Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 141 of 444
Found at i:37687131 original size:15 final size:15
Alignment explanation
Indices: 37687054--37687131 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
37687044 AGAAAACCGA
37687054 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
37687069 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
37687083 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
37687098 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
37687114 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
37687129 ATA
1 ATA
37687132 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:37690157 original size:93 final size:93
Alignment explanation
Indices: 37690045--37690215 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
37690035 GCCCATAAGT
* *
37690045 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
37690110 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
37690138 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
37690203 CGAGTTCGGATGC
66 CGAGTTCGGATGC
37690216 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:37690212 original size:46 final size:46
Alignment explanation
Indices: 37690037--37690212 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
37690027 TGTAACCCGC
* * *
37690037 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
37690083 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
37690133 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
37690176 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
37690213 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:37691793 original size:40 final size:40
Alignment explanation
Indices: 37691748--37691914 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
37691738 CGGAATATAA
37691748 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
37691788 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * *
37691828 CCGGATATAGCCATTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
37691868 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
37691907 CCGGATAT
1 CCGGATAT
37691915 CATTCAATTC
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:37691898 original size:80 final size:79
Alignment explanation
Indices: 37691764--37691914 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
37691754 ATAATCACGT
*
37691764 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
37691829 CGGATATAGCCATTA
65 CGGATATAGCCATTA
* * ** * *
37691844 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
37691907 CCGGATAT
64 CCGGATAT
37691915 CATTCAATTC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCATTA
Found at i:37694200 original size:30 final size:30
Alignment explanation
Indices: 37694164--37694225 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
37694154 AGCATGAGAT
37694164 TGAATGATGTATGGAAAGAAATGCTTGATA
1 TGAATGATGTATGGAAAGAAATGCTTGATA
* *
37694194 TGAATGATGTTTGGAAAGAAATGTTTGATA
1 TGAATGATGTATGGAAAGAAATGCTTGATA
37694224 TG
1 TG
37694226 CTTTTGACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.02, G:0.27, T:0.34
Consensus pattern (30 bp):
TGAATGATGTATGGAAAGAAATGCTTGATA
Found at i:37696010 original size:40 final size:40
Alignment explanation
Indices: 37695973--37696158 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
37695963 GCTACTCGTT
*
37695973 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
37696013 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
37696053 CAAATGCCTTCGGGACTTAACCCGGATTTAGAAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
37696093 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
37696134 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37696159 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:37699171 original size:28 final size:27
Alignment explanation
Indices: 37699108--37699176 Score: 120
Period size: 27 Copynumber: 2.5 Consensus size: 27
37699098 TAGTGAGTCT
37699108 GCACACTTAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTATATAATCAACTC
*
37699135 GCACGCTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATATAATC-AACTC
37699163 GCACACTTAGTGCT
1 GCACACTTAGTGCT
37699177 GTACAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
GCACACTTAGTGCTATATAATCAACTC
Found at i:37699359 original size:20 final size:20
Alignment explanation
Indices: 37699334--37699376 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
37699324 ATAAATTTAT
37699334 CATTCCTTTCGGCATAATTA
1 CATTCCTTTCGGCATAATTA
37699354 CATTCCTTTCGGCATAATTA
1 CATTCCTTTCGGCATAATTA
37699374 CAT
1 CAT
37699377 AGACATTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (20 bp):
CATTCCTTTCGGCATAATTA
Found at i:37704109 original size:40 final size:40
Alignment explanation
Indices: 37704064--37704250 Score: 270
Period size: 40 Copynumber: 4.7 Consensus size: 40
37704054 ATAACCACAA
* *
37704064 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
37704104 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
37704144 GCACAAAAGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
37704184 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* *
37704224 GCATAAATGCCTTCGGG-CTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
37704251 TATCATTCAA
Statistics
Matches: 134, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 9 0.07
40 123 0.92
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:37704149 original size:80 final size:79
Alignment explanation
Indices: 37704044--37704250 Score: 301
Period size: 80 Copynumber: 2.6 Consensus size: 79
37704034 TCTTCGGAAT
* * *
37704044 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
37704108 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* *
37704123 TTAGCCCGGATATAACAACTCGCACAAAAGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
37704188 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * *
37704203 TTAACCCGGATATAATCACTAGCATAAATGCCTTCGGG-CTTAGCCCGG
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGG
37704251 TATCATTCAA
Statistics
Matches: 115, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
79 14 0.12
80 100 0.87
81 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:37711289 original size:40 final size:39
Alignment explanation
Indices: 37711178--37711328 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
37711168 TTAATCACGT
* * *
37711178 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
37711218 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
37711258 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
37711298 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
37711329 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:37711312 original size:80 final size:79
Alignment explanation
Indices: 37711178--37711328 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
37711168 TTAATCACGT
*
37711178 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
37711243 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
37711258 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
37711321 CCGGATAT
64 CCGGATAT
37711329 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:37712256 original size:29 final size:29
Alignment explanation
Indices: 37712224--37712281 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
37712214 TCATGATAAA
37712224 ACAAAGAGAAAACTCAAAATCTTACTCAT
1 ACAAAGAGAAAACTCAAAATCTTACTCAT
37712253 ACAAAGAGAAAACTCAAAATCTTACTCAT
1 ACAAAGAGAAAACTCAAAATCTTACTCAT
37712282 GAATAAAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.21
Consensus pattern (29 bp):
ACAAAGAGAAAACTCAAAATCTTACTCAT
Found at i:37713209 original size:28 final size:27
Alignment explanation
Indices: 37713146--37713215 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
37713136 ATAGTGAGTC
37713146 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
37713173 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
37713201 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37713216 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:37718862 original size:40 final size:40
Alignment explanation
Indices: 37718717--37718862 Score: 197
Period size: 40 Copynumber: 3.6 Consensus size: 40
37718707 GCTACTCATT
* *
37718717 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
37718757 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
37718797 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
37718838 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37718863 CATCATTCGA
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 3 0.03
40 79 0.85
41 11 0.12
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:37732744 original size:24 final size:24
Alignment explanation
Indices: 37732709--37732884 Score: 217
Period size: 24 Copynumber: 7.0 Consensus size: 24
37732699 ACTTAGCACC
37732709 ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
*
37732733 ATACCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
*
37732757 ATGCCATGGACTTATTTCATTTAG
1 ATGCCATGGACTTATTTCACTTAG
*
37732781 CACATTGCCATGGGCTTATTTCACTTAG
1 ---A-TGCCATGGACTTATTTCACTTAG
*
37732809 ATGCCATGGTCTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
* *
37732833 CATATTGTCATAGACTTATTTCACTTAG
1 ---A-TGCCATGGACTTATTTCACTTAG
*
37732861 ATGCCATGGTCTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
37732885 CACAATTTCA
Statistics
Matches: 132, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
24 87 0.66
25 2 0.02
27 2 0.02
28 41 0.31
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.40
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTAG
Found at i:37732783 original size:76 final size:77
Alignment explanation
Indices: 37732697--37732884 Score: 242
Period size: 76 Copynumber: 2.5 Consensus size: 77
37732687 GGGAAATTTC
37732697 TCACTTAGCACCATGCCATGGACTTATTTCACTTAGATACCATGGACTTATTTCACTTAG-A-TG
1 TCACTTAGCA-CATGCCATGGACTTATTTCACTTAGATACCATGGACTTATTTCACTTAGAATTG
*
37732760 CCATGGACTTATT
65 CCATAGACTTATT
* * * *
37732773 TCATTTAGCACATTGCCATGGGCTTATTTCACTTAGATGCCATGGTCTTATTTCACTTAGCATAT
1 TCACTTAGCACA-TGCCATGGACTTATTTCACTTAGATACCATGGACTTATTTCACTTAG-A-AT
*
37732838 TGTCATAGACTTATT
63 TGCCATAGACTTATT
*
37732853 TCACTTAG---ATGCCATGGTCTTATTTCACTTAG
1 TCACTTAGCACATGCCATGGACTTATTTCACTTAG
37732885 CACAATTTCA
Statistics
Matches: 99, Mismatches: 8, Indels: 10
0.85 0.07 0.09
Matches are distributed among these distances:
75 2 0.02
76 75 0.76
77 1 0.01
79 1 0.01
80 20 0.20
