lowQualScore : 11111111111111111111111111111111111111111111111111111111111111111 111111111111111111111111111
lowQualScore : 22 4 222 4 1 555555555 33 11 1 111 44444444444444444444444444444444444444444444444444444444444444444 2 1 666 2222 333 22 111111111111111111111111111 1 3333333333333333 33 222 222222222 222222222 1 4444444444444444444444444 2222 77777777777777777777777777 11 2222222 222222 11111 2222222 111 111 1111 1111 11 5555555 11 4 44444444444 1 6666666666666 2 22 2222 1111 111 888888888888888888888888 1111 11 3 2222 111 4444444444444 3333333 11 1 1 11 1 1 7777777 333 2222 22222 222 1 1 222222
lowQualScore : 11 0 333 0 3 7 333333333 1 8 7 11 99 3 666 88888888888888888888888888888888888888888888888888888888888888888 3 6 6 3 111 5555 000 44 777777777777777777777777777 3 9999999999999999 1 11 000 777777777 444444444 0 8888888888888888888888888 8888 7 99999999999999999999999999 11 8 0 6 0 3 1 8 6666666 222222 8 77777 0 8 8888888 444 111 22 4444 4444 3 99 2 3333333 88 77 0 66666666666 2 3 1 4 8888888888888 1 3 3 44 2 5555 7777 111 888888888888888888888888 6 0000 6 88 3 6 6 6 1 0000 111 4444444444444 5555555 44 6 99 6 6 6 5 0 8 0 1 6 11 8 0 5 3333333 555 6666 55555 111 4 0 5 111111
lowQualScore : .. . ... . . . ......... . . . .. .. . ... ................................................................. . . . . ... .... ... .. ........................... . ................ . .. ... ......... ......... . ......................... .... . .......................... .. . . . . . . . ....... ...... . ..... . . ....... ... ... .. .... .... . .. . ....... .. .. . ........... . . . . ............. . . . .. . .... .... ... ........................ . .... . .. . . . . . .... ... ............. ....... .. . .. . . . . . . . . . .. . . . ....... ... .... ..... ... . . . ......
lowQualScore : 00 0 000 0 3 3 777777777 0 3 3 77 77 3 777 77777777777777777777777777777777777777777777777777777777777777777 7 7 7 3 777 3333 000 00 000000000000000000000000000 3 0000000000000000 0 77 000 777777777 000000000 0 9999999999999999999999999 0000 3 88888888888888888888888888 00 0 8 0 2 2 0 0 0000000 222222 0 22222 8 0 4444444 000 888 66 8888 8888 2 00 5 5555555 55 00 0 00000000000 5 0 5 0 5555555555555 2 2 2 55 5 0000 0000 777 222222222222222222222222 7 8888 7 33 3 7 7 7 5 8888 777 3333333333333 7777777 00 7 22 7 7 7 7 0 0 8 4 0 00 0 0 5 8888888 555 0000 00000 000 0 0 5 222222
consensus : TTAAACAAGACAGCTT-GATAAAAATAAATTGATA-AAATAGAAGTTACTANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGGGATA-ATGGGACGGTAC--T-GTCCGCTCAAATGTAT--GACACAGAGTACAA-GAG-C-TTTTCTCGAAA--GTT---T--CAAC-CAAA-CA-----CC--CCCC----AAAA-----AAAAGA----AAGCAACAAA-TATCAGAAACAAAACTA-TAAATC---AGTTGGGGTAT--NNTTTCTAGATCCGCCACTNAAAAANACCATG---------------------AAC---TA-CAAT-AT--A-TA---T-TTGGGGTATTTTT-CTGAGGCAATC-TGGGG-CGGGN---GTATN---TG---AAAAT-GGGAGTTTGG----GTA--ATAACAAA-TGTCTCCGTTCT--AAAGTGGG-TA-ATATCACGTGTAATCGAGTGCTCCCT--CG-ATTACACTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTAC-AA-A-TCAAACTTCTAA-AGTATA----TACAATGATCAT--TTGATGAACGCTGAGTCT---ACA---TGATAAAGTAAAATTTTGACNCCACNTGGAAACCTCAGGTAAAAATTACGCTCNNG-TTTAGTGCTGTGNNACCACANATCNAANGTNAATTTACNGGCATGACTTTTCCGCATTTCCTCCATTTTATGATTT-GGATGT---TTTTT----ACACGAAT---CTT------------------------AACAA-CATG-GT-TCA-AT-TTAGTAA-TT-AAATTT-GCATTTCAAA-TTATTTC---GGTGA----GA-------TCAGATG-----A-TTTTCTA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-TCAGTA-ATAAATTCCGTGTACCA--C-GCA-GTAAATATTCTC-ACGTGGAAATGGACAAA-T-TAATTT-GT-AGT-----CAACACTGT-ANTTCCCCAG-CTGTTATC---G--TATTGT
Reference ( gi|2 ) : TTAAACAGTACAGCTTTGATAAAAATAATTGGATATAAATAGAAGTTACTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGGGATA-ATGGGACGGTAAATT-GTC-GCTTAATTGTAT--GACACAGAATACAA-GAG-C-TTTTCTTGAAA-TGTT---T--CAACACAAAACA-----TC--CCCC----AAAA-----GAAAGAT---AA--AACAAAATATCAGAAACAAACCTA-TAAATCTGCAGTTGGGGTAT--ATTTTCTAGATCCGCCACTC--AAAT-CCATG---------------------AAC---TA-CAAT-AT--A-TA---T-TTGGAGTATTTT--CTGAGGCAATC-TTGGGATGGGG---GTATA---TG---AAAAT-GGGAGTTAGG----GTAC-ATAACAAA-TGTCTCCGTTCTAAAAAGTGGGGTA-ATAT---ATGTA-T-AAGT---TTCT--CG-ATTACACTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTAC-AA-A-TCAAACTTCTAA-AGTATA----TACAATGCTCAT--TTGATGAACGCTGAATCT---ACA---TGATAAAGTAAAATTTTGACATCACGTGGAAACCTCAGGT--AAATTATATTCAAGTTTTAGTG--GTAACAC--CAGATCAAATGTTAATTTACAAGT---ACTTTTACGCATTTCCTCCATTTTATGATTTGGGATG----TTTTT----ACACGAAT---CTTA-----------------------AACAA-CATG-GT-TCA-AT-TTAGT-A-TT-AAATTT-GCATTTC-AA-TTATTTC---GGTGA----GA-------TCAGATG-----ATTTTTCTA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-TCAGTA-ATAAATTCCGTGTA-CA--C-ACA-GTAAATATTCT--A-GT-GAAATGGACAAA-T-TAATTT-GT-AGT-----CAACACT-T-ATTTCCCCAG-CTGTTATC---G--TATTGT
gi|1 : TTAAACAAGACAGCTT-GATAAAAATAAATTGATA-AAATAGAAGTTACTA
gi|5 : TGCCTGGGGAGAGATGGGAGGGTACCTTTGTCCGCTCAAATGTATCGGACAGAGA-TACAA-GAA-C-TTCTTTCCA----------T--CAAAGCAAA-CAGCCCCCC--CCCC----AAAA------AAAGAG---AAGCAACAAA-TATCAGAGACAAAACTAATAAATC---AGTTGGGGTATCCATTTTCTAGATCCGCCACTCAAAAATACCATACTATTTCTTTAATTTACACATAAC---TACCAAT-ATGAA-TA---T-T--GGGTATTTT--CTGAGGCAGTCGTTAGG-CGGGAAATGTATATATTG---AAAATGGGGAGTT-------------------A-TGT-TCTGTTCT---AAGTGGG-----TAT---GTG-A-TCGAGTA--TTCTTACG-ATTAC-CTTCnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagctgggataatgggcggtaatccgcttaattgatagacacagaaacaaagaggcttttcttgaaaaggttttacaaccaaaacacccccccctcaaaaaaaaacaaatatcaaaacaaacctataaatcagttggggtatcatttctagatccgccactaaaaatcatgaaaaaatacaattataatatcttggagtatttttctgaggcaatctgggggtggtggtatataggaaaaatgggagttaggtaacgtacgataacaaaatgctccgttctaaaagtgggttatatatcacatgtaataagtgctccctcgtattactcttcttcttttagcagatctacactcgaatgtacaaaatcaaacttctaagagtatatacaatgatcatttgatgaacgctgaatcacagataaagtaaattttgaatcacgtggaaacctcaggtaaaaattatattcaagtttagtgctgtgagaccacagatccaaagttaatttctagtctttccgcattcctccattttatgatttggatgtttttttttacaggaatcttaacacatggttcaattagtaattaaatttgcagttcaaattatttcgctgaatcagatgattttctaacagtgtggctaaaaaggagatcataataaattccgtgaaccacgcagtaaatattctcacgtggaaatggacaaataattttagtcaacactgtaattccccagctgtatcgtattgt
gi|1 : ggaaggctagattgGGGATA-ATGGG-CGGTAA--T--CC-GCTTAATTG-ATA-GACACAGAA-ACAAAGAGGC-TTTTCTTGAAAAGGTT---TTACAAC-CAAAACA-----CC--CCCCCCTCAAAA-----AAAA-----------ACAAA-TATCA-AAACAAACCTA-TAAATC---AGTTGGGGTAT--CATTTCTAGATCCGCCACTA--AAAA-TCATG---------------------AAAAAATA-CAATTAT--AATA---TCTTGGAGTATTTTT-CTGAGGCAATC-TGGGGGTGGTG---GTATA---TAGGAAAAAT-GGGAGTTAGGTAACGTACGATAACAAAATG-CTCCGTTCTAAAA-GTGGGTTATATATCACATGTAAT-AAGTGCTCCCT--CGTATTACTCTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAAA-A-TCAAACTTCTAAGAGTATA----TACAATGATCAT--TTGATGAACGCTGAATC----ACA----GATAAAGT-AAATTTTGA-ATCACGTGGAAACCTCAGGTAAAAATTATATTCAAG-TTTAGTGCTGTGAGACCACAGATCCAAAGTTAATTT-CTAGT----CTTTC-CGCA-TTCCTCCATTTTATGATTT-GGATGTTTTTTTTT----ACAGGAAT---CTT------------------------AAC-A-CATG-GT-TCA-A--TTAGTAA-TT-AAATTT-GCAGTTCAAA-TTATTTC---GCTGA-----A-------TCAGATG-----A-TTTTCTA---A-C--AG-TGT-GGCTAA-AAAGGAGA-TCA-TA-ATAAATTCCGTGAACCA--C-GCA-GTAAATATTCTC-ACGTGGAAATGGACAAA---TAATTT--T-AGT-----CAACACTGT-AATTCCCCAG-CTG-TATC---G--TATTGTgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntcgatacacttcttttgcaagatcgtctctctacactgcgatgtacaaaataaacgtctaaagtatggtagcacaatgatcatgtttgatgaacgtgaaatctacatgataaa
gi|9 : ttaaacaagacagcttgataaaaataaattgataaaatagaagttactannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagctTA-ATGCTACGGTACAAT-GTCCGCTCAAATGTAT--GACACAGAGTACAG-GAG-CTTTTTCTTGAAA-TGTTATCT--CACC------CA-----CCCACCCC----AAAATGAATAAAAGATTTGAAACAACAAAATATCCGAAACAAAACTA-CGAATC--CAGTTGGGGTAT--
gi|14 : tgtaaagatggattgtggcctggggatgggtttttttgtgCATG---------------------AAC---TA-CAAT-GT--A-TAATAT-GTGGGGTATTTTTCCTCAGGCAATC-AGGGGTTGAGT---ATATT---TG---AAAAT-GGGAGTTTGG----GTA
gi|18 : aaaaatgtacaATT---TG---AAAAT-GGGAGTTTGG----GTA--ATAACAAA-AGTCTCCGTT----AAAGTGGGGTA-
gi|13 : CT--CG-ATTACACTTCTTCTTTTAGCA-GTTC-------TACACT-CGAAATGTAC-AA-AATCAAACTTCTAA-GGTATA----TGCAATGATCAT--TTGATGAGCGCTGAGTCT---ACA---TGATAAAGTAAGATTTTGA
gi|5 : T--CG-AT-ACACTTCTTTT----GCAAGATCGTCTCTCTACACTGCGA--TGTAC-AA-A-ATAAACGTCTAA-AGTATGGTAGCACAATGATCATGTTTGATGAACGTGAAATCT---ACA---TGATAAA
gi|15 : ggaaggctagattgtgcctggggagagatgggagggtacctttgtccgctcaaatgtatcggacagagatacaagaacttctttccatcaaagcaaacagccccccccccaaaaaaagagaagcaacaaatatcagagacaaaactaataaatcagttggggtatccattttctagatccgccactcaaaaataccatactatttctttaatttacacataactaccaatatgaatattgggtattttctgaggcagtcgttaggcgggaaatgtatatattgaaaatggggagttatgttctgttctaagtgggtatgtgatcgagtattcttacgattaccttcgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn--CG-ATTGCACTTCTTGTTTTTGCA-GATC-------TACACT-------------------AGACT------ATTAT-------CATT--TCAT-------GAATGCTGAGCCTACAACA---TGATAAAGTA
gi|6 : TTAATG-AATA-------TATACT-AGAC-TGTAT-AATG-TTACACTTCTAA-CGAATT----TCCGA-GTT-----TTGATGAATGCTG---CT---ACAGGGTAATAAAGTAAAGTTAAGGCTCCACTTGGAAACCT--G----AAA--ACGCTCCTG-TTTAGTG--GTACCA---CACATCAAACGTAAA---ACAGGCATGACCCATCCACATTTCCTCCGCTTTATGACT---GATG----TTTTG----ACACTTATCGACTTACTCAATTTCAAATGCAATTATTTAACAA-CATG-CT-TCA-AA-TAAGCAA-TTGAAATTT-TAGTTTC--C-TCATTTG---AGCGA----GGAAAATACTTAGACC-----AATTTTCTA-TGA-C--AG-CGTGGGCTAATTAGGGAAA-T
gi|3 : TTTTCCGCATTTCCTCCATTTTATGATTT-GGATGT---TTTTT----ACACGAAT---CTT------------------------AACAACCATG----TCA-ATATTAGTAA-AT-AAATTT-GCCTGTCAAA-TTATTTC---GGTTA-----A-------TCGGATG-----A-TTTTCTACTGATC--AGATGT-GGCTAA-AAAGGAGACTCAGTA-ATA----CCGTGTA-CA--C-ACATGT-AATATTCTCCACAT-GAAATGGACAAA-TGTAATTT-GTAAGTCAATGCAACACT-T-ATATCCCCAC-CTGTTATC---GATTATT
gi|4 : TTTCCGCATT-CCTCCATTTTATGATTTGG-ATG----TTTTTTTTTACAGGAAT---CTTA-----------------------A-CA--CATG-GT-TCA-A--TTAGTAA-TT-AAATTT-GCAGTTCAAA-TTATTTC---GCTGA-----A-------TCAGATG-----A-TTTTCTA---A-C--AG-TGT-GGCTAA-AAAGGAGA-TCA-TA-ATAAATTCCGTGAACCA--C-GCA-GTAAATATTCTC-ACGTGGAAATGGACAAA---TAATTT--T-AGT-----CAACACTGT-AATTCCCCAG-CTG-TATC---G--TATTGTcgtaagtgctatgtattatatatctagaaaaataactgcataagacgtcagattagttagttctactacgcagcgtaaccaaactaaatgggcttttttgctttgtcatcatttagcaggttgcccccccacccccgcccccccaaatatacagcctattaaaatatcaatcatttgaaaaaaaagttcagtctaaaacatcccgcggcaaaatgttaaattcaactttattttattgaatcatattttttttttacttgacataatcgttggaatatataaacaacaaatcttccgaactgaaatccatatttatataaccagtaattgctaccgcgcatcagtcaactctgttatcatctaacgaaacatggcg
