lowQualScore : 111111111111111111111111111111111111111111111111111111111111
lowQualScore : 1 1 666666666666666666666666666666666666666666666666666666666666 3333333333333333333333333 1
lowQualScore : 0 2 44 2 33 777777777 2 2 7 55 2 8888 3 5 3 4 6666 2 3 3 111111111111111111111111111111111111111111111111111111111111 44 3 9999999999999999999999999 3 5
lowQualScore : . . .. . .. ......... . . . .. . .... . . . . .... . . . ............................................................ .. . ......................... . .
lowQualScore : 2 4 33 2 11 111111111 2 2 1 88 2 4444 1 5 1 8 5555 5 1 3 999999999999999999999999999999999999999999999999999999999999 66 3 3333333333333333333333333 3 0
consensus : CAGTCAAACCTGTGTAAGCGG-TCA--CCT----C----TAT-T-AAGCAGCCA--CTTGTC-TTAAGCAGCCACATTTNC--TA-TTTCCCATT-TCTATGCT----TTCAGAGTAAA-T-TA-------------AC----CT-----GTA-TAAGCAAC---------AA----------C--CTGTCTT-A--------AA------------AG-GCC-ACTTTTGCTCCTTCCCTTGACTGGCTGCTTAAGACAGGTTTGAC
Reference ( gi|12 ) : CAGTAAAACCTGTGTTAGTAG-TCA--CCT----C----TAT-T-AAACAGCCA--CTTGTC-TTAAGCAGCCACATTTGC--TA-TTTCCTATT-TCTATACT----TTCAGAGCAAA-T-TG-------------AC----AT-----G----------C---------AC----------C--CTGTCTT-A--------TA------------AT-GCC-ACTTTTGCGCCTTCCCTTGACTGGCTGCTTAAGACAGGTTTGAC
gi|7 : CAGTCAAATCTAAGTAAGTGG-TCA--CCT----C----TAT-T-GAACAGCCA--CTTGTC-TTAAGCAGCCACATTTGC--T--TTTTCTGTT-TCTATGCT----TTCAGAACAAA-T-TA-------------ACCTGTATTAA--G----------C---------AA----------CAACT---TT-A--------GA------------AG-GAC-ACTTTTGTTCCTTCCCATGAAAGGCTGCTTTAGACAAGTTTGAC
gi|1 : CAGTCAATCCTGTATAAAGAGGTCA--CCT----C----TTT-T-AAGCAGCCA--CTTGCG-TTATGCAGCCACATTTAT--TA-TTTTACATG-TCTATAAT----TTCAGAGCAAATT-TA-------------ACTGT-ATTTA--G----------CA--------ACAA--------C--CTATCTT-A--------AA------------CG-GCCAATTTTTGCTCCTTCTCTTGGCTGGCTGCTTAAGACAGGTTTGGCt
gi|18 : taaaaaatataCAGCCAAACCTGTGTTAGTGG-CCA--CCT----CAATTTCT-T-AAACAGTCtg
gi|19 : acataCAGTCAAACCTGTACTAACAG-TCA--CCTG---T----TA--T-AAGCAGCCA--C
gi|14 : aAGTCAAACCTGTGTAAGCGG-TCA--TCT----C----TAT-T-AAGCAACCA--CTTGTC-TTAAGCAGTCACATTTGC--TA-TTTCCCATT-TCTATGAT----TTCAGAGTAAA-
gi|3 : AGTTAAACTCTTGTAAGCGG-TCA--CCT----C----TAG-T-AAGCAGCCT--CTTGTC-CTAAGCAACCGTATCT-C--CATTTTCCCCTT-TCTATGCTCTTCTTTTTAGTCGA-TATG-------------AC----CT-----GTGATAAGTAAC---------AC----------A--CTGTCTT-A--------AA------------AT-GCT-ACTTAAGCTGATTCCCTCGACTTTCTGCTTTAGTCAGGTTTGA
gi|16 : aaAGTATAACCTGTGTTGGTGG-CCA--TAT----A-----AT-G-AGGCAGTTA--CTTGTG-CTAAGCAGTC---TTTGgt
gi|4 : tatGTAAAACCTGTGTAAGTGG-TCA--CCT----C----TAT-T-AACCAGCCA--TCTATC-CTAAGCAACTGTATTTTC--TA-TTTTACATT-TCTATGCT----TTCAAAGTAAA-T-TA-------------AC-----T-----G----------CTATTAAGCAACAA--------C--CTGTCTC-A--------AA------------AG-GCC-ACTTTTTCTCCTTCCCTTGACTGGCTGCTTAGGACAGGTTTGGC
gi|11 : GTCAAACCGGTGTAAGCGG-TCA--CCT----C----TAT-T-AATCAGCCA--TCTGTG-TTAAGCAGCCTCATTTTC--TA-TTTCCCGTT-TCTATGCT----TTCATGGCATA-T-TA-------------AC----CT-----GTATTAAGCAAC---------AA----------C--CTGTCTT-A--------AA------------AT-GCT-ACTCTTG------CTCTTAACTGGCTGCTAAAAACAAGTTTGACtg
