lowQualScore : 111111111111111111111111111111111111111111111111 3333333333333333333333333333333333333333333333333333333333333333
lowQualScore : 7777777777 11111 2222222 11111 44444444444444 11111111111 1 11111111 333333333 1 1111111 444444444444444444444444444444444444444444444444 1 2222222222 11 11111 1 2222222 111111 1111 22 111 11 2 1 1 2222222222222222222222222222222222222222222222222222222222222222 4 1
lowQualScore : 5 66 7777777777 00000 6666666 3 3 3 00000 22222222222222 66 777 77777777777 1 3 6 6 4 5 3 3 33333333 999999999 9 3 66 6 7 4 4 66 1111111 4 888888888888888888888888888888888888888888888888 777 0 4444444444 4 4 66 4 99 4 00000 5 88 5 0 5 5 1111111 66 888 5 0 444444 1111 5 0 5 55 5 99 5 2 777 3 3 3 1 3 99 6 8888 1 7 5 4 0000000000000000000000000000000000000000000000000000000000000000 6 6 0 5 6
lowQualScore : . .. .......... ..... ....... . . . ..... .............. .. ... ........... . . . . . . . . ........ ......... . . .. . . . . .. ....... . ................................................ ... . .......... . . .. . .. . ..... . .. . . . . ....... .. ... . . ...... .... . . . .. . .. . . ... . . . . . .. . .... . . . . ................................................................ . . . . .
lowQualScore : 0 11 5555555555 00000 5555555 6 6 6 00000 33333333333333 11 000 33333333333 9 6 0 0 6 0 6 6 22222222 555555555 4 6 99 0 0 4 4 11 8888888 7 888888888888888888888888888888888888888888888888 888 2 1111111111 4 4 00 6 22 4 22222 0 44 0 9 7 7 8888888 99 888 0 7 444444 7777 7 6 7 99 0 55 0 5 555 5 2 2 2 2 22 0 5555 2 3 0 0 3333333333333333333333333333333333333333333333333333333333333333 0 0 0 0 0
consensus : CAATACGA-TAATTTGTATAGCGC--A----ACATATACTT-----AAAGTAAAGCTCT----AAT-GCGCTT-GACAAGCATT-GGCAATAAAA-----GAC-----A--TA----CA--AT---ATA-----------AAACAAAAAA-TGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGTA----TTTACAG-TT--AACAGTCAAATG-CT-TGTTT--AA-------AAAGATAAG-------------------------T----------------------AAT---GAATGGGCACTTCTCA-----G-T--TTC-ACG-GG-CAAAGC-GTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGCATGTTAC-A-GTTCTGGTTT----TT-GGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGA---GCGAACG-AGTTGG-GGAGTAAATGTTCACAAGATCACNAA-GGTATTGCG-GAGCTTGATTATTCACTGCTTTGTATACGAAG---ANAAGAATTTTGTATTGGCATCTATATTCTACCGNGAGCCAGTGGAGATCTTTCAAAACTGGGGTAATGTGTTC-TTTTTCNT---CGTTATCACCCTTTCTACTGTT-TGTTA--AATAAGCAAGACATTTGCAT-AGAATTACTGTATTATAGTTAA-GACGTGACA
Reference ( gi|1 ) : CAATACGA-TAATTTGTATAGCGC--ATTATACATGTACTT-----AAAGTAAAGCTTT----CAT-GCGCTT-GACAAGCATT-GGCAATAAAA-----GAC-----A--CA----CA--AT---ATA-----------AAACAAAAAA-TGTAGATTAATAGAATAGAATTAAGTGTATAATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGA---TA----TTCACAG-TT--AACAATCATATG-CT-TGTTT--AA-------AAAGGTAAG-------------------------T----------------------AAT---GAATGGACACTTCTCA-----G-A--TTC-ACG-GT-CAAAGT-GTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTGCGTATGTTAC-A-GTTCTGGTTT----TG-GGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGA---GCGAACA-AGTTGG-AGAGTAAATATTCACAAGATCACTAA-GGTAGCGCG-GAGCTTGATTATTCACTGCTTTGTATACAAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGGTAGCCAATGGAAAGCTTTCAAAACTGGGATAATGTGTTCGTTTTTCTT---GGTT---ACCCTT-----TGTTATGTTGCCACCAAACA----ATGGGCATGAGGA------TATTATGGTTGATGAGGTAACAAGGAT
gi|8 : CAATACGA-TAATTTGTATAGCGC--A------ATG-------------------CTCT----AAT-GCGCTT-AAGAAGCATT-AGCAATAAAA-----GAC-----ATACA----CA--GC---ATA-----------AAACAAAACA-TGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTAAAT-CTTTCCA--------GAACATGA---TAGTA-TTTACAG-TG--AACAGTGAAATG-CT-TGTGT--AA-------AAAGATAAG-------------------------TTAATTCCTTTTAAACGTCAAT-AAT---GAATGGGCACTTCTCA-----G-C--TTC-ATG-GG-CAAAGC-ATTC-CAGAGAGTGA---C-GGCAGCAAAGCC-AAAACGACG-TTTTCCGCATGTTAC-A-ATTCTGGTTT----AT-GGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGA---GCGAACA-AGTTGG-GGAGTAAATATTTAAAAGATCACAAA-GGTA----------TTGATTATTCACTGCTTTGTATACA
gi|11 : ataCGATACGA-TAATTTGTATAGCGC--A------ATATACTT-----AAAGTAAAGCTCT----AATTGCGCTTTGACAAGCATT-GGCAATAAAA-----GGC-----A--T-----CT--AT---ACA-----------ATATAAAAAA--GCAGATTAATAAAATAGAGTTAAATGTATCATAAAA-GATGTCAAAAACTTTCCA--------GTACTTGA---TAGTTATTTACAT-TT--AACAGTCAAATG-CTGTATTTTAAATCCTTTTAAACGTCAA-------------------------T----------------------AAT---GAATGGGCACTTCTCA-----G-T--TTC-ACG-GG-CAAAGT-GTTC-TAGAGAGTGG---A-GGCAGCATAGTC-GAAACGACG-ACTTCCGTATGTTAT-A-GTTCTGGTTT----TT-GGAAT--TTTT---AAA-CGCAGTGAA------
gi|14 : aataCAGTACGA-TAATTTATATAGCGC--A------ATATACTT-----AAAGTAAAGCTTC----AAT-GCACTT-GACAAGCATT-AGTAATAAAA-----GAC-----A--TATA--CA--AT---ATA-----------AAACAAAACA-TGCAAATTAATAATATAGAGTTAAGTGTATCATTAAA-CATATCAAAT-TTTTTCA--------GTACATGATAGTA----TTTACAG-TTAAAATAGTCAAATA-CT-TGTTT--AA-------AAAGAAAAG-------------------------T----------------------
gi|17 : CAATACGA-TAATTTGTATAGTGC--A------ATATATTT-----AAAGTAACGCTCT----AAT-GCGCTT-GACAAGCATT-AGCAATAAAAAGAGTGACGTATTA--TA----CA--AT---ATA-----------AAACAAAACA-TGCAGATTAATAAAATAGAGTTAAGTGTATCATACAA-GATGTCAAAA-CTTTCCA--------GAACATGATAGTA----TTTACAG-Tttttcaatctttttaa
gi|15 : taCAATACAA-TAATTTGTATAGCGCGCAGTATAC---TATTTTGAAAAAAGTAAAGCTCT----AAT-GCGCTT-GACAAGCATT-GGCAATAAAA-----GAC-----A--TATATACA--AT---ATA-----------AAACAAAACA-TGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTACAA-CTTTCCAGTACTCCGGTACATGATAGTA----TTTACAG-
gi|19 : CAATGCGG-TAATTTGTATAGCGC--A------ATATACTT-----AAAGTAAAGCT--------------TT-AACAGACATA-TACAATATAA-----AAC-------------------------------------AAACAAAAAA-TGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTAAAA-CTTTCCA--------AT
gi|24 : aCAATACGA-TAATTTGTATAGCGC--A----ACAT--ACTT-----AAAGTGAAGCTGT----ATT-GCACTT-GATAAGCGTT-GGCAATAAAA-----GAC-----A--
gi|9 : gatgACGAATAATTTGTATAGCG--------ACATGCTCTT-----AA-----------------T-GCGCT---ATAAGAATTAGGCAATTAAA------ACTT---A--TA----CA--GTCGCATA-----------AAACAAACA--TGCA-ATTAATAAAATAGAGTTAGG---ATCATAAAACGATGTTAAAT-CTTTCCA--------GAACATGA---TAGTA-TTTACAGATG--AACAGTGAAATGGCT-TGGTA--AA-------AAA--TAAG-------------------------TTATTCCTTTTTAACGTCACAATAAT---GGATGG-CACTTCTCA-----G-C--TTC-ATG-GG-CAA-GC-ATTC-CAGAGAGTGA---CCGGCAGCAA-GCC-AAAACGACG---TTTCGCATGTTAC-ACATTCTGGTTA----TG-GA-----TTTT---AAA-CGCA-TGAA------TCTTTCGAACGG----GCGAACA-AGTTGG-GGA-TAAATATTTAAAAGATCACCAAAGGTA----------TTGATTATTCACTGCTTTGTATACA
gi|18 : ATTTGTATAGCGC--AGTATAC------TT-----AAAATAAAGCTCTAATGCAT-GCGCTT-GACAAGCATG-GGCAATAAAA-----GACAT---A--TA----CA--AT---ATAACCCCCCCCCCAAAAAAAAAA-TGCAGATTAAAGAAATAGAGTT-------------AA-AACGTCAAAA-ATTTCCA--------GTACATGg
gi|26 : TACTT-----ATAGTACAGCTCT----AAT-GCGCTT-GACAAGCATT-GGCAA
gi|16 : CTCT----AAT-GCGCTT-GACAATCATT-AGCAATAAAA-----GAC-----A--TA----TATAAT---ATG-----------AAACAAAAAAATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGTA----TTTACAG-TT--AACAGTCAAATG-CT-TGTTT--AA-------AAAGATGAG-------------------------T----------------------
gi|22 : T---ATA-----------AAACACAAAA-TGCAGATGAATTAAATGAAATTATGTATATCATAAAA-TATGTCAAAA-CTTTCCA--------GTACATGA---TA----GT-ACAG-ttttaaatcctttttaaacgccaa
gi|12 : atacTA-----------AAACAAAACA-TGCAGATTAATAAAAAAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGTA----TTTACAG-TT--AACAGTCAAATG-TT-TGTTT--AA-------AAAGATAAGTTTTTAAATCCTTTTTAAACATCAAT----------------------AAT---GAATGGGCACTTCTCA-----G-T--TTC-ACG-GG-CAAAGC-GTTC-CAGAGAGTGG---A-GGCAACAAAGTactgtatttacag
gi|7 : accagacaatttattttatgtggcc---TA----TTTACAG-TT--AACAGTCAAATG-CT-TGTGC--AA-------AAAGATAAGC------------------------T----------------------AAT---TTTTAAACG----TCAATAACG-AATTTC-ACG-GA-CAACGC-GTGGACAGGGAGTGG---A-GGCAGCAAAGTC-GAAAC-------------ATGTTAA-A-GTTCTGGTTTAATTTT-GGAAC--TTTT----------------------TCTTTCGAACGGA---GCGAACG-AGTTAG-GGAGTAAATGTTCACAAGATCATAGA-GGTATTGCG-GAGCTTGATTATTCACTGCTT
gi|6 : tagAG-TT--AACAGTCAAATG-CT-TGTTT--AA-------AAAGATAGG-------------------------TTTTTAAATCCTTTTTAAACGTCAATATTGAATGGGCACTTCTCA-----G-T--TTC-ACG-GG-CAAAGC-GTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGTATGTTAC-A-GTTCTGGTTT----TT-GGAAC--TTTTTTGAAA-CACAGTGAA------TCTTTCGAACGGA---GCAAACG-AGTAGG-A----AAATGTTGACAAGATCTCTAA-GGTATTGCG-GAGCTTGATTATTCACTACTTTGTATAAGAAA---GTAAGAATTTTGTATTGGCCTCTGTATTCTACCGACAGTCCGTAGATATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCCT---CGTnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngcttactgatgccataatagagcatagagttcccgtagtctagtctagaa
gi|21 : -CT-TGCTT--AA-------AAAGATAAG-------------------------TTTTTAAATCCCTT---------AAT---GAATGGGCACTTATCA-----GTG--TTC--------CAGAG-----A-CAGAGAGTAGCTCA-GGCAGCAAAGTC-GAAACGATG-ACTTacgagttatcacccgagctgctgtgttttgaactttctgcagctaagtaagatgcttactcacaatgacaca
gi|20 : A-------AAAGCCAAC-------------------------A----------------------AAT---AATTAGA-ACTTCTCA-----G-T--TTC-ACATGTACAA--TAGTTC-CAGAGAGATG---A-GACGGCAAAATC-GAAATGACG-ACTTTCGCATGTAAA-A-GATCTAATCT----TT-AGACC--TTTT---AAA-AGC
gi|5 : -------AAACGTCAA-------------------------T----------------------AAT---GAATGG-CACTTCTCA-----G-T--TTCCACG-GC---AAGT-GTTC-CAGAGA-TGG---G-GGCAGCAAAGTCAGAAACGACGGACTTCTGTATGTTACCA-GTTCTGGTTT----TTTGGAAC--TTTT---AAA-CGCAGTGAA------TATGTCGAACGGT---GCGACCC-AATTGG-AGAGTAAATGTTCACAAGATCACAAA-GGTATTGCA-CAGCTTAATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTCTATTGGCATCTATATTATACCGTGAGCCAGTGGAGATCTTTCAAAACTGGG-TAATGTGTTCTTTTTTCTT---CGT
gi|10 : aaaaataagttttaagatcattttTTCTGGATT----TT-GGAACATTTTT---AAAACGCAGTGAAATAATTTCTTTCGAACGGA---GCGAACA-AGTAGG-AGAGTAAATGTTCACAAGAGCAGTAA-GGTATTGCG-GAGCTTGATTATTCTCTGCTTTGTATAAGAAG---AGAATAATTTTGT-TTGGCATCTATA-TCTACCGGGAGCCAGT---AATCTTTCAacgagttatcacccgtgctgctgtgtattaactctctgcagctttgaggtaagatgcttactgatgccatatagcatagagttctcgtagtctagtctagaagtgacaagcgagttgataggaattttgcaggcatcctccgaaatgtaggatataaggaatattcctggtcat
gi|23 : aAA------TCTTCCAAA-AAACCTGTGGACATAACCGGCAGAGTAAGTATTCGCAATATGAGCAA-GGTATTGTG-GACCTTGGATATTCACTGCATTcattttgtacgagttatcacctatgccgctgtgttttgaactttctgcagcttataaataagatgtttattaagctaaggcaataaagcatagagttcccgtagtctagtcgagaagtgacacaagcgagttgatgaaggtttcgcagcatcttccgaaatgtaaaatcaaatgaggatgatgtttctaaggttca
gi|13 : GTAGATATTCACAAGTTCTGTAA-GTTATTGCGAGAG--TGGTCATTCAGTGCCTTGTATACAAAGCGAAAAAGAA--TTGTATCGACATCTTTATTCTACCGCGAGCCAGTGGGGA-TTTTCAAAACTGGAGTAAGATGCTT-TTCTTCGTACGAGTTATCACCCTTTCTACTGTT-TGTTA--AATAAGCAAGACATTTGCAT-AGAATTACTGTATTATAGTTAA-GACGTGACA
5 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|2 ): TACTGGTACCATAAAAACATAGAGATTTCCCGTAGTCTAGTCCAGAAGTGACAAGCGATTTAAACGTTTGATAACAATAAATTGTCAGGAGGTCGCCAAACTACATGAGTTCACCATTTTAATCTTTTGAATAATGCCATTCACTTATAATTTGACCTTTAGTCACCAAATCTGTTTATAAATTCATATAGATGCGTGGGTCCTAAAGTTTTGTAAATAGCTTCGACCAGCGTGGACTTTGTTTTGGTGCTACATCACTTTTTCTCTAAGTTTTAAACATTGAATGTCTTGGGAAATTAACGTACATGTTTTATGACTTAGATGGGTTGGTGCGGTTTCTTTGTTTTTTTTTTTCTTTTGGCTGTTTTTTTGTATTTATATTTTATTCGTAATTTTTTTTTTTTATATTTCAATTTTTAAATTAAATTTTTTATTCATTTATAAATTTATTTGTTGGGTGTTTTTTTTTTTTTCCGCCTTGGTTGTAATTTTAATGATAGAACAAGATTCCACATGGAACCGTTTTCATTAAATGCTCAAACATTGATCAG
Unaligned ( gi|3 ): TACTGGTACCATAAAACATAGATTTCCCGTAGTCTAGTCCAGAAGTGACAAGCGATTTAACGTTTGATAACAATAACATTGTCAGGTCGCCAAACTAATGAGTCACCATTTTATCTTTTGAATAATGCCATTCCACTTATAATTTGACCTTTAGTCACCAAATCTGTTATCAAATTCATAATAGATGAGTGGGTCCTAAGTTTTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTAACATTGAATGTCTTGGGAAATTAACGTACATGTATATGACTTAGATGGGTTGGTGCGGTTTCTTTGTTTTGTTTTTTCTTTTGGCTGTTTTTTGTATTTATTTTATTCGTATTTTTTTTTATATTTCAATTTTTAAATTTAAATTTTTATTCATTTATAAATTTATTTGTTGGGTTTTTTTTTCCGCCTTGGTTGTAATTTTAATGATAGAACCAGATTCCACATGGAAACCGTTTTCATTAAATGTCAAAACATTGATCAGGTGATCAGCTATATAAAATATCA
Unaligned ( gi|4 ): TGGTACATAAACAGTAGATTTCCCGTATCTAGTCCAGATAGTGCAAGCGATTTTAAACGTTTGATAAAAAAATTGTCAGAGGTCGCCAAACTAATGAGTCACCATTTTATCTTTTGAACTAATGCCATTCCACTTTAATTTGACCTTTAGTCACAATCTGTTATCAAATTCATAATAGATGTGGGTCATATAGTGTTTGTAATACTCGACCAGCGTGGACTTCTGTTTTGGTGCTACATCATTTTCTCTAGTTTTAACATTGATGTCTTGGGAAATTAACGTACATTATTGACTTAGATGGGTTTGGTGCGGTTTCTTTGTTTTGTTTTTTCTTTTGGCCTGTTTTTTGTAATTTATTTTATTCCGTATTTTTTTTAATATTTCAATTTTAAATTTAAAATTTTATTCATTATAATATTTATTTGTTGGGTTATTTTTTTCCGCCTGGTTGTAATTTTAATGATAGAACCAAGATTCCACAATCTGAAACCGTTTCATTAAATTTCAAAACATTGAGTAGGGTGATCAGCTATAAAATTATGA
Unaligned ( gi|25 ): TATATGACATAACACCCCCCCCCAAAAAAAAAGAACCGATTGATGCAATGGAGTTACAACTTCAATA
Unaligned ( gi|27 ): CCAGACAATTTATTTTATGTGGCCTAA
Alignments
lowQualScore : 1111111111111111111111111 11111111111111111111111111111111111111111111111
lowQualScore : 2222222 11111 1111 11 22222222222 11111111 111111111 2222222222222222 11111111111111111 0000000000000000000000000 111111 111 3 66666666666 111 11111111111111111111111111111111111111111111111 1 11111 1
lowQualScore : 4 55 2222222 555 99999 3 3 7777 3 3 99999 77777 2222 00 666 22222222222 44 3 3 22222222 3 444444444 3 66 4 4 4444444444444444 55 55555555555555555 0 3 9999999999999999999999999 8888 6 4 4 1 4 3 4 88888 4 66 0 1 5 5 9999 4 66 777 4 444444 1 2 1 1 11 4 0 4 1 444 1 0 0 0 1 3 1 2 0 1 77777777777 3 555 4 88 1 55555555555555555555555555555555555555555555555 0 44444 3 3 5 0 8
lowQualScore : . .. ....... ... ..... . . .... . . ..... ..... .... .. ... ........... .. . . ........ . ......... . .. . . ................ .. ................. . . ......................... .... . . . . . . . ..... . .. . . . . .... . .. ... . ...... . . . . .. . . . . ... . . . . . . . . . . ........... . ... . .. . ............................................... . ..... . . . . .
