lowQualScore : 11111111111111111111111111111111111111111111111111111111111111 111111111111111111111111111111 111111111111111111111111111111111111111111
lowQualScore : 22 11 11 1111 11 444444 111 1 22 11 1 1 1 1 55555555555555555 1 333 11 111 1111 11 11 11111111111111111111111111111111111111111111111111111111111111 1 111 1 111 1 111 1 222222 2222 1 11 1111111 33 55555555555 333333 000000000000000000000000000000 33333333333 1 2222 66666666 1 1 444444444444444444444444444444444444444444 222 1 1 33333333 1 33333 1 1 22222 1 1 11
lowQualScore : 77 11 5 4 33 8 0 88 3 7777 11 0 777777 2 777 2 0 0 3 44 00 0 0 0 3 0 11111111111111111 0 000 11 222 4444 5 66 22 5 99 5 0 33 88 3 3 44444444444444444444444444444444444444444444444444444444444444 0 2 111 0 777 0 777 0 888888 4 3 1111 0 0 33 8888888 3 33 7 11111111111 888888 333333333333333333333333333333 77777777777 3 2222 6 11111111 7 3 3 1 222222222222222222222222222222222222222222 222 7 7 3 7 6 77777777 9 0 22222 1 6 4 3 0 7 6 5 77777 3 2 11 0 8 0 3
lowQualScore : .. .. . . .. . . .. . .... .. . ...... . ... . . . . .. .. . . . . . ................. . ... .. ... .... . .. .. . .. . . .. .. . . .............................................................. . . ... . ... . ... . ...... . . .... . . .. ....... . .. . ........... ...... .............................. ........... . .... . ........ . . . . .......................................... ... . . . . . ........ . . ..... . . . . . . . . ..... . . .. . . . .
lowQualScore : 55 77 7 8 88 0 8 22 8 0000 00 8 000000 5 555 5 2 0 2 88 22 5 0 0 0 0 55555555555555555 0 222 00 888 2222 7 11 11 0 66 7 2 88 88 8 8 99999999999999999999999999999999999999999999999999999999999999 0 5 222 0 222 0 555 0 222222 0 2 2222 0 2 88 0000000 2 33 3 00000000000 333333 000000000000000000000000000000 00000000000 3 7777 7 77777777 3 3 3 0 777777777777777777777777777777777777777777 000 3 3 3 3 0 55555555 2 0 55555 2 0 0 2 0 3 0 5 00000 3 8 00 8 0 8 2
consensus : CAAAATTTTCTGTCACATTTTT-CTCAGGAACC-ACATAGGCCAGC--TTCCTGA-TATTTGGCACAGAGCAT----CA--GTATGGAGAACTG--NN-ATCG---TGTAACGC-AGTTT-CCAATC-TGCCGCA-TGT-CNACTT-CC------NGTT---TNACGCAA-CTTAGAA--TATTTTT--GACAT----GG-ACAAA--TTTCTGT-CACATTTTT-CTCAGGAACCA-CACAGGCCAGC--TTCCTGAT-ATTTGGCACAGAGCATCAG-TA-T---GAGAACTGTAT-------CGTG-TAACGCA-T--GTTTCCAC--TATCTGCCGCA-TGTCC-ACTT-CC--NGTTT-GA---C-GCAACTT-T----AATNTTTTTGACAT----GA-ACAA--ATT--TGT--CACAAAGTA-TGACTGAGG-----CCTG-GAACC------TTGAAATTAA-----T-TAT-----TTC----A-T-----ATAGAATCTCA-----C-AA--ATGGCATC-TC--A-TAACAATG-------ATCTCATCTTTCA-TCTA-ATCCAT-----CA-TGTT-A----------GAA-------TAT-----CATT-G-TCATTCTGGTAAACTTG-AACAGAACTG-ATTCT-------GACAAAA-AAATTATAATTATATACNTTTTTGCCATGAT-GATACTTTAAATGATGAAGTAATTTTTCAAATTGACAACT-AGAAGTAGGCAGGCG--ACACATGTCT-TCCCTGGAAGACTTACCACTAAGTT
Reference ( gi|1 ) : CAAA--TTTCTGTCACATTTTT-CTCAGGAACC-ACACAGGCCAGC--TTCCTGA-TATTTGGCACAGAGCAT----CA--GTATGGAGAACT---TG-ATCG---TGTAACGC-AGTTTTCCAATC-TGCCGCA-TGT-CAACTT-CC------GGTT---ACACGCAA-CTCAGAA--TATTTTT--AACAT----GA-ACAAA--TTGCTGT-CACATTTTT-CTCAGGAACCA-CACAGGCCAGC--TTCCTGAT-ATTTGGCACAGAGCATCA--TAGT---GAGAACTGTAT-------CATG-TAATTCATTGAATTTCCACAGTAGCTGTCACA-TGTTC-ACTT-CC--TGTTT-GA---C-GCAACTT-T----AATTTTTTTGACAT----GA-ACAA--ATT--TGT--CACAAAGTGTTGACTGAGGG----CCTGAGAACC------TTGAAATTAA-----TGTAT-----TTC----A-T-----ATAGAATCTCA-----C-AA--ATGGCATC-TC--A-TAACAAT--------ATCTCATCTTTCA-TCTA-ATTCAT-----CA-TGTT-A----------GAA-------TAT----GCATT-G-TCATTCTGGTAAACTTG-AACAGAACTGAATTCT-------AACAAAA-AAAATATCATTATGTACTTTTTTGCCATGAT-GATACTTTAGATGATGAAGTAATTTTTCAAA-CGA-AATT-AGAAGTAAGCAGGCG--ACACATGTCT-TCCCTGGAAGACTTACCACTAAGTTT
gi|2 : CAAAATTTTCTGTCACATTTTC-CTCATAAACC-ACATAGGCCAGC--TTCCTGA-TATTTGGCACAGAGTAT----CA--GTATGGACAACT---GT-ATCG---TGTAACGC-AGTTT-CCAATC-TGCCACA-TGT-CCACTT-CC------TGTT---TGACGCAA-CTT-GAA--TATTTTT--CATAT----GG-TTAAA--TTTCTGT-CACATTTTT-CTCAGGAACCA-CACAGGTCAGC--TTCCTGAT-ACTTGGCAAAGAGCTCCA--T-----------CTGTAT-------CGTG-TAACGCA----GTTTCCA----ATCTGCCACA-TGTCC-ACTT-CC--TGTTT-GA---C-GCAACTT-T----AATTTTT--GACAT----AA-GTAA--ATT--TGTGTCACAAAGTAATGACTGAG------------AACC------TTGTAATTAAATATCTTTAT-----TTC----A-G-----ATAAAATCTCA-----C-AA--ATGGCATC-TC--A-TAACAAT--------ATCTCATCTTTCA-CCTA-ATCCAT-----CA-TGTTTA----------GAA-------TATAATAGCATT-GGTCATTCTGGTAAACTTG-AACTGAACTGAATTCT-------TACAAAA-AAATT-TAATTATATATTTTTCTGCCATGAT-GATACTTTAAATGATGAAATAATTTTTCAAA-TGA-AATT-ATAATTAGGCAGGCG--ACACATGTCT-TCCCTGGAAGACTTACCACTAAGT
gi|3 : cggcgtcaCAAA--TTTCTGTCACATTTTT-CTCAGGAACCAACAC---CCAGC--TTCCTGATTATTTGACAC-GAGCATCAACCA--GTATGGAGAGCTGCATGTATCGTCATGTAACTT-AG-TTTCCACTT-TGCC-CA-TTT-CACTTT-CCATGTTTGATT---TCA--CAA-CTT-TAA--TTTTTTT--GACAT----GA-AAAAA--TATTTGT-CACA