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (77 bp):
TCACTTAGCACATGCCATGGACTTATTTCACTTAGATACCATGGACTTATTTCACTTAGAATTGC
CATAGACTTATT
Found at i:37732896 original size:52 final size:51
Alignment explanation
Indices: 37732709--37732886 Score: 245
Period size: 52 Copynumber: 3.5 Consensus size: 51
37732699 ACTTAGCACC
* *
37732709 ATGCCATGGACTTATTTCACTTAG--A-TACCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAGCAATTGCCATAGACTTATTTCACTTAG
* * *
37732757 ATGCCATGGACTTATTTCATTTAGCACATTGCCATGGGCTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAGCA-ATTGCCATAGACTTATTTCACTTAG
* *
37732809 ATGCCATGGTCTTATTTCACTTAGCATATTGTCATAGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAGCA-ATTGCCATAGACTTATTTCACTTAG
*
37732861 ATGCCATGGTCTTATTTCACTTAGCA
1 ATGCCATGGACTTATTTCACTTAGCA
37732887 CAATTTCATA
Statistics
Matches: 117, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
48 23 0.20
51 1 0.01
52 93 0.79
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (51 bp):
ATGCCATGGACTTATTTCACTTAGCAATTGCCATAGACTTATTTCACTTAG
Found at i:37748634 original size:33 final size:33
Alignment explanation
Indices: 37748592--37748658 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
37748582 AAACACACAC
37748592 AAAGTAAGATTTCAAAAGCTTAATAAGCCATAT
1 AAAGTAAGATTTCAAAAGCTTAATAAGCCATAT
37748625 AAAGTAAGATTTCAAAAGCTTAATAAGCCATAT
1 AAAGTAAGATTTCAAAAGCTTAATAAGCCATAT
37748658 A
1 A
37748659 CAAATAAGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (33 bp):
AAAGTAAGATTTCAAAAGCTTAATAAGCCATAT
Found at i:37749059 original size:43 final size:43
Alignment explanation
Indices: 37748981--37749151 Score: 156
Period size: 43 Copynumber: 4.0 Consensus size: 43
37748971 AGCTCGTACA
* * *** *
37748981 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATTG
1 ATGCCAACATCCCAGACAGGGTCTTACACAAAATCAAATATCG
37749024 ATGCC-ACTATCCCAGACAGGGTCTTACACAAAATCAAATA-CG
1 ATGCCAAC-ATCCCAGACAGGGTCTTACACAAAATCAAATATCG
* *
37749066 ATGCCAACGT-CCAGAC-GTGGTCTTACACATAAATCATAA-GTCG
1 ATGCCAACATCCCAGACAG-GGTCTTACACA-AAATCA-AATATCG
* * *
37749109 ATGCCAACATCCTAGACATGGTCTTACACGAAAA-CACATATCG
1 ATGCCAACATCCCAGACAGGGTCTTACAC-AAAATCAAATATCG
37749152 GATCCTATTT
Statistics
Matches: 105, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
40 1 0.01
41 17 0.16
42 16 0.15
43 52 0.50
44 18 0.17
45 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (43 bp):
ATGCCAACATCCCAGACAGGGTCTTACACAAAATCAAATATCG
Found at i:37749126 original size:85 final size:86
Alignment explanation
Indices: 37748981--37749142 Score: 206
Period size: 85 Copynumber: 1.9 Consensus size: 86
37748971 AGCTCGTACA
** *
37748981 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATTGATGCCACTATCCCAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACATAATCAAATATCGATGCCACTATCCCAGACAGGGT
37749046 CTTACAC-AAAATCAAATACG
66 CTTACACGAAAATCAAATACG
* * * *
37749066 ATGCCAACGT-CCAGACGTGGTCTTACACATAAATCATAA-GTCGATGCCAAC-ATCCTAGACAT
1 ATGCCAACGTCCCAGACATGGTCTTACACAT-AATCA-AATATCGATGCC-ACTATCCCAGACAG
37749128 GGTCTTACACGAAAA
63 GGTCTTACACGAAAA
37749143 CACATATCGG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
84 17 0.26
85 41 0.62
86 8 0.12
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (86 bp):
ATGCCAACGTCCCAGACATGGTCTTACACATAATCAAATATCGATGCCACTATCCCAGACAGGGT
CTTACACGAAAATCAAATACG
Found at i:37750661 original size:41 final size:41
Alignment explanation
Indices: 37750558--37750678 Score: 152
Period size: 42 Copynumber: 2.9 Consensus size: 41
37750548 CACTATACCA
* * * *
37750558 ATGCCATATCCCATATATGGTCTTACATGGGATCTCATATCG
1 ATGCAATATCCCAGATATGGTCTTACA-CGAATCTCATATCG
* * *
37750600 ATGCCAATAGCCTAGCTATGGTCTTACACGAATCTCATATCG
1 ATG-CAATATCCCAGATATGGTCTTACACGAATCTCATATCG
37750642 ATGCAATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCAATATCCCAGATATGGTCTTACACG-AATCTCA
37750679 AATAACCCTA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
41 23 0.34
42 25 0.37
43 19 0.28
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (41 bp):
ATGCAATATCCCAGATATGGTCTTACACGAATCTCATATCG
Found at i:37758195 original size:43 final size:42
Alignment explanation
Indices: 37758120--37758229 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 42
37758110 ATACCAATGT
* * *
37758120 CATATCCCAGATATGGTCTTACATGGGATCTCATATCGATGC
1 CATAGCCCAGATATGGTCTTACACGAGATCTCATATCGATGC
*
37758162 CAATAGCCCAGCTATGGTCTTACACGA-AGTCTCATATCGATGC
1 C-ATAGCCCAGATATGGTCTTACACGAGA-TCTCATATCGATGC
* * *
37758205 CATATCCCAAATATTGTCTTACACG
1 CATAGCCCAGATATGGTCTTACACG
37758230 TAATCTTAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 22 0.38
43 36 0.62
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
CATAGCCCAGATATGGTCTTACACGAGATCTCATATCGATGC
Found at i:37759082 original size:20 final size:21
Alignment explanation
Indices: 37759040--37759082 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
37759030 AATTTTGGCT
* *
37759040 TTATTTTCCCTTTTTATTCAA
1 TTATTTTCCCTTTTTACTAAA
37759061 TTATTTT-CCTTTTTACTAAA
1 TTATTTTCCCTTTTTACTAAA
37759081 TT
1 TT
37759083 GAGTGCCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.21, C:0.16, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATTTTCCCTTTTTACTAAA
Found at i:37761034 original size:18 final size:18
Alignment explanation
Indices: 37760994--37761046 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
37760984 TTGGCCCATT
* *
37760994 ACAGTAACATTAAACAGT
1 ACAGTAACAGTAAACAGC
* *
37761012 GCAGTAACAGTAAATAGC
1 ACAGTAACAGTAAACAGC
*
37761030 ACAGTAATAGTAAACAG
1 ACAGTAACAGTAAACAG
37761047 TATGCAAGTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (18 bp):
ACAGTAACAGTAAACAGC
Found at i:37761420 original size:27 final size:27
Alignment explanation
Indices: 37761369--37761530 Score: 198
Period size: 27 Copynumber: 6.0 Consensus size: 27
37761359 ACAAAGGGGT
* * * *
37761369 AAAATAGTCATCTTACCATAAAAGGGT
1 AAAATAGTCATTTTACCACATAAGGGC
* *
37761396 AAAATAATCATTTTATCACATAAGGGC
1 AAAATAGTCATTTTACCACATAAGGGC
* *
37761423 AAAACAGTCATTTTACCACATACGGGC
1 AAAATAGTCATTTTACCACATAAGGGC
* * *
37761450 AAAACAGCCATTTTACCTCATAAGGGC
1 AAAATAGTCATTTTACCACATAAGGGC
* *
37761477 AAAATAGTCATTTTACCTCATAAGGGT
1 AAAATAGTCATTTTACCACATAAGGGC
*
37761504 AAAATAGTCATTTCACCACATAAGGGC
1 AAAATAGTCATTTTACCACATAAGGGC
37761531 TGTAGAAGGC
Statistics
Matches: 116, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (27 bp):
AAAATAGTCATTTTACCACATAAGGGC
Found at i:37762722 original size:3 final size:3
Alignment explanation
Indices: 37762526--37762710 Score: 135
Period size: 3 Copynumber: 60.7 Consensus size: 3
37762516 TAATTTAATC
* * *
37762526 TAT TAT TAT TATT TAT TA- TAG TAC TAT TAT TAT CT-T CTAT TAT CAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT -TAT TAT TAT
* * ** **
37762572 TAC TAT TAT TAT TCT TGC TAT TATT TAT TAT CGT TAT TAT TAT TCA-
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT
* * *
37762618 TAT TAT TAT TAT TAT GTTT TAC CATT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * *
37762665 TAT TAT TAT TAT TAT TAT TAC TAC TAT TAC TA- TAT TGT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
37762711 CTATCTTATT
Statistics
Matches: 146, Mismatches: 26, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
2 5 0.03
3 129 0.88
4 12 0.08
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:37762737 original size:17 final size:17
Alignment explanation
Indices: 37762690--37762737 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
37762680 TATTACTACT
* * *
37762690 ATTACTATATTGTTATT
1 ATTACTATACTATTATC
37762707 ATTACTAT-CTTATTATC
1 ATTACTATAC-TATTATC
37762724 ATTACTATACTATT
1 ATTACTATACTATT
37762738 TTTATCGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 25 0.96
18 1 0.04
ACGTcount: A:0.31, C:0.12, G:0.02, T:0.54
Consensus pattern (17 bp):
ATTACTATACTATTATC
Found at i:37762750 original size:21 final size:22
Alignment explanation
Indices: 37762709--37762750 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
37762699 TTGTTATTAT
37762709 TACTATCTTATTATCATTACTA
1 TACTATCTTATTATCATTACTA
37762731 TACTAT-TT-TTATCGATTACT
1 TACTATCTTATTATC-ATTACT
37762751 CTTCAAATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 8 0.42
22 6 0.32
ACGTcount: A:0.29, C:0.17, G:0.02, T:0.52
Consensus pattern (22 bp):
TACTATCTTATTATCATTACTA
Found at i:37767535 original size:12 final size:12
Alignment explanation
Indices: 37767518--37767542 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37767508 AAATGTTGGG
37767518 TTATGCTTGTGA
1 TTATGCTTGTGA
37767530 TTATGCTTGTGA
1 TTATGCTTGTGA
37767542 T
1 T
37767543 GTTGGGTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.24, T:0.52
Consensus pattern (12 bp):
TTATGCTTGTGA
Found at i:37768734 original size:48 final size:48
Alignment explanation
Indices: 37768676--37769017 Score: 506
Period size: 48 Copynumber: 7.0 Consensus size: 48
37768666 TTGATGCATA
37768676 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
37768724 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATG
* * *
37768776 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATG
37768828 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
37768876 AGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATGTATG
* *
37768924 AGATATGTATATGTGGTAAAGCCGAATGGCCAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
37768972 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
37769018 GGCGATGTGT
Statistics
Matches: 273, Mismatches: 15, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
47 1 0.00
48 176 0.64
49 1 0.00
50 2 0.01
51 1 0.00
52 92 0.34
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:37769272 original size:37 final size:37
Alignment explanation
Indices: 37769164--37769272 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
37769154 GGAAATATAT
*
37769164 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
37769201 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
37769238 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
37769273 CATCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:37772015 original size:49 final size:49
Alignment explanation
Indices: 37771844--37772291 Score: 719
Period size: 49 Copynumber: 9.3 Consensus size: 49
37771834 CCCTTCGGGA
* * * * *
37771844 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
