lowQualScore : 1111111111111111111111111111111111
lowQualScore : 33333333333 1 2222222 1111111 5555555555 111 1 33333333333333333333 1 1111 1111111111111111111111111111111111 11 99999999999999 4 11 1 1 1 1 11 1
lowQualScore : 5 9 0 22222222222 33 3 1 6666666 0 4444444 8 9 1111111111 000 2 0 88 88888888888888888888 5 77 5 2 3 5 4444 8888888888888888888888888888888888 6 88 77777777777777 88 0 88 5 5 5 9 7 3 44 7
lowQualScore : . . . ........... .. . . ....... . ....... . . .......... ... . . .. .................... . .. . . . . .... .................................. . .. .............. .. . .. . . . . . . .. .
lowQualScore : 7 3 4 99999999999 77 5 7 0000000 8 6666666 0 6 2222222222 000 1 4 77 11111111111111111111 7 99 7 0 2 0 2222 9999999999999999999999999999999999 0 33 55555555555555 55 0 55 5 0 5 0 7 3 33 0
consensus : NTAAACAGAGAT-AAGTGACTGCA-----NG----TGCTTGTCTAAATTTCGGGTGACA-------CATTT-G-GTG-TTTTCCAA-ATTTTG-GAAACA--CAACT---CCTCCTGAACCAAC-CAAC--A--CA---T----T-T-T-GT--G-ATTTTGGTATCAAAAGA----AAG----G----G----ATTGTAATTTTGG-----GGTGGTAAAC--TTTTCTTTTTGATTAATNATTTTAAANGAATAAAGACATTTTGTGATCACAGTTACATGTATTTCTATGTCATNAT-TTTC-TCATTTTCAGTCCCTTTTTAAAAAAA
Reference ( gi|1 ) : GTAAACAGAGAT-ATGTGACTGCA-----TG----TGCTTGTGTAAATTTCGGGTGGTA-------CATTT-G-GCG-TTTTCCAA-ATCTTGGGAAACA--CAACT---CCTCCTTAACCAAT-CAAC--A--CA---T----T-T-T-GT--G-ATTTTGTTATTAAAAGA----AAG----A----G----ATTGTAACAGTAAACAGTAATGATAAAC--TTTTCTTTTCA---AATGA----AAAGAAATAAAGA-ATTTTGTAATTACAGTTACATGTATTTTTATGTCATAAT-TTTT-TCATTTTCAGTCCCTTTTTATAAAAA
gi|5 : TAAATAGAAAT-AAATTACTGTA------------------ATAAGTTTTGGATGATG-------CATTTTG-GTG-TTTTCCAA-ATTTTGC--ATCAA-CGACT---GCTCATGAATAAAT-TGAT--A--GA---T----T-T-TTGT--G-ATTTTGTTATCAAAAGA----AAG----
gi|3 : attTAAACAGAAAT-AGGAAACTGCAAGTATTA----TG-TTGTCTTTATATTGGATTACA-------CATTT-G-GTGTTTTTCTAA-ATGTTTGCATATATTCAATT---CCTTCTGAATCATTACAA---A--CA---G----T-TAT-AT--GAACCTTGGTATCAAAAGA----AAA----A----G----GCT-TGACTTTAATTTTGGGTGGTAAACATTTTTCTTTTTGATTAATAA----AAATGAATA
gi|4 : gacataTAAACAGAAGT-ATGTAACTTCA-----TGAAGAT-CTTGTTTCAATTTTGAGTGACACATAAGTCATTT-G-ATG-ATTTGCAA-ATTTT--GCAACA--CAGCCATACCTTCTGAATAAAG-CAGT--GTTCA---TAATAT-A-T-AT--G-TTTCTGAT-TTGAAAGATTCCAAG----G----G----ATTATt
gi|15 : agagtaaacTAAACAGAGAT-AAGTGACTGCA-----GG----TGCTTGTCTA
gi|12 : agnnnnnnnnnnTAAACAGAGAT-AAGTGACTGCA-----GG----TGCT
gi|17 : tgcgtatttgcagacatattttaAAACAGAGAT-ATGTGACAGCA-----TA----TGCTTGTCTAAATgtct
gi|2 : AACAGAGATGAAGTAGATGCA-----GG----TACTTTCCTAA-TTTCAGGCAGTA-------GAT---G-GCA-TTTTCAAACATTTTGCAAA--------------CTTCTGAACCAAC-CAAG--A--C----T----T-T-T-GT--A-ATTTTG---------GA----AAG----G----GCTTAATTGTAATTGTGGA------TGGTAAAC--TTTCCTTTT------ATCATTTTAAAGGAATAAAGACATTTTATG--CATAG-TA-ATG---TTGTGTGTGATCAT-GTTC-TCATTTT
gi|6 : ATTTCGAGTGGCA-------CATTT-TTATA-TTTTCCAA-AAGTT------TA--CAGTT---CCCCCTAAACCATC-TAAC--A--GA---T----AAT-T-GT--G-ATTTTTGTATCAAAGGA----AAG----GACATG----ATTGTagctctatgttat
gi|13 : gGGAAACA--CAACC---CCTCTTTAAGCAAC-CACC--A--TA---TA---T-T-T-GT--G-ACTTGGT
gi|7 : CT---CCTTCTAAACCAAC-CAACCAA--CAGAGT----G-T-T-GTTTG-AATTTGGTATCAAAAGA----ACGTTTCT----G----ATTGTAATTTTG------GATGGTAAAC--TTTTCT
gi|10 : TGTAATTACAGTTACATGTATTTCTATGTCATAATATTTC-TCATTTTCAGTTCCTTTTTAAAAAAAatataat
gi|14 : ATTTCTATGTCATTTT-TTTTCTCATTTTCAGTCTTTTTTTAAAAAAAa
4 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|8 ): ATTTTGGTCTCAAAAATAAAAAGGATTGATTTTAATCGTGGGTGGCAAACACTTCTCTTTCAAATCATAAAAAAATGAAGAAATCTTACGCT
Unaligned ( gi|9 ): AAAAGGGCTTGATTGTAACTTTAGGTGGTAAAATTTTCTTTTTTTTTTAAATTAATGAAAGGAACATTTT
Unaligned ( gi|11 ): TTAGTATGAAAAGGAAGGGGTTAATTGATTGTAATTTTGGATAGTAAACTTTTTCTTTT
Unaligned ( gi|16 ): TATCAAAAGAAAGCGCTTGATTGTAACTTTGGGTGGTAAACATT
Alignments
lowQualScore : 111111111111 2222222 1111111111 33333333333333 444444444444444444 44444444444 77777777777777 11 1 1
lowQualScore : 5 2 1 333333333333 0 1111111 777 6 6 99 6 3333333333 888 0 66 66 33333333333333 66 4 1 0 55 55 7777 999999999999999999 44444444444 8 66 44444444444444 22 8 33 8 88 0 7 6 7 0 1 0 0
lowQualScore : . . . ............ . ....... ... . . .. . .......... ... . .. .. .............. .. . . . .. .. .... .................. ........... . .. .............. .. . .. . .. . . . . . . . .
