lowQualScore : 7777777777777777777777777777777 1 11111 22222222222222222222222 111111 2222 1
lowQualScore : 2 2 2222222222222222222222222222222 2 2 2 0 44444 33333333333333333333333 99999 55 111111 2 1111 5
lowQualScore : . . ............................... . . . . ..... ....................... ..... .. ...... . .... .
lowQualScore : 7 5 6666666666666666666666666666666 4 9 8 2 00000 66666666666666666666666 66666 88 555555 4 0000 4
consensus : AAAGAGAC-AC-TACAGCTCATT-------T-------T-------T-------TCA-TCAAGTGCTA-TTTAAAATACGTATCGAT-N--AAA--TG--AT--NA-AAATAATA-TCGA---TNCCGACTA-TT------TTGAAC-AATTTGAATGCA---TCAATTAG
Reference ( gi|4 ) : AAAGAGAC-AC-TACAGCTCATT-------T-------T-------T-------TCA-TCAAGTGCTA-TTTATAATACATATCGAT-C--AAA--TG--AT--TA-AAATGATA-ACGA---TCCCGACTA-TT------TTGAAC-AATTTGAATGCT---TCAATAAG
gi|1 : AAAGAGAC-AA-TACAGCTCTTT-------TGGGATATT-------T-------TAA-TCAAGTGCTA-TTTA-A--ACATGTTAA-----AAA--TC--AT------AACGATA-ACGA---
gi|23 : agttatgaataAAAGCGAC-AC-TACAGCTCATTTTCCACAT-------T-------T-------TGG-TCAAGTGCTctgttcgatgtcatctatttgttctcaactgcgcttcg
gi|5 : taaAAGAGACTATATATAGCTCATT-------T-------TCCACATTT-------TAA-TCAAGTGCTG-TTCAAAATAAATATCGAT-A--AAA--TG--AT--AA-ACATCATA-TTGA---TAATGACAA-TT------TTGAAC-AATTTGAATGC
gi|7 : AAGAGAC-AC-TACAGCTCATT-------TATCATA-T-------T-------TCAATCAAGTGCTA-TTTAGAATACGTTTCGA--C--AAAC-TG--AT--AA-ATATAATA-TCGA---TATCGACTA-CT------Ta
gi|8 : AAGAGAC-AT-TACAGCTCATT-------T-------T-------TCATATTTTCA-TTGAGTGCTA-TTTATAATACGGATCGCT-A--GAA------AT--T--AAAT------CGA---TTCTGACTA-TTCTAAAGTTAAAC-AATTTGACTGCntttagaatacgtttcga
gi|9 : AAGAGAC-AT-TACAGCTCATT-------T-------T-------TCATTATTTCA-TTGAGTGCTA-TTTATAAT-CGGATCG-T-A--GAA------AT--TA------ATA-TCGA---TTCTGACTA-TTCTAAAGTTAAAC-AATTTGACTGCataa
gi|26 : AAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGC
gi|25 : ttgAAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGCa
gi|24 : aatgAAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGC
gi|22 : aatgAAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGCCA-
gi|6 : aatgAGAAAC-AC-TACAGCTCATT-------T-------T---------------TCA-TCAAGTGCTT-TTTAAAATACACATTGAT-A--AAA--TG--AT--AG-AAATAATA-ATGA---TTCCGTCTG-TT------TTGAAC-AATTTGAATACA---TCAATTAG
gi|3 : AGAGAC-AC-TACAGCTCATTATCCACAT-------T-------T-------TAA-TCAAGTGCTG-TTCAAAATATGTATCAAT-T--AAA--CG--AT--CG-AATCCATA-TCAA---TACTGACAA-TT------TTTAAC-AATTTGAATGCct
gi|10 : GAGAC-AC-TACAGTTCACT-------T-------T-------T--------CA-TCTAGTGCTA-TTTGAAATACATATCGAT-A--AAA--TG--AT--TA-AAATACTA-TCGA---TTCCGACTA-TT------TTGAAC-AATactaatt
gi|11 : GAGAC-AC-TGCAGCGTATT-------T-------T-------T--------CA-T--A-----A-TTTAT------TA---AC-C--AAG--TGCTAT--TAGAAATAATA-TCGT---TACGGACTA-TT------TTGAAC-AATTTGAATGCc
gi|13 : AC-AC-TATAGCTCATTTTTCGCAT-------T-------T-------TAA-TCAAATGCTATTTTAAAATTCGTATCGAT-T--AAA------AT--CG-AAA---------------CCGACTG-TT------TTGAgttga
gi|19 : C-TACA-TTTATTCGCA---T-------T-------T-------TAA-TCAAGTGCTA-TTTAAAATTCGTATCGAT------------------A-AAAT------CGA---AACCGACTG-TT------TTGAA
gi|2 : -------T-------T-------C-------TCC-TCAAGTGCTA-TTTAAAATGCGTATCGAT-C--AAA--TG--ATAGAA-AAAT-ATATGCGA---TTCCGGCTATTT------TTGAAC-AATCTGAATGCA---CCAATGAG
gi|12 : gtacacttcattttatatagttaTN-TTTAGAATACGTTTCGA--C--AAAC-TG--AT--AA-ATACAATA-TCGA---TACCGACTA-CT------TTGAAC-AATTTTAATGCA---TCAGT
gi|14 : TTAAAATATGTATCAAC-A--AAA--TG--AT--AA-AATTAATA-TCGA---TACCGACTA-TG------TTG--CTTATTTTAATACA---TCGATttgaac
gi|17 : cgaAATGTGCATCAAT-A--AAA--TG--AT--AA-AAATCAAA-TCAA---TACCGACTA-TT------TTGAAC-AATTTGAAAGCA---TCAATttgctc
gi|15 : aaATACATATCGAT-T--AAAAATG---T--TA-AA-TAAAA-TCGAGTTTCCCGACT--TT------TTCAAC-AATTTGAATGCA---TCAATTAGttg
gi|18 : ATACATATCGAT-TAAAAA--TG---T--T--AAATAAAA-TCGGT--TCCCGACT--TT------TTCAAC-AATTTGAATGCA---TCAATTAGctc
gi|16 : ATACATATCGAT-T--AAA--AA--ATG-TT-AAATAAAG-TCGAGT-TCCCGACT--TT------TTCAAC-AATTTGAATGCA---TCAATTAGct
gi|20 : ACATATCGATAA--AAA--TG---T--TA-AAATAAAA-TCGG---TTCCGACT--TT------TTCAAC-AATTTGAATGCA---TCAATTAGct
gi|27 : A---TTCCGACTG-TT------TTGAAC-AATTTGAATACA---TCAActc
gi|28 : GACTA-TT------TTGAAC-AATTTGATTGCTGCATCAATTAGctagctc
1 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|21 ): TTNTTTTCCACATTTTGGTCAAGTGCTATTCAAAATGTGCATCAATAA
Alignments
lowQualScore : 666666666666666 11111111111 111111
lowQualScore : 2 2 333333333333333 888888888888888 2 2 0 1 33333333333 0 0 1 333 666 1 1 55 000000 2 444
lowQualScore : . . ............... ............... . . . . ........... . . . ... ... . . .. ...... . ...
