lowQualScore : 8888888888888888888888888888 11 33333 11
lowQualScore : 2 66 11 2 6666666666666666666666666666 3 00 6 9 55555 11
lowQualScore : . .. .. . ............................ . .. . . ..... ..
lowQualScore : 2 66 77 9 2222222222222222222222222222 3 22 2 0 66666 00
consensus : ACTGACGAGTGTAAACCACACGAAAC-TAGTCT----------TAA-CATGA--ACATGTCAT-AGCCATT-ATCACTCATTGTCAGC--CTTTT--CTTTG
Reference ( gi|5 ) : ACTGATGAGTGTAAACTGCATGAAAC-TAGTCT----------TGA-CATGG--AC-TGCCAT-AGCCATT-GTCACCCATCGTCAGTGACTATT--CTTTG
gi|1 : ACTGACAAACATAAACTACATGAACT-TAGTTTAAAC------TGA-CGTTT--A--TGACAT-AGCCATT-CTCACATATTGTCAAC-ACTTTT--CTTT
gi|14 : aggaacttcaataaaagttctgtagtgttATTGACAAGTGTTAATCACATGAAAC-TAGTC-----------TAA-CATGA--ATATGTCAT-AGCCATT-
gi|16 : ACTGACAAGTGTAAACCACACTAAAC-CAGTC-----------TAA-CATGA--ACATGTCAC-AGCCAT
gi|15 : ACTGACAAGTGTAAACCACAGTAAAC-CAGTC-----------TAA-CATGA--ACATGTCAC-AGCCAT
gi|12 : ACTGGAGAGTTTAAACTACAAGAAAC-CAGTCT-----------AA-CATGA--ACACATCAC-AGCCATT-
gi|2 : tACTGACGAGTGTAAACCACAGGAAAC-TAATCA----------TAATCAT-----------ATCAATCATT-GTCAGCCac
gi|10 : ggtataaatactgggagttaaattaaatgtcccaatcgttACTGATGAGTGAAAACCACATGGA---TA--CT----------T----------------TAT-AGCCATT-CTTACTCATTGTTGGTGtttttccg
gi|11 : ttACTGACAAGTGTAAATTACATGAAAC-tgggttttttata
gi|3 : gtataaatgcaaggagctaaatccaaatttcttttgcgttACTGACAGGTGTAAACCACATTTAA--TAGTTTAACCTGAATGTAA-CATCGTAACATAACAT-AGCCATT-ATCACACA
gi|6 : aggagctttattaaaagtcctaattgttCTGATGAGTGTAAACCACACTATAC-CAGTC-----------TAA-CATAA--ACATGCCAT-AGTCA-T-ATCACTCATTTTCATTGCTTTTT--CTTTg
gi|9 : CTGCTGAGCGTAAACTACATGAAACTTAGTC-----------AAA-CAT----------CAT-GGCCATT-ATCACTCAT-GTCAGC--CTTTTTACTTTGaa
gi|8 : CTGACAAGTGTAAACCGTGCGAGGC-TCACCTA---------CCA-CAT----------CAC-TGCCATT-ATCACTCACTGTCAGCTTCTTTT--CTTTGc
gi|17 : TGATGAGTGTAAACCACACTAAAC-CAGAC-----------TAA-CATat
gi|7 : AGTGTAAACCACACAAAAC-TCATCT----------AAA-C-TAA--ACATGTCAT-TG-CATTCATCACTCACCTTCAGT--CT-TT--TTTTtaaaatgtcacata
2 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|4 ): CTAAAAATACCAATCATTACTCACGAGTGCAAACCACATGAACATGTCATAGTCATAATCCTTCTGACATTGTCAGCCATTTTTC
Unaligned ( gi|13 ): TATTGACGAGTTTAAACTACAAGAAACCAGTCTAACATGAACACATCACAGCCAT
Alignments
lowQualScore : 333333333333 11111 11
lowQualScore : 5 2 2 222222222222 77777 5555 0 3 00000 66 88 66 66
lowQualScore : . . . ............ ..... .... . . ..... .. .. .. ..
