lowQualScore : 222222222222222222222222222222222222222222222222222222 111111111111111111111111111111111111111111111111111111111111111111111111 111111111111111111111111111111111111 22222222222222222222222222222222222222222222222222222222 11111111111111111111111
lowQualScore : 333 11 2 2 111111111111111111111111111111111111111111111111111111 4444444444 444444 1 6666666666 6666 2 22 555 888888888888888888888888888888888888888888888888888888888888888888888888 1 555555555 1 1 1 22222222 1 11 444444444444444444444444444444444444 11 1 22222 1 11 111 5555 1 111111 1 11 33 2222222222 1 9999999 1 666666666666 9999999999999999999999999999999999999999999999999999999999 222222 3333 44444444444444444444444444444444444444444444444444444444 111 1 1 3333333333 22222 11111111 555555 1111 66666666666666666666666 222222222 1111 22 1 1 222 333333333 1 1111 1 333333333333 1 11 3333333 1 111 1111 1 22222222 2222222222 33333333333 1111 1111
lowQualScore : 6 555 4 88 0 0 111111111111111111111111111111111111111111111111111111 6 3 2222222222 6 444444 7 2 3333333333 2 2222 0 4 4 4 77 000 666666666666666666666666666666666666666666666666666666666666666666666666 5 1 333333333 9 3 3 3 3 88888888 3 88 333333333333333333333333333333333333 33 5 88888 6 0 5 33 999 4444 1 0 8 666666 0 9 33 66 8888888888 2 7 0 5555555 0 6 222222222222 6 3333333333333333333333333333333333333333333333333333333333 000000 4444 7 33333333333333333333333333333333333333333333333333333333 5 5 5 000 5 5 77 5 0 7 9 8 8 9999999999 6 3 00000 77777777 6 0 444444 0 7777 55555555555555555555555 6 333333333 5555 55 3 6 0 3 44 333 8 3 444444444 5 3333 0 222222222222 0 33 2222222 0 777 7777 1 6 99 6 5 5 5 5 77 6 5 6 44444444 5555555555 5 88888888888 7777 6666
lowQualScore : . ... . .. . . ...................................................... . . .......... . ...... . . .......... . .... . . . . .. ... ........................................................................ . . ......... . . . . . ........ . .. .................................... .. . ..... . . . .. ... .... . . . ...... . . .. .. .......... . . . ....... . . ............ . .......................................................... ...... .... . ........................................................ . . . ... . . .. . . . . . . .......... . . ..... ........ . . ...... . .... ....................... . ......... .... .. . . . . .. ... . . ......... . .... . ............ . .. ....... . ... .... . . .. . . . . . .. . . . ........ .......... . ........... .... ....
lowQualScore : 0 000 0 00 0 0 555555555555555555555555555555555555555555555555555555 0 0 0000000000 0 555555 0 5 0000000000 5 5555 0 0 0 0 55 000 888888888888888888888888888888888888888888888888888888888888888888888888 0 0 555555555 0 7 3 3 3 77777777 3 33 222222222222222222222222222222222222 88 0 55555 0 8 5 88 888 8888 2 0 8 222222 0 0 88 77 2222222222 5 0 2 8888888 0 0 000000000000 7 0000000000000000000000000000000000000000000000000000000000 000000 0000 4 55555555555555555555555555555555555555555555555555555555 7 7 7 000 7 0 44 0 7 0 6 0 0 8888888888 0 0 00000 44444444 0 8 888888 8 0000 44444444444444444444444 0 444444444 0000 33 3 0 7 3 55 555 8 2 555555555 0 2222 0 888888888888 0 88 5555555 0 555 0000 2 0 22 7 7 7 7 7 99 7 0 7 22222222 0000000000 7 00000000000 0000 8888
consensus : NNNNGTACTTTTTCAATGTNGCNAAACGTATTCAAACTGANTATGAATGTTCATTGNGCCCACATGATTCATTTTACCAATGCTTCGTTTTCTACATCTCGTGNACCTCCANAATTGTNAATCGGGCAANTTAGATGCTTTNTTTAAAATTAAGGGTGNTGCTCGNAAGTGACTCTACCATCANGNGCTNAACCCTGTTTTTNNTTGACAATTCT---AGTTCCCTTGCCCAGTCGCGCCACAGCGNAGTTAGCTCTATTCCATATTCCTAAGCCNATNN------TTTTGATTTATTAAGGAGGGGCTTCATAATCTTGCACCGATGNTTGTTTGAC-ATCTGAT-TTCA-AGAT----AT--TCCT-AC--GTCTAAAATG-A------TAC-TATT----TT----------TGA--ATAGTAGTA---ATTCCTAATTTTCTATAA--TTA--TGAAATTTTCAATACATGTAATAGT-AATTTT--AAT-GCTTAGT-ACACAA--ATATAACATTTGT--AAAAAGAAATACAT---A---TCTTTNACCATGATAAATCAGAGTA----T-TACCTTTATTT-ATAGATATC-AATAAAATAT-TAAGAACTGT-CCACA---AGAA-GGGGGGGG-G-GG-----GTATGTA--TTAGCGTACTG----GT----G-CGTACATGT--TCCCCCCTCCTGATAAAACGTCATCAGANA---TTATAAA---GA-----AA-------TANTNGGA-ATT---AATT-ATTTATCTTAAG-A-TTAAT-TTTCTC---AGT-AATATTTTAG-CTCTCAACGGACTAAAATGCGATATAC-CGT-AACAGCTGACT---GTA-TA-GCTTCATTCCAG-----CATTCGAACGGTGATTCCGTTCGAACTATATG-TAGCTTGAGCTTCAT----GCTTTACCACAGACATA---GTA-----CGCCTTTT----TT---ACGTAAACTTGTAATCTTTG-ACAA-CAGGTTTTG-ATGAACAATAT--TTAAAAATGCTAAA-A-----C-TTCTCTTC-CTACT-ATGTATA--TTCCGT-GTGCAA-GATCGA--AAACGTTATC-------GC-AC---ATG-TT-AACGTGTG--ATT-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATC----------TCG-CG-----------AAG----TCTCGCCGA---GCACTGTGTAGCCCT
Reference ( gi|1 ) : ATATGTATTTTT---ATGTAGGAAAA-ATATTCAAA-TGAC-----A----CATTAAGGTCA-----------TTACCAAT-------------CATTTCATGTACTTC-ATACTT--AAATCAAGTAAT---GATGCATTCTT----A--AA-GGTGGTGCTTA----TGA-TCTACCATCAAGTGCTAA--CCTGTTTTTG--TGACAATTCTGACAGCTCACT-GTCCAGT-GCA----AG-GAA--TAGCT--------TATT-------TAATGC------TTTTGATTTATTCAGAAGGAACGT-ATAATCTTGCATTAATGGTTGTTTGAC-ATCTGAT-TTCA-AGAT----AT--TCCT-AC--ATCTAA------------TACTTATT----TG----------TGA--ATAGTAG-A---ATTCCTGATTTTCTATAA--TTG--TGAAATTTTCAATA---ATAATAGT-AATTGT--ATT-GCTTAGT-AAACAA--ATATAACATTTGT--AAAAAGAAATACAT---A---TCGTTCACCAAGATAAATCAGAGTATACATGTACCTTTATTT-ATAAATGTC-AATAAAATATTTAAGAACTGT-CCACA---AGAATGGGGGGGG-G-GG-----ATATGTA--TT-GCGTACTA----GT----A-CATACATGT--TTTTCCCTCC----AAAACATCATCAGAAA---TAAAAAA--AGA-----AAAGAGAGAGAGAGAGA-ATT---AATTAATTCATATTAAG-A-TTAAT-TTTCTC---AGT-AATATTTTAG-CTCTAAACGGACTAAAAAGCAACATAC-CGT-AACAGCTGACT---GTAGTT-GCTTCATCCTAG-----CATTCGAACGGTGATTCCGTCCGAACTA-----TAGCTTGAGCTTCAT----GCTTT----------TA---ATAT--T-CACCTTTT----TT---ACGTAAACTTGTAATCTTTC-ACAA-CAGGCTCTG-ATGAACAATAT--TTCAAAATGCTAAA-A-----T-TTATCTTC-CTGCT-ATGTATA--TTCCCT-GTGCAA-GATCGA--AAACGTTATC-------GC-AC---ATG-TC-AACGTATG--ATT-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATC----------TCG-CG-----------AAG----TCTCGCCGG---ACACTGTGTAGCCCT
gi|2 : GTACTTTTTCAATGTAGCCAAACATATTCAAACTGACTATGAATGTTCATTGAGCCCACATGATTCATTTTACTA---------------CATCTCATGTACCTCCACAATTGTAAATTGAGCAAA---G-TGCTTTCTTTAAAATTAA-GGTGTTGCTTGCAAGTGACTCTACCATCATGTGCTAAACCTTGTTTTTTATTGACAATTC----AGTTTTCTTGTCCAGTCGCGCCACAGCGCAGTTAGCTCTATTCCATATTCCTAAGCTAATTCCATATTTTTTGACTTATTAAGAAGGGGATT-CCAAACGTGCACCCATTCGTGTTTGACCATCTGATATTCACAGATCTTAATCTTCCTCACCAATCTAAAATACAATGAAATACATAAT----TT----------TGATAATAGTAG-ATCTACGCTCAATGTTCTTTAAAATTACCTAAAATTTTCAATACATGTAATAGTCAATTTTTAATTTGCTTAGTTACACAACAATATAACATTTGTTTAAAAAGAAATACAT---A---TC-TTAACCATGATAAATCAGAATA-ATCTATACCTTTATTTAATAAATATCAAATAAAATATTACAATACTGTATCACAT--TGAAGAGGGGAGG-G-GGTGCCCATCTGTAACTT-A-GTGCTAAAAGGT----G-CATACATGTGATTTCCCCTTC----AACA-ATCACAAGATA---TTTTAAA--CGA-----A---------ATTGGGA-TCT---AATTTATTT---CTAAGCATTTAATCTTTCTCCCGAGCAAATA-TTTAGCCTCT
gi|9 : tgtaagtaatatatacatgatacaaatacaccatcataaagttacatgtc---ATGTTGCAAAA-GTATTCAAA-TGAA-----A----CATTATGCTCA-----------TTACCAATGCTTCGTTTTCTACATCTCGTGGACTTC-AAAATT--TAATCGGGTAATTTAGATGCTTTATT----A--AAGGGTGGTGCTCAG---TGA-TCTACCATCAAGAGCTTA--CCTGTTTTTGT-TGACAATTCT----GTTCCCT-GCCCAGT-GCA----AG-GAA--TAGC---------TATT-------CTATAG------TTTTGATTTATTAAGGAGGGGCTTCAT-ATCTTGCATTGGTGATTGTTTGAC-ATCT
gi|18 : cataaagtacaccta------TTTTGATTTATTGAGGAGGGGCTTCAT-ATCTTGCATT
gi|3 : tatAATCTTGCACCGATGGTGCTTTGAC-ATCTGAT-TTCA-AGAT----AT--TCAT-AC--ATCTAAAATGAA------TAC--ATT----TT----------TGA--ATA-TAGTA---ATTCCTAATTTTCTA-AA--TTA--TGAAATTTTCAATACATGTAATAGT-AATTTT--AAT-GCTTAGT-ACACAA--ATATAACATTTGT--AAAAAGAAATATCC---A---TCTTTAATCATGATAAATCAGAGTA------TACCTTTATTT-ATAAATATC-AATAAAATATATAAGAACTGT-TTACATTGAGA--GGGGAGGG-GTGC-----ATGTGTA--TTAATGCACAG----GT----A-CATACATGT--TTCCCCCTCC----AAAACATCATCAGTTATTTTAAGCAATTGGG-----AA-----------------TT---AAT----TTATCTTAAG-A-TTAAT-TTTCTC---AGT-AATA-TTTAA-CTCTCAATAGACTAAAATGCGATAAAC-TGT-AACAGCTGACT---G-AATA-GCTTCTTTGCAG-----CATTCTAAAGGTGATTCAGTTCGCAC-------TAGCGTGAGCTTCTT----GCTTTAC--------TACAGACATGGTACGTCTTTT----TT---ATGTAAACTTGTAATCTTTG-ACAA-CATGTTCTG-CTGAACAATA---ATAAAAATGCTATA-A-----T-TTCTCTCC-CTACT-ATGT----------------AA-GATTGA--AAATGTCATC-------GC-AC---ATA-TT-AACGTGTAGTATT-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CAA--------AATA----------TCG-CG-----------AAG----TCTCGCCGA---GCAGTGTGTAGCCg
gi|10 : cagtacacttaaatctaaatccgcccactggctaatccatattttcaatgacttcaGAT-TTCA-AGAT----AT--TCCT-AC--GTCTAA------------TATTTATTGAAATGAAATACATTTTGA--ATAGTAG-A---ATTCCTAATTTTCCATGA--TTA--TGAGGTTTTCAATA---ATTATAGT-AATTGT--AAT-GCTTAGT-AAACAA--ATATAACATTTGCAAAAAAAGAAATACATATAA---TCTTTCATCATGATAAATCACAGTA------TATCTTTATTT-ATAGATATC------------TAAGAACTGT-CCAC-------ATGGGAGGGGTG-GG-----GTAT
gi|13 : cATT----TT----------TGA--ATA-TAGTA---ATTCCTAATTTTCGA-AA--TTA--TGAAATTTTCAATACATGTGATAGT-AATTTT--AAT-GCTTAGT-ACACAA--ATATAACGTacacgtgta
gi|11 : cAAATACAT---ACAATCTTTCACCATGATATATCAAAGT-----T-TATCTTTATTT-ATAGATATC------------TAAGAACTGT-TCACA---TGAAAGGTTGG--------------ATGTA--CTAGTGTAC
gi|5 : CTGT-CCACA---AGA----GGGCGG-G-GT-----GTAC-TA--GT-GCATAGTG----CTCACGG-CGTACATGT--TCC-CCCTCTTGATAAAACGTCATCAGAGA---TTATAAA-------------------TAGTTGGACATT---AATT------TATCAAA-A-TTAAT-TTTCTC---AGT-AATATTTTAC-CTCTCAACGAATTAAAATGCCATATAC-CGT-AACAGCTAACT---GTA-TA-GCTTCATTCCAT-----CACTCGAACG--------GTTCGAACTATATG-TAGCTTGAGCTTCAT----GCTTTACCACAGACATA---GTA-----CGCCTTTT----TA---ACGTAA----GTAATctaaaggtagaggaggacacaaacc
gi|7 : CTGT-CCACA---AGA------GGGC-G-GG-----------------GTGTACTA----GT----GGCGTACATGT--TCCCCCCTCTTGATAAAACGTCATCAGAGA---TTATAAA-------------------TAGTTGGACATT---AATT------TATCAAA-A-TTAAT-TTTCTC---AGT-AATATTTTAC-CTCTCAACGAATTAAAATGCCATATACGCGTAAACAGCTAACT---GTA-TA-GCTTCATTCCAT-----CACTCGAACG--------GTTCGAACTATATG-TAGCTTGAGC-TCAT----GCTTTACCACAGACATA---GTA-----CGCCTTTT----TA---ACGTAA----GTAATgcatgaagttacttaaaatccagtgctaaaattcttaacgtgtgattggcactgattgcgtcatgtttgttgatccccagaagcgaaatctcgca
gi|4 : TCC----AAAACATCATCAGAAA---GATAATT--ATATTTTTAAACA-----ATTGAGA-ATT---AATTAATTTATCATAAG-A-TTAAT-TTTCTC---AGT-AATATTTTAG-CTCTCAACAGACTAAAATGCGACATAC-CGT-AACAGCTGACTAGAGTAGATAGCTTCATTCCAG-----CATTCGAACGGTGATTCCGTTCGAACTA-------GCTTTAGCTTCATTCATGCTTTACCACAGACATG---GTA-----CGCCTTTT----TTTTAATGTAAACTTGTAATCTTTTGACAATCAGGTTTTGAATTTACGTTATTCTTAAAAATGCTAAATACGCTTC-TTCTCTTCGCTACTCATGTATATTTTCCGTCGTGCAACGATCGATCAAACGTTATCTTCGGGAGCGAC---ATG-TTAAACGTGTG--ATTGGAGTCCA-TAGTATTGAATTGATCTCCCGAGAAACCGATCTATTTCAATT----------TCGCCGCCGAGTCGTGTAAGCTTCTCTTGCCGAGGCGCACTGTGTAGCCCgcatgaagttacttaaatccagtgctaaaattcttaacgtgtgattggcactgattgcgtcatgtttgttgatccccagaagcgaaatctcgcag
gi|14 : A-ATTGGGAATTAATTGATCTTAAG-A-TTAAT-TTTCTC---AAT-AATATTTTAA-CTCTCAACAGACTAAAATGC
