lowQualScore : 1 66666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666
lowQualScore : 3 6 1 3 2 6666666 5 4444 2 0 66666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666666 1 1
lowQualScore : . . . . . ....... . .... . . ..................................................................................................... . .
lowQualScore : 0 0 6 3 7 8888888 6 2222 0 3 33333333333333333333333333333333333333333333333333333333333333333333333333333333333333333333333333333 5 5
consensus : TGTTGTTGCT-TATTTT-GTTGTTGTAACA-------GATGTAGT----GATATT-CACTTTCTTGATTAAT---------TTTG------------------TATA----T--AT---------------ATATA--------TA-------T-----T----------T--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAAA
Reference ( gi|8 ) : TATTTTTGCT-TATTTT-GTTGTTGTAACA-------GAAGTAGT----GATATT-CACTTTCTTGATTAAT---------TCTG------------------TATA----T--AT---------------ATATA--------TA-------T-----T----------T--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAAA
gi|3 : TGTTCTTGCT-TATTTT-GTTGCTGTAACA-------GATGTAGT----GATATT-CACTTTCTTGATTAAT---------TTTG------------------TGTA----T--AT---------------GTATATTTATATCTA-------T-----TTTTTTATTTAT--TTTT-AA-TCAA--AGACTTTGAAAGGATTGCTTAAAA
gi|13 : tTGTTGTTGTT-TGTTTT-GTTGTTGTAACA-------GATATAGT----GATATT-CACTATCTTGATTAAT---------T-TG-------------------ATA----T--AT---------------ATGGG--------TT-------T-----T----------T--TTTA-AA-TCAAAGAGACCTTCAAAGGATTGCT
gi|10 : tTGTTGTTGCT-TATTAT-GTTGTTTTAACA-------GATGTAGT----GATATTTCA-TTTCTTGATTA-T---------TTTG------------------TACA----T---T----------------TATA--------TA-------T-----T----------T--TTTT-AA-TCAAAGAGATTTTCAACGGATAGCTTAATAA
gi|12 : tTGTTTTTGTG-TATTTT-GTTGTTGCAACA-------GATGTAGT----GATTTT-CACTTTTATGATTAAT---------TTTA------------------TATA----C--A----------------ATG----------------------------------------TTT-AA-TCAAAGCGGCTTTCAAAAGA-TGCTTAAAAAA
gi|18 : tgtATTTTT----TGATTT-GTTGTTATAACA-------GATGTTGT----GATATT-CACT------ATT--------------TG------------------TGT-----T--A------------------------------------------------------------------TCAAAGAGGCATTCATTGGATTGCTTTAAAAA
gi|4 : ttgttgTTGTTGCT-TATTTT-GTTGTTGTAACA-------GATGTAGT----GATATT-CACTTTCTTGATTAAG---------ATTG------------------TACA----T--ATTTGNNNNNNNNNNNNNNNNN--------NN-------N-----N----------N--NNNT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAAtctcaaaat
gi|19 : TTGTTGTTGTATTTT-GTTGTTGTAACA-------AGTGTAAT----AATATT-CACTATCTTAACT------------------------------------------------------------------------------------------T----------T--TTTT-A--TCAAAGAGACTTTCATAGGATTGCTTTAAAAg
gi|23 : tTTGTTGCT-TTTTTTTGTTGTTGTAACA-------GATGTAGT----AATATT-CACTTTCTTGATTAAT---------ttctc
gi|16 : tgtttTTTTG-T-TATTTT--TTGTTGTGACA-------GATGTAAT----GGTATT-CCCTTAC---------------------G------------------TAT--------------------------------------TG-------C-----T----------T--TATT--A-TCAACAAGATATTCAAAAGATTGCTTTAACAA
gi|15 : tcgttggtgTTGCT-TATTTT-GTTGTTGTAACA-------GATGTAGT----GATATT-CATTTTCTTGATTGAT---------TTTG------------------TATA----T--TT---------------ATATA--------TA---------------------------TATT-AA-TCAAAGAAACTTTCAAAGGATTGTTTAAAtcttaaa
gi|17 : tgTTGTT-TATTTT-GTTGTTGTAACACGTTACAGATGTAGC----GATATT-CACTTTCTTGATT--T-------------------------------TATA----T--AT---------------ATTTA--------TA---------------------------TCTT-AA-TCAAAGAGACTGTCAAAGGATT