lowQualScore : 4 4 5 999999999999 44444 3333 2 3 00000 99 88 99 99
consensus : ACTGACGAGTGTAAACCACACGAA-ACT-AGTC-----------TAACAT-G-AAC----ATGTCATAGCCATT-ATCACT-----CATTGTCA--GC--C--TTTT--CTTTG
Reference ( family-866 ) : ACTGACGAGTGTAAACCACACGAA-ACT-AGTCT----------TAACAT-G-AAC----ATGTCATAGCCATT-ATCACT-----CATTGTCA--GC--C--TTTT--CTTTG
gi|1 : ACTGACAAACATAAACTACATGAA-CTT-AGTTT----------AAAC-T-G-A-CGTTTATGACATAGCCATT-CTCACA-----TATTGTCA--ACA-C--TTTT--CTTT
gi|10 : aggaacttcaataaaagttctgtagtgttACTGATGAGTGAAAACCACATGGATACT-----------------------------------TTATAGCCATT-CTTACT-----CATTGT
gi|11 : ttACTGACAAGTGTAAATTACATGAA-ACtggtgtgggttttttata
gi|12 : gtataaatgcaaggagctaaatccaaatttcttttgcgttACTGGAGAGTTTAAACTACAAGAA-ACC-AGTCT-----------AACAT-G-AAC----ACATCACAGCCATT-A
gi|13 : tATTGACGAGTTTAAACTACAAGAA-ACC-AGTC-----------TAACAT-G-AAC----ACATCACAGCCATc
gi|14 : tATTGACAAGTGTTAATCACATGAA-ACT-AGTC-----------TAACAT-G-AAT----ATGTCATAGCCATT-
gi|15 : ACTGACAAGTGTAAACCACAGTAA-ACC-AGTC-----------TAACAT-G-AAC----ATGTCACAGCCAT
gi|16 : ACTGACAAGTGTAAACCACACTAA-ACC-AGTC-----------TAACAT-G-AAC----ATGTCACAGCCAT
gi|17 : TGATGAGTGTAAACCACACTAA-ACC-AGAC-----------TAACAT-T-AAA----ATGTCACA
gi|2 : ACTGACGAGTGTAAACCACAGGAA-ACT-AATCA----------TAA----------------TCA-------T-ATCAAT-----CATTGTCA--GC--C--TTTT--ta
gi|3 : ggtataaatactgggagttaaattaaatgtcccaatcgttACTGACAGGTGTAAACCACATTTA-A-T-AGTTTAACCTGAATGTAACATCGTAAC----ATAACATAGCCATT-ATCACA-----CAtccg
gi|4 : aggagctttattaaaagtcctaattgttACTCACGAGTGCAAACCACA-----------------------------T-G-AAC----ATGTCATAGTCATA-ATC-CTTCTGACATTGTCA--GC--CATTTTT--g
gi|5 : ctaaaaataccaatcattACTGATGAGTGTAAACTGCATGAA-ACT-AGTCT----------TGACAT-G-GAC-----TGCCATAGCCATT-GTCACC-----CATCGTCA--GTGAC--TATT--CTTTG
gi|6 : CTGATGAGTGTAAACCACACTAT-ACC-AGTC-----------TAACAT-A-AAC----ATGCCATAGTCA-T-ATCACT-----CATTTTCATTGC--T--TTTT--CTTT
gi|7 : AGTGTAAACCACACAAA-ACT-CATCT----------AAAC-T-A-AAC----ATGTCATTG-CATTCATCACT-----CACCTTCA--GT--C--TTTT--TTTaa
gi|8 : CTGACAAGTGTAAACCGTGCGAG-GCT-CACCT------------AC-------C----ACATCACTGCCATT-ATCACT-----CACTGTCA--GCTTC--TTTT--CTTTGatatata
gi|9 : CTGCTGAGCGTAAACTACATGAA-ACTTAGTC------------------A-AAC----AT--CATGGCCATT-ATCACT-----CA-TGTCA--GC--C--TTTTTACTTTGat
Alignments
lowQualScore : 11111 11
lowQualScore : 5 2 2 2 5555 33 0 8888888888888888 3 00000 66 88 66 66
lowQualScore : . . . . .... .. . ................ . ..... .. .. .. ..
