lowQualScore : 11111111111111111111111111111111111111 11111111111 1111111111111111111
lowQualScore : 2222222 1 444444444444 1 11 1 1 22 2222 1 44444444 11 1 3333333333333 11 77777777777777777 2222222 7777777777777777777777777777777 111 111 11 33333333 222 6666666666666 44444444444444444444444444444444444444 1 11 88888888888 1 3333 11 1 22 1 111 22222 2222222222222222222 333333 222 1 4 777777777777777777 11
lowQualScore : 4444444 4 4 5 777777777777 6 6 7 00 7 5 33 8888 6 3 77777777 11 0 3 1 0 0 5555555555555 8 5 66 0 88888888888888888 6666666 4444444444444444444444444444444 777 333 4 55 0 00000000 222 2222222222222 3 6 7 88888888888888888888888888888888888888 3 77 1 88 3 6 1 6 11111111111 7 3333 22 6 5 6 6 11 7 888 1 1 4 22 1 1 1 8888888888 55555555 22 444 22 2 99999 2 5555555555555555555 3 4 4 777777 4 88 6 444 5 3 0 666666666666666666 22
lowQualScore : ....... . . . ............ . . . .. . . .. .... . . ........ .. . . . . . ............. . . .. . ................. ....... ............................... ... ... . .. . ........ ... ............. . . . ...................................... . .. . .. . . . . ........... . .... .. . . . . .. . ... . . . .. . . . .......... ........ .. ... .. . ..... . ................... . . . ...... . .. . ... . . . .................. ..
lowQualScore : 5555555 0 0 0 000000000000 0 0 0 00 0 0 00 3333 7 3 77777777 00 8 2 4 8 8 4444444444444 0 0 22 7 77777777777777777 0000000 0000000000000000000000000000000 555 333 7 77 7 77777777 000 7777777777777 7 7 3 55555555555555555555555555555555555555 3 77 0 33 7 7 0 0 00000000000 0 0000 00 0 0 0 0 00 0 000 2 7 6 11 5 1 5 3333333333 66666666 11 222 44 7 55555 5 5555555555555555555 0 0 0 555555 0 00 0 000 0 0 0 555555555555555555 00
consensus : CCTAGAAGCAGNATGTCAATTNCANTAGTAGACGACACACNNTACANCAGCGTGACGTATTTTTCCNTCTTTCTTATAAGT----TACTGTTT-TAA------A-AGAGA--AAATATGCGTGCGAATAAATACGATACA--------GATTTCTAGTA-TTTAATAAAAAAAA-----AGCCT-TT--GCTATTGTGTTTT--T----ATTT---C-GTTTT---GTCGACAAGGA-------ATAA---ATATTTCT-ATGNGTGAATTTGCGCTGATCTCGA-CGTATT-ACAC-C-TTCA-------GC----TTNCGANACGTCCTCTC--GATCAACTGT--TGTTTACACAGCA-TG-GATCG-AACGC-CGAAGCGCCGACTAA--TTGACATCTNTACCCGGGATTACCACATGGTGCGAAGGGCATTTAGTGTCGCATGTGCACGTACAGACAGCGCTTTAATACTGGTACGGATCAGTAATTAAAACGCGT-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-ATATTTTCNAAAGGTTTTTATTTTATTTCAAGNTTNCAGCGAAATTANGTCCCNACGAATATGCCCNTGAACNNAAGACAATGGAANNCAACCCCAACGAAAATTNATTATTTCACAGTATTTCACCGCTGATCAGCAACTGGTGA
Reference ( gi|2 ) : CCTAGAAA-AATGTTTCAATTACAATCGTAGACAACCCATTTTTTGTCAGCATGACATATTTATCTATCATTGTTTCAAGT----TACTGTTT-TAA------A-AGAGA--AAATATGCGTGCTAATAAATACGCTAAA--------GATTTCTAGTA-TTGAATGCAAAAGA-----TGCCTATTAGGCTATTGTGTTTT--T----ATTT---C-GTTTT---GTCGATAAGGA-------ATAA---ATATTTCTAATGAGTGAATTTGCGTTGGTCTCAACCATCTT-ACAC-C-TTCA-------AC----TTGTGACACGTCCTCTCCAAATCAATTGT--TGTTTTCATAACAGTTTGATCA-AACAC-CAAAGAGCCAACTAA--TTGACATCTCTCCCCAAGATTGCCA----------GGGGCATATATCACCGTGTGTGTAGGTGCAGGCAGCGGCTTAAAACTGGTACAAGTCAGTAATTAAAACACGT-TATATA--ATAGAAA-TACTCAAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-ATTTTTTCGAAA------------AT---ACGTTTTCAATGAAATTAAGTCCCCAAGAATATGTCCTTGAACTAAAAACAACGAAAATAAATACCAACGAAAATTAA-TATTTCACAGTCTTCTACCGATAA-CA-CAACTAATGACCAAATCATTA
gi|1 : CCTAGAAG-AAGATGTCAATTTCATTAGTAGACGACACATATTACAGTAGCGTGACGTATTTTTCCTTCTTTCTTATAAGTAGGTTATT-TTT-TAA------GCATGGACTAAATA---GTATTA-----TACGGTACA--------GATTGCTAGAAATTGTTTAAAAAAAA------GCCT-TT----TATTTTGTTTTCAT----ATTTAAGC-GTT-----------------------ATTA---ATATATCTAATGGGTGACTTAGCGCTGGTCTCGACCAATTA-ACACAT-TTTA-------ACATTCTTATGAGACATCCTTT---GATCAA---------------AAC-------TCGCAACAC-AAAAGCACCGACTAA--TTAACATCTCTACACAGGATTACCACATGGTGCGAAGGGCATTTAGTGTCGCATGTGCACGTACAGACAGCGCTTTAATACTGGTACGGATCAGTAATTTAAA-ACGT-TATGTA--ACAGAAA-TTCGCGGA-ATTAAATCAGCCGTATGT--------TC--GCAT--TT--TTAACGATATTTTCTAAA------------AT---AAGGTTTCAACGAAATTATGTCCCAACGAATATGCCTTTGAACTTAAAACAATGAAATTTAACCCCAATGAAAATTCATTATTTCACAGTATTTCACCACTGATCAGCAATTGGTGA
gi|4 : tTAGAAACAGTATGTCAATTACAATAGTAAACAA--CACTGTACACCAGTGTGATGTATTTTTCCAagtatgttaatatttactgaccgagcgaaaaacagtgtaagaagtgttcagattgcttgcaacgagcaatctgaactcttcctacactgttttcaaaggccttctgtaattgatgcgggaaaacgcgtatctatggtgtaaagggttagctactgcttgacatcattcagactattgttttaatgaaacaacatgtaaacctgtatcaatggcggatctactcttaaaattataaactaattaaaatt
gi|8 : ----TGCTGTCTCTAA------A-AGAGA--AAATGTGTGTGCAAATAAATACGATACA--------GATTTATAGTA-TTTAATGaatatgcatgtgaataaaaaaatgattccgatttctagtattgaactaaaaaggagcctgttattgtgtttttatttctttctgtcaacaaggaataaacacttcttatgtgtgaatttgtgctgatcttaaatttattccacctccagcttgtaaatcgtcatctcgaattgttgt
gi|7 : ----TACTGTTT-AAAGTAGCTA-AGAGA--AAATATGCGTGCAAATAAATACAATACA--------GATTTCTAGTA-TTTAA
gi|6 : GAGA--AAATATGAAGGCAAATAAATATGATATG--------GAATTCTAGTA-TTTAATATAAAAAAAACACAACCTTTTAGGCTATTGTTTTTT--TTGGGGTTT------TTTT---GCCAACAAGGA-------AAAA---AT
gi|4 : --AAATATGCATGTGAATAAA------AAAATGATTCCGATTTCTAGTA-TTGAACTAAAAAGG-----AGCCT-----GTTATTGTGTTTT--T----ATTT---C-TTTCT---GTCAACAAGGA-------ATAA---ACACTTCTTATGTGTGAATTTGTGCTGATCTTAAATTTATT-CCAC-C-TCCA-------GC----TTGTAAATCGTCATCTC-----GAATTGT--TGT
gi|3 : tagaaacagtatgtcaattacaatagtaaacaacactgtacaccagtgtgatgtatttttccT--T----ATTT---CAGTTTTCTAATAGATATGTATCTACTTATAATTTGTATTT----TAAGTGAATTTGC---GATATCAA-CGTATTAACAC-CTTTCATCCCGATGC----TTTCGACACG-CCTCTCT-AATC--CTGTGATGTTTACACAGCATTGTAA-CG-AAAACTCGCAACACAAACTAATTTTGACATATGTATCCGAAATTACC
gi|30 : atgtcgatttctagaataaacgccatatttcacaccagcgtgacatattttcatcagctcttttcaggaagtatattaaaaatacgcttataaaaccaCAGTAAGATCA-AACGC-CAAAGAGCCGACTAA--TTGACACCTTTCCCCAGGATccatgttgcgatacgcatcggtagtcgcgtgattgcaag
gi|5 : TTAGTAATTAAAACATGT-TCTGAA--ATAAAAAATACTCGGA-TTTAAA--------------------TTAGGCAAAACTTCACAAC-ATAT---CGAAAGGTTTTTATTTTATTTCAAGTTTACAGTGAAATTAAGTCCTTA----TATGTCCATGAACAAAAGACAATGGAAAACAATCCCAACGAAAATTAATTATTTCACAG-------CAGTTAA-TA-CAAC
gi|14 : AGTAATTAGAACAAAT-TACATA--ATAGAAA-TACTCAAA-TTCCAA----------GA--------TA--GCA---CT--AAAAattgaaattat
gi|10 : AGTA-TTAAAACACGTATACATATTCTCGAAA-CACTCAAA-TTCAAA----------GG--------TC--GCA---CA--AAAAC-ATt
gi|28 : AGTAATTAAAACACGT------A--A-GGTAA-TACTCGAA-TTCAAA----------GA--------TC--ACA---TT--AAAAC-A
gi|12 : GTAATTAAAACACGT-TATGTA--ATAGAAA-TACTTGAA-TTCAAA----------TA--------TC--GCA---CT--AAAAC-A
gi|26 : GTAATTAAAACGCGT-TATGTT--ATAGAAA-TACTCAAA-TTCAAA----------GA--------TT--GCA---CT--AAAa
gi|18 : GTAATTAAAACGCAT-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GG--------TC--ACA---CT--AAAAC-
gi|25 : GTAATTAAACCACGT-TATGTA--ATAGAAT-TACTCAAG-CTCAAA----------GA--------TC--GCA---CT--AAA
gi|16 : GTAATTAATGTGCAT-TATATA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TT--GCA---TT--AAAAC-
gi|17 : GTTATTAACATGCGT-TATGTA--ATAGAAA-TACTAGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-
gi|19 : GTAATTAAAATGCGT-TATGTA--GTAGAAA-TACTCTAA-CACAAA----------GG--------TC--GCA---CT--AAAAC-
gi|23 : GTAACTAGAACGCTA-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TC--GCA---TT--AAAA
gi|20 : GTAATTAAAATGTGT-TATGTA--ATAGAAA-TACTCAAA-ATCAAA----------AA--------TA--GCA---C
gi|32 : GTAATTAAA-CATGT-TATGTA--ATAGAAA-TACTCGAATTTCAAA----------GA--------TT--GCA---gcaaa
gi|31 : GTAATTAAAACGTGT-TATGTA--ATAGCAA-TATTATAA-TTCAAA----------GA--------TC--GCA---C
gi|22 : GTAATTAAAAAGTGT-TATGTA--ATAGAA--TACTTAAA-TTCAAA----------GA--------TG--GCA---CT--TAA
gi|13 : cGTAATTAAAAGGCGT-AATGTA--TTAGAAT-TACTCGAA-TTCAAA----------GA--------TT--GCA---CT--TAAAC-Ag
gi|15 : GTAATAAAAATGCTT-TATGTA--AAAGAAA-TTCTCAAA-TACAAA----------GA--------TC--GCA---CT--TAAAC-A
gi|24 : TAGTTAAAACACGT-TATGTA--ATAGAAA-TATTCGAT-TTCAAA----------GA--------CT--GCA---CT--AAAAC-
gi|27 : TAATTAAAACTTGT-TATGTA--ATAAAAA-TACTCGAA-TTCAAA----------GG--------TC--GCA---CT--AAA
gi|21 : TAATTAAAACCAGA-TATGTA--ATAGAAA-TATTCAAA-TTCAAA----------GA--------TC--GCA---CT--GAAA
gi|29 : aAATTAAAACGTGT-TACGTA--ATAGAAG-TACTAAAA-TTCAAA----------GA--------TT--GCA---CG--AAA
gi|9 : TTAAAACGCTT-TATGTA--ATAGAAA-TACTCAAT-TTCAAAT---------GAGCCAAAATTC--GCA---CT--AAAAC-A
gi|33 : ATGTA--ATAGAAA-TACTCGAA-TCAAAA----------GA--------TC--GCA---CT--AAAGC-Aac
gi|35 : tcatgTA--ACAGAAG-TACTGGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-A
2 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|11 ): AGTAATTTAAAACTTTGTTATACAGAAATTCGCGGAATTAAATCAGCCGCACTTTAACG
Unaligned ( gi|34 ): ATTTTTTTTTCTAAAATTTGTTTTCAACAAAAAATTAATA
Alignments
lowQualScore : 11111111111111111
lowQualScore : 11111 22 1111 333333333 111 111 11 2222 44444444 2222222 22222 22222 11 11 2 1 1 4444444444444 5555555555555555555555555555555555 1 1 11 1 11 11111111111111111 1 1 1
lowQualScore : 66666 1 1 9 444 1 3 1 11 8 7777 3 8 000000000 77 0 111 1 77 5 000 77 1111 44444444 6666666 22222 7 0 4 0 66666 1 6 22 66 0 0 0 1111111111111 33 1 3 7777777777777777777777777777777777 0 2 0 2 2 33 1 3 2 99999 4 7 3 1 88 2 2 4 1 1 22 1 1 8888888888 55555555 22 444 22 2 7 1 99999999999999999 1 1 11 1 1 5 0 1 22 0 0 555 0 1 7 2 5 5
lowQualScore : ..... . . . ... . . . .. . .... . . ......... .. . ... . .. . ... .. .... ........ ....... ..... . . . . ..... . . .. .. . . . ............. .. . . .................................. . . . . . .. . . . ..... . . . . .. . . . . . .. . . .......... ........ .. ... .. . . . ................. . . .. . . . . . .. . . ... . . . . . .
