lowQualScore : 11111 666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666 11111111111111111111111111111111 111111111111111111111111111111111111111111 111111111111111111111111111111111111111111111111111111111111111 1111111111111111111111111111111111111111111111111111111111111111111111111111111111
lowQualScore : 00000 4 55 4 555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555555 4 4 22 1 4 1 2 1111111 1 222222 33 1 1111 5555 333 22222 00000000000000000000000000000000 2222 2 1 777777777777777 1 4 111111 44 111111111111111111111111111111111111111111 111 888888888888 1 333333 11 4444444444444 22222 1 2 333333 1 11111 333 1 55555555555555555555555555 11111 2222 2222 1 5555 1111 55555555 1 22222 3333333 44444444 222 1 11 111 11111 111111 11 444444 2 111 22 444444444444444444444444444444444444444444444444444444444444444 2 1 1 4 9999999999 1 5555555555555555555555555555555555555555555555555555555555555555555555555555555555
lowQualScore : 00000 0 55 0 6 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999 0 2 0 77 3 0 0 2 6 3333333 0 333333 8 00 0 8 1 7777 4444 5 777 0 8 66666 66666666666666666666666666666666 6666 8 0 666666666666666 4 5 0 555555 9 2 88 222222222222222222222222222222222222222222 9 888 222222222222 5 222222 7 88 4444444444444 3 0 66666 3 0 0 5 333333 5 5 6 66666 888 88 6 88888888888888888888888888 22222 1111 2 5555 6 8 8 2222 8 5555 0 00000000 6 6 1 5 55555 5 7777777 5 22222222 0 5 1 333 777 3 5 11 8 0 666 7 77777 6 999999 11 999999 1 111 8 11 222222222222222222222222222222222222222222222222222222222222222 7 8 7 5 3 0 2222222222 3 2222222222222222222222222222222222222222222222222222222222222222222222222222222222 4
lowQualScore : ..... . .. . . ..................................................................................................................................................................... . . . .. . . . . . ....... . ...... . .. . . . .... .... . ... . . ..... ................................ .... . . ............... . . . ...... . . .. .......................................... . ... ............ . ...... . .. ............. . . ..... . . . . ...... . . . ..... ... .. . .......................... ..... .... . .... . . . .... . .... . ........ . . . . ..... . ....... . ........ . . . ... ... . . .. . . ... . ..... . ...... .. ...... . ... . .. ............................................................... . . . . . . .......... . .................................................................................. .
lowQualScore : 00000 0 00 0 0 000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000 0 5 0 55 0 5 0 0 7 3333333 0 000000 0 77 6 0 8 0000 2222 0 222 8 0 77777 00000000000000000000000000000000 7777 7 0 222222222222222 0 0 0 000000 8 5 88 222222222222222222222222222222222222222222 2 000 111111111111 0 777777 3 33 0000000000000 0 8 88888 2 6 4 0 333333 7 7 7 77777 555 33 7 77777777777777777777777777 88888 2222 5 8888 0 0 0 0000 0 4444 8 88888888 7 7 4 7 11111 7 4444444 7 99999999 1 7 0 333 777 2 5 66 0 8 777 5 55555 7 222222 00 000000 6 000 0 00 000000000000000000000000000000000000000000000000000000000000000 3 7 3 0 3 0 0000000000 3 0000000000000000000000000000000000000000000000000000000000000000000000000000000000 0
consensus : ATTGTTGT-----CTCCTCTTAATTAAA--TCAAA-GTAGAATACCTCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCGAAAAAAGCA--TTCAGATCAAA--TTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGATTTTTAATAAAAGCTCC---CAGCA-GCTTCCGCA---AGCGCGGGGTATTGACTGATGTCATACAATTCCCTA-CACAAAATNCACCTGACAATACNTAGNCTAAAGTAGGCCCACATGTATTTGC-TATTTT-TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTACAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCATT-GCTTACTGT----------A--ATCC--AANAC-A------TACTTCGTA-CATGTAA-TGGCATCTTC-AAAG-------------GAANTACAAGTGCTAGCATCATCAATTNG--CGAAAATAGTG--ATATTTTCTA---GT-------T-TN--ACCG--GGG-AG---AAAAAC---TGGAATCTTAAAC-G-AAATCACC--AA-----TT-GTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAAC-------------CCCCCTCCTCTAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-ATTATCATT-ATAACCTAGAGG--C-GAAA-ATTATAAAATAT--AGATT--AA-TAT----ATTTTTCTCGTTTT--N-ATTTCAATT-TTG-GTTG---TTCGGA-AGAAATAA-ATTCTAGA-------TATT-C-GACAACTTGG-AA-TTATTCT----NAAATATGCATG-TAACGT----T-TTACGCT------CCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC---AACAATTTTC-C-A-ATAGTAAGGCCCTATNNNNN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTACATGTAAGT-AGGTCCTGA-TGA-CTTATTTTTACAAGAA--T--AT---GCATGCAATGG-TTCCATCT---TTCAGGTACATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAA----AAAAAAAAANTTAAAAGG
Reference ( gi|2 ) : ATTGTTGTTCTTTCTCCTCTTA-TTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCC---------------------AAGAAAGCAAATT-AGATCAAAATTTGAAATAGGAG-------------------AT-AACAAAGAA-CCTGCGAGTTT-AATCAAA-TTCTTTTCGGGATGCTCCCGCTCGTAGCGCGGGGTATTGACT--------------CCCTAACACAAAATGCACTT-ATAA--CTTAGCCTAA-GTAGGCCCA-ATGTATTTACCTATTTT-TTCAGCATGT------AT-ATTACCATGCATAAC-TTCTATAT----TTCAAC--CACATTGCAGGAAAGAAATGTATATTTCGTGCATT-GTTTACTGT----------A--ATCC--AAAGC-A------TACTTTTGA-CATGTAACTGGCATCTTC-AA---------------GAAATACCAGTGCTAGCATCAT-AATTTG--CGAAAATAGTGGGATATTTTCTA---AT-------T-TA--ATCG--TGA-AG---AAA------TGGAATCTTAAAC-G-AAATCACC--AACCTGGTT-GTCAGTATTCTAGTCTT-T----CAAGTTCATTTTGA--TTAAC-------------CCCCCTTCTCTAATCATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTAAAT-----ATAAATTATCATT-ATAACCTTGAGG--T-GAAA-ATTATAAAATA---AAATT--AA-TAT----ATTTTTCTCGTTTT--A-ATTTCAA-T-TTG-GTT----TTTGGA-AGAAATAA-ATTCTAG--------TATT-C-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAA-GT----T-TTACGCT------C-GTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TGGAAAACTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC---A--AATATTC-C-A-ATAGTAA-CCCCTAT------CTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGTCAGGTCCTGAGTGA-CTTA-TTTTACAAGAA--TTCATATGGCATGCAATGG-TTCCA-CTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAATGTTTAAAAAAAAATTAAAAGG
gi|1 : ATTGTTGT-----CTCCTCTTAATTAAA--TCAAA-GTAGAATACCTCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCGAAAAAAGCA--TTCAGATCAAA--TTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGATTTTTAATAAAAGCTCC---CAGCA-GCTTCCGCA---AGCGCGGGGTATTGACTGATGTCATACAATTCCCTA-CACAAAATGCACCTGATAA--CTTAGACTAAAGTAG-CCCA-CTGT---------------TCAG-ATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAAC-----ATTGCAG---AGAA-TGTAGATTTCGTGCATTTGTTT--TGT----------A---TCCCCAAAAC-A------AACTTTAGAACATGTAATTGGCATATTC-AAAA-------------GAATTACAAGTGCTAGCATCATCAATTTGTGCGAAATTAGTG--ATATTGTCTA---AT-------T-TT--ATCGCTTGAGAG---AAAA-----TGGA-TCTTAAACCG-AAATCACCCCAAC-TGGTT-GTCAGTAGTCTAGTCTT-T----TTAATACATTTTGA--TTTACCCCCCCCCCCCATCCCCCTCCTCTAAT-ATCTGA-AT-AAAGACTC-A-----ATATGCCAGTCGATCACCTTCTTTAAT-----AT--ATTATCATTCATAACCTAGAGG----G------TACGAAATATATAGATT--AATTAT----ATTTTTCTCGTATT--A-ATTTCAATT-TTG-GTTG---TTTGGAGAAAAATAA-A-TCTAGA-------TATT-C-GACAACTTGGAAA-TTATCTTA---AAAATATGCATGTTAACGC----TGTTACGCTC-----C-GTGACTAATCGTTTAGATG-AAGTTGTTT---TTTTAAGAAA-TTAATCAG-AAAATCTTCAAAAA-TTGAAAGCTCTGCTAA-TGTGCATGGTCAGTA------CATACGTTTGTTCACATTAAAAC---AACAATTTTC-C-AGATAGTAAGCCCCTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGGTCCTGGTTAC-CTTATTTTTACAAGAAATTTCATTAGGAATGCAATGGTTTCCATCTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAA----AAAAAAAAAATTAAAAGG
gi|6 : tATTCACTTGACAATACGTAGTCTAAAGTAGACCCACATGAATTTGCATATTTTTTTCAGCATGT------AT-ATTG-CATGCA-AACTTTTTAGAT----CTCAACAGTGTACTGCAGGAGAG-CATGTATATTTCGTGCATT-Gg
gi|16 : GCCCACATGTATTTACCTATTTT-TTCAGCATTT------ATAATTACccacagccgtctgattcagaattcgtacaagaatacaacgttcgggtttttaaatcagtaaaagaccaagtgagcagaagatgaatttcaagtgctagcatcatcaattcgcaaaatatttctagtgacgccatttcggggaaaaagactgaaatcttgaagaaaatcaccagtcagtaagtagtctaacgttattaatatagtct
gi|13 : TATTTT-TTCAGCATGTTTAAAAAT-ATTGT-GTATATAAC-TTCTACAT----TTCAACAGCGCGTTCCAATAAAG-TTTGTATATTTCATGCATT-Gat
gi|9 : caCATGT------AT-ATTAC-ATGTATAAC-TTCTATATATATTTCAAC---ACATTGCAGGAATGAA-TGTATATTTCGTGCACT-G-CTACTGT-------------ATCC--AAGACAA------TACTTCGTA-CATGTAA-TGGCATCTTCAAA---------------GAAA
gi|3 : ATGCA---C-TTCTACAC----TTCAACAGTGCATTGCAGGAAAGAA-TGTACATT--ATACATT-GCT-ATTGTCGTCTGATTCAGCATCC--AATAC-AATGATATACACTGTA-CAGGTAA-TGCCATCTTC-AAAGAAAACCGGATGATGAAATATAAGTGGAAGCATCGCCAATTGG--CGAAA-TGGTG--ATATTTTCTA---GC-------TCTAGCACTG--AGG-AGCGAAAA------TGGACTCTTAAAC-A-AAATCACC--AA-----TTAGTCAGCAGTCTAGTAATATACCACAAGTTCA----GA--TTAAT-------------CCCCCCTCCCTT-TCCCGTAATATAAG-GACTCAA------TATC-CAGTCG-TCACCTTCTTTAAT-----AT--ATTATCATC-GTAACCTAGAGGACC-GAAACATTGCAAATTAT--AGATCAGAG-TATACAAATTTTT----TTTT--T-ATTTTAATT-TTG-GTTG---TTTGGA-AGGAATAA-ATTGTAAAATCTGATTATT-CAGACAATTGGA-AA-TTTGTCTGAAAGAAATATGCACG-TAATGT----T-TTACGCCGCCCTGC-ATGGCT-ATCa
gi|11 : atctatgacttgaatcatgtcatacaatccctacacaaa-AA---------------GAATTACAAGTGCTAGCGTAATTAATTGA--TAAAAATAGTG--ATATTTTCTAGTGAT-------A-TC--ACTG--GGA-AA---AAAAATATTTGGAATCTTAAAC-GAAAATCACC--cgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|6 : aAGTGCTAGCATCATCAATTCG--C-AAAATA---------TTTCTA---GTGACGCCAT-T----TCG--GGG-AA---AAAGAC---TGAAATCTTGAAG-A-AAATCACC--A---------GTCAGTAtc
gi|14 : attcacttgacaatacgtagtctaaagtagacccacatgaatttgcatatttttttcagcatgtatattgcatgcaaactttttagatctcaacagtgtactgcaggagagcatgtatatttcgtgcattgccacagccgtctgattcagaattcgtacaagaatacaacgttcgggtttttaaatcagtaaaagaccaagtgagcagaagatgaatttcaTAGTCTAGTCTT-T----CAAGTTCATTTTGATTTTAAC-------------ACCCTTCTTCTAATTG-CTGGCAT-AAAGACTC-A-----ATATG-CAGTCG-TCACCagtagtctaacgttattaatatagtct
gi|5 : C-------------CCCCCTCCTCTAAT-ATC-AACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATAT-TTATCATT-ATAAC-TAGAGG--T-CGAA-ATTATAGA---------TT--AC-TAT----ATTTTTCTCGTTTTTAA-ATTTCAA-T-TTG-GGTGGTGTTCAGA-AGAAA--A-ATTCTAGA-------TATT-C-GA--ACTTGG-AA-ATATTCT----CAA-TATGCATG-TAACGT----T-TTACGCT------CCGAGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAAT------TAATCAGAAAA-TCTTC-AAAA-TTGAAAGCCT--CA-A-TGTGCACGTGCAGTA------CATATGTTTGTTCACA--GAAAC---AACAAT-TTC-C-A-ATAGTAAGCCCCTATN-----NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTACATGTA--TTAGGTCCTGA-TGA-CTTATTTTTACAAGAA--T-------GCATGCAATGG-TTTC
gi|4 : ac-------------CCCCCTCCTCTAAT-ATCAGACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATA--TTATCATT-ATAACCTAGAGG--TCGAAA-ATTATAGA---------TT--AA-TAT----ATTTTTCTCGTTTT--TTATTTCAA-T-TTTTGTTGT--TTCAAA-AGAAA--A-ATTCTAGA-------TATTTC-GACAACTTGA-AA-TTATTTC----TAAATATGCATG-TAACGT----T-TTACGCT------CCGAGACT-ATCGTTTAGATGAAAGTTGTTT---TT------AATT-AATCAG-AAAATCTTC-AAAATTTGAAAGCTC--TA-A-TGTGCATGTGCAGTA------CATATGTTTGTTCACA--GAAAC---AACAATTTTCAC-A-ATAGTAA-GCCCTATNNNNN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGG-CCTGAGTGACCTTATTTTTACAAGAA-----AT---GCATGCAATGG-TTCCA-CT---TTCAGGTACATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAAAAAAATTTAAAAAGca
gi|15 : ACTCAATCTGAAGATG-ATGTTG-TTACCCTCTTCAAT-----ATA--TTATCAT----AACCTGGAGG--g
gi|12 : CTCAA------TGTG-CAGTCG-TCACCTTCTTTAATAATTGATATATTATTATT-ATATCCTAGAGGAAC-GAAA-AAT-TAAAA-A---AAATT--A
gi|7 : -ATTTCAA-TGTTG-GTTG---TTTGGA-AGGAATATTATTCTAGA-------TATT-C-GACAACTTGG-AAACTATTCT----AAAATTTGCATG-TAACGT----T-TTACGCT------CCGTGACT-ATCGTTTAGATGAAAGTTGTTTAGATTTAATGAAATTTAATTAGAGA----TTC-CA------------T--CT-A------ATGTGCAGTA------CATACGTTTGTTCCTA--GAAAC---AAGAATTTTC-CAA-ATAGTAG-GCCCtagatcaatattat
gi|10 : --------TATT-C-GACAAATTGGAAA-TTATTCT-----AAATATACATG-TAACGTTCAAT-TTACGCTCC----C-CTG-CT-ATCGTCTACATGAAAAGTATTTAAATTTAATAAAATTTAATTAGAA
gi|8 : a-AA-TTATTTT----AAGATATACATA--AA-GTGT--T-TTACGCT------CCGTGATT-ATCATCTAGATGAAAGTT---------TA-TGAATTTTAATCAG-AAATTCTTC-AAAA-TTGAAAGCTT--TTAA-TGTACATGTGCAGTAGTTTTCCAAAGGTTTGTTTACA--GTAACAAAA--AATTTTC-A-A-ACAGTAG-GCCC
gi|3 : aA-TTGAATGCTT--CT-AATGTACATATGCAGTA------CATACGTTTGTTC
Alignments
lowQualScore : 111111111111111111111111111111111111111111111111111111111111111 1111111111111111111111111111111111111111111111111111111111111111111111111111111111111111
lowQualScore : 55555 1 22 2 666666666666666666666 22 1 22 6666666666666666666 1 1 1 1 333 2 3333 11111111111111 1 4444444444 111 111 22222222 2222222 111111 1111 1111 111 5555555555555 2222222 2 333333333333333 111 11 44444444444444444444444 333333 11 55555555 222222 11 3333333333333 111 111 1 222222 11111 222 333 333333333 11 1111 1111111 1 22222 1111 11111 222 1 11111 111111 111111111111111111111111111111111111111111111111111111111111111 1 2 2 6666666666666666 1 0000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
lowQualScore : 00000 5 77 0 555555555555555555555 77 5 77 5555555555555555555 5 5 3 5 3 5 555 2 0 9999 66666666666666 3 1 2 6666666666 777 1 777 33 3 8 0 6 22222222 8888888 999999 6 6 0 6 4444 2 4444 2 6 6 555 9999999999999 1 8 4444444 8 1 0 888888888888888 1 3 222 3 6 11 77777777777777777777777 111111 0 8 8 11 22222222 222222 3 33 8 6666666666666 111 111 6 7 2 1 9 3 888888 5 5 44444 777 55 111 88 6 1 444444444 55 7777 77 99 3 99 6 0 6 3 6 8888888 5 5 0 5 11111 5 0 0000 5 22222 5 000 666666 2 7 6 5 22222 5 666666 99 6 2 777 6 7 99 666666666666666666666666666666666666666666666666666666666666666 3 0 3 0 0 3 4444444444444444 0 7777777777777777777777777777777777777777777777777777777777777777777777777777777777777777 1
lowQualScore : ..... . .. . ..................... .. . .. ................... . . . . . . ... . . .... .............. . . . .......... ... . ... .. . . . . ........ ....... ...... . . . . .... . .... . . . ... ............. . . ....... . . . ............... . . ... . . .. ....................... ...... . . . .. ........ ...... . .. . ............. ... ... . . . . . . ...... . . ..... ... .. ... .. . . ......... .. .... .. .. . .. . . . . . ....... . . . . ..... . . .... . ..... . ... ...... . . . . ..... . ...... .. . . ... . . .. ............................................................... . . . . . . ................ . ........................................................................................ .