lowQualScore : 4 55 8888888 555 11111 3 3 1111 3 3 11111 55555 7777 00 444 99999999999 33 3 3 11111111 6 555555555 3 11 0 0 1111111111111111 00 22222222222222222 8 3 6666666666666666666666666 5555 6 0 0 6 0 2 0 33333 4 44 2 1 0 0 4444 4 11 888 4 444444 7 7 7 1 11 4 1 4 1 000 0 8 8 8 0 2 4 5 0 0 55555555555 2 888 5 66 4 11111111111111111111111111111111111111111111111 0 00000 0 0 0 0 8
consensus : CAATACGA-TAATTTGTATAGCGC--A----ACATA-TACTT-----AAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATA----CA--AT---ATA-----------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATAAG-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGCATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACGAGTTGGGGAGTAAATGTTCACAAGATCACNAA-GGTATTGCG-GAGCTTGATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGNGAGCCAGTGGAGATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCTT-CGTACGAG--TTATCACCCNTGCTGCTGTT-TGTTA--AN-T-------------AAG-CAAGA-------------CAT-TNGCAT-AGAGTTCCCGTANTNTAGTCGA-GAAGTGACA
Reference ( family-1088 ) : CAATACGA-TAATTTGTATAGCGC--A----ACATA-TACTT-----AAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATA----CA--AT---ATA-----------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATAAG-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGCATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACGAGTTGGGGAGTAAATGTTCACAAGATCACNAA-GGTATTGCG-GAGCTTGATTATTCACTGCTTTGTATACGAAG---ANAAGAATTTTGTATTGGCATCTATATTCTACCGNGAGCCAGTGGAGATCTTTCAAAACTGGGGTAATGTGTTC-TTTTTCNT-C------G--TTATCACCCTTTCTACTGTT-TGTTA--AA-T-------------AAG-CAAGA-------------CAT-TTGCAT-AGAATTACTGTATTATAGTTAA-GACGTGACA
gi|1 : CAATACGA-TAATTTGTATAGCGC--ATTATACATG-TACTT-----AAAGTAAAGCTTT-CAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ACA----CA--AT---ATA-----------AAACAAAA-AATGTAGATTAATAGAATAGAATTAAGTGTATAATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATA-------------TTCACAG-TT--AACAATCATATG-CT-TG----------------TTT--AA-------A---------AAGGTAAG-T-------------------------AAT----GAATGGACACTTCTCAGA-TTC-ACGGTCA-AAGTGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTGCGTATGTTAC-A-GTTCTGGTTT----T-GGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACAAGTTGGAGAGTAAATATTCACAAGATCACTAA-GGTAGCGCG-GAGCTTGATTATTCACTGCTTTGTATACAAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGGTAGCCAATGGAAAGCTTTCAAAACTGGGATAATGTGTTCGTTTTTCTT-G------G--TT---ACCCTT-----TGTTATGTTGCCAC-C-------------AAA-CA-----------------AT-GGGCATGAGGA------TATTATGGTTGATGAGGTAACA
gi|10 : TTCTGGATT----T-TGGAACATTTTT---AAAACGCAGTGAAATAATTTCTTTCGAACGGAGCGAACAAGTAGGAGAGTAAATGTTCACAAGAGCAGTAA-GGTATTGCG-GAGCTTGATTATTCTCTGCTTTGTATAAGAAG---AGAATAATTTTGT-TTGGCATCTATA-TCTACCGGGAGCCAGT---AATCTTTCAaggat
gi|10 : aTGTT-TATTA--AGCT-------------AAGGCAATA-------------AA----GCAT-AGAGTTCCCGTAGTCTAGTCGA-GAAGTGACAcattttgtacgagttatcacctatgccgctgtgttttgaactttctgcagcttataaataagatgtttattaagctaaggcaataaagcatagagttcccgtagtctagtcgagaagtgacacaagcgagttgatgaaggtttcgcagcatcttccgaaatgtaaaatcaaatgaggatgatgtttctaaggttca
gi|11 : attctggattttggaacatttttaaaacgcagtgaaataatttctttcgaacggagcgaacaagtaggagagtaaatgttcacaagagcagtaaggtattgcggagcttgattattctctgctttgtataagaagagaataattttgtttggcatctatatctaccgggagccagtaatctttcacattttgtacgagttatcacctatgccgctgtgttttgaactttctgcagcttataaataagaCGATACGA-TAATTTGTATAGCGC--A----A--TA-TACTT-----AAAGTAAAGCTCT-AATTGC----GCTTTGACAAGCATT-GGCAATAAAA-----GGC-----AT-----CT--AT---ACA-----------ATATAAAA-AA-GCAGATTAATAAAATAGAGTTAAATGTATCATAAAA-GATGTCAAAAACTTTCCA--------GTACTTGATAGTTA---------TTTACAT-TT--AACAGTCAAATG-CTGTA----------------TTTTAAATCCTTTTA---------AACGTCAA-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGTGTTC-TAGAGAGTGG---A-GGCAGCATAGTC-GAAACGACG-ACTTCCGTATGTTAT-A-GTTCTGGTTT----T-TGGAAT--TTTT---AAA-CGCAGTGAA------caagcgagttgatgaaggtttcgcagcatcttccgaaatgtaaaatcaaatgaggatgatgtttctaaggttca
gi|12 : aataTA-----------AAACAAAA-CATGCAGATTAATAAAAAAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-TT-TG----------------TTT--AA-------A---------AAGATAAG-TTTTTAAATCCTTTTTAAACATCAATAAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAACAAAGT
gi|13 : accagacaatttattttatgtggccGTAGATATTCACAAGTTCTGTAA-GTTATTGCGAGAG--TGGTCATTCAGTGCCTTGTATACAAAGCGAAAAAGAATT--GTATCGACATCTTTATTCTACCGCGAGCCAGTGGGGAT-TTTCAAAACTGGAGTAAGATGCTT-TTCTTCGTAC------GAGTTATCACCCTTTCTACTGTT-TGTTA--AA-T-------------AAG-CAAGA-------------CAT-TTGCAT-AGAATTACTGTATTATAGTTAA-GACGTGACA
gi|14 : CAGTACGA-TAATTTATATAGCGC--A----A--TA-TACTT-----AAAGTAAAGCTTC-AAT-GC----ACTT-GACAAGCATT-AGTAATAAAA-----GAC-----ATATA--CA--AT---ATA-----------AAACAAAA-CATGCAAATTAATAATATAGAGTTAAGTGTATCATTAAA-CATATCAAAT-TTTTTCA--------GTACATGATAGT-A---------TTTACAG-TTAAAATAGTCAAATA-CT-TG----------------TTT--AA-------A---------AAGAAAAG-T-------------------------cgaa
gi|15 : CAATACAA-TAATTTGTATAGCGCGCA----GTATACTATTTTGAAAAAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATATATACA--AT---ATA-----------AAACAAAA-CATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTACAA-CTTTCCAGTACTCCGGTACATGATAGT-A---------TTTACAG-ttttcaatctttttaa
gi|16 : CTCT-AAT-GC----GCTT-GACAATCATT-AGCAATAAAA-----GAC-----ATA----TATAAT---ATG-----------AAACAAAAAAATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATGAG-T-------------------------
gi|17 : CAATACGA-TAATTTGTATAGTGC--A----ATATA-T--TT-----AAAGTAACGCTCT-AAT-GC----GCTT-GACAAGCATT-AGCAATAAAAAGAGTGACGTATTATA----CA--AT---ATA-----------AAACAAAA-CATGCAGATTAATAAAATAGAGTTAAGTGTATCATACAA-GATGTCAAAA-CTTTCCA--------GAACATGATAGT-A---------TTTACAG-Tttttaaatcctttttaaacgccaa
gi|18 : taATTTGTATAGCGC--A----G--TA-TACTT-----AAAATAAAGCTCT-AAT-GCATGCGCTT-GACAAGCATG-GGCAATAAAA-----GACAT---ATA----CA--AT---ATAACCCCCCCCCCAAAAAAAA-AATGCAGATTAAAGAAATAGAGTT-------------AA-AACGTCAAAA-ATTTCCA--------GTACATG
gi|19 : CAATGCGG-TAATTTGTATAGCGC--A------ATA-TACTT-----AAAGTAAAGCT---------------TT-AACAGACAT-------------------------ATA----CA--AT---ATAAAAC-------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTAAAA-CTTTCCA--------AT
gi|20 : aA-------A---------AAGCCAAC-A-------------------------AAT-----AATTAGAACTTCTCAGT-TTC-ACATGTACAATAGTTC-CAGAGAGATG---A-GACGGCAAAATC-GAAATGACG-ACTTTCGCATGTAAA-A-GATCTAATCT----T-TAGACC--TTTT---AAA-AGC
gi|21 : -CT-TG----------------CTT--AA-------A---------AAGATAAG-TTTTTAAATCCCTT------------AAT----GAATGGGCACTTATCAGTGTTC------CA-GAGA-----CAGAGAGTAGCTCA-GGCAGCAAAGTC-GAAACGATG-ACTT
gi|22 : -----ATA----C----T---ATA-----------AAACACAA-AATGCAGATGAATTAAATGAAATTATGTATATCATAAAA-TATGTCAAAA-CTTTCCA--------GTACATGATAGT-ACAGACTGTATTTACAG-
gi|23 : GAGTAAGTATTCGCAATATGAGCAA-GGTATTGTG-GACCTTGGATATTCACTGCATT
gi|24 : aatcttccaaaaaacctgtggacataaccggcaCAATACGA-TAATTTGTATAGCGC--A----ACATA---CTT-----AAAGTGAAGCTGT-ATT-GC----ACTT-GATAAGCGTT-GGCAATAAAA-----GAC-----A
gi|26 : gatg-TACTT-----ATAGTACAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAA
gi|5 : ----------------TTT--TA-------A---------ACG-TCAA-T-------------------------AAT----GAATGG-CACTTCTCAGT-TTCCACGG-CA-A-GTGTTC-CAGAGA-TGG---G-GGCAGCAAAGTCAGAAACGACGGACTTCTGTATGTTACCA-GTTCTGGTTT----TTTGGAAC--TTTT---AAA-CGCAGTGAA------TATGTCGAACGGTGCGACCCAATTGGAGAGTAAATGTTCACAAGATCACAAA-GGTATTGCA-CAGCTTAATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTCTATTGGCATCTATATTATACCGTGAGCCAGTGGAGATCTTTCAAAACT-GGGTAATGTGTTCTTTTTTCTT-CGTACGAG--TTATCACCCGTGCTGCTGTG-TATTA--AC-TCTCTGCAGCTTTGAGG-TAAGATGCTTACTGATGCCATATAGCAT-AGAGTTCTCGTAGTCTAGTCTA-GAAGTGACA
gi|6 : aaaaataagttttaagatcaAG-TT--AACAGTCAAATG-CT-TGTTTAAAAAGATAGGTTTTT--AA-------ATCCTTTTTAAACGTCAA-T-------------------------ATT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGTATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTTTTGAAA-CACAGTGAA------TCTTTCGAACGGAGCAAACGAGT--AGGA--AAATGTTGACAAGATCTCTAA-GGTATTGCG-GAGCTTGATTATTCACTACTTTGTATAAGAAA---GTAAGAATTTTGTATTGGCCTCTGTATTCTACCGACAGTCCGTAGATATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCCT-CGTACGAG--TTATCACCCGAGCTGCTGTG-TTTTG--AA-agcgagttgataggaattttgcaggcatcctccgaaatgtaggatataaggaatattcctggtcat
gi|7 : TAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TGC--AA-------A---------AAGATAAGCT-------------------------AATTTTTAAACGT-CAATAACGAAT-TTC-ACGGACA-ACGCGTGGACAGGGAGTGG---A-GGCAGCAAAGTC-GAAAC-------------ATGTTAA-A-GTTCTGGTTTAATTT-TGGAAC--TTTT----------------------TCTTTCGAACGGAGCGAACGAGTTAGGGAGTAAATGTTCACAAGATCATAGA-GGTATTGCG-GAGCTTGATTATTCACTGCTTctttctgcagctaagtaagatgcttactcacaatgacaca
gi|8 : CAATACGA-TAATTTGTATAGCGC--A----AT----------------------GCTCT-AAT-GC----GCTT-AAGAAGCATT-AGCAATAAAA-----GAC-----ATA----CACAGC---ATA-----------AAACAAAA-CATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTAAAT-CTTTCCA--------GAACATGATAGT-A---------TTTACAG-TG--AACAGTGAAATG-CT-TG----------------TGT--AA-------A---------AAGATAAG-TTAATTCCTTTTAAACGTCAAT----AAT----GAATGGGCACTTCTCAGC-TTC-ATGGGCA-AAGCATTC-CAGAGAGTGA---C-GGCAGCAAAGCC-AAAACGACG-TTTTCCGCATGTTAC-A-ATTCTGGTTT----A-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACAAGTTGGGGAGTAAATATTTAAAAGATCACAAA-GGTA----------TTGATTATTCACTGCTTTGTATACnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngcttactgatgccataatagagcatagagttcccgtagtctagtctagaa
gi|9 : ataACGAATAATTTGTATAGCG--------ACAT--------------------GCTCTTAAT-GC----GCT---ATAAGAATTAGGCAATTAAA------ACTT---ATA----CA--GTCGCATA-----------AAACAAAC-A-TGCA-ATTAATAAAATAGAGTTAGG---ATCATAAAACGATGTTAAAT-CTTTCCA--------GAACATGATAGT-A---------TTTACAGATG--AACAGTGAAATGGCT-TG----------------GT----A-------A---------AAAATAAG-TTATTCCTTTTTAACGTCACAAT---AAT----GGATGG-CACTTCTCAGC-TTC-ATGGGCA-A-GCATTC-CAGAGAGTGA---CCGGCAGCAA-GCC-AAAACGACG---TTTCGCATGTTAC-ACATTCTGGTTA----T--GGA----TTTT---AAA-CGCA-TGAA------TCTTTCGAACGG-GCGAACAAGTTGGGGA-TAAATATTTAAAAGATCACCAAAGGTATTG----------ATTATTCACTGCTTTGTATACa
5 sequences could not be aligned to this reference sequence:
Unaligned ( gi|2 ): TACTGGTACCATAAAAACATAGAGATTTCCCGTAGTCTAGTCCAGAAGTGACAAGCGATTTAAACGTTTGATAACAATAAATTGTCAGGAGGTCGCCAAACTACATGAGTTCACCATTTTAATCTTTTGAATAATGCCATTCACTTATAATTTGACCTTTAGTCACCAAATCTGTTTATAAATTCATATAGATGCGTGGGTCCTAAAGTTTTGTAAATAGCTTCGACCAGCGTGGACTTTGTTTTGGTGCTACATCACTTTTTCTCTAAGTTTTAAACATTGAATGTCTTGGGAAATTAACGTACATGTTTTATGACTTAGATGGGTTGGTGCGGTTTCTTTGTTTTTTTTTTTCTTTTGGCTGTTTTTTTGTATTTATATTTTATTCGTAATTTTTTTTTTTTATATTTCAATTTTTAAATTAAATTTTTTATTCATTTATAAATTTATTTGTTGGGTGTTTTTTTTTTTTTCCGCCTTGGTTGTAATTTTAATGATAGAACAAGATTCCACATGGAACCGTTTTCATTAAATGCTCAAACATTGATCAG
Unaligned ( gi|3 ): TACTGGTACCATAAAACATAGATTTCCCGTAGTCTAGTCCAGAAGTGACAAGCGATTTAACGTTTGATAACAATAACATTGTCAGGTCGCCAAACTAATGAGTCACCATTTTATCTTTTGAATAATGCCATTCCACTTATAATTTGACCTTTAGTCACCAAATCTGTTATCAAATTCATAATAGATGAGTGGGTCCTAAGTTTTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTAACATTGAATGTCTTGGGAAATTAACGTACATGTATATGACTTAGATGGGTTGGTGCGGTTTCTTTGTTTTGTTTTTTCTTTTGGCTGTTTTTTGTATTTATTTTATTCGTATTTTTTTTTATATTTCAATTTTTAAATTTAAATTTTTATTCATTTATAAATTTATTTGTTGGGTTTTTTTTTCCGCCTTGGTTGTAATTTTAATGATAGAACCAGATTCCACATGGAAACCGTTTTCATTAAATGTCAAAACATTGATCAGGTGATCAGCTATATAAAATATCA
