lowQualScore : 1 1 1 111111 11111 11 1 5555555555555555555555555555555555 11 11 1111 22222222 666666666666 1 33333 1111 1 1 333333 111 1 1 44444444444444444444444444444444444444444444444444444444444 11 111 444 33333 2222222222222222222222 22222222222222 111111 88888
lowQualScore : 5 3 7 6 88 6 5 5 4 1 444 6 6 1 222222 2 4 11111 4 8 4 22 1 2 2 8888888888888888888888888888888888 5 77 99 4 22 0 55 1111 1 00000000 111111111111 888888 6 3 77 00000 2222 6 0 6 4 666666 222 77 2 55 55 2 2 44 3 555 99999999999999999999999999999999999999999999999999999999999 66 6666 3 44 000 6666 000 5 66666 77777 2 2 2 33 7777777777777777777777 55555555555555 111111 2 2 8 2 55 55555 3
lowQualScore : . . . . .. . . . . . ... . . . ...... . . ..... . . . .. . . . .................................. . .. .. . .. . .. .... . ........ ............ ...... . . .. ..... .... . . . . ...... ... .. . .. .. . . .. . ... ........................................................... .. .... . .. ... .... ... . ..... ..... . . . .. ...................... .............. ...... . . . . .. ..... .
lowQualScore : 5 0 1 8 99 6 0 0 0 4 444 0 2 9 888888 7 4 11111 4 1 4 77 8 6 0 5555555555555555555555555555555555 2 55 11 5 88 2 55 0000 7 77777777 777777777777 000000 7 5 99 11111 1111 0 7 4 2 000000 333 77 5 55 00 7 6 66 1 444 77777777777777777777777777777777777777777777777777777777777 11 5555 1 22 888 5555 888 7 66666 11111 9 9 9 99 1111111111111111111111 33333333333333 000000 1 9 0 9 44 55555 3
consensus : AGTTCGATCACCGACCACGGTCTCCTTAGTTTGACTAATTTGCGATCGAACTCGCTTTAGTTGCAGGATA-TGACGTCAAAATTGAAACCGCGGTCCAACCNATGCTTTTAC------CGTGGTCAGTTT-A-----GTT-CCAACATGGCGGAGTAAG-TCG-GTTTTCCGAATTGTGCATTTCTATTTTTTGCAA-----T--A-----------------------GCGTATTTCCCTCCGATTCTTCGACGTAGATATTAAA-TT-GCATGNCTTTTGGAGTGATTTTCTGATCTGTTGAT-AT-TCATG--------TAAAC--------A--ATGCAA-TCAA-TC-TCCAAATAT--TTATCTGTATTGAAAATA----GCCCGAGATTCCTCTGACCTTGACTTGCCTAAATGGGAT-NT-A-ATAG-CCCGTTTGGGAA-ATAATGTCCCGAATAG--GAT--ATAAATTTTC--AGT-G---C---GA--------------------AAAAGG-G-GGGGGG--GG---------------ATATTG-TAAA----TCAC-CAAATTAC--T---A----TCATTTTCAACA-GCGTCGA---AA-----AA-CC-C-T--CC---A--------TG-T------TGTTTTGACTAGAGACAAACCATTGAAACCAAAGTGCGTTCGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTACT-----TTGG-TTGATGATCGAACT
Reference ( gi|1 ) : AGTTTGATCACCGACCATGGTCTCCCTAGATTGACTAATTTGCAATCGAAATCACTTTATTTGCAGGATA-TGACGTCAAAATTGAAACCATGGCCCAACCAATGCTTTTAC------CATGGTCAGTTT-A-----GTT-CTAACATGGCGGAGTAAG-TCG-GTTTTCCGAATTGTTCATTTCTATTTTTTGCTA-----T--A-----------------------GCGTATTTCCCTCCGATTCTTTAACGTAGATATTAAG-TT-ACATGGCTTTTGAAGTGATTTTCTGATTTGTTGAT-AT-TCATG--------TAAA---------A--ATGCAA-TCAA-TC-TCGAAATAT--TTATCTGTAATATGAATA----GCCTGAGATTCCTCTGTCCTTGACTTGCATAAATGGGAT-TA-A-ATGA-CCCGTTTGGGAA-GTAATGTGCCGAATAG--GAT--ATAAAGTTTC--AGT-G---C---AA--------------------AAAATG-G-GGGGAG--GG---------------ATATTG-AAAA----TCAC-CAAATTAC--T---A----T---TTTCAACA-GCGTCTT---AA-----AA-CC-C-T--CC---A--------TC-T------TGTTTTGACTAGAGACAAACCATTGAAACCAAAGTGCGTTCCCACACGGACATGCGCACT-TTAATT-T-ATCTTTACTTCCGTGAATCTACTTTCCATTGG-TTGATGATCGAACT
gi|6 : AGTTCGATCACCGACCACAGTCTCC
gi|18 : gggcgAGTTCGATCACCGACCACGGTCTCCTTAGTTTGACTAATTTGGGATCGAACTCGCTTTAGTTGCAGGATATTGACGTCAAAATTGAAACCATGGTCCAATCTATGCTTTTAC------CATGGT-AGTTT-A-----GTT-CCAATATGGCGGA----------GTTTTCCGAATTGTACATTTCtnnnnnnnnnannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnggctgaagttgcaagatatgacgtcaaaaatgaaaccgtagtccaattcattcttttaccatggtcagtttagttccaacatgatgaagtaaggtatgttttccaaattgtgcacttctattttttgcaatacaaaaaggcgaagttaacattgtgtgcatttccctccgattctttgacgtagatattgaattgcatgtcttttggagtaattttctgatctaaaaatgtaatcattctacaaatatttatctgtattgaaaatagcccgtgtttcctctgatcttgacttgcttaaatgggtgacaatagcccgtttgggaaatgatgtcccgaataggatgtaaatttacaaaagaaaaaggggagg
gi|17 : caAATTCGATCACCGACCACGGTCTCCTTAGTTTGACT---TTGCGATCGAACTCGCTTTCGTTGCAGGATA-TGACGTCAAAATTTAAACCACGGTCCAACCA-------------------GGTTAGTCT-A-----GTT-CCAACATGGCGGAGCAAG-TCA-GTTTTCCGAATTGTGCATTTCTATGTTTTGCAA-----T--
gi|4 : AGTTACATCACCAACCACATTCTTCTTTGTTTGAC--------GATGGAGCTTGCTTTAGTTGCAGGATA-AGACGTTATAATTGAAACCCTTGTCCAACCCATACCTTTAC------TGTGGTCAGTTT-A-----GTT-TCAACCCTGCGGAATAAG-ACA-GGTTTCCGAATTGTGCATTTCTGTTTTATGCAACAGCGT--A-----------------------GCGTATCTACCTCCAATTCTTCGAGGTAGATATTGAT-TG-ACATATCTTTTGCTGTAATTCTCTGATCTGTAGA
gi|20 : gAGTTTGATCACCGACCATGGTCTCCTTAGTTTGACTAATTTGCAATGGAACTCACTTTAGTTGCAGGATA-TGATGTCAACATTGAAAagcttgactaaattgaattttagagcccgtttgggaaatgatatcccgaataggatatgcatttacagtgtcccaatcccccctcccctcctccccaaaaggggaagaaaaaaatctaaatacccagataactatcattttcaacagcgtcgaaaaactctcttcgttgtttggactaaaggtcagccattgaaatcaatgtgcttttgcacacggacatgcgcactttaacttatctttacttccgggaat
gi|24 : gAGTTCGATCACCGATCATGGTCTCCTTAGTTTGACTAATTTGCGATCGAACTCACTTTAGTTG
gi|28 : gAGTTCGATCACCGATCACGGTTTCCt
gi|3 : gggcgGTTCGATCACCGACAACAGTCTC---------ACT----------------CACTTTAGTTGCAGGATA-TGACGTCACATTTAAAACCACTGTCCAACCAATTATTTCAC------CA--ATTATTTC-ACCATGGTT-T--GCATAGAGGAGTAAG-TCG-GTTTTCCCAATTGTGCATTTCCAATATTCGCAA-----T--A-----------------------G--TATTTCCCTCCGATTCTTCAACGTACATATTAA--TT-GCATGGCTT-------------CTGATTTGTTGAT-AT-TTATG--------TAAAC--------A--ATACAA-AAAAGTC-TCCAAA-AG--TTATCTGTATTAAAGATA----GCCCGATATT--------------TTGCCTGAATGGGAT-AT-G-ATGA-CCCGTTTGGGGA-TTG-TCTG--GAATAG--GAT--TTAAATTTTC--AGT-G---C---CA--------------------AAA-TA-G-GGGC-----G---------------ATATTG-TAAA----TCAT-TTAATTAC--T---A----TCA-TTTCAACA-GTGTCGG---AATCCCCAC-CCAC-C--CC---A--------TG-T------TGTTTTGACTAGAGACAAACC------------GTGCGTTCGCATACGGACATGCGCACT-TTAACC-T-ATCTTTACTTCCGTGAATCTACT-----TTGG-TTGATGATCGAACTt
gi|16 : GATCACCGACCACAGTCCCCTTAGTTTGACTAATTTGCGATCGAACTCACTCGAGTTGCAGGAT---GACGTCAAAAATGAAACCGCGGTCCAACTCGTACTTTTAC------CGTGGTTAGTTT-A-----GTT-CCAACATGGTGGAGCAAA-TC-------------TGTGCATCTCTATTTT-----------T--A-----------------------AC----TTCCCTCCGATTCTTg
gi|5 : ATCACC-ATCACTGT-TCCTTAGTTTGAATACTTTGCGATCGAACTCACTTTCGTAGCAGAATA-TGACGTCTAAAATGAAACCGCTGTCCAACCGATGCTTTTACATGTACCATGGTCAGTTTTA-----GTTACTGA----GCGGAGTAAA-TCGAGTTTTCCGAATTGTGCATATCTAGTTTTTACAA-----T--A-----------------------GCGTATTTCCCTCAGATTCTTCGACGTATATATTAAA-TT-GCATGTCTTTTAGATTGGTTTTCAGATCCGCTAAT-A--TGATG--------TAAA---------C--A---AA-T----TCTTCAAAATATAATTATCTGTATTGAAAATA----GCCCGATATTTCTCTGACCTTGACTTGCCTAAATGGGAT-T--G-ATAG-CCCATTTGGGAA-ATAATGTCTCGAAAAG--GAT--A-ATATTTAC--AGT-G---G---GA--------------------AA--------------------------------ATATTG-TAAA----TCAC-GAAATTAC--TGTCA----T---TTTCAACA-GCGTCAA---AA-----AA-CC-C-T--CC---A--------TG-T------TGCTTTGACTAGAGAC-AACCATTGAAACCAAAGTGCGTTc
gi|12 : ACTACTTTGCTATCGAACTAAATTTAGTTGCAGGATA-TGACGTCAAAAATGAAACCGCAGTCCAACCCATGCTTTTAC------CGTGGTCTGTTT-A-----GTT-CCAACATGGCGGAATAAG-TAA-A-TTTCCGAATTTTTAA------------GCAA-----T--A-----------------------GCGTATTTCCCTCC--------------GATATTAAT-TT-GCATTTCTTTTGGAGTTATGTTCTGATCTGATGAT-AA-TTATG--------TAAag
gi|2 : agtttcttagttatTCAAACTCGCTTTAGTTGCAGAATA-TGACGTCAAA-TTGAAAGCAAGGTCCAACCAATGCTTTTAC------CATAGTTAGTCT-A-----GTT-CCAACATGGCGGAGTAAG-TCA-GTTTTCCGAATTGTGCATTTCTATTTTTTGCAA-----T--A-----------------------GCGTATTTCCCTCCGATTCTTCAACATATATATTAAAATT-GCATGACTTTTGGAGTGATTTTCCGATTTG---AT-AT-TCATG--------TAAACACTTAAA-A--ATGCAAGTCAA-TC-TCCAAATAT--TTATTTGCATCA-AAATA----GCCCGAGATTCCTCTGACCTTGACTTGTGTAAATGGAAT-AT-A-ATAG-CCCGATTGGAAA-ATAATGTCCCGAATAG--AAT--GTAAATTTTC--AAT-G---C---CA--------------------AAGGGG-G-GGGGAA--GGGGGGCAGCAGGAAAAATATTG-TAAA----TCAC-CAAATTAC--TATAA----T---TTCCAACA-CTGTC-----GA-----AG----------------------------------GTTTAGACTAGAAACAAACCATTGAAACCAAA------------ACGGACATGCGCACT-TTTACT-T-TTCTTTACTTCCGTGAATCTACT-----TTGG-TTGATGATCGAACTc
gi|6 : TTGCAAGATA-TGACGTCAAAAATGAAACCGTAGTCCAATTCATTCTTTTAC------CATGGTCAGTTT-A-----GTT-CCAACATGATGAAGTAAGGTAT-GTTTTCCAAATTGTGCACTTCTATTTTTTGCAA-----T--ACAAAAAGGCGAAGTTAACATTGTGTGCATTTCCCTCCGATTCTTTGACGTAGATATTGAA-TT-GCATGTCTTTTGGAGTAATTTTCTGATCT------------------------AAA---------A--ATGTAA-TCAT-TC-TACAAATAT--TTATCTGTATTGAAAATA----GCCCGTGTTTCCTCTGATCTTGACTTGCTTAAATGGG-T-GACA-ATAG-CCCGTTTGGGAA-ATGATGTCCCGAATAG--GAT--GTAAATTTAC--A-----------AA--------------------AGAAAA-A-GGGGAG--Gc
gi|21 : gggcgagttcgatcaccgaccacagtctcctnnnnnnnnnannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnggctgaagATTTTTTGC-A-----TTGA-----------------------GCGTATTTCCCTCCGATTCTTCAACGTAGATATTAAA-TCGGCATGGCTTTTG----GATTTT-TGA
gi|7 : GTATTACCC-CCGATTCTTCAACGTGGATATTAAA-TT-GCATGGTTTTTGGAGTGACTTTCTGTTTTGTTGAT-AT-TCATGTAAACACTTAAA---------A--ATGCAA-TCAA-TC-TCCAAATAT--TTATCTGTATTAAAAATACTCGGCTCGAGATTCCTCTGACCTTGACTTGCCTAAATAGGAT-AT-C-ATAG-CCTGTTTGGGAA-ATAATGTCCTGAATAG--GAT--GTACATTTTC--AGT-T---CCT-AG--------------------GGGAGG-G-GGGGGGGTGG---------------ATATTG-TAAA----TCAC-CAAATTAC--T---A----TTA-TTTCAACA-GCGTCGA---AA-----AA-CT-C-T--CC---A--------T--------------------GAGA--------------CAAAGTGCGTTCGCACACGTACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTACT-----TTGG-TTGGTGGTCGaaactgttttc
