lowQualScore : 11111111111111111111111
lowQualScore : 55555555555555555555555
lowQualScore : 3 1 4 1 3 22 1 1 1 1 1 22 66666666666666666666666 0 1 1 2222 1 1 4 1 3
lowQualScore : . . . . . .. . . . . . .. ....................... . . . .... . . . . .
lowQualScore : 1 4 4 5 0 00 5 5 5 5 5 00 55555555555555555555555 7 5 5 1111 5 5 4 4 1
consensus : ATCGCAAA-CC-ACGGGTTATTG-TT-T-C--A-T-T-CTA-TTT-C-ACAA-AC-T-GT-------------TTGTGAAATAG-A-A-T--G-A-AA-CAATAACCCGT-GG-TTTGCGAC
Reference ( gi|1 ) : ATCGCAAA-CC-ACGGGTTATTG-TT-T-C--A-T-T-CTA-TTT-C-ACAA-AC-T-GTGACCACAA---A-CTGTGAAATAG-A-A-T--G-A-AA-CAATAACCCGT-GG-TTTGCGAC
gi|3 : ATCGCAAA-CC-AAGGGTTATTG-TT-T-T--A-T-T-CTA-TTT-T-ACAA-AC-T-----------------TGTGGAATAG-A-A-T--G-A-AA-CAATAACCCGT-GGTTTTGCGAC
gi|10 : cATCGCAAA-CC-ACGGTCTGTTG-TT-T-C--A-A-T-CTA-TTTGCGACAA-GC-
gi|3 : gcatcTCGCAAAACC-ACGGGTTATTG-TT-T-C--A-T-T-CTA-TTC-C-ACAA-GT-T-----------------TGTAAAATAG-A-A-T--A-A-AA-CAATAACCCTT-GG-TTTGCGAatacgaatggagtgaa
gi|2 : cgTCGCAAA-CC-ACGGGTTATTG-TT-T-C----T-T-CTA-TTT-C-ACAA-AC-------CCACGG---GTTTGTGAAATAG-A-A-T--G---AA-CAATAACCCGTGGG-TTTGt
gi|11 : TCGCAAA-CC-ACGGGTTATTG-TT-T-C--A-T-T-CTA-TTT-----------------------------TGTGAAATAG-A-A-T--G-A-AA-CAATAACCCGT-Gc
gi|5 : cgTCGCAAA-AC-ACGGGTTATTG-TT-TTC--A-TGT-CTA-TT--C-ACAA-ACAT-GTGA----------------AAATAG-A-A-T--G-A-AA-CAATAACCCGT-G---TTGCGA
gi|5 : gTCGCAA---C-ACGGGTTATTG-TT-T-C--A-T-T-CTATTTT-C-ACA-----T-GT-------------TTGTG-AATAG-ACA-T--GAA-AA-CAATAACCCGT-GT-TTTGCGAC
gi|4 : TCGCAAA-CC-ACGGTTGATTG--T-T-C--A-T-T-CTA-TTT-C-ACAATA----GTGA----------------AAATAGCA-ATT--G-A-AA-CAATAACCCGT-GG-TTTGCGAC
gi|4 : gTCGCAAA-CC-ACGGGTTATTG-TT-T-C--AAT-TGCTA-TTT-T--CA---C-T-AT--------------TGTGAAATAG-A-A-T--G-A-A--CAATCAACCGT-GG-TTTGCGACg
gi|16 : TCGCAAA-CC-ACGGGTTATTG-TT-T-C--A-T-T-CTA-TTT-C-ACAA-AC-C-GGG----------T-TTGTGAAATAG-A-cg
gi|7 : TCGCAAA-CC-ATAGTTTATTG-TT-T-C---------TA-TTC-C-----------GT-------------TTGTGAAATGG-A-A-T--G-AGAA-CAATAACCCGT-GG-TTTGC
gi|8 : tTCGCAAA-CC-ACGGGTTATTG-TT-T-TCAA-T-T-CTA-TTT-C-AC---------TGAT-----------TG-GAAATAG-A-A-T--G-A-AACCAATCAACCGT-Gcaa
gi|14 : gTCGCAAA-TT-ACGGGTTATTG-AT-T-C--A-T-T-CTA-TTT-C-ACAA-A--T-ATT------------TTGTGAAATAG-A-A-T--G-
gi|9 : cgTCGCAAA-CC-ACGGGTTATTGTTT-T-C--A-T-C-CCA-TTT-C-GCAA-A-----TGA--------------------------------A-AA-CAATAACCCAT-GG-TTTGCGAC