Unaligned ( gi|4 ): TGGTACATAAACAGTAGATTTCCCGTATCTAGTCCAGATAGTGCAAGCGATTTTAAACGTTTGATAAAAAAATTGTCAGAGGTCGCCAAACTAATGAGTCACCATTTTATCTTTTGAACTAATGCCATTCCACTTTAATTTGACCTTTAGTCACAATCTGTTATCAAATTCATAATAGATGTGGGTCATATAGTGTTTGTAATACTCGACCAGCGTGGACTTCTGTTTTGGTGCTACATCATTTTCTCTAGTTTTAACATTGATGTCTTGGGAAATTAACGTACATTATTGACTTAGATGGGTTTGGTGCGGTTTCTTTGTTTTGTTTTTTCTTTTGGCCTGTTTTTTGTAATTTATTTTATTCCGTATTTTTTTTAATATTTCAATTTTAAATTTAAAATTTTATTCATTATAATATTTATTTGTTGGGTTATTTTTTTCCGCCTGGTTGTAATTTTAATGATAGAACCAAGATTCCACAATCTGAAACCGTTTCATTAAATTTCAAAACATTGAGTAGGGTGATCAGCTATAAAATTATGA
Unaligned ( gi|25 ): TATATGACATAACACCCCCCCCCAAAAAAAAAGAACCGATTGATGCAATGGAGTTACAACTTCAATA
Unaligned ( gi|27 ): CCAGACAATTTATTTTATGTGGCCTAA
Alignments
lowQualScore : 1111111111111111111111111 1111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111
lowQualScore : 2222222 11111 1111 11 22222222222 11111111 111111111 2222222222222222 11111111111111111 0000000000000000000000000 111111 111 7777777777777777777777777777777777777777777777777777777777777777777777777777777777777777777
lowQualScore : 4 55 2222222 555 99999 3 3 7777 3 3 99999 77777 2222 00 666 22222222222 44 3 3 22222222 3 444444444 3 66 4 4 4444444444444444 55 55555555555555555 0 3 9999999999999999999999999 8888 6 4 4 1 4 3 4 88888 4 66 0 1 5 5 9999 4 66 777 4 444444 1 2 1 1 11 4 0 4 1 444 1 0 0 0 1 3 1 0 5 0 3 0 5 0 1 5 3333333333333333333333333333333333333333333333333333333333333333333333333333333333333333333 77 5 1 1 6 5
lowQualScore : . .. ....... ... ..... . . .... . . ..... ..... .... .. ... ........... .. . . ........ . ......... . .. . . ................ .. ................. . . ......................... .... . . . . . . . ..... . .. . . . . .... . .. ... . ...... . . . . .. . . . . ... . . . . . . . . . . . . . . . . ........................................................................................... .. . . . . .
lowQualScore : 4 55 8888888 555 11111 3 3 1111 3 3 11111 55555 7777 00 444 99999999999 33 3 3 11111111 6 555555555 3 11 0 0 1111111111111111 00 22222222222222222 8 3 6666666666666666666666666 5555 6 0 0 6 0 2 0 33333 4 44 2 1 0 0 4444 4 11 888 4 444444 7 7 7 1 11 4 1 4 1 000 0 8 8 8 0 2 4 8 0 6 2 8 0 8 0 0 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999 99 7 0 0 6 7
consensus : CAATACGA-TAATTTGTATAGCGC--A----ACATA-TACTT-----AAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATA----CA--AT---ATA-----------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATAAG-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGCATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACGAGTTGGGGAGTAAATGTTCACAAGATCACNAA-GGTATTGCG-GAGCTTGATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGNGAGCCAGTGGAGATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCTTCGTACGAGTTATCACCCNTGCTGCTGTGTTT-TGAACT------------T-----A--ACT-------------AAG-------------TAAGA-------------CAT-T--AGCATAGAG--TTCCCG-TAGTCTAGTCNA-GAAGTGACA
Reference ( family-1088 ) : CAATACGA-TAATTTGTATAGCGC--A----ACATA-TACTT-----AAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATA----CA--AT---ATA-----------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATAAG-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGCATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACGAGTTGGGGAGTAAATGTTCACAAGATCACNAA-GGTATTGCG-GAGCTTGATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGNGAGCCAGTGGAGATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCTTCGTACGAGTTATCACCCNTGCTGCTG---TT-TG---T------------T-----A--ANT-------------AAG-------------CAAGA-------------CAT-T--NGCATAGAG--TTCCCG-TANTNTAGTCGA-GAAGTGACA
gi|1 : CAATACGA-TAATTTGTATAGCGC--ATTATACATG-TACTT-----AAAGTAAAGCTTT-CAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ACA----CA--AT---ATA-----------AAACAAAA-AATGTAGATTAATAGAATAGAATTAAGTGTATAATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATA-------------TTCACAG-TT--AACAATCATATG-CT-TG----------------TTT--AA-------A---------AAGGTAAG-T-------------------------AAT----GAATGGACACTTCTCAGA-TTC-ACGGTCA-AAGTGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTGCGTATGTTAC-A-GTTCTGGTTT----T-GGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACAAGTTGGAGAGTAAATATTCACAAGATCACTAA-GGTAGCGCG-GAGCTTGATTATTCACTGCTTTGTATACAAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGGTAGCCAATGGAAAGCTTTCAAAACTGGGATAATGTGTTCGTTTTTCTT------GGTT---ACCCTT-----TG---TTATG---T------------T-----GCCACC-------------AAA-------------CA-----------------AT-G--GGCAT-GAG-------GATATTATGGTTGATGAGGTAACA
gi|10 : TTCTGGATT----T-TGGAACATTTTT---AAAACGCAGTGAAATAATTTCTTTCGAACGGAGCGAACAAGTAGGAGAGTAAATGTTCACAAGAGCAGTAA-GGTATTGCG-GAGCTTGATTATTCTCTGCTTTGTATAAGAAG---AGAATAATTTTGT-TTGGCATCTATA-TCTACCGGGAGCCAGT---AATCTTTCA------------------CATTTT-----GTACGAGTTATCACCTATGCCGCTGTGTTT-TGAACTTTCTGCAGCTTAT-----A--AAT-------------AAGATGTTTATTAAGCTAAGG-------------CAA-TAAAGCATAGAG--TTCCCG-TAGTCTAGTCGA-GAAGTGACAaggat
gi|11 : aCGATACGA-TAATTTGTATAGCGC--A----A--TA-TACTT-----AAAGTAAAGCTCT-AATTGC----GCTTTGACAAGCATT-GGCAATAAAA-----GGC-----AT-----CT--AT---ACA-----------ATATAAAA-AA-GCAGATTAATAAAATAGAGTTAAATGTATCATAAAA-GATGTCAAAAACTTTCCA--------GTACTTGATAGTTA---------TTTACAT-TT--AACAGTCAAATG-CTGTA----------------TTTTAAATCCTTTTA---------AACGTCAA-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGTGTTC-TAGAGAGTGG---A-GGCAGCATAGTC-GAAACGACG-ACTTCCGTATGTTAT-A-GTTCTGGTTT----T-TGGAAT--TTTT---AAA-CGCAGTGAA------caagcgagttgatgaaggtttcgcagcatcttccgaaatgtaaaatcaaatgaggatgatgtttctaaggttca
gi|12 : aataTA-----------AAACAAAA-CATGCAGATTAATAAAAAAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-TT-TG----------------TTT--AA-------A---------AAGATAAG-TTTTTAAATCCTTTTTAAACATCAATAAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAACAAAGT
gi|13 : accagacaatttattttatgtggccGTAGATATTCACAAGTTCTGTAA-GTTATTGCGAGAG--TGGTCATTCAGTGCCTTGTATACAAAGCGAAAAAGAATT--GTATCGACATCTTTATTCTACCGCGAGCCAGTGGGGAT-TTTCAAAACTGGAGTAAGATGCT----TTTCTTCGTACGAGTTATCACCCTTTCTACTG---TT-TG---T------------T-----A--AAT-------------AAG-------------CAAGA-------------CAT-T--TGCATAGAA--TTACTG-TATTATAGTTAA-GACGTGACA
gi|14 : CAGTACGA-TAATTTATATAGCGC--A----A--TA-TACTT-----AAAGTAAAGCTTC-AAT-GC----ACTT-GACAAGCATT-AGTAATAAAA-----GAC-----ATATA--CA--AT---ATA-----------AAACAAAA-CATGCAAATTAATAATATAGAGTTAAGTGTATCATTAAA-CATATCAAAT-TTTTTCA--------GTACATGATAGT-A---------TTTACAG-TTAAAATAGTCAAATA-CT-TG----------------TTT--AA-------A---------AAGAAAAG-T-------------------------cgaa
gi|15 : CAATACAA-TAATTTGTATAGCGCGCA----GTATACTATTTTGAAAAAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATATATACA--AT---ATA-----------AAACAAAA-CATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTACAA-CTTTCCAGTACTCCGGTACATGATAGT-A---------TTTACAG-ttttcaatctttttaa
gi|16 : CTCT-AAT-GC----GCTT-GACAATCATT-AGCAATAAAA-----GAC-----ATA----TATAAT---ATG-----------AAACAAAAAAATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATGAG-T-------------------------
gi|17 : CAATACGA-TAATTTGTATAGTGC--A----ATATA-T--TT-----AAAGTAACGCTCT-AAT-GC----GCTT-GACAAGCATT-AGCAATAAAAAGAGTGACGTATTATA----CA--AT---ATA-----------AAACAAAA-CATGCAGATTAATAAAATAGAGTTAAGTGTATCATACAA-GATGTCAAAA-CTTTCCA--------GAACATGATAGT-A---------TTTACAG-Tttttaaatcctttttaaacgccaa
gi|18 : taATTTGTATAGCGC--A----G--TA-TACTT-----AAAATAAAGCTCT-AAT-GCATGCGCTT-GACAAGCATG-GGCAATAAAA-----GACAT---ATA----CA--AT---ATAACCCCCCCCCCAAAAAAAA-AATGCAGATTAAAGAAATAGAGTT-------------AA-AACGTCAAAA-ATTTCCA--------GTACATG
gi|19 : CAATGCGG-TAATTTGTATAGCGC--A------ATA-TACTT-----AAAGTAAAGCT---------------TT-AACAGACAT-------------------------ATA----CA--AT---ATAAAAC-------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTAAAA-CTTTCCA--------AT
gi|2 : aCATAGAGATTTCCCG-TAGTCTAGTCCA-GAAGTGACA
gi|20 : tactggtaccataaaaaA-------A---------AAGCCAAC-A-------------------------AAT-----AATTAGAACTTCTCAGT-TTC-ACATGTACAATAGTTC-CAGAGAGATG---A-GACGGCAAAATC-GAAATGACG-ACTTTCGCATGTAAA-A-GATCTAATCT----T-TAGACC--TTTT---AAA-AGCagcgatttaaacgtttgataacaataaattgtcaggaggtcgccaaactacatgagttcaccattttaatcttttgaataatgccattcacttataatttgacctttagtcaccaaatctgtttataaattcatatagatgcgtgggtcctaaagttttgtaaatagcttcgaccagcgtggactttgttttggtgctacatcactttttctctaagttttaaacattgaatgtcttgggaaattaacgtacatgttttatgacttagatgggttggtgcggtttctttgtttttttttttcttttggctgtttttttgtatttatattttattcgtaattttttttttttatatttcaatttttaaattaaattttttattcatttataaatttatttgttgggtgtttttttttttttccgccttggttgtaattttaatgatagaacaagattccacatggaaccgttttcattaaatgctcaaacattgatcag
gi|21 : -CT-TG----------------CTT--AA-------A---------AAGATAAG-TTTTTAAATCCCTT------------AAT----GAATGGGCACTTATCAGTGTTC------CA-GAGA-----CAGAGAGTAGCTCA-GGCAGCAAAGTC-GAAACGATG-ACTT
gi|22 : -----ATA----C----T---ATA-----------AAACACAA-AATGCAGATGAATTAAATGAAATTATGTATATCATAAAA-TATGTCAAAA-CTTTCCA--------GTACATGATAGT-ACAGACTGTATTTACAG-
gi|23 : GAGTAAGTATTCGCAATATGAGCAA-GGTATTGTG-GACCTTGGATATTCACTGCATT
gi|24 : aatcttccaaaaaacctgtggacataaccggcaCAATACGA-TAATTTGTATAGCGC--A----ACATA---CTT-----AAAGTGAAGCTGT-ATT-GC----ACTT-GATAAGCGTT-GGCAATAAAA-----GAC-----A
gi|26 : gatg-TACTT-----ATAGTACAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAA
gi|3 : CATAGAT--TTCCCG-TAGTCTAGTCCA-GAAGTGACA
gi|5 : tactggtaccataaaa----------------TTT--TA-------A---------ACG-TCAA-T-------------------------AAT----GAATGG-CACTTCTCAGT-TTCCACGG-CA-A-GTGTTC-CAGAGA-TGG---G-GGCAGCAAAGTCAGAAACGACGGACTTCTGTATGTTACCA-GTTCTGGTTT----TTTGGAAC--TTTT---AAA-CGCAGTGAA------TATGTCGAACGGTGCGACCCAATTGGAGAGTAAATGTTCACAAGATCACAAA-GGTATTGCA-CAGCTTAATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTCTATTGGCATCTATATTATACCGTGAGCCAGTGGAGATCTTTCAAAACT-GGGTAATGTGTTCTTTTTTCTTCGTACGAGTTATCACCCGTGCTGCTG---TG-TA---T------------T-----A--ACTCTCTGCAGCTTTGAGG-------------TAAGATGCTTACTGATGCCATAT--AGCATAGAG--TTCTCG-TAGTCTAGTCTA-GAAGTGACAagcgatttaacgtttgataacaataacattgtcaggtcgccaaactaatgagtcaccattttatcttttgaataatgccattccacttataatttgacctttagtcaccaaatctgttatcaaattcataatagatgagtgggtcctaagttttgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttaacattgaatgtcttgggaaattaacgtacatgtatatgacttagatgggttggtgcggtttctttgttttgttttttcttttggctgttttttgtatttattttattcgtatttttttttatatttcaatttttaaatttaaatttttattcatttataaatttatttgttgggtttttttttccgccttggttgtaattttaatgatagaaccagattccacatggaaaccgttttcattaaatgtcaaaacattgatcaggtgatcagctatataaaatatca
gi|6 : aaaaataagttttaagatcaAG-TT--AACAGTCAAATG-CT-TGTTTAAAAAGATAGGTTTTT--AA-------ATCCTTTTTAAACGTCAA-T-------------------------ATT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGTATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTTTTGAAA-CACAGTGAA------TCTTTCGAACGGAGCAAACGAGT--AGGA--AAATGTTGACAAGATCTCTAA-GGTATTGCG-GAGCTTGATTATTCACTACTTTGTATAAGAAA---GTAAGAATTTTGTATTGGCCTCTGTATTCTACCGACAGTCCGTAGATATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCCTCGTACGAGTTATCACCCGAGCTGCTGTGTTT-TGAACT------------TTCTGCA--GCT-------------AAG-------------TAAGA-------------agcgagttgataggaattttgcaggcatcctccgaaatgtaggatataaggaatattcctggtcat
gi|7 : TAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TGC--AA-------A---------AAGATAAGCT-------------------------AATTTTTAAACGT-CAATAACGAAT-TTC-ACGGACA-ACGCGTGGACAGGGAGTGG---A-GGCAGCAAAGTC-GAAAC-------------ATGTTAA-A-GTTCTGGTTTAATTT-TGGAAC--TTTT----------------------TCTTTCGAACGGAGCGAACGAGTTAGGGAGTAAATGTTCACAAGATCATAGA-GGTATTGCG-GAGCTTGATTATTCACTGCTTtgcttactcacaatgacaca