gi|8 : TTTCTGATTTGTTGATGATATCATG--------TAAACACTTAAAAATCATGCAA-TCGA-TC-TCCAAATAT--TTATTCGTATTGAAAATA----GCCCGAGATTCCTCTGACCATGACTTGCCTAAATGGGATATA-ATATTAGTCCGTTTGGGAA-ATATTGTCCTGAATAG--GAT--ATAAATTTAC--AGT-G---C---CA--------------------AAAA-G-G-TGAAGG--GG---------------GTATTT-TAAA----TCAC-AAAATTAC--T---ATCATT---TTCCAACA-GCGTTGA---AA-----AA-CC-C-T--AC---A--------TG-T------TATTTTGACTAGAGACAATCC------------GTGCTTTCGCACAGGGACATTCGCA---------------TTTACTTCCGTGTATCTGCTTTt
gi|9 : T--TTAGTTGTATTATAAATA----GCCCAAGATTCCT-------TGACTTGCCTAAATGGGATATATA-ATAG-CCCGATTGGGAA-ATAATGTCCCAAATAG--GAT--ATAAATGTTC--AGT-G---C---CA--------------------AAAAAG-G-GTGGGG--GG---------------TTATTG-TAAAGATTTCAC-CAAATTAC--T---A----TCATTTTCAACA-CTGCCGA---AA-----AC-CC-C-T--CC---A--------TG-T------TGTTTTGACTAGAGACAAAGCATTGGAAACAAAGTG--------------CATGCGCAAT-TTAACTATAATCTTTACTTCCGTGAATCTACT-----TTGG-TTGATGgtcctatgatcga
gi|4 : gcgatcgaactcacCTTGACT-----AAATTGAAT-TT-T-AGAG-CCCGTTTGGGAA-ATGATATCCCGAATAG--GAT--ATGCATTTAC--AGT-GTCCC---AATCCCCCCTCCCCTCCTCCCCAAAAGG-G-GAAGAA--AA---------------AAATCT-AAA-----TACC-CAGATAAC--T---A----TCATTTTCAACA-GCGTCGA---AA-----AA-CT-C-T--CT------------TCGT------TGTTTGGACTAAAGGTCAGCCATTGAAATCAATGTGCTTTTGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGGGAAT
gi|11 : gagttacatcaccaaccacattcttctttgtttgacgatggagcttgctttagttgcaggataagacgttataattgaaacccttgtccaacccatacctttactgtggtcagtttagtttcaaccctgcggaataagacaggtttccgaattgtgcatttctgttttatgcaacagcgtagcgtatctacctccaattcttcgaggtagatattgattgacatatcttttgctgtaattctctgatctgtagaagCTTGACTTGCCTACATGGAAA-AT-A-ATAG-CTCGTTTGGAAAAGTAATGCCCCGAATAGTCGGCCAACAAAG-------GTAG---C---AA--------------------ATAGT-----------------------------AT-TTGCAGAG----TTAC-CAATTTACATC---A----T---TTTCAAAAAGCGTTGA---AA-----AA-CC-T-T--CC---A--------TG-T------TTTTTTGACTAGATACAAA-------------A-------CTCACACGTACATGCGCACT-TAAACT-T-ATCTTTACTTCCG-GACTCTACT-----TTGG-TTGATGATCGAACT
gi|10 : -A-ATAG-CCCGTTTGGGAA-GTAATGTCTTCAATAG--GAT--ATACATTTTC--GGT-G---CCAAAA--------------------AAAACA-G-GGAGGG--GG---------------ATATTG-TAAA----TCACTCAG--TAT--C---A----T---TTTCAACA-GCGTCG----AA-----AC-CC-C-TAGCA---A--------TG-T------AGTTTTGACTAGAGAAGAACCTTTGAAATCACAGTGCGTTCGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTACT-----TTGG-TTGATGATCAAAc
gi|13 : t--ATGAATTTTTGTAGT-G---C---GA--------------------AAAGGG-GAGGGGAG--GACAA------------ATAT-G-TAAC----TCAC-AAAATTAC--T---A----TCATTTCCAACAAGCATCGA---AA-----AAACC-CAT--CCTACA--------CT-TGTTATGTGTTTTGACTAGAGA-----------AACCAAAGTG-GTGCGAA-ACGGACATG-GCACT-TCAACT-T--TCTTTA-TTCCGTGAATC-ACTTT-----GG-TTGAAGATCGAACT
gi|14 : a--AGT-G---C---GA--------------------AAAGGGAG-GGGGAG--GACAA------------ATATTG-TAAC----TCAC-AAAATTAC--T---A----TCATTTTCAACA-GCATCGA---AA-----AA-CC-A-T--CT---ACACTTGTATG-T------TGTTTTGACTAGAGA-----------AACCAAAGTGTG---CGAAACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCCACT-----TTGG-TTGAAGATCGAACTc
gi|15 : GT-G---CC--AA--------------------AAAAAG-G-GGGGGG--GG---------------GTATTG-TAAA----TCAC-CAAATTAC--C---A----TCATTTTCAACA-GCATCGA---AA-----AA-CC-C-T--CC---A--------TG-T------TGTTTTGATTAGAAACCAATCATTGAAACTAATGCGCGTTCGCACACGGACTTGCGCACT-TCAACT-T-GTCTTTACTT-TGTGAATCTACT-----TTGG-TTGATGA
gi|23 : G---------------ATATTG-TAAA----TCAC-CAAATTAC--T---A----TCATTTTTAACA-GCGTCGT---AA-----AA-CC-C-T--CC---A--------TG-T------TGTTTTGACTAGAGACAAAaag
gi|19 : aAACA-GCGT--TGAGAA-----AA-CC-C-T--AC---A--------TG-A------TGTTATGACTACAGGCAAATCATCGAA-CCAAAGTGCGTTCGCACACGTACATGCGCACCGTTAACC-T-CACTTAACCTCCGTGAATCTACAT----TTGG-TTGATGATC
gi|22 : tgCCATACGGACATGCGCACT-TTAATT-T-ATCCTTACTTCCGGGAATCTACT-----TTGGTTTGAT--TCGAATT
gi|25 : agaaacaaatACAGACATGCGTA-T-CTAA-----------ACTTCCGTGAATATACTTT-----GG-TTGATGATCGAACTag
2 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|26 ): TTTACTAATTGGATGTATTTCTAATTCTAATATTTACTAGTTATACTTTCA
Unaligned ( gi|27 ): CAAACAATTTCAAGTTGTTTTTCATTGTTCAACAATTACTTCTCTAGC
Alignments
lowQualScore : 111111 11111 11 11111 44444444444444444444444 6666666666 1111 2222222222222222222222222 1111111111111111 1111111111111111111 11111
lowQualScore : 33 0 3 0 0 0 1 0 111111 2 1 4 00000 4 4 00 0 1 00000 4 11111111111111111111111 1 55 4 4 1 1 1 2 5 88 0 4 2222222222 5 0 5 5 66 4 0000 4 4 55 4 55 666 3 1 44 555 6666666666666666666666666 2 555 6666 3 8888888888888888 33 2 2 8888 1 2 2 2 2 2 66666 2 2 33 5555555555555555555 0 0 3 00000 0 1 1 2 2 44 2 77777 3
lowQualScore : .. . . . . . . . ...... . . . ..... . . .. . . ..... . ....................... . .. . . . . . . . .. . . .......... . . . . .. . .... . . .. . .. ... . . .. ... ......................... . ... .... . ................ .. . . .... . . . . . . ..... . . .. ................... . . . ..... . . . . . .. . ..... .
lowQualScore : 77 7 6 5 5 7 0 7 555555 1 4 0 00000 0 0 44 7 1 00000 0 11111111111111111111111 7 44 4 4 0 1 9 7 0 44 2 3 1111111111 7 7 7 7 99 2 6666 0 0 55 9 00 444 6 2 22 000 6666666666666666666666666 9 000 1111 1 1111111111111111 99 9 9 9999 9 7 7 7 7 7 77777 7 7 77 7777777777777777777 9 5 3 55555 6 9 2 7 7 55 9 11111 1
consensus : AGTTCGATCACCGACCACGGTCTCCTTAGTTTGACTAATTTGCGATCGAACTCGCTTTAGTTGCAGGATA-TGACGTCAAAATTGAAACCGCGGTCCAACCNATGCTTTTAC------CGTGGTCAGTTT-A-----GTTCCAACATG-GCGGAGTAAG-TCG-GTTTTCCGAATTGTGCATTTCTATTTTTTGCAA-----T-A-----------------------GCGTATTTCCCTCCGATTCTTCGACGTAGATATTAAA-TT-G-CATGNCTTTTGGAGTGATTTTCTGATCTGTTGAT-AT-TCATGTAAACACTTAAAA---ATGCAA-TCAA-TCTCC-AAATAT--TTATCTGTATTGAAAATA----GCCCGAGATTCCTCTGACCT-T-GA--CTTGCCTAAATGGGATATA--ATA---GCCCGTTTGGGAAA-TAATGTCCCGAATAGGATATAAATTTTC--AGTG---C---GA--------------------AAA-AGG---GGGGG----GG-GG-----------A----TA--T-T-GTAAA----TCACCAAATTACTATCATTTTC-AAC-A-GCGTCG-A-AA-----AACC-C-T--CC----------A--------TGTTGTTTTGACTAGAGACAAACCATTGAAACCAAAGTGCGTTCGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCGAACT
Reference ( family-3422 ) : AGTTCGATCACCGACCACGGTCTCCTTAGTTTGACTAATTTGCGATCGAACTCGCTTTAGTTGCAGGATA-TGACGTCAAAATTGAAACCGCGGTCCAACCNATGCTTTTAC------CGTGGTCAGTTT-A-----GTTCCAACATG-GCGGAGTAAG-TCG-GTTTTCCGAATTGTGCATTTCTATTTTTTGCAA-----T-A-----------------------GCGTATTTCCCTCCGATTCTTCGACGTAGATATTAAA-TT-G-CATGNCTTTTGGAGTGATTTTCTGATCTGTTGAT-AT-TCATGTAAACA----------ATGCAA-TCAA-TCTCC-AAATAT--TTATCTGTATTGAAAATA----GCCCGAGATTCCTCTGACCT-T-GA--CTTGCCTAAATGGGATNTA--ATA---GCCCGTTTGGGAAA-TAATGTCCCGAATAGGATATAAATTTTC--AGTG---C---GA--------------------AAA-AGG---GGGGG----GG-GG-----------A----TA--T-T-GTAAA----TCACCAAATTACTATCATTTTC-AAC-A-GCGTCG-A-AA-----AACC-C-T--CC----------A--------TGTTGTTTTGACTAGAGACAAACCATTGAAACCAAAGTGCGTTCGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCGAACT
gi|1 : AGTTTGATCACCGACCATGGTCTCCCTAGATTGACTAATTTGCAATCGAAATCACTTTATTTGCAGGATA-TGACGTCAAAATTGAAACCATGGCCCAACCAATGCTTTTAC------CATGGTCAGTTT-A-----GTTCTAACATG-GCGGAGTAAG-TCG-GTTTTCCGAATTGTTCATTTCTATTTTTTGCTA-----T-A-----------------------GCGTATTTCCCTCCGATTCTTTAACGTAGATATTAAG-TT-A-CATGGCTTTTGAAGTGATTTTCTGATTTGTTGAT-AT-TCATGTAAA-A----------ATGCAA-TCAA-TCTCG-AAATAT--TTATCTGTAATATGAATA----GCCTGAGATTCCTCTGTCCT-T-GA--CTTGCATAAATGGGATTAA--ATG---ACCCGTTTGGGAAG-TAATGTGCCGAATAGGATATAAAGTTTC--AGTG---C---AA--------------------AAA-ATG---GGGGG----AG-GG-----------A----TA--T-T-GAAAA----TCACCAAATTACT---ATTTTC-AAC-A-GCGTCT-T-AA-----AACC-C-T--CC----------A--------TCTTGTTTTGACTAGAGACAAACCATTGAAACCAAAGTGCGTTCCCACACGGACATGCGCACT-TTAATT-T-ATCTTTACTTCCGTGAATCTAC-TTTCCATTGGTTGATGA-TCGAACT
gi|10 : TA--ATA---GCCCGTTTGGGAAG-TAATGTCTTCAATAGGATATACATTTTC--GGTG---C---CA--------------------AAA-AAAACAGGGAG----GG-GG-----------A----TA--T-T-GTAAA----TCAC----TCAGTATCATTTTC-AAC-A-GCGTCG-A-AA-----C-CC-C-TAGCA----------A--------TGTAGTTTTGACTAGAGAAGAACCTTTGAAATCACAGTGCGTTCGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCAAA
gi|11 : CT-T-GA--CTTGCCTACATGGAAAATA--ATA---GCTCGTTTGGAAAAGTAATGCCCCGAATAG-----------TC--GGC----C---AA--------------------CAA-AGG---TAGCA----AA-TA-----------G----TA--T-TTGCAGAG---TTACCAATTTAC-ATCATTTTC-AAA-AAGCGTTG-A-AA-----AACC-T-T--CC----------A--------TGTTTTTTTGACTAGATACAAA--------ACT------------CACACGTACATGCGCACT-TAAACT-T-ATCTTTACTTCCG-GACTCTAC-T-----TTGGTTGATGA-TCGAACT
gi|12 : TTCTTAGTTATACTACTTTGCTATCGAACTAAATTTAGTTGCAGGATA-TGACGTCAAAAATGAAACCGCAGTCCAACCCATGCTTTTAC------CGTGGTCTGTTT-A-----GTTCCAACATG-GCGGAATAAG-TAA-A-TTTCCGAAT------------TTTTAAGCAA-----T-A-----------------------GCGTATTTCCCTCC--------------GATATTAAT-TT-G-CATTTCTTTTGGAGTTATGTTCTGATCTGATGAT-AA-TTATGTAAc
gi|13 : agtATGAATTTTTGTAGTG---C---GA--------------------AAA-GGG---GAGGG----GA-GG-----------A----CAAATAT-GTAAC----TCACAAAATTACTATCATTTCC-AACAA-GCATCGAA-AA-----AACC-CAT--CCTACACTTGTTA--------TG-TGTTTTGACTAGA-----------GAAACCAAAGTG-GTGCG-AAACGGACATG-GCACT-TCAACT-T--TCTTTA-TTCCGTGAATC-AC-T-----TTGGTTGAAGA-TCGAACTc
gi|14 : a--AGTG---C---GA--------------------AAA-GGG---AGGGG----GA-GG-----------ACAAATA--T-T-GTAAC----TCACAAAATTACTATCATTTTC-AAC-A-GCATCG-A-AA-----AACC-A-T--CT----------ACACTTGTATGTTGTTTTGACTAGAGA-----------AACCAAAGTGTG--CGAA-ACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCCAC-T-----TTGGTTGAAGA-TCGAACTc