lowQualScore : 0 6 0 999999999999 1 7777777 555 7 7 22 7 6666666666 888 2 99 99 00000000000000 99 4 0 7 55 00 7777 555555555555555555 00000000000 5 99 55555555555555 44 0 88 8 00 7 3 7 3 2 0 0 0
consensus : NTAAACAGAGAT-ANGTGACTGCANG----TGCT----TGTCTAAATTTCGGGTGGCA-------CATTT-G-GCG-TTTTCCAA-A--T-TTTGN-AAACA--CAACT---CCTCCTGAACCA--ACCAAC--A--CA---T----T-TTG--TG-ATTTTGGTATCAAAA--G--A----AAG----G----G--------ATTGTAATTTT-----G-----GGGTGGTAAAC--TTTTCTTTTT-AT-AATNATTTTAAANGAAT-AAAG--ACATTTTGTAATTACAGTTACATGTATTTCTATGTCATNAT-TTT-CTCATTTTCAGTCCCTTTTTAAAAAAA
Reference ( family-1380 ) : NTAAACAGAGAT-AAGTGACTGCANG----TGCT----TGTCTAAATTTCGGGTGACA-------CATTT-G-GTG-TTTTCCAA-A--T-TTTGG-AAACA--CAACT---CCTCCTGAACCA--ACCAAC--A--CA---T----T-TTG--TG-ATTTTGGTATCAAAA--G--A----AAG----G----G--------ATTGTAATTTT-----G-----GGGTGGTAAAC--TTTTCTTTTTGATTAATNATTTTAAANGAAT-AAAG--ACATTTTGTGATCACAGTTACATGTATTTCTATGTCATNAT-TTT-CTCATTTTCAGTCCCTTTTTAAAAAAA
gi|1 : TAAACAGAGAT-ATGTGACTGCATG----TGCT----TGTGTAAATTTCGGGTGGTA-------CATTT-G-GCG-TTTTCCAA-A--T-CTTGGGAAACA--CAACT---CCTCCTTAACCA--ATCAAC--A--CA---T----T-TTG--TG-ATTTTGTTATTAAAA--G--A----AAG----A----G--------ATTGTAACAGTAAACAG-----TAATGATAAAC--TTTTCTTTTCA---AATGA----AAAGAAAT-AAAG--A-ATTTTGTAATTACAGTTACATGTATTTTTATGTCATAAT-TTT-TTCATTTTCAGTCCCTTTTTATAAAAA
gi|10 : gTGTAATTACAGTTACATGTATTTCTATGTCATAATATTT-CTCATTTTCAGTTCCTTTTTAAAAAAA
gi|11 : TTAGTATGAAAA--G--G----AAG----G----GGTTAATTGATTGTAATTTT-----------GGATAGTAAAC--TTTTTCTTTTa
gi|12 : TAAACAGAGAT-AAGTGACTGCAGG----TGC-----TGTCT
gi|13 : tgcgtatttgcagacatattttaGG-AAACA--CAACC---CCTCTTTAAGCA--ACCACC--A--TA---TA---T-TTG--TG-A-CTTGGT
gi|14 : ATTTCTATGTCATTTT-TTTTCTCATTTTCAGTCTTTTTTTAAAAAAA
gi|15 : TAAACAGAGAT-AAGTGACTGCAGG----TGCT----TGTCTAa
gi|16 : agnnnnnnnnnnTATCAAAA--G--A----AAGC---GCTT-G--------ATTGTAACTTT-----------GGGTGGTAAAC--ATT
gi|17 : AAACAGAGAT-ATGTGACAGCATA----TGCT----TGTCTAAAT
gi|2 : AACAGAGATGAAGTAGATGCAGG----TACT----TTCCTAA-TTTCAGGCAGTA-------GAT---G-GCA-TTTTCAAACA--T-TTTGC-AAAC-------------TTCTGAACCA--ACCAAG--A--C----T----T-TTG--TA-ATTTTGG-------------A----AAG----G----GCTTA----ATTGTAATTGT-----G-----GA-TGGTAAAC--TTTCCTTTT------ATCATTTTAAAGGAAT-AAAG--ACATTTTATG--CATAG-TA-ATG---TTGTGTGTGATCAT-GTT-CTCATTTT
gi|3 : TAAACAGAAAT-AGGAAACTGCAAG----TATTATGTTGTCTTTATATTGGATTACA-------CATTT-G-GTGTTTTTCTAA-A--TGTTTGC-ATATATTCAATT---CCTTCTGAATCATTACAAAC--A---G---T----T-ATA--TGAACCTTGGTATCAAAA--GAAA----AAG----GCTT-G--------ACTTTAATTTT-----------GGGTGGTAAACATTTTTCTTTTTGATTAATAA----AAATGAAT-Aagctctatgttat
gi|4 : gacataTAAACAGAAGT-ATGTAACTTCATGAAGAT-CT----TGTTTCAATTTTGAGTGACACATAAGTCATTT-G-ATG-ATTTGCAA-A--T-TTT-G-CAACA--CAGCCATACCTTCTGAATAA--AGCAGT--GTTCA---TAATAT-ATA--TG-TTTCTGAT-TTGAAA--G--ATTCCAAG----G----G--------ATTATt