gi|7 : GCATAGAG--TTCCCG-TAGTCTAGTCTA-GAAnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngcttactgatgccataatagagcatagagttcccgtagtctagtctagaa
gi|8 : tagtatttacagttaacagtcaaatgcttgtgcaaaaagataagctaatttttaaacgtcaataacgaatttcacggacaacgcgtggacagggagtggaggcagcaaagtcgaaacatgttaaagttctggtttaattttggaactttttctttcgaacggagcgaacgagttagggagtaaatgttcacaagatcatagaggtattgcggagcttgattattcactgcttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngcttactgatgccataatagaCAATACGA-TAATTTGTATAGCGC--A----AT----------------------GCTCT-AAT-GC----GCTT-AAGAAGCATT-AGCAATAAAA-----GAC-----ATA----CACAGC---ATA-----------AAACAAAA-CATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTAAAT-CTTTCCA--------GAACATGATAGT-A---------TTTACAG-TG--AACAGTGAAATG-CT-TG----------------TGT--AA-------A---------AAGATAAG-TTAATTCCTTTTAAACGTCAAT----AAT----GAATGGGCACTTCTCAGC-TTC-ATGGGCA-AAGCATTC-CAGAGAGTGA---C-GGCAGCAAAGCC-AAAACGACG-TTTTCCGCATGTTAC-A-ATTCTGGTTT----A-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACAAGTTGGGGAGTAAATATTTAAAAGATCACAAA-GGTA----------TTGATTATTCACTGCTTTGTATAC
gi|9 : ataACGAATAATTTGTATAGCG--------ACAT--------------------GCTCTTAAT-GC----GCT---ATAAGAATTAGGCAATTAAA------ACTT---ATA----CA--GTCGCATA-----------AAACAAAC-A-TGCA-ATTAATAAAATAGAGTTAGG---ATCATAAAACGATGTTAAAT-CTTTCCA--------GAACATGATAGT-A---------TTTACAGATG--AACAGTGAAATGGCT-TG----------------GT----A-------A---------AAAATAAG-TTATTCCTTTTTAACGTCACAAT---AAT----GGATGG-CACTTCTCAGC-TTC-ATGGGCA-A-GCATTC-CAGAGAGTGA---CCGGCAGCAA-GCC-AAAACGACG---TTTCGCATGTTAC-ACATTCTGGTTA----T--GGA----TTTT---AAA-CGCA-TGAA------TCTTTCGAACGG-GCGAACAAGTTGGGGA-TAAATATTTAAAAGATCACCAAAGGTATTG----------ATTATTCACTGCTTTGTATACa
3 sequences could not be aligned to this reference sequence:
Unaligned ( gi|4 ): TGGTACATAAACAGTAGATTTCCCGTATCTAGTCCAGATAGTGCAAGCGATTTTAAACGTTTGATAAAAAAATTGTCAGAGGTCGCCAAACTAATGAGTCACCATTTTATCTTTTGAACTAATGCCATTCCACTTTAATTTGACCTTTAGTCACAATCTGTTATCAAATTCATAATAGATGTGGGTCATATAGTGTTTGTAATACTCGACCAGCGTGGACTTCTGTTTTGGTGCTACATCATTTTCTCTAGTTTTAACATTGATGTCTTGGGAAATTAACGTACATTATTGACTTAGATGGGTTTGGTGCGGTTTCTTTGTTTTGTTTTTTCTTTTGGCCTGTTTTTTGTAATTTATTTTATTCCGTATTTTTTTTAATATTTCAATTTTAAATTTAAAATTTTATTCATTATAATATTTATTTGTTGGGTTATTTTTTTCCGCCTGGTTGTAATTTTAATGATAGAACCAAGATTCCACAATCTGAAACCGTTTCATTAAATTTCAAAACATTGAGTAGGGTGATCAGCTATAAAATTATGA
Unaligned ( gi|25 ): TATATGACATAACACCCCCCCCCAAAAAAAAAGAACCGATTGATGCAATGGAGTTACAACTTCAATA
Unaligned ( gi|27 ): CCAGACAATTTATTTTATGTGGCCTAA
Alignments
lowQualScore : 1111111111111111111111111
lowQualScore : 2222222 11111 1111 11 22222222222 11111111 111111111 2222222222222222 11111111111111111 0000000000000000000000000 111111 111 999999999999999999999999999999999999999999999999999999999999999999
lowQualScore : 4 55 2222222 555 99999 3 3 7777 3 3 99999 77777 2222 00 666 22222222222 44 3 3 22222222 3 444444444 3 66 4 4 4444444444444444 55 55555555555555555 0 3 9999999999999999999999999 8888 6 4 4 1 4 3 4 88888 4 66 0 1 5 5 9999 4 66 777 4 444444 1 2 1 1 11 4 0 4 1 444 1 0 0 0 1 3 1 0 5 0 3 0 5 0 1 5 0 55 888888888888888888888888888888888888888888888888888888888888888888 5 77 0 1 5
lowQualScore : . .. ....... ... ..... . . .... . . ..... ..... .... .. ... ........... .. . . ........ . ......... . .. . . ................ .. ................. . . ......................... .... . . . . . . . ..... . .. . . . . .... . .. ... . ...... . . . . .. . . . . ... . . . . . . . . . . . . . . . . . .. .................................................................. . .. . . .
lowQualScore : 4 55 8888888 555 11111 3 3 1111 3 3 11111 55555 7777 00 444 99999999999 33 3 3 11111111 6 555555555 3 11 0 0 1111111111111111 00 22222222222222222 8 3 6666666666666666666666666 5555 6 0 0 6 0 2 0 33333 4 44 2 1 0 0 4444 4 11 888 4 444444 7 7 7 1 11 4 1 4 1 000 0 8 8 8 0 2 4 8 0 6 2 8 0 8 0 0 8 88 333333333333333333333333333333333333333333333333333333333333333333 7 99 7 0 7
consensus : CAATACGA-TAATTTGTATAGCGC--A----ACATA-TACTT-----AAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATA----CA--AT---ATA-----------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATAAG-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGCATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACGAGTTGGGGAGTAAATGTTCACAAGATCACNAA-GGTATTGCG-GAGCTTGATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGNGAGCCAGTGGAGATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCTTCGTACGAGTTATCACCCNTGCTGCTGTGTTTTGAACT-----TTCTGCAGC---T---AAGTAAGA-------------CGT-T-------------------AGCA-TAGAG--TTCCCGTAGTCTAGTCCAGA-AGTGACA
Reference ( family-1088 ) : CAATACGA-TAATTTGTATAGCGC--A----ACATA-TACTT-----AAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATA----CA--AT---ATA-----------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATAAG-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGCATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACGAGTTGGGGAGTAAATGTTCACAAGATCACNAA-GGTATTGCG-GAGCTTGATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGNGAGCCAGTGGAGATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCTTCGTACGAGTTATCACCCNTGCTGCTGTGTTTTGAACT-----T-----AAC---T---AAGTAAGA-------------CAT-T-------------------AGCA-TAGAG--TTCCCGTAGTCTAGTCNAGA-AGTGACA
gi|1 : CAATACGA-TAATTTGTATAGCGC--ATTATACATG-TACTT-----AAAGTAAAGCTTT-CAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ACA----CA--AT---ATA-----------AAACAAAA-AATGTAGATTAATAGAATAGAATTAAGTGTATAATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATA-------------TTCACAG-TT--AACAATCATATG-CT-TG----------------TTT--AA-------A---------AAGGTAAG-T-------------------------AAT----GAATGGACACTTCTCAGA-TTC-ACGGTCA-AAGTGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTGCGTATGTTAC-A-GTTCTGGTTT----T-GGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACAAGTTGGAGAGTAAATATTCACAAGATCACTAA-GGTAGCGCG-GAGCTTGATTATTCACTGCTTTGTATACAAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGGTAGCCAATGGAAAGCTTTCAAAACTGGGATAATGTGTTCGTTTTTCTT------GGTT---ACCCTT--TGTTATGTT
gi|10 : TTCTGGATT----T-TGGAACATTTTT---AAAACGCAGTGAAATAATTTCTTTCGAACGGAGCGAACAAGTAGGAGAGTAAATGTTCACAAGAGCAGTAA-GGTATTGCG-GAGCTTGATTATTCTCTGCTTTGTATAAGAAG---AGAATAATTTTGT-TTGGCATCTATA-TCTACCGGGAGCCAGT---AATCTTTCA------------------CATTTT-----GTACGAGTTATCACCTATGCCGCTGTGTTTTGAACT-----TTCTGCAGCTTAT---AAATAAGA-------------TGT-TTATTAAGCTAAGGCAATAAAGCA-TAGAG--TTCCCGTAGTCTAGTCGAGA-AGTGACAgccaccaaacaatgggcatgaggatattatggttgatgaggtaacaaggat
gi|11 : aCGATACGA-TAATTTGTATAGCGC--A----A--TA-TACTT-----AAAGTAAAGCTCT-AATTGC----GCTTTGACAAGCATT-GGCAATAAAA-----GGC-----AT-----CT--AT---ACA-----------ATATAAAA-AA-GCAGATTAATAAAATAGAGTTAAATGTATCATAAAA-GATGTCAAAAACTTTCCA--------GTACTTGATAGTTA---------TTTACAT-TT--AACAGTCAAATG-CTGTA----------------TTTTAAATCCTTTTA---------AACGTCAA-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGTGTTC-TAGAGAGTGG---A-GGCAGCATAGTC-GAAACGACG-ACTTCCGTATGTTAT-A-GTTCTGGTTT----T-TGGAAT--TTTT---AAA-CGCAGTGAA------caagcgagttgatgaaggtttcgcagcatcttccgaaatgtaaaatcaaatgaggatgatgtttctaaggttca
gi|12 : aataTA-----------AAACAAAA-CATGCAGATTAATAAAAAAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-TT-TG----------------TTT--AA-------A---------AAGATAAG-TTTTTAAATCCTTTTTAAACATCAATAAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAACAAAGT
gi|13 : accagacaatttattttatgtggccGTAGATATTCACAAGTTCTGTAA-GTTATTGCGAGAG--TGGTCATTCAGTGCCTTGTATACAAAGCGAAAAAGAATT--GTATCGACATCTTTATTCTACCGCGAGCCAGTGGGGAT-TTTCAAAACTGGAGTAAGATGCT----TTTCTTCGTACGAGTTATCACCCTTTCTACTG---TTTG---T-----T-----AAA---T---AAGCAAGA-------------CAT-T-------------------TGCA-TAGAA--TTACTGTATTATAGTTAAGA-CGTGACA
gi|14 : CAGTACGA-TAATTTATATAGCGC--A----A--TA-TACTT-----AAAGTAAAGCTTC-AAT-GC----ACTT-GACAAGCATT-AGTAATAAAA-----GAC-----ATATA--CA--AT---ATA-----------AAACAAAA-CATGCAAATTAATAATATAGAGTTAAGTGTATCATTAAA-CATATCAAAT-TTTTTCA--------GTACATGATAGT-A---------TTTACAG-TTAAAATAGTCAAATA-CT-TG----------------TTT--AA-------A---------AAGAAAAG-T-------------------------cgaa
gi|15 : CAATACAA-TAATTTGTATAGCGCGCA----GTATACTATTTTGAAAAAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATATATACA--AT---ATA-----------AAACAAAA-CATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTACAA-CTTTCCAGTACTCCGGTACATGATAGT-A---------TTTACAG-ttttcaatctttttaa
gi|16 : CTCT-AAT-GC----GCTT-GACAATCATT-AGCAATAAAA-----GAC-----ATA----TATAAT---ATG-----------AAACAAAAAAATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATGAG-T-------------------------
gi|17 : CAATACGA-TAATTTGTATAGTGC--A----ATATA-T--TT-----AAAGTAACGCTCT-AAT-GC----GCTT-GACAAGCATT-AGCAATAAAAAGAGTGACGTATTATA----CA--AT---ATA-----------AAACAAAA-CATGCAGATTAATAAAATAGAGTTAAGTGTATCATACAA-GATGTCAAAA-CTTTCCA--------GAACATGATAGT-A---------TTTACAG-Tttttaaatcctttttaaacgccaa
gi|18 : taATTTGTATAGCGC--A----G--TA-TACTT-----AAAATAAAGCTCT-AAT-GCATGCGCTT-GACAAGCATG-GGCAATAAAA-----GACAT---ATA----CA--AT---ATAACCCCCCCCCCAAAAAAAA-AATGCAGATTAAAGAAATAGAGTT-------------AA-AACGTCAAAA-ATTTCCA--------GTACATG
gi|19 : CAATGCGG-TAATTTGTATAGCGC--A------ATA-TACTT-----AAAGTAAAGCT---------------TT-AACAGACAT-------------------------ATA----CA--AT---ATAAAAC-------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTAAAA-CTTTCCA--------AT
gi|2 : a-------------------AACA-TAGAGATTTCCCGTAGTCTAGTCCAGA-AGTGACA
gi|20 : tactggtaccataaaA-------A---------AAGCCAAC-A-------------------------AAT-----AATTAGAACTTCTCAGT-TTC-ACATGTACAATAGTTC-CAGAGAGATG---A-GACGGCAAAATC-GAAATGACG-ACTTTCGCATGTAAA-A-GATCTAATCT----T-TAGACC--TTTT---AAA-AGCagcgatttaaacgtttgataacaataaattgtcaggaggtcgccaaactacatgagttcaccattttaatcttttgaataatgccattcacttataatttgacctttagtcaccaaatctgtttataaattcatatagatgcgtgggtcctaaagttttgtaaatagcttcgaccagcgtggactttgttttggtgctacatcactttttctctaagttttaaacattgaatgtcttgggaaattaacgtacatgttttatgacttagatgggttggtgcggtttctttgtttttttttttcttttggctgtttttttgtatttatattttattcgtaattttttttttttatatttcaatttttaaattaaattttttattcatttataaatttatttgttgggtgtttttttttttttccgccttggttgtaattttaatgatagaacaagattccacatggaaccgttttcattaaatgctcaaacattgatcag
gi|21 : -CT-TG----------------CTT--AA-------A---------AAGATAAG-TTTTTAAATCCCTT------------AAT----GAATGGGCACTTATCAGTGTTC------CA-GAGA-----CAGAGAGTAGCTCA-GGCAGCAAAGTC-GAAACGATG-ACTT
gi|22 : -----ATA----C----T---ATA-----------AAACACAA-AATGCAGATGAATTAAATGAAATTATGTATATCATAAAA-TATGTCAAAA-CTTTCCA--------GTACATGATAGT-ACAGACTGTATTTACAG-
gi|23 : GAGTAAGTATTCGCAATATGAGCAA-GGTATTGTG-GACCTTGGATATTCACTGCATT
gi|24 : aatcttccaaaaaacctgtggacataaccggcaCAATACGA-TAATTTGTATAGCGC--A----ACATA---CTT-----AAAGTGAAGCTGT-ATT-GC----ACTT-GATAAGCGTT-GGCAATAAAA-----GAC-----A
gi|26 : gatg-TACTT-----ATAGTACAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAA
gi|3 : -------------------AACA-TAGAT--TTCCCGTAGTCTAGTCCAGA-AGTGACA
gi|4 : tactggtaccataaA-------------CAT-A-------------------AACAGTAGAT--TTCCCGTA-TCTAGTCCAGATAGTGagcgatttaacgtttgataacaataacattgtcaggtcgccaaactaatgagtcaccattttatcttttgaataatgccattccacttataatttgacctttagtcaccaaatctgttatcaaattcataatagatgagtgggtcctaagttttgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttaacattgaatgtcttgggaaattaacgtacatgtatatgacttagatgggttggtgcggtttctttgttttgttttttcttttggctgttttttgtatttattttattcgtatttttttttatatttcaatttttaaatttaaatttttattcatttataaatttatttgttgggtttttttttccgccttggttgtaattttaatgatagaaccagattccacatggaaaccgttttcattaaatgtcaaaacattgatcaggtgatcagctatataaaatatca
