAAATATATAGGGAAAT--TTTTAAAAATCTTCTCAAG-ANCATTGAACCAGANGAGTGGATATTCATCTGAAAGCTTCCTNATATGGAGTAGATTCANGTTTGTNCAGATNATGCCCTCCCACACTCCGAGNGTTGGGTAGGGGCACATTG---TAAATTCCNAA-CTTCTGC-CTTTCTNTGTGAGTA---GC----T-C--CTCAGGTGAGC-GATGTGGCC-CATG-GGCCTCTTGTT---ATTA-AT---TACNAGTAA-CAATAA-AA-----TTT--AACA-TTAATTATAA-----TAATTNTAATA-GT-ANAAATTCAAAGTTTGAACATTNTTTTGCTGAATTAGTACTG
gi|1 : TATATTAGAGATCAAGTTTGTTCAAATCATGACCCCTGGGGATCCAATGGGCCCCGATAGG---GATTATAGTTTTACATATGA--TATA-TGGGGAAAATCTTTAAAA-TCTTCTC--CAAGAACAA-CTGG---C--CAGAAAAGCTGAAAT-TC-A-TA----T---AAAGCTTCCCT-GATAT----A--TGCAGATTCAA-GTTTGTTCATAT-CATGACC-------------CCGGG-A--GTACGATG--GGGC-C-CC--AATA-GGGG--------ATCA-AAGT--TT-T-ACATAT-GA---TTATATAGGG-AA-AT-TT-----T--CTTCT-C-AAGAAC--CAC---T--G--C--CAGAGAAGCTGGA-A-TTTA---T--AT--GAA-AGCTTTCCTGATAT-----AG-TGGA-GATTCC-AGT-------T-TGTTCAAAT-------CATGACC-CTCGGGGTTAACGATGGGGCCCCT--AGGGGATTA-AGTTTTA--------CATATGA--TTATA-TAGGAAAA---TC-TTTATAAATCTTCTTCTCAA-GA-CCACTGGGCCAG----A-------AAAGCTGAAATTTAT----ATGA-AAGC-T-TCCT------GTAT-AGTGAAGA-TGAAT--TTTGTCCAAA---TC--GACCCCG-GGGT-AATG-TG-GGACCACAA---------TAAGGG---ATCAA-T---------------ATTT-T--ACATG--CAAATATATAGGGAAATTCTTTTTAAAATCTTCT------TCATTGAAC--GACGAGTG---ATTC--CTGAAAGCTTCCTGATATGGAGTAGATTTATGTTTGTTTAGATAATACCTTCCCACACTCCGAGGGTTGGGTGGGGTCACATAGGATTAAAGTGCT-A-CTACTGCGCTTTCTTTGTGAGTA---GT----T-T--CTCAGGTGAGC-GATGTGGCC-CATG-GACCTCTTGTT---ATTA-AT---TACTAGTAATCAATAA-AA-----TTT--GACA-CTAATTATAGTTTTCTAATCCTTATATGTGACAAAT--AAGGTTTGAAAATTATTTTGCTG---TAGTATTG
gi|10 : caagatgcatTATGGGTA--------------CTTAAGTGAGC-AGTGTGGCC-CACC-GACCTCTTGTC-----TG-ATGGATACGAGTGA-CAATAA-AACAGACTTT--AACA-G-AGTGAAAA-----TAATTTTAATA-GT-ATAAATTCAAAGTTTGAACATTCTTTTG-TGAATTAGTACTGt
gi|11 : GT-AG-G-TTTAGGCCACAA---------TAAGGA---ATGTA-A---------------A-TTGT--CCATG--CAAATATATAGGG
gi|13 : caatgaagaaacattgggccagaaatttcagtcttttacggttgtagaattatgagtgtaaaattgatggccttcttacatgtaGAAAGTTTGAAAA-TG-A-TAAGCAT---ACAGTCACCCTCGGT-T----AG-TGCAGACACAA-GTT-GTTTAAAT-CATTGTA-------------CTGGGAG--GAATGGTG--GGAC-A-AC--AATA-AGGG--------ATCA-GCAT--TT-T-ACAT
gi|14 : --CAAGAAAGTTGAAATACT-AGTA----T--------TTTGGT-GAT---------TGTAGATTCAA-GTTTGTTCACA--CATGATC-------------TTGGA-G--GT----CG--AGGCAC-TC--CATA--AGG--------ATTA-A
gi|15 : atatttgacatttattttaaagaaAA-----TCATTGTAATA-GT-AGAAAATCTAAGTTTGAAC
gi|16 : agtgcagagtcttatcaaataaagactggagagcAGTTTGTTCATATCATGG-TTCTGGG--TCCA----------ATACGATTGATTT--GTGTTACATG-GAAGTGTACT-GGGAAAATCTCT-AATATCTTCTT-----GA--CA-GTGG---CAGCAGAAtcacaagggggcgattcggccctgcggtcaggacgggcggcaca
gi|17 : ttgAA-GTTTATTCG------TGGCC-------------CCAGA-----T-GGATGTTGGGC-C-TC--AATA-GGG---------ATCATAA----TT-T-ACATG--GAAATTTGCATA--------T-TT-----T--CTTAT-C-AAGAAC--C
gi|18 : tgaggatttcagcaagt-TTTAAAAATCTTCT---CAA-GAACCACTGGGCCAG----A-------AGAGCTAAAATTTAT----ATAA-AAGC-T-TCAT-----GACAT-AGTGGAGATTCAAG--TTTGTT
gi|2 : gT-TT-----TGACTTCT-C-CAGAAC--CGCCTCT--G--C--CA-A-ATTTAACATA-TTTTGGTT--AC--AAA-ATCAATCTTGG-GT-----GA-AGGG-GATACA-AGT-------T-AGTTCAAATGAAGAACCA-GGTC-CCC------ATCAA--AGGC-------GGAGACTA-A--TTCATGAAAATGCAAA--A--ATAAAGT-GGTG-----TCATTTAAAAATCTTCTCAACAA-GAACCATTGGGCCAG----A-------AAAGCTGAAATTTAT----ATGA-AAGC-T-TCCT-----GATAT-AGTGGAGATTCAAG--TTTGTTCAAA---TCATGACCCCATGGGT-AG-GATG-GGGCCACAA---------TAGGGG---ATGAAAT---------------T-TT-T--ACATG--CAAATATAAAGGGAAA---ATCTAATAATCTTCTCAAGTACCATTGAACCAGAAGAGTGGATATTTATCTGAAAGCTTCCTCATATGAAGTAAATTCAAGTTTGTACAGATCATGTCCTCCC--------AGTGTAGGGTAGGGCCACAacagtctatc