lowQualScore : 00000 5 55 0 000000000000000000000 55 0 55 0000000000000000000 5 5 0 5 0 0 000 5 0 0000 33333333333333 3 0 0 5555555555 000 0 555 55 2 8 8 0 00000000 3333333 222222 7 7 8 7 2222 2 5555 5 7 7 222 6666666666666 0 0 0000000 0 0 0 999999999999999 0 2 000 2 0 00 44444444444444444444444 666666 8 0 0 00 00000000 222222 2 88 0 7777777777777 777 777 7 5 5 3 8 2 000000 0 0 33333 111 99 444 33 7 8 555555555 88 0000 77 22 2 22 7 7 7 2 7 6666666 7 7 0 0 55555 0 2 6666 0 55555 0 000 999999 0 5 7 7 33333 7 444444 22 7 5 555 7 3 22 000000000000000000000000000000000000000000000000000000000000000 2 0 2 0 0 2 2222222222222222 0 7777777777777777777777777777777777777777777777777777777777777777777777777777777777777777 0
consensus : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAAT-CCCTA-CACAAAATGCACTT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTAT---TTGC-TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTC----TATATTTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT----------A--ATCCAANAC-A------TACTTC-GTACATGTAACTGGCATCTTCAAAG-------------GAATTACAAGTGCTAGCATCATCAATT--CGCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAGAAAAA----TGGAATCTTAAA-CG-AAATCA--CCAACC-G-TTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-A-TTATCATT-ATAACCTAGAGG---CG-AAA-ATTATAAAA---TATAGATTAA--TATA----TTTTTCTCGTTTTT-A--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGNCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT----NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATTAAAAGG
Reference ( family-1711 ) : ATTGTTGT-----CTCCTCTTAATTAAA--TCAAA-GTAGAATACCTCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCGAAAAAAGCA--TTCAGATCAAA--TTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGATTTTTAATAAAAGCTCC---CAGCA-GCTTCCGCA---AGCGCGGGGTATTGACTGATGTCATACAATTCCCTA-CACAAAATNCACCT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTAT---TTGC-TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTC----TACATTTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT----------A--ATCCAANAC-A------TACTTC-GTACATGTAA-TGGCATCTTCAAAG-------------GAANTACAAGTGCTAGCATCATCAATT--NGCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAGAAAAA---CTGGAATCTTAAA-CG-AAATCA--CCAA-----TT-GTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-A-TTATCATT-ATAACCTAGAGG---CG-AAA-ATTATAAAA---TATAGATTAA--TATA----TTTTTCTCGTTTTN-A--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----NAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGGCCCTAT-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTACATGTAAGT-AGGTCCTGA-TGA-CTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT----NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAANTTAAAAGG
gi|1 : ATTGTTGT-----CTCCTCTTAATTAAA--TCAAA-GTAGAATACCTCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCGAAAAAAGCA--TTCAGATCAAA--TTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGATTTTTAATAAAAGCTCC---CAGCA-GCTTCCGCA---AGCGCGGGGTATTGACTGATGTCATACAATTCCCTA-CACAAAATGCACCT---------GATA--ACTT---AGACTAAAGTA-GCCCAC-TG------------------------TTCAG-ATGT------AT-ATTAC-ATGTATAAC-TTC----TATATTTCAA-----CATTGCAG---AGAA-TGTAGATTTCGTGCATTTGTTT--TGT----------AT-CCCCAAAAC-A------AACTTTAGAACATGTAATTGGCATATTCAAAA-------------GAATTACAAGTGCTAGCATCATCAATTTGTGCGAAATTAGTG--ATATTGTCTAAT--T-TTA---T-------CGCTTGAGAGAAAA-----TGG-ATCTTAAACCG-AAATCACCCCAACTGG-TT-GTCAGTAGTCTAGTCTT-T----TTAATACATTTTGA--TTTA-CCCCCCCCCCCCATCCCCCTCC---TC---TAAT-ATCTGA-AT-AAAGACTC-A-----ATATGCCAGTCGATCACCTTCTTTAAT-----AT--A-TTATCATTCATAACCTAGAGGGTACG--AA-AT------A---TATAGATTAAT-TATA----TTTTTCTCGTATTA-A--TTTCAATTTTGGT--TG-TTTGGAGAAAAATAA-A-TCTAGA-------TA-TTC-GACAACTTGGAAA-TTATCTTA---AAAATATGCATGTTAACGC----TGTTACG-----CTCCGTGACTAATCGTTTAGATG-AAGTTGTTT---TTTTAAGAAA-TTAATCAG-AAAATCTTCAAAAA-TTGAAAGCTCTGCTAA-TGTGCATGGTCAGTA------CATACGTTTGTTCACATTAAAAC-AACAATTTTC-C-AGATAGTAAGCCCCTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGGTCCTGG-TTACCTTATTTTTACAAGAAATTTCATT--AG---GAATGCAATGGTTTCCA-TCTNNNNNNNNNNNNNN----NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATTAAAAGG
gi|10 : tA-------TA-TTC-GACAAATTGGAAA-TTATTCT-----AAATATACATG-TAACGTTCAAT-TTACG-----CTCCCCTGCT-ATCGTCTACATGAAAAGTATTTAAATTTAATAAAATTTAATTAGAAg
gi|11 : AAA-------------GAATTACAAGTGCTAGCGTAATTAATT--GATAAAAATAGTG--ATATTTTCTAGTGATATCA---C-------TG---GGAAAAAAAATATTTGGAATCTTAAA-CGAAAATCA--CC
gi|12 : CTCAA------TGTG-CAGTCG-TCACCTTCTTTAATAATTGATATA-TTATTATT-ATATCCTAGAGGAA-CGAAAA-ATTAAAAAAAATTATAGATCAA--TATtc
gi|13 : -TATTTT-------TTCAGCATGTTTAAAAAT-ATTGT-GTATATAAC-TTC----TACATTTCAACAGCGCGTTCCAATAAAGTT-TGTATATTTCATGCA-TTGtat
gi|14 : caTAGTCTAGTCTT-T----CAAGTTCATTTTGATTTTAA-CA-------------CCCTTCT---TC---TAAT-TGCTGGCAT-AAAGACTC-A-----ATATG-CAGTCG-TCACC
gi|15 : ACTCAATCTGAAGATG-ATGTTG-TTACCCTCTTCAAT-----ATA---TTATCAT----AACCTGGAGG---
gi|16 : GCCCACATGTAT---TTACCTATTTT-------TTCAGCATTT------ATAATTAC-AT
gi|2 : ATTGTTGTTCTTTCTCCTCTTA-TTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCC---------------------AAGAAAGCAAATT-AGATCAAAATTTGAAATAGGAG-------------------AT-AACAAAGAA-CCTGCGAGTTT-AATCAAA-TTCTTTTCGGGATGCTCCCGCTCGTAGCGCGGGGTATTGACT--------------CCCTAACACAAAATGCACTT----------ATAA--CTT---AGCCTAA-GTAGGCCCA-ATGTAT---TTACCTATTTT-------TTCAGCATGT------AT-ATTACCATGCATAAC-TTC----TATATTTCAAC--CACATTGCAGGAAAGAAATGTATATTTCGTGCA-TTGTTTACTGT----------A--ATCCAAAGC-A------TACTTT-TGACATGTAACTGGCATCTTCAA---------------GAAATACCAGTGCTAGCATCAT-AATT--TGCGAAAATAGTGGGATATTTTCTAAT--T-TAA---T-------CG---TGAAGAAA------TGGAATCTTAAA-CG-AAATCA--CCAACCTGGTT-GTCAGTATTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTTC---TC---TAATCATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTAAAT-----ATA-AATTATCATT-ATAACCTTGAGG---TG-AAA-ATTATAAAA---TA-AAATTAA--TATA----TTTTTCTCGTTTTA-A--TTTCAATTT-GGT--T--TTTGGA-AGAAATAA-ATTCTAG--------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAA-GT----T-TTACG-----CTC-GTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TGGAAAACTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-A--AATATTC-C-A-ATAGTAA-CCCCTAT------CTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGTCAGGTCCTGAGTGA-CTTA-TTTTACAAGAA-------TTCATATGGCATGCAATGG-TTCCACTNN---NNNNNNNNNNN----NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAATGTTTAAAAAAAAATTAAAAGG
gi|3 : TTGAATCATGTCATACAAT-CCCTA-CACAAAATGCACTTCTACACTTCAACAGTGCATTGCAGG--AAAGAATG--TACAT-TATACATTGC-TATTGTCGTCTGATTCAGCAT
gi|3 : atctatgacAC-TTC----TACACTTCAACAGTGCATTGCAGGAAAGAA-TGTACATT--ATACA-TTGCT-ATTGTCGTCTGATTCAGCATCCAATAC-AATGATATACACT-GTACAGGTAA-TGCCATCTTCAAAGAAAACCGGATGATGAAATATAAGTGGAAGCATCGCCAATT--GGCGAAA-TGGTG--ATATTTTCTAGC--T-CTAGCAC-------TG---AGGAGCGAAA---ATGGACTCTTAAA-CA-AAATCA--CCAA-----TTAGTCAGCAGTCTAGTAATATACCACAAGTTCA----GA--TTAATCC-------------CCCCTCCCTTTCCCGTAAT-AT--------AAGGACTCAA------TATC-CAGTCG-TCACCTTCTTTAAT-----ATA---TTATCATC-GTAACCTAGAGGAC-CG-AAACATTGCAAAT---TATAGATCAGAGTATACAAATTTTT----TTTTT-A--TTTTAATTTTGGT--TG-TTTGGA-AGGAATAA-ATTGTAAAATCTGATTA-TTCAGACAATTGGA-AA-TTTGTCTGAAAGAAATATGCACG-TAATGT----T-TTACGCCGCCCTGCATGGCT-ATCccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|3 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcA-TTGAATGCTT--CT-AATGTACATATGCAGTA------CATACGTTTGTTCcgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|4 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcacttctacacttcaacagtgcattgcaggaaagaatgtacattatacattgctattgtcgtctgattcagcatccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatC-------------CCCCTCC---TC---TAAT-ATCAGACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATA---TTATCATT-ATAACCTAGAGGT--CG-AAA-ATTATA----------GATTAA--TATA----TTTTTCTCGTTTTTTA--TTTCAATTTTTGT--TGTTTCAAA-AGAA--AA-ATTCTAGA-------TATTTC-GACAACTTGA-AA-TTATTTC----TAAATATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTG-TT---TTTAA------TTAATCAG-AAAATCTTC-AAAATTTGAAAGCTC--TA-A-TGTGCATGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAATTTTCAC-A-ATAGTAA-GCCCTAT-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGG-CCTGAGTGACCTTATTTTTACAAGAA----------AT---GCATGCAATGG-TTCCA--CT---TTCAGGTACATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-----AAAAAAAATTTAAAAAGcctcag
gi|5 : -CC-------------CCCCTCC---TC---TAAT-ATC-AACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATA-T-TTATCATT-ATAAC-TAGAGG---TC-GAA-ATTATA----------GATTAC--TATA----TTTTTCTCGTTTTT-AAATTTCAATTTGGGTGGTG-TTCAGA-AGAAA--A-ATTCTAGA-------TA-TTC-GA--ACTTGG-AA-ATATTCT----CAA-TATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAAT------TAATCAGAAAA-TCTTC-AAAA-TTGAAAGCCT--CA-A-TGTGCACGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAA-TTTC-C-A-ATAGTAAGCCCCTAT-----NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTACATGT-ATT-AGGTCCTGA-TGA-CTTATTTTTACAAGA-----------AT---GCATGCAATGG-TTTCg
gi|6 : acATTCACTT---------GACAATACGT---AGTCTAAAGTAGACCCACATGAAT---TTGCATATTTTT------TTCAGCATGT------AT-ATTGC-ATGCA-AACTTTT----TAGATCTCAACAGTGTACTGCAGGAGAGCA-TGTATATTTCGTGCA-TTGC-CACAGC----------C--GTCTGATTC-A------GAATTC-GTACAca
gi|6 : -------------GAATTTCAAGTGCTAGCATCATCAATT--CGC-AAAATA---------TTTCTAGT-----GA---CGCCATTTCG---GGGAAAAAGA---CTGAAATCTTGAA-GA-AAATCA--CCAG-----TCAGTAAGTAGTCTAagaatacaacgttcgggtttttaaatcagtaaaagaccaagtgagcagaagatgaatttcaagtgctagcatcatcaattcgcaaaatatttctagtgacgccatttcggggaaaaagactgaaatcttgaagaaaatcaccagtcagtaagtagtctaacgttattaatatagtct
gi|7 : attcacttgacaatacgtagtctaaagtagacccacatgaatttgcatatttttttcagcatgtatattgcatgcaaactttttagatctcaacagtgtactgcaggagagcatgtatatttcgtgcattgccacagccgtctgattcagaattcgtacaagaatacaacgttcgggtttttaaatcagtaaaagaccaagtgagcagaagat-A--TTTCAATGTTGGT--TG-TTTGGA-AGGAATATTATTCTAGA-------TA-TTC-GACAACTTGG-AAACTATTCT----AAAATTTGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTTAGATTTAATGAAATTTAATTAGAGA----TTC-CA------------T--CT-A------ATGTGCAGTA------CATACGTTTGTTCCTA--GAAAC-AAGAATTTTC-CAA-ATAGT-AGGCCCacgttattaatatagtct
gi|8 : -AA-TTATTTT----AAGATATACATA-AAGTGT----T-TTACG-----CTCCGTGATT-ATCATCTAGATGAAAGTT-T---------ATGAATTTTAATCAG-AAATTCTTC-AAAA-TTGAAAGCTT--TTAA-TGTACATGTGCAGTAGTTTTCCAAAGGTTTGTTTACA--GTAACAAAAAATTTTC-A-A-ACAGT-AGGCCC
gi|9 : aCATGT------AT-ATTAC-ATGTATAAC-TTCTATATATATTTCAACA---CATTGCAGGAATGAA-TGTATATTTCGTGCA-CTGC-TACTGT-------------ATCCAAGACAA------TACTTC-GTACATGTAA-TGGCATCTTCAAAG-------------AAA
Alignments
lowQualScore : 111111111111111111111111111111111111111111111111111111111111111111111111111111111111111
lowQualScore : 22222 1 11 1 9999999999999999999999999999999 11 1 11 6666666666666666666 1 1 1 1 222 1 2222 3333333333333 1 4444444444 111 111 22222222 2222222 111111 1111 1111 111 5555555555555 2222222 1111 222 44444444444444 22222 555555555555555555555555555555 111 11 444444444444444444444444 11 2222 11 33333 222222 11 3333333333333 111 111 1 222222 11111 222 333 333333333 11 1111 1111111 1 22222 1111 11111 222 1 11111 111111 555555 1 1 6666666666666666 1 000000000000000000000000000000000000000000000000000000000000000000000000000000000000000 11
lowQualScore : 77777 5 88 5 7777777777777777777777777777777 88 5 88 5555555555555555555 5 5 1 5 1 5 111 1 5 1111 5555555555555 3 6666666666 777 1 777 33 3 8 0 6 22222222 8888888 999999 6 6 0 6 4444 4444 2 6 6 555 9999999999999 1 8 4444444 8 1 7777 444 00000000000000 1 00000 66 555555555555555555555555555555 777 3 6 11 111111111111111111111111 11 3 5555 0 8 8 11 22222 9 222222 3 33 8 6666666666666 111 111 6 7 2 1 9 3 888888 5 5 44444 777 55 111 88 6 1 444444444 55 7777 99999 3 99 6 0 6 3 6 8888888 5 5 0 5 00000 5 0 0000 5 22222 5 000 666666 2 7 6 5 22222 5 666666 99 6 2 777 6 7 777777 3 0 3 55 5 3 4444444444444444 0 222222222222222222222222222222222222222222222222222222222222222222222222222222222222222 88
lowQualScore : ..... . .. . ............................... .. . .. ................... . . . . . . ... . . .... ............. . .......... ... . ... .. . . . . ........ ....... ...... . . . . .... .... . . . ... ............. . . ....... . . .... ... .............. . ..... .. .............................. ... . . .. ........................ .. . .... . . . .. ..... . ...... . .. . ............. ... ... . . . . . . ...... . . ..... ... .. ... .. . . ......... .. .... ..... . .. . . . . . ....... . . . . ..... . . .... . ..... . ... ...... . . . . ..... . ...... .. . . ... . . ...... . . . .. . . ................ . ....................................................................................... ..
lowQualScore : 00000 5 00 5 5555555555555555555555555555555 55 0 55 0000000000000000000 5 5 0 5 0 0 555 0 5 5555 3333333333333 3 5555555555 000 0 555 55 2 8 8 0 00000000 3333333 222222 7 7 8 7 2222 5555 5 7 7 222 6666666666666 0 0 0000000 0 0 0000 222 33333333333333 4 00000 00 222222222222222222222222222222 444 2 0 00 444444444444444444444444 88 8 0000 8 0 0 00 22222 8 222222 2 88 0 7777777777777 777 777 7 5 5 3 8 2 000000 0 0 33333 111 99 444 33 7 8 555555555 88 0000 66666 2 22 7 7 7 2 7 6666666 7 7 0 0 99999 0 2 6666 0 55555 0 000 999999 0 5 7 7 33333 7 444444 22 7 5 555 7 5 000000 2 0 2 88 0 2 2222222222222222 0 777777777777777777777777777777777777777777777777777777777777777777777777777777777777777 33
consensus : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAA-TCCCTA-CACAAAATGCACTT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTAT---TTGC-TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT----------A--ATCCAANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATT--CGCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAG-AAAAA----TGGAATCTTAAA-CG-AAATCA--CCAACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-A-TTATCATT-ATAACCTAGAGG---CG-AAA-ATTATAAAA---TATAGATTAA--TATA----TTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGCCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
Reference ( family-1711 ) : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCCC----CCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAA-TCCCTA-CACAAAATGCACTT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTAT---TTGC-TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT----------A--ATCCAANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATT--CGCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAG-AAAAA----TGGAATCTTAAA-CG-AAATCA--CCAACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-A-TTATCATT-ATAACCTAGAGG---CG-AAA-ATTATAAAA---TATAGATTAA--TATA----TTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGNCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
gi|1 : ATTGTTGT-----CTCCTCTTAATTAAA--TCAAA-GTAGAATACCTCCCC----CCCCCCCCCCCCCCCCCCCCCCCCCCGAAAAAAGC--ATTCAGATCAAA--TTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGATTTTTAATAAAAGCTCC---CAGCA-GCTTCCGCA---AGCGCGGGGTATTGACTGATGTCATACAATTCCCTA-CACAAAATGCACCT---------GATA--ACTT---AGACTAAAGTA-GCCCAC-TG------------------------TTCAG-ATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAA-----CATTGCAG---AGAA-TGTAGATTTCGTGCATTTGTTT--TGT----------AT-CCCCAAAAC-A------AACTTTAGAAC----ATGTAAT--TGGCATATTCAAAA-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATTTGTGCGAAATTAGTG--ATATTGTCTAAT--T-TTA---T-------CGCTTGAGAG--AAAA----TGG-ATCTTAAACCG-AAATCACCCCAACT--GGTTGTCAGTAGTCTAGTCTT-T----TTAATACATTTTGA--TTTA-CCCCCCCCCCCCATCCCCCTCC---TC---TAAT-ATCTGA-AT-AAAGACTC-A-----ATATGCCAGTCGATCACCTTCTTTAAT-----AT--A-TTATCATTCATAACCTAGAGGGTACG--AA-AT------A---TATAGATTAAT-TATA----TTTTTCTCGTATT-AA--TTTCAATTTTGGT--TG-TTTGGAGAAAAATAA-A-TCTAGA-------TA-TTC-GACAACTTGGAAA-TTATCTTA---AAAATATGCATGTTAACGC----TGTTACG-----CTCCGTGACTAATCGTTTAGATG-AAGTTGTTT---TTTTAAGAAA-TTAATCAG-AAAATCTTCAAAAA-TTGAAAGCTCTGCTAA-TGTGCATGGTCAGTA------CATACGTTTGTTCACATTAAAAC-AACAATTTTC-C-AGATAGTAAGCCCCTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGGTCCTG-GTTACCTTATTTTTACAAGAAATTTCATT--AG---GAATGCAATGGTTTCCA-TCTNNNNNNNNNNNNNN---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
gi|10 : tA-------TA-TTC-GACAAATTGGAAA-TTATTCT-----AAATATACATG-TAACGTTCAAT-TTACG-----CTCCCCTGCT-ATCGTCTACATGAAAAGTATTTAAATTTAATAAAATTTAATTAGAAg
gi|11 : AAA-------------GAATTA-----CAAGTGCTAGCG-----------TAA----------TTA---ATT--GATAAAAATAGTG--ATATTTTCTAGTGATATCA---C-------TG---GGAAA-AAAAATATTTGGAATCTTAAA-CGAAAATCA--CC
gi|12 : CTCAA------TGTG-CAGTCG-TCACCTTCTTTAATAATTGATATA-TTATTATT-ATATCCTAGAGGAA-CGAAAA-ATTAAAAAAAATTATAGATCAA--TATtc
gi|13 : -TATTTT-------TTCAGCATGTTTAAAAAT-ATTGT-GTATATAAC-TTCTACAT----TTCAACAGCGCGTTCCAATAAAGTT-TGTATATTTCATGCA-TTGtat
gi|14 : caTAGTCTAGTCTT-T----CAAGTTCATTTTGATTTTAA-CA-------------CCCTTCT---TC---TAAT-TGCTGGCAT-AAAGACTC-A-----ATATG-CAGTCG-TCACC
gi|15 : ACTCAATCTGAAGATG-ATGTTG-TTACCCTCTTCAAT-----ATA---TTATCAT----AACCTGGAGG---
gi|16 : GCCCACATGTAT---TTACCTATTTT-------TTCAGCATTT------ATAATTAC-AT
gi|2 : ATTGTTGTTCTTTCTCCTCTTA-TTAAAGTTCAAAAGTAGAATACCCCCCCCCCC----CC---------------------AAGAAAGCAAATT-AGATCAAAATTTGAAATAGGAG-------------------AT-AACAAAGAA-CCTGCGAGTTT-AATCAAA-TTCTTTTCGGGATGCTCCCGCTCGTAGCGCGGGGTATTGACT--------------CCCTAACACAAAATGCACTT----------ATAA--CTT---AGCCTAA-GTAGGCCCA-ATGTAT---TTACCTATTTT-------TTCAGCATGT------AT-ATTACCATGCATAAC-TTCTATAT----TTCAAC--CACATTGCAGGAAAGAAATGTATATTTCGTGCA-TTGTTTACTGT----------A--ATCCAAAGC-A------TACTTT-TGAC----ATGTAAC--TGGCATCTTCAA---------------GAAATA-----CCAGTGCTAGCA-----------TCA----------T-A---ATT--TGCGAAAATAGTGGGATATTTTCTAAT--T-TAA---T-------CG---TGAAG-AAA------TGGAATCTTAAA-CG-AAATCA--CCAACCTGGTT-GTCAGTATTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTTC---TC---TAATCATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTAAAT-----ATA-AATTATCATT-ATAACCTTGAGG---TG-AAA-ATTATAAAA---TA-AAATTAA--TATA----TTTTTCTCGTTTT-AA--TTTCAATTT-GGT--T--TTTGGA-AGAAATAA-ATTCTAG--------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAA-GT----T-TTACG-----CTC-GTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TGGAAAACTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-A--AATATTC-C-A-ATAGTAA-CCCCTAT------CTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGTCAGGTCCTGAGTGA-CTTA-TTTTACAAGAA-------TTCATATGGCATGCAATGG-TTCCACTNN---NNNNNNNNNNN---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAATGTTTAAAAAAAAATT--AAAAGG
gi|3 : TTGAATCATGTCATACAA-TCCCTA-CACAAAATGCACTTCTACACTTCAACAGTGCATTGCAGG--AAAGAATG--TACAT-TATACATTGC-TATTGTCGTCTGATTCAGCAT
gi|3 : atctatgacAC-TTCTACAC----TTCAACAGTGCATTGCAGGAAAGAA-TGTACATT--ATACA-TTGCT-ATTGTCGTCTGATTCAGCATCCAATAC-AATGATATACACT-GTAC----AGGTAA---TGCCATCTTCAAAGAAAACCGGATGATGAAATA-----TAAGTGGAAGCA-----------TCG----------CCA---ATT--GGCGAAA-TGGTG--ATATTTTCTAGC--T-CTAGCAC-------TG---AGGAGCGAAAA----TGGACTCTTAAA-CA-AAATCA--CCAA-----TTAGTCAGCAGTCTAGTAATATACCACAAGTTCA----GA--TTAATCC-------------CCCCTCCCTTTCCCGTAAT-AT--------AAGGACTCAA------TATC-CAGTCG-TCACCTTCTTTAAT-----ATA---TTATCATC-GTAACCTAGAGGAC-CG-AAACATTGCAAAT---TATAGATCAGAGTATACAAATTTTT----TTTT-TA--TTTTAATTTTGGT--TG-TTTGGA-AGGAATAA-ATTGTAAAATCTGATTA-TTCAGACAATTGGA-AA-TTTGTCTGAAAGAAATATGCACG-TAATGT----T-TTACGCCGCCCTGCATGGCT-ATCccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|3 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcA-TTGAATGCTT--CT-AATGTACATATGCAGTA------CATACGTTTGTTCcgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|4 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcacttctacacttcaacagtgcattgcaggaaagaatgtacattatacattgctattgtcgtctgattcagcatccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatC-------------CCCCTCC---TC---TAAT-ATCAGACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATA---TTATCATT-ATAACCTAGAGGT--CG-AAA-ATTATA----------GATTAA--TATA----TTTTTCTCGTTTTTTA--TTTCAATTTTTGT--TGTTTCAAA-AGAA--AA-ATTCTAGA-------TATTTC-GACAACTTGA-AA-TTATTTC----TAAATATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTG-TT---TTTAA------TTAATCAG-AAAATCTTC-AAAATTTGAAAGCTC--TA-A-TGTGCATGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAATTTTCAC-A-ATAGTAAG-CCCTATNNNN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGG-CCTGAGTGACCTTATTTTTACAAGAA----------AT---GCATGCAATGG-TTCCA--CT---TTCAGGTACATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-----NAAAAAAAATTTAAAAAGGcctcag
gi|5 : -CC-------------CCCCTCC---TC---TAAT-ATC-AACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATA-T-TTATCATT-ATAAC-TAGAGG---TC-GAA-ATTATA----------GATTAC--TATA----TTTTTCTCGTTTT-TAAATTTCAATTTGGGTGGTG-TTCAGA-AGAAA--A-ATTCTAGA-------TA-TTC-GA--ACTTGG-AA-ATATTCT----CAA-TATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAAT------TAATCAGAAAA-TCTTC-AAAA-TTGAAAGCCT--CA-A-TGTGCACGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAA-TTTC-C-A-ATAGTAAGCCCCTAT-----NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTACATGT-ATT-AGGTCCTGA-TGA-CTTATTTTTACAAGA-----------AT---GCATGCAATGG-TTTC
gi|6 : acATTCACTT---------GACAATACGT---AGTCTAAAGTAGACCCACATGAAT---TTGCATATTTTT------TTCAGCATGT------AT-ATTGC-ATGCA-AACTTTTTAGAT----CTCAACAGTGTACTGCAGGAGAGCA-TGTATATTTCGTGCA-TTGC-CACAGC----------C--GTCTGATTC-A------GAATTC-GTACAAGAATACAACGTTCGGGTTTTTAAAT-------------CAGTAAAAGACCAAGTG--AGCAGAAGATGAATTTCAAGTGCTAGCATCATCAATT--CGC-AAAATA---------TTTCTAG-----TGA---CGCCATTTCG---GGGAA-AAAGAC---TGAAATCTTGAA-GA-AAATCA--CCA-----GTCAGTAAGTAGTCTAca
gi|7 : A--TTTCAATGTTGGT--TG-TTTGGA-AGGAATATTATTCTAGA-------TA-TTC-GACAACTTGG-AAACTATTCT----AAAATTTGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTTAGATTTAATGAAATTTAATTAGAGA----TTC-CA------------T--CT-A------ATGTGCAGTA------CATACGTTTGTTCCTA--GAAAC-AAGAATTTTC-CAA-ATAGTAGGCCCacgttattaatatagtct
gi|8 : -AA-TTATTTT----AAGATATACATA-AAGTGT----T-TTACG-----CTCCGTGATT-ATCATCTAGATGAAAGTT-T---------ATGAATTTTAATCAG-AAATTCTTC-AAAA-TTGAAAGCTT--TTAA-TGTACATGTGCAGTAGTTTTCCAAAGGTTTGTTTACA--GTAACAAAAAATTTTC-A-A-ACAGTAGGCCC
gi|9 : aCATGT------AT-ATTAC-ATGTATAAC-TTCTATATATATTTCAACA---CATTGCAGGAATGAA-TGTATATTTCGTGCA-CTGC-TACTGT-------------ATCCAAGACAA------TACTTC-GTAC----ATGTAA---TGGCATCTTCAAAG-------------AAA
Alignments
lowQualScore : 11111111111111111111111111111111111 111111111111111111111111111111111111111111111111111111111111111111111111111111111111111
lowQualScore : 22222 1 11 1 55555555555555555555555555555555555 11 1 11 6666666666666666666 1 1 1 1 222 1 2222 3333333333333 1 4444444444 111 111 22222222 2222222 111111 1111 1111 111 5555555555555 2222222 1111 222 44444444444444 22222 555555555555555555555555555555 111 11 444444444444444444444444 11 2222 11 33333 222222 11 3333333333333 111 111 1 222222 11111 222 333 333333333 11 1111 1111111 1 22222 1111 11111 222 1 11111 111111 555555 1 1 6666666666666666 1 000000000000000000000000000000000000000000000000000000000000000000000000000000000000000 11
lowQualScore : 77777 5 88 5 77777777777777777777777777777777777 88 5 88 5555555555555555555 5 5 1 5 1 5 111 1 5 1111 5555555555555 3 6666666666 777 1 777 33 3 8 0 6 22222222 8888888 999999 6 6 0 6 4444 4444 2 6 6 555 9999999999999 1 8 4444444 8 1 7777 444 00000000000000 1 00000 66 555555555555555555555555555555 777 3 6 11 111111111111111111111111 11 3 5555 0 8 8 11 22222 9 222222 3 33 8 6666666666666 111 111 6 7 2 1 9 3 888888 5 5 44444 777 55 111 88 6 1 444444444 55 7777 99999 3 99 6 0 6 3 6 8888888 5 5 0 5 00000 5 0 0000 5 22222 5 000 666666 2 7 6 5 22222 5 666666 99 6 2 777 6 777777 3 0 3 55 5 3 4444444444444444 0 222222222222222222222222222222222222222222222222222222222222222222222222222222222222222 88
lowQualScore : ..... . .. . ................................... .. . .. ................... . . . . . . ... . . .... ............. . .......... ... . ... .. . . . . ........ ....... ...... . . . . .... .... . . . ... ............. . . ....... . . .... ... .............. . ..... .. .............................. ... . . .. ........................ .. . .... . . . .. ..... . ...... . .. . ............. ... ... . . . . . . ...... . . ..... ... .. ... .. . . ......... .. .... ..... . .. . . . . . ....... . . . . ..... . . .... . ..... . ... ...... . . . . ..... . ...... .. . . ... . ...... . . . .. . . ................ . ....................................................................................... ..