37771891 CCTATCAC--ATATATACACTTTCACATTCATTACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37771938 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37771985 TTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37772034 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37772083 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37772132 CTTGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37772181 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37772230 CTTATCACATATATATACACTTTCACATTCAGCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37772279 CTTATCACATATA
1 CTTATCACATATA
37772292 CTATCATGTA
Statistics
Matches: 377, Mismatches: 20, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
46 1 0.00
47 89 0.24
49 287 0.76
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37776365 original size:40 final size:40
Alignment explanation
Indices: 37776321--37776591 Score: 364
Period size: 40 Copynumber: 6.8 Consensus size: 40
37776311 CCAGCATGAT
* * * * *
37776321 TGCTCTTCGGGACCTAGCCTGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
37776361 TGCTCTT-GGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
37776400 TGCTCTTCGGAACTTAGTCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
37776440 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
37776480 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
37776520 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
37776560 TGCACTTCGGGACTTAGCTCAGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
37776592 CTCAATTCTC
Statistics
Matches: 202, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
39 32 0.16
40 170 0.84
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:37778072 original size:25 final size:25
Alignment explanation
Indices: 37778044--37778122 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
37778034 ACTCGGCCCT
37778044 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
37778069 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
37778091 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
37778116 ATCACAT
1 ATCACAT
37778123 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:37778168 original size:49 final size:49
Alignment explanation
Indices: 37777995--37778434 Score: 692
Period size: 49 Copynumber: 9.3 Consensus size: 49
37777985 ATGTTCGGGA
* * * * *
37777995 CTTATCACAT-T-TATACAC-TTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37778041 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37778088 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37778135 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37778184 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37778233 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37778280 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37778329 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37778378 CTTATCAC--ATATATACACTTT--CATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37778423 C-TATCACATATA
1 CTTATCACATATA
37778435 CTATCATGTA
Statistics
Matches: 376, Mismatches: 9, Indels: 18
0.93 0.02 0.04
Matches are distributed among these distances:
44 6 0.02
45 25 0.07
46 17 0.05
47 137 0.36
49 191 0.51
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37778185 original size:96 final size:96
Alignment explanation
Indices: 37777995--37778434 Score: 689
Period size: 96 Copynumber: 4.6 Consensus size: 96
37777985 ATGTTCGGGA
* * * * * * *
37777995 CTTATCACATTTATACAC-TTCACATCCATCACGTTGGCCACTCGGCCCTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
37778057 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
37778088 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
37778153 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
37778184 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
37778247 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
37778280 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
37778345 ACACTTTCACATTCATCACATCGGCCATTCGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
37778378 CTTATCACATATATACACTTT--CATTCATCACATCGGCCATTAGGCC-TATCACATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
37778435 CTATCATGTA
Statistics
Matches: 328, Mismatches: 12, Indels: 14
0.93 0.03 0.04
Matches are distributed among these distances:
93 28 0.09
94 54 0.16
96 153 0.47
98 93 0.28
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37778274 original size:145 final size:145
Alignment explanation
Indices: 37777995--37778434 Score: 752
Period size: 145 Copynumber: 3.1 Consensus size: 145
37777985 ATGTTCGGGA
* * * * *
37777995 CTTATCACAT-T-TATACAC-TTCACATCCATCACGTTGGCCACTCGGCCCTATCAC--ATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAT
*
37778055 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
37778120 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
*
37778135 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAT
*
37778200 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
37778265 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
37778280 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAT
37778345 ACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTT--CATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
37778408 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
37778423 C-TATCACATATA
1 CTTATCACATATA
37778435 CTATCATGTA
Statistics
Matches: 285, Mismatches: 10, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
140 10 0.04
141 1 0.00
142 18 0.06
143 55 0.19
145 201 0.71
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (145 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAT
ACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
CATCGGCCATTAGGC
Found at i:37784075 original size:39 final size:40
Alignment explanation
Indices: 37784032--37784309 Score: 323
Period size: 39 Copynumber: 6.8 Consensus size: 40
37784022 CCAGCATGAT
* * * *
37784032 TGCTCTTCGGGACCTAG-CCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* ** * *
37784071 TGCTCTTGGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
37784111 TGCTTCCTTCACGGAACTTCAGACTTAGCCGGATACATCACTAGCACGAA
1 TGC-T-CTT--CGGGACTT-AG-C----CCGGATACATCACTAGCACGAA
37784161 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
37784200 TGCTCTTC-GGACTTAGCCCGGAT--ATCAACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATC-ACTAGCACGAA
*
37784238 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
37784278 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
37784310 CTCAATTCTC
Statistics
Matches: 208, Mismatches: 16, Indels: 29
0.82 0.06 0.11
Matches are distributed among these distances:
37 3 0.01
38 19 0.09
39 72 0.35
40 64 0.31
41 4 0.02
42 3 0.01
43 1 0.00
44 6 0.03
45 7 0.03
46 2 0.01
48 3 0.01
49 1 0.00
50 23 0.11
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:37785835 original size:47 final size:47
Alignment explanation
Indices: 37785714--37786097 Score: 567
Period size: 47 Copynumber: 8.3 Consensus size: 47
37785704 CCTTTCGGGA
* * * * *
37785714 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCAGGCTC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGG--C
*
37785764 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37785811 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37785858 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37785905 CTTATCACATATATACACTTTCACATTCATCACAT-GGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37785951 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37785998 CTTATCACATATATATACAC-TTCACATTCATC-CAT-----A-T-GGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37786038 CTTATCACATATATATACACTTTCACATTCATCACATCGG--ATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37786085 CTTATCACATATA
1 CTTATCACATATA
37786098 CTATCATGTA
Statistics
Matches: 317, Mismatches: 7, Indels: 25
0.91 0.02 0.07
Matches are distributed among these distances:
40 23 0.07
41 13 0.04
42 4 0.01
45 6 0.02
46 47 0.15
47 162 0.51
48 12 0.04
49 14 0.04
50 36 0.11
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37785975 original size:140 final size:140
Alignment explanation
Indices: 37785714--37786097 Score: 565
Period size: 140 Copynumber: 2.8 Consensus size: 140
37785704 CCTTTCGGGA
* * * * *
37785714 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCAGGCTCCCTATCACATATATA
1 CTTATCACATATATACACTTTCACATTCATCAC-ATGGCCA-TTAGG--CCTTATCACATATATA
37785779 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
62 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
37785844 ATCGGCCATTAGGC
127 ATCGGCCATTAGGC
37785858 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACAT-GGCCATTAGGCCTTATCACATATATACAC
37785923 TTTCACATTCATCACAT-GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
65 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
37785987 GGCCATTAGGC
130 GGCCATTAGGC
37785998 CTTATCACATATATATACAC-TTCACATTCATC-CAT----A-T-GGCCTTATCACATATATATA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATGGCCATTAGGCCTTATCAC--ATATATA
37786055 CACTTTCACATTCATCACATCGG--ATTAGGCCTTATCACATATA
62 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
37786098 CTATCATGTA
Statistics
Matches: 229, Mismatches: 5, Indels: 22
0.89 0.02 0.09
Matches are distributed among these distances:
133 11 0.05
134 21 0.09
135 28 0.12
136 2 0.01
140 69 0.30
141 47 0.21
142 10 0.04
143 5 0.02
144 36 0.16
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (140 bp):
CTTATCACATATATACACTTTCACATTCATCACATGGCCATTAGGCCTTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGC
Found at i:37787294 original size:25 final size:25
Alignment explanation
Indices: 37787266--37787344 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
37787256 ACTCGGCCCT
37787266 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
37787291 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
37787313 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
37787338 ATCACAT
1 ATCACAT
37787345 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:37787390 original size:49 final size:49
Alignment explanation
Indices: 37787216--37787658 Score: 710
Period size: 49 Copynumber: 9.3 Consensus size: 49
37787206 CCCTTCGGGA
* * * * *