gi|6 : agctattttaagc-A-TTAAA-TTTCTC---AGT-AATATTTTCG-CTCTCAACAGACTAAAATGCGACATAC-CGT-AACAGCTGACT---GGA-TA-GCTTCATTCTAGGACAGCATTCGAACGGTGATTCCGTTCGAACTACATTGTAGCTTGAGCTTCAT----TCACA----------TG---GTA-----CGCCTTTTTTTTTT---ACGTAAATTTGTAATCTTTG-ACAA-CAGGTTTTG-ATGAACAGTAA--TTAAAAATGCTAAA-A-----C-TTCTCTTC-TTACT-ATGTATA--TTCCGT-GTGCAT-GATCGA--AAACGTTATC-------GC-AC---ATG-TT-AGCGTGTG--ATT-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATCTCGCGCCGAGTCG-CG-----------AAG----TCTCGCCGA---GCACTGTGTAGCCCT
gi|12 : CAA-AT--TTCGACA--CTAAA-A-----TCTTCTCTTC-C-AAT-ATGGTTA--ATCCCA-GTGCAA-ATTCAA--ACGCGTTATC-------GC-ACTCTATACTT-ATCGTGTG--A-T-GCGT-CGTT-GA-TTA--TTGa
gi|5 : TG--ATT-GCGT-CA-T-GT-TTG--TTGATCC-CC-AGAAG-CGA--------AATC----------TCG-C
gi|7 : ctgtccacaagagggcggggtgtactagtgcatagtgctcacggcgtacatgttccccctcttgataaaacgtcatcagagattataaatagttggacattaatttatcaaaattaattttctcagtaatattttacctctcaacgaattaaaatgccatataccgtaacagctaactgtatagcttcattccatcactcgaacggttcgaactatatgtagcttgagcttcatgctttaccacagacatagtacgcctttttaacgtaagtaatgcatgaagttacttaaaatccagtgctaaaattcttaacgtgtgattggcacTG--ATT-GCGT-CA-T-GT-TTG--TTGATCC-CC-AGAAG-CGA--------AATC----------TCG-Ca
gi|15 : ctgtccacaagagggcggggtgtactagtggcgtacatgttcccccctcttgataaaacgtcatcagagattataaatagttggacattaatttatcaaaattaattttctcagtaatattttacctctcaacgaattaaaatgccatatacgcgtaaacagctaactgtatagcttcattccatcactcgaacggttcgaactatatgtagcttgagctcatgctttaccacagacatagtacgcctttttaacgtaagtaatgcatgaagttacttaaatccagtgctaaaattcttaacgtgtgattggcacCGG-CA-T-GT-TTG--TTGATCT-CC-AGAAA-CGA--------AATA----------CCG-CG-----------AAG----TCTCATCGA---ACAGTGTGTAGCCag
gi|19 : ttatcttgtggaatATC----------TCG-TG-----------AAG----TCTCGCCGG---ACACTGTGTAGCCCTtgta
3 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|8 ): GTTTTCCGCTCTAAAACTTCAGATATTTTAAGCAATGGGAATAAAAAAAAAAATTCTTATAAGATGTTAATTCTTTATTATTCTGCCTTTTATTAAGGGAATAAAATTCACATACCGTTGTTTAGCGTGCCTTTATAGCTTTAGTCCAGTTGTGGAAACTTTGAGGTTCATGCTTTACACAAAGACATGGTATTTTCTTATTACGCCAAGTAGTCTTTCCATGAACAGTTAAATTAAGATGTTGATAAGCTAAGATTTTTTGTTTCCATGTATGAAAGTGTAAATGTGACAGCCGTCTGGCATGTAAGGTCTGCCGGAAACGATTTTGCCAAAGTCTCAACGAAAGTGTGCA
Unaligned ( gi|16 ): TGTAAGTTATATAGATGATGAAAATACGTCACCACAAAGTCCAATATATACATCAGTGCTTTGTTAATGTAGCC
Unaligned ( gi|17 ): AAGTTGCTTTTATTCGAACTACCTTGAGTTTCATGGTTTACCACAGACAGAGTACGCCTTGTTTATAGTTG
Alignments
lowQualScore : 1111111111111111111111111111111111111111111111111111 111111111111111111111111111111
lowQualScore : 1 1 33333333333 666666666666666666666666666666 22 333 4444444 3333 2 33 22 33333 11 3333333333333333333333333333333333333333333333333333 111 1 1 1 111 111 1 111 000000000000000000000000000000 1 1 1111 11111 11 1 11 11 22222 1111111 55555555 333333333333 1111 4444444444444 44444444444444444 33333 111111 11111 666666666666666 1 33333333333333333333 111 11111 11111 222222 1111 1111 1111 111 22222 111 111 11 2222222 111 4444444444444444 1 22222222 2222222222 33333333333 1111 111
lowQualScore : 1 1 5 5 88888888888 1 111111111111111111111111111111 0 1 6 6 1 22 1 0 0 666 7 88 9999999 6 1 8888 3 1 1 1 00 88 88888 3 44 0 4444444444444444444444444444444444444444444444444444 0 555 0 1 0 0 0 777 777 0 555 000000000000000000000000000000 0 0 3 0 7777 8 66666 11 0 3 0 8 8 0 11 8 11 22222 9999999 5 1 33333333 8 222222222222 8 8 5 7777 66 9999999999999 99 3 55555555555555555 99 0 22222 7 555555 5 22222 444444444444444 1 0 88888888888888888888 4 4 66 4 777 4 1 888 6 5 5 77 5 000 77 5 44444 4 00000 666666 0 5 66 0000 888 4444 8 5 7777 8 8 777 0 6 33333 99 6 7 6 3 222 444 8 11 6666666 8 444 5 5 7777777777777777 5 5 5 5 66 5 1 5 00000000 1111111111 5 11111111111 4444 111
lowQualScore : . . . . ........... . .............................. . . . . . .. . . . ... . .. ....... . . .... . . . . .. .. ..... . .. . .................................................... . ... . . . . . ... ... . ... .............................. . . . . .... . ..... .. . . . . . . .. . .. ..... ....... . . ........ . ............ . . . .... .. ............. .. . ................. .. . ..... . ...... . ..... ............... . . .................... . . .. . ... . . ... . . . .. . ... .. . ..... . ..... ...... . . .. .... ... .... . . .... . . ... . . ..... .. . . . . ... ... . .. ....... . ... . . ................ . . . . .. . . . ........ .......... . ........... .... ...
lowQualScore : 0 0 0 0 00000000000 0 555555555555555555555555555555 7 0 7 7 0 33 0 7 7 333 3 33 7777777 7 0 3333 3 0 0 0 33 00 00000 7 77 7 9999999999999999999999999999999999999999999999999999 8 222 2 0 0 0 0 555 555 0 888 000000000000000000000000000000 8 8 2 6 0000 0 66666 00 0 2 8 0 0 6 00 0 00 22222 0000000 6 0 44444444 0 000000000000 0 0 7 9999 66 4444444444444 22 3 33333333333333333 22 7 88888 6 333333 4 55555 000000000000000 0 0 22222222222222222222 4 4 11 4 888 4 9 888 6 7 7 99 7 000 99 7 33333 3 99999 888888 1 0 99 6666 888 1111 0 0 0000 0 0 000 8 7 33333 22 7 3 7 5 000 000 0 00 0000000 0 000 0 0 8888888888888888 0 0 0 0 99 7 4 7 77777777 9999999999 0 77777777777 2222 777
consensus : NNNNGTACTTTTTCAATGTNGCNAAACGTATTCAAACTGACTATGAATGTTCATTGNGCCCACATGATTCATTTTACCAATGCTTCGTTTTCTACATCTCGTGTACCTCCANAATT-TAAATCGAGTAAT--AGATGCTTTCTTTA-----AAGGGTGGTGCTCG--AGTGA-TCTACCATCAAGTGCTAA--CCTGTTTTT-GTTGACAATTCT---AGTTCNCTTGTCCAGT-GCG----AG-GAA--TAGCTCTATTCCATATT--TAA-----T------NTTTTTGATTTATTAAGGAGGGGCTTCATAATCTTGCACCGATGGTTGTTTGA-CATCTGAT-TTCA-AGA---TA---TTCCT-AC--ATCTAA----------AAT-------GAA-TAC-T-ATTTTTGAATAGTAGTAATTC----CT-AATTTTC--TATAATTA--TGAAATTTTCAATACATGTAATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACATTTG--T--AAAAAGAAATACAT---A---TCTTTCACCATGATAAATCAGAGT-AT--A--TACCTTTATTT-ATAAATATC-AATAAAATAT-T-AAGA-ACTGT-CCACA---NGAG-GGGGGGGGGGGGTA------TGTA--CTAGTG--TACT----GGT----GCGTACATGT--TTCCCCCTCC-GATAAAACGTCATCAGA-----NATTATA-----AA--------GNAATAGTGGGA-ATTAA--------TT-A-TTTATCTTAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTCA---ACGGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACT---GT--A-TAGCTTCATTC-----CAGCATTCGAACGGTGATTCCGTTCGAACTATAT-GTAGCTTGAGCTTCATGCTTTAC-CACAGACATGGTA--CGCCTTTT----TT---ACGTAAACTTGTAATC-TTTGAC----AA-CAGGTTTTG-ATGAACGATAT--TTAAAAATGCTAAA-A-----CTTCT--CTTC-CTACT-ATGTATA--TTCCNT-GTGCAA-GATCGA--AAACGTTATC-------GC-AC---ATG-TT-AACGTGTG--AT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATC----------TCG-CG-----------AAG----TCTCGCCGA---GCACTGTGTAGCCCT
Reference ( family-1142 ) : NNNNGTACTTTTTCAATGTNGCNAAACGTATTCAAACTGANTATGAATGTTCATTGNGCCCACATGATTCATTTTACCAATGCTTCGTTTTCTACATCTCGTGNACCTCCANAATTGTNAATCGGGCAANTTAGATGCTTTNTTTAAAATTAAGGGTGNTGCTCGNAAGTGACTCTACCATCANGNGCTNAACCCTGTTTTTNNTTGACAATTCT---AGTTCCCTTGCCCAGTCGCGCCACAGCGNAGTTAGCTCTATTCCATATTCCTAAGCCNAT------NNTTTTGATTTATTAAGGAGGGGCTTCATAATCTTGCACCGATGNTTGTTTGA-CATCTGAT-TTCA-AGA---TA---TTCCT-AC--GTCTAA----------AAT-------GA--TAC-T-ATTTTTGAATAGTAGTAATTC----CT-AATTTTC--TATAATTA--TGAAATTTTCAATACATGTAATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACATTTG--T--AAAAAGAAATACAT---A---TCTTTNACCATGATAAATCAGAGT-AT-----TACCTTTATTT-ATAGATATC-AATAAAATAT-T-AAGA-ACTGT-CCACA---AGAA-GGGGGGGGGGGGTA------TGTA--TTAGCG--TACT----GGT----GCGTACATGT--TCCCCCCTCCTGATAAAACGTCATCAGA-----NATTATA-----AA--------GAAATANTNGGA-ATTAA--------TT-A-TTTATCTTAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTCA---ACGGACTAAAATGCGATATAC-CGT-AAC--AGC-TGACT---GT--A-TAGCTTCATTC-----CAGCATTCGAACGGTGATTCCGTTCGAACTATAT-GTAGCTTGAGCTTCATGCTTTAC-CACAGACATAGTA--CGCCTTTT----TT---ACGTAAACTTGTAATC-TTTGAC----AA-CAGGTTTTG-ATGAACAATAT--TTAAAAATGCTAAA-A-----CTTCT--CTTC-CTACT-ATGTATA--TTCCGT-GTGCAA-GATCGA--AAACGTTATC-------GC-AC---ATG-TT-AACGTGTG--AT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATC----------TCG-CG-----------AAG----TCTCGCCGA---GCACTGTGTAGCCCT
gi|1 : CATTTCATGTACTTC-ATACTT--AAATCAAGTAAT---GATGCATTCTT-------AAAGGTGGTGCTTA----TGA-TCTACCATCAAGTGCTAA--CCTGTTTTTG--TGACAATTCTGACAGCTCACT-GTCCAGT-GCA----AG-GAA--TAGCT--------TATT--TAA-----T------GCTTTTGATTTATTCAGAAGGAACGT-ATAATCTTGCATTAATGGTTGTTTGA-CATCTGAT-TTCA-AGA---TA---TTCCT-AC--ATCTAA------------------------TAC-TTATTTGTGAATAGTAG-AATTC----CT-GATTTTC--TATAATTG--TGAAATTTTCAATA---ATAATAGT-AA-TTGTAT--TGCTTAG-TAAACA--AATATAACATTTG--T--AAAAAGAAATACAT---A---TCGTTCACCAAGATAAATCAGAGT-ATACATGTACCTTTATTT-ATAAATGTC-AATAAAATAT-TTAAGA-ACTGT-CCACA---AGAATGGGGGGGGGGGATA------TGTA--TT-GCG--TACT----AGT----ACATACATGT--TTTTCCCTCC----AAAACATCATCAGA-----AATAAAA-----AAAGAAAAGAGAGAGAGAGAGA-ATTAA--------TT-AATTCATATTAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTAA---ACGGACTAAAAAGCAACATAC-CGT-AAC--AGC-TGACT---GT--AGTTGCTTCATCC-----TAGCATTCGAACGGTGATTCCGTCCGAACTATA-----GCTTGAGCTTCATGCTTT-----------TAATATTCACCTTTT----TT---ACGTAAACTTGTAATC-TTTCAC----AA-CAGGCTCTG-ATGAACAATAT--TTCAAAATGCTAAA-A-----TTTAT--CTTC-CTGCT-ATGTATA--TTCCCT-GTGCAA-GATCGA--AAACGTTATC-------GC-AC---ATG-TC-AACGTATG--AT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATC----------TCG-CG-----------AAG----TCTCGCCGG---ACACTGTGTAGCCCT
gi|10 : atatgtatttttatgtaggaaaaatattcaaatgacacattaaggtcattaccaatGAT-TTCA-AGA---TA---TTCCT-AC--GTCTAATATTTATTGAAAT-------GAAATAC---ATTTT-GAATAGTAG-AATTC----CT-AATTTTC--CATGATTA--TGAGGTTTTCAATA-AT-TA-TAGT-AA-TTGTAA--TGCTTAG-TAAACA--AATATAACATTTG--CAAAAAAAGAAATACATATAA---TCTTTCATCATGATAAATCACAGT-A------TATCTTTATTT-ATAGATATC------------T-AAGA-ACTGT-CCACA---TG---GGAGGGGTGGGGTA------T
gi|11 : cAAATACAT---ACAATCTTTCACCATGATATATCAAAGT--T-----TATCTTTATTT-ATAGATATC------------T-AAGA-ACTGT-TCACA---TGAA-AGGTTGG------A------TGTA--CTAGTG--TACacacgtgta
gi|12 : CTAAA-AT----CTTCT--CTTC-C-AAT-ATGGTTA--ATCCCA-GTGCAA-ATTCAA--ACGCGTTATC-------GC-ACTCTATACTT-ATCGTGTG--A-----------T-GCGT-CGTT-GA-TTA--TTGctaaaggtagaggaggacacaaacc
gi|13 : caaatttcgaca-ATTTTTGAATA-TAGTAATTC----CT-AATTTTC--GA-AATTA--TGAAATTTTCAATACATGTGATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACGT
gi|14 : c-----AA--------GCAAT--TGGGA-ATTAA--------TT-G----ATCTTAAG-A-T--TAAT-TTTCTC---AATAATAT-TTTAACTCTCA---ACAGACTAAAATGC
gi|15 : agctatttt-TT-ATCTTGTGGAAT-------------CGG-CA-T-GT-TTG--TTGATCT-CC-AGAAA-CGA--------AATA----------CCG-CG-----------AAG----TCTCATCGA---ACAGTGTGTAGCC
gi|17 : TGCTTTTATTCGAACTAC-------CTTGAGTTTCATGGTTTAC-CACAGACAGAGTA--CGCCTTGT----TT---Atgta
gi|18 : aagtT------ATTTTTGATTTATTGAGGAGGGGCTTCAT-ATCTTGCAtagttg
gi|19 : ATC----------TCG-TG-----------AAG----TCTCGCCGG---ACACTGTGTAGCCCTttg
gi|2 : GTACTTTTTCAATGTAGCCAAACATATTCAAACTGACTATGAATGTTCATTGAGCCCACATGATTCATTTTAC---------------TACATCTCATGTACCTCCACAATTGTAAATTGAGCAA---AG-TGCTTTCTTTAAAATTAAGG-TGTTGCTTGCAAGTGACTCTACCATCATGTGCTAAACCTTGTTTTTTATTGACAATTC----AGTTTTCTTGTCCAGTCGCGCCACAGCGCAGTTAGCTCTATTCCATATTCCTAAGCTAATTCCATATTTTTTGACTTATTAAGAAGGGGATTC-CAAACGTGCACCCATTCGTGTTTGACCATCTGATATTCACAGATCTTAATCTTCCTCACCAATCTAA----------AATACAATGAAA--TACAT-AATTTTG-ATAATAGTAGATCTACGCTCAATGTTCTTTAAAATTACCTAAAATTTTCAATACATGTAATAGTCAATTTTTAATTTGCTTAGTTACACAACAATATAACATTTGTTT--AAAAAGAAATACAT---A---TC-TTAACCATGATAAATCAGAATAATCTA--TACCTTTATTTAATAAATATCAAATAAAATAT-T-ACAATACTGTATCACAT--TGAA-GAGGGGAGGGGGTGCCCATCTGTAACTTAGTG----CTAAAAGGT----GCATACATGTGATTTCCCCTTC-AACAA----TCACAAGA-----TATTTTA-----AAC-------GAAAT--TGGGA-TCTAAT-------TT-A-TTT---CTAAGCATT--TAATCTTTCTCCCGAGCAA-ATATTTAGC-CTCa