gi|15 : GTG---CC--AA--------------------AAA-AAG---GGGGG----GG-GG-----------G----TA--T-T-GTAAA----TCACCAAATTACCATCATTTTC-AAC-A-GCATCG-A-AA-----AACC-C-T--CC----------A--------TGTTGTTTTGATTAGAAACCAATCATTGAAACTAATGCGCGTTCGCACACGGACTTGCGCACT-TCAACT-T-GTCTTTACTT-TGTGAATCTAC-T-----TTGGTTGATGA-
gi|16 : GATCACCGACCACAGTCCCCTTAGTTTGACTAATTTGCGATCGAACTCACTCGAGTTGCAGGAT---GACGTCAAAAATGAAACCGCGGTCCAACTCGTACTTTTAC------CGTGGTTAGTTT-A-----GTTCCAACATG-GTGGAGCAAA-TC-------------TGTGCATCTCTATTTT-----------T-A-----------------------AC----TTCCCTCCGATTCTTCaag
gi|17 : AATTCGATCACCGACCACGGTCTCCTTAGTTTGACT---TTGCGATCGAACTCGCTTTCGTTGCAGGATA-TGACGTCAAAATTTAAACCACGGTCCAACCA-------------------GGTTAGTCT-A-----GTTCCAACATG-GCGGAGCAAG-TCA-GTTTTCCGAATTGTGCATTTCTATGTTTTGCAA-----T-
gi|18 : AGTTCGATCACCGACCACGGTCTCCTTAGTTTGACTAATTTGGGATCGAACTCGCTTTAGTTGCAGGATATTGACGTCAAAATTGAAACCATGGTCCAATCTATGCTTTTAC------CATGGT-AGTTT-A-----GTTCCAATATG-GCGGA----------GTTTTCCGAATTGTACATTTC
gi|19 : ca-AAC-A-GCGTTG-AGAA-----AACC-C-T--AC----------A--------TGATGTTATGACTACAGGCAAATCATCGAA-CCAAAGTGCGTTCGCACACGTACATGCGCACCGTTAACC-T-CACTTAACCTCCGTGAATCTACAT-----TTGGTTGATGA-TC
gi|2 : tgTCAAACTCGCTTTAGTTGCAGAATA-TGACGTCAAA-TTGAAAGCAAGGTCCAACCAATGCTTTTAC------CATAGTTAGTCT-A-----GTTCCAACATG-GCGGAGTAAG-TCA-GTTTTCCGAATTGTGCATTTCTATTTTTTGCAA-----T-A-----------------------GCGTATTTCCCTCCGATTCTTCAACATATATATTAAAATT-G-CATGACTTTTGGAGTGATTTTCCGAT---TTGAT-AT-TCATGTAAACACTTAAAA---ATGCAAGTCAA-TCTCC-AAATAT--TTATTTGCATC-AAAATA----GCCCGAGATTCCTCTGACCT-T-GA--CTTGTGTAAATGGAATATA--ATA---GCCCGATTGGAAAA-TAATGTCCCGAATAGAATGTAAATTTTC--AATG---C---CA--------------------AAG-GGG---GGGGGAAGGGG-GGCAGCAGGAAAAA----TA--T-T-GTAAA----TCACCAAATTACTATAATTTCC-AAC-A-CTGTCG-A-AG----------------------------------------GTTTAGACTAGAAACAAACCATTGAAACCAAA------------ACGGACATGCGCACT-TTTACT-T-TTCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCGAACT
gi|20 : AGTTTGATCACCGACCATGGTCTCCTTAGTTTGACTAATTTGCAATGGAACTCACTTTAGTTGCAGGATA-TGATGTCAACATTGAAAc
gi|21 : gATTTTTTGCAT-----TGA-----------------------GCGTATTTCCCTCCGATTCTTCAACGTAGATATTAAA-TCGG-CATGGCTTTTGGA-----TTTTTGA
gi|22 : CATACGGACATGCGCACT-TTAATT-T-ATCCTTACTTCCGGGAATCTAC-T-----TTGGTT--TGATTCGAATTaaactgttttc
gi|23 : agaaacaaatcG-----------A----TA--T-T-GTAAA----TCACCAAATTACTATCATTTTT-AAC-A-GCGTCG-T-AA-----AACC-C-T--CC----------A--------TGTTGTTTTGACTAGAGACAAAag
gi|24 : aAGTTCGATCACCGATCATGGTCTCCTTAGTTTGACTAATTTGCGATCGAACTCACTTTAGTTG
gi|25 : gACAGACATGCGTA-T-CTAA-----------ACTTCCGTGAATATAC-T-----TTGGTTGATGA-TCGAACTt
gi|28 : AGTTCGATCACCGATCACGGTTTCCTcgc
gi|3 : gggcgGTTCGATCACCGACAACAGTCTC-------------------------ACTCACTTTAGTTGCAGGATA-TGACGTCACATTTAAAACCACTGTCCAACCAATTATTTCAC------CA--ATTATTTC-ACCATGGTTT--GCATA-GAGGAGTAAG-TCG-GTTTTCCCAATTGTGCATTTCCAATATTCGCAA-----T-A-----------------------G--TATTTCCCTCCGATTCTTCAACGTACATATTAA--TT-G-CATGGCTT-------------CTGATTTGTTGAT-AT-TTATGTAAACA----------ATACAA-AAAAGTCTCC-AAA-AG--TTATCTGTATTAAAGATA----GCCCGATATT------------------TTGCCTGAATGGGATATG--ATG---ACCCGTTTGGGGA--T--TGTCTGGAATAGGATTTAAATTTTC--AGTG---C---CA--------------------AAATAGG---GGCG---------------------A----TA--T-T-GTAAA----TCATTTAATTACTATCATTT-C-AAC-A-GTGTCG-G-AATCCCCACCCAC-C--CC----------A--------TGTTGTTTTGACTAGAGACAAACC------------GTGCGTTCGCATACGGACATGCGCACT-TTAACC-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCGAACT
gi|4 : AGTTACATCACCAACCACATTCTTCTTTGTTTGAC--------GATGGAGCTTGCTTTAGTTGCAGGATA-AGACGTTATAATTGAAACCCTTGTCCAACCCATACCTTTAC------TGTGGTCAGTTT-A-----GTTTCAACCCT-GCGGAATAAG-ACA-GGTTTCCGAATTGTGCATTTCTGTTTTATGCAACAGCGT-A-----------------------GCGTATCTACCTCCAATTCTTCGAGGTAGATATT-GA-TT-GACATATCTTTTGCTGTAATTCTCTGATCTGTAGAg
gi|4 : gTTCTCTGATCTGTAGAAGCTTGACTAAATTGAATTTT--AGA---GCCCGTTTGGGAAA-TGATATCCCGAATAGGATATGCATTTAC--AGTGTCCC---AATCCCCCCTCCCCTCCTCCCCAAA-AGG---GGAAG----AA-AA-----------A----AA--T-C--TAAA----TACCCAGATAACTATCATTTTC-AAC-A-GCGTCG-A-AA-----AACT-C-T--CT----------T--------CGTTGTTTGGACTAAAGGTCAGCCATTGAAATCAATGTGCTTTTGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGGGAATagcttgactaaattgaattttagagcccgtttgggaaatgatatcccgaataggatatgcatttacagtgtcccaatcccccctcccctcctccccaaaaggggaagaaaaaaatctaaatacccagataactatcattttcaacagcgtcgaaaaactctcttcgttgtttggactaaaggtcagccattgaaatcaatgtgcttttgcacacggacatgcgcactttaacttatctttacttccgggaat
gi|5 : gagttacatcaccaaccacattcttctttgtttgacgatggagcttgctttagttgcaggataagacgttataattgaaacccttgtccaacccatacctttactgtggtcagtttagtttcaaccctgcggaataagacaggtttccgaattgtgcatttctgttttatgcaacagcgtagcgtatctacctccaattcttcgaggtagatattgattgacatatcttttgctgtaaATCACC-ATCACTGT-TCCTTAGTTTGAATACTTTGCGATCGAACTCACTTTCGTAGCAGAATA-TGACGTCTAAAATGAAACCGCTGTCCAACCGATGCTTTTACATGTACCATGGTCAGTTTTA-----GTT---AC-TGAGCGGAGTAAA-TCGAGTTTTCCGAATTGTGCATATCTAGTTTTTACAA-----T-A-----------------------GCGTATTTCCCTCAGATTCTTCGACGTATATATTAAA-TT-G-CATGTCTTTTAGATTGGTTTTCAGATCCGCTAAT-A--TGATGTAAACA--------------AA-T----TCTTCAAAATATAATTATCTGTATTGAAAATA----GCCCGATATTTCTCTGACCT-T-GA--CTTGCCTAAATGGGAT-TG--ATA---GCCCATTTGGGAAA-TAATGTCTCGAAAAGGATA-ATATTTAC--AGTG---G---GA--------------------AA---------------------------------A----TA--T-T-GTAAA----TCACGAAATTACTGTCATTTTC-AAC-A-GCGTCA-A-AA-----AACC-C-T--CC----------A--------TGTTGCTTTGACTAGAGAC-AACCATTGAAACCAAAGTGCGTT
gi|6 : AGTTCGATCACCGACCACAGTCTCCTag
gi|6 : gggcgAGTTGCAAGATA-TGACGTCAAAAATGAAACCGTAGTCCAATTCATTCTTTTAC------CATGGTCAGTTT-A-----GTTCCAACATG-ATGAAGTAAGGTAT-GTTTTCCAAATTGTGCACTTCTATTTTTTGCAA-----T-ACAAAAAGGCGAAGTTAACATTGTGTGCATTTCCCTCCGATTCTTTGACGTAGATATTGAA-TT-G-CATGTCTTTTGGAGTAATTTTCTGATCT----------------AAA-A----------ATGTAA-TCAT-TCTAC-AAATAT--TTATCTGTATTGAAAATA----GCCCGTGTTTCCTCTGATCT-T-GA--CTTGCTTAAATGGGTGACA--ATA---GCCCGTTTGGGAAA-TGATGTCCCGAATAGGATGTAAATTTAC--AA-A---A---GA--------------------AAA-AGG---GGAGG----nnnnnnnnnannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnggctgaagttgcaagatatgacgtcaaaaatgaaaccgtagtccaattcattcttttaccatggtcagtttagttccaacatgatgaagtaaggtatgttttccaaattgtgcacttctattttttgcaatacaaaaaggcgaagttaacattgtgtgcatttccctccgattctttgacgtagatattgaattgcatgtcttttggagtaattttctgatctaaaaatgtaatcattctacaaatatttatctgtattgaaaatagcccgtgtttcctctgatcttgacttgcttaaatgggtgacaatagcccgtttgggaaatgatgtcccgaataggatgtaaatttacaaaagaaaaaggggagg
gi|7 : gggcgagttcgatcaccgaccacagtctcctnnnnnnnnnannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnggctgaGTATTACCC-CCGATTCTTCAACGTGGATATTAAA-TT-G-CATGGTTTTTGGAGTGACTTTCTGTTTTGTTGAT-AT-TCATGTAAACACTTAAAA---ATGCAA-TCAA-TCTCC-AAATAT--TTATCTGTATTAAAAATACTCGGCTCGAGATTCCTCTGACCT-T-GA--CTTGCCTAAATAGGATATC--ATA---GCCTGTTTGGGAAA-TAATGTCCTGAATAGGATGTACATTTTC--AGTT---CCTAGG--------------------GGA-GGG---GGGGG----GGTGG-----------A----TA--T-T-GTAAA----TCACCAAATTACTATTA-TTTC-AAC-A-GCGTCG-A-AA-----AACT-C-T--CC----------A--------TG-----------AGA----------------CAAAGTGCGTTCGCACACGTACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGGTGG-TCG
gi|8 : TTTCTGATTTGTTGATGATATCATGTAAACACTTAAAAATCATGCAA-TCGA-TCTCC-AAATAT--TTATTCGTATTGAAAATA----GCCCGAGATTCCTCTGACCA-T-GA--CTTGCCTAAATGGGATATA--ATATTAGTCCGTTTGGGAAA-TATTGTCCTGAATAGGATATAAATTTAC--AGTG---C---CA--------------------AAA-AGG---TGAAG----GG-GG----------------TA--T-T-TTAAA----TCACAAAATTACTATCATTTTCCAAC-A-GCGTTG-A-AA-----AACC-C-T--AC----------A--------TGTTATTTTGACTAGAGACAATCC------------GTGCTTTCGCACAGGGACATTCGCA---------------TTTACTTCCGTGTATCTGC-T-----TTGTCCTATGA-TCGAt
gi|9 : GCGATCGAACTCACTTTAGTTGTA
gi|9 : T--TTAGTTGTATTATAAATA----GCCCAAGATTCCT--------T-GA--CTTGCCTAAATGGGATATATAATA---GCCCGATTGGGAAA-TAATGTCCCAAATAGGATATAAATGTTC--AGTG---C---CA--------------------AAA-AAG---GGTGG----GG-GG-----------T----TA--T-T-GTAAAGATTTCACCAAATTACTATCATTTTC-AAC-A-CTGCCG-A-AA-----ACCC-C-T--CC----------A--------TGTTGTTTTGACTAGAGACAAAGCATTGGAAACAAAGTG--------------CATGCGCAAT-TTAACTATAATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGttataaatagcccaagattccttgacttgcctaaatgggatatataatagcccgattgggaaataatgtcccaaataggatataaatgttcagtgccaaaaaagggtggggggttattgtaaagatttcaccaaattactatcattttcaacactgccgaaaacccctccatgttgttttgactagagacaaagcattggaaacaaagtgcatgcgcaatttaactataatctttacttccgtgaatctactttggttgatg
2 sequences could not be aligned to this reference sequence:
Unaligned ( gi|26 ): TTTACTAATTGGATGTATTTCTAATTCTAATATTTACTAGTTATACTTTCA
Unaligned ( gi|27 ): CAAACAATTTCAAGTTGTTTTTCATTGTTCAACAATTACTTCTCTAGC
Alignments
lowQualScore : 111111 11111 11 11111 44444444444444444444444 1111 11111111 1111 2222222222222222222222222 1111111111111111 1111111111111111111 11111
lowQualScore : 33 0 3 0 0 0 1 0 111111 2 1 4 00000 4 4 00 0 1 00000 4 11111111111111111111111 1 55 4 4 1 1 1 2 5 88 0 0 6666 11111111 0 5 66 4 0000 4 4 55 1 55 666 3 1 44 555 6666666666666666666666666 2 555 6666 3 8888888888888888 33 2 2 8888 1 2 2 2 2 2 66666 2 2 33 5555555555555555555 0 0 3 00000 0 1 1 2 2 44 2 77777 3
lowQualScore : .. . . . . . . . ...... . . . ..... . . .. . . ..... . ....................... . .. . . . . . . . .. . . .... ........ . . .. . .... . . .. . .. ... . . .. ... ......................... . ... .... . ................ .. . . .... . . . . . . ..... . . .. ................... . . . ..... . . . . . .. . ..... .
