lowQualScore : 1 111111111 333333333333333333333333333 4444444 1111 11
lowQualScore : 3 1 2 3 222222222 6 222222222222222222222222222 2 555 2 2 555 3 2222222 55 6 8 8888 33 77 3
lowQualScore : . . . . ......... . ........................... . ... . . ... . ....... .. . . .... .. .. .
lowQualScore : 3 3 9 1 333333333 2 444444444444444444444444444 9 000 9 9 222 0 1111111 00 2 9 9999 66 99 2
consensus : ATACAAAGGTCAAGCA-TAAGAAATATTGTACAAAGATATAAA-TGAT-A---------A-TGAAC-------AA--AATA---------T--T-T---TA-GGAA-TGC-GACAGTATTGTAT--AAA-TTTTTA--CATGAATAGAATTGA-AT----TTTGCCAAG--T--AATGCTACAT
Reference ( gi|1 ) : ATACAAAGGTCAAGCA-TAAGAAATATTGTACAAAGATATCAA-TGAT-A---------A-TGAAC-------AA--AATA---------T--T-T---TA-GGAA-TGC-AACAGCATTGTAT-TAAACTTTTTA--CATGAACAGAATTGA-AT----TTTGCCAAG--T--AATGCTACATGTAT
gi|7 : ATACAAAGATCAAGCA-TAAGAAATATTGTACAAAGATATTAA-TGAT-A---------A-TGAAC-------AA--AATA---------T--T-T---TA-GGAA-TGC-AACAGCATTGTAT---AACTTTTTA--CATGAATAGAATTGA-AT----TT
gi|5 : ATACAAAGGTCAAGCA-TAAGAAATAT--TAC--AGATATAAA-TAAT-A---------A-TG--------------AATATTTTTTTTTT--T-T---TA-GGAA-TGC-AACAGCATTGTA--TAAA-TTTTTA--C-TAAGTAGCATTGA-AT----TTTGCCAGG--T--AATGC
gi|13 : ATACAAAGGTCAAGCA-TAAGAAATATTGTACAAAGATATAAA-AGAT-A---------A-CAAAC------------ATA---------T--T-TTTGTA-GGAA-TGT-GACAGTATT
gi|10 : ACACATAGGTCAAGCA-TAAGAAATATCGAACAAAGATA-CAGCCGAT-A---------A-TTAAC-------AG--AATT---------A--T-T---TG-GGAA-TGT-GACAGTATTG------AATTTTTCA--CAT
gi|2 : aACAAAGATCAAGCAGTAAGAAATATTGTACAAAGATATTAA-TGAT-A---------ACTGAAC-------AA--AAAT---------T--T-T---TA-GGAATTGCAAAAAGCATTG----TAAACTTTTTACGCATGAATAGAATTGA-AT----TTTGCCAAG--TAGAATGCTAtga
gi|14 : cgACAAAGGTCAAGCA-TAAAAAATATTGTACAAAGATATGAA-TGAT-A---------A-TGAAA-------CA--AATA---------T--T-T---TA-GGAA-Ta
gi|6 : ACAAAGGTCAAGCA-TAAAAAATATTGTAAAAAGATATGAA-TGAT-AAGATAAGATA-TGAATGATATTGAA--AGTA---------TTAT-T---TG-GGGA-TGT-GACAGTATCATAa
gi|16 : ACAAAGGTCAAGCA-TAAGAAATATTGTGCAAAGATATTAG-Taattatatagttttac
gi|9 : AAGGTCAAGCA-TAAGAAATATTGTACAAAGATATAAA-TGAT-A---------A-TGAAC-----------AGTA---------TG-T-T---TG-GTAA-TGT-GACAATAATGTATATAG---TTTTA--TATGGATAG
