lowQualScore : 111111111111111111
lowQualScore : 1 1 2222222222 11111111111 444444444444444444444 2222222222222 999999999999999 7777777777777777777777777 111111 1 444444444 11111111111 111111 111 1 1 44444444 3333 22222222 11 1111 7777777777 1 1 1 4444444444444444444444444 11 111 222222 1 2 1 2222 1 7777777777777777777777777 1 1 222 1 222222 222222222 11 2222 11 111 1 1 88888888888888888888 1 2 22 111 22 11 4444 1 111 444444444444444444 1 1 33 333 11 1 555 1
lowQualScore : 1 8 3 3 4 3 4 2 7777 2222222222 99999999999 000000000000000000000 4 3 6666666666666 6 55 3 444444444444444 4 5 99 4 0000000000000000000000000 55 8888 111111 5 7 6 111111111 66666666666 666666 1 4 6 888 5 1 5 0 0 88888888 1111 0 00000000 6 2 22 9999 1111111111 2 1 4 4 5 3 5 9999999999999999999999999 7 7 3 2 0 22 444 1 888888 2 0 2 4 5 888 8 1111 3 2 9 0 6 1111111111111111111111111 3 0 5 666 1 2 1 1 888888 1 7 888888888 33 2 0 6 0 4444 33 2 555 0 0 3 9 0 77777777777777777777 6 999999 6 5 2 2 0 3 77 33 444 1 7 00 7 88 4444 3 3 666 222222222222222222 5 7 6 6 6 6 00 888 22 6 5 222 5
lowQualScore : . . . . . . . . .... .......... ........... ..................... . . ............. . .. . ............... . . .. . ......................... .. .... ...... . . . ......... ........... ...... . . . ... . . . . . ........ .... . ........ . . .. .... .......... . . . . . . . ......................... . . . . . .. ... . ...... . . . . . ... . .... . . . . . ......................... . . . ... . . . . ...... . . ......... .. . . . . .... .. . ... . . . . . .................... . ...... . . . . . . .. .. ... . . .. . .. .... . . ... .................. . . . . . . .. ... .. . . ... .
lowQualScore : 5 9 6 3 7 3 8 7 7777 2222222222 00000000000 555555555555555555555 0 2 8888888888888 0 66 4 444444444444444 5 6 44 0 8888888888888888888888888 55 5555 555555 0 8 9 222222222 22222222222 666666 8 8 0 555 0 0 0 3 2 00000000 5555 7 33333333 0 5 00 5555 0000000000 5 5 0 0 0 0 5 8888888888888888888888888 3 3 0 5 2 55 000 2 888888 2 0 8 2 0 000 8 2222 2 2 8 0 5 8888888888888888888888888 3 7 0 333 0 0 0 0 888888 2 0 000000000 88 0 8 5 2 5555 88 0 888 0 0 0 0 7 00000000000000000000 7 222222 0 5 5 5 0 0 00 00 777 0 3 33 7 33 7777 7 3 777 555555555555555555 0 0 0 0 0 0 00 000 00 0 0 000 0
consensus : CTACGTTGATCTATC-AAACTT-GATAA-TTACTCAACGGTGCGC----AAAGAAAGA----AGGAT-AGAAT-----------ATAAT--------TN-----------GAGAA-AATAA-------ATA---ATACAAAT-CAGGTATACAT--A------T-ATAAAGAGAAATATATAAAGGGCTATAGCCGT-ATTAGATATGTG------TACT---AAG-A---AA-NA--TATAA----AATACTAA------AGATATAGAAGAAAGGAATTCCCAGCTATTTTTCACCCGACGAAGACAAACCGTTC-TG-GCTTCCGTGG-------CG--GTACCA--GGGTTTTNAACCCCGCCAGCATCG-CAATGTCCTGTCGTTGGTTGGGCTACGTCATAGCTGGGACAAAAA---AACCATTTTAGATCNGACTGGAGAAAAGCTCCTTCTTGGA-G-TACCAAGGAGGGGGCCTCAGCAATANATGCTGGTAGTCTGTTCCAAGTACGGATGGCCCGTCCTAGGGAANAGNCTGNACTTGNAGTAGTCGGTAGATGGAGCCAAGTANTNTTGGTACGTCTTGCACGAGTGAGNTGNTCTNGTTCTGG--TTGTT------GCTAG-AGTGAGGTATTCCGAGGCTGGGATGTCGACCAAA----TCATTGACAATTTTGTATAGAATTGTTAGC-TGTAGTTTCGAT------CG-------TCT-A-----AGTGTAT-CCCAGTCTAAGTGAGTCAGCATANTGTTTACGCTACTTTTGTTGTGGTACCTAT------TTGTAACGTATCGGGCCGCCCTTCTCT--GAACCATCTCGATTTGCTTTATCTGGCCTTGTTGGTGGGGGCTCCA--GA--CTGTTGC-ACAATAGTCA-AGGNTTGATCGTACCA--GC--AA-GT---TTG---CATTTGTTTTAGTGGCCTCACTNGTTGATNCATAGGTTCCTNCNNAAGAACCCCGGCGTACTGTTTGCCTTCTTCGTTACTCTG-TNTATAT--GGCT--ACTCNAGGAGA-GATT-G-ACTGCAGGCCAACTTATAGGTAGTGTGTTGTCTTATCGTGCTCAAGAGTTGTTCCTTTTAGGATATAGTTTCCTAGTATGTTTTTTTAAGATCTTGAGACGCGGAGGACACTACACTTCTGTGGATTAAAGC-CATTCCCCATCTTT
Reference ( gi|1 ) : CTACATTGATCTAAC-AAACTT-GACAA-TAACTCAACGGTGCAC----AAAGAAAGA----TGGAA-AGAAT-----------ATAAT--------TA-----------GAGAA-AATAA-------ATA---ATACAGAT-CAGATATACAT--AATAAATT-ATAAAGAAAAATATATAAAAGGCTATAGATGT-ATTAGATATATGA-TA--TACT---AAG-G---GA-TA--TATAA----AATACTAA------AGATATAGAAGACAGGAATTTCCGGCTATTTTTCACCCGACAAAGACAAACAAATT-TA-GCTTCCGTGG-------TG--GTACCA--GTTTTTTTAGCCCCACCAGCATTC-CAATGTCCTCTTGTTGCTTGGGCTACGTCATAGCTGGGACAAAAA---AAACGTTTTAGATTGGTTTGGAGAAAAGCTCCCTCTTGAAGGATACCAAGGAAGGGGCCTCAGCAATAGATGCCAGTAGTCTGTTCCAAGTATAGATGGTT-GT----GGGAAGAGACTGTACTTGAAGTACTCTGTAGATGGAG---AATGTTGTCAGTAC---TTGCATGAGTGAGATGCTCTGATTCTGG--TTGTT------GTTAG-AGTGTGGTATTTCGAGGCTGCAATGTTGACCACA----TCATTGACAATTTTATATAGAATTGTTAGC-TGTAGTTTCGAT------TG-------TCT-------AGTGTAT-CCCAGCCTAAGTGAGTAAGCATATTCTTTATGCTACTTTTGTTATAGTACCTAT------TTGTAACATATCTGGCTATCCTTCTCT--GAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCCT--GA--CTGCTGC-ACAATTGTCA-AGGTTTGACCGTACCATCAT--AATGT---TTG---CATTTGTTTTAGTGGTTTCACTGGTTGATCTA-AGGTTTCTTCTTATAAACCCCAGCATACTATTTGCCTTTTTCATTACTCTT-TTTATAT--GGCT--A-TCCAGGAGA-GATT-G-ACTGCAG------TTAT------TTTGTTGTCTTATCTTGCTCAAGTGTTGTTCCTTTCAGGATGTAGTTTCTTGGTATGGGTTTTTTGTATCTTGAGACATGGAGGACACTACACTTCTGTGGGTGAAAATACATTCCCAATCTTT
gi|10 : CTACATTGATCTA-------TTAGATAA-TTACTGAACGGTGCAC----AAAGAAAAA----AGAAT-AATAT-----------ATAAT--------TT-----------GAGAACAATAA--------TG---ATGCAAAT-CAAGTATA-----AATA--TT-A---AGAGAACTATATAAAGGACTTTAGCTTT-ATTAGATATATG------TACTTGGAAA-A---GA-TA--TA-AA----AATACTAA------AGATATAGAACAAAGGAATTCCCAGCTATTTTTCACCCAACAAAGAC---TGAATTCTATGCTTTTGTTC-------TG--GT
gi|5 : ttaaatTATGTTGATCTATC-AAACTT-GATAA-TTACTCAACGGTGTGC----AAAGAAAGA----AGGAT-AGAAT-----------ATAAT--------TT-----------GAGAA-AATAA--------TA---ATACAAAT-CAGGTATACAT--A---------TAAAGAGAAAGATATAAAGGGCTATAGCTGT-ATTAGATATGTG------TGCT---ATG-A---AAAGA--TATAA----AATACTAA------AGATATAGAAGAAAGGAATTCCCAGCTATTTTTCACCAGACGAAGACAAACCGTTC-TG-GCTTCTGTGG-------CA--GAACCA--GGGTTTTCAACCCTGCCAGCATCG-CAATGTTCTGTCGTTGGTTGGGCTACGTCATAGCTGGGAAGAAAA---tgttgccagagt
gi|4 : gaTACGTTGATCTATC-AAACTT-GATAA-TTACTCAAAGTTGCGC----AAAGAAAGA----AGGAT-AGAAT-----------ATAAT--------TT-----------GAGAA-AATAA--------TA---ATACAAAT-CAGATAAACAT--A---------TAAAGAGAAATATATAAAAGGCTATAGCTGT-ATTAGATATGCG------TACT---AGG-AAATGA-TA--TACAATAGTAATAGTAA------AGATATAGAAGAAAGGAATTCCCAGCTATTTTTCACTCGACAAAGACAAACCGTTC-TG-GCTTCCGTGG-------CA--GTACC----TGGGTTAAACCCGGCCAGCATCG-CGATGTCCTGTCGCTGGTTGGGCTACGACACAATTGGGACAAAAA---AActg
gi|8 : atatctacgttgaTACGTTGATCTATC-AAACTT-GATAA-TTACTCAACGATGCGC----AAAGAAAGAAGGATAGAATAGAATTTGAGATTATAATAATATCAGATATAACCATGTGTTTGATAA-AGTAACTCATTTATA---AAACAAAT-CAGGTGTACAT--A---------TAAAGAAAAATATATAAATGGCTATAGCTAT-ATTAGATATATG------TACT---AGG-A---AAAGA--TCTAA----AATACTAA------AGATATAGAAGAAAGGAATTCTAAACTTTTTTTCACCCGACAAAGACAAACCGTTC-TG-ACTTCTGTGG-------TG--GTACCAGGGTTTTT
gi|6 : tacattgaTACGTCGATCTATC-AAACTT-GATAA-TTAATCAACGGTGCGCTTTGCACGAATGA----T-----AGCAT-----------ATAAT--------CA-----------GAATA-AATAA-------ATA---CTACAAAT-AAGATAGA------------T-ATAAATAGAAATAACTTGAGGGCTATAGACGTAATGAGATACATAA------AAT---AAGTG---AA-GA--TATAA----AGTCTTAG------AGATATAGAAGAAAGGATTTCCCAGCTATTTTTCAGCCGACAAAGACAGCC--GTTCTG-GCTTCCGTGGCTTCCGTTGCTGTACCA--GGGTTTTGAGCTCCGCCTGCATCG-CAATGTCTCGTCGTTGGATGGGCTTCGTCACA
gi|13 : tacaacgaTATGTTGATCTATC-AAACCT-GATAA-TTGCT-----AT---T----AAAGAAAGA----AGGAT-AGAAT-----------ATAAT--------CA-----------GAAAA-AACAA-------A-A---ACGCAAAT-AAGATATTTAT--A-TG---T-ATAAAGAGAAGTAAAAAAAGGACTATAGACAT-ATTAAA---GTGAAGA--TAC-------------A-TG--TATAA----AATACTAG------AGATATAGAAGAAAGGAACTGCACATTATTTTTTACCCAACAAAGACAAACTGTTC-TG-GCTTCCGTGG-------CA--GTA
gi|15 : acattgaTACATTGAT--------GCTT-GATAA-TTACTCAACCTAGCAC----AAAGAAAGA----AGGAT-AGAAT-----------ATAAT--------T------------GAGAA-AATAATA-----ATACATGTACAAGT-CGGGTATACAT--A---------TAAAGAGAAATATATAAAGGGCTATAGCTGT-ATTGGATATGTG------TACT---AGA-A---AATTA--TATAA----AATACTAA------AGATATAGAAGAAAGGAAt
gi|21 : atctaaattTACGTTGATCTATC-AAACTT-GATAA-TTACTCAAC--TGTAC----AA
gi|23 : catctgcattgaTACATTGATCTATCAAAAGTT-GACAA-TTACTCAAtaatttcatcgaattattgctat
gi|17 : acatctatatggCGTTGATCTATC-AAACTT-GATAA-TTACTCAACGGTGTGT----AAAGAAAGA----AGGAT-AGAAT-----------ATAAT--------AT-----------GAGAA-AAT-A-------ATA---ATACAAATGTAG-TTTACA----------T-GTAAAGAGAAATATATAAAGGGCTATAGCAGT-ATTAGATATGTG--TACTTACT---GA
gi|19 : TTGATCTATC-AAGATT-GATAGGTAACTCAACGGTGTGC----AAAGAAAGA----AGGAT-ACAAT-----------ATAAT--------TT-----------GAGAA-AAT-A-------ATA---ATACAAGT-GTGGTATATAT--caaaatcta
gi|18 : ctatatctacatctacattgatcccT-GATAA-TTATTCAATGGTGTGC----AATGAGAGA----GGGAC-AGAAT-----------AAAAT--------CA-----------GAAAA-AA----------------AGACAAAT-AAGACATAGATTCAATATGTTTATAAAGAGAAGAAAATAGAGGACTAAAGAAGT-TTTAG
gi|11 : T-ATAAAGAGAAATATATAAAGGGC--------T-ATTAACTGTAT---TA---GCT---ATG--------TG--TACAA----AA----AA------AGA--------------ATTCCCAGCTATTTTTCACCCAACGAAGACAAACCGTTC-CC-GCTTCCATGG-------CG--GTACCG--GGGTTTTTAACTCTGACAGCATTG-CAATGTCCTGTTGTTGGTTAGGCCACGTCATAGCTGGGGTAAAAACCCAA---TTTTAAATCAGATTGGAGAAAAGTTCCTTC-------------AGGAGGGGGCTTCAGCAATAGAT
gi|22 : aTAGACATGTG------TA-T---GAG-G---AA-GAGTTATAA----GATACTAATAGTTAAGATATAGAAGAAAGGAATTCCCAGCTAT
gi|16 : A-TG--TACA---AAG-A---GAAGA--TATAA----ATTACTAA------AGATATAGAAGAAACCAATTCCCACCTATTTTTCACTCGACAAAGACAAACCGTTG-TG-GCTTCCATGG-------GG--GTACCA--GGCTTTGTATCCCCGCCAGC-TTCGCAACGTTTTGTCGTTGGTTGGAATACGTCAAAGC
gi|2 : gtTATAGAAGAAAGGAATTGCCAGCTATTTTTCACCTGATTAAGACAAACCGTTC-TG-GCTGTAGTGG-------TG--GTACCA--GGTTTTTTAACCCCGCCAACATCA-CAATGTCCTATTGTTGGTTGGGCTACATCATAGCTGGGACAAAAA---ACCCATTTTAGATCTAACTGGAGAAAAGCTCCCACTTGAAGGTTACCAAGGAGGGGTTCTCAGCAATATATGCTGGTAGTCTGTTCCAAGTAGGGATGGCCCAT----GGGAATAGTTTGTACTTGAAGTAGTCTGTAGATGGAG---AATAGTGTTGGTAC---TTGTACGAGTGAGATGCTGTTGTTCTGG--TTGTT------GTTAC-AGTGAGGTATTTAGAGGCTGGGATGTCGACCAAA----TCATTGGCAATTTTGTATAAAATTGTTAGC-TTTAGTTTCGAT------CG-------TCTGACTTCTAGTGTATTCCCAGCCTAAGTAAGTCAGCATGTTGTTTACACTTCTTTTGTGGTGGTACCTAT------TTGTAACATATCGGGCCGCCCTTCTCT--GAACCATCTCAATTTGTTTTATTTAGCCTTGTTGGAGGGGTTTCCA--GA--CTGTTGC-ACAATGGTCA-TGGGTTGAACATTCCATCGC--AATGT---ATG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTCCTTCTAAAGAACCCCGGCATACTGTTTGCCTTCTTCATTACCCTG-TATATAT--GGCT--ACTCTAGGAGA-TATTGG-ACTat
gi|12 : AACCCCTTCTTGGATGATACCAAGGAGGGGGCCTCAGC
gi|3 : agagagttcTGTTCCAA--ACAGATA-CT-GTCCTAGGGAAGAAGCTGAACTTGTAATAGTTGGTAGA-GGAACCAAGTATTCT--ATACGTCTT-C-TG-GTG-GCTGATCAAGTTCTGT--TGGAA------GCTGGTAGTA-GGTAATCTGAGGCAGGAATG---ACAACAAGGGTT-TTCACGATCTTGTAGAACATTGT-AGCCTGGGATCT-GATGCGCCGTG-------TCTCA-----AGTGTAT-CCCACTTTAGATGGTCCACCATAG-----ATG-TAACACTGCTAGAGTTCCTATATCTGTTTGCGGTGTATATAGCAGCTCTTCTCTTTGTACCCACTCAAGCTGTCGTACCAGGTCTTGTATATACGGGCTCAA--GACTCTGCTGC----ATTATCCTAGAGTTGGTCGTACCA--ATGAAAAGTATGTTGAGACATTTGTT------GCCTC-TTTATTGATGCATAGATTTCTGCGTAAGAAGCTAAGTGAACTGTTTGCCTTTTTCA-AATTCTTGTGTATATTATGCTTCT-TCCAGGATATGTTT-G-AAGACAG------TTtactgtggttgctaaactttttcagagagaagaagctatacacttatgtacttatagtagtttggtagaaaaactaaatactctttggttcttctgactgccagatctagttctgttggagactggtgataggtagcccgaggcagggatgtcaacaaagtctaaattcgtatattgatgtttaaaattttt
gi|9 : ATGACTGAACTTATCTGGTTCTGAACTTTCTACAATAGCTAG-AGTAAATTATTCTAAGGCTGAAATGTTGACCAAA----TCATTGACAATTTTATATAGAATTGTTAGC-TGTAATTTTAAT------CG-------TCT-------ctacacctaaatacctcgaggtctcctctgtggctatggttatgtcctttgagcttgtaatcagagctaagtggttt
gi|7 : tATGCTTTTGTTCTGG--TTGTT------GCCAG-AGTGAGGTATTTCGAGGCTGGGATGTCAACCGAA----TCATTGACAATTTCGTATAGAATTGTAAGC-TGTAGTTTCGAT------CGTCTGTCTTCT-------AGTGTAT-CCCAGTCTAAGTGAGTCCGCATACTATTTACGTTACTTTTGTTGTGGTACCTAT------TTGTTAC--ATTTG-------TCCTCT--GAACCATTCTGATTTGCTTCATTTGGTCTTGTTGGTGGGGGCTCCA--GA--CTGTTGC-ACAATAGTCA-AGGTTTgactttagtggggtatctgtttgtaacatactgggttgcccttaactgaaccatctcaattttcttgatctgaccttgctgatggtactcttaagacagttgcaaaaataatcaaggtctgatcataccattgcatttttttag
gi|9 : gaattctGTATCTGT------TTGTAACATACTGGGTTGCCCTTAACT--GAACCATCTCAATTTTCTTGATCTGACCTTGCTGAT-GGTACTCTTAAGA--CAGTTGCAAAAATAATCA-AGGTCTGATCATACCA--------------TTG---CATTT-TTTTAGtaaccaagtgaaaaaatacgttaaatatacgttatttttatttat
gi|14 : tatgactgaacttatctggttctgaactttctacaatagctagagtaaattattctaaggctgaaatgttgaccaaatcattgacaattttatatagaattgttagctgtaattttaatcgtctgactttagtgggAACCCCAGCATG---TTTGCCTTCTCCGTTACTCTG-TTTATAT--GGCT--ACTCAAGGAGA-GATT-GGACTGTAAGCCAACTTATAGGTAGTGTGTTGTCTTATCGTGCTCAAGAGTTGTTCCTTTTAGGATATAGTTTCCTAGTATGTTTTTTTAAGATCTTGAGACGCGGAGGACACTACACTTCTGTGGATTAAAGC-CATTCCCCATCTTT
1 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|20 ): GTACACATAGTGAAATGGTGAAGCCTGTATTGTCTCATTAATGATGCGTAAATTGCTACATAAGAAACAAAGTGAACTTTTGCCTTTTCACAGTCTTGGGTATATGCTTCTTTC
Alignments
lowQualScore : 33333333333333333333333 1111111 22222222 111111 22222222 1111 2222222 11111111111 4444444 11 1 8888888888888888888 4444444444 1 1 222 11 2222222222 11111 22222222 111 111 222222 66666666 1 11 11 11 11 88888888888888888 111 2 111 1 111 222222 222222 2
lowQualScore : 3 3 99999 33333333333333333333333 1111111 4 3 666 11111111 666 666 4 55 0 111111 55 4 4 666 3 3 22222222 3 7777 1111 2222222 7777 3 3 4 4 777 66666666666 1 3 0 1 0 3 2222222 3 11 0 3333333333333333333 1 1 3333333333 1 1 0 2 5 444 2 1 11 77 8888888888 88888 1 1 99 44444444 3 6 111 000 3 0 8 3 333333 33333333 0 8 99 99 11 8 8 1 0 3 2 0 444 6 11 3 11 11 8 0 1 1 22222222222222222 777 2 3 0 7 1 11 3 0 1 22 2 2 3 555 1 0 6 1 666 888888 999999 2 2 4 66 555 3 0 2
lowQualScore : . . ..... ....................... ....... . . ... ........ ... ... . .. . ...... .. . . ... . . ........ . .... .... ....... .... . . . . ... ........... . . . . . . ....... . .. . ................... . . .......... . . . . . ... . . .. .. .......... ..... . . .. ........ . . ... ... . . . . ...... ........ . . .. .. .. . . . . . . . ... . .. . .. .. . . . . ................. ... . . . . . .. . . . .. . . . ... . . . . ... ...... ...... . . . .. ... . . .
