lowQualScore : 1 1 1 1 333 333333333 11111 2222 1111 11 1 1
lowQualScore : 4 2 66 3 3 6 3 555 555 2 6 0 5 33 2 0 000 4 3 000000000 6 2 9999999 66 555 2 2 6666 33 2 33 22222 2 9 4 1111 6 8888 00 33 7777777 9 0 2 0 0 33
lowQualScore : . . .. . . . . ... ... . . . . .. . . ... . . ......... . . ....... .. ... . . .... .. . .. ..... . . . .... . .... .. .. ....... . . . . . ..
lowQualScore : 5 5 55 1 7 2 1 444 000 9 9 6 0 99 9 4 222 8 1 555555555 1 9 3333333 88 000 9 9 1111 99 9 99 77777 9 1 9 8888 6 9999 33 55 6666666 8 7 4 0 0 44
consensus : NAAGCCCGTTTTCCATGGCGCGTATTTTTGCTGTGCTGTTTTTT-CCCT-AAGCTACT-TTTTGTCGCGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTTTATAGAGGCACGTGCGTGGAAATA-CACATGTATTTATTGTGTAG-TGCC--C------ATCCAAAGTGAATTTCCACGCATTGTACATGCAGA-CAAGCG-------TAGAAAAA--TCGCC---T-ATACTGGCGACTTTT-GTCCGT----GCGGTTATTAGTCAGCGC--AG-AAAT--CTGCTCCG----ATGGAAACGAAAGTATGCTAG-ATAGTGTGAAGCGATTTTTACAA---AAGCAGCGCCTGTT----CTGCGCGT-ACAAACCCCTGCGATT-------TAGGCGCCGAA-ACCGT-CAG-AATAA--TACGCGCCATGGAAA
Reference ( gi|5 ) : AAAGCCCGTTTTCCGTGGCGCATATTTTTGCTGTGCTGTTTTTT-CCCT-AAGTTTCT-TTTTGTCGCGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATAATGTAGATTGACT--GAGCAGAGTTTATAGAGGCCCGTGCGTGGAAAAAACACATGTATTTATTATGTAG-TGCC--A------ATCCAAAGTGAATTTCCGCGCATTGTACATGCAGA-CAAGCG-------TAGAAAAA--TCGCC---T-ATACTGGCGACTTTT-GTCCGT----GCGGTTATTAGTCAGCGC--AG-AAAT--CTGCTCCG----GTGGAAACGAAAGTATGCTAG-ATAGCGTGAAGCGATTTTTATAT---AAGTAGCGCCTGTT----CTGCGCAT-CCAAACCCCTGCGATT-------TAGGTGCCGAA-ACCGT-CAG-AATAA--TACGCGCCATGGAAA
gi|3 : AAGTCCGTTTTACATGGCGCGTATTTTTGCTGTGCTGTTTTTT-CCCT-ACGCTACT-TTTTGTCGCCCA---GTATTAACAGGCGCACAGACAA---TCA-CTTTCCATGGTGCAGATTGTCT--GAGCAGAGTCTATAGAGGCACGTGCGTGGAAATA-CACATGTATATATTGTGTAG-TGCC--C------ATCCAAAGTGAATTTCCACGCATTGTACATGCAGA-CAAGCG-------TAGAAAAAAATCACC---G-ATAGTAGCGACTTTT-GTCCGT----GCGGTTATTATTCAGCGC--AA-AAAT--CTGCTCAT----ATGGAAACGAAAGTATGCCAG-ATAGTGTGAAACGATTTTTACAA---AAGCAGCGCCTGTT----CTGCGCAT-ACAAACCCCTTCGATT-------AAGGCACCGAA-ACCGT-CAG-AATAA--TACGTGCCA
gi|1 : AAGCCCGTTTTCCATGGCACGTATTTTTGCTGTGCTGTTTTTT-TTCTTAAGCTACG-TTTTGTCGCGCA---ATTTTAACAGGCGCACAGACAA---TCA-ATCTCCATGATGAAGATTGTCT--GAGCAGAGTTTATAAAGGCACGTGCGTGGAAATA-CACATGTATTCATTGTGTAG-TGCC--GGGTC--ATCCAAAGTGAATTTCCACGCATTGTAGATGCAGA-CAAGCG-------TACAAAAA--TCGCC---T-ATACTGGCGACTTTTTGTCCGT----GCGGTTATTAGTCAGCGC--AG-AAAT--CTGTTCCG----ATGAAAACGAAAGTATGCTAG-ATAGTGTGAAGCGAATTTTACAA---AAGCAGCGCCAGTT----CTGCGCAT-ACAAA-CCTTGCAATT-------TAGGCGCCGCA-ACCGT-CTG-AATAG--CACGCGCCAAGGAAAattgataaa
gi|9 : AAGCCAGTTTTCCATGGCGCGTTTTTTTGCTGTGCCGTTTTTT-CCGT-AAGCTATT-TTTTGTCGCACA---GTATTAACAGGCGAACAGACAA---TCA-GTTT-------GCAGATTGTCT--GAGCAGAGTTTATCGAGGCACGTGCGTGGAAATA-CACATGTATTTATTGTAAAGTTGCC---------ATCCAAAGTGAATTTCCACGCATTATACATGCAGA-CATGCG-------TAGAAAAA--TCGCT---T-ATACTGGCGACTTTT-GTCCGT----GCTGTTATAAGTCAGCGC--AG-AAAT--CTGCTCCG----ATGGAAACGAAAGTATGCTAG-GTAGTGTGAAGCGATTTTTACAA---AAGCAGCGCCTGTT----TTGCGCAT-ACAAACCCCTGCGATT-------TAGACGCCGAA-ACTGT-CAG-AATAA--TACGCGCCa
gi|10 : AAGCCCGTTTTCCATGGCGTGAAATTTTGCTGTGCTTTTTCCC-CCCT-AAGCTACT-TTTTGTCACACA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--GAACAGAGTTTATAGAGGCACGTGTATGG-AAATACACATGTATTTATTGTGTAG-TGCC--C------ATCTAAAGTGAATGTCCACGCATTGTATATGCAAG-CAAGCG-------AGGAAAAA--TCGTCGCGT-ATACTGGCGACTTTT-GTCCGT----GTGGTTATTAATCAGCGC--AGTTTAT--CTGCTCCG----ACGGAAACGGAAGTATGCTCG-ATAGTGTGAAGCAATTTTTACAA---AAGCAGCGCCTGTT----CTGTGCTT-ACAAACCCCTGCGATT-------TAGGCGCCTAA-
gi|2 : AGCCCGTTTTCCATGGCGCGTATTTTTGCTGTGCTGTTTTT--CCCT-AAGCTATA-TTTTGTCGTGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAG-TTGTCT--GAGCAGAGCTTATAGAGGCACGTGCGTGGAAATA-CACATGCATTTATTGTATAG-TGCCTAAGTGCCTATCTAAAGTGAATTTCTACGCATTGTACATGCAGA-CAAGCG-------TAGAAAA---TCGCC---T-ATACTGGCGACTTTT-GTCCGT----GCGGTTATTAGTCAGCGC--AG-AAAT--CTGCTCCG----ATGAAAAGGAAAGTATGTTGG-ATAGTGTGAAGCGATTTTTACAA---TAGCAGCGACTG-T----CTGCGCAT-ACAAACCCCTGCGATT-------TAGGCGCCGAA-ACCGT-CAG-AATAA--TACGCGCCATTGAAA
gi|7 : AGCCCGTTTTCCATGGCGCGTTTTTTTGCTCTGCTGTTATTT-CCCT-GAGCTACT-TTTTGTCGCGCA---GTATTAACATACGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTGTATATAGGCACGTGCGTGG-AAATACACATGTATTTATTGTGTAA-TGCC--A------ATCCAAGGTTAATTTCCACGCATTGTACATGCAGA-CAAGCG-------TAGAAAAA--TCGCC---T-ATACTGGCGACTTTT-GTCCGTCGCGGCGGTTATTTGTCAGCGC--CG-AAAT--CTGCTCCG----ATGGAAACGAAAAT-------------GTGAAGCGATTTTTACAA---AAGCAGCGCCTGTT----CTGCGCAT-ACAAACCCCGGCGATT-------TAGGCGCCGAA-ACCGT-CAG-AATAA--TACGCGCCATGGAAAaa