lowQualScore : 77 7 6 5 5 7 0 7 555555 1 4 0 00000 0 0 44 7 1 00000 0 11111111111111111111111 7 44 4 4 0 1 9 7 0 44 2 1 1111 66666666 3 7 99 2 6666 0 0 55 1 00 444 6 2 22 000 6666666666666666666666666 9 000 1111 1 1111111111111111 99 9 9 9999 9 7 7 7 7 7 77777 7 7 77 7777777777777777777 9 5 3 55555 6 9 2 7 7 55 9 11111 1
consensus : AGTTCGATCACCGACCACGGTCTCCTTAGTTTGACTAATTTGCGATCGAACTCGCTTTAGTTGCAGGATA-TGACGTCAAAATTGAAACCGCGGTCCAACCNATGCTTTTAC------CGTGGTCAGTTT-A-----GTTCCAACATG-GCGGAGTAAG-TCG-GTTTTCCGAATTGTGCATTTCTATTTTTTGCAA-----T-A-----------------------GCGTATTTCCCTCCGATTCTTCGACGTAGATATTAAA-TT-G-CATGNCTTTTGGAGTGATTTTCTGATCTGTTGAT-AT-TCATGTAAACACT-TAAAAAT---GCAA-TCAATCTCC-AAATAT--TTATCTGTATTGAAAATA----GCCCGAGATTCCTCTGACCT-T-GA--CTTGCCTAAATGGGATATA--ATA---GCCCGTTTGGGAAA-TAATGTCCCGAATAGGATATAAATTTTC--AGTG---C---GA--------------------AAA-AGG---GGGGG----GG-GG-----------A----TA--T-T-GTAAA----TCACCAAATTACTATCATTTTC-AAC-A-GCGTCG-A-AA-----AACC-C-T--CC----------A--------TGTTGTTTTGACTAGAGACAAACCATTGAAACCAAAGTGCGTTCGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCGAACT
Reference ( family-3422 ) : AGTTCGATCACCGACCACGGTCTCCTTAGTTTGACTAATTTGCGATCGAACTCGCTTTAGTTGCAGGATA-TGACGTCAAAATTGAAACCGCGGTCCAACCNATGCTTTTAC------CGTGGTCAGTTT-A-----GTTCCAACATG-GCGGAGTAAG-TCG-GTTTTCCGAATTGTGCATTTCTATTTTTTGCAA-----T-A-----------------------GCGTATTTCCCTCCGATTCTTCGACGTAGATATTAAA-TT-G-CATGNCTTTTGGAGTGATTTTCTGATCTGTTGAT-AT-TCATGTAAACACT-TAAAAAT---GCAA-TCAATCTCC-AAATAT--TTATCTGTATTGAAAATA----GCCCGAGATTCCTCTGACCT-T-GA--CTTGCCTAAATGGGATATA--ATA---GCCCGTTTGGGAAA-TAATGTCCCGAATAGGATATAAATTTTC--AGTG---C---GA--------------------AAA-AGG---GGGGG----GG-GG-----------A----TA--T-T-GTAAA----TCACCAAATTACTATCATTTTC-AAC-A-GCGTCG-A-AA-----AACC-C-T--CC----------A--------TGTTGTTTTGACTAGAGACAAACCATTGAAACCAAAGTGCGTTCGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCGAACT
gi|1 : AGTTTGATCACCGACCATGGTCTCCCTAGATTGACTAATTTGCAATCGAAATCACTTTATTTGCAGGATA-TGACGTCAAAATTGAAACCATGGCCCAACCAATGCTTTTAC------CATGGTCAGTTT-A-----GTTCTAACATG-GCGGAGTAAG-TCG-GTTTTCCGAATTGTTCATTTCTATTTTTTGCTA-----T-A-----------------------GCGTATTTCCCTCCGATTCTTTAACGTAGATATTAAG-TT-A-CATGGCTTTTGAAGTGATTTTCTGATTTGTTGAT-AT-TCATG---------TAAAAAT---GCAA-TCAATCTCG-AAATAT--TTATCTGTAATATGAATA----GCCTGAGATTCCTCTGTCCT-T-GA--CTTGCATAAATGGGATTAA--ATG---ACCCGTTTGGGAAG-TAATGTGCCGAATAGGATATAAAGTTTC--AGTG---C---AA--------------------AAA-ATG---GGGGG----AG-GG-----------A----TA--T-T-GAAAA----TCACCAAATTACT---ATTTTC-AAC-A-GCGTCT-T-AA-----AACC-C-T--CC----------A--------TCTTGTTTTGACTAGAGACAAACCATTGAAACCAAAGTGCGTTCCCACACGGACATGCGCACT-TTAATT-T-ATCTTTACTTCCGTGAATCTAC-TTTCCATTGGTTGATGA-TCGAACT
gi|10 : TA--ATA---GCCCGTTTGGGAAG-TAATGTCTTCAATAGGATATACATTTTC--GGTG---C---CA--------------------AAA-AAAACAGGGAG----GG-GG-----------A----TA--T-T-GTAAA----TCAC----TCAGTATCATTTTC-AAC-A-GCGTCG-A-AA-----C-CC-C-TAGCA----------A--------TGTAGTTTTGACTAGAGAAGAACCTTTGAAATCACAGTGCGTTCGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCAAA
gi|11 : CT-T-GA--CTTGCCTACATGGAAAATA--ATA---GCTCGTTTGGAAAAGTAATGCCCCGAATAG-----------TC--GGC----C---AA--------------------CAA-AGG---TAGCA----AA-TA-----------G----TA--T-TTGCAGAG---TTACCAATTTAC-ATCATTTTC-AAA-AAGCGTTG-A-AA-----AACC-T-T--CC----------A--------TGTTTTTTTGACTAGATACAAA--------ACT------------CACACGTACATGCGCACT-TAAACT-T-ATCTTTACTTCCG-GACTCTAC-T-----TTGGTTGATGA-TCGAACT
gi|12 : TTCTTAGTTATACTACTTTGCTATCGAACTAAATTTAGTTGCAGGATA-TGACGTCAAAAATGAAACCGCAGTCCAACCCATGCTTTTAC------CGTGGTCTGTTT-A-----GTTCCAACATG-GCGGAATAAG-TAA-A-TTTCCGAAT------------TTTTAAGCAA-----T-A-----------------------GCGTATTTCCCTCC--------------GATATTAAT-TT-G-CATTTCTTTTGGAGTTATGTTCTGATCTGATGAT-AA-TTATGTAAc
gi|13 : agtATGAATTTTTGTAGTG---C---GA--------------------AAA-GGG---GAGGG----GA-GG-----------A----CAAATAT-GTAAC----TCACAAAATTACTATCATTTCC-AACAA-GCATCGAA-AA-----AACC-CAT--CCTACACTTGTTA--------TG-TGTTTTGACTAGA-----------GAAACCAAAGTG-GTGCG-AAACGGACATG-GCACT-TCAACT-T--TCTTTA-TTCCGTGAATC-AC-T-----TTGGTTGAAGA-TCGAACTc
gi|14 : a--AGTG---C---GA--------------------AAA-GGG---AGGGG----GA-GG-----------ACAAATA--T-T-GTAAC----TCACAAAATTACTATCATTTTC-AAC-A-GCATCG-A-AA-----AACC-A-T--CT----------ACACTTGTATGTTGTTTTGACTAGAGA-----------AACCAAAGTGTG--CGAA-ACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCCAC-T-----TTGGTTGAAGA-TCGAACTc
gi|15 : GTG---CC--AA--------------------AAA-AAG---GGGGG----GG-GG-----------G----TA--T-T-GTAAA----TCACCAAATTACCATCATTTTC-AAC-A-GCATCG-A-AA-----AACC-C-T--CC----------A--------TGTTGTTTTGATTAGAAACCAATCATTGAAACTAATGCGCGTTCGCACACGGACTTGCGCACT-TCAACT-T-GTCTTTACTT-TGTGAATCTAC-T-----TTGGTTGATGA-
gi|16 : GATCACCGACCACAGTCCCCTTAGTTTGACTAATTTGCGATCGAACTCACTCGAGTTGCAGGAT---GACGTCAAAAATGAAACCGCGGTCCAACTCGTACTTTTAC------CGTGGTTAGTTT-A-----GTTCCAACATG-GTGGAGCAAA-TC-------------TGTGCATCTCTATTTT-----------T-A-----------------------AC----TTCCCTCCGATTCTTCaag
gi|17 : AATTCGATCACCGACCACGGTCTCCTTAGTTTGACT---TTGCGATCGAACTCGCTTTCGTTGCAGGATA-TGACGTCAAAATTTAAACCACGGTCCAACCA-------------------GGTTAGTCT-A-----GTTCCAACATG-GCGGAGCAAG-TCA-GTTTTCCGAATTGTGCATTTCTATGTTTTGCAA-----T-
gi|18 : AGTTCGATCACCGACCACGGTCTCCTTAGTTTGACTAATTTGGGATCGAACTCGCTTTAGTTGCAGGATATTGACGTCAAAATTGAAACCATGGTCCAATCTATGCTTTTAC------CATGGT-AGTTT-A-----GTTCCAATATG-GCGGA----------GTTTTCCGAATTGTACATTTC
gi|19 : ca-AAC-A-GCGTTG-AGAA-----AACC-C-T--AC----------A--------TGATGTTATGACTACAGGCAAATCATCGAA-CCAAAGTGCGTTCGCACACGTACATGCGCACCGTTAACC-T-CACTTAACCTCCGTGAATCTACAT-----TTGGTTGATGA-TC
gi|2 : tgTCAAACTCGCTTTAGTTGCAGAATA-TGACGTCAAA-TTGAAAGCAAGGTCCAACCAATGCTTTTAC------CATAGTTAGTCT-A-----GTTCCAACATG-GCGGAGTAAG-TCA-GTTTTCCGAATTGTGCATTTCTATTTTTTGCAA-----T-A-----------------------GCGTATTTCCCTCCGATTCTTCAACATATATATTAAAATT-G-CATGACTTTTGGAGTGATTTTCCGAT---TTGAT-AT-TCATGTAAACACT-TAAAAAT---GCAAGTCAATCTCC-AAATAT--TTATTTGCATC-AAAATA----GCCCGAGATTCCTCTGACCT-T-GA--CTTGTGTAAATGGAATATA--ATA---GCCCGATTGGAAAA-TAATGTCCCGAATAGAATGTAAATTTTC--AATG---C---CA--------------------AAG-GGG---GGGGGAAGGGG-GGCAGCAGGAAAAA----TA--T-T-GTAAA----TCACCAAATTACTATAATTTCC-AAC-A-CTGTCG-A-AG----------------------------------------GTTTAGACTAGAAACAAACCATTGAAACCAAA------------ACGGACATGCGCACT-TTTACT-T-TTCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCGAACT
gi|20 : AGTTTGATCACCGACCATGGTCTCCTTAGTTTGACTAATTTGCAATGGAACTCACTTTAGTTGCAGGATA-TGATGTCAACATTGAAAc
gi|21 : gATTTTTTGCAT-----TGA-----------------------GCGTATTTCCCTCCGATTCTTCAACGTAGATATTAAA-TCGG-CATGGCTTTTGGA-----TTTTTGA
gi|22 : CATACGGACATGCGCACT-TTAATT-T-ATCCTTACTTCCGGGAATCTAC-T-----TTGGTT--TGATTCGAATTaaactgttttc
gi|23 : agaaacaaatcG-----------A----TA--T-T-GTAAA----TCACCAAATTACTATCATTTTT-AAC-A-GCGTCG-T-AA-----AACC-C-T--CC----------A--------TGTTGTTTTGACTAGAGACAAAag
gi|24 : aAGTTCGATCACCGATCATGGTCTCCTTAGTTTGACTAATTTGCGATCGAACTCACTTTAGTTG
gi|25 : gACAGACATGCGTA-T-CTAA-----------ACTTCCGTGAATATAC-T-----TTGGTTGATGA-TCGAACTt
gi|28 : AGTTCGATCACCGATCACGGTTTCCTcgc
gi|3 : gggcgGTTCGATCACCGACAACAGTCTC-------------------------ACTCACTTTAGTTGCAGGATA-TGACGTCACATTTAAAACCACTGTCCAACCAATTATTTCAC------CA--ATTATTTC-ACCATGGTTT--GCATA-GAGGAGTAAG-TCG-GTTTTCCCAATTGTGCATTTCCAATATTCGCAA-----T-A-----------------------G--TATTTCCCTCCGATTCTTCAACGTACATATTAA--TT-G-CATGGCTT-------------CTGATTTGTTGAT-AT-TTATGTAAACAATACAAAAA-----------AGTCTCC-AAA-AG--TTATCTGTATTAAAGATA----GCCCGATATT------------------TTGCCTGAATGGGATATG--ATG---ACCCGTTTGGGGA--T--TGTCTGGAATAGGATTTAAATTTTC--AGTG---C---CA--------------------AAATAGG---GGCG---------------------A----TA--T-T-GTAAA----TCATTTAATTACTATCATTT-C-AAC-A-GTGTCG-G-AATCCCCACCCAC-C--CC----------A--------TGTTGTTTTGACTAGAGACAAACC------------GTGCGTTCGCATACGGACATGCGCACT-TTAACC-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCGAACT
gi|4 : AGTTACATCACCAACCACATTCTTCTTTGTTTGAC--------GATGGAGCTTGCTTTAGTTGCAGGATA-AGACGTTATAATTGAAACCCTTGTCCAACCCATACCTTTAC------TGTGGTCAGTTT-A-----GTTTCAACCCT-GCGGAATAAG-ACA-GGTTTCCGAATTGTGCATTTCTGTTTTATGCAACAGCGT-A-----------------------GCGTATCTACCTCCAATTCTTCGAGGTAGATATT-GA-TT-GACATATCTTTTGCTGTAATTCTCTGATCTGTAGAg
gi|4 : gTTCTCTGATCTGTAGAAGCTTGACTAAATTGAATTTT--AGA---GCCCGTTTGGGAAA-TGATATCCCGAATAGGATATGCATTTAC--AGTGTCCC---AATCCCCCCTCCCCTCCTCCCCAAA-AGG---GGAAG----AA-AA-----------A----AA--T-C--TAAA----TACCCAGATAACTATCATTTTC-AAC-A-GCGTCG-A-AA-----AACT-C-T--CT----------T--------CGTTGTTTGGACTAAAGGTCAGCCATTGAAATCAATGTGCTTTTGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGGGAATagcttgactaaattgaattttagagcccgtttgggaaatgatatcccgaataggatatgcatttacagtgtcccaatcccccctcccctcctccccaaaaggggaagaaaaaaatctaaatacccagataactatcattttcaacagcgtcgaaaaactctcttcgttgtttggactaaaggtcagccattgaaatcaatgtgcttttgcacacggacatgcgcactttaacttatctttacttccgggaat