lowQualScore : 3 1 11111 66666666666666666666666 8888888 5 6 444 22222222 444 444 3 00 4 555555 55 6 0 444 6 6 99999999 6 7777 4444 3333333 1111 6 7 0 0 000 22222222222 0 8 6 0 7 2 8888888 2 00 0 8888888888888888888 0 0 8888888888 0 0 0 5 5 555 0 0 00 22 2222222222 88888 0 0 22 55555555 7 7 777 222 5 8 0 2 000000 88888888 0 0 00 00 00 0 0 4 6 8 8 8 666 4 00 2 00 00 0 8 0 2 88888888888888888 555 5 2 7 3 0 77 7 7 0 00 0 0 2 888 0 0 5 0 777 555555 000000 5 5 0 00 000 0 0 5
consensus : CTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA-------ATA---ATACA---AATCAGGTA--TACATA------TATAAAGAGAAATATATAAAGGGCTATAGCCGT-ATTAGATATGTG---TACTAAG-A-AA-NG--A--TATA-A----AA----TACTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACCCGACAAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CG-----GTACCAGGGTTTTTAACCCCGCCAGCATCGCAATGTCCTGTCGTTGGTTGGGCTACGTCATAGCTGGGACAAAAAAACCGTTTTAGATCGGATTGGAGAAAAGCTCCCTCTTGAA--GG-TACCAAGGAGGGGGCCTCAGCAATA-NAT-GCCGGTAGTCTGTTCCAAGTANAGATGG-CCGT---AGGGAAGAGGCT----------GTACTTGNAGTAG-TCGGTAGATGGAGCCAAATATT-NTCGGTAC-TCTTGCACGAGTG--AGNTGNTCTNGTTCTGG--TTGTT------GCTAG-A---GTG--AGGTATTCCGAGGCTGGGATGTCGACCAAATCATTGACAATTTCGTATAGAATTGTTAG-CTGTAGTTTCGAT------CGTCT-G-CTTCTAGTGTA-TCCCAGCCTAAGTGAGTCAGC-ATA-NTGTTTA--CG-CT-ACTTTTGTTGTGGTACCTATTTGTAACATATCGGGCCGCCCTTCTC--TGAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCC--AGA--CTGTTGC-ACAATAGTCAAGGTTTGATCGTACCA--NC---A-A--GT---TTG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTTCTTCTTAAGAACCCCAGCGTACTGTTTGCCTTCTTC--ATTACTCTGTNTA-TATGGCTACTCCAGGAGAGATT-G-ACTGCAGGCCAACTTATAGGTAGTNTGTTGTCTTATCNTGCTCAAGNGTTGTTCCTTTCAGGATGTAGTTTCCTGGTATGNNTTTTTNGNATCTTGAGACGCGGAGGACACTACACTTCTGTGGGTNAAAGCACATTCCCNATCTTT
Reference ( family-117 ) : CTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTNGAGAA-A---ATAA-------ATA---ATACA---AATCAGGTA--TACATA------TATAAAGAGAAATATATAAAGGGCTATAGCCGT-ATTAGATATGTG---TACTAAG-A-AA-N---A--TATA-A----AA----TACTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACCCGACGAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CG-----GTACCAGGGTTTTNAACCCCGCCAGCATCGCAATGTCCTGTCGTTGGTTGGGCTACGTCATAGCTGGGACAAAAAAACCATTTTAGATCNGACTGGAGAAAAGCTCCTTCTTGGA--G--TACCAAGGAGGGGGCCTCAGCAATA-NAT-GCTGGTAGTCTGTTCCAAGTACGGATGGCCCGTCCTAGGGAANAGNCT----------GNACTTGNAGTAG-TCGGTAGATGGAGCCAAGTANT-NTTGGTACGTCTTGCACGAGTG--AGNTGNTCTNGTTCTGG--TTGTT------GCTAG-A---GTG--AGGTATTCCGAGGCTGGGATGTCGACCAAATCATTGACAATTTTGTATAGAATTGTTAG-CTGTAGTTTCGAT------CGTCT-A------AGTGTA-TCCCAGTCTAAGTGAGTCAGC-ATA-NTGTTTA--CG-CT-ACTTTTGTTGTGGTACCTATTTGTAACGTATCGGGCCGCCCTTCTC--TGAACCATCTCGATTTGCTTTATCTGGCCTTGTTGGTGGGGGCTCC--AGA--CTGTTGC-ACAATAGTCAAGGNTTGATCGTACCA--GC---A-A--GT---TTG---CATTTGTTTTAGTGGCCTCACTNGTTGATNCATAGGTTCCTNCNNAAGAACCCCGGCGTACTGTTTGCCTTCTTC--GTTACTCTGTNTA-TATGGCTACTCNAGGAGAGATT-G-ACTGCAGGCCAACTTATAGGTAGTGTGTTGTCTTATCGTGCTCAAGAGTTGTTCCTTTTAGGATATAGTTTCCTAGTATGTTTTTTTAAGATCTTGAGACGCGGAGGACACTACACTTCTGTGGATTAAAGC-CATTCCCCATCTTT
gi|1 : CTACATTGATCTAAC-AAACTTGACAATAA-CTCAACGGTGCACAAAGAAAGATGGA-----AAGAA-----------------------TATAA-------TTAGAGAA-A---ATAA-------ATA---ATACA---GATCAGATA--TACATAATAAATTATAAAGAAAAATATATAAAAGGCTATAGATGT-ATTAGATATATGATATACTAAG-G-GA-T---A--TATA-A----AA----TACTAA-------AGATA----TAGAAGACAGGAATT-TCCGGCTATTTTTCACCCGACAAAGAC-AAACAAATTTA-GCTTCCG---TGG----TG-----GTACCAGTTTTTTTAGCCCCACCAGCATTCCAATGTCCTCTTGTTGCTTGGGCTACGTCATAGCTGGGACAAAAAAAACGTTTTAGATTGGTTTGGAGAAAAGCTCCCTCTTGAA--GGATACCAAGGAAGGGGCCTCAGCAATA-GAT-GCCAGTAGTCTGTTCCAAGTATAGATGG-TTGT----GGGAAGAGACT----------GTACTTGAAGTAC-TCTGTAGATGGAG---AATGTT-GTCAGTA---CTTGCATGAGTG--AGATGCTCTGATTCTGG--TTGTT------GTTAG-A---GTG--TGGTATTTCGAGGCTGCAATGTTGACCACATCATTGACAATTTTATATAGAATTGTTAG-CTGTAGTTTCGAT------TGTCT--------AGTGTA-TCCCAGCCTAAGTGAGTAAGC-ATA-TTCTTTA--TG-CT-ACTTTTGTTATAGTACCTATTTGTAACATATCTGGCTATCCTTCTC--TGAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCC--TGA--CTGCTGC-ACAATTGTCAAGGTTTGACCGTACCA--TC---ATAATGT---TTG---CATTTGTTTTAGTGGTTTCACTGGTTGATCTA-AGGTTTCTTCTTATAAACCCCAGCATACTATTTGCCTTTTTC--ATTACTCTTTTTA-TATGGCTA-TCCAGGAGAGATT-G-ACTGCAG------TTAT------TTTGTTGTCTTATCTTGCTCAAGTGTTGTTCCTTTCAGGATGTAGTTTCTTGGTATGGGTTTTTTGTATCTTGAGACATGGAGGACACTACACTTCTGTGGGTGAAAATACATTCCCAATCTTT
gi|10 : CTACATTGATCTATT-A-----GATAATTA-CTGAACGGTGCACAAAGAAAAAAGAA-----TAATA-----------------------TATAA-------TTTGAGAACA---ATAA--------TG---ATGCA---AATCAAGTA--TAAATA------T-TAA-GAGAACTATATAAAGGACTTTAGCTTT-ATTAGATATATG---TACTTGG-A-AA-AG--A--TATA-A----AAA---TACTAA-------AGATA----TAGAACAAAGGAATT-CCCAGCTATTTTTCACCCAACAAAGACTGAA---TTCTATGCTTTTGTTCTGGT---TG-----TTGCCAGAGT
gi|11 : ttaaatAAG-A-GA-A---A--TATATA----AAGGGCTATTAACTGTATTAGCTATGTGTACAAAAAAAGAATT-CCCAGCTATTTTTCACCCAACGAAGAC-AAACCGTTCCC-GCTTCCA---TGG----CG-----GTACCGGGGTTTTTAACTCTGACAGCATTGCAATGTCCTGTTGTTGGTTAGGCCACGTCATAGCTGGGGTAAAAACCCAATTTTAAATCAGATTGGAGAAAAGTTCCTTC---------------AGGAGGGGGCTTCAGCAATA-GAT-
gi|12 : atataAACCCCTTCTTGGATGA--TACCAAGGAGGGGGCCTCAGC--TACTGTGGTTGCTAAACTTTTTCAG------------------AGAGAAGAAGCTATACACTTATGTACTTATAGTAGTTTGGTAGA-AAAACTAAATACTCTTTGGTTCTTCT-----GACTGCCA---GATCTAGTTCT-G--TTG--------G--AG-ACTGGTGATAGGTAGCCCGAGGCAGGGATGTCAACAAAGTC-----TAAATTCGTATA
gi|13 : agagagttcTATGTTGATCTATC-AAACCTGATAATTG-CT--AT------TAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TCAGAAAA-A---ACAA-------A-A---ACGCA---AATAAGATATTTATATG------TATAAAGAGAAGTAAAAAAAGGACTATAGACAT-ATTAAA---GTG-------AAG-A-TA-C---ATGTATA-A----AA----TACTAG-------AGATA----TAGAAGAAAGGAACTGCACA-TTATTTTTTACCCAACAAAGAC-AAACTGTTCTG-GCTTCCG---TGG----CA-----GTAttgatgtttaaaattttt
gi|14 : acattgaAACCCCAGCAT---GTTTGCCTTCTCC--GTTACTCTGTTTA-TATGGCTACTCAAGGAGAGATT-GGACTGTAAGCCAACTTATAGGTAGTGTGTTGTCTTATCGTGCTCAAGAGTTGTTCCTTTTAGGATATAGTTTCCTAGTATGTTTTTTTAAGATCTTGAGACGCGGAGGACACTACACTTCTGTGGATTAAAGC-CATTCCCCATCTTTt
gi|15 : TACATTGAT--------GCTTGATAATTA-CTCAACCTAGCACAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TT-GAGAA-A---ATAATA-----ATACATGTACA---AGTCGGGTA--TACATA------T--AAAGAGAAATATATAAAGGGCTATAGCTGT-ATTGGATATGTG---TACTAGA-A-AATT---A--TATA-A----AA----TACTAA-------AGATA----TAGAAGAAAGGAAt
gi|16 : atctaaattTATG---TACAAAG-AGAA-G---A--TATA-A----AT----TACTAA-------AGATA----TAGAAGAAACCAATT-CCCACCTATTTTTCACTCGACAAAGAC-AAACCGTTGTG-GCTTCCA---TGG----GG-----GTACCAGGCTTTGTATCCCCGCCAGCTTCGCAACGTTTTGTCGTTGGTTGGAATACGTCAAAGC
gi|17 : gCGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGTGTAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TATGAGAA-A---AT-A-------ATA---ATACA---AATGTAGTT--TAC--A------TGTAAAGAGAAATATATAAAGGGCTATAGCAGT-ATTAGATATGTG---TACTat
gi|18 : TGATAATTA-TTCAATGGTGTGCAATGAGAGAGGGA-----CAGAA-----------------------TAAAA-------TCAGAAAA-AAAGACAA-------ATA---AGACATAGATTCA---A--TATGTT------TATAAAGAGAAGAAAATAGAGGACTAAAGAAGT-TTTAGtactgacaaaatcta
gi|19 : TTGATCTATC-AAGATTGATAGGTAACTCAACGGTGTGCAAAGAAAGAAGGA-----TACAA-----------------------TATAA-------TTTGAGAA-A---AT-A-------ATA---ATACA---AGTGTGGTA--TATAT
gi|2 : ctatatctacatctacattgatcccTA----TAGAAGAAAGGAATT-GCCAGCTATTTTTCACCTGATTAAGAC-AAACCGTTCTG-GCTGTAG---TGG----TG-----GTACCAGGTTTTTTAACCCCGCCAACATCACAATGTCCTATTGTTGGTTGGGCTACATCATAGCTGGGACAAAAAACCCATTTTAGATCTAACTGGAGAAAAGCTCCCACTTGAA--GGTTACCAAGGAGGGGTTCTCAGCAATA-TAT-GCTGGTAGTCTGTTCCAAGTAGGGATGGCCCAT----GGGAATAGTTT----------GTACTTGAAGTAG-TCTGTAGATGGAG---AATAGT-GTTGGTA---CTTGTACGAGTG--AGATGCTGTTGTTCTGG--TTGTT------GTTAC-A---GTG--AGGTATTTAGAGGCTGGGATGTCGACCAAATCATTGGCAATTTTGTATAAAATTGTTAG-CTTTAGTTTCGAT------CGTCT-GACTTCTAGTGTATTCCCAGCCTAAGTAAGTCAGC-ATG-TTGTTTA--CA-CT-TCTTTTGTGGTGGTACCTATTTGTAACATATCGGGCCGCCCTTCTC--TGAACCATCTCAATTTGTTTTATTTAGCCTTGTTGGAGGGGTTTCC--AGA--CTGTTGC-ACAATGGTCATGGGTTGAACATTCCATCGC---A-AT-GT---ATG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTCCTTCTAAAGAACCCCGGCATACTGTTTGCCTTCTTC--ATTACCCTGTATA-TATGGCTACTCTAGGAGATATTGG-ACT
gi|21 : TACGTTGATCTATC-AAACTTGATAATTA-CTCAACTGTAC
gi|22 : catctgcattgaTAGACATGTG---TA-TGAG-G-AA-G---AGTTATA-A----GA----TACTAATAGTTA-AGATA----TAGAAGAAAGGAATT-CCCAGCTATaataatttcatcgaattattgctat
gi|23 : TACATTGATCTATCAAAAGTTGACAATTA-CTCAA
gi|3 : acatctatatggTGTTCCAA--ACAGATA--CTGTCCTAGGGAAGAAGCT----------GAACTTGTAATAG-TTGGTAGA-GGAACCAAGTATT-CT--ATACGTCTT---CTGGTG---GCTGATCAAGTTCTGT--TGGAA------GCTGGTA---GT---AGGTAATCTGAGGCAGGAATGACAACAAGGGTTTTCACGATCTTGTAGAACATTG-TAGCCTGGGATCT-GATGCGCCGTGTCTCA------AGTGTA-TCCCACTTTAGATGGTCCACC-ATAGATG-TAA--CA-CT-GCTAGAGTTCCTATATCTGTTTGCGGTGTATATAGCAGCTCTTCTCTTTGTACCCACTCAAGCTGTCGTACCAGGTCTTGTATATACGGGCTCA--AGACTCTGCTGC-AT--TATCCTAGAGTTGGTCGTACCA--ATGAAA-A--GTATGTTGAGACATTTGTT------GCCTC-TTTATTGATGCATAGATTTCTGCGTAAGAAGCTAAGTGAACTGTTTGCCTTTTTCAAATTCTTGTGTATATTATGCTTCTTCCAGGA
gi|4 : TACGTTGATCTATC-AAACTTGATAATTA-CTCAAAGTTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA--------TA---ATACA---AATCAG--A--TAAACA------TATAAAGAGAAATATATAAAAGGCTATAGCTGT-ATTAGATATGCG---TACTAGG-A-AA-TGATA--TACA-ATAGTAA----TAGTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACTCGACAAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CA-----GTACCTGGG--TTAAACCCGGCCAGCATCGCGATGTCCTGTCGCTGGTTGGGCTACGACACAATTGGGACAAAAAAAtatgtttgaagacagttctacacctaaatacctcgaggtctcctctgtggctatggttatgtcctttgagcttgtaatcagagctaagtggttt
gi|5 : atatctacgttgaTATGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGTGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA--------TA---ATACA---AATCAGGTA--TACATA------TA--AAGAGAAAGATATAAAGGGCTATAGCTGT-ATTAGATATGTG---TGCTATG-A-AA-AG--A--TATA-A----AA----TACTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACCAGACGAAGAC-AAACCGTTCTG-GCTTCTG---TGG----CA-----GAACCAGGGTTTTCAACCCTGCCAGCATCGCAATGTTCTGTCGTTGGTTGGGCTACGTCATAGCTGGG--AAGAAAAC
gi|6 : gaTACGTCGATCTATC-AAACTTGATAATTA-ATCAACGGTGCGCTTTGCACGAATGA-----TAGCA-----------------------TATAA-------TCAGAATA-A---ATAA-------ATA---CTACA---AATAAG------ATAGA------TATAAATAGAAATAACTTGAGGGCTATAGACGTAATGAGATACATA---AAATAAGTG-AA-G---A--TATA-A----AG----TCTTAG-------AGATA----TAGAAGAAAGGATTT-CCCAGCTATTTTTCAGCCGACAAAGAC--AGCCGTTCTG-GCTTCCG---TGGCTTCCGTTGCTGTACCAGGGTTTTGAGCTCCGCCTGCATCGCAATGTCTCGTCGTTGGATGGGCTTCGTCACAtg
gi|7 : tacaacgaTGCTTTTGTTCTGG--TTGTT------GCCAG-A---GTG--AGGTATTTCGAGGCTGGGATGTCAACCGAATCATTGACAATTTCGTATAGAATTGTAAG-CTGTAGTTTCGAT------CGTCT-GTCTTCTAGTGTA-TCCCAGTCTAAGTGAGTCCGC-ATA-CTATTTA--CG-TT-ACTTTTGTTGTGGTACCTATTTGTTACAT-TTG--------TCCTC--TGAACCATTCTGATTTGCTTCATTTGGTCTTGTTGGTGGGGGCTCC--AGA--CTGTTGC-ACAATAGTCAAGGTTT
gi|8 : gaattctaTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGATGCGCAAAGAAAGAAGGATAGAATAGAATTTGAGATTATAATAATATCAGATATAACCATGTGTTTGATAA-A---GTAACTCATTTATA---AAACA---AATCAGGTG--TACATA------TA--AAGAAAAATATATAAATGGCTATAGCTAT-ATTAGATATATG---TACTAGG-A-AA-AG--A--TCTA-A----AA----TACTAA-------AGATA----TAGAAGAAAGGAATT-CTAAACTTTTTTTCACCCGACAAAGAC-AAACCGTTCTG-ACTTCTG---TGG----TG-----GTACCAGGGTTTTtaaccaagtgaaaaaatacgttaaatatacgttatttttatttat
gi|9 : tacattgaATGACTG--AACTTATCTGGTTCTGAACTTTCTACAATAGCTAG-A---GTA--AATTATTCTAAGGCTGAAATGTTGACCAAATCATTGACAATTTTATATAGAATTGTTAG-CTGTAATTTTAAT------CGTCT-G------At
gi|9 : tGTTAGCTGTA-AT-TTTAATCGTCTGACTTTAGTGG-GGTATCTGTTTGTAACATACTGGGTTGCCCTTAAC--TGAACCATCTCAATTTTCTTGATCTGACCTTGCTGAT-GGTACTCTTAAGA--CAGTTGCAAAAATAATCAAGGTCTGATCATACCA-----------------TTG---CATTT-TTTTAGctttagtggggtatctgtttgtaacatactgggttgcccttaactgaaccatctcaattttcttgatctgaccttgctgatggtactcttaagacagttgcaaaaataatcaaggtctgatcataccattgcatttttttag
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|20 ): GTACACATAGTGAAATGGTGAAGCCTGTATTGTCTCATTAATGATGCGTAAATTGCTACATAAGAAACAAAGTGAACTTTTGCCTTTTCACAGTCTTGGGTATATGCTTCTTTC
Alignments
lowQualScore : 33333333333333333333333 1111111 1111111 111111 111111 11111111111 2222 111 11 555555555555555555 4444444444 11 1 222 333333333 11 111 22222222 111 222 111 11 11 11 11 88888888888888888 111 1 11 1 111 222222 222222 1
lowQualScore : 3 3 99999 33333333333333333333333 1111111 4 3 666 4 6666666 666 666 4 55 0 000000 5 66 3 0 555 4 444 3 8888888 000000 3 4 4 777 66666666666 3 0 0 3 3 0 6666 777 1 55 444444444444444444 0 3333333333 1 22 5 444 0 1 111111111 55 5 5 1 1 1 444 44444444 3 6 111 1 99 3 0 6 8 3 8 3 8 111 444 8 8 99 8 0 11 8 8 1 0 3 0 444 6 11 3 11 11 8 0 0 1 00000000000000000 777 2 3 7 3 2 3 33 1 0 6 0 666 888888 999999 1 1 1 22 1 1 1 5 1
lowQualScore : . . ..... ....................... ....... . . ... . ....... ... ... . .. . ...... . .. . . ... . ... . ....... ...... . . . ... ........... . . . . . . .... ... . .. .................. . .......... . .. . ... . . ......... .. . . . . . ... ........ . . ... . .. . . . . . . . . ... ... . . .. . . .. . . . . . . ... . .. . .. .. . . . . ................. ... . . . . . . .. . . . . ... ...... ...... . . . .. . . . . .
