lowQualScore : 22222222 11
lowQualScore : 4 55 2 55555555 44 9999999 88888
lowQualScore : . .. . ........ .. ....... .....
lowQualScore : 2 00 5 55555555 88 3333333 66666
consensus : TGTAGAAGATAT--GAACGTTTGGA--CTTG--GGC-ATTTTTCAC-------CAACG----TATGCCTCAAT
Reference ( gi|5 ) : TGTGGAAGATAT--GAATGTTTGGA--TCCG--GGC-CTTTTTCAC-------CAATA----CATGCCTCAAT
gi|1 : TGTGCAAGATAT--GAACGTTTAAA--TCCG--GGCTTTTTTTCACCAATACTCAATA----CATGCCTCAAT
gi|6 : caacttcTGTACAAGATAT--GAACAATTGGA--CTTG--GGC-CTTTTTCAC-------CAATG----TGTGCgctttt
gi|2 : taTGTCGAGAATAC--GAACGTTTGGA--ATAA--GGC-ATTTATCAC-------CAATA----TATGCCTTAGTat
gi|8 : taTGTAGAAGATATATGAATGTTTGGA--CTTT--GAC-A-TTTTCAT-------CAACA----TATGgcgttgt
gi|7 : taGAAGATAT--GAACGTTTGGA--CTTA--GGC-ATTTTTCAT-------TAATG----TATG
gi|10 : ttatacaAAGATAT--GAATGTTTGGA--CTTT--GGC-ATTTTTCAC-------CAATG----TATG
gi|11 : ggtacAGATAT--GCATGTTTGGA----CGTTGGC-ATTTTTCAC-------TAATG----TATGCt
gi|14 : agcGATAT--GAACGTTTGGA--CATT--GGC-ATTTTTTCC-------CAACA----Tat
gi|13 : ATAT--AAACGTTAGGA--CTTG--GGC-ATTTTTCAC-------CAATA----TATGCCTat
gi|9 : AT--AAACGTTTGGACATTTG--GCA-TTTTTTTTC-------CAACA----CATGCCTCAAT
gi|4 : --GAACGTTTGGA--TGAA--GGC-ATTTTTCAC-------CAACATAATTATGCCTTGATgc
gi|3 : tcAACGTTTGGA--TTTA--TGC-ATTTTTCAC-------CAACA----TGTGCCCCAGTgcattg
gi|12 : AACGTTTGGA--CTTG--AGG-ATTTTCTTC-------CAACA----CATGCCTCAATgctttgtcctcaactcc
gi|16 : --GGC-ATTTTTCAC-------CAACA----TATGCCTgc
1 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|15 ): TTATGTTCTAAGATATAAACGTTTGGACTTTTCACCAACA
Alignments
lowQualScore : 44 33 666 2 2 8888888 77777
lowQualScore : .. .. ... . . ....... .....
lowQualScore : 22 11 888 5 5 1111111 44444
consensus : TGTAGAAGATAT--GAACGTTTGGAC-TTN--GGC-ATTTTTCA-C-------CAACG----TATGCCTCAAT
Reference ( family-1433 ) : TGTAGAAGATAT--GAACGTTTGGAC-TTG--GGC-ATTTTTCA-C-------CAACG----TATGCCTCAAT
gi|1 : TGTGCAAGATAT--GAACGTTTAAAT-CCG--GGCTTTTTTTCA-CCAATACTCAATA----CATGCCTCAAT
gi|10 : caacttcGTACAAGATAT--GAATGTTTGGAC-TTT--GGC-ATTTTTCA-C-------CAATG----TATGgctttt
gi|11 : gAGCAGATAT--GCATGTTTGGAC-GTT--GGC-ATTTTTCA-C-------TAATG----TATGCt
gi|12 : AACGTTTGGAC-TTG--AGG-ATTTTCTT-C-------CAACA----CATGCCTCAATat
gi|13 : ATAT--AAACGTTAGGAC-TTG--GGC-ATTTTTCA-C-------CAATA----TATGCCTgc
gi|14 : GATAT--GAACGTTTGGAC-ATT--GGC-ATTTTTTC-C-------CAACA----TA
gi|15 : AAGATAT--AAACGTTTGGAC------------TTTTCA-C-------CAACat
gi|16 : ttatgttctGAC-TTA--GGC-ATTTTTCA-C-------CAACA----TATGCCTa
gi|2 : TGTCGAGAATAC--GAACGTTTGGAA-TAA--GGC-ATTTATCA-C-------CAATA----TATGCCTTAGT
gi|3 : taAACGTTTGGAT-TTA--TGC-ATTTTTCA-C-------CAACA----TGTGCCCCAGTgcgttgt
gi|4 : --GAACGTTTGGA---TGAAGGC-ATTTTTCA-C-------CAACATAATTATGCCTTGATgctttgtcctcaactcc
gi|5 : tcTGTGGAAGATAT--GAATGTTTGGAT-CCG--GGC-CTTTTTCA-C-------CAATA----CATGCCTCAATgcattg
gi|6 : TGTACAAGATAT--GAACAATTGGAC-TTG--GGC-CTTTTTCA-C-------CAATG----TGTGC
gi|7 : taAGAAGATAT--GAACGTTTGGAC-TTA--GGC-ATTTTTCA-T-------TAATG----TATGat
gi|8 : ttatacTGTAGAAGATATATGAATGTTTGGAC-TTT--GAC-A-TTTTCA-T-------CAACA----TATG
gi|9 : taAT--AAACGTTTGGACATTT--GGC-ATTTTTTTTC-------CAACA----CATGCCTCAAT
Alignments
lowQualScore : 44 33 1 2 2 8888888 77777
lowQualScore : .. .. . . . ....... .....