gi|10 : TG----TTTTT----ACACGAAT---CTT------------------------AACAA-CATG-GT-TCG-AT-TTAGTAA-TT-AAATTT-GCACTGC-AA-TTATTTC---GGTGAGATTGA-------TCAGATG-----A-TTTTCCA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-Taattgtgtattgtattctcatagaaataacggcaagacgccagatagttttaggtctacacgcgagcgtaacaactaaatgggctttttttgcttgtcacatttagaggtttggccccccccccaaatcatacgcctataaacaatatgttgaaaaaaggttcagtctaaaaatcccgggcgaaaatttttaaattcaattattatttgaataatattttttttttactgacaaatcgttggaatatataacaacaaaatcttcgcactgaatccatatttttacgcagtagatctaccgcaagcatcatgtcaagctcgtttat
gi|7 : GAAT---CTTTT----------------------AACAA-AATGCGTGTCAGAT-TTAGC-AATT-AAGTTTTGCATTTC-AATTTATTTCTGGGGTGA----GA-------CCAGTTGGAGCCATTTT--TA-TGA-CCAGG-TGT-GGCTAA-ACAGG-GA-TCGGTACATAAATTACATGTA-TAGGCGACA-GT--ATATTCTC-A-AT-GAAATGAGCAAATT-TAATTTGGT-AGT-----CAACACT-TGATTTCGCCAGCCTGTTATCTCTG--TATTGtgacaccaacagcgtgcgcgacgtcatatcagtaataaattccgtgtacacac
gi|10 : tA-TCAGTA-ATAAATTCCGTGTA-CA--C-ACcagttgctcgtgttgtattctcatagaaatacttgcaagacgcagtgagatagtagggtctacaacgcgagcagagccaactaaatgggcctttttgttcttgtccacatt
8 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|8 ): GCCTACACCAAATCAGAAAAAGTCGAATATGTGAAAAAGTGTTCAGTCTAAAATCCCGGGCGAAAATTTTAAATTCATTATTTTATTTGAATCATAATTTTTTTAACATAATCGTTGGAATATATACAACAAACTTTCCGATGAAATCCATATTTTATAACGCAGTAGATCTACCGCGGCATCAGTCAAGCTCTTGTTTATTTCAACGTAAACATGGCG
Unaligned ( gi|11 ): GTTCAGTCTAAAAATCCCGGGTGAATAATTCATATTCAATTATTTTTAATTTGAATCATAATTTTTTATTTTTTTTTATACATATTTACATAATCGTTGGAATATATAACAACAAATCTTCCGACTGAAATCCATATTTTATAACGCAGTAGATC
Unaligned ( gi|12 ): ATAGAAATAGCTGGCAAGACGCAGATAGGAGGTCTGCACGTGAGCGGAACCAACTAAATGGCTATTTTAGTGATTTAGAAGTTTGTCCCCCCACCCCAAATCATATTATTAATAAGCTTATAAACAATATGTTGAAAAAAA
Unaligned ( gi|16 ): CTTCCGACTGAATCCAGATATTTTATAACGCACTAGATCTACGCACACAGGCATCAGTCGAAGCTTGTTTAT
Unaligned ( gi|17 ): CTTGCATTGTATTCTCATAGAAATAACTGGTAAGACACAGATAGTAGGTCTGCA
Unaligned ( gi|19 ): GAAATCCATATTTTATAACGCAGTAGATAGATTAATCTACCGCGGCATC
Unaligned ( gi|20 ): TGCGGCATCAGTCAAGCTCTGTTTATTATCTACGTAAACATGGCG
Unaligned ( gi|21 ): ATATAACAACAAATCTTCCGACTGAAATCC
Alignments
lowQualScore : 2 2 6666666666666666666666666666666666666666666666666666666666666666666 1 555555 1 11 1 1 1 555555555555555555555555555555 2222 22222 444444 11 1 1 111 1111 99999999999999999999999999999999 111 1 1 1111 1111111 1 111 222 1111 1111 111 222222222222 1 22 4444444444444 222 2222222 11 111 22222 111 111 1 1 3333333 333 1 11111 44444444444444 1111 1111111 11 11 1 111 3333333333333 11111 11 11 222222 1111 1 222 11 22222 1 1 111111
lowQualScore : 2 0 4 3 0 7777777777777777777777777777777777777777777777777777777777777777777 0 3 111111 2 4 0 3 33 0 0 0 2 444444444444444444444444444444 1111 55555 222222 4 22 2 3 0 0 777 5555 1 55555555555555555555555555555555 777 0 0 4444 8888888 3 3 0 777 222 8888 5555 444 8 333333333333 0 55 3 3 33 4444444444444 666 0 6 6 3 0 6 1111111 6 33 777 6 00000 1 2 99 2 111 111 7 888 1 7 2 7 222 22 3 4444444 6 1 1 1 1 7 1 777 0 0 88 0 66666 33333333333333 4444 8888888 33 00 6666 5 5 8 5 5 2 000 5555555555555 5 44444 5 00 5 77 5 5 5 5 888 7 5 11 0 88 555555 6 999 0000 5 666 88 8 00000 5 1 8 0 555555
lowQualScore : . . . . . ................................................................... . . ...... . . . . .. . . . . .............................. .... ..... ...... . .. . . . . ... .... . ................................ ... . . .... ....... . . . ... ... .... .... ... . ............ . .. . . .. ............. ... . . . . . . ....... . .. ... . ..... . . .. . ... ... . ... . . . . ... .. . ....... . . . . . . . ... . . .. . ..... .............. .... ....... .. .. .... . . . . . . ... ............. . ..... . .. . .. . . . . ... . . .. . .. ...... . ... .... . ... .. . ..... . . . . ......
lowQualScore : 5 0 0 0 0 0000000000000000000000000000000000000000000000000000000000000000000 0 2 555555 5 0 0 2 22 0 0 0 0 000000000000000000000000000000 2222 00000 222222 2 55 5 0 0 0 555 8888 0 22222222222222222222222222222222 555 0 0 8888 8888888 2 2 0 555 000 5555 0000 000 0 888888888888 0 88 2 2 88 3333333333333 000 7 5 7 5 8 7 7777777 7 88 555 7 22222 5 5 22 2 777 777 0 333 0 3 3 3 000 00 3 7777777 7 0 0 0 0 3 0 333 8 6 88 8 77777 55555555555555 2222 6666666 66 77 6666 7 7 7 7 7 0 000 3333333333333 7 33333 7 77 7 99 7 7 7 0 888 9 7 66 6 00 888888 7 000 8888 0 666 00 0 00000 0 0 0 6 000000
consensus : TTAAACAGNACAGCTTTGATAAAAATAANTNGATATAAATAGAAGTTACTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGGGATA-ATGGGACGGTA--C---TGTCCGCTCAANTG-TATGACACAGAG-TACAA-GAG-C-TTTTCTTGAAAT-GTT---T--CAACGCAAAACA-----CCCCCC----AAAA-----AAAAGAT---AAACAAC-AAATATCAGAAACAAANCT-ATAAAT-C---AGTTGGGGTAT--ATTTTCTAGATCCGCCACTCAAAAAT--AC-CATG---------------------AAC---TA-CAAT-AT--A-TA---T-TTGGGGTATTTTTC-TGAGGCAATC-T-GGGG-T-GGG---NGTAT---TTG---AAAAT-GGGAGTTNGG----GTAC-ATAACAAA-TGTCTCCGTTCTAAAA-GTGGG-T-A-ATAT-ACGTGTAAT-GAGTGTTCCCTCG-ATTACACTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-A-TCAAACTTCTAA-AGTAT----ATACAATGATCA--TTTGATGAACGCTGAATCT---ACA---TGATAAAGTAAAATTTTGACATCACGTGGAAACCTCAGGTGAAAATTATATTCAAG-TTTAGTG--GTGA-ACCACAGATCAAACGTTAATTTACAGGC---ACTTTTCCGCATTTCCTCCATTTTATGATTT-GGATGTTTT-----TT---A----------CA----CGAAT-------CTT--AACAA-CATG-GT-TCA-AT-TTAGTAATT-AAATTT-GCATTTCAAATTATTTC---GGTGA----GA-------TCAGA-TG-----A-TTTTCTA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-T---CAGTA-ATAAATTCCGTGTAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA-T-TAATTT-GT-AGT-----CAACACTGTATTTCCCCAG-CTGTTATC---G--TATTGT
Reference ( family-2337 ) : TTAAACAAGACAGCTT-GATAAAAATAAATTGATA-AAATAGAAGTTACTANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGGGATA-ATGGGACGGTA--C---TGTCCGCTCAAATG-TATGACACAGAG-TACAA-GAG-C-TTTTCTCGAAA--GTT---T--CAAC-CAAA-CA-----CCCCCC----AAAA-----AAAAGA----AAGCAAC-AAATATCAGAAACAAAACT-ATAAAT-C---AGTTGGGGTAT--NNTTTCTAGATCCGCCACTNAAAAAN--AC-CATG---------------------AAC---TA-CAAT-AT--A-TA---T-TTGGGGTATTTTTC-TGAGGCAATC-T-GGGG-C-GGG---NGTAT---NTG---AAAAT-GGGAGTTTGG----GTA--ATAACAAA-TGTCTCCGTTCTAAA--GTGGG-T-A-ATATCACGTGTAATCGAGTGCTCCCTCG-ATTACACTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-A-TCAAACTTCTAA-AGTAT----ATACAATGATCA--TTTGATGAACGCTGAGTCT---ACA---TGATAAAGTAAAATTTTGACNCCACNTGGAAACCTCAGGTAAAAATTACGCTCNNG-TTTAGTGCTGTGNNACCACANATCNAANGTNAATTTACNGGCATGACTTTTCCGCATTTCCTCCATTTTATGATTT-GGATGTTTT-----TT---A----------CA----CGAAT-------CTT--AACAA-CATG-GT-TCA-AT-TTAGTAATT-AAATTT-GCATTTCAAATTATTTC---GGTGA----GA-------TCAGA-TG-----A-TTTTCTA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-T---CAGTA-ATAAATTCCGTGTAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA-T-TAATTT-GT-AGT-----CAACACTGTANTTCCCCAG-CTGTTATC---G--TATTGT
gi|1 : TTAAACAAGACAGCTT-GATAAAAATAAATTGATA-AAATAGAAGTTACTA
gi|1 : GGGATA-ATGGG-CGGTA-------ATCCGCTTAATTGATA-GACACAGAA--ACAAAGAGGC-TTTTCTTGAAAAGGTT---TTACAAC-CAAAACA-----CCCCCCCCTCAAAA-----AAAA-----------AC-AAATATCA-AAACAAACCT-ATAAAT-C---AGTTGGGGTAT--CATTTCTAGATCCGCCACTAAAAA-----T-CATG---------------------AAAAAATA-CAATTAT--AATA---TCTTGGAGTATTTTTC-TGAGGCAATC-T-GGGGGT-GGT---GGTAT---ATAGGAAAAAT-GGGAGTTAGGTAACGTACGATAACAAAATG-CTCCGTTCTAAAA-GTGGG-TTATATATCACATGTAAT-AAGTGCTCCCTCGTATTACTCTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-AATCAAACTTCTAAGAGTAT----ATACAATGATCA--TTTGATGAACGCTGAATC----ACA----GATAAAGTAAA-TTTTGA-ATCACGTGGAAACCTCAGGTAAAAATTATATTCAAG-TTTAGTGCTGTGAGACCACAGATCCAAAGTTAATTTCTAGTC------TTTCCGCATT-CCTCCATTTTATGATTT-GGATGTTTT-----TTTTTA----------CA----GGAAT-------CTT--AACA--CATG-GT-TCA-AT-T-AGTAATT-AAATTT-GCAGTTCAAATTATTTC---GCTGA-----A-------TCAGA-TG-----A-TTTTCTA---A-C--AG-TGT-GGCTAA-AAAGGAGA-T---CA-TA-ATAAATTCCGTGAAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA---TAATTT--T-AGT-----CAACACTGTAATTCCCCAG-CTG-TATC---G--TATTGTnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagctgggataatgggcggtaatccgcttaattgatagacacagaaacaaagaggcttttcttgaaaaggttttacaaccaaaacacccccccctcaaaaaaaaacaaatatcaaaacaaacctataaatcagttggggtatcatttctagatccgccactaaaaatcatgaaaaaatacaattataatatcttggagtatttttctgaggcaatctgggggtggtggtatataggaaaaatgggagttaggtaacgtacgataacaaaatgctccgttctaaaagtgggttatatatcacatgtaataagtgctccctcgtattactcttcttcttttagcagatctacactcgaatgtacaaaatcaaacttctaagagtatatacaatgatcatttgatgaacgctgaatcacagataaagtaaattttgaatcacgtggaaacctcaggtaaaaattatattcaagtttagtgctgtgagaccacagatccaaagttaatttctagtctttccgcattcctccattttatgatttggatgtttttttttacaggaatcttaacacatggttcaattagtaattaaatttgcagttcaaattatttcgctgaatcagatgattttctaacagtgtggctaaaaaggagatcataataaattccgtgaaccacgcagtaaatattctcacgtggaaatggacaaataattttagtcaacactgtaattccccagctgtatcgtattgt
gi|10 : ttaaacaagacagcttgataaaaataaattgataaaatagaagttactannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagctTTT-----TT---A----------CA----CGAAT-------CTT--AACAA-CATG-GT-TCG-AT-TTAGTAATT-AAATTT-GCACTGC-AATTATTTC---GGTGAGATTGA-------TCAGA-TG-----A-TTTTCCA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-TTGACACCA-ACAG----CGTGCGC-GACGTCATATCA-GTAATAAATTC----CGTG
gi|10 : tgA-T---CAGTA-ATAAATTCCGTGTACACACtacacac
gi|13 : tgtttttacacgaatcttaacaacatggttcgatttagtaattaaatttgcactgcaattatttcggtgagattgatcagatgattttccatgacagtgtggctaaaaaggagattgacaccaacagcgtgcgcgacgtcatCTCG-ATTACACTTCTTCTTTTAGCA-GTTC-------TACACT-CGAAATGTACAA-AATCAAACTTCTAA-GGTAT----ATGCAATGATCA--TTTGATGAGCGCTGAGTCT---ACA---TGATAAAGTAAGATTTTGA
gi|14 : AAAAATGTACACATG---------------------AAC---TA-CAAT-GT--A-TAATAT-GTGGGGTATTTTTCCTCAGGCAATC-A-GGGG-TTGAG---TATAT---TTG---AAAAT-GGGAGTTTGG----GTA--
gi|15 : CG-ATTGCACTTCTTGTTTTTGCA-GATC---------------------TACA------------CTAG-ACTAT----------T-ATCA--TTTCATGAATGCTGAGCCTACAACA---TGATAAAGTA
gi|18 : AT---TTG---AAAAT-GGGAGTTTGG----GTA--ATAACAAA-AGTCTCCGT--TAAA--GTGGG-
