lowQualScore : 1 333333333333
lowQualScore : 2 2 1 33 555555555555
lowQualScore : . . . .. ............
lowQualScore : 0 9 7 77 333333333333
consensus : GAAAA-GTGAAACCGCCGGAAATGCAT--TT--TTT-------ATTCGGATATTGTAAACATTCGGACA
Reference ( gi|6 ) : GGAAA-GTGAAACCGCCGGCAATGCAT--TT--ATC-------ATTCGGATATTGTAAACATTCGGACA
gi|9 : GGAAA-GTGAAATCGCCGGCAATGCAT------ATC-------ATTCGGATATTGTAAACATTCGGAC
gi|13 : cGAAAA-GTGAAACCGCCGGAAATGCAT--TT---TT-------ATTCGGATATTGTAAACAT
gi|5 : GAAAA-GTGAAACCGTAGGAAATGTAT--TT---TT-------ATTCACATATTGTAAACATTCGGACAcaga
gi|2 : cGAAAA-GTGAAACTGGCGGAAATGCATATTT--TTA-------ACTTGGATATTGTAAACATTCAGACAg
gi|8 : cGAAAA-GTGAAATCGCCGGAAATGCAT--TT--TTCT------ATTCGG-----GTAAACATTCCGACAg
gi|1 : tGAAAA-GTGACATCGCCGAAAATGCAT--TTTCATTTGGTTTTATTCGGATATTGTAAACATTCGGgt
gi|14 : tGAAAA-GTGACACGGACAGAAATGCAT--TA--TTT-------ATTCTGATATTGTAA
gi|4 : tcGAAATGTGAAACCACCGGAAATGCAT--TT---TT-------ATTCGGATAATGTAAGCATGCGGACAtctt
gi|7 : cAAA-GTGATACCGACGGAAATGCAT--TT--TTT-------ATTCGGATATTTTAAACATTTGGACAg
gi|10 : aAAA-GTGAAATCACCGGAAACGAAC--TT--TTT-------ATTCGGATATTGTAAACATTCGGg
gi|3 : aAAA-GTGAAACCGTTGGAGATGCGT--TT--TTTTT-----ATTCAGATATTGTAAATATTC-GACAcc
gi|11 : aaAAG-GTGAAACTGCAGGAAGCGCAT--TT--TTT-------ATTTTGATATTGTAAACATTCg
gi|12 : aaAAA-GTGAAACTGCCAAAAATGTAT--TTT-ATG-------AC---GATATTGTAAACATTCGAGCAtaa
gi|16 : aAAA-GTGAAACCGC---CAAAGAAT--TT---TT-------ATTCGGATATTGGAAGCAg
gi|15 : taAACCACCGGAAATCCAT--TT--TTT-------ATTCAGATAATGTAAACATTTGGGCagc
Alignments
lowQualScore : 111111111
lowQualScore : 33 000000000 2 33 2
lowQualScore : .. ......... . .. .
lowQualScore : 66 000000000 5 44 5
consensus : GAAAAGTGAAACCGCCGGAAATGCAT-TTT---------T-T--A-TTCGGATATTGTAAACATTCGGACA
Reference ( family-1998 ) : GAAAAGTGAAACCGCCGGAAATGCAT-TTT---------T-T--A-TTCGGATATTGTAAACATTCGGACA
gi|1 : GAAAAGTGACATCGCCGAAAATGCAT-TTTCATTTGGTTT-T--A-TTCGGATATTGTAAACATTCGG
gi|10 : tAAAAGTGAAATCACCGGAAACGAAC-TTT---------T-T--A-TTCGGATATTGTAAACATTCGG
gi|11 : AAAGGTGAAACTGCAGGAAGCGCAT-TTT---------T-T--A-TTTTGATATTGTAAACATTCcc
gi|12 : aAAAAGTGAAACTGCCAAAAATGTA---TT---------T-T--A-TGACGATATTGTAAACATTCGAGCAtaa
gi|13 : GAAAAGTGAAACCGCCGGAAATGCA--TTT---------T-T--A-TTCGGATATTGTAAACATg
gi|14 : GAAAAGTGACACGGACAGAAATGCAT-TAT---------T-T--A-TTCTGATATTGTAAcaga
gi|15 : tcAACCACCGGAAATCCAT-TTT---------T-T--A-TTCAGATAATGTAAACATTTGGGCtctt