gi|8 : AGCACGTTTTCCATGGCACGTATTTTTGCTGTGCTGTATTTTACCCT-AAGCCACT-TTTTGTCGTGCA---GTATTAACAGGCGCACAAACAA---TTA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTTTTTAGAGGAACGTGCATGGAAGTA-CACATGTATTTATTGTGTAG-TGCC--C------ATCCAAAGTGAATTTCCACGCATTGTACATGCAGA-CAAGCG-------TAGAAAAA--TTGCC---T-ATACTAGTGACTTTT-GTCCGT----GCAGTTATTAGTCAACGC--AG-A--------------------GAAACGAAAGTATGCTAG-ATAGTGTGAAGCGATTTTTACAA---AAGCAGCGCCTGTT----CTGCGCAT-ACAAACCCCTGCAATT-------TAGGCGCCAAA-ACTGT-CAG-AATAAATTACGCGCTATTGAAAaa
gi|11 : AGCCCGTTTTCCACGGCTCGTAGGTTTACTGTGCTGATTTT--CCCT-AAGTTACT-TTTTGTAGCGAA---GTATTATCAGGCGCACAAAGAAGCATCA-ATTTCCATGATG---------------CAGA--TT------GTCTGAGC------AAATGACATGTATTTATTGTGTAG-TGCC--C------ATCTAAAGTGAATTTCCACTCATTGTACATGCAGA-TACGTG-------TAAAAAAAA-TCGCA---T-ATAC-----A--TTT-GTCCGT----GCGGTTATTAATCACCGC--AG-AAAT--TTGCTCCG----ATTGAAACGAAAGTATGCTAG-ATAGTGTGAAGCGATTTTTACAA---AAGCAGCGCCTGTT----CTACGCAT-ACAAACCCCTACGATT-------TAGGCGCCGAA-A-CGT-CAG-AATAA--TACGCGCCATGAAAA
gi|15 : CCCGCTTTCCGTGGTGCATCATTTTACTTTGATGATTTTT-CCAC-GTGTTACTGTTTTGCCGCAGATTTATACTAACA-----AC---CAA---GCATGTTTCTATAAAGCAGATTGTCTGAGAGCATAGTTTA
gi|13 : atCCGTTTTCCATGGCGCGTATTTTTGCTGTGCTGTTTTTT-CC-T-AAGCTCCT-TTTTGTCGCGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--TAGCAGAGTTTATAGAGGCACGTGCGT-GAAAATACACATGTATTTATTGTGCAG-TGCC--C------ATCCAAAGTGAATTT-----CATCGTACATGCAGA-CAAGCG-------TAGGAAAA--TCGCC---T-ATACTGGCGGCTTTT-GTCCAT----GCGGTTATTAATCAGCGC--AA-AAAT--CTgtgacgaaactgctttggaacccaaatacatattttgaacagtgtac
gi|6 : tGTTTTCCATGGCATATACATTTGCTGTGCTGTTTTT--CCCT-AAGCTACT-TTTTGTTGCGCA---GTATTAACAAGCGCACAGACAA---TCA-ATTTCCATCATGAAGATTGTCT--GAGCAGAGTTTATAGAGGCACTTGCATGGAAATA-CACATATATTTATTGTGTAA-TGCC--T------ATCCCAAGTGACTTTCCACGCATTTTACATGCAGA-CAAGCG-------TAGAAAAA--TCGCC---T-TTACTGGCTACTTTT-GTCCGT----GCGGTTACTAGTCAACGA--AG-AAAT--ATGCTCCA----ATGGAAACGAAAGTATAATAG-ATAGTGTGAAGGGATTTTTACAA---AAGCAGCACCTGTT----CTACGCAT-ACAAACCCCTGCGATA-------TAGGCAGCGAA-ACCGT-CAA-AATAA--TACACAACATGGAAA
gi|4 : gcatGCGTATTTTTGCTGTGCTGTTTTTT-CCCT-AAGCTACT-TTTTGTCGCACA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGGTGCAGATTGTCT--GAGCAGAGTTTATAGAGGCACGTGCGTGGAAATC-CACATCTATTTATTGTGTAG-TGCC--C------ATCCAAAGTGAGTTTCCCCGCACTGCACATGCAGA-CAAGCG-------TAGAAAAA--TCGCC---T-ATACTGGCGACTTTT-GTCCGT----GCGGTTATTAGTCAGTGC--AG-AAAT--CTGCTCCG----ATGGAAATGAAAGTATGCTAG-ATAGTGTGAAGCGATTTTTACAA---AAGCAGCACCTGTT----CTGCACAT-ACAAACCCCTGCGATT-------TAGGCACCGAT-TACGT-CAG-AATAA--TACGCGCTGTGAAAAaag
gi|17 : tttgccacggcgcgtacttttATATTTTTGCTGTGCTGTTTTTT-CCAT-AAGCTACT-TTTTGTCGCGCA---
gi|12 : GGTGCTCAGACAA---TTA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTTTATAGAGGCACTCGCGTGGAAATA-CACATGTATTTATTGTGTAG-TGCC--C------ATCCAAAGTGAATTTCCACACATTGTACATGCTGA-CAAGCG-------TAGAAAAA--TCGCC---T-TTACTGGCGACTTTT-GTCCAT----GCGGTTATTAGTCAGCGC--AG-TTAT--CTGCTCTG----ATGAAAACAAAAGTATGCTAG-ATAGTGAGAAGCGATTTATACAA---AAGCAGCGCCTGTT----CTGCGCAA-ACAAACCCCTGCGATT-------TAGGCATGGAA-ACCGT-CAG-AATAA--TACGCGCCATGGAAA
gi|1 : GCTCAGACAA---TC-----TTCATCATGGAGATTGATT--Gag
gi|14 : aagcccgttttccatggcacgtatttttgctgtgctgttttttttcttaagctacgttttgtcgcgcaattttaacaggcgcacagaAAAGAATACATCAACTTG--ATGTCG-T--C--A------TTC--ATGTGAATATTCACACATTGCACGTGCAGA-TAAGCG-------GAGAAAAT--TCACC---A-ACACTGGCGACTTT-------T----GCAATTATTAATCGGTGC--TG-AAAT--CTTCTGCGAGTTATGGCTACACCAGCATGCTAG-ATAGTGCGACGCGA-TTTTACATTAAAAGCAGCGCCAGTT----CTGCGTAGACCAAA-------GATTGACAAAATCTGCACAGGA-ACTGT-TGG-AATAA--TACGagagtttataaaggcacgtgcgtggaaatacacatgtattcattgtgtagtgccgggtcatccaaagtgaatttccacgcattgtagatgcagacaagcgtacaaaaatcgcctatactggcgactttttgtccgtgcggttattagtcagcgcagaaatctgttccgatgaaaacgaaagtatgctagatagtgtgaagcgaattttacaaaagcagcgccagttctgcgcatacaaaccttgcaatttaggcgccgcaaccgtctgaatagcacgcgccaaggaaaa
gi|7 : TAAATCGCCGGGGTTTGTATGCGCAGAACAGGCGCTGCTTTTGTAAAAA--TCGCT---TCACATTTTCG-TTTCC-ATCGGA----GCAG--ATT--TCGGCGCTGAC-AAATAACCGCCGCG----ACGGA--CAAAAGT-CGCCAGTATAG------GCGATTTTTCTA----------CGCTTG-T----CTGCATGT-ACAA
gi|16 : agcccgttttccatggcgcgtttttttgctctgctgttatttccctgagctactttttgtcgcgcagtattaacatacgcacagacaatcaatttccatgatgcagattgtctgagcagagtgtatataggcacgtgcgtggaaatacacatgtatttattgtgtaatgccaatccaaggttaatttccacgcaCG----ATGGAAACGAA-GTATGCTAG-ATAGTGTGAAGCGATTTTTGCAA---AAGCAGCACCTGCT----CTGCGCAT-ACAAACCCCTGCGATT-------TATGCGCCGAA-ACCGT-CAG-AATAA--TACGCGCCATGGAAAggcgccgaaaccgtcagaataatacgcgccatggaaaaa
gi|2 : GCGCCTGTTAATACTGCACGA-CAAAA----TATAGCT-------TAGGGA--AAA-ACAGCACAGCAAAAA--TACGCGCCATGGAAAa
gi|1 : agcccgtGCGCCTGTTAAAATTGCGCGA-CAAAAC----GTAGCT-------TAAGAAAAAAA-ACAGCACAGCAAAAA--TACGTGCCATGGAAAacagacaatcaatttccatgatgcagttgtctgagcagagcttatagaggcacgtgcgtggaaatacacatgcatttattgtatagtgcctaagtgcctatctaaagtgaatttctacgcattgtacatgcagacaagcgtagaaaatcgcctatactggcgacttttgtccgtgcggttattagtcagcgcagaaatctgctccgatgaaaaggaaagtatgttggatagtgtgaagcgatttttacaatagcagcgactgtctgcgcatacaaacccctgcgatttaggcgccgaaaccgtcagaataatacgcgccattgaaaaa