lowQualScore : 00000 0 0 2 000 0 2 0 00 3 0000 2 0 666666666 99 1 333 7 99 7 000 88 2222 22222222 0000000 55555 0 8 2 2 55555 0 5 00 55 0 0 0 8888888888888 00 0 2 2222222222222222222222222222222222 0 0 0 0 5 88 0 0 0 77777 7 3 3 0 33 5 5 0 6 6 00 5 5 0000000000 44444444 00 111 33 5 3 0 33333333333333333 0 0 33 0 0 0 7 0 00 7 7 777 7 0 3 5 5 0
consensus : CCTAGAAA-AGTATGTCAATTNCAATAGTAGACGACACATTTTACGCCAGCGTGACGTATTTTTCCATC-GTTCTTTTAAGT----TACTGTTT-TAA------A-AGAGA--AAATATGCGTGCGAATAAATA--CGA-TA---CAGATTTCTAGTATTTAATN-AAAAAGA----AGCCT-TT-G-GCTATTGTGTTTT--T----ATTT---CGTTTTGTCGACAAGGAATAAATATTTC-TAATGAGTGAATTTGCGCTGGTCTC-AAC-NTATTAACAC-CTT-CA-------GC----TTGTGANACGTCCTCTCC-GATCAATTGT--TGTTT-CACAGCA--TTG-ATCG-AACAC-CAAAGCGCCGACTAATT--GACATCTCTNCCCAGGATTACCACATG-TGCGANGGGCATTTAGC-GTCGCGTG--TGCANGTGCAGGCAGCGNCTTAANACTGGTACGGGTCAGTAA-TTAAAACGCGT-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-ATATTTTCGAAA-------AT--------AAGTTTTCAACGAAATTAAGTCCCNA-GAATATGTCCTTGAACTAAAAACAACGAAAATNAATCCCAACGAAAATTAATTATTTCACAGTATTTCACCGNTGATCAGCAACTGGTGA
Reference ( family-994 ) : CCTAGAAGCAGNATGTCAATTNCANTAGTAGACGACACACNNTACANCAGCGTGACGTATTTTTCCNTC-TTTCTTATAAGT----TACTGTTT-TAA------A-AGAGA--AAATATGCGTGCGAATAAATA--CGA-TA---CAGATTTCTAGTATTTAATA-AAAAAAA----AGCCT-TT---GCTATTGTGTTTT--T----ATTT---CGTTTTGTCGACAAGGAATAAATATTTC-TA-TGNGTGAATTTGCGCTGATCTC-GAC-GTATTA-CAC-CTT-CA-------GC----TTNCGANACGTCCTCTC--GATCAACTGT--TGTTTACACAGCA--TGG-ATCG-AACGC-CGAAGCGCCGACTAATT--GACATCTNTACCCGGGATTACCACATGGTGCGAAGGGCATTTAGT-GTCGCATG--TGCACGTACAGACAGCGCTTTAATACTGGTACGGATCAGTAA-TTAAAACGCGT-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-ATATTTTCNAAAGGTTTTTATTTTATTTCAAGNTTNCAGCGAAATTANGTCCCNACGAATATGCCCNTGAACNNAAGACAATGGAANNCAACCCCAACGAAAATTNATTATTTCACAGTATTTCACCGCTGATCAGCAACTGGTGA
gi|1 : CCTAGAAGAAG-ATGTCAATTTCATTAGTAGACGACACATATTACAGTAGCGTGACGTATTTTTCCTTC-TTTCTTATAAGTAGGTTATT-TTT-TAA------GCATGGACTAAATA---GT----ATTA-TA--CGG-TA---CAGATTGCTAGAAATTGTTT-AAAAAAA----AGCCT-TT-----TATTTTGTTTTCAT----ATTTAAGCGTT-------------ATTAATATATC-TAATGGGTGACTTAGCGCTGGTCTC-GAC-CAATTAACACATTT-TA-------ACATTCTTATGAGACATCCTTT---GATCAA---------------AAC--------TCGCAACAC-AAAAGCACCGACTAATT--AACATCTCTACACAGGATTACCACATGGTGCGAAGGGCATTTAGT-GTCGCATG--TGCACGTACAGACAGCGCTTTAATACTGGTACGGATCAGTAATTTAAAA--CGT-TATGTA--ACAGAAA-TTCGCGGA-ATTAAATCAGCCGTATGT--------TC--GCAT--TT--TTAACGATATTTTCTAAA-------AT--------AAGGTTTCAACGAAATTATGTCCCAACGAATATGCCTTTGAACTTAAAACAATGAAATTTAACCCCAATGAAAATTCATTATTTCACAGTATTTCACCACTGATCAGCAATTGGTGA
gi|10 : tAGTA--TTAAAACACGTATACATATTCTCGAAA-CACTCAAA-TTCAAA----------GG--------TC--GCA---CA--AAAAC-ATagtatgttaatatttactgaccgagcgaaaaacagtgtaagaagtgttcagattgcttgcaacgagcaatctgaactcttcctacactgttttcaaaggccttctgtaattgatgcgggaaaacgcgtatctatggtgtaaagggttagctactgcttgacatcattcagactattgttttaatgaaacaacatgtaaacctgtatcaatggcggatctactcttaaaattataaactaattaaaatt
gi|12 : GTAA-TTAAAACACGT-TATGTA--ATAGAAA-TACTTGAA-TTCAAA----------TA--------TC--GCA---CT--AAAAC-A
gi|13 : GTAA-TTAAAAGGCGT-AATGTA--TTAGAAT-TACTCGAA-TTCAAA----------GA--------TT--GCA---CT--TAAAC-Aa
gi|14 : AGTAA-TTAGAACAAAT-TACATA--ATAGAAA-TACTCAAA-TTCCAA----------GA--------TA--GCA---CT--AAAA
gi|15 : GTAA-TAAAAATGCTT-TATGTA--AAAGAAA-TTCTCAAA-TACAAA----------GA--------TC--GCA---CT--TAAAC-At
gi|16 : GTAA-TTAATGTGCAT-TATATA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TT--GCA---TT--AAAAC-
gi|17 : GTTA-TTAACATGCGT-TATGTA--ATAGAAA-TACTAGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-
gi|18 : GTAA-TTAAAACGCAT-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GG--------TC--ACA---CT--AAAAC-
gi|19 : GTAA-TTAAAATGCGT-TATGTA--GTAGAAA-TACTCTAA-CACAAA----------GG--------TC--GCA---CT--AAAAC-
gi|2 : CCTAGAAA-AATGTTTCAATTACAATCGTAGACAACCCATTTTTTGTCAGCATGACATATTTATCTATC-ATTGTTTCAAGT----TACTGTTT-TAA------A-AGAGA--AAATATGCGTGCTAATAAATA--CGC-TA---AAGATTTCTAGTATTGAATG-CAAAAGA----TGCCTATTAG-GCTATTGTGTTTT--T----ATTT---CGTTTTGTCGATAAGGAATAAATATTTC-TAATGAGTGAATTTGCGTTGGTCTC-AACCATCTTA-CAC-CTT-CA-------AC----TTGTGACACGTCCTCTCCAAATCAATTGT--TGTTTTCATAACAGTTTG-ATCA-AACAC-CAAAGAGCCAACTAATT--GACATCTCTCCCCAAGATTGCCA----------GGGGCATATATC-ACCGTGTG--TGTAGGTGCAGGCAGCGGCTTAAAACTGGTACAAGTCAGTAA-TTAAAACACGT-TATATA--ATAGAAA-TACTCAAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-ATTTTTTCGAAA-------AT--------ACGTTTTCAATGAAATTAAGTCCCCAAGAATATGTCCTTGAACTAAAAACAACGAAAATAAATACCAACGAAAATTAA-TATTTCACAGTCTTCTACCGATAA-CA-CAACTAATGA
gi|20 : GTAA-TTAAAATGTGT-TATGTA--ATAGAAA-TACTCAAA-ATCAAA----------AA--------TA--GCA---Cccaaatcatta
gi|21 : TAA-TTAAAACCAGA-TATGTA--ATAGAAA-TATTCAAA-TTCAAA----------GA--------TC--GCA---CT--GAAAgcaaa
gi|22 : aGTAA-TTAAAAAGTGT-TATGTA--ATAG-AA-TACTTAAA-TTCAAA----------GA--------TG--GCA---CT--TAA
gi|23 : cGTAA-CTAGAACGCTA-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TC--GCA---TT--AAAAg
gi|24 : TAG-TTAAAACACGT-TATGTA--ATAGAAA-TATTCGAT-TTCAAA----------GA--------CT--GCA---CT--AAAAC-
gi|25 : GTAA-TTAAACCACGT-TATGTA--ATAGAAT-TACTCAAG-CTCAAA----------GA--------TC--GCA---CT--AAA
gi|26 : GTAA-TTAAAACGCGT-TATGTT--ATAGAAA-TACTCAAA-TTCAAA----------GA--------TT--GCA---CT--AAA
gi|27 : TAA-TTAAAACTTGT-TATGTA--ATAAAAA-TACTCGAA-TTCAAA----------GG--------TC--GCA---CT--AAA
gi|28 : AGTAA-TTAAAACACGT-AAGGTA--ATA-------CTCGAA-TTCAAA----------GA--------TC--ACA---TT--AAAAC-A
gi|29 : AA-TTAAAACGTGT-TACGTA--ATAGAAG-TACTAAAA-TTCAAA----------GA--------TT--GCA---CG--AAA
gi|3 : ATGTCGATTTCTAGAATAAACGCCATATTTCACACCAGCGTGACATATTTT--CATCAGCTCTTTTCAGG----AAGTATAT-TA-------------A--AAATACGCTT----ATAAA-A--CCATTATTTCAGTTTTCTAATA
gi|3 : TATTT-----TAAGTGAATTTGCG---ATATC-AAC-GTATTAACAC-CTTTCATCCCGATGC----TTTCGACACG-CCTCTCT-AATC--CTGTGATGTTTACACAGCA--TTGTAACG-AAAACTCGCAACACAAACTAATTTTGACATATGTATCCGAAATTACCCCATGTTGCGATACGCA-TCGGTAGTCGCGTGATTGCAgatatgtatctacttataatttgtattttaagtgaatttgcgatatcaacgtattaacacctttcatcccgatgctttcgacacgcctctctaatcctgtgatgtttacacagcattgtaacgaaaactcgcaacacaaactaattttgacatatgtatccgaaattaccccatgttgcgatacgcatcggtagtcgcgtgattgcaag