gi|5 : tggt----------------TTT--TA-------A---------ACG-TCAA-T-------------------------AAT----GAATGG-CACTTCTCAGT-TTCCACGG-CA-A-GTGTTC-CAGAGA-TGG---G-GGCAGCAAAGTCAGAAACGACGGACTTCTGTATGTTACCA-GTTCTGGTTT----TTTGGAAC--TTTT---AAA-CGCAGTGAA------TATGTCGAACGGTGCGACCCAATTGGAGAGTAAATGTTCACAAGATCACAAA-GGTATTGCA-CAGCTTAATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTCTATTGGCATCTATATTATACCGTGAGCCAGTGGAGATCTTTCAAAACT-GGGTAATGTGTTCTTTTTTCTTCGTACGAGTTATCACCCGTGCTGCTGTGTATT-AACTCTCTGC-----AGC---TTTGAGGTAAGATGCTTACTGATGCCATAT-------------------AGCA-TAGAG--TTCTCGTAGTCTAGTCTAGA-AGTGACAcaagcgattttaaacgtttgataaaaaaattgtcagaggtcgccaaactaatgagtcaccattttatcttttgaactaatgccattccactttaatttgacctttagtcacaatctgttatcaaattcataatagatgtgggtcatatagtgtttgtaatactcgaccagcgtggacttctgttttggtgctacatcattttctctagttttaacattgatgtcttgggaaattaacgtacattattgacttagatgggtttggtgcggtttctttgttttgttttttcttttggcctgttttttgtaatttattttattccgtattttttttaatatttcaattttaaatttaaaattttattcattataatatttatttgttgggttatttttttccgcctggttgtaattttaatgatagaaccaagattccacaatctgaaaccgtttcattaaatttcaaaacattgagtagggtgatcagctataaaattatga
gi|6 : aaaaataagttttaagatcaAG-TT--AACAGTCAAATG-CT-TGTTTAAAAAGATAGGTTTTT--AA-------ATCCTTTTTAAACGTCAA-T-------------------------ATT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGTATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTTTTGAAA-CACAGTGAA------TCTTTCGAACGGAGCAAACGAGT--AGGA--AAATGTTGACAAGATCTCTAA-GGTATTGCG-GAGCTTGATTATTCACTACTTTGTATAAGAAA---GTAAGAATTTTGTATTGGCCTCTGTATTCTACCGACAGTCCGTAGATATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCCTCGTACGAGTTATCACCCGAGCTGCTGTGTTTTGAACT-----TTCTGCAGC---T---AAGTAAGA-------------agcgagttgataggaattttgcaggcatcctccgaaatgtaggatataaggaatattcctggtcat
gi|7 : TAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TGC--AA-------A---------AAGATAAGCT-------------------------AATTTTTAAACGT-CAATAACGAAT-TTC-ACGGACA-ACGCGTGGACAGGGAGTGG---A-GGCAGCAAAGTC-GAAAC-------------ATGTTAA-A-GTTCTGGTTTAATTT-TGGAAC--TTTT----------------------TCTTTCGAACGGAGCGAACGAGTTAGGGAGTAAATGTTCACAAGATCATAGA-GGTATTGCG-GAGCTTGATTATTCACTGCTTtgcttactcacaatgacaca
gi|7 : -------------------AGCA-TAGAG--TTCCCGTAGTCTAGTCTAGA-nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngcttactgatgccataatagagcatagagttcccgtagtctagtctagaa
gi|8 : tagtatttacagttaacagtcaaatgcttgtgcaaaaagataagctaatttttaaacgtcaataacgaatttcacggacaacgcgtggacagggagtggaggcagcaaagtcgaaacatgttaaagttctggtttaattttggaactttttctttcgaacggagcgaacgagttagggagtaaatgttcacaagatcatagaggtattgcggagcttgattattcactgcttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngcttactgatgccataatagCAATACGA-TAATTTGTATAGCGC--A----AT----------------------GCTCT-AAT-GC----GCTT-AAGAAGCATT-AGCAATAAAA-----GAC-----ATA----CACAGC---ATA-----------AAACAAAA-CATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTAAAT-CTTTCCA--------GAACATGATAGT-A---------TTTACAG-TG--AACAGTGAAATG-CT-TG----------------TGT--AA-------A---------AAGATAAG-TTAATTCCTTTTAAACGTCAAT----AAT----GAATGGGCACTTCTCAGC-TTC-ATGGGCA-AAGCATTC-CAGAGAGTGA---C-GGCAGCAAAGCC-AAAACGACG-TTTTCCGCATGTTAC-A-ATTCTGGTTT----A-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACAAGTTGGGGAGTAAATATTTAAAAGATCACAAA-GGTA----------TTGATTATTCACTGCTTTGTATAC
gi|9 : ataACGAATAATTTGTATAGCG--------ACAT--------------------GCTCTTAAT-GC----GCT---ATAAGAATTAGGCAATTAAA------ACTT---ATA----CA--GTCGCATA-----------AAACAAAC-A-TGCA-ATTAATAAAATAGAGTTAGG---ATCATAAAACGATGTTAAAT-CTTTCCA--------GAACATGATAGT-A---------TTTACAGATG--AACAGTGAAATGGCT-TG----------------GT----A-------A---------AAAATAAG-TTATTCCTTTTTAACGTCACAAT---AAT----GGATGG-CACTTCTCAGC-TTC-ATGGGCA-A-GCATTC-CAGAGAGTGA---CCGGCAGCAA-GCC-AAAACGACG---TTTCGCATGTTAC-ACATTCTGGTTA----T--GGA----TTTT---AAA-CGCA-TGAA------TCTTTCGAACGG-GCGAACAAGTTGGGGA-TAAATATTTAAAAGATCACCAAAGGTATTG----------ATTATTCACTGCTTTGTATACa
2 sequences could not be aligned to this reference sequence:
Unaligned ( gi|25 ): TATATGACATAACACCCCCCCCCAAAAAAAAAGAACCGATTGATGCAATGGAGTTACAACTTCAATA
Unaligned ( gi|27 ): CCAGACAATTTATTTTATGTGGCCTAA
Alignments
lowQualScore : 1111111111111111111111111
lowQualScore : 2222222 11111 1111 11 22222222222 11111111 111111111 2222222222222222 11111111111111111 0000000000000000000000000 111111 111 2222222 8888888888888888888888888888888888
lowQualScore : 4 55 2222222 555 99999 3 3 7777 3 3 99999 77777 2222 00 666 22222222222 44 3 3 22222222 3 444444444 3 66 4 4 4444444444444444 55 55555555555555555 0 3 9999999999999999999999999 8888 6 4 4 1 4 3 4 88888 4 66 0 1 5 5 9999 4 66 777 4 444444 1 2 1 1 11 4 0 4 1 444 1 0 0 0 1 3 1 0 5 0 3 0 5 0 1 5 1 6 2 0 6666666 1111111111111111111111111111111111 5 77 0 1 5
lowQualScore : . .. ....... ... ..... . . .... . . ..... ..... .... .. ... ........... .. . . ........ . ......... . .. . . ................ .. ................. . . ......................... .... . . . . . . . ..... . .. . . . . .... . .. ... . ...... . . . . .. . . . . ... . . . . . . . . . . . . . . . . . . . . ....... .................................. . .. . . .
lowQualScore : 4 55 8888888 555 11111 3 3 1111 3 3 11111 55555 7777 00 444 99999999999 33 3 3 11111111 6 555555555 3 11 0 0 1111111111111111 00 22222222222222222 8 3 6666666666666666666666666 5555 6 0 0 6 0 2 0 33333 4 44 2 1 0 0 4444 4 11 888 4 444444 7 7 7 1 11 4 1 4 1 000 0 8 8 8 0 2 4 8 0 6 2 8 0 8 0 0 0 5 5 8 0000000 9999999999999999999999999999999999 7 99 7 7 7
consensus : CAATACGA-TAATTTGTATAGCGC--A----ACATA-TACTT-----AAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATA----CA--AT---ATA-----------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATAAG-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGCATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACGAGTTGGGGAGTAAATGTTCACAAGATCACNAA-GGTATTGCG-GAGCTTGATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGNGAGCCAGTGGAGATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCTTCGTACGAGTTATCACCCNTGCTGCTGTGTTTTGAACTTTCTGCAGC---T---AAGTAAGACGT--------------T-------------------AGCA-TAGAG--TTCCCGTAGTCTAGTCCAGA-AGTGACA
Reference ( family-1088 ) : CAATACGA-TAATTTGTATAGCGC--A----ACATA-TACTT-----AAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATA----CA--AT---ATA-----------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATAAG-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGCATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACGAGTTGGGGAGTAAATGTTCACAAGATCACNAA-GGTATTGCG-GAGCTTGATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGNGAGCCAGTGGAGATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCTTCGTACGAGTTATCACCCNTGCTGCTGTGTTTTGAACTTTCTGCAGC---T---AAGTAAGACGT--------------T-------------------AGCA-TAGAG--TTCCCGTAGTCTAGTCCAGA-AGTGACA
gi|1 : CAATACGA-TAATTTGTATAGCGC--ATTATACATG-TACTT-----AAAGTAAAGCTTT-CAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ACA----CA--AT---ATA-----------AAACAAAA-AATGTAGATTAATAGAATAGAATTAAGTGTATAATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATA-------------TTCACAG-TT--AACAATCATATG-CT-TG----------------TTT--AA-------A---------AAGGTAAG-T-------------------------AAT----GAATGGACACTTCTCAGA-TTC-ACGGTCA-AAGTGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTGCGTATGTTAC-A-GTTCTGGTTT----T-GGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACAAGTTGGAGAGTAAATATTCACAAGATCACTAA-GGTAGCGCG-GAGCTTGATTATTCACTGCTTTGTATACAAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGGTAGCCAATGGAAAGCTTTCAAAACTGGGATAATGTGTTCGTTTTTCTT------GGTT---ACCCTT--TGTTATGTT
gi|10 : TTCTGGATT----T-TGGAACATTTTT---AAAACGCAGTGAAATAATTTCTTTCGAACGGAGCGAACAAGTAGGAGAGTAAATGTTCACAAGAGCAGTAA-GGTATTGCG-GAGCTTGATTATTCTCTGCTTTGTATAAGAAG---AGAATAATTTTGT-TTGGCATCTATA-TCTACCGGGAGCCAGT---AATCTTTCA------------------CATTTT-----GTACGAGTTATCACCTATGCCGCTGTGTTTTGAACTTTCTGCAGCTTAT---AAATAAGATGT--------------TTATTAAGCTAAGGCAATAAAGCA-TAGAG--TTCCCGTAGTCTAGTCGAGA-AGTGACAgccaccaaacaatgggcatgaggatattatggttgatgaggtaacaaggat
gi|11 : aCGATACGA-TAATTTGTATAGCGC--A----A--TA-TACTT-----AAAGTAAAGCTCT-AATTGC----GCTTTGACAAGCATT-GGCAATAAAA-----GGC-----AT-----CT--AT---ACA-----------ATATAAAA-AA-GCAGATTAATAAAATAGAGTTAAATGTATCATAAAA-GATGTCAAAAACTTTCCA--------GTACTTGATAGTTA---------TTTACAT-TT--AACAGTCAAATG-CTGTA----------------TTTTAAATCCTTTTA---------AACGTCAA-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGTGTTC-TAGAGAGTGG---A-GGCAGCATAGTC-GAAACGACG-ACTTCCGTATGTTAT-A-GTTCTGGTTT----T-TGGAAT--TTTT---AAA-CGCAGTGAA------caagcgagttgatgaaggtttcgcagcatcttccgaaatgtaaaatcaaatgaggatgatgtttctaaggttca
gi|12 : aataTA-----------AAACAAAA-CATGCAGATTAATAAAAAAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-TT-TG----------------TTT--AA-------A---------AAGATAAG-TTTTTAAATCCTTTTTAAACATCAATAAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAACAAAGT
gi|13 : accagacaatttattttatgtggccGTAGATATTCACAAGTTCTGTAA-GTTATTGCGAGAG--TGGTCATTCAGTGCCTTGTATACAAAGCGAAAAAGAATT--GTATCGACATCTTTATTCTACCGCGAGCCAGTGGGGAT-TTTCAAAACTGGAGTAAGATGCT----TTTCTTCGTACGAGTTATCACCCTTTCTACTGTTTGTTAAA--------------T---AAGCAAGACAT--------------T-------------------TGCA-TAGAA--TTACTGTATTATAGTTAAGA-CGTGACA
gi|14 : CAGTACGA-TAATTTATATAGCGC--A----A--TA-TACTT-----AAAGTAAAGCTTC-AAT-GC----ACTT-GACAAGCATT-AGTAATAAAA-----GAC-----ATATA--CA--AT---ATA-----------AAACAAAA-CATGCAAATTAATAATATAGAGTTAAGTGTATCATTAAA-CATATCAAAT-TTTTTCA--------GTACATGATAGT-A---------TTTACAG-TTAAAATAGTCAAATA-CT-TG----------------TTT--AA-------A---------AAGAAAAG-T-------------------------cgaa
gi|15 : CAATACAA-TAATTTGTATAGCGCGCA----GTATACTATTTTGAAAAAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATATATACA--AT---ATA-----------AAACAAAA-CATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTACAA-CTTTCCAGTACTCCGGTACATGATAGT-A---------TTTACAG-ttttcaatctttttaa
gi|16 : CTCT-AAT-GC----GCTT-GACAATCATT-AGCAATAAAA-----GAC-----ATA----TATAAT---ATG-----------AAACAAAAAAATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATGAG-T-------------------------
gi|17 : CAATACGA-TAATTTGTATAGTGC--A----ATATA-T--TT-----AAAGTAACGCTCT-AAT-GC----GCTT-GACAAGCATT-AGCAATAAAAAGAGTGACGTATTATA----CA--AT---ATA-----------AAACAAAA-CATGCAGATTAATAAAATAGAGTTAAGTGTATCATACAA-GATGTCAAAA-CTTTCCA--------GAACATGATAGT-A---------TTTACAG-Tttttaaatcctttttaaacgccaa
gi|18 : taATTTGTATAGCGC--A----G--TA-TACTT-----AAAATAAAGCTCT-AAT-GCATGCGCTT-GACAAGCATG-GGCAATAAAA-----GACAT---ATA----CA--AT---ATAACCCCCCCCCCAAAAAAAA-AATGCAGATTAAAGAAATAGAGTT-------------AA-AACGTCAAAA-ATTTCCA--------GTACATG
gi|19 : CAATGCGG-TAATTTGTATAGCGC--A------ATA-TACTT-----AAAGTAAAGCT---------------TT-AACAGACAT-------------------------ATA----CA--AT---ATAAAAC-------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTAAAA-CTTTCCA--------AT
gi|2 : a-------------------AACA-TAGAGATTTCCCGTAGTCTAGTCCAGA-AGTGACA
gi|20 : tactggtaccataaaA-------A---------AAGCCAAC-A-------------------------AAT-----AATTAGAACTTCTCAGT-TTC-ACATGTACAATAGTTC-CAGAGAGATG---A-GACGGCAAAATC-GAAATGACG-ACTTTCGCATGTAAA-A-GATCTAATCT----T-TAGACC--TTTT---AAA-AGCagcgatttaaacgtttgataacaataaattgtcaggaggtcgccaaactacatgagttcaccattttaatcttttgaataatgccattcacttataatttgacctttagtcaccaaatctgtttataaattcatatagatgcgtgggtcctaaagttttgtaaatagcttcgaccagcgtggactttgttttggtgctacatcactttttctctaagttttaaacattgaatgtcttgggaaattaacgtacatgttttatgacttagatgggttggtgcggtttctttgtttttttttttcttttggctgtttttttgtatttatattttattcgtaattttttttttttatatttcaatttttaaattaaattttttattcatttataaatttatttgttgggtgtttttttttttttccgccttggttgtaattttaatgatagaacaagattccacatggaaccgttttcattaaatgctcaaacattgatcag