lowQualScore : 00000 5 00 5 55555555555555555555555555555555555 55 0 55 0000000000000000000 5 5 0 5 0 0 555 0 5 5555 3333333333333 3 5555555555 000 0 555 55 2 8 8 0 00000000 3333333 222222 7 7 8 7 2222 5555 5 7 7 222 6666666666666 0 0 0000000 0 0 0000 222 33333333333333 4 00000 00 222222222222222222222222222222 444 2 0 00 444444444444444444444444 88 8 0000 8 0 0 00 22222 8 222222 2 88 0 7777777777777 777 777 7 5 5 3 8 2 000000 0 0 33333 111 99 444 33 7 8 555555555 88 0000 66666 2 22 7 7 7 2 7 6666666 7 7 0 0 99999 0 2 6666 0 55555 0 000 999999 0 5 7 7 33333 7 444444 22 7 5 555 7 000000 2 0 2 88 0 2 2222222222222222 0 777777777777777777777777777777777777777777777777777777777777777777777777777777777777777 33
consensus : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCC--CCCCCCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAA-TCCCTA-CACAAAATGCACTT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTAT---TTGC-TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT----------A--ATCCAANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATT--CGCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAG-AAAAA----TGGAATCTTAAA-CG-AAATCA--CCAACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-A-TTATCATT-ATAACCTAGAGG---CG-AAA-ATTATAAAA---TATAGATTAA--TATA----TTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGCCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
Reference ( family-1711 ) : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCCCC----CCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAA-TCCCTA-CACAAAATGCACTT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTAT---TTGC-TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT----------A--ATCCAANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATT--CGCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAG-AAAAA----TGGAATCTTAAA-CG-AAATCA--CCAACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-A-TTATCATT-ATAACCTAGAGG---CG-AAA-ATTATAAAA---TATAGATTAA--TATA----TTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGCCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
gi|1 : ATTGTTGT-----CTCCTCTTAATTAAA--TCAAA-GTAGAATACCTCCCC--------CCCCCCCCCCCCCCCCCCCCCCCCCCGAAAAAAGC--ATTCAGATCAAA--TTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGATTTTTAATAAAAGCTCC---CAGCA-GCTTCCGCA---AGCGCGGGGTATTGACTGATGTCATACAATTCCCTA-CACAAAATGCACCT---------GATA--ACTT---AGACTAAAGTA-GCCCAC-TG------------------------TTCAG-ATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAA-----CATTGCAG---AGAA-TGTAGATTTCGTGCATTTGTTT--TGT----------AT-CCCCAAAAC-A------AACTTTAGAAC----ATGTAAT--TGGCATATTCAAAA-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATTTGTGCGAAATTAGTG--ATATTGTCTAAT--T-TTA---T-------CGCTTGAGAG--AAAA----TGG-ATCTTAAACCG-AAATCACCCCAACT--GGTTGTCAGTAGTCTAGTCTT-T----TTAATACATTTTGA--TTTA-CCCCCCCCCCCCATCCCCCTCC---TC---TAAT-ATCTGA-AT-AAAGACTC-A-----ATATGCCAGTCGATCACCTTCTTTAAT-----AT--A-TTATCATTCATAACCTAGAGGGTACG--AA-AT------A---TATAGATTAAT-TATA----TTTTTCTCGTATT-AA--TTTCAATTTTGGT--TG-TTTGGAGAAAAATAA-A-TCTAGA-------TA-TTC-GACAACTTGGAAA-TTATCTTA---AAAATATGCATGTTAACGC----TGTTACG-----CTCCGTGACTAATCGTTTAGATG-AAGTTGTTT---TTTTAAGAAA-TTAATCAG-AAAATCTTCAAAAA-TTGAAAGCTCTGCTAA-TGTGCATGGTCAGTA------CATACGTTTGTTCACATTAAAAC-AACAATTTTC-C-AGATAGTAAGCCCCTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGGTCCTG-GTTACCTTATTTTTACAAGAAATTTCATT--AG---GAATGCAATGGTTTCCA-TCTNNNNNNNNNNNNNN---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
gi|10 : tA-------TA-TTC-GACAAATTGGAAA-TTATTCT-----AAATATACATG-TAACGTTCAAT-TTACG-----CTCCCCTGCT-ATCGTCTACATGAAAAGTATTTAAATTTAATAAAATTTAATTAGAAg
gi|11 : AAA-------------GAATTA-----CAAGTGCTAGCG-----------TAA----------TTA---ATT--GATAAAAATAGTG--ATATTTTCTAGTGATATCA---C-------TG---GGAAA-AAAAATATTTGGAATCTTAAA-CGAAAATCA--CC
gi|12 : CTCAA------TGTG-CAGTCG-TCACCTTCTTTAATAATTGATATA-TTATTATT-ATATCCTAGAGGAA-CGAAAA-ATTAAAAAAAATTATAGATCAA--TATtc
gi|13 : -TATTTT-------TTCAGCATGTTTAAAAAT-ATTGT-GTATATAAC-TTCTACAT----TTCAACAGCGCGTTCCAATAAAGTT-TGTATATTTCATGCA-TTGtat
gi|14 : caTAGTCTAGTCTT-T----CAAGTTCATTTTGATTTTAA-CA-------------CCCTTCT---TC---TAAT-TGCTGGCAT-AAAGACTC-A-----ATATG-CAGTCG-TCACC
gi|15 : ACTCAATCTGAAGATG-ATGTTG-TTACCCTCTTCAAT-----ATA---TTATCAT----AACCTGGAGG---
gi|16 : GCCCACATGTAT---TTACCTATTTT-------TTCAGCATTT------ATAATTAC-AT
gi|2 : ATTGTTGTTCTTTCTCCTCTTA-TTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCC-----------------------------AAGAAAGCAAATT-AGATCAAAATTTGAAATAGGAG-------------------AT-AACAAAGAA-CCTGCGAGTTT-AATCAAA-TTCTTTTCGGGATGCTCCCGCTCGTAGCGCGGGGTATTGACT--------------CCCTAACACAAAATGCACTT----------ATAA--CTT---AGCCTAA-GTAGGCCCA-ATGTAT---TTACCTATTTT-------TTCAGCATGT------AT-ATTACCATGCATAAC-TTCTATAT----TTCAAC--CACATTGCAGGAAAGAAATGTATATTTCGTGCA-TTGTTTACTGT----------A--ATCCAAAGC-A------TACTTT-TGAC----ATGTAAC--TGGCATCTTCAA---------------GAAATA-----CCAGTGCTAGCA-----------TCA----------T-A---ATT--TGCGAAAATAGTGGGATATTTTCTAAT--T-TAA---T-------CG---TGAAG-AAA------TGGAATCTTAAA-CG-AAATCA--CCAACCTGGTT-GTCAGTATTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTTC---TC---TAATCATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTAAAT-----ATA-AATTATCATT-ATAACCTTGAGG---TG-AAA-ATTATAAAA---TA-AAATTAA--TATA----TTTTTCTCGTTTT-AA--TTTCAATTT-GGT--T--TTTGGA-AGAAATAA-ATTCTAG--------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAA-GT----T-TTACG-----CTC-GTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TGGAAAACTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-A--AATATTC-C-A-ATAGTAA-CCCCTAT------CTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGTCAGGTCCTGAGTGA-CTTA-TTTTACAAGAA-------TTCATATGGCATGCAATGG-TTCCACTNN---NNNNNNNNNNN---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAATGTTTAAAAAAAAATT--AAAAGG
gi|3 : TTGAATCATGTCATACAA-TCCCTA-CACAAAATGCACTTCTACACTTCAACAGTGCATTGCAGG--AAAGAATG--TACAT-TATACATTGC-TATTGTCGTCTGATTCAGCAT
gi|3 : atctatgacAC-TTCTACAC----TTCAACAGTGCATTGCAGGAAAGAA-TGTACATT--ATACA-TTGCT-ATTGTCGTCTGATTCAGCATCCAATAC-AATGATATACACT-GTAC----AGGTAA---TGCCATCTTCAAAGAAAACCGGATGATGAAATA-----TAAGTGGAAGCA-----------TCG----------CCA---ATT--GGCGAAA-TGGTG--ATATTTTCTAGC--T-CTAGCAC-------TG---AGGAGCGAAAA----TGGACTCTTAAA-CA-AAATCA--CCAA-----TTAGTCAGCAGTCTAGTAATATACCACAAGTTCA----GA--TTAATCC-------------CCCCTCCCTTTCCCGTAAT-AT--------AAGGACTCAA------TATC-CAGTCG-TCACCTTCTTTAAT-----ATA---TTATCATC-GTAACCTAGAGGAC-CG-AAACATTGCAAAT---TATAGATCAGAGTATACAAATTTTT----TTTT-TA--TTTTAATTTTGGT--TG-TTTGGA-AGGAATAA-ATTGTAAAATCTGATTA-TTCAGACAATTGGA-AA-TTTGTCTGAAAGAAATATGCACG-TAATGT----T-TTACGCCGCCCTGCATGGCT-ATCccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|3 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcA-TTGAATGCTT--CT-AATGTACATATGCAGTA------CATACGTTTGTTCcgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|4 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcacttctacacttcaacagtgcattgcaggaaagaatgtacattatacattgctattgtcgtctgattcagcatccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatC-------------CCCCTCC---TC---TAAT-ATCAGACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATA---TTATCATT-ATAACCTAGAGGT--CG-AAA-ATTATA----------GATTAA--TATA----TTTTTCTCGTTTTTTA--TTTCAATTTTTGT--TGTTTCAAA-AGAA--AA-ATTCTAGA-------TATTTC-GACAACTTGA-AA-TTATTTC----TAAATATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTG-TT---TTTAA------TTAATCAG-AAAATCTTC-AAAATTTGAAAGCTC--TA-A-TGTGCATGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAATTTTCAC-A-ATAGTAAG-CCCTATNNNN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGG-CCTGAGTGACCTTATTTTTACAAGAA----------AT---GCATGCAATGG-TTCCA--CT---TTCAGGTACATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-----NAAAAAAAATTTAAAAAGGcctcag
gi|5 : -CC-------------CCCCTCC---TC---TAAT-ATC-AACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATA-T-TTATCATT-ATAAC-TAGAGG---TC-GAA-ATTATA----------GATTAC--TATA----TTTTTCTCGTTTT-TAAATTTCAATTTGGGTGGTG-TTCAGA-AGAAA--A-ATTCTAGA-------TA-TTC-GA--ACTTGG-AA-ATATTCT----CAA-TATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAAT------TAATCAGAAAA-TCTTC-AAAA-TTGAAAGCCT--CA-A-TGTGCACGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAA-TTTC-C-A-ATAGTAAGCCCCTAT-----NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTACATGT-ATT-AGGTCCTGA-TGA-CTTATTTTTACAAGA-----------AT---GCATGCAATGG-TTTC
gi|6 : acATTCACTT---------GACAATACGT---AGTCTAAAGTAGACCCACATGAAT---TTGCATATTTTT------TTCAGCATGT------AT-ATTGC-ATGCA-AACTTTTTAGAT----CTCAACAGTGTACTGCAGGAGAGCA-TGTATATTTCGTGCA-TTGC-CACAGC----------C--GTCTGATTC-A------GAATTC-GTACAAGAATACAACGTTCGGGTTTTTAAAT-------------CAGTAAAAGACCAAGTG--AGCAGAAGATGAATTTCAAGTGCTAGCATCATCAATT--CGC-AAAATA---------TTTCTAG-----TGA---CGCCATTTCG---GGGAA-AAAGAC---TGAAATCTTGAA-GA-AAATCA--CCA-----GTCAGTAAGTAGTCTAca
gi|7 : A--TTTCAATGTTGGT--TG-TTTGGA-AGGAATATTATTCTAGA-------TA-TTC-GACAACTTGG-AAACTATTCT----AAAATTTGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTTAGATTTAATGAAATTTAATTAGAGA----TTC-CA------------T--CT-A------ATGTGCAGTA------CATACGTTTGTTCCTA--GAAAC-AAGAATTTTC-CAA-ATAGTAGGCCCacgttattaatatagtct
gi|8 : -AA-TTATTTT----AAGATATACATA-AAGTGT----T-TTACG-----CTCCGTGATT-ATCATCTAGATGAAAGTT-T---------ATGAATTTTAATCAG-AAATTCTTC-AAAA-TTGAAAGCTT--TTAA-TGTACATGTGCAGTAGTTTTCCAAAGGTTTGTTTACA--GTAACAAAAAATTTTC-A-A-ACAGTAGGCCC
gi|9 : aCATGT------AT-ATTAC-ATGTATAAC-TTCTATATATATTTCAACA---CATTGCAGGAATGAA-TGTATATTTCGTGCA-CTGC-TACTGT-------------ATCCAAGACAA------TACTTC-GTAC----ATGTAA---TGGCATCTTCAAAG-------------AAA
Alignments
lowQualScore : 222222222222222222222222222222222 111111111111111111111111111111111111111111111111111111111111111111111111111111111111111
lowQualScore : 22222 1 11 1 111111111111111111111111111111111 1 11 1 11 6666666666666666666 1 1 1 1 222 1 2222 3333333333333 1 4444444444 111 111 22222222 2222222 111111 1111 1111 111 5555555555555 2222222 1111 222 44444444444444 22222 555555555555555555555555555555 111 11 444444444444444444444444 11 2222 11 33333 222222 11 3333333333333 111 111 1 222222 11111 222 333 333333333 11 1111 1111111 1 22222 1111 11111 222 1 11111 111111 555555 1 1 6666666666666666 1 000000000000000000000000000000000000000000000000000000000000000000000000000000000000000 11
lowQualScore : 77777 5 88 5 555555555555555555555555555555555 5 88 5 88 5555555555555555555 5 5 1 5 1 5 111 1 5 1111 5555555555555 3 6666666666 777 1 777 33 3 8 0 6 22222222 8888888 999999 6 6 0 6 4444 4444 2 6 6 555 9999999999999 1 8 4444444 8 1 7777 444 00000000000000 1 00000 66 555555555555555555555555555555 777 3 6 11 111111111111111111111111 11 3 5555 0 8 8 11 22222 9 222222 3 33 8 6666666666666 111 111 6 7 2 1 9 3 888888 5 5 44444 777 55 111 88 6 1 444444444 55 7777 99999 3 99 6 0 6 3 6 8888888 5 5 0 5 00000 5 0 0000 5 22222 5 000 666666 2 7 6 5 22222 5 666666 99 6 2 777 6 777777 3 0 3 55 5 3 4444444444444444 0 222222222222222222222222222222222222222222222222222222222222222222222222222222222222222 88
lowQualScore : ..... . .. . ................................. . .. . .. ................... . . . . . . ... . . .... ............. . .......... ... . ... .. . . . . ........ ....... ...... . . . . .... .... . . . ... ............. . . ....... . . .... ... .............. . ..... .. .............................. ... . . .. ........................ .. . .... . . . .. ..... . ...... . .. . ............. ... ... . . . . . . ...... . . ..... ... .. ... .. . . ......... .. .... ..... . .. . . . . . ....... . . . . ..... . . .... . ..... . ... ...... . . . . ..... . ...... .. . . ... . ...... . . . .. . . ................ . ....................................................................................... ..