gi|4 : tattttttaaacatggaCAAAATTTTCCGTCACATTTTT-CTCAGAAACC-ACATAAGCCAGC--CTCCTGA-TATTTT-CACAGAGCAT----CA--GTATAGAGAACT---GT-ATCG---TGTAACGC-AGTTT-CCAATC-TGCCGCA-TGT-CCACTT-CC------TGTT---TGACGAAA-CT-AGAA--TATCTTT--AACAT----AG-ACAAA--TTTCTGT-CACATTTTT-CTCAGGAACCA-CACAGGCCAGC--TTCCTGAT-ATTTGGCACAGAGCATCAG-TATG---GAGAACTTGAT-------CGTG-TAACGCAGT---TTTCCA----ATCTGCCGCA-TGTCA-ACTT-CC--GGTTA-CA---C-GCAACTCAG----AATATTTTTAACAT----GA-ACAA--ATTGCTGT--CACAagtatgactgatgtcctgagaaccttgaaattaatatgtttttattcactatagaatctcacaaaatggcctttcattaacaatgatctcatcttcatctatattcatagttagatattattgtcattctggtaaacttgaacagaactgattctgacaaaaaattataattatatacatttttgccatgatggatctttaaatgatgaagtaattttcaaattgacaactgagaagtataggcagcacacatgtctatccctggaagacttacccttaagt
gi|18 : ttttattgtgtcgcctgcctgcattagcggagggacatatagggatcactttagtcgtctggcggcgtcggtgtcaCAAAATTTTCTGTCACAGTTTT-C-CAGAAACC-ACATAGG
gi|15 : aAAA--TTTTTGTCACATTTTC-CTCAGGAACC-A
gi|11 : tcgacgtcacaa--TTTCTGTCA-ATTTT--CTCAGAAACC-ACATA
gi|8 : tcgtctgtcgtcgtcgtggtcggcgtcacataaactTCACACTTTAACTCTGGAACC-ACGAAGGACAGCTTTTCCTGA-T-TTT-GCACGGACCAA----TACTGTATGGAGAA
gi|5 : aataattgtgtTGA-TAATTGGCATAGACCAT----CG--GTATGG-GAACTG--TA-AT-G---T-TGACACTAGTT--CCAATAATAGTACAGTGTACAACTTACC------AGTTTGGACG-GCAAACTTAAAAAATATTTTT--GACATATTAGACACAAA--TT
gi|3 : --TATTTTTTAAACAT----GG-ACAAA--TTTCTGT-CACATTTTT-CTCAGGAACCAACAC---CCAGC--TTCCTGATTATTTGACAC-GAGCATCAACCAGTATGGAGAGCTGCATGTATCGTCATG-TAACTTA----GTTTCCAC--T--TTGCC-CA-T-TTC-ACTT-TCCATGTTT-GATTTC-ACAACTT-T----AATTTTTTTGACAT----GA-AAAAATATT--TGT--CAC-AAGTA-TGACTGATGT----CCTGAGAACC------TTGAAATTAA-----TATGTTTTTATTC----ACT-----ATAGAATCTCA-----CAAA--ATGGCCTT-TC--ATTAACAATG-------ATCTCATC-TTCA-TCTATATTCAT------A--GTT-A----------G-A-------TAT-----TATT-G-TCATTCTGGTAAACTTG-AACAGAACTG-ATTCT-------GAC-AAA-AAATTATAATTATATACATTTTTGCCATGATGGAT-CTTTAAATGATGAAGTAA-TTTTCAAATTGACAACTGAGAAGTA--TAGGCAGCACACATGTCTATCCCTGGAAGACTTACCCTTAAGTtcagaatttgttgtgggtcttcctggaacctacatattcaaattaattacctcttagattgtagatagaatcacaaccagcaattatcgcatcatctaatagaatatatacggatcttccctttcagtctaatccatgagcccattgttatgtggcttgtgaaggactcgtatcattaatctctttgtaacttgtaacagaaagtatttttccttggaacaaaatatagtaaatatagactttttcgcaagatgatac
gi|11 : ACAT----AA-ACT----TTTCTGT-CA-ATTTT--CTCAGAAACCA-CATA
gi|18 : tcgtctgtcgtcgtcgtggtcggcgtc-ACAAAATTTTCTGT-CACAGTTTT-C-CAGAAACCA-CATAGG
gi|15 : AAA--TTTTTGT-CACATTTTC-CTCAGGAACCA-
gi|8 : tcgacgtcacaaAA--TTG-TGTTCACACTTTAACTCTGGAACCA-CGAAGGACAGCTTTTCCTGAT--TTT-GCACGGACCA--A--TACT---G
gi|5 : aatTGAT-AATTGGCATAGACCATCGG-TA-T---GGGAACTGTA---------ATGTTGA--CACT-AGTTCCAATAATAG----TACAGTGTACAACTTACC--AGTTTGGA---CGGCAAACT-TAAAAAATATTTTTGACATATTAGACACAA--ATT--T------CAGAAT-TTG-TTGTGGGTCTTCCTG-GAACCTACATATTCAAATTAA-----T-TAC-----CTCTTAGA-TTGTAGATAGAATCACAACCAGC-AATTATCGCATCATCTAA-TAG-AATATATACGGATCTTCCCTTTCAGTCTA-ATCCATGAGCCCATTGTT-ATGTGGCTTGTGAAGGACTCGTAT-----CATTAA-TC-TCTTTGT-AACTTGTAACAGAAA-GTATTTTTCCTTGGAACAAAATATAGTA--AATATAGACTTTTTCGCAA-GAT-GATACtatggagaa
gi|16 : TTCT-------GACCAAA-AAG-TATAACTATATACATTTTTGCCATGAT-G
gi|13 : T-AGAAGTAGGCAGGCG--ACACACGTCT-TCACTGGAAGACTTACCACTACGT
gi|14 : GAAGTAGGCAGG-G--ACACATGTCT-T-CCTGG-AGACTTACCACT-AGTT
gi|17 : AAGTAGGCAGGCG--ACAC--GTCT-TCCCTGGAAGACTTACCACT
10 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|6 ): TTTATTGTGTCGCGTATGCCGCATTAGCGGAGGCGACATATAGGGATCACTTAGTGTCTTGGTTCGTCTGGTCGTCGTCCGGTGTCACAAAA
Unaligned ( gi|7 ): TTATTGTGTCGCCTGCCTGCGTTAGCAGAGACGACATATAGGGATCACTTTGAGTCGTCTGTCGGCGTCGGCGGCACAAAAAATTCC
Unaligned ( gi|9 ): TTTTTTGTGTCGTCTGCCCTGCATTAGCGGCAGAGGCAACAATATAGGAATCACTATCCATCGTCTTTGTGGCGGCGAG
Unaligned ( gi|10 ): ATTTTGTTGGGTCCGCCTAGTCTGCCTGCGTTAATGCGGGGACATATACTTGGATCACTTTAGTCTGTC
Unaligned ( gi|12 ): TTTTCATTGTGTCGCCTGCCTGCTTTAGCGGAGGCGACATATAGGGATCACTTTAGTC
Unaligned ( gi|19 ): TATTGTGTCGCCTGCCTGTATTAGTAGAGGCGTCACA
Unaligned ( gi|20 ): ATCTTGTTATTGTGTCGCCTGCCTACGTTAGCGGA
Unaligned ( gi|21 ): TGTCGCCTGCCTACGTTAGCAGAGGCTGCATAT
Unaligned ( gi|22 ): CATCGGCGTCACAAAATTTACTGTCACATTTT
Unaligned ( gi|23 ): CGTCGGTGTCACAAAATTTTCTGTCACAATT
Alignments
lowQualScore : 11 11 11 11 333 1 11 222 222222 111 1111 111 333333 333333 111 111 222222 1111 22222 222 5555555555555 222222 6666666666666666666666666666666 22222 1111 1 1 11 44444444 1 1 777777777777777777777777777777777777777777 2 1 2 1111 1111 22222 1
lowQualScore : 5 22 0 33 3 11 33 444 3 1 1 1 99 222 8 3 8 0 0 555555 8 666 7777 444 3 111111 777777 9 8 8 8 222 8 444 8 000000 44 7777 8 44444 3 111 3 5555555555555 888888 5555555555555555555555555555555 55555 4444 0 3 0 33 77777777 3 0 0 333333333333333333333333333333333333333333 0 3 3 0 0 7777 3 0 7777 1 0 8 3 7 44444 0 0 99 6 0
lowQualScore : . .. . .. . .. .. ... . . . . .. ... . . . . . ...... . ... .... ... . ...... ...... . . . . ... . ... . ...... .. .... . ..... . ... . ............. ...... ............................... ..... .... . . . .. ........ . . . .......................................... . . . . . .... . . .... . . . . . ..... . . .. . .