gi|3 : tgtaagtaatatatacatgatacaaatacaccatcataaagttacatgtcGACTTCA-AATCTTGCACCGATGGTGCTTTGA-CATCTGAT-TTCA-AGA---TA---TTCAT-AC--ATCTAA----------AAT-------GAA-TAC---ATTTTTGAATA-TAGTAATTC----CT-AATTTTC--TA-AATTA--TGAAATTTTCAATACATGTAATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACATTTG--T--AAAAAGAAATATCC---A---TCTTTAATCATGATAAATCAGAGT-A------TACCTTTATTT-ATAAATATC-AATAAAATATAT-AAGA-ACTGT-TTACATTGAGAG-GGGAGGGGTGCATG------TGTA--TTAATG--CACA----GGT----ACATACATGT--TTCCCCCTCC----AAAACATCATCAGT-----TATT-TT-----AA--------GCAAT--TGGGA-ATTA------------A-TTTATCTTAAG-A-T--TAAT-TTTCTC---AGTAATA--TTTAACTCTCA---ATAGACTAAAATGCGATAAAC-TGT-AAC--AGC-TGACT---GA--A-TAGCTTCTTTG-----CAGCATTCTAAAGGTGATTCAGTTCGCAC-------TAGCGTGAGCTTCTTGCTTTAC-TACAGACATGGTA--CGTCTTTT----TT---ATGTAAACTTGTAATC-TTTGAC----AA-CATGTTCTG-CTGAACAATA---ATAAAAATGCTATA-A-----TTTCT--CTCC-CTACT-ATGT----------------AA-GATTGA--AAATGTCATC-------GC-AC---ATA-TT-AACGTGTAGTAT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CAA--------AATA----------TCG-CG-----------AAG----TCTCGCCGA---GCAGTGTGTAGCCt
gi|4 : cagtacacttaaatctaaatccgcccactggctaatccatattttcaatAAAACATCATCAGAAAGATAATTATATTTTTAA--------ACAAT--TGAGA-ATTAA--------TTAA-TTTATCATAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTCA---ACAGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACTAGAGTAGA-TAGCTTCATTC-----CAGCATTCGAACGGTGATTCCGTTCGAACTAGCT-TTAGCTTCA--TTCATGCTTTAC-CACAGACATGGTA--CGCCTTTT----TTTTAATGTAAACTTGTAATCTTTTGAC----AATCAGGTTTTGAATTTACGTTATTCTTAAAAATGCTAAATACGCTTCTTCT--CTTCGCTACTCATGTATATTTTCCGTCGTGCAACGATCGATCAAACGTTATCTTCGGGAGCGAC---ATG-TTAAACGTGTG--AT----------TGGAGTCCA-TAGTATTGAATTGATCTCCCGAGAAACCGATCTATTTCAATT----------TCGCCGCCGAGTCGTGTAAGCTTCTCTTGCCGAGGCGCACTGTGTAGCCC
gi|5 : tccCTGT-CCACA---AGAG-GGCGGGG-------------TGTA--CTAGTGCATAGT----GCTCACGGCGTACATGT--TCCCCC-TCTTGATAAAACGTCATCAGA-----GATTATA-----AA------------TAGTTGGACATTAA--------TT-----TATC--AAA-A-T--TAAT-TTTCTC---AGTAATAT-TTTACCTCTCA---ACGAATTAAAATGCCATATAC-CGT-AAC--AGC-TAACT---GT--A-TAGCTTCATTC-----CATCACTCGAACG--------GTTCGAACTATAT-GTAGCTTGAGCTTCATGCTTTAC-CACAGACATAGTA--CGCCTTTT----TA---ACGTAA----GTAAT
gi|5 : -TT-AACGTGTG--ATTGGCACTGATT-GCGT-CA-T-GT-TTG--TTGATCC-CC-AGAAG-CGA--------AATC----------TCG-Cgcatgaagttacttaaaatccagtgctaaaattcttaacgtgtgattggcactgattgcgtcatgtttgttgatccccagaagcgaaatctcgca
gi|6 : ctgtccacaagagggcggggtgtactagtgcatagtgctcacggcgtacatgttccccctcttgataaaacgtcatcagagattataaatagttggacattaatttatcaaaattaattttctcagtaatattttacctctcaacgaattaaaatgccatataccgtaacagctaactgtatagcttcattccatcactcgaacggttcgaactatatgtagcttgagcttcatgctttaccacagacatagtacgcctttttaacgtaagtaatgcatgaagttacttaaaatccagtgctaaaattc-A-T--TAAA-TTTCTC---AGTAATAT-TTTCGCTCTCA---ACAGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACT---GG--A-TAGCTTCATTCTAGGACAGCATTCGAACGGTGATTCCGTTCGAACTACATTGTAGCTTGAGCTTCATTC-----------ACATGGTA--CGCCTTTTTTTTTT---ACGTAAATTTGTAATC-TTTGAC----AA-CAGGTTTTG-ATGAACAGTAA--TTAAAAATGCTAAA-A-----CTTCT--CTTC-TTACT-ATGTATA--TTCCGT-GTGCAT-GATCGA--AAACGTTATC-------GC-AC---ATG-TT-AGCGTGTG--AT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATCTCGCGCCGAGTCG-CG-----------AAG----TCTCGCCGA---GCACTGTGTAGCCCTa
gi|7 : CTGT-CCACA---AGAG-GGCGGGG-------------TGTA--CTAGTG-----------------GCGTACATGT--TCCCCCCTCTTGATAAAACGTCATCAGA-----GATTATA-----AA------------TAGTTGGACATTAA--------TT-----TATC--AAA-A-T--TAAT-TTTCTC---AGTAATAT-TTTACCTCTCA---ACGAATTAAAATGCCATATACGCGTAAAC--AGC-TAACT---GT--A-TAGCTTCATTC-----CATCACTCGAACG--------GTTCGAACTATAT-GTAGCTTGAGC-TCATGCTTTAC-CACAGACATAGTA--CGCCTTTT----TA---ACGTAA----GTAATa
gi|7 : -TT-AACGTGTG--ATTGGCACTGATT-GCGT-CA-T-GT-TTG--TTGATCC-CC-AGAAG-CGA--------AATC----------TCG-Cgcatgaagttacttaaatccagtgctaaaattcttaacgtgtgattggcactgattgcgtcatgtttgttgatccccagaagcgaaatctcgcag
gi|8 : ctgtccacaagagggcggggtgtactagtggcgtacatgttcccccctcttgataaaacgtcatcagagattataaatagttggacattaatttatcaaaattaattttctcagtaatattttacctctcaacgaattaaaatgccatatacgcgtaaacagctaactgtatagcttcattccatcactcgaacggttcgaactatatgtagcttgagctcatgctttaccacagacatagtacgcctttttaacgtaagtaatgcatgaagttacttaaatccagtgctaaaattcGT--TTTCCGCTC----TAAAAC-T--TCAGA-----TATTTTA-----AG--------CAA----TGGGA-ATAAAAAAAAAAATT---CTTAT---AAG-A-TGTTAAT-TCTTT-------ATTAT-TCTGCCTTTTATTAAGGGAATAAAATTC-ACATAC-CGT-TGTTTAGCGTGCCT---TT--A-TAGCTTTAGTC-----CAG--TT------GTGG--------AAACT----------TTGAGGTTCATGCTTTACACAAAGACATGGTA--TTTTCTTA----TT---ACGCCAA---GTAGTC-TTT--CCATGAA-CAG--TTAA-ATTAA-GATGT--TGATAA--GCTAAG-A-----TTTTTTGTTTC-C-----ATGTATag
gi|9 : AATGTTGCAAAA-GTATTCAAA-TGA-----AA----CATTATGCTCA-----------TTACCAATGCTTCGTTTTCTACATCTCGTGGA-CTTCAAAAT--TTAATCGGGTAATTTAGATGCTTTA-TTA-----AAGGGTGGTGCTC---AGTGA-TCTACCATCAAGAGCTTA--CCTGTTTTT-GTTGACAATTCT----GTTCCC-TGCCCAGT-GCA----AG-GAA--TAG--CTATTCTATA--------------------GTTTTGATTTATTAAGGAGGGGCTTCAT-ATCTTGCATTGGTGATTGTTTGA-CATCTgaaagtgtaaatgtgacagccgtctggcatgtaaggtctgccggaaacgattttgccaaagtctcaacgaaagtgtgca
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|16 ): TGTAAGTTATATAGATGATGAAAATACGTCACCACAAAGTCCAATATATACATCAGTGCTTTGTTAATGTAGCC
Alignments
lowQualScore : 1111111111111111111111111111111111111111111111111111
lowQualScore : 11 22 2 5555555555555555555555555555555555555555555555555555 2 1 3333 4444444 33333 1 11 1 33333 11 1 22222 1 11 111 777777777777777777777 111 1 1 1 111 111 1 11 77777777777777777777777777777 1 1 1111 11111 11 1 11 11 22222 1111111 111 333333 333333333333 111 4444444444444 44444444444444444 33333 11111 5555555555555555555555 1 4444444444444444444 111 11111 11111 3333333 1111 1111 3333333333333333333333333 111 111 2222 222222 111 111 11 2222222 111 4444444444444444 1 22222222 2222222222 33333333333 1111 111
lowQualScore : 88 1 1 44 3 4444444444444444444444444444444444444444444444444444 0 0 3 1 7 3 7 3333 7 2222222 0 88888 3 88 3 7 88888 1 44 3 99999 3 88 222 3 777777777777777777777 0 555 0 0 0 0 0 777 777 0 33 99999999999999999999999999999 0 0 3 0 7777 8 66666 11 0 3 0 8 8 0 11 8 11 22222 9999999 5 444 333333 8 222222222222 8 8 5 222 5 3333333333333 77 77 1 00000000000000000 99 1 55555 7 1 44444 2 6666666666666666666666 0 4444444444444444444 4 4 66 4 777 4 1 888 6 5 5 77 5 000 77 5 44444 4 00000 5555555 0 5 66 0000 888 4444 1111111111111111111111111 222 000 1 2222 2 5 666666 66 6 7 6 222 222 8 11 6666666 8 444 5 5 7777777777777777 5 5 5 5 66 5 1 5 00000000 1111111111 5 11111111111 4444 111
lowQualScore : .. . . .. . .................................................... . . . . . . . .... . ....... . ..... . .. . . ..... . .. . ..... . .. ... . ..................... . ... . . . . . ... ... . .. ............................. . . . . .... . ..... .. . . . . . . .. . .. ..... ....... . ... ...... . ............ . . . ... . ............. .. .. . ................. .. . ..... . . ..... . ...................... . ................... . . .. . ... . . ... . . . .. . ... .. . ..... . ..... ....... . . .. .... ... .... ......................... ... ... . .... . . ...... .. . . . ... ... . .. ....... . ... . . ................ . . . . .. . . . ........ .......... . ........... .... ...
lowQualScore : 00 0 0 00 3 7777777777777777777777777777777777777777777777777777 7 7 3 0 3 3 3 0000 3 0000000 7 33333 3 33 3 3 00000 0 77 3 00000 3 33 333 7 777777777777777777777 8 222 2 2 0 0 0 555 555 0 88 55555555555555555555555555555 8 8 2 6 0000 0 66666 00 0 2 8 0 0 6 00 0 00 22222 0000000 6 000 222222 0 000000000000 0 0 7 444 7 6666666666666 99 99 4 22222222222222222 22 7 00000 6 0 33333 1 0000000000000000000000 0 4444444444444444444 4 4 11 4 888 4 9 888 6 7 7 99 7 000 99 7 33333 3 99999 8888888 1 0 99 6666 888 1111 0000000000000000000000000 666 666 4 1111 3 0 000000 99 7 3 7 000 888 0 00 0000000 0 000 0 0 8888888888888888 0 0 0 0 99 7 4 7 77777777 9999999999 0 77777777777 2222 777
consensus : NNNNGTACTTTTTCAATGTAGCAAAA-ATATTCAAA-TGAC----AA----CATTAAGCTCA-----------TTACCAAT-----------TACATCTCGTGTACTTC-ANAATT-TAAATCGAGTAAT--AGATGCTTTCTT-AA----AAGGTGGTGCT--CAAGTGA-TCTACCATCAAGTGCTAA--CCTG-TTTTTGTTGACAATTCT---AGTTCNCTTGTCCAGT-GCG----AG-GAA--TAGCTCTATTCCATATT-------TAAT------NTTTTTGATTTATTAAGGAGGGGCTTCATAATCTTGCACCGATGGTTGTTTGA-CATCTGAT-TTCA-AGA---TA---TTCCT-AC--ATCTAA----------AAT------GAA-TAC-T-ATTTTTGAATAGTAGTAATTC----CT-AATTTTC--TATAATTA--TGAAATTTTCAATACATGTAATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACATTTG--T--AAAAAGAAATACAT---A---TCTTTCACCATGATAAATCAGAGTA---TA----TACCTTTATTT-ATAAATATC-AATAAAATAT-T-AAGA-ACTGT-CCACA-N-GAG-GGGGGGGGGGGGTA------TGT--A--CTAGTG--TACT----GGT----GCGTACATGT--TTCCCCCTCC-GATAAAACGTCATCAGANA-----TTNTA-----AA--------GCAATAGTGGGA-ATTAA--------TTA-TTTATCTTAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTCA---ACGGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACT---GT--A-TAGCTTCATTC-----CAGCATTCGAACGGTGATTCCGTTCGAACTATAT-GTAGCTTGAGCTTCATGCTTTAC-CACAGACATGGTA--CGCCTTTT----TT---ACGTAAACTTGTAATC-TTTGAC----AA-CAGGTTTTG-ATGAACGNTAN--TTAAA----AATGCTAAA-A-----CTTCT--CTTC-CTACT-ATGTATA--TTCCNT-GTGCAA-GATCGA--AAACGTTATC-------GC-AC---ATG-TT-AACGTGTG--AT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATC----------TCG-CG-----------AAG----TCTCGCCGA---GCACTGTGTAGCCCT
Reference ( family-1142 ) : NNNNGTACTTTTTCAATGTNGCNAAACGTATTCAAACTGACTATGAATGTTCATTGNGCCCACATGATTCATTTTACCAATGCTTCGTTTTCTACATCTCGTGTACCTCCANAATT-TAAATCGAGTAAT--AGATGCTTTCTTTAA----AGGGTGGTGCT--CGAGTGA-TCTACCATCAAGTGCTAA--CCTG-TTTTTGTTGACAATTCT---AGTTCNCTTGTCCAGT-GCG----AG-GAA--TAGCTCTATTCCATATT-------TAAT------NTTTTTGATTTATTAAGGAGGGGCTTCATAATCTTGCACCGATGGTTGTTTGA-CATCTGAT-TTCA-AGA---TA---TTCCT-AC--ATCTAA----------AAT------GAA-TAC-T-ATTTTTGAATAGTAGTAATTC----CT-AATTTTC--TATAATTA--TGAAATTTTCAATACATGTAATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACATTTG--T--AAAAAGAAATACAT---A---TCTTTCACCATGATAAATCAGAGTA---TA----TACCTTTATTT-ATAAATATC-AATAAAATAT-T-AAGA-ACTGT-CCACA-N-GAG-GGGGGGGGGGGGTA------TGT--A--CTAGTG--TACT----GGT----GCGTACATGT--TTCCCCCTCC-GATAAAACGTCATCAGANA-----TTATA-----AA--------GNAATAGTGGGA-ATTAA--------TTA-TTTATCTTAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTCA---ACGGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACT---GT--A-TAGCTTCATTC-----CAGCATTCGAACGGTGATTCCGTTCGAACTATAT-GTAGCTTGAGCTTCATGCTTTAC-CACAGACATGGTA--CGCCTTTT----TT---ACGTAAACTTGTAATC-TTTGAC----AA-CAGGTTTTG-ATGAACGATAT--TTAAA----AATGCTAAA-A-----CTTCT--CTTC-CTACT-ATGTATA--TTCCNT-GTGCAA-GATCGA--AAACGTTATC-------GC-AC---ATG-TT-AACGTGTG--AT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATC----------TCG-CG-----------AAG----TCTCGCCGA---GCACTGTGTAGCCCT