gi|5 : gagttacatcaccaaccacattcttctttgtttgacgatggagcttgctttagttgcaggataagacgttataattgaaacccttgtccaacccatacctttactgtggtcagtttagtttcaaccctgcggaataagacaggtttccgaattgtgcatttctgttttatgcaacagcgtagcgtatctacctccaattcttcgaggtagatattgattgacatatcttttgctgtaaATCACC-ATCACTGT-TCCTTAGTTTGAATACTTTGCGATCGAACTCACTTTCGTAGCAGAATA-TGACGTCTAAAATGAAACCGCTGTCCAACCGATGCTTTTACATGTACCATGGTCAGTTTTA-----GTT---AC-TGAGCGGAGTAAA-TCGAGTTTTCCGAATTGTGCATATCTAGTTTTTACAA-----T-A-----------------------GCGTATTTCCCTCAGATTCTTCGACGTATATATTAAA-TT-G-CATGTCTTTTAGATTGGTTTTCAGATCCGCTAAT-A--TGATGTAAAC-------AAAT------------TCTTCAAAATATAATTATCTGTATTGAAAATA----GCCCGATATTTCTCTGACCT-T-GA--CTTGCCTAAATGGGAT-TG--ATA---GCCCATTTGGGAAA-TAATGTCTCGAAAAGGATA-ATATTTAC--AGTG---G---GA--------------------AA---------------------------------A----TA--T-T-GTAAA----TCACGAAATTACTGTCATTTTC-AAC-A-GCGTCA-A-AA-----AACC-C-T--CC----------A--------TGTTGCTTTGACTAGAGAC-AACCATTGAAACCAAAGTGCGTT
gi|6 : AGTTCGATCACCGACCACAGTCTCCTag
gi|6 : gggcgAGTTGCAAGATA-TGACGTCAAAAATGAAACCGTAGTCCAATTCATTCTTTTAC------CATGGTCAGTTT-A-----GTTCCAACATG-ATGAAGTAAGGTAT-GTTTTCCAAATTGTGCACTTCTATTTTTTGCAA-----T-ACAAAAAGGCGAAGTTAACATTGTGTGCATTTCCCTCCGATTCTTTGACGTAGATATTGAA-TT-G-CATGTCTTTTGGAGTAATTTTCTGATCT-------------------------AAAAAT---GTAA-TCATTCTAC-AAATAT--TTATCTGTATTGAAAATA----GCCCGTGTTTCCTCTGATCT-T-GA--CTTGCTTAAATGGGTGACA--ATA---GCCCGTTTGGGAAA-TGATGTCCCGAATAGGATGTAAATTTAC--AA-A---A---GA--------------------AAA-AGG---GGAGG----nnnnnnnnnannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnggctgaagttgcaagatatgacgtcaaaaatgaaaccgtagtccaattcattcttttaccatggtcagtttagttccaacatgatgaagtaaggtatgttttccaaattgtgcacttctattttttgcaatacaaaaaggcgaagttaacattgtgtgcatttccctccgattctttgacgtagatattgaattgcatgtcttttggagtaattttctgatctaaaaatgtaatcattctacaaatatttatctgtattgaaaatagcccgtgtttcctctgatcttgacttgcttaaatgggtgacaatagcccgtttgggaaatgatgtcccgaataggatgtaaatttacaaaagaaaaaggggagg
gi|7 : gggcgagttcgatcaccgaccacagtctcctnnnnnnnnnannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnggctgaGTATTACCC-CCGATTCTTCAACGTGGATATTAAA-TT-G-CATGGTTTTTGGAGTGACTTTCTGTTTTGTTGAT-AT-TCATGTAAACACT-TAAAAAT---GCAA-TCAATCTCC-AAATAT--TTATCTGTATTAAAAATACTCGGCTCGAGATTCCTCTGACCT-T-GA--CTTGCCTAAATAGGATATC--ATA---GCCTGTTTGGGAAA-TAATGTCCTGAATAGGATGTACATTTTC--AGTT---CCTAGG--------------------GGA-GGG---GGGGG----GGTGG-----------A----TA--T-T-GTAAA----TCACCAAATTACTATTA-TTTC-AAC-A-GCGTCG-A-AA-----AACT-C-T--CC----------A--------TG-----------AGA----------------CAAAGTGCGTTCGCACACGTACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGGTGG-TCG
gi|8 : TTTCTGATTTGTTGATGATATCATGTAAACACT-TAAAAATCATGCAA-TCGATCTCC-AAATAT--TTATTCGTATTGAAAATA----GCCCGAGATTCCTCTGACCA-T-GA--CTTGCCTAAATGGGATATA--ATATTAGTCCGTTTGGGAAA-TATTGTCCTGAATAGGATATAAATTTAC--AGTG---C---CA--------------------AAA-AGG---TGAAG----GG-GG----------------TA--T-T-TTAAA----TCACAAAATTACTATCATTTTCCAAC-A-GCGTTG-A-AA-----AACC-C-T--AC----------A--------TGTTATTTTGACTAGAGACAATCC------------GTGCTTTCGCACAGGGACATTCGCA---------------TTTACTTCCGTGTATCTGC-T-----TTGTCCTATGA-TCGAt
gi|9 : GCGATCGAACTCACTTTAGTTGTA
gi|9 : T--TTAGTTGTATTATAAATA----GCCCAAGATTCCT--------T-GA--CTTGCCTAAATGGGATATATAATA---GCCCGATTGGGAAA-TAATGTCCCAAATAGGATATAAATGTTC--AGTG---C---CA--------------------AAA-AAG---GGTGG----GG-GG-----------T----TA--T-T-GTAAAGATTTCACCAAATTACTATCATTTTC-AAC-A-CTGCCG-A-AA-----ACCC-C-T--CC----------A--------TGTTGTTTTGACTAGAGACAAAGCATTGGAAACAAAGTG--------------CATGCGCAAT-TTAACTATAATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGttataaatagcccaagattccttgacttgcctaaatgggatatataatagcccgattgggaaataatgtcccaaataggatataaatgttcagtgccaaaaaagggtggggggttattgtaaagatttcaccaaattactatcattttcaacactgccgaaaacccctccatgttgttttgactagagacaaagcattggaaacaaagtgcatgcgcaatttaactataatctttacttccgtgaatctactttggttgatg
2 sequences could not be aligned to this reference sequence:
Unaligned ( gi|26 ): TTTACTAATTGGATGTATTTCTAATTCTAATATTTACTAGTTATACTTTCA
Unaligned ( gi|27 ): CAAACAATTTCAAGTTGTTTTTCATTGTTCAACAATTACTTCTCTAGC
Alignments
lowQualScore : 111111 11111 11 11111 44444444444444444444444 1111 11111111 1111 2222222222222222222222222 1111111111111111 1111111111111111111 11111
lowQualScore : 33 0 3 0 0 0 1 0 111111 2 1 4 00000 4 4 00 0 1 00000 4 11111111111111111111111 1 55 4 4 1 1 1 2 5 88 0 0 6666 11111111 0 5 66 4 0000 4 4 55 1 55 666 3 1 44 555 6666666666666666666666666 2 555 6666 3 8888888888888888 33 2 2 8888 1 2 2 2 2 2 66666 2 2 33 5555555555555555555 0 0 3 00000 0 1 1 2 2 44 2 77777 3
lowQualScore : .. . . . . . . . ...... . . . ..... . . .. . . ..... . ....................... . .. . . . . . . . .. . . .... ........ . . .. . .... . . .. . .. ... . . .. ... ......................... . ... .... . ................ .. . . .... . . . . . . ..... . . .. ................... . . . ..... . . . . . .. . ..... .
lowQualScore : 77 7 6 5 5 7 0 7 555555 1 4 0 00000 0 0 44 7 1 00000 0 11111111111111111111111 7 44 4 4 0 1 9 7 0 44 2 1 1111 66666666 3 7 99 2 6666 0 0 55 1 00 444 6 2 22 000 6666666666666666666666666 9 000 1111 1 1111111111111111 99 9 9 9999 9 7 7 7 7 7 77777 7 7 77 7777777777777777777 9 5 3 55555 6 9 2 7 7 55 9 11111 1
consensus : AGTTCGATCACCGACCACGGTCTCCTTAGTTTGACTAATTTGCGATCGAACTCGCTTTAGTTGCAGGATA-TGACGTCAAAATTGAAACCGCGGTCCAACCNATGCTTTTAC------CGTGGTCAGTTT-A-----GTTCCAACATG-GCGGAGTAAG-TCG-GTTTTCCGAATTGTGCATTTCTATTTTTTGCAA-----T-A-----------------------GCGTATTTCCCTCCGATTCTTCGACGTAGATATTAAA-TT-G-CATGNCTTTTGGAGTGATTTTCTGATCTGTTGAT-AT-TCATGTAAACACT-TAAAAAT---GCAA-TCAATCTCC-AAATAT--TTATCTGTATTGAAAATA----GCCCGAGATTCCTCTGACCT-T-GA--CTTGCCTAAATGGGATATA--ATA---GCCCGTTTGGGAAA-TAATGTCCCGAATAGGATATAAATTTTC--AGTG---C---GA--------------------AAA-AGG---GGGGG----GG-GG-----------A----TA--T-T-GTAAA----TCACCAAATTACTATCATTTTC-AAC-A-GCGTCG-A-AA-----AACC-C-T--CC----------A--------TGTTGTTTTGACTAGAGACAAACCATTGAAACCAAAGTGCGTTCGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCGAACT
Reference ( family-3422 ) : AGTTCGATCACCGACCACGGTCTCCTTAGTTTGACTAATTTGCGATCGAACTCGCTTTAGTTGCAGGATA-TGACGTCAAAATTGAAACCGCGGTCCAACCNATGCTTTTAC------CGTGGTCAGTTT-A-----GTTCCAACATG-GCGGAGTAAG-TCG-GTTTTCCGAATTGTGCATTTCTATTTTTTGCAA-----T-A-----------------------GCGTATTTCCCTCCGATTCTTCGACGTAGATATTAAA-TT-G-CATGNCTTTTGGAGTGATTTTCTGATCTGTTGAT-AT-TCATGTAAACACT-TAAAAAT---GCAA-TCAATCTCC-AAATAT--TTATCTGTATTGAAAATA----GCCCGAGATTCCTCTGACCT-T-GA--CTTGCCTAAATGGGATATA--ATA---GCCCGTTTGGGAAA-TAATGTCCCGAATAGGATATAAATTTTC--AGTG---C---GA--------------------AAA-AGG---GGGGG----GG-GG-----------A----TA--T-T-GTAAA----TCACCAAATTACTATCATTTTC-AAC-A-GCGTCG-A-AA-----AACC-C-T--CC----------A--------TGTTGTTTTGACTAGAGACAAACCATTGAAACCAAAGTGCGTTCGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCGAACT
gi|1 : AGTTTGATCACCGACCATGGTCTCCCTAGATTGACTAATTTGCAATCGAAATCACTTTATTTGCAGGATA-TGACGTCAAAATTGAAACCATGGCCCAACCAATGCTTTTAC------CATGGTCAGTTT-A-----GTTCTAACATG-GCGGAGTAAG-TCG-GTTTTCCGAATTGTTCATTTCTATTTTTTGCTA-----T-A-----------------------GCGTATTTCCCTCCGATTCTTTAACGTAGATATTAAG-TT-A-CATGGCTTTTGAAGTGATTTTCTGATTTGTTGAT-AT-TCATG---------TAAAAAT---GCAA-TCAATCTCG-AAATAT--TTATCTGTAATATGAATA----GCCTGAGATTCCTCTGTCCT-T-GA--CTTGCATAAATGGGATTAA--ATG---ACCCGTTTGGGAAG-TAATGTGCCGAATAGGATATAAAGTTTC--AGTG---C---AA--------------------AAA-ATG---GGGGG----AG-GG-----------A----TA--T-T-GAAAA----TCACCAAATTACT---ATTTTC-AAC-A-GCGTCT-T-AA-----AACC-C-T--CC----------A--------TCTTGTTTTGACTAGAGACAAACCATTGAAACCAAAGTGCGTTCCCACACGGACATGCGCACT-TTAATT-T-ATCTTTACTTCCGTGAATCTAC-TTTCCATTGGTTGATGA-TCGAACT
gi|10 : TA--ATA---GCCCGTTTGGGAAG-TAATGTCTTCAATAGGATATACATTTTC--GGTG---C---CA--------------------AAA-AAAACAGGGAG----GG-GG-----------A----TA--T-T-GTAAA----TCAC----TCAGTATCATTTTC-AAC-A-GCGTCG-A-AA-----C-CC-C-TAGCA----------A--------TGTAGTTTTGACTAGAGAAGAACCTTTGAAATCACAGTGCGTTCGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCAAA
gi|11 : CT-T-GA--CTTGCCTACATGGAAAATA--ATA---GCTCGTTTGGAAAAGTAATGCCCCGAATAG-----------TC--GGC----C---AA--------------------CAA-AGG---TAGCA----AA-TA-----------G----TA--T-TTGCAGAG---TTACCAATTTAC-ATCATTTTC-AAA-AAGCGTTG-A-AA-----AACC-T-T--CC----------A--------TGTTTTTTTGACTAGATACAAA--------ACT------------CACACGTACATGCGCACT-TAAACT-T-ATCTTTACTTCCG-GACTCTAC-T-----TTGGTTGATGA-TCGAACT
gi|12 : TTCTTAGTTATACTACTTTGCTATCGAACTAAATTTAGTTGCAGGATA-TGACGTCAAAAATGAAACCGCAGTCCAACCCATGCTTTTAC------CGTGGTCTGTTT-A-----GTTCCAACATG-GCGGAATAAG-TAA-A-TTTCCGAAT------------TTTTAAGCAA-----T-A-----------------------GCGTATTTCCCTCC--------------GATATTAAT-TT-G-CATTTCTTTTGGAGTTATGTTCTGATCTGATGAT-AA-TTATGTAAc
gi|13 : agtATGAATTTTTGTAGTG---C---GA--------------------AAA-GGG---GAGGG----GA-GG-----------A----CAAATAT-GTAAC----TCACAAAATTACTATCATTTCC-AACAA-GCATCGAA-AA-----AACC-CAT--CCTACACTTGTTA--------TG-TGTTTTGACTAGA-----------GAAACCAAAGTG-GTGCG-AAACGGACATG-GCACT-TCAACT-T--TCTTTA-TTCCGTGAATC-AC-T-----TTGGTTGAAGA-TCGAACTc
