lowQualScore : 3333333333333 222222
lowQualScore : 6 3 44 2 6 3 2 1111111111111 3 2 0 4 6 777777 777 4
lowQualScore : . . .. . . . . ............. . . . . . ...... ... .
lowQualScore : 0 0 88 0 0 8 9 6666666666666 3 3 7 2 7 555555 333 0
consensus : NNGCATTTTGAAACGTTTGGAACTATTTTATCGGTCGGAAGAAATGAAATCGCCGTCAACAGTATAACAAAGGTTATAGAACAAAA--TC-GTAA----AT-GGGCCGCACGATCNCT-ATAGAAG------GCTACG-CTCGCCTTCCA
Reference ( gi|3 ) : TAGCGTTTTGAAACTTTTGGAACTATTTTATTGGTTGGAGGAAATGAAATCACCGTCAACAGTATAACAAAGGTTATAGAACAAAA--GT-GTAA----AT-GGGCCGCACGATCACT-ATAGAAG------GCTACG-TTCGCCTTCCA
gi|1 : GCATTTTGAAACTTTTGGAATTAATCTATCGGTTGGAAGAAATAATATTGCAGTCAACAGAATAACAAAGGTTATAGAACAAAATGGT-ACAGAAT-AT-GGGCCACACGATTCTT-ACAGAAG------G----A-TTTGCCTTCCA
gi|2 : tctgtttgataagcaacaatcgcaatgaaatttaatttgaatctctatggcaattGCATTTTAAAATGTTTGGAACTATTTTATCTGTCAGAGGAAATGAAATCGCCATCATCAGTATAACAAAgaaaa
gi|4 : gtttgataaaacaaaaatcgcaacaaaatcaaatttggatcgttacatcctgtgctatggcaattTTTGAAACTATTTTACCTGTTGGAAGAAATGAAATCGCCGTAAACAG-AAAAAAAAGTTTATAGAACAAAA--TC-ACAA----AT-GCCCCACACAATCACT-ATAGAAGGCATC-GCTACG-CTCACCTTCCA
gi|5 : aTATTTTGTTGGTCAGAAAAACAGAAATTGCGGTCAACAGTATAATAaaa
gi|6 : tctctgtttgataggacaaaaatcacaattaaatctctttgttcactgctatggccatttAAATCGTGGTCAACAGAATAACAATGGTTATAGAACGTAA--CTAATAATAATAC-AGACCGCACGATCCTT-ATAGAAG------G---CA-TTCGCCTTCCA
gi|9 : AAATCGCCATCAACAGTATAACAAAGATTACAGAACAAAA--TC-ATTA----AC-GTTCCACATAATCACT-ATGAAAA------G----A-TTCGCCTACCAgaaatg
gi|8 : AAATCGTGGTCAACAGTATAACAAAGGTT-TGGAACTAAA--TT-AAAAT---AT-AGGCAACATGATCCCT-ATAGAAG------GC-----CTCCCCTTCCAaa
gi|11 : AATCGCTGTCAACAGTATAGCAAATATTATAGCACACAA--TC-ATAA----AT-GCCCCACATAATGACTGAAAGGCA------GCTACG-CTCGaaa
gi|14 : AATCGTGATCAGCAAAATAACAAAGGTTGTA---C----------TA------T-GGACCGCACGATCCCT-ATAGAAG------Gac
gi|10 : ATCGCCGTCAACAGTATAGCAAATATTATAGCACACAA--TC-ATAA----AT-GCCCCACATAATGACTGAAAGGCA------GCTACG-CTCGACTTCtattaa
gi|17 : TCGCAGTCAACAGTATAAGAAAGGTTATAGAACAAAA--CT-GTA
gi|12 : CCGTCAACAGTATAACAAAGGTTATAGAACAAAA--TT-G-AA----AT-AGGCAATATGATGACT-------G------GCTACG-TTCGCCTTCctccaca
gi|7 : gGTCAACAGAATAACAAAAGTTTTGGAACAAAA--TT-GTAAT---AT-CGGCCACACGTTCCCT-ATAGAAGGCATTCGCTACGCTCCGTCTTCCA
gi|13 : cgtgGTCAACGGAATAAAAAATGTTATAGAACAAAA--TT-GTAAT---CT-AGACCGCACGATCCCT-ATAGAAG------GCaa
gi|19 : caagCAACAGTATAACAAAGGTTACAGAACAAAA--
gi|15 : TATAGA-CAAAA--TT-GTAT----TTTGAGCCGCACGATCGTT-GCAGAAGGCATTCGCTACG-ATCGCTTTCtt
2 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|16 ): ACAAAATTGCACTCCACACGATAGCTATATAGAAGGCATTCGCTACACCCGCCTTC
Unaligned ( gi|18 ): ATAGAAGGCATCGTTTCGCTTGCCTTCCAAAAACA
Alignments
lowQualScore : 111111 222222
lowQualScore : 6 2 2 33 33 1 888888 5555 0 1 5 33 333333 99999999 0 3
lowQualScore : . . . .. .. . ...... .... . . . .. ...... ........ . .