gi|5 : agagtaaacTAAATAGAAAT-AAATTACTGTAA-----------------TAAGTTTTGGATGATG-------CATTTTG-GTG-TTTTCCAA-A--T-TTTGC-ATCAA--CGACT---GCTCATGAATAA--ATTGAT--A--GAT--T----T-TTG--TG-ATTTTGTTATCAAAA--G--A----AAG----
gi|6 : attATTTCGAGTGGCA-------CATTT-TTATA-TTTTCCAA-AAGT-TT--------A--CAGTT---CCCCCTAAACCA--TCTAAC--A--GA---T----AATTG--TG-ATTTTTGTATCAAAG--G--A----AAG----GACATG--------ATTGT
gi|7 : gCT---CCTTCTAAACCA--ACCAACCAA--CAGAGT----G-TTGTTTG-AATTTGGTATCAAAA--G--A----ACGTTTCT----G--------ATTGTAATTTT-----------GGATGGTAAAC--TTTTCT
gi|8 : -ATTTTGGTCTCAAAAATA--A----AAA----G----G--------ATTG--ATTTT-----AATCGTGGGTGGCAAAC--ACTTCTCTTTCA--AATCA---TAAAAAAAT-GAAG--AAATCTTatataat
gi|9 : --A----AAG----G----GCTTG----ATTGTAACTTT-----A-----GG-TGGTAAAA--TTTTCTTTTT--T------TTTTAAATTAATGAAAGGAACATTTTacgct
Alignments
lowQualScore : 111111111111 2222222 33333333333333 444444444444444444 33333333333333 55555555555555 11 1 1
lowQualScore : 5 1 1 333333333333 0 1111111 777 0 6 6 99 6 5 99999999 888 0 66 66 33333333333333 66 55 0 55 7777 666666666666666666 8888 99999999999999 66 0 11111111111111 22 8 33 8 7 7 6 7 0 1 0 0
lowQualScore : . . . ............ . ....... ... . . . .. . . ........ ... . .. .. .............. .. .. . .. .... .................. .... .............. .. . .............. .. . .. . . . . . . . . .
lowQualScore : 0 0 0 999999999999 1 7777777 555 7 7 7 22 7 7 44444444 888 2 99 99 00000000000000 99 44 7 55 7777 111111111111111111 5555 66666666666666 99 1 00000000000000 44 0 88 8 3 3 7 3 2 0 0 0
consensus : NTAAACAGAGAT-ANGTGACTGCANG----TGCT----TGTCTAAATTTCGGGTGGCA-------CATTT-G-GCGTTTTCC-AA-A--T-TTT-GCAAACA--CAACT---CCTCCTGAACCA--ACCAAC--A--CA---T----T-TTG--TGA-TTTTGGTATCAAAA--GA----AAG----G----G--------ATTG----TAATTTT-----G-----GGATGGTAAAC--TTTTCTTTTTA--TAATNATTTTAAANGAAT-AAAG--ACATTTTGTAATTACAGTTACATGTATTTCTATGTCATNAT-TTT-CTCATTTTCAGTCCCTTTTTAAAAAAA
Reference ( family-1380 ) : NTAAACAGAGAT-ANGTGACTGCANG----TGCT----TGTCTAAATTTCGGGTGGCA-------CATTT-G-GCGTTTTCC-AA-A--T-TTT-GNAAACA--CAACT---CCTCCTGAACCA--ACCAAC--A--CA---T----T-TTG--TGA-TTTTGGTATCAAAA--GA----AAG----G----G--------ATTG----TAATTTT-----G-----GGGTGGTAAAC--TTTTCTTTTTA--TAATNATTTTAAANGAAT-AAAG--ACATTTTGTAATTACAGTTACATGTATTTCTATGTCATNAT-TTT-CTCATTTTCAGTCCCTTTTTAAAAAAA
gi|1 : TAAACAGAGAT-ATGTGACTGCATG----TGCT----TGTGTAAATTTCGGGTGGTA-------CATTT-G-GCGTTTTCC-AA-A--T-CTTGGGAAACA--CAACT---CCTCCTTAACCA--ATCAAC--A--CA---T----T-TTG--TGA-TTTTGTTATTAAAA--GA----AAG----A----G--------ATTG----TAACAGTAAACAG-----TAATGATAAAC--TTTTCTTTTCA---AATGA----AAAGAAAT-AAAG--A-ATTTTGTAATTACAGTTACATGTATTTTTATGTCATAAT-TTT-TTCATTTTCAGTCCCTTTTTATAAAAA
gi|10 : gTGTAATTACAGTTACATGTATTTCTATGTCATAATATTT-CTCATTTTCAGTTCCTTTTTAAAAAAA