gi|17 : GTTAAACCGGTGTAAGTAG-TCA--CCTAAGGC----TATAT-AATCAACCG--GCTGTT-TTAA
gi|6 : gccTGAAACCTGTTTAAGCGA-TCA--CCT----C----TAT-T-AAGCAGTCA--CTTGTC-TTAAACAGCCATATTTTC--TA-TTTCCCATT-TCTATGCT----TTTAGCGTTAA-C-TA-------------AC----CT-----GTATTAAGCAAC---------AA----------C--CTGTCTT-A--------AA------------AG-GCC-ACTTTTGCTCCTTTCCTTGACTGGCTTTTTAAGACAGATTTAAC
gi|13 : AACCCTGTGTAAGCGG-TCA--CCT----C----TAT-C-AAACAGCCA--CTTGTC-TTAAGCAGCTACATT--------------ATTGTGTATGCT----TTCAGTGCAAA-T-TC-------------AC----CT-----GTATTAAGCAAC---------AA----------C--CTGTCTT-A---------A------------AG-GTC-ACTTTTGCTTCTTCCCTTGACTGACTGCTTAAGACAGGTTTGAC
gi|5 : ttAAACATGTGTAAGCGG-TCA--CCT----C----TAT-T-AAGCAGCTA--CTTGTC-TTAAGCAGCCATATTTTG--AA-TTTCCCATT-TCTATGTT----TCCAGAGAAAA-T-TA-------------TT----CT-----GTAGTAAGCAAC---------AA----------C--CTGTCTTAA--------AA------------AA-GCC-ACTTTCGCTCCTTTCTCTGACTGTTTTCTTAAGACACGTTTGGCt
gi|9 : tcAAACCTGTGTAAGCGT-TCA--CCT----T----TAA-T-AAGCAGTCA--CTTGTC-ATA---AGCCACATTTGC--TA-TTTTCCATT-TATTTGCT----TTAATAGAAAA-T-AA-------------AC----AT-----G----------T---------ATTAAGCAATAAC--CTGTCTT-A--------AA------------AG-GCC-ACTTTTGCTCCTTCCATTGACTGGCTGTTTAAGACATGCTGGACt
gi|8 : ttcAACCCTATGAAAGCAG-TCA--TTT----C----TAT-C-ATGCAGCCA--CTTCTC-TCAAGCAGCCAAATTTGC--TA-TTTCCCATG-TCAATGCT----TTCAGAATGAA-T-TA-------------AC----CT-----GTATTAAGCAAC---------AA----------C--CTGTCTT----------TA------------ACAGTC-ACTTTTGCTCCTTCCCTTTACTGGGAGTTTAAGACAGGTTTt
gi|10 : tcAACCTGTGTAAGAAG-TCA--CAT----C----TAT-T-AAGCAGCAA--CCTGTC-TAAAGCAACCATATTTTG--TA-TTTCCCATT-TCTTTGCT----TTCAGAGTAAA-C-TA-------------ACCT--ATATTTAG----------CA--------ACAA--------C--CTGTCAC-A--------AA------------AG-GCC-ATTTTTGCTCCTTCCCTTGACTGGCTGCTTCAGACAGATTTGAta
gi|2 : TGTAAGGGG-TCA--CCT----T----TAT-TTAAGCAGCCA--CTTATCTTTAAGTAACAATATTTTCTTTT-TTTCCCATT-TCTGTGAA----TTCATTGTAAA-C-TATATATATATATATAT----AT-----A----------T---------AA----------C--CTGTATT-AAGCAACATTAACCTGTCTTTAAAT-GCC-ATTTTTGCTCCTTCCCTTTACTGGCTGCCTAACACAGGTTTGA
gi|19 : AG-TCAAACCT----G----TAC-T-AA-CAGTCA--CCTGTT-ATAAGCAGCCAC
gi|4 : acCAGCCAAACCTGTC-CTAAGCAGCCA
gi|1 : gtaaaacctgtgtaagtggtcacctctattaaccagccatctatcctaagcaactgtattttctattttacatttctatgctttcaaagtaaattaactgctattaagcaacaacctgtctcaaaaggccactttttctccttcccttgacCAGCCAAACCTGTC-TTAAGCAGCCA
gi|7 : taaaaaatatacagtcaatcctgtataaagaggtcacctcttttaagcagccacttgcgttatgcagccacatttattattttacatgtctataatttcagagcaaatttaactgtatttagcaacaacctatcttaaacggccaatttttgctccttctcttggcTGGCTGCTTAAGACAAGT
gi|5 : cagtcaaatctaagtaagtggtcacctctattgaacagccTGGCTGCTTAAGACAAGTcatttgctttttctgtttctatgctttcagaacaaattaacctgtattaagcaacaactttagaaggacacttttgttccttcccatgaaaggctgctttagacaagtttgact
1 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|15 ): ACTGCTTGTATTCAGCAGCCAACCTGTGTTAAGGGGTCAATCTTCATTCATTGTGACTGATTCTGATGGGTTTGGCTG
Alignments
lowQualScore : 22222222222222222222 222
lowQualScore : 2 6666 4444 2 2 2 2 33 2 6666 0 3 55555555555555555555 33 2 444 2 555 2 2 2
lowQualScore : . .... .... . . . . .. . .... . . .................... .. . ... . ... . . .
