lowQualScore : 11111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111 1111111111111111111111111
lowQualScore : 4 4 11111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111 22 3333333333333333333333333 99999999999
lowQualScore : 0 0 22222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222222 55 888 5 0000000000000000000000000 1 0 88888888888
lowQualScore : . . .............................................................................................................. .. ... . ......................... . . ...........
lowQualScore : 0 0 77777777777777777777777777777777777777777777777777777777777777777777777777777777777777777777777777777777777777 44 777 0 3333333333333333333333333 0 8 00000000000
consensus : TAAGACAGTACGATC-TGTCAGCTAAACTTGACTGAGTCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATTGAGGTCATG-----TTCCT-GCTTC-----AGATTTA-A-AATCA--T-AAACTCTTTAAGNAA-AAACAAGATGTGTTTGTGAAACACTGATGCCCCCAC---GAATGGCAG-------GTNAAAACAAGATGTGTTTGTGAAACACTGATGCCCCCA----GAATGGCAG
Reference ( gi|1 ) : TAAGACAGTACGATCGTGTCAGCTAAACTTG-CTGAGTCCAGAGAGCTATAGATCCATGCACACCTTTATTGTACAGTGCAACATTTTCTGCACATGACTGAGGTTTTG-----TTCTT-ATTCT-----AGATTTA-ACAACCACCT-AAACTCTTTAAGTAA-AAACAAGATGTGTTTGTGAAACACTGATGCGGCCATTATAAATGGCAGCGAAGTTATNAAAACAAGATGTGTTTGTGAAACACTGATGTGGCCATTATAAATGGCAG
gi|2 : TAAGACAGTACGATC-TGTCAGCTAAACTTGACTGAGTCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-----NNNNN-NNNNNNNNTAAGATTTATACAACCACCTAAAACTC-TTAAGT-A-AAACAAGATGTGTTTGTGAAACAC
gi|4 : tATTGAGGTCATGAAGAATTTCT-ACTTC-----A-ATTTA-A-AATCA------ACT--TTAATGGA-GAACAAGATGTGTTTGTGAAACACTGA
gi|6 : -----TTCTTTGTTTT-----AGAT----A-AATCA--T-AAATT--TCAGGTAA-AAACAAGATATGTTTGTGAAACACTGA
gi|14 : CTATTTAAGAAA-AAACAAAATGTGTTTGTGAAACACTG
gi|11 : CTTTAAACAC-AA-CAAGATGTGTTTGTGAAACACT
gi|8 : atcaaTTAA-TAATGAACAAGATGTGTTTGTGAAACACa
gi|17 : tcaatttaacaA-GAATAAGATGTGTTTGTGAAACACTGA
gi|12 : atag-AAACAAGATGTGTTTGTGAAACACTGATGC
gi|3 : AACAAGATGTGTTTGTAAAACACTGATGCCCCCA----GAATGGCAG-------ATTACAACAAAATGGAACTGTTAGACATTGcccgattcca
gi|16 : AACAAGATGTGTTTGTGAAACACTGATGtagttgcaacttttgtagcaatactgagaat
gi|15 : agtatAACAAAATGTGTTTGTGAAACACTGATGC
gi|13 : tgacAACAAAATGTGTTCGCGAAACACTGATGCct
gi|7 : AACAAGATGGGTATGTGAAACACTGATGCccccagatta
gi|10 : AACAAGATGTGTTAGTGAAACACTGAccctgaacagcattaccagt
gi|9 : aaaatctactccaatgAAGATGTGTTTATGTAACACTGATGCTCCCAC-----ATGGCA
