lowQualScore : 1111111111111111111111111111111
lowQualScore : 0000000000000000000000000000000
lowQualScore : 1 22 1 1 4444444 6666666666666666666666666666666 55555 11 1 22 1
lowQualScore : . .. . . ....... ............................... ..... .. . .. .
lowQualScore : 5 11 5 5 2222222 2222222222222222222222222222222 22222 99 5 11 5
consensus : GTCTTGTCCC-AT--GA-TCCC-CTGC-----T-CTACG--ATT-------GC---C-T--AAT--CGTAGA-----GCAG-GGGA-TC--AT-GGGACA
Reference ( gi|3 ) : GTCTTGTCCC-AT--GA-TCCC-TTGC-----T-CTGCA--ATT--AG---GC---C-T--AAT--CGTAGA-----GCAA-GGGA-TC--AT-GGGACA
gi|4 : GTCTTGTCCC-AT--GA-TCCT-TTGC-----G-CTCCG--AT--------AC--------AA----GTGTA-----GCAA-AGGA-TC--AT-GGGACA
gi|11 : ctGCCTTGTCCT-AT--GA-TCCT-CTGC-----T-CT-------------------------AA----GTAGA-----ACAG-GGGA-TC--AT-GGGAC
gi|1 : GTCTTGTCCC-AT--GA-TCCT-TTGC-----G-TTACA--CTTTCAGAGAGC---C-T--TGTAGCGCAGC-----GCAA-AGGA-TT--AA-GTGACA
gi|18 : GTCTTGTCCC-AT--GA-TCCC-CTGC-----T-CTACG--ATT--GG---tga
gi|9 : TCTTGTCCC-AT--GA-TCCT-CTGC-----T-C-----------------C---C-A--AAT--CGTAGA-----GCAG-GGGA-TC--AT-GGGAC
gi|1 : TCATGTCAC-TT--AA-TCCT-TTGC-----G-CTGCGCTACA--AG---GCTCTC-TGAAAG--TGTAAC-----GCAA-AGGA-TC--AT-GGGACA
gi|2 : gtctTCTTGCCCA-AT--GA-TTCT-TTGCGTTGCT-CTACA--AT----G---AC------------------------GCAA-GGAA-TC--AT-GGGACA
gi|14 : CTTGTCCC-AT--GA-TCCC-TTGC-----T-CTACG--ATT--AG---G------T--AAT--CGTAGA-----GCAA-tgaaggtgatgc
gi|5 : CTTGTCCC-AT--GA-TCCC-TT-------------A--ATT-------GCT--C-T--AAT--CGTAGA-----GCAA-GGGA-TCATAT-GGGACA
gi|10 : CTTGTCTC-AT--GA-TCCC-CTGC-----T-CTTC-----------------------AAC--CGTAGA-----GCAG-GGAA-TC--AT-GGGACa
gi|4 : CTTGTCCC-AT--GA-TCCT-TTG--------CTACA--CTT-------GT---------AT--CGGAGC-----GCAA-AGGA-TC--AT-GGGACA
gi|7 : CTTGTCC--AT--GAGTCCC-CTGC-----T-CTACA--AT-----------------------CGTAGA-----ATAG-GGGA-TC--AT-GGGACAagac
gi|15 : CTTGTCCC-AT--GA-TCCT----------------------------------C-T--A----CGTAGA-----GCAG-GGGA-TC--AT-GGGACAa