gi|2 : TTAAACAGTACAGCTTTGATAAAAATAATTGGATATAAATAGAAGTTACTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGGGATA-ATGGGACGGTAAAT---TGTC-GCTTAATTG-TATGACACAGAA-TACAA-GAG-C-TTTTCTTGAAAT-GTT---T--CAACACAAAACA-----TCCCCC----AAAA-----GAAAGATA--AAACAA---AATATCAGAAACAAACCT-ATAAAT-CTGCAGTTGGGGTAT--ATTTTCTAGATCCGCCACTCAAAT-----C-CATG---------------------AAC---TA-CAAT-AT--A-TA---T-TTGGAGTATTTT-C-TGAGGCAATC-TTGGGA-T-GGG---GGTAT---ATG---AAAAT-GGGAGTTAGG----GTAC-ATAACAAA-TGTCTCCGTTCTAAAAAGTGGGGT-A-ATAT-ATGTATAA------GTTTC-TCG-ATTACACTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-A-TCAAACTTCTAA-AGTAT----ATACAATGCTCA--TTTGATGAACGCTGAATCT---ACA---TGATAAAGTAAAATTTTGACATCACGTGGAAACCTCAGGT--AAATTATATTCAAGTTTTAGTG--GTAACAC--CAGATCAAATGTTAATTTACAAGT---ACTTTTACGCATTTCCTCCATTTTATGATTTGGGATG-TTT-----TT---A----------CA----CGAAT-------CTTA-AACAA-CATG-GT-TCA-AT-TTAGT-ATT-AAATTT-GCATTTC-AATTATTTC---GGTGA----GA-------TCAGA-TG-----ATTTTTCTA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-T---CAGTA-ATAAATTCCGTGTA--CACA------CA-GTAA-ATATTCT--A-GT-GAAATGGACAAA-T-TAATTT-GT-AGT-----CAACACT-TATTTCCCCAG-CTGTTATC---G--TATTGTgta
gi|3 : TTTTCCGCATTTCCTCCATTTTATGATTT-GGATGTTTT-----TT---A----------CA----CGAAT-------CTT--AACAACCATG----TCA-ATATTAGTAAAT-AAATTT-GCCTGTCAAATTATTTC---GGTTA-----A-------TCGGA-TG-----A-TTTTCTACTGATC--AGATGT-GGCTAA-AAAGGAGACT---CAGTA-ATA----CCGTGTA--CACA------CATGT-A-ATATTCTCCACAT-GAAATGGACAAA-TGTAATTT-GTAAGTCAATGCAACACT-TATATCCCCAC-CTGTTATC---GATTATT
gi|4 : TTTCCGCATT-CCTCCATTTTATGATTT-GGATGTTTT-----TTTTTA----------CA----GGAAT-------CTT--AACA--CATG-GT-TCA-AT-T-AGTAATT-AAATTT-GCAGTTCAAATTATTTC---GCTGA-----A-------TCAGA-TG-----A-TTTTCTA---A-C--AG-TGT-GGCTAA-AAAGGAGA-T---CA-TA-ATAAATTCCGTGAAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA---TAATTT--T-AGT-----CAACACTGTAATTCCCCAG-CTG-TATC---G--TATTGTcgtaagtgctatgtattatatatctagaaaaataactgcataagacgtcagattagttagttctactacgcagcgtaaccaaactaaatgggcttttttgctttgtcatcatttagcaggttgcccccccacccccgcccccccaaatatacagcctattaaaatatcaatcatttgaaaaaaaagttcagtctaaaacatcccgcggcaaaatgttaaattcaactttattttattgaatcatattttttttttacttgacataatcgttggaatatataaacaacaaatcttccgaactgaaatccatatttatataaccagtaattgctaccgcgcatcagtcaactctgttatcatctaacgaaacatggcg
gi|5 : TGCCTGGGGAGAGATGGGAGGGTA--CCTTTGTCCGCTCAAATG-TATCGGACAGAGATACAA-GAA-C-TTCTTTCCA----------T--CAAAGCAAA-CAGCCCCCCCCCC----AAAA-----AAAGAG----AAGCAAC-AAATATCAGAGACAAAACTAATAAAT-C---AGTTGGGGTATCCATTTTCTAGATCCGCCACTCAAAAAT--AC-CATACTATTTCTTTAATTTACACATAAC---TACCAAT-ATGAA-TA---T-T--GGGTA-TTTTC-TGAGGCAGTCGT-TAGG-C-GGGAAATGTATATATTG---AAAATGGGGAGTT-------------------A-TGT-TCTGTTCT-AA--GTGGG-T-A---------TGTGATCGAGTATTCTTACG-ATTAC-CTTCaattgtgtattgtattctcatagaaataacggcaagacgccagatagttttaggtctacacgcgagcgtaacaactaaatgggctttttttgcttgtcacatttagaggtttggccccccccccaaatcatacgcctataaacaatatgttgaaaaaaggttcagtctaaaaatcccgggcgaaaatttttaaattcaattattatttgaataatattttttttttactgacaaatcgttggaatatataacaacaaaatcttcgcactgaatccatatttttacgcagtagatctaccgcaagcatcatgtcaagctcgtttat
gi|5 : ggaaggctagattgTCG-AT-ACACTTCTTTT----GCAAGATCGTCTCTCTACACTGCGA--TGTACAA-A-ATAAACGTCTAA-AGTATGGTAGCACAATGATCATGTTTGATGAACGTGAAATCT---ACA---TGATAAAgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntcgatacacttcttttgcaagatcgtctctctacactgcgatgtacaaaataaacgtctaaagtatggtagcacaatgatcatgtttgatgaacgtgaaatctacatgataaa
gi|6 : ggaaggctagattgtgcctggggagagatgggagggtacctttgtccgctcaaatgtatcggacagagatacaagaacttctttccatcaaagcaaacagccccccccccaaaaaaagagaagcaacaaatatcagagacaaaactaataaatcagttggggtatccattttctagatccgccactcaaaaataccatactatttctttaatttacacataactaccaatatgaatattgggtattttctgaggcagtcgttaggcgggaaatgtatatattgaaaatggggagttatgttctgttctaagtgggtatgtgatcgagtattcttacgattaccttcgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnTTAATG-AATA-------TATACT-AGAC-TGTATAATG-TTACACTTCTAA-CGAAT----TTCCGA--GT----TTTGATGAATGCTG---CT---ACAGGGTAATAAAGTAAAGTTAAGGCTCCACTTGGAAACC-----TGAAA---ACGCTCCTG-TTTAGTG--GT---ACCACACATCAAACGTAAA---ACAGGCATGACCCATCCACATTTCCTCCGCTTTATGACT---GATGTTTTGACACTT---ATCGACTTACTCAATTTCAAATGCAATTATTT--AACAA-CATG-CT-TCA-AA-TAAGCAATTGAAATTT-TAGTTTC--CTCATTTG---AGCGA----GGAAAATACTTAGACCA-----A-TTTTCTA-TGA-C--AG-CGTGGGCTAATTAGGGAAA-T---
gi|7 : GAAT-------CTTTTAACAA-AATGCGTGTCAGAT-TTAGCAATT-AAGTTTTGCATTTCAATTTATTTCTGGGGTGA----GA-------CCAGT-TGGAGCCA-TTTT-TA-TGA-CCAGG-TGT-GGCTAA-ACAGG-GA-T---CGGTACATAAATTACATGTATAGGCGA-----CA-GT---ATATTCT-CA-AT-GAAATGAGCAAATT-TAATTTGGT-AGT-----CAACACTTGATTTCGCCAGCCTGTTATCTCTG--TATTG
gi|9 : tTA-ATGCTACGGTA--CAA-TGTCCGCTCAAATG-TATGACACAGAG-TACAG-GAG-CTTTTTCTTGAAAT-GTTATCT--CACC-C--A-CC-----CACCCC----AAAATGAATAAAAGATTTGAAACAACAAAATATCCGAAACAAAACT-ACGAATCC---AGTTGGGGTAT--cagttgctcgtgttgtattctcatagaaatacttgcaagacgcagtgagatagtagggtctacaacgcgagcagagccaactaaatgggcctttttgttcttgtccacatt
8 sequences could not be aligned to this reference sequence:
Unaligned ( gi|8 ): GCCTACACCAAATCAGAAAAAGTCGAATATGTGAAAAAGTGTTCAGTCTAAAATCCCGGGCGAAAATTTTAAATTCATTATTTTATTTGAATCATAATTTTTTTAACATAATCGTTGGAATATATACAACAAACTTTCCGATGAAATCCATATTTTATAACGCAGTAGATCTACCGCGGCATCAGTCAAGCTCTTGTTTATTTCAACGTAAACATGGCG
Unaligned ( gi|11 ): GTTCAGTCTAAAAATCCCGGGTGAATAATTCATATTCAATTATTTTTAATTTGAATCATAATTTTTTATTTTTTTTTATACATATTTACATAATCGTTGGAATATATAACAACAAATCTTCCGACTGAAATCCATATTTTATAACGCAGTAGATC
Unaligned ( gi|12 ): ATAGAAATAGCTGGCAAGACGCAGATAGGAGGTCTGCACGTGAGCGGAACCAACTAAATGGCTATTTTAGTGATTTAGAAGTTTGTCCCCCCACCCCAAATCATATTATTAATAAGCTTATAAACAATATGTTGAAAAAAA
Unaligned ( gi|16 ): CTTCCGACTGAATCCAGATATTTTATAACGCACTAGATCTACGCACACAGGCATCAGTCGAAGCTTGTTTAT
Unaligned ( gi|17 ): CTTGCATTGTATTCTCATAGAAATAACTGGTAAGACACAGATAGTAGGTCTGCA
Unaligned ( gi|19 ): GAAATCCATATTTTATAACGCAGTAGATAGATTAATCTACCGCGGCATC
Unaligned ( gi|20 ): TGCGGCATCAGTCAAGCTCTGTTTATTATCTACGTAAACATGGCG
Unaligned ( gi|21 ): ATATAACAACAAATCTTCCGACTGAAATCC
Alignments
lowQualScore : 1 1 666666666666666666666666666666666666666666666666666666666666666666 1 555555 1 11 1 1 1 2222222222222 1 2222 11 2222 22222 22222222 11 1 1 111 11 888888888888888888888888888888 111 1 1 1111 1111111 1 111 111 1111 1111 111 222222222 1 1 3333333333333 222 2222222 11 111 22222 111 111 1 1 11 333 3333 1 11111 44444444444444 1111 1111111 11 11 1 111 3333333333333 11111 11 11 222222 1111 1 222 11 22222 1 1 111111
lowQualScore : 1 5 1 1 5 666666666666666666666666666666666666666666666666666666666666666666 0 3 111111 2 1 0 3 33 0 0 0 5555555555555 9 9 1111 33 1111 55555 2 55555555 22 2 1 0 0 777 33 6 3 666666666666666666666666666666 777 0 0 4444 8888888 3 3 0 777 444 8888 5555 444 8 8 222222222 0 55 2 9 0 4444444444444 444 6 6 3 0 6 1111111 99 33 777 6 00000 1 44 99 111 111 7 6 7 2 7 3 88 555 3 7 0000 0 0 88 0 66666 33333333333333 4444 8888888 33 00 6666 5 5 8 5 5 2 000 5555555555555 5 44444 5 00 5 77 5 5 5 5 888 7 5 11 0 88 555555 6 999 0000 5 666 88 8 00000 5 1 8 0 555555
lowQualScore : . . . . . .................................................................. . . ...... . . . . .. . . . ............. . . .... .. .... ..... . ........ .. . . . . ... .. . . .............................. ... . . .... ....... . . . ... ... .... .... ... . . ......... . .. . . . ............. ... . . . . . ....... .. .. ... . ..... . .. .. ... ... . . . . . . .. ... . . .... . . .. . ..... .............. .... ....... .. .. .... . . . . . . ... ............. . ..... . .. . .. . . . . ... . . .. . .. ...... . ... .... . ... .. . ..... . . . . ......
lowQualScore : 0 5 0 0 5 000000000000000000000000000000000000000000000000000000000000000000 0 2 555555 5 0 0 2 22 0 0 0 8888888888888 0 2 2222 88 2222 00000 5 22222222 55 5 0 0 0 555 88 7 2 555555555555555555555555555555 555 0 0 8888 8888888 2 2 0 555 888 5555 4444 000 0 8 333333333 0 88 5 2 0 7777777777777 333 5 7 5 8 7 7777777 22 88 555 7 22222 5 00 22 777 777 0 7 3 0 3 3 33 777 7 3 7777 8 6 88 8 77777 55555555555555 2222 6666666 66 77 6666 7 7 7 7 7 0 000 3333333333333 7 33333 7 77 7 99 7 7 7 0 888 9 7 66 6 00 888888 7 000 8888 0 666 00 0 00000 0 4 0 6 000000
consensus : TTAAACAGNACAGCTTTGATAAAAATAANTNGATATAAATAGAAGTTACTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGGGATA-ATGGGACGGTA--C---TGTCCGCTCAANTG-TATGACACAGAG-TACAA-GAG-C-TTTTCTTGAAA-TGTT---T--CAACGCAAAACA----CC--CCCC----AAAA-----AAAAGAT---AAA-CAAC-AAATATCAGAAACAAANCT-ATAAAT-C---AGTTGGGGTAT--ATTTTCTAGATCCGCCACTCAAAAAT--AC-CATG---------------------AAC---TA-CAAT-AT--A-TA---T-TTGGGGTATTTTTC-TGAGGCAATC-T-GGGG-T-GGG---NGTAT---TTG---AAAAT-GGGAGTTNGG----GTAC-ATAACAAA-TGTCTCCGTTCTAAAA-GTGGG-TAATATA---CGTGTAAT-GAGTGTTCCCTCG-ATTACACTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-A-TCAAACTTCTAA-AGTATA----TACAATGATCAT--TTGATGAACGCTGAATCT---ACA---TGATAAAGTAAAATTTTGACATCACGTGGAAACCTCAGGTGAAAATTATATTCAAG-TTTAGTG--GT-A-ACCACAGATCAAACGTTAATTTACAGGC---ACTTTTCCGCATTTCCTCCATTTTATGATTT-GGATGTTTT-----TT---A----------CA----CGAAT-------CTT--AACAA-CATG-GT-TCA-AT-TTAGTAATT-AAATTT-GCATTTCAAATTATTTC---GGTGA----GA-------TCAGA-TG-----A-TTTTCTA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-T---CAGTA-ATAAATTCCGTGTAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA-T-TAATTT-GT-AGT-----CAACACTGTATTTCCCCAG-CTGTTATC---G--TATTGT
Reference ( family-2337 ) : TTAAACAGNACAGCTTTGATAAAAATAANTNGATATAAATAGAAGTTACTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGGGATA-ATGGGACGGTA--C---TGTCCGCTCAANTG-TATGACACAGAG-TACAA-GAG-C-TTTTCTTGAAA-TGTT---T--CAACGCAAAACA----CC--CCCC----AAAA-----AAAAGAT---AAA-CAAC-AAATATCAGAAACAAANCT-ATAAAT-C---AGTTGGGGTAT--ATTTTCTAGATCCGCCACTCAAAAAT--AC-CATG---------------------AAC---TA-CAAT-AT--A-TA---T-TTGGGGTATTTTTC-TGAGGCAATC-T-GGGG-T-GGG---NGTAT---TTG---AAAAT-GGGAGTTNGG----GTAC-ATAACAAA-TGTCTCCGTTCTAAAA-GTGGG-TAATATA---CGTGTAAT-GAGTGTTCCCTCG-ATTACACTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-A-TCAAACTTCTAA-AGTATA----TACAATGATCAT--TTGATGAACGCTGAATCT---ACA---TGATAAAGTAAAATTTTGACATCACGTGGAAACCTCAGGTGAAAATTATATTCAAG-TTTAGTG--GTGA-ACCACAGATCAAACGTTAATTTACAGGC---ACTTTTCCGCATTTCCTCCATTTTATGATTT-GGATGTTTT-----TT---A----------CA----CGAAT-------CTT--AACAA-CATG-GT-TCA-AT-TTAGTAATT-AAATTT-GCATTTCAAATTATTTC---GGTGA----GA-------TCAGA-TG-----A-TTTTCTA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-T---CAGTA-ATAAATTCCGTGTAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA-T-TAATTT-GT-AGT-----CAACACTGTATTTCCCCAG-CTGTTATC---G--TATTGT
gi|1 : TTAAACAAGACAGCTT-GATAAAAATAAATTGATA-AAATAGAAGTTACTA