lowQualScore : 5 4 111111111111111 111111111111111 1 5 2 7 66666666666 9 1 1 555 000 0 8 11 555555 2 111
consensus : AAAGAGAC-AC-TACAGCTCATT-------T-------T-------T-------TCA-TCAAGTGCTA-TTTAAAATACGTATCGATAAAA--TG--ATNA-AAATAATAT---CGA---TNCC-GACTA-TT------TTGAAC-AATTTGA---ATGCATCAATTAG
Reference ( family-1103 ) : AAAGAGAC-AC-TACAGCTCATT-------T-------T-------T-------TCA-TCAAGTGCTA-TTTAAAATACGTATCGATNAAA--TG--ATNA-AAATAATAT---CGA---TNCC-GACTA-TT------TTGAAC-AATTTGA---ATGCATCAATTAG
gi|1 : AAAGAGAC-AA-TACAGCTCTTT-------TGGGATATT-------T-------TAA-TCAAGTGCTA-TTTAA---AC-----------A--TG--TTAA-AAATCATAA---CGA---TAAC-GACTG-TT------
gi|10 : agttatgaataGAGAC-AC-TACAGTTCACT-------T-------T-------T--------CA-TCTAGTGCTA-TTTGAAATACATATCGATAAAA--TG--ATTA-AAATACTAT---CGA---TTCC-GACTA-TT------TTGAAC-AATcgatgtcatctatttgttctcaactgcgcttcg
gi|11 : GAGAC-AC-TGCAGCGTATT-------T-------T-------T--------CA-T--A-----A-TTTA---------TTAACCAAG--TGCTATTAGAAATAATAT---CGT---TACG-GACTA-TT------TTGAAC-AATTTGA---ATGCGTc
gi|12 : TN-TTTAGAATACGTTTCGACAAAC--TG--ATAA-ATACAATAT---CGA---TACC-GACTA-CT------TTGAAC-AATTTTA---ATGCATCAGTTtga
gi|13 : AC-AC-TATAGCTCATTTTTCGCAT-------T-------T-------TAA-TCAAATGCTATTTTAAAATTCGTATCGATTAAA------------------AT---CGA---AACC-GACTG-TT------TTGAtgaac
gi|14 : TTAAAATATGTATCAACAAAA--TG--ATAA-AATTAATAT---CGA---TACC-GACTA-TG------TTG--CTTATTTTA---ATACATCGATT
gi|15 : cgaATACATATCGATTAAAAATG--TT---AAATAAAAT---CGAGTTTCCC-GACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAGtgctc
gi|16 : ATACATATCGATTAAA--AA--ATGTTAAATAAAGT---CGAGT-TCCC-GACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAGctc
gi|17 : AAAATGTGCATCAATAAAA--TG--ATAA-AAATCAAAT---CAA---TACC-GACTA-TT------TTGAAC-AATTTGA---AAGCATCAATTct
gi|18 : ATACATATCGATTAAAAATG--TT---AAATAAAAT---CGG---TTCCCGACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAGtg
gi|19 : C-TACA-TTTATTCGCA---T-------T-------T-------TAA-TCAAGTGCTA-TTTAAAATTCGTATCGATAAAA--T--------------------CGA---AACC-GACTG-TT------TTGAAct
gi|2 : -------T-------T-------C-------TCC-TCAAGTGCTA-TTTAAAATGCGTATCGATCAAA--TG--ATAG-AAA-AATATATGCGA---TTCC-GGCTATTT------TTGAAC-AATCTGA---ATGCACCAATGAG
gi|20 : gtacacttcattttatatagttaACATATCGATAAAAA-TG---TTA-AAATAAAAT---CGG---TTCC-GACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAG
gi|21 : -------T-------T-------T-------TGG-TCAAGTGCTA-TTCAAAATGTGCATCAATAActc
gi|22 : ttnttttccacaAAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGCCA-
gi|23 : aatgAAAGCGAC-AC-TACAGCTCATTTTCCACAT-------T-------T-------TGG-TCAAGTGCT
gi|24 : taaAAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGC
gi|25 : aatgAAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGC
gi|26 : aatgAAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGC
gi|27 : ttgA---TTCC-GACTG-TT------TTGAAC-AATTTGA---ATACATCAACTAGa
gi|28 : -GACTA-TT------TTGAAC-AATTTGATTGCTGCATCAATTAGctc