gi|9 : gTGCT-TATTTT-GT---TGTAACA-------GATGTAGT----GATATT-AACTTCCTTGATTAAT---------TCTG------------------TACA----T--AT---------------ATATA--------TATATATCTT-----T----------T--TTTT-AA-CCAAAGAGACTTTCAAAGGATGGCTT
gi|20 : ttgttgaTTTT-GTTGTT---ACA-------GATGAAGT----GATATT-TTCTTTCTTGATTAGT---------TTTA------------------------------------------------------------A-------T-----T----------T--TTTT-AA-TCAAAGTGACTTTCAGGTGAATGCTTAAAAA
gi|14 : TTCT-ATTGTTGTAACA-------CATGTAGT----GGTGTT-CACGTTCTTGGTAAATNNNNNNNNNNNNN------------------NNNN----N--NN---------------NNNNN--------NN-------N-----N----------N--NNNN-NN-TCAAAGAGACTTT
gi|6 : tctgttctctctgcTTT-GTCGTTGTAACA-------GATGCAGT----GATATT-CACTTTTTTGATAAAT---------TTTGNNNNNNNNNNNNNNNNNNNNNN----N--NN---------------NNNNN--------NN-------N-----N----------N--NNTT-AA-TCAAAGAGACTTTCAAATGATTTCTTAAAAA
gi|5 : aTGTTGTAACA-------GAAGTAGT----GATATT-CACTTTCTTGATTAAT---------TCTG------------------TATACATGT--AT---------------ATATA--------TATATATT-T-----T----------T--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAAAc
gi|1 : tattttataacttataAACA-------GATGTAGTCACGGGTATT-CGCTTTCTTGATTAAT---------TTTA------------------TATA----T--AC---------------ATATA--------TA-------TGTATTT----------T--TTTT-AA-TCAAAGAGACTTTTAAATGATTGCTTTAAAAAc
gi|21 : tatatcaataactgtacataattatatttgttgtannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnACA-------GATGTAGT----GATATT-CATTGTCTTGATTAGT---------TTTG------------------TATA----T--AT---------------A------------------------------------------TTT-AA-CCAAAGATACTTTCAAAGTATTGCTTAAAAA
gi|7 : CA-------GATGTAAT----GATATT-CACTTTCTTAATTAAT---------TTTG------------------
gi|2 : gGTAGT----GATATT-CACTTT-TTGATTAAT---------TTTG------------------TATA----TGCAT---------------ATATA--------TA-------T-----T----------T--TTTTGAA-TCAAAACGTCTTTCTGATGATTGCTTTAAAAnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncttttaatcaaagagactttcaatggactgataaaaaac
gi|22 : tgttgttgttgttgcatatgtttttgttgtcaagtatatatatatatataaacatG------------------TATA----T--GT---------------ATATA--------CA-------T-----TGTTGTT----T--CTTT-AAATCAATGAGACTTTCAAACGATTGCTTAAAAAA
gi|25 : tag---------------ATATA--------TA-------T-----T-------------------A-TCAAAGAGACTTTCAAAGGAGTGCTTAAAAAAct
gi|24 : gaTATA--------T--------T-----T----------T--TTTT-AA-TCAAAGAGACTTTCAAAAGATTGCTTAAAAAAac
gi|26 : --------TA-------T-----T----------TCATTTC-CA-TCAGAGAGACTTTCAAAGGATTGCTTAAAAc
gi|27 : -------T-----T----------T--TTGT-AA-TCAAAGAGACTTTCAAAGGATCGCTTAAAAA
gi|28 : tt----------T--TTTT-AA-TCAA-GAGACTTTCAAAGGATTGCTTAAAAAA
gi|30 : --TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTTc
gi|7 : --TTTT-AA-TCAAAGAGACTTTCAATGGACTGA-TAAAAAA
2 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|11 ): GTTTTTGTTTTGTTATTTGTTATTTTCACAGGGCAGTTGATATTCACTTTTCAACTATTTTTATCAATGAGGCTTTCAAATACTTGTAATCGCTTTCAAAATCTCAAAATTAA
Unaligned ( gi|29 ): ATATTATTAACTGTAAATAATTATACTTGTTTTCTT
Alignments
lowQualScore : 1111111111111111 55555555555555555555555555555555555555555555555555555555555555555555555555555555555555555
lowQualScore : 2 1 444 2 4444444444444444 6666666 4444 1 777777777 22222222222222222222222222222222222222222222222222222222222222222222222222222222222222222 1 1
lowQualScore : . . ... . ................ ....... .... . ......... ......................................................................................... . .