lowQualScore : 2 9999 7777 2 2 5 0 99 9 1111 1 1 00000000000000000000 99 9 111 9 000 9 9 9
consensus : CAGTCAAACCTGTGTAA-GCGGTCACCT----C----TAT-T-AAGCAGCCACTTGTCTT-AAGCAGCCACATTTNCTATTT--CCCATT-TCTATGCT----TTCAGAGCAAAT-TA--------------------AC--CTGT-ATT-AAGCAAC-A---ACCTGTCTT-AAAAGGCC-ACTTTTGCTCCTTCCCT-TGACTGGCTGCTTAAGACAGGTTTGAC
Reference ( family-1049 ) : CAGTCAAACCTGTGTAA-GCGGTCACCT----C----TAT-T-AAGCAGCCACTTGTCTT-AAGCAGCCACATTTNCTATTT--CCCATT-TCTATGCT----TTCAGAGTAAAT-TA--------------------AC--CTGT-A-T-AAGCAAC-A---ACCTGTCTT-AAAAGGCC-ACTTTTGCTCCTTCCCT-TGACTGGCTGCTTAAGACAGGTTTGAC
gi|1 : CAGTCAATCCTGTATAAAGAGGTCACCT----C----TTT-T-AAGCAGCCACTTGCGTT-ATGCAGCCACATTTATTATTT--TACATG-TCTATAAT----TTCAGAGCAAAT-TT--------------------AA--CTGT-ATT-TAGCAAC-A---ACCTATCTT-AAACGGCCAATTTTTGCTCCTTCTCT-TGGCTGGCTGCTTAAGACAGGTTTGGC
gi|10 : taaaaaatataAACCTGTGTAA-GAAGTCACAT----C----TAT-T-AAGCAGCAACCTGTCTA-AAGCAACCATATTTTGTATTT--CCCATT-TCTTTGCT----TTCAGAGTAAAC-TA--------------------AC--CTAT-ATT-TAGCAAC-A---ACCTGTCAC-AAAAGGCC-ATTTTTGCTCCTTCCCT-TGACTGGCTGCTTCAGACAGATTTGAtg
gi|11 : GTCAAACCGGTGTAA-GCGGTCACCT----C----TAT-T-AATCAGCCATCTGTGTT-AAGCAGCCTCATTTTCTATTT--CCCGTT-TCTATGCT----TTCATGGCATAT-TA--------------------AC--CTGT-ATT-AAGCAAC-A---ACCTGTCTT-AAAATGCT-ACTCTTGCT------CT-TAACTGGCTGCTAAAAACAAGTTTGAC
gi|12 : CAGTAAAACCTGTGTTA-GTAGTCACCT----C----TAT-T-AAACAGCCACTTGTCTT-AAGCAGCCACATTTGCTATTT--CCTATT-TCTATACT----TTCAGAGCAAAT-TG--------------------AC--ATG------------C-A---CCCTGTCTT-ATAATGCC-ACTTTTGCGCCTTCCCT-TGACTGGCTGCTTAAGACAGGTTTGAC
gi|13 : TTAACCCTGTGTAA-GCGGTCACCT----C----TAT-C-AAACAGCCACTTGTCTT-AAGCAGCTACATT-------------ATTGTGTATGCT----TTCAGTGCAAAT-TC--------------------AC--CTGT-ATT-AAGCAAC-A---ACCTGTCTT--AAAGGTC-ACTTTTGCTTCTTCCCT-TGACTGACTGCTTAAGACAGGTTTGAC
gi|14 : AGTCAAACCTGTGTAA-GCGGTCATCT----C----TAT-T-AAGCAACCACTTGTCTT-AAGCAGTCACATTTGCTATTT--CCCATT-TCTATGAT----TTCAGAGTAAAt
gi|15 : C--TTGT-A-TTCAGCAGCCA---ACCTGTGTT-AAGGGGTC-AATCT---TCATTCATTGTGACTGATT-CT---GATGGGTTTGGC
gi|16 : actgAACCTGTGTTG-GTGGCCATAT----A-----AT-G-AGGCAGTTACTTGTGCT-AAGCAGTCtg
gi|17 : tatagtatGTTAAACCGGTGTAA-GTAGTCACCTAAGGC----TATAT-AATCAACCGGCTGTTTT-AAtttg
gi|18 : gccCAGCCAAACCTGTGTTA-GTGGCCACCT----CAATTTCT-T-AAACAGTC
gi|19 : acataCAGTCAAACCTGTACTA-ACAGTCACCTG---T----TA--T-AAGCAGCCAC
gi|2 : aTGTAA-GGGGTCACCT----T----TAT-TTAAGCAGCCACTTATCTTTAAGTAACAATATTTTCTTTTTTTCCCATT-TCTGTGAA----TTCATTGTAAAC-TATATATATATATATATATATAAC--CTGT-A-TTAAGCAAC-ATTAACCTGTCTT-TAAATGCC-ATTTTTGCTCCTTCCCT-TTACTGGCTGCCTAACACAGGTTTGA
gi|3 : AGTTAAACTCTTGTAA-GCGGTCACCT----C----TAG-T-AAGCAGCCTCTTGTCCT-AAGCAACCGTATCTCCATTTT--CCCCTT-TCTATGCTCTTCTTTTTAGTCGATATG--------------------AC--CTGTGA-T-AAGTAAC-A---CACTGTCTT-AAAATGCT-ACTTAAGCTGATTCCCT-CGACTTTCTGCTTTAGTCAGGTTTGA
gi|4 : aaGTAAAACCTGTGTAA-GTGGTCACCT----C----TAT-T-AACCAGCCATCTATCCT-AAGCAACTGTATTTTCTATTT--TACATT-TCTATGCT----TTCAAAGTAAAT-TA--------------------ACTGCTAT---T-AAGCAAC-A---ACCTGTCTC-AAAAGGCC-ACTTTTTCTCCTTCCCT-TGACTGGCTGCTTAGGACAGGTTTGGCgt