lowQualScore : 3 1 11111 66666666666666666666666 8888888 9 6 444 4 8888888 444 444 3 00 4 555555 7 99 6 8 888 6 222 6 2222222 555555 6 0 0 000 22222222222 8 6 2 7 2 8 5555 555 0 77 222222222222222222 2 8888888888 0 55 5 555 8 0 222222222 22 0 6 0 0 0 333 55555555 7 7 777 0 22 5 7 0 0 2 0 8 0 000 000 0 0 00 2 8 00 0 0 4 6 8 8 666 4 00 2 00 00 0 8 6 2 88888888888888888 555 5 2 3 3 0 2 88 0 0 5 2 777 555555 000000 0 0 0 00 0 0 0 5 0
consensus : CTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA-------ATA---ATACA---AATCAGGTA--TACATA------TATAAAGAGAAATATATAAAGGGCTATAGCCGT-ATTAGATATGTG---TACTAGGAAAAG-ATAT-A----A--AATACTAA------AGATATAGAAGAAAGGAATT-CCCAGCTATTTTTCACCCGACAAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CG-----GTACCAGGGTTTTTAACCCCGCCAGCATCGCAATGTCCTGTCGTTGGTTGGGCTACGTCATAGCTGGGACAAAAAAACCGTTTTAGATCGGATTGGAGAAAAGCTCCCTCTTGAA-GG-TACCAAGGAGGGGGCCTCAGCAA---TAGATGCCGGTAGTCTGTTCCAAGTANAGATG--GTC-TA-GGGAAGAGGCT----------GTACTTGNAGTAGTC-GGTAGATGGAGCCAAATATTNTC-GGTAC-TCTTGCACGAGTGAGATGNTCTNGTTCTGG--TTGTT------GCTAG-A---GTGA--GGTATTCCGAGGCTGGGATGTCGACCAAATCATTGACAATTTCGTATAGAATTGTTAGC-TGTAGTTTCGAT-CGTC-TG-CCTCTAGT---GTA-TCCCAGCCTAAGTGAGTCAGC-ATAN-TGTTTA--CG-CT-ACTTTTGTTGTGGTACCTATTTGTAACATATCGGGCCGCCCTTCTCT--GAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCC--AGACT--GTTGC-ACAATAGTCAAGGTTTGATCGTACCA--NC---A-A--GT---TTG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTTCTTCTTAAGAACCCCAGCGTACTGTTTGCCTTCTTC--ATTACTCTGTNTA-TATGGCTACTCCAGGAGAGATT-G-ACTGCAGGCCAACTTATAGGTAGTNTGTTGTCTTATCNTGCTCAAGNGTTGTTCCTTTCAGGATGTAGTTTCCTGGTATGNNTTTTTNGNATCTTGAGACGCGGAGGACACTACACTTCTGTGGGTNAAAGCACATTCCCNATCTTT
Reference ( family-117 ) : CTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA-------ATA---ATACA---AATCAGGTA--TACATA------TATAAAGAGAAATATATAAAGGGCTATAGCCGT-ATTAGATATGTG---TACTAAGAAANG-ATAT-A----A--AATACTAA------AGATATAGAAGAAAGGAATT-CCCAGCTATTTTTCACCCGACAAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CG-----GTACCAGGGTTTTTAACCCCGCCAGCATCGCAATGTCCTGTCGTTGGTTGGGCTACGTCATAGCTGGGACAAAAAAACCGTTTTAGATCGGATTGGAGAAAAGCTCCCTCTTGAA-GG-TACCAAGGAGGGGGCCTCAGCAA---TANATGCCGGTAGTCTGTTCCAAGTANAGATG--GCCGTA-GGGAAGAGGCT----------GTACTTGNAGTAGTC-GGTAGATGGAGCCAAATATTNTC-GGTAC-TCTTGCACGAGTGAGNTGNTCTNGTTCTGG--TTGTT------GCTAG-A---GTGA--GGTATTCCGAGGCTGGGATGTCGACCAAATCATTGACAATTTCGTATAGAATTGTTAGC-TGTAGTTTCGAT-CGTC-TG-CTTCTAGT---GTA-TCCCAGCCTAAGTGAGTCAGC-ATAN-TGTTTA--CG-CT-ACTTTTGTTGTGGTACCTATTTGTAACATATCGGGCCGCCCTTCTCT--GAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCC--AGACT--GTTGC-ACAATAGTCAAGGTTTGATCGTACCA--NC---A-A--GT---TTG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTTCTTCTTAAGAACCCCAGCGTACTGTTTGCCTTCTTC--ATTACTCTGTNTA-TATGGCTACTCCAGGAGAGATT-G-ACTGCAGGCCAACTTATAGGTAGTNTGTTGTCTTATCNTGCTCAAGNGTTGTTCCTTTCAGGATGTAGTTTCCTGGTATGNNTTTTTNGNATCTTGAGACGCGGAGGACACTACACTTCTGTGGGTNAAAGCACATTCCCNATCTTT
gi|1 : CTACATTGATCTAAC-AAACTTGACAATAA-CTCAACGGTGCACAAAGAAAGATGGA-----AAGAA-----------------------TATAA-------TTAGAGAA-A---ATAA-------ATA---ATACA---GATCAGATA--TACATAATAAATTATAAAGAAAAATATATAAAAGGCTATAGATGT-ATTAGATATATGATATACTAAGGGAT--ATAT-A----A--AATACTAA------AGATATAGAAGACAGGAATT-TCCGGCTATTTTTCACCCGACAAAGAC-AAACAAATTTA-GCTTCCG---TGG----TG-----GTACCAGTTTTTTTAGCCCCACCAGCATTCCAATGTCCTCTTGTTGCTTGGGCTACGTCATAGCTGGGACAAAAAAAACGTTTTAGATTGGTTTGGAGAAAAGCTCCCTCTTGAA-GGATACCAAGGAAGGGGCCTCAGCAA---TAGATGCCAGTAGTCTGTTCCAAGTATAGATG--GTTGT--GGGAAGAGACT----------GTACTTGAAGTACTC-TGTAGATGGAG---AATGTTGTC-AGTA---CTTGCATGAGTGAGATGCTCTGATTCTGG--TTGTT------GTTAG-A---GTGT--GGTATTTCGAGGCTGCAATGTTGACCACATCATTGACAATTTTATATAGAATTGTTAGC-TGTAGTTTCGAT-TG--------TCTAGT---GTA-TCCCAGCCTAAGTGAGTAAGC-ATAT-TCTTTA--TG-CT-ACTTTTGTTATAGTACCTATTTGTAACATATCTGGCTATCCTTCTCT--GAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCC--TGACT--GCTGC-ACAATTGTCAAGGTTTGACCGTACCA--TC---ATAATGT---TTG---CATTTGTTTTAGTGGTTTCACTGGTTGATCTA-AGGTTTCTTCTTATAAACCCCAGCATACTATTTGCCTTTTTC--ATTACTCTTTTTA-TATGGCTA-TCCAGGAGAGATT-G-ACTGCAG------TTAT------TTTGTTGTCTTATCTTGCTCAAGTGTTGTTCCTTTCAGGATGTAGTTTCTTGGTATGGGTTTTTTGTATCTTGAGACATGGAGGACACTACACTTCTGTGGGTGAAAATACATTCCCAATCTTT
gi|10 : CTACATTGATCTATT-A-----GATAATTA-CTGAACGGTGCACAAAGAAAAAAGAA-----TAATA-----------------------TATAA-------TTTGAGAACA---AT-A-------ATG---ATGCA---AATCAAGTA--TAAATA------T-T-AAGAGAACTATATAAAGGACTTTAGCTTT-ATTAGATATATG---TACTTGGAAAAG-ATATAA----A--AATACTAA------AGATATAGAACAAAGGAATT-CCCAGCTATTTTTCACCCAACAAAGACTGAA---TTCTATGCTTTTGTTCTGGT---TG-----TTGCCAGAGT
gi|11 : ttaaatA------TATAAAGAGAAATATATAAAGGGCT---------ATTA---AC-TG---TATTA------G-CTAT-G------------------------TGTACAAAAAAAGAATT-CCCAGCTATTTTTCACCCAACGAAGAC-AAACCGTTCCC-GCTTCCA---TGG----CG-----GTACCGGGGTTTTTAACTCTGACAGCATTGCAATGTCCTGTTGTTGGTTAGGCCACGTCATAGCTGGGGTAAAAACCCAATTTTAAATCAGATTGGAGAAAAGTTCCTTC--------------AGGAGGGGGCTTCAGCAA---TAGAT
gi|12 : AACCCCTTCTTGGATGA-TACCAAGGAGGGGGCCTCAGCTACTGTGGTTGC---TAAACTTTTTCAG----------------A-GAGAAGAAGCTATACACTTATGTACTTATAGTAGTTTGGTAGA-AAAACTAAATACTCTTTGGTTC-TTCTG-AC---TGCCA-GATCTAGTTCTG---TTG--------G--AG-ACTGGTGATAGGTAGCCCGAGGCAGGGATGTCAACAAAGTC-----TAAATTCGTATA
gi|13 : agagagttcTATGTTGATCTATC-AAACCTGATAATTG-CT--AT------TAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TCAGAAAA-A---ACAA-------A-A---ACGCA---AATAAGATATTTATATG------TATAAAGAGAAGTAAAAAAAGGACTATAGACAT-ATTAAA---GTG-------AAGATACATGTAT-A----A--AATACTAG------AGATATAGAAGAAAGGAACTGCACA-TTATTTTTTACCCAACAAAGAC-AAACTGTTCTG-GCTTCCG---TGG----CA-----GTAttgatgtttaaaattttt
gi|14 : acattgaAACCCCAGCAT---GTTTGCCTTCTCC--GTTACTCTGTTTA-TATGGCTACTCAAGGAGAGATT-GGACTGTAAGCCAACTTATAGGTAGTGTGTTGTCTTATCGTGCTCAAGAGTTGTTCCTTTTAGGATATAGTTTCCTAGTATGTTTTTTTAAGATCTTGAGACGCGGAGGACACTACACTTCTGTGGATTAAAGC-CATTCCCCATCTTTt
gi|15 : TACATTGAT--------GCTTGATAATTA-CTCAACCTAGCACAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TT-GAGAA-A---ATAATA-----ATACATGTACA---AGTCGGGTA--TACATA------T--AAAGAGAAATATATAAAGGGCTATAGCTGT-ATTGGATATGTG---TACTAGAAAATT-ATAT-A----A--AATACTAA------AGATATAGAAGAAAGGAAt
gi|16 : atctaaattTATG---TACAAAGAGAAG-ATAT-A----A--ATTACTAA------AGATATAGAAGAAACCAATT-CCCACCTATTTTTCACTCGACAAAGAC-AAACCGTTGTG-GCTTCCA---TGG----GG-----GTACCAGGCTTTGTATCCCCGCCAGCTTCGCAACGTTTTGTCGTTGGTTGGAATACGTCAAAGC
gi|17 : gCGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGTGTAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TATGAGAA-A---AT-A-------ATA---ATACA---AATGTAGTT--TAC--A------TGTAAAGAGAAATATATAAAGGGCTATAGCAGT-ATTAGATATGTG---TACTat
gi|18 : TGATAATTA-TTCAATGGTGTGCAATGAGAGAGGGA-----CAGAA-----------------------TAAAA-------TCAGAAAA-AAAGACAA-------ATA---AGACATAGATTCA---A--TATGTT------TATAAAGAGAAGAAAATAGAGGACTAAAGAAGT-TTTAGtactgacaaaatcta
gi|19 : TTGATCTATC-AAGATTGATAGGTAACTCAACGGTGTGCAAAGAAAGAAGGA-----TACAA-----------------------TATAA-------TTTGAGAA-A---AT-A-------ATA---ATACA---AGTGTGGTA--TATAT
gi|2 : ctatatctacatctacattgatcccTATAGAAGAAAGGAATT-GCCAGCTATTTTTCACCTGATTAAGAC-AAACCGTTCTG-GCTGTAG---TGG----TG-----GTACCAGGTTTTTTAACCCCGCCAACATCACAATGTCCTATTGTTGGTTGGGCTACATCATAGCTGGGACAAAAAACCCATTTTAGATCTAACTGGAGAAAAGCTCCCACTTGAA-GGTTACCAAGGAGGGGTTCTCAGCAA---TATATGCTGGTAGTCTGTTCCAAGTAGGGATG--GCC-CATGGGAATAGTTT----------GTACTTGAAGTAGTC-TGTAGATGGAG---AATAGTGTT-GGTA---CTTGTACGAGTGAGATGCTGTTGTTCTGG--TTGTT------GTTAC-A---GTGA--GGTATTTAGAGGCTGGGATGTCGACCAAATCATTGGCAATTTTGTATAAAATTGTTAGC-TTTAGTTTCGAT-CGTC-TGACTTCTAGT---GTATTCCCAGCCTAAGTAAGTCAGC-ATGT-TGTTTA--CA-CT-TCTTTTGTGGTGGTACCTATTTGTAACATATCGGGCCGCCCTTCTCT--GAACCATCTCAATTTGTTTTATTTAGCCTTGTTGGAGGGGTTTCC--AGACT--GTTGC-ACAATGGTCATGGGTTGAACATTCCATCGC---A-AT-GT---ATG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTCCTTCTAAAGAACCCCGGCATACTGTTTGCCTTCTTC--ATTACCCTGTATA-TATGGCTACTCTAGGAGATATTGG-ACT
gi|21 : TACGTTGATCTATC-AAACTTGATAATTA-CTCAACTGTAC
gi|22 : catctgcattgaTAGACATGTG---TATGAGGAAGAG-TTAT-A----A--GATACTAATAGTTAAGATATAGAAGAAAGGAATT-CCCAGCTATaataatttcatcgaattattgctat
gi|23 : TACATTGATCTATCAAAAGTTGACAATTA-CTCAA
gi|3 : acatctatatggTGTTCCAA--ACAGATACTGTCCTA-GGGAAGAAGCT----------GAACTTGTAATAGTT-GGTAGA-GGAACCAAGTATTCT---ATACGTCTT---CTGGTG-GCTGATCAAGTTCTGT--TGGAA------GCTGGTA---GT-A--GGTAATCTGAGGCAGGAATGACAACAAGGGTTTTCACGATCTTGTAGAACATTGT-AGCCTGGGATCT-GATGCGCCGTG-TCTCAAGT---GTA-TCCCACTTTAGATGGTCCACC-ATAGATGTA-A--CA-CT-GCTAGAGTTCCTATATCTGTTTGCGGTGTATATAGCAGCTCTTCTCTTTGTACCCACTCAAGCTGTCGTACCAGGTCTTGTATATACGGGCTCA--AGACTCTGCTGC-AT--TATCCTAGAGTTGGTCGTACCA--ATGAAA-A--GTATGTTGAGACATTTGTT------GCCTC-TTTATTGATGCATAGATTTCTGCGTAAGAAGCTAAGTGAACTGTTTGCCTTTTTCAAATTCTTGTGTATATTATGCTTCTTCCAGGA
gi|4 : TACGTTGATCTATC-AAACTTGATAATTA-CTCAAAGTTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA--------TA---ATACA---AATCAG--A--TAAACA------TATAAAGAGAAATATATAAAAGGCTATAGCTGT-ATTAGATATGCG---TACTAGGAAATG-ATAT-ACAATAGTAATAGTAA------AGATATAGAAGAAAGGAATT-CCCAGCTATTTTTCACTCGACAAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CA-----GTACCTGGG--TTAAACCCGGCCAGCATCGCGATGTCCTGTCGCTGGTTGGGCTACGACACAATTGGGACAAAAAAAtatgtttgaagacagttctacacctaaatacctcgaggtctcctctgtggctatggttatgtcctttgagcttgtaatcagagctaagtggttt
gi|5 : atatctacgttgaTATGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGTGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA--------TA---ATACA---AATCAGGTA--TACATA------T--AAAGAGAAAGATATAAAGGGCTATAGCTGT-ATTAGATATGTG---TGCTATGAAAAG-ATAT-A----A--AATACTAA------AGATATAGAAGAAAGGAATT-CCCAGCTATTTTTCACCAGACGAAGAC-AAACCGTTCTG-GCTTCTG---TGG----CA-----GAACCAGGGTTTTCAACCCTGCCAGCATCGCAATGTTCTGTCGTTGGTTGGGCTACGTCATAGCTGGG--AAGAAAACTG
gi|6 : gaTACGTCGATCTATC-AAACTTGATAATTA-ATCAACGGTGCGCTTTGCACGAATGA-----TAGCA-----------------------TATAA-------TCAGAATA-A---ATAA-------ATA---CTACA---AATAAG------ATAGA------TATAAATAGAAATAACTTGAGGGCTATAGACGTAATGAGATACATA---AAATAAGTGAAG-ATAT-A----A--AGTCTTAG------AGATATAGAAGAAAGGATTT-CCCAGCTATTTTTCAGCCGACAAAGAC--AGCCGTTCTG-GCTTCCG---TGGCTTCCGTTGCTGTACCAGGGTTTTGAGCTCCGCCTGCATCGCAATGTCTCGTCGTTGGATGGGCTTCGTCACA
gi|7 : tacaacgaTGCTTTTGTTCTGG--TTGTT------GCCAG-A---GTGA--GGTATTTCGAGGCTGGGATGTCAACCGAATCATTGACAATTTCGTATAGAATTGTAAGC-TGTAGTTTCGAT-CGTC-TGTCTTCTAGT---GTA-TCCCAGTCTAAGTGAGTCCGC-ATAC-TATTTA--CG-TT-ACTTTTGTTGTGGTACCTATTTGTTACAT-TTG--------TCCTCT--GAACCATTCTGATTTGCTTCATTTGGTCTTGTTGGTGGGGGCTCC--AGACT--GTTGC-ACAATAGTCAAGGTTT
gi|8 : gaattctaTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGATGCGCAAAGAAAGAAGGATAGAATAGAATTTGAGATTATAATAATATCAGATATAACCATGTGTTTGATAA-A---GTAACTCATTTATA---AAACA---AATCAGGTG--TACATA------TA--AAGAAAAATATATAAATGGCTATAGCTAT-ATTAGATATATG---TACTAGGAAAAG-ATCT-A----A--AATACTAA------AGATATAGAAGAAAGGAATT-CTAAACTTTTTTTCACCCGACAAAGAC-AAACCGTTCTG-ACTTCTG---TGG----TG-----GTACCAGGGTTTTTtaaccaagtgaaaaaatacgttaaatatacgttatttttatttat
gi|9 : tacattgaATGACTGAACTTATCTGGTTCTGAACTTTCTACAATAGCTAG-A---GTAA--ATTATTCTAAGGCTGAAATGTTGACCAAATCATTGACAATTTTATATAGAATTGTTAGC-TGTAATTTTAAT-CGTC-TG-ACTTTAGTGGGGTA-TC