gi|2 : tttagcttcgacacctgaaccgaaggttcaagtgagctttttctgatctgccgttgtcatccgtctgtctgtaactttcacattTTTAAAAATCTTCTCAACAAGAACCA-TTGGG--C--CAGAAAAGCTGAAAT-TT-A-TA----TG--AAAGCTT-CCT-GATAT----AG-TGGAGATTCAA-GTTTGTTCAAAT-CATGACC-------------CCATG-G--GTAGGATG--GGGC-C-AC--AATA-GGGG--------ATGA-AATT--TT-T-ACATGC-AA---ATATAAAGGGAAA-AT-CTAATAAT--CTTCT-C-AAGTAC--CAT---T--GAAC--CAGA-AGAGTGGATA-TTTA---T--CT--GAA-AGC-TTCCTCATATGA---AG-T--A-AATTCA-AGT-------T-TGTACAGAT-------CATGTCCTCCCAGTG-TAG-GGTAGGGCCACAAAAGGGGGCCAGAATTTGA--------TATA--GGTTTATA-T-TGGGAACTGTC-TTAAAAAATCTTCTCATCAAGGA-CTGCAAGTGCAG----AGTTTGTCAAA--TAAAA---AC----GTGG-AAGC-CATCAT-----TGTAT-TGTGAAGATTCAAGTTTTTGTTCAAATGGTGG-GCCCCCA-GGGTCAG-G-AT-GGGCCACAACTCTGGCCCTAATGACTTATTAG-TTAAACAATCTAAATGA-TT-TAGACATGATCCACTATGTA---AAAT--TTTAAAAAATCTTCTCAAGAAACATTGAaaagggggccagaatttgatataggtttatattgggaactgtcttaaaaaatcttctcatcaaggactgcaagtgcagagtttgtcaaataaaaacgtggaagccatcattgtattgtgaagattcaagtttttgttcaaatggtgggcccccagggtcaggatgggccacaactctggccctaatgacttattagttaaacaatctaaatgatttagacatgatccactatgtaaaattttaaaaaatcttctcaagaaacattgagag
gi|23 : tttagcttcgacacctgaaccgaaggttcaagtgagctttttctgatctgccgttgtcatccgtctgtctgtaactttcacattttttgacttctccagaaccgcctctgccaaatttaacatattttggttacaaaatcaatcttgggtgaaggggatacaagttagttcaaatgaagaaccaggtccccatcaaaggcggagactaattcatgaaaatgcaaaaataaagtggtgtcaGAGCACAT-G---TAAAT--CAAA-ACTCT-------CTATG-AAGCAAG-G-----------TCAGGTGAGCAAATGTGGCTGTAAGTGGCCTCTTGgag
gi|24 : ccttttgaatatgttGTGTGTA---GC----TGCTGCTCAGGCGAGC-CGTGTGGCC-TATG-GACTGCTTGT-----TCA-AT---CATCAGAAA-CAATAATTA-----TTT--A--A-TTAAGTATA
gi|27 : AGGTGAGT-GATGTGGCC-CATG-GTCCTCTTG-T---ATTATGT---TGCAAATAA--ATTGA-AA-----TGTACAACAGTTGATTAT
gi|29 : TTTAAAAATCTTGT---CAAGAACCATCAGG---A--CAGAAAGGACAAAAC-TTGA-TT----T---AAA
gi|3 : TTGAATAGTGGCACATTG---TAAATCCTAAA-CTTCTGT-TCTTCTCAATGA--A---GCAAAAT-G--TTCAGGTGAGC-GATGTGGCC-CGTC-AGCCTCTTGTT---Aaattattcatg
gi|3 : atgacccccacttatcgtacatggttaccagtcttattttcttattgatgaatgttcattgaaggtattggaagatgacagaggttaactctagtccatacctCTTCTTCTCCA-GATCCACTGGGCCAATTTCA-------A----TAAACCTTGG----TTCA-CTAC-A-TCTT-----GG-ATGAAAGGA-ATTCAAG--TTTATTCAAA---Tgcttacctgagctgaaaattcaagtgagctattctgatcacccgttgtctgtctgtctgtaaactttcacattttgtacttcttctccagatccactgggccaatttcaataaaccttggttcactacatcttggatgaaaggaattcaagtttattcaaatgaagagctatgcccttgccaaaggcataaataaaaggcataaatagggt
gi|31 : atgacccccacttatcgtacatggttaccagtcttattttcttattgatgaatgttcattgaaggtattggaagatgacagaggttaactctagtccatacctttgaatagtggcacattgtaaatcctaaacttctgttcttctcaatgaagcaaaatgttcaggtgagcgatgtggcccgtcagcctcttgttagcttacctgagctgaaaattcaagtgagctattctgatcacccgttgtctgtctgtctgtaaactttcacattttgtaTAG-----AG-TATA-GATTCA--TT-------T-TTTTTAAAT-------GGTGGTC-CCCGGGG-TCAAGATGGgaagagctatgcccttgccaaaggcataaataaaaggcataaatagggt
gi|34 : attattg-GATGTGGCC-CATG-GGCCTCTTGTT---ATTA-AT---
gi|35 : GGA-AA-AT-CG-----T--CTTCT-C-AAAAAC--CAT---TACA--C--CAGA-AGGGTGGGTA-Tataaaattaggtaatgaat
gi|38 : agAGGG-AACAT-----------CTTCT-C-AAGAAC--CAT---T--G--CATCAGA-AGGGTGGGT
gi|39 : aaGC-TATGTGGCC-CATG-GGCCTCTTGTTAGCATTG-GT---TAC