lowQualScore : 4 4 5 5 3333 99 1 6666666666666666 3 00000 99 88 99 99
consensus : ACTGACGAGTGTAAACCACACGAA-ACT-AGTC-TAAC----ATG-AAC----AT-GT-------CATAGCCATT-ATCACT-----CATTGTCA--GC--C--TTTT--CTTTG
Reference ( family-866 ) : ACTGACGAGTGTAAACCACACGAA-ACT-AGTC-TAAC----ATG-AAC----AT-GT-------CATAGCCATT-ATCACT-----CATTGTCA--GC--C--TTTT--CTTTG
gi|1 : ACTGACAAACATAAACTACATGAA-CTT-AGTT-TAAA----CTG-A-CGTTTAT-GA-------CATAGCCATT-CTCACA-----TATTGTCA--ACA-C--TTTT--CTTT
gi|10 : aggaacttcaataaaagttctgtagtgttACTGATGAGTGAAAACCACATGGATACT-----------------------------T-------TATAGCCATT-CTTACT-----CATTGT
gi|11 : ttACTGACAAGTGTAAATTACATGAA-ACtggtgtgggttttttata
gi|12 : gtataaatgcaaggagctaaatccaaatttcttttgcgttACTGGAGAGTTTAAACTACAAGAA-ACC-AGTC-TAAC----ATG-AAC----AC-AT-------CACAGCCATT-A
gi|13 : tATTGACGAGTTTAAACTACAAGAA-ACC-AGTC-TAAC----ATG-AAC----AC-AT-------CACAGCCATc
gi|14 : tATTGACAAGTGTTAATCACATGAA-ACT-AGTC-TAAC----ATG-AAT----AT-GT-------CATAGCCATT-
gi|15 : ACTGACAAGTGTAAACCACAGTAA-ACC-AGTC-TAAC----ATG-AAC----AT-GT-------CACAGCCAT
gi|16 : ACTGACAAGTGTAAACCACACTAA-ACC-AGTC-TAAC----ATG-AAC----AT-GT-------CACAGCCAT
gi|17 : TGATGAGTGTAAACCACACTAA-ACC-AGAC-TAAC----ATT-AAA----AT-GT-------CACA
gi|2 : ACTGACGAGTGTAAACCACAGGAA-ACT-A--------------------------AT-------CATAATCA-T-ATCAAT-----CATTGTCA--GC--C--TTTT--ta
gi|3 : ggtataaatactgggagttaaattaaatgtcccaatcgttACTGACAGGTGTAAACCACATTTA-A-T-AGTT-TAACCTGAATGTAAC----ATCGTAACATAACATAGCCATT-ATCACA-----CAtccg
gi|4 : aggagctttattaaaagtcctaattgttACTCACGAGTGCAAACCACA-----------------------TG-AAC----AT-GT-------CATAGTCATA-ATC-CTTCTGACATTGTCA--GC--CATTTTT--g
gi|5 : ctaaaaataccaatcattACTGATGAGTGTAAACTGCATGAA-ACT-AGTCTTGAC----ATG-GAC-----T-GC-------CATAGCCATT-GTCACC-----CATCGTCA--GTGAC--TATT--CTTTG
gi|6 : CTGATGAGTGTAAACCACACTAT-ACC-AGTC-TAAC----ATA-AAC----AT-GC-------CATAGTCA-T-ATCACT-----CATTTTCATTGC--T--TTTT--CTTT
gi|7 : AGTGTAAACCACACAAA-ACT-CATC-TAAA----CTA-AAC----AT-GT-------CATTG-CATTCATCACT-----CACCTTCA--GT--C--TTTT--TTTaa
gi|8 : CTGACAAGTGTAAACCGTGCGAG-GCT-CACC-TACC----A-----C----AT----------CACTGCCATT-ATCACT-----CACTGTCA--GCTTC--TTTT--CTTTGatatata
gi|9 : CTGCTGAGCGTAAACTACATGAA-ACTTAGTC-AAAC----AT---------------------CATGGCCATT-ATCACT-----CA-TGTCA--GC--C--TTTTTACTTTGat
Alignments
lowQualScore : 11111 11
lowQualScore : 5 2 2 2 5555 33 0 8888888888888888 3 00000 66 88 66 66
lowQualScore : . . . . .... .. . ................ . ..... .. .. .. ..