37787216 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37787263 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37787310 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37787357 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37787406 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37787455 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37787504 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37787553 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37787602 CTTATCACATATATA-ACACTTTCACATTCA-CACATCGGCCATTA--C
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37787647 CTTATCA-ATATA
1 CTTATCACATATA
37787659 CTATCATGTA
Statistics
Matches: 379, Mismatches: 13, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
44 5 0.01
45 8 0.02
46 1 0.00
47 105 0.28
48 15 0.04
49 245 0.65
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37791806 original size:40 final size:40
Alignment explanation
Indices: 37791688--37791955 Score: 355
Period size: 39 Copynumber: 6.8 Consensus size: 40
37791678 CCAGCATGAT
* * * *
37791688 TGCTCTTCGGGACCTAG-CCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
37791727 TGCTCTT-GGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
37791766 TGCTCTTCGGAACTTAGTCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
37791806 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
37791845 TGCTCTTCGGGACTTAGCCCGGATATA-CACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
37791884 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
37791924 TGCACTTCGGGACTTAGCTCAGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
37791956 CTCAATTCTC
Statistics
Matches: 200, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
38 6 0.03
39 104 0.52
40 90 0.45
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:37791822 original size:79 final size:78
Alignment explanation
Indices: 37791688--37791954 Score: 356
Period size: 79 Copynumber: 3.4 Consensus size: 78
37791678 CCAGCATGAT
* * * * * ** * *
37791688 TGCTCTTCGGGACCTAGCCGGATATAACACCAGCACGAATGCTCTTGGGGTTTAGCACGGATATA
1 TGCTCTTCGGGACTTAGCCAGATACATCACCAGCACGAATGCTCTTCGGACTTAGCCCGGATACA
37791753 TCACTAGCACGAA
66 TCACTAGCACGAA
* *
37791766 TGCTCTTCGGAACTTAGTCCAGATACATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATAC
1 TGCTCTTCGGGACTTAG-CCAGATACATCACCAGCACGAATGCTCTTCGGACTTAGCCCGGATAC
*
37791831 ATCACTAGCATGAA
65 ATCACTAGCACGAA
* *
37791845 TGCTCTTCGGGACTTAGCCCGGATATA-CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAG-CCAGATACATCACCAGCACGAATGCTCTTC-GGACTTAGCCCGGATA
37791909 CATCACTAGCACGAA
64 CATCACTAGCACGAA
*
37791924 TGCACTTCGGGACTTAGCTCAGATACATCAC
1 TGCTCTTCGGGACTTAGC-CAGATACATCAC
37791955 TCTCAATTCT
Statistics
Matches: 164, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
78 35 0.21
79 126 0.77
80 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (78 bp):
TGCTCTTCGGGACTTAGCCAGATACATCACCAGCACGAATGCTCTTCGGACTTAGCCCGGATACA
TCACTAGCACGAA
Found at i:37791899 original size:118 final size:119
Alignment explanation
Indices: 37791688--37791955 Score: 371
Period size: 118 Copynumber: 2.3 Consensus size: 119
37791678 CCAGCATGAT
* * * * **
37791688 TGCTCTTCGGGACCTAG-CCGGATATAACACCAGCACGAATGCTCTTGGGGTTTAGCACGGATAT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTGGGACTTAGCACGGATAT
* *
37791752 ATCACTAGCACGAATGCTCTTCGGAACTTAGTCCAGATACATCACTAGCACGAA
66 ATCACCAGCACGAATGCTCTTCGGAACTTAGCCCAGATACATCACTAGCACGAA
* *
37791806 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTT-GGGACTTAGCACGGATA
* *
37791870 TA-CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
65 TATCACCAGCACGAATGCTCTTCGGAACTTAGCCCAGATACATCACTAGCACGAA
* * *
37791924 TGCACTTCGGGACTTAGCTCAGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
37791956 CTCAATTCTC
Statistics
Matches: 132, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
117 7 0.05
118 88 0.67
119 37 0.28
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (119 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTGGGACTTAGCACGGATAT
ATCACCAGCACGAATGCTCTTCGGAACTTAGCCCAGATACATCACTAGCACGAA
Found at i:37793436 original size:25 final size:25
Alignment explanation
Indices: 37793408--37793486 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
37793398 ACTCGGCCCT
37793408 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
37793433 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
37793455 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
37793480 ATCACAT
1 ATCACAT
37793487 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:37793532 original size:49 final size:49
Alignment explanation
Indices: 37793358--37793805 Score: 746
Period size: 49 Copynumber: 9.3 Consensus size: 49
37793348 AAGTTCGGGA
* * * * * *
37793358 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGTCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
37793405 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
37793452 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
37793499 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
37793548 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
37793597 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
37793646 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
37793695 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
37793744 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
37793793 CTTATCACATATA
1 CTTATCACATATA
37793806 CTATCATGTA
Statistics
Matches: 386, Mismatches: 11, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
46 1 0.00
47 90 0.23
49 295 0.76
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:37804168 original size:17 final size:17
Alignment explanation
Indices: 37804146--37804181 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
37804136 ATCTATAATG
37804146 TTTTTGAGATAAATTCA
1 TTTTTGAGATAAATTCA
37804163 TTTTTGAGATAAATTCA
1 TTTTTGAGATAAATTCA
37804180 TT
1 TT
37804182 CTCCCAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (17 bp):
TTTTTGAGATAAATTCA
Found at i:37805263 original size:49 final size:49
Alignment explanation
Indices: 37805202--37805300 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 49
37805192 CAAGAAACAC
*
37805202 ATTTATCAAACATATCCCATCCAAAAAGTGACCAACATTTCTGAAAGAA
1 ATTTATCAAACATATCCCATCCAAAAAGTGACAAACATTTCTGAAAGAA
* * *
37805251 ATTTATCAAACATATCCCTTCCCAAAATTGACAAACATTTCTGAAAGAA
1 ATTTATCAAACATATCCCATCCAAAAAGTGACAAACATTTCTGAAAGAA
37805300 A
1 A
37805301 GTCAGATACA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.26
Consensus pattern (49 bp):
ATTTATCAAACATATCCCATCCAAAAAGTGACAAACATTTCTGAAAGAA
Found at i:37807965 original size:18 final size:20
Alignment explanation
Indices: 37807920--37807956 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
37807910 AGAAGAATTA
*
37807920 TTATTCTAAGAAAATAAAAT
1 TTATACTAAGAAAATAAAAT
37807940 TTATACTAAG-AAATAAA
1 TTATACTAAGAAAATAAA
37807957 TTCTAACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (20 bp):
TTATACTAAGAAAATAAAAT
Found at i:37809448 original size:19 final size:19
Alignment explanation
Indices: 37809424--37809467 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
37809414 TAAAAGCAAC
37809424 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
37809443 ACAACATGATTCCAAATAA
1 ACAACATCAACCCAAATAA
37809462 ACAACA
1 ACAACA
37809468 AAAATAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:37813369 original size:29 final size:29
Alignment explanation
Indices: 37813336--37813418 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
37813326 GTGTCGAGAT
37813336 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
37813365 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
**
37813394 TGGCACTAAGTGTGCAAGCTGGAAA
1 TGGCACTAAGTGTGCGTGCTGGAAA
37813419 AAAAAAAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:37815570 original size:90 final size:91
Alignment explanation
Indices: 37815388--37815559 Score: 283
Period size: 90 Copynumber: 1.9 Consensus size: 91
37815378 TAGGTATAGC
* * *
37815388 AGCATAAATTAAACAAAAAAAAAGTATGTTAAACTACATTTTAAACTTTAAAGTTAGTTAATTGC
1 AGCATAAATTAAACAAAAAAAAAGTATGTTAAACTACAGTTTAAAATTTAAAGTTAGTTAATTGA
37815453 AGCCTAAATTAATATAATAGTACAAT
66 AGCCTAAATTAATATAATAGTACAAT
* * *
37815479 AGCATAAATTAAAC-AAAAAAAAGTCTGTTAAGCTACCGTTTAAAATTTAAAGTTAGTTAATTGA
1 AGCATAAATTAAACAAAAAAAAAGTATGTTAAACTACAGTTTAAAATTTAAAGTTAGTTAATTGA
37815543 AGCCTAAATTAATATAA
66 AGCCTAAATTAATATAA
37815560 ATATATAATA
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
90 61 0.81
91 14 0.19
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (91 bp):
AGCATAAATTAAACAAAAAAAAAGTATGTTAAACTACAGTTTAAAATTTAAAGTTAGTTAATTGA
AGCCTAAATTAATATAATAGTACAAT
Found at i:37815584 original size:90 final size:89
Alignment explanation
Indices: 37815391--37815584 Score: 248
Period size: 90 Copynumber: 2.1 Consensus size: 89
37815381 GTATAGCAGC
* * * *
37815391 ATAAATTAAACAAAAAAAAAGTATGTTAAACTACATTTTAAACTTTAAAGTTAGTTAATTGCAGC
1 ATAAAGTAAAC-AAAAAAAAGTATGTTAAACTACAGTTTAAAATTTAAAGTTAGTTAATTGAAGC
37815456 CTAAATTAATATAATAGTACAATAG
65 CTAAATTAATATAATAGTACAATAG
* * * *
37815481 CATAAATTAAACAAAAAAAAGTCTGTTAAGCTACCGTTTAAAATTTAAAGTTAGTTAATTGAAGC
1 -ATAAAGTAAACAAAAAAAAGTATGTTAAACTACAGTTTAAAATTTAAAGTTAGTTAATTGAAGC
*
37815546 CTAAATTAATATAAATA-TATAATAG
65 CTAAATTAATAT-AATAGTACAATAG
37815571 -TACAAGTACAACAA
1 ATA-AAGTA-AACAA
37815585 CATAAATTAA
Statistics
Matches: 92, Mismatches: 8, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
88 2 0.02
89 4 0.04
90 71 0.77
91 15 0.16
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.31
Consensus pattern (89 bp):
ATAAAGTAAACAAAAAAAAGTATGTTAAACTACAGTTTAAAATTTAAAGTTAGTTAATTGAAGCC
TAAATTAATATAATAGTACAATAG
Found at i:37815824 original size:17 final size:17
Alignment explanation
Indices: 37815802--37815834 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
37815792 TTTTCTCTAT
37815802 TAATATTACATTATTAC
1 TAATATTACATTATTAC
37815819 TAATATTACATTATTA
1 TAATATTACATTATTA
37815835 GTTTGGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TAATATTACATTATTAC
Found at i:37816505 original size:23 final size:21
Alignment explanation
Indices: 37816477--37816519 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
37816467 GGATTTGGGT
37816477 TTGGGCAAATAAGTCTTTGGGGC
1 TTGGGCAAATAAG-C-TTGGGGC
*
37816500 TTGGGCAGATAAGCTTGGGG
1 TTGGGCAAATAAGCTTGGGG
37816520 AAGGAGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.21, C:0.12, G:0.40, T:0.28
Consensus pattern (21 bp):
TTGGGCAAATAAGCTTGGGGC
Found at i:37820040 original size:3 final size:3
Alignment explanation
Indices: 37820032--37820082 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