gi|21 : -CT-TG----------------CTT--AA-------A---------AAGATAAG-TTTTTAAATCCCTT------------AAT----GAATGGGCACTTATCAGTGTTC------CA-GAGA-----CAGAGAGTAGCTCA-GGCAGCAAAGTC-GAAACGATG-ACTT
gi|22 : -----ATA----C----T---ATA-----------AAACACAA-AATGCAGATGAATTAAATGAAATTATGTATATCATAAAA-TATGTCAAAA-CTTTCCA--------GTACATGATAGT-ACAGACTGTATTTACAG-
gi|23 : GAGTAAGTATTCGCAATATGAGCAA-GGTATTGTG-GACCTTGGATATTCACTGCATT
gi|24 : aatcttccaaaaaacctgtggacataaccggcaCAATACGA-TAATTTGTATAGCGC--A----ACATA---CTT-----AAAGTGAAGCTGT-ATT-GC----ACTT-GATAAGCGTT-GGCAATAAAA-----GAC-----A
gi|26 : gatg-TACTT-----ATAGTACAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAA
gi|3 : -------------------AACA-TAGAT--TTCCCGTAGTCTAGTCCAGA-AGTGACA
gi|4 : tactggtaccataaACAT--------------A-------------------AACAGTAGAT--TTCCCGTA-TCTAGTCCAGATAGTGagcgatttaacgtttgataacaataacattgtcaggtcgccaaactaatgagtcaccattttatcttttgaataatgccattccacttataatttgacctttagtcaccaaatctgttatcaaattcataatagatgagtgggtcctaagttttgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttaacattgaatgtcttgggaaattaacgtacatgtatatgacttagatgggttggtgcggtttctttgttttgttttttcttttggctgttttttgtatttattttattcgtatttttttttatatttcaatttttaaatttaaatttttattcatttataaatttatttgttgggtttttttttccgccttggttgtaattttaatgatagaaccagattccacatggaaaccgttttcattaaatgtcaaaacattgatcaggtgatcagctatataaaatatca
gi|5 : tggt----------------TTT--TA-------A---------ACG-TCAA-T-------------------------AAT----GAATGG-CACTTCTCAGT-TTCCACGG-CA-A-GTGTTC-CAGAGA-TGG---G-GGCAGCAAAGTCAGAAACGACGGACTTCTGTATGTTACCA-GTTCTGGTTT----TTTGGAAC--TTTT---AAA-CGCAGTGAA------TATGTCGAACGGTGCGACCCAATTGGAGAGTAAATGTTCACAAGATCACAAA-GGTATTGCA-CAGCTTAATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTCTATTGGCATCTATATTATACCGTGAGCCAGTGGAGATCTTTCAAAACT-GGGTAATGTGTTCTTTTTTCTTCGTACGAGTTATCACCCGTGCTGCTGTGTATT-AACTCTCTGCAGC---TTTGAGGTAAGATGCTTACTGATGCCATAT-------------------AGCA-TAGAG--TTCTCGTAGTCTAGTCTAGA-AGTGACAcaagcgattttaaacgtttgataaaaaaattgtcagaggtcgccaaactaatgagtcaccattttatcttttgaactaatgccattccactttaatttgacctttagtcacaatctgttatcaaattcataatagatgtgggtcatatagtgtttgtaatactcgaccagcgtggacttctgttttggtgctacatcattttctctagttttaacattgatgtcttgggaaattaacgtacattattgacttagatgggtttggtgcggtttctttgttttgttttttcttttggcctgttttttgtaatttattttattccgtattttttttaatatttcaattttaaatttaaaattttattcattataatatttatttgttgggttatttttttccgcctggttgtaattttaatgatagaaccaagattccacaatctgaaaccgtttcattaaatttcaaaacattgagtagggtgatcagctataaaattatga
gi|6 : aaaaataagttttaagatcaAG-TT--AACAGTCAAATG-CT-TGTTTAAAAAGATAGGTTTTT--AA-------ATCCTTTTTAAACGTCAA-T-------------------------ATT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGTATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTTTTGAAA-CACAGTGAA------TCTTTCGAACGGAGCAAACGAGT--AGGA--AAATGTTGACAAGATCTCTAA-GGTATTGCG-GAGCTTGATTATTCACTACTTTGTATAAGAAA---GTAAGAATTTTGTATTGGCCTCTGTATTCTACCGACAGTCCGTAGATATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCCTCGTACGAGTTATCACCCGAGCTGCTGTGTTTTGAACTTTCTGCAGC---T---AAGTAAGATGC--------------T-------------------agcgagttgataggaattttgcaggcatcctccgaaatgtaggatataaggaatattcctggtcat
gi|7 : TAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TGC--AA-------A---------AAGATAAGCT-------------------------AATTTTTAAACGT-CAATAACGAAT-TTC-ACGGACA-ACGCGTGGACAGGGAGTGG---A-GGCAGCAAAGTC-GAAAC-------------ATGTTAA-A-GTTCTGGTTTAATTT-TGGAAC--TTTT----------------------TCTTTCGAACGGAGCGAACGAGTTAGGGAGTAAATGTTCACAAGATCATAGA-GGTATTGCG-GAGCTTGATTATTCACTGCTTtactcacaatgacaca
gi|7 : -------------------AGCA-TAGAG--TTCCCGTAGTCTAGTCTAGA-nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngcttactgatgccataatagagcatagagttcccgtagtctagtctagaa
gi|8 : tagtatttacagttaacagtcaaatgcttgtgcaaaaagataagctaatttttaaacgtcaataacgaatttcacggacaacgcgtggacagggagtggaggcagcaaagtcgaaacatgttaaagttctggtttaattttggaactttttctttcgaacggagcgaacgagttagggagtaaatgttcacaagatcatagaggtattgcggagcttgattattcactgcttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngcttactgatgccataatagCAATACGA-TAATTTGTATAGCGC--A----AT----------------------GCTCT-AAT-GC----GCTT-AAGAAGCATT-AGCAATAAAA-----GAC-----ATA----CACAGC---ATA-----------AAACAAAA-CATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTAAAT-CTTTCCA--------GAACATGATAGT-A---------TTTACAG-TG--AACAGTGAAATG-CT-TG----------------TGT--AA-------A---------AAGATAAG-TTAATTCCTTTTAAACGTCAAT----AAT----GAATGGGCACTTCTCAGC-TTC-ATGGGCA-AAGCATTC-CAGAGAGTGA---C-GGCAGCAAAGCC-AAAACGACG-TTTTCCGCATGTTAC-A-ATTCTGGTTT----A-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACAAGTTGGGGAGTAAATATTTAAAAGATCACAAA-GGTA----------TTGATTATTCACTGCTTTGTATAC
gi|9 : ataACGAATAATTTGTATAGCG--------ACAT--------------------GCTCTTAAT-GC----GCT---ATAAGAATTAGGCAATTAAA------ACTT---ATA----CA--GTCGCATA-----------AAACAAAC-A-TGCA-ATTAATAAAATAGAGTTAGG---ATCATAAAACGATGTTAAAT-CTTTCCA--------GAACATGATAGT-A---------TTTACAGATG--AACAGTGAAATGGCT-TG----------------GT----A-------A---------AAAATAAG-TTATTCCTTTTTAACGTCACAAT---AAT----GGATGG-CACTTCTCAGC-TTC-ATGGGCA-A-GCATTC-CAGAGAGTGA---CCGGCAGCAA-GCC-AAAACGACG---TTTCGCATGTTAC-ACATTCTGGTTA----T--GGA----TTTT---AAA-CGCA-TGAA------TCTTTCGAACGG-GCGAACAAGTTGGGGA-TAAATATTTAAAAGATCACCAAAGGTATTG----------ATTATTCACTGCTTTGTATACa
2 sequences could not be aligned to this reference sequence:
Unaligned ( gi|25 ): TATATGACATAACACCCCCCCCCAAAAAAAAAGAACCGATTGATGCAATGGAGTTACAACTTCAATA
Unaligned ( gi|27 ): CCAGACAATTTATTTTATGTGGCCTAA
Alignments
lowQualScore : 1111111111111111111111111
lowQualScore : 2222222 11111 1111 11 22222222222 11111111 111111111 2222222222222222 11111111111111111 0000000000000000000000000 111111 111 2222222 8888888888888888888888888888888888
lowQualScore : 4 55 2222222 555 99999 3 3 7777 3 3 99999 77777 2222 00 666 22222222222 44 3 3 22222222 3 444444444 3 66 4 4 4444444444444444 55 55555555555555555 0 3 9999999999999999999999999 8888 6 4 4 1 4 3 4 88888 4 66 0 1 5 5 9999 4 66 777 4 444444 1 2 1 1 11 4 0 4 1 444 1 0 0 0 1 3 1 0 5 0 3 0 5 0 1 5 1 6 2 0 6666666 1111111111111111111111111111111111 5 77 0 1 5
lowQualScore : . .. ....... ... ..... . . .... . . ..... ..... .... .. ... ........... .. . . ........ . ......... . .. . . ................ .. ................. . . ......................... .... . . . . . . . ..... . .. . . . . .... . .. ... . ...... . . . . .. . . . . ... . . . . . . . . . . . . . . . . . . . . ....... .................................. . .. . . .
lowQualScore : 4 55 8888888 555 11111 3 3 1111 3 3 11111 55555 7777 00 444 99999999999 33 3 3 11111111 6 555555555 3 11 0 0 1111111111111111 00 22222222222222222 8 3 6666666666666666666666666 5555 6 0 0 6 0 2 0 33333 4 44 2 1 0 0 4444 4 11 888 4 444444 7 7 7 1 11 4 1 4 1 000 0 8 8 8 0 2 4 8 0 6 2 8 0 8 0 0 0 5 5 8 0000000 9999999999999999999999999999999999 7 99 7 7 7
consensus : CAATACGA-TAATTTGTATAGCGC--A----ACATA-TACTT-----AAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATA----CA--AT---ATA-----------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATAAG-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGCATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACGAGTTGGGGAGTAAATGTTCACAAGATCACNAA-GGTATTGCG-GAGCTTGATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGNGAGCCAGTGGAGATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCTTCGTACGAGTTATCACCCNTGCTGCTGTGTTTTGAACTTTCTGCAGC---T---AAGTAAGACGT--------------T-------------------AGCA-TAGAG--TTCCCGTAGTCTAGTCCAGA-AGTGACA
Reference ( family-1088 ) : CAATACGA-TAATTTGTATAGCGC--A----ACATA-TACTT-----AAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATA----CA--AT---ATA-----------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATAAG-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGCATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACGAGTTGGGGAGTAAATGTTCACAAGATCACNAA-GGTATTGCG-GAGCTTGATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGNGAGCCAGTGGAGATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCTTCGTACGAGTTATCACCCNTGCTGCTGTGTTTTGAACTTTCTGCAGC---T---AAGTAAGACGT--------------T-------------------AGCA-TAGAG--TTCCCGTAGTCTAGTCCAGA-AGTGACA
gi|1 : CAATACGA-TAATTTGTATAGCGC--ATTATACATG-TACTT-----AAAGTAAAGCTTT-CAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ACA----CA--AT---ATA-----------AAACAAAA-AATGTAGATTAATAGAATAGAATTAAGTGTATAATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATA-------------TTCACAG-TT--AACAATCATATG-CT-TG----------------TTT--AA-------A---------AAGGTAAG-T-------------------------AAT----GAATGGACACTTCTCAGA-TTC-ACGGTCA-AAGTGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTGCGTATGTTAC-A-GTTCTGGTTT----T-GGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACAAGTTGGAGAGTAAATATTCACAAGATCACTAA-GGTAGCGCG-GAGCTTGATTATTCACTGCTTTGTATACAAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGGTAGCCAATGGAAAGCTTTCAAAACTGGGATAATGTGTTCGTTTTTCTT------GGTT---ACCCTT--TGTTATGTT
gi|10 : TTCTGGATT----T-TGGAACATTTTT---AAAACGCAGTGAAATAATTTCTTTCGAACGGAGCGAACAAGTAGGAGAGTAAATGTTCACAAGAGCAGTAA-GGTATTGCG-GAGCTTGATTATTCTCTGCTTTGTATAAGAAG---AGAATAATTTTGT-TTGGCATCTATA-TCTACCGGGAGCCAGT---AATCTTTCA------------------CATTTT-----GTACGAGTTATCACCTATGCCGCTGTGTTTTGAACTTTCTGCAGCTTAT---AAATAAGATGT--------------TTATTAAGCTAAGGCAATAAAGCA-TAGAG--TTCCCGTAGTCTAGTCGAGA-AGTGACAgccaccaaacaatgggcatgaggatattatggttgatgaggtaacaaggat
gi|11 : aCGATACGA-TAATTTGTATAGCGC--A----A--TA-TACTT-----AAAGTAAAGCTCT-AATTGC----GCTTTGACAAGCATT-GGCAATAAAA-----GGC-----AT-----CT--AT---ACA-----------ATATAAAA-AA-GCAGATTAATAAAATAGAGTTAAATGTATCATAAAA-GATGTCAAAAACTTTCCA--------GTACTTGATAGTTA---------TTTACAT-TT--AACAGTCAAATG-CTGTA----------------TTTTAAATCCTTTTA---------AACGTCAA-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGTGTTC-TAGAGAGTGG---A-GGCAGCATAGTC-GAAACGACG-ACTTCCGTATGTTAT-A-GTTCTGGTTT----T-TGGAAT--TTTT---AAA-CGCAGTGAA------caagcgagttgatgaaggtttcgcagcatcttccgaaatgtaaaatcaaatgaggatgatgtttctaaggttca
gi|12 : aataTA-----------AAACAAAA-CATGCAGATTAATAAAAAAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-TT-TG----------------TTT--AA-------A---------AAGATAAG-TTTTTAAATCCTTTTTAAACATCAATAAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAACAAAGT
gi|13 : accagacaatttattttatgtggccGTAGATATTCACAAGTTCTGTAA-GTTATTGCGAGAG--TGGTCATTCAGTGCCTTGTATACAAAGCGAAAAAGAATT--GTATCGACATCTTTATTCTACCGCGAGCCAGTGGGGAT-TTTCAAAACTGGAGTAAGATGCT----TTTCTTCGTACGAGTTATCACCCTTTCTACTGTTTGTTAAA--------------T---AAGCAAGACAT--------------T-------------------TGCA-TAGAA--TTACTGTATTATAGTTAAGA-CGTGACA
gi|14 : CAGTACGA-TAATTTATATAGCGC--A----A--TA-TACTT-----AAAGTAAAGCTTC-AAT-GC----ACTT-GACAAGCATT-AGTAATAAAA-----GAC-----ATATA--CA--AT---ATA-----------AAACAAAA-CATGCAAATTAATAATATAGAGTTAAGTGTATCATTAAA-CATATCAAAT-TTTTTCA--------GTACATGATAGT-A---------TTTACAG-TTAAAATAGTCAAATA-CT-TG----------------TTT--AA-------A---------AAGAAAAG-T-------------------------cgaa