gi|9 : tGTTAGCTGTAA-T-TTTAATCGTCTGACTTTAGTGG-GGTATCTGTTTGTAACATACTGGGTTGCCCTTAACT--GAACCATCTCAATTTTCTTGATCTGACCTTGCTGAT-GGTACTCTTAAGACA--GTTGCAAAAATAATCAAGGTCTGATCATACCA-----------------TTG---CATTT-TTTTAGtgtttgtaacatactgggttgcccttaactgaaccatctcaattttcttgatctgaccttgctgatggtactcttaagacagttgcaaaaataatcaaggtctgatcataccattgcatttttttag
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|20 ): GTACACATAGTGAAATGGTGAAGCCTGTATTGTCTCATTAATGATGCGTAAATTGCTACATAAGAAACAAAGTGAACTTTTGCCTTTTCACAGTCTTGGGTATATGCTTCTTTC
Alignments
lowQualScore : 33333333333333333333333 1111111 1111111 111111 2222222 11111111111 2222 111 11 444444444444444444 4444444444 11 1 222 333333333 11 111 22222222 111 222 111 11 11 11 11 88888888888888888 111 1 11 1 111 222222 222222 1
lowQualScore : 3 3 99999 33333333333333333333333 1111111 4 3 666 4 6666666 666 666 4 55 0 111111 77 4 4 666 3 0 3 7777 55 666 2222222 7777 3 4 4 777 66666666666 3 0 0 3 3 0 6666 777 55 666666666666666666 0 3333333333 1 22 5 444 0 1 111111111 55 5 5 1 1 444 44444444 3 6 111 1 99 3 0 6 8 3 8 3 8 000 444 8 8 99 8 0 11 8 8 1 0 3 0 444 6 11 3 11 11 8 0 0 1 00000000000000000 777 2 3 7 3 2 3 33 1 0 6 0 666 888888 999999 1 1 1 22 1 1 1 5 1
lowQualScore : . . ..... ....................... ....... . . ... . ....... ... ... . .. . ...... .. . . ... . . . .... .. ... ....... .... . . . ... ........... . . . . . . .... ... .. .................. . .......... . .. . ... . . ......... .. . . . . ... ........ . . ... . .. . . . . . . . . ... ... . . .. . . .. . . . . . . ... . .. . .. .. . . . . ................. ... . . . . . . .. . . . . ... ...... ...... . . . .. . . . . .
lowQualScore : 3 1 11111 66666666666666666666666 8888888 9 6 444 4 8888888 444 444 3 00 4 555555 99 6 0 444 6 2 6 7777 00 444 3333333 1111 6 0 0 000 22222222222 8 6 2 7 2 8 5555 555 77 000000000000000000 2 8888888888 0 55 5 555 8 0 222222222 22 0 6 0 0 333 55555555 7 7 777 0 22 5 7 0 0 2 0 8 0 666 000 0 0 00 2 8 00 0 0 4 6 8 8 666 4 00 2 00 00 0 8 6 2 88888888888888888 555 5 2 3 3 0 2 88 0 0 5 2 777 555555 000000 0 0 0 00 0 0 0 5 0
consensus : CTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA-------ATA---ATACA---AATCAGGTA--TACATA------TATAAAGAGAAATATATAAAGGGCTATAGCCGT-ATTAGATATGTG---TACTAGGA-AAAGATAT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACCCGACAAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CG-----GTACCAGGGTTTTTAACCCCGCCAGCATCGCAATGTCCTGTCGTTGGTTGGGCTACGTCATAGCTGGGACAAAAAAACCGTTTTAGATCGGATTGGAGAAAAGCTCCCTCTTGAA-GG-TACCAAGGAGGGGGCCTCAGCAA---TAGATGCCGGTAGTCTGTTCCAAGTANAGATG--GTC-NA-GGGAAGAGGCT----------GTACTTGNAGTAGTC-GGTAGATGGAGCCAAATATTNTC-GGTAC-TCTTGCACGAGTGAGATGNTCTNGTTCTGG--TTGTT------GCTAG-A---GTGA--GGTATTCCGAGGCTGGGATGTCGACCAAATCATTGACAATTTCGTATAGAATTGTTAGC-TGTAGTTTCGAT-CGTC-TG-CCTCTAGT---GTA-TCCCAGCCTAAGTGAGTCAGC-ATAN-TGTTTA--CG-CT-ACTTTTGTTGTGGTACCTATTTGTAACATATCGGGCCGCCCTTCTCT--GAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCC--AGACT--GTTGC-ACAATAGTCAAGGTTTGATCGTACCA--NC---A-A--GT---TTG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTTCTTCTTAAGAACCCCAGCGTACTGTTTGCCTTCTTC--ATTACTCTGTNTA-TATGGCTACTCCAGGAGAGATT-G-ACTGCAGGCCAACTTATAGGTAGTNTGTTGTCTTATCNTGCTCAAGNGTTGTTCCTTTCAGGATGTAGTTTCCTGGTATGNNTTTTTNGNATCTTGAGACGCGGAGGACACTACACTTCTGTGGGTNAAAGCACATTCCCNATCTTT
Reference ( family-117 ) : CTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA-------ATA---ATACA---AATCAGGTA--TACATA------TATAAAGAGAAATATATAAAGGGCTATAGCCGT-ATTAGATATGTG---TACTAGGA-AAAGATAT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACCCGACAAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CG-----GTACCAGGGTTTTTAACCCCGCCAGCATCGCAATGTCCTGTCGTTGGTTGGGCTACGTCATAGCTGGGACAAAAAAACCGTTTTAGATCGGATTGGAGAAAAGCTCCCTCTTGAA-GG-TACCAAGGAGGGGGCCTCAGCAA---TAGATGCCGGTAGTCTGTTCCAAGTANAGATG--GTC-TA-GGGAAGAGGCT----------GTACTTGNAGTAGTC-GGTAGATGGAGCCAAATATTNTC-GGTAC-TCTTGCACGAGTGAGATGNTCTNGTTCTGG--TTGTT------GCTAG-A---GTGA--GGTATTCCGAGGCTGGGATGTCGACCAAATCATTGACAATTTCGTATAGAATTGTTAGC-TGTAGTTTCGAT-CGTC-TG-CCTCTAGT---GTA-TCCCAGCCTAAGTGAGTCAGC-ATAN-TGTTTA--CG-CT-ACTTTTGTTGTGGTACCTATTTGTAACATATCGGGCCGCCCTTCTCT--GAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCC--AGACT--GTTGC-ACAATAGTCAAGGTTTGATCGTACCA--NC---A-A--GT---TTG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTTCTTCTTAAGAACCCCAGCGTACTGTTTGCCTTCTTC--ATTACTCTGTNTA-TATGGCTACTCCAGGAGAGATT-G-ACTGCAGGCCAACTTATAGGTAGTNTGTTGTCTTATCNTGCTCAAGNGTTGTTCCTTTCAGGATGTAGTTTCCTGGTATGNNTTTTTNGNATCTTGAGACGCGGAGGACACTACACTTCTGTGGGTNAAAGCACATTCCCNATCTTT
gi|1 : CTACATTGATCTAAC-AAACTTGACAATAA-CTCAACGGTGCACAAAGAAAGATGGA-----AAGAA-----------------------TATAA-------TTAGAGAA-A---ATAA-------ATA---ATACA---GATCAGATA--TACATAATAAATTATAAAGAAAAATATATAAAAGGCTATAGATGT-ATTAGATATATGATATACTAAGG-GA-TATAT-A----A--AA---TACTAA-------AGATA----TAGAAGACAGGAATT-TCCGGCTATTTTTCACCCGACAAAGAC-AAACAAATTTA-GCTTCCG---TGG----TG-----GTACCAGTTTTTTTAGCCCCACCAGCATTCCAATGTCCTCTTGTTGCTTGGGCTACGTCATAGCTGGGACAAAAAAAACGTTTTAGATTGGTTTGGAGAAAAGCTCCCTCTTGAA-GGATACCAAGGAAGGGGCCTCAGCAA---TAGATGCCAGTAGTCTGTTCCAAGTATAGATG--GTT-GT-GGGAAGAGACT----------GTACTTGAAGTACTC-TGTAGATGGAG---AATGTTGTC-AGTA---CTTGCATGAGTGAGATGCTCTGATTCTGG--TTGTT------GTTAG-A---GTGT--GGTATTTCGAGGCTGCAATGTTGACCACATCATTGACAATTTTATATAGAATTGTTAGC-TGTAGTTTCGAT-TG--------TCTAGT---GTA-TCCCAGCCTAAGTGAGTAAGC-ATAT-TCTTTA--TG-CT-ACTTTTGTTATAGTACCTATTTGTAACATATCTGGCTATCCTTCTCT--GAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCC--TGACT--GCTGC-ACAATTGTCAAGGTTTGACCGTACCA--TC---ATAATGT---TTG---CATTTGTTTTAGTGGTTTCACTGGTTGATCTA-AGGTTTCTTCTTATAAACCCCAGCATACTATTTGCCTTTTTC--ATTACTCTTTTTA-TATGGCTA-TCCAGGAGAGATT-G-ACTGCAG------TTAT------TTTGTTGTCTTATCTTGCTCAAGTGTTGTTCCTTTCAGGATGTAGTTTCTTGGTATGGGTTTTTTGTATCTTGAGACATGGAGGACACTACACTTCTGTGGGTGAAAATACATTCCCAATCTTT
gi|10 : CTACATTGATCTATT-A-----GATAATTA-CTGAACGGTGCACAAAGAAAAAAGAA-----TAATA-----------------------TATAA-------TTTGAGAACA---AT-A-------ATG---ATGCA---AATCAAGTA--TAAATA------T-T-AAGAGAACTATATAAAGGACTTTAGCTTT-ATTAGATATATG---TACTTGGA-AAAGATATAA----A--AA---TACTAA-------AGATA----TAGAACAAAGGAATT-CCCAGCTATTTTTCACCCAACAAAGACTGAA---TTCTATGCTTTTGTTCTGGT---TG-----TTGCCAGAGT
gi|11 : ttaaatAGAG-AAATATAT-A----A--AGGGCTATTAACTGTATTAGCTATGTGTACAAAAAAAGAATT-CCCAGCTATTTTTCACCCAACGAAGAC-AAACCGTTCCC-GCTTCCA---TGG----CG-----GTACCGGGGTTTTTAACTCTGACAGCATTGCAATGTCCTGTTGTTGGTTAGGCCACGTCATAGCTGGGGTAAAAACCCAATTTTAAATCAGATTGGAGAAAAGTTCCTTC--------------AGGAGGGGGCTTCAGCAA---TAGAT
gi|12 : atataaAACCCCTTCTTGGATGA-TACCAAGGAGGGGGCCTCAGCTACTGTGGTTGC---TAAACTTTTTCAG----------------A-GAGAAGAAGCTATACACTTATGTACTTATAGTAGTTTGGTAGA-AAAACTAAATACTCTTTGGTTC-TTCTG-AC---TGCCA-GATCTAGTTCTG---TTG--------G--AG-ACTGGTGATAGGTAGCCCGAGGCAGGGATGTCAACAAAGTC-----TAAATTCGTATA
gi|13 : agagagttcTATGTTGATCTATC-AAACCTGATAATTG-CT--AT------TAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TCAGAAAA-A---ACAA-------A-A---ACGCA---AATAAGATATTTATATG------TATAAAGAGAAGTAAAAAAAGGACTATAGACAT-ATTAAA---GTG-------AAGATACATGTAT-A----A--AA---TACTAG-------AGATA----TAGAAGAAAGGAACTGCACA-TTATTTTTTACCCAACAAAGAC-AAACTGTTCTG-GCTTCCG---TGG----CA-----GTAttgatgtttaaaattttt
gi|14 : acattgaAACCCCAGCAT---GTTTGCCTTCTCC--GTTACTCTGTTTA-TATGGCTACTCAAGGAGAGATT-GGACTGTAAGCCAACTTATAGGTAGTGTGTTGTCTTATCGTGCTCAAGAGTTGTTCCTTTTAGGATATAGTTTCCTAGTATGTTTTTTTAAGATCTTGAGACGCGGAGGACACTACACTTCTGTGGATTAAAGC-CATTCCCCATCTTTt
gi|15 : TACATTGAT--------GCTTGATAATTA-CTCAACCTAGCACAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TT-GAGAA-A---ATAATA-----ATACATGTACA---AGTCGGGTA--TACATA------T--AAAGAGAAATATATAAAGGGCTATAGCTGT-ATTGGATATGTG---TACTAGAA-AATTATAT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAAt
gi|16 : atctaaattTATG---TACAAAGA-GAAGATAT-A----A--AT---TACTAA-------AGATA----TAGAAGAAACCAATT-CCCACCTATTTTTCACTCGACAAAGAC-AAACCGTTGTG-GCTTCCA---TGG----GG-----GTACCAGGCTTTGTATCCCCGCCAGCTTCGCAACGTTTTGTCGTTGGTTGGAATACGTCAAAGC
gi|17 : gCGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGTGTAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TATGAGAA-A---AT-A-------ATA---ATACA---AATGTAGTT--TAC--A------TGTAAAGAGAAATATATAAAGGGCTATAGCAGT-ATTAGATATGTG---TACTat
gi|18 : TGATAATTA-TTCAATGGTGTGCAATGAGAGAGGGA-----CAGAA-----------------------TAAAA-------TCAGAAAA-AAAGACAA-------ATA---AGACATAGATTCA---A--TATGTT------TATAAAGAGAAGAAAATAGAGGACTAAAGAAGT-TTTAGtactgacaaaatcta
gi|19 : TTGATCTATC-AAGATTGATAGGTAACTCAACGGTGTGCAAAGAAAGAAGGA-----TACAA-----------------------TATAA-------TTTGAGAA-A---AT-A-------ATA---ATACA---AGTGTGGTA--TATAT
gi|2 : ctatatctacatctacattgatcccTA----TAGAAGAAAGGAATT-GCCAGCTATTTTTCACCTGATTAAGAC-AAACCGTTCTG-GCTGTAG---TGG----TG-----GTACCAGGTTTTTTAACCCCGCCAACATCACAATGTCCTATTGTTGGTTGGGCTACATCATAGCTGGGACAAAAAACCCATTTTAGATCTAACTGGAGAAAAGCTCCCACTTGAA-GGTTACCAAGGAGGGGTTCTCAGCAA---TATATGCTGGTAGTCTGTTCCAAGTAGGGATG--GCC-CATGGGAATAGTTT----------GTACTTGAAGTAGTC-TGTAGATGGAG---AATAGTGTT-GGTA---CTTGTACGAGTGAGATGCTGTTGTTCTGG--TTGTT------GTTAC-A---GTGA--GGTATTTAGAGGCTGGGATGTCGACCAAATCATTGGCAATTTTGTATAAAATTGTTAGC-TTTAGTTTCGAT-CGTC-TGACTTCTAGT---GTATTCCCAGCCTAAGTAAGTCAGC-ATGT-TGTTTA--CA-CT-TCTTTTGTGGTGGTACCTATTTGTAACATATCGGGCCGCCCTTCTCT--GAACCATCTCAATTTGTTTTATTTAGCCTTGTTGGAGGGGTTTCC--AGACT--GTTGC-ACAATGGTCATGGGTTGAACATTCCATCGC---A-AT-GT---ATG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTCCTTCTAAAGAACCCCGGCATACTGTTTGCCTTCTTC--ATTACCCTGTATA-TATGGCTACTCTAGGAGATATTGG-ACT
gi|21 : TACGTTGATCTATC-AAACTTGATAATTA-CTCAACTGTAC
gi|22 : catctgcattgaTAGACATGTG---TATGAGGA-AGAGTTAT-A----A--GA---TACTAATAGTTA-AGATA----TAGAAGAAAGGAATT-CCCAGCTATaataatttcatcgaattattgctat
gi|23 : TACATTGATCTATCAAAAGTTGACAATTA-CTCAA
gi|3 : acatctatatggTGTTCCAA--ACAGATACTGTCCTA-GGGAAGAAGCT----------GAACTTGTAATAGTT-GGTAGA-GGAACCAAGTATTCT---ATACGTCTT---CTGGTG-GCTGATCAAGTTCTGT--TGGAA------GCTGGTA---GT-A--GGTAATCTGAGGCAGGAATGACAACAAGGGTTTTCACGATCTTGTAGAACATTGT-AGCCTGGGATCT-GATGCGCCGTG-TCTCAAGT---GTA-TCCCACTTTAGATGGTCCACC-ATAGATGTA-A--CA-CT-GCTAGAGTTCCTATATCTGTTTGCGGTGTATATAGCAGCTCTTCTCTTTGTACCCACTCAAGCTGTCGTACCAGGTCTTGTATATACGGGCTCA--AGACTCTGCTGC-AT--TATCCTAGAGTTGGTCGTACCA--ATGAAA-A--GTATGTTGAGACATTTGTT------GCCTC-TTTATTGATGCATAGATTTCTGCGTAAGAAGCTAAGTGAACTGTTTGCCTTTTTCAAATTCTTGTGTATATTATGCTTCTTCCAGGA
gi|4 : TACGTTGATCTATC-AAACTTGATAATTA-CTCAAAGTTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA--------TA---ATACA---AATCAG--A--TAAACA------TATAAAGAGAAATATATAAAAGGCTATAGCTGT-ATTAGATATGCG---TACTAGGA-AATGATAT-ACAATAGTAA---TAGTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACTCGACAAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CA-----GTACCTGGG--TTAAACCCGGCCAGCATCGCGATGTCCTGTCGCTGGTTGGGCTACGACACAATTGGGACAAAAAAAtatgtttgaagacagttctacacctaaatacctcgaggtctcctctgtggctatggttatgtcctttgagcttgtaatcagagctaagtggttt