gi|30 : atgtcgatttctagaataaacgccatatttcacaccagcgtgacatattttcatcagctcttttcaggaagtatattaaaaatacgcttataaaaccattatttcagttttctaatagatatgtatctacttataatttgCAGTA---AG-ATCA-AACGC-CAAAGAGCCGACTAATT--GACACCTTTCCCCAGGATag
gi|31 : GTAA-TTAAAACGTGT-TATGTA--ATAGCAA-TATTATAA-TTCAAA----------GA--------TC--GCA---C
gi|32 : GTAA-TTAAA-CATGT-TATGTA--ATAGAAA-TACTCGAATTTCAAA----------GA--------TT--GCA---
gi|33 : ATGTA--ATAGAAA-TACTCGAA-TCAAAA----------GA--------TC--GCA---CT--AAAGC-A
gi|35 : tcatgGTA--ACAGAAG-TACTGGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-A
gi|4 : TAGAAACAGTATGTCAATTACAATAGTAAACA--ACACTGTACACCAGTGTGATGTATTTTTCC
gi|4 : --AAATATGCATGTGAATAAAAAAATGA-TT---CCGATTTCTAGTATTGAACT-AAAAAGG----AGCCT------GTTATTGTGTTTT--T----ATTT---CTTTCTGTCAACAAGGAATAAACACTTCTTA-TGTGTGAATTTGTGCTGATCTTAAAT-TTATTC-CAC-CTC-CA-------GC----TTGTAAATCGTCATCTC--G---AATTGT--TGTaaatatgcatgtgaataaaaaaatgattccgatttctagtattgaactaaaaaggagcctgttattgtgtttttatttctttctgtcaacaaggaataaacacttcttatgtgtgaatttgtgctgatcttaaatttattccacctccagcttgtaaatcgtcatctcgaattgttgt
gi|5 : tagaaacagtatgtcaattacaatagtaaacaacactgtacaccagtgtgatgtatttttccTTAGTAA-TTAAAACATGT-TCTGAA--ATAAAAAATACTCGGA-TTTAAA--------------------TTAGGCAAAACTTCACAAC-ATAT---CGAAAGGTTTTTATTTTATTTCAAGTTTACAGTGAAATTAAGTCCTTA----TATGTCCATGAACAAAAGACAATGGAAAACAATCCCAACGAAAATTAATTATTTCACAGCAGTT
gi|6 : GAGA--AAATATGAAGGCAAATAAATA--TGA-TA---TGGAATTCTAGTATTTAATATAAAAAAAACACAACCT-TTTAGGCTATTGTTTTTT--TTGGGGTTT-----TTTTGCCAACAAGGAAAAAATaatacaacattgaaattat
gi|7 : ----TACTGTTT-AAAGTAGCTA-AGAGA--AAATATGCGTGCAAATAAATA--CAA-TA---CAGATTTCTAGTATTTAA
gi|8 : ----TGCTGTCTCTAA------A-AGAGA--AAATGTGTGTGCAAATAAATA--CGA-TA---CAGATTTATAGTATTTAAT
gi|9 : -TTAAAACGCTT-TATGTA--ATAGAAA-TACTCAAT-TTCAAAT---------GAGCCAAAATTC--GCA---CT--AAAAC-Ag
2 sequences could not be aligned to this reference sequence:
Unaligned ( gi|11 ): AGTAATTTAAAACTTTGTTATACAGAAATTCGCGGAATTAAATCAGCCGCACTTTAACG
Unaligned ( gi|34 ): ATTTTTTTTTCTAAAATTTGTTTTCAACAAAAAATTAATA
Alignments
lowQualScore : 1 11 1111 333333333 111 111 2222 444444 2222222 22222 1 11 11 111 4444444444444 5555555555555555555555555555555555 1 1 11 22222 2222222 11 77777777777777777 1 22 1 1
lowQualScore : 3 0 1 3 22 3 77 7777 3 8 000000000 77 0 111 1 77 5 000 99 1111 222222 0 6666666 22222 7 0 4 0 2 3 1 0 6 0 11 22 444 1111111111111 0 1 3 8888888888888888888888888888888888 0 0 2 33 0 1 99999 1 3333333 88 1 1 1 1 1 22 1 1 8888888888 55555555 22 444 22 2 7 33333333333333333 0 3 1 00 0 1 7 1 5 5
lowQualScore : . . . . .. . .. .... . . ......... .. . ... . .. . ... .. .... ...... . ....... ..... . . . . . . . . . . .. .. ... ............. . . . .................................. . . . .. . . ..... . ....... .. . . . . . .. . . .......... ........ .. ... .. . . ................. . . . .. . . . . . .
lowQualScore : 3 7 0 2 22 2 00 0000 2 0 666666666 99 1 333 7 99 7 000 00 2222 888888 2 0000000 55555 0 8 2 2 5 5 2 2 5 0 00 55 000 8888888888888 2 0 2 5555555555555555555555555555555555 0 0 5 88 2 0 77777 0 7777777 33 0 0 0 6 6 00 5 5 0000000000 44444444 00 111 33 5 3 77777777777777777 7 3 0 00 7 0 3 0 5 0
consensus : CCTAGAAA-AATATGTCAATTNCAATAGTAGACGACACATTTTACGCCAGCGTGACGTATTTTTCCATC-GTTCTTTTAAGT----TACTGTTT-TAA------A-AGAGA--AAATATGCGTGCGAATAAATA--CGA-TA---CAGATTTCTAGTATTTAAT-TAAAAAGA----AGCCT-TT--GGCTATTGTGTTTT--T----ATTT---CGTTTTGTCGACAAGGAATAAATATTTCTAATGAGTGAATTTGCGCTGGTCTC-AACC-TATTAACAC-C-TTCA-------GC----TTGTGANACGTCCTCTCCGA-TCAATTGT--TGTTT-CACAACA--TTG-ATCG-AACAC-CAAAGCGCCGACTAA--TTGACATCTCTNCCCAGGATTACCACATG-TGCGANGGGCATN--TA-CGTCGCGTG--TGCANGTGCAGGCAGCGNCTTAANACTGGTACGGGTCAGTAA-TTAAAACGCGT-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-ATATTTTCGAAA------------AT---AAGTTTTCAACGAAATTAAGT-CCCAA-GAATATGTCCTTGAACTAAAAACAACGAAAATNAATCCCAACGAAAATTAATTATTTCACAGTATTTCACCGNTGATCAGCAACTGGTGA
Reference ( family-994 ) : CCTAGAAA-AGTATGTCAATTNCAATAGTAGACGACACATTTTACGCCAGCGTGACGTATTTTTCCATC-GTTCTTTTAAGT----TACTGTTT-TAA------A-AGAGA--AAATATGCGTGCGAATAAATA--CGA-TA---CAGATTTCTAGTATTTAAT-NAAAAAGA----AGCCT-TT--GGCTATTGTGTTTT--T----ATTT---CGTTTTGTCGACAAGGAATAAATATTTCTAATGAGTGAATTTGCGCTGGTCTC-AACN-TATTAACAC-C-TTCA-------GC----TTGTGANACGTCCTCTCCGA-TCAATTGT--TGTTT-CACAGCA--TTG-ATCG-AACAC-CAAAGCGCCGACTAA--TTGACATCTCTNCCCAGGATTACCACATG-TGCGANGGGCATT--TAGCGTCGCGTG--TGCANGTGCAGGCAGCGNCTTAANACTGGTACGGGTCAGTAA-TTAAAACGCGT-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-ATATTTTCGAAA------------AT---AAGTTTTCAACGAAATTAAGT-CCCNA-GAATATGTCCTTGAACTAAAAACAACGAAAATNAATCCCAACGAAAATTAATTATTTCACAGTATTTCACCGNTGATCAGCAACTGGTGA
gi|1 : CCTAGAAG-AAGATGTCAATTTCATTAGTAGACGACACATATTACAGTAGCGTGACGTATTTTTCCTTC-TTTCTTATAAGTAGGTTATT-TTT-TAA------GCATGGACTAAATA---GT----ATTA-TA--CGG-TA---CAGATTGCTAGAAATTGTT-TAAAAAAA----AGCCT-TT-----TATTTTGTTTTCAT----ATTTAAGCGTT-------------ATTAATATATCTAATGGGTGACTTAGCGCTGGTCTC-GACC-AATTAACACAT-TTTA-------ACATTCTTATGAGACATCCTTT--GA-TCAA---------------AAC--------TCGCAACAC-AAAAGCACCGACTAA--TTAACATCTCTACACAGGATTACCACATGGTGCGAAGGGCATT--TAGTGTCGCATG--TGCACGTACAGACAGCGCTTTAATACTGGTACGGATCAGTAATTTAAAA--CGT-TATGTA--ACAGAAA-TTCGCGGA-ATTAAATCAGCCGTATGT--------TC--GCAT--TT--TTAACGATATTTTCTAAA------------AT---AAGGTTTCAACGAAATTATGT-CCCAACGAATATGCCTTTGAACTTAAAACAATGAAATTTAACCCCAATGAAAATTCATTATTTCACAGTATTTCACCACTGATCAGCAATTGGTGA
gi|10 : tAGTA--TTAAAACACGTATACATATTCTCGAAA-CACTCAAA-TTCAAA----------GG--------TC--GCA---CA--AAAAC-ATagtatgttaatatttactgaccgagcgaaaaacagtgtaagaagtgttcagattgcttgcaacgagcaatctgaactcttcctacactgttttcaaaggccttctgtaattgatgcgggaaaacgcgtatctatggtgtaaagggttagctactgcttgacatcattcagactattgttttaatgaaacaacatgtaaacctgtatcaatggcggatctactcttaaaattataaactaattaaaatt
gi|12 : GTAA-TTAAAACACGT-TATGTA--ATAGAAA-TACTTGAA-TTCAAA----------TA--------TC--GCA---CT--AAAAC-A