lowQualScore : 6 77 7 88 2 22 88 777 3 0 0 0 77 000 0 2 0 8 8 888888 0 000 0000 000 2 666666 888888 6 0 0 0 000 0 000 0 888888 66 0000 0 00000 2 222 2 8888888888888 888888 2222222222222222222222222222222 00000 8888 0 2 0 88 55555555 2 0 0 222222222222222222222222222222222222222222 0 2 2 0 0 0000 2 8 6666 0 8 0 2 3 00000 7 0 22 7 8
consensus : CAAAATTTTCTGTCACATTTTT-CTCAGAAACCACATAGGCCAGC--TTCCTGATATTTGGCACAGAGCATCA--GTATGGAGAACTGT-ATCGTGTAACGCAG-TTTCCAATCTGCCGCATGTCCACTTCCTGTTTGACGCAACTCAGAATATTTTT--AACATGGACAAATTTCTGTCACATTTTTCTCAGGAACCA-CACAGGCCAGCTTCCTGAT-ATTTGGCACAGAGCATCA----GTA-T-G-AGAACTG----TATCGT---GTAACGCAT---GTTTCCAC--TATCTGCCACA-TGT-CCACTT-CCN--GTTT-GA---C-GCAACTT-T----AATNTTTTTGACAT----GA-ACAAAT--T--TGTCACAAAGT-A-TGACTGA-GG-----CCTGAGAACC------TTGAAATTAA------TGTATTT-----C----A-T-----ATAGAATCTCA-----CAA--A-TGGCATC-TCAT-AAC--AAT-------GATCTCATCTTTCA-TCTA-ATCCAT-----CA-TG-TTA----------GAA-------TATG----CATTGGTCATTCTGGTAAACTTG-AACAGAACTGAATT----CTNACAAAAAAAT-TA-TAATTATATACTTTTTTGCCATGAT-GATACTTTAAATGATGAAGTAATTTTTCAAA-CGA-AATT-AGAAG--TAGGCAGGCGACACATGTCT-TCCCTGGAAGACTTACCACTAAGTT
Reference ( family-1733 ) : CAAAATTTTCTGTCACATTTTT-CTCAGGAACCACATAGGCCAGC--TTCCTGATATTTGGCACAGAGCATCA--GTATGGAGAACTGNNATCGTGTAACGCAG-TTTCCAATCTGCCGCATGTCNACTTCCNGTTTNACGCAACTTAGAATATTTTT--GACATGGACAAATTTCTGTCACATTTTTCTCAGGAACCA-CACAGGCCAGCTTCCTGAT-ATTTGGCACAGAGCATCA----GTA-T-G-AGAACTG----TATCGT---GTAACGCAT---GTTTCCAC--TATCTGCCGCA-TGT-CCACTT-CCN--GTTT-GA---C-GCAACTT-T----AATNTTTTTGACAT----GA-ACAAAT--T--TGTCACAAAGT-A-TGACTGA-GG-----CCTG-GAACC------TTGAAATTAA------T-TATTT-----C----A-T-----ATAGAATCTCA-----CAA--A-TGGCATC-TCAT-AAC--AAT-------GATCTCATCTTTCA-TCTA-ATCCAT-----CA-TG-TTA----------GAA-------TAT-----CATT-GTCATTCTGGTAAACTTG-AACAGAACTG-ATT----CTGACAAAAAAAT-TA-TAATTATATACNTTTTTGCCATGAT-GATACTTTAAATGATGAAGTAATTTTTCAAATTGACAACT-AGAAG--TAGGCAGGCGACACATGTCT-TCCCTGGAAGACTTACCACTAAGTT
gi|1 : CAAA--TTTCTGTCACATTTTT-CTCAGGAACCACACAGGCCAGC--TTCCTGATATTTGGCACAGAGCATCA--GTATGGAGAACT-TGATCGTGTAACGCAGTTTTCCAATCTGCCGCATGTCAACTTCCGGTTACACGCAACTCAGAATATTTTT--AACATGAACAAATTGCTGTCACATTTTTCTCAGGAACCA-CACAGGCCAGCTTCCTGAT-ATTTGGCACAGAGCATCA-----TAGT-G-AGAACTG----TATCAT---GTAATTCATTGAATTTCCACAGTAGCTGTCACA-TGT-TCACTT-CCT--GTTT-GA---C-GCAACTT-T----AATTTTTTTGACAT----GA-ACAAAT--T--TGTCACAAAGT-GTTGACTGAGGG-----CCTGAGAACC------TTGAAATTAA------TGTATTT-----C----A-T-----ATAGAATCTCA-----CAA--A-TGGCATC-TCAT-AAC--AAT--------ATCTCATCTTTCA-TCTA-ATTCAT-----CA-TG-TTA----------GAA-------TATG----CATT-GTCATTCTGGTAAACTTG-AACAGAACTGAATT----CTAACAAAAAAAA-TA-TCATTATGTACTTTTTTGCCATGAT-GATACTTTAGATGATGAAGTAATTTTTCAAA-CGA-AATT-AGAAG--TAAGCAGGCGACACATGTCT-TCCCTGGAAGACTTACCACTAAGTT
gi|11 : AAACTTTTCTGTCA-ATTTT--CTCAGAAACCACATAt
gi|13 : tcgtctgtcgtcgtcgtggtcggcgtcacatT-AGAAG--TAGGCAGGCGACACACGTCT-TCACTGGAAGACTTACCACTACGT
gi|14 : GAAG--TAGGCAGG-GACACATGTCT-T-CCTGG-AGACTTACCACT-AGTT
gi|15 : AAATTTTTGTCACATTTTCCTCAGGAACCA-
gi|16 : tcgacgtcacaaTT----CTGACCAAAAAGT--A-TAACTATATACATTTTTGCCATGAT-G
gi|17 : AAG--TAGGCAGGCGACAC--GTCT-TCCCTGGAAGACTTACCACT
gi|18 : CAAAATTTTCTGTCACAGTTTT-C-CAGAAACCACATAGGt
gi|2 : aCAAAATTTTCTGTCACATTTTC-CTCATAAACCACATAGGCCAGC--TTCCTGATATTTGGCACAGAGTATCA--GTATGGACAACTG-TATCGTGTAACGCAG-TTTCCAATCTGCCACATGTCCACTTCCTGTTTGACGCAACTT-GAATATTTTT--CATATGGTTAAATTTCTGTCACATTTTTCTCAGGAACCA-CACAGGTCAGCTTCCTGAT-ACTTGGCAAAGAGC-TC------CA-T-------CTG----TATCGT---GTAACGCA----GTTTCCA----ATCTGCCACA-TGT-CCACTT-CCT--GTTT-GA---C-GCAACTT-T----AA--TTTTTGACAT----AA-GTAAAT--TTGTGTCACAAAGTAA-TGACTGA-------------GAACC------TTGTAATTAAATATCTT-TATTT-----C----A-G-----ATAAAATCTCA-----CAA--A-TGGCATC-TCAT-AAC--AAT--------ATCTCATCTTTCA-CCTA-ATCCAT-----CA-TGTTTA----------GAA-------TATAATAGCATTGGTCATTCTGGTAAACTTG-AACTGAACTGAATT----CTTACAAAAAAAT-T--TAATTATATATTTTTCTGCCATGAT-GATACTTTAAATGATGAAATAATTTTTCAAA-TGA-AATT-ATAAT--TAGGCAGGCGACACATGTCT-TCCCTGGAAGACTTACCACTAAGT