lowQualScore : 9 7 111 4 7777777777777777 2222222 0000 9 666666666 88888888888888888888888888888888888888888888888888888888888888888888888888888888888888888 5 5
consensus : TGTTG-TTGCTTAT---TTT-GTTGT----------------TGTAACA-------GATGTAGT----GATA-TTCACTTTCTTGATTAAT---------TTTG------------------TATA----------T--AT---------------ATATA--------TA-------TT----------T--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAAA
Reference ( family-312 ) : TGTTG-TTGCTTAT---TTT-GTTGT----------------TGTAACA-------GATGTAGT----GATA-TTCACTTTCTTGATTAAT---------TTTG------------------TATA----------T--AT---------------ATATA--------TA-------TT----------T--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAAA
gi|1 : AACA-------GATGTAGTCACGGGTA-TTCGCTTTCTTGATTAAT---------TTTA------------------TATA----------T--AC---------------ATATA--------TATGTAT--TT----------T--TTTT-AA-TCAAAGAGACTTTTAAATGATTGCTTTAAAAA
gi|10 : tatatcaataactgtacataattatatttgttgtannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnTGTTG-TTGCTTAT---TAT-GTTGT----------------TTTAACA-------GATGTAGT----GATATTTCA-TTTCTTGATT-AT---------TTTG------------------TACA----------T---T----------------TATA--------TA-------TT----------T--TTTT-AA-TCAAAGAGATTTTCAACGGATAGCTTAATAA
gi|12 : tTGTTT-TTGTGTAT---TTT-GTTGT----------------TGCAACA-------GATGTAGT----GATT-TTCACTTTTATGATTAAT---------TTTA------------------TATA----------C--A----------------ATG-----------------------------------TTT-AA-TCAAAGCGGCTTTCAAAAGA-TGCTTAAAAAA
gi|13 : tgtTGTTG-TTGTTTGT---TTT-GTTGT----------------TGTAACA-------GATATAGT----GATA-TTCACTATCTTGATTAA----------TTTG-------------------ATA----------T--AT---------------ATGGG--------TT-------TT----------T--TTTA-AA-TCAAAGAGACCTTCAAAGGATTGCT
gi|14 : tT---TCT-ATTGT----------------TGTAACA-------CATGTAGT----GGTG-TTCACGTTCTTGGTAAATNNNNNNNNNNNNN------------------NNNN----------N--NN---------------NNNNN--------NN-------NN----------N--NNNN-NN-TCAAAGAGACTTT
gi|15 : tctgttctctctgcTG-TTGCTTAT---TTT-GTTGT----------------TGTAACA-------GATGTAGT----GATA-TTCATTTTCTTGATTGAT---------TTTG------------------TATA----------T--TT---------------ATATA--------TA----------------------TATT-AA-TCAAAGAAACTTTCAAAGGATTGTTTAAA
gi|16 : TGTT--TTG-TTAT---TTT--TTGT----------------TGTGACA-------GATGTAAT----GGTA-TTCCCTTAC---------------------G------------------TAT--------------------------------------------TG-------CT----------T--TATT--A-TCAACAAGATATTCAAAAGATTGCTTTAACAA
gi|17 : tcgttggG-TTGTTTAT---TTT-GTTGT----------------TGTAACACGTTACAGATGTAGC----GATA-TTCACTTTCTTG----AT---------TTTA------------------TATA----------T--AT---------------TTATA--------------------------------TCTT-AA-TCAAAGAGACTGTCAAAGGATTtcttaaa
gi|18 : TGTTGATTTTTTGA---TTT-GTTGT----------------TATAACA-------GATGTTGT----GATA-TTCACT------A--------------TTTG------------------TGT-----------T--A-------------------------------------------------------------TCAAAGAGGCATTCATTGGATTGCTTTAAAAA
gi|19 : tTGTTG-TTG--TAT---TTT-GTTGT----------------TGTAACA-------AGTGTAAT----AATA-TTCACTATCTTAACT------------------------------------------------------------------------------------------TT----------T--TTT---A-TCAAAGAGACTTTCATAGGATTGCTTTAAAAtctcaaaat
gi|2 : ttTGTTG-TTGCATATGTTTTT-GTTGTCAAGTATATATATATATATAA-A-------CATGTAGT----GATA-TTCACTTT-TTGATTAAT---------TTTG------------------TATA----------TGCAT---------------ATATA--------TA-------TT----------T--TTTTGAA-TCAAAACGTCTTTCTGATGATTGCTTTAAAAttctc
gi|20 : tgttgtT---TTT-GTTGT----------------T---ACA-------GATGAAGT----GATA-TTTTCTTTCTTGATTAGT---------TTTA------------------------------------------------------------------A-------TT----------T--TTTT-AA-TCAAAGTGACTTTCAGGTGAATGCTTAAAAA