gi|13 : GTAA-TTAAAAGGCGT-AATGTA--TTAGAAT-TACTCGAA-TTCAAA----------GA--------TT--GCA---CT--TAAAC-Aa
gi|14 : AGTAA-TTAGAACAAAT-TACATA--ATAGAAA-TACTCAAA-TTCCAA----------GA--------TA--GCA---CT--AAAA
gi|15 : GTAA-TAAAAATGCTT-TATGTA--AAAGAAA-TTCTCAAA-TACAAA----------GA--------TC--GCA---CT--TAAAC-At
gi|16 : GTAA-TTAATGTGCAT-TATATA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TT--GCA---TT--AAAAC-
gi|17 : GTTA-TTAACATGCGT-TATGTA--ATAGAAA-TACTAGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-
gi|18 : GTAA-TTAAAACGCAT-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GG--------TC--ACA---CT--AAAAC-
gi|19 : GTAA-TTAAAATGCGT-TATGTA--GTAGAAA-TACTCTAA-CACAAA----------GG--------TC--GCA---CT--AAAAC-
gi|2 : CCTAGAAA-AATGTTTCAATTACAATCGTAGACAACCCATTTTTTGTCAGCATGACATATTTATCTATC-ATTGTTTCAAGT----TACTGTTT-TAA------A-AGAGA--AAATATGCGTGCTAATAAATA--CGC-TA---AAGATTTCTAGTATTGAAT-GCAAAAGA----TGCCTATTA-GGCTATTGTGTTTT--T----ATTT---CGTTTTGTCGATAAGGAATAAATATTTCTAATGAGTGAATTTGCGTTGGTCTC-AACCATCTTA-CAC-C-TTCA-------AC----TTGTGACACGTCCTCTCCAAATCAATTGT--TGTTTTCATAACAGTTTG-ATCA-AACAC-CAAAGAGCCAACTAA--TTGACATCTCTCCCCAAGATTGCCA----------GGGGCATA--TATCACCGTGTG--TGTAGGTGCAGGCAGCGGCTTAAAACTGGTACAAGTCAGTAA-TTAAAACACGT-TATATA--ATAGAAA-TACTCAAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-ATTTTTTCGAAA------------AT---ACGTTTTCAATGAAATTAAGTCCCCAA-GAATATGTCCTTGAACTAAAAACAACGAAAATAAATACCAACGAAAATTAA-TATTTCACAGTCTTCTACCGATAA-CA-CAACTAATGA
gi|20 : GTAA-TTAAAATGTGT-TATGTA--ATAGAAA-TACTCAAA-ATCAAA----------AA--------TA--GCA---Cccaaatcatta
gi|21 : TAA-TTAAAACCAGA-TATGTA--ATAGAAA-TATTCAAA-TTCAAA----------GA--------TC--GCA---CT--GAAAgcaaa
gi|22 : aGTAA-TTAAAAAGTGT-TATGTA--ATAG-AA-TACTTAAA-TTCAAA----------GA--------TG--GCA---CT--TAA
gi|23 : cGTAA-CTAGAACGCTA-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TC--GCA---TT--AAAAg
gi|24 : TAG-TTAAAACACGT-TATGTA--ATAGAAA-TATTCGAT-TTCAAA----------GA--------CT--GCA---CT--AAAAC-
gi|25 : GTAA-TTAAACCACGT-TATGTA--ATAGAAT-TACTCAAG-CTCAAA----------GA--------TC--GCA---CT--AAA
gi|26 : GTAA-TTAAAACGCGT-TATGTT--ATAGAAA-TACTCAAA-TTCAAA----------GA--------TT--GCA---CT--AAA
gi|27 : TAA-TTAAAACTTGT-TATGTA--ATAAAAA-TACTCGAA-TTCAAA----------GG--------TC--GCA---CT--AAA
gi|28 : AGTAA-TTAAAACACGT-AAGGTA--ATA-------CTCGAA-TTCAAA----------GA--------TC--ACA---TT--AAAAC-A
gi|29 : AA-TTAAAACGTGT-TACGTA--ATAGAAG-TACTAAAA-TTCAAA----------GA--------TT--GCA---CG--AAA
gi|3 : ATGTCGATTTCTAGAATAAACGCCATATTTCACACCAGCGTGACATATTTT--CATCAGCTCTTTTCAGG----AAGTATAT-TA-------------A--AAATACGCTT----ATAAA-A--CCATTATTTCAGTTTTCTAATA
gi|3 : TATTT----TAAGTGAATTTGCGATA---TC-AACG-TATTAACAC-CTTTCATCCCGATGC----TTTCGACACG-CCTCTCTAA-TC--CTGTGATGTTTACACAGCA--TTGTAACG-AAAACTCGCAACACAAACTAATTTTGACATATGTATCCGAAATTACCCCATGTTGCGATACGCATCGGTA--GTCGCGTGATTGCAAGgatatgtatctacttataatttgtattttaagtgaatttgcgatatcaacgtattaacacctttcatcccgatgctttcgacacgcctctctaatcctgtgatgtttacacagcattgtaacgaaaactcgcaacacaaactaattttgacatatgtatccgaaattaccccatgttgcgatacgcatcggtagtcgcgtgattgcaag
gi|30 : atgtcgatttctagaataaacgccatatttcacaccagcgtgacatattttcatcagctcttttcaggaagtatattaaaaatacgcttataaaaccattatttcagttttctaatagatatgtatctacttataatttgG-ATCA-AACGC-CAAAGAGCCGACTAA--TTGACACCTTTCCCCAGGAT
gi|31 : cagtaaGTAA-TTAAAACGTGT-TATGTA--ATAGCAA-TATTATAA-TTCAAA----------GA--------TC--GCA---C
gi|32 : GTAA-TTAAA-CATGT-TATGTA--ATAGAAA-TACTCGAATTTCAAA----------GA--------TT--GCA---
gi|33 : ATGTA--ATAGAAA-TACTCGAA-TCAAAA----------GA--------TC--GCA---CT--AAAGC-A
gi|35 : tcatgGTA--ACAGAAG-TACTGGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-A
gi|4 : TAGAAACAGTATGTCAATTACAATAGTAAACAACAC--TGTACACCAGTGTGATGTATTTTTCCA
gi|4 : --AAATATGCATGTGAATAAAAAAATGA-TT---CCGATTTCTAGTATTGAAC-TAAAAAGG----AGCCT------GTTATTGTGTTTT--T----ATTT---CTTTCTGTCAACAAGGAATAAACACTTCTTATGTGTGAATTTGTGCTGATCTTAAATT-TATT-CCAC-C-TCCA-------GC----TTGTAAATCGTCATCT-CG----AATTGT--TGTaatatgcatgtgaataaaaaaatgattccgatttctagtattgaactaaaaaggagcctgttattgtgtttttatttctttctgtcaacaaggaataaacacttcttatgtgtgaatttgtgctgatcttaaatttattccacctccagcttgtaaatcgtcatctcgaattgttgt
gi|5 : tagaaacagtatgtcaattacaatagtaaacaacactgtacaccagtgtgatgtatttttccTTAGTAA-TTAAAACATGT-TCTGAA--ATAAAAAATACTCGGA-TTTAAA--------------------TTAGGCAAAACTTCACAAC-ATAT---CGAAAGGTTTTTATTTTATTTCAAGTTTACAGTGAAATTAAGT-CCTTA----TATGTCCATGAACAAAAGACAATGGAAAACAATCCCAACGAAAATTAATTATTTCACAGCAGTT
gi|6 : GAGA--AAATATGAAGGCAAATAAATA--TGA-TA---TGGAATTCTAGTATTTAATATAAAAAAAACACAACCT-TTTAGGCTATTGTTTTTT--TTGGGGTTT-----TTTTGCCAACAAGGAAAAAATaatacaacattgaaattat
gi|7 : ----TACTGTTT-AAAGTAGCTA-AGAGA--AAATATGCGTGCAAATAAATA--CAA-TA---CAGATTTCTAGTATTTAA
gi|8 : ----TGCTGTCTCTAA------A-AGAGA--AAATGTGTGTGCAAATAAATA--CGA-TA---CAGATTTATAGTATTTAAT-
gi|9 : -TTAAAACGCTT-TATGTA--ATAGAAA-TACTCAAT-TTCAAAT---------GAGCCAAAATTC--GCA---CT--AAAAC-Ag
2 sequences could not be aligned to this reference sequence:
Unaligned ( gi|11 ): AGTAATTTAAAACTTTGTTATACAGAAATTCGCGGAATTAAATCAGCCGCACTTTAACG
Unaligned ( gi|34 ): ATTTTTTTTTCTAAAATTTGTTTTCAACAAAAAATTAATA
Alignments
lowQualScore : 1 11 1111 333333333 111 111 2222 444444 2222222 22222 1 11 11 111 4444444444444 5555555555555555555555555555555555 1 1 11 222222 4444444 11 77777777777777777 1 22 1 1
lowQualScore : 3 1 3 22 3 77 7777 3 8 000000000 77 0 111 1 77 5 000 8 1111 222222 0 6666666 22222 7 0 4 0 2 3 1 0 6 0 00 22 444 1111111111111 0 1 3 3333333333333333333333333333333333 0 0 2 33 0 1 999999 1 0000000 88 1 1 1 1 1 22 1 1 8888888888 55555555 22 444 22 2 7 33333333333333333 0 3 00 0 1 7 1 5 5
lowQualScore : . . . .. . .. .... . . ......... .. . ... . .. . ... . .... ...... . ....... ..... . . . . . . . . . . .. .. ... ............. . . . .................................. . . . .. . . ...... . ....... .. . . . . . .. . . .......... ........ .. ... .. . . ................. . . .. . . . . . .
