lowQualScore : 11 111
lowQualScore : 5 555 4 77 555 5 2 3 2
lowQualScore : . ... . .. ... . . . .
lowQualScore : 2 444 8 66 222 0 1 1 5
consensus : TTTATGCTTTTATTCTTTTTCTCTCTTTGTCAGTT---GACGCGCGTCAAAGCCTATGTCCTCGCGAGGGGTTTGGC-TATAT-GGAAGATAGATAG
Reference ( gi|2 ) : TTTATGCTTTTATTCTTTTTCTCTCTTTGTCAGTT---GGCGCACTTCAAAGCCTATGTCCTCACTAGGGGTTTGGC-TATAT-GGAAGATAGATAG
gi|4 : TTTATACTTTTATTCTTTT-CTCTCTTTGTCAGTT---GACGCGCATCAAAGTCTATAACCTCGCGAAGGGTTTGACTTAT-T-GGAAGATAGATA
gi|8 : TTTATGCTTTTATTCT------CCATTTGTCAGTT---GACGTATGTCAAAGTCTATGTCCTCGCGAGGGGTTTGGC-CATGT-GGAAGATAGAT
gi|3 : ctTTTATGCTTTTATTCTTTT-CTCTATTTGTCAGTT---GACGCACGCCAAAGTCCATGTCATCGCGAGGGGTTCGACTTAT-T-GTAAGATAGATA
gi|1 : tTTTATGATTTTATACTTTT-CGCTCTTTGTCAGTT---GACGTGCGTCAAAGTCTATGTCCTCGCGAGGGTTTTGAC-TTTTT-AAAAGATAGATAGt
gi|22 : TTTATGCTTTTATTATTTTTCTCTCTTTGTCAG-T---GACACAAGTCAAAGat
gi|19 : tatTTTATGCTTTT-----TTTTCTTTCTTTGTCAGTTAAAGG------TCAAAGGTTATGTCCTCGCGAAAGGt
gi|5 : atTTATGCTTTTATTTTTTTTCTCTCTTTGTCAGTT---GACGCATGTCAAAGTATATGTCCTTGCGAGGGATTTGAC----------AGATAGATAG
gi|7 : tcTATGATTTCGTTCTTTTTCTCCCTTTGTCAGTT---GATGTGCGTCAAAGCCTATATCCTCAAGAGGGGTTTGGC-TATGT-GGAAGAat
gi|14 : ATGCTTTTATTATATTTCTCTTTTTGTCAATC---GACGCGTGCCAAAGCCTAT-------------GTTTGGC-TATAT-TGACGAgat
gi|15 : aaTGATTTTGTTCTTTTTCTGTCCTTGCCAGTC---GACGCGTGCCGAAGCCTA-GTT-----------TTTGGC-TATAT-GGAGGATA
gi|11 : CTTTTATTCTTTTTCTCTCT--GTCAGTT---GACACATGTCAATGCCTATGTCCTCGCAAGGGGTTTGGC-TTTAT-GGAAGATATAT
gi|10 : TTTTATTCTTTTTCTCTCT--GTCAGTT---GACACATGTCAATGCCTATGTCTTCGCAAGGGGTTTGGC-TTTAT-GGAAGATATATGGg
gi|12 : CTTTCTT-GTCAGT----GACATGTGTCA--GCTTAGGTCTCCAGCACGGGTTTGAC-TTAAT-GGCAGATA
gi|16 : taactgattttatattaaTCAA--TCTAGGTCCGCAGCAGGGGTTTGAC-TAAAT-GGCAGA
gi|23 : ctcaactatttttatacgaaccttctcgAAGCCTTTATCCTCACGAGGG-TTTGGC-TATGT-GGAAGATAGga
gi|24 : taaagCCTATATCGTCGCAAGGGATTTGGC-TATAT-GGGAGAT
gi|28 : TAGGTCCCCAGCAGGGGTTTGAC-TAAAT-GACAGAttataa