gi|3 : GGTCAAGTA-TAAGAAACATTGCACAAAGATATAAC-GGAT-A---------ATTTAAC-----------AGTA---------T--TAT---TAGGGGA-TAT-GACAGTATTGTAT-GGAG--TTTTA--CATGAACAGAGTTGATATGTAGTTTACCAAGTAT--AATGCtttaccaaa
gi|4 : CAAGCA-TAAGAAATATTGTACATAGATATAAA-TGAT-A---------A-CGAAC-------AATTTTTT---------T--T-T---TA-GGAA-TGC-AACAGTATTGTA--TAAA-TTTTTA--CATGAATAGAATTGA-AT----TTTGCCAAG--T--AATGCTA
gi|11 : aatgtgAAGCA-TAAGAAA-ATT-TA-----ATATGAA-TGGT-A---------A-TGAAC-------AG--TATT---------A--T-T---TG-GGGA-TGC-GACAATATTGTA---AAG--TTTTA--CATG--------TGA-GG----TTTGCCAAG--T--AA
gi|8 : aAGAAATATTGTACAAAGATGTAAA-TGATAA---------A-TGAAC-------AA--AGTG------------T-T---AA-GGAA-TGC-AACAGTATTGTAT-GAA--TTTTTA--CATGAATAGAATTGC-AT----TTTGCGAAG--T--AATGCTA
gi|15 : AAAGATATAAA-TGAT-A---------A-TGAAC-------AA--A------------T--T-T---T-------TG-----------GTAT--AAA-TTTTTA--CATGAATAGAATTGA-AT----T
gi|12 : ---------T--T-T---TG-GAGA-TGT-GACAGTATTGTAA-AAAG---TTTA--CATGAAAAGAGTTAATATTAGGTTTGCTGCGT-T--AATGCT-CAT
Alignments
lowQualScore : 111111111 2222222222222222222222222 1111 11
lowQualScore : 3 2 111111111 5 1111111111111111111111111 2 444 5555 2 33 33 3 3 44 8 7777 11 66 0
lowQualScore : . . ......... . ......................... . ... .... . .. .. . . .. . .... .. .. .
lowQualScore : 1 9 444444444 7 8888888888888888888888888 7 777 6666 7 33 55 1 3 66 0 0000 99 99 8
consensus : ATACAAAGGTCAAGCA-TAAGAAATATTGTACAAAGATATAAATGAT-A---------A-TGAAC-------AAAATA---------T--T-T---T--A-GGAA-TGC-GACAGTATTGTA-TAAA-TTTTT-A--CATGAATAGAATTGA-AT----TTTGCCAAG--T--AATGCTACAT
Reference ( family-2627 ) : ATACAAAGGTCAAGCA-TAAGAAATATTGTACAAAGATATAAATGAT-A---------A-TGAAC-------AAAATA---------T--T-T---T--A-GGAA-TGC-GACAGTATTGTA-TAAA-TTTTT-A--CATGAATAGAATTGA-AT----TTTGCCAAG--T--AATGCTACAT
gi|1 : ATACAAAGGTCAAGCA-TAAGAAATATTGTACAAAGATATCAATGAT-A---------A-TGAAC-------AAAATA---------T--T-T---T--A-GGAA-TGC-AACAGCATTGTATTAAACTTTTT-A--CATGAACAGAATTGA-AT----TTTGCCAAG--T--AATGCTACAT
gi|10 : ACACATAGGTCAAGCA-TAAGAAATATCGAACAAAGATACAGCCGAT-A---------A-TTAAC-------AGAATT---------A--T-T---T--G-GGAA-TGT-GACAGTATTG-----AA-TTTTTCA--CATgtat
gi|11 : aAAGCA-TAAGAAA-ATT-TA-----ATATGAATGGT-A---------A-TGAAC-------AGTATT---------A--T-T---T--G-GGGA-TGC-GACAATATTG---TAAA-GTTTT-A--CATG--------TGA-GG----TTTGCCAAG--T--AAtga