gi|8 : aagcccgtGCGCCTGTTAATACTGCACGA-CAAAAA----GTGGCT-------TAGG-GTAAAATACAGCACAGCAAAAA--TACGTGCCATGGAAAacagacaatcaatctccatgatgaagattgtctgagcagagtttataaaggcacgtgcgtggaaatacacatgtattcattgtgtagtgccgggtcatccaaagtgaatttccacgcattgtagatgcagacaagcgtacaaaaatcgcctatactggcgactttttgtccgtgcggttattagtcagcgcagaaatctgttccgatgaaaacgaaagtatgctagatagtgtgaagcgaattttacaaaagcagcgccagttctgcgcatacaaaccttgcaatttaggcgccgcaaccgtctgaatagcacgcgccaaggaaaa
gi|13 : agcacgtGCGCCTGTTAATACTGCGCGA-CAAAAA----GGAGCT-------TAGGAA--AAA-ACAGCACAGCAAAAA--TACGCGCCATGGAAAacaaacaattaatttccatgatgcagattgtctgagcagagtttttagaggaacgtgcatggaagtacacatgtatttattgtgtagtgcccatccaaagtgaatttccacgcattgtacatgcagacaagcgtagaaaaattgcctatactagtgacttttgtccgtgcagttattagtcaacgcagagaaacgaaagtatgctagatagtgtgaagcgatttttacaaaagcagcgcctgttctgcgcatacaaacccctgcaatttaggcgccaaaactgtcagaataaattacgcgctattgaaa
Alignments
lowQualScore : 11111111
lowQualScore : 2 2 2 555 555 2 33 3 6666 11111111 33 2 555 2 6666 2 6666 555 6 2 33 44
lowQualScore : . . . ... ... . .. . .... ........ .. . ... . .... . .... ... . . .. ..
lowQualScore : 9 9 9 000 000 9 99 1 5555 22222222 99 9 000 9 1111 9 1111 000 6 9 99 22
consensus : NAAGCCCGTTTTCCATGGCGCGTATTTTTGCTGTGCTGTTTTTT-CCCT-AAGCTACT-TTTTGTCGCGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTTTATAGAGGCACGTGCGTGGAAATA-CACATGTATTTATTGTGTAGTGCC----CA--------TCCAAAGTGAATTTCCACGCATTGTACATGCAGACAAGCGTAG--AAAAA-TCGCC---TATACTGGCGAC-TTTTGTCCGT----GCGGTTATTAGTCAGCGCAG-AAATCTGCTCCG----ATGGAAACGAAAGTATGCTAGATAGTGTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTCTGCGCATACAAACCCCTG-C--GATTTAGGCGCCGAAACCGTCAGAATAA--TACGCGCCATGGAAA
Reference ( family-3467 ) : NAAGCCCGTTTTCCATGGCGCGTATTTTTGCTGTGCTGTTTTTT-CCCT-AAGCTACT-TTTTGTCGCGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTTTATAGAGGCACGTGCGTGGAAATA-CACATGTATTTATTGTGTAGTGCC----CA--------TCCAAAGTGAATTTCCACGCATTGTACATGCAGACAAGCGTAG--AAAAA-TCGCC---TATACTGGCGAC-TTTTGTCCGT----GCGGTTATTAGTCAGCGCAG-AAATCTGCTCCG----ATGGAAACGAAAGTATGCTAGATAGTGTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTCTGCGCGTACAAACCCCTG-C--GATTTAGGCGCCGAAACCGTCAGAATAA--TACGCGCCATGGAAA
gi|1 : AAGCCCGTTTTCCATGGCACGTATTTTTGCTGTGCTGTTTTTT-TTCTTAAGCTACG-TTTTGTCGCGCA---ATTTTAACAGGCGCACAGACAA---TCA-ATCTCCATGATGAAGATTGTCT--GAGCAGAGTTTATAAAGGCACGTGCGTGGAAATA-CACATGTATTCATTGTGTAGTGCCGGGTCA--------TCCAAAGTGAATTTCCACGCATTGTAGATGCAGACAAGCGTAC--AAAAA-TCGCC---TATACTGGCGACTTTTTGTCCGT----GCGGTTATTAGTCAGCGCAG-AAATCTGTTCCG----ATGAAAACGAAAGTATGCTAGATAGTGTGAAGCGAATTTTAC---AAAAGCAGCGCCAGTTCTGCGCATACAAA-CCTTG-C--AATTTAGGCGCCGCAACCGTCTGAATAG--CACGCGCCAAGGAAA
gi|10 : AAGCCCGTTTTCCATGGCGTGAAATTTTGCTGTGCTTTTTCCC-CCCT-AAGCTACT-TTTTGTCACACA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--GAACAGAGTTTATAGAGGCACGTGTATGGAAATA-CACATGTATTTATTGTGTAGTGCC----CA--------TCTAAAGTGAATGTCCACGCATTGTATATGCAAGCAAGCGAGG--AAAAA-TCGTCGCGTATACTGGCGAC-TTTTGTCCGT----GTGGTTATTAATCAGCGCAGTTTATCTGCTCCG----ACGGAAACGGAAGTATGCTCGATAGTGTGAAGCAATTTTTAC---AAAAGCAGCGCCTGTTCTGTGCTTACAAACCCCTG-C--GATTTAGGCGCCTAAa
gi|11 : AGCCCGTTTTCCACGGCTCGTAGGTTTACTGTGCTGATTTT--CCCT-AAGTTACT-TTTTGTAGCGAA---GTATTATCAGGCGCACAAAGAAGCATCA-ATTTCCATGATGCAGATTGTCT--GAGCA-------------------------AATG--ACATGTATTTATTGTGTAGTGCC----CA--------TCTAAAGTGAATTTCCACTCATTGTACATGCAGATACGTGTAA--AAAAAATCGCA---TATAC-----A---TTTGTCCGT----GCGGTTATTAATCACCGCAG-AAATTTGCTCCG----ATTGAAACGAAAGTATGCTAGATAGTGTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTCTACGCATACAAACCCCTA-C--GATTTAGGCGCCGAAA-CGTCAGAATAA--TACGCGCCATGAAAA
gi|12 : GGTGCTCAGACAA---TTA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTTTATAGAGGCACTCGCGTGGAAATA-CACATGTATTTATTGTGTAGTGCC----CA--------TCCAAAGTGAATTTCCACACATTGTACATGCTGACAAGCGTAG--AAAAA-TCGCC---TTTACTGGCGAC-TTTTGTCCAT----GCGGTTATTAGTCAGCGCAG-TTATCTGCTCTG----ATGAAAACAAAAGTATGCTAGATAGTGAGAAGCGATTTATAC---AAAAGCAGCGCCTGTTCTGCGCAAACAAACCCCTG-C--GATTTAGGCATGGAAACCGTCAGAATAA--TACGCGCCATGGAAA
gi|13 : CCGTTTTCCATGGCGCGTATTTTTGCTGTGCTGTTTTTT-CC-T-AAGCTCCT-TTTTGTCGCGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--TAGCAGAGTTTATAGAGGCACGTGCGTGAAAATA-CACATGTATTTATTGTGCAGTGCC----CA--------TCCAAAGTGAATTT-----CATCGTACATGCAGACAAGCGTAG--GAAAA-TCGCC---TATACTGGCGGC-TTTTGTCCAT----GCGGTTATTAATCAGCGCAA-AAATCTag
gi|14 : tGTGAATATTCACACATTGCACGTGCAGATAAGCGGAG--AAAAT-TCACC---AACACTGGCGAC-TTT------T----GCAATTATTAATCGGTGCTG-AAATCTTCTGCGAGTTATGGCTACACCAGCATGCTAGATAGTGCGACGCGA-TTTTACATTAAAAGCAGCGCCAGTTCTGCGTAGACCAAAGATTGACAAAATCT--GCACAGGAACTGTTGGAATAA--TACG