lowQualScore : 3 0 2 22 2 00 0000 2 0 666666666 99 1 333 7 99 7 000 0 2222 888888 2 0000000 55555 0 8 2 2 5 5 2 2 5 0 22 55 000 8888888888888 2 0 2 8888888888888888888888888888888888 0 0 5 88 2 0 777777 0 0000000 33 0 0 0 6 6 00 5 5 0000000000 44444444 00 111 33 5 3 77777777777777777 7 3 00 7 0 3 0 5 0
consensus : CCTAGAAA-AATATGTCAATTNCAATAGTAGACGACACATTTTACGCCAGCGTGACGTATTTTTCCATC-GTTCTTTTAAGT----TACTGTTT-TAA------A-AGAGA--AAATATGCGTGCGAATAAATA--CGA-TA---CAGATTTCTAGTATTTAAT-TAAAAAGA----AGCCT-TT--GGCTATTGTGTTTT--T----ATTT---CGTTTTGTCGACAAGGAATAAATATTTCTAATGAGTGAATTTGCGCTGGTCTC-AACC-TATTAACAC-C-TTCA-------GC----TTGTGANACGTCCTCTCCGA-TCAATTGT--TGTTT-CACAACA--TTG-ATCG-AACAC-CAAAGCGCCGACTAA--TTGACATCTCTNCCCAGGATTACCACAT-G-TGCGANGGGCAT--NTA-CGTCGCGTG--TGCANGTGCAGGCAGCGNCTTAANACTGGTACGGGTCAGTAA-TTAAAACGCGT-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-ATATTTTCGAAA------------AT---AAGTTTTCAACGAAATTAAGT-CCCAA-GAATATGTCCTTGAACTAAAAACAACGAAAATNAATCCCAACGAAAATTAATTATTTCACAGTATTTCACCGNTGATCAGCAACTGGTGA
Reference ( family-994 ) : CCTAGAAA-AATATGTCAATTNCAATAGTAGACGACACATTTTACGCCAGCGTGACGTATTTTTCCATC-GTTCTTTTAAGT----TACTGTTT-TAA------A-AGAGA--AAATATGCGTGCGAATAAATA--CGA-TA---CAGATTTCTAGTATTTAAT-TAAAAAGA----AGCCT-TT--GGCTATTGTGTTTT--T----ATTT---CGTTTTGTCGACAAGGAATAAATATTTCTAATGAGTGAATTTGCGCTGGTCTC-AACC-TATTAACAC-C-TTCA-------GC----TTGTGANACGTCCTCTCCGA-TCAATTGT--TGTTT-CACAACA--TTG-ATCG-AACAC-CAAAGCGCCGACTAA--TTGACATCTCTNCCCAGGATTACCACAT-G-TGCGANGGGCAT--NTA-CGTCGCGTG--TGCANGTGCAGGCAGCGNCTTAANACTGGTACGGGTCAGTAA-TTAAAACGCGT-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-ATATTTTCGAAA------------AT---AAGTTTTCAACGAAATTAAGT-CCCAA-GAATATGTCCTTGAACTAAAAACAACGAAAATNAATCCCAACGAAAATTAATTATTTCACAGTATTTCACCGNTGATCAGCAACTGGTGA
gi|1 : CCTAGAAG-AAGATGTCAATTTCATTAGTAGACGACACATATTACAGTAGCGTGACGTATTTTTCCTTC-TTTCTTATAAGTAGGTTATT-TTT-TAA------GCATGGACTAAATA---GT----ATTA-TA--CGG-TA---CAGATTGCTAGAAATTGTT-TAAAAAAA----AGCCT-TT-----TATTTTGTTTTCAT----ATTTAAGCGTT-------------ATTAATATATCTAATGGGTGACTTAGCGCTGGTCTC-GACC-AATTAACACAT-TTTA-------ACATTCTTATGAGACATCCTTT--GA-TCAA---------------AAC--------TCGCAACAC-AAAAGCACCGACTAA--TTAACATCTCTACACAGGATTACCACATGG-TGCGAAGGGCAT--TTAGTGTCGCATG--TGCACGTACAGACAGCGCTTTAATACTGGTACGGATCAGTAATTTAAAA--CGT-TATGTA--ACAGAAA-TTCGCGGA-ATTAAATCAGCCGTATGT--------TC--GCAT--TT--TTAACGATATTTTCTAAA------------AT---AAGGTTTCAACGAAATTATGT-CCCAACGAATATGCCTTTGAACTTAAAACAATGAAATTTAACCCCAATGAAAATTCATTATTTCACAGTATTTCACCACTGATCAGCAATTGGTGA
gi|10 : tAGTA--TTAAAACACGTATACATATTCTCGAAA-CACTCAAA-TTCAAA----------GG--------TC--GCA---CA--AAAAC-ATagtatgttaatatttactgaccgagcgaaaaacagtgtaagaagtgttcagattgcttgcaacgagcaatctgaactcttcctacactgttttcaaaggccttctgtaattgatgcgggaaaacgcgtatctatggtgtaaagggttagctactgcttgacatcattcagactattgttttaatgaaacaacatgtaaacctgtatcaatggcggatctactcttaaaattataaactaattaaaatt
gi|12 : GTAA-TTAAAACACGT-TATGTA--ATAGAAA-TACTTGAA-TTCAAA----------TA--------TC--GCA---CT--AAAAC-A
gi|13 : GTAA-TTAAAAGGCGT-AATGTA--TTAGAAT-TACTCGAA-TTCAAA----------GA--------TT--GCA---CT--TAAAC-Aa
gi|14 : AGTAA-TTAGAACAAAT-TACATA--ATAGAAA-TACTCAAA-TTCCAA----------GA--------TA--GCA---CT--AAAA
gi|15 : GTAA-TAAAAATGCTT-TATGTA--AAAGAAA-TTCTCAAA-TACAAA----------GA--------TC--GCA---CT--TAAAC-At
gi|16 : GTAA-TTAATGTGCAT-TATATA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TT--GCA---TT--AAAAC-
gi|17 : GTTA-TTAACATGCGT-TATGTA--ATAGAAA-TACTAGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-
gi|18 : GTAA-TTAAAACGCAT-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GG--------TC--ACA---CT--AAAAC-
gi|19 : GTAA-TTAAAATGCGT-TATGTA--GTAGAAA-TACTCTAA-CACAAA----------GG--------TC--GCA---CT--AAAAC-
gi|2 : CCTAGAAA-AATGTTTCAATTACAATCGTAGACAACCCATTTTTTGTCAGCATGACATATTTATCTATC-ATTGTTTCAAGT----TACTGTTT-TAA------A-AGAGA--AAATATGCGTGCTAATAAATA--CGC-TA---AAGATTTCTAGTATTGAAT-GCAAAAGA----TGCCTATTA-GGCTATTGTGTTTT--T----ATTT---CGTTTTGTCGATAAGGAATAAATATTTCTAATGAGTGAATTTGCGTTGGTCTC-AACCATCTTA-CAC-C-TTCA-------AC----TTGTGACACGTCCTCTCCAAATCAATTGT--TGTTTTCATAACAGTTTG-ATCA-AACAC-CAAAGAGCCAACTAA--TTGACATCTCTCCCCAAGATTGCCA-----------GGGGCAT--ATATCACCGTGTG--TGTAGGTGCAGGCAGCGGCTTAAAACTGGTACAAGTCAGTAA-TTAAAACACGT-TATATA--ATAGAAA-TACTCAAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-ATTTTTTCGAAA------------AT---ACGTTTTCAATGAAATTAAGTCCCCAA-GAATATGTCCTTGAACTAAAAACAACGAAAATAAATACCAACGAAAATTAA-TATTTCACAGTCTTCTACCGATAA-CA-CAACTAATGA
gi|20 : GTAA-TTAAAATGTGT-TATGTA--ATAGAAA-TACTCAAA-ATCAAA----------AA--------TA--GCA---Cccaaatcatta
gi|21 : TAA-TTAAAACCAGA-TATGTA--ATAGAAA-TATTCAAA-TTCAAA----------GA--------TC--GCA---CT--GAAAgcaaa
gi|22 : aGTAA-TTAAAAAGTGT-TATGTA--ATAG-AA-TACTTAAA-TTCAAA----------GA--------TG--GCA---CT--TAA
gi|23 : cGTAA-CTAGAACGCTA-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TC--GCA---TT--AAAAg
gi|24 : TAG-TTAAAACACGT-TATGTA--ATAGAAA-TATTCGAT-TTCAAA----------GA--------CT--GCA---CT--AAAAC-
gi|25 : GTAA-TTAAACCACGT-TATGTA--ATAGAAT-TACTCAAG-CTCAAA----------GA--------TC--GCA---CT--AAA
gi|26 : GTAA-TTAAAACGCGT-TATGTT--ATAGAAA-TACTCAAA-TTCAAA----------GA--------TT--GCA---CT--AAA
gi|27 : TAA-TTAAAACTTGT-TATGTA--ATAAAAA-TACTCGAA-TTCAAA----------GG--------TC--GCA---CT--AAA
gi|28 : AGTAA-TTAAAACACGT-AAGGTA--ATA-------CTCGAA-TTCAAA----------GA--------TC--ACA---TT--AAAAC-A
gi|29 : AA-TTAAAACGTGT-TACGTA--ATAGAAG-TACTAAAA-TTCAAA----------GA--------TT--GCA---CG--AAA
gi|3 : ATGTCGATTTCTAGAATAAACGCCATATTTCACACCAGCGTGACATATTTT--CATCAGCTCTTTTCAGG----AAGTATAT-TA-------------A--AAATACGCTT----ATAAA-A--CCATTATTTCAGTTTTCTAATA
gi|3 : TATTT----TAAGTGAATTTGCGATA---TC-AACG-TATTAACAC-CTTTCATCCCGATGC----TTTCGACACG-CCTCTCTAA-TC--CTGTGATGTTTACACAGCA--TTGTAACG-AAAACTCGCAACACAAACTAATTTTGACATATGTATCCGAAATTACCCCAT-GTTGCGATACGCATCGGTA--GTCGCGTGATTGCAAGgatatgtatctacttataatttgtattttaagtgaatttgcgatatcaacgtattaacacctttcatcccgatgctttcgacacgcctctctaatcctgtgatgtttacacagcattgtaacgaaaactcgcaacacaaactaattttgacatatgtatccgaaattaccccatgttgcgatacgcatcggtagtcgcgtgattgcaag
gi|30 : atgtcgatttctagaataaacgccatatttcacaccagcgtgacatattttcatcagctcttttcaggaagtatattaaaaatacgcttataaaaccattatttcagttttctaatagatatgtatctacttataatttgG-ATCA-AACGC-CAAAGAGCCGACTAA--TTGACACCTTTCCCCAGGAT
gi|31 : cagtaaGTAA-TTAAAACGTGT-TATGTA--ATAGCAA-TATTATAA-TTCAAA----------GA--------TC--GCA---C
gi|32 : GTAA-TTAAA-CATGT-TATGTA--ATAGAAA-TACTCGAATTTCAAA----------GA--------TT--GCA---
gi|33 : ATGTA--ATAGAAA-TACTCGAA-TCAAAA----------GA--------TC--GCA---CT--AAAGC-A
gi|35 : tcatgGTA--ACAGAAG-TACTGGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-A
gi|4 : TAGAAACAGTATGTCAATTACAATAGTAAACAACAC--TGTACACCAGTGTGATGTATTTTTCCA
gi|4 : --AAATATGCATGTGAATAAAAAAATGA-TT---CCGATTTCTAGTATTGAAC-TAAAAAGG----AGCCT------GTTATTGTGTTTT--T----ATTT---CTTTCTGTCAACAAGGAATAAACACTTCTTATGTGTGAATTTGTGCTGATCTTAAATT-TATT-CCAC-C-TCCA-------GC----TTGTAAATCGTCATCT-CG----AATTGT--TGTaatatgcatgtgaataaaaaaatgattccgatttctagtattgaactaaaaaggagcctgttattgtgtttttatttctttctgtcaacaaggaataaacacttcttatgtgtgaatttgtgctgatcttaaatttattccacctccagcttgtaaatcgtcatctcgaattgttgt
gi|5 : tagaaacagtatgtcaattacaatagtaaacaacactgtacaccagtgtgatgtatttttccTTAGTAA-TTAAAACATGT-TCTGAA--ATAAAAAATACTCGGA-TTTAAA--------------------TTAGGCAAAACTTCACAAC-ATAT---CGAAAGGTTTTTATTTTATTTCAAGTTTACAGTGAAATTAAGT-CCTTA----TATGTCCATGAACAAAAGACAATGGAAAACAATCCCAACGAAAATTAATTATTTCACAGCAGTT
gi|6 : GAGA--AAATATGAAGGCAAATAAATA--TGA-TA---TGGAATTCTAGTATTTAATATAAAAAAAACACAACCT-TTTAGGCTATTGTTTTTT--TTGGGGTTT-----TTTTGCCAACAAGGAAAAAATaatacaacattgaaattat
gi|7 : ----TACTGTTT-AAAGTAGCTA-AGAGA--AAATATGCGTGCAAATAAATA--CAA-TA---CAGATTTCTAGTATTTAA
gi|8 : ----TGCTGTCTCTAA------A-AGAGA--AAATGTGTGTGCAAATAAATA--CGA-TA---CAGATTTATAGTATTTAAT-
gi|9 : -TTAAAACGCTT-TATGTA--ATAGAAA-TACTCAAT-TTCAAAT---------GAGCCAAAATTC--GCA---CT--AAAAC-Ag
2 sequences could not be aligned to this reference sequence:
Unaligned ( gi|11 ): AGTAATTTAAAACTTTGTTATACAGAAATTCGCGGAATTAAATCAGCCGCACTTTAACG
Unaligned ( gi|34 ): ATTTTTTTTTCTAAAATTTGTTTTCAACAAAAAATTAATA
Alignments
lowQualScore : 1 11 1111 333333333 111 111 2222 444444 2222222 22222 1 11 11 111 4444444444444 5555555555555555555555555555555555 1 1 11 222222 4444444 11 77777777777777777 1 22 1 1
lowQualScore : 3 1 3 22 3 77 7777 3 8 000000000 77 0 111 1 77 5 000 8 1111 222222 0 6666666 22222 7 0 4 0 2 3 1 0 6 0 00 22 444 1111111111111 0 1 3 3333333333333333333333333333333333 0 0 2 33 0 1 999999 1 0000000 88 1 1 1 1 1 22 1 1 8888888888 55555555 22 444 22 2 7 33333333333333333 0 3 00 0 1 7 1 5 5
lowQualScore : . . . .. . .. .... . . ......... .. . ... . .. . ... . .... ...... . ....... ..... . . . . . . . . . . .. .. ... ............. . . . .................................. . . . .. . . ...... . ....... .. . . . . . .. . . .......... ........ .. ... .. . . ................. . . .. . . . . . .