gi|12 : a---------T--T-T---T--G-GAGA-TGT-GACAGTATTGTA--AAA-AGTTT-A--CATGAAAAGAGTTAATATTAGGTTTGCTGCGT-T--AATGCT-CAT
gi|13 : gcagttATACAAAGGTCAAGCA-TAAGAAATATTGTACAAAGATATAAAAGAT-A---------A-CAAAC----------ATA---------T--T-TTTGT--A-GGAA-TGT-GACAGTATTa
gi|14 : ACAAAGGTCAAGCA-TAAAAAATATTGTACAAAGATATGAATGAT-A---------A-TGAAA-------CAAATA---------T--T-T---T--A-GGAA-T
gi|15 : AAAGATATAAATGAT-A---------A-TGAAC-------AAA------------T--T-T---T---------TG-----------GTA-TAAA-TTTTT-A--CATGAATAGAATTGA-AT----Ta
gi|16 : ACAAAGGTCAAGCA-TAAGAAATATTGTGCAAAGATAT
gi|2 : ACAAAGATCAAGCAGTAAGAAATATTGTACAAAGATATTAATGAT-A---------ACTGAAC-------AAAAAT---------T--T-T---T--A-GGAATTGCAAAAAGCATTGTA--AAC-TTTTT-ACGCATGAATAGAATTGA-AT----TTTGCCAAG--TAGAATGCTAtagt
gi|3 : cgGGTCAAGTA-TAAGAAACATTGCACAAAGATATAACGGAT-A---------ATTTAAC---------AGTA---------T--TAT---T--AGGGGA-TAT-GACAGTATTGTA-TGGA-GTTTT-A--CATGAACAGAGTTGATATGTAGTTTACCAAGTAT--AATGCa
gi|4 : CAAGCA-TAAGAAATATTGTACATAGATATAAATGAT-A---------A-CGAAC-------AATTTT---------T--T-T---TTTA-GGAA-TGC-AACAGTATTGTA-TAAA-TTTTT-A--CATGAATAGAATTGA-AT----TTTGCCAAG--T--AATGCTAC
gi|5 : aatgtgATACAAAGGTCAAGCA-TAAGAAATAT--TAC--AGATATAAATAAT-A---------A-TG------------AATATTTTTTTTTT--T-T---T--A-GGAA-TGC-AACAGCATTGTA-TAAA-TTTTT-A--C-TAAGTAGCATTGA-AT----TTTGCCAGG--T--AATGC
gi|6 : ACAAAGGTCAAGCA-TAAAAAATATTGTAAAAAGATATGAATGAT-AAGATAAGATA-TGAATGATATTGAAAGTA---------TTAT-T---T--G-GGGA-TGT-GACAGTAT--CA-TAAA-TT
gi|7 : ATACAAAGATCAAGCA-TAAGAAATATTGTACAAAGATATTAATGAT-A---------A-TGAAC-------AAAATA---------T--T-T---T--A-GGAA-TGC-AACAGCATTGTA-TAAC-TTTTT-A--CATGAATAGAATTGA-AT----TTatatagttttac
gi|8 : AGAAATATTGTACAAAGATGTAAATGATAA---------A-TGAAC-------AAAGTG------------T-T---A--A-GGAA-TGC-AACAGTATTGTA-TGAA-TTTTT-A--CATGAATAGAATTGC-AT----TTTGCGAAG--T--AATGCTA
gi|9 : AAGGTCAAGCA-TAAGAAATATTGTACAAAGATATAAATGAT-A---------A-TGAAC---------AGTA---------TG-T-T---T--G-GTAA-TGT-GACAATAATGTA-TATA-GTTTT-A--TATGGATAG
Alignments
lowQualScore : 111111111 2222222222222222222222222 1111 11
lowQualScore : 3 2 111111111 5 1111111111111111111111111 2 444 5555 2 33 33 3 3 44 8 7777 11 66 0
lowQualScore : . . ......... . ......................... . ... .... . .. .. . . .. . .... .. .. .