gi|15 : aaagaatacatcaacttgatgtcgtcattcatCCCGCTTTCCGTGGTGCATCATTTTACTTTGATGATTTTT-CCAC-GTGTTACTGTTTTGCCGCAGATTTATACTAACA-----AC---CAA---GCATGTTTCTATAAAGCAGATTGTCTGAGAGCATAGTTTA
gi|16 : atCG----ATGGAAACGAA-GTATGCTAGATAGTGTGAAGCGATTTTTGC---AAAAGCAGCACCTGCTCTGCGCATACAAACCCCTG-C--GATTTATGCGCCGAAACCGTCAGAATAA--TACGCGCCATGGAAAgtgacgaaactgctttggaacccaaatacatattttgaacagtgtac
gi|17 : TATTTTTGCTGTGCTGTTTTTT-CCAT-AAGCTACT-TTTTGTCGCGCA---a
gi|2 : aAGCCCGTTTTCCATGGCGCGTATTTTTGCTGTGCTGTTTTT--CCCT-AAGCTATA-TTTTGTCGTGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAG-TTGTCT--GAGCAGAGCTTATAGAGGCACGTGCGTGGAAATA-CACATGCATTTATTGTATAGTGCC----TAAGTGCCTATCTAAAGTGAATTTCTACGCATTGTACATGCAGACAAGCGTAG--AAAA--TCGCC---TATACTGGCGAC-TTTTGTCCGT----GCGGTTATTAGTCAGCGCAG-AAATCTGCTCCG----ATGAAAAGGAAAGTATGTTGGATAGTGTGAAGCGATTTTTAC---AATAGCAGCGACTG-TCTGCGCATACAAACCCCTG-C--GATTTAGGCGCCGAAACCGTCAGAATAA--TACGCGCCATTGAAA
gi|3 : AAGTCCGTTTTACATGGCGCGTATTTTTGCTGTGCTGTTTTTT-CCCT-ACGCTACT-TTTTGTCGCCCA---GTATTAACAGGCGCACAGACAA---TCA-CTTTCCATGGTGCAGATTGTCT--GAGCAGAGTCTATAGAGGCACGTGCGTGGAAATA-CACATGTATATATTGTGTAGTGCC----CA--------TCCAAAGTGAATTTCCACGCATTGTACATGCAGACAAGCGTAGAAAAAAA-TCACC---GATAGTAGCGAC-TTTTGTCCGT----GCGGTTATTATTCAGCGCAA-AAATCTGCTCAT----ATGGAAACGAAAGTATGCCAGATAGTGTGAAACGATTTTTAC---AAAAGCAGCGCCTGTTCTGCGCATACAAACCCCTT-C--GATTAAGGCACCGAAACCGTCAGAATAA--TACGTGCCAaa
gi|4 : GCGTATTTTTGCTGTGCTGTTTTTT-CCCT-AAGCTACT-TTTTGTCGCACA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGGTGCAGATTGTCT--GAGCAGAGTTTATAGAGGCACGTGCGTGGAAATC-CACATCTATTTATTGTGTAGTGCC----CA--------TCCAAAGTGAGTTTCCCCGCACTGCACATGCAGACAAGCGTAG--AAAAA-TCGCC---TATACTGGCGAC-TTTTGTCCGT----GCGGTTATTAGTCAGTGCAG-AAATCTGCTCCG----ATGGAAATGAAAGTATGCTAGATAGTGTGAAGCGATTTTTAC---AAAAGCAGCACCTGTTCTGCACATACAAACCCCTG-C--GATTTAGGCACCGATTACGTCAGAATAA--TACGCGCTGTGAAAAattgataaa
gi|5 : tttgccacggcgcgtacttttAAGCCCGTTTTCCGTGGCGCATATTTTTGCTGTGCTGTTTTTT-CCCT-AAGTTTCT-TTTTGTCGCGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATAATGTAGATTGACT--GAGCAGAGTTTATAGAGGCCCGTGCGTGGAAAAAACACATGTATTTATTATGTAGTGCC----AA--------TCCAAAGTGAATTTCCGCGCATTGTACATGCAGACAAGCGTAG--AAAAA-TCGCC---TATACTGGCGAC-TTTTGTCCGT----GCGGTTATTAGTCAGCGCAG-AAATCTGCTCCG----GTGGAAACGAAAGTATGCTAGATAGCGTGAAGCGATTTTTAT---ATAAGTAGCGCCTGTTCTGCGCATCCAAACCCCTG-C--GATTTAGGTGCCGAAACCGTCAGAATAA--TACGCGCCATGGAAA
gi|6 : aGTTTTCCATGGCATATACATTTGCTGTGCTGTTTT-T-CCCT-AAGCTACT-TTTTGTTGCGCA---GTATTAACAAGCGCACAGACAA---TCA-ATTTCCATCATGAAGATTGTCT--GAGCAGAGTTTATAGAGGCACTTGCATGGAAATA-CACATATATTTATTGTGTAATGCC----TA--------TCCCAAGTGACTTTCCACGCATTTTACATGCAGACAAGCGTAG--AAAAA-TCGCC---TTTACTGGCTAC-TTTTGTCCGT----GCGGTTACTAGTCAACGAAG-AAATATGCTCCA----ATGGAAACGAAAGTATAATAGATAGTGTGAAGGGATTTTTAC---AAAAGCAGCACCTGTTCTACGCATACAAACCCCTG-C--GATATAGGCAGCGAAACCGTCAAAATAA--TACACAACATGGAAA
gi|7 : gcatAGCCCGTTTTCCATGGCGCGTTTTTTTGCTCTGCTGTTATTT-CCCT-GAGCTACT-TTTTGTCGCGCA---GTATTAACATACGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTGTATATAGGCACGTGCGTGGAAATA-CACATGTATTTATTGTGTAATGCC----AA--------TCCAAGGTTAATTTCCACGCATTGTACATGCAGACAAGCGTAG--AAAAA-TCGCC---TATACTGGCGAC-TTTTGTCCGTCGCGGCGGTTATTTGTCAGCGCCG-AAATCTGCTCCG----ATGGAAACGAAAAT------------GTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTCTGCGCATACAAACCCCGG-C--GATTTAGGCGCCGAAACCGTCAGAATAA--TACGCGCCATGGAAAaag
gi|8 : AGCACGTTTTCCATGGCACGTATTTTTGCTGTGCTGTATTTTACCCT-AAGCCACT-TTTTGTCGTGCA---GTATTAACAGGCGCACAAACAA---TTA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTTTTTAGAGGAACGTGCATGGAAGTA-CACATGTATTTATTGTGTAGTGCC----CA--------TCCAAAGTGAATTTCCACGCATTGTACATGCAGACAAGCGTAG--AAAAA-TTGCC---TATACTAGTGAC-TTTTGTCCGT----GCAGTTATTAGTCAACGCAG-A------------------GAAACGAAAGTATGCTAGATAGTGTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTCTGCGCATACAAACCCCTG-C--AATTTAGGCGCCAAAACTGTCAGAATAAATTACGCGCTATTGAAAaa
gi|9 : AAGCCAGTTTTCCATGGCGCGTTTTTTTGCTGTGCCGTTTTTT-CCGT-AAGCTATT-TTTTGTCGCACA---GTATTAACAGGCGAACAGACAA---TCA-GTTT-------GCAGATTGTCT--GAGCAGAGTTTATCGAGGCACGTGCGTGGAAATA-CACATGTATTTATTGTAAAGTTGC----CA--------TCCAAAGTGAATTTCCACGCATTATACATGCAGACATGCGTAG--AAAAA-TCGCT---TATACTGGCGAC-TTTTGTCCGT----GCTGTTATAAGTCAGCGCAG-AAATCTGCTCCG----ATGGAAACGAAAGTATGCTAGGTAGTGTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTTTGCGCATACAAACCCCTG-C--GATTTAGACGCCGAAACTGTCAGAATAA--TACGCGCC
Alignments
lowQualScore : 11111111
lowQualScore : 2 2 2 555 555 2 33 3 6666 11111111 33 2 555 2 6666 2 6666 555 2 33 44
lowQualScore : . . . ... ... . .. . .... ........ .. . ... . .... . .... ... . .. ..