lowQualScore : 3 0 2 22 2 00 0000 2 0 666666666 99 1 333 7 99 7 000 0 2222 888888 2 0000000 55555 0 8 2 2 5 5 2 2 5 0 22 55 000 8888888888888 2 0 2 8888888888888888888888888888888888 0 0 5 88 2 0 777777 0 0000000 33 0 0 0 6 6 00 5 5 0000000000 44444444 00 111 33 5 3 77777777777777777 7 3 00 7 0 3 0 5 0
consensus : CCTAGAAA-AATATGTCAATTNCAATAGTAGACGACACATTTTACGCCAGCGTGACGTATTTTTCCATC-GTTCTTTTAAGT----TACTGTTT-TAA------A-AGAGA--AAATATGCGTGCGAATAAATA--CGA-TA---CAGATTTCTAGTATTTAAT-TAAAAAGA----AGCCT-TT--GGCTATTGTGTTTT--T----ATTT---CGTTTTGTCGACAAGGAATAAATATTTCTAATGAGTGAATTTGCGCTGGTCTC-AACC-TATTAACAC-C-TTCA-------GC----TTGTGANACGTCCTCTCCGA-TCAATTGT--TGTTT-CACAACA--TTG-ATCG-AACAC-CAAAGCGCCGACTAA--TTGACATCTCTNCCCAGGATTACCACAT-G-TGCGANGGGCAT--NTA-CGTCGCGTG--TGCANGTGCAGGCAGCGNCTTAANACTGGTACGGGTCAGTAA-TTAAAACGCGT-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-ATATTTTCGAAA------------AT---AAGTTTTCAACGAAATTAAGT-CCCAA-GAATATGTCCTTGAACTAAAAACAACGAAAATNAATCCCAACGAAAATTAATTATTTCACAGTATTTCACCGNTGATCAGCAACTGGTGA
Reference ( family-994 ) : CCTAGAAA-AATATGTCAATTNCAATAGTAGACGACACATTTTACGCCAGCGTGACGTATTTTTCCATC-GTTCTTTTAAGT----TACTGTTT-TAA------A-AGAGA--AAATATGCGTGCGAATAAATA--CGA-TA---CAGATTTCTAGTATTTAAT-TAAAAAGA----AGCCT-TT--GGCTATTGTGTTTT--T----ATTT---CGTTTTGTCGACAAGGAATAAATATTTCTAATGAGTGAATTTGCGCTGGTCTC-AACC-TATTAACAC-C-TTCA-------GC----TTGTGANACGTCCTCTCCGA-TCAATTGT--TGTTT-CACAACA--TTG-ATCG-AACAC-CAAAGCGCCGACTAA--TTGACATCTCTNCCCAGGATTACCACAT-G-TGCGANGGGCAT--NTA-CGTCGCGTG--TGCANGTGCAGGCAGCGNCTTAANACTGGTACGGGTCAGTAA-TTAAAACGCGT-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-ATATTTTCGAAA------------AT---AAGTTTTCAACGAAATTAAGT-CCCAA-GAATATGTCCTTGAACTAAAAACAACGAAAATNAATCCCAACGAAAATTAATTATTTCACAGTATTTCACCGNTGATCAGCAACTGGTGA
gi|1 : CCTAGAAG-AAGATGTCAATTTCATTAGTAGACGACACATATTACAGTAGCGTGACGTATTTTTCCTTC-TTTCTTATAAGTAGGTTATT-TTT-TAA------GCATGGACTAAATA---GT----ATTA-TA--CGG-TA---CAGATTGCTAGAAATTGTT-TAAAAAAA----AGCCT-TT-----TATTTTGTTTTCAT----ATTTAAGCGTT-------------ATTAATATATCTAATGGGTGACTTAGCGCTGGTCTC-GACC-AATTAACACAT-TTTA-------ACATTCTTATGAGACATCCTTT--GA-TCAA---------------AAC--------TCGCAACAC-AAAAGCACCGACTAA--TTAACATCTCTACACAGGATTACCACATGG-TGCGAAGGGCAT--TTAGTGTCGCATG--TGCACGTACAGACAGCGCTTTAATACTGGTACGGATCAGTAATTTAAAA--CGT-TATGTA--ACAGAAA-TTCGCGGA-ATTAAATCAGCCGTATGT--------TC--GCAT--TT--TTAACGATATTTTCTAAA------------AT---AAGGTTTCAACGAAATTATGT-CCCAACGAATATGCCTTTGAACTTAAAACAATGAAATTTAACCCCAATGAAAATTCATTATTTCACAGTATTTCACCACTGATCAGCAATTGGTGA
gi|10 : tAGTA--TTAAAACACGTATACATATTCTCGAAA-CACTCAAA-TTCAAA----------GG--------TC--GCA---CA--AAAAC-ATagtatgttaatatttactgaccgagcgaaaaacagtgtaagaagtgttcagattgcttgcaacgagcaatctgaactcttcctacactgttttcaaaggccttctgtaattgatgcgggaaaacgcgtatctatggtgtaaagggttagctactgcttgacatcattcagactattgttttaatgaaacaacatgtaaacctgtatcaatggcggatctactcttaaaattataaactaattaaaatt
gi|12 : GTAA-TTAAAACACGT-TATGTA--ATAGAAA-TACTTGAA-TTCAAA----------TA--------TC--GCA---CT--AAAAC-A
gi|13 : GTAA-TTAAAAGGCGT-AATGTA--TTAGAAT-TACTCGAA-TTCAAA----------GA--------TT--GCA---CT--TAAAC-Aa
gi|14 : AGTAA-TTAGAACAAAT-TACATA--ATAGAAA-TACTCAAA-TTCCAA----------GA--------TA--GCA---CT--AAAA
gi|15 : GTAA-TAAAAATGCTT-TATGTA--AAAGAAA-TTCTCAAA-TACAAA----------GA--------TC--GCA---CT--TAAAC-At
gi|16 : GTAA-TTAATGTGCAT-TATATA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TT--GCA---TT--AAAAC-
gi|17 : GTTA-TTAACATGCGT-TATGTA--ATAGAAA-TACTAGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-
gi|18 : GTAA-TTAAAACGCAT-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GG--------TC--ACA---CT--AAAAC-
gi|19 : GTAA-TTAAAATGCGT-TATGTA--GTAGAAA-TACTCTAA-CACAAA----------GG--------TC--GCA---CT--AAAAC-
gi|2 : CCTAGAAA-AATGTTTCAATTACAATCGTAGACAACCCATTTTTTGTCAGCATGACATATTTATCTATC-ATTGTTTCAAGT----TACTGTTT-TAA------A-AGAGA--AAATATGCGTGCTAATAAATA--CGC-TA---AAGATTTCTAGTATTGAAT-GCAAAAGA----TGCCTATTA-GGCTATTGTGTTTT--T----ATTT---CGTTTTGTCGATAAGGAATAAATATTTCTAATGAGTGAATTTGCGTTGGTCTC-AACCATCTTA-CAC-C-TTCA-------AC----TTGTGACACGTCCTCTCCAAATCAATTGT--TGTTTTCATAACAGTTTG-ATCA-AACAC-CAAAGAGCCAACTAA--TTGACATCTCTCCCCAAGATTGCCA-----------GGGGCAT--ATATCACCGTGTG--TGTAGGTGCAGGCAGCGGCTTAAAACTGGTACAAGTCAGTAA-TTAAAACACGT-TATATA--ATAGAAA-TACTCAAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-ATTTTTTCGAAA------------AT---ACGTTTTCAATGAAATTAAGTCCCCAA-GAATATGTCCTTGAACTAAAAACAACGAAAATAAATACCAACGAAAATTAA-TATTTCACAGTCTTCTACCGATAA-CA-CAACTAATGA
gi|20 : GTAA-TTAAAATGTGT-TATGTA--ATAGAAA-TACTCAAA-ATCAAA----------AA--------TA--GCA---Cccaaatcatta
gi|21 : TAA-TTAAAACCAGA-TATGTA--ATAGAAA-TATTCAAA-TTCAAA----------GA--------TC--GCA---CT--GAAAgcaaa
gi|22 : aGTAA-TTAAAAAGTGT-TATGTA--ATAG-AA-TACTTAAA-TTCAAA----------GA--------TG--GCA---CT--TAA
gi|23 : cGTAA-CTAGAACGCTA-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TC--GCA---TT--AAAAg
gi|24 : TAG-TTAAAACACGT-TATGTA--ATAGAAA-TATTCGAT-TTCAAA----------GA--------CT--GCA---CT--AAAAC-
gi|25 : GTAA-TTAAACCACGT-TATGTA--ATAGAAT-TACTCAAG-CTCAAA----------GA--------TC--GCA---CT--AAA
gi|26 : GTAA-TTAAAACGCGT-TATGTT--ATAGAAA-TACTCAAA-TTCAAA----------GA--------TT--GCA---CT--AAA
gi|27 : TAA-TTAAAACTTGT-TATGTA--ATAAAAA-TACTCGAA-TTCAAA----------GG--------TC--GCA---CT--AAA
gi|28 : AGTAA-TTAAAACACGT-AAGGTA--ATA-------CTCGAA-TTCAAA----------GA--------TC--ACA---TT--AAAAC-A
gi|29 : AA-TTAAAACGTGT-TACGTA--ATAGAAG-TACTAAAA-TTCAAA----------GA--------TT--GCA---CG--AAA
gi|3 : ATGTCGATTTCTAGAATAAACGCCATATTTCACACCAGCGTGACATATTTT--CATCAGCTCTTTTCAGG----AAGTATAT-TA-------------A--AAATACGCTT----ATAAA-A--CCATTATTTCAGTTTTCTAATA
gi|3 : TATTT----TAAGTGAATTTGCGATA---TC-AACG-TATTAACAC-CTTTCATCCCGATGC----TTTCGACACG-CCTCTCTAA-TC--CTGTGATGTTTACACAGCA--TTGTAACG-AAAACTCGCAACACAAACTAATTTTGACATATGTATCCGAAATTACCCCAT-GTTGCGATACGCATCGGTA--GTCGCGTGATTGCAAGgatatgtatctacttataatttgtattttaagtgaatttgcgatatcaacgtattaacacctttcatcccgatgctttcgacacgcctctctaatcctgtgatgtttacacagcattgtaacgaaaactcgcaacacaaactaattttgacatatgtatccgaaattaccccatgttgcgatacgcatcggtagtcgcgtgattgcaag