gi|3 : AGAGAC-AC-TACAGCTCATTATCCACAT-------T-------T-------TAA-TCAAGTGCTG-TTCAAAATATGTATCAATTAAA--CG--ATCG-AATCCATAT---CAA---TACT-GACAA-TT------TTTAAC-AATTTGA---ATGCACTAATTct
gi|4 : AAAGAGAC-AC-TACAGCTCATT-------T-------T-------T-------TCA-TCAAGTGCTA-TTTATAATACATATCGATCAAA--TG--ATTA-AAATGATAA---CGA---TCCC-GACTA-TT------TTGAAC-AATTTGA---ATGCTTCAATAAG
gi|5 : AAGAGACTATATATAGCTCATT-------T-------TCCACATTT-------TAA-TCAAGTGCTG-TTCAAAATAAATATCGATAAAA--TG--ATAA-ACATCATAT---TGA---TAAT-GACAA-TT------TTGAAC-AATTTGA---ATGCA
gi|6 : AGAAAC-AC-TACAGCTCATT-------T-------T---------------TCA-TCAAGTGCTT-TTTAAAATACACATTGATAAAA--TG--ATAG-AAATAATAA---TGA---TTCC-GTCTG-TT------TTGAAC-AATTTGA---ATACATCAATTAG
gi|7 : AAGAGAC-AC-TACAGCTCATT-------TATCATA-T-------T-------TCAATCAAGTGCTA-TTTAGAATACGTTTCGACAAAC--TG--ATAA-ATATAATAT---CGA---TATC-GACTA-CT------Tct
gi|8 : AAGAGAC-AT-TACAGCTCATT-------T-------T-------TCATATTTTCA-TTGAGTGCTA-TTTATAATACGGATCGCTAGAA------ATTA-A------AT---CGA---TTCT-GACTA-TTCTAAAGTTAAAC-AATTTGA---CTGCATntttagaatacgtttcga
gi|9 : AAGAGAC-AT-TACAGCTCATT-------TTTCATTAT-------T-------TCA-TTGAGTGCTA-TTTATAAT-CGGATCGTAGAAA--T-----------TAATAT---CGA---TTCT-GACTA-TTCTAAAGTTAAAC-AATTTGA---CTGCaa
Alignments
lowQualScore : 6666666666666666666666666666666 11 111111
lowQualScore : 2 2 2222222222222222222222222222222 2 2 33 0 888 33 2 11 0 0 1 333 666 1 1 55 000000 2 444
lowQualScore : . . ............................... . . .. . ... .. . .. . . . ... ... . . .. ...... . ...
lowQualScore : 5 4 2222222222222222222222222222222 1 4 22 9 666 55 2 44 9 1 1 555 000 0 8 11 555555 2 111
consensus : AAAGAGAC-AC-TACAGCTCATT-------T-------T-------T-------TCA-TCAAGTGCTATTT-A--AAATACGTATCGAT---AAAA-TGATAAAAATAATAT---CGA---TNCC-GACTA-TT------TTGAAC-AATTTGA---ATGCATCAATTAG
Reference ( family-1103 ) : AAAGAGAC-AC-TACAGCTCATT-------T-------T-------T-------TCA-TCAAGTGCTATTT-A--AAATACGTATCGAT---AAAA-TGATNAAAATAATAT---CGA---TNCC-GACTA-TT------TTGAAC-AATTTGA---ATGCATCAATTAG
gi|1 : AAAGAGAC-AA-TACAGCTCTTT-------TGGGATATT-------T-------TAA-TCAAGTGCTATTT-A--A---AC--------------A-TGTTAAAAATCATAA---CGA---TAAC-GACTG-TT------
gi|10 : agttatgaataGAGAC-AC-TACAGTTCACT-------T-------T-------T--------CA-TCTAGTGCTATTT-G--AAATACATATCGAT---AAAA-TGATTAAAATACTAT---CGA---TTCC-GACTA-TT------TTGAAC-AATcgatgtcatctatttgttctcaactgcgcttcg
gi|11 : GAGAC-AC-TGCAGCGTATT-------T-------T-------T--------CA-T-AATT--TATTA-ACCAAGTGC-TAT---------------TAGAAATAATAT---CGT---TACG-GACTA-TT------TTGAAC-AATTTGA---ATGCGTc
gi|12 : TNTTT-A--GAATACGTTTCGAC---AAAC-TGATAAATACAATAT---CGA---TACC-GACTA-CT------TTGAAC-AATTTTA---ATGCATCAGTTtga
gi|13 : AC-AC-TATAGCTCATT-------T-------T-------TCGCATTTTAA-TCAAATGCTATTTTA--AAATTCGTATCGAT---TAAA--------------AT---CGA---AACC-GACTG-TT------TTGAtgaac
gi|14 : TT-A--AAATATGTATCAAC---AAAA-TGATAAAATTAATAT---CGA---TACC-GACTA-TG------TTG--CTTATTTTA---ATACATCGATT
gi|15 : cgaATACATATCGATTA-AAAA-TGTT--AAATAAAAT---CGAGTTTCCC-GACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAGtgctc
gi|16 : ATACATATCGATTAAAAAA-TGTT--AAATAAAGT---CGAGT-TCCC-GACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAGctc
gi|17 : -A--AAATGTGCATCAAT---AAAA-TGATAAAAATCAAAT---CAA---TACC-GACTA-TT------TTGAAC-AATTTGA---AAGCATCAATTct
gi|18 : ATACATATCGATTA-AAAA-TGTT--AAATAAAAT---CGG---TTCCCGACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAGtg
gi|19 : C-TACA-TTTATTCGCA---T-------T-------T-------TAA-TCAAGTGCTATTT-A--AAATTCGTATCGAT---AAA---------------AT---CGA---AACC-GACTG-TT------TTGAAct
gi|2 : -------T-------T-------C-------TCC-TCAAGTGCTATTT-A--AAATGCGTATCGAT---CAAA-TGATAGAAA-AATATATGCGA---TTCC-GGCTATTT------TTGAAC-AATCTGA---ATGCACCAATGAG
gi|20 : gtacacttcattttatatagttaACATATCGAT---AAAAATG-TTAAAATAAAAT---CGG---TTCC-GACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAG
gi|21 : -------T-------T-------T-------TGG-TCAAGTGCTATTC-A--AAATGTGCATCAAT---AActc
gi|22 : ttnttttccacaAAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGCCA
gi|23 : aatgAAAGCGAC-AC-TACAGCTCATTTTCCACAT-------T-------T-------TGG-TCAAGTGCT
gi|24 : taaAAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGC
gi|25 : aatgAAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGC
gi|26 : aatgAAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGC
gi|27 : ttgA---TTCC-GACTG-TT------TTGAAC-AATTTGA---ATACATCAACTAGa
gi|28 : -GACTA-TT------TTGAAC-AATTTGATTGCTGCATCAATTAGctc
gi|3 : AGAGAC-AC-TACAGCTCATTATCCACAT-------T-------T-------TAA-TCAAGTGCTGTTC-A--AAATATGTATCAAT---TAAA-CGATCGAATCCATAT---CAA---TACT-GACAA-TT------TTTAAC-AATTTGA---ATGCACTAATTct
gi|4 : AAAGAGAC-AC-TACAGCTCATT-------T-------T-------T-------TCA-TCAAGTGCTATTT-A--TAATACATATCGAT---CAAA-TGATTAAAATGATAA---CGA---TCCC-GACTA-TT------TTGAAC-AATTTGA---ATGCTTCAATAAG
gi|5 : AAGAGACTATATATAGCTCATT-------T-------TCCACATTT-------TAA-TCAAGTGCTGTTC-A--AAATAAATATCGAT---AAAA-TGATAAACATCATAT---TGA---TAAT-GACAA-TT------TTGAAC-AATTTGA---ATGCA
gi|6 : AGAAAC-AC-TACAGCTCATT-------T-------T---------------TCA-TCAAGTGCTTTTT-A--AAATACACATTGAT---AAAA-TGATAGAAATAATAA---TGA---TTCC-GTCTG-TT------TTGAAC-AATTTGA---ATACATCAATTAG
gi|7 : AAGAGAC-AC-TACAGCTCATT-------TATCATA-T-------T-------TCAATCAAGTGCTATTT-A--GAATACGTTTCGAC---AAAC-TGATAAATATAATAT---CGA---TATC-GACTA-CT------Tct
gi|8 : AAGAGAC-AT-TACAGCTCATT-------T-------T-------TCATATTTTCA-TTGAGTGCTATTT-A--TAATACGGATCGCT---AGAA---ATTAA------AT---CGA---TTCT-GACTA-TTCTAAAGTTAAAC-AATTTGA---CTGCATntttagaatacgtttcga
gi|9 : AAGAGAC-AT-TACAGCTCATT-------TTTCATTAT-------T-------TCA-TTGAGTGCTATTT-A--TAAT-CGGATCG-T---AGAA---AT-----TAATAT---CGA---TTCT-GACTA-TTCTAAAGTTAAAC-AATTTGA---CTGCaa
Alignments
lowQualScore : 666666666666666 111 111111
lowQualScore : 2 2 333333333333333 888888888888888 2 2 33 0 8888 2 2 222 2 333 666 1 1 55 000000 2 444
lowQualScore : . . ............... ............... . . .. . .... . . ... . ... ... . . .. ...... . ...
