lowQualScore : 1 2 4 1 1 1 1 5555555555555555555 1 111 44444 4 1 1111 2 11 111 1 1 22 1 11 11 333333 2222 22222222 11 11 11 111111 1 11 33333333333 1111 55555555555555555555555555555 111 222222222 11 1111111111 11 11111111111 22222 111 33333 1 111 22222222 11111 22222 333333333 2222
lowQualScore : 5 0 0 3 22 3 3 3 3 5555555555555555555 7 3 777 66666 88888 0 7 0 3 55 4 3 1111 0 33 2 999 5 5 77 0 11 11 3 111111 0 8 4444 77777777 1 8 8 11 88 8 5 88 22 8 666666 1 11 6 00000000000 7777 5 22222222222222222222222222222 111 77 6 222222222 66 66 6666 4 66 6 6 22 3 3 5555555555 00 7 33333333333 1 88888 55 7777 22 222 3 77777 55555 3 3 4 4 3 3 88 0 2 3 000 7 66666666 33333 55 55 33333 55 3 0 0 000000000 3 3 3 3 44 3 8888 3
lowQualScore : . . . . .. . . . . ................... . . ... ..... ..... . . . . .. . . .... . .. . ... . . .. . .. .. . ...... . . .... ........ . . . .. .. . . .. .. . ...... . .. . ........... .... . ............................. ... .. . ......... .. .. .... . .. . . .. . . .......... .. . ........... . ..... .. .... .. ... . ..... ..... . . . . . . .. . . . ... . ........ ..... .. .. ..... .. . . . ......... . . . . .. . .... .
lowQualScore : 5 0 0 3 00 3 3 3 7 3333333333333333333 3 3 777 77777 77777 7 3 0 3 77 0 2 0000 0 88 5 000 0 0 77 0 00 00 2 000000 8 0 2222 00000000 4 0 0 00 66 0 0 66 22 0 888888 2 00 7 22222222222 8888 7 00000000000000000000000000000 777 33 7 555555555 11 11 4444 4 11 0 9 99 6 6 7777777777 00 3 99999999999 8 55555 00 7777 44 777 6 55555 11111 6 6 5 5 6 6 66 5 6 6 111 3 99999999 44444 00 00 33333 00 3 4 4 333333333 1 1 1 1 22 1 1111 3
consensus : TCTAGAGTAAGGGGGACAATGTGCCGATAAGGGGTCAAAACA-ACTCGGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGACTGCGTTGTAA-GG-AATTNTCAAA----AGCA-ATG-TATAT-CGACAGACT-CACCGC-T-GACGT----ATCCCCGGCCCCG-AAACAAAGGTGTCCGAT-GTTG-GCGGNTTCAGNGCCTGATGTTGAT-CGGGCGAAGTC--TGACGTCTGCG-TCGGCCTCTGCCTAGTGCGTTAACCCCGGCCGAGGGATCCGC-CACGGTGAC--AATGGC-GTCTGGCGC---AGTTGTGCTC-AGGGGCTG-ATGTTGCTNT------GACGAAGTCCGA-GTCCTGCGTTGGCCT-CGGCCC--CTTGCA-GGAGAAATCTGCT-GCTCNTCCGA-CTTTCCGTT-TGTA--CGA-TTCNCGCGCTTT--CCGGCGAATTGGCGGC-ATG----------TTTC--G-GAAGA-T---------T-TGT---------------TT---TANNC-TT----CGT-ATC--T--GTAC--TGCAG-A--TGGCGGGAAACTGCT-GAG-GC-GG-AA----AGGAGA--TGTCG-CGCC-A-AAT--A--GGNTT-A-AGATAATT--CG----TTCGGCTATTGGC---T-AC--A-AAAAAAC--T--AAGTT-G-TAC-TT-AA-C--TTATTC-TG-GTCT-TAGT----A---TGTAT--AA-AT--ACGGGATGTTT--G--CGCA--CGA-CACCCCTG---TAA-T-TCGTAAATTAA-TAGCG-ATTATT-TTG-A--TA-TGGGA--ATAAAATA-ATCAGCAT
Reference ( gi|2 ) : TTTAAAATAAGGGGGACA-TGT-CCGATAAGAGATCAAAACA-ACTTAGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGACTGCGTTGTAA-GG-AATTCTCAAA----AGTACATG-TATATTCGACAGACT-CACCGC-T-GACG-----ATCCCCGGCCCCGTAGACAAAGGTGTCCGATCGTTG-GCGAATTCAGAGCCTGATGTTGAT-TGG-CGAAGTC--TGACGTCTGCG-TCGGCCTCTGCCTAGTGCGGTAAACCCG-TCGAGGGATCCGC-CACGGTGAC--AATGGT-GTCTGGCGC---AGTTGTGCTC-AGGGGCTG-ATGTTGCTGT------GACGAGGTCCGA-GTCCTGCGTTGGCCT-CGGCCC--CTTGCA-GGAGAAATCTGCT-GCTCCTCCGA-CTTTCTTTT-TGTA--CGA-TTCTCGCGCTTT--CCGGCGAATTGGTGGC-ATG----------TTTT--G-GAAGA-T---------T-TGT---------------TT---TAAGC-TT----CGT-ATC--T--GTAT--TGCAG-A--TAGCGGAAAACTGCT-GAG-GC-GG-AA----AGGAGA--TGTCG-CGCC-A-AAT--A--GGATT-A-AGATAATT--CG----TTCGGCTATTGGC---T-AC-TA-AAAAAAC--T--AAGTT-G-TGC-TT-AA-C--TTATTC-TA-ATTT-TAGT----A---TGTAT--AA-AT--ACGGGATGTTT--G--CGCA--CGA-CACCCCTG---TAA-T-TCGTAAATTAA-TAGTG-ATTATT-TTG-A--TA-TGGGA--A-AAAATA-ATCAGCAT
gi|1 : TTTAAAATA-GGGGGACAATGTGCCGATAAGAGATCAAAACAGACTTAGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAAACAGACTGCGTTGTAA-GG-AATTCTCAAAG---AGTACATG-TATAT-CGAC-GACT-CACCGC-TTGACG-----ATCCCCGGCCCCGTAGACAAAGG-GTCCGAT-GTTGAGCGAATTCAGAGCCTGATGTTGAT-TGGGCGAAGTC--TGACGTCTGCGGTCGGCCTCTGCCTAGTGCGTTAACCCGG-TCGAGGGATCCGC-CACGGTGAC--AATGGT-GTCTGGCGC---AGTTGTGCTC-AGGGGCTG-ATGTTGCT-T------GACGAGGTCCGA-GTCCTGCGTTGGCCT-CGGCCC--CTTGCA-GGAGAAATCTGCTGGCTCCTCCGA-CTTTCTTTTGTTTA--CGA-TTCTCGCGCTTT--CCGGCGAATTGGTGGC-ATG----------TTTTTGG-GAAGA-T---------T-TGT---------------TT---TAAGC-TT----CGT-ATTCGT--GTAT--TGCAG-A--TGGCGG-AAACTGCT-GAG-GC-GG-AA----AGGAGA--TGTCG-CGCC-A-AAT--A--GGATT-AGAGATAATT--CG----TTCGGCTATTGGC---T-AC--A-TAAAAAC--T--AAGTT-GCTG--TT-AA-C--TTA-TC-TA-ATTT-TAGT----A---TGTAT--AA-AT--ACGGGATGTTTTGG--CGCA--CGC-CACCCCTG---TGATT-TCGTAAATTAA-TAGTG-ATTATT-TTG-A--TA-TGGGAATA-AAAATA-ATCAGCAT
gi|3 : tgtTCTAGAGTAAGGGGGACA-TGTGCCAATAAGGGGTCAAAATA-ACTCGGGGTAGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGATTGCATTGTCATGA-AATTGTCAAACTGGGGCAAATC-GATA----ACAGACA-CACCGCTT-GGCGTTGTTGTCCCCGGC------AACAAAGGTGTCCAAT-GTTG-GCGGTTTCAGCGCCTGA--TCG----GG-CGAAGTCAGTGACGTCTGTG-TCGGCC
gi|5 : aAACA-ACTCGGGGTTGTTGGGGGTAAATAATCTGCAATGTCAA-CAAACTGCGTTGCAA-GGGAATTTTCAAA----AG---GTGGTAT-TTCGACAGACTATACGTT-T-GACGT----ATCCCCTGCCCCGGAAACAAAGGTGTCCGAT-GTTG-GCGGGTTCAGGGCCTGATGTTGATCTGG-CGAAATC--TGACGTCTGC-------CTCTGCCTAGTGCTTTAACCCCGGCCGAGGGATCCGC-CACGGTGAC--AATGGC-GTCTGGCGC---AGTTGTGCTC-ATGGGCTG-AT-TTA--GT------GACGAGGTCAGA-GTCCTTCGTTGGCCT-CGGCCC--CTTGCA-GAATAAATTTGTT-GCTCCTCCGA-CTTTC-TTC-TGTA--CCA-TTCTCGCGCTTT--CCGGCGAATTGGTGAC-ATG----------TTTT--GAGAAGATT---------T-TAT---------------TT---TAAGC-TT----GG---CC--T--GTATACTGCAG-A--TGGTGG-AAACTGCT-GAG-ACGGG-AA----AGGAGA--TGTCG-CGCC-A-AAT--A--GGATT---ATATCATT--CG----TTCGGATATTGGC---T-AC-AC-ACAAAACAAT--AAGTT-G-AAC-TT-AA-C--TTATTA-TA-ATCT-TAGT----A---TGTAT--AA-AT--ACGGGATGTTTA-G--CGCA--CGA-TACCCCTG---TGATT-TCGTAATTTAA-TAGTG-ATTATT-TTG-A--TA-TGGGA--ATAAAATA-ATCAGCAacggtgacaatggcgtctggcgttgtgctcaggggctgttgctctgacaaagaccgggtcctgcattggcctcgaccccttgcaggagaaatctgctgataatccgccttccgtttgtacatttcatgcgctttccggcaaattggtggcatgtttcgtgaagataagctatagttgtcactgggatgtgttttttatccttcgtctctttactgcagagatggtgggaactgctgaggcgggatttaaggagatgtcacgccaaaaaaggattagataactgtcgttcggatattggctacacaaaaaactaagttgtacttaaccttactctggtcttagaatgtataaatacgggatgtttggcgcacgatacccctgtgacatcgttaattaatagtgattattttgatatgagaataaaataatcagcat
gi|6 : TGATGTTGAT-CGGGCGAAGTC--TGCC--------TCGGCCTCTGCCTGATGTGTTGACCCCGGCCGATGGATCCGCACACGTTTACGAAATGGCAGTCTG-CGTCTGAATTGTGCTCCAGGGACT-----TTGCTCT------GACGAAGACCGGTGTCCTGCGTTGTCCTTCGGCCCGCCTTGCCTGGAGAAATCTGCT-GCTCGTCCG--CCTTCCGTT-TGTA--TCATTTCACGCGCTTTCCCCGGCGAATTGGTGGC--TA----------TTTC--G-TAAGA-
gi|3 : TCGGC-CACGGTGAC--AATGGC-GTCTGGCG------TTGTGCTC-AGGGGCTG----TTGCTCT------GACAAAGACCGG-GTCCTGCATTGGCCT-CGACCC--CTTGCA-GGAGAAATCTGCT-GATAATCCG--CCTTCCGTT-TGTA--CAT-TTCATGCGCTTT--CCGGCAAATTGGTGGC-ATG----------TTTC--GTGAAGA-TAAGCTATAGT-TGTCACTGGGATGTGTTTTT---TATCC-TT----CGT-CTC--T--TTAC--TGCAG-AGATGGTGGGAA-CTGCT-GAG-GC-GG-GATTTAAGGAGA--TGTCA-CGCC-A-AAA--AA-GGATT-A--GATAACTGTCG----TTCGGATATTGGC---T-AC-AC-AAAAAAC--T--AAGTT-G-TAC-TT-AACC--TTACTC-TG-GTCT-TAGA----A---TGTAT--AA-AT--ACGGGATGTTTG-G--CGCA--CGA-TACCCCTG---TGA-CATCGTTAATTAA-TAGTG-ATTATT-TTG-A--TA-TGAGA--ATAAAATA-ATCAGCATaaaaaactatagtgtccatacttgcgaatttgtttttttccttcgtcgcctgtctgcagcatggcggaactgcttgaggcgggaaaggagatgtcgcgccaaataaaggcttaatatactcgtttagatattggcccctactacaaaaaactaagttgtacttaaccttactctggtcttcgaatgtataaatacgggatatttggcgcgcaatacccctgtgatatcgtaaattaatagtgattattttgatatgggaataaaataatcagca
gi|7 : atctagagtaagggggacatgtgccaataaggggtcaaaataactcggggtagtggggggtaaataatcggcaaagtcaacagattgcattgtcatgaaattgtcaaactggggcaaatcgataacagacacaccgcttggcgttgttgtccccggcaacaaaggtgtccaatgttggcggtttcagcgcctgatcgggcgaagtcagtgacgtctgtgACGTTCAT--AATGGC-GTCTGATG------TTG-GAAC-AA----TGTATGTTGCTGCTTTGGAGGCAAAATCAGA-GTTCTATGTT---CT-ATG------TTG-------AAATTCATT-GCTCATCTAATCTTTCTGTT-TGAAACCGT-TTC---CACTAT--TCTGTGAATTAGCGAG-ATGATTGCGGCGATTTT--A-AATAA-T---------A-TGT---------------CTCTGTAATC-TTTTGACTA-ATC--T--GTGT--TGTTG-G--TGCCCGAAAA----------------------AGGAAG--TGTCG------ATAATTTA--GGTTC----GATAATT--CG----TTGTGCAATTGGC---T-GC--A-CGAACGC--C--AAGTC-G-TACATT-GG-C--AAGTTC-TGTGTTG-TAGT----TGCTTGTATTCACCATGAACTGAATG-----A--CAAA--GGG-CACACCTG---TA----TCATAAATTAA-TAGCT-ATTATT-TTG-A--TA-TGGGA--ATAAAATA-ATCGG
gi|4 : ATTG-CGGCGAT-----------TTTT--A-AAAAA-T---------AATAT---------------TT---TTGAC-TA----C-T-ATC--TCTGTGT--TGCTG-A--TGCCGGAAAA----------------------AGGAAG--TGTCGGCGTT-----T--G--AGGTT-A--GATAATT--CG----TTATGCGATTGGC---T-GC-----ACGAAC--TCCAAGTC-G-TACGTT-GA-C--TAGTTC-TG-TTTTCTAGT----CGCTTGTATT-CA-AC--ATGGCCTGAAT--G--ACCA--AGAACACACAAG---TA----TTGTAAATTAA-TAGCG-ATTATT-TTG-A--TA-TGGGA--ATAAAATA-ATCGGCAT