gi|1 : GTATTTTT---ATGTAGGAAAA-ATATTCAAA-TGAC-----A----CATTAAGGTCA-----------TTACCAAT-------------CATTTCATGTACTTC-ATA-CT-TAAATCAAGTAAT---GATGCATTCTT--A----AAGGTGGTGCT--TA--TGA-TCTACCATCAAGTGCTAA--CCTG-TTTTTGT-GACAATTCTGACAGCTCACT-GTCCAGT-GCA----AG-GAA--TAGCT--------TATT-------TAAT------GCTTTTGATTTATTCAGAAGGAACGT-ATAATCTTGCATTAATGGTTGTTTGA-CATCTGAT-TTCA-AGA---TA---TTCCT-AC--ATCTAA-----------------------TAC-TTATTTGTGAATAGTAG-AATTC----CT-GATTTTC--TATAATTG--TGAAATTTTCAATA---ATAATAGT-AA-TTGTAT--TGCTTAG-TAAACA--AATATAACATTTG--T--AAAAAGAAATACAT---A---TCGTTCACCAAGATAAATCAGAGTA---TACATGTACCTTTATTT-ATAAATGTC-AATAAAATAT-TTAAGA-ACTGT-CCACA-A-GAATGGGGGGGGGGGATA------TGT--A--TT-GCG--TACT----AGT----ACATACATGT--TTTTCCCTCC----AAAACATCATCAGAAA-----TAAAA-----AAAGAAAAGAGAGAGAGAGAGA-ATTAA--------TTAATTCATATTAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTAA---ACGGACTAAAAAGCAACATAC-CGT-AAC--AGC-TGACT---GT--AGTTGCTTCATCC-----TAGCATTCGAACGGTGATTCCGTCCGAACTATA-----GCTTGAGCTTCATGCTTT-----------TAATATTCACCTTTT----TT---ACGTAAACTTGTAATC-TTTCAC----AA-CAGGCTCTG-ATGAACAATAT--TTCAA----AATGCTAAA-A-----TTTAT--CTTC-CTGCT-ATGTATA--TTCCCT-GTGCAA-GATCGA--AAACGTTATC-------GC-AC---ATG-TC-AACGTATG--AT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATC----------TCG-CG-----------AAG----TCTCGCCGG---ACACTGTGTAGCCCT
gi|10 : atatGAT-TTCA-AGA---TA---TTCCT-AC--GTCTAATATTTATTGAAAT------GAAATAC---ATTTT-GAATAGTAG-AATTC----CT-AATTTTC--CATGATTA--TGAGGTTTTCAATA-AT-TA-TAGT-AA-TTGTAA--TGCTTAG-TAAACA--AATATAACATTTG--CAAAAAAAGAAATACATATAA---TCTTTCATCATGATAAATCACAGTA---TA----T--CTTTATTT-ATAGATATC------------T-AAGA-ACTGT-CCACA-T---G-GGAGGGGTGGGGTA------TAC--A--C--GTG--TA
gi|11 : cAAATACAT---ACAATCTTTCACCATGATATATCAAAGTT---TA----T--CTTTATTT-ATAGATATC------------T-AAGA-ACTGT-TCACA-T-GAA-AGGTTGG------A------TGT--A--CTAGTG--TAC
gi|12 : CTAAA-AT----CTTCT--CTTC-C-AAT-ATGGTTA--ATCCCA-GTGCAA-ATTCAA--ACGCGTTATC-------GC-ACTCTATACTT-ATCGTGTG--A-----------T-GCGT-CGTT-GA-TTA--TTGctaaaggtagaggaggacacaaacc
gi|13 : caaatttcgaca-ATTTTTGAATA-TAGTAATTC----CT-AATTTTC--GA-AATTA--TGAAATTTTCAATACATGTGATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACGT
gi|14 : c-----AA--------GCAAT--TGGGA-ATTAA--------TTG----ATCTTAAG-A-T--TAAT-TTTCTC---AATAATAT-TTTAACTCTCA---ACAGACTAAAATGC
gi|15 : agctatttt-TT-ATCTTGTGGAAT-------------CGG-CA-T-GT-TTG--TTGATCT-CC-AGAAA-CGA--------AATA----------CCG-CG-----------AAG----TCTCATCGA---ACAGTGTGTAGCC
gi|17 : TGCTTTTATTCGAACTAC-------CTTGAGTTTCATGGTTTAC-CACAGACAGAGTA--CGCCTTGT----TT---Atgta
gi|18 : aagtT------ATTTTTGATTTATTGAGGAGGGGCTTCAT-ATCTTGCAtagttg
gi|19 : ATC----------TCG-TG-----------AAG----TCTCGCCGG---ACACTGTGTAGCCCTttg
gi|2 : GTACTTTTTCAATGTAGCCAAACATATTCAAACTGACTATGAATGTTCATTGAGCCCACATGATTCATTTTAC---------------TACATCTCATGTACCTCCACAATTGTAAATTGAGCAA---AG-TGCTTTCTTTAAAATTAAGGTGTTGCTTGCAAGTGACTCTACCATCATGTGCTAAACCTTGTTTTTTATTGACAATTC----AGTTTTCTTGTCCAGTCGCGCCACAGCGCAGTTAGCTCTATTCCATATTCCTAAGCTAATTCCATATTTTTTGACTTATTAAGAAGGGGATTC-CAAACGTGCACCCATTCGTGTTTGACCATCTGATATTCACAGATCTTAATCTTCCTCACCAATCTAA----------AATACAATGAAA-TACAT-AATTTTG-ATAATAGTAGATCTACGCTCAATGTTCTTTAAAATTACCTAAAATTTTCAATACATGTAATAGTCAATTTTTAATTTGCTTAGTTACACAACAATATAACATTTGTTT--AAAAAGAAATACAT---A---TC-TTAACCATGATAAATCAGAATAATCTA----TACCTTTATTTAATAAATATCAAATAAAATAT-T-ACAATACTGTATCACATT-GAA-GAGGGGAGGGGGTGCCCATCTGT--AACTTAGTG----CTAAAAGGT----GCATACATGTGATTTCCCCTTC-AACAA----TCACAAGATA-----TTTTA-----AAC-------GAAAT--TGGGA-TCTAAT-------TTA-TTT---CTAAGCATT--TAATCTTTCTCCCGAGCAA-ATATTTAGC-CTCa
gi|3 : tgtaagtaatatatacatgatacaaatacaccatcataaagttacatgtcGACTTCA-AATCTTGCACCGATGGTGCTTTGA-CATCTGAT-TTCA-AGA---TA---TTCAT-AC--ATCTAA----------AAT------GAA-TAC---ATTTTTGAATA-TAGTAATTC----CT-AATTTTC--TA-AATTA--TGAAATTTTCAATACATGTAATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACATTTG--T--AAAAAGAAATATCC---A---TCTTTAATCATGATAAATCAGAGTA---TA------CCTTTATTT-ATAAATATC-AATAAAATATAT-AAGA-ACTGT-TTACA-TTGAG-AGGGGAGGGGTGCA------TGTGTA--TTAATG--CACA----GGT----ACATACATGT--TTCCCCCTCC----AAAACATCATCAGTTA-----TTTTA-----A---------GCAAT--TGGGA-ATTAA--------TT----TATCTTAAG-A-T--TAAT-TTTCTC---AGTAATAT-TT-AACTCTCA---ATAGACTAAAATGCGATAAAC-TGT-AAC--AGC-TGACT---GA--A-TAGCTTCTTTG-----CAGCATTCTAAAGGTGATTCAGTTCGCACTA-------GCGTGAGCTTCTTGCTTTAC-TACAGACATGGTA--CGTCTTTT----TT---ATGTAAACTTGTAATC-TTTGAC----AA-CATGTTCTG-CTGAACAATAA--T-AAA----AATGCTATA-A-----TTTCT--CTCC-CTACT-ATGTA----------------A-GATTGA--AAATGTCATC-------GC-AC---ATA-TT-AACGTGTAGTAT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CAA--------AATA----------TCG-CG-----------AAG----TCTCGCCGA---GCAGTGTGTAGCCt
gi|4 : cagtacacttaaatctaaatccgcccactggctaatccatattttcaatAAAACATCATCAGAAAGATAATTATATTTTTAA--------ACAAT--TGAGA-ATTAA--------TTAATTTATCATAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTCA---ACAGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACTAGAGTAGA-TAGCTTCATTC-----CAGCATTCGAACGGTGATTCCGTTCGAACTAGCT-TTAGCTTCA--TTCATGCTTTAC-CACAGACATGGTA--CGCCTTTT----TTTTAATGTAAACTTGTAATCTTTTGAC----AATCAGGTTTTGAATTTACGTTATTCTTAAA----AATGCTAAATACGCTTCTTCT--CTTCGCTACTCATGTATATTTTCCGTCGTGCAACGATCGATCAAACGTTATCTTCGGGAGCGAC---ATG-TTAAACGTGTG--AT----------TGGAGTCCA-TAGTATTGAATTGATCTCCCGAGAAACCGATCTATTTCAATT----------TCGCCGCCGAGTCGTGTAAGCTTCTCTTGCCGAGGCGCACTGTGTAGCCC
gi|5 : tccCTGT-CCACA-A-GAG-GGCGGGG-------------TGT--A--CTAGTGCATAGT----GCTCACGGCGTACATGT--T-CCCCCTCTTGATAAAACGTCATCAGAGA-----TTATA-----AA------------TAGTTGGACATTAA--------TT----TATC--AAA-A-T--TAAT-TTTCTC---AGTAATAT-TTTACCTCTCA---ACGAATTAAAATGCCATATAC-CGT-AAC--AGC-TAACT---GT--A-TAGCTTCATTC-----CATCACTCGAACG--------GTTCGAACTATAT-GTAGCTTGAGCTTCATGCTTTAC-CACAGACATAGTA--CGCCTTTT----TA---ACGTAA----GTAAT------GC-----------------ATGAA-GTTAC--TTAAAATCCAGTGCTAAA-A------TTCT--
gi|5 : -TT-AACGTGTG--ATTGGCACTGATT-GCGT-CA-T-GT-TTG--TTGATCC-CC-AGAAG-CGA--------AATC----------TCG-Ctaacgtgtgattggcactgattgcgtcatgtttgttgatccccagaagcgaaatctcgca
gi|6 : ctgtccacaagagggcggggtgtactagtgcatagtgctcacggcgtacatgttccccctcttgataaaacgtcatcagagattataaatagttggacattaatttatcaaaattaattttctcagtaatattttacctctcaacgaattaaaatgccatataccgtaacagctaactgtatagcttcattccatcactcgaacggttcgaactatatgtagcttgagcttcatgctttaccacagacatagtacgcctttttaacgtaagtaatgcatgaagttacttaaaatccagtgctaaaattc-A-T--TAAA-TTTCTC---AGTAATAT-TTTCGCTCTCA---ACAGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACT---GG--A-TAGCTTCATTCTAGGACAGCATTCGAACGGTGATTCCGTTCGAACTACATTGTAGCTTGAGCTTCATTC-----------ACATGGTA--CGCCTTTTTTTTTT---ACGTAAATTTGTAATC-TTTGAC----AA-CAGGTTTTG-ATGAACAGTAA--TTAAA----AATGCTAAA-A-----CTTCT--CTTC-TTACT-ATGTATA--TTCCGT-GTGCAT-GATCGA--AAACGTTATC-------GC-AC---ATG-TT-AGCGTGTG--AT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATCTCGCGCCGAGTCG-CG-----------AAG----TCTCGCCGA---GCACTGTGTAGCCCTa
gi|7 : CTGT-CCACA-A-GAG-GGCGGGG-------------TGT--A--CTAGTG-----------------GCGTACATGT--TCCCCCCTCTTGATAAAACGTCATCAGAGA-----TTATA-----AA------------TAGTTGGACATTAA--------TT----TATC--AAA-A-T--TAAT-TTTCTC---AGTAATAT-TTTACCTCTCA---ACGAATTAAAATGCCATATACGCGTAAAC--AGC-TAACT---GT--A-TAGCTTCATTC-----CATCACTCGAACG--------GTTCGAACTATAT-GTAGCTTGAGC-TCATGCTTTAC-CACAGACATAGTA--CGCCTTTT----TA---ACGTAA----GTAAT------GC-----------------ATGAA-GTTAC--TTAAATCC-AGTGCTAAA-A------TTCT--a
gi|7 : -TT-AACGTGTG--ATTGGCACTGATT-GCGT-CA-T-GT-TTG--TTGATCC-CC-AGAAG-CGA--------AATC----------TCG-Ctaacgtgtgattggcactgattgcgtcatgtttgttgatccccagaagcgaaatctcgcag
gi|8 : ctgtccacaagagggcggggtgtactagtggcgtacatgttcccccctcttgataaaacgtcatcagagattataaatagttggacattaatttatcaaaattaattttctcagtaatattttacctctcaacgaattaaaatgccatatacgcgtaaacagctaactgtatagcttcattccatcactcgaacggttcgaactatatgtagcttgagctcatgctttaccacagacatagtacgcctttttaacgtaagtaatgcatgaagttacttaaatccagtgctaaaattcGT--TTTCCGCTC----TAAAAC-T--TCAGATA-----TTTTA-----A---------GCAAT---GGGA-ATAAAAAAAAAAATT--CTTAT---AAG-A-TGTTAAT-TCTTT-------ATTAT-TCTGCCTTTTATTAAGGGAATAAAATTC-ACATAC-CGT-TGTTTAGCGTGCCT---TT--A-TAGCTTTAGTC-----CAG--TT------GTGG--------AAACT----------TTGAGGTTCATGCTTTACACAAAGACATGGTA--TTTTCTTA----TT---ACGCCAA---GTAGTC-TTT--CCATGAA-CAG--TTAA-ATTAA-GATGT--TGATA----A--GCTAAG-A-----TTTTTTGTTTC-C-----ATGTATag
gi|9 : AATGTTGCAAAA-GTATTCAAA-TGA-----AA----CATTATGCTCA-----------TTACCAATGCTTCGTTTTCTACATCTCGTGGACTTC-AAAATT-TAA-TCGGGTAATTTAGATGCTTTATT-AA----AGGGTGGTGCT--C-AGTGA-TCTACCATCAAGAGCTTA--CCTG-TTTTTGTTGACAATTCT----GTTCCC-TGCCCAGT-GCA----AG-GAA--TAG--CTATTCTATA--------------------GTTTTGATTTATTAAGGAGGGGCTTCAT-ATCTTGCATTGGTGATTGTTTGA-CATCTgaaagtgtaaatgtgacagccgtctggcatgtaaggtctgccggaaacgattttgccaaagtctcaacgaaagtgtgca
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|16 ): TGTAAGTTATATAGATGATGAAAATACGTCACCACAAAGTCCAATATATACATCAGTGCTTTGTTAATGTAGCC
Alignments
lowQualScore : 11 1 1 66666666666 33333 888888888888888888 1 1 3333 1 333333 22222 1 11 1 33333 11 1 22222 1 11 111 777777777777777777777 111 1 1 1 111 111 1 11 77777777777777777777777777777 1 1 1111 11111 11 1 11 11 22222 1111111 111 333333 4444444444444 111 4444444444444 44444444444444444 33333 11111 66666666666666666666666 1 44444444444444444444 111 11111 11111 33333 1111 1111 3333333333333333333333333 1 2222 222222 111 111 11 2222222 111 4444444444444444 1 22222222 2222222222 33333333333 1111 111
lowQualScore : 88 3 3 11111111111 33333 7 666666666666666666 0 3 1 7 3 7 3333 7 3 111111 88888 3 88 3 7 88888 1 44 3 99999 3 88 222 3 777777777777777777777 0 555 0 0 0 0 0 777 777 0 33 99999999999999999999999999999 0 0 3 0 7777 8 66666 11 0 3 0 8 8 0 11 8 11 22222 9999999 5 444 333333 8 0000000000000 8 5 222 5 3333333333333 77 77 1 00000000000000000 99 1 55555 7 1 22222 1 00000000000000000000000 0 44444444444444444444 4 4 66 4 777 4 1 888 6 5 5 77 5 000 77 5 44444 4 00000 55555 0 5 66 0000 888 4444 1111111111111111111111111 1 1 888 2222 5 666666 66 6 7 6 222 222 8 11 6666666 8 444 5 5 7777777777777777 5 5 5 5 66 5 1 5 00000000 1111111111 5 11111111111 4444 111
lowQualScore : .. . . ........... ..... . .................. . . . . . . .... . . ...... ..... . .. . . ..... . .. . ..... . .. ... . ..................... . ... . . . . . ... ... . .. ............................. . . . . .... . ..... .. . . . . . . .. . .. ..... ....... . ... ...... . ............. . . ... . ............. .. .. . ................. .. . ..... . . ..... . ....................... . .................... . . .. . ... . . ... . . . .. . ... .. . ..... . ..... ..... . . .. .... ... .... ......................... . . ... .... . ...... .. . . . ... ... . .. ....... . ... . . ................ . . . . .. . . . ........ .......... . ........... .... ...