lowQualScore : 00000 5 00 5 000000000000000000000000000000000 0 55 0 55 0000000000000000000 5 5 0 5 0 0 555 0 5 5555 3333333333333 3 5555555555 000 0 555 55 2 8 8 0 00000000 3333333 222222 7 7 8 7 2222 5555 5 7 7 222 6666666666666 0 0 0000000 0 0 0000 222 33333333333333 4 00000 00 222222222222222222222222222222 444 2 0 00 444444444444444444444444 88 8 0000 8 0 0 00 22222 8 222222 2 88 0 7777777777777 777 777 7 5 5 3 8 2 000000 0 0 33333 111 99 444 33 7 8 555555555 88 0000 66666 2 22 7 7 7 2 7 6666666 7 7 0 0 99999 0 2 6666 0 55555 0 000 999999 0 5 7 7 33333 7 444444 22 7 5 555 7 000000 2 0 2 88 0 2 2222222222222222 0 777777777777777777777777777777777777777777777777777777777777777777777777777777777777777 33
consensus : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCC-------CCCCCCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAA-TCCCTA-CACAAAATGCACTT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTAT---TTGC-TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT----------A--ATCCAANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATT--CGCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAG-AAAAA----TGGAATCTTAAA-CG-AAATCA--CCAACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-A-TTATCATT-ATAACCTAGAGG---CG-AAA-ATTATAAAA---TATAGATTAA--TATA----TTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGCCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
Reference ( family-1711 ) : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCCCCCC----CCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAA-TCCCTA-CACAAAATGCACTT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTAT---TTGC-TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT----------A--ATCCAANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATT--CGCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAG-AAAAA----TGGAATCTTAAA-CG-AAATCA--CCAACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-A-TTATCATT-ATAACCTAGAGG---CG-AAA-ATTATAAAA---TATAGATTAA--TATA----TTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGCCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
gi|1 : ATTGTTGT-----CTCCTCTTAATTAAA--TCAAA-GTAGAATACCTCCCC----------CCCCCCCCCCCCCCCCCCCCCCCCCCGAAAAAAGC--ATTCAGATCAAA--TTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGATTTTTAATAAAAGCTCC---CAGCA-GCTTCCGCA---AGCGCGGGGTATTGACTGATGTCATACAATTCCCTA-CACAAAATGCACCT---------GATA--ACTT---AGACTAAAGTA-GCCCAC-TG------------------------TTCAG-ATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAA-----CATTGCAG---AGAA-TGTAGATTTCGTGCATTTGTTT--TGT----------AT-CCCCAAAAC-A------AACTTTAGAAC----ATGTAAT--TGGCATATTCAAAA-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATTTGTGCGAAATTAGTG--ATATTGTCTAAT--T-TTA---T-------CGCTTGAGAG--AAAA----TGG-ATCTTAAACCG-AAATCACCCCAACT--GGTTGTCAGTAGTCTAGTCTT-T----TTAATACATTTTGA--TTTA-CCCCCCCCCCCCATCCCCCTCC---TC---TAAT-ATCTGA-AT-AAAGACTC-A-----ATATGCCAGTCGATCACCTTCTTTAAT-----AT--A-TTATCATTCATAACCTAGAGGGTACG--AA-AT------A---TATAGATTAAT-TATA----TTTTTCTCGTATT-AA--TTTCAATTTTGGT--TG-TTTGGAGAAAAATAA-A-TCTAGA-------TA-TTC-GACAACTTGGAAA-TTATCTTA---AAAATATGCATGTTAACGC----TGTTACG-----CTCCGTGACTAATCGTTTAGATG-AAGTTGTTT---TTTTAAGAAA-TTAATCAG-AAAATCTTCAAAAA-TTGAAAGCTCTGCTAA-TGTGCATGGTCAGTA------CATACGTTTGTTCACATTAAAAC-AACAATTTTC-C-AGATAGTAAGCCCCTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGGTCCTG-GTTACCTTATTTTTACAAGAAATTTCATT--AG---GAATGCAATGGTTTCCA-TCTNNNNNNNNNNNNNN---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
gi|10 : tA-------TA-TTC-GACAAATTGGAAA-TTATTCT-----AAATATACATG-TAACGTTCAAT-TTACG-----CTCCCCTGCT-ATCGTCTACATGAAAAGTATTTAAATTTAATAAAATTTAATTAGAAg
gi|11 : AAA-------------GAATTA-----CAAGTGCTAGCG-----------TAA----------TTA---ATT--GATAAAAATAGTG--ATATTTTCTAGTGATATCA---C-------TG---GGAAA-AAAAATATTTGGAATCTTAAA-CGAAAATCA--CC
gi|12 : CTCAA------TGTG-CAGTCG-TCACCTTCTTTAATAATTGATATA-TTATTATT-ATATCCTAGAGGAA-CGAAAA-ATTAAAAAAAATTATAGATCAA--TATtc
gi|13 : -TATTTT-------TTCAGCATGTTTAAAAAT-ATTGT-GTATATAAC-TTCTACAT----TTCAACAGCGCGTTCCAATAAAGTT-TGTATATTTCATGCA-TTGtat
gi|14 : caTAGTCTAGTCTT-T----CAAGTTCATTTTGATTTTAA-CA-------------CCCTTCT---TC---TAAT-TGCTGGCAT-AAAGACTC-A-----ATATG-CAGTCG-TCACC
gi|15 : ACTCAATCTGAAGATG-ATGTTG-TTACCCTCTTCAAT-----ATA---TTATCAT----AACCTGGAGG---
gi|16 : GCCCACATGTAT---TTACCTATTTT-------TTCAGCATTT------ATAATTAC-AT
gi|2 : ATTGTTGTTCTTTCTCCTCTTA-TTAAAGTTCAAAAGTAGAATACCCCCCCCCC------------------------------CCC-AAGAAAGCAAATT-AGATCAAAATTTGAAATAGGAG-------------------AT-AACAAAGAA-CCTGCGAGTTT-AATCAAA-TTCTTTTCGGGATGCTCCCGCTCGTAGCGCGGGGTATTGACT--------------CCCTAACACAAAATGCACTT----------ATAA--CTT---AGCCTAA-GTAGGCCCA-ATGTAT---TTACCTATTTT-------TTCAGCATGT------AT-ATTACCATGCATAAC-TTCTATAT----TTCAAC--CACATTGCAGGAAAGAAATGTATATTTCGTGCA-TTGTTTACTGT----------A--ATCCAAAGC-A------TACTTT-TGAC----ATGTAAC--TGGCATCTTCAA---------------GAAATA-----CCAGTGCTAGCA-----------TCA----------T-A---ATT--TGCGAAAATAGTGGGATATTTTCTAAT--T-TAA---T-------CG---TGAAG-AAA------TGGAATCTTAAA-CG-AAATCA--CCAACCTGGTT-GTCAGTATTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTTC---TC---TAATCATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTAAAT-----ATA-AATTATCATT-ATAACCTTGAGG---TG-AAA-ATTATAAAA---TA-AAATTAA--TATA----TTTTTCTCGTTTT-AA--TTTCAATTT-GGT--T--TTTGGA-AGAAATAA-ATTCTAG--------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAA-GT----T-TTACG-----CTC-GTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TGGAAAACTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-A--AATATTC-C-A-ATAGTAA-CCCCTAT------CTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGTCAGGTCCTGAGTGA-CTTA-TTTTACAAGAA-------TTCATATGGCATGCAATGG-TTCCACTNN---NNNNNNNNNNN---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAATGTTTAAAAAAAAATT--AAAAGG
gi|3 : TTGAATCATGTCATACAA-TCCCTA-CACAAAATGCACTTCTACACTTCAACAGTGCATTGCAGG--AAAGAATG--TACAT-TATACATTGC-TATTGTCGTCTGATTCAGCAT
gi|3 : atctatgacAC-TTCTACAC----TTCAACAGTGCATTGCAGGAAAGAA-TGTACATT--ATACA-TTGCT-ATTGTCGTCTGATTCAGCATCCAATAC-AATGATATACACT-GTAC----AGGTAA---TGCCATCTTCAAAGAAAACCGGATGATGAAATA-----TAAGTGGAAGCA-----------TCG----------CCA---ATT--GGCGAAA-TGGTG--ATATTTTCTAGC--T-CTAGCAC-------TG---AGGAGCGAAAA----TGGACTCTTAAA-CA-AAATCA--CCAA-----TTAGTCAGCAGTCTAGTAATATACCACAAGTTCA----GA--TTAATCC-------------CCCCTCCCTTTCCCGTAAT-AT--------AAGGACTCAA------TATC-CAGTCG-TCACCTTCTTTAAT-----ATA---TTATCATC-GTAACCTAGAGGAC-CG-AAACATTGCAAAT---TATAGATCAGAGTATACAAATTTTT----TTTT-TA--TTTTAATTTTGGT--TG-TTTGGA-AGGAATAA-ATTGTAAAATCTGATTA-TTCAGACAATTGGA-AA-TTTGTCTGAAAGAAATATGCACG-TAATGT----T-TTACGCCGCCCTGCATGGCT-ATCccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|3 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcA-TTGAATGCTT--CT-AATGTACATATGCAGTA------CATACGTTTGTTCcgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|4 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcacttctacacttcaacagtgcattgcaggaaagaatgtacattatacattgctattgtcgtctgattcagcatccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatC-------------CCCCTCC---TC---TAAT-ATCAGACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATA---TTATCATT-ATAACCTAGAGGT--CG-AAA-ATTATA----------GATTAA--TATA----TTTTTCTCGTTTTTTA--TTTCAATTTTTGT--TGTTTCAAA-AGAA--AA-ATTCTAGA-------TATTTC-GACAACTTGA-AA-TTATTTC----TAAATATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTG-TT---TTTAA------TTAATCAG-AAAATCTTC-AAAATTTGAAAGCTC--TA-A-TGTGCATGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAATTTTCAC-A-ATAGTAAG-CCCTATNNNN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGG-CCTGAGTGACCTTATTTTTACAAGAA----------AT---GCATGCAATGG-TTCCA--CT---TTCAGGTACATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-----NAAAAAAAATTTAAAAAGGcctcag
gi|5 : -CC-------------CCCCTCC---TC---TAAT-ATC-AACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATA-T-TTATCATT-ATAAC-TAGAGG---TC-GAA-ATTATA----------GATTAC--TATA----TTTTTCTCGTTTT-TAAATTTCAATTTGGGTGGTG-TTCAGA-AGAAA--A-ATTCTAGA-------TA-TTC-GA--ACTTGG-AA-ATATTCT----CAA-TATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAAT------TAATCAGAAAA-TCTTC-AAAA-TTGAAAGCCT--CA-A-TGTGCACGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAA-TTTC-C-A-ATAGTAAGCCCCTAT-----NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTACATGT-ATT-AGGTCCTGA-TGA-CTTATTTTTACAAGA-----------AT---GCATGCAATGG-TTTC
gi|6 : acATTCACTT---------GACAATACGT---AGTCTAAAGTAGACCCACATGAAT---TTGCATATTTTT------TTCAGCATGT------AT-ATTGC-ATGCA-AACTTTTTAGAT----CTCAACAGTGTACTGCAGGAGAGCA-TGTATATTTCGTGCA-TTGC-CACAGC----------C--GTCTGATTC-A------GAATTC-GTACAAGAATACAACGTTCGGGTTTTTAAAT-------------CAGTAAAAGACCAAGTG--AGCAGAAGATGAATTTCAAGTGCTAGCATCATCAATT--CGC-AAAATA---------TTTCTAG-----TGA---CGCCATTTCG---GGGAA-AAAGAC---TGAAATCTTGAA-GA-AAATCA--CCA-----GTCAGTAAGTAGTCTAca
gi|7 : A--TTTCAATGTTGGT--TG-TTTGGA-AGGAATATTATTCTAGA-------TA-TTC-GACAACTTGG-AAACTATTCT----AAAATTTGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTTAGATTTAATGAAATTTAATTAGAGA----TTC-CA------------T--CT-A------ATGTGCAGTA------CATACGTTTGTTCCTA--GAAAC-AAGAATTTTC-CAA-ATAGTAGGCCCacgttattaatatagtct
gi|8 : -AA-TTATTTT----AAGATATACATA-AAGTGT----T-TTACG-----CTCCGTGATT-ATCATCTAGATGAAAGTT-T---------ATGAATTTTAATCAG-AAATTCTTC-AAAA-TTGAAAGCTT--TTAA-TGTACATGTGCAGTAGTTTTCCAAAGGTTTGTTTACA--GTAACAAAAAATTTTC-A-A-ACAGTAGGCCC
gi|9 : aCATGT------AT-ATTAC-ATGTATAAC-TTCTATATATATTTCAACA---CATTGCAGGAATGAA-TGTATATTTCGTGCA-CTGC-TACTGT-------------ATCCAAGACAA------TACTTC-GTAC----ATGTAA---TGGCATCTTCAAAG-------------AAA
Alignments
lowQualScore : 1111111111111111111111111111111111 111111111111111111111111111111111111111111111111111111111111111111111111111111111111111
lowQualScore : 22222 1 11 1 4444444444444444444444444444444444 11 1 11 6666666666666666666 1 1 1 1 222 1 2222 3333333333333 1 4444444444 111 111 22222222 2222222 111111 1111 1111 111 5555555555555 2222222 1111 222 44444444444444 22222 555555555555555555555555555555 111 11 444444444444444444444444 11 2222 11 33333 222222 11 3333333333333 111 111 1 222222 11111 222 333 333333333 11 1111 1111111 1 22222 1111 11111 222 1 11111 111111 555555 1 1 6666666666666666 1 000000000000000000000000000000000000000000000000000000000000000000000000000000000000000 11
lowQualScore : 77777 5 88 5 2222222222222222222222222222222222 88 5 88 5555555555555555555 5 5 1 5 1 5 111 1 5 1111 5555555555555 3 6666666666 777 1 777 33 3 8 0 6 22222222 8888888 999999 6 6 0 6 4444 4444 2 6 6 555 9999999999999 1 8 4444444 8 1 7777 444 00000000000000 1 00000 66 555555555555555555555555555555 777 3 6 11 111111111111111111111111 11 3 5555 0 8 8 11 22222 9 222222 3 33 8 6666666666666 111 111 6 7 2 1 9 3 888888 5 5 44444 777 55 111 88 6 1 444444444 55 7777 99999 3 99 6 0 6 3 6 8888888 5 5 0 5 00000 5 0 0000 5 22222 5 000 666666 2 7 6 5 22222 5 666666 99 6 2 777 6 777777 3 0 3 55 5 3 4444444444444444 0 222222222222222222222222222222222222222222222222222222222222222222222222222222222222222 88
lowQualScore : ..... . .. . .................................. .. . .. ................... . . . . . . ... . . .... ............. . .......... ... . ... .. . . . . ........ ....... ...... . . . . .... .... . . . ... ............. . . ....... . . .... ... .............. . ..... .. .............................. ... . . .. ........................ .. . .... . . . .. ..... . ...... . .. . ............. ... ... . . . . . . ...... . . ..... ... .. ... .. . . ......... .. .... ..... . .. . . . . . ....... . . . . ..... . . .... . ..... . ... ...... . . . . ..... . ...... .. . . ... . ...... . . . .. . . ................ . ....................................................................................... ..
lowQualScore : 00000 5 00 5 5555555555555555555555555555555555 55 0 55 0000000000000000000 5 5 0 5 0 0 555 0 5 5555 3333333333333 3 5555555555 000 0 555 55 2 8 8 0 00000000 3333333 222222 7 7 8 7 2222 5555 5 7 7 222 6666666666666 0 0 0000000 0 0 0000 222 33333333333333 4 00000 00 222222222222222222222222222222 444 2 0 00 444444444444444444444444 88 8 0000 8 0 0 00 22222 8 222222 2 88 0 7777777777777 777 777 7 5 5 3 8 2 000000 0 0 33333 111 99 444 33 7 8 555555555 88 0000 66666 2 22 7 7 7 2 7 6666666 7 7 0 0 99999 0 2 6666 0 55555 0 000 999999 0 5 7 7 33333 7 444444 22 7 5 555 7 000000 2 0 2 88 0 2 2222222222222222 0 777777777777777777777777777777777777777777777777777777777777777777777777777777777777777 33
consensus : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAA-TCCCTA-CACAAAATGCACTT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTAT---TTGC-TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT----------A--ATCCAANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATT--CGCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAG-AAAAA----TGGAATCTTAAA-CG-AAATCA--CCAACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-A-TTATCATT-ATAACCTAGAGG---CG-AAA-ATTATAAAA---TATAGATTAA--TATA----TTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGCCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
Reference ( family-1711 ) : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCCC----CCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAA-TCCCTA-CACAAAATGCACTT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTAT---TTGC-TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT----------A--ATCCAANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATT--CGCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAG-AAAAA----TGGAATCTTAAA-CG-AAATCA--CCAACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-A-TTATCATT-ATAACCTAGAGG---CG-AAA-ATTATAAAA---TATAGATTAA--TATA----TTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGCCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
gi|1 : ATTGTTGT-----CTCCTCTTAATTAAA--TCAAA-GTAGAATACCTCCCC-------CCCCCCCCCCCCCCCCCCCCCCCCCCGAAAAAAGC--ATTCAGATCAAA--TTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGATTTTTAATAAAAGCTCC---CAGCA-GCTTCCGCA---AGCGCGGGGTATTGACTGATGTCATACAATTCCCTA-CACAAAATGCACCT---------GATA--ACTT---AGACTAAAGTA-GCCCAC-TG------------------------TTCAG-ATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAA-----CATTGCAG---AGAA-TGTAGATTTCGTGCATTTGTTT--TGT----------AT-CCCCAAAAC-A------AACTTTAGAAC----ATGTAAT--TGGCATATTCAAAA-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATTTGTGCGAAATTAGTG--ATATTGTCTAAT--T-TTA---T-------CGCTTGAGAG--AAAA----TGG-ATCTTAAACCG-AAATCACCCCAACT--GGTTGTCAGTAGTCTAGTCTT-T----TTAATACATTTTGA--TTTA-CCCCCCCCCCCCATCCCCCTCC---TC---TAAT-ATCTGA-AT-AAAGACTC-A-----ATATGCCAGTCGATCACCTTCTTTAAT-----AT--A-TTATCATTCATAACCTAGAGGGTACG--AA-AT------A---TATAGATTAAT-TATA----TTTTTCTCGTATT-AA--TTTCAATTTTGGT--TG-TTTGGAGAAAAATAA-A-TCTAGA-------TA-TTC-GACAACTTGGAAA-TTATCTTA---AAAATATGCATGTTAACGC----TGTTACG-----CTCCGTGACTAATCGTTTAGATG-AAGTTGTTT---TTTTAAGAAA-TTAATCAG-AAAATCTTCAAAAA-TTGAAAGCTCTGCTAA-TGTGCATGGTCAGTA------CATACGTTTGTTCACATTAAAAC-AACAATTTTC-C-AGATAGTAAGCCCCTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGGTCCTG-GTTACCTTATTTTTACAAGAAATTTCATT--AG---GAATGCAATGGTTTCCA-TCTNNNNNNNNNNNNNN---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
gi|10 : tA-------TA-TTC-GACAAATTGGAAA-TTATTCT-----AAATATACATG-TAACGTTCAAT-TTACG-----CTCCCCTGCT-ATCGTCTACATGAAAAGTATTTAAATTTAATAAAATTTAATTAGAAg
gi|11 : AAA-------------GAATTA-----CAAGTGCTAGCG-----------TAA----------TTA---ATT--GATAAAAATAGTG--ATATTTTCTAGTGATATCA---C-------TG---GGAAA-AAAAATATTTGGAATCTTAAA-CGAAAATCA--CC
gi|12 : CTCAA------TGTG-CAGTCG-TCACCTTCTTTAATAATTGATATA-TTATTATT-ATATCCTAGAGGAA-CGAAAA-ATTAAAAAAAATTATAGATCAA--TATtc
gi|13 : -TATTTT-------TTCAGCATGTTTAAAAAT-ATTGT-GTATATAAC-TTCTACAT----TTCAACAGCGCGTTCCAATAAAGTT-TGTATATTTCATGCA-TTGtat
gi|14 : caTAGTCTAGTCTT-T----CAAGTTCATTTTGATTTTAA-CA-------------CCCTTCT---TC---TAAT-TGCTGGCAT-AAAGACTC-A-----ATATG-CAGTCG-TCACC
gi|15 : ACTCAATCTGAAGATG-ATGTTG-TTACCCTCTTCAAT-----ATA---TTATCAT----AACCTGGAGG---
gi|16 : GCCCACATGTAT---TTACCTATTTT-------TTCAGCATTT------ATAATTAC-AT
gi|2 : ATTGTTGTTCTTTCTCCTCTTA-TTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCC----------------------------AAGAAAGCAAATT-AGATCAAAATTTGAAATAGGAG-------------------AT-AACAAAGAA-CCTGCGAGTTT-AATCAAA-TTCTTTTCGGGATGCTCCCGCTCGTAGCGCGGGGTATTGACT--------------CCCTAACACAAAATGCACTT----------ATAA--CTT---AGCCTAA-GTAGGCCCA-ATGTAT---TTACCTATTTT-------TTCAGCATGT------AT-ATTACCATGCATAAC-TTCTATAT----TTCAAC--CACATTGCAGGAAAGAAATGTATATTTCGTGCA-TTGTTTACTGT----------A--ATCCAAAGC-A------TACTTT-TGAC----ATGTAAC--TGGCATCTTCAA---------------GAAATA-----CCAGTGCTAGCA-----------TCA----------T-A---ATT--TGCGAAAATAGTGGGATATTTTCTAAT--T-TAA---T-------CG---TGAAG-AAA------TGGAATCTTAAA-CG-AAATCA--CCAACCTGGTT-GTCAGTATTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTTC---TC---TAATCATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTAAAT-----ATA-AATTATCATT-ATAACCTTGAGG---TG-AAA-ATTATAAAA---TA-AAATTAA--TATA----TTTTTCTCGTTTT-AA--TTTCAATTT-GGT--T--TTTGGA-AGAAATAA-ATTCTAG--------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAA-GT----T-TTACG-----CTC-GTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TGGAAAACTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-A--AATATTC-C-A-ATAGTAA-CCCCTAT------CTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGTCAGGTCCTGAGTGA-CTTA-TTTTACAAGAA-------TTCATATGGCATGCAATGG-TTCCACTNN---NNNNNNNNNNN---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAATGTTTAAAAAAAAATT--AAAAGG
gi|3 : TTGAATCATGTCATACAA-TCCCTA-CACAAAATGCACTTCTACACTTCAACAGTGCATTGCAGG--AAAGAATG--TACAT-TATACATTGC-TATTGTCGTCTGATTCAGCAT