gi|11 : TTAGTATGAAAA--GG----AAG----G----GGTTAATTGATTG----TAATTTT-----------GGATAGTAAAC--TTTTTCTTTTa
gi|12 : TAAACAGAGAT-AAGTGACTGCAGG----TGC-----TGTCT
gi|13 : tgcgtatttgcagacatatttta-GGAAACA--CAACC---CCTCTTTAAGCA--ACCACC--A--TA---TA---T-TTG--TGA--CTTGGT
gi|14 : ATTTCTATGTCATTTT-TTTTCTCATTTTCAGTCTTTTTTTAAAAAAA
gi|15 : TAAACAGAGAT-AAGTGACTGCAGG----TGCT----TGTCTAa
gi|16 : agnnnnnnnnnnTATCAAAA--GA----AAGC---GCTT-G--------ATTG----TAACTTT-----------GGGTGGTAAAC--ATT
gi|17 : AAACAGAGAT-ATGTGACAGCATA----TGCT----TGTCTAAAT
gi|2 : AACAGAGATGAAGTAGATGCAGG----TACT----TTCCTAA-TTTCAGGCAGTA-------GAT---G-GCATTTTCA-AACA--T-TTT-GCAAAC-------------TTCTGAACCA--ACCAAG--A--C----T----T-TTG--TAA-TTTTGG-----------A----AAG----G----GCTTA----ATTG----TAATTGT-----G-----GA-TGGTAAAC--TTTCCTTTT------ATCATTTTAAAGGAAT-AAAG--ACATTTTATG--CATAG-TA-ATG---TTGTGTGTGATCAT-GTT-CTCATTTT
gi|3 : TAAACAGAAAT-AGGAAACTGCAAG----TATTATGTTGTCTTTATATTGGATTACA-------CATTT-G-GTGTTTTTCTAA-A--TGTTT-GCATATATTCAATT---CCTTCTGAATCATTACAAAC--A---G---T----T-ATA--TGAACCTTGGTATCAAAA--GA----AAAA---G----G--------CTTGACTTTAATTTT-----G-----GG-TGGTAAACATTTTTCTTTTTGATTAATAA----AAATGAAT-Aagctctatgttat
gi|4 : gacataTAAACAGAAGT-ATGTAACTTCATGAAGAT-CT----TGTTTCAATTTTGAGTGACACATAAGTCATTT-G-ATGATTTGC-AA-A--T-TTT-GC-AACA--CAGCCATACCTTCTGAATAA--AGCAGT--GTTCA---TAATAT-ATA--TGT-TTCTGAT-TTGAAA--GATTCCAAG----G----G--------ATTA----Tt
gi|5 : agagtaaacTAAATAGAAAT-AAATTACTGTAA-----------------TAAGTTTTGGATGATG-------CATTTTG-GTGTTTTCC-AA-A--T-TTT-GCATCAA--CGACT---GCTCATGAATAA--ATTGAT--A--GAT--T----T-TTG--TGA-TTTTGTTATCAAAA--GA----AAG----
gi|6 : attATTTCGAGTGGCA-------CATTT-TTATATTTTCC-AA-AAGT-TT--------A--CAGTT---CCCCCTAAACCA--TCTAAC--A--GA---T----AATTG--TGA-TTTTTGTATCAAAG--GA----AAG----GACATG--------ATTG----T
gi|7 : gCT---CCTTCTAAACCA--ACCAACCAA--CAGAGT----G-TTGTTTGA-ATTTGGTATCAAAA--GA----ACGTTTCT----G--------ATTG----TAATTTT-----------GGATGGTAAAC--TTTTC--TATA--TAAT
gi|8 : A-TTTTGGTCTCAAAAATAA----AAA----G----G--------ATTG------ATTTT-----AATCGTGGGTGGCAAAC--ACTTCTCTTTC--AAATCA---TAAAAAAAT-GAAG--AAATCTT
gi|9 : A----AAG----G----GCTTG----ATTG----TAACTTT-----A-----GG-TGGTAAAA--TTTTCTTTTT---T-----TTTTAAATTAATGAAAGGAACATTTTacgct
Alignments
lowQualScore : 111111111111 222222222222 33333333333333 444444444444444 1111 11111 22 55555555555555 11 1 1
lowQualScore : 5 1 1 333333333333 0 333333333333 0 6 6 99 6 6 33 77 888 0 66 66 33333333333333 66 55 0 55 7777 666666666666666 7777 22222 66 66 0 11111111111111 22 8 33 8 7 7 6 7 0 1 0 0
lowQualScore : . . . ............ . ............ . . . .. . . .. .. ... . .. .. .............. .. .. . .. .... ............... .... ..... .. .. . .............. .. . .. . . . . . . . . .