gi|1 : GGGATA-ATGGG-CGGTA-------ATCCGCTTAATTGATA-GACACAGAA--ACAAAGAGGC-TTTTCTTGAAAAGGTT---TTACAAC-CAAAACA----CC--CCCCCCTCAAAA-----AAAA------------AC-AAATATCA-AAACAAACCT-ATAAAT-C---AGTTGGGGTAT--CATTTCTAGATCCGCCACT-AAAAAT-----CATG---------------------AAAAAATA-CAATTAT--AATA---TCTTGGAGTATTTTTC-TGAGGCAATC-T-GGGGGT-GGT---GGTAT---ATAGGAAAAAT-GGGAGTTAGGTAACGTACGATAACAAAATG-CTCCGTTCTAAAA-GTGGG-TTATATATCACATGTAAT-AAGTGCTCCCTCGTATTACTCTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-AATCAAACTTCTAAGAGTATA----TACAATGATCAT--TTGATGAACGCTGAATC----ACA----GATAAAGTAAA-TTTTGA-ATCACGTGGAAACCTCAGGTAAAAATTATATTCAAG-TTTAGTGCTGTGAGACCACAGATCCAAAGTTAATTTCTAGTC------TTTCCGCATT-CCTCCATTTTATGATTT-GGATGTTTT-----TTTTTA----------CA----GGAAT-------CTT--AACA--CATG-GT-TCA-AT-T-AGTAATT-AAATTT-GCAGTTCAAATTATTTC---GCTGA-----A-------TCAGA-TG-----A-TTTTCTA---A-C--AG-TGT-GGCTAA-AAAGGAGA-T---CA-TA-ATAAATTCCGTGAAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA---TAATTT--T-AGT-----CAACACTGTAATTCCCCAG-CTG-TATC---G--TATTGTnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagctgggataatgggcggtaatccgcttaattgatagacacagaaacaaagaggcttttcttgaaaaggttttacaaccaaaacacccccccctcaaaaaaaaacaaatatcaaaacaaacctataaatcagttggggtatcatttctagatccgccactaaaaatcatgaaaaaatacaattataatatcttggagtatttttctgaggcaatctgggggtggtggtatataggaaaaatgggagttaggtaacgtacgataacaaaatgctccgttctaaaagtgggttatatatcacatgtaataagtgctccctcgtattactcttcttcttttagcagatctacactcgaatgtacaaaatcaaacttctaagagtatatacaatgatcatttgatgaacgctgaatcacagataaagtaaattttgaatcacgtggaaacctcaggtaaaaattatattcaagtttagtgctgtgagaccacagatccaaagttaatttctagtctttccgcattcctccattttatgatttggatgtttttttttacaggaatcttaacacatggttcaattagtaattaaatttgcagttcaaattatttcgctgaatcagatgattttctaacagtgtggctaaaaaggagatcataataaattccgtgaaccacgcagtaaatattctcacgtggaaatggacaaataattttagtcaacactgtaattccccagctgtatcgtattgt
gi|10 : ttaaacaagacagcttgataaaaataaattgataaaatagaagttactannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagctTTT-----TT---A----------CA----CGAAT-------CTT--AACAA-CATG-GT-TCG-AT-TTAGTAATT-AAATTT-GCACTGC-AATTATTTC---GGTGAGATTGA-------TCAGA-TG-----A-TTTTCCA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-TTGACACCA-ACAG----CGTGCGC-GACGTCATATCA-GTAATAAATTC----CGTG
gi|10 : tgA-T---CAGTA-ATAAATTCCGTGTACACACtacacac
gi|13 : tgtttttacacgaatcttaacaacatggttcgatttagtaattaaatttgcactgcaattatttcggtgagattgatcagatgattttccatgacagtgtggctaaaaaggagattgacaccaacagcgtgcgcgacgtcatCTCG-ATTACACTTCTTCTTTTAGCA-GTTC-------TACACT-CGAAATGTACAA-AATCAAACTTCTAA-GGTATA----TGCAATGATCAT--TTGATGAGCGCTGAGTCT---ACA---TGATAAAGTAAGATTTTGA
gi|14 : AAAAATGTACACATG---------------------AAC---TA-CAAT-GT--A-TAATAT-GTGGGGTATTTTTCCTCAGGCAATC-A-GGGG-TTGAG---TATAT---TTG---AAAAT-GGGAGTTTGG----GTA
gi|15 : CG-ATTGCACTTCTTGTTTTTGCA-GATC-------TACACT------------------AGACT------ATTAT-------CATT--TCAT-------GAATGCTGAGCCTACAACA---TGATAAAGTA
gi|18 : AT---TTG---AAAAT-GGGAGTTTGG----GTA--ATAACAAA-AGTCTCCGTT---AAA-GTGGG-
gi|2 : TTAAACAGTACAGCTTTGATAAAAATAATTGGATATAAATAGAAGTTACTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGGGATA-ATGGGACGGTAAAT---TGTC-GCTTAATTG-TATGACACAGAA-TACAA-GAG-C-TTTTCTTGAAA-TGTT---T--CAACACAAAACA----TC--CCCC----AAAA-----GAAAGAT---AAAACAA---AATATCAGAAACAAACCT-ATAAAT-CTGCAGTTGGGGTAT--ATTTTCTAGATCCGCCACTCAAA--T---C-CATG---------------------AAC---TA-CAAT-AT--A-TA---T-TTGGAGTATTTT-C-TGAGGCAATC-TTGGGA-T-GGG---GGTAT---ATG---AAAAT-GGGAGTTAGG----GTAC-ATAACAAA-TGTCTCCGTTCTAAAAAGTGGGGTAATATA---TGTATAA------GTTTC-TCG-ATTACACTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-A-TCAAACTTCTAA-AGTATA----TACAATGCTCAT--TTGATGAACGCTGAATCT---ACA---TGATAAAGTAAAATTTTGACATCACGTGGAAACCTCAGGT--AAATTATATTCAAGTTTTAGTG--GT-A-ACACCAGATCAAATGTTAATTTACAAGT---ACTTTTACGCATTTCCTCCATTTTATGATTTGGGATG-TTT-----TT---A----------CA----CGAAT-------CTTA-AACAA-CATG-GT-TCA-AT-TTAGT-ATT-AAATTT-GCATTTC-AATTATTTC---GGTGA----GA-------TCAGA-TG-----ATTTTTCTA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-T---CAGTA-ATAAATTCCGTGTA--CACA------CA-GTAA-ATATTCT--A-GT-GAAATGGACAAA-T-TAATTT-GT-AGT-----CAACACT-TATTTCCCCAG-CTGTTATC---G--TATTGTgta
gi|3 : TTTTCCGCATTTCCTCCATTTTATGATTT-GGATGTTTT-----TT---A----------CA----CGAAT-------CTT--AACAACCATG----TCA-ATATTAGTAAAT-AAATTT-GCCTGTCAAATTATTTC---GGTTA-----A-------TCGGA-TG-----A-TTTTCTACTGATC--AGATGT-GGCTAA-AAAGGAGACT---CAGTA-ATA----CCGTGTA--CACA------CATGT-A-ATATTCTCCACAT-GAAATGGACAAA-TGTAATTT-GTAAGTCAATGCAACACT-TATATCCCCAC-CTGTTATC---GATTATT
gi|4 : TTTCCGCATT-CCTCCATTTTATGATTT-GGATGTTTT-----TTTTTA----------CA----GGAAT-------CTT--AACA--CATG-GT-TCA-AT-T-AGTAATT-AAATTT-GCAGTTCAAATTATTTC---GCTGA-----A-------TCAGA-TG-----A-TTTTCTA---A-C--AG-TGT-GGCTAA-AAAGGAGA-T---CA-TA-ATAAATTCCGTGAAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA---TAATTT--T-AGT-----CAACACTGTAATTCCCCAG-CTG-TATC---G--TATTGTcgtaagtgctatgtattatatatctagaaaaataactgcataagacgtcagattagttagttctactacgcagcgtaaccaaactaaatgggcttttttgctttgtcatcatttagcaggttgcccccccacccccgcccccccaaatatacagcctattaaaatatcaatcatttgaaaaaaaagttcagtctaaaacatcccgcggcaaaatgttaaattcaactttattttattgaatcatattttttttttacttgacataatcgttggaatatataaacaacaaatcttccgaactgaaatccatatttatataaccagtaattgctaccgcgcatcagtcaactctgttatcatctaacgaaacatggcg
gi|5 : TGCCTGGGGAGAGATGGGAGGGTA--CCTTTGTCCGCTCAAATG-TATCGGACAGAGATACAA-GAA-C-TTCTTTCCA----------T--CAAAGCAAA-CAGCCCCC--CCCC----CAAA-----AAAAGAG---AAG-CAAC-AAATATCAGAGACAAAACTAATAAAT-C---AGTTGGGGTATCCATTTTCTAGATCCGCCACTCAAAAAT--AC-CATACTATTTCTTTAATTTACACATAAC---TACCAAT-ATGAA-TA---T-T--GGGTA-TTTTC-TGAGGCAGTCGT-TAGG-C-GGGAAATGTATATATTG---AAAATGGGGAGTT-------------------A-TGT-TCTGTTCT--AA-GTGGG-TA----------TGTGATCGAGTATTCTTACG-ATTAC-CTTCaattgtgtattgtattctcatagaaataacggcaagacgccagatagttttaggtctacacgcgagcgtaacaactaaatgggctttttttgcttgtcacatttagaggtttggccccccccccaaatcatacgcctataaacaatatgttgaaaaaaggttcagtctaaaaatcccgggcgaaaatttttaaattcaattattatttgaataatattttttttttactgacaaatcgttggaatatataacaacaaaatcttcgcactgaatccatatttttacgcagtagatctaccgcaagcatcatgtcaagctcgtttat
gi|5 : ggaaggctagattgTCG-AT-ACACTTCTTTT----GCAAGATCGTCTCTCTACACTGCGA--TGTACAA-A-ATAAACGTCTAA-AGTATGGTAGCACAATGATCATGTTTGATGAACGTGAAATCT---ACA---TGATAAAgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntcgatacacttcttttgcaagatcgtctctctacactgcgatgtacaaaataaacgtctaaagtatggtagcacaatgatcatgtttgatgaacgtgaaatctacatgataaa
gi|6 : ggaaggctagattgtgcctggggagagatgggagggtacctttgtccgctcaaatgtatcggacagagatacaagaacttctttccatcaaagcaaacagccccccccccaaaaaaagagaagcaacaaatatcagagacaaaactaataaatcagttggggtatccattttctagatccgccactcaaaaataccatactatttctttaatttacacataactaccaatatgaatattgggtattttctgaggcagtcgttaggcgggaaatgtatatattgaaaatggggagttatgttctgttctaagtgggtatgtgatcgagtattcttacgattaccttcgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnTTAATG-AATA-------TATACT-AGAC-TGTATAATG-TTACACTTCTAA-CGAATT----TCCGA--GT--T--TTGATGAATGCTG---CT---ACAGGGTAATAAAGTAAAGTTAAGGCTCCACTTGGAAACC-----TGAAA---ACGCTCCTG-TTTAGTG--GT---ACCACACATCAAACGTAAA---ACAGGCATGACCCATCCACATTTCCTCCGCTTTATGACT---GATGTTTTGACACTT---ATCGACTTACTCAATTTCAAATGCAATTATTT--AACAA-CATG-CT-TCA-AA-TAAGCAATTGAAATTT-TAGTTTC--CTCATTTG---AGCGA----GGAAAATACTTAGACCA-----A-TTTTCTA-TGA-C--AG-CGTGGGCTAATTAGGGAAA-T---
gi|7 : GAAT-------CTTTTAACAA-AATGCGTGTCAGAT-TTAGCAATT-AAGTTTTGCATTTCAATTTATTTCTGGGGTGA----GA-------CCAGT-TGGAGCCA-TTTT-TA-TGA-CCAGG-TGT-GGCTAA-ACAGG-GA-T---CGGTACATAAATTACATGTATAGGCGA-----CA-GT---ATATTCT-CA-AT-GAAATGAGCAAATT-TAATTTGGT-AGT-----CAACACTTGATTTCGCCAGCCTGTTATCTCTG--TATTG
gi|9 : tTA-ATGCTACGGTA--CAA-TGTCCGCTCAAATG-TATGACACAGAG-TACAG-GAG-CTTTTTCTTGAAA-TGTTATCT--CACC------CA----CCCACCCC----AAAATGAATAAAAGATTTGAAA-CAACAAAATATCCGAAACAAAACT-ACGAATCC---AGTTGGGGTAT--cagttgctcgtgttgtattctcatagaaatacttgcaagacgcagtgagatagtagggtctacaacgcgagcagagccaactaaatgggcctttttgttcttgtccacatt
8 sequences could not be aligned to this reference sequence:
Unaligned ( gi|8 ): GCCTACACCAAATCAGAAAAAGTCGAATATGTGAAAAAGTGTTCAGTCTAAAATCCCGGGCGAAAATTTTAAATTCATTATTTTATTTGAATCATAATTTTTTTAACATAATCGTTGGAATATATACAACAAACTTTCCGATGAAATCCATATTTTATAACGCAGTAGATCTACCGCGGCATCAGTCAAGCTCTTGTTTATTTCAACGTAAACATGGCG
Unaligned ( gi|11 ): GTTCAGTCTAAAAATCCCGGGTGAATAATTCATATTCAATTATTTTTAATTTGAATCATAATTTTTTATTTTTTTTTATACATATTTACATAATCGTTGGAATATATAACAACAAATCTTCCGACTGAAATCCATATTTTATAACGCAGTAGATC
Unaligned ( gi|12 ): ATAGAAATAGCTGGCAAGACGCAGATAGGAGGTCTGCACGTGAGCGGAACCAACTAAATGGCTATTTTAGTGATTTAGAAGTTTGTCCCCCCACCCCAAATCATATTATTAATAAGCTTATAAACAATATGTTGAAAAAAA
Unaligned ( gi|16 ): CTTCCGACTGAATCCAGATATTTTATAACGCACTAGATCTACGCACACAGGCATCAGTCGAAGCTTGTTTAT
Unaligned ( gi|17 ): CTTGCATTGTATTCTCATAGAAATAACTGGTAAGACACAGATAGTAGGTCTGCA
Unaligned ( gi|19 ): GAAATCCATATTTTATAACGCAGTAGATAGATTAATCTACCGCGGCATC
Unaligned ( gi|20 ): TGCGGCATCAGTCAAGCTCTGTTTATTATCTACGTAAACATGGCG
Unaligned ( gi|21 ): ATATAACAACAAATCTTCCGACTGAAATCC
Alignments
lowQualScore : 1 1 666666666666666666666666666666666666666666666666666666666666666666 1 555555 1 11 1 1 1 2222222222222 1 2222 11 2222 22222 22222222 11 1 1 111 11 888888888888888888888888888888 111 1 1 1111 1111111 1 111 111 1111 1111 111 222222222 1 1 3333333333333 222 2222222 11 111 22222 111 111 1 1 11 2222 3333 1 11111 44444444444444 1111 1111111 11 11 1 111 3333333333333 11111 11 11 222222 1111 1 222 11 22222 1 1 111111
lowQualScore : 1 5 1 1 5 666666666666666666666666666666666666666666666666666666666666666666 0 3 111111 2 1 0 3 33 0 0 0 5555555555555 9 9 1111 33 1111 55555 2 55555555 22 2 1 0 0 777 33 6 3 666666666666666666666666666666 777 0 0 4444 8888888 3 3 0 777 444 8888 5555 444 8 8 222222222 0 55 2 9 0 4444444444444 444 6 6 3 0 6 1111111 99 33 777 6 00000 1 44 99 111 111 7 6 7 2 7 3 88 1111 3 7 0000 0 0 88 0 66666 33333333333333 4444 8888888 33 00 6666 5 5 8 5 5 2 000 5555555555555 5 44444 5 00 5 77 5 5 5 5 888 7 5 11 0 88 555555 6 999 0000 5 666 88 8 00000 5 1 8 0 555555
lowQualScore : . . . . . .................................................................. . . ...... . . . . .. . . . ............. . . .... .. .... ..... . ........ .. . . . . ... .. . . .............................. ... . . .... ....... . . . ... ... .... .... ... . . ......... . .. . . . ............. ... . . . . . ....... .. .. ... . ..... . .. .. ... ... . . . . . . .. .... . . .... . . .. . ..... .............. .... ....... .. .. .... . . . . . . ... ............. . ..... . .. . .. . . . . ... . . .. . .. ...... . ... .... . ... .. . ..... . . . . ......