lowQualScore : 00 3 3 77777777777 33333 3 000000000000000000 7 3 0 3 3 3 0000 3 3 777777 33333 3 33 3 3 00000 0 77 3 00000 3 33 333 7 777777777777777777777 8 222 2 2 0 0 0 555 555 0 88 55555555555555555555555555555 8 8 2 6 0000 0 66666 00 0 2 8 0 0 6 00 0 00 22222 0000000 6 000 222222 0 0000000000000 0 7 444 7 6666666666666 99 99 4 22222222222222222 22 7 00000 6 0 55555 0 11111111111111111111111 0 44444444444444444444 4 4 11 4 888 4 9 888 6 7 7 99 7 000 99 7 33333 3 99999 88888 1 0 99 6666 888 1111 0000000000000000000000000 4 0 999 1111 0 000000 99 7 3 7 000 888 0 00 0000000 0 000 0 0 8888888888888888 0 0 0 0 99 7 4 7 77777777 9999999999 0 77777777777 2222 777
consensus : NNNNGTACTTTTTCAATGTAG-CAAAAATATTCAAA-TGAC----AA----CATTAAGCTC-----ATTACCA----AT-----------TACATCTCGTGTA-CTTCANAATT-TAAATCGAGTAA--TAGATGCTTTC-TTAA----AGGGTGGTGCT--CAAGTGA-TCTACCATCAAGTGCTAA--CCTG-TTTTTGTTGACAATTCT---AGTTCNCTTGTCCAGT-GCG----AG-GAA--TAGCTCTATTCCATATT-------TAAT------NTTTTTGATTTATTAAGGAGGGGCTTCATAATCTTGCACCGATGGTTGTTTGA-CATCTGAT-TTCA-AGA---TA---TTCCT-AC--ATCTAA----------AAT------GAA-TAC-T-ATTTTTGAATAGTAGTAATTC----CT-AATTTTC--TATAATTA--TGAAATTTTCAATACATGTAATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACATTTG--T--AAAAAGAAATACAT---A---TCTTTCACCATGATAAATCAGAGTA---TA----TACCTTTATTT-ATAAATATC-AATAAAATA-T-TAAGA-ACTGT-CCACA-N-GAG-GGGGGGGGGGGGTA------TGT--A--CTAGTG--TACT----GGT----GCGTACATGT--TTCCCCCTCC-GATAAAACGTCATCAGANA-----TTNTA-----A--------A-GCAATAGTGGGA-ATTAA--------TT-A-TTTATCTTAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTCA---ACGGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACT---GT--A-TAGCTTCATTC-----CAGCATTCGAACGGTGATTCCGTTCGAACTACAT-GTAGCTTGAGCTTCATGCTTTAC-CACAGACATGGTA--CGCCTTTT----TT---ACGTAAACTTGTAATC-TTTGAC----AA-CAGGTTTTG-ATGAACGNTA--NTTAAA----AATGCTAAA-A-----CTTCT--CTTC-CTACT-ATGTATA--TTCCNT-GTGCAA-GATCGA--AAACGTTATC-------GC-AC---ATG-TT-AACGTGTG--AT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATC----------TCG-CG-----------AAG----TCTCGCCGA---GCACTGTGTAGCCCT
Reference ( family-1142 ) : NNNNGTACTTTTTCAATGTAG-CAAAAATATTCAAA-TGAC----AA----CATTAAGCTC-----ATTACCA----AT-----------TACATCTCGTGTA-CTTCANAATT-TAAATCGAGTAA--TAGATGCTTTC-TTAA----AAGGTGGTGCT--CAAGTGA-TCTACCATCAAGTGCTAA--CCTG-TTTTTGTTGACAATTCT---AGTTCNCTTGTCCAGT-GCG----AG-GAA--TAGCTCTATTCCATATT-------TAAT------NTTTTTGATTTATTAAGGAGGGGCTTCATAATCTTGCACCGATGGTTGTTTGA-CATCTGAT-TTCA-AGA---TA---TTCCT-AC--ATCTAA----------AAT------GAA-TAC-T-ATTTTTGAATAGTAGTAATTC----CT-AATTTTC--TATAATTA--TGAAATTTTCAATACATGTAATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACATTTG--T--AAAAAGAAATACAT---A---TCTTTCACCATGATAAATCAGAGTA---TA----TACCTTTATTT-ATAAATATC-AATAAAATA-T-TAAGA-ACTGT-CCACA-N-GAG-GGGGGGGGGGGGTA------TGT--A--CTAGTG--TACT----GGT----GCGTACATGT--TTCCCCCTCC-GATAAAACGTCATCAGANA-----TTNTA-----A--------A-GCAATAGTGGGA-ATTAA--------TT-A-TTTATCTTAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTCA---ACGGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACT---GT--A-TAGCTTCATTC-----CAGCATTCGAACGGTGATTCCGTTCGAACTATAT-GTAGCTTGAGCTTCATGCTTTAC-CACAGACATGGTA--CGCCTTTT----TT---ACGTAAACTTGTAATC-TTTGAC----AA-CAGGTTTTG-ATGAACGNTA--NTTAAA----AATGCTAAA-A-----CTTCT--CTTC-CTACT-ATGTATA--TTCCNT-GTGCAA-GATCGA--AAACGTTATC-------GC-AC---ATG-TT-AACGTGTG--AT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATC----------TCG-CG-----------AAG----TCTCGCCGA---GCACTGTGTAGCCCT
gi|1 : GTATTTTT---ATGTAG-GAAAAATATTCAAA-TGAC----A-----CATTAAGGTC-----ATTACCA----AT-------------CATTTCATGTA-CTTCATA-CT-TAAATCAAGTAA--T-GATGCATTC-TTAA----A-GGTGGTGCT--TA--TGA-TCTACCATCAAGTGCTAA--CCTG-TTTTTGT-GACAATTCTGACAGCTCACT-GTCCAGT-GCA----AG-GAA--TAGCT--------TATT-------TAAT------GCTTTTGATTTATTCAGAAGGAACGT-ATAATCTTGCATTAATGGTTGTTTGA-CATCTGAT-TTCA-AGA---TA---TTCCT-AC--ATCTAA-----------------------TAC-TTATTTGTGAATAGTAG-AATTC----CT-GATTTTC--TATAATTG--TGAAATTTTCAATA---ATAATAGT-AA-TTGTAT--TGCTTAG-TAAACA--AATATAACATTTG--T--AAAAAGAAATACAT---A---TCGTTCACCAAGATAAATCAGAGTA---TACATGTACCTTTATTT-ATAAATGTC-AATAAAATATT-TAAGA-ACTGT-CCACA-A-GAATGGGGGGGGGGGATA------TGT--A--TT-GCG--TACT----AGT----ACATACATGT--TTTTCCCTCC----AAAACATCATCAGAAA-----TAAAA-----AAAGAAAAGA-GAGAGAGAGAGA-ATTAA--------TTAA-TTCATATTAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTAA---ACGGACTAAAAAGCAACATAC-CGT-AAC--AGC-TGACT---GT--AGTTGCTTCATCC-----TAGCATTCGAACGGTGATTCCGTCCGAACTA-----TAGCTTGAGCTTCATGCTTT-----------TAATATTCACCTTTT----TT---ACGTAAACTTGTAATC-TTTCAC----AA-CAGGCTCTG-ATGAACAATA--TTTCAA----AATGCTAAA-A-----TTTAT--CTTC-CTGCT-ATGTATA--TTCCCT-GTGCAA-GATCGA--AAACGTTATC-------GC-AC---ATG-TC-AACGTATG--AT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATC----------TCG-CG-----------AAG----TCTCGCCGG---ACACTGTGTAGCCCT
gi|10 : atatGAT-TTCA-AGA---TA---TTCCT-AC--GTCTAATATTTATTGAAAT------GAAATAC---ATTTT-GAATAGTAG-AATTC----CT-AATTTTC--CATGATTA--TGAGGTTTTCAATA-AT-TA-TAGT-AA-TTGTAA--TGCTTAG-TAAACA--AATATAACATTTG--CAAAAAAAGAAATACATATAA---TCTTTCATCATGATAAATCACAGTA---TA----T--CTTTATTT-ATAGATATC-------------TAAGA-ACTGT-CCACA-T---G-GGAGGGGTGGGGTA------TAC--A--C--GTG--TA
gi|11 : cAAATACAT---ACAATCTTTCACCATGATATATCAAAGTT---TA----T--CTTTATTT-ATAGATATC-------------TAAGA-ACTGT-TCACA-T-GAA-AGGTTGG------A------TGT--A--CTAGTG--TAC
gi|12 : CTAAA-AT----CTTCT--CTTC-C-AAT-ATGGTTA--ATCCCA-GTGCAA-ATTCAA--ACGCGTTATC-------GC-ACTCTATACTT-ATCGTGTG--A-----------T-GCGT-CGTT-GA-TTA--TTGctaaaggtagaggaggacacaaacc
gi|13 : caaatttcgaca-ATTTTTGAATA-TAGTAATTC----CT-AATTTTC--GA-AATTA--TGAAATTTTCAATACATGTGATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACGT
gi|14 : cAGCTA-----TTTTA-----A----------GCAAT--TGGGA-ATTAA--------TT-G----ATCTTAAG-A-T--TAAT-TTTCTC---AATAATAT-TTTAACTCTCA---ACAGACTAAAATGC
gi|15 : -TT-ATCTTGTGGAAT-------------CGG-CA-T-GT-TTG--TTGATCT-CC-AGAAA-CGA--------AATA----------CCG-CG-----------AAG----TCTCATCGA---ACAGTGTGTAGCC
gi|17 : TGCTTTTATTCGAACTAC-------CTTGAGTTTCATGGTTTAC-CACAGACAGAGTA--CGCCTTGT----TT---Atgta
gi|18 : aagtT------ATTTTTGATTTATTGAGGAGGGGCTTCAT-ATCTTGCAtagttg
gi|19 : ATC----------TCG-TG-----------AAG----TCTCGCCGG---ACACTGTGTAGCCCTttg
gi|2 : GTACTTTTTCAATGTAGCCAAACATATTCAAACTGACTATGAATGTTCATTGAGCCCACATGATT--CATTTTAC-----------TACATCTCATGTACCTCCACAATTGTAAATTGAGCAA---AG-TGCTTTCTTTAAAATTAAGGTGTTGCTTGCAAGTGACTCTACCATCATGTGCTAAACCTTGTTTTTTATTGACAATTC----AGTTTTCTTGTCCAGTCGCGCCACAGCGCAGTTAGCTCTATTCCATATTCCTAAGCTAATTCCATATTTTTTGACTTATTAAGAAGGGGATTC-CAAACGTGCACCCATTCGTGTTTGACCATCTGATATTCACAGATCTTAATCTTCCTCACCAATCTAA----------AATACAATGAAA-TACAT-AATTTTG-ATAATAGTAGATCTACGCTCAATGTTCTTTAAAATTACCTAAAATTTTCAATACATGTAATAGTCAATTTTTAATTTGCTTAGTTACACAACAATATAACATTTGTTT--AAAAAGAAATACAT---A---TC-TTAACCATGATAAATCAGAATAATCTA----TACCTTTATTTAATAAATATCAAATAAAATA-T-TACAATACTGTATCACATT-GAA-GAGGGGAGGGGGTGCCCATCTGT--AACTTAGTG----CTAAAAGGT----GCATACATGTGATTTCCCCTTC-AACAA----TCACAAGATA-----TTTTA-----A--------ACGAAAT--TGGGA-TCTAAT-------TT-A-TTT---CTAAGCATT--TAATCTTTCTCCCGAGCAA-ATATTTAGC-CTCa
gi|3 : tgtaagtaatatatacatgatacaaatacaccatcataaagttacatgtcGACTTCA-AATCTTGCACCGATGGTGCTTTGA-CATCTGAT-TTCA-AGA---TA---TTCAT-AC--ATCTAA----------AAT------GAA-TAC---ATTTTTGAATA-TAGTAATTC----CT-AATTTTC--TA-AATTA--TGAAATTTTCAATACATGTAATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACATTTG--T--AAAAAGAAATATCC---A---TCTTTAATCATGATAAATCAGAGTA---TA------CCTTTATTT-ATAAATATC-AATAAAATA-TATAAGA-ACTGT-TTACA-TTGAG-AGGGGAGGGGTGCA------TGTGTA--TTAATG--CACA----GGT----ACATACATGT--TTCCCCCTCC----AAAACATCATCAGTTA-----TTTTA-----A----------GCAAT--TGGGA-ATTAA--------TT-----TATCTTAAG-A-T--TAAT-TTTCTC---AGTAATAT-TT-AACTCTCA---ATAGACTAAAATGCGATAAAC-TGT-AAC--AGC-TGACT---GA--A-TAGCTTCTTTG-----CAGCATTCTAAAGGTGATTCAGTTCGCACTA-------GCGTGAGCTTCTTGCTTTAC-TACAGACATGGTA--CGTCTTTT----TT---ATGTAAACTTGTAATC-TTTGAC----AA-CATGTTCTG-CTGAACAATA--AT-AAA----AATGCTATA-A-----TTTCT--CTCC-CTACT-ATGTA----------------A-GATTGA--AAATGTCATC-------GC-AC---ATA-TT-AACGTGTAGTAT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CAA--------AATA----------TCG-CG-----------AAG----TCTCGCCGA---GCAGTGTGTAGCCt
gi|4 : cagtacacttaaatctaaatccgcccactggctaatccatattttcaatAAAACATCATCAGAAAGATAATTATATTTTTA--------A-ACAAT--TGAGA-ATTAA--------TT-AATTTATCATAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTCA---ACAGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACTAGAGTAGA-TAGCTTCATTC-----CAGCATTCGAACGGTGATTCCGTTCGAACTAGCT-TTAGCTTCA--TTCATGCTTTAC-CACAGACATGGTA--CGCCTTTT----TTTTAATGTAAACTTGTAATCTTTTGAC----AATCAGGTTTTGAATTTACGTTATTCTTAAA----AATGCTAAATACGCTTCTTCT--CTTCGCTACTCATGTATATTTTCCGTCGTGCAACGATCGATCAAACGTTATCTTCGGGAGCGAC---ATG-TTAAACGTGTG--AT----------TGGAGTCCA-TAGTATTGAATTGATCTCCCGAGAAACCGATCTATTTCAATT----------TCGCCGCCGAGTCGTGTAAGCTTCTCTTGCCGAGGCGCACTGTGTAGCCC
gi|5 : tccCTGT-CCACA-A-GAG-GGCGGGG-------------TGT--A--CTAGTGCATAGT----GCTCACGGCGTACATGT--T-CCCCCTCTTGATAAAACGTCATCAGAGA-----TTATA-----A--------A-----TAGTTGGACATTAA--------TT-----TATC--AAA-A-T--TAAT-TTTCTC---AGTAATAT-TTTACCTCTCA---ACGAATTAAAATGCCATATAC-CGT-AAC--AGC-TAACT---GT--A-TAGCTTCATTC-----CATCACTCGAACG--------GTTCGAACTATAT-GTAGCTTGAGCTTCATGCTTTAC-CACAGACATAGTA--CGCCTTTT----TA---ACGTAA----GTAAT------GC-----------------ATGAA-GTTA--CTTAAAATCCAGTGCTAAA-A------TTCT--
gi|5 : -TT-AACGTGTG--ATTGGCACTGATT-GCGT-CA-T-GT-TTG--TTGATCC-CC-AGAAG-CGA--------AATC----------TCG-Ctaacgtgtgattggcactgattgcgtcatgtttgttgatccccagaagcgaaatctcgca
gi|6 : ctgtccacaagagggcggggtgtactagtgcatagtgctcacggcgtacatgttccccctcttgataaaacgtcatcagagattataaatagttggacattaatttatcaaaattaattttctcagtaatattttacctctcaacgaattaaaatgccatataccgtaacagctaactgtatagcttcattccatcactcgaacggttcgaactatatgtagcttgagcttcatgctttaccacagacatagtacgcctttttaacgtaagtaatgcatgaagttacttaaaatccagtgctaaaattc-A-T--TAAA-TTTCTC---AGTAATAT-TTTCGCTCTCA---ACAGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACT---GG--A-TAGCTTCATTCTAGGACAGCATTCGAACGGTGATTCCGTTCGAACTACATTGTAGCTTGAGCTTCATTC-----------ACATGGTA--CGCCTTTTTTTTTT---ACGTAAATTTGTAATC-TTTGAC----AA-CAGGTTTTG-ATGAACAGTA--ATTAAA----AATGCTAAA-A-----CTTCT--CTTC-TTACT-ATGTATA--TTCCGT-GTGCAT-GATCGA--AAACGTTATC-------GC-AC---ATG-TT-AGCGTGTG--AT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATCTCGCGCCGAGTCG-CG-----------AAG----TCTCGCCGA---GCACTGTGTAGCCCTa
gi|7 : CTGT-CCACA-A-GAG-GGCGGGG-------------TGT--A--CTAGTG-----------------GCGTACATGT--TCCCCCCTCTTGATAAAACGTCATCAGAGA-----TTATA-----A--------A-----TAGTTGGACATTAA--------TT-----TATC--AAA-A-T--TAAT-TTTCTC---AGTAATAT-TTTACCTCTCA---ACGAATTAAAATGCCATATACGCGTAAAC--AGC-TAACT---GT--A-TAGCTTCATTC-----CATCACTCGAACG--------GTTCGAACTATAT-GTAGCTTGAGC-TCATGCTTTAC-CACAGACATAGTA--CGCCTTTT----TA---ACGTAA----GTAAT------GC-----------------ATGAA-GTTA--CTTAAATCC-AGTGCTAAA-A------TTCT--a
gi|7 : -TT-AACGTGTG--ATTGGCACTGATT-GCGT-CA-T-GT-TTG--TTGATCC-CC-AGAAG-CGA--------AATC----------TCG-Ctaacgtgtgattggcactgattgcgtcatgtttgttgatccccagaagcgaaatctcgcag
gi|8 : ctgtccacaagagggcggggtgtactagtggcgtacatgttcccccctcttgataaaacgtcatcagagattataaatagttggacattaatttatcaaaattaattttctcagtaatattttacctctcaacgaattaaaatgccatatacgcgtaaacagctaactgtatagcttcattccatcactcgaacggttcgaactatatgtagcttgagctcatgctttaccacagacatagtacgcctttttaacgtaagtaatgcatgaagttacttaaatccagtgctaaaattcGT--TTTCCGCTC----TAAAAC-T--TCAGATA-----TTTTA-----A----------GCAAT---GGGA-ATAAAAAAAAAAATT---CTTAT---AAG-A-TGTTAAT-TCTTT-------ATTAT-TCTGCCTTTTATTAAGGGAATAAAATTC-ACATAC-CGT-TGTTTAGCGTGCCT---TT--A-TAGCTTTAGTC-----CAG--TT------GTGG--------AAACT----------TTGAGGTTCATGCTTTACACAAAGACATGGTA--TTTTCTTA----TT---ACGCCAA---GTAGTC-TTT--CCATGAA-CAG--TTAA-ATTAA-GAT---GTTGAT----AA-GCTAAG-A-----TTTTTTGTTTC-C-----ATGTATag
gi|9 : AATGTTG-CAAAAGTATTCAAA-TGA-----AA----CATTATGCTC-----ATTACCA----ATGCTTCGTTTTCTACATCTCGTGGA-CTTCAAAATT-T-AATCGGGTAATTTAGATGCTTTA-TTAA----AGGGTGGTGCT--C-AGTGA-TCTACCATCAAGAGCTTA--CCTG-TTTTTGTTGACAATTCT----GTTCCC-TGCCCAGT-GCA----AG-GAA--TAG--CTATTCTATA--------------------GTTTTGATTTATTAAGGAGGGGCTTCAT-ATCTTGCATTGGTGATTGTTTGA-CATCTgaaagtgtaaatgtgacagccgtctggcatgtaaggtctgccggaaacgattttgccaaagtctcaacgaaagtgtgca
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|16 ): TGTAAGTTATATAGATGATGAAAATACGTCACCACAAAGTCCAATATATACATCAGTGCTTTGTTAATGTAGCC
Alignments
lowQualScore : 11 1 1 66666666666 33333 888888888888888888 1 1 3333 1 2222 22222 1 11 1 33333 11 1 22222 1 11 111 777777777777777777777 111 1 1 1 111 111 1 11 77777777777777777777777777777 1 1 1111 11111 11 1 11 11 22222 1111111 111 333333 4444444444444 111 4444444444444 44444444444444444 33333 11111 66666666666666666666666 1 44444444444444444444 111 11111 11111 33333 1111 1111 3333333333333333333333333 1 2222 222222 111 111 11 2222222 111 4444444444444444 1 22222222 2222222222 33333333333 1111 111
lowQualScore : 88 3 3 11111111111 33333 7 666666666666666666 0 3 1 7 3 7 3333 7 3 8888 6 88888 3 88 3 7 88888 1 44 3 99999 3 88 222 3 777777777777777777777 0 555 0 0 0 0 0 777 777 0 33 99999999999999999999999999999 0 0 3 0 7777 8 66666 11 0 3 0 8 8 0 11 8 11 22222 9999999 5 444 333333 8 0000000000000 8 5 222 5 3333333333333 77 77 1 00000000000000000 99 1 55555 7 1 22222 1 00000000000000000000000 0 44444444444444444444 4 4 66 4 777 4 1 888 6 5 5 77 5 000 77 5 44444 4 00000 55555 0 5 66 0000 888 4444 1111111111111111111111111 1 1 888 2222 5 666666 66 6 7 6 222 222 8 11 6666666 8 444 5 5 7777777777777777 5 5 5 5 66 5 1 5 00000000 1111111111 5 11111111111 4444 111
lowQualScore : .. . . ........... ..... . .................. . . . . . . .... . . .... . ..... . .. . . ..... . .. . ..... . .. ... . ..................... . ... . . . . . ... ... . .. ............................. . . . . .... . ..... .. . . . . . . .. . .. ..... ....... . ... ...... . ............. . . ... . ............. .. .. . ................. .. . ..... . . ..... . ....................... . .................... . . .. . ... . . ... . . . .. . ... .. . ..... . ..... ..... . . .. .... ... .... ......................... . . ... .... . ...... .. . . . ... ... . .. ....... . ... . . ................ . . . . .. . . . ........ .......... . ........... .... ...