lowQualScore : 22 11 9 5 5 1111111 44444
consensus : TGTAGAAGATAT--GAACGTTTGGAC-TTNGGC-ATTTTTCA-C-------CAACG----TATGCCTCAAT
Reference ( family-1433 ) : TGTAGAAGATAT--GAACGTTTGGAC-TTNGGC-ATTTTTCA-C-------CAACG----TATGCCTCAAT
gi|1 : TGTGCAAGATAT--GAACGTTTAAAT-CCGGGCTTTTTTTCA-CCAATACTCAATA----CATGCCTCAAT
gi|10 : caacttcGTACAAGATAT--GAATGTTTGGAC-TTTGGC-ATTTTTCA-C-------CAATG----TATGgctttt
gi|11 : gAGCAGATAT--GCATGTTTGGAC-GTTGGC-ATTTTTCA-C-------TAATG----TATGCt
gi|12 : AACGTTTGGAC-TTGAGG-ATTTTCTT-C-------CAACA----CATGCCTCAATat
gi|13 : ATAT--AAACGTTAGGAC-TTGGGC-ATTTTTCA-C-------CAATA----TATGCCTgc
gi|14 : GATAT--GAACGTTTGGAC-ATTGGC-ATTTTTTC-C-------CAACA----TA
gi|15 : AAGATAT--AAACGTTTGGAC----------TTTTCA-C-------CAACat
gi|16 : ttatgttctGAC-TTAGGC-ATTTTTCA-C-------CAACA----TATGCCTa
gi|2 : TGTCGAGAATAC--GAACGTTTGGAA-TAAGGC-ATTTATCA-C-------CAATA----TATGCCTTAGT
gi|3 : taAACGTTTGGAT-TTATGC-ATTTTTCA-C-------CAACA----TGTGCCCCAGTgcgttgt
gi|4 : --GAACGTTTGGAT-GAAGGC-ATTTTTCA-C-------CAACATAATTATGCCTTGATgctttgtcctcaactcc
gi|5 : tcTGTGGAAGATAT--GAATGTTTGGAT-CCGGGC-CTTTTTCA-C-------CAATA----CATGCCTCAATgcattg
gi|6 : TGTACAAGATAT--GAACAATTGGAC-TTGGGC-CTTTTTCA-C-------CAATG----TGTGC
gi|7 : taAGAAGATAT--GAACGTTTGGAC-TTAGGC-ATTTTTCA-T-------TAATG----TATGat
gi|8 : ttatacTGTAGAAGATATATGAATGTTTGGAC-TTTGAC-A-TTTTCA-T-------CAACA----TATG
gi|9 : taAT--AAACGTTTGGACATTTGGC-ATTTTTTTTC-------CAACA----CATGCCTCAAT
Alignments
lowQualScore : 44 33 1 2 2 8888888 77777
lowQualScore : .. .. . . . ....... .....