gi|6 : caattATCATAAATTTCAG-------GTAAAAACAAGATATGTTTGTGAAACACTGA
gi|15 : ttctttgttttagataaTGACAACAAAATGTGTTTGTGAAACACTGATG
gi|2 : AAAACAAGATGTGTTTGTGAAACACcct
gi|14 : ttaagacagtacgatctgtcagctaaacttgactgagtcnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntaagatttatacaaccacctaaaactcttaagtAAAACAAAATGTGTTTGTGAAACACTG
gi|4 : ctatttaagaaAGAACAAGATGTGTTTGTGAAACACTGA
gi|17 : attgaggtcatgaagaatttctacttcaatttaaaatcaactttaatggAGAATAAGATGTGTTTGTGAAACACTGA
gi|12 : atagAAACAAGATGTGTTTGTGAAACACTGATG
gi|3 : AACAAGATGTGTTTGTAAAACACTGATGCCCCCA----GAATGGCAGccccgattcca
gi|16 : AACAAGATGTGTTTGTGAAACACTGATGattacaacaaaatggaactgttagacattgtagttgcaacttttgtagcaatactgagaat
gi|13 : agtatAACAAAATGTGTTCGCGAAACACTGATG
gi|11 : AACAAGATGTGTTTGTGAAACACTcccccagatta
gi|7 : atcaactttaaacacAACAAGATGGGTATGTGAAACACTGATGa
gi|10 : AACAAGATGTGTTAGTGAAACACTGAcccctgaacagcattaccagt
gi|8 : aaaatctactccaatgAACAAGATGTGTTTGTGAAACAC
gi|9 : tcaatttaacattaataatgAAGATGTGTTTATGTAACACTGATG
1 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|5 ): AAAGCAAGACGAGATTGTAAAATACTGACGCCCCCAGATTCCACATGCCAATGGAAGGGAATTG
Alignments
lowQualScore : 2 1 5555555555555555555555555555555555555555555555555555555555 33333 222222 222 333333 11 333333 77777777 22222
lowQualScore : 0 5 8888888888888888888888888888888888888888888888888888888888 3 33333 11 555555 2 3 111 888888 88 11 0 888888 11111111 1 3 1 44444
lowQualScore : . . .......................................................... . ..... .. ...... . . ... ...... .. .. . ...... ........ . . . .....
lowQualScore : 0 5 0000000000000000000000000000000000000000000000000000000000 0 33333 55 888888 5 2 000 222222 00 11 2 333333 00000000 0 0 6 55555
consensus : TAAGACAGTACGATCGTGTCAGCTAAACTTGACTGAGTCCAGAGAGCTATAGATCCATGCACACCTTTATTGTACAGTGCAACATTTTCTGCACATGACTGAGGTCNTG-----TTCCTATTTT-----AGATTTA-ACAACCA--T---AAACTCTTTAAGNAAAAACAAGATGTGTTTGTGAAACACTGATGCCCCC---ACGAATGGCAGCGAAGTTATNANAACAAGATGTGTTTGTGAAACACTGATGCCCCCA----GAACGGCAG
Reference ( family-118 ) : TAAGACAGTACGATC-TGTCAGCTAAACTTGACTGAGTCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATTGAGGTCATG-----TTCCTGCTTC-----AGATTTA-A-AATCA--T---AAACTCTTTAAGNAAAAACAAGATGTGTTTGTGAAACACTGATGCCCCC---ACGAATGGCAG-------GTNAAAACAAGATGTGTTTGTGAAACACTGATGCCCCCA----GAATGGCAG