lowQualScore : 00 3 3 77777777777 33333 3 000000000000000000 7 3 0 3 3 3 0000 3 3 3333 7 33333 3 33 3 3 00000 0 77 3 00000 3 33 333 7 777777777777777777777 8 222 2 2 0 0 0 555 555 0 88 55555555555555555555555555555 8 8 2 6 0000 0 66666 00 0 2 8 0 0 6 00 0 00 22222 0000000 6 000 222222 0 0000000000000 0 7 444 7 6666666666666 99 99 4 22222222222222222 22 7 00000 6 0 55555 0 11111111111111111111111 0 44444444444444444444 4 4 11 4 888 4 9 888 6 7 7 99 7 000 99 7 33333 3 99999 55555 1 0 99 6666 888 1111 0000000000000000000000000 4 0 999 1111 0 000000 99 7 3 7 000 888 0 00 0000000 0 000 0 0 8888888888888888 0 0 0 0 99 7 4 7 77777777 9999999999 0 77777777777 2222 777
consensus : NNNNGTACTTTTTCAATGTAG-CAAAAATATTCAAA-TGAC----AA----CATTAAGCTC-----ATTACCA----AT-----------TACATCTCGTGTA-CTTCANAATT-TAAATCGAGTAA--TAGATGCTTTC-TTAA----AGGGTGGTGCT--CAAGTGA-TCTACCATCAAGTGCTAA--CCTG-TTTTTGTTGACAATTCT---AGTTCNCTTGTCCAGT-GCG----AG-GAA--TAGCTCTATTCCATATT-------TAAT------NTTTTTGATTTATTAAGGAGGGGCTTCATAATCTTGCACCGATGGTTGTTTGA-CATCTGAT-TTCA-AGA---TA---TTCCT-AC--ATCTAA----------AAT------GAA-TAC-T-ATTTTTGAATAGTAGTAATTC----CT-AATTTTC--TATAATTA--TGAAATTTTCAATACATGTAATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACATTTG--T--AAAAAGAAATACAT---A---TCTTTCACCATGATAAATCAGAGTA---TA----TACCTTTATTT-ATAAATATC-AATAAAATA-T-TAAGA-ACTGT-CCACA-N-GAG-GGGGGGGGGGGGTA------TGT--A--CTAGTG--TACT----GGT----GCGTACATGT--TTCCCCCTCC-GATAAAACGTCATCAGANA-----TTNTA-----A--------A-GCAATAGTGGGA-ATTAA--------TT-A-TTTATCTTAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTCA---ACGGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACT---GT--A-TAGCTTCATTC-----CAGCATTCGAACGGTGATTCCGTTCGAACTACAT-GTAGCTTGAGCTTCATGCTTTAC-CACAGACATGGTA--CGCCTTTT----TT---ACGTAAACTTGTAATC-TTTGAC----AA-CAGGTTTTG-ATGAACGNTA--NTTAAA----AATGCTAAA-A-----CTTCT--CTTC-CTACT-ATGTATA--TTCCNT-GTGCAA-GATCGA--AAACGTTATC-------GC-AC---ATG-TT-AACGTGTG--AT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATC----------TCG-CG-----------AAG----TCTCGCCGA---GCACTGTGTAGCCCT
Reference ( family-1142 ) : NNNNGTACTTTTTCAATGTAG-CAAAAATATTCAAA-TGAC----AA----CATTAAGCTC-----ATTACCA----AT-----------TACATCTCGTGTA-CTTCANAATT-TAAATCGAGTAA--TAGATGCTTTC-TTAA----AGGGTGGTGCT--CAAGTGA-TCTACCATCAAGTGCTAA--CCTG-TTTTTGTTGACAATTCT---AGTTCNCTTGTCCAGT-GCG----AG-GAA--TAGCTCTATTCCATATT-------TAAT------NTTTTTGATTTATTAAGGAGGGGCTTCATAATCTTGCACCGATGGTTGTTTGA-CATCTGAT-TTCA-AGA---TA---TTCCT-AC--ATCTAA----------AAT------GAA-TAC-T-ATTTTTGAATAGTAGTAATTC----CT-AATTTTC--TATAATTA--TGAAATTTTCAATACATGTAATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACATTTG--T--AAAAAGAAATACAT---A---TCTTTCACCATGATAAATCAGAGTA---TA----TACCTTTATTT-ATAAATATC-AATAAAATA-T-TAAGA-ACTGT-CCACA-N-GAG-GGGGGGGGGGGGTA------TGT--A--CTAGTG--TACT----GGT----GCGTACATGT--TTCCCCCTCC-GATAAAACGTCATCAGANA-----TTNTA-----A--------A-GCAATAGTGGGA-ATTAA--------TT-A-TTTATCTTAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTCA---ACGGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACT---GT--A-TAGCTTCATTC-----CAGCATTCGAACGGTGATTCCGTTCGAACTACAT-GTAGCTTGAGCTTCATGCTTTAC-CACAGACATGGTA--CGCCTTTT----TT---ACGTAAACTTGTAATC-TTTGAC----AA-CAGGTTTTG-ATGAACGNTA--NTTAAA----AATGCTAAA-A-----CTTCT--CTTC-CTACT-ATGTATA--TTCCNT-GTGCAA-GATCGA--AAACGTTATC-------GC-AC---ATG-TT-AACGTGTG--AT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATC----------TCG-CG-----------AAG----TCTCGCCGA---GCACTGTGTAGCCCT
gi|1 : GTATTTTT---ATGTAG-GAAAAATATTCAAA-TGAC----A-----CATTAAGGTC-----ATTACCA----AT-------------CATTTCATGTA-CTTCATA-CT-TAAATCAAGTAA--T-GATGCATTC-TTAA----AGG-TGGTGCT--TA--TGA-TCTACCATCAAGTGCTAA--CCTG-TTTTTGT-GACAATTCTGACAGCTCACT-GTCCAGT-GCA----AG-GAA--TAGCT--------TATT-------TAAT------GCTTTTGATTTATTCAGAAGGAACGT-ATAATCTTGCATTAATGGTTGTTTGA-CATCTGAT-TTCA-AGA---TA---TTCCT-AC--ATCTAA-----------------------TAC-TTATTTGTGAATAGTAG-AATTC----CT-GATTTTC--TATAATTG--TGAAATTTTCAATA---ATAATAGT-AA-TTGTAT--TGCTTAG-TAAACA--AATATAACATTTG--T--AAAAAGAAATACAT---A---TCGTTCACCAAGATAAATCAGAGTA---TACATGTACCTTTATTT-ATAAATGTC-AATAAAATATT-TAAGA-ACTGT-CCACA-A-GAATGGGGGGGGGGGATA------TGT--A--TT-GCG--TACT----AGT----ACATACATGT--TTTTCCCTCC----AAAACATCATCAGAAA-----TAAAA-----AAAGAAAAGA-GAGAGAGAGAGA-ATTAA--------TTAA-TTCATATTAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTAA---ACGGACTAAAAAGCAACATAC-CGT-AAC--AGC-TGACT---GT--AGTTGCTTCATCC-----TAGCATTCGAACGGTGATTCCGTCCGAACTA-----TAGCTTGAGCTTCATGCTTT-----------TAATATTCACCTTTT----TT---ACGTAAACTTGTAATC-TTTCAC----AA-CAGGCTCTG-ATGAACAATA--TTTCAA----AATGCTAAA-A-----TTTAT--CTTC-CTGCT-ATGTATA--TTCCCT-GTGCAA-GATCGA--AAACGTTATC-------GC-AC---ATG-TC-AACGTATG--AT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATC----------TCG-CG-----------AAG----TCTCGCCGG---ACACTGTGTAGCCCT
gi|10 : atatGAT-TTCA-AGA---TA---TTCCT-AC--GTCTAATATTTATTGAAAT------GAAATAC---ATTTT-GAATAGTAG-AATTC----CT-AATTTTC--CATGATTA--TGAGGTTTTCAATA-AT-TA-TAGT-AA-TTGTAA--TGCTTAG-TAAACA--AATATAACATTTG--CAAAAAAAGAAATACATATAA---TCTTTCATCATGATAAATCACAGTA---TA----T--CTTTATTT-ATAGATATC-------------TAAGA-ACTGT-CCACA-T---G-GGAGGGGTGGGGTA------TAC--A--C--GTG--TA
gi|11 : cAAATACAT---ACAATCTTTCACCATGATATATCAAAGTT---TA----T--CTTTATTT-ATAGATATC-------------TAAGA-ACTGT-TCACA-T-GAA-AGGTTGG------A------TGT--A--CTAGTG--TAC
gi|12 : CTAAA-AT----CTTCT--CTTC-C-AAT-ATGGTTA--ATCCCA-GTGCAA-ATTCAA--ACGCGTTATC-------GC-ACTCTATACTT-ATCGTGTG--A-----------T-GCGT-CGTT-GA-TTA--TTGctaaaggtagaggaggacacaaacc
gi|13 : caaatttcgaca-ATTTTTGAATA-TAGTAATTC----CT-AATTTTC--GA-AATTA--TGAAATTTTCAATACATGTGATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACGT
gi|14 : cAGCTA-----TTTTA-----A----------GCAAT--TGGGA-ATTAA--------TT-G----ATCTTAAG-A-T--TAAT-TTTCTC---AATAATAT-TTTAACTCTCA---ACAGACTAAAATGC
gi|15 : -TT-ATCTTGTGGAAT-------------CGG-CA-T-GT-TTG--TTGATCT-CC-AGAAA-CGA--------AATA----------CCG-CG-----------AAG----TCTCATCGA---ACAGTGTGTAGCC
gi|17 : TGCTTTTATTCGAACTAC-------CTTGAGTTTCATGGTTTAC-CACAGACAGAGTA--CGCCTTGT----TT---Atgta
gi|18 : aagtT------ATTTTTGATTTATTGAGGAGGGGCTTCAT-ATCTTGCAtagttg
gi|19 : ATC----------TCG-TG-----------AAG----TCTCGCCGG---ACACTGTGTAGCCCTttg
gi|2 : GTACTTTTTCAATGTAGCCAAACATATTCAAACTGACTATGAATGTTCATTGAGCCCACATGATT--CATTTTAC-----------TACATCTCATGTACCTCCACAATTGTAAATTGAGCAA---AG-TGCTTTCTTTAAAATTAAGGTGTTGCTTGCAAGTGACTCTACCATCATGTGCTAAACCTTGTTTTTTATTGACAATTC----AGTTTTCTTGTCCAGTCGCGCCACAGCGCAGTTAGCTCTATTCCATATTCCTAAGCTAATTCCATATTTTTTGACTTATTAAGAAGGGGATTC-CAAACGTGCACCCATTCGTGTTTGACCATCTGATATTCACAGATCTTAATCTTCCTCACCAATCTAA----------AATACAATGAAA-TACAT-AATTTTG-ATAATAGTAGATCTACGCTCAATGTTCTTTAAAATTACCTAAAATTTTCAATACATGTAATAGTCAATTTTTAATTTGCTTAGTTACACAACAATATAACATTTGTTT--AAAAAGAAATACAT---A---TC-TTAACCATGATAAATCAGAATAATCTA----TACCTTTATTTAATAAATATCAAATAAAATA-T-TACAATACTGTATCACATT-GAA-GAGGGGAGGGGGTGCCCATCTGT--AACTTAGTG----CTAAAAGGT----GCATACATGTGATTTCCCCTTC-AACAA----TCACAAGATA-----TTTTA-----A--------ACGAAAT--TGGGA-TCTAAT-------TT-A-TTT---CTAAGCATT--TAATCTTTCTCCCGAGCAA-ATATTTAGC-CTCa
gi|3 : tgtaagtaatatatacatgatacaaatacaccatcataaagttacatgtcGACTTCA-AATCTTGCACCGATGGTGCTTTGA-CATCTGAT-TTCA-AGA---TA---TTCAT-AC--ATCTAA----------AAT------GAA-TAC---ATTTTTGAATA-TAGTAATTC----CT-AATTTTC--TA-AATTA--TGAAATTTTCAATACATGTAATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACATTTG--T--AAAAAGAAATATCC---A---TCTTTAATCATGATAAATCAGAGTA---TA------CCTTTATTT-ATAAATATC-AATAAAATA-TATAAGA-ACTGT-TTACA-TTGAG-AGGGGAGGGGTGCA------TGTGTA--TTAATG--CACA----GGT----ACATACATGT--TTCCCCCTCC----AAAACATCATCAGTTA-----TTTTA-----A----------GCAAT--TGGGA-ATTAA--------TT-----TATCTTAAG-A-T--TAAT-TTTCTC---AGTAATAT-TT-AACTCTCA---ATAGACTAAAATGCGATAAAC-TGT-AAC--AGC-TGACT---GA--A-TAGCTTCTTTG-----CAGCATTCTAAAGGTGATTCAGTTCGCACTA-------GCGTGAGCTTCTTGCTTTAC-TACAGACATGGTA--CGTCTTTT----TT---ATGTAAACTTGTAATC-TTTGAC----AA-CATGTTCTG-CTGAACAATA--AT-AAA----AATGCTATA-A-----TTTCT--CTCC-CTACT-ATGTA----------------A-GATTGA--AAATGTCATC-------GC-AC---ATA-TT-AACGTGTAGTAT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CAA--------AATA----------TCG-CG-----------AAG----TCTCGCCGA---GCAGTGTGTAGCCt
gi|4 : cagtacacttaaatctaaatccgcccactggctaatccatattttcaatAAAACATCATCAGAAAGATAATTATATTTTTA--------A-ACAAT--TGAGA-ATTAA--------TT-AATTTATCATAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTCA---ACAGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACTAGAGTAGA-TAGCTTCATTC-----CAGCATTCGAACGGTGATTCCGTTCGAACTAGCT-TTAGCTTCA--TTCATGCTTTAC-CACAGACATGGTA--CGCCTTTT----TTTTAATGTAAACTTGTAATCTTTTGAC----AATCAGGTTTTGAATTTACGTTATTCTTAAA----AATGCTAAATACGCTTCTTCT--CTTCGCTACTCATGTATATTTTCCGTCGTGCAACGATCGATCAAACGTTATCTTCGGGAGCGAC---ATG-TTAAACGTGTG--AT----------TGGAGTCCA-TAGTATTGAATTGATCTCCCGAGAAACCGATCTATTTCAATT----------TCGCCGCCGAGTCGTGTAAGCTTCTCTTGCCGAGGCGCACTGTGTAGCCC
gi|5 : tccCTGT-CCACA-A-GAG-GGCGGGG-------------TGT--A--CTAGTGCATAGT----GCTCACGGCGTACATGT--T-CCCCCTCTTGATAAAACGTCATCAGAGA-----TTATA-----A--------A-----TAGTTGGACATTAA--------TT-----TATC--AAA-A-T--TAAT-TTTCTC---AGTAATAT-TTTACCTCTCA---ACGAATTAAAATGCCATATAC-CGT-AAC--AGC-TAACT---GT--A-TAGCTTCATTC-----CATCACTCGAACG--------GTTCGAACTATAT-GTAGCTTGAGCTTCATGCTTTAC-CACAGACATAGTA--CGCCTTTT----TA---ACGTAA----GTAAT------GC-----------------ATGAA-GTTA--CTTAAAATCCAGTGCTAAA-A------TTCT--
gi|5 : -TT-AACGTGTG--ATTGGCACTGATT-GCGT-CA-T-GT-TTG--TTGATCC-CC-AGAAG-CGA--------AATC----------TCG-Ctaacgtgtgattggcactgattgcgtcatgtttgttgatccccagaagcgaaatctcgca