lowQualScore : 22 11 9 5 5 1111111 44444
consensus : TGTAGAAGATAT--GAACGTTTGGAC-TTNGGC-ATTTTTCA-C-------CAACG----TATGCCTCAAT
Reference ( family-1433 ) : TGTAGAAGATAT--GAACGTTTGGAC-TTNGGC-ATTTTTCA-C-------CAACG----TATGCCTCAAT
gi|1 : TGTGCAAGATAT--GAACGTTTAAAT-CCGGGCTTTTTTTCA-CCAATACTCAATA----CATGCCTCAAT
gi|10 : caacttcGTACAAGATAT--GAATGTTTGGAC-TTTGGC-ATTTTTCA-C-------CAATG----TATGgctttt
gi|11 : gAGCAGATAT--GCATGTTTGGAC-GTTGGC-ATTTTTCA-C-------TAATG----TATGCt
gi|12 : AACGTTTGGAC-TTGAGG-ATTTTCTT-C-------CAACA----CATGCCTCAATat
gi|13 : ATAT--AAACGTTAGGAC-TTGGGC-ATTTTTCA-C-------CAATA----TATGCCTgc
gi|14 : GATAT--GAACGTTTGGAC-ATTGGC-ATTTTTTC-C-------CAACA----TA
gi|15 : AAGATAT--AAACGTTTGGAC----------TTTTCA-C-------CAACat
gi|16 : ttatgttctGAC-TTAGGC-ATTTTTCA-C-------CAACA----TATGCCTa
gi|2 : TGTCGAGAATAC--GAACGTTTGGAA-TAAGGC-ATTTATCA-C-------CAATA----TATGCCTTAGT
gi|3 : taAACGTTTGGAT-TTATGC-ATTTTTCA-C-------CAACA----TGTGCCCCAGTgcgttgt
gi|4 : --GAACGTTTGGAT-GAAGGC-ATTTTTCA-C-------CAACATAATTATGCCTTGATgctttgtcctcaactcc
gi|5 : tcTGTGGAAGATAT--GAATGTTTGGAT-CCGGGC-CTTTTTCA-C-------CAATA----CATGCCTCAATgcattg
gi|6 : TGTACAAGATAT--GAACAATTGGAC-TTGGGC-CTTTTTCA-C-------CAATG----TGTGC
gi|7 : taAGAAGATAT--GAACGTTTGGAC-TTAGGC-ATTTTTCA-T-------TAATG----TATGat
gi|8 : ttatacTGTAGAAGATATATGAATGTTTGGAC-TTTGAC-A-TTTTCA-T-------CAACA----TATG
gi|9 : taAT--AAACGTTTGGACATTTGGC-ATTTTTTTTC-------CAACA----CATGCCTCAAT
blockSeqs : AT AT T . T . ATAAT
blockSeqs : . T T . . . G
blockSeqs : . G G . . . G
blockSeqs : . T G . . . A
blockSeqs : . T T . . . A
blockSeqs : . A A . . . A
blockSeqs : . T A . . . A
blockSeqs : . T A . . . A
blockSeqs : . T A . . . A
blockSeqs : . G G . . . A
blockSeqs : . C G . . . G
blockSeqs : . T A . . . G
blockSeqs : T T . . . A
blockSeqs : T T . . . A
blockSeqs : . . . . .
blockSeqCons : *******
originalCons : TGTAGAAGATAT--GAACGTTTGGAC-TTNGGC-ATTTTTCA-C-------CAACG----TATGCCTCAAT
finalCons : TGTAGAAGATAT--GAACGTTTGGAC-TTNGGC-ATTTTTCA-C-------CAACG----TATGCCTCAAT
Alignments
lowQualScore : 44 33 1 2 2 8888888 77777
lowQualScore : .. .. . . . ....... .....
lowQualScore : 22 11 9 5 5 1111111 44444
consensus : TGTAGAAGATAT--GAACGTTTGGAC-TTNGGC-ATTTTTCA-C-------CAACG----TATGCCTCAAT
Reference ( family-1433 ) : TGTAGAAGATAT--GAACGTTTGGAC-TTNGGC-ATTTTTCA-C-------CAACG----TATGCCTCAAT
gi|1 : TGTGCAAGATAT--GAACGTTTAAAT-CCGGGCTTTTTTTCA-CCAATACTCAATA----CATGCCTCAAT
gi|10 : caacttcGTACAAGATAT--GAATGTTTGGAC-TTTGGC-ATTTTTCA-C-------CAATG----TATGgctttt
gi|11 : gAGCAGATAT--GCATGTTTGGAC-GTTGGC-ATTTTTCA-C-------TAATG----TATGCt
gi|12 : AACGTTTGGAC-TTGAGG-ATTTTCTT-C-------CAACA----CATGCCTCAATat
gi|13 : ATAT--AAACGTTAGGAC-TTGGGC-ATTTTTCA-C-------CAATA----TATGCCTgc
gi|14 : GATAT--GAACGTTTGGAC-ATTGGC-ATTTTTTC-C-------CAACA----TA
gi|15 : AAGATAT--AAACGTTTGGAC----------TTTTCA-C-------CAACat
gi|16 : ttatgttctGAC-TTAGGC-ATTTTTCA-C-------CAACA----TATGCCTa
gi|2 : TGTCGAGAATAC--GAACGTTTGGAA-TAAGGC-ATTTATCA-C-------CAATA----TATGCCTTAGT
gi|3 : taAACGTTTGGAT-TTATGC-ATTTTTCA-C-------CAACA----TGTGCCCCAGTgcgttgt
gi|4 : --GAACGTTTGGAT-GAAGGC-ATTTTTCA-C-------CAACATAATTATGCCTTGATgctttgtcctcaactcc
gi|5 : tcTGTGGAAGATAT--GAATGTTTGGAT-CCGGGC-CTTTTTCA-C-------CAATA----CATGCCTCAATgcattg
gi|6 : TGTACAAGATAT--GAACAATTGGAC-TTGGGC-CTTTTTCA-C-------CAATG----TGTGC
gi|7 : taAGAAGATAT--GAACGTTTGGAC-TTAGGC-ATTTTTCA-T-------TAATG----TATGat
gi|8 : ttatacTGTAGAAGATATATGAATGTTTGGAC-TTTGAC-A-TTTTCA-T-------CAACA----TATG
gi|9 : taAT--AAACGTTTGGACATTTGGC-ATTTTTTTTC-------CAACA----CATGCCTCAAT