lowQualScore : 4 4 5 5 3333 99 1 6666666666666666 3 00000 99 88 99 99
consensus : ACTGACGAGTGTAAACCACACGAA-ACT-AGTC-TAAC----ATG-AAC----AT-GT-------CATAGCCATT-ATCACT-----CATTGTCA--GC--C--TTTT--CTTTG
Reference ( family-866 ) : ACTGACGAGTGTAAACCACACGAA-ACT-AGTC-TAAC----ATG-AAC----AT-GT-------CATAGCCATT-ATCACT-----CATTGTCA--GC--C--TTTT--CTTTG
gi|1 : ACTGACAAACATAAACTACATGAA-CTT-AGTT-TAAA----CTG-A-CGTTTAT-GA-------CATAGCCATT-CTCACA-----TATTGTCA--ACA-C--TTTT--CTTT
gi|10 : aggaacttcaataaaagttctgtagtgttACTGATGAGTGAAAACCACATGGATACT-----------------------------T-------TATAGCCATT-CTTACT-----CATTGT
gi|11 : ttACTGACAAGTGTAAATTACATGAA-ACtggtgtgggttttttata
gi|12 : gtataaatgcaaggagctaaatccaaatttcttttgcgttACTGGAGAGTTTAAACTACAAGAA-ACC-AGTC-TAAC----ATG-AAC----AC-AT-------CACAGCCATT-A
gi|13 : tATTGACGAGTTTAAACTACAAGAA-ACC-AGTC-TAAC----ATG-AAC----AC-AT-------CACAGCCATc
gi|14 : tATTGACAAGTGTTAATCACATGAA-ACT-AGTC-TAAC----ATG-AAT----AT-GT-------CATAGCCATT-
gi|15 : ACTGACAAGTGTAAACCACAGTAA-ACC-AGTC-TAAC----ATG-AAC----AT-GT-------CACAGCCAT
gi|16 : ACTGACAAGTGTAAACCACACTAA-ACC-AGTC-TAAC----ATG-AAC----AT-GT-------CACAGCCAT
gi|17 : TGATGAGTGTAAACCACACTAA-ACC-AGAC-TAAC----ATT-AAA----AT-GT-------CACA
gi|2 : ACTGACGAGTGTAAACCACAGGAA-ACT-A--------------------------AT-------CATAATCA-T-ATCAAT-----CATTGTCA--GC--C--TTTT--ta
gi|3 : ggtataaatactgggagttaaattaaatgtcccaatcgttACTGACAGGTGTAAACCACATTTA-A-T-AGTT-TAACCTGAATGTAAC----ATCGTAACATAACATAGCCATT-ATCACA-----CAtccg
gi|4 : aggagctttattaaaagtcctaattgttACTCACGAGTGCAAACCACA-----------------------TG-AAC----AT-GT-------CATAGTCATA-ATC-CTTCTGACATTGTCA--GC--CATTTTT--g
gi|5 : ctaaaaataccaatcattACTGATGAGTGTAAACTGCATGAA-ACT-AGTCTTGAC----ATG-GAC-----T-GC-------CATAGCCATT-GTCACC-----CATCGTCA--GTGAC--TATT--CTTTG
gi|6 : CTGATGAGTGTAAACCACACTAT-ACC-AGTC-TAAC----ATA-AAC----AT-GC-------CATAGTCA-T-ATCACT-----CATTTTCATTGC--T--TTTT--CTTT
gi|7 : AGTGTAAACCACACAAA-ACT-CATC-TAAA----CTA-AAC----AT-GT-------CATTG-CATTCATCACT-----CACCTTCA--GT--C--TTTT--TTTaa
gi|8 : CTGACAAGTGTAAACCGTGCGAG-GCT-CACC-TACC----A-----C----AT----------CACTGCCATT-ATCACT-----CACTGTCA--GCTTC--TTTT--CTTTGatatata
gi|9 : CTGCTGAGCGTAAACTACATGAA-ACTTAGTC-AAAC----AT---------------------CATGGCCATT-ATCACT-----CA-TGTCA--GC--C--TTTTTACTTTGat
blockSeqs : T T T T CTGA GT ATCGTAACATAA C TCTGA TT GA AT TA
blockSeqs : T . . . . G ACAT . . . TT . .
blockSeqs : A . . . . G ACAT . . . . . .
blockSeqs : A . . . . G ATGT . . . . . .
blockSeqs : T . . . . G ATGT . . . . . .
blockSeqs : G . . . . G ATGT . . . . . .
blockSeqs : C . . . . T ATGT . . . . . .
blockSeqs : C . . . . G ATGT . .
blockSeqs : G . . . . G ATGC . .
blockSeqs : T . . . . A ATGT .
blockSeqs : T . . . . A TGC .
blockSeqs : C . . . . . AT
blockSeqs : C . . . . . AT
blockSeqs : C . . . . . T
blockSeqs : T . . . . . .
blockSeqs : . .