gi|21 : ACA-------GATGTAGT----GATA-TTCATTGTCTTGATTAGT---------TTTG------------------TATA----------T--AT---------------A-------------------------------------TTT-AA-CCAAAGATACTTTCAAAGTATTGCTTAAAAA
gi|22 : G------------------TATA----------T--GT---------------ATATA--------CA-------TTGTTGTT----T--CTTT-AAATCAATGAGACTTTCAAACGATTGCTTAAAAAA
gi|23 : tagTTG-TTGCTTTT---TTTTGTTGT----------------TGTAACA-------GATGTAGT----AATA-TTCACTTTCTTGATTAAT---------ct
gi|24 : tgtttTATA--------T--------TT----------T--TTTT-AA-TCAAAGAGACTTTCAAAAGATTGCTTAAAAAA
gi|25 : ---------------ATATA--------TA-------TT-------------------A-TCAAAGAGACTTTCAAAGGAGTGCTTAAAAAAc
gi|26 : ga--------TA-------TT----------TCATTTC-CA-TCAGAGAGACTTTCAAAGGATTGCTTAAAAac
gi|27 : -------TT----------T--TTGT-AA-TCAAAGAGACTTTCAAAGGATCGCTTAAAAA
gi|28 : tt----------T--TTTT-AA-TCAA-GAGACTTTCAAAGGATTGCTTAAAAAA
gi|3 : TGTTC-TTGCTTAT---TTT-GTTGC----------------TGTAACA-------GATGTAGT----GATA-TTCACTTTCTTGATTAAT---------TTTG------------------TGTA----------T--AT---------------GTATATTTATATCTA-------TTTTTTTATTTAT--TTTT-AA-TCAA--AGACTTTGAAAGGATTGCTTAAAAc
gi|30 : t--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTT
gi|4 : TTG-TTGCTTAT---TTT-GTTGT----------------TGTAACA-------GATGTAGT----GATA-TTCACTTTCTTGATTAAG---------ATTG------------------TACA----------T--ATTTGNNNNNNNNNNNNNNNNN--------NN-------NN----------N--NNNT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAA
gi|5 : TGT----------------TGTAACA-------GAAGTAGT----GATA-TTCACTTTCTTGATTAAT---------TCTG------------------TATACATGTATATAT--AT---------------ATATA--------TT-------TT----------T--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAAAg
gi|6 : tattttataacttata---TTT-GTCGT----------------TGTAACA-------GATGCAGT----GATA-TTCACTTTTTTGATAAAT---------TTTGNNNNNNNNNNNNNNNNNNNNNN----------N--NN---------------NNNNN--------NN-------NN----------N--NNTT-AA-TCAAAGAGACTTTCAAATGATTTCTTAAAAAc
gi|7 : aCA-------GATGTAAT----GATA-TTCACTTTCTTAATTAAT---------TTTG------------------c
gi|7 : g--TTTT-AA-TCAAAGAGACTTTCAATGGACTGA-TAAAAAAnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncttttaatcaaagagactttcaatggactgataaaaaac
gi|8 : gcagatgtaatgatattcactttcttaattaattttgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncTATTT-TTGCTTAT---TTT-GTTGT----------------TGTAACA-------GAAGTAGT----GATA-TTCACTTTCTTGATTAAT---------TCTG------------------TATA----------T--AT---------------ATATA--------TA-------TT----------T--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAAAc
gi|9 : TGTTG-ATGCTTAT---TTT-GT-------------------TGTAACA-------GATGTAGT----GATA-TTAACTTCCTTGATTAAT---------TCTG------------------TACA----------T--AT---------------ATATA--------TATATATCTTT----------T--TTTT-AA-CCAAAGAGACTTTCAAAGGATGGCTT
2 sequences could not be aligned to this reference sequence:
Unaligned ( gi|11 ): GTTTTTGTTTTGTTATTTGTTATTTTCACAGGGCAGTTGATATTCACTTTTCAACTATTTTTATCAATGAGGCTTTCAAATACTTGTAATCGCTTTCAAAATCTCAAAATTAA
Unaligned ( gi|29 ): ATATTATTAACTGTAAATAATTATACTTGTTTTCTT
Alignments
lowQualScore : 1111111111111111 55555555555555555555555555555555555555555555555555555555555555555555555555555555555555555
lowQualScore : 2 1 444 2 4444444444444444 6666666 4444 1 777777777 22222222222222222222222222222222222222222222222222222222222222222222222222222222222222222 1 1
lowQualScore : . . ... . ................ ....... .... . ......... ......................................................................................... . .