gi|9 : gTCGCAAA-CC-ATGGGTTATTG-TT-TTC--A-T-T-------------------------------------TGCGAAATGG-G-A-T--G-A-AAACAATAACCCGT-GG-TTTGCGACg
gi|17 : TCGCAAA-CC-ACGGGTTATTG-Tcg
gi|13 : cgcaaaccacgggttattgtttcattctatttcTCGCAAA-C--ACGGGTTATTG-TT-T-C--A-T-T-CTA-TTT-C-ACAA-Acg
gi|6 : cgTCGCAGATCC-ATGGGTT---G-TT-T------T-T-CCA-TTC-C-ATAG-AA-C-GAGA--ACAA---C-CCG-------G-A-G--------AA-CAATAACCCGT-GG-TTTGCGACtaacccgtggtttgtaacaa
gi|6 : TCGCAAA-CC-ACGGGTTATTG-TT--------C-T-C----------CGG-GT-T-GT--TCTCGT---T-CTATGGAATGG-A-A------A-AA-C---AACCCAT-GGATCTGCGA
gi|18 : TCGCAAA-CC-ACGGGTTA-TG--T-T-C--A-T-T-CTA-TTT-c
gi|15 : TCGCAAA-CC-ACGGGTTATTG-TC-T-C--
gi|12 : atagTCGCAAA-CA-ACTTGTTATTGTTT-T-C--A-T-T-CTA-TTT-catgaaaacaataacgtgattttcaacgcat
gi|17 : atcgtagcaaactacgggttatttcacCGCAAA-CC-ACGGGTTATTG-TT-T-C--A-T-T-CTA-TTT-C-ACAA-
gi|7 : GCAAA-CC-ACGGGTTATTG-TTCT-C--A-T-T-CCA-TTT-C-ACAA-AC----------------------GGAATA---------G-A-AA-CAATAAACTAT-GG-TTTGCGACtaacccgtggtttgcgacg
gi|2 : tCAAA-CCCACGGGTTATTG-TT---C--A-T-T-CTA-TTT-C-ACAA-AC-CCGTGGGT---------TTGTGAAATAG-A-A----G-A-AA-CAATAACCCGT-GG-TTTGCGACaa
gi|13 : CAAA-CC-ACGGGTTATT
gi|11 : cgtcgcaaacacgggttattgtttcattctatttcacaC-ACGGGTTATTG-TT-T-C--A-T-T-CTA-TTT-C-ACAA-A--------------------------ATAG-A-A-T--G-A-AA-CAATAACCCGT-GG-TTTGCGACtaacaa
gi|8 : cC-ACGGTTGATTGGTT-T-C--A-T-T-CTA-TTT-C------------------CAA---T-CAGTGAAATAG-A-A-TTGA-A-AA-CAATAACCCGT-GG-TTTGCGAC
gi|14 : -C--A-T-T-CTA-TTT-C-ACAA-AA-T-AT-------------TTGTGAAATAG-A-A-T--G-A-AT-CAATAACCCGT-AA-TTTGCGAC
gi|16 : c-T-CTA-TTT-C-ACAA-AC-C--------CGG---T-TTGTGAAATAG-A-A-T--G-A-AA-CAATAACCCGT-GG-TTTGCGA
gi|17 : ACCACGGGTTA-TTGTGAAATAG-A-A-T--G-A-AA-CAATAACCCGT-GG-TTTGCG
gi|13 : TGTGAAATAG-A-A-T--G-A-AA-CAATAACCCGT--G-TTTGCGACttgcgacg
gi|18 : cAAATAG-A-A-T--G-A-A--CA-TAACCCGT-GG-TTTGCGAaataacccgtggtttgtaacaa
gi|10 : AAATAG-A-T-T--G-A-AA-CAACAGACCGT-GG-TTTGCGA
gi|12 : gcatcaAAATAG-A-A-T--G-A-AAACAATAACAAGT-TG-TTTGCGAgcgacaagcatacgaatggagtgaa
gi|15 : atcgtagcaaactacgggttatttcac--G-A-GA-CAATAACCCGT-GG-TTTGCGAC
gi|17 : ataA-CAATAACCCGT-GG-TTTGCGACcatgaaaacaataacgtgattttcaacgcat
gi|13 : cgcaaaccacgggttattgtttcattctatttcAATAACCCGT-GG-TTTGTAACg
Alignments
lowQualScore : 555555555555555555555
lowQualScore : 3 3 3 2 33 2 000000000000000000000 33 2 2 2 2 666 2 2 4 2
lowQualScore : . . . . .. . ..................... .. . . . . ... . . . .