lowQualScore : 5 4 111111111111111 111111111111111 1 5 22 9 9999 0 3 222 4 555 000 0 8 11 555555 2 111
consensus : AAAGAGAC-AC-TACAGCTCATT-------T-------T-------T-------TCA-TCAAGTGCTA-TTTA--AAATACGTATCGAT---AAAA-TGATAAAAA-TAATAT---CGA---TNCC-GACTA-TT------TTGAAC-AATTTGA---ATGCATCAATTAG
Reference ( family-1103 ) : AAAGAGAC-AC-TACAGCTCATT-------T-------T-------T-------TCA-TCAAGTGCTA-TTTA--AAATACGTATCGAT---AAAA-TGATAAAAA-TAATAT---CGA---TNCC-GACTA-TT------TTGAAC-AATTTGA---ATGCATCAATTAG
gi|1 : AAAGAGAC-AA-TACAGCTCTTT-------TGGGATATT-------T-------TAA-TCAAGTGCTA-TTTA--A---AC--------------A-TGTTAAAAA-TCATAA---CGA---TAAC-GACTG-TT------
gi|10 : agttatgaataGAGAC-AC-TACAGTTCACT-------T-------T-------T--------CA-TCTAGTGCTA-TTTG--AAATACATATCGAT---AAAA-TGATTAAAA-TACTAT---CGA---TTCC-GACTA-TT------TTGAAC-AATcgatgtcatctatttgttctcaactgcgcttcg
gi|11 : GAGAC-AC-TGCAGCGTATT-------T-------T-------T--------CA-T-AATT--TA-TTAACCAAGTGC-TAT---------------TAGAAA-TAATAT---CGT---TACG-GACTA-TT------TTGAAC-AATTTGA---ATGCGTc
gi|12 : TN-TTTA--GAATACGTTTCGAC---AAAC-TGATAAATA-CAATAT---CGA---TACC-GACTA-CT------TTGAAC-AATTTTA---ATGCATCAGTTtga
gi|13 : AC-AC-TATAGCTCATTTTTCGCAT-------T-------T-------TAA-TCAAATGCTATTTTA--AAATTCGTATCGAT-----------TAAA-------AT---CGA---AACC-GACTG-TT------TTGAtgaac
gi|14 : TTA--AAATATGTATCAAC---AAAA-TGATAAAAT-TAATAT---CGA---TACC-GACTA-TG------TTG--CTTATTTTA---ATACATCGATT
gi|15 : cgaATACATATCGATTA-AAAA-TGTTAAA---TAAAAT---CGAGTTTCCC-GACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAGtgctc
gi|16 : ATACATATCGATTAAAAAA-TGTTAAA---TAAAGT---CGAGT-TCCC-GACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAGctc
gi|17 : A--AAATGTGCATCAAT---AAAA-TGATAAAAA-TCAAAT---CAA---TACC-GACTA-TT------TTGAAC-AATTTGA---AAGCATCAATTct
gi|18 : ATACATATCGATTA-AAAA-TGTTAAA---TAAAAT---CGG---TTCCCGACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAGtg
gi|19 : C-TACA-TTTATTCGCA---T-------T-------T-------TAA-TCAAGTGCTA-TTTA--AAATTCGTATCGAT---AAAA-T------------------CGA---AACC-GACTG-TT------TTGAAct
gi|2 : -------T-------T-------C-------TCC-TCAAGTGCTA-TTTA--AAATGCGTATCGAT---CAAA-TGATAGAAA--AATATATGCGA---TTCC-GGCTATTT------TTGAAC-AATCTGA---ATGCACCAATGAG
gi|20 : gtacacttcattttatatagttaACATATCGAT---AAAAATGTTAAAA--TAAAAT---CGG---TTCC-GACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAG
gi|21 : -------T-------T-------T-------TGG-TCAAGTGCTA-TTCA--AAATGTGCATCAAT---AActc
gi|22 : ttnttttccacaAAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGCCA-
gi|23 : aatgAAAGCGAC-AC-TACAGCTCATTTTCCACAT-------T-------T-------TGG-TCAAGTGCT
gi|24 : taaAAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGC
gi|25 : aatgAAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGC
gi|26 : aatgAAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGC
gi|27 : ttgA---TTCC-GACTG-TT------TTGAAC-AATTTGA---ATACATCAACTAGa
gi|28 : -GACTA-TT------TTGAAC-AATTTGATTGCTGCATCAATTAGctc
gi|3 : AGAGAC-AC-TACAGCTCATTATCCACAT-------T-------T-------TAA-TCAAGTGCTG-TTCA--AAATATGTATCAAT---TAAA-CGATCGAAT-CCATAT---CAA---TACT-GACAA-TT------TTTAAC-AATTTGA---ATGCACTAATTct
gi|4 : AAAGAGAC-AC-TACAGCTCATT-------T-------T-------T-------TCA-TCAAGTGCTA-TTTA--TAATACATATCGAT---CAAA-TGATTAAAA-TGATAA---CGA---TCCC-GACTA-TT------TTGAAC-AATTTGA---ATGCTTCAATAAG
gi|5 : AAGAGACTATATATAGCTCATT-------T-------TCCACATTT-------TAA-TCAAGTGCTG-TTCA--AAATAAATATCGAT---AAAA-TGATAAACA-TCATAT---TGA---TAAT-GACAA-TT------TTGAAC-AATTTGA---ATGCA
gi|6 : AGAAAC-AC-TACAGCTCATT-------T-------T---------------TCA-TCAAGTGCTT-TTTA--AAATACACATTGAT---AAAA-TGATAGAAA-TAATAA---TGA---TTCC-GTCTG-TT------TTGAAC-AATTTGA---ATACATCAATTAG
gi|7 : AAGAGAC-AC-TACAGCTCATT-------TATCATA-T-------T-------TCAATCAAGTGCTA-TTTA--GAATACGTTTCGAC---AAAC-TGATAAATA-TAATAT---CGA---TATC-GACTA-CT------Tct
gi|8 : AAGAGAC-AT-TACAGCTCATT-------T-------T-------TCATATTTTCA-TTGAGTGCTA-TTTA--TAATACGGATCGCT---AGAA---AT------TAA-AT---CGA---TTCT-GACTA-TTCTAAAGTTAAAC-AATTTGA---CTGCATntttagaatacgtttcga
gi|9 : AAGAGAC-AT-TACAGCTCATT-------TTTCATTAT-------T-------TCA-TTGAGTGCTA-TTTA--TAAT-CGGATCG-------------TAGAAATTAATAT---CGA---TTCT-GACTA-TTCTAAAGTTAAAC-AATTTGA---CTGCaa
Alignments
lowQualScore : 666666666666666 111 111111
lowQualScore : 2 2 333333333333333 888888888888888 2 2 33 0 8888 2 2 222 2 333 666 1 1 55 000000 2 444
lowQualScore : . . ............... ............... . . .. . .... . . ... . ... ... . . .. ...... . ...