gi|4 : GATG--AGGC-C-TC--GATG-GGGAGTATGGAAATTA-A--T--TTGT-ACATAT-AT---TTATGTAT-------T-TT-----T--TTTCTTC-AAGTTCTTCAT---T--G--T--CTTA-AT-TTGTATAGCTTA---TCCAC--GT---GCTATC--GATATTTACAAGATAGATAATTTACAATATATAAAT-TGTTCAAAT-------CATGGCC-CCAAGGG-AAATGATGGGGCCGC---AGTAGAGAA-AGTTTAA--------CA--------TATA-T-GATGAA---TT-TTTGTAAAACATAATCTGAA-GA-ACA----GC---------------AATGC-ATGATTAATCATAATGATAAGCAT-TCATCCTCAGG-A--AGTGTAGATTTAAG--TTTCTTCAAA---T
gi|40 : attcaaatttgatgacacatgcacatcaaacgtttgaactaGGTGAGC-GATGTGGTC-CATG-GGCTTCTTG-T---ATTA-
gi|41 : --CTCAGGTGAGC-GATGTGGCC-CATG-GATCTCTtgt
gi|5 : TTCAAAT-CATGACC-------------TCCGG-G--GTAGGGTGT-GGGC-CAAC--AATA-GGGG--------ATCA-AAGG--TT-T-Aa
gi|6 : agtgagtgaccagtgactatgtatagttttcacctgagctgaaagctcttgaaagtgagcatttctaagcacctgttgtctgtcgtttgactttttctccagaaccacggtaccaaatttaagcaaacttggtacaaattatcctagggtgaaggggattgaagttttttaaaataaaggaccagacccctttcaaaggggaggtaatcacgaaaatgcaataaagggttatgtcatttaaaggcagctggagaAAGAACTTTATCT-CAGGAACCA-CTGGAGGC--CAGAAAAGTTGAAAT----A-TA----TTGAAAAGGTTC-----ATATTACTAGCTAGAGATTTAAAGTTTCTTCAAATGCATGACCACCCCACCCCCCCCCCCG-G--TTAGGATG--TGTC-C-ACCAAGTAAGGGG--------ATCA-A-GTCATT-T-ACATGC-AA---T-------------AC-TT-----T--CTTCT-CTAAGAAT--CAT---T--GAAC--CAGA-ATGATGGATA-TTTA---T---CTTGAATAGCTT--CTGAT----------TGGATAATTCA-AAC-------TATG--AAGAT-------CAC-GCT-CCCAG
gi|7 : tgatgtctaaa-CATGCGC-------------CCAGA-GTTGTAGGGTA--GG-C-C-AT--AATA-GGGG-------------GAGT--TT-TGATATACTGGTT-TTTTATTGGG-AA-ATATA-----T--CTTTT-T-AAAA----CAT---C--G--T--C
gi|8 : tcttaagttgcagttgataaaagtagaatttagtagcatccttcacgggactatgtagtataaagaactgtttgagagaccgaTTGAATAGTAGCACATTG---TAAATTCCCAATCTTCTGC-CTTTCTATG-AAGCAAATGC----T-C--TTCAGGTGAGG-GATTTGGCC-CATG-GGCCTCTTGTccccttctgactgcaagtgctgagtttgctaagtaacatagaagcatcgt
blockSeqs : T . . . C ATT T G . AG CT CAA T AGGC TGATAAGCAT T CCCTC ATTACTAGC C A A TG ACCCCACCCCCCC G GTT A TT A AA CA A GTATGGAA T GTCA G G CAAATATAAAGGGAAAATCTAATAA GA T T TT CTCTGC . TTT G GGTTAC AT AAT T ATTTACAAGATAGAT C ATATAAA A GAAGAAC T T A TCAA CACAAA CT G A C TGAAAATGCAAAAA GT T AACTG A A CA G A C AGTTTGTC GAG T CATA T CA A CCTCAGG G TT TGGTGG AT C . TTT CTCTGGCCC CTT G TTAAACAATCTAAATGA TAG AT G T CAAGT C CA A GAT AT C A A C . T T . CC AA T GTTC A T GCAAAATG A G T TTAGCA T GGA G C T CAGAC AC A GTT . T . . T T C . AAT
blockSeqs : CT . CAG ACTAGTAT C TGGT ATAG T . C T . G AG A T . A . . . . CAT . . CTGGTTTTTTATTGGGAAATATA . . . . TGAAC . GAG . TCCAC A TAT C GTGAAGGG . . . . T . G AAAT CGC CC . G G TATAGGTT T G AA . A CA . A T TTTCA AAG T . . AT C GAC . . TCAT A . . ATG . . G ATT GT . G . CAAGA A T . TC AA . GCCT C T GCTGCTG . . . TTA . . C C . . . A TT . G . . G T
blockSeqs : T . GC TTATATG G CCT TAG G . A T . A G A . . T . . . . ATT . . GAAATTTGCATATTT . . . . TACAC . GGG . TCTT A TT C ATGAAGTA . . . . T . A ATC . GA . . A CA T T . . A TC . T C A ATG C . . T A GAT . . . . AT . . T AA T . . . . . CA . . A T AATGCTC . . . TTA . . A . . . . . G
blockSeqs : . . A TTGATTT . C . G . A T . A G A . . T . . . . AGG . . TATTTATGTATTTT . . . . TGCAT . GGG . TCT . TT . AGAGTATA . . . . C . A TAG . T TC . . C A AA T . . T T TGT . . . AGG . . . TC . .
blockSeqs : ATATTGA . A . . C G A . . A . . . . AGT . . CAATACTT . . . . TGAAC . TGA . TGGAT . . . . . . . . . . . . . . . . A A GG . . . . . . . TA . .
blockSeqs : . . . C G . . . T . . . . A . . . . . . TGT . TT . . . TA .
blockSeqs : . A . . . . A . . . . T . . . . . . CGT . . . T
blockSeqs : . . A . . . . . . . . . . .
blockSeqs : . . .
blockSeqs : . . .