lowQualScore : 7 8 2 44 44 9 222222 2222 3 0 7 99 666666 11111111 2 3
consensus : NNGCGTTTTGAAACTTTTGGAACTATTTTATCGGTCGGAAGAAATGAAATCGCCGTCAACAGTATAACAAAGGTTATAGAAC--AA--AATCGTA-A----AT-GGGCCGCACGATCNCT-ATA--GAAG------GC------TACGCT-CGCCTTCCA
Reference ( family-1256 ) : NNGCATTTTGAAACGTTTGGAACTATTTTATCGGTCGGAAGAAATGAAATCGCCGTCAACAGTATAACAAAGGTTATAGAAC--AA--AATCGTA-A----AT-GGGCCGCACGATCNCT-ATA--GAAG------GC------TACGCT-CGCCTTCCA
gi|1 : GCATTTTGAAACTTTTGGAATTAATCTATCGGTTGGAAGAAATAATATTGCAGTCAACAGAATAACAAAGGTTATAGAAC--AA--AATGGTACAGAATAT-GGGCCACACGATTCTT-ACA--GAAG------GA------T----T-TGCCTTCCA
gi|10 : tctgtttgataagcaacaatcgcaatgaaatttaatttgaatctctatggcaattATCGCCGTCAACAGTATAGCAAATATTATAGCAC--AC--AATCATA-A----AT-GCCCCACATAATGACTGAAA--GGCA------GC------TACGCT-CGACTTCgaaaa
gi|11 : AATCGCTGTCAACAGTATAGCAAATATTATAGCAC--AC--AATCATA-A----AT-GCCCCACATAATGACTGAAA--GGCA------GC------TACGCT-CG
gi|12 : GCCGTCAACAGTATAACAAAGGTTATAGAAC--AA--AATTG-A-A----AT-AGGCAATATGATGACT---------G------GC------TACGTT-CGCCTTCac
gi|13 : GTCAACGGAATAAAAAATGTTATAGAAC--AA--AATTGTA-AT---CT-AGACCGCACGATCCCT-ATA--GAAG------GC------
gi|14 : caagAATCGTGATCAGCAAAATAACAAAGGTTGTA-------------C-TA-------T-GGACCGCACGATCCCT-ATA--GAAG------G
gi|15 : TATAGA-C--AA--AATTGTA-T----TTTGAGCCGCACGATCGTT-GCA--GAAGGCATTCGC------TACGAT-CGCTTTCtattaa
gi|16 : AC--AA--AATTGCA-C-----T----CCACACGATAGCT-ATATAGAAG------GCATTCGCTACACC-CGCCTTC
gi|17 : TCGCAGTCAACAGTATAAGAAAGGTTATAGAAC--AA--AACTGTA-
gi|19 : CAACAGTATAACAAAGGTTACAGAAC--AA--AATctccaca
gi|2 : GCATTTTAAAATGTTTGGAACTATTTTATCTGTCAGAGGAAATGAAATCGCCATCATCAGTATAACAAAt
gi|3 : gtttgataaaacaaaaatcgcaacaaaatcaaatttggatcgttacatcctgtgctatggcaattGCGTTTTGAAACTTTTGGAACTATTTTATTGGTTGGAGGAAATGAAATCACCGTCAACAGTATAACAAAGGTTATAGAAC--AA--AAGTGTA-A----AT-GGGCCGCACGATCACT-ATA--GAAG------GC------TACGTT-CGCCTTCCA
gi|4 : taTTTGAAACTATTTTACCTGTTGGAAGAAATGAAATCGCCGTAAACAG-AAAAAAAAGTTTATAGAAC--AA--AATCACA-A----AT-GCCCCACACAATCACT-ATA--GAAGGCATC-GC------TACGCT-CACCTTCCA
gi|5 : aTATTTTGTTGGTCAGAAAAACAGAAATTGCGGTCAACAGTATAATAaaa
gi|6 : tctctgtttgataggacaaaaatcacaattaaatctctttgttcactgctatggccatttAAATCGTGGTCAACAGAATAACAATGGTTATAGAACGTAACTAATAATA-AT---AC-AGACCGCACGATCCTT-ATA--GAAG------G---------CATT-CGCCTTCCA