gi|26 : TGTCCTCGCGAGGGGTTTGAC-T-TATTGGAAGATAGATa
9 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|6 ): ACCTATCAACTGTTTTTACATCAACCTTTTTGTCAGTGATGCATGTCAGTCTAGGTCCCAAAGACCGCAGGGTAGTCTAGTGGTAGA
Unaligned ( gi|9 ): CCTATCAACAGTTACTGTTTTTATATACCTTCTTGTCAATGATTCACGTCAGTCTAGGTCCCCAGCAGGCATTTGACTTAATGGTA
Unaligned ( gi|13 ): TATCAACTGTTTTATAAACCCATTGTCAGTGACGTGCGTCAGTCTAGGTCCAGGGTTTGATTTAATGGTACA
Unaligned ( gi|17 ): AACTATCAACTGTTTTATATTAACTTTATCGTCAGTGACACATGTCAGTTTAGGTCTTCAGCAGGGT
Unaligned ( gi|18 ): AACTGTTTTTACATAAACCTTATTGTCTCGGTCACCTGCAGGGGTTTGACTAAATAGCAGATA
Unaligned ( gi|20 ): AACCTATCAGCTGTTTTTATATTAACCCTTGTCAGTGATGTGTGTCAGTTTACGTCCCT
Unaligned ( gi|21 ): TGTTTAAGCTATCAATTGTTTTTTATATTAACCATCTTGTTAGTGATGCACGCTAGT
Unaligned ( gi|25 ): ATTTAGGTACACAGCAGGGGTTTATCTAAATGGCAGATAGA
Unaligned ( gi|27 ): GGTTCCCAGCAAGAGTTTGACTAAATGGCAGATAAAT
Alignments
lowQualScore : 4 0 4 3 9999
lowQualScore : . . . . ....
lowQualScore : 2 1 4 8 4444
consensus : TTTATGCTTTTATTCTTTTTCTCTCTTTGTCAGTTGACGCGCGTCAAAGCCTATGTCCTC-GCGAGGGGTTTGGCTATA-TGGAAGATAGATAG
Reference ( family-5240 ) : TTTATGCTTTTATTCTTTTTCTCTCTTTGTCAGTTGACGCGCGTCAAAGCCTATGTCCTC-GCGAGGGGTTTGGCTATA-TGGAAGATAGATAG
gi|1 : TTTATGATTTTATACTTTT-CGCTCTTTGTCAGTTGACGTGCGTCAAAGTCTATGTCCTC-GCGAGGGTTTTGACTTTT-TAAAAGATAGATAG
gi|10 : TTTTATTCTTTTTCTCTCT--GTCAGTTGACACATGTCAATGCCTATGTCTTC-GCAAGGGGTTTGGCTTTA-TGGAAGATATATGGat
gi|11 : CTTTTATTCTTTTTCTCTCT--GTCAGTTGACACATGTCAATGCCTATGTCCTC-GCAAGGGGTTTGGCTTTA-TGGAAGATATAT
gi|12 : CTTTCTT-GTCAGT-GACATGTGTCA--GCTTAGGTCTCCAGC-ACGGGTTTGACTTAA-TGGCAGATAg
gi|13 : taactgattttatattaaTTGTCAG-TGACGTGCGTC--AGTCTAGGTCC-------AGGGTTTGATTTAA-TGG
gi|14 : tatcaactgttttataaacccaATGCTTTTATTATATTTCTCTTTTTGTCAATCGACGCGTGCCAAAGCCTAT--------------GTTTGGCTATA-TTGACGAtaca
gi|15 : aaTGATTTTGTTCTTTTTCTGTCCTTGCCAGTCGACGCGTGCCGAAGCCTA-GTT------------TTTGGCTATA-TGGAGGATA
