lowQualScore : 222 11 666666666666666666666666666666666666666666666666666666666666
lowQualScore : 4 111 99 4 222222222222222222222222222222222222222222222222222222222222 3 1 3 6 6
lowQualScore : . ... .. . ............................................................ . . . . .
lowQualScore : 0 666 00 0 888888888888888888888888888888888888888888888888888888888888 3 9 3 7 7
consensus : TTA-CACACTGCCCACTT--G-GGG------------AG--------TACT------------T----CGN-T------------T-AAAGTCGT-GAATTCA-TAATATTCGTTG-AATAAT
Reference ( gi|8 ) : TTA-CACACTGCCCACTT--G-GGG------------AG--------TACT------------T----CGG-T------------T-AAAGTTGT-GAATTCA-TAATATTCGTTG-AATAAT
gi|2 : TTA-CACAC-GC--ACTT--G-GGG------------AG--------AACT------------T----CGT-TG-----------T-GAAGTTGT-GAATTCA-T-ATATTCGTTGCAATAAT
gi|11 : TTA-CACACTG-CCACTTG-G-GGG------------AA--------TACT------------T----TGT-T------------T-AAAGTCGT-GAAgataatatgaaaacgcatttgataacagtt
gi|9 : TTA-CACAATGCC-ATTT--CTGGG------------AG--------TAT--------------------G-T------------A-AAAATCAT-AAATTCA-TAATATTTGTTG-AATAa
gi|3 : tTTA-CACACAG-CCACTT--G-GGG------------AAGTAACCGTTACTTGTTGTAAAAAGT----TGATT------------T-AAAGTCGT-GAATTCA-TAATATTTGTTG-
gi|13 : TTA-CACACTG-CCGCTTAGG-GGG------------AG--------TACT------------T-----GT-T------------T-AAAGTCGT-GA
gi|12 : TTA-CACACTG-CCACTTGAG-GGG------------AG--------TACT------------T------G-T------------A-AAA--CGT-GAATTC
gi|10 : TTAGCACACTGCC-ACTT--G-GGGGG----------AG--------TGCT-----------------CGT-T------------TTAAAGTTGT-GAAT
gi|7 : TTA-CACACTGCCT-TTT--A-TGG------------AG--------TTCT------------T------G-TAAAAACATCATGT-AAAATCGT-GAATTTA-TAACATTTGTTG-AACA
gi|14 : TTA-CACACTG-CCACTTG-G-GGG------------AG--------TACT------------T----TTT-G------------T-ATAGTTGT-GA
gi|1 : A-CACACCGGC-ACTT--G-GGGGATGTTTGTTAAAG--------AACT------------TTTTTCGC-T------------T-AAAGTTGT-GAATT
gi|5 : cACT------------T----TGT-A------------T-AAAATAGC-AAATTAA-TAATATTCGTTG-AATAAttccactaagtaggtgtccgtctgaattaatgaaaattgtgaaacggcaattgataacagtta
gi|4 : tagcattagggtgcgtacttgtaattttaaACT------------T----TCG-TA-----------T-AAAATCGTTAAATTCAATAATATTCGTTG-AATatgcatt
3 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|6 ): TTTCACCAGTCCACTGGGGATAACACGTACTTGTTGTAAAAGTTGATTTTAAGTCGTGATTCATAATATGTGTATGA
Unaligned ( gi|15 ): TACACGCTGCCATTTGGAGGAGTAACTTCATATAAAATTCGTA
Unaligned ( gi|16 ): CAAAATTAGTAAATATGTTCGTTGAATTATAAACGCAATT
Alignments
lowQualScore : 111 11 11111111 444444444444444444
lowQualScore : 4 444 99 4 55 44444444 555555555555555555 3 3 5 5
lowQualScore : . ... .. . .. ........ .................. . . . .