gi|6 : ctgtccacaagagggcggggtgtactagtgcatagtgctcacggcgtacatgttccccctcttgataaaacgtcatcagagattataaatagttggacattaatttatcaaaattaattttctcagtaatattttacctctcaacgaattaaaatgccatataccgtaacagctaactgtatagcttcattccatcactcgaacggttcgaactatatgtagcttgagcttcatgctttaccacagacatagtacgcctttttaacgtaagtaatgcatgaagttacttaaaatccagtgctaaaattc-A-T--TAAA-TTTCTC---AGTAATAT-TTTCGCTCTCA---ACAGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACT---GG--A-TAGCTTCATTCTAGGACAGCATTCGAACGGTGATTCCGTTCGAACTACATTGTAGCTTGAGCTTCATTC-----------ACATGGTA--CGCCTTTTTTTTTT---ACGTAAATTTGTAATC-TTTGAC----AA-CAGGTTTTG-ATGAACAGTA--ATTAAA----AATGCTAAA-A-----CTTCT--CTTC-TTACT-ATGTATA--TTCCGT-GTGCAT-GATCGA--AAACGTTATC-------GC-AC---ATG-TT-AGCGTGTG--AT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATCTCGCGCCGAGTCG-CG-----------AAG----TCTCGCCGA---GCACTGTGTAGCCCTa
gi|7 : CTGT-CCACA-A-GAG-GGCGGGG-------------TGT--A--CTAGTG-----------------GCGTACATGT--TCCCCCCTCTTGATAAAACGTCATCAGAGA-----TTATA-----A--------A-----TAGTTGGACATTAA--------TT-----TATC--AAA-A-T--TAAT-TTTCTC---AGTAATAT-TTTACCTCTCA---ACGAATTAAAATGCCATATACGCGTAAAC--AGC-TAACT---GT--A-TAGCTTCATTC-----CATCACTCGAACG--------GTTCGAACTATAT-GTAGCTTGAGC-TCATGCTTTAC-CACAGACATAGTA--CGCCTTTT----TA---ACGTAA----GTAAT------GC-----------------ATGAA-GTTA--CTTAAATCC-AGTGCTAAA-A------TTCT--a
gi|7 : -TT-AACGTGTG--ATTGGCACTGATT-GCGT-CA-T-GT-TTG--TTGATCC-CC-AGAAG-CGA--------AATC----------TCG-Ctaacgtgtgattggcactgattgcgtcatgtttgttgatccccagaagcgaaatctcgcag
gi|8 : ctgtccacaagagggcggggtgtactagtggcgtacatgttcccccctcttgataaaacgtcatcagagattataaatagttggacattaatttatcaaaattaattttctcagtaatattttacctctcaacgaattaaaatgccatatacgcgtaaacagctaactgtatagcttcattccatcactcgaacggttcgaactatatgtagcttgagctcatgctttaccacagacatagtacgcctttttaacgtaagtaatgcatgaagttacttaaatccagtgctaaaattcGT--TTTCCGCTC----TAAAAC-T--TCAGATA-----TTTTA-----A----------GCAAT---GGGA-ATAAAAAAAAAAATT---CTTAT---AAG-A-TGTTAAT-TCTTT-------ATTAT-TCTGCCTTTTATTAAGGGAATAAAATTC-ACATAC-CGT-TGTTTAGCGTGCCT---TT--A-TAGCTTTAGTC-----CAG--TT------GTGG--------AAACT----------TTGAGGTTCATGCTTTACACAAAGACATGGTA--TTTTCTTA----TT---ACGCCAA---GTAGTC-TTT--CCATGAA-CAG--TTAA-ATTAA-GAT---GTTGAT----AA-GCTAAG-A-----TTTTTTGTTTC-C-----ATGTATag
gi|9 : AATGTTG-CAAAAGTATTCAAA-TGA-----AA----CATTATGCTC-----ATTACCA----ATGCTTCGTTTTCTACATCTCGTGGA-CTTCAAAATT-T-AATCGGGTAATTTAGATGCTTTA-TTAA----AGGGTGGTGCT--C-AGTGA-TCTACCATCAAGAGCTTA--CCTG-TTTTTGTTGACAATTCT----GTTCCC-TGCCCAGT-GCA----AG-GAA--TAG--CTATTCTATA--------------------GTTTTGATTTATTAAGGAGGGGCTTCAT-ATCTTGCATTGGTGATTGTTTGA-CATCTgaaagtgtaaatgtgacagccgtctggcatgtaaggtctgccggaaacgattttgccaaagtctcaacgaaagtgtgca
blockSeqs : TC C C CTATGAATGTT ACATG A ATGCTTCGTTTTCT C C A G A TTTA A T AATT G TGCAA C AC T T A T TT C GCCAC C GT CTC C TTCCTAAGCTAATTCCATATT AT C A C TCT ATC C CA TATTTATTGAAATGAAATAC G T TACG C TTTAA CC C G C T TT T AC CAA ATAA T ATC TA A AAATAAAATAT T A TT . GGGGGTGCCCATC GT AC A CATAGTGCTCACG GA T TTGAT A T GATAA T TTTTTAAACAAT C AAAAAAAATTCTTAT C T GT C CCG A A TTA G G A TT G AGA AG . TAGGA G CTTTT CATTG A . TTTT TTA ACTT CTTTTGACAATCAGGTTTTGA C A TTC ATCC T CGCTTC TG G T C TTT GTC C TC TTCGGGA G TCT C A ATTGGCACTGATT C T A A AA C G C TCTATTTC TCGCGCCGAG C CCGAGTCGTGT CTTC GGC
blockSeqs : . . AA . . TTTTACT . A A . . A . . . G CA . . . T T C T . A . . C T G CA . . . . . . . AATACAATGAAATACAT A T . . CAT . C G . . . . . TTT ACAA T . T . AATAAAATATA . . TT . TGGGGTA . . A CTAAAAGGT . T TTGAT A T . T AACGAAAT C TTAATTTATCA . . . . . . G . G . . . . . . . . G ATTCA GCTT . . . . ACTT CTTTGACAACATGTTCTG C T A TCC . TC . . T . A CA . . . . . . . ATTGGCACTGATT . . . . . . G . . . . . . .
blockSeqs : AA . . . . . . . AATGAATAC . T . . GA . C G . . . . . T A T . T . . . . T . GGGTGCA . . A CACAGGT . C CAAC G T . T AGCAAT . TTTATTTC . . . . . . A . C . . . . . . . . G ATTCC TATG . . . . ATTT CTTTGACAACAGGTTTTG C T C . . T . . T . T GT . . . . . . . GTATT . . . . . . G . . . . . . .
blockSeqs : AT . . . . TA . . . . . . . . A . . . . . . . T . A . . A . . T C G A . A AGCAAT . TTGATCT . . . . . . G . G . . . . . . . . G ATTCC TATG . . . . A CTTTCCATGAACAGTTAA . G A . . C . . . . . . . . . . . . . GAAT . . . . . . . . . . . . . .
blockSeqs : . A . . . . A . . T . G . A AGCAAT . TTTATCT . . . . . . C . C . . . . . . . . . G C . . . . . GC . T C . . T . . . . . . ATTG . . . . . . . . . . . . . .
blockSeqs : . A . . . . . . G . A AATAG . TTTATC . . . . . . G . . . . . . . . . . . . . . . . . . GC . A G . . . . . . ATT . . . . . . . . . . .
blockSeqs : T . T AATAG . TTTATC . . . . . . C . . . . . . . . . . . . AT . . . . . . .
blockSeqs : . . . . . . C
blockSeqCons : AN* NA*** A****** T***** CAAGGC*********** AACAAT***************** TTTATCT************* CT*** ** ATAT************
originalCons : NNNNGTACTTTTTCAATGTAG-CAAAAATATTCAAA-TGAC----AA----CATTAAGCTC-----ATTACCA----AT-----------TACATCTCGTGTA-CTTCANAATT-TAAATCGAGTAA--TAGATGCTTTC-TTAA----AGGGTGGTGCT--CAAGTGA-TCTACCATCAAGTGCTAA--CCTG-TTTTTGTTGACAATTCT---AGTTCNCTTGTCCAGT-GCG----AG-GAA--TAGCTCTATTCCATATT-------TAAT------NTTTTTGATTTATTAAGGAGGGGCTTCATAATCTTGCACCGATGGTTGTTTGA-CATCTGAT-TTCA-AGA---TA---TTCCT-AC--ATCTAA----------AAT------GAA-TAC-T-ATTTTTGAATAGTAGTAATTC----CT-AATTTTC--TATAATTA--TGAAATTTTCAATACATGTAATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACATTTG--T--AAAAAGAAATACAT---A---TCTTTCACCATGATAAATCAGAGTA---TA----TACCTTTATTT-ATAAATATC-AATAAAATA-T-TAAGA-ACTGT-CCACA-N-GAG-GGGGGGGGGGGGTA------TGT--A--CTAGTG--TACT----GGT----GCGTACATGT--TTCCCCCTCC-GATAAAACGTCATCAGANA-----TTNTA-----A--------A-GCAATAGTGGGA-ATTAA--------TT-A-TTTATCTTAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTCA---ACGGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACT---GT--A-TAGCTTCATTC-----CAGCATTCGAACGGTGATTCCGTTCGAACTACAT-GTAGCTTGAGCTTCATGCTTTAC-CACAGACATGGTA--CGCCTTTT----TT---ACGTAAACTTGTAATC-TTTGAC----AA-CAGGTTTTG-ATGAACGNTA--NTTAAA----AATGCTAAA-A-----CTTCT--CTTC-CTACT-ATGTATA--TTCCNT-GTGCAA-GATCGA--AAACGTTATC-------GC-AC---ATG-TT-AACGTGTG--AT----------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATC----------TCG-CG-----------AAG----TCTCGCCGA---GCACTGTGTAGCCCT
finalCons : NNNNGTACTTTTTCAATGTAG-CAAAAATATTCAAA-TGAC----AA----CATTAAGCTC-----ATTACCA----AT-----------TACATCTCGTGTA-CTTCANAATT-TAAATCGAGTAA--TAGATGCTTTC-TTAA----AGGGTGGTGCT--CAAGTGA-TCTACCATCAAGTGCTAA--CCTG-TTTTTGTTGACAATTCT---AGTTCNCTTGTCCAGT-GCG----AG-GAA--TAGCTCTATTCCATATT-------TAAT------NTTTTTGATTTATTAAGGAGGGGCTTCAN-ATCTTGCACCGATGGTTGTTTGA-CATCTGAT-TTCA-AGA---TA---TTCCT-AC--ATCTAA----------AAT------GAA-TAC-T-ATTTTTGAATAGTAGTAATTC----CT-AATTTTCNA---AATTA--TGAAATTTTCAATACATGTAATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACATTTG--T--AAAAAGAAATACATA------TCTTTCACCATGATAAATCAGAGTA---TAT-----CCTTTATTT-ATAAATATC-AATAAAATA-T-TAAGA-ACTGT-CCACA-N-GAG-GGGGGGGGGGGGTA------TGT--A--CTAGTGCAAGGC-----------GCGTACATGT--TTCCCCCTCC-GATAAAACGTCATCAGANA-----TTNTAAACAAT-----------------TGGGA-ATTAATTTATCT-------------TAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTCA---ACGGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACT---GT--A-TAGCTTCATTC-----CAGCATTCGAACGGTGATTCCGTTCGAACTACT---TAGCTTGAGCTTCATGCTTTAC-CACAGACATGGTA--CGCCTTTT----TT---ACGTAAACTTGTAATC-TTTGAC----AA-CAGGTTTTG-ATGAACGNTA--NTTAAA----AATGCTAAA-A-----CTTCT--CTTC-CTACT-ATGTATA--TTCCNT-GTGCAA-GATCGA--AAACGTTATC-------GC-AC---ATG-TT-AACGTGTGATAT------------GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATC----------TCG-CG-----------AAG----TCTCGCCGA---GCACTGTGTAGCCCT
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|16 ): TGTAAGTTATATAGATGATGAAAATACGTCACCACAAAGTCCAATATATACATCAGTGCTTTGTTAATGTAGCC
Alignments
lowQualScore : 11 1 1 66666666666 33333 888888888888888888 1 1 3333 1 2222 22222 1 11 1 33333 2 1 22222 1 11 7777777777777777777777777777777 1 1 1 111 111 1 11 77777777777777777777777777777 1 1 1111 222222 11 1 11 11 22222 1111111 111 4444444 4444444444444 111 4444444444444 4444444444444444 33333 22222222222 3333333333333333333333 1111 1111111 11 111 11111 11111 555555555 1111 1111 3333333333333333333333333 1 2222 222222 11111 2222222 111 444444444444 11111111 1111111111 22222222222 1111 111
lowQualScore : 88 3 3 11111111111 33333 7 666666666666666666 0 3 1 7 3 7 3333 7 3 8888 6 88888 3 88 3 7 88888 1 3 3 99999 3 88 2222222222222222222222222222222 0 22 0 0 0 0 0 777 777 0 33 99999999999999999999999999999 0 0 3 0 7777 8 222222 11 0 3 0 8 8 0 11 8 11 22222 9999999 5 444 1111111 8 0000000000000 8 5 222 5 3333333333333 77 77 5 9999999999999999 99 1 55555 7 1 33333333333 1 7777777777777777777777 0000 6666666 44 4 4 66 4 777 4 1 888 6 5 5 77 5 000 77 5 44444 4 22222 000000000 0 5 66 0000 888 4444 1111111111111111111111111 1 1 888 2222 5 666666 6 3 6 44444 999 6 99 1111111 6 111 4 4 1 1 555555555555 4 4 4 4 66 5 8 5 88888888 9999999999 8 77777777777 2222 000 0
lowQualScore : .. . . ........... ..... . .................. . . . . . . .... . . .... . ..... . .. . . ..... . . . ..... . .. ............................... . .. . . . . . ... ... . .. ............................. . . . . .... . ...... .. . . . . . . .. . .. ..... ....... . ... ....... . ............. . . ... . ............. .. .. . ................ .. . ..... . . ........... . ...................... .... ....... .. . . .. . ... . . ... . . . .. . ... .. . ..... . ..... ......... . . .. .... ... .... ......................... . . ... .... . ...... . . . ..... ... . .. ....... . ... . . . . ............ . . . . .. . . . ........ .......... . ........... .... ... .