lowQualScore : 0 5 0 0 5 000000000000000000000000000000000000000000000000000000000000000000 0 2 555555 5 0 0 2 22 0 0 0 8888888888888 0 2 2222 88 2222 00000 5 22222222 55 5 0 0 0 555 88 7 2 555555555555555555555555555555 555 0 0 8888 8888888 2 2 0 555 888 5555 4444 000 0 8 333333333 0 88 5 2 0 7777777777777 333 5 7 5 8 7 7777777 22 88 555 7 22222 5 00 22 777 777 0 7 3 0 3 3 33 7777 7 3 7777 8 6 88 8 77777 55555555555555 2222 6666666 66 77 6666 7 7 7 7 7 0 000 3333333333333 7 33333 7 77 7 99 7 7 7 0 888 9 7 66 6 00 888888 7 000 8888 0 666 00 0 00000 0 4 0 6 000000
consensus : TTAAACAGNACAGCTTTGATAAAAATAANTNGATATAAATAGAAGTTACTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGGGATA-ATGGGACGGTA--C---TGTCCGCTCAANTG-TATGACACAGAG-TACAA-GAG-C-TTTTCTTGAAA-TGTT---T--CAACGCAAAACA----CC--CCCC----AAAA-----AAAAGAT---AAA-CAAC-AAATATCAGAAACAAANCT-ATAAAT-C---AGTTGGGGTAT--ATTTTCTAGATCCGCCACTCAAAAAT--AC-CATG---------------------AAC---TA-CAAT-AT--A-TA---T-TTGGGGTATTTTTC-TGAGGCAATC-T-GGGG-T-GGG---NGTAT---TTG---AAAAT-GGGAGTTNGG----GTAC-ATAACAAA-TGTCTCCGTTCTAAAA-GTGGG-TAATATA---CGTGTAAT-GAGTGTTCCCTCG-ATTACACTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-A-TCAAACTTCTAA-AGTATA----TACAATGATCAT--TTGATGAACGCTGAATCT---ACA---TGATAAAGTAAAATTTTGACATCACGTGGAAACCTCAGGTGAAAATTATATTCAAG-TTTAGTG--GTGA--CCACAGATCAAACGTTAATTTACAGGC---ACTTTTCCGCATTTCCTCCATTTTATGATTT-GGATGTTTT-----TT---A----------CA----CGAAT-------CTT--AACAA-CATG-GT-TCA-AT-TTAGTAATT-AAATTT-GCATTTCAAATTATTTC---GGTGA----GA-------TCAGA-TG-----A-TTTTCTA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-T---CAGTA-ATAAATTCCGTGTAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA-T-TAATTT-GT-AGT-----CAACACTGTATTTCCCCAG-CTGTTATC---G--TATTGT
Reference ( family-2337 ) : TTAAACAGNACAGCTTTGATAAAAATAANTNGATATAAATAGAAGTTACTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGGGATA-ATGGGACGGTA--C---TGTCCGCTCAANTG-TATGACACAGAG-TACAA-GAG-C-TTTTCTTGAAA-TGTT---T--CAACGCAAAACA----CC--CCCC----AAAA-----AAAAGAT---AAA-CAAC-AAATATCAGAAACAAANCT-ATAAAT-C---AGTTGGGGTAT--ATTTTCTAGATCCGCCACTCAAAAAT--AC-CATG---------------------AAC---TA-CAAT-AT--A-TA---T-TTGGGGTATTTTTC-TGAGGCAATC-T-GGGG-T-GGG---NGTAT---TTG---AAAAT-GGGAGTTNGG----GTAC-ATAACAAA-TGTCTCCGTTCTAAAA-GTGGG-TAATATA---CGTGTAAT-GAGTGTTCCCTCG-ATTACACTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-A-TCAAACTTCTAA-AGTATA----TACAATGATCAT--TTGATGAACGCTGAATCT---ACA---TGATAAAGTAAAATTTTGACATCACGTGGAAACCTCAGGTGAAAATTATATTCAAG-TTTAGTG--GTAA--CCACAGATCAAACGTTAATTTACAGGC---ACTTTTCCGCATTTCCTCCATTTTATGATTT-GGATGTTTT-----TT---A----------CA----CGAAT-------CTT--AACAA-CATG-GT-TCA-AT-TTAGTAATT-AAATTT-GCATTTCAAATTATTTC---GGTGA----GA-------TCAGA-TG-----A-TTTTCTA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-T---CAGTA-ATAAATTCCGTGTAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA-T-TAATTT-GT-AGT-----CAACACTGTATTTCCCCAG-CTGTTATC---G--TATTGT
gi|1 : TTAAACAAGACAGCTT-GATAAAAATAAATTGATA-AAATAGAAGTTACTA
gi|1 : GGGATA-ATGGG-CGGTA-------ATCCGCTTAATTGATA-GACACAGAA--ACAAAGAGGC-TTTTCTTGAAAAGGTT---TTACAAC-CAAAACA----CC--CCCCCCTCAAAA-----AAAA------------AC-AAATATCA-AAACAAACCT-ATAAAT-C---AGTTGGGGTAT--CATTTCTAGATCCGCCACT-AAAAAT-----CATG---------------------AAAAAATA-CAATTAT--AATA---TCTTGGAGTATTTTTC-TGAGGCAATC-T-GGGGGT-GGT---GGTAT---ATAGGAAAAAT-GGGAGTTAGGTAACGTACGATAACAAAATG-CTCCGTTCTAAAA-GTGGG-TTATATATCACATGTAAT-AAGTGCTCCCTCGTATTACTCTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-AATCAAACTTCTAAGAGTATA----TACAATGATCAT--TTGATGAACGCTGAATC----ACA----GATAAAGTAAA-TTTTGA-ATCACGTGGAAACCTCAGGTAAAAATTATATTCAAG-TTTAGTGCTGTGAGACCACAGATCCAAAGTTAATTTCTAGTC------TTTCCGCATT-CCTCCATTTTATGATTT-GGATGTTTT-----TTTTTA----------CA----GGAAT-------CTT--AACA--CATG-GT-TCA-AT-T-AGTAATT-AAATTT-GCAGTTCAAATTATTTC---GCTGA-----A-------TCAGA-TG-----A-TTTTCTA---A-C--AG-TGT-GGCTAA-AAAGGAGA-T---CA-TA-ATAAATTCCGTGAAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA---TAATTT--T-AGT-----CAACACTGTAATTCCCCAG-CTG-TATC---G--TATTGTnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagctgggataatgggcggtaatccgcttaattgatagacacagaaacaaagaggcttttcttgaaaaggttttacaaccaaaacacccccccctcaaaaaaaaacaaatatcaaaacaaacctataaatcagttggggtatcatttctagatccgccactaaaaatcatgaaaaaatacaattataatatcttggagtatttttctgaggcaatctgggggtggtggtatataggaaaaatgggagttaggtaacgtacgataacaaaatgctccgttctaaaagtgggttatatatcacatgtaataagtgctccctcgtattactcttcttcttttagcagatctacactcgaatgtacaaaatcaaacttctaagagtatatacaatgatcatttgatgaacgctgaatcacagataaagtaaattttgaatcacgtggaaacctcaggtaaaaattatattcaagtttagtgctgtgagaccacagatccaaagttaatttctagtctttccgcattcctccattttatgatttggatgtttttttttacaggaatcttaacacatggttcaattagtaattaaatttgcagttcaaattatttcgctgaatcagatgattttctaacagtgtggctaaaaaggagatcataataaattccgtgaaccacgcagtaaatattctcacgtggaaatggacaaataattttagtcaacactgtaattccccagctgtatcgtattgt
gi|10 : ttaaacaagacagcttgataaaaataaattgataaaatagaagttactannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagctTTT-----TT---A----------CA----CGAAT-------CTT--AACAA-CATG-GT-TCG-AT-TTAGTAATT-AAATTT-GCACTGC-AATTATTTC---GGTGAGATTGA-------TCAGA-TG-----A-TTTTCCA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-TTGACACCA-ACAG----CGTGCGC-GACGTCATATCA-GTAATAAATTC----CGTG
gi|10 : tgA-T---CAGTA-ATAAATTCCGTGTACACACtacacac
gi|13 : tgtttttacacgaatcttaacaacatggttcgatttagtaattaaatttgcactgcaattatttcggtgagattgatcagatgattttccatgacagtgtggctaaaaaggagattgacaccaacagcgtgcgcgacgtcatCTCG-ATTACACTTCTTCTTTTAGCA-GTTC-------TACACT-CGAAATGTACAA-AATCAAACTTCTAA-GGTATA----TGCAATGATCAT--TTGATGAGCGCTGAGTCT---ACA---TGATAAAGTAAGATTTTGA
gi|14 : AAAAATGTACACATG---------------------AAC---TA-CAAT-GT--A-TAATAT-GTGGGGTATTTTTCCTCAGGCAATC-A-GGGG-TTGAG---TATAT---TTG---AAAAT-GGGAGTTTGG----GTA
gi|15 : CG-ATTGCACTTCTTGTTTTTGCA-GATC-------TACACT------------------AGACT------ATTAT-------CATT--TCAT-------GAATGCTGAGCCTACAACA---TGATAAAGTA
gi|18 : AT---TTG---AAAAT-GGGAGTTTGG----GTA--ATAACAAA-AGTCTCCGTT---AAA-GTGGG-
gi|2 : TTAAACAGTACAGCTTTGATAAAAATAATTGGATATAAATAGAAGTTACTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGGGATA-ATGGGACGGTAAAT---TGTC-GCTTAATTG-TATGACACAGAA-TACAA-GAG-C-TTTTCTTGAAA-TGTT---T--CAACACAAAACA----TC--CCCC----AAAA-----GAAAGAT---AAAACAA---AATATCAGAAACAAACCT-ATAAAT-CTGCAGTTGGGGTAT--ATTTTCTAGATCCGCCACTCAAA--T---C-CATG---------------------AAC---TA-CAAT-AT--A-TA---T-TTGGAGTATTTT-C-TGAGGCAATC-TTGGGA-T-GGG---GGTAT---ATG---AAAAT-GGGAGTTAGG----GTAC-ATAACAAA-TGTCTCCGTTCTAAAAAGTGGGGTAATATA---TGTATAA------GTTTC-TCG-ATTACACTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-A-TCAAACTTCTAA-AGTATA----TACAATGCTCAT--TTGATGAACGCTGAATCT---ACA---TGATAAAGTAAAATTTTGACATCACGTGGAAACCTCAGGT--AAATTATATTCAAGTTTTAGTG--GTAA--CACCAGATCAAATGTTAATTTACAAGT---ACTTTTACGCATTTCCTCCATTTTATGATTTGGGATG-TTT-----TT---A----------CA----CGAAT-------CTTA-AACAA-CATG-GT-TCA-AT-TTAGT-ATT-AAATTT-GCATTTC-AATTATTTC---GGTGA----GA-------TCAGA-TG-----ATTTTTCTA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-T---CAGTA-ATAAATTCCGTGTA--CACA------CA-GTAA-ATATTCT--A-GT-GAAATGGACAAA-T-TAATTT-GT-AGT-----CAACACT-TATTTCCCCAG-CTGTTATC---G--TATTGTgta
gi|3 : TTTTCCGCATTTCCTCCATTTTATGATTT-GGATGTTTT-----TT---A----------CA----CGAAT-------CTT--AACAACCATG----TCA-ATATTAGTAAAT-AAATTT-GCCTGTCAAATTATTTC---GGTTA-----A-------TCGGA-TG-----A-TTTTCTACTGATC--AGATGT-GGCTAA-AAAGGAGACT---CAGTA-ATA----CCGTGTA--CACA------CATGT-A-ATATTCTCCACAT-GAAATGGACAAA-TGTAATTT-GTAAGTCAATGCAACACT-TATATCCCCAC-CTGTTATC---GATTATT
gi|4 : TTTCCGCATT-CCTCCATTTTATGATTT-GGATGTTTT-----TTTTTA----------CA----GGAAT-------CTT--AACA--CATG-GT-TCA-AT-T-AGTAATT-AAATTT-GCAGTTCAAATTATTTC---GCTGA-----A-------TCAGA-TG-----A-TTTTCTA---A-C--AG-TGT-GGCTAA-AAAGGAGA-T---CA-TA-ATAAATTCCGTGAAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA---TAATTT--T-AGT-----CAACACTGTAATTCCCCAG-CTG-TATC---G--TATTGTcgtaagtgctatgtattatatatctagaaaaataactgcataagacgtcagattagttagttctactacgcagcgtaaccaaactaaatgggcttttttgctttgtcatcatttagcaggttgcccccccacccccgcccccccaaatatacagcctattaaaatatcaatcatttgaaaaaaaagttcagtctaaaacatcccgcggcaaaatgttaaattcaactttattttattgaatcatattttttttttacttgacataatcgttggaatatataaacaacaaatcttccgaactgaaatccatatttatataaccagtaattgctaccgcgcatcagtcaactctgttatcatctaacgaaacatggcg
gi|5 : TGCCTGGGGAGAGATGGGAGGGTA--CCTTTGTCCGCTCAAATG-TATCGGACAGAGATACAA-GAA-C-TTCTTTCCA----------T--CAAAGCAAA-CAGCCCCC--CCCC----CAAA-----AAAAGAG---AAG-CAAC-AAATATCAGAGACAAAACTAATAAAT-C---AGTTGGGGTATCCATTTTCTAGATCCGCCACTCAAAAAT--AC-CATACTATTTCTTTAATTTACACATAAC---TACCAAT-ATGAA-TA---T-T--GGGTA-TTTTC-TGAGGCAGTCGT-TAGG-C-GGGAAATGTATATATTG---AAAATGGGGAGTT-------------------A-TGT-TCTGTTCT--AA-GTGGG-TA----------TGTGATCGAGTATTCTTACG-ATTAC-CTTCaattgtgtattgtattctcatagaaataacggcaagacgccagatagttttaggtctacacgcgagcgtaacaactaaatgggctttttttgcttgtcacatttagaggtttggccccccccccaaatcatacgcctataaacaatatgttgaaaaaaggttcagtctaaaaatcccgggcgaaaatttttaaattcaattattatttgaataatattttttttttactgacaaatcgttggaatatataacaacaaaatcttcgcactgaatccatatttttacgcagtagatctaccgcaagcatcatgtcaagctcgtttat
gi|5 : ggaaggctagattgTCG-AT-ACACTTCTTTT----GCAAGATCGTCTCTCTACACTGCGA--TGTACAA-A-ATAAACGTCTAA-AGTATGGTAGCACAATGATCATGTTTGATGAACGTGAAATCT---ACA---TGATAAAgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntcgatacacttcttttgcaagatcgtctctctacactgcgatgtacaaaataaacgtctaaagtatggtagcacaatgatcatgtttgatgaacgtgaaatctacatgataaa
gi|6 : ggaaggctagattgtgcctggggagagatgggagggtacctttgtccgctcaaatgtatcggacagagatacaagaacttctttccatcaaagcaaacagccccccccccaaaaaaagagaagcaacaaatatcagagacaaaactaataaatcagttggggtatccattttctagatccgccactcaaaaataccatactatttctttaatttacacataactaccaatatgaatattgggtattttctgaggcagtcgttaggcgggaaatgtatatattgaaaatggggagttatgttctgttctaagtgggtatgtgatcgagtattcttacgattaccttcgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnTTAATG-AATA-------TATACT-AGAC-TGTATAATG-TTACACTTCTAA-CGAATT----TCCGA--GT--T--TTGATGAATGCTG---CT---ACAGGGTAATAAAGTAAAGTTAAGGCTCCACTTGGAAACC-----TGAAA---ACGCTCCTG-TTTAGTG--GT-A--CCACACATCAAACGTAAA---ACAGGCATGACCCATCCACATTTCCTCCGCTTTATGACT---GATGTTTTGACACTT---ATCGACTTACTCAATTTCAAATGCAATTATTT--AACAA-CATG-CT-TCA-AA-TAAGCAATTGAAATTT-TAGTTTC--CTCATTTG---AGCGA----GGAAAATACTTAGACCA-----A-TTTTCTA-TGA-C--AG-CGTGGGCTAATTAGGGAAA-T---
gi|7 : GAAT-------CTTTTAACAA-AATGCGTGTCAGAT-TTAGCAATT-AAGTTTTGCATTTCAATTTATTTCTGGGGTGA----GA-------CCAGT-TGGAGCCA-TTTT-TA-TGA-CCAGG-TGT-GGCTAA-ACAGG-GA-T---CGGTACATAAATTACATGTATAGGCGA-----CA-GT---ATATTCT-CA-AT-GAAATGAGCAAATT-TAATTTGGT-AGT-----CAACACTTGATTTCGCCAGCCTGTTATCTCTG--TATTG
gi|9 : tTA-ATGCTACGGTA--CAA-TGTCCGCTCAAATG-TATGACACAGAG-TACAG-GAG-CTTTTTCTTGAAA-TGTTATCT--CACC------CA----CCCACCCC----AAAATGAATAAAAGATTTGAAA-CAACAAAATATCCGAAACAAAACT-ACGAATCC---AGTTGGGGTAT--cagttgctcgtgttgtattctcatagaaatacttgcaagacgcagtgagatagtagggtctacaacgcgagcagagccaactaaatgggcctttttgttcttgtccacatt
8 sequences could not be aligned to this reference sequence:
Unaligned ( gi|8 ): GCCTACACCAAATCAGAAAAAGTCGAATATGTGAAAAAGTGTTCAGTCTAAAATCCCGGGCGAAAATTTTAAATTCATTATTTTATTTGAATCATAATTTTTTTAACATAATCGTTGGAATATATACAACAAACTTTCCGATGAAATCCATATTTTATAACGCAGTAGATCTACCGCGGCATCAGTCAAGCTCTTGTTTATTTCAACGTAAACATGGCG
Unaligned ( gi|11 ): GTTCAGTCTAAAAATCCCGGGTGAATAATTCATATTCAATTATTTTTAATTTGAATCATAATTTTTTATTTTTTTTTATACATATTTACATAATCGTTGGAATATATAACAACAAATCTTCCGACTGAAATCCATATTTTATAACGCAGTAGATC
Unaligned ( gi|12 ): ATAGAAATAGCTGGCAAGACGCAGATAGGAGGTCTGCACGTGAGCGGAACCAACTAAATGGCTATTTTAGTGATTTAGAAGTTTGTCCCCCCACCCCAAATCATATTATTAATAAGCTTATAAACAATATGTTGAAAAAAA
Unaligned ( gi|16 ): CTTCCGACTGAATCCAGATATTTTATAACGCACTAGATCTACGCACACAGGCATCAGTCGAAGCTTGTTTAT
Unaligned ( gi|17 ): CTTGCATTGTATTCTCATAGAAATAACTGGTAAGACACAGATAGTAGGTCTGCA
Unaligned ( gi|19 ): GAAATCCATATTTTATAACGCAGTAGATAGATTAATCTACCGCGGCATC
Unaligned ( gi|20 ): TGCGGCATCAGTCAAGCTCTGTTTATTATCTACGTAAACATGGCG
Unaligned ( gi|21 ): ATATAACAACAAATCTTCCGACTGAAATCC
Alignments
lowQualScore : 1 1 666666666666666666666666666666666666666666666666666666666666666666 1 555555 1 11 1 1 1 2222222222222 1 2222 11 2222 22222 22222222 11 1 1 111 11 888888888888888888888888888888 111 1 1 1111 1111111 1 111 111 1111 1111 111 222222222 1 1 3333333333333 222 2222222 11 111 22222 111 111 1 1 11 2222 3333 1 11111 44444444444444 1111 1111111 11 11 1 111 3333333333333 11111 11 11 222222 1111 1 222 11 22222 1 1 111111
lowQualScore : 1 5 1 1 5 666666666666666666666666666666666666666666666666666666666666666666 0 3 111111 2 1 0 3 33 0 0 0 5555555555555 9 9 1111 33 1111 55555 2 55555555 22 2 1 0 0 777 33 6 3 666666666666666666666666666666 777 0 0 4444 8888888 3 3 0 777 444 8888 5555 444 8 8 222222222 0 55 2 9 0 4444444444444 444 6 6 3 0 6 1111111 99 33 777 6 00000 1 44 99 111 111 7 6 7 2 7 3 88 1111 3 7 0000 0 0 88 0 66666 33333333333333 4444 8888888 33 00 6666 5 5 8 5 5 2 000 5555555555555 5 44444 5 00 5 77 5 5 5 5 888 7 5 11 0 88 555555 6 999 0000 5 666 88 8 00000 5 1 8 0 555555
lowQualScore : . . . . . .................................................................. . . ...... . . . . .. . . . ............. . . .... .. .... ..... . ........ .. . . . . ... .. . . .............................. ... . . .... ....... . . . ... ... .... .... ... . . ......... . .. . . . ............. ... . . . . . ....... .. .. ... . ..... . .. .. ... ... . . . . . . .. .... . . .... . . .. . ..... .............. .... ....... .. .. .... . . . . . . ... ............. . ..... . .. . .. . . . . ... . . .. . .. ...... . ... .... . ... .. . ..... . . . . ......