gi|5 : TCAAACATGTGTAA-GCGGTCACCT----C----TAT-T-AAGCAGCTACTTGTCTT-AAGCAGCCATATTTTGAATTT--CCCATT-TCTATGTT----TCCAGAGAAAAT-TA--------------------TT--CTGT-AGT-AAGCAAC-A---ACCTGTCTTAAAAAAGCC-ACTTTCGCTCCTTTCTC-TGACTGTTTTCTTAAGACACGTTTGGCtg
gi|6 : AAACCTGTTTAA-GCGATCACCT----C----TAT-T-AAGCAGTCACTTGTCTT-AAACAGCCATATTTTCTATTT--CCCATT-TCTATGCT----TTTAGCGTTAAC-TA--------------------AC--CTGT-ATT-AAGCAAC-A---ACCTGTCTT-AAAAGGCC-ACTTTTGCTCCTTTCCT-TGACTGGCTTTTTAAGACAGATTTAACt
gi|7 : tgCAGTCAAATCTAAGTAA-GTGGTCACCT----C----TAT-T-GAACAGCCACTTGTCTT-AAGCAGCCACATTTGCT-TTT--TCTGTT-TCTATGCT----TTCAGAACAAAT-TA--------------------AC--CTGT-ATT-AAGCAAC-A---AC----TTT-AGAAGGAC-ACTTTTGTTCCTTCCCA-TGAAAGGCTGCTTTAGACAAGTTTGAC
gi|8 : TCAACCCTATGAAA-GCAGTCATTT----C----TAT-C-ATGCAGCCACTTCTCTC-AAGCAGCCAAATTTGCTATTT--CCCATG-TCAATGCT----TTCAGAATGAAT-TA--------------------AC--CTGT-ATT-AAGCAAC-A---ACCTGTCTT-TAACAGTC-ACTTTTGCTCCTTCCCT-TTACTGGGAGTTTAAGACAGGTTTt
gi|9 : TCAAACCTGTGTAA-GCGTTCACCT----T----TAA-T-AAGCAGTCACTTGTCAT-AAGC---CACATTTGCTATTT--TCCATT-TATTTGCT----TTAATAGAAAAT-AA--------------------AC--ATGT-A-TTAAGCAAT-A---ACCTGTCTT-AAAAGGCC-ACTTTTGCTCCTTCCAT-TGACTGGCTGTTTAAGACATGCTGGACta
Alignments
lowQualScore : 22222222222222222222
lowQualScore : 2 6666 4444 2 2 2 2 33 2 6666 1 3 55555555555555555555 2 2 555 2 2 2
lowQualScore : . .... .... . . . . .. . .... . . .................... . . ... . . .
lowQualScore : 2 9999 7777 2 2 5 0 99 9 1111 6 1 00000000000000000000 9 9 000 9 9 9
consensus : CAGTCAAACCTGTGTAA-GCGGTCACCT----C----TAT-T-AAGCAGCCACTTGTCTT-AAGCAGCCACATTTNCTATTT--CCCATT-TCTATGCT----TTCAGAGCAAAT-TA--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT-AAAAGGCC-ACTTTTGCTCCTTCCCT-TGACTGGCTGCTTAAGACAGGTTTGAC
Reference ( family-1049 ) : CAGTCAAACCTGTGTAA-GCGGTCACCT----C----TAT-T-AAGCAGCCACTTGTCTT-AAGCAGCCACATTTNCTATTT--CCCATT-TCTATGCT----TTCAGAGCAAAT-TA--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT-AAAAGGCC-ACTTTTGCTCCTTCCCT-TGACTGGCTGCTTAAGACAGGTTTGAC
gi|1 : CAGTCAATCCTGTATAAAGAGGTCACCT----C----TTT-T-AAGCAGCCACTTGCGTT-ATGCAGCCACATTTATTATTT--TACATG-TCTATAAT----TTCAGAGCAAAT-TT--------------------AACTG-TATTTAGCAAC-A---ACCTATCTT-AAACGGCCAATTTTTGCTCCTTCTCT-TGGCTGGCTGCTTAAGACAGGTTTGGC
gi|10 : taaaaaatataAACCTGTGTAA-GAAGTCACAT----C----TAT-T-AAGCAGCAACCTGTCTA-AAGCAACCATATTTTGTATTT--CCCATT-TCTTTGCT----TTCAGAGTAAAC-TA--------------------ACCTA-TATTTAGCAAC-A---ACCTGTCAC-AAAAGGCC-ATTTTTGCTCCTTCCCT-TGACTGGCTGCTTCAGACAGATTTGAtg
gi|11 : GTCAAACCGGTGTAA-GCGGTCACCT----C----TAT-T-AATCAGCCATCTGTGTT-AAGCAGCCTCATTTTCTATTT--CCCGTT-TCTATGCT----TTCATGGCATAT-TA--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT-AAAATGCT-ACTCTTGCT------CT-TAACTGGCTGCTAAAAACAAGTTTGAC
gi|12 : CAGTAAAACCTGTGTTA-GTAGTCACCT----C----TAT-T-AAACAGCCACTTGTCTT-AAGCAGCCACATTTGCTATTT--CCTATT-TCTATACT----TTCAGAGCAAAT-TG--------------------ACATG-----------C-A---CCCTGTCTT-ATAATGCC-ACTTTTGCGCCTTCCCT-TGACTGGCTGCTTAAGACAGGTTTGAC