lowQualScore : 0 0 0 999999999999 1 333333333333 7 7 7 22 7 7 33 99 888 2 99 99 00000000000000 99 44 7 55 7777 999999999999999 0000 55555 22 99 1 00000000000000 44 0 88 8 3 3 7 3 2 0 0 0
consensus : NTAAACAGAGAT-ANGTGACTGCANG----TGCT----TGTCTAAATTTCGGGTGGCACAT-------TT-G-GCGTTTTCC-AA-A--T-TTT-GCAAACA--CAACT---CCTCCTGAACCA--ACCAAC--A--CA---T----T-TTGT--GA-TTTTGGTATCAAAA--GA----AAG-G----G--------ATTG----TAATTTT-----GGGATGGTAAAC--TTTTCTTTTTA--TAATNATTTTAAANGAAT-AAAG--ACATTTTGTAATTACAGTTACATGTATTTCTATGTCATNAT-TTT-CTCATTTTCAGTCCCTTTTTAAAAAAA
Reference ( family-1380 ) : NTAAACAGAGAT-ANGTGACTGCANG----TGCT----TGTCTAAATTTCGGGTGGCACAT-------TT-G-GCGTTTTCC-AA-A--T-TTT-GCAAACA--CAACT---CCTCCTGAACCA--ACCAAC--A--CA---T----T-TTGT--GA-TTTTGGTATCAAAA--GA----AAG-G----G--------ATTG----TAATTTT-----GGGATGGTAAAC--TTTTCTTTTTA--TAATNATTTTAAANGAAT-AAAG--ACATTTTGTAATTACAGTTACATGTATTTCTATGTCATNAT-TTT-CTCATTTTCAGTCCCTTTTTAAAAAAA
gi|1 : TAAACAGAGAT-ATGTGACTGCATG----TGCT----TGTGTAAATTTCGGGTGGTACAT-------TT-G-GCGTTTTCC-AA-A--T-CTTGGGAAACA--CAACT---CCTCCTTAACCA--ATCAAC--A--CA---T----T-TTGT--GA-TTTTGTTATTAAAA--GA----AAG-A----G--------ATTG----TAACAGTAAACAGTAATGATAAAC--TTTTCTTTTCA---AATGA----AAAGAAAT-AAAG--A-ATTTTGTAATTACAGTTACATGTATTTTTATGTCATAAT-TTT-TTCATTTTCAGTCCCTTTTTATAAAAA
gi|10 : gTGTAATTACAGTTACATGTATTTCTATGTCATAATATTT-CTCATTTTCAGTTCCTTTTTAAAAAAA
gi|11 : TTAGTATGAAAA--GG----AAG-G----GGTTAATTGATTG----TAATTTT-----GG-ATAGTAAAC--TTTTTCTTTTa
gi|12 : TAAACAGAGAT-AAGTGACTGCAGG----TGC-----TGTCT
gi|13 : tgcgtatttgcagacatattttaAAACA--CAACC---CCTCTTTAAGCA--ACCACC--A--TA---TA---T-TTGT--GA--CTTGGT
gi|14 : ggATTTCTATGTCATTTT-TTTTCTCATTTTCAGTCTTTTTTTAAAAAAA
gi|15 : TAAACAGAGAT-AAGTGACTGCAGG----TGCT----TGTCTAa
gi|16 : agnnnnnnnnnnTATCAAAA--GA----AAGCGCTT-G--------ATTG----TAACTTT-----GGG-TGGTAAAC--ATT
gi|17 : AAACAGAGAT-ATGTGACAGCATA----TGCT----TGTCTAAAT
gi|2 : AACAGAGATGAAGTAGATGCAGG----TACT----TTCCTAA-TTTCAGGCAGTAGAT----------G-GCATTTTCA-AACA--T-TTT-GCAAAC-------------TTCTGAACCA--ACCAAG--A--C----T----T-TTGT--AA-TTTTGG-----------A----AAG-G----GCTTA----ATTG----TAATTGT-----GG-ATGGTAAAC--TTTCCTTTT------ATCATTTTAAAGGAAT-AAAG--ACATTTTATG--CATAG-TA-ATG---TTGTGTGTGATCAT-GTT-CTCATTTT
gi|3 : TAAACAGAAAT-AGGAAACTGCAAG----TATTATGTTGTCTTTATATTGGATTACACAT-------TT-G-GTGTTTTTCTAA-A--TGTTT-GCATATATTCAATT---CCTTCTGAATCATTACAAAC--A---G---T----T-ATAT--GAACCTTGGTATCAAAA--GA----AAAAG----G--------CTTGACTTTAATTTT-----GGG-TGGTAAACATTTTTCTTTTTGATTAATAA----AAATGAAT-Aagctctatgttat
gi|4 : gacataTAAACAGAAGT-ATGTAACTTCATGAAGAT-CT----TGTTTCAATTTTGAGTGACACATAAGTCATTT-G-ATGATTTGC-AA-A--T-TTT-GC-AACA--CAGCCATACCTTCTGAATAA--AGCAGT--GTTCA---TAATAT-ATAT--GT-TTCTGAT-TTGAAA--GATTCCAAG-G----G--------ATTA----Tt
gi|5 : agagtaaacTAAATAGAAAT-AAATTACTGTAA-----------------TAAGTTTTGGATGATGCAT-------TTTG-GTGTTTTCC-AA-A--T-TTT-GCATCAA--CGACT---GCTCATGAATAA--ATTGAT--A--GAT--T----T-TTGT--GA-TTTTGTTATCAAAA--GA----AAG-
gi|6 : attATTTCGAGTGGCACAT-------TT-TTATATTTTCC-AA-AAGT-TT--------A--CAGTT---CCCCCTAAACCA--TCTAAC--A--GA---T----AATTGT--GA-TTTTTGTATCAAAG--GA----AAG-GACATG--------ATTG----T
gi|7 : gCT---CCTTCTAAACCA--ACCAACCAA--CAGAGT----G-TTGTTTGA-ATTTGGTATCAAAA--GA----ACG-TTTCTG--------ATTG----TAATTTT-----GG-ATGGTAAAC--TTTTC--TATA--TAAT
gi|8 : A-TTTTGGTCTCAAAAATAA----AAA-G----G--------ATTGATTTTAATCGT-----GGG-TGGCAAAC--ACTTCTCTTTC--AAATCA---TAAAAAAAT-GAAG--AAATCTT
gi|9 : A----AAG-G----GCTTG----ATTG----TAACTTT-----AGG-TGGTAAAA--TTTTCTTTTT---T-----TTTTAAATTAATGAAAGGAACATTTTacgct
Alignments
lowQualScore : 111111111111 222222222222 33333333333333 444444444444444 1111 11111 22 55555555555555 11 1 1
lowQualScore : 5 1 1 333333333333 0 333333333333 0 6 6 99 6 6 33 77 888 0 66 66 33333333333333 66 55 0 55 7777 666666666666666 7777 22222 66 66 0 11111111111111 22 8 33 8 7 7 6 7 0 1 0 0
lowQualScore : . . . ............ . ............ . . . .. . . .. .. ... . .. .. .............. .. .. . .. .... ............... .... ..... .. .. . .............. .. . .. . . . . . . . . .