gi|7 : GTCAACAGAATAACAAAAGTTTTGGAAC--AA--AATTGTA-AT---AT-CGGCCACACGTTCCCT-ATA--GAAGGCATTCGC------TACGCTCCGTCTTCCAgaaatg
gi|8 : cgtgAAATCGTGGTCAACAGTATAACAAAGGTT-TGGAAC--TA--AATTAAA-AT---AT-AGGCAACATGATCCCT-ATA--GAAG------GC----------CT-CCCCTTCCAaa
gi|9 : AAATCGCCATCAACAGTATAACAAAGATTACAGAAC--AA--AATCATT-A----AC-GTTCCACATAATCACT-ATG--AAAA------GA------T----T-CGCCTACCAaaa
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|18 ): ATAGAAGGCATCGTTTCGCTTGCCTTCCAAAAACA
Alignments
lowQualScore : 111111 222222
lowQualScore : 0 2 2 33 33 1 888888 5555 0 1 5 33 333333 99999999 0 3
lowQualScore : . . . .. .. . ...... .... . . . .. ...... ........ . .
lowQualScore : 7 8 2 44 44 9 222222 2222 3 0 7 99 666666 11111111 2 3
consensus : NNGCGTTTTGAAACTTTTGGAACTATTTTATCGGTCGGAAGAAATGAAATCGCCGTCAACAGTATAACAAAGGTTATAGAAC--AA--AATCGTA-A----AT-GGGCCGCACGATCNCT-ATA--GAAG------GC------TACGCT-CGCCTTCCA
Reference ( family-1256 ) : NNGCGTTTTGAAACTTTTGGAACTATTTTATCGGTCGGAAGAAATGAAATCGCCGTCAACAGTATAACAAAGGTTATAGAAC--AA--AATCGTA-A----AT-GGGCCGCACGATCNCT-ATA--GAAG------GC------TACGCT-CGCCTTCCA
gi|1 : GCATTTTGAAACTTTTGGAATTAATCTATCGGTTGGAAGAAATAATATTGCAGTCAACAGAATAACAAAGGTTATAGAAC--AA--AATGGTACAGAATAT-GGGCCACACGATTCTT-ACA--GAAG------GA------T----T-TGCCTTCCA
gi|10 : tctgtttgataagcaacaatcgcaatgaaatttaatttgaatctctatggcaattATCGCCGTCAACAGTATAGCAAATATTATAGCAC--AC--AATCATA-A----AT-GCCCCACATAATGACTGAAA--GGCA------GC------TACGCT-CGACTTCgaaaa
gi|11 : AATCGCTGTCAACAGTATAGCAAATATTATAGCAC--AC--AATCATA-A----AT-GCCCCACATAATGACTGAAA--GGCA------GC------TACGCT-CG
gi|12 : GCCGTCAACAGTATAACAAAGGTTATAGAAC--AA--AATTG-A-A----AT-AGGCAATATGATGACT---------G------GC------TACGTT-CGCCTTCac
gi|13 : GTCAACGGAATAAAAAATGTTATAGAAC--AA--AATTGTA-AT---CT-AGACCGCACGATCCCT-ATA--GAAG------GC------
gi|14 : caagAATCGTGATCAGCAAAATAACAAAGGTTGTA-------------C-TA-------T-GGACCGCACGATCCCT-ATA--GAAG------G
gi|15 : TATAGA-C--AA--AATTGTA-T----TTTGAGCCGCACGATCGTT-GCA--GAAGGCATTCGC------TACGAT-CGCTTTCtattaa
gi|16 : AC--AA--AATTGCA-C-----T----CCACACGATAGCT-ATATAGAAG------GCATTCGCTACACC-CGCCTTC
gi|17 : TCGCAGTCAACAGTATAAGAAAGGTTATAGAAC--AA--AACTGTA-
gi|19 : CAACAGTATAACAAAGGTTACAGAAC--AA--AATctccaca
gi|2 : GCATTTTAAAATGTTTGGAACTATTTTATCTGTCAGAGGAAATGAAATCGCCATCATCAGTATAACAAAt