lowQualScore : 5 4 111111111111111 111111111111111 1 5 22 9 9999 0 3 222 4 555 000 0 8 11 555555 2 111
consensus : AAAGAGAC-AC-TACAGCTCATT-------T-------T-------T-------TCA-TCAAGTGCTA-TTTA--AAATACGTATCGAT---AAAA-TGATAAAAA-TAATAT---CGA---TNCC-GACTA-TT------TTGAAC-AATTTGA---ATGCATCAATTAG
Reference ( family-1103 ) : AAAGAGAC-AC-TACAGCTCATT-------T-------T-------T-------TCA-TCAAGTGCTA-TTTA--AAATACGTATCGAT---AAAA-TGATAAAAA-TAATAT---CGA---TNCC-GACTA-TT------TTGAAC-AATTTGA---ATGCATCAATTAG
gi|1 : AAAGAGAC-AA-TACAGCTCTTT-------TGGGATATT-------T-------TAA-TCAAGTGCTA-TTTA--A---AC--------------A-TGTTAAAAA-TCATAA---CGA---TAAC-GACTG-TT------
gi|10 : agttatgaataGAGAC-AC-TACAGTTCACT-------T-------T-------T--------CA-TCTAGTGCTA-TTTG--AAATACATATCGAT---AAAA-TGATTAAAA-TACTAT---CGA---TTCC-GACTA-TT------TTGAAC-AATcgatgtcatctatttgttctcaactgcgcttcg
gi|11 : GAGAC-AC-TGCAGCGTATT-------T-------T-------T--------CA-T-AATT--TA-TTAACCAAGTGC-TAT---------------TAGAAA-TAATAT---CGT---TACG-GACTA-TT------TTGAAC-AATTTGA---ATGCGTc
gi|12 : TN-TTTA--GAATACGTTTCGAC---AAAC-TGATAAATA-CAATAT---CGA---TACC-GACTA-CT------TTGAAC-AATTTTA---ATGCATCAGTTtga
gi|13 : AC-AC-TATAGCTCATTTTTCGCAT-------T-------T-------TAA-TCAAATGCTATTTTA--AAATTCGTATCGAT-----------TAAA-------AT---CGA---AACC-GACTG-TT------TTGAtgaac
gi|14 : TTA--AAATATGTATCAAC---AAAA-TGATAAAAT-TAATAT---CGA---TACC-GACTA-TG------TTG--CTTATTTTA---ATACATCGATT
gi|15 : cgaATACATATCGATTA-AAAA-TGTTAAA---TAAAAT---CGAGTTTCCC-GACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAGtgctc
gi|16 : ATACATATCGATTAAAAAA-TGTTAAA---TAAAGT---CGAGT-TCCC-GACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAGctc
gi|17 : A--AAATGTGCATCAAT---AAAA-TGATAAAAA-TCAAAT---CAA---TACC-GACTA-TT------TTGAAC-AATTTGA---AAGCATCAATTct
gi|18 : ATACATATCGATTA-AAAA-TGTTAAA---TAAAAT---CGG---TTCCCGACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAGtg
gi|19 : C-TACA-TTTATTCGCA---T-------T-------T-------TAA-TCAAGTGCTA-TTTA--AAATTCGTATCGAT---AAAA-T------------------CGA---AACC-GACTG-TT------TTGAAct
gi|2 : -------T-------T-------C-------TCC-TCAAGTGCTA-TTTA--AAATGCGTATCGAT---CAAA-TGATAGAAA--AATATATGCGA---TTCC-GGCTATTT------TTGAAC-AATCTGA---ATGCACCAATGAG
gi|20 : gtacacttcattttatatagttaACATATCGAT---AAAAATGTTAAAA--TAAAAT---CGG---TTCC-GACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAG
gi|21 : -------T-------T-------T-------TGG-TCAAGTGCTA-TTCA--AAATGTGCATCAAT---AActc
gi|22 : ttnttttccacaAAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGCCA-
gi|23 : aatgAAAGCGAC-AC-TACAGCTCATTTTCCACAT-------T-------T-------TGG-TCAAGTGCT
gi|24 : taaAAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGC
gi|25 : aatgAAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGC
gi|26 : aatgAAGAGAC-AC-TACAGCTCATT-------TTTCATAAT-------T-------TCA-TTAAGTGC
gi|27 : ttgA---TTCC-GACTG-TT------TTGAAC-AATTTGA---ATACATCAACTAGa
gi|28 : -GACTA-TT------TTGAAC-AATTTGATTGCTGCATCAATTAGctc
gi|3 : AGAGAC-AC-TACAGCTCATTATCCACAT-------T-------T-------TAA-TCAAGTGCTG-TTCA--AAATATGTATCAAT---TAAA-CGATCGAAT-CCATAT---CAA---TACT-GACAA-TT------TTTAAC-AATTTGA---ATGCACTAATTct
gi|4 : AAAGAGAC-AC-TACAGCTCATT-------T-------T-------T-------TCA-TCAAGTGCTA-TTTA--TAATACATATCGAT---CAAA-TGATTAAAA-TGATAA---CGA---TCCC-GACTA-TT------TTGAAC-AATTTGA---ATGCTTCAATAAG
gi|5 : AAGAGACTATATATAGCTCATT-------T-------TCCACATTT-------TAA-TCAAGTGCTG-TTCA--AAATAAATATCGAT---AAAA-TGATAAACA-TCATAT---TGA---TAAT-GACAA-TT------TTGAAC-AATTTGA---ATGCA
gi|6 : AGAAAC-AC-TACAGCTCATT-------T-------T---------------TCA-TCAAGTGCTT-TTTA--AAATACACATTGAT---AAAA-TGATAGAAA-TAATAA---TGA---TTCC-GTCTG-TT------TTGAAC-AATTTGA---ATACATCAATTAG
gi|7 : AAGAGAC-AC-TACAGCTCATT-------TATCATA-T-------T-------TCAATCAAGTGCTA-TTTA--GAATACGTTTCGAC---AAAC-TGATAAATA-TAATAT---CGA---TATC-GACTA-CT------Tct
gi|8 : AAGAGAC-AT-TACAGCTCATT-------T-------T-------TCATATTTTCA-TTGAGTGCTA-TTTA--TAATACGGATCGCT---AGAA---AT------TAA-AT---CGA---TTCT-GACTA-TTCTAAAGTTAAAC-AATTTGA---CTGCATntttagaatacgtttcga
gi|9 : AAGAGAC-AT-TACAGCTCATT-------TTTCATTAT-------T-------TCA-TTGAGTGCTA-TTTA--TAAT-CGGATCG-------------TAGAAATTAATAT---CGA---TTCT-GACTA-TTCTAAAGTTAAAC-AATTTGA---CTGCaa
blockSeqs : T A TTTCGCAT CCACATTT A T CC TAAA A A AAT T ATG GTT T C AT CTAAAG T TTG
blockSeqs : . . TTTCATAA TCATATTT . . . TAA . A AA T . GT A . A CTAAAG . .