gi|16 : CTTGTCCC-AT--GA-TC----------------------TT------------C-T--A----CGTGGA-----GCAG-GGGA-TC--AT-GG
gi|8 : TTGTCCT-AT--GA-TCCC-TTGC-----T-CT--A--A--------------C-T--ATT--CGTAGA-----GCAA-GGGA-TC--AT-AGGACA
gi|5 : TTGTCCC-ATATGA-TCCC-TTGC-----T-CTACG--ATT--AGA--GC--------AAT--------------TAA-GGGA-TC--AT-GGGACA
gi|7 : ctTTGTCCC-AT--GA-TCCC-CTAT-----T-CTACG--ATT-----------------------GTAGA-----GCAG-GGGACTC--AT--GGACA
gi|6 : ctTTGTCCC-AA--GA-CCCC-CTGC-----T-CTACA-------------C---CAT--CAC--CGTAGAA----GCA--GGGA-TC--AT-GGGACA
gi|8 : TGTCCT-AT--GA-TCCC-TTGC-----T-CTACG--AAT--AG----------T---------TAGA-----GCAA-GGGA-TC--AT-AGGACA
gi|6 : tTGTCCC-AT--GA-TCCC-T-GC-----TTCTACG--GTG--A-----------T--GGT---GTAGA-----GCAG-GGGG-TC--TT-GGGACA
gi|15 : tTGTCCC-AT--GA-TCCC-CTGC-----T-CTAC-----------------------------GTAGA-----G------GA-TC--AT-GGGACA
gi|2 : ctTGTCCC-AT--GA-TTCC-TTGC------------------------GT---C-----AT--TGTAGAGCAACGCAA-AGAA-TC--AT-TGGGCA
gi|9 : GTCCC-AT--GA-TCCC-CTGC-----T-CTACG--ATT--TG---G------------------GA-----GCAG-AGGA-TC--AT-GGGACAagatgaaggtgatgc
gi|10 : tctGTCCC-AT--GA-TTCC-CTGC-----T-CTACG--GTT-----------------------GAAGA-----GCAG-GGGA-TC--AT-GAGACA
gi|11 : ctGTCCC-AT--GA-TCCC-CTGT-----T-CTAC----T-------------------------TAGA-----GCAG-AGGA-TC--AT-AGGACA
gi|17 : gcctGTCCCGAT--GA-TCCCCTTGC-----T-CTACG--ATT--AA---G
gi|14 : acatgacc-TTGC-----T-CTACG--ATT--A-----C---C-T--AAT--CGTAGA-----GCAA-GGGA-TC--AT-GGGACA
gi|17 : ctC---T-T--AAT--CGTAGA-----GCAAGGGGA-TC--ATCGGGAC
gi|18 : acatgacc---C-C--AAT--CGTAGA-----GCAG-GGGA-TC--AT-GGGACA
2 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|12 ): CGTTGCATGACCCTTGTAGCGGAGCCCAAAGGATCATGGGACAAAACTA
Unaligned ( gi|13 ): TTGTTCATGATCCCCTGCTCTAGATAGAACAAGAATATCATGGGACA
Alignments
lowQualScore : 77777777777777777777777
lowQualScore : 0 2 2 66666 88888888888888888888888 2 2 1 2 33 2
lowQualScore : . . . ..... ....................... . . . . .. .