gi|14 : a--AGTG---C---GA--------------------AAA-GGG---AGGGG----GA-GG-----------ACAAATA--T-T-GTAAC----TCACAAAATTACTATCATTTTC-AAC-A-GCATCG-A-AA-----AACC-A-T--CT----------ACACTTGTATGTTGTTTTGACTAGAGA-----------AACCAAAGTGTG--CGAA-ACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCCAC-T-----TTGGTTGAAGA-TCGAACTc
gi|15 : GTG---CC--AA--------------------AAA-AAG---GGGGG----GG-GG-----------G----TA--T-T-GTAAA----TCACCAAATTACCATCATTTTC-AAC-A-GCATCG-A-AA-----AACC-C-T--CC----------A--------TGTTGTTTTGATTAGAAACCAATCATTGAAACTAATGCGCGTTCGCACACGGACTTGCGCACT-TCAACT-T-GTCTTTACTT-TGTGAATCTAC-T-----TTGGTTGATGA-
gi|16 : GATCACCGACCACAGTCCCCTTAGTTTGACTAATTTGCGATCGAACTCACTCGAGTTGCAGGAT---GACGTCAAAAATGAAACCGCGGTCCAACTCGTACTTTTAC------CGTGGTTAGTTT-A-----GTTCCAACATG-GTGGAGCAAA-TC-------------TGTGCATCTCTATTTT-----------T-A-----------------------AC----TTCCCTCCGATTCTTCaag
gi|17 : AATTCGATCACCGACCACGGTCTCCTTAGTTTGACT---TTGCGATCGAACTCGCTTTCGTTGCAGGATA-TGACGTCAAAATTTAAACCACGGTCCAACCA-------------------GGTTAGTCT-A-----GTTCCAACATG-GCGGAGCAAG-TCA-GTTTTCCGAATTGTGCATTTCTATGTTTTGCAA-----T-
gi|18 : AGTTCGATCACCGACCACGGTCTCCTTAGTTTGACTAATTTGGGATCGAACTCGCTTTAGTTGCAGGATATTGACGTCAAAATTGAAACCATGGTCCAATCTATGCTTTTAC------CATGGT-AGTTT-A-----GTTCCAATATG-GCGGA----------GTTTTCCGAATTGTACATTTC
gi|19 : ca-AAC-A-GCGTTG-AGAA-----AACC-C-T--AC----------A--------TGATGTTATGACTACAGGCAAATCATCGAA-CCAAAGTGCGTTCGCACACGTACATGCGCACCGTTAACC-T-CACTTAACCTCCGTGAATCTACAT-----TTGGTTGATGA-TC
gi|2 : tgTCAAACTCGCTTTAGTTGCAGAATA-TGACGTCAAA-TTGAAAGCAAGGTCCAACCAATGCTTTTAC------CATAGTTAGTCT-A-----GTTCCAACATG-GCGGAGTAAG-TCA-GTTTTCCGAATTGTGCATTTCTATTTTTTGCAA-----T-A-----------------------GCGTATTTCCCTCCGATTCTTCAACATATATATTAAAATT-G-CATGACTTTTGGAGTGATTTTCCGAT---TTGAT-AT-TCATGTAAACACT-TAAAAAT---GCAAGTCAATCTCC-AAATAT--TTATTTGCATC-AAAATA----GCCCGAGATTCCTCTGACCT-T-GA--CTTGTGTAAATGGAATATA--ATA---GCCCGATTGGAAAA-TAATGTCCCGAATAGAATGTAAATTTTC--AATG---C---CA--------------------AAG-GGG---GGGGGAAGGGG-GGCAGCAGGAAAAA----TA--T-T-GTAAA----TCACCAAATTACTATAATTTCC-AAC-A-CTGTCG-A-AG----------------------------------------GTTTAGACTAGAAACAAACCATTGAAACCAAA------------ACGGACATGCGCACT-TTTACT-T-TTCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCGAACT
gi|20 : AGTTTGATCACCGACCATGGTCTCCTTAGTTTGACTAATTTGCAATGGAACTCACTTTAGTTGCAGGATA-TGATGTCAACATTGAAAc
gi|21 : gATTTTTTGCAT-----TGA-----------------------GCGTATTTCCCTCCGATTCTTCAACGTAGATATTAAA-TCGG-CATGGCTTTTGGA-----TTTTTGA
gi|22 : CATACGGACATGCGCACT-TTAATT-T-ATCCTTACTTCCGGGAATCTAC-T-----TTGGTT--TGATTCGAATTaaactgttttc
gi|23 : agaaacaaatcG-----------A----TA--T-T-GTAAA----TCACCAAATTACTATCATTTTT-AAC-A-GCGTCG-T-AA-----AACC-C-T--CC----------A--------TGTTGTTTTGACTAGAGACAAAag
gi|24 : aAGTTCGATCACCGATCATGGTCTCCTTAGTTTGACTAATTTGCGATCGAACTCACTTTAGTTG
gi|25 : gACAGACATGCGTA-T-CTAA-----------ACTTCCGTGAATATAC-T-----TTGGTTGATGA-TCGAACTt
gi|28 : AGTTCGATCACCGATCACGGTTTCCTcgc
gi|3 : gggcgGTTCGATCACCGACAACAGTCTC-------------------------ACTCACTTTAGTTGCAGGATA-TGACGTCACATTTAAAACCACTGTCCAACCAATTATTTCAC------CA--ATTATTTC-ACCATGGTTT--GCATA-GAGGAGTAAG-TCG-GTTTTCCCAATTGTGCATTTCCAATATTCGCAA-----T-A-----------------------G--TATTTCCCTCCGATTCTTCAACGTACATATTAA--TT-G-CATGGCTT-------------CTGATTTGTTGAT-AT-TTATGTAAACAATACAAAAA-----------AGTCTCC-AAA-AG--TTATCTGTATTAAAGATA----GCCCGATATT------------------TTGCCTGAATGGGATATG--ATG---ACCCGTTTGGGGA--T--TGTCTGGAATAGGATTTAAATTTTC--AGTG---C---CA--------------------AAATAGG---GGCG---------------------A----TA--T-T-GTAAA----TCATTTAATTACTATCATTT-C-AAC-A-GTGTCG-G-AATCCCCACCCAC-C--CC----------A--------TGTTGTTTTGACTAGAGACAAACC------------GTGCGTTCGCATACGGACATGCGCACT-TTAACC-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCGAACT
gi|4 : AGTTACATCACCAACCACATTCTTCTTTGTTTGAC--------GATGGAGCTTGCTTTAGTTGCAGGATA-AGACGTTATAATTGAAACCCTTGTCCAACCCATACCTTTAC------TGTGGTCAGTTT-A-----GTTTCAACCCT-GCGGAATAAG-ACA-GGTTTCCGAATTGTGCATTTCTGTTTTATGCAACAGCGT-A-----------------------GCGTATCTACCTCCAATTCTTCGAGGTAGATATT-GA-TT-GACATATCTTTTGCTGTAATTCTCTGATCTGTAGAg
gi|4 : gTTCTCTGATCTGTAGAAGCTTGACTAAATTGAATTTT--AGA---GCCCGTTTGGGAAA-TGATATCCCGAATAGGATATGCATTTAC--AGTGTCCC---AATCCCCCCTCCCCTCCTCCCCAAA-AGG---GGAAG----AA-AA-----------A----AA--T-C--TAAA----TACCCAGATAACTATCATTTTC-AAC-A-GCGTCG-A-AA-----AACT-C-T--CT----------T--------CGTTGTTTGGACTAAAGGTCAGCCATTGAAATCAATGTGCTTTTGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGGGAATagcttgactaaattgaattttagagcccgtttgggaaatgatatcccgaataggatatgcatttacagtgtcccaatcccccctcccctcctccccaaaaggggaagaaaaaaatctaaatacccagataactatcattttcaacagcgtcgaaaaactctcttcgttgtttggactaaaggtcagccattgaaatcaatgtgcttttgcacacggacatgcgcactttaacttatctttacttccgggaat
gi|5 : gagttacatcaccaaccacattcttctttgtttgacgatggagcttgctttagttgcaggataagacgttataattgaaacccttgtccaacccatacctttactgtggtcagtttagtttcaaccctgcggaataagacaggtttccgaattgtgcatttctgttttatgcaacagcgtagcgtatctacctccaattcttcgaggtagatattgattgacatatcttttgctgtaaATCACC-ATCACTGT-TCCTTAGTTTGAATACTTTGCGATCGAACTCACTTTCGTAGCAGAATA-TGACGTCTAAAATGAAACCGCTGTCCAACCGATGCTTTTACATGTACCATGGTCAGTTTTA-----GTT---AC-TGAGCGGAGTAAA-TCGAGTTTTCCGAATTGTGCATATCTAGTTTTTACAA-----T-A-----------------------GCGTATTTCCCTCAGATTCTTCGACGTATATATTAAA-TT-G-CATGTCTTTTAGATTGGTTTTCAGATCCGCTAAT-A--TGATGTAAAC-------AAAT------------TCTTCAAAATATAATTATCTGTATTGAAAATA----GCCCGATATTTCTCTGACCT-T-GA--CTTGCCTAAATGGGAT-TG--ATA---GCCCATTTGGGAAA-TAATGTCTCGAAAAGGATA-ATATTTAC--AGTG---G---GA--------------------AA---------------------------------A----TA--T-T-GTAAA----TCACGAAATTACTGTCATTTTC-AAC-A-GCGTCA-A-AA-----AACC-C-T--CC----------A--------TGTTGCTTTGACTAGAGAC-AACCATTGAAACCAAAGTGCGTT
gi|6 : AGTTCGATCACCGACCACAGTCTCCTag
gi|6 : gggcgAGTTGCAAGATA-TGACGTCAAAAATGAAACCGTAGTCCAATTCATTCTTTTAC------CATGGTCAGTTT-A-----GTTCCAACATG-ATGAAGTAAGGTAT-GTTTTCCAAATTGTGCACTTCTATTTTTTGCAA-----T-ACAAAAAGGCGAAGTTAACATTGTGTGCATTTCCCTCCGATTCTTTGACGTAGATATTGAA-TT-G-CATGTCTTTTGGAGTAATTTTCTGATCT-------------------------AAAAAT---GTAA-TCATTCTAC-AAATAT--TTATCTGTATTGAAAATA----GCCCGTGTTTCCTCTGATCT-T-GA--CTTGCTTAAATGGGTGACA--ATA---GCCCGTTTGGGAAA-TGATGTCCCGAATAGGATGTAAATTTAC--AA-A---A---GA--------------------AAA-AGG---GGAGG----nnnnnnnnnannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnggctgaagttgcaagatatgacgtcaaaaatgaaaccgtagtccaattcattcttttaccatggtcagtttagttccaacatgatgaagtaaggtatgttttccaaattgtgcacttctattttttgcaatacaaaaaggcgaagttaacattgtgtgcatttccctccgattctttgacgtagatattgaattgcatgtcttttggagtaattttctgatctaaaaatgtaatcattctacaaatatttatctgtattgaaaatagcccgtgtttcctctgatcttgacttgcttaaatgggtgacaatagcccgtttgggaaatgatgtcccgaataggatgtaaatttacaaaagaaaaaggggagg
gi|7 : gggcgagttcgatcaccgaccacagtctcctnnnnnnnnnannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnggctgaGTATTACCC-CCGATTCTTCAACGTGGATATTAAA-TT-G-CATGGTTTTTGGAGTGACTTTCTGTTTTGTTGAT-AT-TCATGTAAACACT-TAAAAAT---GCAA-TCAATCTCC-AAATAT--TTATCTGTATTAAAAATACTCGGCTCGAGATTCCTCTGACCT-T-GA--CTTGCCTAAATAGGATATC--ATA---GCCTGTTTGGGAAA-TAATGTCCTGAATAGGATGTACATTTTC--AGTT---CCTAGG--------------------GGA-GGG---GGGGG----GGTGG-----------A----TA--T-T-GTAAA----TCACCAAATTACTATTA-TTTC-AAC-A-GCGTCG-A-AA-----AACT-C-T--CC----------A--------TG-----------AGA----------------CAAAGTGCGTTCGCACACGTACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGGTGG-TCG
gi|8 : TTTCTGATTTGTTGATGATATCATGTAAACACT-TAAAAATCATGCAA-TCGATCTCC-AAATAT--TTATTCGTATTGAAAATA----GCCCGAGATTCCTCTGACCA-T-GA--CTTGCCTAAATGGGATATA--ATATTAGTCCGTTTGGGAAA-TATTGTCCTGAATAGGATATAAATTTAC--AGTG---C---CA--------------------AAA-AGG---TGAAG----GG-GG----------------TA--T-T-TTAAA----TCACAAAATTACTATCATTTTCCAAC-A-GCGTTG-A-AA-----AACC-C-T--AC----------A--------TGTTATTTTGACTAGAGACAATCC------------GTGCTTTCGCACAGGGACATTCGCA---------------TTTACTTCCGTGTATCTGC-T-----TTGTCCTATGA-TCGAt
gi|9 : GCGATCGAACTCACTTTAGTTGTA
gi|9 : T--TTAGTTGTATTATAAATA----GCCCAAGATTCCT--------T-GA--CTTGCCTAAATGGGATATATAATA---GCCCGATTGGGAAA-TAATGTCCCAAATAGGATATAAATGTTC--AGTG---C---CA--------------------AAA-AAG---GGTGG----GG-GG-----------T----TA--T-T-GTAAAGATTTCACCAAATTACTATCATTTTC-AAC-A-CTGCCG-A-AA-----ACCC-C-T--CC----------A--------TGTTGTTTTGACTAGAGACAAAGCATTGGAAACAAAGTG--------------CATGCGCAAT-TTAACTATAATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGttataaatagcccaagattccttgacttgcctaaatgggatatataatagcccgattgggaaataatgtcccaaataggatataaatgttcagtgccaaaaaagggtggggggttattgtaaagatttcaccaaattactatcattttcaacactgccgaaaacccctccatgttgttttgactagagacaaagcattggaaacaaagtgcatgcgcaatttaactataatctttacttccgtgaatctactttggttgatg
blockSeqs : AC T C ATGTAC G C T CCATG A G GA A CAGCG G CAAAAAGGCGAAGTTAACATTGT A AA G A T G T C G TA AATA CATGCAA A AA A CTCG G A AG A TA TTA G C GT TCC AATCCCCCCTCCCCTCCTCCCC T ACA AAGG T CAGCAGGAAAAA AA A T GATT C C A A A G TCCCC A A AG TACACTTGTTA G CCTTT C C G A AA A . T
blockSeqs : AA . C . G T . . . . A T . . . A T . . A G G T . A ACT GCAAG . . G . . . . A . . . A . . CTAGG . . . . ACAAA . . . G A . . . . . . . . . ACACTTGTA A TCATT T C . . A . . .