37820022 TTACCCTCAT
*
37820032 ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
37820080 ATA
1 ATA
37820083 TTATTATTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:37820087 original size:3 final size:3
Alignment explanation
Indices: 37820081--37820140 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
37820071 ATAATAATAA
37820081 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
37820129 TAT TAT TAT TAT
1 TAT TAT TAT TAT
37820141 AGTTCATGAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:37832856 original size:11 final size:10
Alignment explanation
Indices: 37832833--37832888 Score: 53
Period size: 9 Copynumber: 5.5 Consensus size: 10
37832823 AAAAAAAATC
37832833 AAAAATTAA-
1 AAAAATTAAT
*
37832842 AAAAATCAAT
1 AAAAATTAAT
*
37832852 CAAAAAATCAA-
1 --AAAAATTAAT
37832863 AAAAATTAAT
1 AAAAATTAAT
37832873 AAAAAATTAAT
1 -AAAAATTAAT
37832884 AAAAA
1 AAAAA
37832889 GAGAAAAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 16 0.40
10 5 0.12
11 10 0.25
12 9 0.22
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAAATTAAT
Found at i:37832859 original size:21 final size:21
Alignment explanation
Indices: 37832829--37832888 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
37832819 TGAGAAAAAA
37832829 AATC-AAAAATTAAAAAAATC
1 AATCAAAAAATTAAAAAAATC
* *
37832849 AATCAAAAAATCAAAAAAATT
1 AATCAAAAAATTAAAAAAATC
37832870 AAT-AAAAAATTAATAAAAA
1 AATCAAAAAATTAA-AAAAA
37832889 GAGAAAAAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 13 0.37
21 22 0.63
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (21 bp):
AATCAAAAAATTAAAAAAATC
Found at i:37834299 original size:43 final size:43
Alignment explanation
Indices: 37834192--37834300 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 43
37834182 AAGCGACAAA
* * **
37834192 TCTTATCTTCCTGAGGTAGCAGGGGAGCAGGTTTCAGCTATTAG
1 TCTTATCTTCCTGAGGTAGCAAGAGAGCAGGTTGAAGC-ATTAG
* * *
37834236 CCTTATCTTCTTGAGGTAGCAAGAGAGTAGGTTGAAG-ATGTAG
1 TCTTATCTTCCTGAGGTAGCAAGAGAGCAGGTTGAAGCAT-TAG
*
37834279 TCTTATCTTCCTGAGATAGCAA
1 TCTTATCTTCCTGAGGTAGCAA
37834301 TAAAGCAGAC
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 2 0.04
43 22 0.41
44 30 0.56
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
TCTTATCTTCCTGAGGTAGCAAGAGAGCAGGTTGAAGCATTAG
Found at i:37834461 original size:44 final size:46
Alignment explanation
Indices: 37834413--37834692 Score: 108
Period size: 44 Copynumber: 6.3 Consensus size: 46
37834403 AGCCATCAGC
* ** *
37834413 CTTATCTCT-CTGAGGTAGCAA-GAGAGCAGGTTGAAGATTATAG-T
1 CTTATCTCTCCTAAGGTAGCAAGGA-AGCAGACTAAAGATTATAGAT
* *
37834457 CTTAT-TTTCCTAAGGTAGCAAGGAAGCAGACTAAAGATTGTAGAT
1 CTTATCTCTCCTAAGGTAGCAAGGAAGCAGACTAAAGATTATAGAT
* * * ***
37834502 CTTATCTC-CCTAA-GTAG-TAGTGGAGCAGA-TCGAAGA-TGGCGAAT
1 CTTATCTCTCCTAAGGTAGCAAG-GAAGCAGACT-AAAGATTATAG-AT
* * * * * * * ** ** *
37834546 CTTATCTTTTC-AATGTAGCAGGGGAGCATATTTTAG-CCACCAG-T
1 CTTATCTCTCCTAAGGTAGCAAGGAAGCAGACTAAAGATTA-TAGAT
* ** * *
37834590 CTTATCTCT-CTGAGGTAGCAA-GAGAGCAGGTTGAAGATTGTAG-T
1 CTTATCTCTCCTAAGGTAGCAAGGA-AGCAGACTAAAGATTATAGAT
* *
37834634 CTTATCT-TCCTGAGGTAGCAAGGAAGCAGACTGAAGATTATAGAT
1 CTTATCTCTCCTAAGGTAGCAAGGAAGCAGACTAAAGATTATAGAT
37834679 CTTATCTC-CCTAAG
1 CTTATCTCTCCTAAG
37834693 TAGTAGTGAA
Statistics
Matches: 176, Mismatches: 40, Indels: 39
0.69 0.16 0.15
Matches are distributed among these distances:
43 11 0.06
44 119 0.68
45 42 0.24
46 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (46 bp):
CTTATCTCTCCTAAGGTAGCAAGGAAGCAGACTAAAGATTATAGAT
Found at i:37834527 original size:177 final size:177
Alignment explanation
Indices: 37834153--37835589 Score: 1994
Period size: 177 Copynumber: 8.1 Consensus size: 177
37834143 TCAGACTTTG
* * * * *
37834153 TCTCCCTAAATAGTAGTGGAGCAAATCGAA-A-GCGACAAATCTTATCTTCCTGAGGTAGCAGGG
1 TCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATG-G-CGAATCTTATCTTCCCGAGGTAGCAAGG
* * * ** *
37834216 GAGCAGGTTTCAGCTATTAGCCTTATCT-TCTTGAGGTAGCAAGAGAGTAGGTTGAAGA-TGTAG
64 GAGCAGATTTTAGCCACCAGCCTTATCTCTC-TGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAG
* ** * *
37834279 TCTTATCTTCCTGAGATAGCAATAAAGCAGACTGAGGATTATAGATCTTA
128 TCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGATCTTA
* * * * *
37834329 TCTCCCTAAGCAGTAGTGGAGCAGATAGAATATGGCGAATCTTATCTTTCCAAGGTA-CTAAGGG
1 TCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGC-AAGGG
* * *
37834393 AGTAGATTTTAGCCATCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTATAGTC
65 AGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTC
* * *
37834458 TTATTTTCCTAAGGTAGCAAGGAAGCAGACTAAAGATTGTAGATCTTA
130 TTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGATCTTA
** * * *
37834506 TCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTTCAATGTAGCAGGGGA
1 TCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGCAAGGGA
* *
37834571 GCATATTTTAGCCACCAGTCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCT
66 GCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCT
*
37834636 TATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTATAGATCTTA
131 TATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGATCTTA
* * * * *
37834683 TCTCCCTAAGTAGTAGTGAAACAGATCGAAGATAGCGAATCTTATCTTCCCGAGGTAACAGGGGA
1 TCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGCAAGGGA
* *
37834748 GCAGATTTTAGCCACCAGCCTTATCTCTTTGAGGTAGCAAGAGAGTAGGTTGAAGATTGTAGTCT
66 GCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCT
*
37834813 TATCTTCCTGAGGTAGCAAGGAAGCAGACTGATGATTGTAGATCTTA
131 TATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGATCTTA
* * * *
37834860 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAAATGTCGAATCTTATCTTCCCGAGGTAGC-AGGGA
1 TCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGCAAGGG-
* *
37834924 AGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGGAAGAGAGCAGGTTGAAGATTGTAGTC
65 AGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTC
*
37834989 TTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAGATTGTAGATCTTA
130 TTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGATCTTA
37835037 TCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGC-AGTGG
1 TCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGCAAG-GG
*
37835101 AGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTC
65 AGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTC
*
37835166 TTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAGATTGTAGATCTTA
130 TTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGATCTTA
*
37835214 TCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGCAGGGGA
1 TCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGCAAGGGA
* * *
37835279 GCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAAATTGTAGTCA
66 GCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCT
*
37835344 TATCTTCCTGAGGTAGCAAAGAAGCAGACTG-AGAATTGTAGATCTTA
131 TATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAG-ATTGTAGATCTTA
* * * * * *
37835391 TCTTCCTAAGCAATAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCGAGGTAG-TAGGAG
1 TCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGCAAGG-G
* * * * * * *** *
37835455 AACAGATTTTAGTCACTAGCCTTATCTC-CTTGAGGTAGCAAGGGAGAAAGCCAAAGATTTTAGT
65 AGCAGATTTTAGCCACCAGCCTTATCTCTC-TGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGT
* * * * *
37835519 CTTATCTTCCTAAGGTAGCAGGGAAGCAGACAGAAGGTTGAAGATCTTA
129 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGATCTTA
* *
37835568 TCTCCCTGAGTTTGTAGTGGAG
1 TCTCCCTAAG-TAGTAGTGGAG
37835590 TAGACTGAAA
Statistics
Matches: 1138, Mismatches: 109, Indels: 26
0.89 0.09 0.02
Matches are distributed among these distances:
175 1 0.00
176 104 0.09
177 1018 0.89
178 15 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (177 bp):
TCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGCAAGGGA
GCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCT
TATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGATCTTA
Found at i:37834815 original size:44 final size:46
Alignment explanation
Indices: 37834767--37835397 Score: 217
Period size: 44 Copynumber: 14.3 Consensus size: 46
37834757 AGCCACCAGC
* * **
37834767 CTTATCTCT-TTGAGGTAGCAA-GAGAGTAGGTTGAAGATTGTAG-T
1 CTTATCTCTCCTGAGGTAGCAAGGA-AGCAGACTGAAGATTGTAGAT
*
37834811 CTTATCT-TCCTGAGGTAGCAAGGAAGCAGACTGATGATTGTAGAT
1 CTTATCTCTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGAT
* * * * * *
37834856 CTTATCTC-CCTAAGCAGTAG--TGG-AGCAGA-TCAAAAATGTCGAAT
1 CTTATCTCTCCTGAG--GTAGCAAGGAAGCAGACTGAAGATTGTAG-AT
* * * ** ***** *
37834900 CTTATCT-TCCCGAGGTAGCAGGGAAGCAGATTTTAGCCACCAG-C
1 CTTATCTCTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGAT
* * **
37834944 CTTATCTCT-CTAAGGTAGGAA-GAGAGCAGGTTGAAGATTGTAG-T
1 CTTATCTCTCCTGAGGTAGCAAGGA-AGCAGACTGAAGATTGTAGAT
*
37834988 CTTATCT-TCCTGAGGTAACAAGGAAGCAGACTGAAGATTGTAGAT
1 CTTATCTCTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGAT
* * * **
37835033 CTTATCTC-CCT-AAGTAG-TAGTGGAGCAGA-TCGAAGA-TGGCGAAT
1 CTTATCTCTCCTGAGGTAGCAAG-GAAGCAGACT-GAAGATTGTAG-AT
* * * ** ***** *
37835077 CTTATCT-TCCCGAGGTAGC-AGTGGAGCAGATTTTAGCCACCAG-C
1 CTTATCTCTCCTGAGGTAGCAAG-GAAGCAGACTGAAGATTGTAGAT
* **
37835121 CTTATCTCT-CTAAGGTAGCAA-GAGAGCAGGTTGAAGATTGTAG-T
1 CTTATCTCTCCTGAGGTAGCAAGGA-AGCAGACTGAAGATTGTAGAT
*
37835165 CTTATCT-TCCTGAGGTAACAAGGAAGCAGACTGAAGATTGTAGAT
1 CTTATCTCTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGAT
* * * **
37835210 CTTATCTC-CCT-AAGTAG-TAGTGGAGCAGA-TCGAAGA-TGGCGAAT
1 CTTATCTCTCCTGAGGTAGCAAG-GAAGCAGACT-GAAGATTGTAG-AT
* * * * ** ***** *
37835254 CTTATCT-TCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAG-C
1 CTTATCTCTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGAT
* ** *
37835298 CTTATCTCT-CTAAGGTAGCAA-GAGAGCAGGTTGAAAATTGTAG-T
1 CTTATCTCTCCTGAGGTAGCAAGGA-AGCAGACTGAAGATTGTAGAT
* *
37835342 CATATCT-TCCTGAGGTAGCAAAGAAGCAGACTG-AGAATTGTAGAT
1 CTTATCTCTCCTGAGGTAGCAAGGAAGCAGACTGAAG-ATTGTAGAT
37835387 CTTATCT-TCCT
1 CTTATCTCTCCT
37835398 AAGCAATAGT
Statistics
Matches: 427, Mismatches: 113, Indels: 93
0.67 0.18 0.15
Matches are distributed among these distances:
42 4 0.01
43 28 0.07
44 284 0.67
45 99 0.23
46 8 0.02
47 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (46 bp):
CTTATCTCTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGAT
Found at i:37838498 original size:129 final size:129
Alignment explanation
Indices: 37838242--37838479 Score: 300