lowQualScore : 9 9 9 000 000 9 99 1 5555 22222222 99 9 000 9 1111 9 1111 000 9 99 22
consensus : NAAGCCCGTTTTCCATGGCGCGTATTTTTGCTGTGCTGTTTTTT-CCCT-AAGCTACT-TTTTGTCGCGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTTTATAGAGGCACGTGCGTGGAAATA-CACATGTATTTATTGTGTAGTGCC----CA--------TCCAAAGTGAATTTCCACGCATTGTACATGCAGACAAGCGTAG--AAAAA-TCGCC---TATACTGGCGAC-TTTTGTCCGT----GCGGTTATTAGTCAGCGCAG-AAATCTGCTCCG----ATGGAAACGAAAGTATGCTAGATAGTGTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTCTGCGCATACAAACCCCTG-C--GATTTAGGCGCCGAAACCGTCAGAATAA--TACGCGCCATGGAAA
Reference ( family-3467 ) : NAAGCCCGTTTTCCATGGCGCGTATTTTTGCTGTGCTGTTTTTT-CCCT-AAGCTACT-TTTTGTCGCGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTTTATAGAGGCACGTGCGTGGAAATA-CACATGTATTTATTGTGTAGTGCC----CA--------TCCAAAGTGAATTTCCACGCATTGTACATGCAGACAAGCGTAG--AAAAA-TCGCC---TATACTGGCGAC-TTTTGTCCGT----GCGGTTATTAGTCAGCGCAG-AAATCTGCTCCG----ATGGAAACGAAAGTATGCTAGATAGTGTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTCTGCGCATACAAACCCCTG-C--GATTTAGGCGCCGAAACCGTCAGAATAA--TACGCGCCATGGAAA
gi|1 : AAGCCCGTTTTCCATGGCACGTATTTTTGCTGTGCTGTTTTTT-TTCTTAAGCTACG-TTTTGTCGCGCA---ATTTTAACAGGCGCACAGACAA---TCA-ATCTCCATGATGAAGATTGTCT--GAGCAGAGTTTATAAAGGCACGTGCGTGGAAATA-CACATGTATTCATTGTGTAGTGCCGGGTCA--------TCCAAAGTGAATTTCCACGCATTGTAGATGCAGACAAGCGTAC--AAAAA-TCGCC---TATACTGGCGACTTTTTGTCCGT----GCGGTTATTAGTCAGCGCAG-AAATCTGTTCCG----ATGAAAACGAAAGTATGCTAGATAGTGTGAAGCGAATTTTAC---AAAAGCAGCGCCAGTTCTGCGCATACAAA-CCTTG-C--AATTTAGGCGCCGCAACCGTCTGAATAG--CACGCGCCAAGGAAA
gi|10 : AAGCCCGTTTTCCATGGCGTGAAATTTTGCTGTGCTTTTTCCC-CCCT-AAGCTACT-TTTTGTCACACA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--GAACAGAGTTTATAGAGGCACGTGTATGGAAATA-CACATGTATTTATTGTGTAGTGCC----CA--------TCTAAAGTGAATGTCCACGCATTGTATATGCAAGCAAGCGAGG--AAAAA-TCGTCGCGTATACTGGCGAC-TTTTGTCCGT----GTGGTTATTAATCAGCGCAGTTTATCTGCTCCG----ACGGAAACGGAAGTATGCTCGATAGTGTGAAGCAATTTTTAC---AAAAGCAGCGCCTGTTCTGTGCTTACAAACCCCTG-C--GATTTAGGCGCCTAAa
gi|11 : AGCCCGTTTTCCACGGCTCGTAGGTTTACTGTGCTGATTTT--CCCT-AAGTTACT-TTTTGTAGCGAA---GTATTATCAGGCGCACAAAGAAGCATCA-ATTTCCATGATGCAGATTGTCT--GAGCA-------------------------AATG--ACATGTATTTATTGTGTAGTGCC----CA--------TCTAAAGTGAATTTCCACTCATTGTACATGCAGATACGTGTAA--AAAAAATCGCA---TATAC-----A---TTTGTCCGT----GCGGTTATTAATCACCGCAG-AAATTTGCTCCG----ATTGAAACGAAAGTATGCTAGATAGTGTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTCTACGCATACAAACCCCTA-C--GATTTAGGCGCCGAAA-CGTCAGAATAA--TACGCGCCATGAAAA
gi|12 : GGTGCTCAGACAA---TTA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTTTATAGAGGCACTCGCGTGGAAATA-CACATGTATTTATTGTGTAGTGCC----CA--------TCCAAAGTGAATTTCCACACATTGTACATGCTGACAAGCGTAG--AAAAA-TCGCC---TTTACTGGCGAC-TTTTGTCCAT----GCGGTTATTAGTCAGCGCAG-TTATCTGCTCTG----ATGAAAACAAAAGTATGCTAGATAGTGAGAAGCGATTTATAC---AAAAGCAGCGCCTGTTCTGCGCAAACAAACCCCTG-C--GATTTAGGCATGGAAACCGTCAGAATAA--TACGCGCCATGGAAA
gi|13 : CCGTTTTCCATGGCGCGTATTTTTGCTGTGCTGTTTTTT-CC-T-AAGCTCCT-TTTTGTCGCGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--TAGCAGAGTTTATAGAGGCACGTGCGTGAAAATA-CACATGTATTTATTGTGCAGTGCC----CA--------TCCAAAGTGAATTT-----CATCGTACATGCAGACAAGCGTAG--GAAAA-TCGCC---TATACTGGCGGC-TTTTGTCCAT----GCGGTTATTAATCAGCGCAA-AAATCTag
gi|14 : tGTGAATATTCACACATTGCACGTGCAGATAAGCGGAG--AAAAT-TCACC---AACACTGGCGAC-TTT------T----GCAATTATTAATCGGTGCTG-AAATCTTCTGCGAGTTATGGCTACACCAGCATGCTAGATAGTGCGACGCGA-TTTTACATTAAAAGCAGCGCCAGTTCTGCGTAGACCAAAGATTGACAAAATCT--GCACAGGAACTGTTGGAATAA--TACG
gi|15 : aaagaatacatcaacttgatgtcgtcattcatCCCGCTTTCCGTGGTGCATCATTTTACTTTGATGATTTTT-CCAC-GTGTTACTGTTTTGCCGCAGATTTATACTAACA-----AC---CAA---GCATGTTTCTATAAAGCAGATTGTCTGAGAGCATAGTTTA
gi|16 : atCG----ATGGAAACGAA-GTATGCTAGATAGTGTGAAGCGATTTTTGC---AAAAGCAGCACCTGCTCTGCGCATACAAACCCCTG-C--GATTTATGCGCCGAAACCGTCAGAATAA--TACGCGCCATGGAAAgtgacgaaactgctttggaacccaaatacatattttgaacagtgtac
gi|17 : TATTTTTGCTGTGCTGTTTTTT-CCAT-AAGCTACT-TTTTGTCGCGCA---a
gi|2 : aAGCCCGTTTTCCATGGCGCGTATTTTTGCTGTGCTGTTTTT--CCCT-AAGCTATA-TTTTGTCGTGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAG-TTGTCT--GAGCAGAGCTTATAGAGGCACGTGCGTGGAAATA-CACATGCATTTATTGTATAGTGCC----TAAGTGCCTATCTAAAGTGAATTTCTACGCATTGTACATGCAGACAAGCGTAG--AAAA--TCGCC---TATACTGGCGAC-TTTTGTCCGT----GCGGTTATTAGTCAGCGCAG-AAATCTGCTCCG----ATGAAAAGGAAAGTATGTTGGATAGTGTGAAGCGATTTTTAC---AATAGCAGCGACTG-TCTGCGCATACAAACCCCTG-C--GATTTAGGCGCCGAAACCGTCAGAATAA--TACGCGCCATTGAAA