blockSeqs : AA . A . A T . . . . A T . . . A A . . G G A C . T ACT GTAA . . G . . . . A . . . A . . CAA . . . . A . . . . A . . . . . . . . . A C TCATC C A . . A . . .
blockSeqs : AA . T . A T . . . . A T . . . G A . . G T G C . T ACT GCAA . . A . . . . T . . . A . . CA . . . . G . . . . C . . . . . . . . . A A CCATT C C . . A . . .
blockSeqs : AA . A . A T . . . . G T . . . G A . . T G A C . T . . . . G . . . . A . . . C . . AA . . . . A . . . . C . . . . . . . . . A A CCATT C C . . G . . .
blockSeqs : AC . A . G C . . . . A A . . . G A . . T G G T . . . . . . A . . . . A . . . T . . GA . . . . G . . . . C . . . . . . . . . A A CCATT C T . . C . . .
blockSeqs : . . C . A C . . . . T T . . . A A . . T . . T . . . . . . . . A . . . A . . GA . . . . A . . . . T . . . . . . . . . A A GCATT C T . . T . . .
blockSeqs : . . G . A C . . . . . T . . . . . . . G . . . . . . A . . . C . . CA . . . . A . . . . C . . . . . . . . . A C CC C C . . A . . .
blockSeqs : . . C . . . . . . . . . . . . . . . . . . A . . CA . . . . A . . . . G . . . . . . . . . T A CC C C . . A . . .
blockSeqs : . . . . A . . GA . . . . A . . . . C . . . . . . . . . A A . . C . . A . . .
blockSeqs : . . . GA . . . . A . . . . A . . . . . . . . . A . . . . . . A . . .
blockSeqs : . . CA . . . . T . . . . C . . . . . . . . . A . . . . . . . . . .
blockSeqs : . CA . . . . . . . . . . . . . . . . . . A . . . . . . . . .
blockSeqs : . . . . . . . . . . . . . .
blockSeqCons : ACT* GCAA**** *****
originalCons : AGTTCGATCACCGACCACGGTCTCCTTAGTTTGACTAATTTGCGATCGAACTCGCTTTAGTTGCAGGATA-TGACGTCAAAATTGAAACCGCGGTCCAACCNATGCTTTTAC------CGTGGTCAGTTT-A-----GTTCCAACATG-GCGGAGTAAG-TCG-GTTTTCCGAATTGTGCATTTCTATTTTTTGCAA-----T-A-----------------------GCGTATTTCCCTCCGATTCTTCGACGTAGATATTAAA-TT-G-CATGNCTTTTGGAGTGATTTTCTGATCTGTTGAT-AT-TCATGTAAACACT-TAAAAAT---GCAA-TCAATCTCC-AAATAT--TTATCTGTATTGAAAATA----GCCCGAGATTCCTCTGACCT-T-GA--CTTGCCTAAATGGGATATA--ATA---GCCCGTTTGGGAAA-TAATGTCCCGAATAGGATATAAATTTTC--AGTG---C---GA--------------------AAA-AGG---GGGGG----GG-GG-----------A----TA--T-T-GTAAA----TCACCAAATTACTATCATTTTC-AAC-A-GCGTCG-A-AA-----AACC-C-T--CC----------A--------TGTTGTTTTGACTAGAGACAAACCATTGAAACCAAAGTGCGTTCGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCGAACT
finalCons : AGTTCGATCACCGACCACGGTCTCCTTAGTTTGACTAATTTGCGATCGAACTCGCTTTAGTTGCAGGATA-TGACGTCAAAATTGAAACCGCGGTCCAACCNATGCTTTTAC------CGTGGTCAGTTT-A-----GTTCCAACATG-GCGGAGTAAG-TCG-GTTTTCCGAATTGTGCATTTCTATTTTTTGCAA-----T-A-----------------------GCGTATTTCCCTCCGATTCTTCGACGTAGATATTAAA-TT-G-CATGNCTTTTGGAGTGATTTTCTGATCTGTTGAT-AT-TCATGTAAACACT-TAAAAATGCAA----TCAATCTCC-AAATAT--TTATCTGTATTGAAAATA----GCCCGAGATTCCTCTGACCT-T-GA--CTTGCCTAAATGGGATATA--ATA---GCCCGTTTGGGAAA-TAATGTCCCGAATAGGATATAAATTTTC--AGTG---C---GA--------------------AAA-AGG---GGGGG----GG-GG-----------A----TA--T-T-GTAAA----TCACCAAATTACTATCATTTTC-AAC-A-GCGTCG-A-AA-----AACC-C-T--CC----------A--------TGTTGTTTTGACTAGAGACAAACCATTGAAACCAAAGTGCGTTCGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCGAACT
2 sequences could not be aligned to this reference sequence:
Unaligned ( gi|26 ): TTTACTAATTGGATGTATTTCTAATTCTAATATTTACTAGTTATACTTTCA
Unaligned ( gi|27 ): CAAACAATTTCAAGTTGTTTTTCATTGTTCAACAATTACTTCTCTAGC
Alignments
lowQualScore : 111111 11111 11 11111 44444444444444444444444 1111 11111111 1111 2222222222222222222222222 1111111111111111 1111111111111111111 11111
lowQualScore : 33 0 3 0 0 0 1 0 111111 2 1 4 00000 4 4 00 0 1 00000 4 11111111111111111111111 1 55 4 4 1 1 1 2 5 88 0 0 6666 11111111 0 5 66 4 0000 4 4 55 1 55 666 3 1 44 555 6666666666666666666666666 2 555 6666 3 8888888888888888 33 2 2 8888 1 2 2 2 2 2 66666 2 2 33 5555555555555555555 0 0 3 00000 0 1 1 2 2 44 2 77777 3
lowQualScore : .. . . . . . . . ...... . . . ..... . . .. . . ..... . ....................... . .. . . . . . . . .. . . .... ........ . . .. . .... . . .. . .. ... . . .. ... ......................... . ... .... . ................ .. . . .... . . . . . . ..... . . .. ................... . . . ..... . . . . . .. . ..... .
lowQualScore : 77 7 6 5 5 7 0 7 555555 1 4 0 00000 0 0 44 7 1 00000 0 11111111111111111111111 7 44 4 4 0 1 9 7 0 44 2 1 1111 66666666 3 7 99 2 6666 0 0 55 1 00 444 6 2 22 000 6666666666666666666666666 9 000 1111 1 1111111111111111 99 9 9 9999 9 7 7 7 7 7 77777 7 7 77 7777777777777777777 9 5 3 55555 6 9 2 7 7 55 9 11111 1
consensus : AGTTCGATCACCGACCACGGTCTCCTTAGTTTGACTAATTTGCGATCGAACTCGCTTTAGTTGCAGGATA-TGACGTCAAAATTGAAACCGCGGTCCAACCNATGCTTTTAC------CGTGGTCAGTTT-A-----GTTCCAACATG-GCGGAGTAAG-TCG-GTTTTCCGAATTGTGCATTTCTATTTTTTGCAA-----T-A-----------------------GCGTATTTCCCTCCGATTCTTCGACGTAGATATTAAA-TT-G-CATGNCTTTTGGAGTGATTTTCTGATCTGTTGAT-AT-TCATGTAAACACT-TAAAAAT---GCAA-TCAATCTCC-AAATAT--TTATCTGTATTGAAAATA----GCCCGAGATTCCTCTGACCT-T-GA--CTTGCCTAAATGGGATATA--ATA---GCCCGTTTGGGAAA-TAATGTCCCGAATAGGATATAAATTTTC--AGTG---C---GA--------------------AAA-AGG---GGGGG----GG-GG-----------A----TA--T-T-GTAAA----TCACCAAATTACTATCATTTTC-AAC-A-GCGTCG-A-AA-----AACC-C-T--CC----------A--------TGTTGTTTTGACTAGAGACAAACCATTGAAACCAAAGTGCGTTCGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCGAACT
Reference ( family-3422 ) : AGTTCGATCACCGACCACGGTCTCCTTAGTTTGACTAATTTGCGATCGAACTCGCTTTAGTTGCAGGATA-TGACGTCAAAATTGAAACCGCGGTCCAACCNATGCTTTTAC------CGTGGTCAGTTT-A-----GTTCCAACATG-GCGGAGTAAG-TCG-GTTTTCCGAATTGTGCATTTCTATTTTTTGCAA-----T-A-----------------------GCGTATTTCCCTCCGATTCTTCGACGTAGATATTAAA-TT-G-CATGNCTTTTGGAGTGATTTTCTGATCTGTTGAT-AT-TCATGTAAACACT-TAAAAAT---GCAA-TCAATCTCC-AAATAT--TTATCTGTATTGAAAATA----GCCCGAGATTCCTCTGACCT-T-GA--CTTGCCTAAATGGGATATA--ATA---GCCCGTTTGGGAAA-TAATGTCCCGAATAGGATATAAATTTTC--AGTG---C---GA--------------------AAA-AGG---GGGGG----GG-GG-----------A----TA--T-T-GTAAA----TCACCAAATTACTATCATTTTC-AAC-A-GCGTCG-A-AA-----AACC-C-T--CC----------A--------TGTTGTTTTGACTAGAGACAAACCATTGAAACCAAAGTGCGTTCGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCGAACT
gi|1 : AGTTTGATCACCGACCATGGTCTCCCTAGATTGACTAATTTGCAATCGAAATCACTTTATTTGCAGGATA-TGACGTCAAAATTGAAACCATGGCCCAACCAATGCTTTTAC------CATGGTCAGTTT-A-----GTTCTAACATG-GCGGAGTAAG-TCG-GTTTTCCGAATTGTTCATTTCTATTTTTTGCTA-----T-A-----------------------GCGTATTTCCCTCCGATTCTTTAACGTAGATATTAAG-TT-A-CATGGCTTTTGAAGTGATTTTCTGATTTGTTGAT-AT-TCATG---------TAAAAAT---GCAA-TCAATCTCG-AAATAT--TTATCTGTAATATGAATA----GCCTGAGATTCCTCTGTCCT-T-GA--CTTGCATAAATGGGATTAA--ATG---ACCCGTTTGGGAAG-TAATGTGCCGAATAGGATATAAAGTTTC--AGTG---C---AA--------------------AAA-ATG---GGGGG----AG-GG-----------A----TA--T-T-GAAAA----TCACCAAATTACT---ATTTTC-AAC-A-GCGTCT-T-AA-----AACC-C-T--CC----------A--------TCTTGTTTTGACTAGAGACAAACCATTGAAACCAAAGTGCGTTCCCACACGGACATGCGCACT-TTAATT-T-ATCTTTACTTCCGTGAATCTAC-TTTCCATTGGTTGATGA-TCGAACT
gi|10 : TA--ATA---GCCCGTTTGGGAAG-TAATGTCTTCAATAGGATATACATTTTC--GGTG---C---CA--------------------AAA-AAAACAGGGAG----GG-GG-----------A----TA--T-T-GTAAA----TCAC----TCAGTATCATTTTC-AAC-A-GCGTCG-A-AA-----C-CC-C-TAGCA----------A--------TGTAGTTTTGACTAGAGAAGAACCTTTGAAATCACAGTGCGTTCGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCAAA
gi|11 : CT-T-GA--CTTGCCTACATGGAAAATA--ATA---GCTCGTTTGGAAAAGTAATGCCCCGAATAG-----------TC--GGC----C---AA--------------------CAA-AGG---TAGCA----AA-TA-----------G----TA--T-TTGCAGAG---TTACCAATTTAC-ATCATTTTC-AAA-AAGCGTTG-A-AA-----AACC-T-T--CC----------A--------TGTTTTTTTGACTAGATACAAA--------ACT------------CACACGTACATGCGCACT-TAAACT-T-ATCTTTACTTCCG-GACTCTAC-T-----TTGGTTGATGA-TCGAACT
gi|12 : TTCTTAGTTATACTACTTTGCTATCGAACTAAATTTAGTTGCAGGATA-TGACGTCAAAAATGAAACCGCAGTCCAACCCATGCTTTTAC------CGTGGTCTGTTT-A-----GTTCCAACATG-GCGGAATAAG-TAA-A-TTTCCGAAT------------TTTTAAGCAA-----T-A-----------------------GCGTATTTCCCTCC--------------GATATTAAT-TT-G-CATTTCTTTTGGAGTTATGTTCTGATCTGATGAT-AA-TTATGTAAc
gi|13 : agtATGAATTTTTGTAGTG---C---GA--------------------AAA-GGG---GAGGG----GA-GG-----------A----CAAATAT-GTAAC----TCACAAAATTACTATCATTTCC-AACAA-GCATCGAA-AA-----AACC-CAT--CCTACACTTGTTA--------TG-TGTTTTGACTAGA-----------GAAACCAAAGTG-GTGCG-AAACGGACATG-GCACT-TCAACT-T--TCTTTA-TTCCGTGAATC-AC-T-----TTGGTTGAAGA-TCGAACTc
gi|14 : a--AGTG---C---GA--------------------AAA-GGG---AGGGG----GA-GG-----------ACAAATA--T-T-GTAAC----TCACAAAATTACTATCATTTTC-AAC-A-GCATCG-A-AA-----AACC-A-T--CT----------ACACTTGTATGTTGTTTTGACTAGAGA-----------AACCAAAGTGTG--CGAA-ACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCCAC-T-----TTGGTTGAAGA-TCGAACTc