lowQualScore : 0 0 0 999999999999 1 333333333333 7 7 7 22 7 7 33 99 888 2 99 99 00000000000000 99 44 7 55 7777 999999999999999 0000 55555 22 99 1 00000000000000 44 0 88 8 3 3 7 3 2 0 0 0
consensus : NTAAACAGAGAT-ANGTGACTGCANG----TGCT----TGTCTAAATTTCGGGTGGCACAT-------TT-G-GCGTTTTCC-AA-A--T-TTT-GCAAACA--CAACT---CCTCCTGAACCA--ACCAAC--A--CA---T----T-TTGT--GA-TTTTGGTATCAAAA--GA----AAG-G----G--------ATTG----TAATTTT-----GGGATGGTAAAC--TTTTCTTTTTA--TAATNATTTTAAANGAAT-AAAG--ACATTTTGTAATTACAGTTACATGTATTTCTATGTCATNAT-TTT-CTCATTTTCAGTCCCTTTTTAAAAAAA
Reference ( family-1380 ) : NTAAACAGAGAT-ANGTGACTGCANG----TGCT----TGTCTAAATTTCGGGTGGCACAT-------TT-G-GCGTTTTCC-AA-A--T-TTT-GCAAACA--CAACT---CCTCCTGAACCA--ACCAAC--A--CA---T----T-TTGT--GA-TTTTGGTATCAAAA--GA----AAG-G----G--------ATTG----TAATTTT-----GGGATGGTAAAC--TTTTCTTTTTA--TAATNATTTTAAANGAAT-AAAG--ACATTTTGTAATTACAGTTACATGTATTTCTATGTCATNAT-TTT-CTCATTTTCAGTCCCTTTTTAAAAAAA
gi|1 : TAAACAGAGAT-ATGTGACTGCATG----TGCT----TGTGTAAATTTCGGGTGGTACAT-------TT-G-GCGTTTTCC-AA-A--T-CTTGGGAAACA--CAACT---CCTCCTTAACCA--ATCAAC--A--CA---T----T-TTGT--GA-TTTTGTTATTAAAA--GA----AAG-A----G--------ATTG----TAACAGTAAACAGTAATGATAAAC--TTTTCTTTTCA---AATGA----AAAGAAAT-AAAG--A-ATTTTGTAATTACAGTTACATGTATTTTTATGTCATAAT-TTT-TTCATTTTCAGTCCCTTTTTATAAAAA
gi|10 : gTGTAATTACAGTTACATGTATTTCTATGTCATAATATTT-CTCATTTTCAGTTCCTTTTTAAAAAAA
gi|11 : TTAGTATGAAAA--GG----AAG-G----GGTTAATTGATTG----TAATTTT-----GG-ATAGTAAAC--TTTTTCTTTTa
gi|12 : TAAACAGAGAT-AAGTGACTGCAGG----TGC-----TGTCT
gi|13 : tgcgtatttgcagacatattttaAAACA--CAACC---CCTCTTTAAGCA--ACCACC--A--TA---TA---T-TTGT--GA--CTTGGT
gi|14 : ggATTTCTATGTCATTTT-TTTTCTCATTTTCAGTCTTTTTTTAAAAAAA
gi|15 : TAAACAGAGAT-AAGTGACTGCAGG----TGCT----TGTCTAa
gi|16 : agnnnnnnnnnnTATCAAAA--GA----AAGCGCTT-G--------ATTG----TAACTTT-----GGG-TGGTAAAC--ATT
gi|17 : AAACAGAGAT-ATGTGACAGCATA----TGCT----TGTCTAAAT
gi|2 : AACAGAGATGAAGTAGATGCAGG----TACT----TTCCTAA-TTTCAGGCAGTAGAT----------G-GCATTTTCA-AACA--T-TTT-GCAAAC-------------TTCTGAACCA--ACCAAG--A--C----T----T-TTGT--AA-TTTTGG-----------A----AAG-G----GCTTA----ATTG----TAATTGT-----GG-ATGGTAAAC--TTTCCTTTT------ATCATTTTAAAGGAAT-AAAG--ACATTTTATG--CATAG-TA-ATG---TTGTGTGTGATCAT-GTT-CTCATTTT
gi|3 : TAAACAGAAAT-AGGAAACTGCAAG----TATTATGTTGTCTTTATATTGGATTACACAT-------TT-G-GTGTTTTTCTAA-A--TGTTT-GCATATATTCAATT---CCTTCTGAATCATTACAAAC--A---G---T----T-ATAT--GAACCTTGGTATCAAAA--GA----AAAAG----G--------CTTGACTTTAATTTT-----GGG-TGGTAAACATTTTTCTTTTTGATTAATAA----AAATGAAT-Aagctctatgttat
gi|4 : gacataTAAACAGAAGT-ATGTAACTTCATGAAGAT-CT----TGTTTCAATTTTGAGTGACACATAAGTCATTT-G-ATGATTTGC-AA-A--T-TTT-GC-AACA--CAGCCATACCTTCTGAATAA--AGCAGT--GTTCA---TAATAT-ATAT--GT-TTCTGAT-TTGAAA--GATTCCAAG-G----G--------ATTA----Tt