gi|5 : atatctacgttgaTATGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGTGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA--------TA---ATACA---AATCAGGTA--TACATA------T--AAAGAGAAAGATATAAAGGGCTATAGCTGT-ATTAGATATGTG---TGCTATGA-AAAGATAT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACCAGACGAAGAC-AAACCGTTCTG-GCTTCTG---TGG----CA-----GAACCAGGGTTTTCAACCCTGCCAGCATCGCAATGTTCTGTCGTTGGTTGGGCTACGTCATAGCTGGG--AAGAAAACTG
gi|6 : gaTACGTCGATCTATC-AAACTTGATAATTA-ATCAACGGTGCGCTTTGCACGAATGA-----TAGCA-----------------------TATAA-------TCAGAATA-A---ATAA-------ATA---CTACA---AATAAG------ATAGA------TATAAATAGAAATAACTTGAGGGCTATAGACGTAATGAGATACATA---AAATAAGT-GAAGATAT-A----A--AG---TCTTAG-------AGATA----TAGAAGAAAGGATTT-CCCAGCTATTTTTCAGCCGACAAAGAC--AGCCGTTCTG-GCTTCCG---TGGCTTCCGTTGCTGTACCAGGGTTTTGAGCTCCGCCTGCATCGCAATGTCTCGTCGTTGGATGGGCTTCGTCACA
gi|7 : tacaacgaATGCTTTTGTTCTGG--TTGTT------GCCAG-A---GTGA--GGTATTTCGAGGCTGGGATGTCAACCGAATCATTGACAATTTCGTATAGAATTGTAAGC-TGTAGTTTCGAT-CGTC-TGTCTTCTAGT---GTA-TCCCAGTCTAAGTGAGTCCGC-ATAC-TATTTA--CG-TT-ACTTTTGTTGTGGTACCTATTTGTTACAT-TTG--------TCCTCT--GAACCATTCTGATTTGCTTCATTTGGTCTTGTTGGTGGGGGCTCC--AGACT--GTTGC-ACAATAGTCAAGGTTT
gi|8 : gaattctTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGATGCGCAAAGAAAGAAGGATAGAATAGAATTTGAGATTATAATAATATCAGATATAACCATGTGTTTGATAA-A---GTAACTCATTTATA---AAACA---AATCAGGTG--TACATA------TA--AAGAAAAATATATAAATGGCTATAGCTAT-ATTAGATATATG---TACTAGGA-AAAGATCT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAATT-CTAAACTTTTTTTCACCCGACAAAGAC-AAACCGTTCTG-ACTTCTG---TGG----TG-----GTACCAGGGTTTTTtaaccaagtgaaaaaatacgttaaatatacgttatttttatttat
gi|9 : tacattgaATGACTGAACTTATCTGGTTCTGAACTTTCTACAATAGCTAG-A---GTAA--ATTATTCTAAGGCTGAAATGTTGACCAAATCATTGACAATTTTATATAGAATTGTTAGC-TGTAATTTTAAT-CGTC-TG-ACTTTAGTGGGGTA-TC
gi|9 : tGTTAGCTGTAA-T-TTTAATCGTCTGACTTTAGTGG-GGTATCTGTTTGTAACATACTGGGTTGCCCTTAACT--GAACCATCTCAATTTTCTTGATCTGACCTTGCTGAT-GGTACTCTTAAGACA--GTTGCAAAAATAATCAAGGTCTGATCATACCA-----------------TTG---CATTT-TTTTAGtgtttgtaacatactgggttgcccttaactgaaccatctcaattttcttgatctgaccttgctgatggtactcttaagacagttgcaaaaataatcaaggtctgatcataccattgcatttttttag
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|20 ): GTACACATAGTGAAATGGTGAAGCCTGTATTGTCTCATTAATGATGCGTAAATTGCTACATAAGAAACAAAGTGAACTTTTGCCTTTTCACAGTCTTGGGTATATGCTTCTTTC
Alignments
lowQualScore : 33333333333333333333333 1111111 1111111 111111 2222222 11111111111 2222 111 11 3333333333333333333 4444444444 11 1 222 333333333 11 111 22222222 111 222 111 11 11 11 11 88888888888888888 111 1 11 1 111 222222 222222 1
lowQualScore : 3 3 99999 33333333333333333333333 1111111 4 3 666 4 6666666 666 666 4 55 0 111111 77 4 4 666 3 0 3 7777 55 666 2222222 7777 3 4 4 777 66666666666 3 0 0 3 3 0 6666 777 55 7777777777777777777 0 3333333333 1 22 5 444 0 1 111111111 55 5 5 1 1 444 44444444 3 6 111 1 99 3 0 6 8 3 8 3 8 000 444 8 8 99 8 0 11 8 8 1 0 3 0 444 6 11 3 11 11 8 0 0 1 00000000000000000 777 2 3 7 3 2 3 33 1 0 6 0 666 888888 999999 1 1 1 22 1 1 1 5 1
lowQualScore : . . ..... ....................... ....... . . ... . ....... ... ... . .. . ...... .. . . ... . . . .... .. ... ....... .... . . . ... ........... . . . . . . .... ... .. ................... . .......... . .. . ... . . ......... .. . . . . ... ........ . . ... . .. . . . . . . . . ... ... . . .. . . .. . . . . . . ... . .. . .. .. . . . . ................. ... . . . . . . .. . . . . ... ...... ...... . . . .. . . . . .
lowQualScore : 3 1 11111 66666666666666666666666 8888888 9 6 444 4 8888888 444 444 3 00 4 555555 99 6 0 444 6 2 6 7777 00 444 3333333 1111 6 0 0 000 22222222222 8 6 2 7 2 8 5555 555 77 2222222222222222222 2 8888888888 0 55 5 555 8 0 222222222 22 0 6 0 0 333 55555555 7 7 777 0 22 5 7 0 0 2 0 8 0 666 000 0 0 00 2 8 00 0 0 4 6 8 8 666 4 00 2 00 00 0 8 6 2 88888888888888888 555 5 2 3 3 0 2 88 0 0 5 2 777 555555 000000 0 0 0 00 0 0 0 5 0
consensus : CTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA-------ATA---ATACA---AATCAGGTA--TACATA------TATAAAGAGAAATATATAAAGGGCTATAGCCGT-ATTAGATATGTG---TACTAGGA-AAAGATAT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACCCGACAAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CG-----GTACCAGGGTTTTTAACCCCGCCAGCATCGCAATGTCCTGTCGTTGGTTGGGCTACGTCATAGCTGGGACAAAAAAACCGTTTTAGATCGGATTGGAGAAAAGCTCCCTCTTGAA-GG-TACCAAGGAGGGGGCCTCAGCAA---TAGATGCCGGTAGTCTGTTCCAAGTANAGATG--GTCG-A-GGGAAGAGGCT----------GTACTTGNAGTAGTC-GGTAGATGGAGCCAAATATTNTC-GGTAC-TCTTGCACGAGTGAGATGNTCTNGTTCTGG--TTGTT------GCTAG-A---GTGA--GGTATTCCGAGGCTGGGATGTCGACCAAATCATTGACAATTTCGTATAGAATTGTTAGC-TGTAGTTTCGAT-CGTC-TG-CCTCTAGT---GTA-TCCCAGCCTAAGTGAGTCAGC-ATAN-TGTTTA--CG-CT-ACTTTTGTTGTGGTACCTATTTGTAACATATCGGGCCGCCCTTCTCT--GAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCC--AGACT--GTTGC-ACAATAGTCAAGGTTTGATCGTACCA--NC---A-A--GT---TTG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTTCTTCTTAAGAACCCCAGCGTACTGTTTGCCTTCTTC--ATTACTCTGTNTA-TATGGCTACTCCAGGAGAGATT-G-ACTGCAGGCCAACTTATAGGTAGTNTGTTGTCTTATCNTGCTCAAGNGTTGTTCCTTTCAGGATGTAGTTTCCTGGTATGNNTTTTTNGNATCTTGAGACGCGGAGGACACTACACTTCTGTGGGTNAAAGCACATTCCCNATCTTT
Reference ( family-117 ) : CTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA-------ATA---ATACA---AATCAGGTA--TACATA------TATAAAGAGAAATATATAAAGGGCTATAGCCGT-ATTAGATATGTG---TACTAGGA-AAAGATAT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACCCGACAAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CG-----GTACCAGGGTTTTTAACCCCGCCAGCATCGCAATGTCCTGTCGTTGGTTGGGCTACGTCATAGCTGGGACAAAAAAACCGTTTTAGATCGGATTGGAGAAAAGCTCCCTCTTGAA-GG-TACCAAGGAGGGGGCCTCAGCAA---TAGATGCCGGTAGTCTGTTCCAAGTANAGATG--GTCN-A-GGGAAGAGGCT----------GTACTTGNAGTAGTC-GGTAGATGGAGCCAAATATTNTC-GGTAC-TCTTGCACGAGTGAGATGNTCTNGTTCTGG--TTGTT------GCTAG-A---GTGA--GGTATTCCGAGGCTGGGATGTCGACCAAATCATTGACAATTTCGTATAGAATTGTTAGC-TGTAGTTTCGAT-CGTC-TG-CCTCTAGT---GTA-TCCCAGCCTAAGTGAGTCAGC-ATAN-TGTTTA--CG-CT-ACTTTTGTTGTGGTACCTATTTGTAACATATCGGGCCGCCCTTCTCT--GAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCC--AGACT--GTTGC-ACAATAGTCAAGGTTTGATCGTACCA--NC---A-A--GT---TTG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTTCTTCTTAAGAACCCCAGCGTACTGTTTGCCTTCTTC--ATTACTCTGTNTA-TATGGCTACTCCAGGAGAGATT-G-ACTGCAGGCCAACTTATAGGTAGTNTGTTGTCTTATCNTGCTCAAGNGTTGTTCCTTTCAGGATGTAGTTTCCTGGTATGNNTTTTTNGNATCTTGAGACGCGGAGGACACTACACTTCTGTGGGTNAAAGCACATTCCCNATCTTT
gi|1 : CTACATTGATCTAAC-AAACTTGACAATAA-CTCAACGGTGCACAAAGAAAGATGGA-----AAGAA-----------------------TATAA-------TTAGAGAA-A---ATAA-------ATA---ATACA---GATCAGATA--TACATAATAAATTATAAAGAAAAATATATAAAAGGCTATAGATGT-ATTAGATATATGATATACTAAGG-GA-TATAT-A----A--AA---TACTAA-------AGATA----TAGAAGACAGGAATT-TCCGGCTATTTTTCACCCGACAAAGAC-AAACAAATTTA-GCTTCCG---TGG----TG-----GTACCAGTTTTTTTAGCCCCACCAGCATTCCAATGTCCTCTTGTTGCTTGGGCTACGTCATAGCTGGGACAAAAAAAACGTTTTAGATTGGTTTGGAGAAAAGCTCCCTCTTGAA-GGATACCAAGGAAGGGGCCTCAGCAA---TAGATGCCAGTAGTCTGTTCCAAGTATAGATG--GTTG-T-GGGAAGAGACT----------GTACTTGAAGTACTC-TGTAGATGGAG---AATGTTGTC-AGTA---CTTGCATGAGTGAGATGCTCTGATTCTGG--TTGTT------GTTAG-A---GTGT--GGTATTTCGAGGCTGCAATGTTGACCACATCATTGACAATTTTATATAGAATTGTTAGC-TGTAGTTTCGAT-TG--------TCTAGT---GTA-TCCCAGCCTAAGTGAGTAAGC-ATAT-TCTTTA--TG-CT-ACTTTTGTTATAGTACCTATTTGTAACATATCTGGCTATCCTTCTCT--GAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCC--TGACT--GCTGC-ACAATTGTCAAGGTTTGACCGTACCA--TC---ATAATGT---TTG---CATTTGTTTTAGTGGTTTCACTGGTTGATCTA-AGGTTTCTTCTTATAAACCCCAGCATACTATTTGCCTTTTTC--ATTACTCTTTTTA-TATGGCTA-TCCAGGAGAGATT-G-ACTGCAG------TTAT------TTTGTTGTCTTATCTTGCTCAAGTGTTGTTCCTTTCAGGATGTAGTTTCTTGGTATGGGTTTTTTGTATCTTGAGACATGGAGGACACTACACTTCTGTGGGTGAAAATACATTCCCAATCTTT
gi|10 : CTACATTGATCTATT-A-----GATAATTA-CTGAACGGTGCACAAAGAAAAAAGAA-----TAATA-----------------------TATAA-------TTTGAGAACA---AT-A-------ATG---ATGCA---AATCAAGTA--TAAATA------T-T-AAGAGAACTATATAAAGGACTTTAGCTTT-ATTAGATATATG---TACTTGGA-AAAGATATAA----A--AA---TACTAA-------AGATA----TAGAACAAAGGAATT-CCCAGCTATTTTTCACCCAACAAAGACTGAA---TTCTATGCTTTTGTTCTGGT---TG-----TTGCCAGAGT
gi|11 : ttaaatAGAG-AAATATAT-A----A--AGGGCTATTAACTGTATTAGCTATGTGTACAAAAAAAGAATT-CCCAGCTATTTTTCACCCAACGAAGAC-AAACCGTTCCC-GCTTCCA---TGG----CG-----GTACCGGGGTTTTTAACTCTGACAGCATTGCAATGTCCTGTTGTTGGTTAGGCCACGTCATAGCTGGGGTAAAAACCCAATTTTAAATCAGATTGGAGAAAAGTTCCTTC--------------AGGAGGGGGCTTCAGCAA---TAGAT
gi|12 : atataaAACCCCTTCTTGGATGA-TACCAAGGAGGGGGCCTCAGCTACTGTGGTTGC---TAAACTTTTTCA---------------G-A-GAGAAGAAGCTATACACTTATGTACTTATAGTAGTTTGGTAGA-AAAACTAAATACTCTTTGGTTC-TTCTG-AC---TGCCA-GATCTAGTTCTG---TTG--------G--AG-ACTGGTGATAGGTAGCCCGAGGCAGGGATGTCAACAAAGTC-----TAAATTCGTATA
gi|13 : agagagttcTATGTTGATCTATC-AAACCTGATAATTG-CT--AT------TAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TCAGAAAA-A---ACAA-------A-A---ACGCA---AATAAGATATTTATATG------TATAAAGAGAAGTAAAAAAAGGACTATAGACAT-ATTAAA---GTG-------AAGATACATGTAT-A----A--AA---TACTAG-------AGATA----TAGAAGAAAGGAACTGCACA-TTATTTTTTACCCAACAAAGAC-AAACTGTTCTG-GCTTCCG---TGG----CA-----GTAttgatgtttaaaattttt
gi|14 : acattgaAACCCCAGCAT---GTTTGCCTTCTCC--GTTACTCTGTTTA-TATGGCTACTCAAGGAGAGATT-GGACTGTAAGCCAACTTATAGGTAGTGTGTTGTCTTATCGTGCTCAAGAGTTGTTCCTTTTAGGATATAGTTTCCTAGTATGTTTTTTTAAGATCTTGAGACGCGGAGGACACTACACTTCTGTGGATTAAAGC-CATTCCCCATCTTTt
gi|15 : TACATTGAT--------GCTTGATAATTA-CTCAACCTAGCACAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TT-GAGAA-A---ATAATA-----ATACATGTACA---AGTCGGGTA--TACATA------T--AAAGAGAAATATATAAAGGGCTATAGCTGT-ATTGGATATGTG---TACTAGAA-AATTATAT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAAt
gi|16 : atctaaattTATG---TACAAAGA-GAAGATAT-A----A--AT---TACTAA-------AGATA----TAGAAGAAACCAATT-CCCACCTATTTTTCACTCGACAAAGAC-AAACCGTTGTG-GCTTCCA---TGG----GG-----GTACCAGGCTTTGTATCCCCGCCAGCTTCGCAACGTTTTGTCGTTGGTTGGAATACGTCAAAGC
gi|17 : gCGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGTGTAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TATGAGAA-A---AT-A-------ATA---ATACA---AATGTAGTT--TAC--A------TGTAAAGAGAAATATATAAAGGGCTATAGCAGT-ATTAGATATGTG---TACTat
gi|18 : TGATAATTA-TTCAATGGTGTGCAATGAGAGAGGGA-----CAGAA-----------------------TAAAA-------TCAGAAAA-AAAGACAA-------ATA---AGACATAGATTCA---A--TATGTT------TATAAAGAGAAGAAAATAGAGGACTAAAGAAGT-TTTAGtactgacaaaatcta
gi|19 : TTGATCTATC-AAGATTGATAGGTAACTCAACGGTGTGCAAAGAAAGAAGGA-----TACAA-----------------------TATAA-------TTTGAGAA-A---AT-A-------ATA---ATACA---AGTGTGGTA--TATAT
gi|2 : ctatatctacatctacattgatcccTA----TAGAAGAAAGGAATT-GCCAGCTATTTTTCACCTGATTAAGAC-AAACCGTTCTG-GCTGTAG---TGG----TG-----GTACCAGGTTTTTTAACCCCGCCAACATCACAATGTCCTATTGTTGGTTGGGCTACATCATAGCTGGGACAAAAAACCCATTTTAGATCTAACTGGAGAAAAGCTCCCACTTGAA-GGTTACCAAGGAGGGGTTCTCAGCAA---TATATGCTGGTAGTCTGTTCCAAGTAGGGATG--GCCC-ATGGGAATAGTTT----------GTACTTGAAGTAGTC-TGTAGATGGAG---AATAGTGTT-GGTA---CTTGTACGAGTGAGATGCTGTTGTTCTGG--TTGTT------GTTAC-A---GTGA--GGTATTTAGAGGCTGGGATGTCGACCAAATCATTGGCAATTTTGTATAAAATTGTTAGC-TTTAGTTTCGAT-CGTC-TGACTTCTAGT---GTATTCCCAGCCTAAGTAAGTCAGC-ATGT-TGTTTA--CA-CT-TCTTTTGTGGTGGTACCTATTTGTAACATATCGGGCCGCCCTTCTCT--GAACCATCTCAATTTGTTTTATTTAGCCTTGTTGGAGGGGTTTCC--AGACT--GTTGC-ACAATGGTCATGGGTTGAACATTCCATCGC---A-AT-GT---ATG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTCCTTCTAAAGAACCCCGGCATACTGTTTGCCTTCTTC--ATTACCCTGTATA-TATGGCTACTCTAGGAGATATTGG-ACT