blockSeqCons : C** TTATTTN********* CC*** CAAGTTTGGNANATTT*************** TGNAC******* TCCT****** TA*** GAT***** AGTG********** TTA***
originalCons : NNNNNNNNNNTATATTAGAGATCAAGTTTGTTCANATCATGGCCCCTGGGGATCCAATGGGCCCCGATANGATTGATTNTAGTNTTACATGTGAAGTGTACTGGGGAAAATCTTTAAAAATCTTCTC--CAAGAACCA-CTGG---C--CAGAAAAGTTGAAAT-TT-A-TA----T---AAAGCTTCCCT-GATAT----AG-TGNAGATTCAA-GTTTGTTCAAAT-CATGACC-------------CCGGG-G--GTAGGATG--GGGC-C-NC--AATA-GGGG--------ATCA-AAGT--TT-T-ACATGC-GA---TTATATAGGG-AA-AT-TT-----T--CTTCT-C-AAGAAC--CAT---T--G--C--CAGA-ANGNTGGATA-TTTA---T--AC--GAA-AGCTTTCCTGATAT-----AG-TGGA-GATTCA-AGT-------T-TGTTCAAAT-------CATGGCC-CCCGGGG-TAACGATGGGGCCGC---AGGGGACTA-AGTTTNA--------CATA--A--TTATA-T-GGNGAA---TC-TTTAAAAATCTTCTTCTCAA-GA-CCACTGGGCCAG----A-------AAAGCTAAAATTTAT----ATGA-AAGC-T-TCNT-----GGTAT-AGTGGAGATTCAAG--TTTGTTCAAA---TCG-GACCCCG-GGGT-AG-G-TN-GGGCCACAA---------TAAGGG---ATNAA-T---------------A-TT-T--ACATG--CAAATATATAGGGAAAT--TTTTAAAAATCTTCTCAAG-ANCATTGAACCAGANGAGTGGATATTCATCTGAAAGCTTCCTNATATGGAGTAGATTCANGTTTGTNCAGATNATGCCCTCCCACACTCCGAGNGTTGGGTAGGGGCACATTG---TAAATTCCNAA-CTTCTGC-CTTTCTNTGTGAGTA---GC----T-C--CTCAGGTGAGC-GATGTGGCC-CATG-GGCCTCTTGTT---ATTA-AT---TACNAGTAA-CAATAA-AA-----TTT--AACA-TTAATTATAA-----TAATTNTAATA-GT-ANAAATTCAAAGTTTGAACATTNTTTTGCTGAATTAGTACTG
finalCons : NNNNNNNNNNTATATTAGAGATCAAGTTTGTTCANATCATGGCCCCTGGGGATCCAATGGGCCCCGATANGATTGATTNTAGTNTTACATGTGAAGTGTACTGGGGAAAATCTTTAAAAATCTTCTC--CAAGAACCA-CTGG---C--CAGAAAAGTTGAAATTTATTTN---------AAAGCTTCC---GATAT----AG-TGNAGATTCAA-GTTTGTTCAAAT-CATGACC-------------CCGGG-G--GTAGGATG--GGGC-C-NC--AATA-GGGG--------ATCA-AAGT--TT-T-ACATGCAAGTTTGGNANATTT---------------T--CTTCT-C-AAGAAC--CATTGNAC-------CAGA-ANGNTGGATA-TTTATCCT------GAA-AGCTTTCCTGATAT-----AG-TGGA-GATTCA-AGT-------T-TGTTCAAAT-------CATGGCC-CCCGGGGTA---GATGGGGCCGC---AGGGGACTA-AGTTTNA--------CATA--A--TTATA-T-GGNGAA---TC-TTTAAAAATCTTCTTCTCAA-GA-CCACTGGGCCAG----A-------AAAGCTAAAATTTAT----ATGA-AAGC-T-TCNTGAT-----AT-AGTGGAGATTCAAG--TTTGTTCAAA---TCG-GACCCCG-GGGT-AG-G-TN-GGGCCACAA---------TAAGGG---ATNAA-T---------------A-TT-T--ACATG--CAAATATATAGGGAAAT--TTTTAAAAATCTTCTCAAG-ANCATTGAACCAGANGAGTGGATATTCATCTGAAAGCTTCCTNATATGGAGTAGATTCANGTTTGTNCAGATNATGCCCTCCCACACTCCGAGNGTTGGGTAGGGGCACATTG---TAAATTCCNAA-CTTCTGC-CTTTCTNTGTGAGTAAGTG----------CTCAGGTGAGC-GATGTGGCC-CATG-GGCCTCTTGTTA---TTA-AT---TACNAGTAA-CAATAA-AA-----TTT--AACA-TTAATTATAA-----TAATTNTAATA-GT-ANAAATTCAAAGTTTGAACATTNTTTTGCTGAATTAGTACTG
14 sequences could not be aligned to this reference sequence:
Unaligned ( gi|9 ): TATCCGTGAACCCCAACCTATCATATGTGGTCTCGTCTATTCTTATCATTGATGAAATGTTCAGTTATGCATTAAAAAATGCAGAAATTAAACTTTTAGTACCATACCTCTGAATATGAACATTGTAAATCCCAACCTTAGTACTTCTCTATAAG
Unaligned ( gi|12 ): AAGCAAAACATGTACAATTGAATATTTCACCTGGCACGCAATTTTATTGGCCGACGTTGAGTTGAAAGGCCAAGTGAACTATTCTGGTCAAAATATCAGTATGTCCGTTTGGAAATTTTT
Unaligned ( gi|19 ): TTTTAGTTTTACACGATTACTTATAAGTTCAGGTGAGCTTTTTTTGATCACCATTTGTCCAGTGTTGTATGTACAACATTTTTTTACTTCTCCAG
Unaligned ( gi|20 ): AAAGTTTGAGGTTTATTTGGGGAATTCAAACTATGTTTAAAAAAAGGCTTCTTCTGCAGAGTTTGTCAAATATTAACATGGAAGCATCATTGT
Unaligned ( gi|21 ): TTTTTAGTTTACCTGAGCTATAAAGTTCAAGTGAATTTTCTTATCACCTGTTCTCCATAGACTTTCCACATTATTGCTATTAGTTTTT
Unaligned ( gi|22 ): TCAAGATGACAGAGAATGATGTAGTCCATACCTTTAACATATTGGCACATTGAAATCTCGACTTTTGCATTCCTATGAAGCGAAGTG
Unaligned ( gi|25 ): TTTTTAGCTCACCTGAGCTACATGTGTATAAACTCAAGGGAGCTTTCTGAAAGCCTGTTGTCTTTCAGACCGTAAACTT
Unaligned ( gi|26 ): CTTAATGATTCACCGAATCAAGTATGTGGTCCACGACACATCTTGTTAGCTCACCTGAACCGACGGTTCAAGTGAG
Unaligned ( gi|28 ): CTCATCTGAGCTATAAGCTCATGTTAGCTTTTCTGATCACCCACTGCTTACAATCTCTTCGTAAACTT
Unaligned ( gi|30 ): TGAATATAACTCCATTGATCTTTCCTGATCACCCATACTCTGTCTGTCTGTAAACTTTACATATT
Unaligned ( gi|32 ): TAGTTTCACCTGAGCTGAAAGTCAAGAGAGCTATTTGATAAAAATTGTCCGGTTG