gi|3 : gtttgataaaacaaaaatcgcaacaaaatcaaatttggatcgttacatcctgtgctatggcaattGCGTTTTGAAACTTTTGGAACTATTTTATTGGTTGGAGGAAATGAAATCACCGTCAACAGTATAACAAAGGTTATAGAAC--AA--AAGTGTA-A----AT-GGGCCGCACGATCACT-ATA--GAAG------GC------TACGTT-CGCCTTCCA
gi|4 : taTTTGAAACTATTTTACCTGTTGGAAGAAATGAAATCGCCGTAAACAG-AAAAAAAAGTTTATAGAAC--AA--AATCACA-A----AT-GCCCCACACAATCACT-ATA--GAAGGCATC-GC------TACGCT-CACCTTCCA
gi|5 : aTATTTTGTTGGTCAGAAAAACAGAAATTGCGGTCAACAGTATAATAaaa
gi|6 : tctctgtttgataggacaaaaatcacaattaaatctctttgttcactgctatggccatttAAATCGTGGTCAACAGAATAACAATGGTTATAGAACGTAACTAATAATA-AT---AC-AGACCGCACGATCCTT-ATA--GAAG------G---------CATT-CGCCTTCCA
gi|7 : GTCAACAGAATAACAAAAGTTTTGGAAC--AA--AATTGTA-AT---AT-CGGCCACACGTTCCCT-ATA--GAAGGCATTCGC------TACGCTCCGTCTTCCAgaaatg
gi|8 : cgtgAAATCGTGGTCAACAGTATAACAAAGGTT-TGGAAC--TA--AATTAAA-AT---AT-AGGCAACATGATCCCT-ATA--GAAG------GC----------CT-CCCCTTCCAaa
gi|9 : AAATCGCCATCAACAGTATAACAAAGATTACAGAAC--AA--AATCATT-A----AC-GTTCCACATAATCACT-ATG--AAAA------GA------T----T-CGCCTACCAaaa
blockSeqs : C T GT CT C AT TGAG A G TA GCATTC ATTCGCTA C
blockSeqs : T T . . C AT GCC A G . GCATTC TA .
blockSeqs : C T . . T AT GCC A . . GCATC TA .
blockSeqs : G A . . T AT AGG C . . . TA .
blockSeqs : A A . . C A AGA C . . . TA .
blockSeqs : C T . . T A GGA G . . . TA .
blockSeqs : C T . . T A GGG G . . . TA .
blockSeqs : C T . . T T GCC A . . . TA .
blockSeqs : G T . . T C AGA A . . . T .
blockSeqs : G T . . C A CGG C . . . . .
blockSeqs : G A . . A A AGG C . . . . .
blockSeqs : C A . . T A GTT C . . .
blockSeqs : T . . T . . A . . .
blockSeqs : T . . C
blockSeqs : . . .
blockSeqCons : A***** TA******
originalCons : NNGCGTTTTGAAACTTTTGGAACTATTTTATCGGTCGGAAGAAATGAAATCGCCGTCAACAGTATAACAAAGGTTATAGAAC--AA--AATCGTA-A----AT-GGGCCGCACGATCNCT-ATA--GAAG------GC------TACGCT-CGCCTTCCA
finalCons : NNGCGTTTTGAAACTTTTGGAACTATTTTATCGGTCGGAAGAAATGAAATCGCCGTCAACAGTATAACAAAGGTTATAGAAC--AA--AATCGTAA-----AT-GGGCCGCACGATCNCT-ATA--GAAG------GCTA------CGCT-CGCCTTCCA
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|18 ): ATAGAAGGCATCGTTTCGCTTGCCTTCCAAAAACA
Alignments
lowQualScore : 111111 222222
lowQualScore : 0 2 2 33 33 1 888888 5555 0 1 5 33 333333 99999999 0 3
lowQualScore : . . . .. .. . ...... .... . . . .. ...... ........ . .