lowQualScore : 0 111 00 0 55 55555555 222222222222222222 3 3 7 7
consensus : TTA-CACACTGCCCACTT--G-GGG--AG--------TACTT------------CG-TT-T-AAAGTCGT-GAATTCA-TAATATTCGTTG-AATAAT
Reference ( family-1071 ) : TTA-CACACTGCCCACTT--G-GGG--AG--------TACTT------------CG-NT-T-AAAGTCGT-GAATTCA-TAATATTCGTTG-AATAAT
gi|10 : TTAGCACACTGCC-ACTT--G-GGGGGAG--------TGC-T------------CGTTT-T-AAAGTTGT-GAAT
gi|11 : TTA-CACACTG-CCACTTG-G-GGG--AA--------TACTT------------TG-TT-T-AAAGTCGT-GAA
gi|12 : TTA-CACACTG-CCACTTGAG-GGG--AG--------TACTT-------------G----T-AAAA-CGT-GAATTCa
gi|13 : TTA-CACACTG-CCGCTTAGG-GGG--AG--------TACTT-------------G-TT-T-AAAGTCGT-GA
gi|14 : TTA-CACACTG-CCACTTG-G-GGG--AG--------TACTT------------TT-TG-T-ATAGTTGT-GA
gi|2 : TTA-CACAC-GC--ACTT--G-GGG--AG--------AACTT------------CG-TTGT-GAAGTTGT-GAATTCA-T-ATATTCGTTGCAATAAT
gi|3 : TTA-CACACAGCC-ACTT--G-GGG--AAGTAACCGTTACTTGTTGTAAAAAGTTG-AT-TTAAAGTCGT-GAATTCA-TAATATTTGTTG-gataatatgaaaacgcatttgataacagtt
gi|4 : TT------------CG-TA-T-AAAATCGTTAAATTCAATAATATTCGTTG-AAT
gi|5 : gccattgggaggagtacttaattggctaaactACTT------------TG-TA-T-AAAATAGC-AAATTAA-TAATATTCGTTG-AATAAgtaatgaat
gi|7 : tagcattagggtgcgtacttgtaattttaaTTA-CACACTGCCT-TTT--A-TGG--AG--------TTCTTGTAAAAACAT--CA-TG-T-AAAATCGT-GAATTTA-TAACATTTGTTG-AACAatgcatt
gi|8 : TTA-CACACTGCCCACTT--G-GGG--AG--------TACTT------------CG-GT-T-AAAGTTGT-GAATTCA-TAATATTCGTTG-AATAAT
gi|9 : TTA-CACAATGCC-ATTT--CTGGG--AG--------TAT-----------------GT-A-AAAATCAT-AAATTCA-TAATATTTGTTG-AATA
4 sequences could not be aligned to this reference sequence:
Unaligned ( gi|1 ): CACACACCGGCACTTGGGGGATGTTTGTTAAAGAACTTTTTTCGCTTAAAGTTGTGAATTTTCCACTAAGTAGGTGTCCGTCTGAATTAATGAAAATTGTGAAACGGCAATTGATAACAGTTA
Unaligned ( gi|6 ): TTTCACCAGTCCACTGGGGATAACACGTACTTGTTGTAAAAGTTGATTTTAAGTCGTGATTCATAATATGTGTATGA
Unaligned ( gi|15 ): TACACGCTGCCATTTGGAGGAGTAACTTCATATAAAATTCGTA
Unaligned ( gi|16 ): CAAAATTAGTAAATATGTTCGTTGAATTATAAACGCAATT
Alignments
lowQualScore : 111 11 222222222222 11111111 4444444444444
lowQualScore : 3 666 77 3 333333333333 33333333 0000000000000 6666 3 3 5 5
lowQualScore : . ... .. . ............ ........ ............. .... . . . .