gi|3 : cggcgtcaTATTTTTTAAACATGGACAAATTTCTGTCACATTTTTCTCAGGAACCAACAC---CCAGCTTCCTGATTATTTGACAC-GAGCATCAACCAGTA-T-GGAGAGCTGCATGTATCGTCATGTAACTTA----GTTTCCAC--T--TTGCC-CA-T-T-TCACTT-TCCATGTTT-GATTTC-ACAACTT-T----AATTTTTTTGACAT----GA-AAAAATATT--TGTCACAA-GT-A-TGACTGA-TGT----CCTGAGAACC------TTGAAATTAA------TATGTTTTTATTC----ACT-----ATAGAATCTCA-----CAA--AATGGCCTT-TCATTAAC--AAT-------GATCTCATCTT-CA-TCTATATTCAT------A--G-TTA----------GA--------TAT-----TATT-GTCATTCTGGTAAACTTG-AACAGAACTG-ATT----CTGACAAAA-AAT-TA-TAATTATATACATTTTTGCCATGATGGAT-CTTTAAATGATGAAGTAA-TTTTCAAATTGACAACTGAGAAGTATAGGCA-GC-ACACATGTCTATCCCTGGAAGACTTACCCTTAAGT
gi|4 : CAAAATTTTCCGTCACATTTTT-CTCAGAAACCACATAAGCCAGC--CTCCTGATATTTT-CACAGAGCATCA--GTATAGAGAACTGT-ATCGTGTAACGCAG-TTTCCAATCTGCCGCATGTCCACTTCCTGTTTGACGAAACT-AGAATATCTTT--AACATAGACAAATTTCTGTCACATTTTTCTCAGGAACCA-CACAGGCCAGCTTCCTGAT-ATTTGGCACAGAGCATCA----GTA-TGG-AGAACTT----GATCGT---GTAACGCAG---TTTTCCA----ATCTGCCGCA-TGT-CAACTT-CCG--GTTA-CA---C-GCAACTCAG----AATATTTTTAACAT----GA-ACAAAT--TGCTGTCACA
gi|5 : ttttattgtgtcgcctgcctgcattagcggagggacatatagggatcactttagtcgtctggcggcgtcggtgtcaTGAT-AATTGGCATAGACCATCG----GTA-T-G-GGAACTG----TAATGT----TGACAC-T---AGTTCCAA--TA-ATAGTACAGTGTACAACTTACCA--GTTTGGA---CGGCAAACT-TAAAAAATATTTTTGACATATTAGACACAAAT--T--T----CAGAAT-T-TG-TTGT-GGGTCTTCCTG-GAACCTACATATTCAAATTAA------T-TACCT-----CTTAGA-TTGTAGATAGAATCACAACCAGCAATTA-TCGCATCATC-T-AATAGAATATATACGGATCTTCCCTTTCAGTCTA-ATCCATGAGCCCATTG-TTATGTGGCTTGTGAAGGACTCGTAT-----CATTAATC-TCTTTGT-AACTTGTAACAGAAAGT-ATTTTTCCTTGGAACAAAATATAGTAAATATAGACTTTTTCGCAA-GAT-GATAC
gi|8 : TCACACTTTAACTCTGGAACCACGAAGGACAGCTTTTCCTGAT-TTT-GCACGGACCAATACTGTATGGAGAA
10 sequences could not be aligned to this reference sequence:
Unaligned ( gi|6 ): TTTATTGTGTCGCGTATGCCGCATTAGCGGAGGCGACATATAGGGATCACTTAGTGTCTTGGTTCGTCTGGTCGTCGTCCGGTGTCACAAAA
Unaligned ( gi|7 ): TTATTGTGTCGCCTGCCTGCGTTAGCAGAGACGACATATAGGGATCACTTTGAGTCGTCTGTCGGCGTCGGCGGCACAAAAAATTCC
Unaligned ( gi|9 ): TTTTTTGTGTCGTCTGCCCTGCATTAGCGGCAGAGGCAACAATATAGGAATCACTATCCATCGTCTTTGTGGCGGCGAG
Unaligned ( gi|10 ): ATTTTGTTGGGTCCGCCTAGTCTGCCTGCGTTAATGCGGGGACATATACTTGGATCACTTTAGTCTGTC
Unaligned ( gi|12 ): TTTTCATTGTGTCGCCTGCCTGCTTTAGCGGAGGCGACATATAGGGATCACTTTAGTC
Unaligned ( gi|19 ): TATTGTGTCGCCTGCCTGTATTAGTAGAGGCGTCACA
Unaligned ( gi|20 ): ATCTTGTTATTGTGTCGCCTGCCTACGTTAGCGGA
Unaligned ( gi|21 ): TGTCGCCTGCCTACGTTAGCAGAGGCTGCATAT
Unaligned ( gi|22 ): CATCGGCGTCACAAAATTTACTGTCACATTTT
Unaligned ( gi|23 ): CGTCGGTGTCACAAAATTTTCTGTCACAATT
Alignments
lowQualScore : 11 11 1 11 1 11 11 222222 111 1111 111 333333 333333 111 111 222222 1111 22222 55555555555555555 222222 2222222 555555555555555555 22222 1111 1 1 11 44444444 1 1 777777777777777777777777777777777777777777 1 1 1111 1111 11 1 1
lowQualScore : 5 22 33 3 5 33 3 99 33 8 3 8 0 0 555555 8 666 7777 444 3 111111 777777 3 8 8 8 222 8 444 8 000000 44 7777 8 44444 3 22222222222222222 3 888888 8888888 999999999999999999 55555 4444 0 3 0 33 77777777 3 0 0 444444444444444444444444444444444444444444 9 3 3 0 3 3 7777 1 0 7777 1 0 8 3 7 44 3 0 99 6 0
lowQualScore : . .. .. . . .. . .. .. . . . . . ...... . ... .... ... . ...... ...... . . . . ... . ... . ...... .. .... . ..... . ................. . ...... ....... .................. ..... .... . . . .. ........ . . . .......................................... . . . . . . .... . . .... . . . . . .. . . .. . .