lowQualScore : 1 9 444444444 7 8888888888888888888888888 7 777 6666 7 33 55 1 3 66 0 0000 99 99 8
consensus : ATACAAAGGTCAAGCA-TAAGAAATATTGTACAAAGATATAAATGAT-A---------A-TGAAC-------AAAATA---------T--T-T---T--A-GGAA-TGC-GACAGTATTGTA-TAAA-TTTTT-A--CATGAATAGAATTGA-AT----TTTGCCAAG--T--AATGCTACAT
Reference ( family-2627 ) : ATACAAAGGTCAAGCA-TAAGAAATATTGTACAAAGATATAAATGAT-A---------A-TGAAC-------AAAATA---------T--T-T---T--A-GGAA-TGC-GACAGTATTGTA-TAAA-TTTTT-A--CATGAATAGAATTGA-AT----TTTGCCAAG--T--AATGCTACAT
gi|1 : ATACAAAGGTCAAGCA-TAAGAAATATTGTACAAAGATATCAATGAT-A---------A-TGAAC-------AAAATA---------T--T-T---T--A-GGAA-TGC-AACAGCATTGTATTAAACTTTTT-A--CATGAACAGAATTGA-AT----TTTGCCAAG--T--AATGCTACAT
gi|10 : ACACATAGGTCAAGCA-TAAGAAATATCGAACAAAGATACAGCCGAT-A---------A-TTAAC-------AGAATT---------A--T-T---T--G-GGAA-TGT-GACAGTATTG-----AA-TTTTTCA--CATgtat
gi|11 : aAAGCA-TAAGAAA-ATT-TA-----ATATGAATGGT-A---------A-TGAAC-------AGTATT---------A--T-T---T--G-GGGA-TGC-GACAATATTG---TAAA-GTTTT-A--CATG--------TGA-GG----TTTGCCAAG--T--AAtga
gi|12 : a---------T--T-T---T--G-GAGA-TGT-GACAGTATTGTA--AAA-AGTTT-A--CATGAAAAGAGTTAATATTAGGTTTGCTGCGT-T--AATGCT-CAT
gi|13 : gcagttATACAAAGGTCAAGCA-TAAGAAATATTGTACAAAGATATAAAAGAT-A---------A-CAAAC----------ATA---------T--T-TTTGT--A-GGAA-TGT-GACAGTATTa
gi|14 : ACAAAGGTCAAGCA-TAAAAAATATTGTACAAAGATATGAATGAT-A---------A-TGAAA-------CAAATA---------T--T-T---T--A-GGAA-T
gi|15 : AAAGATATAAATGAT-A---------A-TGAAC-------AAA------------T--T-T---T---------TG-----------GTA-TAAA-TTTTT-A--CATGAATAGAATTGA-AT----Ta
gi|16 : ACAAAGGTCAAGCA-TAAGAAATATTGTGCAAAGATAT
gi|2 : ACAAAGATCAAGCAGTAAGAAATATTGTACAAAGATATTAATGAT-A---------ACTGAAC-------AAAAAT---------T--T-T---T--A-GGAATTGCAAAAAGCATTGTA--AAC-TTTTT-ACGCATGAATAGAATTGA-AT----TTTGCCAAG--TAGAATGCTAtagt
gi|3 : cgGGTCAAGTA-TAAGAAACATTGCACAAAGATATAACGGAT-A---------ATTTAAC---------AGTA---------T--TAT---T--AGGGGA-TAT-GACAGTATTGTA-TGGA-GTTTT-A--CATGAACAGAGTTGATATGTAGTTTACCAAGTAT--AATGCa
gi|4 : CAAGCA-TAAGAAATATTGTACATAGATATAAATGAT-A---------A-CGAAC-------AATTTT---------T--T-T---TTTA-GGAA-TGC-AACAGTATTGTA-TAAA-TTTTT-A--CATGAATAGAATTGA-AT----TTTGCCAAG--T--AATGCTAC
gi|5 : aatgtgATACAAAGGTCAAGCA-TAAGAAATAT--TAC--AGATATAAATAAT-A---------A-TG------------AATATTTTTTTTTT--T-T---T--A-GGAA-TGC-AACAGCATTGTA-TAAA-TTTTT-A--C-TAAGTAGCATTGA-AT----TTTGCCAGG--T--AATGC
gi|6 : ACAAAGGTCAAGCA-TAAAAAATATTGTAAAAAGATATGAATGAT-AAGATAAGATA-TGAATGATATTGAAAGTA---------TTAT-T---T--G-GGGA-TGT-GACAGTAT--CA-TAAA-TT
gi|7 : ATACAAAGATCAAGCA-TAAGAAATATTGTACAAAGATATTAATGAT-A---------A-TGAAC-------AAAATA---------T--T-T---T--A-GGAA-TGC-AACAGCATTGTA-TAAC-TTTTT-A--CATGAATAGAATTGA-AT----TTatatagttttac
gi|8 : AGAAATATTGTACAAAGATGTAAATGATAA---------A-TGAAC-------AAAGTG------------T-T---A--A-GGAA-TGC-AACAGTATTGTA-TGAA-TTTTT-A--CATGAATAGAATTGC-AT----TTTGCGAAG--T--AATGCTA
gi|9 : AAGGTCAAGCA-TAAGAAATATTGTACAAAGATATAAATGAT-A---------A-TGAAC---------AGTA---------TG-T-T---T--G-GTAA-TGT-GACAATAATGTA-TATA-GTTTT-A--TATGGATAG
blockSeqs : G A AGATAAGAT C GATATTGAAAGTATTA A TTG TTA T CA T . C CG T TAGG TA AG
blockSeqs : . . . T AATATTTTTTTTTT . . AG . T T . . . T GTAG T .