gi|21 : TACGTTGATCTATC-AAACTTGATAATTA-CTCAACTGTAC
gi|22 : catctgcattgaTAGACATGTG---TATGAGGA-AGAGTTAT-A----A--GA---TACTAATAGTTA-AGATA----TAGAAGAAAGGAATT-CCCAGCTATaataatttcatcgaattattgctat
gi|23 : TACATTGATCTATCAAAAGTTGACAATTA-CTCAA
gi|3 : acatctatatggTGTTCCAA--ACAGATACTGTCCTA-GGGAAGAAGCT----------GAACTTGTAATAGTT-GGTAGA-GGAACCAAGTATTCT---ATACGTCTT---CTGGTG-GCTGATCAAGTTCTGT--TGGAA------GCTGGTA---GT-A--GGTAATCTGAGGCAGGAATGACAACAAGGGTTTTCACGATCTTGTAGAACATTGT-AGCCTGGGATCT-GATGCGCCGTG-TCTCAAGT---GTA-TCCCACTTTAGATGGTCCACC-ATAGATGTA-A--CA-CT-GCTAGAGTTCCTATATCTGTTTGCGGTGTATATAGCAGCTCTTCTCTTTGTACCCACTCAAGCTGTCGTACCAGGTCTTGTATATACGGGCTCA--AGACTCTGCTGC-AT--TATCCTAGAGTTGGTCGTACCA--ATGAAA-A--GTATGTTGAGACATTTGTT------GCCTC-TTTATTGATGCATAGATTTCTGCGTAAGAAGCTAAGTGAACTGTTTGCCTTTTTCAAATTCTTGTGTATATTATGCTTCTTCCAGGA
gi|4 : TACGTTGATCTATC-AAACTTGATAATTA-CTCAAAGTTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA--------TA---ATACA---AATCAG--A--TAAACA------TATAAAGAGAAATATATAAAAGGCTATAGCTGT-ATTAGATATGCG---TACTAGGA-AATGATAT-ACAATAGTAA---TAGTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACTCGACAAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CA-----GTACCTGGG--TTAAACCCGGCCAGCATCGCGATGTCCTGTCGCTGGTTGGGCTACGACACAATTGGGACAAAAAAAtatgtttgaagacagttctacacctaaatacctcgaggtctcctctgtggctatggttatgtcctttgagcttgtaatcagagctaagtggttt
gi|5 : atatctacgttgaTATGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGTGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA--------TA---ATACA---AATCAGGTA--TACATA------T--AAAGAGAAAGATATAAAGGGCTATAGCTGT-ATTAGATATGTG---TGCTATGA-AAAGATAT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACCAGACGAAGAC-AAACCGTTCTG-GCTTCTG---TGG----CA-----GAACCAGGGTTTTCAACCCTGCCAGCATCGCAATGTTCTGTCGTTGGTTGGGCTACGTCATAGCTGGG--AAGAAAACTG
gi|6 : gaTACGTCGATCTATC-AAACTTGATAATTA-ATCAACGGTGCGCTTTGCACGAATGA-----TAGCA-----------------------TATAA-------TCAGAATA-A---ATAA-------ATA---CTACA---AATAAG------ATAGA------TATAAATAGAAATAACTTGAGGGCTATAGACGTAATGAGATACATA---AAATAAGT-GAAGATAT-A----A--AG---TCTTAG-------AGATA----TAGAAGAAAGGATTT-CCCAGCTATTTTTCAGCCGACAAAGAC--AGCCGTTCTG-GCTTCCG---TGGCTTCCGTTGCTGTACCAGGGTTTTGAGCTCCGCCTGCATCGCAATGTCTCGTCGTTGGATGGGCTTCGTCACA
gi|7 : tacaacgaATGCTTTTGTTCTGG--TTGTT------GCCAG-A---GTGA--GGTATTTCGAGGCTGGGATGTCAACCGAATCATTGACAATTTCGTATAGAATTGTAAGC-TGTAGTTTCGAT-CGTC-TGTCTTCTAGT---GTA-TCCCAGTCTAAGTGAGTCCGC-ATAC-TATTTA--CG-TT-ACTTTTGTTGTGGTACCTATTTGTTACAT-TTG--------TCCTCT--GAACCATTCTGATTTGCTTCATTTGGTCTTGTTGGTGGGGGCTCC--AGACT--GTTGC-ACAATAGTCAAGGTTT
gi|8 : gaattctTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGATGCGCAAAGAAAGAAGGATAGAATAGAATTTGAGATTATAATAATATCAGATATAACCATGTGTTTGATAA-A---GTAACTCATTTATA---AAACA---AATCAGGTG--TACATA------TA--AAGAAAAATATATAAATGGCTATAGCTAT-ATTAGATATATG---TACTAGGA-AAAGATCT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAATT-CTAAACTTTTTTTCACCCGACAAAGAC-AAACCGTTCTG-ACTTCTG---TGG----TG-----GTACCAGGGTTTTTtaaccaagtgaaaaaatacgttaaatatacgttatttttatttat
gi|9 : tacattgaATGACTGAACTTATCTGGTTCTGAACTTTCTACAATAGCTAG-A---GTAA--ATTATTCTAAGGCTGAAATGTTGACCAAATCATTGACAATTTTATATAGAATTGTTAGC-TGTAATTTTAAT-CGTC-TG-ACTTTAGTGGGGTA-TC
gi|9 : tGTTAGCTGTAA-T-TTTAATCGTCTGACTTTAGTGG-GGTATCTGTTTGTAACATACTGGGTTGCCCTTAACT--GAACCATCTCAATTTTCTTGATCTGACCTTGCTGAT-GGTACTCTTAAGACA--GTTGCAAAAATAATCAAGGTCTGATCATACCA-----------------TTG---CATTT-TTTTAGtgtttgtaacatactgggttgcccttaactgaaccatctcaattttcttgatctgaccttgctgatggtactcttaagacagttgcaaaaataatcaaggtctgatcataccattgcatttttttag
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|20 ): GTACACATAGTGAAATGGTGAAGCCTGTATTGTCTCATTAATGATGCGTAAATTGCTACATAAGAAACAAAGTGAACTTTTGCCTTTTCACAGTCTTGGGTATATGCTTCTTTC
Alignments
lowQualScore : 33333333333333333333333 1111111 1111111 111111 2222222 11111111111 2222 111 11 3333333333333333333 4444444444 11 1 222 333333333 11 111 22222222 111 222 111 11 11 11 11 88888888888888888 111 1 11 1 111 222222 222222 1
lowQualScore : 3 3 99999 33333333333333333333333 1111111 4 3 666 4 6666666 666 666 4 55 0 111111 77 4 4 666 3 0 3 7777 55 666 2222222 7777 3 4 4 777 66666666666 3 0 0 3 3 0 6666 777 55 8888888888888888888 0 3333333333 1 22 5 444 0 1 111111111 55 5 5 1 1 444 44444444 3 6 111 1 99 3 0 6 8 3 8 3 8 000 444 8 8 99 8 0 11 8 8 1 0 3 0 444 6 11 3 11 11 8 0 0 1 00000000000000000 777 2 3 7 3 2 3 33 1 0 6 0 666 888888 999999 1 1 1 22 1 1 1 5 1
lowQualScore : . . ..... ....................... ....... . . ... . ....... ... ... . .. . ...... .. . . ... . . . .... .. ... ....... .... . . . ... ........... . . . . . . .... ... .. ................... . .......... . .. . ... . . ......... .. . . . . ... ........ . . ... . .. . . . . . . . . ... ... . . .. . . .. . . . . . . ... . .. . .. .. . . . . ................. ... . . . . . . .. . . . . ... ...... ...... . . . .. . . . . .
lowQualScore : 3 1 11111 66666666666666666666666 8888888 9 6 444 4 8888888 444 444 3 00 4 555555 99 6 0 444 6 2 6 7777 00 444 3333333 1111 6 0 0 000 22222222222 8 6 2 7 2 8 5555 555 77 8888888888888888888 2 8888888888 0 55 5 555 8 0 222222222 22 0 6 0 0 333 55555555 7 7 777 0 22 5 7 0 0 2 0 8 0 666 000 0 0 00 2 8 00 0 0 4 6 8 8 666 4 00 2 00 00 0 8 6 2 88888888888888888 555 5 2 3 3 0 2 88 0 0 5 2 777 555555 000000 0 0 0 00 0 0 0 5 0
consensus : CTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA-------ATA---ATACA---AATCAGGTA--TACATA------TATAAAGAGAAATATATAAAGGGCTATAGCCGT-ATTAGATATGTG---TACTAGGA-AAAGATAT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACCCGACAAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CG-----GTACCAGGGTTTTTAACCCCGCCAGCATCGCAATGTCCTGTCGTTGGTTGGGCTACGTCATAGCTGGGACAAAAAAACCGTTTTAGATCGGATTGGAGAAAAGCTCCCTCTTGAA-GG-TACCAAGGAGGGGGCCTCAGCAA---TAGATGCCGGTAGTCTGTTCCAAGTANAGATG--GTCG-A-GGGAAGAGGCT----------GTACTTGNAGTAGTC-GGTAGATGGAGCCAAATATTNTC-GGTAC-TCTTGCACGAGTGAGATGNTCTNGTTCTGG--TTGTT------GCTAG-A---GTGA--GGTATTCCGAGGCTGGGATGTCGACCAAATCATTGACAATTTCGTATAGAATTGTTAGC-TGTAGTTTCGAT-CGTC-TG-CCTCTAGT---GTA-TCCCAGCCTAAGTGAGTCAGC-ATAN-TGTTTA--CG-CT-ACTTTTGTTGTGGTACCTATTTGTAACATATCGGGCCGCCCTTCTCT--GAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCC--AGACT--GTTGC-ACAATAGTCAAGGTTTGATCGTACCA--NC---A-A--GT---TTG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTTCTTCTTAAGAACCCCAGCGTACTGTTTGCCTTCTTC--ATTACTCTGTNTA-TATGGCTACTCCAGGAGAGATT-G-ACTGCAGGCCAACTTATAGGTAGTNTGTTGTCTTATCNTGCTCAAGNGTTGTTCCTTTCAGGATGTAGTTTCCTGGTATGNNTTTTTNGNATCTTGAGACGCGGAGGACACTACACTTCTGTGGGTNAAAGCACATTCCCNATCTTT
Reference ( family-117 ) : CTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA-------ATA---ATACA---AATCAGGTA--TACATA------TATAAAGAGAAATATATAAAGGGCTATAGCCGT-ATTAGATATGTG---TACTAGGA-AAAGATAT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACCCGACAAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CG-----GTACCAGGGTTTTTAACCCCGCCAGCATCGCAATGTCCTGTCGTTGGTTGGGCTACGTCATAGCTGGGACAAAAAAACCGTTTTAGATCGGATTGGAGAAAAGCTCCCTCTTGAA-GG-TACCAAGGAGGGGGCCTCAGCAA---TAGATGCCGGTAGTCTGTTCCAAGTANAGATG--GTCG-A-GGGAAGAGGCT----------GTACTTGNAGTAGTC-GGTAGATGGAGCCAAATATTNTC-GGTAC-TCTTGCACGAGTGAGATGNTCTNGTTCTGG--TTGTT------GCTAG-A---GTGA--GGTATTCCGAGGCTGGGATGTCGACCAAATCATTGACAATTTCGTATAGAATTGTTAGC-TGTAGTTTCGAT-CGTC-TG-CCTCTAGT---GTA-TCCCAGCCTAAGTGAGTCAGC-ATAN-TGTTTA--CG-CT-ACTTTTGTTGTGGTACCTATTTGTAACATATCGGGCCGCCCTTCTCT--GAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCC--AGACT--GTTGC-ACAATAGTCAAGGTTTGATCGTACCA--NC---A-A--GT---TTG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTTCTTCTTAAGAACCCCAGCGTACTGTTTGCCTTCTTC--ATTACTCTGTNTA-TATGGCTACTCCAGGAGAGATT-G-ACTGCAGGCCAACTTATAGGTAGTNTGTTGTCTTATCNTGCTCAAGNGTTGTTCCTTTCAGGATGTAGTTTCCTGGTATGNNTTTTTNGNATCTTGAGACGCGGAGGACACTACACTTCTGTGGGTNAAAGCACATTCCCNATCTTT
gi|1 : CTACATTGATCTAAC-AAACTTGACAATAA-CTCAACGGTGCACAAAGAAAGATGGA-----AAGAA-----------------------TATAA-------TTAGAGAA-A---ATAA-------ATA---ATACA---GATCAGATA--TACATAATAAATTATAAAGAAAAATATATAAAAGGCTATAGATGT-ATTAGATATATGATATACTAAGG-GA-TATAT-A----A--AA---TACTAA-------AGATA----TAGAAGACAGGAATT-TCCGGCTATTTTTCACCCGACAAAGAC-AAACAAATTTA-GCTTCCG---TGG----TG-----GTACCAGTTTTTTTAGCCCCACCAGCATTCCAATGTCCTCTTGTTGCTTGGGCTACGTCATAGCTGGGACAAAAAAAACGTTTTAGATTGGTTTGGAGAAAAGCTCCCTCTTGAA-GGATACCAAGGAAGGGGCCTCAGCAA---TAGATGCCAGTAGTCTGTTCCAAGTATAGATG--GTTG-T-GGGAAGAGACT----------GTACTTGAAGTACTC-TGTAGATGGAG---AATGTTGTC-AGTA---CTTGCATGAGTGAGATGCTCTGATTCTGG--TTGTT------GTTAG-A---GTGT--GGTATTTCGAGGCTGCAATGTTGACCACATCATTGACAATTTTATATAGAATTGTTAGC-TGTAGTTTCGAT-TG--------TCTAGT---GTA-TCCCAGCCTAAGTGAGTAAGC-ATAT-TCTTTA--TG-CT-ACTTTTGTTATAGTACCTATTTGTAACATATCTGGCTATCCTTCTCT--GAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCC--TGACT--GCTGC-ACAATTGTCAAGGTTTGACCGTACCA--TC---ATAATGT---TTG---CATTTGTTTTAGTGGTTTCACTGGTTGATCTA-AGGTTTCTTCTTATAAACCCCAGCATACTATTTGCCTTTTTC--ATTACTCTTTTTA-TATGGCTA-TCCAGGAGAGATT-G-ACTGCAG------TTAT------TTTGTTGTCTTATCTTGCTCAAGTGTTGTTCCTTTCAGGATGTAGTTTCTTGGTATGGGTTTTTTGTATCTTGAGACATGGAGGACACTACACTTCTGTGGGTGAAAATACATTCCCAATCTTT
gi|10 : CTACATTGATCTATT-A-----GATAATTA-CTGAACGGTGCACAAAGAAAAAAGAA-----TAATA-----------------------TATAA-------TTTGAGAACA---AT-A-------ATG---ATGCA---AATCAAGTA--TAAATA------T-T-AAGAGAACTATATAAAGGACTTTAGCTTT-ATTAGATATATG---TACTTGGA-AAAGATATAA----A--AA---TACTAA-------AGATA----TAGAACAAAGGAATT-CCCAGCTATTTTTCACCCAACAAAGACTGAA---TTCTATGCTTTTGTTCTGGT---TG-----TTGCCAGAGT
gi|11 : ttaaatAGAG-AAATATAT-A----A--AGGGCTATTAACTGTATTAGCTATGTGTACAAAAAAAGAATT-CCCAGCTATTTTTCACCCAACGAAGAC-AAACCGTTCCC-GCTTCCA---TGG----CG-----GTACCGGGGTTTTTAACTCTGACAGCATTGCAATGTCCTGTTGTTGGTTAGGCCACGTCATAGCTGGGGTAAAAACCCAATTTTAAATCAGATTGGAGAAAAGTTCCTTC--------------AGGAGGGGGCTTCAGCAA---TAGAT
gi|12 : atataaAACCCCTTCTTGGATGA-TACCAAGGAGGGGGCCTCAGCTACTGTGGTTGC---TAAACTTTTTCA---------------G-A-GAGAAGAAGCTATACACTTATGTACTTATAGTAGTTTGGTAGA-AAAACTAAATACTCTTTGGTTC-TTCTG-AC---TGCCA-GATCTAGTTCTG---TTG--------G--AG-ACTGGTGATAGGTAGCCCGAGGCAGGGATGTCAACAAAGTC-----TAAATTCGTATA
gi|13 : agagagttcTATGTTGATCTATC-AAACCTGATAATTG-CT--AT------TAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TCAGAAAA-A---ACAA-------A-A---ACGCA---AATAAGATATTTATATG------TATAAAGAGAAGTAAAAAAAGGACTATAGACAT-ATTAAA---GTG-------AAGATACATGTAT-A----A--AA---TACTAG-------AGATA----TAGAAGAAAGGAACTGCACA-TTATTTTTTACCCAACAAAGAC-AAACTGTTCTG-GCTTCCG---TGG----CA-----GTAttgatgtttaaaattttt
gi|14 : acattgaAACCCCAGCAT---GTTTGCCTTCTCC--GTTACTCTGTTTA-TATGGCTACTCAAGGAGAGATT-GGACTGTAAGCCAACTTATAGGTAGTGTGTTGTCTTATCGTGCTCAAGAGTTGTTCCTTTTAGGATATAGTTTCCTAGTATGTTTTTTTAAGATCTTGAGACGCGGAGGACACTACACTTCTGTGGATTAAAGC-CATTCCCCATCTTTt