gi|16 : attAAAAGTGAAACCGCC--AAA-GAAT-TTT-----------T--A-TTCGGATATTGGAAGCA
gi|2 : tGAAAAGTGAAACTGGCGGAAATGCATATTT---------T-T--AACTTGGATATTGTAAACATTCAGACAagc
gi|3 : cAAAAGTGAAACCGTTGGAGATGCGT-TTT---------T-TTTA-TTCAGATATTGTAAATATTC-GACAg
gi|4 : aGAAATGTGAAACCACCGGAAATGCA--TTT---------T-T--A-TTCGGATAATGTAAGCATGCGGACAg
gi|5 : cGAAAAGTGAAACCGTAGGAAATGTAT-TTT---------T----A-TTCACATATTGTAAACATTCGGACAg
gi|6 : cGGAAAGTGAAACCGCCGGCAATGCAT-TTA---------T-C--A-TTCGGATATTGTAAACATTCGGACAg
gi|7 : AAAAGTGATACCGACGGAAATGCAT-TTT---------T-T--A-TTCGGATATTTTAAACATTTGGACA
gi|8 : GAAAAGTGAAATCGCCGGAAATGCAT-TTT---------TCT--A-TTCGG-----GTAAACATTCCGACAg
gi|9 : tGGAAAGTGAAATCGCCGGCAATGCAT-ATC--------------A-TTCGGATATTGTAAACATTCGGACgt
Alignments
lowQualScore : 111111111
lowQualScore : 33 000000000 2 33 2
lowQualScore : .. ......... . .. .
lowQualScore : 66 000000000 5 44 5
consensus : GAAAAGTGAAACCGCCGGAAATGCAT-TTT---------T-T--A-TTCGGATATTGTAAACATTCGGACA
Reference ( family-1998 ) : GAAAAGTGAAACCGCCGGAAATGCAT-TTT---------T-T--A-TTCGGATATTGTAAACATTCGGACA
gi|1 : GAAAAGTGACATCGCCGAAAATGCAT-TTTCATTTGGTTT-T--A-TTCGGATATTGTAAACATTCGG
gi|10 : tAAAAGTGAAATCACCGGAAACGAAC-TTT---------T-T--A-TTCGGATATTGTAAACATTCGG
gi|11 : AAAGGTGAAACTGCAGGAAGCGCAT-TTT---------T-T--A-TTTTGATATTGTAAACATTCcc
gi|12 : aAAAAGTGAAACTGCCAAAAATGTA---TT---------T-T--A-TGACGATATTGTAAACATTCGAGCAtaa
gi|13 : GAAAAGTGAAACCGCCGGAAATGCA--TTT---------T-T--A-TTCGGATATTGTAAACATg
gi|14 : GAAAAGTGACACGGACAGAAATGCAT-TAT---------T-T--A-TTCTGATATTGTAAcaga
gi|15 : tcAACCACCGGAAATCCAT-TTT---------T-T--A-TTCAGATAATGTAAACATTTGGGCtctt
gi|16 : attAAAAGTGAAACCGCC--AAA-GAAT-TTT-----------T--A-TTCGGATATTGGAAGCA
gi|2 : tGAAAAGTGAAACTGGCGGAAATGCATATTT---------T-T--AACTTGGATATTGTAAACATTCAGACAagc
gi|3 : cAAAAGTGAAACCGTTGGAGATGCGT-TTT---------T-TTTA-TTCAGATATTGTAAATATTC-GACAg
gi|4 : aGAAATGTGAAACCACCGGAAATGCA--TTT---------T-T--A-TTCGGATAATGTAAGCATGCGGACAg
gi|5 : cGAAAAGTGAAACCGTAGGAAATGTAT-TTT---------T----A-TTCACATATTGTAAACATTCGGACAg
gi|6 : cGGAAAGTGAAACCGCCGGCAATGCAT-TTA---------T-C--A-TTCGGATATTGTAAACATTCGGACAg
gi|7 : AAAAGTGATACCGACGGAAATGCAT-TTT---------T-T--A-TTCGGATATTTTAAACATTTGGACA
gi|8 : GAAAAGTGAAATCGCCGGAAATGCAT-TTT---------TCT--A-TTCGG-----GTAAACATTCCGACAg
gi|9 : tGGAAAGTGAAATCGCCGGCAATGCAT-ATC--------------A-TTCGGATATTGTAAACATTCGGACgt
blockSeqs : TA . C TT A
blockSeqs : C . . . .