Unaligned ( gi|33 ): AAGAACTGCAAGTGCAGAGTTTGTCAAGTATTGACAAGTAACCATCATGGT
Unaligned ( gi|36 ): TTAAGAACGGAAATTGTTTGTAGCTCACCTGAACCAAAGGTTTAAGT
Unaligned ( gi|37 ): GGGGGTAAACAAAACTAGTTCAAATGAAGGACCAGGCCCCCATCA
Alignments
lowQualScore : 1 11 3333333333 222 111 1 11 222 222 222222 2222222 333333333333333 2222222222222 111111111 5555555555555555555 11111111 111111111 2222222 55555555555555555555555555555 1 1111111 1111111 4444444 11 333333 1 555555555555555555 111 11111 2 2222222222 1111 1111 222222222 2222222 2222222 11 1 1 1111 444444444 111 7777777777777777777 1111 11 222 22222 11 222 11 33333333 1111 111111 11 2 11 111 11 1 22222 11 111 33333 1 1 1 222
lowQualScore : 1 5 88 8888888888 1 111 999 1 5 88 111 0 0 222 0 8 666666 2 0000000 1 99 2 3 555555555555555 1 6 3 44 4444444444444 2 7777 666 99 4 55 55 4 666666666 0 4 99999 4 4 0 4444444444444444444 1 44444444 4 777777777 4 0000000 66 99 5 111 0 6 11111111111111111111111111111 6 22 1 5 8888888 5 8888888 1 6 6 5555555 11 222222 11 0 6 1 999999999999999999 111 1 77777 8 1 66 6 0 1 2222222222 444 4444 1 6 4444 666 1 333333333 1111111 99 8888888 44 0 0 8888 000000000 777 1 7777777777777777777 4444 33 2 555 99999 1 88 1 111 88 1 1 1 1 44444444 1 6 4444 000000 8 11 1 0 8 11 5 888 3 3 3 999999 5 111 1 22 0 55555 33 3 444 33333 1 3 3 1 7 1 5 111
lowQualScore : . . .. .......... . ... ... . . .. ... . . ... . . ...... . ....... . .. . . ............... . . . .. ............. . .... ... .. . .. .. . ......... . . ..... . . . ................... . ........ . ......... . ....... .. .. . ... . . ............................. . .. . . ....... . ....... . . . ....... .. ...... .. . . . .................. ... . ..... . . .. . . . .......... ... .... . . .... ... . ......... ....... .. ....... .. . . .... ......... ... . ................... .... .. . ... ..... . .. . ... .. . . . . ........ . . .... ...... . .. . . . .. . ... . . . ...... . ... . .. . ..... .. . ... ..... . . . . . . . ...
lowQualScore : 0 0 00 5555555555 0 555 555 0 5 00 000 8 8 222 8 0 222222 2 2222222 4 66 5 2 666666666666666 0 7 4 66 4444444444444 7 9999 000 55 0 00 55 0 111111111 7 0 99999 4 4 4 7777777777777777777 0 66666666 4 888888888 4 6666666 99 00 7 444 1 7 44444444444444444444444444444 7 44 4 7 6666666 7 6666666 7 7 3 8888888 00 888888 55 0 5 0 888888888888888888 000 0 88888 0 4 77 7 0 0 2222222222 000 2222 0 7 2222 888 0 333333333 7777777 22 7777777 00 0 0 5555 000000000 555 0 5555555555555555555 8888 88 5 777 77777 0 00 0 000 55 0 0 0 0 00000000 0 0 8888 666666 0 22 0 4 0 00 7 888 6 6 6 888888 7 777 0 55 0 00000 88 2 000 33333 0 3 3 0 3 0 0 555
consensus : NNNNNNNNNNTATATTAGAGATCAAGTTTGTTCANATCATGGCCCCTGGGGATCCAATGGGCCCCGATANGATTGATTNTAGTNTTACATGTGAAGTGTACTGGGGAAAATCTTTAAAAATCTTCTC--CAAGAACCA-CTGG---C--CAGAAAAGCTGAAAT--T--T-ATTTAAAAGNTTCCC-GATAT----AG-TGNAGATTCAA-GTTTGTTCAAAT-CATGACC-------------CCGGG-G--GTAG-GATG--GGGC-C-NC--AATA-GGGG--------ATCA-AAGT--TT-T-ACATGCAA-T------TT----G-GNANAT-TT-----TC-T---------TCTC-AAGAAC-------CAT--TGNACCAGA-ANGGTGGGTA-TTTATCC---TGAA-AGCTTTCCTGATAT-----AG-TGGA-GATTCA-AGT-------T-TGTTCAAAT-------CATGGCC-CCCGGGG-T--AA-GAT--GGGGCCGC---AGGGGACTA-AGTTTNA--------CATA--A--TTATA-T-GGNGAA---TC-TTTAAAAATCTTCTTCTCAA-GA-CCACTGGGCCAGA-------AAAGCTAAAATTTAT----ATGA-AA----GC-T-TCAT------GATATAGTGGA-------GATTCAAG--TTTGTTCAAA---TCG-GACCCCG-GGGT-AG-G-TN-GGGCCACAA---------TAAGGG---ATNAA-T---------------A-TT-T--ACATG--CAAATATATAGGGAAAT--TTTTAAAAATCTTCTCAAG-ANCATTGAACCAGANGAGTGGATATTCATCTGAAAGCTTCCTNATATGGAGTAGATTCANGTTTGTNCAGATNATGCCCTCCCACACTCCGAGNGTTGGGTAGGGGCACATTG---TAAATTCCNAA-CTTCTGC-CTTTCTATGTAA-GC-AAG-TGCTC---AGGTGAGC-GATGTGGCC-CATG-GGCCTCTTGTT---ATTA-AT---TACNAGTAA-CAATAA-AA-----TTT--AACA-TTAATTATAA-----TAATTNTAATA-GT-ANAAATTCAAAGTTTGAACATTNTTTTGCTGAATTAGTACTG