gi|30 : atgtcgatttctagaataaacgccatatttcacaccagcgtgacatattttcatcagctcttttcaggaagtatattaaaaatacgcttataaaaccattatttcagttttctaatagatatgtatctacttataatttgG-ATCA-AACGC-CAAAGAGCCGACTAA--TTGACACCTTTCCCCAGGAT
gi|31 : cagtaaGTAA-TTAAAACGTGT-TATGTA--ATAGCAA-TATTATAA-TTCAAA----------GA--------TC--GCA---C
gi|32 : GTAA-TTAAA-CATGT-TATGTA--ATAGAAA-TACTCGAATTTCAAA----------GA--------TT--GCA---
gi|33 : ATGTA--ATAGAAA-TACTCGAA-TCAAAA----------GA--------TC--GCA---CT--AAAGC-A
gi|35 : tcatgGTA--ACAGAAG-TACTGGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-A
gi|4 : TAGAAACAGTATGTCAATTACAATAGTAAACAACAC--TGTACACCAGTGTGATGTATTTTTCCA
gi|4 : --AAATATGCATGTGAATAAAAAAATGA-TT---CCGATTTCTAGTATTGAAC-TAAAAAGG----AGCCT------GTTATTGTGTTTT--T----ATTT---CTTTCTGTCAACAAGGAATAAACACTTCTTATGTGTGAATTTGTGCTGATCTTAAATT-TATT-CCAC-C-TCCA-------GC----TTGTAAATCGTCATCT-CG----AATTGT--TGTaatatgcatgtgaataaaaaaatgattccgatttctagtattgaactaaaaaggagcctgttattgtgtttttatttctttctgtcaacaaggaataaacacttcttatgtgtgaatttgtgctgatcttaaatttattccacctccagcttgtaaatcgtcatctcgaattgttgt
gi|5 : tagaaacagtatgtcaattacaatagtaaacaacactgtacaccagtgtgatgtatttttccTTAGTAA-TTAAAACATGT-TCTGAA--ATAAAAAATACTCGGA-TTTAAA--------------------TTAGGCAAAACTTCACAAC-ATAT---CGAAAGGTTTTTATTTTATTTCAAGTTTACAGTGAAATTAAGT-CCTTA----TATGTCCATGAACAAAAGACAATGGAAAACAATCCCAACGAAAATTAATTATTTCACAGCAGTT
gi|6 : GAGA--AAATATGAAGGCAAATAAATA--TGA-TA---TGGAATTCTAGTATTTAATATAAAAAAAACACAACCT-TTTAGGCTATTGTTTTTT--TTGGGGTTT-----TTTTGCCAACAAGGAAAAAATaatacaacattgaaattat
gi|7 : ----TACTGTTT-AAAGTAGCTA-AGAGA--AAATATGCGTGCAAATAAATA--CAA-TA---CAGATTTCTAGTATTTAA
gi|8 : ----TGCTGTCTCTAA------A-AGAGA--AAATGTGTGTGCAAATAAATA--CGA-TA---CAGATTTATAGTATTTAAT-
gi|9 : -TTAAAACGCTT-TATGTA--ATAGAAA-TACTCAAT-TTCAAAT---------GAGCCAAAATTC--GCA---CT--AAAAC-Ag
blockSeqs : C A A GT T AG . G C AGTAGCTA . GCT T AA T TTT A ACAC ATTAG TTGGG CG T G C A A G A CA AA CT TCCCGATGC C T CCAAATCAATTGTTGTTTTCATAACAGTTTG . T A TT C CATGT G ATATC AT G G A . A TT A T T GCCAAAAT AG AAA TC . T GGTTTTTATTTTATTTC C G A T A . .
blockSeqs : . T A AC T A . A . AA . GTG A . . . . . TTTAG T CT C A C T A A . G A C AC C T CTAATCCTGTGATGTTTACACAGCATTGT . . C . A . T CGGTA . A . . . . . . . . . . . . AT . . C .
blockSeqs : A . AC . . G . AA . GCA T . . . . . . T . T A . . T . . T C C GC A . . . A . C . . . . . . . . . . .
blockSeqs : . G . . . GCA T . . . . . . . . . . . . . . .
blockSeqs : . GCA T . . . . . . . . . . . . . .
blockSeqs : . . . . . . . . . . . . . . . . .
blockSeqs : . . . . . . . . . . .
blockSeqs : . . . . . . . . . . .
blockSeqs : . . . . . . . . . . .
blockSeqs : . . . . . . . . . . .
blockSeqs : . . . . . . . . . . .
blockSeqs : . . . . . . . . . . .
blockSeqs : . . . . . . . . . . .
blockSeqs : . . . . . . . . . . .
blockSeqs : . . . . . . . . . . .
blockSeqs : . . . . . . . . . .
blockSeqs : . . . . . . . . . .
blockSeqs : . . . . . . . . . .
blockSeqs : . . . . . . . . . .
blockSeqs : . . . . . . . . . .
blockSeqs : . . . . . . . . . .
blockSeqs : . . . . . . . . . .
blockSeqs : . . . . . . . . . .
blockSeqs : . . . . . . . . .
blockSeqs : . . . . . . .
blockSeqs : . . . . . . .
blockSeqCons : **** AA******* ** GCG ********** ***
originalCons : CCTAGAAA-AATATGTCAATTNCAATAGTAGACGACACATTTTACGCCAGCGTGACGTATTTTTCCATC-GTTCTTTTAAGT----TACTGTTT-TAA------A-AGAGA--AAATATGCGTGCGAATAAATA--CGA-TA---CAGATTTCTAGTATTTAAT-TAAAAAGA----AGCCT-TT--GGCTATTGTGTTTT--T----ATTT---CGTTTTGTCGACAAGGAATAAATATTTCTAATGAGTGAATTTGCGCTGGTCTC-AACC-TATTAACAC-C-TTCA-------GC----TTGTGANACGTCCTCTCCGA-TCAATTGT--TGTTT-CACAACA--TTG-ATCG-AACAC-CAAAGCGCCGACTAA--TTGACATCTCTNCCCAGGATTACCACAT-G-TGCGANGGGCAT--NTA-CGTCGCGTG--TGCANGTGCAGGCAGCGNCTTAANACTGGTACGGGTCAGTAA-TTAAAACGCGT-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-ATATTTTCGAAA------------AT---AAGTTTTCAACGAAATTAAGT-CCCAA-GAATATGTCCTTGAACTAAAAACAACGAAAATNAATCCCAACGAAAATTAATTATTTCACAGTATTTCACCGNTGATCAGCAACTGGTGA
finalCons : CCTAGAAA-AATATGTCAATTNCAATAGTAGACGACACATTTTACGCCAGCGTGACGTATTTTTCCATC-GTTCTTTTAAGT----TACTGTTT-TAAA-------AGAGA--AAATATGCGTGCGAATAAATA--CGA-TA---CAGATTTCTAGTATTTAAT-TAAAAAGA----AGCCT-TT--GGCTATTGTGTTTT--T----ATTT---CGTTTTGTCGACAAGGAATAAATATTTCTAATGAGTGAATTTGCGCTGGTCTC-AACC-TATTAACAC-C-TTCA-------GC----TTGTGANACGTCCTCTCCGA-TCAATTGT--TGTTT-CACAACA--TTG-ATCG-AACAC-CAAAGCGCCGACTAA--TTGACATCTCTNCCCAGGATTACCACAT-G-TGCGANGGGCAT--NTA-CGTCGCGTG--TGCANGTGCAGGCAGCGNCTTAANACTGGTACGGGTCAGTAA-TTAAAACGCGT-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-ATATTTTCGAAA------------AT---AAGTTTTCAACGAAATTAAGT-CCCAA-GAATATGTCCTTGAACTAAAAACAACGAAAATNAATCCCAACGAAAATTAATTATTTCACAGTATTTCACCGNTGATCAGCAACTGGTGA
2 sequences could not be aligned to this reference sequence:
Unaligned ( gi|11 ): AGTAATTTAAAACTTTGTTATACAGAAATTCGCGGAATTAAATCAGCCGCACTTTAACG
Unaligned ( gi|34 ): ATTTTTTTTTCTAAAATTTGTTTTCAACAAAAAATTAATA
Alignments
lowQualScore : 1 11 1111 333333333 111 111 2222 444444 2222222 22222 1 11 11 111 4444444444444 5555555555555555555555555555555555 1 1 11 222222 4444444 11 77777777777777777 1 22 1 1
lowQualScore : 3 1 3 22 3 77 7777 3 8 000000000 77 0 111 1 77 5 000 8 1111 222222 0 6666666 22222 7 0 4 0 2 3 1 0 6 0 00 22 444 1111111111111 0 1 3 3333333333333333333333333333333333 0 0 2 33 0 1 999999 1 0000000 88 1 1 1 1 1 22 1 1 8888888888 55555555 22 444 22 2 7 33333333333333333 0 3 00 0 1 7 1 5 5
lowQualScore : . . . .. . .. .... . . ......... .. . ... . .. . ... . .... ...... . ....... ..... . . . . . . . . . . .. .. ... ............. . . . .................................. . . . .. . . ...... . ....... .. . . . . . .. . . .......... ........ .. ... .. . . ................. . . .. . . . . . .