gi|16 : CGTCAA--TCTAGGTCCGCAGC-AGGGGTTTGACTAAA-TGGCAGA
gi|19 : ctcaactatttttatacgaaccttctTTTATGCTTTT-----TTTTCTTTCTTTGTCAGTTAAAG---GTCAAAGGTTATGTCCTC-GCGAAAGGga
gi|2 : atTTTATGCTTTTATTCTTTTTCTCTCTTTGTCAGTTGGCGCACTTCAAAGCCTATGTCCTC-ACTAGGGGTTTGGCTATA-TGGAAGATAGATAG
gi|22 : TTTATGCTTTTATTATTTTTCTCTCTTTGTCAG-TGACACAAGTCAAAG
gi|23 : tatAAGCCTTTATCCTC-ACGAGGG-TTTGGCTATG-TGGAAGATAGt
gi|24 : taaagCCTATATCGTC-GCAAGGGATTTGGCTATA-TGGGAGAT
gi|26 : TGTCCTC-GCGAGGGGTTTGACT-TATTGGAAGATAGATttataa
gi|3 : tTTTATGCTTTTATTCTTTT-CTCTATTTGTCAGTTGACGCACGCCAAAGTCCATGTCATC-GCGAGGGGTTCGACT-TATTGTAAGATAGATA
gi|4 : tTTTATACTTTTATTCTTTT-CTCTCTTTGTCAGTTGACGCGCATCAAAGTCTATAACCTC-GCGAAGGGTTTGACT-TATTGGAAGATAGATAt
gi|5 : TTATGCTTTTATTTTTTTTCTCTCTTTGTCAGTTGACGCATGTCAAAGTATATGTCCTT-GCGAGGGATTTGAC---------AGATAGATAG
gi|7 : tcTATGATTTCGTTCTTTTTCTCCCTTTGTCAGTTGATGTGCGTCAAAGCCTATATCCTC-AAGAGGGGTTTGGCTATG-TGGAAGAat
gi|8 : TTTATGCTTTTATTCT------CCATTTGTCAGTTGACGTATGTCAAAGTCTATGTCCTC-GCGAGGGGTTTGGCCATG-TGGAAGATAGATgat
9 sequences could not be aligned to this reference sequence:
Unaligned ( gi|6 ): ACCTATCAACTGTTTTTACATCAACCTTTTTGTCAGTGATGCATGTCAGTCTAGGTCCCAAAGACCGCAGGGTAGTCTAGTGGTAGA
Unaligned ( gi|9 ): CCTATCAACAGTTACTGTTTTTATATACCTTCTTGTCAATGATTCACGTCAGTCTAGGTCCCCAGCAGGCATTTGACTTAATGGTA
Unaligned ( gi|17 ): AACTATCAACTGTTTTATATTAACTTTATCGTCAGTGACACATGTCAGTTTAGGTCTTCAGCAGGGT
Unaligned ( gi|18 ): AACTGTTTTTACATAAACCTTATTGTCTCGGTCACCTGCAGGGGTTTGACTAAATAGCAGATA
Unaligned ( gi|20 ): AACCTATCAGCTGTTTTTATATTAACCCTTGTCAGTGATGTGTGTCAGTTTACGTCCCT
Unaligned ( gi|21 ): TGTTTAAGCTATCAATTGTTTTTTATATTAACCATCTTGTTAGTGATGCACGCTAGT
Unaligned ( gi|25 ): ATTTAGGTACACAGCAGGGGTTTATCTAAATGGCAGATAGA
Unaligned ( gi|27 ): GGTTCCCAGCAAGAGTTTGACTAAATGGCAGATAAAT
Unaligned ( gi|28 ): TAGGTCCCCAGCAGGGGTTTGACTAAATGACAGAA
Alignments
lowQualScore : 4 0 4 3 9999
lowQualScore : . . . . ....