gi|3 : atctatgacAC-TTCTACAC----TTCAACAGTGCATTGCAGGAAAGAA-TGTACATT--ATACA-TTGCT-ATTGTCGTCTGATTCAGCATCCAATAC-AATGATATACACT-GTAC----AGGTAA---TGCCATCTTCAAAGAAAACCGGATGATGAAATA-----TAAGTGGAAGCA-----------TCG----------CCA---ATT--GGCGAAA-TGGTG--ATATTTTCTAGC--T-CTAGCAC-------TG---AGGAGCGAAAA----TGGACTCTTAAA-CA-AAATCA--CCAA-----TTAGTCAGCAGTCTAGTAATATACCACAAGTTCA----GA--TTAATCC-------------CCCCTCCCTTTCCCGTAAT-AT--------AAGGACTCAA------TATC-CAGTCG-TCACCTTCTTTAAT-----ATA---TTATCATC-GTAACCTAGAGGAC-CG-AAACATTGCAAAT---TATAGATCAGAGTATACAAATTTTT----TTTT-TA--TTTTAATTTTGGT--TG-TTTGGA-AGGAATAA-ATTGTAAAATCTGATTA-TTCAGACAATTGGA-AA-TTTGTCTGAAAGAAATATGCACG-TAATGT----T-TTACGCCGCCCTGCATGGCT-ATCccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|3 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcA-TTGAATGCTT--CT-AATGTACATATGCAGTA------CATACGTTTGTTCcgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|4 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcacttctacacttcaacagtgcattgcaggaaagaatgtacattatacattgctattgtcgtctgattcagcatccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatC-------------CCCCTCC---TC---TAAT-ATCAGACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATA---TTATCATT-ATAACCTAGAGGT--CG-AAA-ATTATA----------GATTAA--TATA----TTTTTCTCGTTTTTTA--TTTCAATTTTTGT--TGTTTCAAA-AGAA--AA-ATTCTAGA-------TATTTC-GACAACTTGA-AA-TTATTTC----TAAATATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTG-TT---TTTAA------TTAATCAG-AAAATCTTC-AAAATTTGAAAGCTC--TA-A-TGTGCATGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAATTTTCAC-A-ATAGTAAG-CCCTATNNNN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGG-CCTGAGTGACCTTATTTTTACAAGAA----------AT---GCATGCAATGG-TTCCA--CT---TTCAGGTACATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-----NAAAAAAAATTTAAAAAGGcctcag
gi|5 : -CC-------------CCCCTCC---TC---TAAT-ATC-AACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATA-T-TTATCATT-ATAAC-TAGAGG---TC-GAA-ATTATA----------GATTAC--TATA----TTTTTCTCGTTTT-TAAATTTCAATTTGGGTGGTG-TTCAGA-AGAAA--A-ATTCTAGA-------TA-TTC-GA--ACTTGG-AA-ATATTCT----CAA-TATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAAT------TAATCAGAAAA-TCTTC-AAAA-TTGAAAGCCT--CA-A-TGTGCACGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAA-TTTC-C-A-ATAGTAAGCCCCTAT-----NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTACATGT-ATT-AGGTCCTGA-TGA-CTTATTTTTACAAGA-----------AT---GCATGCAATGG-TTTC
gi|6 : acATTCACTT---------GACAATACGT---AGTCTAAAGTAGACCCACATGAAT---TTGCATATTTTT------TTCAGCATGT------AT-ATTGC-ATGCA-AACTTTTTAGAT----CTCAACAGTGTACTGCAGGAGAGCA-TGTATATTTCGTGCA-TTGC-CACAGC----------C--GTCTGATTC-A------GAATTC-GTACAAGAATACAACGTTCGGGTTTTTAAAT-------------CAGTAAAAGACCAAGTG--AGCAGAAGATGAATTTCAAGTGCTAGCATCATCAATT--CGC-AAAATA---------TTTCTAG-----TGA---CGCCATTTCG---GGGAA-AAAGAC---TGAAATCTTGAA-GA-AAATCA--CCA-----GTCAGTAAGTAGTCTAca
gi|7 : A--TTTCAATGTTGGT--TG-TTTGGA-AGGAATATTATTCTAGA-------TA-TTC-GACAACTTGG-AAACTATTCT----AAAATTTGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTTAGATTTAATGAAATTTAATTAGAGA----TTC-CA------------T--CT-A------ATGTGCAGTA------CATACGTTTGTTCCTA--GAAAC-AAGAATTTTC-CAA-ATAGTAGGCCCacgttattaatatagtct
gi|8 : -AA-TTATTTT----AAGATATACATA-AAGTGT----T-TTACG-----CTCCGTGATT-ATCATCTAGATGAAAGTT-T---------ATGAATTTTAATCAG-AAATTCTTC-AAAA-TTGAAAGCTT--TTAA-TGTACATGTGCAGTAGTTTTCCAAAGGTTTGTTTACA--GTAACAAAAAATTTTC-A-A-ACAGTAGGCCC
gi|9 : aCATGT------AT-ATTAC-ATGTATAAC-TTCTATATATATTTCAACA---CATTGCAGGAATGAA-TGTATATTTCGTGCA-CTGC-TACTGT-------------ATCCAAGACAA------TACTTC-GTAC----ATGTAA---TGGCATCTTCAAAG-------------AAA
Alignments
lowQualScore : 222222222222222222222222222222222 111111111111111111111111111111111111111111111111111111111111111111111111111111111111111
lowQualScore : 22222 1 11 1 111111111111111111111111111111111 1 11 1 11 6666666666666666666 1 1 1 1 222 1 2222 3333333333333 1 4444444444 111 111 22222222 2222222 111111 1111 1111 111 5555555555555 2222222 1111 222 44444444444444 22222 555555555555555555555555555555 111 11 444444444444444444444444 11 2222 11 33333 222222 11 3333333333333 111 111 1 222222 11111 222 333 333333333 11 1111 1111111 1 22222 1111 11111 222 1 11111 111111 555555 1 1 6666666666666666 1 000000000000000000000000000000000000000000000000000000000000000000000000000000000000000 11
lowQualScore : 77777 5 88 5 555555555555555555555555555555555 5 88 5 88 5555555555555555555 5 5 1 5 1 5 111 1 5 1111 5555555555555 3 6666666666 777 1 777 33 3 8 0 6 22222222 8888888 999999 6 6 0 6 4444 4444 2 6 6 555 9999999999999 1 8 4444444 8 1 7777 444 00000000000000 1 00000 66 555555555555555555555555555555 777 3 6 11 111111111111111111111111 11 3 5555 0 8 8 11 22222 9 222222 3 33 8 6666666666666 111 111 6 7 2 1 9 3 888888 5 5 44444 777 55 111 88 6 1 444444444 55 7777 99999 3 99 6 0 6 3 6 8888888 5 5 0 5 00000 5 0 0000 5 22222 5 000 666666 2 7 6 5 22222 5 666666 99 6 2 777 6 777777 3 0 3 55 5 3 4444444444444444 0 222222222222222222222222222222222222222222222222222222222222222222222222222222222222222 88
lowQualScore : ..... . .. . ................................. . .. . .. ................... . . . . . . ... . . .... ............. . .......... ... . ... .. . . . . ........ ....... ...... . . . . .... .... . . . ... ............. . . ....... . . .... ... .............. . ..... .. .............................. ... . . .. ........................ .. . .... . . . .. ..... . ...... . .. . ............. ... ... . . . . . . ...... . . ..... ... .. ... .. . . ......... .. .... ..... . .. . . . . . ....... . . . . ..... . . .... . ..... . ... ...... . . . . ..... . ...... .. . . ... . ...... . . . .. . . ................ . ....................................................................................... ..
lowQualScore : 00000 5 00 5 000000000000000000000000000000000 0 55 0 55 0000000000000000000 5 5 0 5 0 0 555 0 5 5555 3333333333333 3 5555555555 000 0 555 55 2 8 8 0 00000000 3333333 222222 7 7 8 7 2222 5555 5 7 7 222 6666666666666 0 0 0000000 0 0 0000 222 33333333333333 4 00000 00 222222222222222222222222222222 444 2 0 00 444444444444444444444444 88 8 0000 8 0 0 00 22222 8 222222 2 88 0 7777777777777 777 777 7 5 5 3 8 2 000000 0 0 33333 111 99 444 33 7 8 555555555 88 0000 66666 2 22 7 7 7 2 7 6666666 7 7 0 0 99999 0 2 6666 0 55555 0 000 999999 0 5 7 7 33333 7 444444 22 7 5 555 7 000000 2 0 2 88 0 2 2222222222222222 0 777777777777777777777777777777777777777777777777777777777777777777777777777777777777777 33
consensus : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCC-------CCCCCCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAA-TCCCTA-CACAAAATGCACTT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTAT---TTGC-TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT----------A--ATCCAANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATT--CGCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAG-AAAAA----TGGAATCTTAAA-CG-AAATCA--CCAACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-A-TTATCATT-ATAACCTAGAGG---CG-AAA-ATTATAAAA---TATAGATTAA--TATA----TTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGCCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
Reference ( family-1711 ) : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCCCCCC----CCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAA-TCCCTA-CACAAAATGCACTT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTAT---TTGC-TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT----------A--ATCCAANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATT--CGCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAG-AAAAA----TGGAATCTTAAA-CG-AAATCA--CCAACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-A-TTATCATT-ATAACCTAGAGG---CG-AAA-ATTATAAAA---TATAGATTAA--TATA----TTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGCCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
gi|1 : ATTGTTGT-----CTCCTCTTAATTAAA--TCAAA-GTAGAATACCTCCCC----------CCCCCCCCCCCCCCCCCCCCCCCCCCGAAAAAAGC--ATTCAGATCAAA--TTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGATTTTTAATAAAAGCTCC---CAGCA-GCTTCCGCA---AGCGCGGGGTATTGACTGATGTCATACAATTCCCTA-CACAAAATGCACCT---------GATA--ACTT---AGACTAAAGTA-GCCCAC-TG------------------------TTCAG-ATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAA-----CATTGCAG---AGAA-TGTAGATTTCGTGCATTTGTTT--TGT----------AT-CCCCAAAAC-A------AACTTTAGAAC----ATGTAAT--TGGCATATTCAAAA-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATTTGTGCGAAATTAGTG--ATATTGTCTAAT--T-TTA---T-------CGCTTGAGAG--AAAA----TGG-ATCTTAAACCG-AAATCACCCCAACT--GGTTGTCAGTAGTCTAGTCTT-T----TTAATACATTTTGA--TTTA-CCCCCCCCCCCCATCCCCCTCC---TC---TAAT-ATCTGA-AT-AAAGACTC-A-----ATATGCCAGTCGATCACCTTCTTTAAT-----AT--A-TTATCATTCATAACCTAGAGGGTACG--AA-AT------A---TATAGATTAAT-TATA----TTTTTCTCGTATT-AA--TTTCAATTTTGGT--TG-TTTGGAGAAAAATAA-A-TCTAGA-------TA-TTC-GACAACTTGGAAA-TTATCTTA---AAAATATGCATGTTAACGC----TGTTACG-----CTCCGTGACTAATCGTTTAGATG-AAGTTGTTT---TTTTAAGAAA-TTAATCAG-AAAATCTTCAAAAA-TTGAAAGCTCTGCTAA-TGTGCATGGTCAGTA------CATACGTTTGTTCACATTAAAAC-AACAATTTTC-C-AGATAGTAAGCCCCTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGGTCCTG-GTTACCTTATTTTTACAAGAAATTTCATT--AG---GAATGCAATGGTTTCCA-TCTNNNNNNNNNNNNNN---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
gi|10 : tA-------TA-TTC-GACAAATTGGAAA-TTATTCT-----AAATATACATG-TAACGTTCAAT-TTACG-----CTCCCCTGCT-ATCGTCTACATGAAAAGTATTTAAATTTAATAAAATTTAATTAGAAg
gi|11 : AAA-------------GAATTA-----CAAGTGCTAGCG-----------TAA----------TTA---ATT--GATAAAAATAGTG--ATATTTTCTAGTGATATCA---C-------TG---GGAAA-AAAAATATTTGGAATCTTAAA-CGAAAATCA--CC
gi|12 : CTCAA------TGTG-CAGTCG-TCACCTTCTTTAATAATTGATATA-TTATTATT-ATATCCTAGAGGAA-CGAAAA-ATTAAAAAAAATTATAGATCAA--TATtc
gi|13 : -TATTTT-------TTCAGCATGTTTAAAAAT-ATTGT-GTATATAAC-TTCTACAT----TTCAACAGCGCGTTCCAATAAAGTT-TGTATATTTCATGCA-TTGtat
gi|14 : caTAGTCTAGTCTT-T----CAAGTTCATTTTGATTTTAA-CA-------------CCCTTCT---TC---TAAT-TGCTGGCAT-AAAGACTC-A-----ATATG-CAGTCG-TCACC
gi|15 : ACTCAATCTGAAGATG-ATGTTG-TTACCCTCTTCAAT-----ATA---TTATCAT----AACCTGGAGG---
gi|16 : GCCCACATGTAT---TTACCTATTTT-------TTCAGCATTT------ATAATTAC-AT
gi|2 : ATTGTTGTTCTTTCTCCTCTTA-TTAAAGTTCAAAAGTAGAATACCCCCCCCCC------------------------------CCC-AAGAAAGCAAATT-AGATCAAAATTTGAAATAGGAG-------------------AT-AACAAAGAA-CCTGCGAGTTT-AATCAAA-TTCTTTTCGGGATGCTCCCGCTCGTAGCGCGGGGTATTGACT--------------CCCTAACACAAAATGCACTT----------ATAA--CTT---AGCCTAA-GTAGGCCCA-ATGTAT---TTACCTATTTT-------TTCAGCATGT------AT-ATTACCATGCATAAC-TTCTATAT----TTCAAC--CACATTGCAGGAAAGAAATGTATATTTCGTGCA-TTGTTTACTGT----------A--ATCCAAAGC-A------TACTTT-TGAC----ATGTAAC--TGGCATCTTCAA---------------GAAATA-----CCAGTGCTAGCA-----------TCA----------T-A---ATT--TGCGAAAATAGTGGGATATTTTCTAAT--T-TAA---T-------CG---TGAAG-AAA------TGGAATCTTAAA-CG-AAATCA--CCAACCTGGTT-GTCAGTATTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTTC---TC---TAATCATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTAAAT-----ATA-AATTATCATT-ATAACCTTGAGG---TG-AAA-ATTATAAAA---TA-AAATTAA--TATA----TTTTTCTCGTTTT-AA--TTTCAATTT-GGT--T--TTTGGA-AGAAATAA-ATTCTAG--------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAA-GT----T-TTACG-----CTC-GTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TGGAAAACTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-A--AATATTC-C-A-ATAGTAA-CCCCTAT------CTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGTCAGGTCCTGAGTGA-CTTA-TTTTACAAGAA-------TTCATATGGCATGCAATGG-TTCCACTNN---NNNNNNNNNNN---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAATGTTTAAAAAAAAATT--AAAAGG
gi|3 : TTGAATCATGTCATACAA-TCCCTA-CACAAAATGCACTTCTACACTTCAACAGTGCATTGCAGG--AAAGAATG--TACAT-TATACATTGC-TATTGTCGTCTGATTCAGCAT
gi|3 : atctatgacAC-TTCTACAC----TTCAACAGTGCATTGCAGGAAAGAA-TGTACATT--ATACA-TTGCT-ATTGTCGTCTGATTCAGCATCCAATAC-AATGATATACACT-GTAC----AGGTAA---TGCCATCTTCAAAGAAAACCGGATGATGAAATA-----TAAGTGGAAGCA-----------TCG----------CCA---ATT--GGCGAAA-TGGTG--ATATTTTCTAGC--T-CTAGCAC-------TG---AGGAGCGAAAA----TGGACTCTTAAA-CA-AAATCA--CCAA-----TTAGTCAGCAGTCTAGTAATATACCACAAGTTCA----GA--TTAATCC-------------CCCCTCCCTTTCCCGTAAT-AT--------AAGGACTCAA------TATC-CAGTCG-TCACCTTCTTTAAT-----ATA---TTATCATC-GTAACCTAGAGGAC-CG-AAACATTGCAAAT---TATAGATCAGAGTATACAAATTTTT----TTTT-TA--TTTTAATTTTGGT--TG-TTTGGA-AGGAATAA-ATTGTAAAATCTGATTA-TTCAGACAATTGGA-AA-TTTGTCTGAAAGAAATATGCACG-TAATGT----T-TTACGCCGCCCTGCATGGCT-ATCccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|3 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcA-TTGAATGCTT--CT-AATGTACATATGCAGTA------CATACGTTTGTTCcgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|4 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcacttctacacttcaacagtgcattgcaggaaagaatgtacattatacattgctattgtcgtctgattcagcatccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatC-------------CCCCTCC---TC---TAAT-ATCAGACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATA---TTATCATT-ATAACCTAGAGGT--CG-AAA-ATTATA----------GATTAA--TATA----TTTTTCTCGTTTTTTA--TTTCAATTTTTGT--TGTTTCAAA-AGAA--AA-ATTCTAGA-------TATTTC-GACAACTTGA-AA-TTATTTC----TAAATATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTG-TT---TTTAA------TTAATCAG-AAAATCTTC-AAAATTTGAAAGCTC--TA-A-TGTGCATGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAATTTTCAC-A-ATAGTAAG-CCCTATNNNN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGG-CCTGAGTGACCTTATTTTTACAAGAA----------AT---GCATGCAATGG-TTCCA--CT---TTCAGGTACATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-----NAAAAAAAATTTAAAAAGGcctcag
gi|5 : -CC-------------CCCCTCC---TC---TAAT-ATC-AACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATA-T-TTATCATT-ATAAC-TAGAGG---TC-GAA-ATTATA----------GATTAC--TATA----TTTTTCTCGTTTT-TAAATTTCAATTTGGGTGGTG-TTCAGA-AGAAA--A-ATTCTAGA-------TA-TTC-GA--ACTTGG-AA-ATATTCT----CAA-TATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAAT------TAATCAGAAAA-TCTTC-AAAA-TTGAAAGCCT--CA-A-TGTGCACGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAA-TTTC-C-A-ATAGTAAGCCCCTAT-----NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTACATGT-ATT-AGGTCCTGA-TGA-CTTATTTTTACAAGA-----------AT---GCATGCAATGG-TTTC
gi|6 : acATTCACTT---------GACAATACGT---AGTCTAAAGTAGACCCACATGAAT---TTGCATATTTTT------TTCAGCATGT------AT-ATTGC-ATGCA-AACTTTTTAGAT----CTCAACAGTGTACTGCAGGAGAGCA-TGTATATTTCGTGCA-TTGC-CACAGC----------C--GTCTGATTC-A------GAATTC-GTACAAGAATACAACGTTCGGGTTTTTAAAT-------------CAGTAAAAGACCAAGTG--AGCAGAAGATGAATTTCAAGTGCTAGCATCATCAATT--CGC-AAAATA---------TTTCTAG-----TGA---CGCCATTTCG---GGGAA-AAAGAC---TGAAATCTTGAA-GA-AAATCA--CCA-----GTCAGTAAGTAGTCTAca
gi|7 : A--TTTCAATGTTGGT--TG-TTTGGA-AGGAATATTATTCTAGA-------TA-TTC-GACAACTTGG-AAACTATTCT----AAAATTTGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTTAGATTTAATGAAATTTAATTAGAGA----TTC-CA------------T--CT-A------ATGTGCAGTA------CATACGTTTGTTCCTA--GAAAC-AAGAATTTTC-CAA-ATAGTAGGCCCacgttattaatatagtct
gi|8 : -AA-TTATTTT----AAGATATACATA-AAGTGT----T-TTACG-----CTCCGTGATT-ATCATCTAGATGAAAGTT-T---------ATGAATTTTAATCAG-AAATTCTTC-AAAA-TTGAAAGCTT--TTAA-TGTACATGTGCAGTAGTTTTCCAAAGGTTTGTTTACA--GTAACAAAAAATTTTC-A-A-ACAGTAGGCCC
gi|9 : aCATGT------AT-ATTAC-ATGTATAAC-TTCTATATATATTTCAACA---CATTGCAGGAATGAA-TGTATATTTCGTGCA-CTGC-TACTGT-------------ATCCAAGACAA------TACTTC-GTAC----ATGTAA---TGGCATCTTCAAAG-------------AAA
Alignments
lowQualScore : 1111111111111111111111111111111111 111111111111111111111111111111111111111111111111111111111111111111111111111111111111111
lowQualScore : 22222 1 11 1 4444444444444444444444444444444444 11 1 11 6666666666666666666 1 1 1 1 222 1 2222 3333333333333 1 4444444444 111 111 22222222 2222222 111111 1111 1111 111 5555555555555 2222222 1111 222 44444444444444 22222 555555555555555555555555555555 111 11 444444444444444444444444 11 2222 11 33333 222222 11 3333333333333 111 111 1 222222 11111 222 333 333333333 11 1111 1111111 1 22222 1111 11111 222 1 11111 111111 555555 1 1 6666666666666666 1 000000000000000000000000000000000000000000000000000000000000000000000000000000000000000 11
lowQualScore : 77777 5 88 5 2222222222222222222222222222222222 88 5 88 5555555555555555555 5 5 1 5 1 5 111 1 5 1111 5555555555555 3 6666666666 777 1 777 33 3 8 0 6 22222222 8888888 999999 6 6 0 6 4444 4444 2 6 6 555 9999999999999 1 8 4444444 8 1 7777 444 00000000000000 1 00000 66 555555555555555555555555555555 777 3 6 11 111111111111111111111111 11 3 5555 0 8 8 11 22222 9 222222 3 33 8 6666666666666 111 111 6 7 2 1 9 3 888888 5 5 44444 777 55 111 88 6 1 444444444 55 7777 99999 3 99 6 0 6 3 6 8888888 5 5 0 5 00000 5 0 0000 5 22222 5 000 666666 2 7 6 5 22222 5 666666 99 6 2 777 6 777777 3 0 3 55 5 3 4444444444444444 0 222222222222222222222222222222222222222222222222222222222222222222222222222222222222222 88
lowQualScore : ..... . .. . .................................. .. . .. ................... . . . . . . ... . . .... ............. . .......... ... . ... .. . . . . ........ ....... ...... . . . . .... .... . . . ... ............. . . ....... . . .... ... .............. . ..... .. .............................. ... . . .. ........................ .. . .... . . . .. ..... . ...... . .. . ............. ... ... . . . . . . ...... . . ..... ... .. ... .. . . ......... .. .... ..... . .. . . . . . ....... . . . . ..... . . .... . ..... . ... ...... . . . . ..... . ...... .. . . ... . ...... . . . .. . . ................ . ....................................................................................... ..