lowQualScore : 3 0 2 22 2 00 0000 2 0 666666666 99 1 333 7 99 7 000 0 2222 888888 2 0000000 55555 0 8 2 2 5 5 2 2 5 0 22 55 000 8888888888888 2 0 2 8888888888888888888888888888888888 0 0 5 88 2 0 777777 0 0000000 33 0 0 0 6 6 00 5 5 0000000000 44444444 00 111 33 5 3 77777777777777777 7 3 00 7 0 3 0 5 0
consensus : CCTAGAAA-AATATGTCAATTNCAATAGTAGACGACACATTTTACGCCAGCGTGACGTATTTTTCCATC-GTTCTTTTAAGT----TACTGTTT-TAA------A-AGAGA--AAATATGCGTGCGAATAAATA--CGA-TA---CAGATTTCTAGTATTTAAT-TAAAAAGA----AGCCT-TT--GGCTATTGTGTTTT--T----ATTT---CGTTTTGTCGACAAGGAATAAATATTTCTAATGAGTGAATTTGCGCTGGTCTC-AACC-TATTAACAC-C-TTCA-------GC----TTGTGANACGTCCTCTCCGA-TCAATTGT--TGTTT-CACAACA--TTG-ATCG-AACAC-CAAAGCGCCGACTAA--TTGACATCTCTNCCCAGGATTACCACAT-G-TGCGANGGGCAT--NTA-CGTCGCGTG--TGCANGTGCAGGCAGCGNCTTAANACTGGTACGGGTCAGTAA-TTAAAACGCGT-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-ATATTTTCGAAA------------AT---AAGTTTTCAACGAAATTAAGT-CCCAA-GAATATGTCCTTGAACTAAAAACAACGAAAATNAATCCCAACGAAAATTAATTATTTCACAGTATTTCACCGNTGATCAGCAACTGGTGA
Reference ( family-994 ) : CCTAGAAA-AATATGTCAATTNCAATAGTAGACGACACATTTTACGCCAGCGTGACGTATTTTTCCATC-GTTCTTTTAAGT----TACTGTTT-TAA------A-AGAGA--AAATATGCGTGCGAATAAATA--CGA-TA---CAGATTTCTAGTATTTAAT-TAAAAAGA----AGCCT-TT--GGCTATTGTGTTTT--T----ATTT---CGTTTTGTCGACAAGGAATAAATATTTCTAATGAGTGAATTTGCGCTGGTCTC-AACC-TATTAACAC-C-TTCA-------GC----TTGTGANACGTCCTCTCCGA-TCAATTGT--TGTTT-CACAACA--TTG-ATCG-AACAC-CAAAGCGCCGACTAA--TTGACATCTCTNCCCAGGATTACCACAT-G-TGCGANGGGCAT--NTA-CGTCGCGTG--TGCANGTGCAGGCAGCGNCTTAANACTGGTACGGGTCAGTAA-TTAAAACGCGT-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-ATATTTTCGAAA------------AT---AAGTTTTCAACGAAATTAAGT-CCCAA-GAATATGTCCTTGAACTAAAAACAACGAAAATNAATCCCAACGAAAATTAATTATTTCACAGTATTTCACCGNTGATCAGCAACTGGTGA
gi|1 : CCTAGAAG-AAGATGTCAATTTCATTAGTAGACGACACATATTACAGTAGCGTGACGTATTTTTCCTTC-TTTCTTATAAGTAGGTTATT-TTT-TAA------GCATGGACTAAATA---GT----ATTA-TA--CGG-TA---CAGATTGCTAGAAATTGTT-TAAAAAAA----AGCCT-TT-----TATTTTGTTTTCAT----ATTTAAGCGTT-------------ATTAATATATCTAATGGGTGACTTAGCGCTGGTCTC-GACC-AATTAACACAT-TTTA-------ACATTCTTATGAGACATCCTTT--GA-TCAA---------------AAC--------TCGCAACAC-AAAAGCACCGACTAA--TTAACATCTCTACACAGGATTACCACATGG-TGCGAAGGGCAT--TTAGTGTCGCATG--TGCACGTACAGACAGCGCTTTAATACTGGTACGGATCAGTAATTTAAAA--CGT-TATGTA--ACAGAAA-TTCGCGGA-ATTAAATCAGCCGTATGT--------TC--GCAT--TT--TTAACGATATTTTCTAAA------------AT---AAGGTTTCAACGAAATTATGT-CCCAACGAATATGCCTTTGAACTTAAAACAATGAAATTTAACCCCAATGAAAATTCATTATTTCACAGTATTTCACCACTGATCAGCAATTGGTGA
gi|10 : tAGTA--TTAAAACACGTATACATATTCTCGAAA-CACTCAAA-TTCAAA----------GG--------TC--GCA---CA--AAAAC-ATagtatgttaatatttactgaccgagcgaaaaacagtgtaagaagtgttcagattgcttgcaacgagcaatctgaactcttcctacactgttttcaaaggccttctgtaattgatgcgggaaaacgcgtatctatggtgtaaagggttagctactgcttgacatcattcagactattgttttaatgaaacaacatgtaaacctgtatcaatggcggatctactcttaaaattataaactaattaaaatt
gi|12 : GTAA-TTAAAACACGT-TATGTA--ATAGAAA-TACTTGAA-TTCAAA----------TA--------TC--GCA---CT--AAAAC-A
gi|13 : GTAA-TTAAAAGGCGT-AATGTA--TTAGAAT-TACTCGAA-TTCAAA----------GA--------TT--GCA---CT--TAAAC-Aa
gi|14 : AGTAA-TTAGAACAAAT-TACATA--ATAGAAA-TACTCAAA-TTCCAA----------GA--------TA--GCA---CT--AAAA
gi|15 : GTAA-TAAAAATGCTT-TATGTA--AAAGAAA-TTCTCAAA-TACAAA----------GA--------TC--GCA---CT--TAAAC-At
gi|16 : GTAA-TTAATGTGCAT-TATATA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TT--GCA---TT--AAAAC-
gi|17 : GTTA-TTAACATGCGT-TATGTA--ATAGAAA-TACTAGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-
gi|18 : GTAA-TTAAAACGCAT-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GG--------TC--ACA---CT--AAAAC-
gi|19 : GTAA-TTAAAATGCGT-TATGTA--GTAGAAA-TACTCTAA-CACAAA----------GG--------TC--GCA---CT--AAAAC-
gi|2 : CCTAGAAA-AATGTTTCAATTACAATCGTAGACAACCCATTTTTTGTCAGCATGACATATTTATCTATC-ATTGTTTCAAGT----TACTGTTT-TAA------A-AGAGA--AAATATGCGTGCTAATAAATA--CGC-TA---AAGATTTCTAGTATTGAAT-GCAAAAGA----TGCCTATTA-GGCTATTGTGTTTT--T----ATTT---CGTTTTGTCGATAAGGAATAAATATTTCTAATGAGTGAATTTGCGTTGGTCTC-AACCATCTTA-CAC-C-TTCA-------AC----TTGTGACACGTCCTCTCCAAATCAATTGT--TGTTTTCATAACAGTTTG-ATCA-AACAC-CAAAGAGCCAACTAA--TTGACATCTCTCCCCAAGATTGCCA-----------GGGGCAT--ATATCACCGTGTG--TGTAGGTGCAGGCAGCGGCTTAAAACTGGTACAAGTCAGTAA-TTAAAACACGT-TATATA--ATAGAAA-TACTCAAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-ATTTTTTCGAAA------------AT---ACGTTTTCAATGAAATTAAGTCCCCAA-GAATATGTCCTTGAACTAAAAACAACGAAAATAAATACCAACGAAAATTAA-TATTTCACAGTCTTCTACCGATAA-CA-CAACTAATGA
gi|20 : GTAA-TTAAAATGTGT-TATGTA--ATAGAAA-TACTCAAA-ATCAAA----------AA--------TA--GCA---Cccaaatcatta
gi|21 : TAA-TTAAAACCAGA-TATGTA--ATAGAAA-TATTCAAA-TTCAAA----------GA--------TC--GCA---CT--GAAAgcaaa
gi|22 : aGTAA-TTAAAAAGTGT-TATGTA--ATAG-AA-TACTTAAA-TTCAAA----------GA--------TG--GCA---CT--TAA
gi|23 : cGTAA-CTAGAACGCTA-TATGTA--ATAGAAA-TACTCGAA-TTCAAA----------GA--------TC--GCA---TT--AAAAg
gi|24 : TAG-TTAAAACACGT-TATGTA--ATAGAAA-TATTCGAT-TTCAAA----------GA--------CT--GCA---CT--AAAAC-
gi|25 : GTAA-TTAAACCACGT-TATGTA--ATAGAAT-TACTCAAG-CTCAAA----------GA--------TC--GCA---CT--AAA
gi|26 : GTAA-TTAAAACGCGT-TATGTT--ATAGAAA-TACTCAAA-TTCAAA----------GA--------TT--GCA---CT--AAA
gi|27 : TAA-TTAAAACTTGT-TATGTA--ATAAAAA-TACTCGAA-TTCAAA----------GG--------TC--GCA---CT--AAA
gi|28 : AGTAA-TTAAAACACGT-AAGGTA--ATA-------CTCGAA-TTCAAA----------GA--------TC--ACA---TT--AAAAC-A
gi|29 : AA-TTAAAACGTGT-TACGTA--ATAGAAG-TACTAAAA-TTCAAA----------GA--------TT--GCA---CG--AAA
gi|3 : ATGTCGATTTCTAGAATAAACGCCATATTTCACACCAGCGTGACATATTTT--CATCAGCTCTTTTCAGG----AAGTATAT-TA-------------A--AAATACGCTT----ATAAA-A--CCATTATTTCAGTTTTCTAATA
gi|3 : TATTT----TAAGTGAATTTGCGATA---TC-AACG-TATTAACAC-CTTTCATCCCGATGC----TTTCGACACG-CCTCTCTAA-TC--CTGTGATGTTTACACAGCA--TTGTAACG-AAAACTCGCAACACAAACTAATTTTGACATATGTATCCGAAATTACCCCAT-GTTGCGATACGCATCGGTA--GTCGCGTGATTGCAAGgatatgtatctacttataatttgtattttaagtgaatttgcgatatcaacgtattaacacctttcatcccgatgctttcgacacgcctctctaatcctgtgatgtttacacagcattgtaacgaaaactcgcaacacaaactaattttgacatatgtatccgaaattaccccatgttgcgatacgcatcggtagtcgcgtgattgcaag
gi|30 : atgtcgatttctagaataaacgccatatttcacaccagcgtgacatattttcatcagctcttttcaggaagtatattaaaaatacgcttataaaaccattatttcagttttctaatagatatgtatctacttataatttgG-ATCA-AACGC-CAAAGAGCCGACTAA--TTGACACCTTTCCCCAGGAT
gi|31 : cagtaaGTAA-TTAAAACGTGT-TATGTA--ATAGCAA-TATTATAA-TTCAAA----------GA--------TC--GCA---C
gi|32 : GTAA-TTAAA-CATGT-TATGTA--ATAGAAA-TACTCGAATTTCAAA----------GA--------TT--GCA---
gi|33 : ATGTA--ATAGAAA-TACTCGAA-TCAAAA----------GA--------TC--GCA---CT--AAAGC-A
gi|35 : tcatgGTA--ACAGAAG-TACTGGAA-TTCAAA----------GA--------TC--GCA---CT--AAAAC-A
gi|4 : TAGAAACAGTATGTCAATTACAATAGTAAACAACAC--TGTACACCAGTGTGATGTATTTTTCCA
gi|4 : --AAATATGCATGTGAATAAAAAAATGA-TT---CCGATTTCTAGTATTGAAC-TAAAAAGG----AGCCT------GTTATTGTGTTTT--T----ATTT---CTTTCTGTCAACAAGGAATAAACACTTCTTATGTGTGAATTTGTGCTGATCTTAAATT-TATT-CCAC-C-TCCA-------GC----TTGTAAATCGTCATCT-CG----AATTGT--TGTaatatgcatgtgaataaaaaaatgattccgatttctagtattgaactaaaaaggagcctgttattgtgtttttatttctttctgtcaacaaggaataaacacttcttatgtgtgaatttgtgctgatcttaaatttattccacctccagcttgtaaatcgtcatctcgaattgttgt
gi|5 : tagaaacagtatgtcaattacaatagtaaacaacactgtacaccagtgtgatgtatttttccTTAGTAA-TTAAAACATGT-TCTGAA--ATAAAAAATACTCGGA-TTTAAA--------------------TTAGGCAAAACTTCACAAC-ATAT---CGAAAGGTTTTTATTTTATTTCAAGTTTACAGTGAAATTAAGT-CCTTA----TATGTCCATGAACAAAAGACAATGGAAAACAATCCCAACGAAAATTAATTATTTCACAGCAGTT
gi|6 : GAGA--AAATATGAAGGCAAATAAATA--TGA-TA---TGGAATTCTAGTATTTAATATAAAAAAAACACAACCT-TTTAGGCTATTGTTTTTT--TTGGGGTTT-----TTTTGCCAACAAGGAAAAAATaatacaacattgaaattat
gi|7 : ----TACTGTTT-AAAGTAGCTA-AGAGA--AAATATGCGTGCAAATAAATA--CAA-TA---CAGATTTCTAGTATTTAA
gi|8 : ----TGCTGTCTCTAA------A-AGAGA--AAATGTGTGTGCAAATAAATA--CGA-TA---CAGATTTATAGTATTTAAT-
gi|9 : -TTAAAACGCTT-TATGTA--ATAGAAA-TACTCAAT-TTCAAAT---------GAGCCAAAATTC--GCA---CT--AAAAC-Ag
2 sequences could not be aligned to this reference sequence:
Unaligned ( gi|11 ): AGTAATTTAAAACTTTGTTATACAGAAATTCGCGGAATTAAATCAGCCGCACTTTAACG
Unaligned ( gi|34 ): ATTTTTTTTTCTAAAATTTGTTTTCAACAAAAAATTAATA