Reference ( family-965 ) : NNNNNNNNNNTATATTAGAGATCAAGTTTGTTCANATCATGGCCCCTGGGGATCCAATGGGCCCCGATANGATTGATTNTAGTNTTACATGTGAAGTGTACTGGGGAAAATCTTTAAAAATCTTCTC--CAAGAACCA-CTGG---C--CAGAAAAGTTGAAAT--T--T-ATTTNAAAGCTTCC--GATAT----AG-TGNAGATTCAA-GTTTGTTCAAAT-CATGACC-------------CCGGG-G--GTAG-GATG--GGGC-C-NC--AATA-GGGG--------ATCA-AAGT--TT-T-ACATGCAAGT------TT----G-GNANAT-TT-----TC-T---------TCTC-AAGAAC-------CAT--TGNACCAGA-ANGNTGGATA-TTTATCC---TGAA-AGCTTTCCTGATAT-----AG-TGGA-GATTCA-AGT-------T-TGTTCAAAT-------CATGGCC-CCCGGGG-T--A--GAT--GGGGCCGC---AGGGGACTA-AGTTTNA--------CATA--A--TTATA-T-GGNGAA---TC-TTTAAAAATCTTCTTCTCAA-GA-CCACTGGGCCAGA-------AAAGCTAAAATTTAT----ATGA-AA----GC-T-TCNT------GATATAGTGGA-------GATTCAAG--TTTGTTCAAA---TCG-GACCCCG-GGGT-AG-G-TN-GGGCCACAA---------TAAGGG---ATNAA-T---------------A-TT-T--ACATG--CAAATATATAGGGAAAT--TTTTAAAAATCTTCTCAAG-ANCATTGAACCAGANGAGTGGATATTCATCTGAAAGCTTCCTNATATGGAGTAGATTCANGTTTGTNCAGATNATGCCCTCCCACACTCCGAGNGTTGGGTAGGGGCACATTG---TAAATTCCNAA-CTTCTGC-CTTTCTNTGTGA-GT-AAG-TGCTC---AGGTGAGC-GATGTGGCC-CATG-GGCCTCTTGTT---ATTA-AT---TACNAGTAA-CAATAA-AA-----TTT--AACA-TTAATTATAA-----TAATTNTAATA-GT-ANAAATTCAAAGTTTGAACATTNTTTTGCTGAATTAGTACTG
gi|1 : TATATTAGAGATCAAGTTTGTTCAAATCATGACCCCTGGGGATCCAATGGGCCCCGATAGG---GATTATAGTTTTACATATGA--TATA-TGGGGAAAATCTTTAAAA-TCTTCTC--CAAGAACAA-CTGG---C--CAGAAAAGCTGAAAT--T--C-ATAT-AAAGCTTCCCTGATAT----A--TGCAGATTCAA-GTTTGTTCATAT-CATGACC-------------CCGGG-A--GTAC-GATG--GGGC-C-CC--AATA-GGGG--------ATCA-AAGT--TT-T-ACATATGATTATA---TA----G-GGAAAT-TT-----TC-T---------TCTC-AAGAAC-------CAC--TG--CCAGAGAAGCTGGA-A-TTTAT-A---TGAA-AGCTTTCCTGATAT-----AG-TGGA-GATTCC-AGT-------T-TGTTCAAAT-------CATGACC-CTCGGGGTT--AACGAT--GGGGCCCCT--AGGGGATTA-AGTTTTA--------CATATGA--TTATA-TAGGAAAA---TC-TTTATAAATCTTCTTCTCAA-GA-CCACTGGGCCAGA-------AAAGCTGAAATTTAT----ATGA-AA----GC-T-TCCT------G-TATAGTGAA-------GA-TGAAT--TTTGTCCAAA---TC--GACCCCG-GGGT-AATG-TG-GGACCACAA---------TAAGGG---ATCAA-T---------------ATTT-T--ACATG--CAAATATATAGGGAAATTCTTTTTAAAATCTTCT------TCATTGAAC--GACGAGTG---ATTC--CTGAAAGCTTCCTGATATGGAGTAGATTTATGTTTGTTTAGATAATACCTTCCCACACTCCGAGGGTTGGGTGGGGTCACATAGGATTAAAGTGCT-A-CTACTGCGCTTTCTTTGTGA-GT-AGT-TTCTC---AGGTGAGC-GATGTGGCC-CATG-GACCTCTTGTT---ATTA-AT---TACTAGTAATCAATAA-AA-----TTT--GACA-CTAATTATAGTTTTCTAATCCTTATATGTGACAAAT--AAGGTTTGAAAATTATTTTGCTG---TAGTATTG
gi|10 : caagatgcatG-TACTT---AAGTGAGC-AGTGTGGCC-CACC-GACCTCTTGTC-----TG-ATGGATACGAGTGA-CAATAA-AACAGACTTT--AACA-G-AGTGAAAA-----TAATTTTAATA-GT-ATAAATTCAAAGTTTGAACATTCTTTTG-TGAATTAGTACTGt
gi|11 : tatggGT-AG-G-TTTAGGCCACAA---------TAAGGA---ATGTA-A---------------A-TTGT--CCATG--CAAATATATAGGG
gi|13 : caatgaagaaacattgggccagaaatttcagtcttttacggttgtagaattatgagtgtaaaattgatggccttcttacatgtaT----AG-TGCAGACACAA-GTT-GTTTAAAT-CATTGTA-------------CTGGGAG--GAAT-GGTG--GGAC-A-AC--AATA-AGGG--------ATCA-GCAT--TT-T-ACAT
gi|14 : gaaagtttgaaaatgataagcatacagtcaccctcggt--CAAGAAAGTTGAAATACTAGT-ATTTT---GGT-----GAT---------TGTAGATTCAA-GTTTGTTCACA--CATGATC-------------TTGGA-G--GT-----CG--AGGCAC-TC--CATA--AGG--------ATTA-A
gi|15 : atatttgacatttattttaaagaaAA-----TCATTGTAATA-GT-AGAAAATCTAAGTTTGAAC
gi|16 : agtgcagagtcttatcaaataaagactggagagcAGTTTGTTCATATCATGG-TTCTGGG--TCCA----------ATACGATTGATTT--GTGTTACATG-GAAGTGTACT-GGGAAAATCTCT-AATATCTTCTT-----GA--CA-GTGG---CAGCAGAAtcacaagggggcgattcggccctgcggtcaggacgggcggcaca
gi|17 : ttgAA-GTTTATTCG------TGGCC-------------CCAGA-----T-G-GATGTTGGGC-C-TC--AATA-GGG---------ATCATAA----TT-T-ACATGGAAAT------TT----G--CATAT-TT-----TC-T---------TATC-AAGAAC-------C
gi|18 : tgaggatttcagcaagt-TTTAAAAATCTTCT---CAA-GAACCACTGGGCCAGA-------AGAGCTAAAATTTAT----ATAA-AA----GC-T-TCAT------GACATAGTGGA-------GATTCAAG--TTTGTT