gi|1 : TAAGACAGTACGATCGTGTCAGCTAAACTTG-CTGAGTCCAGAGAGCTATAGATCCATGCACACCTTTATTGTACAGTGCAACATTTTCTGCACATGACTGAGGTTTTG-----TTCTTATTCT-----AGATTTA-ACAACCACCT---AAACTCTTTAAGTAAAAACAAGATGTGTTTGTGAAACACTGATGCGGCCATTATAAATGGCAGCGAAGTTATNAAAACAAGATGTGTTTGTGAAACACTGATGTGGCCATTATAAATGGCAG
gi|10 : AACAAGATGTGTTAGTGAAACACTGA
gi|11 : aaaatctactccaatgCTTTAAACACAA-CAAGATGTGTTTGTGAAACACT
gi|12 : atcaaAAACAAGATGTGTTTGTGAAACACTGATGCCCCa
gi|13 : AACAAAATGTGTTCGCGAAACACTGATGCCCCCA----GAgattcca
gi|14 : CTATTTAAGAAAAAACAAAATGTGTTTGTGAAACACTGtta
gi|15 : TGACAACAAAATGTGTTTGTGAAACACTGATGCC
gi|16 : AACAAGATGTGTTTGTGAAACACTGATGt
gi|17 : agtatAGAATAAGATGTGTTTGTGAAACACTGA
gi|2 : atagTAAGACAGTACGATC-TGTCAGCTAAACTTGACTGAGTCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-----NNNNNNNNNNNNNTAAGATTTATACAACCA--CCTAAAACTC-TTAAGT-AAAACAAGATGTGTTTGTGAAACAC
gi|3 : tAACAAGATGTGTTTGTAAAACACTGATGCCCCC---A-GAATGGCAG-------ATTACAACAAAATGGAACTGTTAGACATTG
gi|4 : ATTGAGGTCATGAAGAATTTCTACTTC-----A-ATTTA-A-AATCA--------ACT--TTAATGGAGAACAAGATGTGTTTGTGAAACACTGAtagttgcaacttttgtagcaatactgagaat
gi|5 : AAAGCAAGACGAGATTGTAAAATACTGACGCCCCCA----GA
gi|6 : TGTTTT-----AGAT----A-AATCA--T---AAATT--TCAGGTAAAAACAAGATATGTTTGTGAAACACTGAttccacatgccaatggaagggaattg
gi|7 : ttcttAACAAGATGGGTATGTGAAACACTGATGCCCCT-----GAACAGCA
gi|8 : TTAATAATGAACAAGATGTGTTTGTGAAACACttaccagt
gi|8 : tcaatttaacaAACAAGATGTGTTTGTGAAACAC
gi|9 : tcaatttaacattaataatgAAGATGTGTTTATGTAACACTGATGCTCCC---AC--ATGGCA
Alignments
lowQualScore : 1 1 33333 22222 111 333333 1 333333 3333333 22222
lowQualScore : 5 5 1 33333 55555 2 3 666 888888 0 0 1 0 0 888888 2222222 1 1 44444
lowQualScore : . . . ..... ..... . . ... ...... . . . . . ...... ....... . . .....
lowQualScore : 0 5 0 33333 00000 5 2 000 222222 8 1 0 8 2 333333 0000000 0 0 55555
consensus : TAAGACAGTACGATCGTGTCAGCTAAACTTGACTGAGTCCAGAGAGCTATAGATCCATGCACACCTTTATTGTACAGTGCAACATTTTCTGCACATGACTGAGGTCNTG-----TTCCTATTTT-----AGATTTA-ACAACCA--T---AAACTCTTTAAGNAAAAACAAGATGTGTTTGTGAAACACTGATGCCCCC---ACGAATGGCAGCGAAGTTATNANAACAAGATGTGTTTGTGAAACACTGATGCCCCCA----GAACGGCAG
Reference ( family-118 ) : TAAGACAGTACGATCGTGTCAGCTAAACTTGACTGAGTCCAGAGAGCTATAGATCCATGCACACCTTTATTGTACAGTGCAACATTTTCTGCACATGACTGAGGTCNTG-----TTCCTATTTT-----AGATTTA-ACAACCA--T---AAACTCTTTAAGNAAAAACAAGATGTGTTTGTGAAACACTGATGCCCCC---ACGAATGGCAGCGAAGTTATNANAACAAGATGTGTTTGTGAAACACTGATGCCCCCA----GAACGGCAG