gi|13 : TTAACCCTGTGTAA-GCGGTCACCT----C----TAT-C-AAACAGCCACTTGTCTT-AAGCAGCTACATT-------------ATTGTGTATGCT----TTCAGTGCAAAT-TC--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT--AAAGGTC-ACTTTTGCTTCTTCCCT-TGACTGACTGCTTAAGACAGGTTTGAC
gi|14 : AGTCAAACCTGTGTAA-GCGGTCATCT----C----TAT-T-AAGCAACCACTTGTCTT-AAGCAGTCACATTTGCTATTT--CCCATT-TCTATGAT----TTCAGAGTAAAt
gi|15 : CTTG-TATTCAGCAGCCA---ACCTGTGTT-AAGGGGTC-AATCT---TCATTCATTGTGACTGATT-CT---GATGGGTTTGGC
gi|16 : actgAACCTGTGTTG-GTGGCCATAT----A-----AT-G-AGGCAGTTACTTGTGCT-AAGCAGTCtg
gi|17 : tatagtatGTTAAACCGGTGTAA-GTAGTCACCTAAGGC----TATAT-AATCAACCGGCTGTTTT-AAtttg
gi|18 : gccCAGCCAAACCTGTGTTA-GTGGCCACCT----CAATTTCT-T-AAACAGTC
gi|19 : acataCAGTCAAACCTGTACTA-ACAGTCACCTG---T----TA--T-AAGCAGCCAC
gi|2 : aTGTAA-GGGGTCACCT----T----TAT-TTAAGCAGCCACTTATCTTTAAGTAACAATATTTTCTTTTTTTCCCATT-TCTGTGAA----TTCATTGTAAAC-TATATATATATATATATATATAACCTG-TATTAAGCAAC-ATTAACCTGTCTT-TAAATGCC-ATTTTTGCTCCTTCCCT-TTACTGGCTGCCTAACACAGGTTTGA
gi|3 : AGTTAAACTCTTGTAA-GCGGTCACCT----C----TAG-T-AAGCAGCCTCTTGTCCT-AAGCAACCGTATCTCCATTTT--CCCCTT-TCTATGCTCTTCTTTTTAGTCGATATG--------------------ACCTG-TGATAAGTAAC-A---CACTGTCTT-AAAATGCT-ACTTAAGCTGATTCCCT-CGACTTTCTGCTTTAGTCAGGTTTGA
gi|4 : aaGTAAAACCTGTGTAA-GTGGTCACCT----C----TAT-T-AACCAGCCATCTATCCT-AAGCAACTGTATTTTCTATTT--TACATT-TCTATGCT----TTCAAAGTAAAT-TA--------------------A-CTGCTATTAAGCAAC-A---ACCTGTCTC-AAAAGGCC-ACTTTTTCTCCTTCCCT-TGACTGGCTGCTTAGGACAGGTTTGGCgt
gi|5 : TCAAACATGTGTAA-GCGGTCACCT----C----TAT-T-AAGCAGCTACTTGTCTT-AAGCAGCCATATTTTGAATTT--CCCATT-TCTATGTT----TCCAGAGAAAAT-TA--------------------TTCTG-TAGTAAGCAAC-A---ACCTGTCTTAAAAAAGCC-ACTTTCGCTCCTTTCTC-TGACTGTTTTCTTAAGACACGTTTGGCtg
gi|6 : AAACCTGTTTAA-GCGATCACCT----C----TAT-T-AAGCAGTCACTTGTCTT-AAACAGCCATATTTTCTATTT--CCCATT-TCTATGCT----TTTAGCGTTAAC-TA--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT-AAAAGGCC-ACTTTTGCTCCTTTCCT-TGACTGGCTTTTTAAGACAGATTTAACt
gi|7 : tgCAGTCAAATCTAAGTAA-GTGGTCACCT----C----TAT-T-GAACAGCCACTTGTCTT-AAGCAGCCACATTTGCT-TTT--TCTGTT-TCTATGCT----TTCAGAACAAAT-TA--------------------ACCTG-TATTAAGCAAC-A---AC----TTT-AGAAGGAC-ACTTTTGTTCCTTCCCA-TGAAAGGCTGCTTTAGACAAGTTTGAC
gi|8 : TCAACCCTATGAAA-GCAGTCATTT----C----TAT-C-ATGCAGCCACTTCTCTC-AAGCAGCCAAATTTGCTATTT--CCCATG-TCAATGCT----TTCAGAATGAAT-TA--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT-TAACAGTC-ACTTTTGCTCCTTCCCT-TTACTGGGAGTTTAAGACAGGTTTt
gi|9 : TCAAACCTGTGTAA-GCGTTCACCT----T----TAA-T-AAGCAGTCACTTGTCAT-AAGC---CACATTTGCTATTT--TCCATT-TATTTGCT----TTAATAGAAAAT-AA--------------------ACATG-TATTAAGCAAT-A---ACCTGTCTT-AAAAGGCC-ACTTTTGCTCCTTCCAT-TGACTGGCTGTTTAAGACATGCTGGACta
Alignments
lowQualScore : 22222222222222222222
lowQualScore : 2 6666 4444 2 2 2 2 33 2 6666 1 3 55555555555555555555 2 2 555 2 2 2
lowQualScore : . .... .... . . . . .. . .... . . .................... . . ... . . .