lowQualScore : 9 7 111 4 7777777777777777 2222222 0000 9 666666666 88888888888888888888888888888888888888888888888888888888888888888888888888888888888888888 5 5
consensus : TGTTG-TTGCTTAT---TTT-GTTGT----------------TGTAACA-------GATGTAGT----GATA-TTCACTTTCTTGATTAAT---------TTTG------------------TATA----------T--AT---------------ATATA--------TA-------TT----------T--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAAA
Reference ( family-312 ) : TGTTG-TTGCTTAT---TTT-GTTGT----------------TGTAACA-------GATGTAGT----GATA-TTCACTTTCTTGATTAAT---------TTTG------------------TATA----------T--AT---------------ATATA--------TA-------TT----------T--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAAA
gi|1 : AACA-------GATGTAGTCACGGGTA-TTCGCTTTCTTGATTAAT---------TTTA------------------TATA----------T--AC---------------ATATA--------TATGTAT--TT----------T--TTTT-AA-TCAAAGAGACTTTTAAATGATTGCTTTAAAAA
gi|10 : tatatcaataactgtacataattatatttgttgtannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnTGTTG-TTGCTTAT---TAT-GTTGT----------------TTTAACA-------GATGTAGT----GATATTTCA-TTTCTTGATT-AT---------TTTG------------------TACA----------T---T----------------TATA--------TA-------TT----------T--TTTT-AA-TCAAAGAGATTTTCAACGGATAGCTTAATAA
gi|12 : tTGTTT-TTGTGTAT---TTT-GTTGT----------------TGCAACA-------GATGTAGT----GATT-TTCACTTTTATGATTAAT---------TTTA------------------TATA----------C--A----------------ATG-----------------------------------TTT-AA-TCAAAGCGGCTTTCAAAAGA-TGCTTAAAAAA
gi|13 : tgtTGTTG-TTGTTTGT---TTT-GTTGT----------------TGTAACA-------GATATAGT----GATA-TTCACTATCTTGATTAA----------TTTG-------------------ATA----------T--AT---------------ATGGG--------TT-------TT----------T--TTTA-AA-TCAAAGAGACCTTCAAAGGATTGCT
gi|14 : tT---TCT-ATTGT----------------TGTAACA-------CATGTAGT----GGTG-TTCACGTTCTTGGTAAATNNNNNNNNNNNNN------------------NNNN----------N--NN---------------NNNNN--------NN-------NN----------N--NNNN-NN-TCAAAGAGACTTT
gi|15 : tctgttctctctgcTG-TTGCTTAT---TTT-GTTGT----------------TGTAACA-------GATGTAGT----GATA-TTCATTTTCTTGATTGAT---------TTTG------------------TATA----------T--TT---------------ATATA--------TA----------------------TATT-AA-TCAAAGAAACTTTCAAAGGATTGTTTAAA
gi|16 : TGTT--TTG-TTAT---TTT--TTGT----------------TGTGACA-------GATGTAAT----GGTA-TTCCCTTAC---------------------G------------------TAT--------------------------------------------TG-------CT----------T--TATT--A-TCAACAAGATATTCAAAAGATTGCTTTAACAA
gi|17 : tcgttggG-TTGTTTAT---TTT-GTTGT----------------TGTAACACGTTACAGATGTAGC----GATA-TTCACTTTCTTG----AT---------TTTA------------------TATA----------T--AT---------------TTATA--------------------------------TCTT-AA-TCAAAGAGACTGTCAAAGGATTtcttaaa
gi|18 : TGTTGATTTTTTGA---TTT-GTTGT----------------TATAACA-------GATGTTGT----GATA-TTCACT------A--------------TTTG------------------TGT-----------T--A-------------------------------------------------------------TCAAAGAGGCATTCATTGGATTGCTTTAAAAA
gi|19 : tTGTTG-TTG--TAT---TTT-GTTGT----------------TGTAACA-------AGTGTAAT----AATA-TTCACTATCTTAACT------------------------------------------------------------------------------------------TT----------T--TTT---A-TCAAAGAGACTTTCATAGGATTGCTTTAAAAtctcaaaat
gi|2 : ttTGTTG-TTGCATATGTTTTT-GTTGTCAAGTATATATATATATATAA-A-------CATGTAGT----GATA-TTCACTTT-TTGATTAAT---------TTTG------------------TATA----------TGCAT---------------ATATA--------TA-------TT----------T--TTTTGAA-TCAAAACGTCTTTCTGATGATTGCTTTAAAAttctc
gi|20 : tgttgtT---TTT-GTTGT----------------T---ACA-------GATGAAGT----GATA-TTTTCTTTCTTGATTAGT---------TTTA------------------------------------------------------------------A-------TT----------T--TTTT-AA-TCAAAGTGACTTTCAGGTGAATGCTTAAAAA
gi|21 : ACA-------GATGTAGT----GATA-TTCATTGTCTTGATTAGT---------TTTG------------------TATA----------T--AT---------------A-------------------------------------TTT-AA-CCAAAGATACTTTCAAAGTATTGCTTAAAAA
gi|22 : G------------------TATA----------T--GT---------------ATATA--------CA-------TTGTTGTT----T--CTTT-AAATCAATGAGACTTTCAAACGATTGCTTAAAAAA
gi|23 : tagTTG-TTGCTTTT---TTTTGTTGT----------------TGTAACA-------GATGTAGT----AATA-TTCACTTTCTTGATTAAT---------ct
gi|24 : tgtttTATA--------T--------TT----------T--TTTT-AA-TCAAAGAGACTTTCAAAAGATTGCTTAAAAAA
gi|25 : ---------------ATATA--------TA-------TT-------------------A-TCAAAGAGACTTTCAAAGGAGTGCTTAAAAAAc
gi|26 : ga--------TA-------TT----------TCATTTC-CA-TCAGAGAGACTTTCAAAGGATTGCTTAAAAac