lowQualScore : 3 1 1 9 77 5 444444444444444444444 55 5 5 5 5 555 4 4 7 5
consensus : ATCGCAAA-CC-ACGGGTTATTG-TT-TC--ATTCTA-TTTCACA-AACT-----GT---------TTGT-G-AAA-TAG-A-AT---G-A-AA-CAATAACCCGTGG-TTTGCGAC
Reference ( family-6820 ) : ATCGCAAA-CC-ACGGGTTATTG-TT-TC--ATTCTA-TTTCACA-AACT-----GT---------TTGT-G-AAA-TAG-A-AT---G-A-AA-CAATAACCCGTGG-TTTGCGAC
gi|1 : ATCGCAAA-CC-ACGGGTTATTG-TT-TC--ATTCTA-TTTCACA-AACT-----GTGACCACAAACTGT-G-AAA-TAG-A-AT---G-A-AA-CAATAACCCGTGG-TTTGCGAC
gi|10 : T-TC--ACTCCA-TT-CGTA----T-----GC---------TTGTCGCAAA-TAG-A-TT---G-A-AA-CAACAGACCGTGG-TTTGCGA
gi|11 : gcatcaC-ACGGGTTATTG-TT-TC--ATTCTA-TTTCACA-AA---------------------------A-TAG-A-AT---G-A-AA-CAATAACCCGTGG-TTTGCGAC
gi|12 : cTCGCAAA-CA-ACTTGTTATTGTTT-TC--ATTCTA-------------------T---------TTGT-G-A----------------------AATAACCCGTAG-TTTGCTAC
gi|13 : atcCACG-GGTT-----AT---------TTGT-G-AAA-TAG-A-AT---G-A-AA-CAATAACCCGT-G-TTTGCGAC
gi|14 : cC--ATTCTA-TTTCACA-AAAT-----AT---------TTGT-G-AAA-TAG-A-AT---G-A-AT-CAATAACCCGTAA-TTTGCGACgtttgtaacaa
gi|15 : c---G-A-GA-CAATAACCCGTGG-TTTGCGAC
gi|16 : ataTCTA-TTTCACA-AACCCG---GT---------TTGT-G-AAA-TAG-A-AT---G-A-AA-CAATAACCCGTGG-TTTGCGAcatgaaaacaataacgtgattttcaacgcat
gi|17 : CGCAAA-CC-ACGGGTTATTG-TT-TC--ATTCTA-TTTC---------------------------------------------------A-CAATAACCCGTGG-TTTGCGAC
gi|18 : TCGCAAA-CC-ACGGGTTA-TG--T-TC--ATTCTA-TTTg
gi|2 : CAAA-CCCACGGGTTATTG-TT--C--ATTCTA-TTTCACA-AACCCGTGGGT---------TTGT-G-AAA-TAG-A-A----G-A-AA-CAATAACCCGTGG-TTTGCGAC
gi|3 : ATCGCAAA-CC-AAGGGTTATTG-TT-TT--ATTCTA-TTTTACA-AAC-----------------TTGT-G-GAA-TAG-A-AT---G-A-AA-CAATAACCCGTGGTTTTGCGAC
gi|4 : cTCGCAAA-CC-ACGGTTGATTG-TT--C--ATTCTA-TTTCACA-A-------------------TAGT-G-AAAATAGCA-ATT--G-A-AA-CAATAACCCGTGG-TTTGCGAC
gi|5 : gTCGCAA---C-ACGGGTTATTG-TT-TC--ATTCTATTTTCACA----T-----GT---------TTGT-G--AA-TAG-ACAT---GAA-AA-CAATAACCCGTGT-TTTGCGACg
gi|6 : TCGCAGATCC-ATGGGTT---G-TT-T----TTCCA-TTCCATAGAAC----------------------G-AGA--AC-A-ACCCGG-AGAA-CAATAACCCGTGG-TTTGCGAC
gi|7 : GCAAA-CC-ACGGGTTATTG-TTCTC--ATTCCA-TTTCACA-AAC----------------------G-GAA-TA---------G-A-AA-CAATAAACTATGG-TTTGCGAC