lowQualScore : 00000 5 00 5 5555555555555555555555555555555555 55 0 55 0000000000000000000 5 5 0 5 0 0 555 0 5 5555 3333333333333 3 5555555555 000 0 555 55 2 8 8 0 00000000 3333333 222222 7 7 8 7 2222 5555 5 7 7 222 6666666666666 0 0 0000000 0 0 0000 222 33333333333333 4 00000 00 222222222222222222222222222222 444 2 0 00 444444444444444444444444 88 8 0000 8 0 0 00 22222 8 222222 2 88 0 7777777777777 777 777 7 5 5 3 8 2 000000 0 0 33333 111 99 444 33 7 8 555555555 88 0000 66666 2 22 7 7 7 2 7 6666666 7 7 0 0 99999 0 2 6666 0 55555 0 000 999999 0 5 7 7 33333 7 444444 22 7 5 555 7 000000 2 0 2 88 0 2 2222222222222222 0 777777777777777777777777777777777777777777777777777777777777777777777777777777777777777 33
consensus : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAA-TCCCTA-CACAAAATGCACTT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTAT---TTGC-TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT----------A--ATCCAANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATT--CGCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAG-AAAAA----TGGAATCTTAAA-CG-AAATCA--CCAACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-A-TTATCATT-ATAACCTAGAGG---CG-AAA-ATTATAAAA---TATAGATTAA--TATA----TTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGCCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
Reference ( family-1711 ) : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCCC----CCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAA-TCCCTA-CACAAAATGCACTT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTAT---TTGC-TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT----------A--ATCCAANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATT--CGCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAG-AAAAA----TGGAATCTTAAA-CG-AAATCA--CCAACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-A-TTATCATT-ATAACCTAGAGG---CG-AAA-ATTATAAAA---TATAGATTAA--TATA----TTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGCCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
gi|1 : ATTGTTGT-----CTCCTCTTAATTAAA--TCAAA-GTAGAATACCTCCCC-------CCCCCCCCCCCCCCCCCCCCCCCCCCGAAAAAAGC--ATTCAGATCAAA--TTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGATTTTTAATAAAAGCTCC---CAGCA-GCTTCCGCA---AGCGCGGGGTATTGACTGATGTCATACAATTCCCTA-CACAAAATGCACCT---------GATA--ACTT---AGACTAAAGTA-GCCCAC-TG------------------------TTCAG-ATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAA-----CATTGCAG---AGAA-TGTAGATTTCGTGCATTTGTTT--TGT----------AT-CCCCAAAAC-A------AACTTTAGAAC----ATGTAAT--TGGCATATTCAAAA-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATTTGTGCGAAATTAGTG--ATATTGTCTAAT--T-TTA---T-------CGCTTGAGAG--AAAA----TGG-ATCTTAAACCG-AAATCACCCCAACT--GGTTGTCAGTAGTCTAGTCTT-T----TTAATACATTTTGA--TTTA-CCCCCCCCCCCCATCCCCCTCC---TC---TAAT-ATCTGA-AT-AAAGACTC-A-----ATATGCCAGTCGATCACCTTCTTTAAT-----AT--A-TTATCATTCATAACCTAGAGGGTACG--AA-AT------A---TATAGATTAAT-TATA----TTTTTCTCGTATT-AA--TTTCAATTTTGGT--TG-TTTGGAGAAAAATAA-A-TCTAGA-------TA-TTC-GACAACTTGGAAA-TTATCTTA---AAAATATGCATGTTAACGC----TGTTACG-----CTCCGTGACTAATCGTTTAGATG-AAGTTGTTT---TTTTAAGAAA-TTAATCAG-AAAATCTTCAAAAA-TTGAAAGCTCTGCTAA-TGTGCATGGTCAGTA------CATACGTTTGTTCACATTAAAAC-AACAATTTTC-C-AGATAGTAAGCCCCTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGGTCCTG-GTTACCTTATTTTTACAAGAAATTTCATT--AG---GAATGCAATGGTTTCCA-TCTNNNNNNNNNNNNNN---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
gi|10 : tA-------TA-TTC-GACAAATTGGAAA-TTATTCT-----AAATATACATG-TAACGTTCAAT-TTACG-----CTCCCCTGCT-ATCGTCTACATGAAAAGTATTTAAATTTAATAAAATTTAATTAGAAg
gi|11 : AAA-------------GAATTA-----CAAGTGCTAGCG-----------TAA----------TTA---ATT--GATAAAAATAGTG--ATATTTTCTAGTGATATCA---C-------TG---GGAAA-AAAAATATTTGGAATCTTAAA-CGAAAATCA--CC
gi|12 : CTCAA------TGTG-CAGTCG-TCACCTTCTTTAATAATTGATATA-TTATTATT-ATATCCTAGAGGAA-CGAAAA-ATTAAAAAAAATTATAGATCAA--TATtc
gi|13 : -TATTTT-------TTCAGCATGTTTAAAAAT-ATTGT-GTATATAAC-TTCTACAT----TTCAACAGCGCGTTCCAATAAAGTT-TGTATATTTCATGCA-TTGtat
gi|14 : caTAGTCTAGTCTT-T----CAAGTTCATTTTGATTTTAA-CA-------------CCCTTCT---TC---TAAT-TGCTGGCAT-AAAGACTC-A-----ATATG-CAGTCG-TCACC
gi|15 : ACTCAATCTGAAGATG-ATGTTG-TTACCCTCTTCAAT-----ATA---TTATCAT----AACCTGGAGG---
gi|16 : GCCCACATGTAT---TTACCTATTTT-------TTCAGCATTT------ATAATTAC-AT
gi|2 : ATTGTTGTTCTTTCTCCTCTTA-TTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCC----------------------------AAGAAAGCAAATT-AGATCAAAATTTGAAATAGGAG-------------------AT-AACAAAGAA-CCTGCGAGTTT-AATCAAA-TTCTTTTCGGGATGCTCCCGCTCGTAGCGCGGGGTATTGACT--------------CCCTAACACAAAATGCACTT----------ATAA--CTT---AGCCTAA-GTAGGCCCA-ATGTAT---TTACCTATTTT-------TTCAGCATGT------AT-ATTACCATGCATAAC-TTCTATAT----TTCAAC--CACATTGCAGGAAAGAAATGTATATTTCGTGCA-TTGTTTACTGT----------A--ATCCAAAGC-A------TACTTT-TGAC----ATGTAAC--TGGCATCTTCAA---------------GAAATA-----CCAGTGCTAGCA-----------TCA----------T-A---ATT--TGCGAAAATAGTGGGATATTTTCTAAT--T-TAA---T-------CG---TGAAG-AAA------TGGAATCTTAAA-CG-AAATCA--CCAACCTGGTT-GTCAGTATTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTTC---TC---TAATCATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTAAAT-----ATA-AATTATCATT-ATAACCTTGAGG---TG-AAA-ATTATAAAA---TA-AAATTAA--TATA----TTTTTCTCGTTTT-AA--TTTCAATTT-GGT--T--TTTGGA-AGAAATAA-ATTCTAG--------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAA-GT----T-TTACG-----CTC-GTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TGGAAAACTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-A--AATATTC-C-A-ATAGTAA-CCCCTAT------CTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGTCAGGTCCTGAGTGA-CTTA-TTTTACAAGAA-------TTCATATGGCATGCAATGG-TTCCACTNN---NNNNNNNNNNN---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAATGTTTAAAAAAAAATT--AAAAGG
gi|3 : TTGAATCATGTCATACAA-TCCCTA-CACAAAATGCACTTCTACACTTCAACAGTGCATTGCAGG--AAAGAATG--TACAT-TATACATTGC-TATTGTCGTCTGATTCAGCAT
gi|3 : atctatgacAC-TTCTACAC----TTCAACAGTGCATTGCAGGAAAGAA-TGTACATT--ATACA-TTGCT-ATTGTCGTCTGATTCAGCATCCAATAC-AATGATATACACT-GTAC----AGGTAA---TGCCATCTTCAAAGAAAACCGGATGATGAAATA-----TAAGTGGAAGCA-----------TCG----------CCA---ATT--GGCGAAA-TGGTG--ATATTTTCTAGC--T-CTAGCAC-------TG---AGGAGCGAAAA----TGGACTCTTAAA-CA-AAATCA--CCAA-----TTAGTCAGCAGTCTAGTAATATACCACAAGTTCA----GA--TTAATCC-------------CCCCTCCCTTTCCCGTAAT-AT--------AAGGACTCAA------TATC-CAGTCG-TCACCTTCTTTAAT-----ATA---TTATCATC-GTAACCTAGAGGAC-CG-AAACATTGCAAAT---TATAGATCAGAGTATACAAATTTTT----TTTT-TA--TTTTAATTTTGGT--TG-TTTGGA-AGGAATAA-ATTGTAAAATCTGATTA-TTCAGACAATTGGA-AA-TTTGTCTGAAAGAAATATGCACG-TAATGT----T-TTACGCCGCCCTGCATGGCT-ATCccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|3 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcA-TTGAATGCTT--CT-AATGTACATATGCAGTA------CATACGTTTGTTCcgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|4 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcacttctacacttcaacagtgcattgcaggaaagaatgtacattatacattgctattgtcgtctgattcagcatccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatC-------------CCCCTCC---TC---TAAT-ATCAGACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATA---TTATCATT-ATAACCTAGAGGT--CG-AAA-ATTATA----------GATTAA--TATA----TTTTTCTCGTTTTTTA--TTTCAATTTTTGT--TGTTTCAAA-AGAA--AA-ATTCTAGA-------TATTTC-GACAACTTGA-AA-TTATTTC----TAAATATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTG-TT---TTTAA------TTAATCAG-AAAATCTTC-AAAATTTGAAAGCTC--TA-A-TGTGCATGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAATTTTCAC-A-ATAGTAAG-CCCTATNNNN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGG-CCTGAGTGACCTTATTTTTACAAGAA----------AT---GCATGCAATGG-TTCCA--CT---TTCAGGTACATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-----NAAAAAAAATTTAAAAAGGcctcag
gi|5 : -CC-------------CCCCTCC---TC---TAAT-ATC-AACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATA-T-TTATCATT-ATAAC-TAGAGG---TC-GAA-ATTATA----------GATTAC--TATA----TTTTTCTCGTTTT-TAAATTTCAATTTGGGTGGTG-TTCAGA-AGAAA--A-ATTCTAGA-------TA-TTC-GA--ACTTGG-AA-ATATTCT----CAA-TATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAAT------TAATCAGAAAA-TCTTC-AAAA-TTGAAAGCCT--CA-A-TGTGCACGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAA-TTTC-C-A-ATAGTAAGCCCCTAT-----NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTACATGT-ATT-AGGTCCTGA-TGA-CTTATTTTTACAAGA-----------AT---GCATGCAATGG-TTTC
gi|6 : acATTCACTT---------GACAATACGT---AGTCTAAAGTAGACCCACATGAAT---TTGCATATTTTT------TTCAGCATGT------AT-ATTGC-ATGCA-AACTTTTTAGAT----CTCAACAGTGTACTGCAGGAGAGCA-TGTATATTTCGTGCA-TTGC-CACAGC----------C--GTCTGATTC-A------GAATTC-GTACAAGAATACAACGTTCGGGTTTTTAAAT-------------CAGTAAAAGACCAAGTG--AGCAGAAGATGAATTTCAAGTGCTAGCATCATCAATT--CGC-AAAATA---------TTTCTAG-----TGA---CGCCATTTCG---GGGAA-AAAGAC---TGAAATCTTGAA-GA-AAATCA--CCA-----GTCAGTAAGTAGTCTAca
gi|7 : A--TTTCAATGTTGGT--TG-TTTGGA-AGGAATATTATTCTAGA-------TA-TTC-GACAACTTGG-AAACTATTCT----AAAATTTGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTTAGATTTAATGAAATTTAATTAGAGA----TTC-CA------------T--CT-A------ATGTGCAGTA------CATACGTTTGTTCCTA--GAAAC-AAGAATTTTC-CAA-ATAGTAGGCCCacgttattaatatagtct
gi|8 : -AA-TTATTTT----AAGATATACATA-AAGTGT----T-TTACG-----CTCCGTGATT-ATCATCTAGATGAAAGTT-T---------ATGAATTTTAATCAG-AAATTCTTC-AAAA-TTGAAAGCTT--TTAA-TGTACATGTGCAGTAGTTTTCCAAAGGTTTGTTTACA--GTAACAAAAAATTTTC-A-A-ACAGTAGGCCC
gi|9 : aCATGT------AT-ATTAC-ATGTATAAC-TTCTATATATATTTCAACA---CATTGCAGGAATGAA-TGTATATTTCGTGCA-CTGC-TACTGT-------------ATCCAAGACAA------TACTTC-GTAC----ATGTAA---TGGCATCTTCAAAG-------------AAA
Alignments
lowQualScore : 222222222222222222222222222222222 111111111111111111111111111111111111111111111111111111111111111111111111111111111111111
lowQualScore : 22222 1 11 1 111111111111111111111111111111111 1 11 1 11 6666666666666666666 1 1 1 1 222 1 2222 3333333333333 1 4444444444 111 111 22222222 2222222 111111 1111 1111 111 5555555555555 2222222 1111 222 44444444444444 22222 555555555555555555555555555555 111 11 444444444444444444444444 11 2222 11 33333 222222 11 3333333333333 111 111 1 222222 11111 222 333 333333333 11 1111 1111111 1 22222 1111 11111 222 1 11111 111111 555555 1 1 6666666666666666 1 000000000000000000000000000000000000000000000000000000000000000000000000000000000000000 11
lowQualScore : 77777 5 88 5 555555555555555555555555555555555 5 88 5 88 5555555555555555555 5 5 1 5 1 5 111 1 5 1111 5555555555555 3 6666666666 777 1 777 33 3 8 0 6 22222222 8888888 999999 6 6 0 6 4444 4444 2 6 6 555 9999999999999 1 8 4444444 8 1 7777 444 00000000000000 1 00000 66 555555555555555555555555555555 777 3 6 11 111111111111111111111111 11 3 5555 0 8 8 11 22222 9 222222 3 33 8 6666666666666 111 111 6 7 2 1 9 3 888888 5 5 44444 777 55 111 88 6 1 444444444 55 7777 99999 3 99 6 0 6 3 6 8888888 5 5 0 5 00000 5 0 0000 5 22222 5 000 666666 2 7 6 5 22222 5 666666 99 6 2 777 6 777777 3 0 3 55 5 3 4444444444444444 0 222222222222222222222222222222222222222222222222222222222222222222222222222222222222222 88
lowQualScore : ..... . .. . ................................. . .. . .. ................... . . . . . . ... . . .... ............. . .......... ... . ... .. . . . . ........ ....... ...... . . . . .... .... . . . ... ............. . . ....... . . .... ... .............. . ..... .. .............................. ... . . .. ........................ .. . .... . . . .. ..... . ...... . .. . ............. ... ... . . . . . . ...... . . ..... ... .. ... .. . . ......... .. .... ..... . .. . . . . . ....... . . . . ..... . . .... . ..... . ... ...... . . . . ..... . ...... .. . . ... . ...... . . . .. . . ................ . ....................................................................................... ..