lowQualScore : 6 999 33 6 666666666666 22222222 3333333333333 5555 1 1 7 7
consensus : TTA-CACACTGCCCACTT--G-GGG------------AG--------TACTT------------CG-TT-T-AAAGTCGT-GAATTCA-TAATATTCGTTG-AATAAT
Reference ( family-1071 ) : TTA-CACACTGCCCACTT--G-GGG------------AG--------TACTT------------CG-TT-T-AAAGTCGT-GAATTCA-TAATATTCGTTG-AATAAT
gi|1 : A-CACACCGGC-ACTT--G-GGGGATGTTTGTTAAAG--------AACTTTTTT--------CG-CT-T-AAAGTTGT-GAATT
gi|10 : cTTAGCACACTGCC-ACTT--G-GGGGG----------AG--------TGCT-------------CG-TT-TTAAAGTTGT-GAATttccactaagtaggtgtccgtctgaattaatgaaaattgtgaaacggcaattgataacagtta
gi|11 : TTA-CACACTG-CCACTTG-G-GGG------------AA--------TACTT------------TG-TT-T-AAAGTCGT-GAA
gi|12 : TTA-CACACTG-CCACTTGAG-GGG------------AG--------TACTT-------------G----T-AAAA-CGT-GAATTCa
gi|13 : TTA-CACACTG-CCGCTTAGG-GGG------------AG--------TACTT-------------G-TT-T-AAAGTCGT-GA
gi|14 : TTA-CACACTG-CCACTTG-G-GGG------------AG--------TACTT------------TT-TG-T-ATAGTTGT-GA
gi|2 : TTA-CACAC-GC--ACTT--G-GGG------------AG--------AACTT------------CG-TTGT-GAAGTTGT-GAATTCA-T-ATATTCGTTGCAATAAT
gi|3 : TTA-CACACAGCC-ACTT--G-GGG------------AAGTAACCGTTACTTGTTGTAAAAAGTTGATT-T-AAAGTCGT-GAATTCA-TAATATTTGTTG-gataatatgaaaacgcatttgataacagtt
gi|4 : TT------------CG-TA-T-AAAATCGTTAAATTCAATAATATTCGTTG-AAT
gi|5 : gccattgggaggagtacttaattggctaaactACTT------------TG-TA-T-AAAATAGC-AAATTAA-TAATATTCGTTG-AATAAgtaatgaat
gi|7 : tagcattagggtgcgtacttgtaattttaaTTA-CACACTGCCT-TTT--A-TGG------------AG--------TTCTTGTAAAAACAT--CA-TG-T-AAAATCGT-GAATTTA-TAACATTTGTTG-AACAatgcatt
gi|8 : TTA-CACACTGCCCACTT--G-GGG------------AG--------TACTT------------CG-GT-T-AAAGTTGT-GAATTCA-TAATATTCGTTG-AATAAT
gi|9 : TTA-CACAATGCC-ATTT--CTGGG------------AG--------TAT---------------G-TA---AAAATCAT-AAATTCA-TAATATTTGTTG-AATA
3 sequences could not be aligned to this reference sequence:
Unaligned ( gi|6 ): TTTCACCAGTCCACTGGGGATAACACGTACTTGTTGTAAAAGTTGATTTTAAGTCGTGATTCATAATATGTGTATGA
Unaligned ( gi|15 ): TACACGCTGCCATTTGGAGGAGTAACTTCATATAAAATTCGTA
Unaligned ( gi|16 ): CAAAATTAGTAAATATGTTCGTTGAATTATAAACGCAATT
Alignments
lowQualScore : 111 11 222222222222 11111111 4444444444444
lowQualScore : 3 666 77 3 333333333333 33333333 0000000000000 6666 3 3 5 5
lowQualScore : . ... .. . ............ ........ ............. .... . . . .