gi|6 : tagcgggatgA-T---------T-TGT---------------TT---TTTTCCTT----CGTCGCC--T--GT-C--TGCAGCA--TGGCGGAA--CTGCTTGAG-GC-GGGAA----AGGAGA--TGTCG-CGCC-A-AAT--AAAGGCTT-A-ATATA-CT--CG----TTTAGATATTGGCCCCT-AC-TACAAAAAAC--T--AAGTT-G-TAC-TT-AA-CC-TTACTC-TG-GTCT-TCGA----A---TGTAT--AA-AT--ACGGGATATTT--GG-CGCG--CAA-TACCCCTG---TGA-TATCGTAAATTAA-TAGTG-ATTATT-TTG-A--TA-TGGGA--ATAAAATA-ATCAGCAtaatggtaaggaacattctttctttgctttagatattaactatagatgatatcggctaagggtacaattttccttaacaatctcatttaaaattcagttgatgaatgactgataaaagaaatgatatatcaaatatattgataaaatctcttctaaccacgtatatttgttgtagaagttttcttactaatggttagggaacataacaaggggggggaggggccgatgcatggaaatcttaaaatgaaatccagtccgaacacgtaacnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngaagcctcactatataacaccg
gi|11 : tgatgttgatcgggcgaagtctgcctcggcctctgcctgatgtgttgaccccggccgatggatccgcacacgtttacgaaatggcagtctgcgtctgaattgtgctccagggactttgctctgacgaagaccggtgtcctgcgttgtccttcggcccgccttgcctggagaaatctgctgctcgtccgccttccgtttgtatcatttcacgcgctttccccggcgaattggtggctatttcgtaagaaaaaaactatagtgtccatacttgcgaTC--T--GTTT--GGCAG-A--TGG-GGGAAATTGAT-GAGAGC-GGGAA----AGGA-A--TGTCG-CGCC-A-AAA--A--GGCTT---AGATAAAT--CGTTTATTCAGATAATGGC---TCAC----AAAAAAC--T--AAGTT-G-TAC-TTGAA-CCTTTA-TC-TG-GTTT-CGAT----A----GT--------T--ATGGGATATTT--GGCCGCG--C-A-TA-CCATGTCATAA-T-CGGTAAATTAA-TAGTGAATTATT-TTG-ATTTA-TAGGAATA-AAAATA-ATCAGCA
gi|12 : cC--T--GTAC--TGCAG-A--TGGCGGGAA-CTGCT-GAG-GC-GGGAA----AGGAGA--TGTCG-TGCCAA-AAC--A--GGATT---ATATAACT--CG----TTCGACTATTGGC---T-ACACA-AAAAAAA--T--CAGTT-G-TAC-TT-AA-C--TTATTC-TG-ATCT-TAGT----A---TATAT--AA-AT--ACGGGATGTGT--GA-CGCA--CGA-TACCCCTG---TGA-TATCGTAAATTAA-TAGCA-ATTATT-TTG-A--TA-TGGGA--ATGGAATA-ATCAGCAT
gi|13 : --T--GTAC--TGCAG-A--TGGCGGAAA-CTGCT-GAG-GCGGG-AG----AGGAGA--TGTCG-CGCC-A-AAC--A--GGATT---AGATAATT--TG----TTTGGCTATTGGC---T-AC-AC-AAAAAAC--T--AAGTT-G-TAC-TT-AA-C--TTATTC-TA-ATCT-TAGT----A---TGTAT--AA-AT--ACGAGATGTTTG-G--CGCA--CGA-TACCCGTG----AT-T-TCATAGATTAA-TAGTG-ATTATT-TTG-A--TA-TGGGA--ATAAAATA-ATC
gi|10 : ttcgtcagTGCT-GAT-GCCGG-AA----AAGGGAAGTGTCGGCGTT-----T--G--AGGTT-A-C-ATAATT--CG----TTAAGCGATTGGC---T-GC--A-CGAACGC--C--AAGTC-G-TACGTT-GA-C--TAGTTC-TG-TTTTCTAGT----CGCTTGTATT-CA-AC--ATGGCTTGAAT--GA-CAAA--GAA-CACACAAG---TA----TTGTAAATTAA-TAGCG-ATTATT-TTG-A--TA-TGTGA--ATAAAATA-ATC
gi|9 : catgtcgttatcaacttactatctctgtgtTGCT-GAT-GCCGG-AA----AGG-GACGTGTCG-CGTT-----T--G--AGGTTGA-ACATAATT--CG----TTAAGCGATTGGCCTGC-AC-T----GAAGC--C--AAGTTCG-TACGTT-GA-C--TAGTTCGTT-TTTC-TAGTTCGCT---TGTAT--TC-AC--ATGGCTTGAAT--G---ACAACTGA-CACACACA---AAG-TATTGTAAATTAATTAGCG-ATTATTCTTG-T--TG-TTGAT--T-AAAATAGATC
gi|15 : catgtcgttatcaacttactatctctgatgtA-CACACCTG---TA----CCGTAAAAAAA-TAGCG-ATTCTT-TTG-------TGGAA--T-AAAATA-ATCgc
gi|16 : taactaattttgtttctggttgtttgaactcaacatggcctatatgacaaaga-TTGTAAAATAA-TAGCG-ATCATT-TTGTA--TAATGGGA--A-AAAA
4 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|8 ): TTTCATTGACAAGCACAATCAGTTCAGTAGTTGAATGACAGATATAGAGGTGATATATCATAGATATTGATAAAGTCGCGTCTAACCACACATTGTTGTATGGGGAGTTTTGTTACTAATGGTTAATGAATATAACCTATAACTCATGGGGGGGGGGGTCCGATGGAAATTTGAAAATAAAATCCAGTATGGGGAAGTCTCACTATATAGCCACCACCACCCCTCCCTGGGAGGGTGGATGGGTGGTTCTCACTATATAGACAGCCTCCCTGGGGAAAAGTCTCACTATTGGGGAGCCTCACTATATAA
Unaligned ( gi|14 ): GCTGTCTTATGTAAAGTTAGAAGTTTTAAAGACTGACAAAAGAAGATATCTGTTCATCTAATATATCAAAGCTCGCATTTAACTACGTATATTTGTTGTACTAATATTTACGGGGGGACTTTCGATGGCAATCTGAAATTAAAATCCAATCTGAGCACGTAAG
Unaligned ( gi|17 ): AGATGAGACACTGAGTATTTTTAGGCACTTTTTACTTTAAGTTTTCTGATATAT
Unaligned ( gi|18 ): ATCCATTGCTTCATTCTAATCTTTCTGGTTTGAAACCGTTGCACTTTTCTGTGA
Alignments
lowQualScore : 2 1 1 1 1 4444444444444 1 111 1 2 33333 3 1 1 11 11 2222 111 111 11 11 3333333333 222222222 444444444444444 111 1111 1 1 11111111111 2222 111 1 11 111 22222222 11 22222 2222
lowQualScore : 0 0 0 7 3 6 0 0 0 0 0 0 1 7777777777777 0 777 3 0 0 66666 2 0 3 0 0 1 1 0 11 33 8 2 8 99 6 1111 1 6 333 7 111 6 6 99 6 6 1 44 11 99 99 777 7 99 3 6 99 1111111111 6 5 666666666 111111111111111 111 22 6 4444 88 66 1 4 66 77 0 4 3 3 6 0 7777 44 99 6 11111111111 1 0000 44 7777 1 3 999999 0 3 999 1 44 3 3 3 11 1 44 222 33333333 11 3 44 33 00000 44 3 555 6666 2 2 2 2 33 2 5 2
lowQualScore : . . . . . . . . . . . . . ............. . ... . . . ..... . . . . . . . . .. .. . . . .. . .... . . ... . ... . . .. . . . .. .. .. .. ... . .. . . .. .......... . . ......... ............... ... .. . .... .. .. . . .. .. . . . . . . .... .. .. . ........... . .... .. .... . . ...... . . ... . .. . . . .. . .. ... ........ .. . .. .. ..... .. . ... .... . . . . .. . . .
lowQualScore : 7 7 7 3 7 7 7 7 0 0 0 0 0 8888888888888 0 555 2 0 0 88888 5 0 2 0 0 0 0 8 00 00 8 5 0 22 7 0000 0 7 222 5 777 7 7 22 7 7 0 00 55 22 22 333 5 22 3 7 22 7777777777 7 7 777777777 777777777777777 777 00 7 2222 22 11 0 4 11 66 1 6 3 3 7 0 1111 66 22 7 11111111111 0 4444 66 1111 0 3 666666 1 3 111 0 66 3 3 3 22 7 22 555 99999999 22 3 66 11 55555 66 1 444 4444 9 9 9 9 99 9 7 9
consensus : TTTAAAATAAGGGGGACA-TGTGCCGATAAGAGATCAAAACA-ACTCGGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGACTGCGTTGTAA-GG-AATTCTCAAA----AGTACATG-TATAT-CG---ACAGACT-CACCGCTTGACG----TATCCCCGGCCCCGTAGACAAAGGTGTCCGAT-GTTG-GCGGATTCAGAGCCTGATGTTGATCGGGCGAAGTC--TGACGTCTGC-GTCGGCCTCTGCCTAGTGCGTTAACCCCGGCCGAGGGATCCGC-CACGGTGAC--AATGGC-GTCTGGCGC---AGTTGTGCT-CAGGGGCTGATGTTGCTNTGA---CGAGGTCCGA-GTCCTGCGTTGGCC-TCGGCC--CCTTGCA-GGAGAAATCTGCT-GCTCNTCCGA-CTTTCTGTTTG--TA--CGA-TTCTCGCGCTTT--CCGGCGAATTGGTGGCATG-TTTC--G-G--------AA-GA-T---------TTGT---------------TT---TAANC-TT----CGT-ATC--TGTACTGCAG-A--TGGCGGGAAACTGCT-GAG-GC-GG-AA----A--GGAGA--TGTCG-CGCCA-AA-T--A--GGNTTA-AGATAATT--CG----TTCGGCTATTGG-C------TAC-AC-AAAAAAC--TAAGTT-GTAC-TT-AAC--TTATTCTG-GTTT---TAGT----A---TGTAT--AA-AT--ACGGGATGTTT--G--CGCA--CGA-CACCCCTG---TAA-T-TCGTAAATTAA-TAGCG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCAGCAT
Reference ( family-1288 ) : TCTAGAGTAAGGGGGACAATGTGCCGATAAGGGGTCAAAACA-ACTCGGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGACTGCGTTGTAA-GG-AATTNTCAAA----AGCA-ATG-TATAT-CG---ACAGACT-CACCGC-TGACG----TATCCCCGGCCCCG-AAACAAAGGTGTCCGAT-GTTG-GCGGNTTCAGNGCCTGATGTTGATCGGGCGAAGTC--TGACGTCTGC-GTCGGCCTCTGCCTAGTGCGTTAACCCCGGCCGAGGGATCCGC-CACGGTGAC--AATGGC-GTCTGGCGC---AGTTGTGCT-CAGGGGCTGATGTTGCTNTGA---CGAAGTCCGA-GTCCTGCGTTGGCC-TCGGCC--CCTTGCA-GGAGAAATCTGCT-GCTCNTCCGA-CTTTCCGTTTG--TA--CGA-TTCNCGCGCTTT--CCGGCGAATTGGCGGCATG-TTTC--G-G--------AA-GA-T---------TTGT---------------TT---TANNC-TT----CGT-ATC--TGTACTGCAG-A--TGGCGGGAAACTGCT-GAG-GC-GG-AA----A--GGAGA--TGTCG-CGCCA-AA-T--A--GGNTTA-AGATAATT--CG----TTCGGCTATTGG-C------TAC-A--AAAAAAC--TAAGTT-GTAC-TT-AAC--TTATTCTG-GTCT---TAGT----A---TGTAT--AA-AT--ACGGGATGTTT--G--CGCA--CGA-CACCCCTG---TAA-T-TCGTAAATTAA-TAGCG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCAGCAT
gi|1 : TTTAAAATA-GGGGGACAATGTGCCGATAAGAGATCAAAACAGACTTAGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAAACAGACTGCGTTGTAA-GG-AATTCTCAAAG---AGTACATG-TATAT-CG---AC-GACT-CACCGCTTGACG-----ATCCCCGGCCCCGTAGACAAAGG-GTCCGAT-GTTGAGCGAATTCAGAGCCTGATGTTGATTGGGCGAAGTC--TGACGTCTGCGGTCGGCCTCTGCCTAGTGCGTTAA-CCCGGTCGAGGGATCCGC-CACGGTGAC--AATGGT-GTCTGGCGC---AGTTGTGCT-CAGGGGCTGATGTTGCT-TGA---CGAGGTCCGA-GTCCTGCGTTGGCC-TCGGCC--CCTTGCA-GGAGAAATCTGCTGGCTCCTCCGA-CTTTCT-TTTGTTTA--CGA-TTCTCGCGCTTT--CCGGCGAATTGGTGGCATG-TTTTTGG-G--------AA-GA-T---------TTGT---------------TT---TAAGC-TT----CGT-ATTCGTGTATTGCAG-A--TGGC-GGAAACTGCT-GAG-GC-GG-AA----A--GGAGA--TGTCG-CGCCA-AA-T--A--GGATTAGAGATAATT--CG----TTCGGCTATTGG-C------TAC-A--TAAAAAC--TAAGTT-GCTG-TT-AAC--TTA-TCTA-ATTT---TAGT----A---TGTAT--AA-AT--ACGGGATGTTTTGG--CGCA--CGC-CACCCCTG---TGATT-TCGTAAATTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAATAAAAATA-ATCAGCAT
gi|10 : tgtTGCT-GAT-GCCGG-AA----A--AGGGAAGTGTCGGCGTT-----T--G--AGGTTA-C-ATAATT--CG----TTAAGCGATTGG-C------TGC-A--CGAACGC--CAAGTC-GTACGTT-GAC--TAGTTCTG-TTTTC--TAGT----CGCTTGTATT-CA-AC--ATGGCTTGAAT--GA-CAAA--GAA-CACACAAG---TA----TTGTAAATTAA-TAGCG-ATTATT-TTG-A--T-ATGTGAAT-AAAATA-ATC
gi|11 : catgtcgttatcaacttactatctctgtgtTC--TGTTTGGCAG-A--TGG-GGGAAATTGAT-GAGAGC-GGGAA----A--GGA-A--TGTCG-CGCCA-AA-A--A--GGCTT--AGATAAAT--CGTTTATTCAGATAATGG-C------T-C-AC-AAAAAAC--TAAGTT-GTAC-TTGAACCTTTA-TCTG-GTTT---CGAT----A----GT--------T--ATGGGATATTT--GGCCGCG--C-A-TA-CCATGTCATAA-T-CGGTAAATTAA-TAGTGAATTATT-TTG-ATTT-ATAGGAATAAAAATA-ATCAGCA
gi|12 : cC--TGTACTGCAG-A--TGGCGGGAA-CTGCT-GAG-GC-GGGAA----A--GGAGA--TGTCG-TGCCA-AAAC--A--GGATTA--TATAACT--CG----TTCGACTATTGG-C------TAC-ACAAAAAAAA--TCAGTT-GTAC-TT-AAC--TTATTCTG-ATCT---TAGT----A---TATAT--AA-AT--ACGGGATGTGT--GA-CGCA--CGA-TACCCCTG---TGA-TATCGTAAATTAA-TAGCA-ATTATT-TTG-A--T-ATGGGAAT-GGAATA-ATCAGCAT