lowQualScore : 0 5 0 0 5 000000000000000000000000000000000000000000000000000000000000000000 0 2 555555 5 0 0 2 22 0 0 0 8888888888888 0 2 2222 88 2222 00000 5 22222222 55 5 0 0 0 555 88 7 2 555555555555555555555555555555 555 0 0 8888 8888888 2 2 0 555 888 5555 4444 000 0 8 333333333 0 88 5 2 0 7777777777777 333 5 7 5 8 7 7777777 22 88 555 7 22222 5 00 22 777 777 0 7 3 0 3 3 33 3333 7 3 7777 8 6 88 8 77777 55555555555555 2222 6666666 66 77 6666 7 7 7 7 7 0 000 3333333333333 7 33333 7 77 7 99 7 7 7 0 888 9 7 66 6 00 888888 7 000 8888 0 666 00 0 00000 0 4 0 6 000000
consensus : TTAAACAGNACAGCTTTGATAAAAATAANTNGATATAAATAGAAGTTACTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGGGATA-ATGGGACGGTA--C---TGTCCGCTCAANTG-TATGACACAGAG-TACAA-GAG-C-TTTTCTTGAAA-TGTT---T--CAACGCAAAACA----CC--CCCC----AAAA-----AAAAGAT---AAA-CAAC-AAATATCAGAAACAAANCT-ATAAAT-C---AGTTGGGGTAT--ATTTTCTAGATCCGCCACTCAAAAAT--AC-CATG---------------------AAC---TA-CAAT-AT--A-TA---T-TTGGGGTATTTTTC-TGAGGCAATC-T-GGGG-T-GGG---NGTAT---TTG---AAAAT-GGGAGTTNGG----GTAC-ATAACAAA-TGTCTCCGTTCTAAAA-GTGGG-TAATATA---CGTGTAAT-GAGTGTTCCCTCG-ATTACACTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-A-TCAAACTTCTAA-AGTATA----TACAATGATCAT--TTGATGAACGCTGAATCT---ACA---TGATAAAGTAAAATTTTGACATCACGTGGAAACCTCAGGTGAAAATTATATTCAAG-TTTAGTG--GTGA--CCACAGATCAAACGTTAATTTACAGGC---ACTTTTCCGCATTTCCTCCATTTTATGATTT-GGATGTTTT-----TT---A----------CA----CGAAT-------CTT--AACAA-CATG-GT-TCA-AT-TTAGTAATT-AAATTT-GCATTTCAAATTATTTC---GGTGA----GA-------TCAGA-TG-----A-TTTTCTA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-T---CAGTA-ATAAATTCCGTGTAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA-T-TAATTT-GT-AGT-----CAACACTGTATTTCCCCAG-CTGTTATC---G--TATTGT
Reference ( family-2337 ) : TTAAACAGNACAGCTTTGATAAAAATAANTNGATATAAATAGAAGTTACTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGGGATA-ATGGGACGGTA--C---TGTCCGCTCAANTG-TATGACACAGAG-TACAA-GAG-C-TTTTCTTGAAA-TGTT---T--CAACGCAAAACA----CC--CCCC----AAAA-----AAAAGAT---AAA-CAAC-AAATATCAGAAACAAANCT-ATAAAT-C---AGTTGGGGTAT--ATTTTCTAGATCCGCCACTCAAAAAT--AC-CATG---------------------AAC---TA-CAAT-AT--A-TA---T-TTGGGGTATTTTTC-TGAGGCAATC-T-GGGG-T-GGG---NGTAT---TTG---AAAAT-GGGAGTTNGG----GTAC-ATAACAAA-TGTCTCCGTTCTAAAA-GTGGG-TAATATA---CGTGTAAT-GAGTGTTCCCTCG-ATTACACTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-A-TCAAACTTCTAA-AGTATA----TACAATGATCAT--TTGATGAACGCTGAATCT---ACA---TGATAAAGTAAAATTTTGACATCACGTGGAAACCTCAGGTGAAAATTATATTCAAG-TTTAGTG--GTGA--CCACAGATCAAACGTTAATTTACAGGC---ACTTTTCCGCATTTCCTCCATTTTATGATTT-GGATGTTTT-----TT---A----------CA----CGAAT-------CTT--AACAA-CATG-GT-TCA-AT-TTAGTAATT-AAATTT-GCATTTCAAATTATTTC---GGTGA----GA-------TCAGA-TG-----A-TTTTCTA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-T---CAGTA-ATAAATTCCGTGTAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA-T-TAATTT-GT-AGT-----CAACACTGTATTTCCCCAG-CTGTTATC---G--TATTGT
gi|1 : TTAAACAAGACAGCTT-GATAAAAATAAATTGATA-AAATAGAAGTTACTA
gi|1 : GGGATA-ATGGG-CGGTA-------ATCCGCTTAATTGATA-GACACAGAA--ACAAAGAGGC-TTTTCTTGAAAAGGTT---TTACAAC-CAAAACA----CC--CCCCCCTCAAAA-----AAAA------------AC-AAATATCA-AAACAAACCT-ATAAAT-C---AGTTGGGGTAT--CATTTCTAGATCCGCCACT-AAAAAT-----CATG---------------------AAAAAATA-CAATTAT--AATA---TCTTGGAGTATTTTTC-TGAGGCAATC-T-GGGGGT-GGT---GGTAT---ATAGGAAAAAT-GGGAGTTAGGTAACGTACGATAACAAAATG-CTCCGTTCTAAAA-GTGGG-TTATATATCACATGTAAT-AAGTGCTCCCTCGTATTACTCTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-AATCAAACTTCTAAGAGTATA----TACAATGATCAT--TTGATGAACGCTGAATC----ACA----GATAAAGTAAA-TTTTGA-ATCACGTGGAAACCTCAGGTAAAAATTATATTCAAG-TTTAGTGCTGTGAGACCACAGATCCAAAGTTAATTTCTAGTC------TTTCCGCATT-CCTCCATTTTATGATTT-GGATGTTTT-----TTTTTA----------CA----GGAAT-------CTT--AACA--CATG-GT-TCA-AT-T-AGTAATT-AAATTT-GCAGTTCAAATTATTTC---GCTGA-----A-------TCAGA-TG-----A-TTTTCTA---A-C--AG-TGT-GGCTAA-AAAGGAGA-T---CA-TA-ATAAATTCCGTGAAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA---TAATTT--T-AGT-----CAACACTGTAATTCCCCAG-CTG-TATC---G--TATTGTnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagctgggataatgggcggtaatccgcttaattgatagacacagaaacaaagaggcttttcttgaaaaggttttacaaccaaaacacccccccctcaaaaaaaaacaaatatcaaaacaaacctataaatcagttggggtatcatttctagatccgccactaaaaatcatgaaaaaatacaattataatatcttggagtatttttctgaggcaatctgggggtggtggtatataggaaaaatgggagttaggtaacgtacgataacaaaatgctccgttctaaaagtgggttatatatcacatgtaataagtgctccctcgtattactcttcttcttttagcagatctacactcgaatgtacaaaatcaaacttctaagagtatatacaatgatcatttgatgaacgctgaatcacagataaagtaaattttgaatcacgtggaaacctcaggtaaaaattatattcaagtttagtgctgtgagaccacagatccaaagttaatttctagtctttccgcattcctccattttatgatttggatgtttttttttacaggaatcttaacacatggttcaattagtaattaaatttgcagttcaaattatttcgctgaatcagatgattttctaacagtgtggctaaaaaggagatcataataaattccgtgaaccacgcagtaaatattctcacgtggaaatggacaaataattttagtcaacactgtaattccccagctgtatcgtattgt
gi|10 : ttaaacaagacagcttgataaaaataaattgataaaatagaagttactannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagctTTT-----TT---A----------CA----CGAAT-------CTT--AACAA-CATG-GT-TCG-AT-TTAGTAATT-AAATTT-GCACTGC-AATTATTTC---GGTGAGATTGA-------TCAGA-TG-----A-TTTTCCA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-TTGACACCA-ACAG----CGTGCGC-GACGTCATATCA-GTAATAAATTC----CGTG
gi|10 : tgA-T---CAGTA-ATAAATTCCGTGTACACACtacacac
gi|13 : tgtttttacacgaatcttaacaacatggttcgatttagtaattaaatttgcactgcaattatttcggtgagattgatcagatgattttccatgacagtgtggctaaaaaggagattgacaccaacagcgtgcgcgacgtcatCTCG-ATTACACTTCTTCTTTTAGCA-GTTC-------TACACT-CGAAATGTACAA-AATCAAACTTCTAA-GGTATA----TGCAATGATCAT--TTGATGAGCGCTGAGTCT---ACA---TGATAAAGTAAGATTTTGA
gi|14 : AAAAATGTACACATG---------------------AAC---TA-CAAT-GT--A-TAATAT-GTGGGGTATTTTTCCTCAGGCAATC-A-GGGG-TTGAG---TATAT---TTG---AAAAT-GGGAGTTTGG----GTA
gi|15 : CG-ATTGCACTTCTTGTTTTTGCA-GATC-------TACACT------------------AGACT------ATTAT-------CATT--TCAT-------GAATGCTGAGCCTACAACA---TGATAAAGTA
gi|18 : AT---TTG---AAAAT-GGGAGTTTGG----GTA--ATAACAAA-AGTCTCCGTT---AAA-GTGGG-
gi|2 : TTAAACAGTACAGCTTTGATAAAAATAATTGGATATAAATAGAAGTTACTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGGGATA-ATGGGACGGTAAAT---TGTC-GCTTAATTG-TATGACACAGAA-TACAA-GAG-C-TTTTCTTGAAA-TGTT---T--CAACACAAAACA----TC--CCCC----AAAA-----GAAAGAT---AAAACAA---AATATCAGAAACAAACCT-ATAAAT-CTGCAGTTGGGGTAT--ATTTTCTAGATCCGCCACTCAAA--T---C-CATG---------------------AAC---TA-CAAT-AT--A-TA---T-TTGGAGTATTTT-C-TGAGGCAATC-TTGGGA-T-GGG---GGTAT---ATG---AAAAT-GGGAGTTAGG----GTAC-ATAACAAA-TGTCTCCGTTCTAAAAAGTGGGGTAATATA---TGTATAA------GTTTC-TCG-ATTACACTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-A-TCAAACTTCTAA-AGTATA----TACAATGCTCAT--TTGATGAACGCTGAATCT---ACA---TGATAAAGTAAAATTTTGACATCACGTGGAAACCTCAGGT--AAATTATATTCAAGTTTTAGTG--GTAA--CACCAGATCAAATGTTAATTTACAAGT---ACTTTTACGCATTTCCTCCATTTTATGATTTGGGATG-TTT-----TT---A----------CA----CGAAT-------CTTA-AACAA-CATG-GT-TCA-AT-TTAGT-ATT-AAATTT-GCATTTC-AATTATTTC---GGTGA----GA-------TCAGA-TG-----ATTTTTCTA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-T---CAGTA-ATAAATTCCGTGTA--CACA------CA-GTAA-ATATTCT--A-GT-GAAATGGACAAA-T-TAATTT-GT-AGT-----CAACACT-TATTTCCCCAG-CTGTTATC---G--TATTGTgta
gi|3 : TTTTCCGCATTTCCTCCATTTTATGATTT-GGATGTTTT-----TT---A----------CA----CGAAT-------CTT--AACAACCATG----TCA-ATATTAGTAAAT-AAATTT-GCCTGTCAAATTATTTC---GGTTA-----A-------TCGGA-TG-----A-TTTTCTACTGATC--AGATGT-GGCTAA-AAAGGAGACT---CAGTA-ATA----CCGTGTA--CACA------CATGT-A-ATATTCTCCACAT-GAAATGGACAAA-TGTAATTT-GTAAGTCAATGCAACACT-TATATCCCCAC-CTGTTATC---GATTATT
gi|4 : TTTCCGCATT-CCTCCATTTTATGATTT-GGATGTTTT-----TTTTTA----------CA----GGAAT-------CTT--AACA--CATG-GT-TCA-AT-T-AGTAATT-AAATTT-GCAGTTCAAATTATTTC---GCTGA-----A-------TCAGA-TG-----A-TTTTCTA---A-C--AG-TGT-GGCTAA-AAAGGAGA-T---CA-TA-ATAAATTCCGTGAAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA---TAATTT--T-AGT-----CAACACTGTAATTCCCCAG-CTG-TATC---G--TATTGTcgtaagtgctatgtattatatatctagaaaaataactgcataagacgtcagattagttagttctactacgcagcgtaaccaaactaaatgggcttttttgctttgtcatcatttagcaggttgcccccccacccccgcccccccaaatatacagcctattaaaatatcaatcatttgaaaaaaaagttcagtctaaaacatcccgcggcaaaatgttaaattcaactttattttattgaatcatattttttttttacttgacataatcgttggaatatataaacaacaaatcttccgaactgaaatccatatttatataaccagtaattgctaccgcgcatcagtcaactctgttatcatctaacgaaacatggcg