gi|8 : tTCGCAAA-CC-ACGGGTTATTG-TT-TTCAATTCTA-TTTC-----ACT-----GA---------TTG--G-AAA-TAG-A-AT---G-A-AACCAATCAACCGTGaa
gi|9 : gTCGCAAA-CC-ATGGGTTATTG-TT-T------------TCA-------------T---------TTGC-G-AAA-TGG-G-AT---G-A-AAACAATAACCCGTGG-TTTGCGAC
Alignments
lowQualScore : 555555555555555555555
lowQualScore : 3 3 3 2 33 2 000000000000000000000 33 2 2 2 2 666 2 2 4 2
lowQualScore : . . . . .. . ..................... .. . . . . ... . . . .
lowQualScore : 3 1 1 9 77 5 444444444444444444444 55 5 5 5 5 555 4 4 7 5
consensus : ATCGCAAA-CC-ACGGGTTATTG-TT-TC--ATTCTA-TTTCACA-AACT-----GT---------TTGT-G-AAA-TAG-A-AT---G-A-AA-CAATAACCCGTGG-TTTGCGAC
Reference ( family-6820 ) : ATCGCAAA-CC-ACGGGTTATTG-TT-TC--ATTCTA-TTTCACA-AACT-----GT---------TTGT-G-AAA-TAG-A-AT---G-A-AA-CAATAACCCGTGG-TTTGCGAC
gi|1 : ATCGCAAA-CC-ACGGGTTATTG-TT-TC--ATTCTA-TTTCACA-AACT-----GTGACCACAAACTGT-G-AAA-TAG-A-AT---G-A-AA-CAATAACCCGTGG-TTTGCGAC
gi|10 : T-TC--ACTCCA-TT-CGTA----T-----GC---------TTGTCGCAAA-TAG-A-TT---G-A-AA-CAACAGACCGTGG-TTTGCGA
gi|11 : gcatcaC-ACGGGTTATTG-TT-TC--ATTCTA-TTTCACA-AA---------------------------A-TAG-A-AT---G-A-AA-CAATAACCCGTGG-TTTGCGAC
gi|12 : cTCGCAAA-CA-ACTTGTTATTGTTT-TC--ATTCTA-------------------T---------TTGT-G-A----------------------AATAACCCGTAG-TTTGCTAC
gi|13 : atcCACG-GGTT-----AT---------TTGT-G-AAA-TAG-A-AT---G-A-AA-CAATAACCCGT-G-TTTGCGAC
gi|14 : cC--ATTCTA-TTTCACA-AAAT-----AT---------TTGT-G-AAA-TAG-A-AT---G-A-AT-CAATAACCCGTAA-TTTGCGACgtttgtaacaa
gi|15 : c---G-A-GA-CAATAACCCGTGG-TTTGCGAC
gi|16 : ataTCTA-TTTCACA-AACCCG---GT---------TTGT-G-AAA-TAG-A-AT---G-A-AA-CAATAACCCGTGG-TTTGCGAcatgaaaacaataacgtgattttcaacgcat
gi|17 : CGCAAA-CC-ACGGGTTATTG-TT-TC--ATTCTA-TTTC---------------------------------------------------A-CAATAACCCGTGG-TTTGCGAC
gi|18 : TCGCAAA-CC-ACGGGTTA-TG--T-TC--ATTCTA-TTTg
gi|2 : CAAA-CCCACGGGTTATTG-TT--C--ATTCTA-TTTCACA-AACCCGTGGGT---------TTGT-G-AAA-TAG-A-A----G-A-AA-CAATAACCCGTGG-TTTGCGAC
gi|3 : ATCGCAAA-CC-AAGGGTTATTG-TT-TT--ATTCTA-TTTTACA-AAC-----------------TTGT-G-GAA-TAG-A-AT---G-A-AA-CAATAACCCGTGGTTTTGCGAC