gi|13 : --TGTACTGCAG-A--TGGC-GGAAACTGCT-GAG-GCGGG-AG----A--GGAGA--TGTCG-CGCCA-AA-C--A--GGATT--AGATAATT--TG----TTTGGCTATTGG-C------TAC-AC-AAAAAAC--TAAGTT-GTAC-TT-AAC--TTATTCTA-ATCT---TAGT----A---TGTAT--AA-AT--ACGAGATGTTTG-G--CGCA--CGA-TACCCGTG----AT-T-TCATAGATTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATC
gi|15 : ttcgtcagA-CACACCTG---TA----CCGTAAAAAAA-TAGCG-ATTCTT-TTG----T----GGAAT-AAAATA-ATC
gi|16 : taactaattttgtttctggttgtttgaactcaacatggcctatatgacaaaga-TTGTAAAATAA-TAGCG-ATCATT-TTGTA--TAATGGGAAA-AAAATA-
gi|2 : gttctgttttcagtcgccgtattcacatggcctgaaagagtaTTTAAAATAAGGGGGACA-TGT-CCGATAAGAGATCAAAACA-ACTTAGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGACTGCGTTGTAA-GG-AATTCTCAAA----AGTACATG-TATATTCG---ACAGACT-CACCGC-TGACG-----ATCCCCGGCCCCGTAGACAAAGGTGTCCGATCGTTG-GCGAATTCAGAGCCTGATGTTGATTGG-CGAAGTC--TGACGTCTGC-GTCGGCCTCTGCCTAGTGCGGTAAACCCG-TCGAGGGATCCGC-CACGGTGAC--AATGGT-GTCTGGCGC---AGTTGTGCT-CAGGGGCTGATGTTGCTGTGA---CGAGGTCCGA-GTCCTGCGTTGGCC-TCGGCC--CCTTGCA-GGAGAAATCTGCT-GCTCCTCCGA-CTTTCTTTTTG--TA--CGA-TTCTCGCGCTTT--CCGGCGAATTGGTGGCATG-TTTT--G-G--------AA-GA-T---------TTGT---------------TT---TAAGC-TT----CGT-ATC--TGTATTGCAG-A--TAGCGGAAAACTGCT-GAG-GC-GG-AA----A--GGAGA--TGTCG-CGCCA-AA-T--A--GGATTA-AGATAATT--CG----TTCGGCTATTGG-C------TACTA--AAAAAAC--TAAGTT-GTGC-TT-AAC--TTATTCTA-ATTT---TAGT----A---TGTAT--AA-AT--ACGGGATGTTT--G--CGCA--CGA-CACCCCTG---TAA-T-TCGTAAATTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAA--AAAATA-ATCAGCAT
gi|3 : TCTAGAGTAAGGGGGACA-TGTGCCAATAAGGGGTCAAAATA-ACTCGGGGTAGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGATTGCATTGTCATGA-AATTGTCAAACTGGGGCA-A------AT-CGATAACAGACA-CACCGCTTGGCGTTGTTGTCCCCGGC------AACAAAGGTGTCCAAT-GTTG-GCGGTTTCAGCGCC------TGATCGGGCGAAGTCAGTGACGTCTGT-GTCGGCC
gi|3 : aTCGGC-CACGGTGAC--AATGGC-GTCTGGCG------TTGTGCT-CAGGGGCTG---TTGCTCTGA---CAAAGACCGG-GTCCTGCATTGGCC-TCGACC--CCTTGCA-GGAGAAATCTGCT-GATAATCCG--CCTTCCGTTTG--TA--CAT-TTCATGCGCTTT--CCGGCAAATTGGTGGCATG-TTTC--GTG--------AA-GA-TAAGCTATAGTTGTCACTGGGATGTGTTTTT---TATCC-TT----CGT-CTC--TTTACTGCAG-AGATGGTGGGAA-CTGCT-GAG-GC-GG-GATTTAA--GGAGA--TGTCA-CGCCA-AA-A--AA-GGATTA--GATAACTGTCG----TTCGGATATTGG-C------TAC-AC-AAAAAAC--TAAGTT-GTAC-TT-AACC-TTACTCTG-GTCT---TAGA----A---TGTAT--AA-AT--ACGGGATGTTT--GG-CGCA--CGA-TACCCCTG---TGA-CATCGTTAATTAA-TAGTG-ATTATT-TTG-A--T-ATGAGAAT-AAAATA-ATCAGCATacggtgacaatggcgtctggcgttgtgctcaggggctgttgctctgacaaagaccgggtcctgcattggcctcgaccccttgcaggagaaatctgctgataatccgccttccgtttgtacatttcatgcgctttccggcaaattggtggcatgtttcgtgaagataagctatagttgtcactgggatgtgttttttatccttcgtctctttactgcagagatggtgggaactgctgaggcgggatttaaggagatgtcacgccaaaaaaggattagataactgtcgttcggatattggctacacaaaaaactaagttgtacttaaccttactctggtcttagaatgtataaatacgggatgtttggcgcacgatacccctgtgacatcgttaattaatagtgattattttgatatgagaataaaataatcagcat
gi|4 : atctagagtaagggggacatgtgccaataaggggtcaaaataactcggggtagtggggggtaaataatcggcaaagtcaacagattgcattgtcatgaaattgtcaaactggggcaaatcgataacagacacaccgcttggcgttgttgtccccggcaacaaaggtgtccaatgttggcggtttcagcgcctgatcgggcgaagtcagtgacgtctgtgTGCT-GAT-GCCGG-AA----AAAGGAAG--TGTCGGCGTT-----T--G--AGGTTA--GATAATT--CG----TTATGCGATTGG-C------TGC-A--CGAACTC--CAAGTC-GTACGTT-GAC--TAGTTCTG-TTTTC--TAGT----CGCTTGTATT-CA-AC--ATGGCCTGAAT--G--ACCA--AGAACACACAAG---TA----TTGTAAATTAA-TAGCG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCGGCAT
gi|5 : tagcgggatgattgcggcgatttttaaaaaataatatttttgactactatctctgtgtAACA-ACTCGGGGTTGTTGGGGGTAAATAATCTGCAATGTCAA-CAAACTGCGTTGCAA-GGGAATTTTCAAA----AG---GTGGTATTT-CG---ACAGACTATACGTT-TGACG----TATCCCCTGCCCCGGAAACAAAGGTGTCCGAT-GTTG-GCGGGTTCAGGGCCTGATGTTGATCTGGCGAAATC--TGACGTCTGC-------CTCTGCCTAGTGCTTTAACCCCGGCCGAGGGATCCGC-CACGGTGAC--AATGGC-GTCTGGCGC---AGTTGTGCT-CATGGGCTGAT-TTA--GTGA---CGAGGTCAGA-GTCCTTCGTTGGCC-TCGGCC--CCTTGCA-GAATAAATTTGTT-GCTCCTCCGA-CTTTCT-TCTG--TA--CCA-TTCTCGCGCTTT--CCGGCGAATTGGTGACATG-TTTT--GAG--------AA-GATT---------TTAT---------------TT---TAAGC-TT----GGC-CTG--TATACTGCAG-A--TGGT-GGAAACTGCT-GAG-ACGGG-AA----A--GGAGA--TGTCG-CGCCA-AA-T--A--GGATT--ATATCATT--CG----TTCGGATATTGG-C------TAC-AC-ACAAAACAATAAGTT-GAAC-TT-AAC--TTATTATA-ATCT---TAGT----A---TGTAT--AA-AT--ACGGGATGTTTA-G--CGCA--CGA-TACCCCTG---TGATT-TCGTAATTTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCAGCAtaatggtaaggaacattctttctttgctttagatattaactatagatgatatcggctaagggtacaattttccttaacaatctcatttaaaattcagttgatgaatgactgataaaagaaatgatatatcaaatatattgataaaatctcttctaaccacgtatatttgttgtagaagttttcttactaatggttagggaacataacaaggggggggaggggccgatgcatggaaatcttaaaatgaaatccagtccgaacacgtaacnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngaagcctcactatataacaccg
gi|6 : TGATGTTGATCGGGCGAAGTC--TGCC--------TCGGCCTCTGCCTGATGTGTTGACCCCGGCCGATGGATCCGCACACGTTTACGAAATGGCAGTCT-GCGTCTGAATTGTGCTCCAGGGACT----TTGCTCTGA---CGAAGACCGGTGTCCTGCGTTGTCCTTCGGCCCGCCTTGCCTGGAGAAATCTGCT-GCTCGTCCG--CCTTCCGTTTG--TA--TCATTTCACGCGCTTTCCCCGGCGAATTGGTGGC-TA-TTTC--G-T--------AA-GA-
gi|6 : A-T---------TTGT---------------TT---TTTTCCTT----CGTCGCC--TGT-CTGCAGCA--TGGCGG--AACTGCTTGAG-GC-GGGAA----A--GGAGA--TGTCG-CGCCA-AA-T--AAAGGCTTA-ATATA-CT--CG----TTTAGATATTGG-CCCCTACTAC-A--AAAAA-C--TAAGTT-GTAC-TT-AACC-TTACTCTG-GTCT---TCGA----A---TGTAT--AA-AT--ACGGGATATTT--GG-CGCG--CAA-TACCCCTG---TGA-TATCGTAAATTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCAGCAaaaaaactatagtgtccatacttgcgaatttgtttttttccttcgtcgcctgtctgcagcatggcggaactgcttgaggcgggaaaggagatgtcgcgccaaataaaggcttaatatactcgtttagatattggcccctactacaaaaaactaagttgtacttaaccttactctggtcttcgaatgtataaatacgggatatttggcgcgcaatacccctgtgatatcgtaaattaatagtgattattttgatatgggaataaaataatcagca
gi|7 : tgatgttgatcgggcgaagtctgcctcggcctctgcctgatgtgttgaccccggccgatggatccgcacacgtttacgaaatggcagtctgcgtctgaattgtgctccagggactttgctctgacgaagaccggtgtcctgcgttgtccttcggcccgccttgcctggagaaatctgctgctcgtccgccttccgtttgtatcatttcacgcgctttccccggcgaattggtggctatttcgtaagaaaaaaactatagtgtccatacttgcgaACGTTCAT--AATGGC-GTCTGATG------TTG-GAA-CAATGTATGTTGCTGCTTTGGAGGCAAAATCAGA-GTTCTATGTT---C-TATG------TTG-------AAATTCATT-GCTCATCTAATCTTTCTGTTTG--AAACCGT-TTC---CACTAT--TCTGTGAATTAGCGAGATGATTGC--G-GCGATTTTAAATAA-T---------ATGT---------------CTCTGTAATC-TTTTGACTA-ATC--TGTGTTGT------TGGTG-----C--CC-GAA-------AA----A--GGAAG--TGTCG-----ATAA-TTTA--GGTTC---GATAATT--CG----TTGTGCAATTGG-C------TGC-A--CGAACGC--CAAGTC-GTACATT-GGC--AAGTTCTGTGTTG---TAGT----TGCTTGTATTCACCATGAACTGAATG-----A--CAAA--GGG-CACACCTG---TA----TCATAAATTAA-TAGCT-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCGG
gi|9 : TGCT-GAT-GCCGG-AA----A--GG-GACGTGTCG-CGTT-----TG-A--GGTTGA-ACATAATT--CG----TTAAGCGATTGGCC------TGC-A--CTGAAGC--CAAGTTCGTACGTT-GAC--TAGTTC---GTTTTTCTAGTTCGCT---TGTAT--TC-AC--ATGGCTTGAAT--G---ACAACTGA-CACACACA---AAG-TATTGTAAATTAATTAGCG-ATTATTCTTG-T--T-GT-TGATT-AAAATAGATC
4 sequences could not be aligned to this reference sequence:
Unaligned ( gi|8 ): TTTCATTGACAAGCACAATCAGTTCAGTAGTTGAATGACAGATATAGAGGTGATATATCATAGATATTGATAAAGTCGCGTCTAACCACACATTGTTGTATGGGGAGTTTTGTTACTAATGGTTAATGAATATAACCTATAACTCATGGGGGGGGGGGTCCGATGGAAATTTGAAAATAAAATCCAGTATGGGGAAGTCTCACTATATAGCCACCACCACCCCTCCCTGGGAGGGTGGATGGGTGGTTCTCACTATATAGACAGCCTCCCTGGGGAAAAGTCTCACTATTGGGGAGCCTCACTATATAA
Unaligned ( gi|14 ): GCTGTCTTATGTAAAGTTAGAAGTTTTAAAGACTGACAAAAGAAGATATCTGTTCATCTAATATATCAAAGCTCGCATTTAACTACGTATATTTGTTGTACTAATATTTACGGGGGGACTTTCGATGGCAATCTGAAATTAAAATCCAATCTGAGCACGTAAG
Unaligned ( gi|17 ): AGATGAGACACTGAGTATTTTTAGGCACTTTTTACTTTAAGTTTTCTGATATAT
Unaligned ( gi|18 ): ATCCATTGCTTCATTCTAATCTTTCTGGTTTGAAACCGTTGCACTTTTCTGTGA
Alignments
lowQualScore : 1 1 1 1 1 3333 1 11 33333 1 1 11 111 2222 111 11111 11 1 3333333333 222222222 444444444444444 111 1111 2 11111111111 2222 1 11 111 22222222 11 11111 22222 2222
lowQualScore : 7 3 6 0 0 0 0 0 1111 0 8 33 3 3 66666 2 3 3 0 0 1 0 0 11 666 8 2 8 99 6 1111 1 6 333 7 66666 6 6 99 6 6 1 44 0 99 99 777 7 99 6 99 1111111111 6 5 666666666 111111111111111 111 1 6 4444 88 66 1 4 66 22 77 3 3 0 6 7777 44 99 6 11111111111 1 0000 44 7777 1 3 555 0 3 66 2 44 44 3 3 3 00 1 0 55 111 55555555 00 3 11111 33 11111 44 3 555 6666 2 2 2 2 33 2 5 2
lowQualScore : . . . . . . . . .... . . .. . . ..... . . . . . . . . .. ... . . . .. . .... . . ... . ..... . . .. . . . .. . .. .. ... . .. . .. .......... . . ......... ............... ... . . .... .. .. . . .. .. .. . . . . .... .. .. . ........... . .... .. .... . . ... . . .. . .. .. . . . .. . . .. ... ........ .. . ..... .. ..... .. . ... .... . . . . .. . . .