gi|5 : TGCCTGGGGAGAGATGGGAGGGTA--CCTTTGTCCGCTCAAATG-TATCGGACAGAGATACAA-GAA-C-TTCTTTCCA----------T--CAAAGCAAA-CAGCCCCC--CCCC----CAAA-----AAAAGAG---AAG-CAAC-AAATATCAGAGACAAAACTAATAAAT-C---AGTTGGGGTATCCATTTTCTAGATCCGCCACTCAAAAAT--AC-CATACTATTTCTTTAATTTACACATAAC---TACCAAT-ATGAA-TA---T-T--GGGTA-TTTTC-TGAGGCAGTCGT-TAGG-C-GGGAAATGTATATATTG---AAAATGGGGAGTT-------------------A-TGT-TCTGTTCT--AA-GTGGG-TA----------TGTGATCGAGTATTCTTACG-ATTAC-CTTCaattgtgtattgtattctcatagaaataacggcaagacgccagatagttttaggtctacacgcgagcgtaacaactaaatgggctttttttgcttgtcacatttagaggtttggccccccccccaaatcatacgcctataaacaatatgttgaaaaaaggttcagtctaaaaatcccgggcgaaaatttttaaattcaattattatttgaataatattttttttttactgacaaatcgttggaatatataacaacaaaatcttcgcactgaatccatatttttacgcagtagatctaccgcaagcatcatgtcaagctcgtttat
gi|5 : ggaaggctagattgTCG-AT-ACACTTCTTTT----GCAAGATCGTCTCTCTACACTGCGA--TGTACAA-A-ATAAACGTCTAA-AGTATGGTAGCACAATGATCATGTTTGATGAACGTGAAATCT---ACA---TGATAAAgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntcgatacacttcttttgcaagatcgtctctctacactgcgatgtacaaaataaacgtctaaagtatggtagcacaatgatcatgtttgatgaacgtgaaatctacatgataaa
gi|6 : ggaaggctagattgtgcctggggagagatgggagggtacctttgtccgctcaaatgtatcggacagagatacaagaacttctttccatcaaagcaaacagccccccccccaaaaaaagagaagcaacaaatatcagagacaaaactaataaatcagttggggtatccattttctagatccgccactcaaaaataccatactatttctttaatttacacataactaccaatatgaatattgggtattttctgaggcagtcgttaggcgggaaatgtatatattgaaaatggggagttatgttctgttctaagtgggtatgtgatcgagtattcttacgattaccttcgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnTTAATG-AATA-------TATACT-AGAC-TGTATAATG-TTACACTTCTAA-CGAATT----TCCGA--GT--T--TTGATGAATGCTG---CT---ACAGGGTAATAAAGTAAAGTTAAGGCTCCACTTGGAAACC-----TGAAA---ACGCTCCTG-TTTAGTG--GT-A--CCACACATCAAACGTAAA---ACAGGCATGACCCATCCACATTTCCTCCGCTTTATGACT---GATGTTTTGACACTT---ATCGACTTACTCAATTTCAAATGCAATTATTT--AACAA-CATG-CT-TCA-AA-TAAGCAATTGAAATTT-TAGTTTC--CTCATTTG---AGCGA----GGAAAATACTTAGACCA-----A-TTTTCTA-TGA-C--AG-CGTGGGCTAATTAGGGAAA-T---
gi|7 : GAAT-------CTTTTAACAA-AATGCGTGTCAGAT-TTAGCAATT-AAGTTTTGCATTTCAATTTATTTCTGGGGTGA----GA-------CCAGT-TGGAGCCA-TTTT-TA-TGA-CCAGG-TGT-GGCTAA-ACAGG-GA-T---CGGTACATAAATTACATGTATAGGCGA-----CA-GT---ATATTCT-CA-AT-GAAATGAGCAAATT-TAATTTGGT-AGT-----CAACACTTGATTTCGCCAGCCTGTTATCTCTG--TATTG
gi|9 : tTA-ATGCTACGGTA--CAA-TGTCCGCTCAAATG-TATGACACAGAG-TACAG-GAG-CTTTTTCTTGAAA-TGTTATCT--CACC------CA----CCCACCCC----AAAATGAATAAAAGATTTGAAA-CAACAAAATATCCGAAACAAAACT-ACGAATCC---AGTTGGGGTAT--cagttgctcgtgttgtattctcatagaaatacttgcaagacgcagtgagatagtagggtctacaacgcgagcagagccaactaaatgggcctttttgttcttgtccacatt
blockSeqs : T T T G T G A CCTT C T . T AT . . T AATGTTATCT A A GCCC CA . TGAAT G TTTGAAA CA G C A C TGC CC C A ACCATACTATTTCTTTAATTTACACAT . C . GAA ATATGT T T C TT TT AAAT ATAT . G T GTAC . TC C A A GTAATATATG TCG C . A A GTCTCTC GC AA AA . GGTAG G GA GT ACA GGG A C T G A T . AA T T ATGA T TG GACAC ATCGACTTACT ATTT GCAATTA TT AC CGTG G A T G T A TGG GGAAAATAC C GAGCC T CT T CA A G T C TGA C C AA CA TCATAT T AAT CCAC G TG GG A CAATG G T C T TCTG
blockSeqs : . A AAT C A . T T . . . AATGTTT G . . . . . G TAAAA C G A . . . . C A GTACACATG . . . A TTT T T . GT T T T . . T GTA . TC C . . TA . T . A . . C A TG . A A GC . . . A C . . . . . A C . A T T . TTTA . . A A GT . . T . . A . GATTGA . . . T . . . . . . . G . AA TA A . AA CAC G TT G . . T T . T GAT
blockSeqs : . A CAA . A . T T . . . T . . . . . . G GAAG . G A . . . . . CCATG . . . A TT . . . A C G T . . A . . T . . . . . A . . C C A . A A GA . . . G T T . A . . . A GT . . T . . A . GA . . . T . . . . . . . G . AA C . . AA CA . T G . . . A . T G
blockSeqs : A . . . . A . . A . A . T C G . . . . . . A . . . A GT . . A . . . . GA . . . T . . . . . . . G . AA C . . A C . . . . . . T . . G
blockSeqs : . . . . . . . . . . . . . . . A . . . A CT . . T . . . . A . . . T . . . . . . . G . G . . . . A .
blockSeqs : . . . . . . . . . . . A . . . . . . . . . . . . . . .
blockSeqs : . .
blockSeqCons : *** A* A** A************* A* GA*********** T* CAC* T** G*
originalCons : TTAAACAGNACAGCTTTGATAAAAATAANTNGATATAAATAGAAGTTACTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGGGATA-ATGGGACGGTA--C---TGTCCGCTCAANTG-TATGACACAGAG-TACAA-GAG-C-TTTTCTTGAAA-TGTT---T--CAACGCAAAACA----CC--CCCC----AAAA-----AAAAGAT---AAA-CAAC-AAATATCAGAAACAAANCT-ATAAAT-C---AGTTGGGGTAT--ATTTTCTAGATCCGCCACTCAAAAAT--AC-CATG---------------------AAC---TA-CAAT-AT--A-TA---T-TTGGGGTATTTTTC-TGAGGCAATC-T-GGGG-T-GGG---NGTAT---TTG---AAAAT-GGGAGTTNGG----GTAC-ATAACAAA-TGTCTCCGTTCTAAAA-GTGGG-TAATATA---CGTGTAAT-GAGTGTTCCCTCG-ATTACACTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-A-TCAAACTTCTAA-AGTATA----TACAATGATCAT--TTGATGAACGCTGAATCT---ACA---TGATAAAGTAAAATTTTGACATCACGTGGAAACCTCAGGTGAAAATTATATTCAAG-TTTAGTG--GTGA--CCACAGATCAAACGTTAATTTACAGGC---ACTTTTCCGCATTTCCTCCATTTTATGATTT-GGATGTTTT-----TT---A----------CA----CGAAT-------CTT--AACAA-CATG-GT-TCA-AT-TTAGTAATT-AAATTT-GCATTTCAAATTATTTC---GGTGA----GA-------TCAGA-TG-----A-TTTTCTA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-T---CAGTA-ATAAATTCCGTGTAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA-T-TAATTT-GT-AGT-----CAACACTGTATTTCCCCAG-CTGTTATC---G--TATTGT
finalCons : TTAAACAGNACAGCTTTGATAAAAATAANTNGATATAAATAGAAGTTACTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGGGATA-ATGGGACGGTA--C---TGTCCGCTCAANTG-TATGACACAGAG-TACAA-GAG-C-TTTTCTTGAAA-TGTT---T--CAACGCAAAACA----CC--CCCC----AAAA-----AAAAGAT---AAA-CAAC-AAATATCAGAAACAAANCT-ATAAAT-C---AGTTGGGGTAT--ATTTTCTAGATCCGCCACTCAAAAAT--AC-CATG---------------------AAC---TA-CAAT-AT--A-TA---T-TTGGGGTATTTTTC-TGAGGCAATC-T-GGGG-T-GGG---NGTAT---TTG---AAAAT-GGGAGTTNGG----GTAC-ATAACAAA-TGTCTCCGTTCTAAAA-GTGGG-TAATATA---CGTGTAAT-GAGTGTTCCCTCG-ATTACACTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAAA--TCAAACTTCTAA-AGTATA----TACAATGATCAT--TTGATGAACGCTGAATCT---ACA---TGATAAAGTAAAATTTTGACATCACGTGGAAACCTCAGGTGAAAATTATATTCAAG-TTTAGTG--GTGA--CCACAGATCAAACGTTAATTTACAGGC---ACTTTTCCGCATTTCCTCCATTTTATGATTT-GGATGTTTT-----TTA-------------CA----CGAAT-------CTT--AACAA-CATG-GT-TCA-AT-TTAGTAATT-AAATTT-GCATTTCAAATTATTTC---GGTGAGA-----------TCAGA-TG-----A-TTTTCTAT-GA-C--AG-TGT-GGCTAA-AAAGGAGA-T---CAGTA-ATAAATTCCGTGTAC-CACG------CA-GTAA-ATATTCTCAC-GTGGAAATGGACAAAT--TAATTTG-T-AGT-----CAACACTGTATTTCCCCAG-CTGTTATC---G--TATTGT
8 sequences could not be aligned to this reference sequence:
Unaligned ( gi|8 ): GCCTACACCAAATCAGAAAAAGTCGAATATGTGAAAAAGTGTTCAGTCTAAAATCCCGGGCGAAAATTTTAAATTCATTATTTTATTTGAATCATAATTTTTTTAACATAATCGTTGGAATATATACAACAAACTTTCCGATGAAATCCATATTTTATAACGCAGTAGATCTACCGCGGCATCAGTCAAGCTCTTGTTTATTTCAACGTAAACATGGCG
Unaligned ( gi|11 ): GTTCAGTCTAAAAATCCCGGGTGAATAATTCATATTCAATTATTTTTAATTTGAATCATAATTTTTTATTTTTTTTTATACATATTTACATAATCGTTGGAATATATAACAACAAATCTTCCGACTGAAATCCATATTTTATAACGCAGTAGATC
Unaligned ( gi|12 ): ATAGAAATAGCTGGCAAGACGCAGATAGGAGGTCTGCACGTGAGCGGAACCAACTAAATGGCTATTTTAGTGATTTAGAAGTTTGTCCCCCCACCCCAAATCATATTATTAATAAGCTTATAAACAATATGTTGAAAAAAA
Unaligned ( gi|16 ): CTTCCGACTGAATCCAGATATTTTATAACGCACTAGATCTACGCACACAGGCATCAGTCGAAGCTTGTTTAT
Unaligned ( gi|17 ): CTTGCATTGTATTCTCATAGAAATAACTGGTAAGACACAGATAGTAGGTCTGCA
Unaligned ( gi|19 ): GAAATCCATATTTTATAACGCAGTAGATAGATTAATCTACCGCGGCATC
Unaligned ( gi|20 ): TGCGGCATCAGTCAAGCTCTGTTTATTATCTACGTAAACATGGCG
Unaligned ( gi|21 ): ATATAACAACAAATCTTCCGACTGAAATCC
Alignments
lowQualScore : 1 1 666666666666666666666666666666666666666666666666666666666666666666 1 555555 1 11 1 1 1 2222222222222 1 2222 11 2222 22222 22222222 11 1 1 111 11 888888888888888888888888888888 111 1 1 1111 1111111 1 111 111 1111 1111 111 222222222 1 1 3333333333333 222 2222222 11 111 22222 111 111 1 1 11 2222 3333 1 11111 44444444444444 1111 1111111 11 11 1 111 3333333333333 11111 11 11 222222 1111 1 222 11 22222 1 1 111111
lowQualScore : 1 5 1 1 5 666666666666666666666666666666666666666666666666666666666666666666 0 3 111111 2 1 0 3 33 0 0 0 5555555555555 9 9 1111 33 1111 55555 2 55555555 22 2 1 0 0 777 33 6 3 666666666666666666666666666666 777 0 0 4444 8888888 3 3 0 777 444 8888 5555 444 8 8 222222222 0 55 2 9 0 4444444444444 444 6 6 3 0 6 1111111 99 33 777 6 00000 1 44 99 111 111 7 6 7 2 7 3 88 1111 3 7 0000 0 0 88 0 66666 33333333333333 4444 8888888 33 00 6666 5 5 8 5 5 2 000 5555555555555 5 44444 5 00 5 77 5 5 5 5 888 7 5 11 0 88 555555 6 999 0000 5 666 88 8 00000 5 1 8 0 555555
lowQualScore : . . . . . .................................................................. . . ...... . . . . .. . . . ............. . . .... .. .... ..... . ........ .. . . . . ... .. . . .............................. ... . . .... ....... . . . ... ... .... .... ... . . ......... . .. . . . ............. ... . . . . . ....... .. .. ... . ..... . .. .. ... ... . . . . . . .. .... . . .... . . .. . ..... .............. .... ....... .. .. .... . . . . . . ... ............. . ..... . .. . .. . . . . ... . . .. . .. ...... . ... .... . ... .. . ..... . . . . ......