blockSeqs : T . . . .
blockSeqs : T . . . .
blockSeqs : T . . . .
blockSeqs : T . . . .
blockSeqs : T . . . .
blockSeqs : T . . . .
blockSeqs : T . . . .
blockSeqs : T . . . .
blockSeqs : T . . . .
blockSeqs : T . . . .
blockSeqs : . . . . .
blockSeqs : . . . . .
blockSeqs : . . . . .
blockSeqCons : *********
originalCons : GAAAAGTGAAACCGCCGGAAATGCAT-TTT---------T-T--A-TTCGGATATTGTAAACATTCGGACA
finalCons : GAAAAGTGAAACCGCCGGAAATGCAT-TTT---------T-T--A-TTCGGATATTGTAAACATTCGGACA
Alignments
lowQualScore : 111111111
lowQualScore : 33 000000000 2 33 2
lowQualScore : .. ......... . .. .
lowQualScore : 66 000000000 5 44 5
consensus : GAAAAGTGAAACCGCCGGAAATGCAT-TTT---------T-T--A-TTCGGATATTGTAAACATTCGGACA
Reference ( family-1998 ) : GAAAAGTGAAACCGCCGGAAATGCAT-TTT---------T-T--A-TTCGGATATTGTAAACATTCGGACA
gi|1 : GAAAAGTGACATCGCCGAAAATGCAT-TTTCATTTGGTTT-T--A-TTCGGATATTGTAAACATTCGG
gi|10 : tAAAAGTGAAATCACCGGAAACGAAC-TTT---------T-T--A-TTCGGATATTGTAAACATTCGG
gi|11 : AAAGGTGAAACTGCAGGAAGCGCAT-TTT---------T-T--A-TTTTGATATTGTAAACATTCcc
gi|12 : aAAAAGTGAAACTGCCAAAAATGTA---TT---------T-T--A-TGACGATATTGTAAACATTCGAGCAtaa
gi|13 : GAAAAGTGAAACCGCCGGAAATGCA--TTT---------T-T--A-TTCGGATATTGTAAACATg
gi|14 : GAAAAGTGACACGGACAGAAATGCAT-TAT---------T-T--A-TTCTGATATTGTAAcaga
gi|15 : tcAACCACCGGAAATCCAT-TTT---------T-T--A-TTCAGATAATGTAAACATTTGGGCtctt
gi|16 : attAAAAGTGAAACCGCC--AAA-GAAT-TTT-----------T--A-TTCGGATATTGGAAGCA
gi|2 : tGAAAAGTGAAACTGGCGGAAATGCATATTT---------T-T--AACTTGGATATTGTAAACATTCAGACAagc
gi|3 : cAAAAGTGAAACCGTTGGAGATGCGT-TTT---------T-TTTA-TTCAGATATTGTAAATATTC-GACAg
gi|4 : aGAAATGTGAAACCACCGGAAATGCA--TTT---------T-T--A-TTCGGATAATGTAAGCATGCGGACAg
gi|5 : cGAAAAGTGAAACCGTAGGAAATGTAT-TTT---------T----A-TTCACATATTGTAAACATTCGGACAg
gi|6 : cGGAAAGTGAAACCGCCGGCAATGCAT-TTA---------T-C--A-TTCGGATATTGTAAACATTCGGACAg
gi|7 : AAAAGTGATACCGACGGAAATGCAT-TTT---------T-T--A-TTCGGATATTTTAAACATTTGGACA
gi|8 : GAAAAGTGAAATCGCCGGAAATGCAT-TTT---------TCT--A-TTCGG-----GTAAACATTCCGACAg
gi|9 : tGGAAAGTGAAATCGCCGGCAATGCAT-ATC--------------A-TTCGGATATTGTAAACATTCGGACgt