lowQualScore : 00 3 3 77777777777 33333 3 000000000000000000 7 3 0 3 3 3 0000 3 3 3333 7 33333 3 33 3 3 00000 0 7 3 00000 3 33 0000000000000000000000000000000 8 00 2 2 0 0 0 555 555 0 88 55555555555555555555555555555 8 8 2 6 0000 0 000000 00 0 2 8 0 0 6 00 0 00 22222 0000000 6 000 8888888 0 0000000000000 0 7 444 7 6666666666666 99 99 7 7777777777777777 22 7 00000 6 0 88888888888 0 5555555555555555555555 6666 2222222 88 4 4 11 4 888 4 9 888 6 7 7 99 7 000 99 7 33333 3 00000 555555555 1 0 99 6666 888 1111 0000000000000000000000000 4 0 999 1111 0 000000 7 2 7 88888 333 7 22 7777777 7 777 4 4 1 4 111111111111 4 4 4 4 11 0 8 0 11111111 4444444444 9 11111111111 1111 000 7
consensus : NNNNGTACTTTTTCAATGTAG-CAAAAATATTCAAA-TGAC----AA----CATTAAGCTC-----ATTACCA----AT-----------TACATCTCGTGTA-CTTCANAATT-TAAATCGAGTAAT--AGATGCTTTC-TTAA----AGGGTGGTGCT--CA-GTGA-TCTACCATCAAGTGCTAA--CCTG-TTTTTGTTGACAATTCT---AGTTCNCT-GTCCAGT-GCG----AG-GAA--TAGCT--ATTCCATATT-------TAAT------NTTTTTGATTTATTAAGGAGGGGCTTCAAATCTTGCACCGATGGTTGTTTGA-CATCTGAT-TTCA-AGA---TA---TTCCT-AC--ATCTAA----------AAT------GAA-TAC-T-ATTTTTGAATAGTAGTAATTC----CT-AATTTTC---NATAATTA--TGAAATTTTCAATACATGTAATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACATTTG--T--AAAAAGAAATACAT---A---TCTTTCACCATGATAAATCAGAGTA---TATA----CCTTTATTT-ATAAATATC-AATAAAATA-T-TAAGA-ACTGT-CCACA-N-GAG-GGGGGGGGGGGGTA------TGT--A--CTA-GTGC---A-AG-GT-----GCGTACATGT--TTCCCCCTCC-GATAAAACGTCATCAGANA-----------TTTTAA------------------AC--AATTGGGAATT----AAT-------TTATCT-TAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTCA---ACGGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACT---GT--A-TAGCTTCATTC-----CAGCATTCGAACGGTGATTCCGTTCGAACTA--CA-TGTAGCTTGAGCTTCATGCTTTAC-CACAGACATGGTA--CGCCTTTT----TT---ACGTAAACTTGTAATC-TTTGAC----AA-CAGGTTTTG-ATGAACGNTA--NTTAAA----AATGCTAAA-A-----CTTCTCTTC-CTACT-ATGTATA--TTCCGT-GTGCAA-GATCGA--AAACGTTATC-------GC-AC---ATG-TT-AACGTGTGAT--------AT-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATC----------TCG-CG-----------AAG----TCTCGCCGA---GCACTGTGTAGCCCT
Reference ( family-1142 ) : NNNNGTACTTTTTCAATGTAG-CAAAAATATTCAAA-TGAC----AA----CATTAAGCTC-----ATTACCA----AT-----------TACATCTCGTGTA-CTTCANAATT-TAAATCGAGTAAT--AGATGCTTTC-TTAA----AGGGTGGTGCT--CAAGTGA-TCTACCATCAAGTGCTAA--CCTG-TTTTTGTTGACAATTCT---AGTTCNCTTGTCCAGT-GCG----AG-GAA--TAGCTCTATTCCATATT-------TAAT------NTTTTTGATTTATTAAGGAGGGGCTTCANATCTTGCACCGATGGTTGTTTGA-CATCTGAT-TTCA-AGA---TA---TTCCT-AC--ATCTAA----------AAT------GAA-TAC-T-ATTTTTGAATAGTAGTAATTC----CT-AATTTTC---NA-AATTA--TGAAATTTTCAATACATGTAATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACATTTG--T--AAAAAGAAATACAT---A---TCTTTCACCATGATAAATCAGAGTA---TAT-----CCTTTATTT-ATAAATATC-AATAAAATA-T-TAAGA-ACTGT-CCACA-N-GAG-GGGGGGGGGGGGTA------TGT--A--CTA-GTGC---A-AG-GC-----GCGTACATGT--TTCCCCCTCC-GATAAAACGTCATCAGANA-----------TTNTAA------------------AC--AATTGGGAATT----AAT-------TTATCT-TAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTCA---ACGGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACT---GT--A-TAGCTTCATTC-----CAGCATTCGAACGGTGATTCCGTTCGAACTA--C--T-TAGCTTGAGCTTCATGCTTTAC-CACAGACATGGTA--CGCCTTTT----TT---ACGTAAACTTGTAATC-TTTGAC----AA-CAGGTTTTG-ATGAACGNTA--NTTAAA----AATGCTAAA-A-----CTTCTCTTC-CTACT-ATGTATA--TTCCNT-GTGCAA-GATCGA--AAACGTTATC-------GC-AC---ATG-TT-AACGTGTGAT--------AT-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATC----------TCG-CG-----------AAG----TCTCGCCGA---GCACTGTGTAGCCCT
gi|1 : GTATTTTT---ATGTAG-GAAAAATATTCAAA-TGAC----A-----CATTAAGGTC-----ATTACCA----AT-------------CATTTCATGTA-CTTCATA-CT-TAAATCAAGTAAT---GATGCATTC-TTAA----AGG-TGGTGCT--TA--TGA-TCTACCATCAAGTGCTAA--CCTG-TTTTTGT-GACAATTCTGACAGCTCACT-GTCCAGT-GCA----AG-GAA--TAGCT--------TATT-------TAAT------GCTTTTGATTTATTCAGAAGGAACGTATAATCTTGCATTAATGGTTGTTTGA-CATCTGAT-TTCA-AGA---TA---TTCCT-AC--ATCTAA-----------------------TAC-TTATTTGTGAATAGTAG-AATTC----CT-GATTTTC---TATAATTG--TGAAATTTTCAATA---ATAATAGT-AA-TTGTAT--TGCTTAG-TAAACA--AATATAACATTTG--T--AAAAAGAAATACAT---A---TCGTTCACCAAGATAAATCAGAGTA---TACATGTACCTTTATTT-ATAAATGTC-AATAAAATATT-TAAGA-ACTGT-CCACA-A-GAATGGGGGGGGGGGATA------TGT--A--TTGCGTAC---T-A--GT-----ACATACATGT--TTTTCCCTCC----AAAACATCATCAGAAA-----------TAAAAAAAGAAAAGAGAGAGAGAGAG--AATT---AATT----AAT-------TCATAT-TAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTAA---ACGGACTAAAAAGCAACATAC-CGT-AAC--AGC-TGACT---GT--AGTTGCTTCATCC-----TAGCATTCGAACGGTGATTCCGTCCGAACTA-------TAGCTTGAGCTTCATGCTTT-----------TAATATTCACCTTTT----TT---ACGTAAACTTGTAATC-TTTCAC----AA-CAGGCTCTG-ATGAACAATA--TTTCAA----AATGCTAAA-A-----TTTATCTTC-CTGCT-ATGTATA--TTCCCT-GTGCAA-GATCGA--AAACGTTATC-------GC-AC---ATG-TC-AACGTATGAT---------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATC----------TCG-CG-----------AAG----TCTCGCCGG---ACACTGTGTAGCCCT
gi|10 : atatGAT-TTCA-AGA---TA---TTCCT-AC--GTCTAATATTTATTGAAAT------GAAATAC---ATTTT-GAATAGTAG-AATTC----CT-AATTTTC---CATGATTA--TGAGGTTTTCAATA-AT-TA-TAGT-AA-TTGTAA--TGCTTAG-TAAACA--AATATAACATTTG--CAAAAAAAGAAATACATATAA---TCTTTCATCATGATAAATCACAGTA---TAT------CTTTATTT-ATAGATATC-------------TAAGA-ACTGT-CCACA-T---G-GGAGGGGTGGGGTA------TAC--A--C---GTGT---A-
gi|11 : cAAATACAT---ACAATCTTTCACCATGATATATCAAAGTT---TAT------CTTTATTT-ATAGATATC-------------TAAGA-ACTGT-TCACA-T-GAA-AGGTTGG------A------TGT--A--CTA-GTGT---A-
gi|12 : CTAAA-AT----CTTCTCTTC-C-AAT-ATGGTTA--ATCCCA-GTGCAA-ATTCAA--ACGCGTTATC-------GC-ACTCTATACTT-ATCGTGTG----------AT-GCGT-CGTT-GA-TTA--TTGcctaaaggtagaggaggacacaaacc
gi|13 : caaatttcgaca-ATTTTTGAATA-TAGTAATTC----CT-AATTTTC---GA-AATTA--TGAAATTTTCAATACATGTGATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACGT
gi|14 : cAGCTA-----------TTTTAA------------------GC--AATTGGGAATT----AAT-------TGATCT-TAAG-A-T--TAAT-TTTCTC---AATAATAT-TTTAACTCTCA---ACAGACTAAAATGC
gi|15 : -TT-ATCTTGTGGA--------AT--CGG-CA-T-GT-TTG--TTGATCT-CC-AGAAA-CGA--------AATA----------CCG-CG-----------AAG----TCTCATCGA---ACAGTGTGTAGCC
gi|17 : TGCTTTTATTCGAACTA--C-------CTTGAGTTTCATGGTTTAC-CACAGACAGAGTA--CGCCTTGT----TT---Atgta
gi|18 : aagtT------ATTTTTGATTTATTGAGGAGGGGCTTCATATCTTGCAtagttg
gi|19 : ATC----------TCG-TG-----------AAG----TCTCGCCGG---ACACTGTGTAGCCCTttg
gi|2 : GTACTTTTTCAATGTAGCCAAACATATTCAAACTGACTATGAATGTTCATTGAGCCCACATGATT--CATTTTAC-----------TACATCTCATGTACCTCCACAATTGTAAATTGAGCAA---AG-TGCTTTCTTTAAAATTAAGGTGTTGCTTGCAAGTGACTCTACCATCATGTGCTAAACCTTGTTTTTTATTGACAATTC----AGTTTTCTTGTCCAGTCGCGCCACAGCGCAGTTAGCTCTATTCCATATTCCTAAGCTAATTCCATATTTTTTGACTTATTAAGAAGGGGATTCCAAACGTGCACCCATTCGTGTTTGACCATCTGATATTCACAGATCTTAATCTTCCTCACCAATCTAA----------AATACAATGAAA-TACAT-AATTTTG-ATAATAGTAGATCTACGCTCAATGTTCTTTAA-AATTACCTAAAATTTTCAATACATGTAATAGTCAATTTTTAATTTGCTTAGTTACACAACAATATAACATTTGTTT--AAAAAGAAATACAT---A---TC-TTAACCATGATAAATCAGAATAATCTATA----CCTTTATTTAATAAATATCAAATAAAATA-T-TACAATACTGTATCACATT-GAA-GAGGGGAGGGGGTGCCCATCTGT--AACTTA-GTGCTAAA-AG-GT-----GCATACATGTGATTTCCCCTTC-AACAA----TCACAAGATA-----------TTTTAA------------------ACGAAATTGGGATCT----AAT-------TTATTTCTAAGCATT--TAATCTTTCTCCCGAGCAA-ATATTTAGC-CTCa
gi|3 : tgtaagtaatatatacatgatacaaatacaccatcataaagttacatgtcGACTTCAAATCTTGCACCGATGGTGCTTTGA-CATCTGAT-TTCA-AGA---TA---TTCAT-AC--ATCTAA----------AAT------GAA-TAC---ATTTTTGAATA-TAGTAATTC----CT-AATTTTC---TA-AATTA--TGAAATTTTCAATACATGTAATAGT-AA-TTTTAA--TGCTTAG-TACACA--AATATAACATTTG--T--AAAAAGAAATATCC---A---TCTTTAATCATGATAAATCAGAGTA---TA------CCTTTATTT-ATAAATATC-AATAAAATA-TATAAGA-ACTGT-TTACA-TTGAG-AGGGGAGGGGTGCA------TGTGTA--TTA-ATGC---ACAG-GT-----ACATACATGT--TTCCCCCTCC----AAAACATCATCAGTTA-----------TTTTAA------------------GC--AATTGGGAATT----AAT-------TTATCT-TAAG-A-T--TAAT-TTTCTC---AGTAATAT-TT-AACTCTCA---ATAGACTAAAATGCGATAAAC-TGT-AAC--AGC-TGACT---GA--A-TAGCTTCTTTG-----CAGCATTCTAAAGGTGATTCAGTTCGCACTA---------GCGTGAGCTTCTTGCTTTAC-TACAGACATGGTA--CGTCTTTT----TT---ATGTAAACTTGTAATC-TTTGAC----AA-CATGTTCTG-CTGAACAATA--AT-AAA----AATGCTATA-A-----TTTCTCTCC-CTACT-ATGTA----------------A-GATTGA--AAATGTCATC-------GC-AC---ATA-TT-AACGTGTAGT--------ATTGCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CAA--------AATA----------TCG-CG-----------AAG----TCTCGCCGA---GCAGTGTGTAGCCt
gi|4 : cagtacacttaaatctaaatccgcccactggctaatccatattttcaatAAAACATCATCAGAAAGATAATTATATTTTTAA------------------AC--AATTGAGAATTAATTAAT-------TTATCA-TAAG-A-T--TAAT-TTTCTC---AGTAATAT-TTTAGCTCTCA---ACAGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACTAGAGTAGA-TAGCTTCATTC-----CAGCATTCGAACGGTGATTCCGTTCGAACTAGCT--T-TAGCTTCA--TTCATGCTTTAC-CACAGACATGGTA--CGCCTTTT----TTTTAATGTAAACTTGTAATCTTTTGAC----AATCAGGTTTTGAATTTACGTTATTCTTAAA----AATGCTAAATACGCTTCTTCTCTTCGCTACTCATGTATATTTTCCGTCGTGCAACGATCGATCAAACGTTATCTTCGGGAGCGAC---ATG-TTAAACGTGTGAT--------TG-GAGTCCA-TAGTATTGAATTGATCTCCCGAGAAACCGATCTATTTCAATT----------TCGCCGCCGAGTCGTGTAAGCTTCTCTTGCCGAGGCGCACTGTGTAGCCC
gi|5 : tccCTGT-CCACA-A-GAG-GGCGGGG-------------TGT--A--CTA-GTGC---ATAGTGCTCACGGCGTACATGT--T-CCCCCTCTTGATAAAACGTCATCAGAGA-----------TTATAA------------------AT--AGTTGGACATT----AAT-------TTATC---AAA-A-T--TAAT-TTTCTC---AGTAATAT-TTTACCTCTCA---ACGAATTAAAATGCCATATAC-CGT-AAC--AGC-TAACT---GT--A-TAGCTTCATTC-----CATCACTCGAACG--------GTTCGAACTA--TA-TGTAGCTTGAGCTTCATGCTTTAC-CACAGACATAGTA--CGCCTTTT----TA---ACGTAA----GTAAT------GC-----------------ATGAA-GTTA--CTTAAAATCCAGTGCTAAA-A------TTCT
gi|5 : -TT-AACGTGTGATTGGCACTGATTGCGT-CA-T-GT-TTG--TTGATCC-CC-AGAAG-CGA--------AATC----------TCG-Ctaacgtgtgattggcactgattgcgtcatgtttgttgatccccagaagcgaaatctcgca
gi|6 : ctgtccacaagagggcggggtgtactagtgcatagtgctcacggcgtacatgttccccctcttgataaaacgtcatcagagattataaatagttggacattaatttatcaaaattaattttctcagtaatattttacctctcaacgaattaaaatgccatataccgtaacagctaactgtatagcttcattccatcactcgaacggttcgaactatatgtagcttgagcttcatgctttaccacagacatagtacgcctttttaacgtaagtaatgcatgaagttacttaaaatccagtgctaaaattc-A-T--TAAA-TTTCTC---AGTAATAT-TTTCGCTCTCA---ACAGACTAAAATGCGACATAC-CGT-AAC--AGC-TGACT---GG--A-TAGCTTCATTCTAGGACAGCATTCGAACGGTGATTCCGTTCGAACTA--CATTGTAGCTTGAGCTTCATTC-----------ACATGGTA--CGCCTTTTTTTTTT---ACGTAAATTTGTAATC-TTTGAC----AA-CAGGTTTTG-ATGAACAGTA--ATTAAA----AATGCTAAA-A-----CTTCTCTTC-TTACT-ATGTATA--TTCCGT-GTGCAT-GATCGA--AAACGTTATC-------GC-AC---ATG-TT-AGCGTGTGAT---------T-GCGT-CA-T-GT-TTG--TTGATCT-CCGAGAAA-CGA--------AATCTCGCGCCGAGTCG-CG-----------AAG----TCTCGCCGA---GCACTGTGTAGCCCTa
gi|7 : CTGT-CCACA-A-GAG-GGCGGGG-------------TGT--A--CTA-GTG----------------GCGTACATGT--TCCCCCCTCTTGATAAAACGTCATCAGAGA-----------TTATAA------------------AT--AGTTGGACATT----AAT-------TTATC---AAA-A-T--TAAT-TTTCTC---AGTAATAT-TTTACCTCTCA---ACGAATTAAAATGCCATATACGCGTAAAC--AGC-TAACT---GT--A-TAGCTTCATTC-----CATCACTCGAACG--------GTTCGAACTA--TA-TGTAGCTTGAGC-TCATGCTTTAC-CACAGACATAGTA--CGCCTTTT----TA---ACGTAA----GTAAT------GC-----------------ATGAA-GTTA--CTTAAATCC-AGTGCTAAA-A------TTCTa
gi|7 : -TT-AACGTGTGATTGGCACTGATTGCGT-CA-T-GT-TTG--TTGATCC-CC-AGAAG-CGA--------AATC----------TCG-Ctaacgtgtgattggcactgattgcgtcatgtttgttgatccccagaagcgaaatctcgcag
gi|8 : ctgtccacaagagggcggggtgtactagtggcgtacatgttcccccctcttgataaaacgtcatcagagattataaatagttggacattaatttatcaaaattaattttctcagtaatattttacctctcaacgaattaaaatgccatatacgcgtaaacagctaactgtatagcttcattccatcactcgaacggttcgaactatatgtagcttgagctcatgctttaccacagacatagtacgcctttttaacgtaagtaatgcatgaagttacttaaatccagtgctaaaattcGT--TTTCCGCTC----TAAAAC-T--TCAGATA-----------TTTTAA------------------GC--AAT-GGGAATA----AAAAAAAAAATTCTTA-TAAG-A-TGTTAAT-TCTTT-------ATTAT-TCTGCCTTTTATTAAGGGAATAAAATTC-ACATAC-CGT-TGTTTAGCGTGCCT---TT--A-TAGCTTTAGTC-----CAG--TT------GTG---------GAA--A--C--T-T----TGAGGTTCATGCTTTACACAAAGACATGGTA--TTTTCTTA----TT---ACGCCAA---GTAGTC-TTT--CCATGAA-CAG--TTAA-ATTAA-GAT---GTTGAT----AA-GCTAAG-A-----TTTTT------------TGT-----TTCCAT-GTATGA-AAGTGT--AAATGTGACA-------GC---------------CGTCTGGC--------AT---GT-AA-G-GT-CTG----------CCG-GAAA-CG----------ATT----------TTGCCA-----------AAG----TCTCAACGA---A-AGTGTGCAag
gi|9 : AATGTTG-CAAAAGTATTCAAA-TGA-----AA----CATTATGCTC-----ATTACCA----ATGCTTCGTTTTCTACATCTCGTGGA-CTTCAAAATT-TAA-TCGGGTAATTTAGATGCTTTA-TTAA----AGGGTGGTGCT--CA-GTGA-TCTACCATCAAGAGCTTA--CCTG-TTTTTGTTGACAATTCT----GTTCCCT-GCCCAGT-GCA----AG-GAA--TAGCT--ATTCTATAGT-------T-------------TTGATTTATTAAGGAGGGGCTTCATATCTTGCATTGGTGATTGTTTGA-CATCT
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|16 ): TGTAAGTTATATAGATGATGAAAATACGTCACCACAAAGTCCAATATATACATCAGTGCTTTGTTAATGTAGCC