blockSeqs : . . . . AGAATTA . . G . C T . . . . . . .
blockSeqs : . . . . AGTATTA . . G . T T . . . . . . .
blockSeqs : . . . . CAAATAT . . G . T T . . . . . . .
blockSeqs : . . . . AAAAATT . . A . T T . . . . . . .
blockSeqs : . . . . AATTTTT . . A . C T . . . . . . .
blockSeqs : . . . . AAAATAT . . A . C T . . . . .
blockSeqs : . . . . AAAGTG . . A . T T . . . . .
blockSeqs : . . . . AGTATG . . G . C . . . .
blockSeqs : . . . . AGTAT . . A . C . . . .
blockSeqs : . . . . ATAT . . A . T . .
blockSeqs : . . . AAAT . . G . .
blockSeqs : . . . .
blockSeqCons : T*
originalCons : ATACAAAGGTCAAGCA-TAAGAAATATTGTACAAAGATATAAATGAT-A---------A-TGAAC-------AAAATA---------T--T-T---T--A-GGAA-TGC-GACAGTATTGTA-TAAA-TTTTT-A--CATGAATAGAATTGA-AT----TTTGCCAAG--T--AATGCTACAT
finalCons : ATACAAAGGTCAAGCA-TAAGAAATATTGTACAAAGATATAAATGAT-A---------A-TGAAC-------AAAATA---------T--T-T---T--A-GGAA-TGC-GACAGTATTGTAT-AAA-TTTTT-A--CATGAATAGAATTGA-AT----TTTGCCAAG--T--AATGCTACAT
Alignments
lowQualScore : 111111111 2222222222222222222222222 1111 11
lowQualScore : 3 2 111111111 5 1111111111111111111111111 2 444 5555 2 33 33 3 3 44 8 7777 11 66 0
lowQualScore : . . ......... . ......................... . ... .... . .. .. . . .. . .... .. .. .
lowQualScore : 1 9 444444444 7 8888888888888888888888888 7 777 6666 7 33 55 1 3 66 0 0000 99 99 8
consensus : ATACAAAGGTCAAGCA-TAAGAAATATTGTACAAAGATATAAATGAT-A---------A-TGAAC-------AAAATA---------T--T-T---T--A-GGAA-TGC-GACAGTATTGTA-TAAA-TTTTT-A--CATGAATAGAATTGA-AT----TTTGCCAAG--T--AATGCTACAT
Reference ( family-2627 ) : ATACAAAGGTCAAGCA-TAAGAAATATTGTACAAAGATATAAATGAT-A---------A-TGAAC-------AAAATA---------T--T-T---T--A-GGAA-TGC-GACAGTATTGTA-TAAA-TTTTT-A--CATGAATAGAATTGA-AT----TTTGCCAAG--T--AATGCTACAT
gi|1 : ATACAAAGGTCAAGCA-TAAGAAATATTGTACAAAGATATCAATGAT-A---------A-TGAAC-------AAAATA---------T--T-T---T--A-GGAA-TGC-AACAGCATTGTATTAAACTTTTT-A--CATGAACAGAATTGA-AT----TTTGCCAAG--T--AATGCTACAT
gi|10 : ACACATAGGTCAAGCA-TAAGAAATATCGAACAAAGATACAGCCGAT-A---------A-TTAAC-------AGAATT---------A--T-T---T--G-GGAA-TGT-GACAGTATTG-----AA-TTTTTCA--CATgtat