lowQualScore : 7 8 2 44 44 9 222222 2222 3 0 7 99 666666 11111111 2 3
consensus : NNGCGTTTTGAAACTTTTGGAACTATTTTATCGGTCGGAAGAAATGAAATCGCCGTCAACAGTATAACAAAGGTTATAGAAC--AA--AATCGTA-A----AT-GGGCCGCACGATCNCT-ATA--GAAG------GC------TACGCT-CGCCTTCCA
Reference ( family-1256 ) : NNGCGTTTTGAAACTTTTGGAACTATTTTATCGGTCGGAAGAAATGAAATCGCCGTCAACAGTATAACAAAGGTTATAGAAC--AA--AATCGTA-A----AT-GGGCCGCACGATCNCT-ATA--GAAG------GC------TACGCT-CGCCTTCCA
gi|1 : GCATTTTGAAACTTTTGGAATTAATCTATCGGTTGGAAGAAATAATATTGCAGTCAACAGAATAACAAAGGTTATAGAAC--AA--AATGGTACAGAATAT-GGGCCACACGATTCTT-ACA--GAAG------GA------T----T-TGCCTTCCA
gi|10 : tctgtttgataagcaacaatcgcaatgaaatttaatttgaatctctatggcaattATCGCCGTCAACAGTATAGCAAATATTATAGCAC--AC--AATCATA-A----AT-GCCCCACATAATGACTGAAA--GGCA------GC------TACGCT-CGACTTCgaaaa
gi|11 : AATCGCTGTCAACAGTATAGCAAATATTATAGCAC--AC--AATCATA-A----AT-GCCCCACATAATGACTGAAA--GGCA------GC------TACGCT-CG
gi|12 : GCCGTCAACAGTATAACAAAGGTTATAGAAC--AA--AATTG-A-A----AT-AGGCAATATGATGACT---------G------GC------TACGTT-CGCCTTCac
gi|13 : GTCAACGGAATAAAAAATGTTATAGAAC--AA--AATTGTA-AT---CT-AGACCGCACGATCCCT-ATA--GAAG------GC------
gi|14 : caagAATCGTGATCAGCAAAATAACAAAGGTTGTA-------------C-TA-------T-GGACCGCACGATCCCT-ATA--GAAG------G
gi|15 : TATAGA-C--AA--AATTGTA-T----TTTGAGCCGCACGATCGTT-GCA--GAAGGCATTCGC------TACGAT-CGCTTTCtattaa
gi|16 : AC--AA--AATTGCA-C-----T----CCACACGATAGCT-ATATAGAAG------GCATTCGCTACACC-CGCCTTC
gi|17 : TCGCAGTCAACAGTATAAGAAAGGTTATAGAAC--AA--AACTGTA-
gi|19 : CAACAGTATAACAAAGGTTACAGAAC--AA--AATctccaca
gi|2 : GCATTTTAAAATGTTTGGAACTATTTTATCTGTCAGAGGAAATGAAATCGCCATCATCAGTATAACAAAt
gi|3 : gtttgataaaacaaaaatcgcaacaaaatcaaatttggatcgttacatcctgtgctatggcaattGCGTTTTGAAACTTTTGGAACTATTTTATTGGTTGGAGGAAATGAAATCACCGTCAACAGTATAACAAAGGTTATAGAAC--AA--AAGTGTA-A----AT-GGGCCGCACGATCACT-ATA--GAAG------GC------TACGTT-CGCCTTCCA
gi|4 : taTTTGAAACTATTTTACCTGTTGGAAGAAATGAAATCGCCGTAAACAG-AAAAAAAAGTTTATAGAAC--AA--AATCACA-A----AT-GCCCCACACAATCACT-ATA--GAAGGCATC-GC------TACGCT-CACCTTCCA
gi|5 : aTATTTTGTTGGTCAGAAAAACAGAAATTGCGGTCAACAGTATAATAaaa
gi|6 : tctctgtttgataggacaaaaatcacaattaaatctctttgttcactgctatggccatttAAATCGTGGTCAACAGAATAACAATGGTTATAGAACGTAACTAATAATA-AT---AC-AGACCGCACGATCCTT-ATA--GAAG------G---------CATT-CGCCTTCCA
gi|7 : GTCAACAGAATAACAAAAGTTTTGGAAC--AA--AATTGTA-AT---AT-CGGCCACACGTTCCCT-ATA--GAAGGCATTCGC------TACGCTCCGTCTTCCAgaaatg
gi|8 : cgtgAAATCGTGGTCAACAGTATAACAAAGGTT-TGGAAC--TA--AATTAAA-AT---AT-AGGCAACATGATCCCT-ATA--GAAG------GC----------CT-CCCCTTCCAaa
gi|9 : AAATCGCCATCAACAGTATAACAAAGATTACAGAAC--AA--AATCATT-A----AC-GTTCCACATAATCACT-ATG--AAAA------GA------T----T-CGCCTACCAaaa
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|18 ): ATAGAAGGCATCGTTTCGCTTGCCTTCCAAAAACA