lowQualScore : 2 1 4 8 4444
consensus : TTTATGCTTTTATTCTTTTTCTCTCTTTGTCAGTTGACGCGCGTCAAAGCCTATGTCCTC-GCGAGGGGTTTGGCTATA-TGGAAGATAGATAG
Reference ( family-5240 ) : TTTATGCTTTTATTCTTTTTCTCTCTTTGTCAGTTGACGCGCGTCAAAGCCTATGTCCTC-GCGAGGGGTTTGGCTATA-TGGAAGATAGATAG
gi|1 : TTTATGATTTTATACTTTT-CGCTCTTTGTCAGTTGACGTGCGTCAAAGTCTATGTCCTC-GCGAGGGTTTTGACTTTT-TAAAAGATAGATAG
gi|10 : TTTTATTCTTTTTCTCTCT--GTCAGTTGACACATGTCAATGCCTATGTCTTC-GCAAGGGGTTTGGCTTTA-TGGAAGATATATGGat
gi|11 : CTTTTATTCTTTTTCTCTCT--GTCAGTTGACACATGTCAATGCCTATGTCCTC-GCAAGGGGTTTGGCTTTA-TGGAAGATATAT
gi|12 : CTTTCTT-GTCAGT-GACATGTGTCA--GCTTAGGTCTCCAGC-ACGGGTTTGACTTAA-TGGCAGATAg
gi|13 : taactgattttatattaaTTGTCAG-TGACGTGCGTC--AGTCTAGGTCC-------AGGGTTTGATTTAA-TGG
gi|14 : tatcaactgttttataaacccaATGCTTTTATTATATTTCTCTTTTTGTCAATCGACGCGTGCCAAAGCCTAT--------------GTTTGGCTATA-TTGACGAtaca
gi|15 : aaTGATTTTGTTCTTTTTCTGTCCTTGCCAGTCGACGCGTGCCGAAGCCTA-GTT------------TTTGGCTATA-TGGAGGATA
gi|16 : CGTCAA--TCTAGGTCCGCAGC-AGGGGTTTGACTAAA-TGGCAGA
gi|19 : ctcaactatttttatacgaaccttctTTTATGCTTTT-----TTTTCTTTCTTTGTCAGTTAAAG---GTCAAAGGTTATGTCCTC-GCGAAAGGga
gi|2 : atTTTATGCTTTTATTCTTTTTCTCTCTTTGTCAGTTGGCGCACTTCAAAGCCTATGTCCTC-ACTAGGGGTTTGGCTATA-TGGAAGATAGATAG
gi|22 : TTTATGCTTTTATTATTTTTCTCTCTTTGTCAG-TGACACAAGTCAAAG
gi|23 : tatAAGCCTTTATCCTC-ACGAGGG-TTTGGCTATG-TGGAAGATAGt
gi|24 : taaagCCTATATCGTC-GCAAGGGATTTGGCTATA-TGGGAGAT
gi|26 : TGTCCTC-GCGAGGGGTTTGACT-TATTGGAAGATAGATttataa
gi|3 : tTTTATGCTTTTATTCTTTT-CTCTATTTGTCAGTTGACGCACGCCAAAGTCCATGTCATC-GCGAGGGGTTCGACT-TATTGTAAGATAGATA
gi|4 : tTTTATACTTTTATTCTTTT-CTCTCTTTGTCAGTTGACGCGCATCAAAGTCTATAACCTC-GCGAAGGGTTTGACT-TATTGGAAGATAGATAt
gi|5 : TTATGCTTTTATTTTTTTTCTCTCTTTGTCAGTTGACGCATGTCAAAGTATATGTCCTT-GCGAGGGATTTGAC---------AGATAGATAG
gi|7 : tcTATGATTTCGTTCTTTTTCTCCCTTTGTCAGTTGATGTGCGTCAAAGCCTATATCCTC-AAGAGGGGTTTGGCTATG-TGGAAGAat
gi|8 : TTTATGCTTTTATTCT------CCATTTGTCAGTTGACGTATGTCAAAGTCTATGTCCTC-GCGAGGGGTTTGGCCATG-TGGAAGATAGATgat
blockSeqs : T A A TTA
blockSeqs : T A A TTA
blockSeqs : T . G TAA
blockSeqs : T . T TAA
blockSeqs : T . G ATA
blockSeqs : T . A ATA
blockSeqs : T . G AAA
blockSeqs : T . G ATA
blockSeqs : T . G ATG
blockSeqs : . . G ATA
blockSeqs : . . G TAT
blockSeqs : . . G TAT
blockSeqs : . . TAT
blockSeqs : . . ATG
blockSeqs : . . ATG
blockSeqs : . . .