lowQualScore : 6 999 33 6 666666666666 22222222 3333333333333 5555 1 1 7 7
consensus : TTA-CACACTGCCCACTT--G-GGG------------AG--------TACTT------------CG-TT-T-AAAGTCGT-GAATTCA-TAATATTCGTTG-AATAAT
Reference ( family-1071 ) : TTA-CACACTGCCCACTT--G-GGG------------AG--------TACTT------------CG-TT-T-AAAGTCGT-GAATTCA-TAATATTCGTTG-AATAAT
gi|1 : A-CACACCGGC-ACTT--G-GGGGATGTTTGTTAAAG--------AACTTTTTT--------CG-CT-T-AAAGTTGT-GAATT
gi|10 : cTTAGCACACTGCC-ACTT--G-GGGGG----------AG--------TGCT-------------CG-TT-TTAAAGTTGT-GAATttccactaagtaggtgtccgtctgaattaatgaaaattgtgaaacggcaattgataacagtta
gi|11 : TTA-CACACTG-CCACTTG-G-GGG------------AA--------TACTT------------TG-TT-T-AAAGTCGT-GAA
gi|12 : TTA-CACACTG-CCACTTGAG-GGG------------AG--------TACTT-------------G----T-AAAA-CGT-GAATTCa
gi|13 : TTA-CACACTG-CCGCTTAGG-GGG------------AG--------TACTT-------------G-TT-T-AAAGTCGT-GA
gi|14 : TTA-CACACTG-CCACTTG-G-GGG------------AG--------TACTT------------TT-TG-T-ATAGTTGT-GA
gi|2 : TTA-CACAC-GC--ACTT--G-GGG------------AG--------AACTT------------CG-TTGT-GAAGTTGT-GAATTCA-T-ATATTCGTTGCAATAAT
gi|3 : TTA-CACACAGCC-ACTT--G-GGG------------AAGTAACCGTTACTTGTTGTAAAAAGTTGATT-T-AAAGTCGT-GAATTCA-TAATATTTGTTG-gataatatgaaaacgcatttgataacagtt
gi|4 : TT------------CG-TA-T-AAAATCGTTAAATTCAATAATATTCGTTG-AAT
gi|5 : gccattgggaggagtacttaattggctaaactACTT------------TG-TA-T-AAAATAGC-AAATTAA-TAATATTCGTTG-AATAAgtaatgaat
gi|7 : tagcattagggtgcgtacttgtaattttaaTTA-CACACTGCCT-TTT--A-TGG------------AG--------TTCTTGTAAAAACAT--CA-TG-T-AAAATCGT-GAATTTA-TAACATTTGTTG-AACAatgcatt
gi|8 : TTA-CACACTGCCCACTT--G-GGG------------AG--------TACTT------------CG-GT-T-AAAGTTGT-GAATTCA-TAATATTCGTTG-AATAAT
gi|9 : TTA-CACAATGCC-ATTT--CTGGG------------AG--------TAT---------------G-TA---AAAATCAT-AAATTCA-TAATATTTGTTG-AATA
blockSeqs : G CCT GA T GG GTAACCGT GTTGTAAAAAGTT TTG T T A .
blockSeqs : . CCC AG . . . GTAAAAACATC ATT . . . .
blockSeqs : . CC G . . . C TT . . . .
blockSeqs : . CC G . . . T TT . . . .
blockSeqs : . CC . . . . T TT . . . .
blockSeqs : . CC . . . . C TG . . . .
blockSeqs : . CC . . . . C TA . .
blockSeqs : . CC . . . . T TA . .
blockSeqs : . CC . . . . C TG . .
blockSeqs : . C . . . . . GT . .
blockSeqs : . TA . .
blockSeqs : . . . .
blockSeqCons : ************ C************
originalCons : TTA-CACACTGCCCACTT--G-GGG------------AG--------TACTT------------CG-TT-T-AAAGTCGT-GAATTCA-TAATATTCGTTG-AATAAT
finalCons : TTA-CACACTGCCCACTT--G-GGG------------AG--------TACTTC------------G-TT-T-AAAGTCGT-GAATTCA-TAATATTCGTTG-AATAAT
3 sequences could not be aligned to this reference sequence:
Unaligned ( gi|6 ): TTTCACCAGTCCACTGGGGATAACACGTACTTGTTGTAAAAGTTGATTTTAAGTCGTGATTCATAATATGTGTATGA
Unaligned ( gi|15 ): TACACGCTGCCATTTGGAGGAGTAACTTCATATAAAATTCGTA
Unaligned ( gi|16 ): CAAAATTAGTAAATATGTTCGTTGAATTATAAACGCAATT
Alignments
lowQualScore : 111 11 222222222222 11111111 4444444444444
lowQualScore : 3 666 77 3 333333333333 33333333 0000000000000 6666 3 3 5 5
lowQualScore : . ... .. . ............ ........ ............. .... . . . .