lowQualScore : 2 9999 7777 2 2 5 0 99 9 1111 6 1 00000000000000000000 9 9 000 9 9 9
consensus : CAGTCAAACCTGTGTAA-GCGGTCACCT----C----TAT-T-AAGCAGCCACTTGTCTT-AAGCAGCCACATTTNCTATTT--CCCATT-TCTATGCT----TTCAGAGCAAAT-TA--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT-AAAAGGCC-ACTTTTGCTCCTTCCCT-TGACTGGCTGCTTAAGACAGGTTTGAC
Reference ( family-1049 ) : CAGTCAAACCTGTGTAA-GCGGTCACCT----C----TAT-T-AAGCAGCCACTTGTCTT-AAGCAGCCACATTTNCTATTT--CCCATT-TCTATGCT----TTCAGAGCAAAT-TA--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT-AAAAGGCC-ACTTTTGCTCCTTCCCT-TGACTGGCTGCTTAAGACAGGTTTGAC
gi|1 : CAGTCAATCCTGTATAAAGAGGTCACCT----C----TTT-T-AAGCAGCCACTTGCGTT-ATGCAGCCACATTTATTATTT--TACATG-TCTATAAT----TTCAGAGCAAAT-TT--------------------AACTG-TATTTAGCAAC-A---ACCTATCTT-AAACGGCCAATTTTTGCTCCTTCTCT-TGGCTGGCTGCTTAAGACAGGTTTGGC
gi|10 : taaaaaatataAACCTGTGTAA-GAAGTCACAT----C----TAT-T-AAGCAGCAACCTGTCTA-AAGCAACCATATTTTGTATTT--CCCATT-TCTTTGCT----TTCAGAGTAAAC-TA--------------------ACCTA-TATTTAGCAAC-A---ACCTGTCAC-AAAAGGCC-ATTTTTGCTCCTTCCCT-TGACTGGCTGCTTCAGACAGATTTGAtg
gi|11 : GTCAAACCGGTGTAA-GCGGTCACCT----C----TAT-T-AATCAGCCATCTGTGTT-AAGCAGCCTCATTTTCTATTT--CCCGTT-TCTATGCT----TTCATGGCATAT-TA--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT-AAAATGCT-ACTCTTGCT------CT-TAACTGGCTGCTAAAAACAAGTTTGAC
gi|12 : CAGTAAAACCTGTGTTA-GTAGTCACCT----C----TAT-T-AAACAGCCACTTGTCTT-AAGCAGCCACATTTGCTATTT--CCTATT-TCTATACT----TTCAGAGCAAAT-TG--------------------ACATG-----------C-A---CCCTGTCTT-ATAATGCC-ACTTTTGCGCCTTCCCT-TGACTGGCTGCTTAAGACAGGTTTGAC
gi|13 : TTAACCCTGTGTAA-GCGGTCACCT----C----TAT-C-AAACAGCCACTTGTCTT-AAGCAGCTACATT-------------ATTGTGTATGCT----TTCAGTGCAAAT-TC--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT--AAAGGTC-ACTTTTGCTTCTTCCCT-TGACTGACTGCTTAAGACAGGTTTGAC
gi|14 : AGTCAAACCTGTGTAA-GCGGTCATCT----C----TAT-T-AAGCAACCACTTGTCTT-AAGCAGTCACATTTGCTATTT--CCCATT-TCTATGAT----TTCAGAGTAAAt
gi|15 : CTTG-TATTCAGCAGCCA---ACCTGTGTT-AAGGGGTC-AATCT---TCATTCATTGTGACTGATT-CT---GATGGGTTTGGC
gi|16 : actgAACCTGTGTTG-GTGGCCATAT----A-----AT-G-AGGCAGTTACTTGTGCT-AAGCAGTCtg
gi|17 : tatagtatGTTAAACCGGTGTAA-GTAGTCACCTAAGGC----TATAT-AATCAACCGGCTGTTTT-AAtttg
gi|18 : gccCAGCCAAACCTGTGTTA-GTGGCCACCT----CAATTTCT-T-AAACAGTC
gi|19 : acataCAGTCAAACCTGTACTA-ACAGTCACCTG---T----TA--T-AAGCAGCCAC
gi|2 : aTGTAA-GGGGTCACCT----T----TAT-TTAAGCAGCCACTTATCTTTAAGTAACAATATTTTCTTTTTTTCCCATT-TCTGTGAA----TTCATTGTAAAC-TATATATATATATATATATATAACCTG-TATTAAGCAAC-ATTAACCTGTCTT-TAAATGCC-ATTTTTGCTCCTTCCCT-TTACTGGCTGCCTAACACAGGTTTGA
gi|3 : AGTTAAACTCTTGTAA-GCGGTCACCT----C----TAG-T-AAGCAGCCTCTTGTCCT-AAGCAACCGTATCTCCATTTT--CCCCTT-TCTATGCTCTTCTTTTTAGTCGATATG--------------------ACCTG-TGATAAGTAAC-A---CACTGTCTT-AAAATGCT-ACTTAAGCTGATTCCCT-CGACTTTCTGCTTTAGTCAGGTTTGA
gi|4 : aaGTAAAACCTGTGTAA-GTGGTCACCT----C----TAT-T-AACCAGCCATCTATCCT-AAGCAACTGTATTTTCTATTT--TACATT-TCTATGCT----TTCAAAGTAAAT-TA--------------------A-CTGCTATTAAGCAAC-A---ACCTGTCTC-AAAAGGCC-ACTTTTTCTCCTTCCCT-TGACTGGCTGCTTAGGACAGGTTTGGCgt
gi|5 : TCAAACATGTGTAA-GCGGTCACCT----C----TAT-T-AAGCAGCTACTTGTCTT-AAGCAGCCATATTTTGAATTT--CCCATT-TCTATGTT----TCCAGAGAAAAT-TA--------------------TTCTG-TAGTAAGCAAC-A---ACCTGTCTTAAAAAAGCC-ACTTTCGCTCCTTTCTC-TGACTGTTTTCTTAAGACACGTTTGGCtg
gi|6 : AAACCTGTTTAA-GCGATCACCT----C----TAT-T-AAGCAGTCACTTGTCTT-AAACAGCCATATTTTCTATTT--CCCATT-TCTATGCT----TTTAGCGTTAAC-TA--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT-AAAAGGCC-ACTTTTGCTCCTTTCCT-TGACTGGCTTTTTAAGACAGATTTAACt
gi|7 : tgCAGTCAAATCTAAGTAA-GTGGTCACCT----C----TAT-T-GAACAGCCACTTGTCTT-AAGCAGCCACATTTGCT-TTT--TCTGTT-TCTATGCT----TTCAGAACAAAT-TA--------------------ACCTG-TATTAAGCAAC-A---AC----TTT-AGAAGGAC-ACTTTTGTTCCTTCCCA-TGAAAGGCTGCTTTAGACAAGTTTGAC
gi|8 : TCAACCCTATGAAA-GCAGTCATTT----C----TAT-C-ATGCAGCCACTTCTCTC-AAGCAGCCAAATTTGCTATTT--CCCATG-TCAATGCT----TTCAGAATGAAT-TA--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT-TAACAGTC-ACTTTTGCTCCTTCCCT-TTACTGGGAGTTTAAGACAGGTTTt
gi|9 : TCAAACCTGTGTAA-GCGTTCACCT----T----TAA-T-AAGCAGTCACTTGTCAT-AAGC---CACATTTGCTATTT--TCCATT-TATTTGCT----TTAATAGAAAAT-AA--------------------ACATG-TATTAAGCAAT-A---ACCTGTCTT-AAAAGGCC-ACTTTTGCTCCTTCCAT-TGACTGGCTGTTTAAGACATGCTGGACta
blockSeqs : . AAGG AATT A T T T TT G CTTC T A TATATATATATATATATATA C C TTA A . G
blockSeqs : . G . . . . T . . . C . . . . . . . .