gi|3 : AAGTCCGTTTTACATGGCGCGTATTTTTGCTGTGCTGTTTTTT-CCCT-ACGCTACT-TTTTGTCGCCCA---GTATTAACAGGCGCACAGACAA---TCA-CTTTCCATGGTGCAGATTGTCT--GAGCAGAGTCTATAGAGGCACGTGCGTGGAAATA-CACATGTATATATTGTGTAGTGCC----CA--------TCCAAAGTGAATTTCCACGCATTGTACATGCAGACAAGCGTAGAAAAAAA-TCACC---GATAGTAGCGAC-TTTTGTCCGT----GCGGTTATTATTCAGCGCAA-AAATCTGCTCAT----ATGGAAACGAAAGTATGCCAGATAGTGTGAAACGATTTTTAC---AAAAGCAGCGCCTGTTCTGCGCATACAAACCCCTT-C--GATTAAGGCACCGAAACCGTCAGAATAA--TACGTGCCAaa
gi|4 : GCGTATTTTTGCTGTGCTGTTTTTT-CCCT-AAGCTACT-TTTTGTCGCACA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGGTGCAGATTGTCT--GAGCAGAGTTTATAGAGGCACGTGCGTGGAAATC-CACATCTATTTATTGTGTAGTGCC----CA--------TCCAAAGTGAGTTTCCCCGCACTGCACATGCAGACAAGCGTAG--AAAAA-TCGCC---TATACTGGCGAC-TTTTGTCCGT----GCGGTTATTAGTCAGTGCAG-AAATCTGCTCCG----ATGGAAATGAAAGTATGCTAGATAGTGTGAAGCGATTTTTAC---AAAAGCAGCACCTGTTCTGCACATACAAACCCCTG-C--GATTTAGGCACCGATTACGTCAGAATAA--TACGCGCTGTGAAAAattgataaa
gi|5 : tttgccacggcgcgtacttttAAGCCCGTTTTCCGTGGCGCATATTTTTGCTGTGCTGTTTTTT-CCCT-AAGTTTCT-TTTTGTCGCGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATAATGTAGATTGACT--GAGCAGAGTTTATAGAGGCCCGTGCGTGGAAAAAACACATGTATTTATTATGTAGTGCC----AA--------TCCAAAGTGAATTTCCGCGCATTGTACATGCAGACAAGCGTAG--AAAAA-TCGCC---TATACTGGCGAC-TTTTGTCCGT----GCGGTTATTAGTCAGCGCAG-AAATCTGCTCCG----GTGGAAACGAAAGTATGCTAGATAGCGTGAAGCGATTTTTAT---ATAAGTAGCGCCTGTTCTGCGCATCCAAACCCCTG-C--GATTTAGGTGCCGAAACCGTCAGAATAA--TACGCGCCATGGAAA
gi|6 : aGTTTTCCATGGCATATACATTTGCTGTGCTGTTTT-T-CCCT-AAGCTACT-TTTTGTTGCGCA---GTATTAACAAGCGCACAGACAA---TCA-ATTTCCATCATGAAGATTGTCT--GAGCAGAGTTTATAGAGGCACTTGCATGGAAATA-CACATATATTTATTGTGTAATGCC----TA--------TCCCAAGTGACTTTCCACGCATTTTACATGCAGACAAGCGTAG--AAAAA-TCGCC---TTTACTGGCTAC-TTTTGTCCGT----GCGGTTACTAGTCAACGAAG-AAATATGCTCCA----ATGGAAACGAAAGTATAATAGATAGTGTGAAGGGATTTTTAC---AAAAGCAGCACCTGTTCTACGCATACAAACCCCTG-C--GATATAGGCAGCGAAACCGTCAAAATAA--TACACAACATGGAAA
gi|7 : gcatAGCCCGTTTTCCATGGCGCGTTTTTTTGCTCTGCTGTTATTT-CCCT-GAGCTACT-TTTTGTCGCGCA---GTATTAACATACGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTGTATATAGGCACGTGCGTGGAAATA-CACATGTATTTATTGTGTAATGCC----AA--------TCCAAGGTTAATTTCCACGCATTGTACATGCAGACAAGCGTAG--AAAAA-TCGCC---TATACTGGCGAC-TTTTGTCCGTCGCGGCGGTTATTTGTCAGCGCCG-AAATCTGCTCCG----ATGGAAACGAAAAT------------GTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTCTGCGCATACAAACCCCGG-C--GATTTAGGCGCCGAAACCGTCAGAATAA--TACGCGCCATGGAAAaag
gi|8 : AGCACGTTTTCCATGGCACGTATTTTTGCTGTGCTGTATTTTACCCT-AAGCCACT-TTTTGTCGTGCA---GTATTAACAGGCGCACAAACAA---TTA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTTTTTAGAGGAACGTGCATGGAAGTA-CACATGTATTTATTGTGTAGTGCC----CA--------TCCAAAGTGAATTTCCACGCATTGTACATGCAGACAAGCGTAG--AAAAA-TTGCC---TATACTAGTGAC-TTTTGTCCGT----GCAGTTATTAGTCAACGCAG-A------------------GAAACGAAAGTATGCTAGATAGTGTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTCTGCGCATACAAACCCCTG-C--AATTTAGGCGCCAAAACTGTCAGAATAAATTACGCGCTATTGAAAaa
gi|9 : AAGCCAGTTTTCCATGGCGCGTTTTTTTGCTGTGCCGTTTTTT-CCGT-AAGCTATT-TTTTGTCGCACA---GTATTAACAGGCGAACAGACAA---TCA-GTTT-------GCAGATTGTCT--GAGCAGAGTTTATCGAGGCACGTGCGTGGAAATA-CACATGTATTTATTGTAAAGTTGC----CA--------TCCAAAGTGAATTTCCACGCATTATACATGCAGACATGCGTAG--AAAAA-TCGCT---TATACTGGCGAC-TTTTGTCCGT----GCTGTTATAAGTCAGCGCAG-AAATCTGCTCCG----ATGGAAACGAAAGTATGCTAGGTAGTGTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTTTGCGCATACAAACCCCTG-C--GATTTAGACGCCGAAACTGTCAGAATAA--TACGCGCC
blockSeqs : A . G TTT GCA T GA A . AGTGCCTA AA A GCG . CGCG T AGTT ATT A AA AT
blockSeqs : . . . . . . . . . . . . . . . . . . . . .
blockSeqs : . . . . . . . . . . . . . . . . . . . . .
blockSeqs : . . . . . . . . . . . . . . . . . . . . .
blockSeqs : . . . . . . . . . . . . . . . . . . . . .
blockSeqs : . . . . . . . . . . . . . . . . . . . . .
blockSeqs : . . . . . . . . . . . . . . . . . . . . .
blockSeqs : . . . . . . . . . . . . . . . . . . . . .
blockSeqs : . . . . . . . . . . . . . . . . . . . . .
blockSeqs : . . . . . . . . . . . . . . . . . . . . .
blockSeqs : . . . . . . . . . . . . . . . . . . . . .
blockSeqs : . . . . . . . . . . . . . . . . . . . . .
blockSeqs : . . . . . . . . . . . . . . . . .