lowQualScore : 6 77 88 2 0 88 3 33 88 0 2 0 8 8 888888 0 000 0000 000 2 666666 888888 8 0 0 0 000 0 000 0 888888 66 0000 0 00000 2 55555555555555555 2 888888 8888888 222222222222222222 00000 8888 0 2 0 88 55555555 2 0 0 555555555555555555555555555555555555555555 0 2 2 0 2 2 0000 0 8 6666 4 8 0 2 3 00 3 0 22 7 8
consensus : CAAAATTTTCTGTCACATTTTT-CTCAGAAACCACATAGGCCAGCTT--CCTGATATTTGGCACAGAGCATCA--GTATGGAGAACTGTATCGTGTAACGCAGTTT-CCAATCTGCCGCATGTCCACTTCCTGTTTGACGCAACTCAGAATATTTTT--AACATGGACAAATTTCTGTCACATTTTTCTCAGGAACCA-CACAGGCCAGCTTCCTGAT-ATTTGGCACAGAGCATCA----GTA-T-G-AGAACTG----TATCGT---GTAACGCAT---GTTTCCAC--TATCTGCCACA-TGT-CCACTT-CCN--GTTT-GA---C-GCAACTT-T----AATNTTTTTGACAT----GA-ACAAAT--T--TGTCACAAAGT-AT-GACTGAGGG----CCTGAGAACC------TTGAAATTAA-----TNTATTT-----C----A-T-----ATAGAATCTCA-----CAA--A-TGGCATC-TCAT-AAC--AAT-------GATCTCATCTTTCA-TCTA-ATCCAT-----CA-TG-TTA----------GAA-------TAT----GCATTGGTCATTCTGGTAAACTTG-AACAGAACTGAATT----CTNACAAAAAAAT-TA-TAATTATATACTTTTTTGCCATGAT-GATACTTTAAATGATGAAGTAATTTTTCAAA-CGA-AATT-AGAAG--TAGGCAGGCGACACATGTCT-TCCCTGGAAGACTTACCACTAAGTT
Reference ( family-1733 ) : CAAAATTTTCTGTCACATTTTT-CTCAGAAACCACATAGGCCAGCTT--CCTGATATTTGGCACAGAGCATCA--GTATGGAGAACTGTATCGTGTAACGCAGTTT-CCAATCTGCCGCATGTCCACTTCCTGTTTGACGCAACTCAGAATATTTTT--AACATGGACAAATTTCTGTCACATTTTTCTCAGGAACCA-CACAGGCCAGCTTCCTGAT-ATTTGGCACAGAGCATCA----GTA-T-G-AGAACTG----TATCGT---GTAACGCAT---GTTTCCAC--TATCTGCCACA-TGT-CCACTT-CCN--GTTT-GA---C-GCAACTT-T----AATNTTTTTGACAT----GA-ACAAAT--T--TGTCACAAAGT-AT-GACTGAGG-----CCTGAGAACC------TTGAAATTAA-----TGTATTT-----C----A-T-----ATAGAATCTCA-----CAA--A-TGGCATC-TCAT-AAC--AAT-------GATCTCATCTTTCA-TCTA-ATCCAT-----CA-TG-TTA----------GAA-------TAT----GCATTGGTCATTCTGGTAAACTTG-AACAGAACTGAATT----CTNACAAAAAAAT-TA-TAATTATATACTTTTTTGCCATGAT-GATACTTTAAATGATGAAGTAATTTTTCAAA-CGA-AATT-AGAAG--TAGGCAGGCGACACATGTCT-TCCCTGGAAGACTTACCACTAAGTT
gi|1 : CAAA--TTTCTGTCACATTTTT-CTCAGGAACCACACAGGCCAGCTT--CCTGATATTTGGCACAGAGCATCA--GTATGGAGAACTTGATCGTGTAACGCAGTTTTCCAATCTGCCGCATGTCAACTTCCGGTTACACGCAACTCAGAATATTTTT--AACATGAACAAATTGCTGTCACATTTTTCTCAGGAACCA-CACAGGCCAGCTTCCTGAT-ATTTGGCACAGAGCATCA-----TAGT-G-AGAACTG----TATCAT---GTAATTCATTGAATTTCCACAGTAGCTGTCACA-TGT-TCACTT-CCT--GTTT-GA---C-GCAACTT-T----AATTTTTTTGACAT----GA-ACAAAT--T--TGTCACAAAGT-GTTGACTGAGGG----CCTGAGAACC------TTGAAATTAA-----TGTATTT-----C----A-T-----ATAGAATCTCA-----CAA--A-TGGCATC-TCAT-AAC--AAT--------ATCTCATCTTTCA-TCTA-ATTCAT-----CA-TG-TTA----------GAA-------TAT----GCATTG-TCATTCTGGTAAACTTG-AACAGAACTGAATT----CTAACAAAAAAAA-TA-TCATTATGTACTTTTTTGCCATGAT-GATACTTTAGATGATGAAGTAATTTTTCAAA-CGA-AATT-AGAAG--TAAGCAGGCGACACATGTCT-TCCCTGGAAGACTTACCACTAAGTT
gi|11 : AAACTTTTCTGTCA-ATTTT--CTCAGAAACCACATAt
gi|13 : tcgtctgtcgtcgtcgtggtcggcgtcacatT-AGAAG--TAGGCAGGCGACACACGTCT-TCACTGGAAGACTTACCACTACGT
gi|14 : GAAG--TAGGCAGG-GACACATGTCT-T-CCTGG-AGACTTACCACT-AGTT
gi|15 : AAATTTTTGTCACATTTTCCTCAGGAACCA-
gi|16 : tcgacgtcacaaTT----CTGACCAAAAAGT--A-TAACTATATACATTTTTGCCATGAT-G
gi|17 : AAG--TAGGCAGGCGACAC--GTCT-TCCCTGGAAGACTTACCACT
gi|18 : CAAAATTTTCTGTCACAGTTTT-C-CAGAAACCACATAGGt
gi|2 : aCAAAATTTTCTGTCACATTTTC-CTCATAAACCACATAGGCCAGCTT--CCTGATATTTGGCACAGAGTATCA--GTATGGACAACTGTATCGTGTAACGCAGTTT-CCAATCTGCCACATGTCCACTTCCTGTTTGACGCAACTT-GAATATTTTT--CATATGGTTAAATTTCTGTCACATTTTTCTCAGGAACCA-CACAGGTCAGCTTCCTGAT-ACTTGGCAAAGAGC-TC------CA-T-------CTG----TATCGT---GTAACGCA----GTTTCCA----ATCTGCCACA-TGT-CCACTT-CCT--GTTT-GA---C-GCAACTT-T----AA--TTTTTGACAT----AA-GTAAAT--TTGTGTCACAAAGTAAT-GA------------CTGAGAACC------TTGTAATTAAATATCTTTATTT-----C----A-G-----ATAAAATCTCA-----CAA--A-TGGCATC-TCAT-AAC--AAT--------ATCTCATCTTTCA-CCTA-ATCCAT-----CA-TGTTTA----------GAA-------TATAATAGCATTGGTCATTCTGGTAAACTTG-AACTGAACTGAATT----CTTACAAAAAAAT-T--TAATTATATATTTTTCTGCCATGAT-GATACTTTAAATGATGAAATAATTTTTCAAA-TGA-AATT-ATAAT--TAGGCAGGCGACACATGTCT-TCCCTGGAAGACTTACCACTAAGT
gi|3 : cggcgtcaTATTTTTTAAACATGGACAAATTTCTGTCACATTTTTCTCAGGAACCAACAC---CCAGCTTCCTGATTATTTGACAC-GAGCATCAACCAGTA-T-GGAGAGCTGCATGTATCGTCATGTAACTTA----GTTTCCAC--T--TTGCC-CA-T-T-TCACTT-TCCATGTTT-GATTTC-ACAACTT-T----AATTTTTTTGACAT----GA-AAAAATATT--TGTCACAA-GT-AT-GACTGATGT----CCTGAGAACC------TTGAAATTAA-----TATGTTTTTATTC----ACT-----ATAGAATCTCA-----CAA--AATGGCCTT-TCATTAAC--AAT-------GATCTCATCTT-CA-TCTATATTCAT------A--G-TTA----------GA--------TAT-----TATTG-TCATTCTGGTAAACTTG-AACAGAACTGA-TT----CTGACAAAA-AAT-TA-TAATTATATACATTTTTGCCATGATGGAT-CTTTAAATGATGAAGTAA-TTTTCAAATTGACAACTGAGAAGTATAGGCA-GC-ACACATGTCTATCCCTGGAAGACTTACCCTTAAGT
gi|4 : CAAAATTTTCCGTCACATTTTT-CTCAGAAACCACATAAGCCAGCCT--CCTGATATTTT-CACAGAGCATCA--GTATAGAGAACTGTATCGTGTAACGCAGTTT-CCAATCTGCCGCATGTCCACTTCCTGTTTGACGAAACT-AGAATATCTTT--AACATAGACAAATTTCTGTCACATTTTTCTCAGGAACCA-CACAGGCCAGCTTCCTGAT-ATTTGGCACAGAGCATCA----GTA-TGG-AGAACTT----GATCGT---GTAACGCAG---TTTTCCA----ATCTGCCGCA-TGT-CAACTT-CCG--GTTA-CA---C-GCAACTCAG----AATATTTTTAACAT----GA-ACAAAT--TGCTGTCACA
gi|5 : ttttattgtgtcgcctgcctgcattagcggagggacatatagggatcactttagtcgtctggcggcgtcggtgtcaTGAT-AATTGGCATAGACCATCG----GTA-T-G-GGAACTG----TAATGT----TGACAC-T---AGTTCCAA--TA-ATAGTACAGTGTACAACTTACCA--GTTTGGA---CGGCAAACT-TAAAAAATATTTTTGACATATTAGACACAAAT--T--T----CAGAAT-TT-G-TTGTGGGTCTTCCTG-GAACCTACATATTCAAATTAA-----T-TACCT-----CTTAGA-TTGTAGATAGAATCACAACCAGCAATTA-TCGCATCATC-T-AATAGAATATATACGGATCTTCCCTTTCAGTCTA-ATCCATGAGCCCATTG-TTATGTGGCTTGTGAAGGACTCGTAT-----CATTAATC-TCTTTGT-AACTTGTAACAGAAA-GTATTTTTCCTTGGAACAAAATATAGTAAATATAGACTTTTTCGCAA-GAT-GATAC
gi|8 : TCACACTTTAACTCTGGAACCACGAAGGACAGCTTTTCCTGAT-TTTG-CACGGACCAATACTGTATGGAGAA
10 sequences could not be aligned to this reference sequence:
Unaligned ( gi|6 ): TTTATTGTGTCGCGTATGCCGCATTAGCGGAGGCGACATATAGGGATCACTTAGTGTCTTGGTTCGTCTGGTCGTCGTCCGGTGTCACAAAA
Unaligned ( gi|7 ): TTATTGTGTCGCCTGCCTGCGTTAGCAGAGACGACATATAGGGATCACTTTGAGTCGTCTGTCGGCGTCGGCGGCACAAAAAATTCC
Unaligned ( gi|9 ): TTTTTTGTGTCGTCTGCCCTGCATTAGCGGCAGAGGCAACAATATAGGAATCACTATCCATCGTCTTTGTGGCGGCGAG
Unaligned ( gi|10 ): ATTTTGTTGGGTCCGCCTAGTCTGCCTGCGTTAATGCGGGGACATATACTTGGATCACTTTAGTCTGTC
Unaligned ( gi|12 ): TTTTCATTGTGTCGCCTGCCTGCTTTAGCGGAGGCGACATATAGGGATCACTTTAGTC
Unaligned ( gi|19 ): TATTGTGTCGCCTGCCTGTATTAGTAGAGGCGTCACA
Unaligned ( gi|20 ): ATCTTGTTATTGTGTCGCCTGCCTACGTTAGCGGA
Unaligned ( gi|21 ): TGTCGCCTGCCTACGTTAGCAGAGGCTGCATAT
Unaligned ( gi|22 ): CATCGGCGTCACAAAATTTACTGTCACATTTT
Unaligned ( gi|23 ): CGTCGGTGTCACAAAATTTTCTGTCACAATT
Alignments
lowQualScore : 11 11 1 11 1 11 11 222222 111 1111 111 333333 333333 111 111 222222 1111 22222 33333333333333333 222222 2222222 555555555555555555 22222 1111 1 1 11 44444444 1 1 777777777777777777777777777777777777777777 1 1 1111 1111 11 1 1
lowQualScore : 5 22 33 3 5 33 3 99 33 8 3 8 0 0 555555 8 666 7777 444 3 111111 777777 3 8 8 8 222 8 444 8 000000 44 7777 8 44444 3 11111111111111111 3 888888 6666666 999999999999999999 55555 4444 0 3 0 33 77777777 3 0 0 444444444444444444444444444444444444444444 9 3 3 0 3 3 7777 1 0 7777 1 0 8 3 7 44 3 0 99 6 0
lowQualScore : . .. .. . . .. . .. .. . . . . . ...... . ... .... ... . ...... ...... . . . . ... . ... . ...... .. .... . ..... . ................. . ...... ....... .................. ..... .... . . . .. ........ . . . .......................................... . . . . . . .... . . .... . . . . . .. . . .. . .