gi|27 : -------TT----------T--TTGT-AA-TCAAAGAGACTTTCAAAGGATCGCTTAAAAA
gi|28 : tt----------T--TTTT-AA-TCAA-GAGACTTTCAAAGGATTGCTTAAAAAA
gi|3 : TGTTC-TTGCTTAT---TTT-GTTGC----------------TGTAACA-------GATGTAGT----GATA-TTCACTTTCTTGATTAAT---------TTTG------------------TGTA----------T--AT---------------GTATATTTATATCTA-------TTTTTTTATTTAT--TTTT-AA-TCAA--AGACTTTGAAAGGATTGCTTAAAAc
gi|30 : t--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTT
gi|4 : TTG-TTGCTTAT---TTT-GTTGT----------------TGTAACA-------GATGTAGT----GATA-TTCACTTTCTTGATTAAG---------ATTG------------------TACA----------T--ATTTGNNNNNNNNNNNNNNNNN--------NN-------NN----------N--NNNT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAA
gi|5 : TGT----------------TGTAACA-------GAAGTAGT----GATA-TTCACTTTCTTGATTAAT---------TCTG------------------TATACATGTATATAT--AT---------------ATATA--------TT-------TT----------T--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAAAg
gi|6 : tattttataacttata---TTT-GTCGT----------------TGTAACA-------GATGCAGT----GATA-TTCACTTTTTTGATAAAT---------TTTGNNNNNNNNNNNNNNNNNNNNNN----------N--NN---------------NNNNN--------NN-------NN----------N--NNTT-AA-TCAAAGAGACTTTCAAATGATTTCTTAAAAAc
gi|7 : aCA-------GATGTAAT----GATA-TTCACTTTCTTAATTAAT---------TTTG------------------c
gi|7 : g--TTTT-AA-TCAAAGAGACTTTCAATGGACTGA-TAAAAAAnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncttttaatcaaagagactttcaatggactgataaaaaac
gi|8 : gcagatgtaatgatattcactttcttaattaattttgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncTATTT-TTGCTTAT---TTT-GTTGT----------------TGTAACA-------GAAGTAGT----GATA-TTCACTTTCTTGATTAAT---------TCTG------------------TATA----------T--AT---------------ATATA--------TA-------TT----------T--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAAAc
gi|9 : TGTTG-ATGCTTAT---TTT-GT-------------------TGTAACA-------GATGTAGT----GATA-TTAACTTCCTTGATTAAT---------TCTG------------------TACA----------T--AT---------------ATATA--------TATATATCTTT----------T--TTTT-AA-CCAAAGAGACTTTCAAAGGATGGCTT
blockSeqs : A T GTT T CAAGTATATATATATA CGTTACA . T NNNNNNNNN TGTATATGTATATTTATATCTATTTTTTTATTTAT G A
blockSeqs : . T . . . . . . . NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN . .
blockSeqs : . C . . . . . . . TACATATTTGNNNNNNNNNNNNNNNNNNNNNN . .
blockSeqs : . T . . . . . . . TATACATGTATATATATATATATTTTT . .
blockSeqs : . T . . . . . . . TACATATATATATATATATCTTTT . .
blockSeqs : . C . . . . . . . TATATGTATATACATTGTTGTTT . .
blockSeqs : . C . . . . . . . TATATGCATATATATATTT . .
blockSeqs : . C . . . . . . . NNNNNNNNNNNNNNNNN . .
blockSeqs : . C . . . . . . . TATATATATATATATTT . .
blockSeqs : . C . . . . . . . ATATATATGGGTTTTT . .
blockSeqs : . C . . . . . . . TACATTTATATATTT . .
blockSeqs : . . . . . . . . . TATATTTATATATA . .
blockSeqs : . . . . . . . . . TATATATTTATA . .
blockSeqs : . . . . . . . TATACAATG . .
blockSeqs : . . . . . . . TATTGCTT . .
blockSeqs : . . . . . . . TATATATA . .
blockSeqs : . . . . . TGTTA . .
blockSeqs : . . . . ATTT . .
blockSeqs : . . . . TTT . .
blockSeqs : . . . . . .
blockSeqs : . .
blockSeqs : . .
blockSeqs : . .
blockSeqs : . .
blockSeqs : . .
blockSeqs : . .
blockSeqCons : ****
originalCons : TGTTG-TTGCTTAT---TTT-GTTGT----------------TGTAACA-------GATGTAGT----GATA-TTCACTTTCTTGATTAAT---------TTTG------------------TATA----------T--AT---------------ATATA--------TA-------TT----------T--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAAA
finalCons : TGTTG-TTGCTTAT---TTT-GTTGT----------------TGTAACA-------GATGTAGT----GATA-TTCACTTTCTTGATTAAT---------TTTG------------------TATA----------T--AT---------------ATATA--------TA-------TT----------T--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAAA
2 sequences could not be aligned to this reference sequence:
Unaligned ( gi|11 ): GTTTTTGTTTTGTTATTTGTTATTTTCACAGGGCAGTTGATATTCACTTTTCAACTATTTTTATCAATGAGGCTTTCAAATACTTGTAATCGCTTTCAAAATCTCAAAATTAA
Unaligned ( gi|29 ): ATATTATTAACTGTAAATAATTATACTTGTTTTCTT
Alignments
lowQualScore : 1111111111111111 55555555555555555555555555555555555555555555555555555555555555555555555555555555555555555
lowQualScore : 2 1 444 2 4444444444444444 6666666 4444 1 777777777 22222222222222222222222222222222222222222222222222222222222222222222222222222222222222222 1 1
lowQualScore : . . ... . ................ ....... .... . ......... ......................................................................................... . .