gi|1 : TAAGACAGTACGATCGTGTCAGCTAAACTTG-CTGAGTCCAGAGAGCTATAGATCCATGCACACCTTTATTGTACAGTGCAACATTTTCTGCACATGACTGAGGTTTTG-----TTCTTATTCT-----AGATTTA-ACAACCACCT---AAACTCTTTAAGTAAAAACAAGATGTGTTTGTGAAACACTGATGCGGCCATTATAAATGGCAGCGAAGTTATNAAAACAAGATGTGTTTGTGAAACACTGATGTGGCCATTATAAATGGCAG
gi|10 : AACAAGATGTGTTAGTGAAACACTGA
gi|11 : aaaatctactccaatgCTTTAAACACAA-CAAGATGTGTTTGTGAAACACT
gi|12 : atcaaAAACAAGATGTGTTTGTGAAACACTGATGCCCCa
gi|13 : AACAAAATGTGTTCGCGAAACACTGATGCCCCCA----GAgattcca
gi|14 : CTATTTAAGAAAAAACAAAATGTGTTTGTGAAACACTGtta
gi|15 : TGACAACAAAATGTGTTTGTGAAACACTGATGCC
gi|16 : ATAACAAGATGTGTTTGTGAAACACTGATGt
gi|17 : agtAGAATAAGATGTGTTTGTGAAACACTGA
gi|2 : atagTAAGACAGTACGATC-TGTCAGCTAAACTTGACTGAGTCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-----NNNNNNNNNNNNNTAAGATTTATACAACCA--CCTAAAACTCTT-AAGTAAAA-CAAGATGTGTTTGTGAAACAC
gi|3 : tAACAAGATGTGTTTGTAAAACACTGATGCCCCC---A-GAATGGCAG-------ATTACAACAAAATGGAACTGTTAGACATTG
gi|4 : ATTGAGGTCATGAAGAATTTCTACTTC-----A-ATTTA-A-AATCA--------ACT--TTAATGGAGAACAAGATGTGTTTGTGAAACACTGAtagttgcaacttttgtagcaatactgagaat
gi|5 : AAAGCAAGACGAGATTGTAAAATACTGACGCCCCCA----GA
gi|6 : TGTTTT-----AGAT----A-AATCA--T---AAATT--TCAGGTAAAAACAAGATATGTTTGTGAAACACTGAttccacatgccaatggaagggaattg
gi|7 : ttcttAACAAGATGGGTATGTGAAACACTGATGCCCCT-----GAACAGCA
gi|8 : TTAATAATGAACAAGATGTGTTTGTGAAACACttaccagt
gi|8 : tcaatttaacaAACAAGATGTGTTTGTGAAACAC
gi|9 : tcaatttaacattaataatgAAGATGTGTTTATGTAACACTGATGCTCCC---AC--ATGGCA
blockSeqs : . A N AAGAA NNNTA G T TAC CCTA C C AG . G C A
blockSeqs : A . . G T A T A A AC T T A
blockSeqs : . . . A . C T G .
blockSeqs : . G C
blockSeqs : . T A
blockSeqs : A
blockSeqCons :
originalCons : TAAGACAGTACGATCGTGTCAGCTAAACTTGACTGAGTCCAGAGAGCTATAGATCCATGCACACCTTTATTGTACAGTGCAACATTTTCTGCACATGACTGAGGTCNTG-----TTCCTATTTT-----AGATTTA-ACAACCA--T---AAACTCTTTAAGNAAAAACAAGATGTGTTTGTGAAACACTGATGCCCCC---ACGAATGGCAGCGAAGTTATNANAACAAGATGTGTTTGTGAAACACTGATGCCCCCA----GAACGGCAG
finalCons : TAAGACAGTACGATCGTGTCAGCTAAACTTGACTGAGTCCAGAGAGCTATAGATCCATGCACACCTTTATTGTACAGTGCAACATTTTCTGCACATGACTGAGGTCNTG-----TTCCTATTTT-----AGATTTA-ACAACCA--T---AAACTCTTTAAGNAAAAACAAGATGTGTTTGTGAAACACTGATGCCCCC---ACGAATGGCAGCGAAGTTATNANAACAAGATGTGTTTGTGAAACACTGATGCCCCCA----GAACGGCAG
Alignments
lowQualScore : 1 1 33333 22222 111 333333 1 333333 3333333 22222
lowQualScore : 5 5 1 33333 55555 2 3 666 888888 0 0 1 0 0 888888 2222222 1 1 44444
lowQualScore : . . . ..... ..... . . ... ...... . . . . . ...... ....... . . .....