gi|15 : TACATTGAT--------GCTTGATAATTA-CTCAACCTAGCACAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TT-GAGAA-A---ATAATA-----ATACATGTACA---AGTCGGGTA--TACATA------T--AAAGAGAAATATATAAAGGGCTATAGCTGT-ATTGGATATGTG---TACTAGAA-AATTATAT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAAt
gi|16 : atctaaattTATG---TACAAAGA-GAAGATAT-A----A--AT---TACTAA-------AGATA----TAGAAGAAACCAATT-CCCACCTATTTTTCACTCGACAAAGAC-AAACCGTTGTG-GCTTCCA---TGG----GG-----GTACCAGGCTTTGTATCCCCGCCAGCTTCGCAACGTTTTGTCGTTGGTTGGAATACGTCAAAGC
gi|17 : gCGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGTGTAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TATGAGAA-A---AT-A-------ATA---ATACA---AATGTAGTT--TAC--A------TGTAAAGAGAAATATATAAAGGGCTATAGCAGT-ATTAGATATGTG---TACTat
gi|18 : TGATAATTA-TTCAATGGTGTGCAATGAGAGAGGGA-----CAGAA-----------------------TAAAA-------TCAGAAAA-AAAGACAA-------ATA---AGACATAGATTCA---A--TATGTT------TATAAAGAGAAGAAAATAGAGGACTAAAGAAGT-TTTAGtactgacaaaatcta
gi|19 : TTGATCTATC-AAGATTGATAGGTAACTCAACGGTGTGCAAAGAAAGAAGGA-----TACAA-----------------------TATAA-------TTTGAGAA-A---AT-A-------ATA---ATACA---AGTGTGGTA--TATAT
gi|2 : ctatatctacatctacattgatcccTA----TAGAAGAAAGGAATT-GCCAGCTATTTTTCACCTGATTAAGAC-AAACCGTTCTG-GCTGTAG---TGG----TG-----GTACCAGGTTTTTTAACCCCGCCAACATCACAATGTCCTATTGTTGGTTGGGCTACATCATAGCTGGGACAAAAAACCCATTTTAGATCTAACTGGAGAAAAGCTCCCACTTGAA-GGTTACCAAGGAGGGGTTCTCAGCAA---TATATGCTGGTAGTCTGTTCCAAGTAGGGATG--GCCC-ATGGGAATAGTTT----------GTACTTGAAGTAGTC-TGTAGATGGAG---AATAGTGTT-GGTA---CTTGTACGAGTGAGATGCTGTTGTTCTGG--TTGTT------GTTAC-A---GTGA--GGTATTTAGAGGCTGGGATGTCGACCAAATCATTGGCAATTTTGTATAAAATTGTTAGC-TTTAGTTTCGAT-CGTC-TGACTTCTAGT---GTATTCCCAGCCTAAGTAAGTCAGC-ATGT-TGTTTA--CA-CT-TCTTTTGTGGTGGTACCTATTTGTAACATATCGGGCCGCCCTTCTCT--GAACCATCTCAATTTGTTTTATTTAGCCTTGTTGGAGGGGTTTCC--AGACT--GTTGC-ACAATGGTCATGGGTTGAACATTCCATCGC---A-AT-GT---ATG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTCCTTCTAAAGAACCCCGGCATACTGTTTGCCTTCTTC--ATTACCCTGTATA-TATGGCTACTCTAGGAGATATTGG-ACT
gi|21 : TACGTTGATCTATC-AAACTTGATAATTA-CTCAACTGTAC
gi|22 : catctgcattgaTAGACATGTG---TATGAGGA-AGAGTTAT-A----A--GA---TACTAATAGTTA-AGATA----TAGAAGAAAGGAATT-CCCAGCTATaataatttcatcgaattattgctat
gi|23 : TACATTGATCTATCAAAAGTTGACAATTA-CTCAA
gi|3 : acatctatatggTGTTCCAA--ACAGATACTGTCCTA-GGGAAGAAGCT----------GAACTTGTAATAGTT-GGTAGA-GGAACCAAGTATTCT---ATACGTCTT---CTGGTG-GCTGATCAAGTTCTGT--TGGAA------GCTGGTA---GT-A--GGTAATCTGAGGCAGGAATGACAACAAGGGTTTTCACGATCTTGTAGAACATTGT-AGCCTGGGATCT-GATGCGCCGTG-TCTCAAGT---GTA-TCCCACTTTAGATGGTCCACC-ATAGATGTA-A--CA-CT-GCTAGAGTTCCTATATCTGTTTGCGGTGTATATAGCAGCTCTTCTCTTTGTACCCACTCAAGCTGTCGTACCAGGTCTTGTATATACGGGCTCA--AGACTCTGCTGC-AT--TATCCTAGAGTTGGTCGTACCA--ATGAAA-A--GTATGTTGAGACATTTGTT------GCCTC-TTTATTGATGCATAGATTTCTGCGTAAGAAGCTAAGTGAACTGTTTGCCTTTTTCAAATTCTTGTGTATATTATGCTTCTTCCAGGA
gi|4 : TACGTTGATCTATC-AAACTTGATAATTA-CTCAAAGTTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA--------TA---ATACA---AATCAG--A--TAAACA------TATAAAGAGAAATATATAAAAGGCTATAGCTGT-ATTAGATATGCG---TACTAGGA-AATGATAT-ACAATAGTAA---TAGTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACTCGACAAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CA-----GTACCTGGG--TTAAACCCGGCCAGCATCGCGATGTCCTGTCGCTGGTTGGGCTACGACACAATTGGGACAAAAAAAtatgtttgaagacagttctacacctaaatacctcgaggtctcctctgtggctatggttatgtcctttgagcttgtaatcagagctaagtggttt
gi|5 : atatctacgttgaTATGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGTGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA--------TA---ATACA---AATCAGGTA--TACATA------T--AAAGAGAAAGATATAAAGGGCTATAGCTGT-ATTAGATATGTG---TGCTATGA-AAAGATAT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACCAGACGAAGAC-AAACCGTTCTG-GCTTCTG---TGG----CA-----GAACCAGGGTTTTCAACCCTGCCAGCATCGCAATGTTCTGTCGTTGGTTGGGCTACGTCATAGCTGGG--AAGAAAACTG
gi|6 : gaTACGTCGATCTATC-AAACTTGATAATTA-ATCAACGGTGCGCTTTGCACGAATGA-----TAGCA-----------------------TATAA-------TCAGAATA-A---ATAA-------ATA---CTACA---AATAAG------ATAGA------TATAAATAGAAATAACTTGAGGGCTATAGACGTAATGAGATACATA---AAATAAGT-GAAGATAT-A----A--AG---TCTTAG-------AGATA----TAGAAGAAAGGATTT-CCCAGCTATTTTTCAGCCGACAAAGAC--AGCCGTTCTG-GCTTCCG---TGGCTTCCGTTGCTGTACCAGGGTTTTGAGCTCCGCCTGCATCGCAATGTCTCGTCGTTGGATGGGCTTCGTCACA
gi|7 : tacaacgaATGCTTTTGTTCTGG--TTGTT------GCCAG-A---GTGA--GGTATTTCGAGGCTGGGATGTCAACCGAATCATTGACAATTTCGTATAGAATTGTAAGC-TGTAGTTTCGAT-CGTC-TGTCTTCTAGT---GTA-TCCCAGTCTAAGTGAGTCCGC-ATAC-TATTTA--CG-TT-ACTTTTGTTGTGGTACCTATTTGTTACAT-TTG--------TCCTCT--GAACCATTCTGATTTGCTTCATTTGGTCTTGTTGGTGGGGGCTCC--AGACT--GTTGC-ACAATAGTCAAGGTTT
gi|8 : gaattctTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGATGCGCAAAGAAAGAAGGATAGAATAGAATTTGAGATTATAATAATATCAGATATAACCATGTGTTTGATAA-A---GTAACTCATTTATA---AAACA---AATCAGGTG--TACATA------TA--AAGAAAAATATATAAATGGCTATAGCTAT-ATTAGATATATG---TACTAGGA-AAAGATCT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAATT-CTAAACTTTTTTTCACCCGACAAAGAC-AAACCGTTCTG-ACTTCTG---TGG----TG-----GTACCAGGGTTTTTtaaccaagtgaaaaaatacgttaaatatacgttatttttatttat
gi|9 : tacattgaATGACTGAACTTATCTGGTTCTGAACTTTCTACAATAGCTAG-A---GTAA--ATTATTCTAAGGCTGAAATGTTGACCAAATCATTGACAATTTTATATAGAATTGTTAGC-TGTAATTTTAAT-CGTC-TG-ACTTTAGTGGGGTA-TC
gi|9 : tGTTAGCTGTAA-T-TTTAATCGTCTGACTTTAGTGG-GGTATCTGTTTGTAACATACTGGGTTGCCCTTAACT--GAACCATCTCAATTTTCTTGATCTGACCTTGCTGAT-GGTACTCTTAAGACA--GTTGCAAAAATAATCAAGGTCTGATCATACCA-----------------TTG---CATTT-TTTTAGtgtttgtaacatactgggttgcccttaactgaaccatctcaattttcttgatctgaccttgctgatggtactcttaagacagttgcaaaaataatcaaggtctgatcataccattgcatttttttag
blockSeqs : A A TAGAA TTTGAGATTATAATAATATCAGA CCATGTG T C AAG A CTCATTT CAT TAG G TT . AT T A . T A CAAT GT GGC CTGTATT TGTG G T T TTC CTTCCGTTGCT G A T TGA CTG TG AGTAGGGATGGCCCAT ATACACTTAT T TG T CTA C TTGGTTCT GT G C A A AAC CTACAATA T T CTG G TA A T C C G T G ACT GGG T T GA G AT T G T T CGG C TT G TA CT A A ATGAAAAGTATG AGA G T A T A A AA T T C GG GCCAAC AGGTAG G G A TT A G T . C
blockSeqs : . . . . . A . . A TA . . A . . GT C . . . . . . . TAGTTA . . . . . TTG A T T GGT . . AACAGATACTGTCCTA . A T . CCA G ATACGT G T A C T G TT C . . G . T A . C . C . TCT . . . T G . . . A C ATA A . A . . . T TCGCAATGT . G T . . A A . A . C GG
blockSeqs : . . . . . T . . A . . . G . . AT T . . . . . . . . . . . . . CG A . . . GA . T G . . C TGGTA . G A A A T AA C . . G . A T . T . T . TC . . . C A . . . T T TGG T . G . . . T . . . . G . . A . T
blockSeqs : . . . . . A . . A . . . G . . AT A . . . . . . . . . . . . . CA . . . C T G TT C . . A . A . . . . T . AC . . . A . . . . A . TG . . . . . .
blockSeqs : . . . . . T . . A . . . G . . AT A . . . . . . . . . . . . . GG A G . . . . . . . .
blockSeqs : . . . . . T . . A . . . G . . T T . . . . . . . . . . . . . TG
blockSeqs : . . . . . T . . A . . . G . . A T . . . . . . . . . . . . . CA
blockSeqs : . . . . . A . . . . . . . . . . C . . . . . . . . . . . . . CA
blockSeqs : . . . . . T . . . . . . . . . . T . . . . . . . . . . . . . TG
blockSeqs : . . . . . . . . . . . . . . . . . . . . . . .
blockSeqs : . . .
blockSeqs : .
blockSeqCons : ****** *** TC*
originalCons : CTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA-------ATA---ATACA---AATCAGGTA--TACATA------TATAAAGAGAAATATATAAAGGGCTATAGCCGT-ATTAGATATGTG---TACTAGGA-AAAGATAT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACCCGACAAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CG-----GTACCAGGGTTTTTAACCCCGCCAGCATCGCAATGTCCTGTCGTTGGTTGGGCTACGTCATAGCTGGGACAAAAAAACCGTTTTAGATCGGATTGGAGAAAAGCTCCCTCTTGAA-GG-TACCAAGGAGGGGGCCTCAGCAA---TAGATGCCGGTAGTCTGTTCCAAGTANAGATG--GTCG-A-GGGAAGAGGCT----------GTACTTGNAGTAGTC-GGTAGATGGAGCCAAATATTNTC-GGTAC-TCTTGCACGAGTGAGATGNTCTNGTTCTGG--TTGTT------GCTAG-A---GTGA--GGTATTCCGAGGCTGGGATGTCGACCAAATCATTGACAATTTCGTATAGAATTGTTAGC-TGTAGTTTCGAT-CGTC-TG-CCTCTAGT---GTA-TCCCAGCCTAAGTGAGTCAGC-ATAN-TGTTTA--CG-CT-ACTTTTGTTGTGGTACCTATTTGTAACATATCGGGCCGCCCTTCTCT--GAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCC--AGACT--GTTGC-ACAATAGTCAAGGTTTGATCGTACCA--NC---A-A--GT---TTG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTTCTTCTTAAGAACCCCAGCGTACTGTTTGCCTTCTTC--ATTACTCTGTNTA-TATGGCTACTCCAGGAGAGATT-G-ACTGCAGGCCAACTTATAGGTAGTNTGTTGTCTTATCNTGCTCAAGNGTTGTTCCTTTCAGGATGTAGTTTCCTGGTATGNNTTTTTNGNATCTTGAGACGCGGAGGACACTACACTTCTGTGGGTNAAAGCACATTCCCNATCTTT
finalCons : CTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA-------ATA---ATACA---AATCAGGTA--TACATA------TATAAAGAGAAATATATAAAGGGCTATAGCCGT-ATTAGATATGTG---TACTAGGA-AAAGATAT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACCCGACAAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CG-----GTACCAGGGTTTTTAACCCCGCCAGCATCGCAATGTCCTGTCGTTGGTTGGGCTACGTCATAGCTGGGACAAAAAAACCGTTTTAGATCGGATTGGAGAAAAGCTCCCTCTTGAA-GG-TACCAAGGAGGGGGCCTCAGCAA---TAGATGCCGGTAGTCTGTTCCAAGTANAGATG--GTCG-A-GGGAAGAGGCT----------GTACTTGNAGTAGTC-GGTAGATGGAGCCAAATATTNTC-GGTAC-TCTTGCACGAGTGAGATGNTCTNGTTCTGG--TTGTT------GCTAG-A---GTGA--GGTATTCCGAGGCTGGGATGTCGACCAAATCATTGACAATTTCGTATAGAATTGTTAGC-TGTAGTTTCGAT-CGTC-TGTC-TCTAGT---GTA-TCCCAGCCTAAGTGAGTCAGC-ATAN-TGTTTA--CG-CT-ACTTTTGTTGTGGTACCTATTTGTAACATATCGGGCCGCCCTTCTCT--GAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCC--AGACT--GTTGC-ACAATAGTCAAGGTTTGATCGTACCA--NC---A-A--GT---TTG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTTCTTCTTAAGAACCCCAGCGTACTGTTTGCCTTCTTC--ATTACTCTGTNTA-TATGGCTACTCCAGGAGAGATT-G-ACTGCAGGCCAACTTATAGGTAGTNTGTTGTCTTATCNTGCTCAAGNGTTGTTCCTTTCAGGATGTAGTTTCCTGGTATGNNTTTTTNGNATCTTGAGACGCGGAGGACACTACACTTCTGTGGGTNAAAGCACATTCCCNATCTTT
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|20 ): GTACACATAGTGAAATGGTGAAGCCTGTATTGTCTCATTAATGATGCGTAAATTGCTACATAAGAAACAAAGTGAACTTTTGCCTTTTCACAGTCTTGGGTATATGCTTCTTTC
Alignments
lowQualScore : 33333333333333333333333 1111111 1111111 111111 2222222 11111111111 2222 111 11 3333333333333333333 4444444444 11 1 222 333333333 11 111 22222222 111 111 111 11 11 11 11 88888888888888888 111 1 11 1 111 222222 222222 1
lowQualScore : 3 3 99999 33333333333333333333333 1111111 4 3 666 4 6666666 666 666 4 55 0 111111 77 4 4 666 3 0 3 7777 55 666 2222222 7777 3 4 4 777 66666666666 3 0 0 3 3 0 6666 777 55 8888888888888888888 0 3333333333 1 22 5 444 0 1 111111111 55 5 5 1 1 444 44444444 3 6 111 1 99 3 0 6 8 3 8 3 8 777 444 8 8 99 8 0 11 8 8 1 0 3 0 444 6 11 3 11 11 8 0 0 1 00000000000000000 777 2 3 7 3 2 3 33 1 0 6 0 666 888888 999999 1 1 1 22 1 1 1 5 1
lowQualScore : . . ..... ....................... ....... . . ... . ....... ... ... . .. . ...... .. . . ... . . . .... .. ... ....... .... . . . ... ........... . . . . . . .... ... .. ................... . .......... . .. . ... . . ......... .. . . . . ... ........ . . ... . .. . . . . . . . . ... ... . . .. . . .. . . . . . . ... . .. . .. .. . . . . ................. ... . . . . . . .. . . . . ... ...... ...... . . . .. . . . . .