lowQualScore : 9 7 111 4 7777777777777777 2222222 0000 9 666666666 88888888888888888888888888888888888888888888888888888888888888888888888888888888888888888 5 5
consensus : TGTTG-TTGCTTAT---TTT-GTTGT----------------TGTAACA-------GATGTAGT----GATA-TTCACTTTCTTGATTAAT---------TTTG------------------TATA----------T--AT---------------ATATA--------TA-------TT----------T--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAAA
Reference ( family-312 ) : TGTTG-TTGCTTAT---TTT-GTTGT----------------TGTAACA-------GATGTAGT----GATA-TTCACTTTCTTGATTAAT---------TTTG------------------TATA----------T--AT---------------ATATA--------TA-------TT----------T--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAAA
gi|1 : AACA-------GATGTAGTCACGGGTA-TTCGCTTTCTTGATTAAT---------TTTA------------------TATA----------T--AC---------------ATATA--------TATGTAT--TT----------T--TTTT-AA-TCAAAGAGACTTTTAAATGATTGCTTTAAAAA
gi|10 : tatatcaataactgtacataattatatttgttgtannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnTGTTG-TTGCTTAT---TAT-GTTGT----------------TTTAACA-------GATGTAGT----GATATTTCA-TTTCTTGATT-AT---------TTTG------------------TACA----------T---T----------------TATA--------TA-------TT----------T--TTTT-AA-TCAAAGAGATTTTCAACGGATAGCTTAATAA
gi|12 : tTGTTT-TTGTGTAT---TTT-GTTGT----------------TGCAACA-------GATGTAGT----GATT-TTCACTTTTATGATTAAT---------TTTA------------------TATA----------C--A----------------ATG-----------------------------------TTT-AA-TCAAAGCGGCTTTCAAAAGA-TGCTTAAAAAA
gi|13 : tgtTGTTG-TTGTTTGT---TTT-GTTGT----------------TGTAACA-------GATATAGT----GATA-TTCACTATCTTGATTAA----------TTTG-------------------ATA----------T--AT---------------ATGGG--------TT-------TT----------T--TTTA-AA-TCAAAGAGACCTTCAAAGGATTGCT
gi|14 : tT---TCT-ATTGT----------------TGTAACA-------CATGTAGT----GGTG-TTCACGTTCTTGGTAAATNNNNNNNNNNNNN------------------NNNN----------N--NN---------------NNNNN--------NN-------NN----------N--NNNN-NN-TCAAAGAGACTTT
gi|15 : tctgttctctctgcTG-TTGCTTAT---TTT-GTTGT----------------TGTAACA-------GATGTAGT----GATA-TTCATTTTCTTGATTGAT---------TTTG------------------TATA----------T--TT---------------ATATA--------TA----------------------TATT-AA-TCAAAGAAACTTTCAAAGGATTGTTTAAA
gi|16 : TGTT--TTG-TTAT---TTT--TTGT----------------TGTGACA-------GATGTAAT----GGTA-TTCCCTTAC---------------------G------------------TAT--------------------------------------------TG-------CT----------T--TATT--A-TCAACAAGATATTCAAAAGATTGCTTTAACAA
gi|17 : tcgttggG-TTGTTTAT---TTT-GTTGT----------------TGTAACACGTTACAGATGTAGC----GATA-TTCACTTTCTTG----AT---------TTTA------------------TATA----------T--AT---------------TTATA--------------------------------TCTT-AA-TCAAAGAGACTGTCAAAGGATTtcttaaa
gi|18 : TGTTGATTTTTTGA---TTT-GTTGT----------------TATAACA-------GATGTTGT----GATA-TTCACT------A--------------TTTG------------------TGT-----------T--A-------------------------------------------------------------TCAAAGAGGCATTCATTGGATTGCTTTAAAAA
gi|19 : tTGTTG-TTG--TAT---TTT-GTTGT----------------TGTAACA-------AGTGTAAT----AATA-TTCACTATCTTAACT------------------------------------------------------------------------------------------TT----------T--TTT---A-TCAAAGAGACTTTCATAGGATTGCTTTAAAAtctcaaaat
gi|2 : ttTGTTG-TTGCATATGTTTTT-GTTGTCAAGTATATATATATATATAA-A-------CATGTAGT----GATA-TTCACTTT-TTGATTAAT---------TTTG------------------TATA----------TGCAT---------------ATATA--------TA-------TT----------T--TTTTGAA-TCAAAACGTCTTTCTGATGATTGCTTTAAAAttctc