gi|5 : agagtaaacTAAATAGAAAT-AAATTACTGTAA-----------------TAAGTTTTGGATGATGCAT-------TTTG-GTGTTTTCC-AA-A--T-TTT-GCATCAA--CGACT---GCTCATGAATAA--ATTGAT--A--GAT--T----T-TTGT--GA-TTTTGTTATCAAAA--GA----AAG-
gi|6 : attATTTCGAGTGGCACAT-------TT-TTATATTTTCC-AA-AAGT-TT--------A--CAGTT---CCCCCTAAACCA--TCTAAC--A--GA---T----AATTGT--GA-TTTTTGTATCAAAG--GA----AAG-GACATG--------ATTG----T
gi|7 : gCT---CCTTCTAAACCA--ACCAACCAA--CAGAGT----G-TTGTTTGA-ATTTGGTATCAAAA--GA----ACG-TTTCTG--------ATTG----TAATTTT-----GG-ATGGTAAAC--TTTTC--TATA--TAAT
gi|8 : A-TTTTGGTCTCAAAAATAA----AAA-G----G--------ATTGATTTTAATCGT-----GGG-TGGCAAAC--ACTTCTCTTTC--AAATCA---TAAAAAAAT-GAAG--AAATCTT
gi|9 : A----AAG-G----GCTTG----ATTG----TAACTTT-----AGG-TGGTAAAA--TTTTCTTTTT---T-----TTTTAAATTAATGAAAGGAACATTTTacgct
blockSeqs : G A G TATTATGT AAGTCATTTG T C AG G . AA TT ATA TT CA TTCATAATAT TT AC AT TTCC GGGTTAATTG ACTT . A AT TGATTAATAA GG G GA C A T C T A A T
blockSeqs : . A G AAGATCT TTTG . . . . . AA . . . . CAGAGTG . T . . CGCTTG ATTT . G . TCAAATCAT TG . . A . . . . T . .
blockSeqs : . T T TGCT TTTT . . . . . AT . . . . TATAT . T . . GGCTTA . . A . ATCATTTT AA . . C C . .
blockSeqs : . A G TGCT TTG . . . . . AT . . . . GATTT . T . . GACATG . . G . TTTTTT TT .
blockSeqs : . G A TACT G . . . . . A . . . . GATAA . T . . TTTCTG . . A .
blockSeqs : . T T TGC . . . . . CTT . A . . GGCTTG . . G .
blockSeqs : . A A . . . . GTT . T . . AGG . . G .
blockSeqs : . . . GG .
blockSeqs : . . GG .
blockSeqs : .
blockSeqCons : TTTG******** GATNT********* GGCTTG********* ***** G* TATCATT*******
originalCons : NTAAACAGAGAT-ANGTGACTGCANG----TGCT----TGTCTAAATTTCGGGTGGCACAT-------TT-G-GCGTTTTCC-AA-A--T-TTT-GCAAACA--CAACT---CCTCCTGAACCA--ACCAAC--A--CA---T----T-TTGT--GA-TTTTGGTATCAAAA--GA----AAG-G----G--------ATTG----TAATTTT-----GGGATGGTAAAC--TTTTCTTTTTA--TAATNATTTTAAANGAAT-AAAG--ACATTTTGTAATTACAGTTACATGTATTTCTATGTCATNAT-TTT-CTCATTTTCAGTCCCTTTTTAAAAAAA
finalCons : NTAAACAGAGAT-ANGTGACTGCANG----TGCT----TGTCTAAATTTCGGGTGGCACATTTTG--------GCGTTTTCC-AA-A--T-TTT-GCAAACA--CAACT---CCTCCTGAACCA--ACCAAC--AGATNT---------TTGT--GA-TTTTGGTATCAAAA--GA----AAGGGCTTG---------ATTG----TAATTTT-----GGG-TGGTAAAC--TTTTCTTTTTATCATT-------AAANGAAT-AAAG--ACATTTTGTAATTACAGTTACATGTATTTCTATGTCATNAT-TTT-CTCATTTTCAGTCCCTTTTTAAAAAAA
Alignments
lowQualScore : 111111111111 111111 111111111 111111 111 4444444444444 11 1 1
lowQualScore : 5 1 1 333333333333 0 999999 3 0 6 6 99 6 6 33 77 888 0 66 999999999 5 5 5 5 1 0 55 7777 3 1 8888 444444 000 1111111111111 1 8 8 33 8 7 7 6 7 0 1 0 0
lowQualScore : . . . ............ . ...... . . . . .. . . .. .. ... . .. ......... . . . . . . .. .... . . .... ...... ... ............. . . . .. . . . . . . . . .