blockSeqs : . .
blockSeqCons :
originalCons : TTTATGCTTTTATTCTTTTTCTCTCTTTGTCAGTTGACGCGCGTCAAAGCCTATGTCCTC-GCGAGGGGTTTGGCTATA-TGGAAGATAGATAG
finalCons : TTTATGCTTTTATTCTTTTTCTCTCTTTGTCAGTTGACGCGCGTCAAAGCCTATGTCCTC-GCGAGGGGTTTGGCTATA-TGGAAGATAGATAG
9 sequences could not be aligned to this reference sequence:
Unaligned ( gi|6 ): ACCTATCAACTGTTTTTACATCAACCTTTTTGTCAGTGATGCATGTCAGTCTAGGTCCCAAAGACCGCAGGGTAGTCTAGTGGTAGA
Unaligned ( gi|9 ): CCTATCAACAGTTACTGTTTTTATATACCTTCTTGTCAATGATTCACGTCAGTCTAGGTCCCCAGCAGGCATTTGACTTAATGGTA
Unaligned ( gi|17 ): AACTATCAACTGTTTTATATTAACTTTATCGTCAGTGACACATGTCAGTTTAGGTCTTCAGCAGGGT
Unaligned ( gi|18 ): AACTGTTTTTACATAAACCTTATTGTCTCGGTCACCTGCAGGGGTTTGACTAAATAGCAGATA
Unaligned ( gi|20 ): AACCTATCAGCTGTTTTTATATTAACCCTTGTCAGTGATGTGTGTCAGTTTACGTCCCT
Unaligned ( gi|21 ): TGTTTAAGCTATCAATTGTTTTTTATATTAACCATCTTGTTAGTGATGCACGCTAGT
Unaligned ( gi|25 ): ATTTAGGTACACAGCAGGGGTTTATCTAAATGGCAGATAGA
Unaligned ( gi|27 ): GGTTCCCAGCAAGAGTTTGACTAAATGGCAGATAAAT
Unaligned ( gi|28 ): TAGGTCCCCAGCAGGGGTTTGACTAAATGACAGAA
Alignments
lowQualScore : 4 0 4 3 9999
lowQualScore : . . . . ....
lowQualScore : 2 1 4 8 4444
consensus : TTTATGCTTTTATTCTTTTTCTCTCTTTGTCAGTTGACGCGCGTCAAAGCCTATGTCCTC-GCGAGGGGTTTGGCTATA-TGGAAGATAGATAG
Reference ( family-5240 ) : TTTATGCTTTTATTCTTTTTCTCTCTTTGTCAGTTGACGCGCGTCAAAGCCTATGTCCTC-GCGAGGGGTTTGGCTATA-TGGAAGATAGATAG
gi|1 : TTTATGATTTTATACTTTT-CGCTCTTTGTCAGTTGACGTGCGTCAAAGTCTATGTCCTC-GCGAGGGTTTTGACTTTT-TAAAAGATAGATAG
gi|10 : TTTTATTCTTTTTCTCTCT--GTCAGTTGACACATGTCAATGCCTATGTCTTC-GCAAGGGGTTTGGCTTTA-TGGAAGATATATGGat
gi|11 : CTTTTATTCTTTTTCTCTCT--GTCAGTTGACACATGTCAATGCCTATGTCCTC-GCAAGGGGTTTGGCTTTA-TGGAAGATATAT
gi|12 : CTTTCTT-GTCAGT-GACATGTGTCA--GCTTAGGTCTCCAGC-ACGGGTTTGACTTAA-TGGCAGATAg
gi|13 : taactgattttatattaaTTGTCAG-TGACGTGCGTC--AGTCTAGGTCC-------AGGGTTTGATTTAA-TGG
gi|14 : tatcaactgttttataaacccaATGCTTTTATTATATTTCTCTTTTTGTCAATCGACGCGTGCCAAAGCCTAT--------------GTTTGGCTATA-TTGACGAtaca