gi|20 : tgttgtT---TTT-GTTGT----------------T---ACA-------GATGAAGT----GATA-TTTTCTTTCTTGATTAGT---------TTTA------------------------------------------------------------------A-------TT----------T--TTTT-AA-TCAAAGTGACTTTCAGGTGAATGCTTAAAAA
gi|21 : ACA-------GATGTAGT----GATA-TTCATTGTCTTGATTAGT---------TTTG------------------TATA----------T--AT---------------A-------------------------------------TTT-AA-CCAAAGATACTTTCAAAGTATTGCTTAAAAA
gi|22 : G------------------TATA----------T--GT---------------ATATA--------CA-------TTGTTGTT----T--CTTT-AAATCAATGAGACTTTCAAACGATTGCTTAAAAAA
gi|23 : tagTTG-TTGCTTTT---TTTTGTTGT----------------TGTAACA-------GATGTAGT----AATA-TTCACTTTCTTGATTAAT---------ct
gi|24 : tgtttTATA--------T--------TT----------T--TTTT-AA-TCAAAGAGACTTTCAAAAGATTGCTTAAAAAA
gi|25 : ---------------ATATA--------TA-------TT-------------------A-TCAAAGAGACTTTCAAAGGAGTGCTTAAAAAAc
gi|26 : ga--------TA-------TT----------TCATTTC-CA-TCAGAGAGACTTTCAAAGGATTGCTTAAAAac
gi|27 : -------TT----------T--TTGT-AA-TCAAAGAGACTTTCAAAGGATCGCTTAAAAA
gi|28 : tt----------T--TTTT-AA-TCAA-GAGACTTTCAAAGGATTGCTTAAAAAA
gi|3 : TGTTC-TTGCTTAT---TTT-GTTGC----------------TGTAACA-------GATGTAGT----GATA-TTCACTTTCTTGATTAAT---------TTTG------------------TGTA----------T--AT---------------GTATATTTATATCTA-------TTTTTTTATTTAT--TTTT-AA-TCAA--AGACTTTGAAAGGATTGCTTAAAAc
gi|30 : t--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTT
gi|4 : TTG-TTGCTTAT---TTT-GTTGT----------------TGTAACA-------GATGTAGT----GATA-TTCACTTTCTTGATTAAG---------ATTG------------------TACA----------T--ATTTGNNNNNNNNNNNNNNNNN--------NN-------NN----------N--NNNT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAA
gi|5 : TGT----------------TGTAACA-------GAAGTAGT----GATA-TTCACTTTCTTGATTAAT---------TCTG------------------TATACATGTATATAT--AT---------------ATATA--------TT-------TT----------T--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAAAg
gi|6 : tattttataacttata---TTT-GTCGT----------------TGTAACA-------GATGCAGT----GATA-TTCACTTTTTTGATAAAT---------TTTGNNNNNNNNNNNNNNNNNNNNNN----------N--NN---------------NNNNN--------NN-------NN----------N--NNTT-AA-TCAAAGAGACTTTCAAATGATTTCTTAAAAAc
gi|7 : aCA-------GATGTAAT----GATA-TTCACTTTCTTAATTAAT---------TTTG------------------c
gi|7 : g--TTTT-AA-TCAAAGAGACTTTCAATGGACTGA-TAAAAAAnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncttttaatcaaagagactttcaatggactgataaaaaac
gi|8 : gcagatgtaatgatattcactttcttaattaattttgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncTATTT-TTGCTTAT---TTT-GTTGT----------------TGTAACA-------GAAGTAGT----GATA-TTCACTTTCTTGATTAAT---------TCTG------------------TATA----------T--AT---------------ATATA--------TA-------TT----------T--TTTT-AA-TCAAAGAGACTTTCAAAGGATTGCTTAAAAAAc
gi|9 : TGTTG-ATGCTTAT---TTT-GT-------------------TGTAACA-------GATGTAGT----GATA-TTAACTTCCTTGATTAAT---------TCTG------------------TACA----------T--AT---------------ATATA--------TATATATCTTT----------T--TTTT-AA-CCAAAGAGACTTTCAAAGGATGGCTT
2 sequences could not be aligned to this reference sequence:
Unaligned ( gi|11 ): GTTTTTGTTTTGTTATTTGTTATTTTCACAGGGCAGTTGATATTCACTTTTCAACTATTTTTATCAATGAGGCTTTCAAATACTTGTAATCGCTTTCAAAATCTCAAAATTAA
Unaligned ( gi|29 ): ATATTATTAACTGTAAATAATTATACTTGTTTTCTT