lowQualScore : 3 3 7 0 0 0 0 2 2222 0 8 22 2 2 88888 5 0 2 0 0 2 8 8 00 222 8 5 0 22 7 0000 0 7 222 5 77777 7 7 22 7 7 0 00 8 22 22 333 8 22 7 22 7777777777 7 7 777777777 777777777777777 777 0 7 2222 22 11 0 4 11 00 44 3 3 0 7 1111 66 22 7 11111111111 0 4444 66 1111 0 3 888 1 3 22 4 66 66 3 3 1 44 0 8 00 555 22222222 44 1 99999 55 22222 22 1 444 4444 9 9 9 9 99 9 7 9
consensus : TTTAAAATAAGGGGGACA-TGTGCCGATAAGAGATCAAAACA-ACTCGGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGACTGCGTTGTAA-GG-AATTCTCAAA----AG-TACATGTATAT-CGACAGACTCACCGCTTGACG----TATCCCCGGCCCCGTAGACAAAGGTGTCCGAT-GTTG-GCGGATTCAGAGCCTGATGTTGATCGGGCGAAGTC--TGACGTCTGC-GTCGGCCTCTGCCTAGTGCGTTAACCCCGGCCGAGGGATCCGC-CACGGTGAC--AATGGC-GTCTGGCGC---AGTTGTGCT-CAGGGGCTGATGTTGCTNTGACGAGG-----TCCGA-GTCCTGCGTTGGCC-TCGGCC--CCTTGCA-GGAGAAATCTGCT-GCTCNTCCGA-CTTTCTGTTTG--TA--CGA-TTCTCGCGCTTT--CCGGCGAATTGGTGGCATG-TTTC--G-G--------AA-GA-T---------TTGT---------------TT---TAANC-TT----CGT-ATC--TGTACTGCAG-A--TGGCGGGAAACTGCT-GAG-GC-GG-AA----A--GGAGA--TGTCG-CGCC-A-AAT--A--GGNTTA-AGATAATT--CG----TTCGGCTATTGG-C---TAC-AC-GAAAAAC--T--AAGTT-GTAC-TT-AAC--TTATTCTG-GTTT---TAGT----A---TGTAT--AA-AT-----ACGGGATGTTT--G--CGCA--CGA-CACCCCTG---TAA-T-TCGTAAATTAA-TAGCG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCAGCAT
Reference ( family-1288 ) : TTTAAAATAAGGGGGACA-TGTGCCGATAAGAGATCAAAACA-ACTCGGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGACTGCGTTGTAA-GG-AATTCTCAAA----AG-TACATGTATAT-CGACAGACTCACCGCTTGACG----TATCCCCGGCCCCGTAGACAAAGGTGTCCGAT-GTTG-GCGGATTCAGAGCCTGATGTTGATCGGGCGAAGTC--TGACGTCTGC-GTCGGCCTCTGCCTAGTGCGTTAACCCCGGCCGAGGGATCCGC-CACGGTGAC--AATGGC-GTCTGGCGC---AGTTGTGCT-CAGGGGCTGATGTTGCTNTGACGAGG-----TCCGA-GTCCTGCGTTGGCC-TCGGCC--CCTTGCA-GGAGAAATCTGCT-GCTCNTCCGA-CTTTCTGTTTG--TA--CGA-TTCTCGCGCTTT--CCGGCGAATTGGTGGCATG-TTTC--G-G--------AA-GA-T---------TTGT---------------TT---TAANC-TT----CGT-ATC--TGTACTGCAG-A--TGGCGGGAAACTGCT-GAG-GC-GG-AA----A--GGAGA--TGTCG-CGCC-A-AAT--A--GGNTTA-AGATAATT--CG----TTCGGCTATTGG-C---TAC-AC-AAAAAAC--T--AAGTT-GTAC-TT-AAC--TTATTCTG-GTTT---TAGT----A---TGTAT--AA-AT-----ACGGGATGTTT--G--CGCA--CGA-CACCCCTG---TAA-T-TCGTAAATTAA-TAGCG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCAGCAT
gi|1 : TTTAAAATA-GGGGGACAATGTGCCGATAAGAGATCAAAACAGACTTAGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAAACAGACTGCGTTGTAA-GG-AATTCTCAAAG---AG-TACATGTATAT-CGAC-GACTCACCGCTTGACG-----ATCCCCGGCCCCGTAGACAAAGG-GTCCGAT-GTTGAGCGAATTCAGAGCCTGATGTTGATTGGGCGAAGTC--TGACGTCTGCGGTCGGCCTCTGCCTAGTGCGTTAA-CCCGGTCGAGGGATCCGC-CACGGTGAC--AATGGT-GTCTGGCGC---AGTTGTGCT-CAGGGGCTGATGTTGCT-TGACGAGG-----TCCGA-GTCCTGCGTTGGCC-TCGGCC--CCTTGCA-GGAGAAATCTGCTGGCTCCTCCGA-CTTTCT-TTTGTTTA--CGA-TTCTCGCGCTTT--CCGGCGAATTGGTGGCATG-TTTTTGG-G--------AA-GA-T---------TTGT---------------TT---TAAGC-TT----CGT-ATTCGTGTATTGCAG-A--TGGC-GGAAACTGCT-GAG-GC-GG-AA----A--GGAGA--TGTCG-CGCC-A-AAT--A--GGATTAGAGATAATT--CG----TTCGGCTATTGG-C---TAC-AT--AAAAAC--T--AAGTT-GCTG-TT-AAC--TTA-TCTA-ATTT---TAGT----A---TGTAT--AA-AT-----ACGGGATGTTTTGG--CGCA--CGC-CACCCCTG---TGATT-TCGTAAATTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAATAAAAATA-ATCAGCAT
gi|10 : tgtTGCT-GAT-GCCGG-AA----A--AGGGAAGTGTCGGCGTT-----T--G--AGGTTA-C-ATAATT--CG----TTAAGCGATTGG-C---TGC-AC-GAACG-C--C--AAGTC-GTACGTT-GAC--TAGTTCTG-TTTTC--TAGT----CGCTTGTATT-CA-AC-----ATGGCTTGAAT--GA-CAAA--GAA-CACACAAG---TA----TTGTAAATTAA-TAGCG-ATTATT-TTG-A--T-ATGTGAAT-AAAATA-ATC
gi|11 : catgtcgttatcaacttactatctctgtgtTC--TGTTTGGCAG-A--TGG-GGGAAATTGAT-GAGAGC-GGGAA----A--GGA-A--TGTCG-CGCC-A-AAA--A--GGCTT--AGATAAAT--CGTTTATTCAGATAATGG-C---T-C-AC-AAAAAAC--T--AAGTT-GTAC-TTGAACCTTTA-TCTG-GTTT---CGAT----A----GT--------T-----ATGGGATATTT--GGCCGCG--C-A-TA-CCATGTCATAA-T-CGGTAAATTAA-TAGTGAATTATT-TTG-ATTT-ATAGGAATAAAAATA-ATCAGCA
gi|12 : cC--TGTACTGCAG-A--TGGCGGG-AACTGCT-GAG-GCGGG-AA----A--GGAGA--TGTCG-TGCCAA-AAC--A--GGATT--ATATAACT--CG----TTCGACTATTGG-C---TAC-ACAAAAAAAA--T--CAGTT-GTAC-TT-AAC--TTATTCTG-ATCT---TAGT----A---TATAT--AA-AT-----ACGGGATGTGT--GA-CGCA--CGA-TACCCCTG---TGA-TATCGTAAATTAA-TAGCA-ATTATT-TTG-A--T-ATGGGAAT-GGAATA-ATCAGCAT
gi|13 : --TGTACTGCAG-A--TGGCGG-AAACTGCT-GAG-GCGGG-AG----A--GGAGA--TGTCG-CGCC-A-AAC--A--GGATT--AGATAATT--TG----TTTGGCTATTGG-C---TAC-AC-AAAAAAC--T--AAGTT-GTAC-TT-AAC--TTATTCTA-ATCT---TAGT----A---TGTAT--AA-AT-----ACGAGATGTTTG-G--CGCA--CGA-TACCCGTG----AT-T-TCATAGATTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATC
gi|15 : ttcgtcagT-AAC--TAATTTTG-TTTC---TGGT--------TGTTT--GA-ACTCAACATGGCCTATAT--GA-CAAA--GAA-CACACCTG---TA----CCGTAAAAAAA-TAGCG-ATTCTT-TTG----T----GGAAT-AAAATA-ATC
gi|16 : -TTGTAAAATAA-TAGCG-ATCATT-TTGTA--TAATGGGAAA-AAAATA-
gi|2 : gttctgttttcagtcgccgtattcacatggcctgaaagagtaTTTAAAATAAGGGGGACA-TGT-CCGATAAGAGATCAAAACA-ACTTAGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGACTGCGTTGTAA-GG-AATTCTCAAA----AG-TACATGTATATTCGACAGACTCACCGCT-GACG-----ATCCCCGGCCCCGTAGACAAAGGTGTCCGATCGTTG-GCGAATTCAGAGCCTGATGTTGATTGG-CGAAGTC--TGACGTCTGC-GTCGGCCTCTGCCTAGTGCGGTAAACCCG-TCGAGGGATCCGC-CACGGTGAC--AATGGT-GTCTGGCGC---AGTTGTGCT-CAGGGGCTGATGTTGCTGTGACGAGG-----TCCGA-GTCCTGCGTTGGCC-TCGGCC--CCTTGCA-GGAGAAATCTGCT-GCTCCTCCGA-CTTTCTTTTTG--TA--CGA-TTCTCGCGCTTT--CCGGCGAATTGGTGGCATG-TTTT--G-G--------AA-GA-T---------TTGT---------------TT---TAAGC-TT----CGT-ATC--TGTATTGCAG-A--TAGCGGAAAACTGCT-GAG-GC-GG-AA----A--GGAGA--TGTCG-CGCC-A-AAT--A--GGATTA-AGATAATT--CG----TTCGGCTATTGG-C---TAC-TA-AAAAAAC--T--AAGTT-GTGC-TT-AAC--TTATTCTA-ATTT---TAGT----A---TGTAT--AA-AT-----ACGGGATGTTT--G--CGCA--CGA-CACCCCTG---TAA-T-TCGTAAATTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAA--AAAATA-ATCAGCAT
gi|3 : TCTAGAGTAAGGGGGACA-TGTGCCAATAAGGGGTCAAAATA-ACTCGGGGTAGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGATTGCATTGTCATGA-AATTGTCAAACTGGGG-CAAATCGATA----ACAGACACACCGCTTGGCGTTGTTGTCCCCGGC------AACAAAGGTGTCCAAT-GTTG-GCGGTTTCAGCGCC------TGATCGGGCGAAGTCAGTGACGTCTGT-GTCGGCC
gi|3 : aTCGGC-CACGGTGAC--AATGGC-GTCTGGCG------TTGTGCT-CAGGGGCTG---TTGCTCTGACAAAG-----ACCGG-GTCCTGCATTGGCC-TCGACC--CCTTGCA-GGAGAAATCTGCT-GATAATCCG--CCTTCCGTTTG--TA--CAT-TTCATGCGCTTT--CCGGCAAATTGGTGGCATG-TTTC--GTG--------AA-GA-TAAGCTATAGTTGTCACTGGGATGTGTTTTT---TATCC-TT----CGT-CTC--TTTACTGCAG-AGATGGTGGGAA-CTGCT-GAG-GC-GG-GATTTAA--GGAGA--TGTCA-CGCC-A-AAA--AA-GGATTA--GATAACTGTCG----TTCGGATATTGG-C---TAC-AC-AAAAAAC--T--AAGTT-GTAC-TT-AACC-TTACTCTG-GTCT---TAGA----A---TGTAT--AA-AT-----ACGGGATGTTT--GG-CGCA--CGA-TACCCCTG---TGA-CATCGTTAATTAA-TAGTG-ATTATT-TTG-A--T-ATGAGAAT-AAAATA-ATCAGCATacggtgacaatggcgtctggcgttgtgctcaggggctgttgctctgacaaagaccgggtcctgcattggcctcgaccccttgcaggagaaatctgctgataatccgccttccgtttgtacatttcatgcgctttccggcaaattggtggcatgtttcgtgaagataagctatagttgtcactgggatgtgttttttatccttcgtctctttactgcagagatggtgggaactgctgaggcgggatttaaggagatgtcacgccaaaaaaggattagataactgtcgttcggatattggctacacaaaaaactaagttgtacttaaccttactctggtcttagaatgtataaatacgggatgtttggcgcacgatacccctgtgacatcgttaattaatagtgattattttgatatgagaataaaataatcagcat
gi|4 : atctagagtaagggggacatgtgccaataaggggtcaaaataactcggggtagtggggggtaaataatcggcaaagtcaacagattgcattgtcatgaaattgtcaaactggggcaaatcgataacagacacaccgcttggcgttgttgtccccggcaacaaaggtgtccaatgttggcggtttcagcgcctgatcgggcgaagtcagtgacgtctgtgTGCT-GAT-GCCGG-AA----AAAGGAAG--TGTCGGCGTT-----T--G--AGGTTA--GATAATT--CG----TTATGCGATTGG-C---TGC-AC-GAA---C--TCCAAGTC-GTACGTT-GAC--TAGTTCTG-TTTTC--TAGT----CGCTTGTATT-CA-AC-----ATGGCCTGAAT--G--ACCA--AGAACACACAAG---TA----TTGTAAATTAA-TAGCG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCGGCAT
gi|5 : tagcgggatgattgcggcgatttttaaaaaataatatttttgactactatctctgtgtAACA-ACTCGGGGTTGTTGGGGGTAAATAATCTGCAATGTCAA-CAAACTGCGTTGCAA-GGGAATTTTCAAA----AGGTG---GTATTT-CGACAGACTATACGTTTGACG----TATCCCCTGCCCCGGAAACAAAGGTGTCCGAT-GTTG-GCGGGTTCAGGGCCTGATGTTGATCTGGCGAAATC--TGACGTCT-------GCCTCTGCCTAGTGCTTTAACCCCGGCCGAGGGATCCGC-CACGGTGAC--AATGGC-GTCTGGCGC---AGTTGTGCT-CATGGGCTGAT-TTA--GTGACGAGG-----TCAGA-GTCCTTCGTTGGCC-TCGGCC--CCTTGCA-GAATAAATTTGTT-GCTCCTCCGA-CTTTCT-TCTG--TA--CCA-TTCTCGCGCTTT--CCGGCGAATTGGTGACATG-TTTT--GAG--------AA-GATT---------TTAT---------------TT---TAAGC-TT----GGC-CTG--TATACTGCAG-A--TGGT-GGAAACTGCT-GAG-ACGGG-AA----A--GGAGA--TGTCG-CGCC-A-AAT--A--GGATT--ATATCATT--CG----TTCGGATATTGG-C---TAC-AC-ACAAAACAAT--AAGTT-GAAC-TT-AAC--TTATTATA-ATCT---TAGT----A---TGTAT--AA-AT-----ACGGGATGTTTA-G--CGCA--CGA-TACCCCTG---TGATT-TCGTAATTTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCAGCAtaatggtaaggaacattctttctttgctttagatattaactatagatgatatcggctaagggtacaattttccttaacaatctcatttaaaattcagttgatgaatgactgataaaagaaatgatatatcaaatatattgataaaatctcttctaaccacgtatatttgttgtagaagttttcttactaatggttagggaacataacaaggggggggaggggccgatgcatggaaatcttaaaatgaaatccagtccgaacacgtaacnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngaagcctcactatataacaccg
gi|6 : TGATGTTGATCGGGCGAAGTC--TGCC--------TCGGCCTCTGCCTGATGTGTTGACCCCGGCCGATGGATCCGCACACGTTTACGAAATGGCAGTCT-GCGTCTGAATTGTGCTCCAGGGACT----TTGCTCTGACGAAG-----ACCGGTGTCCTGCGTTGTCCTTCGGCCCGCCTTGCCTGGAGAAATCTGCT-GCTCGTCCG--CCTTCCGTTTG--TA--TCATTTCACGCGCTTTCCCCGGCGAATTGGTGGC-TA-TTTC--G-T--------AA-GA-
gi|6 : A-T---------TTGT---------------TT---TTTTCCTT----CGTCGCC--TGT-CTGCAGCA--TGGCGG--AACTGCTTGAG-GC-GGGAA----A--GGAGA--TGTCG-CGCC-A-AAT--AAAGGCTTA-ATATA-CT--CG----TTTAGATATTGG-CCCCTACTAC-AAAAAAC--T--AAGTT-GTAC-TT-AACC-TTACTCTG-GTCT---TCGA----A---TGTAT--AA-AT-----ACGGGATATTT--GG-CGCG--CAA-TACCCCTG---TGA-TATCGTAAATTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCAGCAaaaaaactatagtgtccatacttgcgaatttgtttttttccttcgtcgcctgtctgcagcatggcggaactgcttgaggcgggaaaggagatgtcgcgccaaataaaggcttaatatactcgtttagatattggcccctactacaaaaaactaagttgtacttaaccttactctggtcttcgaatgtataaatacgggatatttggcgcgcaatacccctgtgatatcgtaaattaatagtgattattttgatatgggaataaaataatcagca
gi|7 : tgatgttgatcgggcgaagtctgcctcggcctctgcctgatgtgttgaccccggccgatggatccgcacacgtttacgaaatggcagtctgcgtctgaattgtgctccagggactttgctctgacgaagaccggtgtcctgcgttgtccttcggcccgccttgcctggagaaatctgctgctcgtccgccttccgtttgtatcatttcacgcgctttccccggcgaattggtggctatttcgtaagaaaaaaactatagtgtccatacttgcgaACGTTCAT--AATGGC-GTCTGATG------TTG-GAA-CAATGTATGTTGCTGCTTTG--GAGGCAAAATCAGA-GTTCTATGTT---C-TATG------TTG-------AAATTCATT-GCTCATCTAATCTTTCTGTTTG--AAACCGT-TTC---CACTAT--TCTGTGAATTAGCGAGATGATTGC--G-GCGATTTTAAATAA-T---------ATGT---------------CTCTGTAATC-TTTTGACTA-ATC--TGTGTTGT------TGGTG-----C--CC-GAA-------AA----A--GGAAG--TGTCG------ATAATTTA--GGTTC---GATAATT--CG----TTGTGCAATTGG-C---TGC-AC-GAACG-C--C--AAGTC-GTACATT-GGC--AAGTTCTGTGTTG---TAGT----TGCTTGTATTCACCATGA---ACTGAATG-----A--CAAA--GGG-CACACCTG---TA----TCATAAATTAA-TAGCT-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCGG
gi|9 : TGCT-GAT-GCCGG-AA----A--GG-GACGTGTCG-CGTT-----TG-A--GGTTGA-ACATAATT--CG----TTAAGCGATTGGCC---TGC-AC--TGAAGC--C--AAGTTCGTACGTT-GAC--TAGTTC---GTTTTTCTAGTTCGCT---TGTAT--TC-AC-----ATGGCTTGAAT--G---ACAACTGA-CACACACA---AAG-TATTGTAAATTAATTAGCG-ATTATTCTTG-T--T-GT-TGATT-AAAATAGATC
4 sequences could not be aligned to this reference sequence:
Unaligned ( gi|8 ): TTTCATTGACAAGCACAATCAGTTCAGTAGTTGAATGACAGATATAGAGGTGATATATCATAGATATTGATAAAGTCGCGTCTAACCACACATTGTTGTATGGGGAGTTTTGTTACTAATGGTTAATGAATATAACCTATAACTCATGGGGGGGGGGGTCCGATGGAAATTTGAAAATAAAATCCAGTATGGGGAAGTCTCACTATATAGCCACCACCACCCCTCCCTGGGAGGGTGGATGGGTGGTTCTCACTATATAGACAGCCTCCCTGGGGAAAAGTCTCACTATTGGGGAGCCTCACTATATAA
Unaligned ( gi|14 ): GCTGTCTTATGTAAAGTTAGAAGTTTTAAAGACTGACAAAAGAAGATATCTGTTCATCTAATATATCAAAGCTCGCATTTAACTACGTATATTTGTTGTACTAATATTTACGGGGGGACTTTCGATGGCAATCTGAAATTAAAATCCAATCTGAGCACGTAAG
Unaligned ( gi|17 ): AGATGAGACACTGAGTATTTTTAGGCACTTTTTACTTTAAGTTTTCTGATATAT
Unaligned ( gi|18 ): ATCCATTGCTTCATTCTAATCTTTCTGGTTTGAAACCGTTGCACTTTTCTGTGA
Alignments
lowQualScore : 1 1 1 1 1 3333 1 11 33333 1 1 11 111 2222 111 11111 11 1 3333333333 222222222 444444444444444 111 1111 2 11111111111 2222 11 1 11 111 22222222 11 11111 22222 2222
lowQualScore : 7 3 6 0 0 0 0 0 1111 0 8 33 3 3 66666 2 3 3 0 0 1 0 0 11 666 8 2 8 99 6 1111 1 6 333 7 66666 6 6 99 6 6 1 44 0 99 99 777 7 99 6 99 1111111111 6 5 666666666 111111111111111 111 1 6 4444 88 66 1 4 66 22 77 3 3 0 6 7777 44 99 6 11111111111 1 0000 44 7777 1 3 555 0 3 00 2 44 44 3 3 3 00 1 0 55 111 55555555 00 3 11111 33 11111 44 3 555 6666 2 2 2 2 33 2 5 2
lowQualScore : . . . . . . . . .... . . .. . . ..... . . . . . . . . .. ... . . . .. . .... . . ... . ..... . . .. . . . .. . .. .. ... . .. . .. .......... . . ......... ............... ... . . .... .. .. . . .. .. .. . . . . .... .. .. . ........... . .... .. .... . . ... . . .. . .. .. . . . .. . . .. ... ........ .. . ..... .. ..... .. . ... .... . . . . .. . . .
lowQualScore : 3 3 7 0 0 0 0 2 2222 0 8 22 2 2 88888 5 0 2 0 0 2 8 8 00 222 8 5 0 22 7 0000 0 7 222 5 77777 7 7 22 7 7 0 00 8 22 22 333 8 22 7 22 7777777777 7 7 777777777 777777777777777 777 0 7 2222 22 11 0 4 11 00 44 3 3 0 7 1111 66 22 7 11111111111 0 4444 66 1111 0 3 888 1 3 22 4 66 66 3 3 1 44 0 8 00 555 22222222 44 1 99999 55 22222 22 1 444 4444 9 9 9 9 99 9 7 9
consensus : TTTAAAATAAGGGGGACA-TGTGCCGATAAGAGATCAAAACA-ACTCGGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGACTGCGTTGTAA-GG-AATTCTCAAA----AG-TACATGTATAT-CGACAGACTCACCGCTTGACG----TATCCCCGGCCCCGTAGACAAAGGTGTCCGAT-GTTG-GCGGATTCAGAGCCTGATGTTGATCGGGCGAAGTC--TGACGTCTGC-GTCGGCCTCTGCCTAGTGCGTTAACCCCGGCCGAGGGATCCGC-CACGGTGAC--AATGGC-GTCTGGCGC---AGTTGTGCT-CAGGGGCTGATGTTGCTNTGACGAGG-----TCCGA-GTCCTGCGTTGGCC-TCGGCC--CCTTGCA-GGAGAAATCTGCT-GCTCNTCCGA-CTTTCTGTTTG--TA--CGA-TTCTCGCGCTTT--CCGGCGAATTGGTGGCATG-TTTC--G-G--------AA-GA-T---------TTGT---------------TT---TAANC-TT----CGT-ATC--TGTACTGCAG-A--TGGCGGGAAACTGCT-GAG-GC-GG-AA----A--GGAGA--TGTCG-CGCC-A-AAT--A--GGNTTA-AGATAATT--CG----TTCGGCTATTGG-C---TAC-AC-GAAAAAC--T--AAGTT-GTAC-TT-AAC--TTATTCTG-GTTT---TAGT----A---TGTAT--AA-AT-----ACGGGATGTTT--G--CGCA--CGA-CACCCCTG---TAA-T-TCGTAAATTAA-TAGCG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCAGCAT
Reference ( family-1288 ) : TTTAAAATAAGGGGGACA-TGTGCCGATAAGAGATCAAAACA-ACTCGGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGACTGCGTTGTAA-GG-AATTCTCAAA----AG-TACATGTATAT-CGACAGACTCACCGCTTGACG----TATCCCCGGCCCCGTAGACAAAGGTGTCCGAT-GTTG-GCGGATTCAGAGCCTGATGTTGATCGGGCGAAGTC--TGACGTCTGC-GTCGGCCTCTGCCTAGTGCGTTAACCCCGGCCGAGGGATCCGC-CACGGTGAC--AATGGC-GTCTGGCGC---AGTTGTGCT-CAGGGGCTGATGTTGCTNTGACGAGG-----TCCGA-GTCCTGCGTTGGCC-TCGGCC--CCTTGCA-GGAGAAATCTGCT-GCTCNTCCGA-CTTTCTGTTTG--TA--CGA-TTCTCGCGCTTT--CCGGCGAATTGGTGGCATG-TTTC--G-G--------AA-GA-T---------TTGT---------------TT---TAANC-TT----CGT-ATC--TGTACTGCAG-A--TGGCGGGAAACTGCT-GAG-GC-GG-AA----A--GGAGA--TGTCG-CGCC-A-AAT--A--GGNTTA-AGATAATT--CG----TTCGGCTATTGG-C---TAC-AC-GAAAAAC--T--AAGTT-GTAC-TT-AAC--TTATTCTG-GTTT---TAGT----A---TGTAT--AA-AT-----ACGGGATGTTT--G--CGCA--CGA-CACCCCTG---TAA-T-TCGTAAATTAA-TAGCG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCAGCAT
gi|1 : TTTAAAATA-GGGGGACAATGTGCCGATAAGAGATCAAAACAGACTTAGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAAACAGACTGCGTTGTAA-GG-AATTCTCAAAG---AG-TACATGTATAT-CGAC-GACTCACCGCTTGACG-----ATCCCCGGCCCCGTAGACAAAGG-GTCCGAT-GTTGAGCGAATTCAGAGCCTGATGTTGATTGGGCGAAGTC--TGACGTCTGCGGTCGGCCTCTGCCTAGTGCGTTAA-CCCGGTCGAGGGATCCGC-CACGGTGAC--AATGGT-GTCTGGCGC---AGTTGTGCT-CAGGGGCTGATGTTGCT-TGACGAGG-----TCCGA-GTCCTGCGTTGGCC-TCGGCC--CCTTGCA-GGAGAAATCTGCTGGCTCCTCCGA-CTTTCT-TTTGTTTA--CGA-TTCTCGCGCTTT--CCGGCGAATTGGTGGCATG-TTTTTGG-G--------AA-GA-T---------TTGT---------------TT---TAAGC-TT----CGT-ATTCGTGTATTGCAG-A--TGGC-GGAAACTGCT-GAG-GC-GG-AA----A--GGAGA--TGTCG-CGCC-A-AAT--A--GGATTAGAGATAATT--CG----TTCGGCTATTGG-C---TAC-AT--AAAAAC--T--AAGTT-GCTG-TT-AAC--TTA-TCTA-ATTT---TAGT----A---TGTAT--AA-AT-----ACGGGATGTTTTGG--CGCA--CGC-CACCCCTG---TGATT-TCGTAAATTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAATAAAAATA-ATCAGCAT
gi|10 : tgtTGCT-GAT-GCCGG-AA----A--AGGGAAGTGTCGGCGTT-----T--G--AGGTTA-C-ATAATT--CG----TTAAGCGATTGG-C---TGC-AC-GAACG-C--C--AAGTC-GTACGTT-GAC--TAGTTCTG-TTTTC--TAGT----CGCTTGTATT-CA-AC-----ATGGCTTGAAT--GA-CAAA--GAA-CACACAAG---TA----TTGTAAATTAA-TAGCG-ATTATT-TTG-A--T-ATGTGAAT-AAAATA-ATC