lowQualScore : 6 77 88 2 0 88 3 33 88 0 2 0 8 8 888888 0 000 0000 000 2 666666 888888 8 0 0 0 000 0 000 0 888888 66 0000 0 00000 2 22222222222222222 2 888888 8888888 222222222222222222 00000 8888 0 2 0 88 55555555 2 0 0 555555555555555555555555555555555555555555 0 2 2 0 2 2 0000 0 8 6666 4 8 0 2 3 00 3 0 22 7 8
consensus : CAAAATTTTCTGTCACATTTTT-CTCAGAAACCACATAGGCCAGCTT--CCTGATATTTGGCACAGAGCATCA--GTATGGAGAACTGTATCGTGTAACGCAGTTT-CCAATCTGCCGCATGTCCACTTCCTGTTTGACGCAACTCAGAATATTTTT--AACATGGACAAATTTCTGTCACATTTTTCTCAGGAACCA-CACAGGCCAGCTTCCTGAT-ATTTGGCACAGAGCATCA----GTA-T-G-AGAACTG----TATCGT---GTAACGCAT---GTTTCCAC--TATCTGCCACA-TGT-CCACTT-CCN--GTTT-GA---C-GCAACTT-T----AATNTTTTTGACAT----GA-ACAAAT--T--TGTCACAAAGT-AT-GACTGAGGG----CCTGAGAACC------TTGAAATTAA-----TNTATTT-----C----A-T-----ATAGAATCTCA-----CAA--A-TGGCATC-TCAT-AAC--AAT-------GATCTCATCTTTCA-TCTA-ATCCAT-----CA-TG-TTA----------GAA-------TAT----GCATTGGTCATTCTGGTAAACTTG-AACAGAACTGAATT----CTNACAAAAAAAT-TA-TAATTATATACTTTTTTGCCATGAT-GATACTTTAAATGATGAAGTAATTTTTCAAA-CGA-AATT-AGAAG--TAGGCAGGCGACACATGTCT-TCCCTGGAAGACTTACCACTAAGTT
Reference ( family-1733 ) : CAAAATTTTCTGTCACATTTTT-CTCAGAAACCACATAGGCCAGCTT--CCTGATATTTGGCACAGAGCATCA--GTATGGAGAACTGTATCGTGTAACGCAGTTT-CCAATCTGCCGCATGTCCACTTCCTGTTTGACGCAACTCAGAATATTTTT--AACATGGACAAATTTCTGTCACATTTTTCTCAGGAACCA-CACAGGCCAGCTTCCTGAT-ATTTGGCACAGAGCATCA----GTA-T-G-AGAACTG----TATCGT---GTAACGCAT---GTTTCCAC--TATCTGCCACA-TGT-CCACTT-CCN--GTTT-GA---C-GCAACTT-T----AATNTTTTTGACAT----GA-ACAAAT--T--TGTCACAAAGT-AT-GACTGAGGG----CCTGAGAACC------TTGAAATTAA-----TNTATTT-----C----A-T-----ATAGAATCTCA-----CAA--A-TGGCATC-TCAT-AAC--AAT-------GATCTCATCTTTCA-TCTA-ATCCAT-----CA-TG-TTA----------GAA-------TAT----GCATTGGTCATTCTGGTAAACTTG-AACAGAACTGAATT----CTNACAAAAAAAT-TA-TAATTATATACTTTTTTGCCATGAT-GATACTTTAAATGATGAAGTAATTTTTCAAA-CGA-AATT-AGAAG--TAGGCAGGCGACACATGTCT-TCCCTGGAAGACTTACCACTAAGTT
gi|1 : CAAA--TTTCTGTCACATTTTT-CTCAGGAACCACACAGGCCAGCTT--CCTGATATTTGGCACAGAGCATCA--GTATGGAGAACTTGATCGTGTAACGCAGTTTTCCAATCTGCCGCATGTCAACTTCCGGTTACACGCAACTCAGAATATTTTT--AACATGAACAAATTGCTGTCACATTTTTCTCAGGAACCA-CACAGGCCAGCTTCCTGAT-ATTTGGCACAGAGCATCA-----TAGT-G-AGAACTG----TATCAT---GTAATTCATTGAATTTCCACAGTAGCTGTCACA-TGT-TCACTT-CCT--GTTT-GA---C-GCAACTT-T----AATTTTTTTGACAT----GA-ACAAAT--T--TGTCACAAAGT-GTTGACTGAGGG----CCTGAGAACC------TTGAAATTAA-----TGTATTT-----C----A-T-----ATAGAATCTCA-----CAA--A-TGGCATC-TCAT-AAC--AAT--------ATCTCATCTTTCA-TCTA-ATTCAT-----CA-TG-TTA----------GAA-------TAT----GCATTG-TCATTCTGGTAAACTTG-AACAGAACTGAATT----CTAACAAAAAAAA-TA-TCATTATGTACTTTTTTGCCATGAT-GATACTTTAGATGATGAAGTAATTTTTCAAA-CGA-AATT-AGAAG--TAAGCAGGCGACACATGTCT-TCCCTGGAAGACTTACCACTAAGTT
gi|11 : AAACTTTTCTGTCA-ATTTT--CTCAGAAACCACATAt
gi|13 : tcgtctgtcgtcgtcgtggtcggcgtcacatT-AGAAG--TAGGCAGGCGACACACGTCT-TCACTGGAAGACTTACCACTACGT
gi|14 : GAAG--TAGGCAGG-GACACATGTCT-T-CCTGG-AGACTTACCACT-AGTT
gi|15 : AAATTTTTGTCACATTTTCCTCAGGAACCA-
gi|16 : tcgacgtcacaaTT----CTGACCAAAAAGT--A-TAACTATATACATTTTTGCCATGAT-G
gi|17 : AAG--TAGGCAGGCGACAC--GTCT-TCCCTGGAAGACTTACCACT
gi|18 : CAAAATTTTCTGTCACAGTTTT-C-CAGAAACCACATAGGt
gi|2 : aCAAAATTTTCTGTCACATTTTC-CTCATAAACCACATAGGCCAGCTT--CCTGATATTTGGCACAGAGTATCA--GTATGGACAACTGTATCGTGTAACGCAGTTT-CCAATCTGCCACATGTCCACTTCCTGTTTGACGCAACTT-GAATATTTTT--CATATGGTTAAATTTCTGTCACATTTTTCTCAGGAACCA-CACAGGTCAGCTTCCTGAT-ACTTGGCAAAGAGC-TC------CA-T-------CTG----TATCGT---GTAACGCA----GTTTCCA----ATCTGCCACA-TGT-CCACTT-CCT--GTTT-GA---C-GCAACTT-T----AA--TTTTTGACAT----AA-GTAAAT--TTGTGTCACAAAGTAAT-GA------------CTGAGAACC------TTGTAATTAAATATCTTTATTT-----C----A-G-----ATAAAATCTCA-----CAA--A-TGGCATC-TCAT-AAC--AAT--------ATCTCATCTTTCA-CCTA-ATCCAT-----CA-TGTTTA----------GAA-------TATAATAGCATTGGTCATTCTGGTAAACTTG-AACTGAACTGAATT----CTTACAAAAAAAT-T--TAATTATATATTTTTCTGCCATGAT-GATACTTTAAATGATGAAATAATTTTTCAAA-TGA-AATT-ATAAT--TAGGCAGGCGACACATGTCT-TCCCTGGAAGACTTACCACTAAGT
gi|3 : cggcgtcaTATTTTTTAAACATGGACAAATTTCTGTCACATTTTTCTCAGGAACCAACAC---CCAGCTTCCTGATTATTTGACAC-GAGCATCAACCAGTA-T-GGAGAGCTGCATGTATCGTCATGTAACTTA----GTTTCCAC--T--TTGCC-CA-T-T-TCACTT-TCCATGTTT-GATTTC-ACAACTT-T----AATTTTTTTGACAT----GA-AAAAATATT--TGTCACAA-GT-AT-GACTGATGT----CCTGAGAACC------TTGAAATTAA-----TATGTTTTTATTC----ACT-----ATAGAATCTCA-----CAA--AATGGCCTT-TCATTAAC--AAT-------GATCTCATCTT-CA-TCTATATTCAT------A--G-TTA----------GA--------TAT-----TATTG-TCATTCTGGTAAACTTG-AACAGAACTGA-TT----CTGACAAAA-AAT-TA-TAATTATATACATTTTTGCCATGATGGAT-CTTTAAATGATGAAGTAA-TTTTCAAATTGACAACTGAGAAGTATAGGCA-GC-ACACATGTCTATCCCTGGAAGACTTACCCTTAAGT
gi|4 : CAAAATTTTCCGTCACATTTTT-CTCAGAAACCACATAAGCCAGCCT--CCTGATATTTT-CACAGAGCATCA--GTATAGAGAACTGTATCGTGTAACGCAGTTT-CCAATCTGCCGCATGTCCACTTCCTGTTTGACGAAACT-AGAATATCTTT--AACATAGACAAATTTCTGTCACATTTTTCTCAGGAACCA-CACAGGCCAGCTTCCTGAT-ATTTGGCACAGAGCATCA----GTA-TGG-AGAACTT----GATCGT---GTAACGCAG---TTTTCCA----ATCTGCCGCA-TGT-CAACTT-CCG--GTTA-CA---C-GCAACTCAG----AATATTTTTAACAT----GA-ACAAAT--TGCTGTCACA
gi|5 : ttttattgtgtcgcctgcctgcattagcggagggacatatagggatcactttagtcgtctggcggcgtcggtgtcaTGAT-AATTGGCATAGACCATCG----GTA-T-G-GGAACTG----TAATGT----TGACAC-T---AGTTCCAA--TA-ATAGTACAGTGTACAACTTACCA--GTTTGGA---CGGCAAACT-TAAAAAATATTTTTGACATATTAGACACAAAT--T--T----CAGAAT-TT-G-TTGTGGGTCTTCCTG-GAACCTACATATTCAAATTAA-----T-TACCT-----CTTAGA-TTGTAGATAGAATCACAACCAGCAATTA-TCGCATCATC-T-AATAGAATATATACGGATCTTCCCTTTCAGTCTA-ATCCATGAGCCCATTG-TTATGTGGCTTGTGAAGGACTCGTAT-----CATTAATC-TCTTTGT-AACTTGTAACAGAAA-GTATTTTTCCTTGGAACAAAATATAGTAAATATAGACTTTTTCGCAA-GAT-GATAC
gi|8 : TCACACTTTAACTCTGGAACCACGAAGGACAGCTTTTCCTGAT-TTTG-CACGGACCAATACTGTATGGAGAA
blockSeqs : C AA TT A G CT . T TA A A T AACCAG . GG CATG CAT G AGT ATA A G A A CAT G TTT G TAAAA TT ATTA C TTG A TTGTTGTGGGTCTT A TACATA ATATCTT CTTAGATTGTAG ACCAG TTA A A T AG ATATACGG T G T GAGCCCATTGTTATGTGGCTTGTGAAGGACTCGTAT G A A T T A TTTC G ATAG A G A T TT C G TA A
blockSeqs : A T . A . . . A . . A . AG . GG . . T AG AT G . . . T . . . AG TA . . ATT A ATGACTGATGT A . TA TTATTCACT . AA . A . . G T . . CATGTTTAGAATATAATAG A A A . T A . T TA T . A . T . . . .
blockSeqs : A C . . . . . . . . GG . G . . G AG CT A . . . G . . . T TA . . TGC . AATGA . . T CAG . A . . . . . . . . AGTTAGATAT . . . . . . . G A A . . . . .