lowQualScore : 0 0 0 999999999999 1 222222 2 7 7 7 22 7 7 33 99 888 2 99 555555555 0 0 9 0 0 7 00 7777 6 6 5555 444444 555 3333333333333 0 0 0 88 8 3 3 7 3 2 0 0 0
consensus : NTAAACAGAGAT-ANGTGACTGCANG----TGCT----TGTCTAAATTTCGGGTGGCACAT------TTTGGCGTTTTCC-AA-A--T-TTT-GCAAACA--CAACT---CCTCCTGAACCA--ACCAA----C----A-GA-TATT-TGTGATTTTGGTATCAAAAG--A----AAG-GGCTT----GATTGTAATTTTG------GGTGGTAAAC--TTTTCTTTTT---ATCA--TT--AAANG-AAT-AAAG--ACATTTTGTAATTACAGTTACATGTATTTCTATGTCATNAT-TTT-CTCATTTTCAGTCCCTTTTTAAAAAAA
Reference ( family-1380 ) : NTAAACAGAGAT-ANGTGACTGCANG----TGCT----TGTCTAAATTTCGGGTGGCACAT------TTTGGCGTTTTCC-AA-A--T-TTT-GCAAACA--CAACT---CCTCCTGAACCA--ACCAA----C----A-GA-TNTT-TGTGATTTTGGTATCAAAAG--A----AAG-GGCTT----GATTGTAATTTTG------GGTGGTAAAC--TTTTCTTTTT---ATCA--TT--AAANG-AAT-AAAG--ACATTTTGTAATTACAGTTACATGTATTTCTATGTCATNAT-TTT-CTCATTTTCAGTCCCTTTTTAAAAAAA
gi|1 : TAAACAGAGAT-ATGTGACTGCATG----TGCT----TGTGTAAATTTCGGGTGGTACA-------TTTGGCGTTTTCC-AA-A--T-CTTGGGAAACA--CAACT---CCTCCTTAACCA--ATCAA----C----A-CA-T-TT-TGTGATTTTGTTATTAAAAG--A----AAG-A--------GATTGTAACAGTAAACAGTAATGATAAAC--TTTTCTTTTC---A-AA--TG--AAAAGAAAT-AAAG--A-ATTTTGTAATTACAGTTACATGTATTTTTATGTCATAAT-TTT-TTCATTTTCAGTCCCTTTTTATAAAAA
gi|10 : gTGTAATTACAGTTACATGTATTTCTATGTCATAATATTT-CTCATTTTCAGTTCCTTTTTAAAAAAA
gi|11 : TTAGTATGAAAAG--G----AAG-GGGTTAATTGATTGTAATTTTG------GATAGTAAAC--TTTTTCTTTT---a
gi|12 : TAAACAGAGAT-AAGTGACTGCAGG----TGC-----TGTCT
gi|13 : tgcgtatttgcagacatattttaAAACA--CAACC---CCTCTTTAAGCA--ACCAC----C----A-TA-TATT-TGTGA-CTTGGT
gi|14 : ggATTTCTATGTCATTTT-TTTTCTCATTTTCAGTCTTTTTTTAAAAAAA
gi|15 : TAAACAGAGAT-AAGTGACTGCAGG----TGCT----TGTCTAa
gi|16 : agnnnnnnnnnnTATCAAAAG--A----AAG-CGCTT----GATTGTAACTTTG------GGTGGTAAAC--ATT
gi|17 : AAACAGAGAT-ATGTGACAGCATA----TGCT----TGTCTAAAT
gi|2 : AACAGAGATGAAGTAGATGCAGG----TACT----TTCCTAA-TTTCAGGCAGTAGAT---------GGCATTTTCA-AACA--T-TTT-GCAAAC-------------TTCTGAACCA--ACCAA-----------GA-CTTT-TGTAATTTTGG-----------A----AAG-GGCTT----AATTGTAATTGTG------GATGGTAAAC---TTTCCTTTT---ATCATTTT--AAAGG-AAT-AAAG--ACATTTTATG--CATAG-TA-ATG---TTGTGTGTGATCAT-GTT-CTCATTTT
gi|3 : TAAACAGAAAT-AGGAAACTGCAAG----TATTATGTTGTCTTTATATTGGATTACACAT------TT-GGTGTTTTTCTAA-A--TGTTT-GCATATATTCAATT---CCTTCTGAATCATTACAAA----C----A-GT-TATA-TG-AACCTTGGTATCAAAAG--A----AAAAGGCTT----GACTTTAATTTTG------GGTGGTAAACATTTTTCTTTTTG--ATTA--ATAAAAATG-AAT-Aagctctatgttat
gi|4 : gacataTAAACAGAAGT-ATGTAACTTCATGAAGAT-CT----TGTTTCAATTTTGAGTGACACATAAGTCATTTGATGATTTGC-AA-A--T-TTT-GC-AACA--CAGCCATACCTTCTGAATAA--AGCAGTGTTC----ATAA-TATA-TATGTTTCTGAT-TTGAAAG--ATTCCAAG-GGATT----t
gi|5 : agagtaaacTAAATAGAAAT-AAATTACTGTAA-----------------TAAGTTTTGGATGATGCAT------TTTGGTGTTTTCC-AA-A--T-TTT-GCATCAA--CGACT---GCTCATGAATAA--ATTGA----T----A-GA-TTTT-TGTGATTTTGTTATCAAAAG--A----AAG-at
gi|6 : attATTTCGAGTGGCACAT------TTTTATATTTTCC-AA-AAGT-TT--------A--CAGTT---CCCCCTAAACCA--TCTAA----C----A-GA-TAAT-TGTGATTTTTGTATCAAAGG--A----AAG-GACAT----GATTGT
gi|7 : gCT---CCTTCTAAACCA--ACCAA----CCAACA-GAGTGTTGTTTGAATTTGGTATCAAAAG--A----ACG-TTTCT----GATTGTAATTTTG------GATGGTAAAC--TTTTCT
gi|8 : ATTTTGGTCTCAAAAATAA----AAA-GGATT----GATTTTAATCGTG------GGTGGCAAAC--ACTTCTCTTTCAAATCA---T--AAAAA-AAT-GAAG--AAATCTTatataat
gi|9 : --A----AAG-GGCTT----GATTGTAACTTTA------GGTGGTAAAA--TTTTCTTTTT----TTT--TT--AAATT-AATGAAAGGAACATTTTacgct