blockSeqs : . . . . . . G . . . C . . . . . . . .
blockSeqs : . . . . . . G . . . C . . . . . . . .
blockSeqs : . . . . . . T . . . T . . . . . . . .
blockSeqs : . . . . . . C . . . T . . . . . . . .
blockSeqs : . . . . . . T . . . T . . . . . . . .
blockSeqs : . . . . . . T . . . T . . . . . . . .
blockSeqs : . . . . . . T . . . A . . . . . . . .
blockSeqs : . . . . . . G . . . T . . . . . . . .
blockSeqs : . . . . . . G . . . C . . . . . . . .
blockSeqs : . . . . . . G . . . T . . . . . . . .
blockSeqs : . . . . . . . . . . A . . . . . .
blockSeqs : . . . . . .
blockSeqs : . . . . . .
blockSeqs : . . . . .
blockSeqs : . . . . .
blockSeqCons :
originalCons : CAGTCAAACCTGTGTAA-GCGGTCACCT----C----TAT-T-AAGCAGCCACTTGTCTT-AAGCAGCCACATTTNCTATTT--CCCATT-TCTATGCT----TTCAGAGCAAAT-TA--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT-AAAAGGCC-ACTTTTGCTCCTTCCCT-TGACTGGCTGCTTAAGACAGGTTTGAC
finalCons : CAGTCAAACCTGTGTAA-GCGGTCACCT----C----TAT-T-AAGCAGCCACTTGTCTT-AAGCAGCCACATTTNCTATTT--CCCATT-TCTATGCT----TTCAGAGCAAAT-TA--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT-AAAAGGCC-ACTTTTGCTCCTTCCCT-TGACTGGCTGCTTAAGACAGGTTTGAC
Alignments
lowQualScore : 22222222222222222222
lowQualScore : 2 6666 4444 2 2 2 2 33 2 6666 1 3 55555555555555555555 2 2 555 2 2 2
lowQualScore : . .... .... . . . . .. . .... . . .................... . . ... . . .
lowQualScore : 2 9999 7777 2 2 5 0 99 9 1111 6 1 00000000000000000000 9 9 000 9 9 9
consensus : CAGTCAAACCTGTGTAA-GCGGTCACCT----C----TAT-T-AAGCAGCCACTTGTCTT-AAGCAGCCACATTTNCTATTT--CCCATT-TCTATGCT----TTCAGAGCAAAT-TA--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT-AAAAGGCC-ACTTTTGCTCCTTCCCT-TGACTGGCTGCTTAAGACAGGTTTGAC
Reference ( family-1049 ) : CAGTCAAACCTGTGTAA-GCGGTCACCT----C----TAT-T-AAGCAGCCACTTGTCTT-AAGCAGCCACATTTNCTATTT--CCCATT-TCTATGCT----TTCAGAGCAAAT-TA--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT-AAAAGGCC-ACTTTTGCTCCTTCCCT-TGACTGGCTGCTTAAGACAGGTTTGAC
gi|1 : CAGTCAATCCTGTATAAAGAGGTCACCT----C----TTT-T-AAGCAGCCACTTGCGTT-ATGCAGCCACATTTATTATTT--TACATG-TCTATAAT----TTCAGAGCAAAT-TT--------------------AACTG-TATTTAGCAAC-A---ACCTATCTT-AAACGGCCAATTTTTGCTCCTTCTCT-TGGCTGGCTGCTTAAGACAGGTTTGGC
gi|10 : taaaaaatataAACCTGTGTAA-GAAGTCACAT----C----TAT-T-AAGCAGCAACCTGTCTA-AAGCAACCATATTTTGTATTT--CCCATT-TCTTTGCT----TTCAGAGTAAAC-TA--------------------ACCTA-TATTTAGCAAC-A---ACCTGTCAC-AAAAGGCC-ATTTTTGCTCCTTCCCT-TGACTGGCTGCTTCAGACAGATTTGAtg
gi|11 : GTCAAACCGGTGTAA-GCGGTCACCT----C----TAT-T-AATCAGCCATCTGTGTT-AAGCAGCCTCATTTTCTATTT--CCCGTT-TCTATGCT----TTCATGGCATAT-TA--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT-AAAATGCT-ACTCTTGCT------CT-TAACTGGCTGCTAAAAACAAGTTTGAC