blockSeqs : A T . . . . . . . A TA AT . . . . A . . . T . . . T . T T T . . .
blockSeqs : . . .
blockSeqCons : GG**** G** AG**** AT**** TTN** A***
originalCons : CAAAATTTTCTGTCACATTTTT-CTCAGAAACCACATAGGCCAGCTT--CCTGATATTTGGCACAGAGCATCA--GTATGGAGAACTGTATCGTGTAACGCAGTTT-CCAATCTGCCGCATGTCCACTTCCTGTTTGACGCAACTCAGAATATTTTT--AACATGGACAAATTTCTGTCACATTTTTCTCAGGAACCA-CACAGGCCAGCTTCCTGAT-ATTTGGCACAGAGCATCA----GTA-T-G-AGAACTG----TATCGT---GTAACGCAT---GTTTCCAC--TATCTGCCACA-TGT-CCACTT-CCN--GTTT-GA---C-GCAACTT-T----AATNTTTTTGACAT----GA-ACAAAT--T--TGTCACAAAGT-AT-GACTGAGGG----CCTGAGAACC------TTGAAATTAA-----TNTATTT-----C----A-T-----ATAGAATCTCA-----CAA--A-TGGCATC-TCAT-AAC--AAT-------GATCTCATCTTTCA-TCTA-ATCCAT-----CA-TG-TTA----------GAA-------TAT----GCATTGGTCATTCTGGTAAACTTG-AACAGAACTGAATT----CTNACAAAAAAAT-TA-TAATTATATACTTTTTTGCCATGAT-GATACTTTAAATGATGAAGTAATTTTTCAAA-CGA-AATT-AGAAG--TAGGCAGGCGACACATGTCT-TCCCTGGAAGACTTACCACTAAGTT
finalCons : CAAAATTTTCTGTCACATTTTT-CTCAGAAACCACATAGGCCAGCTT--CCTGATATTTGGCACAGAGCATCA--GTATGGAGAACTGTATCGTGTAACGCAGTTT-CCAATCTGCCGCATGTCCACTTCCTGTTTGACGCAACTCAGAATATTTTT--AACATGGACAAATTTCTGTCACATTTTTCTCAGGAACCA-CACAGGCCAGCTTCCTGAT-ATTTGGCACAGAGCATCGG----TA-TG--AGAACTG----TATCGT---GTAACGCAG----TTTCCAAT----CTGCCACA-TGT-CCACTT-CCN--GTTT-GA---C-GCAACTT-T----AATNTTTTTGACAT----GA-ACAAATTTN--TGTCACAAAGT-AT-GACTGAGGG----CCTGAGAACC------TTGAAATTAA-----TNTATTT-----C----A-T-----ATAGAATCTCA-----CAA--A-TGGCATC-TCAT-AAC--AAT-------GATCTCATCTTTCA-TCTA-ATCCAT-----CA-TG-TTA----------GAA-------TAT----GCATTGGTCATTCTGGTAAACTTG-AACAGAACTGAATT----CTNACAAAAAAATA---TAATTATATACTTTTTTGCCATGAT-GATACTTTAAATGATGAAGTAATTTTTCAAA-CGA-AATT-AGAAG--TAGGCAGGCGACACATGTCT-TCCCTGGAAGACTTACCACTAAGTT
10 sequences could not be aligned to this reference sequence:
Unaligned ( gi|6 ): TTTATTGTGTCGCGTATGCCGCATTAGCGGAGGCGACATATAGGGATCACTTAGTGTCTTGGTTCGTCTGGTCGTCGTCCGGTGTCACAAAA
Unaligned ( gi|7 ): TTATTGTGTCGCCTGCCTGCGTTAGCAGAGACGACATATAGGGATCACTTTGAGTCGTCTGTCGGCGTCGGCGGCACAAAAAATTCC
Unaligned ( gi|9 ): TTTTTTGTGTCGTCTGCCCTGCATTAGCGGCAGAGGCAACAATATAGGAATCACTATCCATCGTCTTTGTGGCGGCGAG
Unaligned ( gi|10 ): ATTTTGTTGGGTCCGCCTAGTCTGCCTGCGTTAATGCGGGGACATATACTTGGATCACTTTAGTCTGTC
Unaligned ( gi|12 ): TTTTCATTGTGTCGCCTGCCTGCTTTAGCGGAGGCGACATATAGGGATCACTTTAGTC
Unaligned ( gi|19 ): TATTGTGTCGCCTGCCTGTATTAGTAGAGGCGTCACA
Unaligned ( gi|20 ): ATCTTGTTATTGTGTCGCCTGCCTACGTTAGCGGA
Unaligned ( gi|21 ): TGTCGCCTGCCTACGTTAGCAGAGGCTGCATAT
Unaligned ( gi|22 ): CATCGGCGTCACAAAATTTACTGTCACATTTT
Unaligned ( gi|23 ): CGTCGGTGTCACAAAATTTTCTGTCACAATT
Alignments
lowQualScore : 11 11 1 11 1 11 11 333333 111 1111 111 1111111 1111 111 111 222222 1111 11 1111 222222 222222 2222222 555555555555555555 22222 1111 1 1 11 44444444 1 1 777777777777777777777777777777777777777777 11 1 1111 111 11 1 1
lowQualScore : 5 22 33 3 5 33 3 99 33 8 3 8 0 0 111111 8 666 7777 444 3 8 9999999 7777 8 3 8 8 8 222 8 444 8 000000 8 7777 8 77 3 2222 3 666666 9 888888 6666666 999999999999999999 55555 4444 0 3 0 33 77777777 3 0 0 444444444444444444444444444444444444444444 33 3 3 0 3 3 7777 1 8 444 1 0 8 3 7 44 3 0 99 6 0
lowQualScore : . .. .. . . .. . .. .. . . . . . ...... . ... .... ... . . ....... .... . . . . . ... . ... . ...... . .... . .. . .... . ...... . ...... ....... .................. ..... .... . . . .. ........ . . . .......................................... .. . . . . . .... . . ... . . . . . .. . . .. . .
lowQualScore : 6 77 88 2 0 88 3 33 88 0 2 0 8 8 666666 0 000 0000 000 2 0 0000000 0000 0 8 0 0 0 000 0 000 0 888888 8 0000 0 22 2 2222 2 222222 2 888888 8888888 222222222222222222 00000 8888 0 2 0 88 55555555 2 0 0 555555555555555555555555555555555555555555 00 2 2 0 2 2 0000 0 0 000 4 8 0 2 3 00 3 0 22 7 8
consensus : CAAAATTTTCTGTCACATTTTT-CTCAGAAACCACATAGGCCAGCTT--CCTGATATTTGGCACAGAGCATCA--GTATGGAGAACTGTATCGTGTAACGCAGTTT-CCAATCTGCCGCATGTCCACTTCCTGTTTGACGCAACTCAGAATATTTTT--AACATGGACAAATTTCTGTCACATTTTTCTCAGGAACCA-CACAGGCCAGCTTCCTGAT-ATTTGGCACAGAGCATCA----GTA-T-G-AGAACTG----TATCGT---GTAACGC-A----G-TTTCCA----AT-CTGCCACA-TGT-CCACTT-CCN--GTTT-GA---C-GCAACTT-T----AATNTTTTTGACAT----GA-ACAAATTT-TGTCACAAAGTA-T-GACTGAGGG----CCTGAGAACC------TTGAAATTAA-----TNTATTT-----C----A-T-----ATAGAATCTCA-----CAA--A-TGGCATC-TCAT-AAC--AAT-------GATCTCATCTTTCA-TCTA-ATCCAT-----CA-TGTT-A----------GAA-------TAT----GCATTGGTCATTCTGGTAAACTTG-AACAGAACTGAATT----CTNAC-AAAAAAATATAAT---TATATACTTTTTTGCCATGATG-ATACTTTAAATGATGAAGTAATTTTTCAAA-CGA-AATT-AGAAG--TAGGCAGGCGACACATGTCT-TCCCTGGAAGACTTACCACTAAGTT