blockSeqs : . . TTCCACAT T . . . TAA . A AA T . . A . A . . .
blockSeqs : . . TTTCATAA T . . . A . T TA T . . A . A . . .
blockSeqs : . . TTTCATAA T . . . A . T AT A . . A . G . . .
blockSeqs : . . TTTCATAA T . . . A . A AA A . . C . A . . .
blockSeqs : . . ATCCACAT C . . . A . T AA A . . C . A . . .
blockSeqs : . . TTTCATTA T . . . A . A AT A . . A . G . . .
blockSeqs : . . TATCATA T . . . C . T AA T . . T . G . . .
blockSeqs : . . CGCAT T . . . A . A CA A . . A . A . . .
blockSeqs : . . T T . . . A . A AA T . . T . A . . .
blockSeqs : . . T T . . . T . A TA T . . T . A . . .
blockSeqs : . . T T . . . C . A A T . . T . A . . .
blockSeqs : . . T T . . . A . A . T . . A . G . . .
blockSeqs : . . T T . . . A . A . T . . C . A . . .
blockSeqs : . T T . . A . . . T . . A . A . . .
blockSeqs : T T . A . . . . . . T . A . .
blockSeqs : T . . . . . . . . . A . . .
blockSeqs : . . . . . . . T . . .
blockSeqs : . . T . . .
blockSeqs : . . .
blockSeqCons : TTTCACA******** A***
originalCons : AAAGAGAC-AC-TACAGCTCATT-------T-------T-------T-------TCA-TCAAGTGCTA-TTTA--AAATACGTATCGAT---AAAA-TGATAAAAA-TAATAT---CGA---TNCC-GACTA-TT------TTGAAC-AATTTGA---ATGCATCAATTAG
finalCons : AAAGAGAC-AC-TACAGCTCATTTTTCACA--------T-------T-------TCA-TCAAGTGCTA-TTTA--AAATACGTATCGATA---AAA-TGATAAAAA-TAATAT---CGA---TNCC-GACTA-TT------TTGAAC-AATTTGA---ATGCATCAATTAG
Alignments
lowQualScore : 111111111 1 111 111111
lowQualScore : 2 2 2 333333333 4 2 4444 2 8888 2 2 222 2 333 666 1 1 55 000000 2 444
lowQualScore : . . . ......... . . .... . .... . . ... . ... ... . . .. ...... . ...