gi|15 : aaTGATTTTGTTCTTTTTCTGTCCTTGCCAGTCGACGCGTGCCGAAGCCTA-GTT------------TTTGGCTATA-TGGAGGATA
gi|16 : CGTCAA--TCTAGGTCCGCAGC-AGGGGTTTGACTAAA-TGGCAGA
gi|19 : ctcaactatttttatacgaaccttctTTTATGCTTTT-----TTTTCTTTCTTTGTCAGTTAAAG---GTCAAAGGTTATGTCCTC-GCGAAAGGga
gi|2 : atTTTATGCTTTTATTCTTTTTCTCTCTTTGTCAGTTGGCGCACTTCAAAGCCTATGTCCTC-ACTAGGGGTTTGGCTATA-TGGAAGATAGATAG
gi|22 : TTTATGCTTTTATTATTTTTCTCTCTTTGTCAG-TGACACAAGTCAAAG
gi|23 : tatAAGCCTTTATCCTC-ACGAGGG-TTTGGCTATG-TGGAAGATAGt
gi|24 : taaagCCTATATCGTC-GCAAGGGATTTGGCTATA-TGGGAGAT
gi|26 : TGTCCTC-GCGAGGGGTTTGACT-TATTGGAAGATAGATttataa
gi|3 : tTTTATGCTTTTATTCTTTT-CTCTATTTGTCAGTTGACGCACGCCAAAGTCCATGTCATC-GCGAGGGGTTCGACT-TATTGTAAGATAGATA
gi|4 : tTTTATACTTTTATTCTTTT-CTCTCTTTGTCAGTTGACGCGCATCAAAGTCTATAACCTC-GCGAAGGGTTTGACT-TATTGGAAGATAGATAt
gi|5 : TTATGCTTTTATTTTTTTTCTCTCTTTGTCAGTTGACGCATGTCAAAGTATATGTCCTT-GCGAGGGATTTGAC---------AGATAGATAG
gi|7 : tcTATGATTTCGTTCTTTTTCTCCCTTTGTCAGTTGATGTGCGTCAAAGCCTATATCCTC-AAGAGGGGTTTGGCTATG-TGGAAGAat
gi|8 : TTTATGCTTTTATTCT------CCATTTGTCAGTTGACGTATGTCAAAGTCTATGTCCTC-GCGAGGGGTTTGGCCATG-TGGAAGATAGATgat
9 sequences could not be aligned to this reference sequence:
Unaligned ( gi|6 ): ACCTATCAACTGTTTTTACATCAACCTTTTTGTCAGTGATGCATGTCAGTCTAGGTCCCAAAGACCGCAGGGTAGTCTAGTGGTAGA
Unaligned ( gi|9 ): CCTATCAACAGTTACTGTTTTTATATACCTTCTTGTCAATGATTCACGTCAGTCTAGGTCCCCAGCAGGCATTTGACTTAATGGTA
Unaligned ( gi|17 ): AACTATCAACTGTTTTATATTAACTTTATCGTCAGTGACACATGTCAGTTTAGGTCTTCAGCAGGGT
Unaligned ( gi|18 ): AACTGTTTTTACATAAACCTTATTGTCTCGGTCACCTGCAGGGGTTTGACTAAATAGCAGATA
Unaligned ( gi|20 ): AACCTATCAGCTGTTTTTATATTAACCCTTGTCAGTGATGTGTGTCAGTTTACGTCCCT
Unaligned ( gi|21 ): TGTTTAAGCTATCAATTGTTTTTTATATTAACCATCTTGTTAGTGATGCACGCTAGT
Unaligned ( gi|25 ): ATTTAGGTACACAGCAGGGGTTTATCTAAATGGCAGATAGA
Unaligned ( gi|27 ): GGTTCCCAGCAAGAGTTTGACTAAATGGCAGATAAAT
Unaligned ( gi|28 ): TAGGTCCCCAGCAGGGGTTTGACTAAATGACAGAA