Reference ( family-1733 ) : CAAAATTTTCTGTCACATTTTT-CTCAGAAACCACATAGGCCAGCTT--CCTGATATTTGGCACAGAGCATCA--GTATGGAGAACTGTATCGTGTAACGCAGTTT-CCAATCTGCCGCATGTCCACTTCCTGTTTGACGCAACTCAGAATATTTTT--AACATGGACAAATTTCTGTCACATTTTTCTCAGGAACCA-CACAGGCCAGCTTCCTGAT-ATTTGGCACAGAGCATCG----GTA-T-G-AGAACTG----TATCGT---GTAACGC-A----G-TTTCCA----AT-CTGCCACA-TGT-CCACTT-CCN--GTTT-GA---C-GCAACTT-T----AATNTTTTTGACAT----GA-ACAAATTTNTGTCACAAAGTA-T-GACTGAGGG----CCTGAGAACC------TTGAAATTAA-----TNTATTT-----C----A-T-----ATAGAATCTCA-----CAA--A-TGGCATC-TCAT-AAC--AAT-------GATCTCATCTTTCA-TCTA-ATCCAT-----CA-TGTT-A----------GAA-------TAT----GCATTGGTCATTCTGGTAAACTTG-AACAGAACTGAATT----CTNAC-AAAAAAATATAAT---TATATACTTTTTTGCCATGATG-ATACTTTAAATGATGAAGTAATTTTTCAAA-CGA-AATT-AGAAG--TAGGCAGGCGACACATGTCT-TCCCTGGAAGACTTACCACTAAGTT
gi|1 : CAAA--TTTCTGTCACATTTTT-CTCAGGAACCACACAGGCCAGCTT--CCTGATATTTGGCACAGAGCATCA--GTATGGAGAACTTGATCGTGTAACGCAGTTTTCCAATCTGCCGCATGTCAACTTCCGGTTACACGCAACTCAGAATATTTTT--AACATGAACAAATTGCTGTCACATTTTTCTCAGGAACCA-CACAGGCCAGCTTCCTGAT-ATTTGGCACAGAGCATCA-----TAGT-G-AGAACTG----TATCAT---GTAATTC-ATTGAA-TTTCCACAGTAG-CTGTCACA-TGT-TCACTT-CCT--GTTT-GA---C-GCAACTT-T----AATTTTTTTGACAT----GA-ACAAATTT--GTCACAAAGTG-TTGACTGAGGG----CCTGAGAACC------TTGAAATTAA-----TGTATTT-----C----A-T-----ATAGAATCTCA-----CAA--A-TGGCATC-TCAT-AAC--AAT--------ATCTCATCTTTCA-TCTA-ATTCAT-----CA-TGTT-A----------GAA-------TAT----GCATT-GTCATTCTGGTAAACTTG-AACAGAACTGAATT----CTAACAAAAAAAATATCAT---TATGTACTTTTTTGCCATGATG-ATACTTTAGATGATGAAGTAATTTTTCAAA-CGA-AATT-AGAAG--TAAGCAGGCGACACATGTCT-TCCCTGGAAGACTTACCACTAAGTT
gi|11 : AAACTTTTCTGTCA-ATTTT--CTCAGAAACCACATAt
gi|13 : tcgtctgtcgtcgtcgtggtcggcgtcacatT-AGAAG--TAGGCAGGCGACACACGTCT-TCACTGGAAGACTTACCACTACGT
gi|14 : GAAG--TAGGCAGG-GACACATGTCT-T-CCTGG-AGACTTACCACT-AGTT
gi|15 : AAATTTTTGTCACATTTTCCTCAGGAACCA-
gi|16 : tcgacgtcacaaTT----CTGAC-CAAAAAGTATAAC---TATATACATTTTTGCCATGATG-
gi|17 : AAG--TAGGCAGGCGACAC--GTCT-TCCCTGGAAGACTTACCACT
gi|18 : CAAAATTTTCTGTCACAGTTTT-C-CAGAAACCACATAGGt
gi|2 : aCAAAATTTTCTGTCACATTTTC-CTCATAAACCACATAGGCCAGCTT--CCTGATATTTGGCACAGAGTATCA--GTATGGACAACTGTATCGTGTAACGCAGTTT-CCAATCTGCCACATGTCCACTTCCTGTTTGACGCAACTT-GAATATTTTT--CATATGGTTAAATTTCTGTCACATTTTTCTCAGGAACCA-CACAGGTCAGCTTCCTGAT-ACTTGGCAAAGAGC-TC------CA-T-------CTG----TATCGT---GTAACGC-A----G-TTTCCA----AT-CTGCCACA-TGT-CCACTT-CCT--GTTT-GA---C-GCAACTT-T----AAT--TTTTGACAT----AA-GTAAATTTGTGTCACAAAGTAAT-GACTGAG------------AACC------TTGTAATTAAATATCTTTATTT-----C----A-G-----ATAAAATCTCA-----CAA--A-TGGCATC-TCAT-AAC--AAT--------ATCTCATCTTTCA-CCTA-ATCCAT-----CA-TGTTTA----------GAA-------TATAATAGCATTGGTCATTCTGGTAAACTTG-AACTGAACTGAATT----CTTAC-AAAAAAATTTAAT---TATATATTTTTCTGCCATGATG-ATACTTTAAATGATGAAATAATTTTTCAAA-TGA-AATT-ATAAT--TAGGCAGGCGACACATGTCT-TCCCTGGAAGACTTACCACTAAGT
gi|3 : cggcgtcaTATTTTTTAAACATGGACAAATTTCTGTCACATTTTTCTCAGGAACCAACAC---CCAGCTTCCTGATTATTTGACAC-GAGCATCAACCAGTA-T-GGAGAGCTGCATGTATCGTCATGTAACTT-A----G-TTTCCA----CT-TTGCC-CA-T-T-TCACTT-TCCATGTTT-GATTTC-ACAACTT-T----AATTTTTTTGACAT----GA-AAAAATATTTGTCACAA-GTA-T-GACTGATGT----CCTGAGAACC------TTGAAATTAA-----TATGTTTTTATTC----ACT-----ATAGAATCTCA-----CAA--AATGGCCTT-TCATTAAC--AAT-------GATCTCATCTT-CA-TCTATATTCAT------A--GTT-A----------GA--------TAT-----TATTG-TCATTCTGGTAAACTTG-AACAGAACTGA-TT----CTGAC-AAAAAATTATAAT---TATATACATTTTTGCCATGATGGAT-CTTTAAATGATGAAGTAA-TTTTCAAATTGACAACTGAGAAGTATAGGCA-GC-ACACATGTCTATCCCTGGAAGACTTACCCTTAAGT
gi|4 : CAAAATTTTCCGTCACATTTTT-CTCAGAAACCACATAAGCCAGCCT--CCTGATATTTT-CACAGAGCATCA--GTATAGAGAACTGTATCGTGTAACGCAGTTT-CCAATCTGCCGCATGTCCACTTCCTGTTTGACGAAACT-AGAATATCTTT--AACATAGACAAATTTCTGTCACATTTTTCTCAGGAACCA-CACAGGCCAGCTTCCTGAT-ATTTGGCACAGAGCATCA----GTA-TGG-AGAACTT----GATCGT---GTAACGC-A----GTTTTCCA----AT-CTGCCGCA-TGT-CAACTT-CCG--GTTA-CA---C-GCAACTCAG----AATATTTTTAACAT----GA-ACAAATTGCTGTCACA
gi|5 : ttttattgtgtcgcctgcctgcattagcggagggacatatagggatcactttagtcgtctggcggcgtcggtgtcaTGAT-AATTGGCATAGACCATCG----GTA-T-G-GGAACTG----TAATGT----TGACACTA----G--TTCCA----ATAATAGTACAGTGTACAACTTACCA--GTTTGGA---CGGCAAACT-TAAAAAATATTTTTGACATATTAGACACAAATTT------CAGAATT-T-G-TTGTGGGTCTTCCTG-GAACCTACATATTCAAATTAA-----T-TACCT-----CTTAGA-TTGTAGATAGAATCACAACCAGCAATTA-TCGCATCATC-T-AATAGAATATATACGGATCTTCCCTTTCAGTCTA-ATCCATGAGCCCATTGTT-ATGTGGCTTGTGAAGGACTCGTAT-----CATTAATC-TCTTTGT-AACTTGTAACAGAAA-GTATTTTTCCTTGG-AACAAAATATAGTAAATATAGACTTTTTCGCAA-GATG-ATAC
gi|8 : TCACACTTTAACTCTGGAACCACGAAGGACAGCTTTTCCTGAT-TTTG-CACGGACCAATACTGTATGGAGAA
10 sequences could not be aligned to this reference sequence:
Unaligned ( gi|6 ): TTTATTGTGTCGCGTATGCCGCATTAGCGGAGGCGACATATAGGGATCACTTAGTGTCTTGGTTCGTCTGGTCGTCGTCCGGTGTCACAAAA
Unaligned ( gi|7 ): TTATTGTGTCGCCTGCCTGCGTTAGCAGAGACGACATATAGGGATCACTTTGAGTCGTCTGTCGGCGTCGGCGGCACAAAAAATTCC
Unaligned ( gi|9 ): TTTTTTGTGTCGTCTGCCCTGCATTAGCGGCAGAGGCAACAATATAGGAATCACTATCCATCGTCTTTGTGGCGGCGAG
Unaligned ( gi|10 ): ATTTTGTTGGGTCCGCCTAGTCTGCCTGCGTTAATGCGGGGACATATACTTGGATCACTTTAGTCTGTC
Unaligned ( gi|12 ): TTTTCATTGTGTCGCCTGCCTGCTTTAGCGGAGGCGACATATAGGGATCACTTTAGTC
Unaligned ( gi|19 ): TATTGTGTCGCCTGCCTGTATTAGTAGAGGCGTCACA
Unaligned ( gi|20 ): ATCTTGTTATTGTGTCGCCTGCCTACGTTAGCGGA
Unaligned ( gi|21 ): TGTCGCCTGCCTACGTTAGCAGAGGCTGCATAT
Unaligned ( gi|22 ): CATCGGCGTCACAAAATTTACTGTCACATTTT
Unaligned ( gi|23 ): CGTCGGTGTCACAAAATTTTCTGTCACAATT