lowQualScore : 00000 5 00 5 000000000000000000000000000000000 0 55 0 55 0000000000000000000 5 5 0 5 0 0 555 0 5 5555 3333333333333 3 5555555555 000 0 555 55 2 8 8 0 00000000 3333333 222222 7 7 8 7 2222 5555 5 7 7 222 6666666666666 0 0 0000000 0 0 0000 222 33333333333333 4 00000 00 222222222222222222222222222222 444 2 0 00 444444444444444444444444 88 8 0000 8 0 0 00 22222 8 222222 2 88 0 7777777777777 777 777 7 5 5 3 8 2 000000 0 0 33333 111 99 444 33 7 8 555555555 88 0000 66666 2 22 7 7 7 2 7 6666666 7 7 0 0 99999 0 2 6666 0 55555 0 000 999999 0 5 7 7 33333 7 444444 22 7 5 555 7 000000 2 0 2 88 0 2 2222222222222222 0 777777777777777777777777777777777777777777777777777777777777777777777777777777777777777 33
consensus : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCC-------CCCCCCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAA-TCCCTA-CACAAAATGCACTT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTAT---TTGC-TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT----------A--ATCCAANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATT--CGCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAG-AAAAA----TGGAATCTTAAA-CG-AAATCA--CCAACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-A-TTATCATT-ATAACCTAGAGG---CG-AAA-ATTATAAAA---TATAGATTAA--TATA----TTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGCCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
Reference ( family-1711 ) : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCCCCCC----CCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAA-TCCCTA-CACAAAATGCACTT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTAT---TTGC-TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT----------A--ATCCAANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATT--CGCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAG-AAAAA----TGGAATCTTAAA-CG-AAATCA--CCAACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-A-TTATCATT-ATAACCTAGAGG---CG-AAA-ATTATAAAA---TATAGATTAA--TATA----TTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGCCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
gi|1 : ATTGTTGT-----CTCCTCTTAATTAAA--TCAAA-GTAGAATACCTCCCC----------CCCCCCCCCCCCCCCCCCCCCCCCCCGAAAAAAGC--ATTCAGATCAAA--TTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGATTTTTAATAAAAGCTCC---CAGCA-GCTTCCGCA---AGCGCGGGGTATTGACTGATGTCATACAATTCCCTA-CACAAAATGCACCT---------GATA--ACTT---AGACTAAAGTA-GCCCAC-TG------------------------TTCAG-ATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAA-----CATTGCAG---AGAA-TGTAGATTTCGTGCATTTGTTT--TGT----------AT-CCCCAAAAC-A------AACTTTAGAAC----ATGTAAT--TGGCATATTCAAAA-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATTTGTGCGAAATTAGTG--ATATTGTCTAAT--T-TTA---T-------CGCTTGAGAG--AAAA----TGG-ATCTTAAACCG-AAATCACCCCAACT--GGTTGTCAGTAGTCTAGTCTT-T----TTAATACATTTTGA--TTTA-CCCCCCCCCCCCATCCCCCTCC---TC---TAAT-ATCTGA-AT-AAAGACTC-A-----ATATGCCAGTCGATCACCTTCTTTAAT-----AT--A-TTATCATTCATAACCTAGAGGGTACG--AA-AT------A---TATAGATTAAT-TATA----TTTTTCTCGTATT-AA--TTTCAATTTTGGT--TG-TTTGGAGAAAAATAA-A-TCTAGA-------TA-TTC-GACAACTTGGAAA-TTATCTTA---AAAATATGCATGTTAACGC----TGTTACG-----CTCCGTGACTAATCGTTTAGATG-AAGTTGTTT---TTTTAAGAAA-TTAATCAG-AAAATCTTCAAAAA-TTGAAAGCTCTGCTAA-TGTGCATGGTCAGTA------CATACGTTTGTTCACATTAAAAC-AACAATTTTC-C-AGATAGTAAGCCCCTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGGTCCTG-GTTACCTTATTTTTACAAGAAATTTCATT--AG---GAATGCAATGGTTTCCA-TCTNNNNNNNNNNNNNN---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
gi|10 : tA-------TA-TTC-GACAAATTGGAAA-TTATTCT-----AAATATACATG-TAACGTTCAAT-TTACG-----CTCCCCTGCT-ATCGTCTACATGAAAAGTATTTAAATTTAATAAAATTTAATTAGAAg
gi|11 : AAA-------------GAATTA-----CAAGTGCTAGCG-----------TAA----------TTA---ATT--GATAAAAATAGTG--ATATTTTCTAGTGATATCA---C-------TG---GGAAA-AAAAATATTTGGAATCTTAAA-CGAAAATCA--CC
gi|12 : CTCAA------TGTG-CAGTCG-TCACCTTCTTTAATAATTGATATA-TTATTATT-ATATCCTAGAGGAA-CGAAAA-ATTAAAAAAAATTATAGATCAA--TATtc
gi|13 : -TATTTT-------TTCAGCATGTTTAAAAAT-ATTGT-GTATATAAC-TTCTACAT----TTCAACAGCGCGTTCCAATAAAGTT-TGTATATTTCATGCA-TTGtat
gi|14 : caTAGTCTAGTCTT-T----CAAGTTCATTTTGATTTTAA-CA-------------CCCTTCT---TC---TAAT-TGCTGGCAT-AAAGACTC-A-----ATATG-CAGTCG-TCACC
gi|15 : ACTCAATCTGAAGATG-ATGTTG-TTACCCTCTTCAAT-----ATA---TTATCAT----AACCTGGAGG---
gi|16 : GCCCACATGTAT---TTACCTATTTT-------TTCAGCATTT------ATAATTAC-AT
gi|2 : ATTGTTGTTCTTTCTCCTCTTA-TTAAAGTTCAAAAGTAGAATACCCCCCCCCC------------------------------CCC-AAGAAAGCAAATT-AGATCAAAATTTGAAATAGGAG-------------------AT-AACAAAGAA-CCTGCGAGTTT-AATCAAA-TTCTTTTCGGGATGCTCCCGCTCGTAGCGCGGGGTATTGACT--------------CCCTAACACAAAATGCACTT----------ATAA--CTT---AGCCTAA-GTAGGCCCA-ATGTAT---TTACCTATTTT-------TTCAGCATGT------AT-ATTACCATGCATAAC-TTCTATAT----TTCAAC--CACATTGCAGGAAAGAAATGTATATTTCGTGCA-TTGTTTACTGT----------A--ATCCAAAGC-A------TACTTT-TGAC----ATGTAAC--TGGCATCTTCAA---------------GAAATA-----CCAGTGCTAGCA-----------TCA----------T-A---ATT--TGCGAAAATAGTGGGATATTTTCTAAT--T-TAA---T-------CG---TGAAG-AAA------TGGAATCTTAAA-CG-AAATCA--CCAACCTGGTT-GTCAGTATTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTTC---TC---TAATCATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTAAAT-----ATA-AATTATCATT-ATAACCTTGAGG---TG-AAA-ATTATAAAA---TA-AAATTAA--TATA----TTTTTCTCGTTTT-AA--TTTCAATTT-GGT--T--TTTGGA-AGAAATAA-ATTCTAG--------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAA-GT----T-TTACG-----CTC-GTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TGGAAAACTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-A--AATATTC-C-A-ATAGTAA-CCCCTAT------CTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGTCAGGTCCTGAGTGA-CTTA-TTTTACAAGAA-------TTCATATGGCATGCAATGG-TTCCACTNN---NNNNNNNNNNN---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAATGTTTAAAAAAAAATT--AAAAGG
gi|3 : TTGAATCATGTCATACAA-TCCCTA-CACAAAATGCACTTCTACACTTCAACAGTGCATTGCAGG--AAAGAATG--TACAT-TATACATTGC-TATTGTCGTCTGATTCAGCAT
gi|3 : atctatgacAC-TTCTACAC----TTCAACAGTGCATTGCAGGAAAGAA-TGTACATT--ATACA-TTGCT-ATTGTCGTCTGATTCAGCATCCAATAC-AATGATATACACT-GTAC----AGGTAA---TGCCATCTTCAAAGAAAACCGGATGATGAAATA-----TAAGTGGAAGCA-----------TCG----------CCA---ATT--GGCGAAA-TGGTG--ATATTTTCTAGC--T-CTAGCAC-------TG---AGGAGCGAAAA----TGGACTCTTAAA-CA-AAATCA--CCAA-----TTAGTCAGCAGTCTAGTAATATACCACAAGTTCA----GA--TTAATCC-------------CCCCTCCCTTTCCCGTAAT-AT--------AAGGACTCAA------TATC-CAGTCG-TCACCTTCTTTAAT-----ATA---TTATCATC-GTAACCTAGAGGAC-CG-AAACATTGCAAAT---TATAGATCAGAGTATACAAATTTTT----TTTT-TA--TTTTAATTTTGGT--TG-TTTGGA-AGGAATAA-ATTGTAAAATCTGATTA-TTCAGACAATTGGA-AA-TTTGTCTGAAAGAAATATGCACG-TAATGT----T-TTACGCCGCCCTGCATGGCT-ATCccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|3 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcA-TTGAATGCTT--CT-AATGTACATATGCAGTA------CATACGTTTGTTCcgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|4 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcacttctacacttcaacagtgcattgcaggaaagaatgtacattatacattgctattgtcgtctgattcagcatccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatC-------------CCCCTCC---TC---TAAT-ATCAGACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATA---TTATCATT-ATAACCTAGAGGT--CG-AAA-ATTATA----------GATTAA--TATA----TTTTTCTCGTTTTTTA--TTTCAATTTTTGT--TGTTTCAAA-AGAA--AA-ATTCTAGA-------TATTTC-GACAACTTGA-AA-TTATTTC----TAAATATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTG-TT---TTTAA------TTAATCAG-AAAATCTTC-AAAATTTGAAAGCTC--TA-A-TGTGCATGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAATTTTCAC-A-ATAGTAAG-CCCTATNNNN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGG-CCTGAGTGACCTTATTTTTACAAGAA----------AT---GCATGCAATGG-TTCCA--CT---TTCAGGTACATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-----NAAAAAAAATTTAAAAAGGcctcag
gi|5 : -CC-------------CCCCTCC---TC---TAAT-ATC-AACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATA-T-TTATCATT-ATAAC-TAGAGG---TC-GAA-ATTATA----------GATTAC--TATA----TTTTTCTCGTTTT-TAAATTTCAATTTGGGTGGTG-TTCAGA-AGAAA--A-ATTCTAGA-------TA-TTC-GA--ACTTGG-AA-ATATTCT----CAA-TATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAAT------TAATCAGAAAA-TCTTC-AAAA-TTGAAAGCCT--CA-A-TGTGCACGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAA-TTTC-C-A-ATAGTAAGCCCCTAT-----NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTACATGT-ATT-AGGTCCTGA-TGA-CTTATTTTTACAAGA-----------AT---GCATGCAATGG-TTTC
gi|6 : acATTCACTT---------GACAATACGT---AGTCTAAAGTAGACCCACATGAAT---TTGCATATTTTT------TTCAGCATGT------AT-ATTGC-ATGCA-AACTTTTTAGAT----CTCAACAGTGTACTGCAGGAGAGCA-TGTATATTTCGTGCA-TTGC-CACAGC----------C--GTCTGATTC-A------GAATTC-GTACAAGAATACAACGTTCGGGTTTTTAAAT-------------CAGTAAAAGACCAAGTG--AGCAGAAGATGAATTTCAAGTGCTAGCATCATCAATT--CGC-AAAATA---------TTTCTAG-----TGA---CGCCATTTCG---GGGAA-AAAGAC---TGAAATCTTGAA-GA-AAATCA--CCA-----GTCAGTAAGTAGTCTAca
gi|7 : A--TTTCAATGTTGGT--TG-TTTGGA-AGGAATATTATTCTAGA-------TA-TTC-GACAACTTGG-AAACTATTCT----AAAATTTGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTTAGATTTAATGAAATTTAATTAGAGA----TTC-CA------------T--CT-A------ATGTGCAGTA------CATACGTTTGTTCCTA--GAAAC-AAGAATTTTC-CAA-ATAGTAGGCCCacgttattaatatagtct
gi|8 : -AA-TTATTTT----AAGATATACATA-AAGTGT----T-TTACG-----CTCCGTGATT-ATCATCTAGATGAAAGTT-T---------ATGAATTTTAATCAG-AAATTCTTC-AAAA-TTGAAAGCTT--TTAA-TGTACATGTGCAGTAGTTTTCCAAAGGTTTGTTTACA--GTAACAAAAAATTTTC-A-A-ACAGTAGGCCC
gi|9 : aCATGT------AT-ATTAC-ATGTATAAC-TTCTATATATATTTCAACA---CATTGCAGGAATGAA-TGTATATTTCGTGCA-CTGC-TACTGT-------------ATCCAAGACAA------TACTTC-GTAC----ATGTAA---TGGCATCTTCAAAG-------------AAA
Alignments
lowQualScore : 1111111111111111111111111111111111 111111111111111111111111111111111111111111111111111111111111111111111111111111111111111
lowQualScore : 22222 1 11 1 4444444444444444444444444444444444 11 1 11 6666666666666666666 1 1 1 1 222 1 2222 3333333333333 1 4444444444 111 111 22222222 2222222 111111 1111 1111 111 5555555555555 2222222 1111 222 44444444444444 22222 555555555555555555555555555555 111 11 444444444444444444444444 11 2222 11 33333 222222 11 3333333333333 111 111 1 222222 11111 222 333 333333333 11 1111 1111111 1 22222 1111 11111 222 1 11111 111111 555555 1 1 6666666666666666 1 000000000000000000000000000000000000000000000000000000000000000000000000000000000000000 11
lowQualScore : 77777 5 88 5 2222222222222222222222222222222222 88 5 88 5555555555555555555 5 5 1 5 1 5 111 1 5 1111 5555555555555 3 6666666666 777 1 777 33 3 8 0 6 22222222 8888888 999999 6 6 0 6 4444 4444 2 6 6 555 9999999999999 1 8 4444444 8 1 7777 444 00000000000000 1 00000 66 555555555555555555555555555555 777 3 6 11 111111111111111111111111 11 3 5555 0 8 8 11 22222 9 222222 3 33 8 6666666666666 111 111 6 7 2 1 9 3 888888 5 5 44444 777 55 111 88 6 1 444444444 55 7777 99999 3 99 6 0 6 3 6 8888888 5 5 0 5 00000 5 0 0000 5 22222 5 000 666666 2 7 6 5 22222 5 666666 99 6 2 777 6 777777 3 0 3 55 5 3 4444444444444444 0 222222222222222222222222222222222222222222222222222222222222222222222222222222222222222 88
lowQualScore : ..... . .. . .................................. .. . .. ................... . . . . . . ... . . .... ............. . .......... ... . ... .. . . . . ........ ....... ...... . . . . .... .... . . . ... ............. . . ....... . . .... ... .............. . ..... .. .............................. ... . . .. ........................ .. . .... . . . .. ..... . ...... . .. . ............. ... ... . . . . . . ...... . . ..... ... .. ... .. . . ......... .. .... ..... . .. . . . . . ....... . . . . ..... . . .... . ..... . ... ...... . . . . ..... . ...... .. . . ... . ...... . . . .. . . ................ . ....................................................................................... ..
lowQualScore : 00000 5 00 5 5555555555555555555555555555555555 55 0 55 0000000000000000000 5 5 0 5 0 0 555 0 5 5555 3333333333333 3 5555555555 000 0 555 55 2 8 8 0 00000000 3333333 222222 7 7 8 7 2222 5555 5 7 7 222 6666666666666 0 0 0000000 0 0 0000 222 33333333333333 4 00000 00 222222222222222222222222222222 444 2 0 00 444444444444444444444444 88 8 0000 8 0 0 00 22222 8 222222 2 88 0 7777777777777 777 777 7 5 5 3 8 2 000000 0 0 33333 111 99 444 33 7 8 555555555 88 0000 66666 2 22 7 7 7 2 7 6666666 7 7 0 0 99999 0 2 6666 0 55555 0 000 999999 0 5 7 7 33333 7 444444 22 7 5 555 7 000000 2 0 2 88 0 2 2222222222222222 0 777777777777777777777777777777777777777777777777777777777777777777777777777777777777777 33
consensus : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAA-TCCCTA-CACAAAATGCACTT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTAT---TTGC-TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT----------A--ATCCAANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATT--CGCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAG-AAAAA----TGGAATCTTAAA-CG-AAATCA--CCAACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-A-TTATCATT-ATAACCTAGAGG---CG-AAA-ATTATAAAA---TATAGATTAA--TATA----TTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGCCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
Reference ( family-1711 ) : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCCC----CCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAA-TCCCTA-CACAAAATGCACTT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTAT---TTGC-TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT----------A--ATCCAANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATT--CGCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAG-AAAAA----TGGAATCTTAAA-CG-AAATCA--CCAACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-A-TTATCATT-ATAACCTAGAGG---CG-AAA-ATTATAAAA---TATAGATTAA--TATA----TTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGCCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
gi|1 : ATTGTTGT-----CTCCTCTTAATTAAA--TCAAA-GTAGAATACCTCCCC-------CCCCCCCCCCCCCCCCCCCCCCCCCCGAAAAAAGC--ATTCAGATCAAA--TTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGATTTTTAATAAAAGCTCC---CAGCA-GCTTCCGCA---AGCGCGGGGTATTGACTGATGTCATACAATTCCCTA-CACAAAATGCACCT---------GATA--ACTT---AGACTAAAGTA-GCCCAC-TG------------------------TTCAG-ATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAA-----CATTGCAG---AGAA-TGTAGATTTCGTGCATTTGTTT--TGT----------AT-CCCCAAAAC-A------AACTTTAGAAC----ATGTAAT--TGGCATATTCAAAA-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATTTGTGCGAAATTAGTG--ATATTGTCTAAT--T-TTA---T-------CGCTTGAGAG--AAAA----TGG-ATCTTAAACCG-AAATCACCCCAACT--GGTTGTCAGTAGTCTAGTCTT-T----TTAATACATTTTGA--TTTA-CCCCCCCCCCCCATCCCCCTCC---TC---TAAT-ATCTGA-AT-AAAGACTC-A-----ATATGCCAGTCGATCACCTTCTTTAAT-----AT--A-TTATCATTCATAACCTAGAGGGTACG--AA-AT------A---TATAGATTAAT-TATA----TTTTTCTCGTATT-AA--TTTCAATTTTGGT--TG-TTTGGAGAAAAATAA-A-TCTAGA-------TA-TTC-GACAACTTGGAAA-TTATCTTA---AAAATATGCATGTTAACGC----TGTTACG-----CTCCGTGACTAATCGTTTAGATG-AAGTTGTTT---TTTTAAGAAA-TTAATCAG-AAAATCTTCAAAAA-TTGAAAGCTCTGCTAA-TGTGCATGGTCAGTA------CATACGTTTGTTCACATTAAAAC-AACAATTTTC-C-AGATAGTAAGCCCCTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGGTCCTG-GTTACCTTATTTTTACAAGAAATTTCATT--AG---GAATGCAATGGTTTCCA-TCTNNNNNNNNNNNNNN---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
gi|10 : tA-------TA-TTC-GACAAATTGGAAA-TTATTCT-----AAATATACATG-TAACGTTCAAT-TTACG-----CTCCCCTGCT-ATCGTCTACATGAAAAGTATTTAAATTTAATAAAATTTAATTAGAAg
gi|11 : AAA-------------GAATTA-----CAAGTGCTAGCG-----------TAA----------TTA---ATT--GATAAAAATAGTG--ATATTTTCTAGTGATATCA---C-------TG---GGAAA-AAAAATATTTGGAATCTTAAA-CGAAAATCA--CC
gi|12 : CTCAA------TGTG-CAGTCG-TCACCTTCTTTAATAATTGATATA-TTATTATT-ATATCCTAGAGGAA-CGAAAA-ATTAAAAAAAATTATAGATCAA--TATtc
gi|13 : -TATTTT-------TTCAGCATGTTTAAAAAT-ATTGT-GTATATAAC-TTCTACAT----TTCAACAGCGCGTTCCAATAAAGTT-TGTATATTTCATGCA-TTGtat
gi|14 : caTAGTCTAGTCTT-T----CAAGTTCATTTTGATTTTAA-CA-------------CCCTTCT---TC---TAAT-TGCTGGCAT-AAAGACTC-A-----ATATG-CAGTCG-TCACC
gi|15 : ACTCAATCTGAAGATG-ATGTTG-TTACCCTCTTCAAT-----ATA---TTATCAT----AACCTGGAGG---
gi|16 : GCCCACATGTAT---TTACCTATTTT-------TTCAGCATTT------ATAATTAC-AT
gi|2 : ATTGTTGTTCTTTCTCCTCTTA-TTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCC----------------------------AAGAAAGCAAATT-AGATCAAAATTTGAAATAGGAG-------------------AT-AACAAAGAA-CCTGCGAGTTT-AATCAAA-TTCTTTTCGGGATGCTCCCGCTCGTAGCGCGGGGTATTGACT--------------CCCTAACACAAAATGCACTT----------ATAA--CTT---AGCCTAA-GTAGGCCCA-ATGTAT---TTACCTATTTT-------TTCAGCATGT------AT-ATTACCATGCATAAC-TTCTATAT----TTCAAC--CACATTGCAGGAAAGAAATGTATATTTCGTGCA-TTGTTTACTGT----------A--ATCCAAAGC-A------TACTTT-TGAC----ATGTAAC--TGGCATCTTCAA---------------GAAATA-----CCAGTGCTAGCA-----------TCA----------T-A---ATT--TGCGAAAATAGTGGGATATTTTCTAAT--T-TAA---T-------CG---TGAAG-AAA------TGGAATCTTAAA-CG-AAATCA--CCAACCTGGTT-GTCAGTATTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTTC---TC---TAATCATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTAAAT-----ATA-AATTATCATT-ATAACCTTGAGG---TG-AAA-ATTATAAAA---TA-AAATTAA--TATA----TTTTTCTCGTTTT-AA--TTTCAATTT-GGT--T--TTTGGA-AGAAATAA-ATTCTAG--------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAA-GT----T-TTACG-----CTC-GTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TGGAAAACTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-A--AATATTC-C-A-ATAGTAA-CCCCTAT------CTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGTCAGGTCCTGAGTGA-CTTA-TTTTACAAGAA-------TTCATATGGCATGCAATGG-TTCCACTNN---NNNNNNNNNNN---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAATGTTTAAAAAAAAATT--AAAAGG
gi|3 : TTGAATCATGTCATACAA-TCCCTA-CACAAAATGCACTTCTACACTTCAACAGTGCATTGCAGG--AAAGAATG--TACAT-TATACATTGC-TATTGTCGTCTGATTCAGCAT
gi|3 : atctatgacAC-TTCTACAC----TTCAACAGTGCATTGCAGGAAAGAA-TGTACATT--ATACA-TTGCT-ATTGTCGTCTGATTCAGCATCCAATAC-AATGATATACACT-GTAC----AGGTAA---TGCCATCTTCAAAGAAAACCGGATGATGAAATA-----TAAGTGGAAGCA-----------TCG----------CCA---ATT--GGCGAAA-TGGTG--ATATTTTCTAGC--T-CTAGCAC-------TG---AGGAGCGAAAA----TGGACTCTTAAA-CA-AAATCA--CCAA-----TTAGTCAGCAGTCTAGTAATATACCACAAGTTCA----GA--TTAATCC-------------CCCCTCCCTTTCCCGTAAT-AT--------AAGGACTCAA------TATC-CAGTCG-TCACCTTCTTTAAT-----ATA---TTATCATC-GTAACCTAGAGGAC-CG-AAACATTGCAAAT---TATAGATCAGAGTATACAAATTTTT----TTTT-TA--TTTTAATTTTGGT--TG-TTTGGA-AGGAATAA-ATTGTAAAATCTGATTA-TTCAGACAATTGGA-AA-TTTGTCTGAAAGAAATATGCACG-TAATGT----T-TTACGCCGCCCTGCATGGCT-ATCccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|3 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcA-TTGAATGCTT--CT-AATGTACATATGCAGTA------CATACGTTTGTTCcgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|4 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcacttctacacttcaacagtgcattgcaggaaagaatgtacattatacattgctattgtcgtctgattcagcatccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatC-------------CCCCTCC---TC---TAAT-ATCAGACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATA---TTATCATT-ATAACCTAGAGGT--CG-AAA-ATTATA----------GATTAA--TATA----TTTTTCTCGTTTTTTA--TTTCAATTTTTGT--TGTTTCAAA-AGAA--AA-ATTCTAGA-------TATTTC-GACAACTTGA-AA-TTATTTC----TAAATATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTG-TT---TTTAA------TTAATCAG-AAAATCTTC-AAAATTTGAAAGCTC--TA-A-TGTGCATGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAATTTTCAC-A-ATAGTAAG-CCCTATNNNN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGG-CCTGAGTGACCTTATTTTTACAAGAA----------AT---GCATGCAATGG-TTCCA--CT---TTCAGGTACATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-----NAAAAAAAATTTAAAAAGGcctcag
gi|5 : -CC-------------CCCCTCC---TC---TAAT-ATC-AACATAAA-GACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATA-T-TTATCATT-ATAAC-TAGAGG---TC-GAA-ATTATA----------GATTAC--TATA----TTTTTCTCGTTTT-TAAATTTCAATTTGGGTGGTG-TTCAGA-AGAAA--A-ATTCTAGA-------TA-TTC-GA--ACTTGG-AA-ATATTCT----CAA-TATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAAT------TAATCAGAAAA-TCTTC-AAAA-TTGAAAGCCT--CA-A-TGTGCACGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAA-TTTC-C-A-ATAGTAAGCCCCTAT-----NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTACATGT-ATT-AGGTCCTGA-TGA-CTTATTTTTACAAGA-----------AT---GCATGCAATGG-TTTC
gi|6 : acATTCACTT---------GACAATACGT---AGTCTAAAGTAGACCCACATGAAT---TTGCATATTTTT------TTCAGCATGT------AT-ATTGC-ATGCA-AACTTTTTAGAT----CTCAACAGTGTACTGCAGGAGAGCA-TGTATATTTCGTGCA-TTGC-CACAGC----------C--GTCTGATTC-A------GAATTC-GTACAAGAATACAACGTTCGGGTTTTTAAAT-------------CAGTAAAAGACCAAGTG--AGCAGAAGATGAATTTCAAGTGCTAGCATCATCAATT--CGC-AAAATA---------TTTCTAG-----TGA---CGCCATTTCG---GGGAA-AAAGAC---TGAAATCTTGAA-GA-AAATCA--CCA-----GTCAGTAAGTAGTCTAca
gi|7 : A--TTTCAATGTTGGT--TG-TTTGGA-AGGAATATTATTCTAGA-------TA-TTC-GACAACTTGG-AAACTATTCT----AAAATTTGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTTAGATTTAATGAAATTTAATTAGAGA----TTC-CA------------T--CT-A------ATGTGCAGTA------CATACGTTTGTTCCTA--GAAAC-AAGAATTTTC-CAA-ATAGTAGGCCCacgttattaatatagtct
gi|8 : -AA-TTATTTT----AAGATATACATA-AAGTGT----T-TTACG-----CTCCGTGATT-ATCATCTAGATGAAAGTT-T---------ATGAATTTTAATCAG-AAATTCTTC-AAAA-TTGAAAGCTT--TTAA-TGTACATGTGCAGTAGTTTTCCAAAGGTTTGTTTACA--GTAACAAAAAATTTTC-A-A-ACAGTAGGCCC
gi|9 : aCATGT------AT-ATTAC-ATGTATAAC-TTCTATATATATTTCAACA---CATTGCAGGAATGAA-TGTATATTTCGTGCA-CTGC-TACTGT-------------ATCCAAGACAA------TACTTC-GTAC----ATGTAA---TGGCATCTTCAAAG-------------AAA
blockSeqs : TCTTT . GT A CCCCCC AA . AT . . . G . C . TTT G T TCGT CATGTCATACAA A CTACACTTCA GTG T TGC CC A G T ACATTGC CGTCTGA TTAAAA A C T ATAT AGCG T A . TTA CGTCTGATTCAGC A A ATGATAT . G AAGA CGT GAAAACCGGATGAT T AAGAC CT GAAGATGAATTTCAAGTGCTAGCATCATCA G A A GG TGACGCCATTTCG CG A TATT . A . ACCTG A ATACCA T TT T . CTT CCG C T C A A A TCTGAA . . AATTG TA T AA AA C A AAAAATTAT AG CAAA TAAA T GG T . T T ATCTGAT T A A A GAAAG . TCAA . CCGCC . AAA TAAAAT A A . T TTA A GTTTTC . A C AC . NNNNN A C T AG C T ATTCATATG . CTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAATGTTT TA
blockSeqs : . . G ATA A . TC A T T TTACC T . . . . . AGTG G . . TA A T . T . T . C A A . CT TAATTA T G A . TGATATCACTG A A C . . . A A T T . . . . . . T C A A A A . . . AA T AC A . T AATTAT . . TTA T . . . T . . . . . . A . . . . . AGA TGAAAT A A . . CT . . . . C CA . N A . T AG . T AAT . CTTTCAGGTACATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN .
blockSeqs : . A G . G . G T TTACC . . . . . . AGTG G . . CA C T . G . T . . T A . GA TCGCCA G G A . CTCTAGCACTG A G . . . . . . T . . . . . . . A C A G A A . . . T C T A . C AAATA . . AA G . . . T . . . . . . T . . . . . . TGAAAT A T . . CT . . . . G C . . . . . A . . AT .
blockSeqs : A TTGCA . . . . . . CA G . . TA . G . T . T . . G T . . TCATA C . . . TTTAATCG A . . . . . . . . . . . C . . A . . . . . T . A . T . . . TA T . . . . . . . . . . C . . . . . . TGAATT A . . . TA . . . . A C .
blockSeqs : . . . . . . A G . . . . . . . . . . . A . . . . . T . G . T . . . . . . . . . . . . . A . . . . . . T . . . . CA . . . . . A .
blockSeqs : A . . . . . . . . . . . . A . . . . . . . . . CT . .
blockSeqs : . . . . . . . . . . . .
blockSeqCons : TTACC*** AGCG ************* C** N** A* ** ************* ****** TA* T* A** A* AATA***** ** A**** TGAAAT CT*** **
originalCons : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAA-TCCCTA-CACAAAATGCACTT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTAT---TTGC-TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT----------A--ATCCAANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATT--CGCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAG-AAAAA----TGGAATCTTAAA-CG-AAATCA--CCAACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA-----ATATG-CAGTCG-TCACCTTCTTTAAT-----ATA-A-TTATCATT-ATAACCTAGAGG---CG-AAA-ATTATAAAA---TATAGATTAA--TATA----TTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGCCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
finalCons : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAA-TCCCTA-CACAAAATGCACTT---------GACAATACNT---AGNCTAAAGTAGGCCCACATGTATTTACC---TATTTT-------TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCA-TTGCTTACTGT-------------ATCCAANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATTN--GCGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAGA-AAAA----TGGAATCTTAAA-CG-AAATCA--CCAACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CC-------------CCCCTCC---TC---TAAT-ATCTGACATAAAAGACTCAA------TATG-CAGTCG-TCACCTTCTTTAAT-----ATATA-TTATCATT-ATAACCTAGAGGA--CGA-AA-ATTATAAATA-----AGATTAA--TATA----TTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCTA----AAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTTCT---A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGCCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
Alignments
lowQualScore : 111111111111111111111111111111 111111111111111111111111111111111111111111111111111111111111111111111111111111111111111
lowQualScore : 22222 1 11 1 555555555555555555555555555555 11 1 11 6666666666666666666 1 1 1 1 222 1 2222 33333333333333 1 33 111111 1111 111 111 44444444444444444 11 2222222 1111 222 44444444444444 22222 555555555555555555555555555555 11 11 444444444444444444444444 333333 111 33333333 222222 11 3333333333333 111 111 1 111111 11111 22 222 333333333 5555555555 1111111 1 22222 1111 11111 222 1 11111 111111 555555 1 1 6666666666666666 1 000000000000000000000000000000000000000000000000000000000000000000000000000000000000000 11
lowQualScore : 77777 5 88 5 000000000000000000000000000000 88 5 88 5555555555555555555 5 5 1 5 1 5 111 1 5 1111 44444444444444 3 6 0 00 1 1 7 6 55 3 0 2 8 999999 6 6 0 6 4444 555 2 6 6 555 88888888888888888 11 1 8 4444444 8 1 7777 444 00000000000000 1 00000 66 555555555555555555555555555555 1 11 3 6 11 111111111111111111111111 8 444444 5 222 44444444 9 222222 3 33 8 6666666666666 111 111 6 7 2 3 8 5 5 444444 5 44444 00 5 111 6 6 111111111 7777777777 6 6 99999 3 99 6 0 6 3 6 8888888 5 5 0 5 00000 5 0 0000 5 22222 5 000 666666 2 7 6 5 22222 5 666666 99 6 2 777 6 777777 3 0 3 55 5 3 4444444444444444 0 222222222222222222222222222222222222222222222222222222222222222222222222222222222222222 88
lowQualScore : ..... . .. . .............................. .. . .. ................... . . . . . . ... . . .... .............. . . . .. . . . . .. . . . . ...... . . . . .... ... . . . ... ................. .. . . ....... . . .... ... .............. . ..... .. .............................. . .. . . .. ........................ . ...... . ... ........ . ...... . .. . ............. ... ... . . . . . . . ...... . ..... .. . ... . . ......... .......... . . ..... . .. . . . . . ....... . . . . ..... . . .... . ..... . ... ...... . . . . ..... . ...... .. . . ... . ...... . . . .. . . ................ . ....................................................................................... ..
lowQualScore : 00000 5 00 5 000000000000000000000000000000 55 0 55 0000000000000000000 5 5 0 5 0 0 555 0 5 5555 33333333333333 3 7 7 77 0 0 3 5 88 2 8 5 0 222222 7 7 8 7 2222 555 5 7 7 222 00000000000000000 00 0 0 0000000 0 0 0000 222 33333333333333 4 00000 00 222222222222222222222222222222 0 00 2 0 00 444444444444444444444444 0 444444 6 444 22222222 8 222222 2 88 0 7777777777777 777 777 7 5 5 2 0 0 0 444444 0 33333 33 7 444 7 7 555555555 7777777777 7 7 66666 2 22 7 7 7 2 7 6666666 7 7 0 0 99999 0 2 6666 0 55555 0 000 999999 0 5 7 7 33333 7 444444 22 7 5 555 7 000000 2 0 2 88 0 2 2222222222222222 0 777777777777777777777777777777777777777777777777777777777777777777777777777777777777777 33
consensus : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC---CCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAAT-CCCTA-CACAAAATGCACTTGATAA--CTTAGNCTAAAGTAGGCCCACATGTATTTACCTATTTT-TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCATT-GCTTACTG-T-------------A-TCC--AANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATTCG--CGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAG-AAAAA----TGGAATCTTAAAC-G-AAATCACC--AACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CCCCCC-------------TCC---TC---TAAT-ATCTGACATAAAAGACTCAA-TATGC-AG------TCG-TCACCTTCTTTAAT-----ATATATTATCATT-ATAACCTAGAGG--AC-G-AAA--------ATTATAAA----TA-AGATTA-AT-ATATTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGCCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
Reference ( family-1711 ) : ATTGTTGTTCTTTCTCCTCTTAATTAAAGTTCAAAAGTAGAATACCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCGAAGAAAGCAAATTCAGATCAAAATTTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGANTTTTAATNAAAGCTCCTTTCGGNATGCTCCCGCNCGTAGCGCGGGGTATTGACT-ATGTCATACAAT-CCCTA-CACAAAATGCACTTGACAATACNTAGNCTAAAGTAGGCCCACATGTATTTACCTATTTT-TTCAGCATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACAGCGCATTGCAGGAAAGAA-TGTATATTTCGTGCATT-GCTTACTG-T-------------A-TCC--AANAC-A------TACTTC-GTAC----ATGTAAC--TGGCATCTTCAAAG-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATTNG--CGAAAATAGTG--ATATTTTCTAGT--T-TNA---C-------CG---GGGAG-AAAAA----TGGAATCTTAAAC-G-AAATCACC--AACC--GTTAGTCAGTAGTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CCCCCC-------------TCC---TC---TAAT-ATCTGACATAAAAGACTCAA-TATGC-AG------TCG-TCACCTTCTTTAAT-----ATATATTATCATT-ATAACCTAGAGG--AC-G-AAA--------ATTATAAA----TA-AGATTA-AT-ATATTTTTCTCGTTTT-TA--TTTCAATTTTGGT--TG-TTCGGA-AGAAATAA-ATTCTAGA-------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TTGAAAGCTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-AACAATTTTC-C-A-ATAGTAAGCCCCTAT-----NCTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGT-AGGTCCTGAGTGACCTTATTTTTACAAGAA-------T--AT---GCATGCAATGG-TTCCA-TCT---TTCAGGTACAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
gi|1 : ATTGTTGT-----CTCCTCTTAATTAAA--TCAAA-GTAGAATACCTCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC------GAAAAAAGCA--TTCAGATCAAA--TTGAAATAGGAGCATCTATGCGAAGGACATCATTAACAAAGAATCCTGCGATTTTTAATAAAAGCTCC---CAGCA-GCTTCCGCA---AGCGCGGGGTATTGACTGATGTCATACAATTCCCTA-CACAAAATGCACCTGATAA--CTTAGACTAAAGTAG-CCCAC-TGT---------------TCAG-ATGT------AT-ATTAC-ATGTATAAC-TTCTATAT----TTCAACA-----TTGCAG---AGAA-TGTAGATTTCGTGCATTTGTTT--TG-T-------------A-TCCCCAAAAC-A------AACTTTAGAAC----ATGTAAT--TGGCATATTCAAAA-------------GAATTA-----CAAGTGCTAGCA-----------TCA----------TCA---ATTTGTGCGAAATTAGTG--ATATTGTCTAAT--T-TTA---T-------CGCTTGAGAG-AAAA-----TGGA-TCTTAAACCG-AAATCACCCCAACT--GGTTGTCAGTAGTCTAGTCTT-T----TTAATACATTTTGA--TTTA-CCCCCCCCCCCCATCCCCCTCC---TC---TAAT-ATCTGA-ATAAA-GACTCAA-TATGCCAG------TCGATCACCTTCTTTAAT-----ATAT--TATCATTCATAACCTAGAGGGTAC-G-AAA----------TATA------TA--GATTA-ATTATATTTTTCTCGTATT-AA--TTTCAATTTTGGT--TG-TTTGGAGAAAAATAA-A-TCTAGA-------TA-TTC-GACAACTTGGAAA-TTATCTTA---AAAATATGCATGTTAACGC----TGTTACG-----CTCCGTGACTAATCGTTTAGATG-AAGTTGTTT---TTTTAAGAAA-TTAATCAG-AAAATCTTCAAAAA-TTGAAAGCTCTGCTAA-TGTGCATGGTCAGTA------CATACGTTTGTTCACATTAAAAC-AACAATTTTC-C-AGATAGTAAGCCCCTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGGTCCTG-GTTACCTTATTTTTACAAGAAATTTCATT--AG---GAATGCAATGGTTTCCA-TCTNNNNNNNNNNNNNN---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAA-----AAAAAAAAATT--AAAAGG
gi|10 : tA-------TA-TTC-GACAAATTGGAAA-TTATTCT-----AAATATACATG-TAACGTTCAAT-TTACG-----CTCCCCTGCT-ATCGTCTACATGAAAAGTATTTAAATTTAATAAAATTTAATTAGAAg
gi|11 : AAA-------------GAATTA-----CAAGTGCTAGCG-----------TAA----------TTA---ATTGA--TAAAAATAGTG--ATATTTTCTAGTGATATCA---C-------TG---GGAAA-AAAAATATTTGGAATCTTAAAC-GAAAATCACC--
gi|12 : CTCAA-TGTGC-AG------TCG-TCACCTTCTTTAATAATTGATATATTATTATT-ATATCCTAGAGGA-AC-GAAAA--------ATTAAAAAAAATTATAGATCA-AT-ATtc
gi|13 : TATTTT-TTCAGCATGTTTAAAAAT-ATTGT-GTATATAAC-TTCTACAT----TTCAACAGCGCGTTCCAATAAAGTT-TGTATATTTCATGCATT-Gtat
gi|14 : caTAGTCTAGTCTT-T----CAAGTTCATTTTGATTTTAA-CACCCT-------------TCT---TC---TAAT-TGCTGGCAT-AAAGACTCAA-TATGC-AG------TCG-TCACC
gi|15 : ACTCAA-TCTGA-AGATGATGTTG-TTACCCTCTTCAAT-----AT--ATTATC----ATAACCTGGAGG--
gi|16 : GCCCACATGTATTTACCTATTTT-TTCAGCATTT------ATAATTAC-AT
gi|2 : ATTGTTGTTCTTTCTCCTCTTA-TTAAAGTTCAAAAGTAGAATACCCCCCCCCC--------------------------CCC-AAGAAAGCAAATT-AGATCAAAATTTGAAATAGGAG-------------------AT-AACAAAGAA-CCTGCGAGTTT-AATCAAA-TTCTTTTCGGGATGCTCCCGCTCGTAGCGCGGGGTATTGACT--------------CCCTAACACAAAATGCACTT-ATAA--CTTAGCCTAA-GTAGGCCCA-ATGTATTTACCTATTTT-TTCAGCATGT------AT-ATTACCATGCATAAC-TTCTATAT----TTCAAC--CACATTGCAGGAAAGAAATGTATATTTCGTGCATT-GTTTACTG-T-------------AATCC--AAAGC-A------TACTTT-TGAC----ATGTAAC--TGGCATCTTCAA---------------GAAATA-----CCAGTGCTAGCA-----------TCA----------T-A---ATTTG--CGAAAATAGTGGGATATTTTCTAAT--T-TAA---T-------CG---TGAAG-AAA------TGGAATCTTAAAC-G-AAATCACC--AACCTGGTT-GTCAGTATTCTAGTCTT-T----CAAGTTCATTTTGA--TTAA-CCCCCC-------------TTC---TC---TAATCATCTGACATAAAAGACTCAAATATGC-AG------TCG-TCACCTTCTTAAAT-----ATAAATTATCATT-ATAACCTTGAGG---T-G-AAA--------ATTATAAAA---TA-AAATTA-AT-ATATTTTTCTCGTTTT-AA--TTTCAATTT-GGT--T--TTTGGA-AGAAATAA-ATTCTAG--------TA-TTC-GACAACTTGG-AA-TTATTCT----AAAATATGCATG-TAA-GT----T-TTACG-----CTC-GTGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAATGAAATTTAATCAGAAAAATCTTC-AAAA-TGGAAAACTT--CT-A-TGTGCATGTGCAGTA------CATACGTTTGTTCACA--GAAAC-A--AATATTC-C-A-ATAGTAA-CCCCTAT------CTCAATATTAGCCCTCTCCTTTCTTATTTTACAATCGAGGAGCTACATTCTTGCACCTACATGTAAGTCAGGTCCTGAGTGA-CTTA-TTTTACAAGAA-------TTCATATGGCATGCAATGG-TTCCACTNN---NNNNNNNNNNN---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAATGTTTAAAAAAAAATT--AAAAGG
gi|3 : TTGAATCATGTCATACAAT-CCCTA-CACAAAATGCACTT
gi|3 : atctatgacAC-TTCTACAC----TTCAACAGTGCATTGCAGGAAAGAA-TGTACATT--ATACATT-GCT-ATTG-TCGTCTGATTCAGCA-TCC--AATAC-AATGATATACACT-GTAC----AGGTAA---TGCCATCTTCAAAGAAAACCGGATGATGAAATA-----TAAGTGGAAGCA-----------TCG----------CCA---ATTGG--CGAAA-TGGTG--ATATTTTCTAGC--T-CTAGCAC-------TG---AGGAGCGAAAA----TGGACTCTTAAAC-A-AAATCACC--AA-----TTAGTCAGCAGTCTAGTAATATACCACAAGTTCA----GA--TTAATCCCCCC-------------TCCCTTTCCCGTAAT-AT--------AAGGACTCAA-TATCC-AG------TCG-TCACCTTCTTTAAT-----ATAT--TATCATC-GTAACCTAGAGG--ACCG-AAACATTGCAAATTATAGA----TC-AGAGTATAC-AAATTTTT----TTTT-TA--TTTTAATTTTGGT--TG-TTTGGA-AGGAATAA-ATTGTAAAATCTGATTA-TTCAGACAATTGGA-AA-TTTGTCTGAAAGAAATATGCACG-TAATGT----T-TTACGCCGCCCTGCATGGCT-ATCctacacttcaacagtgcattgcaggaaagaatgtacattatacattgctattgtcgtctgattcagcatccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|3 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcA-TTGAATGCTT--CT-AATGTACATATGCAGTA------CATACGTTTGTTCcgtcaaccatattgaatgcttctaatgtacatatgcagtacatacgtttgttccctcag
gi|4 : atctatgacttgaatcatgtcatacaatccctacacaaaatgcacttctacacttcaacagtgcattgcaggaaagaatgtacattatacattgctattgtcgtctgattcagcatccaatacaatgatatacactgtacaggtaatgccatcttcaaagaaaaccggatgatgaaatataagtggaagcatcgccaattggcgaaatggtgatattttctagctctagcactgaggagcgaaaatggactcttaaacaaaatcaccaattagtcagcagtctagtaatataccacaagttcagattaatcccccctccctttcccgtaatataaggactcaatatccagtcgtcaccttctttaatatattatcatcgtaacctagaggaccgaaacattgcaaattatagatcagagtatacaaattttttttttattttaattttggttgtttggaaggaataaattgtaaaatctgattattcagacaattggaaatttgtctgaaagaaatatgcacgtaatgttttacgccgccctgcatggctatccgtcaaccatCCCCC-------------TCC---TC---TAAT-ATCAGACATAAA-GACTCAA-TATGC-AG------TCG-TCACCTTCTTTAAT-----ATAT--TATCATT-ATAACCTAGAGG--TC-G-AAA--------ATTATA----------GATTA-AT-ATATTTTTCTCGTTTTTTA--TTTCAATTTTTGT--TGTTTCAAA-AGAA--AA-ATTCTAGA-------TATTTC-GACAACTTGA-AA-TTATTTC----TAAATATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTG-TT---TTTAA------TTAATCAG-AAAATCTTC-AAAATTTGAAAGCTC--TA-A-TGTGCATGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAATTTTCAC-A-ATAGTAAG-CCCTATNNNN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATGTAAGT-AGG-CCTGAGTGACCTTATTTTTACAAGAA----------AT---GCATGCAATGG-TTCCA--CT---TTCAGGTACATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-----NAAAAAAAATTTAAAAAGGcctcag
gi|5 : -CCCCCC-------------TCC---TC---TAAT-ATC-AACATAAA-GACTCAA-TATGC-AG------TCG-TCACCTTCTTTAAT-----ATAT-TTATCATT-ATAAC-TAGAGG--TC-G-AAA---------TTATA----------GATTA-CT-ATATTTTTCTCGTTTT-TAAATTTCAATTTGGGTGGTG-TTCAGA-AGAAA--A-ATTCTAGA-------TA-TTC-GA--ACTTGG-AA-ATATTCT----CAA-TATGCATG-TAACGT----T-TTACG-----CTCCGAGACT-ATCGTTTAGATGAAAGTTGTTT---TTTAAT------TAATCAGAAAA-TCTTC-AAAA-TTGAAAGCCT--CA-A-TGTGCACGTGCAGTA------CATATGTTTGTTCACA--GAAAC-AACAA-TTTC-C-A-ATAGTAAGCCCCTAT-----NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTACATGT-ATT-AGGTCCTGA-TGA-CTTATTTTTACAAGA-----------AT---GCATGCAATGG-TTTC
gi|6 : acATTCACTTGACAATACGTAGTCTAAAGTAGACCCACATGAATTTGCATATTTTTTTCAGCATGT------AT-ATTGC-ATGCA-AACTTTTTAGAT----CTCAACAGTGTACTGCAGGAGAGCA-TGTATATTTCGTGCATT-GC-CACAGCC-------------G-TCT--GATTC-A------GAATTC-GTACAAGAATACAACGTTCGGGTTTTTAAAT-------------CAGTAAAAGACCAAGTG--AGCAGAAGATGAATTTCAAGTGCTAGCATCATCAATTCG--C-AAAATA---------TTTCTAG-----TGA---CGCCATTTCG---GGGAA-AAAGAC---TGAAATCTTGAAG-A-AAATCACC--A-----GTCAGTAAGTAGTCTAca
gi|7 : A--TTTCAATGTTGGT--TG-TTTGGA-AGGAATATTATTCTAGA-------TA-TTC-GACAACTTGG-AAACTATTCT----AAAATTTGCATG-TAACGT----T-TTACG-----CTCCGTGACT-ATCGTTTAGATGAAAGTTGTTTAGATTTAATGAAATTTAATTAGAGA----TTC-CA------------T--CT-A------ATGTGCAGTA------CATACGTTTGTTCCTA--GAAAC-AAGAATTTTC-CAA-ATAGTAGGCCCacgttattaatatagtct
gi|8 : -AA-TTATTTT----AAGATATACATA-AAGTGT----T-TTACG-----CTCCGTGATT-ATCATCTAGATGAAAGTT-T---------ATGAATTTTAATCAG-AAATTCTTC-AAAA-TTGAAAGCTT--TTAA-TGTACATGTGCAGTAGTTTTCCAAAGGTTTGTTTACA--GTAACAAAAAATTTTC-A-A-ACAGTAGGCCC
gi|9 : aCATGT------AT-ATTAC-ATGTATAAC-TTCTATATATATTTCAACA---CATTGCAGGAATGAA-TGTATATTTCGTGCACT-GC-TACTG-T-------------A-TCC--AAGACAA------TACTTC-GTAC----ATGTAA---TGGCATCTTCAAAG-------------AAA