gi|12 : CAGTAAAACCTGTGTTA-GTAGTCACCT----C----TAT-T-AAACAGCCACTTGTCTT-AAGCAGCCACATTTGCTATTT--CCTATT-TCTATACT----TTCAGAGCAAAT-TG--------------------ACATG-----------C-A---CCCTGTCTT-ATAATGCC-ACTTTTGCGCCTTCCCT-TGACTGGCTGCTTAAGACAGGTTTGAC
gi|13 : TTAACCCTGTGTAA-GCGGTCACCT----C----TAT-C-AAACAGCCACTTGTCTT-AAGCAGCTACATT-------------ATTGTGTATGCT----TTCAGTGCAAAT-TC--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT--AAAGGTC-ACTTTTGCTTCTTCCCT-TGACTGACTGCTTAAGACAGGTTTGAC
gi|14 : AGTCAAACCTGTGTAA-GCGGTCATCT----C----TAT-T-AAGCAACCACTTGTCTT-AAGCAGTCACATTTGCTATTT--CCCATT-TCTATGAT----TTCAGAGTAAAt
gi|15 : CTTG-TATTCAGCAGCCA---ACCTGTGTT-AAGGGGTC-AATCT---TCATTCATTGTGACTGATT-CT---GATGGGTTTGGC
gi|16 : actgAACCTGTGTTG-GTGGCCATAT----A-----AT-G-AGGCAGTTACTTGTGCT-AAGCAGTCtg
gi|17 : tatagtatGTTAAACCGGTGTAA-GTAGTCACCTAAGGC----TATAT-AATCAACCGGCTGTTTT-AAtttg
gi|18 : gccCAGCCAAACCTGTGTTA-GTGGCCACCT----CAATTTCT-T-AAACAGTC
gi|19 : acataCAGTCAAACCTGTACTA-ACAGTCACCTG---T----TA--T-AAGCAGCCAC
gi|2 : aTGTAA-GGGGTCACCT----T----TAT-TTAAGCAGCCACTTATCTTTAAGTAACAATATTTTCTTTTTTTCCCATT-TCTGTGAA----TTCATTGTAAAC-TATATATATATATATATATATAACCTG-TATTAAGCAAC-ATTAACCTGTCTT-TAAATGCC-ATTTTTGCTCCTTCCCT-TTACTGGCTGCCTAACACAGGTTTGA
gi|3 : AGTTAAACTCTTGTAA-GCGGTCACCT----C----TAG-T-AAGCAGCCTCTTGTCCT-AAGCAACCGTATCTCCATTTT--CCCCTT-TCTATGCTCTTCTTTTTAGTCGATATG--------------------ACCTG-TGATAAGTAAC-A---CACTGTCTT-AAAATGCT-ACTTAAGCTGATTCCCT-CGACTTTCTGCTTTAGTCAGGTTTGA
gi|4 : aaGTAAAACCTGTGTAA-GTGGTCACCT----C----TAT-T-AACCAGCCATCTATCCT-AAGCAACTGTATTTTCTATTT--TACATT-TCTATGCT----TTCAAAGTAAAT-TA--------------------A-CTGCTATTAAGCAAC-A---ACCTGTCTC-AAAAGGCC-ACTTTTTCTCCTTCCCT-TGACTGGCTGCTTAGGACAGGTTTGGCgt
gi|5 : TCAAACATGTGTAA-GCGGTCACCT----C----TAT-T-AAGCAGCTACTTGTCTT-AAGCAGCCATATTTTGAATTT--CCCATT-TCTATGTT----TCCAGAGAAAAT-TA--------------------TTCTG-TAGTAAGCAAC-A---ACCTGTCTTAAAAAAGCC-ACTTTCGCTCCTTTCTC-TGACTGTTTTCTTAAGACACGTTTGGCtg
gi|6 : AAACCTGTTTAA-GCGATCACCT----C----TAT-T-AAGCAGTCACTTGTCTT-AAACAGCCATATTTTCTATTT--CCCATT-TCTATGCT----TTTAGCGTTAAC-TA--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT-AAAAGGCC-ACTTTTGCTCCTTTCCT-TGACTGGCTTTTTAAGACAGATTTAACt
gi|7 : tgCAGTCAAATCTAAGTAA-GTGGTCACCT----C----TAT-T-GAACAGCCACTTGTCTT-AAGCAGCCACATTTGCT-TTT--TCTGTT-TCTATGCT----TTCAGAACAAAT-TA--------------------ACCTG-TATTAAGCAAC-A---AC----TTT-AGAAGGAC-ACTTTTGTTCCTTCCCA-TGAAAGGCTGCTTTAGACAAGTTTGAC
gi|8 : TCAACCCTATGAAA-GCAGTCATTT----C----TAT-C-ATGCAGCCACTTCTCTC-AAGCAGCCAAATTTGCTATTT--CCCATG-TCAATGCT----TTCAGAATGAAT-TA--------------------ACCTG-TATTAAGCAAC-A---ACCTGTCTT-TAACAGTC-ACTTTTGCTCCTTCCCT-TTACTGGGAGTTTAAGACAGGTTTt
gi|9 : TCAAACCTGTGTAA-GCGTTCACCT----T----TAA-T-AAGCAGTCACTTGTCAT-AAGC---CACATTTGCTATTT--TCCATT-TATTTGCT----TTAATAGAAAAT-AA--------------------ACATG-TATTAAGCAAT-A---ACCTGTCTT-AAAAGGCC-ACTTTTGCTCCTTCCAT-TGACTGGCTGTTTAAGACATGCTGGACta