lowQualScore : 0 5 0 0 5 000000000000000000000000000000000000000000000000000000000000000000 0 2 555555 5 0 0 2 22 0 0 0 8888888888888 0 2 2222 88 2222 00000 5 22222222 55 5 0 0 0 555 88 7 2 555555555555555555555555555555 555 0 0 8888 8888888 2 2 0 555 888 5555 4444 000 0 8 333333333 0 88 5 2 0 7777777777777 333 5 7 5 8 7 7777777 22 88 555 7 22222 5 00 22 777 777 0 7 3 0 3 3 33 3333 7 3 7777 8 6 88 8 77777 55555555555555 2222 6666666 66 77 6666 7 7 7 7 7 0 000 3333333333333 7 33333 7 77 7 99 7 7 7 0 888 9 7 66 6 00 888888 7 000 8888 0 666 00 0 00000 0 4 0 6 000000
consensus : TTAAACAGNACAGCTTTGATAAAAATAANTNGATATAAATAGAAGTTACTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGGGATA-ATGGGACGGTA--C---TGTCCGCTCAANTG-TATGACACAGAG-TACAA-GAG-C-TTTTCTTGAAA-TGTT---T--CAACGCAAAACA----CC--CCCC----AAAA-----AAAAGAT---AAA-CAAC-AAATATCAGAAACAAANCT-ATAAAT-C---AGTTGGGGTAT--ATTTTCTAGATCCGCCACTCAAAAAT--AC-CATG---------------------AAC---TA-CAAT-AT--A-TA---T-TTGGGGTATTTTTC-TGAGGCAATC-T-GGGG-T-GGG---NGTAT---TTG---AAAAT-GGGAGTTNGG----GTAC-ATAACAAA-TGTCTCCGTTCTAAAA-GTGGG-TAATATA---CGTGTAAT-GAGTGTTCCCTCG-ATTACACTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-A-TCAAACTTCTAA-AGTATA----TACAATGATCAT--TTGATGAACGCTGAATCT---ACA---TGATAAAGTAAAATTTTGACATCACGTGGAAACCTCAGGTGAAAATTATATTCAAG-TTTAGTG--GTGA--CCACAGATCAAACGTTAATTTACAGGC---ACTTTTCCGCATTTCCTCCATTTTATGATTT-GGATGTTTT-----TT---A----------CA----CGAAT-------CTT--AACAA-CATG-GT-TCA-AT-TTAGTAATT-AAATTT-GCATTTCAAATTATTTC---GGTGA----GA-------TCAGA-TG-----A-TTTTCTA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-T---CAGTA-ATAAATTCCGTGTAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA-T-TAATTT-GT-AGT-----CAACACTGTATTTCCCCAG-CTGTTATC---G--TATTGT
Reference ( family-2337 ) : TTAAACAGNACAGCTTTGATAAAAATAANTNGATATAAATAGAAGTTACTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGGGATA-ATGGGACGGTA--C---TGTCCGCTCAANTG-TATGACACAGAG-TACAA-GAG-C-TTTTCTTGAAA-TGTT---T--CAACGCAAAACA----CC--CCCC----AAAA-----AAAAGAT---AAA-CAAC-AAATATCAGAAACAAANCT-ATAAAT-C---AGTTGGGGTAT--ATTTTCTAGATCCGCCACTCAAAAAT--AC-CATG---------------------AAC---TA-CAAT-AT--A-TA---T-TTGGGGTATTTTTC-TGAGGCAATC-T-GGGG-T-GGG---NGTAT---TTG---AAAAT-GGGAGTTNGG----GTAC-ATAACAAA-TGTCTCCGTTCTAAAA-GTGGG-TAATATA---CGTGTAAT-GAGTGTTCCCTCG-ATTACACTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-A-TCAAACTTCTAA-AGTATA----TACAATGATCAT--TTGATGAACGCTGAATCT---ACA---TGATAAAGTAAAATTTTGACATCACGTGGAAACCTCAGGTGAAAATTATATTCAAG-TTTAGTG--GTGA--CCACAGATCAAACGTTAATTTACAGGC---ACTTTTCCGCATTTCCTCCATTTTATGATTT-GGATGTTTT-----TT---A----------CA----CGAAT-------CTT--AACAA-CATG-GT-TCA-AT-TTAGTAATT-AAATTT-GCATTTCAAATTATTTC---GGTGA----GA-------TCAGA-TG-----A-TTTTCTA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-T---CAGTA-ATAAATTCCGTGTAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA-T-TAATTT-GT-AGT-----CAACACTGTATTTCCCCAG-CTGTTATC---G--TATTGT
gi|1 : TTAAACAAGACAGCTT-GATAAAAATAAATTGATA-AAATAGAAGTTACTA
gi|1 : GGGATA-ATGGG-CGGTA-------ATCCGCTTAATTGATA-GACACAGAA--ACAAAGAGGC-TTTTCTTGAAAAGGTT---TTACAAC-CAAAACA----CC--CCCCCCTCAAAA-----AAAA------------AC-AAATATCA-AAACAAACCT-ATAAAT-C---AGTTGGGGTAT--CATTTCTAGATCCGCCACT-AAAAAT-----CATG---------------------AAAAAATA-CAATTAT--AATA---TCTTGGAGTATTTTTC-TGAGGCAATC-T-GGGGGT-GGT---GGTAT---ATAGGAAAAAT-GGGAGTTAGGTAACGTACGATAACAAAATG-CTCCGTTCTAAAA-GTGGG-TTATATATCACATGTAAT-AAGTGCTCCCTCGTATTACTCTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-AATCAAACTTCTAAGAGTATA----TACAATGATCAT--TTGATGAACGCTGAATC----ACA----GATAAAGTAAA-TTTTGA-ATCACGTGGAAACCTCAGGTAAAAATTATATTCAAG-TTTAGTGCTGTGAGACCACAGATCCAAAGTTAATTTCTAGTC------TTTCCGCATT-CCTCCATTTTATGATTT-GGATGTTTT-----TTTTTA----------CA----GGAAT-------CTT--AACA--CATG-GT-TCA-AT-T-AGTAATT-AAATTT-GCAGTTCAAATTATTTC---GCTGA-----A-------TCAGA-TG-----A-TTTTCTA---A-C--AG-TGT-GGCTAA-AAAGGAGA-T---CA-TA-ATAAATTCCGTGAAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA---TAATTT--T-AGT-----CAACACTGTAATTCCCCAG-CTG-TATC---G--TATTGTnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagctgggataatgggcggtaatccgcttaattgatagacacagaaacaaagaggcttttcttgaaaaggttttacaaccaaaacacccccccctcaaaaaaaaacaaatatcaaaacaaacctataaatcagttggggtatcatttctagatccgccactaaaaatcatgaaaaaatacaattataatatcttggagtatttttctgaggcaatctgggggtggtggtatataggaaaaatgggagttaggtaacgtacgataacaaaatgctccgttctaaaagtgggttatatatcacatgtaataagtgctccctcgtattactcttcttcttttagcagatctacactcgaatgtacaaaatcaaacttctaagagtatatacaatgatcatttgatgaacgctgaatcacagataaagtaaattttgaatcacgtggaaacctcaggtaaaaattatattcaagtttagtgctgtgagaccacagatccaaagttaatttctagtctttccgcattcctccattttatgatttggatgtttttttttacaggaatcttaacacatggttcaattagtaattaaatttgcagttcaaattatttcgctgaatcagatgattttctaacagtgtggctaaaaaggagatcataataaattccgtgaaccacgcagtaaatattctcacgtggaaatggacaaataattttagtcaacactgtaattccccagctgtatcgtattgt
gi|10 : ttaaacaagacagcttgataaaaataaattgataaaatagaagttactannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagctTTT-----TT---A----------CA----CGAAT-------CTT--AACAA-CATG-GT-TCG-AT-TTAGTAATT-AAATTT-GCACTGC-AATTATTTC---GGTGAGATTGA-------TCAGA-TG-----A-TTTTCCA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-TTGACACCA-ACAG----CGTGCGC-GACGTCATATCA-GTAATAAATTC----CGTG
gi|10 : tgA-T---CAGTA-ATAAATTCCGTGTACACACtacacac
gi|13 : tgtttttacacgaatcttaacaacatggttcgatttagtaattaaatttgcactgcaattatttcggtgagattgatcagatgattttccatgacagtgtggctaaaaaggagattgacaccaacagcgtgcgcgacgtcatCTCG-ATTACACTTCTTCTTTTAGCA-GTTC-------TACACT-CGAAATGTACAA-AATCAAACTTCTAA-GGTATA----TGCAATGATCAT--TTGATGAGCGCTGAGTCT---ACA---TGATAAAGTAAGATTTTGA
gi|14 : AAAAATGTACACATG---------------------AAC---TA-CAAT-GT--A-TAATAT-GTGGGGTATTTTTCCTCAGGCAATC-A-GGGG-TTGAG---TATAT---TTG---AAAAT-GGGAGTTTGG----GTA
gi|15 : CG-ATTGCACTTCTTGTTTTTGCA-GATC-------TACACT------------------AGACT------ATTAT-------CATT--TCAT-------GAATGCTGAGCCTACAACA---TGATAAAGTA
gi|18 : AT---TTG---AAAAT-GGGAGTTTGG----GTA--ATAACAAA-AGTCTCCGTT---AAA-GTGGG-
gi|2 : TTAAACAGTACAGCTTTGATAAAAATAATTGGATATAAATAGAAGTTACTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGGGATA-ATGGGACGGTAAAT---TGTC-GCTTAATTG-TATGACACAGAA-TACAA-GAG-C-TTTTCTTGAAA-TGTT---T--CAACACAAAACA----TC--CCCC----AAAA-----GAAAGAT---AAAACAA---AATATCAGAAACAAACCT-ATAAAT-CTGCAGTTGGGGTAT--ATTTTCTAGATCCGCCACTCAAA--T---C-CATG---------------------AAC---TA-CAAT-AT--A-TA---T-TTGGAGTATTTT-C-TGAGGCAATC-TTGGGA-T-GGG---GGTAT---ATG---AAAAT-GGGAGTTAGG----GTAC-ATAACAAA-TGTCTCCGTTCTAAAAAGTGGGGTAATATA---TGTATAA------GTTTC-TCG-ATTACACTTCTTCTTTTAGCA-GATC-------TACACT-CGAA-TGTACAA-A-TCAAACTTCTAA-AGTATA----TACAATGCTCAT--TTGATGAACGCTGAATCT---ACA---TGATAAAGTAAAATTTTGACATCACGTGGAAACCTCAGGT--AAATTATATTCAAGTTTTAGTG--GTAA--CACCAGATCAAATGTTAATTTACAAGT---ACTTTTACGCATTTCCTCCATTTTATGATTTGGGATG-TTT-----TT---A----------CA----CGAAT-------CTTA-AACAA-CATG-GT-TCA-AT-TTAGT-ATT-AAATTT-GCATTTC-AATTATTTC---GGTGA----GA-------TCAGA-TG-----ATTTTTCTA-TGA-C--AG-TGT-GGCTAA-AAAGGAGA-T---CAGTA-ATAAATTCCGTGTA--CACA------CA-GTAA-ATATTCT--A-GT-GAAATGGACAAA-T-TAATTT-GT-AGT-----CAACACT-TATTTCCCCAG-CTGTTATC---G--TATTGTgta
gi|3 : TTTTCCGCATTTCCTCCATTTTATGATTT-GGATGTTTT-----TT---A----------CA----CGAAT-------CTT--AACAACCATG----TCA-ATATTAGTAAAT-AAATTT-GCCTGTCAAATTATTTC---GGTTA-----A-------TCGGA-TG-----A-TTTTCTACTGATC--AGATGT-GGCTAA-AAAGGAGACT---CAGTA-ATA----CCGTGTA--CACA------CATGT-A-ATATTCTCCACAT-GAAATGGACAAA-TGTAATTT-GTAAGTCAATGCAACACT-TATATCCCCAC-CTGTTATC---GATTATT
gi|4 : TTTCCGCATT-CCTCCATTTTATGATTT-GGATGTTTT-----TTTTTA----------CA----GGAAT-------CTT--AACA--CATG-GT-TCA-AT-T-AGTAATT-AAATTT-GCAGTTCAAATTATTTC---GCTGA-----A-------TCAGA-TG-----A-TTTTCTA---A-C--AG-TGT-GGCTAA-AAAGGAGA-T---CA-TA-ATAAATTCCGTGAAC-CACG------CA-GTAA-ATATTCT-CACGTGGAAATGGACAAA---TAATTT--T-AGT-----CAACACTGTAATTCCCCAG-CTG-TATC---G--TATTGTcgtaagtgctatgtattatatatctagaaaaataactgcataagacgtcagattagttagttctactacgcagcgtaaccaaactaaatgggcttttttgctttgtcatcatttagcaggttgcccccccacccccgcccccccaaatatacagcctattaaaatatcaatcatttgaaaaaaaagttcagtctaaaacatcccgcggcaaaatgttaaattcaactttattttattgaatcatattttttttttacttgacataatcgttggaatatataaacaacaaatcttccgaactgaaatccatatttatataaccagtaattgctaccgcgcatcagtcaactctgttatcatctaacgaaacatggcg
gi|5 : TGCCTGGGGAGAGATGGGAGGGTA--CCTTTGTCCGCTCAAATG-TATCGGACAGAGATACAA-GAA-C-TTCTTTCCA----------T--CAAAGCAAA-CAGCCCCC--CCCC----CAAA-----AAAAGAG---AAG-CAAC-AAATATCAGAGACAAAACTAATAAAT-C---AGTTGGGGTATCCATTTTCTAGATCCGCCACTCAAAAAT--AC-CATACTATTTCTTTAATTTACACATAAC---TACCAAT-ATGAA-TA---T-T--GGGTA-TTTTC-TGAGGCAGTCGT-TAGG-C-GGGAAATGTATATATTG---AAAATGGGGAGTT-------------------A-TGT-TCTGTTCT--AA-GTGGG-TA----------TGTGATCGAGTATTCTTACG-ATTAC-CTTCaattgtgtattgtattctcatagaaataacggcaagacgccagatagttttaggtctacacgcgagcgtaacaactaaatgggctttttttgcttgtcacatttagaggtttggccccccccccaaatcatacgcctataaacaatatgttgaaaaaaggttcagtctaaaaatcccgggcgaaaatttttaaattcaattattatttgaataatattttttttttactgacaaatcgttggaatatataacaacaaaatcttcgcactgaatccatatttttacgcagtagatctaccgcaagcatcatgtcaagctcgtttat
gi|5 : ggaaggctagattgTCG-AT-ACACTTCTTTT----GCAAGATCGTCTCTCTACACTGCGA--TGTACAA-A-ATAAACGTCTAA-AGTATGGTAGCACAATGATCATGTTTGATGAACGTGAAATCT---ACA---TGATAAAgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntcgatacacttcttttgcaagatcgtctctctacactgcgatgtacaaaataaacgtctaaagtatggtagcacaatgatcatgtttgatgaacgtgaaatctacatgataaa
gi|6 : ggaaggctagattgtgcctggggagagatgggagggtacctttgtccgctcaaatgtatcggacagagatacaagaacttctttccatcaaagcaaacagccccccccccaaaaaaagagaagcaacaaatatcagagacaaaactaataaatcagttggggtatccattttctagatccgccactcaaaaataccatactatttctttaatttacacataactaccaatatgaatattgggtattttctgaggcagtcgttaggcgggaaatgtatatattgaaaatggggagttatgttctgttctaagtgggtatgtgatcgagtattcttacgattaccttcgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnTTAATG-AATA-------TATACT-AGAC-TGTATAATG-TTACACTTCTAA-CGAATT----TCCGA--GT--T--TTGATGAATGCTG---CT---ACAGGGTAATAAAGTAAAGTTAAGGCTCCACTTGGAAACC-----TGAAA---ACGCTCCTG-TTTAGTG--GT-A--CCACACATCAAACGTAAA---ACAGGCATGACCCATCCACATTTCCTCCGCTTTATGACT---GATGTTTTGACACTT---ATCGACTTACTCAATTTCAAATGCAATTATTT--AACAA-CATG-CT-TCA-AA-TAAGCAATTGAAATTT-TAGTTTC--CTCATTTG---AGCGA----GGAAAATACTTAGACCA-----A-TTTTCTA-TGA-C--AG-CGTGGGCTAATTAGGGAAA-T---
gi|7 : GAAT-------CTTTTAACAA-AATGCGTGTCAGAT-TTAGCAATT-AAGTTTTGCATTTCAATTTATTTCTGGGGTGA----GA-------CCAGT-TGGAGCCA-TTTT-TA-TGA-CCAGG-TGT-GGCTAA-ACAGG-GA-T---CGGTACATAAATTACATGTATAGGCGA-----CA-GT---ATATTCT-CA-AT-GAAATGAGCAAATT-TAATTTGGT-AGT-----CAACACTTGATTTCGCCAGCCTGTTATCTCTG--TATTG
gi|9 : tTA-ATGCTACGGTA--CAA-TGTCCGCTCAAATG-TATGACACAGAG-TACAG-GAG-CTTTTTCTTGAAA-TGTTATCT--CACC------CA----CCCACCCC----AAAATGAATAAAAGATTTGAAA-CAACAAAATATCCGAAACAAAACT-ACGAATCC---AGTTGGGGTAT--cagttgctcgtgttgtattctcatagaaatacttgcaagacgcagtgagatagtagggtctacaacgcgagcagagccaactaaatgggcctttttgttcttgtccacatt
8 sequences could not be aligned to this reference sequence:
Unaligned ( gi|8 ): GCCTACACCAAATCAGAAAAAGTCGAATATGTGAAAAAGTGTTCAGTCTAAAATCCCGGGCGAAAATTTTAAATTCATTATTTTATTTGAATCATAATTTTTTTAACATAATCGTTGGAATATATACAACAAACTTTCCGATGAAATCCATATTTTATAACGCAGTAGATCTACCGCGGCATCAGTCAAGCTCTTGTTTATTTCAACGTAAACATGGCG
Unaligned ( gi|11 ): GTTCAGTCTAAAAATCCCGGGTGAATAATTCATATTCAATTATTTTTAATTTGAATCATAATTTTTTATTTTTTTTTATACATATTTACATAATCGTTGGAATATATAACAACAAATCTTCCGACTGAAATCCATATTTTATAACGCAGTAGATC
Unaligned ( gi|12 ): ATAGAAATAGCTGGCAAGACGCAGATAGGAGGTCTGCACGTGAGCGGAACCAACTAAATGGCTATTTTAGTGATTTAGAAGTTTGTCCCCCCACCCCAAATCATATTATTAATAAGCTTATAAACAATATGTTGAAAAAAA
Unaligned ( gi|16 ): CTTCCGACTGAATCCAGATATTTTATAACGCACTAGATCTACGCACACAGGCATCAGTCGAAGCTTGTTTAT
Unaligned ( gi|17 ): CTTGCATTGTATTCTCATAGAAATAACTGGTAAGACACAGATAGTAGGTCTGCA
Unaligned ( gi|19 ): GAAATCCATATTTTATAACGCAGTAGATAGATTAATCTACCGCGGCATC
Unaligned ( gi|20 ): TGCGGCATCAGTCAAGCTCTGTTTATTATCTACGTAAACATGGCG
Unaligned ( gi|21 ): ATATAACAACAAATCTTCCGACTGAAATCC