gi|11 : aAAGCA-TAAGAAA-ATT-TA-----ATATGAATGGT-A---------A-TGAAC-------AGTATT---------A--T-T---T--G-GGGA-TGC-GACAATATTG---TAAA-GTTTT-A--CATG--------TGA-GG----TTTGCCAAG--T--AAtga
gi|12 : a---------T--T-T---T--G-GAGA-TGT-GACAGTATTGTA--AAA-AGTTT-A--CATGAAAAGAGTTAATATTAGGTTTGCTGCGT-T--AATGCT-CAT
gi|13 : gcagttATACAAAGGTCAAGCA-TAAGAAATATTGTACAAAGATATAAAAGAT-A---------A-CAAAC----------ATA---------T--T-TTTGT--A-GGAA-TGT-GACAGTATTa
gi|14 : ACAAAGGTCAAGCA-TAAAAAATATTGTACAAAGATATGAATGAT-A---------A-TGAAA-------CAAATA---------T--T-T---T--A-GGAA-T
gi|15 : AAAGATATAAATGAT-A---------A-TGAAC-------AAA------------T--T-T---T---------TG-----------GTA-TAAA-TTTTT-A--CATGAATAGAATTGA-AT----Ta
gi|16 : ACAAAGGTCAAGCA-TAAGAAATATTGTGCAAAGATAT
gi|2 : ACAAAGATCAAGCAGTAAGAAATATTGTACAAAGATATTAATGAT-A---------ACTGAAC-------AAAAAT---------T--T-T---T--A-GGAATTGCAAAAAGCATTGTA--AAC-TTTTT-ACGCATGAATAGAATTGA-AT----TTTGCCAAG--TAGAATGCTAtagt
gi|3 : cgGGTCAAGTA-TAAGAAACATTGCACAAAGATATAACGGAT-A---------ATTTAAC---------AGTA---------T--TAT---T--AGGGGA-TAT-GACAGTATTGTA-TGGA-GTTTT-A--CATGAACAGAGTTGATATGTAGTTTACCAAGTAT--AATGCa
gi|4 : CAAGCA-TAAGAAATATTGTACATAGATATAAATGAT-A---------A-CGAAC-------AATTTT---------T--T-T---TTTA-GGAA-TGC-AACAGTATTGTA-TAAA-TTTTT-A--CATGAATAGAATTGA-AT----TTTGCCAAG--T--AATGCTAC
gi|5 : aatgtgATACAAAGGTCAAGCA-TAAGAAATAT--TAC--AGATATAAATAAT-A---------A-TG------------AATATTTTTTTTTT--T-T---T--A-GGAA-TGC-AACAGCATTGTA-TAAA-TTTTT-A--C-TAAGTAGCATTGA-AT----TTTGCCAGG--T--AATGC
gi|6 : ACAAAGGTCAAGCA-TAAAAAATATTGTAAAAAGATATGAATGAT-AAGATAAGATA-TGAATGATATTGAAAGTA---------TTAT-T---T--G-GGGA-TGT-GACAGTAT--CA-TAAA-TT
gi|7 : ATACAAAGATCAAGCA-TAAGAAATATTGTACAAAGATATTAATGAT-A---------A-TGAAC-------AAAATA---------T--T-T---T--A-GGAA-TGC-AACAGCATTGTA-TAAC-TTTTT-A--CATGAATAGAATTGA-AT----TTatatagttttac
gi|8 : AGAAATATTGTACAAAGATGTAAATGATAA---------A-TGAAC-------AAAGTG------------T-T---A--A-GGAA-TGC-AACAGTATTGTA-TGAA-TTTTT-A--CATGAATAGAATTGC-AT----TTTGCGAAG--T--AATGCTA
gi|9 : AAGGTCAAGCA-TAAGAAATATTGTACAAAGATATAAATGAT-A---------A-TGAAC---------AGTA---------TG-T-T---T--G-GTAA-TGT-GACAATAATGTA-TATA-GTTTT-A--TATGGATAG