lowQualScore : 5 4 1 888888888 2 6 5555 5 9999 0 3 222 4 555 000 0 8 11 555555 2 111
consensus : AAAGAGAC-AC-TACAGCTCATTT-TTCA-T-A-----TTTC-A-T----CAAGTGCTA-TTTAAAATACGTATCGAT---AAAA-TGATAAAAA-TAATAT---CGA---TNCC-GACTA-TT------TTGAAC-AATTTGA---ATGCATCAATTAG
Reference ( family-1103 ) : AAAGAGAC-AC-TACAGCTCATTT-TTCA-C-A-----TTTC-A-T----CAAGTGCTA-TTTAAAATACGTATCGAT---AAAA-TGATAAAAA-TAATAT---CGA---TNCC-GACTA-TT------TTGAAC-AATTTGA---ATGCATCAATTAG
gi|1 : AAAGAGAC-AA-TACAGCTCTTTT-GGGA-T-A-----TTTT-AAT----CAAGTGCTA-TTTAA---AC--------------A-TGTTAAAAA-TCATAA---CGA---TAAC-GACTG-TT------
gi|10 : agttatgaataGAGAC-AC-TACAG--------TTCA-C-T-----TTTC-A-T----CTAGTGCTA-TTTGAAATACATATCGAT---AAAA-TGATTAAAA-TACTAT---CGA---TTCC-GACTA-TT------TTGAAC-AATcgatgtcatctatttgttctcaactgcgcttcg
gi|11 : GAGAC-AC-TGCAGCGTATTT-TTCA-T-A-----ATTT-A-TTAACCAAGTGCTA-TT----------------------------AGAAA-TAATAT---CGT---TACG-GACTA-TT------TTGAAC-AATTTGA---ATGCGTc
gi|12 : TN-TTTAGAATACGTTTCGAC---AAAC-TGATAAATA-CAATAT---CGA---TACC-GACTA-CT------TTGAAC-AATTTTA---ATGCATCAGTTtga
gi|13 : AC-AC-TATAGCTCATTT-TTCG-C-A-----TTTTAA-T----CAAATGCTATTTTAAAATTCGTATCGAT-----------TAAA-------AT---CGA---AACC-GACTG-TT------TTGAtgaac
gi|14 : TTAAAATATGTATCAAC---AAAA-TGATAAAAT-TAATAT---CGA---TACC-GACTA-TG------TTG--CTTATTTTA---ATACATCGATT
gi|15 : cgaATACATATCGATTA-AAAA-TGTTAAA---TAAAAT---CGAGTTTCCC-GACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAGtgctc
gi|16 : ATACATATCGATTAAAAAA-TGTTAAA---TAAAGT---CGAGT-TCCC-GACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAGctc
gi|17 : AAAATGTGCATCAAT---AAAA-TGATAAAAA-TCAAAT---CAA---TACC-GACTA-TT------TTGAAC-AATTTGA---AAGCATCAATTct
gi|18 : ATACATATCGATTA-AAAA-TGTTAAA---TAAAAT---CGG---TTCCCGACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAGtg
gi|19 : CATTTATTCG-C-A-----TTTT-AAT----CAAGTGCTA-TTTAAAATTCGTATCGAT---AAAA-T------------------CGA---AACC-GACTG-TT------TTGAAct
gi|2 : cta-TACACTTCATTT-TATA-T-AGTTATTCTC-C-T----CAAGTGCTA-TTTAAAATGCGTATCGAT---CAAA-TGATAGAAA--AATATATGCGA---TTCC-GGCTATTT------TTGAAC-AATCTGA---ATGCACCAATGAG
gi|20 : gACATATCGAT---AAAAATGTTAAAA--TAAAAT---CGG---TTCC-GACT--TT------TTCAAC-AATTTGA---ATGCATCAATTAG
gi|21 : TTNTTT-TCCA-C-A-----TTTT-GGT----CAAGTGCTA-TTCAAAATGTGCATCAAT---AActc
gi|22 : AAGAGAC-AC-TACAGCTCATTT-TTCA-TAA-----TTTC-A-T----TAAGTGCCA-
gi|23 : aatgAAAGCGAC-AC-TACAGCTCATTT-TCCA-C-A-----TTTTGG-T----CAAGTGCT
gi|24 : taaAAGAGAC-AC-TACAGCTCATTT-TTCA-TAA-----TTTC-A-T----TAAGTGC
gi|25 : aatgAAGAGAC-AC-TACAGCTCATTT-TTCA-TAA-----TTTC-A-T----TAAGTGC
gi|26 : aatgAAGAGAC-AC-TACAGCTCATTT-TTCA-TAA-----TTTC-A-T----TAAGTGC
gi|27 : ttgA---TTCC-GACTG-TT------TTGAAC-AATTTGA---ATACATCAACTAGa
gi|28 : -GACTA-TT------TTGAAC-AATTTGATTGCTGCATCAATTAGctc
gi|3 : AGAGAC-AC-TACAGCTCATTA-TCCA-C-A-----TTTT-AAT----CAAGTGCTG-TTCAAAATATGTATCAAT---TAAA-CGATCGAAT-CCATAT---CAA---TACT-GACAA-TT------TTTAAC-AATTTGA---ATGCACTAATTct
gi|4 : AAAGAGAC-AC-TACAGCTCATTT-TT-------------TC-A-T----CAAGTGCTA-TTTATAATACATATCGAT---CAAA-TGATTAAAA-TGATAA---CGA---TCCC-GACTA-TT------TTGAAC-AATTTGA---ATGCTTCAATAAG
gi|5 : AAGAGACTATATATAGCTCATTT-TCCA-C-A-----TTTT-AAT----CAAGTGCTG-TTCAAAATAAATATCGAT---AAAA-TGATAAACA-TCATAT---TGA---TAAT-GACAA-TT------TTGAAC-AATTTGA---ATGCA
gi|6 : AGAAAC-AC-TACAGCTCATTT-TTC---------------A-T----CAAGTGCTT-TTTAAAATACACATTGAT---AAAA-TGATAGAAA-TAATAA---TGA---TTCC-GTCTG-TT------TTGAAC-AATTTGA---ATACATCAATTAG
gi|7 : AAGAGAC-AC-TACAGCTCATTT-ATCA-T-A-----TTTC-AAT----CAAGTGCTA-TTTAGAATACGTTTCGAC---AAAC-TGATAAATA-TAATAT---CGA---TATC-GACTA-CT------Tct
gi|8 : AAGAGAC-AT-TACAGCTCATTT-TTCA-T-AT----TTTC-A-T----TGAGTGCTA-TTTATAATACGGATCGCT---AGAA---AT------TAA-AT---CGA---TTCT-GACTA-TTCTAAAGTTAAAC-AATTTGA---CTGCATntttagaatacgtttcga
gi|9 : AAGAGAC-AT-TACAGCTCATTT-TTCATT-A-----TTTC-A-T----TGAGTGCTA-TTTATAAT-CGGATCG-------------TAGAAATTAATAT---CGA---TTCT-GACTA-TTCTAAAGTTAAAC-AATTTGA---CTGCaa