lowQualScore : 5 7 0 22222 88888888888888888888888 5 5 1 5 44 5
consensus : GTCTTGTCCCATGA-TCCCCTGC-----TCTACGATT-------GC-C-TAAT--CGTAG-AGC-AGGGG-ATC--AT-GGGACA
Reference ( family-1546 ) : GTCTTGTCCCATGA-TCCCCTGC-----TCTACGATT-------GC-C-TAAT--CGTAG-AGC-AGGGG-ATC--AT-GGGACA
gi|1 : GTCTTGTCCCATGA-TCCTTTGC-----GTTACACTTTCAGAGAGC-C-TTGTAGCGCAG-CGC-AAAGG-ATT--AA-GTGACA
gi|10 : CTTGTCTCATGA-TCCCCTGC-----TCTTC-----------------AAC--CGTAG-AGC-AGGGA-ATC--AT-GGGACtga
gi|11 : GCCTTGTCCTATGA-TCCTCTGC-----TCTA-------------------A----GTAG-AAC-AGGGG-ATC--AT-GGGAC
gi|13 : TTGTTC-ATGA-TCCCCTGC-----TCTA-GA----------------------TAG-AAC-AAGAATATC--AT-GGGACA
gi|14 : TGC-----TCTACGATT-------AC-C-TAAT--CGTAG-AGC-AAGGG-ATC--AT-GGGACA
gi|15 : ctCTTGTCCCATGA-TCC----------TCTACG-----------------------TAG-AGC-AGGGG-ATC--AT-GGGACAa
gi|16 : CTTGTCCCATGA-TCT----------TCTACG-----------------------TGG-AGC-AGGGG-ATC--AT-GG
gi|17 : C-T-TAAT--CGTAG-AGCAAGGGG-ATC--ATCGGGAC
gi|18 : acatgaccGTCTTGTCCCATGA-TCCCCTGC-----TCTACGATT-------G
gi|2 : TCTTGCCCAATGA-TTCTTTGCGTTGCTCTACAATG-------AC----------------GC-AAGGA-ATC--AT-GGGACAg
gi|3 : GTCTTGTCCCATGA-TCCCTTGC-----TCTGCAATTAG-----GC-C-TAAT--CGTAG-AGC-AAGGG-ATC--AT-GGGACAtgaaggtgatgc
gi|4 : GTCTTGTCCCATGA-TCCTTTGC-----GCTCCGA-T-------AC----AA----GTGT-AGC-AAAGG-ATC--AT-GGGACA
gi|5 : ctCTTGTCCCATGA-TCCCTTA------------ATT-------GCTC-TAAT--CGTAG-AGC-AAGGG-ATCATAT-GGGACA
gi|6 : TTGTCCCAAGA-CCCCCTGC-----TCTAC-----------AC-CATCAC--CGTAGAAGC-A-GGG-ATC--AT-GGGACAa
gi|7 : CTTGTCC-ATGAGTCCCCTGC-----TCTAC-----------------AAT--CGTAG-AAT-AGGGG-ATC--AT-GGGACA
gi|8 : TTGTCCTATGA-TCCCTTGC-----TCTA--A------------C-TATT--CGTAG-AGC-AAGGG-ATC--AT-AGGACAa
gi|9 : TCTTGTCCCATGA-TCCTCTGC-----TC---------------C-C-AAAT--CGTAG-AGC-AGGGG-ATC--AT-GGGAC
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|12 ): CGTTGCATGACCCTTGTAGCGGAGCCCAAAGGATCATGGGACAAAACTA
Alignments
lowQualScore : 77777777777777777777777
lowQualScore : 0 2 2 66666 88888888888888888888888 2 2 1 2 33 2
lowQualScore : . . . ..... ....................... . . . . .. .
lowQualScore : 5 7 0 22222 88888888888888888888888 5 5 1 5 44 5
consensus : GTCTTGTCCCATGA-TCCCCTGC-----TCTACGATT-------GC-C-TAAT--CGTAG-AGC-AGGGG-ATC--AT-GGGACA
Reference ( family-1546 ) : GTCTTGTCCCATGA-TCCCCTGC-----TCTACGATT-------GC-C-TAAT--CGTAG-AGC-AGGGG-ATC--AT-GGGACA
gi|1 : GTCTTGTCCCATGA-TCCTTTGC-----GTTACACTTTCAGAGAGC-C-TTGTAGCGCAG-CGC-AAAGG-ATT--AA-GTGACA