gi|4 : cTCGCAAA-CC-ACGGTTGATTG-TT--C--ATTCTA-TTTCACA-A-------------------TAGT-G-AAAATAGCA-ATT--G-A-AA-CAATAACCCGTGG-TTTGCGAC
gi|5 : gTCGCAA---C-ACGGGTTATTG-TT-TC--ATTCTATTTTCACA----T-----GT---------TTGT-G--AA-TAG-ACAT---GAA-AA-CAATAACCCGTGT-TTTGCGACg
gi|6 : TCGCAGATCC-ATGGGTT---G-TT-T----TTCCA-TTCCATAGAAC----------------------G-AGA--AC-A-ACCCGG-AGAA-CAATAACCCGTGG-TTTGCGAC
gi|7 : GCAAA-CC-ACGGGTTATTG-TTCTC--ATTCCA-TTTCACA-AAC----------------------G-GAA-TA---------G-A-AA-CAATAAACTATGG-TTTGCGAC
gi|8 : tTCGCAAA-CC-ACGGGTTATTG-TT-TTCAATTCTA-TTTC-----ACT-----GA---------TTG--G-AAA-TAG-A-AT---G-A-AACCAATCAACCGTGaa
gi|9 : gTCGCAAA-CC-ATGGGTTATTG-TT-T------------TCA-------------T---------TTGC-G-AAA-TGG-G-AT---G-A-AAACAATAACCCGTGG-TTTGCGAC
blockSeqs : T C T C CA T AACCCGTGGGT TC C A C C CCG A G C T
blockSeqs : . . . . . . AACCCGGT T . . . . T . . A .
blockSeqs : . . . . . . GGTTAT T . . . . . . . . .
blockSeqs : . . . . . . AAATAT T . . . . . . . . .
blockSeqs : . . . . . . ACTGA T . . . . . . . . .
blockSeqs : . . . . . . GAAC T . . . . . . . . .
blockSeqs : . . . . . . TGC T . . . . . . . . .
blockSeqs : . . . . . . AAC T . . . . . . . . .
blockSeqs : . . . . . . TGT T . . . . . . . . .
blockSeqs : . . . . . . AAC C . . . . . . . . .
blockSeqs : . . . . . . AA . . . . . . . . . .
blockSeqs : . . . . . T . . . . . . . . . .
blockSeqs : . . . A . . . . . . . . . .
blockSeqs : . . T . . . . . . . . . .
blockSeqs : . . . . . . . . . . . .
blockSeqs : . . . .
blockSeqCons : AAC******************
originalCons : ATCGCAAA-CC-ACGGGTTATTG-TT-TC--ATTCTA-TTTCACA-AACT-----GT---------TTGT-G-AAA-TAG-A-AT---G-A-AA-CAATAACCCGTGG-TTTGCGAC
finalCons : ATCGCAAA-CC-ACGGGTTATTG-TT-TC--ATTCTA-TTTCACAAAC------------------TTGT-G-AAA-TAG-A-AT---G-A-AA-CAATAACCCGTGG-TTTGCGAC
Alignments
lowQualScore : 444444444444444444444444444 11111
lowQualScore : 2 2 7 2 2 2 2 33 2 888888888888888888888888888 2 1 2 2 22222 2 2
lowQualScore : . . . . . . . .. . ........................... . . . . ..... . .