gi|2 : gGGG-GATACA-AGT-------T-AGTTCAAATGAAGAACCA-GGTC-CCC------------ATCAAAGGC-------GGAGACTA-A--TTCATGAAAATGCAAA--A--ATAAAGT-GGTG-----TCATTTAAAAATCTTCTCAACAA-GAACCATTGGGCCAGA-------AAAGCTGAAATTTAT----ATGA-AA----GC-T-TCCT------GATATAGTGGA-------GATTCAAG--TTTGTTCAAA---TCATGACCCCATGGGT-AG-GATG-GGGCCACAA---------TAGGGG---ATGAAAT---------------T-TT-T--ACATG--CAAATATAAAGGGAAA---ATCTAATAATCTTCTCAAGTACCATTGAACCAGAAGAGTGGATATTTATCTGAAAGCTTCCTCATATGAAGTAAATTCAAGTTTGTACAGATCATGTCCTCCC--------AGTGTAGGGTAGGGCCACAacagtctatc
gi|2 : tttagcttcgacacctgaaccgaaggttcaagtgagctttttctgatctgccgttgtcatccgtctgtctgtaactttcacattttttgacttctccagaaccgcctctgccaaatttaacatattttggttacaaaatcaatcttgggtgaaTTTAAAAATCTTCTCAACAAGAACCA-TTGGG--C--CAGAAAAGCTGAAAT--T--T-ATATGAAAGCTTCCT-GATAT----AG-TGGAGATTCAA-GTTTGTTCAAAT-CATGACC-------------CCATG-G--GTAG-GATG--GGGC-C-AC--AATA-GGGG--------ATGA-AATT--TT-T-ACATGCAAAT------ATAAAGG-GAAAAT-CTAATAATC-T---------TCTC-AAGTAC-------CAT--TGAACCAGA-AGAGTGGATA-TTTAT-C---TGAA-AGC-TTCCTCATATGA---AG-T--A-AATTCA-AGT-------T-TGTACAGAT-------CATGTCCTCCCAGTG-T--AG-GGT--AGGGCCACAAAAGGGGGCCAGAATTTGA--------TATA--GGTTTATA-T-TGGGAACTGTC-TTAAAAAATCTTCTCATCAAGGA-CTGCAAGTGCAGAGTTTGTCAAA--TAAAA---AC----GTGG-AA----GC-CATCAT------TGTATTGTGAA-------GATTCAAGTTTTTGTTCAAATGGTGG-GCCCCCA-GGGTCAG-G-AT-GGGCCACAACTCTGGCCCTAATGACTTATTAG-TTAAACAATCTAAATGA-TT-TAGACATGATCCACTATGTA---AAAT--TTTAAAAAATCTTCTCAAGAAACATTGAaaagggggccagaatttgatataggtttatattgggaactgtcttaaaaaatcttctcatcaaggactgcaagtgcagagtttgtcaaataaaaacgtggaagccatcattgtattgtgaagattcaagtttttgttcaaatggtgggcccccagggtcaggatgggccacaactctggccctaatgacttattagttaaacaatctaaatgatttagacatgatccactatgtaaaattttaaaaaatcttctcaagaaacattgagag
gi|22 : tttagcttcgacacctgaaccgaaggttcaagtgagctttttctgatctgccgttgtcatccgtctgtctgtaactttcacattttttgacttctccagaaccgcctctgccaaatttaacatattttggttacaaaatcaatcttgggtgaaggggatacaagttagttcaaatgaagaaccaggtccccatcaaaggcggagactaattcatgaaaatgcaaaaataaagtggtgtcaGGCACATTG----AAA-TCTCGA-CTTTTGC-ATTCCTATG-AA-GCGAAG-TGgag
gi|23 : tcaagatgacagagaatgatgtagtccatacctttaacatattGAGCACAT-G---TAAAT--CAAA-ACTCT-------CTATG-AA-GC-AAG--G-TC---AGGTGAGCAAATGTGGCTGTAAGTGGCCTCTTG
gi|24 : ccttttgaatatgtt-TGCTC---AGGCGAGC-CGTGTGGCC-TATG-GACTGCTTGT-----TCA-AT---CATCAGAAA-CAATAATTA-----TTT--A--A-TTAAGTATA
gi|27 : gtgtgtagctgc---AGGTGAGT-GATGTGGCC-CATG-GTCCTCTTG-T---ATTATGT---TGCAAATAA--ATTGA-AA-----TGTACAACAGTTGATTAT
gi|29 : TTTAAAAATCTTGT---CAAGAACCATCAGG---A--CAGAAAGGACAAAAC--T--TGATTTAAAA
gi|3 : TTGAATAGTGGCACATTG---TAAATCCTAAA-CTTCTGT-TCTTCTCAATGAAGC-AAAATGTTC---AGGTGAGC-GATGTGGCC-CGTC-AGCCTCTTGTT---Aattattcatg
gi|3 : atgacccccacttatcgtacatggttaccagtcttattttcttattgatgaatgttcattgaaggtattggaagatgacagaggttaactctagtccatacctCTTCTTCTCCA-GATCCACTGGGCC------------------AATTTCA----AT-A-AACCTTGG-T-TCAC------TACATCTTGGATGAAAGGAATTCAAG--TTTATTCAAA---Tgcttacctgagctgaaaattcaagtgagctattctgatcacccgttgtctgtctgtctgtaaactttcacattttgtacttcttctccagatccactgggccaatttcaataaaccttggttcactacatcttggatgaaaggaattcaagtttattcaaatgaagagctatgcccttgccaaaggcataaataaaaggcataaatagggt
gi|31 : atgacccccacttatcgtacatggttaccagtcttattttcttattgatgaatgttcattgaaggtattggaagatgacagaggttaactctagtccatacctttgaatagtggcacattgtaaatcctaaacttctgttcttctcaatgaagcaaaatgttcaggtgagcgatgtggcccgtcagcctcttgttagcttacctgagctgaaaattcaagtgagctattctgatcacccgttgtctgtctgtctgtaaactttcacattttgtaTAG-----AG-TATA-GATTCA--TT-------T-TTTTTAAAT-------GGTGGTC-CCCGGGG-TCAA--GAT--GGgaagagctatgcccttgccaaaggcataaataaaaggcataaatagggt
gi|34 : attattg-GATGTGGCC-CATG-GGCCTCTTGTT---ATTA-AT---
gi|35 : ----G-GAAAAT-CG-----TC-T---------TCTC-AAAAAC-------CAT--TACACCAGA-AGGGTGGGTA-Tataaaattaggtaatgaat
gi|38 : ag----G-GAACAT---------C-T---------TCTC-AAGAAC-------CAT--TGCATCAGA-AGGGTGGGT