Period size: 129 Copynumber: 1.9 Consensus size: 129
37838232 AAAAGTTCTC
* * *
37838242 AAAACAAAGCAATATTTCGTGTTTAGAAATTCGAGAAATCGTGCCCTAACGTACTGGGTTTCAAT
1 AAAACAAAGCAATATTTCGTGTTTAGAAATTCGAGAAATCATGCCCTAACGTACCGGGTTGCAAT
** * * * ** **
37838307 TTTTCGTTTGACCAAATGACCAAATACCCTTTTTTAAATTTCCGTCTATGATTTCTTCAATTAG
66 TTACCGTTTGACCAAATAACCAAATACCCTTTTTAAAATCTCAATCTATGATTTCTGAAATTAG
* * *
37838371 AAAACAAGGCAATATTTCGTGTTTA-AAAGTTCGAGAAATCATGCCCTAACGTGCCGGGTTGCGA
1 AAAACAAAGCAATATTTCGTGTTTAGAAA-TTCGAGAAATCATGCCCTAACGTACCGGGTTGCAA
* *
37838435 TTTACCGTTTGACCAAATAACCGAATA-TCTTTTTAAAATCTCAAT
65 TTTACCGTTTGACCAAATAACCAAATACCCTTTTTAAAATCTCAAT
37838480 GCATGAATTT
Statistics
Matches: 93, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
128 16 0.17
129 77 0.83
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (129 bp):
AAAACAAAGCAATATTTCGTGTTTAGAAATTCGAGAAATCATGCCCTAACGTACCGGGTTGCAAT
TTACCGTTTGACCAAATAACCAAATACCCTTTTTAAAATCTCAATCTATGATTTCTGAAATTAG
Found at i:37845287 original size:40 final size:40
Alignment explanation
Indices: 37845227--37845410 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
37845217 TATTCGAATG
*
37845227 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
37845267 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
37845307 ATTTCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
37845347 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
37845387 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
37845411 CTTGTGCGAG
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 120 0.97
41 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:37845367 original size:80 final size:80
Alignment explanation
Indices: 37845227--37845410 Score: 255
Period size: 80 Copynumber: 2.3 Consensus size: 80
37845217 TATTCGAATG
* * *
37845227 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGATCCGAAGGCA
* *
37845292 TTTGTGCGAGTTG-CT
66 TTTATGCGAG-TGACC
* * *
37845307 ATTTCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAG-TCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGAT-CCGAAGGC
*
37845371 ATTTATGCTAGTGACC
65 ATTTATGCGAGTGACC
37845387 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
37845411 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 3 0.03
80 89 0.97
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGATCCGAAGGCA
TTTATGCGAGTGACC
Found at i:37852378 original size:13 final size:13
Alignment explanation
Indices: 37852360--37852385 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37852350 CATAAGTATA
37852360 ATTTATGCTTATT
1 ATTTATGCTTATT
37852373 ATTTATGCTTATT
1 ATTTATGCTTATT
37852386 GCATGGTAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
ATTTATGCTTATT
Found at i:37852468 original size:2 final size:2
Alignment explanation
Indices: 37852461--37852488 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
37852451 CGGCTCTAGC
37852461 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37852489 GTTTGCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37853293 original size:40 final size:40
Alignment explanation
Indices: 37853204--37853415 Score: 228
Period size: 40 Copynumber: 5.3 Consensus size: 40
37853194 TGTCCGGGCC
* * * * *
37853204 AAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTC
1 AAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAACCGGGTT
* *
37853245 AATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTT
1 AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGTT
*
37853285 AAGTCCCGAAGGCATTTGTGCGAGTTA-TCAAAACCGGTTT
1 AAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAACCGGGTT
* * *
37853325 AAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGTT
* * * * * * *
37853365 AATTCCCGAAGGAAATTGTGCGAATCACTATAACCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGTT
*
37853405 ATGTCCCGAAG
1 AAGTCCCGAAG
37853416 ACAATCGAGC
Statistics
Matches: 145, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
40 125 0.86
41 20 0.14
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGTT
Found at i:37853436 original size:40 final size:41
Alignment explanation
Indices: 37853248--37853441 Score: 114
Period size: 40 Copynumber: 4.8 Consensus size: 41
37853238 CCGGGTCAAT
* * * * * * *
37853248 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAA-G
1 TCCCGAAGACAATCGTGCGAGTCACTATAACCGGGCTAATG
* * * * * **
37853288 TCCCGAAGGCATTTGTGCGAGTTA-TCAAAACCGGTTTAA-G
1 TCCCGAAGACAATCGTGCGAGTCACT-ATAACCGGGCTAATG
* * *
37853328 TCCCGAAGGCATTCGTGCGAGTTACTA-AATCCGGGCTAAT-
1 TCCCGAAGACAATCGTGCGAGTCACTATAA-CCGGGCTAATG
* *
37853368 TCCCGAAGGA-AATTGTGCGAATCACTATAACCGGGCT-ATG
1 TCCCGAA-GACAATCGTGCGAGTCACTATAACCGGGCTAATG
* * *
37853408 TCCCGAAGACAATCGAGCGAGTCGCTATATCCGG
1 TCCCGAAGACAATCGTGCGAGTCACTATAACCGG
37853442 TTAAATTCCG
Statistics
Matches: 131, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
39 6 0.05
40 121 0.92
41 4 0.03
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (41 bp):
TCCCGAAGACAATCGTGCGAGTCACTATAACCGGGCTAATG
Found at i:37856903 original size:40 final size:40
Alignment explanation
Indices: 37856843--37857026 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 40
37856833 TATTCGAATG
*
37856843 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
37856883 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
37856923 ATAT-CGAGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCG-GGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* *
37856963 ATATCTGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
37857003 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
37857027 CTTGTGCGAG
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 3 0.02
40 115 0.94
41 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:37856976 original size:80 final size:80
Alignment explanation
Indices: 37856843--37857026 Score: 239
Period size: 80 Copynumber: 2.3 Consensus size: 80
37856833 TATTCGAATG
* * *
37856843 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
37856907 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* * *
37856923 ATAT-CGAGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCTGGGCTAAGTCCCGAAGGC
1 ATATCCG-GGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGC
*
37856987 ATTTATGCTAGTGACC
65 ATTTATGCGAGTGACC
37857003 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
37857027 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
79 5 0.05
80 84 0.92
81 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:37858651 original size:20 final size:20
Alignment explanation
Indices: 37858607--37858656 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
37858597 TGATTTAGTA
*
37858607 CTTTGGCCTATTTTCTCCATT
1 CTTTGG-CTCTTTTCTCCATT
37858628 -TTTGGCTCTTTTCT-CATT
1 CTTTGGCTCTTTTCTCCATT
37858646 CCTTTGGCTCT
1 -CTTTGGCTCT
37858657 CTTATGCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 4 0.15
19 8 0.31
20 14 0.54
ACGTcount: A:0.06, C:0.28, G:0.12, T:0.54
Consensus pattern (20 bp):
CTTTGGCTCTTTTCTCCATT
Found at i:37862086 original size:122 final size:120
Alignment explanation
Indices: 37861871--37862094 Score: 313
Period size: 122 Copynumber: 1.9 Consensus size: 120
37861861 CACAATAACA
* * * *
37861871 ATGAGAATGAGAATAGAAATGTAATGGGTATGAGGTTTTCTTAATCTCAACTTAACACGGAATGT
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTCAACTTAACACGAAATGT
* *
37861936 ATGATAACTAACCTAGGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGC
66 ATGATAACTAACCTAAGAATACAAATTAAATGATAGACATTGGCATGGTAATAGC
* * * ** * *
37861991 ATGAGAATAAGCATAGTAATGTCATGGGTATGAGGTGTTCCTAATAACTTGATTTAACATGAAAT
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAAT--CTCAACTTAACACGAAAT
37862056 GTATGATAACTAACCTAAGAATACAAATTAAATGATAGA
64 GTATGATAACTAACCTAAGAATACAAATTAAATGATAGA
37862095 AAAATGAAAA
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
120 39 0.44
122 50 0.56
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (120 bp):
ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTCAACTTAACACGAAATGT
ATGATAACTAACCTAAGAATACAAATTAAATGATAGACATTGGCATGGTAATAGC
Found at i:37864806 original size:40 final size:40
Alignment explanation
Indices: 37864729--37864946 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
37864719 AAACCAAGTA
* * * *
37864729 CCTTCGGAATTTAG-CCGGATATAGCT-ACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
37864768 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
37864808 CCTTCGGGACTTAGCCCGGGA-ATAGTCACTCACACAAATG
1 CCTTCGGGACTTAGCCC-GGATATAGTAACTCGCACAAATG
37864848 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
37864888 CCTTTGGGACTTAGCCCGGAAATAGTCACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
37864928 CCTTCGGGACTTGGCCCGG
1 CCTTCGGGACTTAGCCCGG
37864947 TTATCATCCG
Statistics
Matches: 160, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 16 0.10
40 142 0.89
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:37864861 original size:80 final size:80
Alignment explanation
Indices: 37864729--37864950 Score: 340
Period size: 80 Copynumber: 2.8 Consensus size: 80
37864719 AAACCAAGTA
* * * *
37864729 CCTTCGGAATTTAG-CCGGATATAG-CTACTCACTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGAAATAGTC-ACTCACACAAATGCCTTCGGGACTTAGCCCGGTTATA
37864792 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* *
37864808 CCTTCGGGACTTAGCCCGGGAATAGTCACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGAAATAGTCACTCACACAAATGCCTTCGGGACTTAGCCCGGTTATAG
37864873 TAACTCGCACAAATG
66 TAACTCGCACAAATG
* * *
37864888 CCTTTGGGACTTAGCCCGGAAATAGTCACTCGCACAAATGCCTTCGGGACTTGGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGAAATAGTCACTCACACAAATGCCTTCGGGACTTAGCCCGGTTAT
37864951 CATCCGAATA
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
79 12 0.09
80 117 0.90
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGAAATAGTCACTCACACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:37877473 original size:41 final size:41
Alignment explanation
Indices: 37877416--37877500 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
37877406 TATCTTGCAA
37877416 AGAAAGTTGTTGAAATCCATCTTCCATGACTACCAAATCCT
1 AGAAAGTTGTTGAAATCCATCTTCCATGACTACCAAATCCT
37877457 AGAAAGTTGTTGAAATCCATCTTCCATGACTACCAAATCCT
1 AGAAAGTTGTTGAAATCCATCTTCCATGACTACCAAATCCT
37877498 AGA
1 AGA
37877501 CCTGTCCCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (41 bp):
AGAAAGTTGTTGAAATCCATCTTCCATGACTACCAAATCCT