gi|10 : CTTGTCTCATGA-TCCCCTGC-----TCTTC-----------------AAC--CGTAG-AGC-AGGGA-ATC--AT-GGGACtga
gi|11 : GCCTTGTCCTATGA-TCCTCTGC-----TCTA-------------------A----GTAG-AAC-AGGGG-ATC--AT-GGGAC
gi|13 : TTGTTC-ATGA-TCCCCTGC-----TCTA-GA----------------------TAG-AAC-AAGAATATC--AT-GGGACA
gi|14 : TGC-----TCTACGATT-------AC-C-TAAT--CGTAG-AGC-AAGGG-ATC--AT-GGGACA
gi|15 : ctCTTGTCCCATGA-TCC----------TCTACG-----------------------TAG-AGC-AGGGG-ATC--AT-GGGACAa
gi|16 : CTTGTCCCATGA-TCT----------TCTACG-----------------------TGG-AGC-AGGGG-ATC--AT-GG
gi|17 : C-T-TAAT--CGTAG-AGCAAGGGG-ATC--ATCGGGAC
gi|18 : acatgaccGTCTTGTCCCATGA-TCCCCTGC-----TCTACGATT-------G
gi|2 : TCTTGCCCAATGA-TTCTTTGCGTTGCTCTACAATG-------AC----------------GC-AAGGA-ATC--AT-GGGACAg
gi|3 : GTCTTGTCCCATGA-TCCCTTGC-----TCTGCAATTAG-----GC-C-TAAT--CGTAG-AGC-AAGGG-ATC--AT-GGGACAtgaaggtgatgc
gi|4 : GTCTTGTCCCATGA-TCCTTTGC-----GCTCCGA-T-------AC----AA----GTGT-AGC-AAAGG-ATC--AT-GGGACA
gi|5 : ctCTTGTCCCATGA-TCCCTTA------------ATT-------GCTC-TAAT--CGTAG-AGC-AAGGG-ATCATAT-GGGACA
gi|6 : TTGTCCCAAGA-CCCCCTGC-----TCTAC-----------AC-CATCAC--CGTAGAAGC-A-GGG-ATC--AT-GGGACAa
gi|7 : CTTGTCC-ATGAGTCCCCTGC-----TCTAC-----------------AAT--CGTAG-AAT-AGGGG-ATC--AT-GGGACA
gi|8 : TTGTCCTATGA-TCCCTTGC-----TCTA--A------------C-TATT--CGTAG-AGC-AAGGG-ATC--AT-AGGACAa
gi|9 : TCTTGTCCCATGA-TCCTCTGC-----TC---------------C-C-AAAT--CGTAG-AGC-AGGGG-ATC--AT-GGGAC
blockSeqs : G C GTTGC CAATTAGGCCTAAT A A G T AT C
blockSeqs : . T . CGATTACCTAAT . . G . . .
blockSeqs : . C . ATTGCTCTAAT . . A . . .
blockSeqs : . C . CACCATCAC . . A . . .
blockSeqs : . T . CGATACAA . . G . . .
blockSeqs : . C . CAATGAC . . G . . .
blockSeqs : . T . ACTATT . . G . . .
blockSeqs : . C . CCAAAT . . A . . .
blockSeqs : . C . CAAC . . A . . .
blockSeqs : . C . CAAT . . A . . .
blockSeqs : . C . GA . . A . . .
blockSeqs : . T . CG . . G . . .
blockSeqs : . . . CG . . A . . .
blockSeqs : . . . A . . G . . .
blockSeqs : . . . . . . .
blockSeqCons : CAAT*******************
originalCons : GTCTTGTCCCATGA-TCCCCTGC-----TCTACGATT-------GC-C-TAAT--CGTAG-AGC-AGGGG-ATC--AT-GGGACA
finalCons : GTCTTGTCCCATGA-TCCCCTGC-----TCTACAAT-------------------CGTAG-AGC-AGGGG-ATC--AT-GGGACA
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|12 ): CGTTGCATGACCCTTGTAGCGGAGCCCAAAGGATCATGGGACAAAACTA
Alignments
lowQualScore : 1111 3333333333333333333333
lowQualScore : 2 2 0 0000 55555 444 2222222222222222222222 2 2 2 2 33 2
lowQualScore : . . . .... ..... ... ...................... . . . . .. .