gi|39 : aaagGC-TATGTGGCC-CATG-GGCCTCTTGTTAGCATTG-GT---TAC
gi|4 : -GATG--AGGC-C-TC--GATG-GGGAGTATGGAAATTA-A--T--TTGT-ACATATA--T------TT----ATGTATTT-TT-----TT-T---------CTTC-AAGTTCTT-----CAT--TGT--CTTA-AT-TTGTATAGCTTATCCACGTG-----CTATC--GATATTTACAAGATAGATAATTTACAATATATAAAT-TGTTCAAAT-------CATGGCC-CCAAGGG-A--AATGAT--GGGGCCGC---AGTAGAGAA-AGTTTAA--------CA--------TATA-T-GATGAA---TT-TTTGTAAAACATAATCTGAA-GA-ACA----GC-----------AATGC-ATGATTAATCATAATGATAA----GCAT-TCATCCTCAGGA---AGTGTA-------GATTTAAG--TTTCTTCAAA---T
gi|4 : attcaaatttgatgacacatgcacatcaaacgtttgaactaTTGTTCAAAT-CATGGCC-------------CCAAG-G--GAAATGATG--GGGC-C-GC--AGTA-GAG------------A-AAGT--TT-A-ACATATA----------T----G-ATGAAT-TT-----TTGTAAAACATAATCTG-AAGAACAGCAATGCATGATTAATCATA-ATGATAAGCA-TTCATCC---TCAG----------GA--------AG-TGTA-GATTTA-AGT-------T-TCTTCAAAT-------
gi|40 : attcaaatttgatgacacatgcacatcaaacgtttgaactagatgaggcctcgatggggagtatggaaattaatttgtacatatatttatgtattttttttcttcaagttcttcattgtcttaatttgtatagcttatccacgtgctatcgatatttacaagatagataatttacaatatataaaGGTGAGC-GATGTGGTC-CATG-GGCTTCTTG-T---ATTA-
gi|41 : CTC---AGGTGAGC-GATGTGGCC-CATG-GATCTCTtgt
gi|5 : TTCAAAT-CATGACC-------------TCCGG-G--GTAG-GGTGT-GGGC-CAAC--AATA-GGGG--------ATCA-AAGG--TT-T-Aa
gi|6 : agtgagtgaccagtgactatgtatagttttcacctgagctgaaagctcttgaaagtgagcatttctaagcacctgttgtctgtcgtttgactttttctccagaaccacggtaccaaatttaagcaaacttggtacaaattatcctagggtgaaggggattgaagttttttaaaataaaggaccagacccctttcaaaggggaggtaatcacgaaaatgcaataaagggttatgtcatttaaaggcagctggagaAAGAACTTTATCT-CAGGAACCA-CTGGAGGC--CAGAAAAGTTGAAAT--A--T-ATTGAAAAGGTTC----ATATTACTAGCTAGAGATTTAAAGTTTCTTCAAATGCATGACCACCCCACCCCCCCCCCCG-G--TTAG-GATG--TGTC-C-ACCAAGTAAGGGG--------ATCA-A-GTCATT-T-ACATGCAA-------------------TAC-TT-----TC-T---------TCTCTAAGAAT-------CAT--TGAACCAGA-ATGATGGATA-TTTATCT---TGAATAGCTT--CTGAT----------TGGATAATTCA-AAC-------TATG--AAGAT-------CAC-GCT-CCCAG
gi|7 : tgatgtctaaa-CATGCGC-------------CCAGA-GTTGTAG-GGTA--GG-C-C-AT--AATA-GGGG-------------GAGT--TT-TGATATACTGGTTTTTTATT----G-GGAAATATA-----TC-T---------TTTT-AAAA---------CAT--CGTCCC
gi|8 : tcttaagttgcagttgataaaagtagaatttagtagcatccttcacgggactatgtagtataaagaactgtttgagagaccgaTTGAATAGTAGCACATTG---TAAATTCCCAATCTTCTGC-CTTTCTATG-AA-GC-AAA-TGCTCTTCAGGTGAGG-GATTTGGCC-CATG-GGCCTCTTGTccttctgactgcaagtgctgagtttgctaagtaacatagaagcatcgt
13 sequences could not be aligned to this reference sequence:
Unaligned ( gi|9 ): TATCCGTGAACCCCAACCTATCATATGTGGTCTCGTCTATTCTTATCATTGATGAAATGTTCAGTTATGCATTAAAAAATGCAGAAATTAAACTTTTAGTACCATACCTCTGAATATGAACATTGTAAATCCCAACCTTAGTACTTCTCTATAAG
Unaligned ( gi|12 ): AAGCAAAACATGTACAATTGAATATTTCACCTGGCACGCAATTTTATTGGCCGACGTTGAGTTGAAAGGCCAAGTGAACTATTCTGGTCAAAATATCAGTATGTCCGTTTGGAAATTTTT
Unaligned ( gi|19 ): TTTTAGTTTTACACGATTACTTATAAGTTCAGGTGAGCTTTTTTTGATCACCATTTGTCCAGTGTTGTATGTACAACATTTTTTTACTTCTCCAG
Unaligned ( gi|20 ): AAAGTTTGAGGTTTATTTGGGGAATTCAAACTATGTTTAAAAAAAGGCTTCTTCTGCAGAGTTTGTCAAATATTAACATGGAAGCATCATTGT
Unaligned ( gi|21 ): TTTTTAGTTTACCTGAGCTATAAAGTTCAAGTGAATTTTCTTATCACCTGTTCTCCATAGACTTTCCACATTATTGCTATTAGTTTTT
Unaligned ( gi|25 ): TTTTTAGCTCACCTGAGCTACATGTGTATAAACTCAAGGGAGCTTTCTGAAAGCCTGTTGTCTTTCAGACCGTAAACTT
Unaligned ( gi|26 ): CTTAATGATTCACCGAATCAAGTATGTGGTCCACGACACATCTTGTTAGCTCACCTGAACCGACGGTTCAAGTGAG
Unaligned ( gi|28 ): CTCATCTGAGCTATAAGCTCATGTTAGCTTTTCTGATCACCCACTGCTTACAATCTCTTCGTAAACTT
Unaligned ( gi|30 ): TGAATATAACTCCATTGATCTTTCCTGATCACCCATACTCTGTCTGTCTGTAAACTTTACATATT
Unaligned ( gi|32 ): TAGTTTCACCTGAGCTGAAAGTCAAGAGAGCTATTTGATAAAAATTGTCCGGTTG
Unaligned ( gi|33 ): AAGAACTGCAAGTGCAGAGTTTGTCAAGTATTGACAAGTAACCATCATGGT
Unaligned ( gi|36 ): TTAAGAACGGAAATTGTTTGTAGCTCACCTGAACCAAAGGTTTAAGT
Unaligned ( gi|37 ): GGGGGTAAACAAAACTAGTTCAAATGAAGGACCAGGCCCCCATCA