Found at i:37879628 original size:29 final size:29
Alignment explanation
Indices: 37879595--37879668 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
37879585 GTGACGAGAT
37879595 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
37879624 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
37879653 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
37879669 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:37879684 original size:29 final size:29
Alignment explanation
Indices: 37879652--37879727 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
37879642 CTGGAAATAT
* *
37879652 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
37879681 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
37879710 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
37879728 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:37887765 original size:40 final size:40
Alignment explanation
Indices: 37887710--37887919 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
37887700 AACATTGGAA
37887710 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
37887750 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
37887790 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
37887830 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
37887869 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
37887910 CTATATCCGG
1 ATATATCCGG
37887920 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:37891772 original size:29 final size:29
Alignment explanation
Indices: 37891739--37891812 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
37891729 GTGACGAGAT
37891739 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
37891768 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
37891797 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
37891813 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:37891828 original size:29 final size:29
Alignment explanation
Indices: 37891796--37891871 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
37891786 CTGGAAATAT
* *
37891796 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
37891825 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
37891854 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
37891872 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:37897001 original size:17 final size:15
Alignment explanation
Indices: 37896985--37897021 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
37896975 TATTTTAATT
37896985 ATTA-AAATATAAAA
1 ATTATAAATATAAAA
*
37896999 ATTATAAATATAAAT
1 ATTATAAATATAAAA
37897014 A-TATAAAT
1 ATTATAAAT
37897022 TTATATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATTATAAATATAAAA
Found at i:37897012 original size:22 final size:23
Alignment explanation
Indices: 37896987--37897037 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
37896977 TTTTAATTAT
37896987 TAAAATATA-AAAATTATAAATA
1 TAAAATATATAAAATTATAAATA
* * *
37897009 T-AAATATATAAATTTATATATT
1 TAAAATATATAAAATTATAAATA
37897031 TAAAATA
1 TAAAATA
37897038 AATTTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 7 0.29
22 12 0.50
23 5 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAAATATATAAAATTATAAATA
Found at i:37897071 original size:32 final size:34
Alignment explanation
Indices: 37897022--37897090 Score: 88
Period size: 32 Copynumber: 2.1 Consensus size: 34
37897012 ATATATAAAT
*
37897022 TTATATATTTAAAATAAAT-TTAAAAAAAATA-A
1 TTATATACTTAAAATAAATATTAAAAAAAATATA
* * *
37897054 TTATATACTTAATATAAATATTACATAAAATATA
1 TTATATACTTAAAATAAATATTAAAAAAAATATA
37897088 TTA
1 TTA
37897091 GAGTATAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 17 0.55
33 10 0.32
34 4 0.13
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (34 bp):
TTATATACTTAAAATAAATATTAAAAAAAATATA
Found at i:37905184 original size:2 final size:2
Alignment explanation
Indices: 37905177--37905211 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
37905167 AACAAGTGTA
37905177 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37905212 ATGATAATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37914016 original size:26 final size:26
Alignment explanation
Indices: 37913949--37914021 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
37913939 TCTCATCCCT
**
37913949 ATTTTACCCCTAACAAAATTTTGACA
1 ATTTTACCCCTAGTAAAATTTTGACA
* * * *
37913975 ATTTTATCCTTAGTAAATTTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACA
*
37914001 ATTTTACCCCTGGTAAAATTT
1 ATTTTACCCCTAGTAAAATTT
37914022 GAAGAAAATA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACA
Found at i:37917923 original size:21 final size:22
Alignment explanation
Indices: 37917883--37917923 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
37917873 TCCCATATCT
* *
37917883 TTTTCTTTTTGTTTTCAAAATA
1 TTTTCTTCTTGTTATCAAAATA
37917905 TTTTCTTCTT-TTATCAAAA
1 TTTTCTTCTTGTTATCAAAA
37917924 ATTCCCAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.24, C:0.12, G:0.02, T:0.61
Consensus pattern (22 bp):
TTTTCTTCTTGTTATCAAAATA
Found at i:37919955 original size:25 final size:25
Alignment explanation
Indices: 37919927--37919983 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
37919917 TAAGTTTAAA
37919927 CTGAAAATACTGGAGATAGTATATT
1 CTGAAAATACTGGAGATAGTATATT
* * *
37919952 CTGAAACTACTGTAGGTAGTATATT
1 CTGAAAATACTGGAGATAGTATATT
*
37919977 GTGAAAA
1 CTGAAAA
37919984 CACTCTAGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.32
Consensus pattern (25 bp):
CTGAAAATACTGGAGATAGTATATT
Found at i:37925079 original size:22 final size:22
Alignment explanation
Indices: 37925054--37925096 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
37925044 TCCCATATCT
*
37925054 TTTTATT-TTTGTTTTCAAAATA
1 TTTTATTCTTT-TTTTAAAAATA
*
37925076 TTTTCTTCTTTTTTTAAAAAT
1 TTTTATTCTTTTTTTAAAAAT
37925097 TCCCAAGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTTATTCTTTTTTTAAAAATA
Found at i:37927142 original size:12 final size:12
Alignment explanation
Indices: 37927125--37927154 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
37927115 CTCCAATTTT
37927125 CACACGACCTGG
1 CACACGACCTGG
37927137 CACACGACCTGG
1 CACACGACCTGG
37927149 CACACG
1 CACACG
37927155 GGCGTGTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.43, G:0.23, T:0.07
Consensus pattern (12 bp):
CACACGACCTGG
Found at i:37931057 original size:43 final size:44
Alignment explanation
Indices: 37931008--37931158 Score: 184
Period size: 43 Copynumber: 3.5 Consensus size: 44
37930998 GATTGTTGGG
37931008 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
*
37931052 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
* * * * * * *
37931094 ATATGATTTCGTGTAAGACCCTGT-TTGAGACAGTGGCATTG-AT
1 ATGTGATTACATGTAAGACCATGTCTAG-GACATTGGCATCGTAT
*
37931137 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
37931159 ATCTGGGATA
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
42 3 0.03
43 88 0.97
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
Found at i:37936582 original size:15 final size:15
Alignment explanation
Indices: 37936562--37936593 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
37936552 TATCCATGCA
*
37936562 AAATATAAAATACAT
1 AAATATAAAAGACAT
37936577 AAATATAAAAGACAT
1 AAATATAAAAGACAT
37936592 AA
1 AA
37936594 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (15 bp):
AAATATAAAAGACAT
Found at i:37950010 original size:42 final size:42
Alignment explanation
Indices: 37949940--37950050 Score: 136
Period size: 42 Copynumber: 2.7 Consensus size: 42
37949930 CATGGTCTAA
*
37949940 GACACGAGCGTG-TCCTA-GCCATGTGAAGGACACGGGCCTGT
1 GACACGGGCGTGTTCC-AGGCCATGTGAAGGACACGGGCCTGT
* * *
37949981 GACACGGGCGTGTTCCAGGCCATGTGAAGGACATGTGCTTGT
1 GACACGGGCGTGTTCCAGGCCATGTGAAGGACACGGGCCTGT
* **
37950023 GACACGGGTGTGTTTTAGGCCATGTGAA
1 GACACGGGCGTGTTCCAGGCCATGTGAA
37950051 AACCTCTGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 12 0.20
42 49 0.80
ACGTcount: A:0.21, C:0.22, G:0.35, T:0.23
Consensus pattern (42 bp):
GACACGGGCGTGTTCCAGGCCATGTGAAGGACACGGGCCTGT
Found at i:37952616 original size:40 final size:40
Alignment explanation
Indices: 37952561--37952784 Score: 272
Period size: 40 Copynumber: 5.5 Consensus size: 40
37952551 TATTCGGATG
37952561 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
37952601 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* *
37952644 ATA-CCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCC-GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** ** *
37952684 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
37952724 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
37952764 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
37952785 ATACTTGGGT
Statistics
Matches: 160, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 13 0.08
40 108 0.68
41 3 0.02
42 2 0.01
43 34 0.21
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:37952706 original size:83 final size:80
Alignment explanation
Indices: 37952561--37952784 Score: 276
Period size: 83 Copynumber: 2.8 Consensus size: 80
37952551 TATTCGGATG
* *
37952561 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCTGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
** *
37952626 TTTGTGC-GAGTAGTTGCT
66 TTCATGCTG-GT-G--ACT
*
37952644 ATA-CCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCC-GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGC
37952708 ATTCATGCTGGTGACT
65 ATTCATGCTGGTGACT
* * * *
37952724 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
37952785 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
79 14 0.11
80 39 0.31
81 4 0.03
82 3 0.02
83 66 0.52
84 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTCATGCTGGTGACT
Found at i:37958045 original size:2 final size:2
Alignment explanation
Indices: 37958038--37958074 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
37958028 TCTCATGTTT
37958038 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37958075 TATCCATTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37960801 original size:31 final size:29
Alignment explanation
Indices: 37960738--37960801 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
37960728 AAATCAAATT
**
37960738 TTCATGTATAAAATTGCACAAAATTAAAG
1 TTCATGTATAAAATTGCACAAAACAAAAG
*
37960767 TTCATGTATAAAATTGTACATTAAACAAAAG
1 TTCATGTATAAAATTGCACA--AAACAAAAG
37960798 TTCA
1 TTCA
37960802 ATATAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 19 0.63