gi|11 : catgtcgttatcaacttactatctctgtgtTC--TGTTTGGCAG-A--TGG-GGGAAATTGAT-GAGAGC-GGGAA----A--GGA-A--TGTCG-CGCC-A-AAA--A--GGCTT--AGATAAAT--CGTTTATTCAGATAATGG-C---T-C-AC-AAAAAAC--T--AAGTT-GTAC-TTGAACCTTTA-TCTG-GTTT---CGAT----A----GT--------T-----ATGGGATATTT--GGCCGCG--C-A-TA-CCATGTCATAA-T-CGGTAAATTAA-TAGTGAATTATT-TTG-ATTT-ATAGGAATAAAAATA-ATCAGCA
gi|12 : cC--TGTACTGCAG-A--TGGCGGG-AACTGCT-GAG-GCGGG-AA----A--GGAGA--TGTCG-TGCCAA-AAC--A--GGATT--ATATAACT--CG----TTCGACTATTGG-C---TAC-ACAAAAAAAA--T--CAGTT-GTAC-TT-AAC--TTATTCTG-ATCT---TAGT----A---TATAT--AA-AT-----ACGGGATGTGT--GA-CGCA--CGA-TACCCCTG---TGA-TATCGTAAATTAA-TAGCA-ATTATT-TTG-A--T-ATGGGAAT-GGAATA-ATCAGCAT
gi|13 : --TGTACTGCAG-A--TGGCGG-AAACTGCT-GAG-GCGGG-AG----A--GGAGA--TGTCG-CGCC-A-AAC--A--GGATT--AGATAATT--TG----TTTGGCTATTGG-C---TAC-AC-AAAAAAC--T--AAGTT-GTAC-TT-AAC--TTATTCTA-ATCT---TAGT----A---TGTAT--AA-AT-----ACGAGATGTTTG-G--CGCA--CGA-TACCCGTG----AT-T-TCATAGATTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATC
gi|15 : ttcgtcagT-AAC--TAATTTTG-TTTC---TGGT--------TGTTT--GA-ACTCAACATGGCCTATAT--GA-CAAA--GAA-CACACCTG---TA----CCGTAAAAAAA-TAGCG-ATTCTT-TTG----T----GGAAT-AAAATA-ATC
gi|16 : -TTGTAAAATAA-TAGCG-ATCATT-TTGTA--TAATGGGAAA-AAAATA-
gi|2 : gttctgttttcagtcgccgtattcacatggcctgaaagagtaTTTAAAATAAGGGGGACA-TGT-CCGATAAGAGATCAAAACA-ACTTAGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGACTGCGTTGTAA-GG-AATTCTCAAA----AG-TACATGTATATTCGACAGACTCACCGCT-GACG-----ATCCCCGGCCCCGTAGACAAAGGTGTCCGATCGTTG-GCGAATTCAGAGCCTGATGTTGATTGG-CGAAGTC--TGACGTCTGC-GTCGGCCTCTGCCTAGTGCGGTAAACCCG-TCGAGGGATCCGC-CACGGTGAC--AATGGT-GTCTGGCGC---AGTTGTGCT-CAGGGGCTGATGTTGCTGTGACGAGG-----TCCGA-GTCCTGCGTTGGCC-TCGGCC--CCTTGCA-GGAGAAATCTGCT-GCTCCTCCGA-CTTTCTTTTTG--TA--CGA-TTCTCGCGCTTT--CCGGCGAATTGGTGGCATG-TTTT--G-G--------AA-GA-T---------TTGT---------------TT---TAAGC-TT----CGT-ATC--TGTATTGCAG-A--TAGCGGAAAACTGCT-GAG-GC-GG-AA----A--GGAGA--TGTCG-CGCC-A-AAT--A--GGATTA-AGATAATT--CG----TTCGGCTATTGG-C---TAC-TA-AAAAAAC--T--AAGTT-GTGC-TT-AAC--TTATTCTA-ATTT---TAGT----A---TGTAT--AA-AT-----ACGGGATGTTT--G--CGCA--CGA-CACCCCTG---TAA-T-TCGTAAATTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAA--AAAATA-ATCAGCAT
gi|3 : TCTAGAGTAAGGGGGACA-TGTGCCAATAAGGGGTCAAAATA-ACTCGGGGTAGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGATTGCATTGTCATGA-AATTGTCAAACTGGGG-CAAATCGATA----ACAGACACACCGCTTGGCGTTGTTGTCCCCGGC------AACAAAGGTGTCCAAT-GTTG-GCGGTTTCAGCGCC------TGATCGGGCGAAGTCAGTGACGTCTGT-GTCGGCC
gi|3 : aTCGGC-CACGGTGAC--AATGGC-GTCTGGCG------TTGTGCT-CAGGGGCTG---TTGCTCTGACAAAG-----ACCGG-GTCCTGCATTGGCC-TCGACC--CCTTGCA-GGAGAAATCTGCT-GATAATCCG--CCTTCCGTTTG--TA--CAT-TTCATGCGCTTT--CCGGCAAATTGGTGGCATG-TTTC--GTG--------AA-GA-TAAGCTATAGTTGTCACTGGGATGTGTTTTT---TATCC-TT----CGT-CTC--TTTACTGCAG-AGATGGTGGGAA-CTGCT-GAG-GC-GG-GATTTAA--GGAGA--TGTCA-CGCC-A-AAA--AA-GGATTA--GATAACTGTCG----TTCGGATATTGG-C---TAC-AC-AAAAAAC--T--AAGTT-GTAC-TT-AACC-TTACTCTG-GTCT---TAGA----A---TGTAT--AA-AT-----ACGGGATGTTT--GG-CGCA--CGA-TACCCCTG---TGA-CATCGTTAATTAA-TAGTG-ATTATT-TTG-A--T-ATGAGAAT-AAAATA-ATCAGCATacggtgacaatggcgtctggcgttgtgctcaggggctgttgctctgacaaagaccgggtcctgcattggcctcgaccccttgcaggagaaatctgctgataatccgccttccgtttgtacatttcatgcgctttccggcaaattggtggcatgtttcgtgaagataagctatagttgtcactgggatgtgttttttatccttcgtctctttactgcagagatggtgggaactgctgaggcgggatttaaggagatgtcacgccaaaaaaggattagataactgtcgttcggatattggctacacaaaaaactaagttgtacttaaccttactctggtcttagaatgtataaatacgggatgtttggcgcacgatacccctgtgacatcgttaattaatagtgattattttgatatgagaataaaataatcagcat
gi|4 : atctagagtaagggggacatgtgccaataaggggtcaaaataactcggggtagtggggggtaaataatcggcaaagtcaacagattgcattgtcatgaaattgtcaaactggggcaaatcgataacagacacaccgcttggcgttgttgtccccggcaacaaaggtgtccaatgttggcggtttcagcgcctgatcgggcgaagtcagtgacgtctgtgTGCT-GAT-GCCGG-AA----AAAGGAAG--TGTCGGCGTT-----T--G--AGGTTA--GATAATT--CG----TTATGCGATTGG-C---TGC-AC-GAA---C--TCCAAGTC-GTACGTT-GAC--TAGTTCTG-TTTTC--TAGT----CGCTTGTATT-CA-AC-----ATGGCCTGAAT--G--ACCA--AGAACACACAAG---TA----TTGTAAATTAA-TAGCG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCGGCAT
gi|5 : tagcgggatgattgcggcgatttttaaaaaataatatttttgactactatctctgtgtAACA-ACTCGGGGTTGTTGGGGGTAAATAATCTGCAATGTCAA-CAAACTGCGTTGCAA-GGGAATTTTCAAA----AGGTG---GTATTT-CGACAGACTATACGTTTGACG----TATCCCCTGCCCCGGAAACAAAGGTGTCCGAT-GTTG-GCGGGTTCAGGGCCTGATGTTGATCTGGCGAAATC--TGACGTCT-------GCCTCTGCCTAGTGCTTTAACCCCGGCCGAGGGATCCGC-CACGGTGAC--AATGGC-GTCTGGCGC---AGTTGTGCT-CATGGGCTGAT-TTA--GTGACGAGG-----TCAGA-GTCCTTCGTTGGCC-TCGGCC--CCTTGCA-GAATAAATTTGTT-GCTCCTCCGA-CTTTCT-TCTG--TA--CCA-TTCTCGCGCTTT--CCGGCGAATTGGTGACATG-TTTT--GAG--------AA-GATT---------TTAT---------------TT---TAAGC-TT----GGC-CTG--TATACTGCAG-A--TGGT-GGAAACTGCT-GAG-ACGGG-AA----A--GGAGA--TGTCG-CGCC-A-AAT--A--GGATT--ATATCATT--CG----TTCGGATATTGG-C---TAC-AC-ACAAAACAAT--AAGTT-GAAC-TT-AAC--TTATTATA-ATCT---TAGT----A---TGTAT--AA-AT-----ACGGGATGTTTA-G--CGCA--CGA-TACCCCTG---TGATT-TCGTAATTTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCAGCAtaatggtaaggaacattctttctttgctttagatattaactatagatgatatcggctaagggtacaattttccttaacaatctcatttaaaattcagttgatgaatgactgataaaagaaatgatatatcaaatatattgataaaatctcttctaaccacgtatatttgttgtagaagttttcttactaatggttagggaacataacaaggggggggaggggccgatgcatggaaatcttaaaatgaaatccagtccgaacacgtaacnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngaagcctcactatataacaccg
gi|6 : TGATGTTGATCGGGCGAAGTC--TGCC--------TCGGCCTCTGCCTGATGTGTTGACCCCGGCCGATGGATCCGCACACGTTTACGAAATGGCAGTCT-GCGTCTGAATTGTGCTCCAGGGACT----TTGCTCTGACGAAG-----ACCGGTGTCCTGCGTTGTCCTTCGGCCCGCCTTGCCTGGAGAAATCTGCT-GCTCGTCCG--CCTTCCGTTTG--TA--TCATTTCACGCGCTTTCCCCGGCGAATTGGTGGC-TA-TTTC--G-T--------AA-GA-
gi|6 : A-T---------TTGT---------------TT---TTTTCCTT----CGTCGCC--TGT-CTGCAGCA--TGGCGG--AACTGCTTGAG-GC-GGGAA----A--GGAGA--TGTCG-CGCC-A-AAT--AAAGGCTTA-ATATA-CT--CG----TTTAGATATTGG-CCCCTACTAC-AAAAAAC--T--AAGTT-GTAC-TT-AACC-TTACTCTG-GTCT---TCGA----A---TGTAT--AA-AT-----ACGGGATATTT--GG-CGCG--CAA-TACCCCTG---TGA-TATCGTAAATTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCAGCAaaaaaactatagtgtccatacttgcgaatttgtttttttccttcgtcgcctgtctgcagcatggcggaactgcttgaggcgggaaaggagatgtcgcgccaaataaaggcttaatatactcgtttagatattggcccctactacaaaaaactaagttgtacttaaccttactctggtcttcgaatgtataaatacgggatatttggcgcgcaatacccctgtgatatcgtaaattaatagtgattattttgatatgggaataaaataatcagca
gi|7 : tgatgttgatcgggcgaagtctgcctcggcctctgcctgatgtgttgaccccggccgatggatccgcacacgtttacgaaatggcagtctgcgtctgaattgtgctccagggactttgctctgacgaagaccggtgtcctgcgttgtccttcggcccgccttgcctggagaaatctgctgctcgtccgccttccgtttgtatcatttcacgcgctttccccggcgaattggtggctatttcgtaagaaaaaaactatagtgtccatacttgcgaACGTTCAT--AATGGC-GTCTGATG------TTG-GAA-CAATGTATGTTGCTGCTTTG--GAGGCAAAATCAGA-GTTCTATGTT---C-TATG------TTG-------AAATTCATT-GCTCATCTAATCTTTCTGTTTG--AAACCGT-TTC---CACTAT--TCTGTGAATTAGCGAGATGATTGC--G-GCGATTTTAAATAA-T---------ATGT---------------CTCTGTAATC-TTTTGACTA-ATC--TGTGTTGT------TGGTG-----C--CC-GAA-------AA----A--GGAAG--TGTCG------ATAATTTA--GGTTC---GATAATT--CG----TTGTGCAATTGG-C---TGC-AC-GAACG-C--C--AAGTC-GTACATT-GGC--AAGTTCTGTGTTG---TAGT----TGCTTGTATTCACCATGA---ACTGAATG-----A--CAAA--GGG-CACACCTG---TA----TCATAAATTAA-TAGCT-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCGG
gi|9 : TGCT-GAT-GCCGG-AA----A--GG-GACGTGTCG-CGTT-----TG-A--GGTTGA-ACATAATT--CG----TTAAGCGATTGGCC---TGC-ACTG--AAGC--C--AAGTTCGTACGTT-GAC--TAGTTC---GTTTTTCTAGTTCGCT---TGTAT--TC-AC-----ATGGCTTGAAT--G---ACAACTGA-CACACACA---AAG-TATTGTAAATTAATTAGCG-ATTATTCTTG-T--T-GT-TGATT-AAAATAGATC
blockSeqs : A . G . . T G CTGG G C TT A T TTGTT C T T C . A AG GC A G A GA A TCTG G C ATG G CAAAA T T CG T . C AT T . AC CAT T CC A . GCGATTTTA T T AAGCTATAG CACTGGGATGTGTTT CTG G C TTGA CG . T C GA CG GA T A C G TTTA AA AG G ATAATTTA G AAG GT TTTA A C CCC T AA A AA CC C G G CT A TG TTC TCGCT TC C TCAAC AA GGC AC A TCA ATA T A C T TT A A G
blockSeqs : A . . . . . . . . A T A T T C G T . . T . GT C G . . . C G . TTG C . . . . . . A A G . . GA A . . . TG . . . . . C . . A . A . . CG AA . . G G . . CG G AAATAAA C AAT . . C . . . TG A . . . G . C T T C CGCT T . GA TT GA . . . ACA . . . . . . . .