lowQualScore : 0 5 0 33333 00000 5 2 000 222222 8 1 0 8 2 333333 0000000 0 0 55555
consensus : TAAGACAGTACGATCGTGTCAGCTAAACTTGACTGAGTCCAGAGAGCTATAGATCCATGCACACCTTTATTGTACAGTGCAACATTTTCTGCACATGACTGAGGTCNTG-----TTCCTATTTT-----AGATTTA-ACAACCA--T---AAACTCTTTAAGNAAAAACAAGATGTGTTTGTGAAACACTGATGCCCCC---ACGAATGGCAGCGAAGTTATNANAACAAGATGTGTTTGTGAAACACTGATGCCCCCA----GAACGGCAG
Reference ( family-118 ) : TAAGACAGTACGATCGTGTCAGCTAAACTTGACTGAGTCCAGAGAGCTATAGATCCATGCACACCTTTATTGTACAGTGCAACATTTTCTGCACATGACTGAGGTCNTG-----TTCCTATTTT-----AGATTTA-ACAACCA--T---AAACTCTTTAAGNAAAAACAAGATGTGTTTGTGAAACACTGATGCCCCC---ACGAATGGCAGCGAAGTTATNANAACAAGATGTGTTTGTGAAACACTGATGCCCCCA----GAACGGCAG
gi|1 : TAAGACAGTACGATCGTGTCAGCTAAACTTG-CTGAGTCCAGAGAGCTATAGATCCATGCACACCTTTATTGTACAGTGCAACATTTTCTGCACATGACTGAGGTTTTG-----TTCTTATTCT-----AGATTTA-ACAACCACCT---AAACTCTTTAAGTAAAAACAAGATGTGTTTGTGAAACACTGATGCGGCCATTATAAATGGCAGCGAAGTTATNAAAACAAGATGTGTTTGTGAAACACTGATGTGGCCATTATAAATGGCAG
gi|10 : AACAAGATGTGTTAGTGAAACACTGA
gi|11 : aaaatctactccaatgCTTTAAACACAA-CAAGATGTGTTTGTGAAACACT
gi|12 : atcaaAAACAAGATGTGTTTGTGAAACACTGATGCCCCa
gi|13 : AACAAAATGTGTTCGCGAAACACTGATGCCCCCA----GAgattcca
gi|14 : CTATTTAAGAAAAAACAAAATGTGTTTGTGAAACACTGtta
gi|15 : TGACAACAAAATGTGTTTGTGAAACACTGATGCC
gi|16 : ATAACAAGATGTGTTTGTGAAACACTGATGt
gi|17 : agtAGAATAAGATGTGTTTGTGAAACACTGA
gi|2 : atagTAAGACAGTACGATC-TGTCAGCTAAACTTGACTGAGTCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-----NNNNNNNNNNNNNTAAGATTTATACAACCA--CCTAAAACTCTT-AAGTAAAA-CAAGATGTGTTTGTGAAACAC
gi|3 : tAACAAGATGTGTTTGTAAAACACTGATGCCCCC---A-GAATGGCAG-------ATTACAACAAAATGGAACTGTTAGACATTG
gi|4 : ATTGAGGTCATGAAGAATTTCTACTTC-----A-ATTTA-A-AATCA--------ACT--TTAATGGAGAACAAGATGTGTTTGTGAAACACTGAtagttgcaacttttgtagcaatactgagaat
gi|5 : AAAGCAAGACGAGATTGTAAAATACTGACGCCCCCA----GA
gi|6 : TGTTTT-----AGAT----A-AATCA--T---AAATT--TCAGGTAAAAACAAGATATGTTTGTGAAACACTGAttccacatgccaatggaagggaattg
gi|7 : ttcttAACAAGATGGGTATGTGAAACACTGATGCCCCT-----GAACAGCA
gi|8 : TTAATAATGAACAAGATGTGTTTGTGAAACACttaccagt
gi|8 : tcaatttaacaAACAAGATGTGTTTGTGAAACAC
gi|9 : tcaatttaacattaataatgAAGATGTGTTTATGTAACACTGATGCTCCC---AC--ATGGCA