blockSeqCons : ATGT************ **
originalCons : ACTGACGAGTGTAAACCACACGAA-ACT-AGTC-TAAC----ATG-AAC----AT-GT-------CATAGCCATT-ATCACT-----CATTGTCA--GC--C--TTTT--CTTTG
finalCons : ACTGACGAGTGTAAACCACACGAA-ACT-AGTC-TAAC----ATG-AACATGT------------CATAGCCATT-ATCACT-----CATTGTCA--GC--C--TTTT--CTTTG
Alignments
lowQualScore : 11111 11
lowQualScore : 5 2 2 2 5555 33 0 8888888888888888 3 00000 66 88 66 66
lowQualScore : . . . . .... .. . ................ . ..... .. .. .. ..
lowQualScore : 4 4 5 5 3333 99 1 6666666666666666 3 00000 99 88 99 99
consensus : ACTGACGAGTGTAAACCACACGAA-ACT-AGTC-TAAC----ATG-AAC----AT-GT-------CATAGCCATT-ATCACT-----CATTGTCA--GC--C--TTTT--CTTTG
Reference ( family-866 ) : ACTGACGAGTGTAAACCACACGAA-ACT-AGTC-TAAC----ATG-AAC----AT-GT-------CATAGCCATT-ATCACT-----CATTGTCA--GC--C--TTTT--CTTTG
gi|1 : ACTGACAAACATAAACTACATGAA-CTT-AGTT-TAAA----CTG-A-CGTTTAT-GA-------CATAGCCATT-CTCACA-----TATTGTCA--ACA-C--TTTT--CTTT
gi|10 : aggaacttcaataaaagttctgtagtgttACTGATGAGTGAAAACCACATGGATACT-----------------------------T-------TATAGCCATT-CTTACT-----CATTGT
gi|11 : ttACTGACAAGTGTAAATTACATGAA-ACtggtgtgggttttttata
gi|12 : gtataaatgcaaggagctaaatccaaatttcttttgcgttACTGGAGAGTTTAAACTACAAGAA-ACC-AGTC-TAAC----ATG-AAC----AC-AT-------CACAGCCATT-A
gi|13 : tATTGACGAGTTTAAACTACAAGAA-ACC-AGTC-TAAC----ATG-AAC----AC-AT-------CACAGCCATc
gi|14 : tATTGACAAGTGTTAATCACATGAA-ACT-AGTC-TAAC----ATG-AAT----AT-GT-------CATAGCCATT-
gi|15 : ACTGACAAGTGTAAACCACAGTAA-ACC-AGTC-TAAC----ATG-AAC----AT-GT-------CACAGCCAT
gi|16 : ACTGACAAGTGTAAACCACACTAA-ACC-AGTC-TAAC----ATG-AAC----AT-GT-------CACAGCCAT
gi|17 : TGATGAGTGTAAACCACACTAA-ACC-AGAC-TAAC----ATT-AAA----AT-GT-------CACA
gi|2 : ACTGACGAGTGTAAACCACAGGAA-ACT-A--------------------------AT-------CATAATCA-T-ATCAAT-----CATTGTCA--GC--C--TTTT--ta
gi|3 : ggtataaatactgggagttaaattaaatgtcccaatcgttACTGACAGGTGTAAACCACATTTA-A-T-AGTT-TAACCTGAATGTAAC----ATCGTAACATAACATAGCCATT-ATCACA-----CAtccg
gi|4 : aggagctttattaaaagtcctaattgttACTCACGAGTGCAAACCACA-----------------------TG-AAC----AT-GT-------CATAGTCATA-ATC-CTTCTGACATTGTCA--GC--CATTTTT--g
gi|5 : ctaaaaataccaatcattACTGATGAGTGTAAACTGCATGAA-ACT-AGTCTTGAC----ATG-GAC-----T-GC-------CATAGCCATT-GTCACC-----CATCGTCA--GTGAC--TATT--CTTTG
gi|6 : CTGATGAGTGTAAACCACACTAT-ACC-AGTC-TAAC----ATA-AAC----AT-GC-------CATAGTCA-T-ATCACT-----CATTTTCATTGC--T--TTTT--CTTT
gi|7 : AGTGTAAACCACACAAA-ACT-CATC-TAAA----CTA-AAC----AT-GT-------CATTG-CATTCATCACT-----CACCTTCA--GT--C--TTTT--TTTaa
gi|8 : CTGACAAGTGTAAACCGTGCGAG-GCT-CACC-TACC----A-----C----AT----------CACTGCCATT-ATCACT-----CACTGTCA--GCTTC--TTTT--CTTTGatatata
gi|9 : CTGCTGAGCGTAAACTACATGAA-ACTTAGTC-AAAC----AT---------------------CATGGCCATT-ATCACT-----CA-TGTCA--GC--C--TTTTTACTTTGat