blockSeqs : . . . . . . . . A . . . . T . . G . . C . . . . C A . AT G . . . . . . C A G . . AT T . . . AG . . . . . G . . C . A . . CG GA . . G . . . . . AAAACA A AAC . . C . . . G A . . . A . C T G C CGCT T . . TG GA . . . ATT . . . . . . . .
blockSeqs : . . . . . . . . . C . . . . . . G . G . . CA A . . . G . . . . . T . . C . A . . TG GA . . C . . . . . AAAAAA A AC . . T . . . A A . . . G . . T A . TGCT . . . TT GG . . . ATA . . . . . . . .
blockSeqs : . . . . . . T . . . . . . A . . . . GT . . . . T . . . . . T . . A . A . . CG G . . G . . . . . AAAAA A AG . . C . . . A A . . . . . . A A . A . . . TA GA . . . GTA . . . . . . . .
blockSeqs : . . A . . TG A . . C . . . . . AAACA A AT . . C . . . A A . . . . . . T T . A . . . TT GG . . . AT . . . . . . . .
blockSeqs : . G . . G . . . . . . . . . AAATA G AG . . A . . . A A . . . . . . T A . A . . . TT AG . . . TT . . . . . . . .
blockSeqs : . . . . T . . . . . . . . . AAATA A AG . . C . . . G G . . . . . . A G . A . . . AA GG . . . AT . . . . . . . .
blockSeqs : . . . . . . . . TGA C AG . . T . . . A . . . . . . . T T . A . . . TT G . . . . . . . . . . . .
blockSeqs : . . . . . . . . TG T AT . . G . . . A . . . . . . . T A . A . . . TT G . . . . . . . . . . . .
blockSeqs : . . . . . . . . TG T G . . A . . . G . . . . . . . A G . A . . . AA A . . . . . . . . . . . .
blockSeqs : . . A G . . . . . . G . . . . . . . . . . . .
blockSeqs : . . . . . . . .
blockSeqCons : *** C*** T** A* ** ** ** CG AG** A* GG***
originalCons : TTTAAAATAAGGGGGACA-TGTGCCGATAAGAGATCAAAACA-ACTCGGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGACTGCGTTGTAA-GG-AATTCTCAAA----AG-TACATGTATAT-CGACAGACTCACCGCTTGACG----TATCCCCGGCCCCGTAGACAAAGGTGTCCGAT-GTTG-GCGGATTCAGAGCCTGATGTTGATCGGGCGAAGTC--TGACGTCTGC-GTCGGCCTCTGCCTAGTGCGTTAACCCCGGCCGAGGGATCCGC-CACGGTGAC--AATGGC-GTCTGGCGC---AGTTGTGCT-CAGGGGCTGATGTTGCTNTGACGAGG-----TCCGA-GTCCTGCGTTGGCC-TCGGCC--CCTTGCA-GGAGAAATCTGCT-GCTCNTCCGA-CTTTCTGTTTG--TA--CGA-TTCTCGCGCTTT--CCGGCGAATTGGTGGCATG-TTTC--G-G--------AA-GA-T---------TTGT---------------TT---TAANC-TT----CGT-ATC--TGTACTGCAG-A--TGGCGGGAAACTGCT-GAG-GC-GG-AA----A--GGAGA--TGTCG-CGCC-A-AAT--A--GGNTTA-AGATAATT--CG----TTCGGCTATTGG-C---TAC-AC-GAAAAAC--T--AAGTT-GTAC-TT-AAC--TTATTCTG-GTTT---TAGT----A---TGTAT--AA-AT-----ACGGGATGTTT--G--CGCA--CGA-CACCCCTG---TAA-T-TCGTAAATTAA-TAGCG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCAGCAT
finalCons : TTTAAAATAAGGGGGACA-TGTGCCGATAAGAGATCAAAACA-ACTCGGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGACTGCGTTGTAA-GG-AATTCTCAAA----AG-TACATGTATAT-CGACAGACTCACCGCTTGACG----TATCCCCGGCCCCGTAGACAAAGGTGTCCGAT-GTTG-GCGGATTCAGAGCCTGATGTTGATCGGGCGAAGTC--TGACGTCT---GTCGGCCTCTGCCTAGTGCGTTAACCCCGGCCGAGGGATCCGC-CACGGTGAC--AATGGC-GTCTGGCGC---AGTTGTGCT-CAGGGGCTGT--TTGCTNTGACGAGG-----TCCGA-GTCCTGCGTTGGCC-TCGGCC--CCTTGCA-GGAGAAATCTGCT-GCTCNTCCGA-CTTTCTGTTTG--TA--CGA-TTCTCGCGCTTT--CCGGCGAATTGGTGGCATG-TTTC--G-G--------AA-GA-T---------TTGT---------------TT---TAANC-TT----CGT-ATC--TGTACTGCAG-A--TGGCGGGAAACTGCT-GAG-GC-GG-AA----A--GGAGA--TGTCG-CGCC-A-AAT--A--GGNTTAG--ATAATT--CG----TTCGGCTATTGG-C---TAC-ACA-AAAAAC--T--AAGTT-GTAC-TT-AAC--TTATTCTG-GTTT---TAGT----A---TGTAT--AA-AT-----ACGGGATGTTTGG---CGCA--CGA-CACCCCTG---TAA-T-TCGTAAATTAA-TAGCG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCAGCAT
4 sequences could not be aligned to this reference sequence:
Unaligned ( gi|8 ): TTTCATTGACAAGCACAATCAGTTCAGTAGTTGAATGACAGATATAGAGGTGATATATCATAGATATTGATAAAGTCGCGTCTAACCACACATTGTTGTATGGGGAGTTTTGTTACTAATGGTTAATGAATATAACCTATAACTCATGGGGGGGGGGGTCCGATGGAAATTTGAAAATAAAATCCAGTATGGGGAAGTCTCACTATATAGCCACCACCACCCCTCCCTGGGAGGGTGGATGGGTGGTTCTCACTATATAGACAGCCTCCCTGGGGAAAAGTCTCACTATTGGGGAGCCTCACTATATAA
Unaligned ( gi|14 ): GCTGTCTTATGTAAAGTTAGAAGTTTTAAAGACTGACAAAAGAAGATATCTGTTCATCTAATATATCAAAGCTCGCATTTAACTACGTATATTTGTTGTACTAATATTTACGGGGGGACTTTCGATGGCAATCTGAAATTAAAATCCAATCTGAGCACGTAAG
Unaligned ( gi|17 ): AGATGAGACACTGAGTATTTTTAGGCACTTTTTACTTTAAGTTTTCTGATATAT
Unaligned ( gi|18 ): ATCCATTGCTTCATTCTAATCTTTCTGGTTTGAAACCGTTGCACTTTTCTGTGA
Alignments
lowQualScore : 1 1 1 1 1 3333 1 11 33333 1 1 11 3333333 2222 222222 11111 11 1 3333333333 222222222 444444444444444 111 1111 1 1 11 1 11 111 22222222 11 2222
lowQualScore : 7 3 6 0 0 0 0 0 1111 0 8 33 3 3 66666 2 3 3 0 0 1 0 0 11 6666666 2 2 8 99 6 1111 1 6 444444 7 66666 6 6 99 6 6 1 44 0 99 99 777 7 99 6 99 1111111111 6 5 666666666 111111111111111 111 1 6 4444 88 66 1 4 66 77 0 4 3 3 6 0 7777 44 99 6 3 3 77 1 22 2 3 44 7777 1 3 555 0 3 2 2 77 44 3 3 3 00 1 0 55 111 55555555 00 77777 0 444 2 3 3 3 555 6666 2 2 2 2 33 2 5 2
lowQualScore : . . . . . . . . .... . . .. . . ..... . . . . . . . . .. ....... . . . .. . .... . . ...... . ..... . . .. . . . .. . .. .. ... . .. . .. .......... . . ......... ............... ... . . .... .. .. . . .. .. . . . . . . .... .. .. . . . .. . .. . . .. .... . . ... . . . . .. .. . . . .. . . .. ... ........ .. ..... . ... . . . . ... .... . . . . .. . . .
lowQualScore : 3 3 7 0 0 0 0 2 2222 0 8 22 2 2 88888 5 0 2 0 0 2 8 8 00 8888888 5 5 0 22 7 0000 0 7 555555 5 77777 7 7 22 7 7 0 00 8 22 22 333 8 22 7 22 7777777777 7 7 777777777 777777777777777 777 0 7 2222 22 11 0 4 11 66 1 6 3 3 7 0 1111 66 22 7 2 3 99 0 55 5 3 66 1111 0 3 888 1 3 9 4 99 66 3 3 1 44 0 8 00 555 22222222 88 77777 5 999 6 1 1 1 444 4444 9 9 9 9 99 9 7 9
consensus : TTTAAAATAAGGGGGACA-TGTGCCGATAAGAGATCAAAACA-ACTCGGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGACTGCGTTGTAA-GG-AATTCTCAAA----AG-TACATGTATAT-CGACAGACTCACCGCTTGACG----TATCCCCGGCCCCGTAGACAAAGGTGTCCGAT-GTTG-GCGGATTCAGAGCCTGATGTTGATCGGGCGAAGTC--TGACGTC--TGCG-TCGGCCTCTGCCTAGTGCGTTAACCCCGGCCGAGGGATCCGC-CACGGTGAC--AATGGC-GTCTGGCGC---AGTTGTGCT-CAGGGGCTGAT-T--TGCTNTGACGAGG-----TCCGA-GTCCTGCGTTGGCC-TCGGCC--CCTTGCA-GGAGAAATCTGCT-GCTCNTCCGA-CTTTCTGTTTG--TA--CGA-TTCTCGCGCTTT--CCGGCGAATTGGTGGCATG-TTTC--G-G--------AA-GA-T---------TTGT---------------TT---TAANC-TT----CGT-ATC--TGTACTGCAG-A--TGGCGGGAAACTGCT-GAG-GC-GG-AA----A--GGAGA--TGTCG-CGCCAAA-TA--GGATT--AGATA-ATT--CG----TTCGGCTATTGG-C---TAC-ACGAAAAAC--T--AAGTT-GTAC-TT-AAC--TTATTCTG-GTTT---TAGT----A---TGTAT-AAAT-----ACGGGATG-TNTGGCGCAC-GA-CAC-CCCTG---TAA-T-TCGTAAATTAA-TAGCG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCAGCAT
Reference ( family-1288 ) : TTTAAAATAAGGGGGACA-TGTGCCGATAAGAGATCAAAACA-ACTCGGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGACTGCGTTGTAA-GG-AATTCTCAAA----AG-TACATGTATAT-CGACAGACTCACCGCTTGACG----TATCCCCGGCCCCGTAGACAAAGGTGTCCGAT-GTTG-GCGGATTCAGAGCCTGATGTTGATCGGGCGAAGTC--TGACGTC--TG---TCGGCCTCTGCCTAGTGCGTTAACCCCGGCCGAGGGATCCGC-CACGGTGAC--AATGGC-GTCTGGCGC---AGTTGTGCT-CAGGGGCTG-T-T--TGCTNTGACGAGG-----TCCGA-GTCCTGCGTTGGCC-TCGGCC--CCTTGCA-GGAGAAATCTGCT-GCTCNTCCGA-CTTTCTGTTTG--TA--CGA-TTCTCGCGCTTT--CCGGCGAATTGGTGGCATG-TTTC--G-G--------AA-GA-T---------TTGT---------------TT---TAANC-TT----CGT-ATC--TGTACTGCAG-A--TGGCGGGAAACTGCT-GAG-GC-GG-AA----A--GGAGA--TGTCG-CGCCAAA-TA--GGNTT--AGATA-ATT--CG----TTCGGCTATTGG-C---TAC-ACAAAAAAC--T--AAGTT-GTAC-TT-AAC--TTATTCTG-GTTT---TAGT----A---TGTAT-AAAT-----ACGGGATG-TTTGGCGCAC-GA-CAC-CCCTG---TAA-T-TCGTAAATTAA-TAGCG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCAGCAT
gi|1 : TTTAAAATA-GGGGGACAATGTGCCGATAAGAGATCAAAACAGACTTAGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAAACAGACTGCGTTGTAA-GG-AATTCTCAAAG---AG-TACATGTATAT-CGAC-GACTCACCGCTTGACG-----ATCCCCGGCCCCGTAGACAAAGG-GTCCGAT-GTTGAGCGAATTCAGAGCCTGATGTTGATTGGGCGAAGTC--TGACGTC--TGCGGTCGGCCTCTGCCTAGTGCGTTAACCC-GGTCGAGGGATCCGC-CACGGTGAC--AATGGT-GTCTGGCGC---AGTTGTGCT-CAGGGGCTGATGT--TGCT-TGACGAGG-----TCCGA-GTCCTGCGTTGGCC-TCGGCC--CCTTGCA-GGAGAAATCTGCTGGCTCCTCCGA-CTTTCT-TTTGTTTA--CGA-TTCTCGCGCTTT--CCGGCGAATTGGTGGCATG-TTTTTGG-G--------AA-GA-T---------TTGT---------------TT---TAAGC-TT----CGT-ATTCGTGTATTGCAG-A--TGGC-GGAAACTGCT-GAG-GC-GG-AA----A--GGAGA--TGTCG-CGCCAAA-TA--GGATTAGAGATA-ATT--CG----TTCGGCTATTGG-C---TAC-AT-AAAAAC--T--AAGTT-GCTG-TT-AAC--TTA-TCTA-ATTT---TAGT----A---TGTAT-AAAT-----ACGGGATGTTTTGGCGCAC-GC-CAC-CCCTG---TGATT-TCGTAAATTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAATAAAAATA-ATCAGCAT