lowQualScore : 6 999 33 6 666666666666 22222222 3333333333333 5555 1 1 7 7
consensus : TTA-CACACTGCCCACTT--G-GGG------------AG--------TACTT------------CG-TT-T-AAAGTCGT-GAATTCA-TAATATTCGTTG-AATAAT
Reference ( family-1071 ) : TTA-CACACTGCCCACTT--G-GGG------------AG--------TACTT------------CG-TT-T-AAAGTCGT-GAATTCA-TAATATTCGTTG-AATAAT
gi|1 : A-CACACCGGC-ACTT--G-GGGGATGTTTGTTAAAG--------AACTTTTTT--------CG-CT-T-AAAGTTGT-GAATT
gi|10 : cTTAGCACACTGCC-ACTT--G-GGGGG----------AG--------TGCT-------------CG-TT-TTAAAGTTGT-GAATttccactaagtaggtgtccgtctgaattaatgaaaattgtgaaacggcaattgataacagtta
gi|11 : TTA-CACACTG-CCACTTG-G-GGG------------AA--------TACTT------------TG-TT-T-AAAGTCGT-GAA
gi|12 : TTA-CACACTG-CCACTTGAG-GGG------------AG--------TACTT-------------G----T-AAAA-CGT-GAATTCa
gi|13 : TTA-CACACTG-CCGCTTAGG-GGG------------AG--------TACTT-------------G-TT-T-AAAGTCGT-GA
gi|14 : TTA-CACACTG-CCACTTG-G-GGG------------AG--------TACTT------------TT-TG-T-ATAGTTGT-GA
gi|2 : TTA-CACAC-GC--ACTT--G-GGG------------AG--------AACTT------------CG-TTGT-GAAGTTGT-GAATTCA-T-ATATTCGTTGCAATAAT
gi|3 : TTA-CACACAGCC-ACTT--G-GGG------------AAGTAACCGTTACTTGTTGTAAAAAGTTGATT-T-AAAGTCGT-GAATTCA-TAATATTTGTTG-gataatatgaaaacgcatttgataacagtt
gi|4 : TT------------CG-TA-T-AAAATCGTTAAATTCAATAATATTCGTTG-AAT
gi|5 : gccattgggaggagtacttaattggctaaactACTT------------TG-TA-T-AAAATAGC-AAATTAA-TAATATTCGTTG-AATAAgtaatgaat
gi|7 : tagcattagggtgcgtacttgtaattttaaTTA-CACACTGCCT-TTT--A-TGG------------AG--------TTCTTGTAAAAACAT--CA-TG-T-AAAATCGT-GAATTTA-TAACATTTGTTG-AACAatgcatt
gi|8 : TTA-CACACTGCCCACTT--G-GGG------------AG--------TACTT------------CG-GT-T-AAAGTTGT-GAATTCA-TAATATTCGTTG-AATAAT
gi|9 : TTA-CACAATGCC-ATTT--CTGGG------------AG--------TAT---------------G-TA---AAAATCAT-AAATTCA-TAATATTTGTTG-AATA
3 sequences could not be aligned to this reference sequence:
Unaligned ( gi|6 ): TTTCACCAGTCCACTGGGGATAACACGTACTTGTTGTAAAAGTTGATTTTAAGTCGTGATTCATAATATGTGTATGA
Unaligned ( gi|15 ): TACACGCTGCCATTTGGAGGAGTAACTTCATATAAAATTCGTA
Unaligned ( gi|16 ): CAAAATTAGTAAATATGTTCGTTGAATTATAAACGCAATT