lowQualScore : 3 1 11111 66666666666666666666666 8888888 9 6 444 4 8888888 444 444 3 00 4 555555 99 6 0 444 6 2 6 7777 00 444 3333333 1111 6 0 0 000 22222222222 8 6 2 7 2 8 5555 555 77 8888888888888888888 2 8888888888 0 55 5 555 8 0 222222222 22 0 6 0 0 333 55555555 7 7 777 0 22 5 7 0 0 2 0 8 0 222 000 0 0 00 2 8 00 0 0 4 6 8 8 666 4 00 2 00 00 0 8 6 2 88888888888888888 555 5 2 3 3 0 2 88 0 0 5 2 777 555555 000000 0 0 0 00 0 0 0 5 0
consensus : CTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA-------ATA---ATACA---AATCAGGTA--TACATA------TATAAAGAGAAATATATAAAGGGCTATAGCCGT-ATTAGATATGTG---TACTAGGA-AAAGATAT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACCCGACAAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CG-----GTACCAGGGTTTTTAACCCCGCCAGCATCGCAATGTCCTGTCGTTGGTTGGGCTACGTCATAGCTGGGACAAAAAAACCGTTTTAGATCGGATTGGAGAAAAGCTCCCTCTTGAA-GG-TACCAAGGAGGGGGCCTCAGCAA---TAGATGCCGGTAGTCTGTTCCAAGTANAGATG--GTCG-A-GGGAAGAGGCT----------GTACTTGNAGTAGTC-GGTAGATGGAGCCAAATATTNTC-GGTAC-TCTTGCACGAGTGAGATGNTCTNGTTCTGG--TTGTT------GCTAG-A---GTGA--GGTATTCCGAGGCTGGGATGTCGACCAAATCATTGACAATTTCGTATAGAATTGTTAGC-TGTAGTTTCGAT-CGTC-TGNCTTCTAGT---GTA-TCCCAGCCTAAGTGAGTCAGC-ATAN-TGTTTA--CG-CT-ACTTTTGTTGTGGTACCTATTTGTAACATATCGGGCCGCCCTTCTCT--GAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCC--AGACT--GTTGC-ACAATAGTCAAGGTTTGATCGTACCA--NC---A-A--GT---TTG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTTCTTCTTAAGAACCCCAGCGTACTGTTTGCCTTCTTC--ATTACTCTGTNTA-TATGGCTACTCCAGGAGAGATT-G-ACTGCAGGCCAACTTATAGGTAGTNTGTTGTCTTATCNTGCTCAAGNGTTGTTCCTTTCAGGATGTAGTTTCCTGGTATGNNTTTTTNGNATCTTGAGACGCGGAGGACACTACACTTCTGTGGGTNAAAGCACATTCCCNATCTTT
Reference ( family-117 ) : CTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA-------ATA---ATACA---AATCAGGTA--TACATA------TATAAAGAGAAATATATAAAGGGCTATAGCCGT-ATTAGATATGTG---TACTAGGA-AAAGATAT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACCCGACAAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CG-----GTACCAGGGTTTTTAACCCCGCCAGCATCGCAATGTCCTGTCGTTGGTTGGGCTACGTCATAGCTGGGACAAAAAAACCGTTTTAGATCGGATTGGAGAAAAGCTCCCTCTTGAA-GG-TACCAAGGAGGGGGCCTCAGCAA---TAGATGCCGGTAGTCTGTTCCAAGTANAGATG--GTCG-A-GGGAAGAGGCT----------GTACTTGNAGTAGTC-GGTAGATGGAGCCAAATATTNTC-GGTAC-TCTTGCACGAGTGAGATGNTCTNGTTCTGG--TTGTT------GCTAG-A---GTGA--GGTATTCCGAGGCTGGGATGTCGACCAAATCATTGACAATTTCGTATAGAATTGTTAGC-TGTAGTTTCGAT-CGTC-TGTC-TCTAGT---GTA-TCCCAGCCTAAGTGAGTCAGC-ATAN-TGTTTA--CG-CT-ACTTTTGTTGTGGTACCTATTTGTAACATATCGGGCCGCCCTTCTCT--GAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCC--AGACT--GTTGC-ACAATAGTCAAGGTTTGATCGTACCA--NC---A-A--GT---TTG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTTCTTCTTAAGAACCCCAGCGTACTGTTTGCCTTCTTC--ATTACTCTGTNTA-TATGGCTACTCCAGGAGAGATT-G-ACTGCAGGCCAACTTATAGGTAGTNTGTTGTCTTATCNTGCTCAAGNGTTGTTCCTTTCAGGATGTAGTTTCCTGGTATGNNTTTTTNGNATCTTGAGACGCGGAGGACACTACACTTCTGTGGGTNAAAGCACATTCCCNATCTTT
gi|1 : CTACATTGATCTAAC-AAACTTGACAATAA-CTCAACGGTGCACAAAGAAAGATGGA-----AAGAA-----------------------TATAA-------TTAGAGAA-A---ATAA-------ATA---ATACA---GATCAGATA--TACATAATAAATTATAAAGAAAAATATATAAAAGGCTATAGATGT-ATTAGATATATGATATACTAAGG-GA-TATAT-A----A--AA---TACTAA-------AGATA----TAGAAGACAGGAATT-TCCGGCTATTTTTCACCCGACAAAGAC-AAACAAATTTA-GCTTCCG---TGG----TG-----GTACCAGTTTTTTTAGCCCCACCAGCATTCCAATGTCCTCTTGTTGCTTGGGCTACGTCATAGCTGGGACAAAAAAAACGTTTTAGATTGGTTTGGAGAAAAGCTCCCTCTTGAA-GGATACCAAGGAAGGGGCCTCAGCAA---TAGATGCCAGTAGTCTGTTCCAAGTATAGATG--GTTG-T-GGGAAGAGACT----------GTACTTGAAGTACTC-TGTAGATGGAG---AATGTTGTC-AGTA---CTTGCATGAGTGAGATGCTCTGATTCTGG--TTGTT------GTTAG-A---GTGT--GGTATTTCGAGGCTGCAATGTTGACCACATCATTGACAATTTTATATAGAATTGTTAGC-TGTAGTTTCGAT-TG--------TCTAGT---GTA-TCCCAGCCTAAGTGAGTAAGC-ATAT-TCTTTA--TG-CT-ACTTTTGTTATAGTACCTATTTGTAACATATCTGGCTATCCTTCTCT--GAACCATCTCGATTTGCTTTATCTGGTCTTGTTGGTGGGGGCTCC--TGACT--GCTGC-ACAATTGTCAAGGTTTGACCGTACCA--TC---ATAATGT---TTG---CATTTGTTTTAGTGGTTTCACTGGTTGATCTA-AGGTTTCTTCTTATAAACCCCAGCATACTATTTGCCTTTTTC--ATTACTCTTTTTA-TATGGCTA-TCCAGGAGAGATT-G-ACTGCAG------TTAT------TTTGTTGTCTTATCTTGCTCAAGTGTTGTTCCTTTCAGGATGTAGTTTCTTGGTATGGGTTTTTTGTATCTTGAGACATGGAGGACACTACACTTCTGTGGGTGAAAATACATTCCCAATCTTT
gi|10 : CTACATTGATCTATT-A-----GATAATTA-CTGAACGGTGCACAAAGAAAAAAGAA-----TAATA-----------------------TATAA-------TTTGAGAACA---AT-A-------ATG---ATGCA---AATCAAGTA--TAAATA------T-T-AAGAGAACTATATAAAGGACTTTAGCTTT-ATTAGATATATG---TACTTGGA-AAAGATATAA----A--AA---TACTAA-------AGATA----TAGAACAAAGGAATT-CCCAGCTATTTTTCACCCAACAAAGACTGAA---TTCTATGCTTTTGTTCTGGT---TG-----TTGCCAGAGT
gi|11 : ttaaatAGAG-AAATATAT-A----A--AGGGCTATTAACTGTATTAGCTATGTGTACAAAAAAAGAATT-CCCAGCTATTTTTCACCCAACGAAGAC-AAACCGTTCCC-GCTTCCA---TGG----CG-----GTACCGGGGTTTTTAACTCTGACAGCATTGCAATGTCCTGTTGTTGGTTAGGCCACGTCATAGCTGGGGTAAAAACCCAATTTTAAATCAGATTGGAGAAAAGTTCCTTC--------------AGGAGGGGGCTTCAGCAA---TAGAT
gi|12 : atataaAACCCCTTCTTGGATGA-TACCAAGGAGGGGGCCTCAGCTACTGTGGTTGC---TAAACTTTTTCA---------------G-A-GAGAAGAAGCTATACACTTATGTACTTATAGTAGTTTGGTAGA-AAAACTAAATACTCTTTGGTTC-TTCTG-AC---TGCCA-GATCTAGTTCTG---TTG--------G--AG-ACTGGTGATAGGTAGCCCGAGGCAGGGATGTCAACAAAGTC-----TAAATTCGTATA
gi|13 : agagagttcTATGTTGATCTATC-AAACCTGATAATTG-CT--AT------TAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TCAGAAAA-A---ACAA-------A-A---ACGCA---AATAAGATATTTATATG------TATAAAGAGAAGTAAAAAAAGGACTATAGACAT-ATTAAA---GTG-------AAGATACATGTAT-A----A--AA---TACTAG-------AGATA----TAGAAGAAAGGAACTGCACA-TTATTTTTTACCCAACAAAGAC-AAACTGTTCTG-GCTTCCG---TGG----CA-----GTAttgatgtttaaaattttt
gi|14 : acattgaAACCCCAGCAT---GTTTGCCTTCTCC--GTTACTCTGTTTA-TATGGCTACTCAAGGAGAGATT-GGACTGTAAGCCAACTTATAGGTAGTGTGTTGTCTTATCGTGCTCAAGAGTTGTTCCTTTTAGGATATAGTTTCCTAGTATGTTTTTTTAAGATCTTGAGACGCGGAGGACACTACACTTCTGTGGATTAAAGC-CATTCCCCATCTTTt
gi|15 : TACATTGAT--------GCTTGATAATTA-CTCAACCTAGCACAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TT-GAGAA-A---ATAATA-----ATACATGTACA---AGTCGGGTA--TACATA------T--AAAGAGAAATATATAAAGGGCTATAGCTGT-ATTGGATATGTG---TACTAGAA-AATTATAT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAAt
gi|16 : atctaaattTATG---TACAAAGA-GAAGATAT-A----A--AT---TACTAA-------AGATA----TAGAAGAAACCAATT-CCCACCTATTTTTCACTCGACAAAGAC-AAACCGTTGTG-GCTTCCA---TGG----GG-----GTACCAGGCTTTGTATCCCCGCCAGCTTCGCAACGTTTTGTCGTTGGTTGGAATACGTCAAAGC
gi|17 : gCGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGTGTAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TATGAGAA-A---AT-A-------ATA---ATACA---AATGTAGTT--TAC--A------TGTAAAGAGAAATATATAAAGGGCTATAGCAGT-ATTAGATATGTG---TACTat
gi|18 : TGATAATTA-TTCAATGGTGTGCAATGAGAGAGGGA-----CAGAA-----------------------TAAAA-------TCAGAAAA-AAAGACAA-------ATA---AGACATAGATTCA---A--TATGTT------TATAAAGAGAAGAAAATAGAGGACTAAAGAAGT-TTTAGtactgacaaaatcta
gi|19 : TTGATCTATC-AAGATTGATAGGTAACTCAACGGTGTGCAAAGAAAGAAGGA-----TACAA-----------------------TATAA-------TTTGAGAA-A---AT-A-------ATA---ATACA---AGTGTGGTA--TATAT
gi|2 : ctatatctacatctacattgatcccTA----TAGAAGAAAGGAATT-GCCAGCTATTTTTCACCTGATTAAGAC-AAACCGTTCTG-GCTGTAG---TGG----TG-----GTACCAGGTTTTTTAACCCCGCCAACATCACAATGTCCTATTGTTGGTTGGGCTACATCATAGCTGGGACAAAAAACCCATTTTAGATCTAACTGGAGAAAAGCTCCCACTTGAA-GGTTACCAAGGAGGGGTTCTCAGCAA---TATATGCTGGTAGTCTGTTCCAAGTAGGGATG--GCCC-ATGGGAATAGTTT----------GTACTTGAAGTAGTC-TGTAGATGGAG---AATAGTGTT-GGTA---CTTGTACGAGTGAGATGCTGTTGTTCTGG--TTGTT------GTTAC-A---GTGA--GGTATTTAGAGGCTGGGATGTCGACCAAATCATTGGCAATTTTGTATAAAATTGTTAGC-TTTAGTTTCGAT-CGTC-TGACTTCTAGT---GTATTCCCAGCCTAAGTAAGTCAGC-ATGT-TGTTTA--CA-CT-TCTTTTGTGGTGGTACCTATTTGTAACATATCGGGCCGCCCTTCTCT--GAACCATCTCAATTTGTTTTATTTAGCCTTGTTGGAGGGGTTTCC--AGACT--GTTGC-ACAATGGTCATGGGTTGAACATTCCATCGC---A-AT-GT---ATG---CATTTGTTTTAGTGGTCTCACTGGTTGATCTA-AGGTTCCTTCTAAAGAACCCCGGCATACTGTTTGCCTTCTTC--ATTACCCTGTATA-TATGGCTACTCTAGGAGATATTGG-ACT
gi|21 : TACGTTGATCTATC-AAACTTGATAATTA-CTCAACTGTAC
gi|22 : catctgcattgaTAGACATGTG---TATGAGGA-AGAGTTAT-A----A--GA---TACTAATAGTTA-AGATA----TAGAAGAAAGGAATT-CCCAGCTATaataatttcatcgaattattgctat
gi|23 : TACATTGATCTATCAAAAGTTGACAATTA-CTCAA
gi|3 : acatctatatggTGTTCCAA--ACAGATACTGTCCTA-GGGAAGAAGCT----------GAACTTGTAATAGTT-GGTAGA-GGAACCAAGTATTCT---ATACGTCTT---CTGGTG-GCTGATCAAGTTCTGT--TGGAA------GCTGGTA---GT-A--GGTAATCTGAGGCAGGAATGACAACAAGGGTTTTCACGATCTTGTAGAACATTGT-AGCCTGGGATCT-GATGCGCCGTGTC-TCAAGT---GTA-TCCCACTTTAGATGGTCCACC-ATAGATGTA-A--CA-CT-GCTAGAGTTCCTATATCTGTTTGCGGTGTATATAGCAGCTCTTCTCTTTGTACCCACTCAAGCTGTCGTACCAGGTCTTGTATATACGGGCTCA--AGACTCTGCTGC-AT--TATCCTAGAGTTGGTCGTACCA--ATGAAA-A--GTATGTTGAGACATTTGTT------GCCTC-TTTATTGATGCATAGATTTCTGCGTAAGAAGCTAAGTGAACTGTTTGCCTTTTTCAAATTCTTGTGTATATTATGCTTCTTCCAGGA
gi|4 : TACGTTGATCTATC-AAACTTGATAATTA-CTCAAAGTTGCGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA--------TA---ATACA---AATCAG--A--TAAACA------TATAAAGAGAAATATATAAAAGGCTATAGCTGT-ATTAGATATGCG---TACTAGGA-AATGATAT-ACAATAGTAA---TAGTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACTCGACAAAGAC-AAACCGTTCTG-GCTTCCG---TGG----CA-----GTACCTGGG--TTAAACCCGGCCAGCATCGCGATGTCCTGTCGCTGGTTGGGCTACGACACAATTGGGACAAAAAAAtatgtttgaagacagttctacacctaaatacctcgaggtctcctctgtggctatggttatgtcctttgagcttgtaatcagagctaagtggttt
gi|5 : atatctacgttgaTATGTTGATCTATC-AAACTTGATAATTA-CTCAACGGTGTGCAAAGAAAGAAGGA-----TAGAA-----------------------TATAA-------TTTGAGAA-A---ATAA--------TA---ATACA---AATCAGGTA--TACATA------T--AAAGAGAAAGATATAAAGGGCTATAGCTGT-ATTAGATATGTG---TGCTATGA-AAAGATAT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAATT-CCCAGCTATTTTTCACCAGACGAAGAC-AAACCGTTCTG-GCTTCTG---TGG----CA-----GAACCAGGGTTTTCAACCCTGCCAGCATCGCAATGTTCTGTCGTTGGTTGGGCTACGTCATAGCTGGG--AAGAAAACTG
gi|6 : gaTACGTCGATCTATC-AAACTTGATAATTA-ATCAACGGTGCGCTTTGCACGAATGA-----TAGCA-----------------------TATAA-------TCAGAATA-A---ATAA-------ATA---CTACA---AATAAG------ATAGA------TATAAATAGAAATAACTTGAGGGCTATAGACGTAATGAGATACATA---AAATAAGT-GAAGATAT-A----A--AG---TCTTAG-------AGATA----TAGAAGAAAGGATTT-CCCAGCTATTTTTCAGCCGACAAAGAC--AGCCGTTCTG-GCTTCCG---TGGCTTCCGTTGCTGTACCAGGGTTTTGAGCTCCGCCTGCATCGCAATGTCTCGTCGTTGGATGGGCTTCGTCACA
gi|7 : tacaacgaATGCTTTTGTTCTGG--TTGTT------GCCAG-A---GTGA--GGTATTTCGAGGCTGGGATGTCAACCGAATCATTGACAATTTCGTATAGAATTGTAAGC-TGTAGTTTCGAT-CGTC-TGTCTTCTAGT---GTA-TCCCAGTCTAAGTGAGTCCGC-ATAC-TATTTA--CG-TT-ACTTTTGTTGTGGTACCTATTTGTTACAT-TTG--------TCCTCT--GAACCATTCTGATTTGCTTCATTTGGTCTTGTTGGTGGGGGCTCC--AGACT--GTTGC-ACAATAGTCAAGGTTT
gi|8 : gaattctTACGTTGATCTATC-AAACTTGATAATTA-CTCAACGATGCGCAAAGAAAGAAGGATAGAATAGAATTTGAGATTATAATAATATCAGATATAACCATGTGTTTGATAA-A---GTAACTCATTTATA---AAACA---AATCAGGTG--TACATA------TA--AAGAAAAATATATAAATGGCTATAGCTAT-ATTAGATATATG---TACTAGGA-AAAGATCT-A----A--AA---TACTAA-------AGATA----TAGAAGAAAGGAATT-CTAAACTTTTTTTCACCCGACAAAGAC-AAACCGTTCTG-ACTTCTG---TGG----TG-----GTACCAGGGTTTTTtaaccaagtgaaaaaatacgttaaatatacgttatttttatttat
gi|9 : tacattgaATGACTGAACTTATCTGGTTCTGAACTTTCTACAATAGCTAG-A---GTAA--ATTATTCTAAGGCTGAAATGTTGACCAAATCATTGACAATTTTATATAGAATTGTTAGC-TGTAATTTTAAT-CGTC-TGAC-TTTAGTGGGGTA-TC
gi|9 : tGTTAGCTGTAA-T-TTTAATCGTCTGACTTTAGTGG-GGTATCTGTTTGTAACATACTGGGTTGCCCTTAACT--GAACCATCTCAATTTTCTTGATCTGACCTTGCTGAT-GGTACTCTTAAGACA--GTTGCAAAAATAATCAAGGTCTGATCATACCA-----------------TTG---CATTT-TTTTAGtgtttgtaacatactgggttgcccttaactgaaccatctcaattttcttgatctgaccttgctgatggtactcttaagacagttgcaaaaataatcaaggtctgatcataccattgcatttttttag
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|20 ): GTACACATAGTGAAATGGTGAAGCCTGTATTGTCTCATTAATGATGCGTAAATTGCTACATAAGAAACAAAGTGAACTTTTGCCTTTTCACAGTCTTGGGTATATGCTTCTTTC