gi|10 : tgtTGCT-GAT-GCCGG-AA----A--AGGGAAGTGTCGGCGTT----TG--AGGTT--ACATA-ATT--CG----TTAAGCGATTGG-C---TGC-ACGAACG-C--C--AAGTC-GTACGTT-GAC--TAGTTCTG-TTTTC--TAGT----CGCTTGTATTCAAC-----ATGGCTTG-AATGACAAAG-AA-CAC-ACAAG---TA----TTGTAAATTAA-TAGCG-ATTATT-TTG-A--T-ATGTGAAT-AAAATA-ATC
gi|11 : catgtcgttatcaacttactatctctgtgtTC--TGTTTGGCAG-A--TGG-GGGAAATTGAT-GAGAGC-GGGAA----A--GGA-A--TGTCG-CGCCAAA-AA--GGCTT--AGATA-AAT--CGTTTATTCAGATAATGG-C---T-C-ACAAAAAAC--T--AAGTT-GTAC-TTGAACCTTTA-TCTG-GTTT---CGAT----A----GT------T-----ATGGGATA-TTTGGC-CGC-G--CATACCATGTCATAA-T-CGGTAAATTAA-TAGTGAATTATT-TTG-ATTT-ATAGGAATAAAAATA-ATCAGCA
gi|12 : cC--TGTACTGCAG-A--TGGCGGGAA-CTGCT-GAG-GC-GGGAA----A--GGAGA--TGTCG-TGCCAAAACA--GGATT--ATATA-ACT--CG----TTCGACTATTGG-C---TAC-ACAAAAAAAA-T--CAGTT-GTAC-TT-AAC--TTATTCTG-ATCT---TAGT----A---TATAT-AAAT-----ACGGGATG-TGTGACGCAC-GA-TAC-CCCTG---TGA-TATCGTAAATTAA-TAGCA-ATTATT-TTG-A--T-ATGGGAAT-GGAATA-ATCAGCAT
gi|13 : --TGTACTGCAG-A--TGGC-GGAAACTGCT-GAG-GCGGG-AG----A--GGAGA--TGTCG-CGCCAAA-CA--GGATT--AGATA-ATT--TG----TTTGGCTATTGG-C---TAC-ACAAAAAAC--T--AAGTT-GTAC-TT-AAC--TTATTCTA-ATCT---TAGT----A---TGTAT-AAAT-----ACGAGATG-TTTGGCGCAC-GA-TAC-CCGTG----AT-T-TCATAGATTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATC
gi|15 : ttcgtcagT-AAC--TAATTTTG-TTTC---TGGT--------TGTTT-GAACTCAACATGGCCTA-TATGACAAAG-AA-CAC-ACCTG---TA----CCGTAAAAAAA-TAGCG-ATTCTT-TTG----T----GGAAT-AAAATA-ATC
gi|16 : -TTGTAAAATAA-TAGCG-ATCATT-TTGTA--TAATGGGAAA-AAAATA-
gi|2 : gttctgttttcagtcgccgtattcacatggcctgaaagagtaTTTAAAATAAGGGGGACA-TGT-CCGATAAGAGATCAAAACA-ACTTAGGGTTGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGACTGCGTTGTAA-GG-AATTCTCAAA----AG-TACATGTATATTCGACAGACTCACCGCT-GACG-----ATCCCCGGCCCCGTAGACAAAGGTGTCCGATCGTTG-GCGAATTCAGAGCCTGATGTTGATTGG-CGAAGTC--TGACGTC--TGCG-TCGGCCTCTGCCTAGTGCGGTAAACCCG-TCGAGGGATCCGC-CACGGTGAC--AATGGT-GTCTGGCGC---AGTTGTGCT-CAGGGGCTGATGT--TGCTGTGACGAGG-----TCCGA-GTCCTGCGTTGGCC-TCGGCC--CCTTGCA-GGAGAAATCTGCT-GCTCCTCCGA-CTTTCTTTTTG--TA--CGA-TTCTCGCGCTTT--CCGGCGAATTGGTGGCATG-TTTT--G-G--------AA-GA-T---------TTGT---------------TT---TAAGC-TT----CGT-ATC--TGTATTGCAG-A--TAGCGGAAAACTGCT-GAG-GC-GG-AA----A--GGAGA--TGTCG-CGCCAAA-TA--GGATTA-AGATA-ATT--CG----TTCGGCTATTGG-C---TAC-TAAAAAAAC--T--AAGTT-GTGC-TT-AAC--TTATTCTA-ATTT---TAGT----A---TGTAT-AAAT-----ACGGGATG-TTT-GCGCAC-GA-CAC-CCCTG---TAA-T-TCGTAAATTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAA--AAAATA-ATCAGCAT
gi|3 : TCTAGAGTAAGGGGGACA-TGTGCCAATAAGGGGTCAAAATA-ACTCGGGGTAGTGGGGGGTAAATAATCGGCAAAGTCAA-CAGATTGCATTGTCATGA-AATTGTCAAACTGGGG-CAAATCGATA----ACAGACACACCGCTTGGCGTTGTTGTCCCCGGC------AACAAAGGTGTCCAAT-GTTG-GCGGTTTCAGCGCC------TGATCGGGCGAAGTCAGTGACGTCTGTG---TCGGCC
gi|3 : aTCGGC-CACGGTGAC--AATGGC-GTCTGGCG------TTGTGCT-CAGGGGCTG-T-T---GCTCTGACAAAG-----ACCGG-GTCCTGCATTGGCC-TCGACC--CCTTGCA-GGAGAAATCTGCT-GATAATCCG--CCTTCCGTTTG--TA--CAT-TTCATGCGCTTT--CCGGCAAATTGGTGGCATG-TTTC--GTG--------AA-GA-TAAGCTATAGTTGTCACTGGGATGTGTTTTT---TATCC-TT----CGT-CTC--TTTACTGCAG-AGATGGTGGGAA-CTGCT-GAG-GC-GG-GATTTAA--GGAGA--TGTCA-CGCCAAA-AAA-GGATT--AGATA-ACTGTCG----TTCGGATATTGG-C---TAC-ACAAAAAAC--T--AAGTT-GTAC-TT-AACC-TTACTCTG-GTCT---TAGA----A---TGTAT-AAAT-----ACGGGATG-TTTGGCGCAC-GA-TAC-CCCTG---TGA-CATCGTTAATTAA-TAGTG-ATTATT-TTG-A--T-ATGAGAAT-AAAATA-ATCAGCATacggtgacaatggcgtctggcgttgtgctcaggggctgttgctctgacaaagaccgggtcctgcattggcctcgaccccttgcaggagaaatctgctgataatccgccttccgtttgtacatttcatgcgctttccggcaaattggtggcatgtttcgtgaagataagctatagttgtcactgggatgtgttttttatccttcgtctctttactgcagagatggtgggaactgctgaggcgggatttaaggagatgtcacgccaaaaaaggattagataactgtcgttcggatattggctacacaaaaaactaagttgtacttaaccttactctggtcttagaatgtataaatacgggatgtttggcgcacgatacccctgtgacatcgttaattaatagtgattattttgatatgagaataaaataatcagcat
gi|4 : atctagagtaagggggacatgtgccaataaggggtcaaaataactcggggtagtggggggtaaataatcggcaaagtcaacagattgcattgtcatgaaattgtcaaactggggcaaatcgataacagacacaccgcttggcgttgttgtccccggcaacaaaggtgtccaatgttggcggtttcagcgcctgatcgggcgaagtcagtgacgtctgtgTGCT-GAT-GCCGG-AA----AAAGGAAG--TGTCGGCGTT----TG--AGGTT--AGATA-ATT--CG----TTATGCGATTGG-C---TGC-ACGAA---C--TCCAAGTC-GTACGTT-GAC--TAGTTCTG-TTTTC--TAGT----CGCTTGTATTCAAC-----ATGGCCTG-AATGAC-CAA-GAACAC-ACAAG---TA----TTGTAAATTAA-TAGCG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCGGCAT
gi|5 : tagcgggatgattgcggcgatttttaaaaaataatatttttgactactatctctgtgtAACA-ACTCGGGGTTGTTGGGGGTAAATAATCTGCAATGTCAA-CAAACTGCGTTGCAA-GGGAATTTTCAAA----AGGTG---GTATTT-CGACAGACTATACGTTTGACG----TATCCCCTGCCCCGGAAACAAAGGTGTCCGAT-GTTG-GCGGGTTCAGGGCCTGATGTTGATCTGGCGAAATC--TGACGTC--T-------GCCTCTGCCTAGTGCTTTAACCCCGGCCGAGGGATCCGC-CACGGTGAC--AATGGC-GTCTGGCGC---AGTTGTGCT-CATGGGCTGAT-T--TA--GTGACGAGG-----TCAGA-GTCCTTCGTTGGCC-TCGGCC--CCTTGCA-GAATAAATTTGTT-GCTCCTCCGA-CTTTCT-TCTG--TA--CCA-TTCTCGCGCTTT--CCGGCGAATTGGTGACATG-TTTT--GAG--------AA-GATT---------TTAT---------------TT---TAAGC-TT----GGC-CTG--TATACTGCAG-A--TGGT-GGAAACTGCT-GAG-ACGGG-AA----A--GGAGA--TGTCG-CGCCAAA-TA--GGATT--ATATC-ATT--CG----TTCGGATATTGG-C---TAC-ACACAAAACAAT--AAGTT-GAAC-TT-AAC--TTATTATA-ATCT---TAGT----A---TGTAT-AAAT-----ACGGGATG-TTTAGCGCAC-GA-TAC-CCCTG---TGATT-TCGTAATTTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCAGCAtaatggtaaggaacattctttctttgctttagatattaactatagatgatatcggctaagggtacaattttccttaacaatctcatttaaaattcagttgatgaatgactgataaaagaaatgatatatcaaatatattgataaaatctcttctaaccacgtatatttgttgtagaagttttcttactaatggttagggaacataacaaggggggggaggggccgatgcatggaaatcttaaaatgaaatccagtccgaacacgtaacnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngaagcctcactatataacaccg
gi|6 : TGATGTTGATCGGGCGAAGTC--TGCC----------TCGGCCTCTGCCTGATGTGTTGACCCCGGCCGATGGATCCGCACACGTTTACGAAATGGCAGTCT-GCGTCTGAATTGTGCTCCAGGGAC---T-T--TGCTCTGACGAAG-----ACCGGTGTCCTGCGTTGTCCTTCGGCCCGCCTTGCCTGGAGAAATCTGCT-GCTCGTCCG--CCTTCCGTTTG--TA--TCATTTCACGCGCTTTCCCCGGCGAATTGGTGGC-TA-TTTC--G-T--------AA-GA-
gi|6 : A-T---------TTGT---------------TT---TTTTCCTT----CGTCGCC--TGT-CTGCAGCA--TGGCGG--AACTGCTTGAG-GC-GGGAA----A--GGAGA--TGTCG-CGCCAAA-TAAAGGCTT--A-ATATACT--CG----TTTAGATATTGG-CCCCTACTACAAAAAAC--T--AAGTT-GTAC-TT-AACC-TTACTCTG-GTCT---TCGA----A---TGTAT-AAAT-----ACGGGATA-TTTGGCGCGC-AA-TAC-CCCTG---TGA-TATCGTAAATTAA-TAGTG-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCAGCAaaaaaactatagtgtccatacttgcgaatttgtttttttccttcgtcgcctgtctgcagcatggcggaactgcttgaggcgggaaaggagatgtcgcgccaaataaaggcttaatatactcgtttagatattggcccctactacaaaaaactaagttgtacttaaccttactctggtcttcgaatgtataaatacgggatatttggcgcgcaatacccctgtgatatcgtaaattaatagtgattattttgatatgggaataaaataatcagca
gi|7 : tgatgttgatcgggcgaagtctgcctcggcctctgcctgatgtgttgaccccggccgatggatccgcacacgtttacgaaatggcagtctgcgtctgaattgtgctccagggactttgctctgacgaagaccggtgtcctgcgttgtccttcggcccgccttgcctggagaaatctgctgctcgtccgccttccgtttgtatcatttcacgcgctttccccggcgaattggtggctatttcgtaagaaaaaaactatagtgtccatacttgcgaACGTTCAT--AATGGC-GTCTGATG------TTG-GAA-CAATGTATG-T-TGCTGCTTTG--GAGGCAAAATCAGA-GTTCTATGTT---C-TATG------TTG-------AAATTCATT-GCTCATCTAATCTTTCTGTTTG--AAACCGT-TTC---CACTAT--TCTGTGAATTAGCGAGATGATTGC--G-GCGATTTTAAATAA-T---------ATGT---------------CTCTGTAATC-TTTTGACTA-ATC--TGTGTTGT------TGGTG-----C--CC-GAA-------AA----A--GGAAG--TGTCG-A--TAAT-TT--AGGTT--CGATA-ATT--CG----TTGTGCAATTGG-C---TGC-ACGAACG-C--C--AAGTC-GTACATT-GGC--AAGTTCTGTGTTG---TAGT----TGCTTGTATTCACC-----ATGAACTG-AATGACAAAG-GG-CAC-ACCTG---TA----TCATAAATTAA-TAGCT-ATTATT-TTG-A--T-ATGGGAAT-AAAATA-ATCGG
gi|9 : TGCT-GAT-GCCGG-AA----A--GG-GACGTGTCG-CGTT----TG--AGGTTGAACATA-ATT--CG----TTAAGCGATTGGCC---TGC-AC-TGAAGC--C--AAGTTCGTACGTT-GAC--TAGTTC---GTTTTTCTAGTTCGCT---TGTAT-TCAC-----ATGGCTTG-AATGACA-ACTGA-CAC-ACACA---AAG-TATTGTAAATTAATTAGCG-ATTATTCTTG-T--T-GT-TGATT-AAAATAGATC
4 sequences could not be aligned to this reference sequence:
Unaligned ( gi|8 ): TTTCATTGACAAGCACAATCAGTTCAGTAGTTGAATGACAGATATAGAGGTGATATATCATAGATATTGATAAAGTCGCGTCTAACCACACATTGTTGTATGGGGAGTTTTGTTACTAATGGTTAATGAATATAACCTATAACTCATGGGGGGGGGGGTCCGATGGAAATTTGAAAATAAAATCCAGTATGGGGAAGTCTCACTATATAGCCACCACCACCCCTCCCTGGGAGGGTGGATGGGTGGTTCTCACTATATAGACAGCCTCCCTGGGGAAAAGTCTCACTATTGGGGAGCCTCACTATATAA
Unaligned ( gi|14 ): GCTGTCTTATGTAAAGTTAGAAGTTTTAAAGACTGACAAAAGAAGATATCTGTTCATCTAATATATCAAAGCTCGCATTTAACTACGTATATTTGTTGTACTAATATTTACGGGGGGACTTTCGATGGCAATCTGAAATTAAAATCCAATCTGAGCACGTAAG
Unaligned ( gi|17 ): AGATGAGACACTGAGTATTTTTAGGCACTTTTTACTTTAAGTTTTCTGATATAT
Unaligned ( gi|18 ): ATCCATTGCTTCATTCTAATCTTTCTGGTTTGAAACCGTTGCACTTTTCTGTGA