gi|15 : CAATACAA-TAATTTGTATAGCGCGCA----GTATACTATTTTGAAAAAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATATATACA--AT---ATA-----------AAACAAAA-CATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTACAA-CTTTCCAGTACTCCGGTACATGATAGT-A---------TTTACAG-ttttcaatctttttaa
gi|16 : CTCT-AAT-GC----GCTT-GACAATCATT-AGCAATAAAA-----GAC-----ATA----TATAAT---ATG-----------AAACAAAAAAATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATGAG-T-------------------------
gi|17 : CAATACGA-TAATTTGTATAGTGC--A----ATATA-T--TT-----AAAGTAACGCTCT-AAT-GC----GCTT-GACAAGCATT-AGCAATAAAAAGAGTGACGTATTATA----CA--AT---ATA-----------AAACAAAA-CATGCAGATTAATAAAATAGAGTTAAGTGTATCATACAA-GATGTCAAAA-CTTTCCA--------GAACATGATAGT-A---------TTTACAG-Tttttaaatcctttttaaacgccaa
gi|18 : taATTTGTATAGCGC--A----G--TA-TACTT-----AAAATAAAGCTCT-AAT-GCATGCGCTT-GACAAGCATG-GGCAATAAAA-----GACAT---ATA----CA--AT---ATAACCCCCCCCCCAAAAAAAA-AATGCAGATTAAAGAAATAGAGTT-------------AA-AACGTCAAAA-ATTTCCA--------GTACATG
gi|19 : CAATGCGG-TAATTTGTATAGCGC--A------ATA-TACTT-----AAAGTAAAGCT---------------TT-AACAGACAT-------------------------ATA----CA--AT---ATAAAAC-------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTAAAA-CTTTCCA--------AT
gi|2 : a-------------------AACA-TAGAGATTTCCCGTAGTCTAGTCCAGA-AGTGACA
gi|20 : tactggtaccataaaA-------A---------AAGCCAAC-A-------------------------AAT-----AATTAGAACTTCTCAGT-TTC-ACATGTACAATAGTTC-CAGAGAGATG---A-GACGGCAAAATC-GAAATGACG-ACTTTCGCATGTAAA-A-GATCTAATCT----T-TAGACC--TTTT---AAA-AGCagcgatttaaacgtttgataacaataaattgtcaggaggtcgccaaactacatgagttcaccattttaatcttttgaataatgccattcacttataatttgacctttagtcaccaaatctgtttataaattcatatagatgcgtgggtcctaaagttttgtaaatagcttcgaccagcgtggactttgttttggtgctacatcactttttctctaagttttaaacattgaatgtcttgggaaattaacgtacatgttttatgacttagatgggttggtgcggtttctttgtttttttttttcttttggctgtttttttgtatttatattttattcgtaattttttttttttatatttcaatttttaaattaaattttttattcatttataaatttatttgttgggtgtttttttttttttccgccttggttgtaattttaatgatagaacaagattccacatggaaccgttttcattaaatgctcaaacattgatcag
gi|21 : -CT-TG----------------CTT--AA-------A---------AAGATAAG-TTTTTAAATCCCTT------------AAT----GAATGGGCACTTATCAGTGTTC------CA-GAGA-----CAGAGAGTAGCTCA-GGCAGCAAAGTC-GAAACGATG-ACTT
gi|22 : -----ATA----C----T---ATA-----------AAACACAA-AATGCAGATGAATTAAATGAAATTATGTATATCATAAAA-TATGTCAAAA-CTTTCCA--------GTACATGATAGT-ACAGACTGTATTTACAG-
gi|23 : GAGTAAGTATTCGCAATATGAGCAA-GGTATTGTG-GACCTTGGATATTCACTGCATT
gi|24 : aatcttccaaaaaacctgtggacataaccggcaCAATACGA-TAATTTGTATAGCGC--A----ACATA---CTT-----AAAGTGAAGCTGT-ATT-GC----ACTT-GATAAGCGTT-GGCAATAAAA-----GAC-----A
gi|26 : gatg-TACTT-----ATAGTACAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAA
gi|3 : -------------------AACA-TAGAT--TTCCCGTAGTCTAGTCCAGA-AGTGACA
gi|4 : tactggtaccataaACAT--------------A-------------------AACAGTAGAT--TTCCCGTA-TCTAGTCCAGATAGTGagcgatttaacgtttgataacaataacattgtcaggtcgccaaactaatgagtcaccattttatcttttgaataatgccattccacttataatttgacctttagtcaccaaatctgttatcaaattcataatagatgagtgggtcctaagttttgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttaacattgaatgtcttgggaaattaacgtacatgtatatgacttagatgggttggtgcggtttctttgttttgttttttcttttggctgttttttgtatttattttattcgtatttttttttatatttcaatttttaaatttaaatttttattcatttataaatttatttgttgggtttttttttccgccttggttgtaattttaatgatagaaccagattccacatggaaaccgttttcattaaatgtcaaaacattgatcaggtgatcagctatataaaatatca
gi|5 : tggt----------------TTT--TA-------A---------ACG-TCAA-T-------------------------AAT----GAATGG-CACTTCTCAGT-TTCCACGG-CA-A-GTGTTC-CAGAGA-TGG---G-GGCAGCAAAGTCAGAAACGACGGACTTCTGTATGTTACCA-GTTCTGGTTT----TTTGGAAC--TTTT---AAA-CGCAGTGAA------TATGTCGAACGGTGCGACCCAATTGGAGAGTAAATGTTCACAAGATCACAAA-GGTATTGCA-CAGCTTAATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTCTATTGGCATCTATATTATACCGTGAGCCAGTGGAGATCTTTCAAAACT-GGGTAATGTGTTCTTTTTTCTTCGTACGAGTTATCACCCGTGCTGCTGTGTATT-AACTCTCTGCAGC---TTTGAGGTAAGATGCTTACTGATGCCATAT-------------------AGCA-TAGAG--TTCTCGTAGTCTAGTCTAGA-AGTGACAcaagcgattttaaacgtttgataaaaaaattgtcagaggtcgccaaactaatgagtcaccattttatcttttgaactaatgccattccactttaatttgacctttagtcacaatctgttatcaaattcataatagatgtgggtcatatagtgtttgtaatactcgaccagcgtggacttctgttttggtgctacatcattttctctagttttaacattgatgtcttgggaaattaacgtacattattgacttagatgggtttggtgcggtttctttgttttgttttttcttttggcctgttttttgtaatttattttattccgtattttttttaatatttcaattttaaatttaaaattttattcattataatatttatttgttgggttatttttttccgcctggttgtaattttaatgatagaaccaagattccacaatctgaaaccgtttcattaaatttcaaaacattgagtagggtgatcagctataaaattatga
gi|6 : aaaaataagttttaagatcaAG-TT--AACAGTCAAATG-CT-TGTTTAAAAAGATAGGTTTTT--AA-------ATCCTTTTTAAACGTCAA-T-------------------------ATT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGTATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTTTTGAAA-CACAGTGAA------TCTTTCGAACGGAGCAAACGAGT--AGGA--AAATGTTGACAAGATCTCTAA-GGTATTGCG-GAGCTTGATTATTCACTACTTTGTATAAGAAA---GTAAGAATTTTGTATTGGCCTCTGTATTCTACCGACAGTCCGTAGATATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCCTCGTACGAGTTATCACCCGAGCTGCTGTGTTTTGAACTTTCTGCAGC---T---AAGTAAGATGC--------------T-------------------agcgagttgataggaattttgcaggcatcctccgaaatgtaggatataaggaatattcctggtcat
gi|7 : TAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TGC--AA-------A---------AAGATAAGCT-------------------------AATTTTTAAACGT-CAATAACGAAT-TTC-ACGGACA-ACGCGTGGACAGGGAGTGG---A-GGCAGCAAAGTC-GAAAC-------------ATGTTAA-A-GTTCTGGTTTAATTT-TGGAAC--TTTT----------------------TCTTTCGAACGGAGCGAACGAGTTAGGGAGTAAATGTTCACAAGATCATAGA-GGTATTGCG-GAGCTTGATTATTCACTGCTTtactcacaatgacaca
gi|7 : -------------------AGCA-TAGAG--TTCCCGTAGTCTAGTCTAGA-nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngcttactgatgccataatagagcatagagttcccgtagtctagtctagaa
gi|8 : tagtatttacagttaacagtcaaatgcttgtgcaaaaagataagctaatttttaaacgtcaataacgaatttcacggacaacgcgtggacagggagtggaggcagcaaagtcgaaacatgttaaagttctggtttaattttggaactttttctttcgaacggagcgaacgagttagggagtaaatgttcacaagatcatagaggtattgcggagcttgattattcactgcttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngcttactgatgccataatagCAATACGA-TAATTTGTATAGCGC--A----AT----------------------GCTCT-AAT-GC----GCTT-AAGAAGCATT-AGCAATAAAA-----GAC-----ATA----CACAGC---ATA-----------AAACAAAA-CATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTAAAT-CTTTCCA--------GAACATGATAGT-A---------TTTACAG-TG--AACAGTGAAATG-CT-TG----------------TGT--AA-------A---------AAGATAAG-TTAATTCCTTTTAAACGTCAAT----AAT----GAATGGGCACTTCTCAGC-TTC-ATGGGCA-AAGCATTC-CAGAGAGTGA---C-GGCAGCAAAGCC-AAAACGACG-TTTTCCGCATGTTAC-A-ATTCTGGTTT----A-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACAAGTTGGGGAGTAAATATTTAAAAGATCACAAA-GGTA----------TTGATTATTCACTGCTTTGTATAC
gi|9 : ataACGAATAATTTGTATAGCG--------ACAT--------------------GCTCTTAAT-GC----GCT---ATAAGAATTAGGCAATTAAA------ACTT---ATA----CA--GTCGCATA-----------AAACAAAC-A-TGCA-ATTAATAAAATAGAGTTAGG---ATCATAAAACGATGTTAAAT-CTTTCCA--------GAACATGATAGT-A---------TTTACAGATG--AACAGTGAAATGGCT-TG----------------GT----A-------A---------AAAATAAG-TTATTCCTTTTTAACGTCACAAT---AAT----GGATGG-CACTTCTCAGC-TTC-ATGGGCA-A-GCATTC-CAGAGAGTGA---CCGGCAGCAA-GCC-AAAACGACG---TTTCGCATGTTAC-ACATTCTGGTTA----T--GGA----TTTT---AAA-CGCA-TGAA------TCTTTCGAACGG-GCGAACAAGTTGGGGA-TAAATATTTAAAAGATCACCAAAGGTATTG----------ATTATTCACTGCTTTGTATACa
blockSeqs : A GC GTA CTA TGAAA T T ATGC T A AGAGT GTATT TATA TA CGC ACCCCCCCCCC AA C A GTACTCCG T CAGACTGTA A AA G G TTTAAAAAGATAGGTT TA ATCCTTTTTA C TTTTAAATCCTTTTTAAACATCAAT TTTT G G C G C A A CTCA A GA T C C AATT T AT TTG A ATAATT A A A G GT A A C CGA G G G A G A C A G T A C TTTG TTACTGATGCCATAT G AT A T
blockSeqs : . . ATA TA . . . . . . . AT TA CA . AAAC A . . . . . . . . . . . TCCTTTTA . TATTCCTTTTTAACGTCACAAT . G . . G . A . CC . A C . . . . . . . . T C T G GT . . C . A C G G G T C T T G G C T T . . C .
blockSeqs : . . ACA TA . . . . . . . TT . . . . C . . . . . . . . . . . A . TAATTCCTTTTAAACGTCAAT . G . . G . A . A . A T . . . . . . . . A G T G GC . . C . T T A G . G C G G A . . T A . . C .
blockSeqs : . . ACA TA . . . . . . . . . . . . C . . . . . . . . . . . A . TTTTAAATCCCTT . G . . G . A . A . A T . . . . . . . . A G T G CA . . C . T A . T . . . G G T T . . C .
blockSeqs : . . AT TA . . . . . . . . . . . . C . . . . . . . . . . . A . . . G . . A . A . A . A C . . . . . . . . A A T G CT . . C . . T .
blockSeqs : . . A TA . . . . . . . . . . . . C . . . . . . . . . . . A . . . G . . G . C . G . T C . . . . . . . . . A . G TA . . . . . T .
blockSeqs : . . A T . . . . . . . . . . . . A . . . . . . . . . . . A . . . . . . G . A . A . . . . . . . . . . . . CA . . .
blockSeqs : . . G . . . . . . . . . . . . . A . . . . . . . . . . . A . . . . . . . . . . A . . . . . . . . CC . . .
blockSeqs : . A . . . . . . . . . . . . . A . . . . . . . . . . A . . . . . . . . . . C
blockSeqs : . . . . . . . . . . . . . C . . . . . . . . A . .
blockSeqs : . . . . . . . A . . . . A . .
blockSeqCons : ACA**** T*********************************
originalCons : CAATACGA-TAATTTGTATAGCGC--A----ACATA-TACTT-----AAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATA----CA--AT---ATA-----------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATAAG-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGCATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACGAGTTGGGGAGTAAATGTTCACAAGATCACNAA-GGTATTGCG-GAGCTTGATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGNGAGCCAGTGGAGATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCTTCGTACGAGTTATCACCCNTGCTGCTGTGTTTTGAACTTTCTGCAGC---T---AAGTAAGACGT--------------T-------------------AGCA-TAGAG--TTCCCGTAGTCTAGTCCAGA-AGTGACA
finalCons : CAATACGA-TAATTTGTATAGCGC--AACA----TA-TACTT-----AAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATA----CA--AT---ATA-----------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATAAG-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGCATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACGAGTTGGGGAGTAAATGTTCACAAGATCACNAA-GGTATTGCG-GAGCTTGATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGNGAGCCAGTGGAGATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCTTCGTACGAGTTATCACCCNTGCTGCTGTGTTTTGAACTTTCTGCAGC---T---AAGTAAGACGTT---------------------------------AGCA-TAGAG--TTCCCGTAGTCTAGTCCAGA-AGTGACA
2 sequences could not be aligned to this reference sequence:
Unaligned ( gi|25 ): TATATGACATAACACCCCCCCCCAAAAAAAAAGAACCGATTGATGCAATGGAGTTACAACTTCAATA
Unaligned ( gi|27 ): CCAGACAATTTATTTTATGTGGCCTAA
Alignments
lowQualScore : 1111111111111111111111111
lowQualScore : 2222222 11111 1111 11 22222222222 11111111 111111111 2222222222222222 11111111111111111 0000000000000000000000000 111111 111 2222222 8888888888888888888888888888888888
lowQualScore : 4 55 2222222 555 99999 3 3 7777 3 3 99999 77777 2222 00 666 22222222222 44 3 3 22222222 3 444444444 3 66 4 4 4444444444444444 55 55555555555555555 0 3 9999999999999999999999999 8888 6 4 4 1 4 3 4 88888 4 66 0 1 5 5 9999 4 66 777 4 444444 1 2 1 1 11 4 0 4 1 444 1 0 0 0 1 3 1 0 5 0 3 0 5 0 1 5 1 6 2 0 6666666 1111111111111111111111111111111111 5 77 0 1 5
lowQualScore : . .. ....... ... ..... . . .... . . ..... ..... .... .. ... ........... .. . . ........ . ......... . .. . . ................ .. ................. . . ......................... .... . . . . . . . ..... . .. . . . . .... . .. ... . ...... . . . . .. . . . . ... . . . . . . . . . . . . . . . . . . . . ....... .................................. . .. . . .