lowQualScore : 9 5 5 5 4 4 4 66 5 333333333333333333333333333 5 1 5 5 11111 5 7
consensus : ATCGCAAA-CC-ACGGGTTATTG-TT-T-CAT-TCTATTT-C-ACA-AA---C--------T------------TGTG-AAA-TAG-AA-T---GA-AACAATAACCCGTGG-TTTGCGAC
Reference ( family-6820 ) : ATCGCAAA-CC-ACGGGTTATTG-TT-T-CAT-TCTATTT-C-ACA-AA---C--------T------------TGTG-AAA-TAG-AA-T---GA-AACAATAACCCGTGG-TTTGCGAC
gi|1 : ATCGCAAA-CC-ACGGGTTATTG-TT-T-CAT-TCTATTT-C-ACA-AA---C--------TGTGACCACAAACTGTG-AAA-TAG-AA-T---GA-AACAATAACCCGTGG-TTTGCGAC
gi|10 : ATCGCAAA-CC-ACGGTCTGTTG-TT-T-CAA-TCTATTTGCGACA-AG---C--------A------------TACG--AA-TGG-AG-T---GA-A
gi|11 : gcatcC-ACGGGTTATTG-TT-T-CAT-TCTATTT-C-ACA-AA--------------------------------A-TAG-AA-T---GA-AACAATAACCCGTGG-TTTGCGAC
gi|12 : cTCGCAAA-CA-ACTTGTTATTGTTT-T-CAT-TCTAT-----------------------T------------TGTG-A--------------------AATAACCCGTAG-TTTGCTAC
gi|13 : atcCAAA-CC-ACGGGTTATT----------------------------------------------------TGTG-AAA-TAG-AA-T---GA-AACAATAACCCGT-G-TTTGCGAC
gi|14 : c-CAT-TCTATTT-C-ACA-AAATAT--------T------------TGTG-AAA-TAG-AA-T---GA-ATCAATAACCCGTAA-TTTGCGACtaacaa
gi|15 : c---GA-GACAATAACCCGTGG-TTTGCGAC
gi|16 : ataTCGCAAA-CC-ACGGGTTATTG-TT-T-CAT-TCTATTT-C-ACA-AA---CCGGGT---T------------TGTG-AAA-TAG-Acatgaaaacaataacgtgattttcaacgcat
gi|17 : CGCAAA-CC-ACGGGTTATTG-TT-T-CAT-TCTATTT-C--------------------------------------------------------ACAATAACCCGTGG-TTTGCGAC
gi|18 : TCGCAAA-CC-ACGGGTTA-TG--T-T-CAT-TCTATTT-g
gi|2 : CAAA-CCCACGGGTTATTG-TT---CAT-TCTATTT-C-ACA-AA---CCCGTGGGTT------------TGTG-AAA-TAG-AA-----GA-AACAATAACCCGTGG-TTTGCGAC
gi|3 : ATCGCAAA-CC-AAGGGTTATTG-TT-T-TAT-TCTATTT-T-ACA-AA---C--------T------------TGTG-GAA-TAG-AA-T---GA-AACAATAACCCGTGGTTTTGCGAC
gi|4 : cTCGCAAA-CC-ACGGTTGATTG--T-T-CAT-TCTATTT-C-ACA-A-------------T------------AGTGAAAA-TAGCAATT---GA-AACAATAACCCGTGG-TTTGCGAC
gi|5 : gTCGCAAA-AC-ACGGGTTATTG-TT-TTCATGTCTATT--C-ACA-AA---C--------A------------TGTG-AAAATAG-AA-T---GA-AACAATAACCCGTG---TTGCGAg
gi|6 : gTCGCAGATCC-ATGGGTT---G-TT-T---T-TCCATTC-C-ATAGAA---C------------------------G-AGA--AC-AA-CCCGGAGAACAATAACCCGTGG-TTTGCGAC
gi|7 : GCAAA-CC-ACGGGTTATTG-TTCT-CAT-TCCATTT-C-ACA-AA---C------------------------G-GAA-TA---------GA-AACAATAAACTATGG-TTTGCGAC
gi|8 : tC-ACGGTTGATTGGTT-T-CAT-TCTATTT-C--CA-AT---C---------------------AGTG-AAA-TAG-AA-TTG-AA-AACAATAACCCGTGG-TTTGCGACaa
gi|9 : TCGCAAA-CC-ACGGGTTATTGTTT-T-CAT-CCCATTT-C-GCA-AA---------------------------TG-A---------------A-AACAATAACCCATGG-TTTGCGAC