blockSeqCons : ****
originalCons : NAAGCCCGTTTTCCATGGCGCGTATTTTTGCTGTGCTGTTTTTT-CCCT-AAGCTACT-TTTTGTCGCGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTTTATAGAGGCACGTGCGTGGAAATA-CACATGTATTTATTGTGTAGTGCC----CA--------TCCAAAGTGAATTTCCACGCATTGTACATGCAGACAAGCGTAG--AAAAA-TCGCC---TATACTGGCGAC-TTTTGTCCGT----GCGGTTATTAGTCAGCGCAG-AAATCTGCTCCG----ATGGAAACGAAAGTATGCTAGATAGTGTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTCTGCGCATACAAACCCCTG-C--GATTTAGGCGCCGAAACCGTCAGAATAA--TACGCGCCATGGAAA
finalCons : NAAGCCCGTTTTCCATGGCGCGTATTTTTGCTGTGCTGTTTTTT-CCCT-AAGCTACT-TTTTGTCGCGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTTTATAGAGGCACGTGCGTGGAAATA-CACATGTATTTATTGTGTAGTGCC----CA--------TCCAAAGTGAATTTCCACGCATTGTACATGCAGACAAGCGTAG--AAAAA-TCGCC---TATACTGGCGAC-TTTTGTCCGT----GCGGTTATTAGTCAGCGCAG-AAATCTGCTCCG----ATGGAAACGAAAGTATGCTAGATAGTGTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTCTGCGCATACAAACCCCTG-C--GATTTAGGCGCCGAAACCGTCAGAATAA--TACGCGCCATGGAAA
Alignments
lowQualScore : 11111111
lowQualScore : 2 2 2 555 555 2 33 3 6666 11111111 33 2 555 2 6666 2 6666 555 2 33 44
lowQualScore : . . . ... ... . .. . .... ........ .. . ... . .... . .... ... . .. ..
lowQualScore : 9 9 9 000 000 9 99 1 5555 22222222 99 9 000 9 1111 9 1111 000 9 99 22
consensus : NAAGCCCGTTTTCCATGGCGCGTATTTTTGCTGTGCTGTTTTTT-CCCT-AAGCTACT-TTTTGTCGCGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTTTATAGAGGCACGTGCGTGGAAATA-CACATGTATTTATTGTGTAGTGCC----CA--------TCCAAAGTGAATTTCCACGCATTGTACATGCAGACAAGCGTAG--AAAAA-TCGCC---TATACTGGCGAC-TTTTGTCCGT----GCGGTTATTAGTCAGCGCAG-AAATCTGCTCCG----ATGGAAACGAAAGTATGCTAGATAGTGTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTCTGCGCATACAAACCCCTG-C--GATTTAGGCGCCGAAACCGTCAGAATAA--TACGCGCCATGGAAA
Reference ( family-3467 ) : NAAGCCCGTTTTCCATGGCGCGTATTTTTGCTGTGCTGTTTTTT-CCCT-AAGCTACT-TTTTGTCGCGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTTTATAGAGGCACGTGCGTGGAAATA-CACATGTATTTATTGTGTAGTGCC----CA--------TCCAAAGTGAATTTCCACGCATTGTACATGCAGACAAGCGTAG--AAAAA-TCGCC---TATACTGGCGAC-TTTTGTCCGT----GCGGTTATTAGTCAGCGCAG-AAATCTGCTCCG----ATGGAAACGAAAGTATGCTAGATAGTGTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTCTGCGCATACAAACCCCTG-C--GATTTAGGCGCCGAAACCGTCAGAATAA--TACGCGCCATGGAAA
gi|1 : AAGCCCGTTTTCCATGGCACGTATTTTTGCTGTGCTGTTTTTT-TTCTTAAGCTACG-TTTTGTCGCGCA---ATTTTAACAGGCGCACAGACAA---TCA-ATCTCCATGATGAAGATTGTCT--GAGCAGAGTTTATAAAGGCACGTGCGTGGAAATA-CACATGTATTCATTGTGTAGTGCCGGGTCA--------TCCAAAGTGAATTTCCACGCATTGTAGATGCAGACAAGCGTAC--AAAAA-TCGCC---TATACTGGCGACTTTTTGTCCGT----GCGGTTATTAGTCAGCGCAG-AAATCTGTTCCG----ATGAAAACGAAAGTATGCTAGATAGTGTGAAGCGAATTTTAC---AAAAGCAGCGCCAGTTCTGCGCATACAAA-CCTTG-C--AATTTAGGCGCCGCAACCGTCTGAATAG--CACGCGCCAAGGAAA
gi|10 : AAGCCCGTTTTCCATGGCGTGAAATTTTGCTGTGCTTTTTCCC-CCCT-AAGCTACT-TTTTGTCACACA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--GAACAGAGTTTATAGAGGCACGTGTATGGAAATA-CACATGTATTTATTGTGTAGTGCC----CA--------TCTAAAGTGAATGTCCACGCATTGTATATGCAAGCAAGCGAGG--AAAAA-TCGTCGCGTATACTGGCGAC-TTTTGTCCGT----GTGGTTATTAATCAGCGCAGTTTATCTGCTCCG----ACGGAAACGGAAGTATGCTCGATAGTGTGAAGCAATTTTTAC---AAAAGCAGCGCCTGTTCTGTGCTTACAAACCCCTG-C--GATTTAGGCGCCTAAa
gi|11 : AGCCCGTTTTCCACGGCTCGTAGGTTTACTGTGCTGATTTT--CCCT-AAGTTACT-TTTTGTAGCGAA---GTATTATCAGGCGCACAAAGAAGCATCA-ATTTCCATGATGCAGATTGTCT--GAGCA-------------------------AATG--ACATGTATTTATTGTGTAGTGCC----CA--------TCTAAAGTGAATTTCCACTCATTGTACATGCAGATACGTGTAA--AAAAAATCGCA---TATAC-----A---TTTGTCCGT----GCGGTTATTAATCACCGCAG-AAATTTGCTCCG----ATTGAAACGAAAGTATGCTAGATAGTGTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTCTACGCATACAAACCCCTA-C--GATTTAGGCGCCGAAA-CGTCAGAATAA--TACGCGCCATGAAAA
gi|12 : GGTGCTCAGACAA---TTA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTTTATAGAGGCACTCGCGTGGAAATA-CACATGTATTTATTGTGTAGTGCC----CA--------TCCAAAGTGAATTTCCACACATTGTACATGCTGACAAGCGTAG--AAAAA-TCGCC---TTTACTGGCGAC-TTTTGTCCAT----GCGGTTATTAGTCAGCGCAG-TTATCTGCTCTG----ATGAAAACAAAAGTATGCTAGATAGTGAGAAGCGATTTATAC---AAAAGCAGCGCCTGTTCTGCGCAAACAAACCCCTG-C--GATTTAGGCATGGAAACCGTCAGAATAA--TACGCGCCATGGAAA
gi|13 : CCGTTTTCCATGGCGCGTATTTTTGCTGTGCTGTTTTTT-CC-T-AAGCTCCT-TTTTGTCGCGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--TAGCAGAGTTTATAGAGGCACGTGCGTGAAAATA-CACATGTATTTATTGTGCAGTGCC----CA--------TCCAAAGTGAATTT-----CATCGTACATGCAGACAAGCGTAG--GAAAA-TCGCC---TATACTGGCGGC-TTTTGTCCAT----GCGGTTATTAATCAGCGCAA-AAATCTag