lowQualScore : 4 55 8888888 555 11111 3 3 1111 3 3 11111 55555 7777 00 444 99999999999 33 3 3 11111111 6 555555555 3 11 0 0 1111111111111111 00 22222222222222222 8 3 6666666666666666666666666 5555 6 0 0 6 0 2 0 33333 4 44 2 1 0 0 4444 4 11 888 4 444444 7 7 7 1 11 4 1 4 1 000 0 8 8 8 0 2 4 8 0 6 2 8 0 8 0 0 0 5 5 8 0000000 9999999999999999999999999999999999 7 99 7 7 7
consensus : CAATACGA-TAATTTGTATAGCGC--A----ACATA-TACTT-----AAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATA----CA--AT---ATA-----------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATAAG-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGCATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACGAGTTGGGGAGTAAATGTTCACAAGATCACNAA-GGTATTGCG-GAGCTTGATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGNGAGCCAGTGGAGATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCTTCGTACGAGTTATCACCCNTGCTGCTGTGTTTTGAACTTTCTGCAGC---T---AAGTAAGACGT--------------T-------------------AGCA-TAGAG--TTCCCGTAGTCTAGTCCAGA-AGTGACA
Reference ( family-1088 ) : CAATACGA-TAATTTGTATAGCGC--A----ACATA-TACTT-----AAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATA----CA--AT---ATA-----------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATAAG-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGCATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACGAGTTGGGGAGTAAATGTTCACAAGATCACNAA-GGTATTGCG-GAGCTTGATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGNGAGCCAGTGGAGATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCTTCGTACGAGTTATCACCCNTGCTGCTGTGTTTTGAACTTTCTGCAGC---T---AAGTAAGACGT--------------T-------------------AGCA-TAGAG--TTCCCGTAGTCTAGTCCAGA-AGTGACA
gi|1 : CAATACGA-TAATTTGTATAGCGC--ATTATACATG-TACTT-----AAAGTAAAGCTTT-CAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ACA----CA--AT---ATA-----------AAACAAAA-AATGTAGATTAATAGAATAGAATTAAGTGTATAATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATA-------------TTCACAG-TT--AACAATCATATG-CT-TG----------------TTT--AA-------A---------AAGGTAAG-T-------------------------AAT----GAATGGACACTTCTCAGA-TTC-ACGGTCA-AAGTGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTGCGTATGTTAC-A-GTTCTGGTTT----T-GGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACAAGTTGGAGAGTAAATATTCACAAGATCACTAA-GGTAGCGCG-GAGCTTGATTATTCACTGCTTTGTATACAAAG---ATAAGAATTTTGTATTGGCATCTATATTCTACCGGTAGCCAATGGAAAGCTTTCAAAACTGGGATAATGTGTTCGTTTTTCTT------GGTT---ACCCTT--TGTTATGTT
gi|10 : TTCTGGATT----T-TGGAACATTTTT---AAAACGCAGTGAAATAATTTCTTTCGAACGGAGCGAACAAGTAGGAGAGTAAATGTTCACAAGAGCAGTAA-GGTATTGCG-GAGCTTGATTATTCTCTGCTTTGTATAAGAAG---AGAATAATTTTGT-TTGGCATCTATA-TCTACCGGGAGCCAGT---AATCTTTCA------------------CATTTT-----GTACGAGTTATCACCTATGCCGCTGTGTTTTGAACTTTCTGCAGCTTAT---AAATAAGATGT--------------TTATTAAGCTAAGGCAATAAAGCA-TAGAG--TTCCCGTAGTCTAGTCGAGA-AGTGACAgccaccaaacaatgggcatgaggatattatggttgatgaggtaacaaggat
gi|11 : aCGATACGA-TAATTTGTATAGCGC--A----A--TA-TACTT-----AAAGTAAAGCTCT-AATTGC----GCTTTGACAAGCATT-GGCAATAAAA-----GGC-----AT-----CT--AT---ACA-----------ATATAAAA-AA-GCAGATTAATAAAATAGAGTTAAATGTATCATAAAA-GATGTCAAAAACTTTCCA--------GTACTTGATAGTTA---------TTTACAT-TT--AACAGTCAAATG-CTGTA----------------TTTTAAATCCTTTTA---------AACGTCAA-T-------------------------AAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGTGTTC-TAGAGAGTGG---A-GGCAGCATAGTC-GAAACGACG-ACTTCCGTATGTTAT-A-GTTCTGGTTT----T-TGGAAT--TTTT---AAA-CGCAGTGAA------caagcgagttgatgaaggtttcgcagcatcttccgaaatgtaaaatcaaatgaggatgatgtttctaaggttca
gi|12 : aataTA-----------AAACAAAA-CATGCAGATTAATAAAAAAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-TT-TG----------------TTT--AA-------A---------AAGATAAG-TTTTTAAATCCTTTTTAAACATCAATAAT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAACAAAGT
gi|13 : accagacaatttattttatgtggccGTAGATATTCACAAGTTCTGTAA-GTTATTGCGAGAG--TGGTCATTCAGTGCCTTGTATACAAAGCGAAAAAGAATT--GTATCGACATCTTTATTCTACCGCGAGCCAGTGGGGAT-TTTCAAAACTGGAGTAAGATGCT----TTTCTTCGTACGAGTTATCACCCTTTCTACTGTTTGTTAAA--------------T---AAGCAAGACAT--------------T-------------------TGCA-TAGAA--TTACTGTATTATAGTTAAGA-CGTGACA
gi|14 : CAGTACGA-TAATTTATATAGCGC--A----A--TA-TACTT-----AAAGTAAAGCTTC-AAT-GC----ACTT-GACAAGCATT-AGTAATAAAA-----GAC-----ATATA--CA--AT---ATA-----------AAACAAAA-CATGCAAATTAATAATATAGAGTTAAGTGTATCATTAAA-CATATCAAAT-TTTTTCA--------GTACATGATAGT-A---------TTTACAG-TTAAAATAGTCAAATA-CT-TG----------------TTT--AA-------A---------AAGAAAAG-T-------------------------cgaa
gi|15 : CAATACAA-TAATTTGTATAGCGCGCA----GTATACTATTTTGAAAAAAGTAAAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAATAAAA-----GAC-----ATATATACA--AT---ATA-----------AAACAAAA-CATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTACAA-CTTTCCAGTACTCCGGTACATGATAGT-A---------TTTACAG-ttttcaatctttttaa
gi|16 : CTCT-AAT-GC----GCTT-GACAATCATT-AGCAATAAAA-----GAC-----ATA----TATAAT---ATG-----------AAACAAAAAAATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTCAAAA-CTTTCCA--------GTACATGATAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TTT--AA-------A---------AAGATGAG-T-------------------------
gi|17 : CAATACGA-TAATTTGTATAGTGC--A----ATATA-T--TT-----AAAGTAACGCTCT-AAT-GC----GCTT-GACAAGCATT-AGCAATAAAAAGAGTGACGTATTATA----CA--AT---ATA-----------AAACAAAA-CATGCAGATTAATAAAATAGAGTTAAGTGTATCATACAA-GATGTCAAAA-CTTTCCA--------GAACATGATAGT-A---------TTTACAG-Tttttaaatcctttttaaacgccaa
gi|18 : taATTTGTATAGCGC--A----G--TA-TACTT-----AAAATAAAGCTCT-AAT-GCATGCGCTT-GACAAGCATG-GGCAATAAAA-----GACAT---ATA----CA--AT---ATAACCCCCCCCCCAAAAAAAA-AATGCAGATTAAAGAAATAGAGTT-------------AA-AACGTCAAAA-ATTTCCA--------GTACATG
gi|19 : CAATGCGG-TAATTTGTATAGCGC--A------ATA-TACTT-----AAAGTAAAGCT---------------TT-AACAGACAT-------------------------ATA----CA--AT---ATAAAAC-------AAACAAAA-AATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTAAAA-CTTTCCA--------AT
gi|2 : a-------------------AACA-TAGAGATTTCCCGTAGTCTAGTCCAGA-AGTGACA
gi|20 : tactggtaccataaaA-------A---------AAGCCAAC-A-------------------------AAT-----AATTAGAACTTCTCAGT-TTC-ACATGTACAATAGTTC-CAGAGAGATG---A-GACGGCAAAATC-GAAATGACG-ACTTTCGCATGTAAA-A-GATCTAATCT----T-TAGACC--TTTT---AAA-AGCagcgatttaaacgtttgataacaataaattgtcaggaggtcgccaaactacatgagttcaccattttaatcttttgaataatgccattcacttataatttgacctttagtcaccaaatctgtttataaattcatatagatgcgtgggtcctaaagttttgtaaatagcttcgaccagcgtggactttgttttggtgctacatcactttttctctaagttttaaacattgaatgtcttgggaaattaacgtacatgttttatgacttagatgggttggtgcggtttctttgtttttttttttcttttggctgtttttttgtatttatattttattcgtaattttttttttttatatttcaatttttaaattaaattttttattcatttataaatttatttgttgggtgtttttttttttttccgccttggttgtaattttaatgatagaacaagattccacatggaaccgttttcattaaatgctcaaacattgatcag
gi|21 : -CT-TG----------------CTT--AA-------A---------AAGATAAG-TTTTTAAATCCCTT------------AAT----GAATGGGCACTTATCAGTGTTC------CA-GAGA-----CAGAGAGTAGCTCA-GGCAGCAAAGTC-GAAACGATG-ACTT
gi|22 : -----ATA----C----T---ATA-----------AAACACAA-AATGCAGATGAATTAAATGAAATTATGTATATCATAAAA-TATGTCAAAA-CTTTCCA--------GTACATGATAGT-ACAGACTGTATTTACAG-
gi|23 : GAGTAAGTATTCGCAATATGAGCAA-GGTATTGTG-GACCTTGGATATTCACTGCATT
gi|24 : aatcttccaaaaaacctgtggacataaccggcaCAATACGA-TAATTTGTATAGCGC--A----ACATA---CTT-----AAAGTGAAGCTGT-ATT-GC----ACTT-GATAAGCGTT-GGCAATAAAA-----GAC-----A
gi|26 : gatg-TACTT-----ATAGTACAGCTCT-AAT-GC----GCTT-GACAAGCATT-GGCAA
gi|3 : -------------------AACA-TAGAT--TTCCCGTAGTCTAGTCCAGA-AGTGACA
gi|4 : tactggtaccataaACAT--------------A-------------------AACAGTAGAT--TTCCCGTA-TCTAGTCCAGATAGTGagcgatttaacgtttgataacaataacattgtcaggtcgccaaactaatgagtcaccattttatcttttgaataatgccattccacttataatttgacctttagtcaccaaatctgttatcaaattcataatagatgagtgggtcctaagttttgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttaacattgaatgtcttgggaaattaacgtacatgtatatgacttagatgggttggtgcggtttctttgttttgttttttcttttggctgttttttgtatttattttattcgtatttttttttatatttcaatttttaaatttaaatttttattcatttataaatttatttgttgggtttttttttccgccttggttgtaattttaatgatagaaccagattccacatggaaaccgttttcattaaatgtcaaaacattgatcaggtgatcagctatataaaatatca
gi|5 : tggt----------------TTT--TA-------A---------ACG-TCAA-T-------------------------AAT----GAATGG-CACTTCTCAGT-TTCCACGG-CA-A-GTGTTC-CAGAGA-TGG---G-GGCAGCAAAGTCAGAAACGACGGACTTCTGTATGTTACCA-GTTCTGGTTT----TTTGGAAC--TTTT---AAA-CGCAGTGAA------TATGTCGAACGGTGCGACCCAATTGGAGAGTAAATGTTCACAAGATCACAAA-GGTATTGCA-CAGCTTAATTATTCACTGCTTTGTATACGAAG---ATAAGAATTTTCTATTGGCATCTATATTATACCGTGAGCCAGTGGAGATCTTTCAAAACT-GGGTAATGTGTTCTTTTTTCTTCGTACGAGTTATCACCCGTGCTGCTGTGTATT-AACTCTCTGCAGC---TTTGAGGTAAGATGCTTACTGATGCCATAT-------------------AGCA-TAGAG--TTCTCGTAGTCTAGTCTAGA-AGTGACAcaagcgattttaaacgtttgataaaaaaattgtcagaggtcgccaaactaatgagtcaccattttatcttttgaactaatgccattccactttaatttgacctttagtcacaatctgttatcaaattcataatagatgtgggtcatatagtgtttgtaatactcgaccagcgtggacttctgttttggtgctacatcattttctctagttttaacattgatgtcttgggaaattaacgtacattattgacttagatgggtttggtgcggtttctttgttttgttttttcttttggcctgttttttgtaatttattttattccgtattttttttaatatttcaattttaaatttaaaattttattcattataatatttatttgttgggttatttttttccgcctggttgtaattttaatgatagaaccaagattccacaatctgaaaccgtttcattaaatttcaaaacattgagtagggtgatcagctataaaattatga
gi|6 : aaaaataagttttaagatcaAG-TT--AACAGTCAAATG-CT-TGTTTAAAAAGATAGGTTTTT--AA-------ATCCTTTTTAAACGTCAA-T-------------------------ATT----GAATGGGCACTTCTCAGT-TTC-ACGGGCA-AAGCGTTC-CAGAGAGTGG---A-GGCAGCAAAGTC-GAAACGACG-ACTTCCGTATGTTAC-A-GTTCTGGTTT----T-TGGAAC--TTTTTTGAAA-CACAGTGAA------TCTTTCGAACGGAGCAAACGAGT--AGGA--AAATGTTGACAAGATCTCTAA-GGTATTGCG-GAGCTTGATTATTCACTACTTTGTATAAGAAA---GTAAGAATTTTGTATTGGCCTCTGTATTCTACCGACAGTCCGTAGATATCTTTCAAAACTGGGGTAATGTGTTCGTTTTTCCTCGTACGAGTTATCACCCGAGCTGCTGTGTTTTGAACTTTCTGCAGC---T---AAGTAAGATGC--------------T-------------------agcgagttgataggaattttgcaggcatcctccgaaatgtaggatataaggaatattcctggtcat
gi|7 : TAGT-A---------TTTACAG-TT--AACAGTCAAATG-CT-TG----------------TGC--AA-------A---------AAGATAAGCT-------------------------AATTTTTAAACGT-CAATAACGAAT-TTC-ACGGACA-ACGCGTGGACAGGGAGTGG---A-GGCAGCAAAGTC-GAAAC-------------ATGTTAA-A-GTTCTGGTTTAATTT-TGGAAC--TTTT----------------------TCTTTCGAACGGAGCGAACGAGTTAGGGAGTAAATGTTCACAAGATCATAGA-GGTATTGCG-GAGCTTGATTATTCACTGCTTtactcacaatgacaca
gi|7 : -------------------AGCA-TAGAG--TTCCCGTAGTCTAGTCTAGA-nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngcttactgatgccataatagagcatagagttcccgtagtctagtctagaa
gi|8 : tagtatttacagttaacagtcaaatgcttgtgcaaaaagataagctaatttttaaacgtcaataacgaatttcacggacaacgcgtggacagggagtggaggcagcaaagtcgaaacatgttaaagttctggtttaattttggaactttttctttcgaacggagcgaacgagttagggagtaaatgttcacaagatcatagaggtattgcggagcttgattattcactgcttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngcttactgatgccataatagCAATACGA-TAATTTGTATAGCGC--A----AT----------------------GCTCT-AAT-GC----GCTT-AAGAAGCATT-AGCAATAAAA-----GAC-----ATA----CACAGC---ATA-----------AAACAAAA-CATGCAGATTAATAAAATAGAGTTAAGTGTATCATAAAA-GATGTTAAAT-CTTTCCA--------GAACATGATAGT-A---------TTTACAG-TG--AACAGTGAAATG-CT-TG----------------TGT--AA-------A---------AAGATAAG-TTAATTCCTTTTAAACGTCAAT----AAT----GAATGGGCACTTCTCAGC-TTC-ATGGGCA-AAGCATTC-CAGAGAGTGA---C-GGCAGCAAAGCC-AAAACGACG-TTTTCCGCATGTTAC-A-ATTCTGGTTT----A-TGGAAC--TTTT---AAA-CGCAGTGAA------TCTTTCGAACGGAGCGAACAAGTTGGGGAGTAAATATTTAAAAGATCACAAA-GGTA----------TTGATTATTCACTGCTTTGTATAC
gi|9 : ataACGAATAATTTGTATAGCG--------ACAT--------------------GCTCTTAAT-GC----GCT---ATAAGAATTAGGCAATTAAA------ACTT---ATA----CA--GTCGCATA-----------AAACAAAC-A-TGCA-ATTAATAAAATAGAGTTAGG---ATCATAAAACGATGTTAAAT-CTTTCCA--------GAACATGATAGT-A---------TTTACAGATG--AACAGTGAAATGGCT-TG----------------GT----A-------A---------AAAATAAG-TTATTCCTTTTTAACGTCACAAT---AAT----GGATGG-CACTTCTCAGC-TTC-ATGGGCA-A-GCATTC-CAGAGAGTGA---CCGGCAGCAA-GCC-AAAACGACG---TTTCGCATGTTAC-ACATTCTGGTTA----T--GGA----TTTT---AAA-CGCA-TGAA------TCTTTCGAACGG-GCGAACAAGTTGGGGA-TAAATATTTAAAAGATCACCAAAGGTATTG----------ATTATTCACTGCTTTGTATACa
2 sequences could not be aligned to this reference sequence:
Unaligned ( gi|25 ): TATATGACATAACACCCCCCCCCAAAAAAAAAGAACCGATTGATGCAATGGAGTTACAACTTCAATA
Unaligned ( gi|27 ): CCAGACAATTTATTTTATGTGGCCTAA