gi|15 : GTG---CC--AA--------------------AAA-AAG---GGGGG----GG-GG-----------G----TA--T-T-GTAAA----TCACCAAATTACCATCATTTTC-AAC-A-GCATCG-A-AA-----AACC-C-T--CC----------A--------TGTTGTTTTGATTAGAAACCAATCATTGAAACTAATGCGCGTTCGCACACGGACTTGCGCACT-TCAACT-T-GTCTTTACTT-TGTGAATCTAC-T-----TTGGTTGATGA-
gi|16 : GATCACCGACCACAGTCCCCTTAGTTTGACTAATTTGCGATCGAACTCACTCGAGTTGCAGGAT---GACGTCAAAAATGAAACCGCGGTCCAACTCGTACTTTTAC------CGTGGTTAGTTT-A-----GTTCCAACATG-GTGGAGCAAA-TC-------------TGTGCATCTCTATTTT-----------T-A-----------------------AC----TTCCCTCCGATTCTTCaag
gi|17 : AATTCGATCACCGACCACGGTCTCCTTAGTTTGACT---TTGCGATCGAACTCGCTTTCGTTGCAGGATA-TGACGTCAAAATTTAAACCACGGTCCAACCA-------------------GGTTAGTCT-A-----GTTCCAACATG-GCGGAGCAAG-TCA-GTTTTCCGAATTGTGCATTTCTATGTTTTGCAA-----T-
gi|18 : AGTTCGATCACCGACCACGGTCTCCTTAGTTTGACTAATTTGGGATCGAACTCGCTTTAGTTGCAGGATATTGACGTCAAAATTGAAACCATGGTCCAATCTATGCTTTTAC------CATGGT-AGTTT-A-----GTTCCAATATG-GCGGA----------GTTTTCCGAATTGTACATTTC
gi|19 : ca-AAC-A-GCGTTG-AGAA-----AACC-C-T--AC----------A--------TGATGTTATGACTACAGGCAAATCATCGAA-CCAAAGTGCGTTCGCACACGTACATGCGCACCGTTAACC-T-CACTTAACCTCCGTGAATCTACAT-----TTGGTTGATGA-TC
gi|2 : tgTCAAACTCGCTTTAGTTGCAGAATA-TGACGTCAAA-TTGAAAGCAAGGTCCAACCAATGCTTTTAC------CATAGTTAGTCT-A-----GTTCCAACATG-GCGGAGTAAG-TCA-GTTTTCCGAATTGTGCATTTCTATTTTTTGCAA-----T-A-----------------------GCGTATTTCCCTCCGATTCTTCAACATATATATTAAAATT-G-CATGACTTTTGGAGTGATTTTCCGAT---TTGAT-AT-TCATGTAAACACT-TAAAAAT---GCAAGTCAATCTCC-AAATAT--TTATTTGCATC-AAAATA----GCCCGAGATTCCTCTGACCT-T-GA--CTTGTGTAAATGGAATATA--ATA---GCCCGATTGGAAAA-TAATGTCCCGAATAGAATGTAAATTTTC--AATG---C---CA--------------------AAG-GGG---GGGGGAAGGGG-GGCAGCAGGAAAAA----TA--T-T-GTAAA----TCACCAAATTACTATAATTTCC-AAC-A-CTGTCG-A-AG----------------------------------------GTTTAGACTAGAAACAAACCATTGAAACCAAA------------ACGGACATGCGCACT-TTTACT-T-TTCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCGAACT
gi|20 : AGTTTGATCACCGACCATGGTCTCCTTAGTTTGACTAATTTGCAATGGAACTCACTTTAGTTGCAGGATA-TGATGTCAACATTGAAAc
gi|21 : gATTTTTTGCAT-----TGA-----------------------GCGTATTTCCCTCCGATTCTTCAACGTAGATATTAAA-TCGG-CATGGCTTTTGGA-----TTTTTGA
gi|22 : CATACGGACATGCGCACT-TTAATT-T-ATCCTTACTTCCGGGAATCTAC-T-----TTGGTT--TGATTCGAATTaaactgttttc
gi|23 : agaaacaaatcG-----------A----TA--T-T-GTAAA----TCACCAAATTACTATCATTTTT-AAC-A-GCGTCG-T-AA-----AACC-C-T--CC----------A--------TGTTGTTTTGACTAGAGACAAAag
gi|24 : aAGTTCGATCACCGATCATGGTCTCCTTAGTTTGACTAATTTGCGATCGAACTCACTTTAGTTG
gi|25 : gACAGACATGCGTA-T-CTAA-----------ACTTCCGTGAATATAC-T-----TTGGTTGATGA-TCGAACTt
gi|28 : AGTTCGATCACCGATCACGGTTTCCTcgc
gi|3 : gggcgGTTCGATCACCGACAACAGTCTC-------------------------ACTCACTTTAGTTGCAGGATA-TGACGTCACATTTAAAACCACTGTCCAACCAATTATTTCAC------CA--ATTATTTC-ACCATGGTTT--GCATA-GAGGAGTAAG-TCG-GTTTTCCCAATTGTGCATTTCCAATATTCGCAA-----T-A-----------------------G--TATTTCCCTCCGATTCTTCAACGTACATATTAA--TT-G-CATGGCTT-------------CTGATTTGTTGAT-AT-TTATGTAAACAATACAAAAA-----------AGTCTCC-AAA-AG--TTATCTGTATTAAAGATA----GCCCGATATT------------------TTGCCTGAATGGGATATG--ATG---ACCCGTTTGGGGA--T--TGTCTGGAATAGGATTTAAATTTTC--AGTG---C---CA--------------------AAATAGG---GGCG---------------------A----TA--T-T-GTAAA----TCATTTAATTACTATCATTT-C-AAC-A-GTGTCG-G-AATCCCCACCCAC-C--CC----------A--------TGTTGTTTTGACTAGAGACAAACC------------GTGCGTTCGCATACGGACATGCGCACT-TTAACC-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGA-TCGAACT
gi|4 : AGTTACATCACCAACCACATTCTTCTTTGTTTGAC--------GATGGAGCTTGCTTTAGTTGCAGGATA-AGACGTTATAATTGAAACCCTTGTCCAACCCATACCTTTAC------TGTGGTCAGTTT-A-----GTTTCAACCCT-GCGGAATAAG-ACA-GGTTTCCGAATTGTGCATTTCTGTTTTATGCAACAGCGT-A-----------------------GCGTATCTACCTCCAATTCTTCGAGGTAGATATT-GA-TT-GACATATCTTTTGCTGTAATTCTCTGATCTGTAGAg
gi|4 : gTTCTCTGATCTGTAGAAGCTTGACTAAATTGAATTTT--AGA---GCCCGTTTGGGAAA-TGATATCCCGAATAGGATATGCATTTAC--AGTGTCCC---AATCCCCCCTCCCCTCCTCCCCAAA-AGG---GGAAG----AA-AA-----------A----AA--T-C--TAAA----TACCCAGATAACTATCATTTTC-AAC-A-GCGTCG-A-AA-----AACT-C-T--CT----------T--------CGTTGTTTGGACTAAAGGTCAGCCATTGAAATCAATGTGCTTTTGCACACGGACATGCGCACT-TTAACT-T-ATCTTTACTTCCGGGAATagcttgactaaattgaattttagagcccgtttgggaaatgatatcccgaataggatatgcatttacagtgtcccaatcccccctcccctcctccccaaaaggggaagaaaaaaatctaaatacccagataactatcattttcaacagcgtcgaaaaactctcttcgttgtttggactaaaggtcagccattgaaatcaatgtgcttttgcacacggacatgcgcactttaacttatctttacttccgggaat
gi|5 : gagttacatcaccaaccacattcttctttgtttgacgatggagcttgctttagttgcaggataagacgttataattgaaacccttgtccaacccatacctttactgtggtcagtttagtttcaaccctgcggaataagacaggtttccgaattgtgcatttctgttttatgcaacagcgtagcgtatctacctccaattcttcgaggtagatattgattgacatatcttttgctgtaaATCACC-ATCACTGT-TCCTTAGTTTGAATACTTTGCGATCGAACTCACTTTCGTAGCAGAATA-TGACGTCTAAAATGAAACCGCTGTCCAACCGATGCTTTTACATGTACCATGGTCAGTTTTA-----GTT---AC-TGAGCGGAGTAAA-TCGAGTTTTCCGAATTGTGCATATCTAGTTTTTACAA-----T-A-----------------------GCGTATTTCCCTCAGATTCTTCGACGTATATATTAAA-TT-G-CATGTCTTTTAGATTGGTTTTCAGATCCGCTAAT-A--TGATGTAAAC-------AAAT------------TCTTCAAAATATAATTATCTGTATTGAAAATA----GCCCGATATTTCTCTGACCT-T-GA--CTTGCCTAAATGGGAT-TG--ATA---GCCCATTTGGGAAA-TAATGTCTCGAAAAGGATA-ATATTTAC--AGTG---G---GA--------------------AA---------------------------------A----TA--T-T-GTAAA----TCACGAAATTACTGTCATTTTC-AAC-A-GCGTCA-A-AA-----AACC-C-T--CC----------A--------TGTTGCTTTGACTAGAGAC-AACCATTGAAACCAAAGTGCGTT
gi|6 : AGTTCGATCACCGACCACAGTCTCCTag
gi|6 : gggcgAGTTGCAAGATA-TGACGTCAAAAATGAAACCGTAGTCCAATTCATTCTTTTAC------CATGGTCAGTTT-A-----GTTCCAACATG-ATGAAGTAAGGTAT-GTTTTCCAAATTGTGCACTTCTATTTTTTGCAA-----T-ACAAAAAGGCGAAGTTAACATTGTGTGCATTTCCCTCCGATTCTTTGACGTAGATATTGAA-TT-G-CATGTCTTTTGGAGTAATTTTCTGATCT-------------------------AAAAAT---GTAA-TCATTCTAC-AAATAT--TTATCTGTATTGAAAATA----GCCCGTGTTTCCTCTGATCT-T-GA--CTTGCTTAAATGGGTGACA--ATA---GCCCGTTTGGGAAA-TGATGTCCCGAATAGGATGTAAATTTAC--AA-A---A---GA--------------------AAA-AGG---GGAGG----nnnnnnnnnannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnggctgaagttgcaagatatgacgtcaaaaatgaaaccgtagtccaattcattcttttaccatggtcagtttagttccaacatgatgaagtaaggtatgttttccaaattgtgcacttctattttttgcaatacaaaaaggcgaagttaacattgtgtgcatttccctccgattctttgacgtagatattgaattgcatgtcttttggagtaattttctgatctaaaaatgtaatcattctacaaatatttatctgtattgaaaatagcccgtgtttcctctgatcttgacttgcttaaatgggtgacaatagcccgtttgggaaatgatgtcccgaataggatgtaaatttacaaaagaaaaaggggagg
gi|7 : gggcgagttcgatcaccgaccacagtctcctnnnnnnnnnannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnggctgaGTATTACCC-CCGATTCTTCAACGTGGATATTAAA-TT-G-CATGGTTTTTGGAGTGACTTTCTGTTTTGTTGAT-AT-TCATGTAAACACT-TAAAAAT---GCAA-TCAATCTCC-AAATAT--TTATCTGTATTAAAAATACTCGGCTCGAGATTCCTCTGACCT-T-GA--CTTGCCTAAATAGGATATC--ATA---GCCTGTTTGGGAAA-TAATGTCCTGAATAGGATGTACATTTTC--AGTT---CCTAGG--------------------GGA-GGG---GGGGG----GGTGG-----------A----TA--T-T-GTAAA----TCACCAAATTACTATTA-TTTC-AAC-A-GCGTCG-A-AA-----AACT-C-T--CC----------A--------TG-----------AGA----------------CAAAGTGCGTTCGCACACGTACATGCGCACT-TTAACT-T-ATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGGTGG-TCG
gi|8 : TTTCTGATTTGTTGATGATATCATGTAAACACT-TAAAAATCATGCAA-TCGATCTCC-AAATAT--TTATTCGTATTGAAAATA----GCCCGAGATTCCTCTGACCA-T-GA--CTTGCCTAAATGGGATATA--ATATTAGTCCGTTTGGGAAA-TATTGTCCTGAATAGGATATAAATTTAC--AGTG---C---CA--------------------AAA-AGG---TGAAG----GG-GG----------------TA--T-T-TTAAA----TCACAAAATTACTATCATTTTCCAAC-A-GCGTTG-A-AA-----AACC-C-T--AC----------A--------TGTTATTTTGACTAGAGACAATCC------------GTGCTTTCGCACAGGGACATTCGCA---------------TTTACTTCCGTGTATCTGC-T-----TTGTCCTATGA-TCGAt
gi|9 : GCGATCGAACTCACTTTAGTTGTA
gi|9 : T--TTAGTTGTATTATAAATA----GCCCAAGATTCCT--------T-GA--CTTGCCTAAATGGGATATATAATA---GCCCGATTGGGAAA-TAATGTCCCAAATAGGATATAAATGTTC--AGTG---C---CA--------------------AAA-AAG---GGTGG----GG-GG-----------T----TA--T-T-GTAAAGATTTCACCAAATTACTATCATTTTC-AAC-A-CTGCCG-A-AA-----ACCC-C-T--CC----------A--------TGTTGTTTTGACTAGAGACAAAGCATTGGAAACAAAGTG--------------CATGCGCAAT-TTAACTATAATCTTTACTTCCGTGAATCTAC-T-----TTGGTTGATGttataaatagcccaagattccttgacttgcctaaatgggatatataatagcccgattgggaaataatgtcccaaataggatataaatgttcagtgccaaaaaagggtggggggttattgtaaagatttcaccaaattactatcattttcaacactgccgaaaacccctccatgttgttttgactagagacaaagcattggaaacaaagtgcatgcgcaatttaactataatctttacttccgtgaatctactttggttgatg
2 sequences could not be aligned to this reference sequence:
Unaligned ( gi|26 ): TTTACTAATTGGATGTATTTCTAATTCTAATATTTACTAGTTATACTTTCA
Unaligned ( gi|27 ): CAAACAATTTCAAGTTGTTTTTCATTGTTCAACAATTACTTCTCTAGC