gi|14 : tGTGAATATTCACACATTGCACGTGCAGATAAGCGGAG--AAAAT-TCACC---AACACTGGCGAC-TTT------T----GCAATTATTAATCGGTGCTG-AAATCTTCTGCGAGTTATGGCTACACCAGCATGCTAGATAGTGCGACGCGA-TTTTACATTAAAAGCAGCGCCAGTTCTGCGTAGACCAAAGATTGACAAAATCT--GCACAGGAACTGTTGGAATAA--TACG
gi|15 : aaagaatacatcaacttgatgtcgtcattcatCCCGCTTTCCGTGGTGCATCATTTTACTTTGATGATTTTT-CCAC-GTGTTACTGTTTTGCCGCAGATTTATACTAACA-----AC---CAA---GCATGTTTCTATAAAGCAGATTGTCTGAGAGCATAGTTTA
gi|16 : atCG----ATGGAAACGAA-GTATGCTAGATAGTGTGAAGCGATTTTTGC---AAAAGCAGCACCTGCTCTGCGCATACAAACCCCTG-C--GATTTATGCGCCGAAACCGTCAGAATAA--TACGCGCCATGGAAAgtgacgaaactgctttggaacccaaatacatattttgaacagtgtac
gi|17 : TATTTTTGCTGTGCTGTTTTTT-CCAT-AAGCTACT-TTTTGTCGCGCA---a
gi|2 : aAGCCCGTTTTCCATGGCGCGTATTTTTGCTGTGCTGTTTTT--CCCT-AAGCTATA-TTTTGTCGTGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGATGCAG-TTGTCT--GAGCAGAGCTTATAGAGGCACGTGCGTGGAAATA-CACATGCATTTATTGTATAGTGCC----TAAGTGCCTATCTAAAGTGAATTTCTACGCATTGTACATGCAGACAAGCGTAG--AAAA--TCGCC---TATACTGGCGAC-TTTTGTCCGT----GCGGTTATTAGTCAGCGCAG-AAATCTGCTCCG----ATGAAAAGGAAAGTATGTTGGATAGTGTGAAGCGATTTTTAC---AATAGCAGCGACTG-TCTGCGCATACAAACCCCTG-C--GATTTAGGCGCCGAAACCGTCAGAATAA--TACGCGCCATTGAAA
gi|3 : AAGTCCGTTTTACATGGCGCGTATTTTTGCTGTGCTGTTTTTT-CCCT-ACGCTACT-TTTTGTCGCCCA---GTATTAACAGGCGCACAGACAA---TCA-CTTTCCATGGTGCAGATTGTCT--GAGCAGAGTCTATAGAGGCACGTGCGTGGAAATA-CACATGTATATATTGTGTAGTGCC----CA--------TCCAAAGTGAATTTCCACGCATTGTACATGCAGACAAGCGTAGAAAAAAA-TCACC---GATAGTAGCGAC-TTTTGTCCGT----GCGGTTATTATTCAGCGCAA-AAATCTGCTCAT----ATGGAAACGAAAGTATGCCAGATAGTGTGAAACGATTTTTAC---AAAAGCAGCGCCTGTTCTGCGCATACAAACCCCTT-C--GATTAAGGCACCGAAACCGTCAGAATAA--TACGTGCCAaa
gi|4 : GCGTATTTTTGCTGTGCTGTTTTTT-CCCT-AAGCTACT-TTTTGTCGCACA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATGGTGCAGATTGTCT--GAGCAGAGTTTATAGAGGCACGTGCGTGGAAATC-CACATCTATTTATTGTGTAGTGCC----CA--------TCCAAAGTGAGTTTCCCCGCACTGCACATGCAGACAAGCGTAG--AAAAA-TCGCC---TATACTGGCGAC-TTTTGTCCGT----GCGGTTATTAGTCAGTGCAG-AAATCTGCTCCG----ATGGAAATGAAAGTATGCTAGATAGTGTGAAGCGATTTTTAC---AAAAGCAGCACCTGTTCTGCACATACAAACCCCTG-C--GATTTAGGCACCGATTACGTCAGAATAA--TACGCGCTGTGAAAAattgataaa
gi|5 : tttgccacggcgcgtacttttAAGCCCGTTTTCCGTGGCGCATATTTTTGCTGTGCTGTTTTTT-CCCT-AAGTTTCT-TTTTGTCGCGCA---GTATTAACAGGCGCACAGACAA---TCA-ATTTCCATAATGTAGATTGACT--GAGCAGAGTTTATAGAGGCCCGTGCGTGGAAAAAACACATGTATTTATTATGTAGTGCC----AA--------TCCAAAGTGAATTTCCGCGCATTGTACATGCAGACAAGCGTAG--AAAAA-TCGCC---TATACTGGCGAC-TTTTGTCCGT----GCGGTTATTAGTCAGCGCAG-AAATCTGCTCCG----GTGGAAACGAAAGTATGCTAGATAGCGTGAAGCGATTTTTAT---ATAAGTAGCGCCTGTTCTGCGCATCCAAACCCCTG-C--GATTTAGGTGCCGAAACCGTCAGAATAA--TACGCGCCATGGAAA
gi|6 : aGTTTTCCATGGCATATACATTTGCTGTGCTGTTTT-T-CCCT-AAGCTACT-TTTTGTTGCGCA---GTATTAACAAGCGCACAGACAA---TCA-ATTTCCATCATGAAGATTGTCT--GAGCAGAGTTTATAGAGGCACTTGCATGGAAATA-CACATATATTTATTGTGTAATGCC----TA--------TCCCAAGTGACTTTCCACGCATTTTACATGCAGACAAGCGTAG--AAAAA-TCGCC---TTTACTGGCTAC-TTTTGTCCGT----GCGGTTACTAGTCAACGAAG-AAATATGCTCCA----ATGGAAACGAAAGTATAATAGATAGTGTGAAGGGATTTTTAC---AAAAGCAGCACCTGTTCTACGCATACAAACCCCTG-C--GATATAGGCAGCGAAACCGTCAAAATAA--TACACAACATGGAAA
gi|7 : gcatAGCCCGTTTTCCATGGCGCGTTTTTTTGCTCTGCTGTTATTT-CCCT-GAGCTACT-TTTTGTCGCGCA---GTATTAACATACGCACAGACAA---TCA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTGTATATAGGCACGTGCGTGGAAATA-CACATGTATTTATTGTGTAATGCC----AA--------TCCAAGGTTAATTTCCACGCATTGTACATGCAGACAAGCGTAG--AAAAA-TCGCC---TATACTGGCGAC-TTTTGTCCGTCGCGGCGGTTATTTGTCAGCGCCG-AAATCTGCTCCG----ATGGAAACGAAAAT------------GTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTCTGCGCATACAAACCCCGG-C--GATTTAGGCGCCGAAACCGTCAGAATAA--TACGCGCCATGGAAAaag
gi|8 : AGCACGTTTTCCATGGCACGTATTTTTGCTGTGCTGTATTTTACCCT-AAGCCACT-TTTTGTCGTGCA---GTATTAACAGGCGCACAAACAA---TTA-ATTTCCATGATGCAGATTGTCT--GAGCAGAGTTTTTAGAGGAACGTGCATGGAAGTA-CACATGTATTTATTGTGTAGTGCC----CA--------TCCAAAGTGAATTTCCACGCATTGTACATGCAGACAAGCGTAG--AAAAA-TTGCC---TATACTAGTGAC-TTTTGTCCGT----GCAGTTATTAGTCAACGCAG-A------------------GAAACGAAAGTATGCTAGATAGTGTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTCTGCGCATACAAACCCCTG-C--AATTTAGGCGCCAAAACTGTCAGAATAAATTACGCGCTATTGAAAaa
gi|9 : AAGCCAGTTTTCCATGGCGCGTTTTTTTGCTGTGCCGTTTTTT-CCGT-AAGCTATT-TTTTGTCGCACA---GTATTAACAGGCGAACAGACAA---TCA-GTTT-------GCAGATTGTCT--GAGCAGAGTTTATCGAGGCACGTGCGTGGAAATA-CACATGTATTTATTGTAAAGTTGC----CA--------TCCAAAGTGAATTTCCACGCATTATACATGCAGACATGCGTAG--AAAAA-TCGCT---TATACTGGCGAC-TTTTGTCCGT----GCTGTTATAAGTCAGCGCAG-AAATCTGCTCCG----ATGGAAACGAAAGTATGCTAGGTAGTGTGAAGCGATTTTTAC---AAAAGCAGCGCCTGTTTTGCGCATACAAACCCCTG-C--GATTTAGACGCCGAAACTGTCAGAATAA--TACGCGCC