lowQualScore : 4 4 6 6666 99999 111 7777777777777777777777 4 4 5 7 77 7
consensus : GTCTTGTCCC-ATGA-TCCCCT----GC-----TC---TA--C----------A-----ATCGTAG-A-GC-AGGGG-ATC--AT-GGGACA
Reference ( family-1546 ) : GTCTTGTCCC-ATGA-TCCCCT----GC-----TC---TA--C----------A-----ATCGTAG-A-GC-AGGGG-ATC--AT-GGGACA
gi|1 : GTCTTGTCCC-ATGA-TCCTTT----GC-----GT---TA--C----------A-----CTTTCAG-A-G
gi|10 : CTTGTCTC-ATGA-TCCCCT----GC-----TC---TT--C----------A-----ACCGTAG-A-GC-AGGGA-ATC--AT-GGGACagccttgtagcgcagcgcaaaggattaagtgacatga
gi|11 : GCCTTGTCCT-ATGA-TCCTCT----GC-----TC---TA-------------A--------GTAG-A-AC-AGGGG-ATC--AT-GGGAC
gi|13 : TTGTTC--ATGA-TCCCCT----GC-----TC---TA--G----------A---------TAG-A-AC-AAGAATATC--AT-GGGACA
gi|14 : CTTGTCCC-ATGA-TCCCTT----GC-----TC---TA--CGATTAGGT--A-----ATCGTAG-A-GC-A
gi|15 : CTTGTCCC-ATGA-TCC--------------TC---TA--C-------------------GTAG-A-GC-AGGGG-ATC--AT-GGGACAa
gi|16 : CTTGTCCC-ATGA-TCT--------------TC---TA--C-------------------GTGG-A-GC-AGGGG-ATC--AT-GG
gi|17 : GTCCCGATGA-TCCCCTT---GC-----TC---TA--C----------G-----AT--TA-------AGGG---TC--AT-
gi|17 : a----------A-----ATCGTAG-A-GCAAGGGG-ATC--ATCGGGAC
gi|18 : acatgacccttGTCTTGTCCC-ATGA-TCCCCT----GC-----TC---TA--C----------G-----ATTG
gi|2 : TCTTGCCCA-ATGA-TTCTTT----GCGTTGCTC---TA--C----------A-----AT----G-ACGC-AAGGA-ATC--AT-GGGACAg
gi|3 : GTCTTGTCCC-ATGA-TCCCTT----GC-----TC---TG--CAATTAGGCCTA-----ATCGTAG-A-GC-AAGGG-ATC--AT-GGGACAtgaaggtgatgc
gi|4 : GTCTTGTCCC-ATGA-TCCTTTGC--GC-----TCCGATA--C----------A-----A--GTGT-A-GC-AAAGG-ATC--AT-GGGACA
gi|5 : ctCTTGTCCC-ATGA-TCCCTTAATTGC-----TC---TA-------------------ATCGTAG-A-GC-AAGGG-ATCATAT-GGGACA
gi|6 : TTGTCCC-AAGA-CCCCCT----GC-----TC---TA--C----------ACCATCACCGTAGAA-GC-A-GGG-ATC--AT-GGGACAa
gi|7 : CTTGTCC--ATGAGTCCCCT----GC-----TC---TA--C----------A-----ATCGTAG-A-AT-AGGGG-ATC--AT-GGGACA
gi|8 : TTGTCCT-ATGA-TCCCTT----GC-----TC---TAACT----------A-----TTCGTAG-A-GC-AAGGG-ATC--AT-AGGACAa
gi|9 : TCTTGTCCC-ATGA-TCCTCT----GC-----TC---CC--A----------A-----ATCGTAG-A-GC-AGGGG-ATC--AT-GGGAC
1 sequences could not be aligned to this reference sequence:
Unaligned ( gi|12 ): CGTTGCATGACCCTTGTAGCGGAGCCCAAAGGATCATGGGACAAAACTA