31 11 0.37
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (29 bp):
TTCATGTATAAAATTGCACAAAACAAAAG
Found at i:37960902 original size:14 final size:14
Alignment explanation
Indices: 37960863--37960894 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
37960853 ATACTGAAAA
*
37960863 TTTTAATATTTAAT
1 TTTTAACATTTAAT
37960877 TTTTAACATTTAAT
1 TTTTAACATTTAAT
37960891 TTTT
1 TTTT
37960895 TTAATTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTAACATTTAAT
Found at i:37962484 original size:15 final size:15
Alignment explanation
Indices: 37962466--37962496 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
37962456 AATGCTCCAA
37962466 TTGAATCTTCATGTG
1 TTGAATCTTCATGTG
37962481 TTGAATCTTCATGTG
1 TTGAATCTTCATGTG
37962496 T
1 T
37962497 AGCTTTCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.48
Consensus pattern (15 bp):
TTGAATCTTCATGTG
Found at i:37967491 original size:2 final size:2
Alignment explanation
Indices: 37967484--37967522 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
37967474 TTTAAACATG
37967484 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37967523 TTTTTTATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37968018 original size:24 final size:23
Alignment explanation
Indices: 37967991--37968045 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
37967981 CGGGTTTTAA
*
37967991 AATTATTATAAACAATTTTTTTTT
1 AATTATTAT-AACAATTTTTATTT
*
37968015 AATTATGT-TAATAATTTTTATTT
1 AATTAT-TATAACAATTTTTATTT
*
37968038 AAATATTA
1 AATTATTA
37968046 AAATTACATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.04
23 17 0.65
24 7 0.27
25 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
AATTATTATAACAATTTTTATTT
Found at i:37973132 original size:13 final size:12
Alignment explanation
Indices: 37973120--37973152 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
37973110 TCATAATTAT
37973120 TTTAATTTTTTA
1 TTTAATTTTTTA
37973132 TTTAATTTTTT-
1 TTTAATTTTTTA
*
37973143 TGTAATTTTT
1 TTTAATTTTT
37973153 AACTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (12 bp):
TTTAATTTTTTA
Found at i:37973250 original size:26 final size:26
Alignment explanation
Indices: 37973216--37973267 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
37973206 TAATAAGCTT
* *
37973216 TTATTAAAATC-GATTATGAATAATAA
1 TTATAAAAATCTGAATATGAA-AATAA
37973242 TTATAAAAATCTGAATATGAAAATAA
1 TTATAAAAATCTGAATATGAAAATAA
37973268 AAACCAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (26 bp):
TTATAAAAATCTGAATATGAAAATAA
Found at i:37978919 original size:17 final size:17
Alignment explanation
Indices: 37978897--37978937 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
37978887 TTTATAACCA
37978897 AGGTTAAAATTGTAAAT
1 AGGTTAAAATTGTAAAT
37978914 AGGTTAAAATTGTAAAT
1 AGGTTAAAATTGTAAAT
*
37978931 TGGTTAA
1 AGGTTAA
37978938 TTAAGTCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.37
Consensus pattern (17 bp):
AGGTTAAAATTGTAAAT
Found at i:37979922 original size:42 final size:43
Alignment explanation
Indices: 37979861--37979969 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 43
37979851 GATTTGAGAT
* *
37979861 TTACGTGTAAGACCATGTCTGGGACA-TCGGCATCG-TATTTGA
1 TTACATGTAAGACCATGTCTGGGACAGT-GGCACCGATATTTGA
* *
37979903 TTCCATGTAAGACCCTGTCTGGGACAGTGGCACCGATATTTGA
1 TTACATGTAAGACCATGTCTGGGACAGTGGCACCGATATTTGA
* *
37979946 TTACATGTAAGATCACGTCTGGGA
1 TTACATGTAAGACCATGTCTGGGA
37979970 TGTTGTCATT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 29 0.51
43 28 0.49
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACAGTGGCACCGATATTTGA
Found at i:37987560 original size:42 final size:43
Alignment explanation
Indices: 37987503--37987583 Score: 121
Period size: 42 Copynumber: 1.9 Consensus size: 43
37987493 TTAGATTTAC
37987503 GTGTAAGACCATGTCTGGGACA-TCAGCATC-ATATTTGACTCT
1 GTGTAAGACCATGTCTGGGACAGT-AGCATCGATATTTGACTCT
* *
37987545 GTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGA
1 GTGTAAGACCATGTCTGGGACAGTAGCATCGATATTTGA
37987584 TTACATGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
42 26 0.74
43 9 0.26
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACAGTAGCATCGATATTTGACTCT
Found at i:37987604 original size:43 final size:42
Alignment explanation
Indices: 37987453--37987607 Score: 131
Period size: 43 Copynumber: 3.6 Consensus size: 42
37987443 TTCCGATGTG
* * * *
37987453 TGATTTCGTGTAAGACCACATC-GAGACGTTGGCATCGAT-TT
1 TGATTACGTGTAAGACCACGTCTGGGAC-ATGGCATCGATATT
* *
37987494 TAGATTTACGTGTAAGACCATGTCTGGGACATCAGCATC-ATATT
1 T-GA-TTACGTGTAAGACCACGTCTGGGACAT-GGCATCGATATT
*
37987538 TGACT-CTGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATT
1 TGATTAC-GTGTAAGACCAC-GTCTGGGACA-TGGCATCGATATT
* *
37987581 TGATTACATGTAAAACCACGTCTGGGA
1 TGATTACGTGTAAGACCACGTCTGGGA
37987608 TGTTTTCATT
Statistics
Matches: 91, Mismatches: 12, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
41 2 0.02
42 28 0.31
43 47 0.52
44 14 0.15
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (42 bp):
TGATTACGTGTAAGACCACGTCTGGGACATGGCATCGATATT
Found at i:37992478 original size:39 final size:40
Alignment explanation
Indices: 37992403--37992585 Score: 277
Period size: 39 Copynumber: 4.7 Consensus size: 40
37992393 CTAAGTGACT
37992403 AATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTA
1 AATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTA
37992443 AATCCGGACTAAGATCCGAAGGCATTCGTGC-AGTTACTA
1 AATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTA
37992482 AATCCGGACTAAGATCCGAAGGCATT--TGCGAGTTACTA
1 AATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTA
*
37992520 AATCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTA
1 AATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTA
* * *
37992559 TAACCCGGGCTATG-TCCCGAAGGCATT
1 -AATCCGGACTAAGAT-CCGAAGGCATT
37992586 TGAACGAGTA
Statistics
Matches: 135, Mismatches: 3, Indels: 9
0.92 0.02 0.06
Matches are distributed among these distances:
37 15 0.11
38 21 0.16
39 46 0.34
40 42 0.31
41 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (40 bp):
AATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTA
Found at i:38000677 original size:79 final size:81
Alignment explanation
Indices: 38000582--38000766 Score: 256
Period size: 79 Copynumber: 2.3 Consensus size: 81
38000572 GCTAAGTGAC
38000582 TAATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAATCC-GGACAAGAT-CCGAAGGC
1 TAATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGACAAG-TCCCGAAGGC
38000645 ATTCGTGCGAGTTACTA
65 ATTCGTGCGAGTTACTA
* **
38000662 -AATCCGGACTAAGAT-CGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA
1 TAATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGACAAGTCCCGAAGGCA
*
38000725 TTTGTGCGAGTTACTA
66 TTCGTGCGAGTTACTA
* *
38000741 TAA-CCGGGCTATG-TCCCGAAGGCATT
1 TAATCCGGACTAAGAT-CCGAAGGCATT
38000767 TGAACGAGTA
Statistics
Matches: 94, Mismatches: 6, Indels: 10
0.85 0.05 0.09
Matches are distributed among these distances:
78 30 0.32
79 52 0.55
80 12 0.13
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (81 bp):
TAATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGACAAGTCCCGAAGGCA
TTCGTGCGAGTTACTA
Found at i:38000775 original size:40 final size:40
Alignment explanation
Indices: 38000546--38000768 Score: 264
Period size: 39 Copynumber: 5.7 Consensus size: 40
38000536 TCGAATGATG
* *
38000546 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
38000585 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38000625 TCCGGAC-AAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38000664 TCCGGACTAAGAT--CGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38000703 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38000744 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38000769 AACGAGTAGC
Statistics
Matches: 168, Mismatches: 9, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 1 0.01
39 97 0.58
40 68 0.40
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38000790 original size:79 final size:79
Alignment explanation
Indices: 38000546--38000791 Score: 238
Period size: 79 Copynumber: 3.1 Consensus size: 79
38000536 TCGAATGATG
* * * *
38000546 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGACTAAGAT-CGAAGGCATT
* **
38000609 CGTGCGAGTTACTAAA
64 TGAACGAGTTACTAAA
**
38000625 TCC-GGACAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCGAAGGCATTT
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCGAAGGCATTT
**
38000688 GTGCGAGTTACTAAA
65 GAACGAGTTACTAAA
* * *
38000703 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-AATCCGGACTAAGAT--CGAAGGCAT
*
38000766 TTGAACGAG-TAGCTATA
63 TTGAACGAGTTA-CTAAA
38000783 TCC-GGTTAA
1 TCCGGGTTAA
38000792 ACTCCGAAGG
Statistics
Matches: 144, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
78 49 0.34
79 70 0.49
80 25 0.17
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCGAAGGCATTTG
AACGAGTTACTAAA
Found at i:38006649 original size:27 final size:27
Alignment explanation
Indices: 38006603--38006666 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
38006593 TTTCGCCATG
*
38006603 AAGGCGTTCTTTTGCAGAGATAACCACA
1 AAGGC-TTCCTTTGCAGAGATAACCACA
* **
38006631 AAGGCTTCCTTTGTAGAGATTGCCACA
1 AAGGCTTCCTTTGCAGAGATAACCACA
38006658 AAGGCTTCC
1 AAGGCTTCC
38006667 ATTTCTCTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 27 0.84
28 5 0.16
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (27 bp):
AAGGCTTCCTTTGCAGAGATAACCACA
Found at i:38008539 original size:64 final size:64
Alignment explanation
Indices: 38008458--38008640 Score: 183
Period size: 67 Copynumber: 2.8 Consensus size: 64
38008448 AGACATTATG
* * * * *
38008458 ATGTAGCTAGGTTGCATGGGTGATACTATGTGTACACCACGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
38008522 ATGTAACTAGGTCGCATGCGTGGTACCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
38008587 AA
63 AA
* * *
38008589 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAG
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAG
38008641 TCGAACTATA
Statistics
Matches: 96, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 24 0.25
66 21 0.22
67 32 0.33
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:38013476 original size:27 final size:27
Alignment explanation
Indices: 38013446--38013498 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
38013436 GTTTGGTGTT
38013446 ACCAACCATGACACAATTTTTGATATA
1 ACCAACCATGACACAATTTTTGATATA
** * *
38013473 ACCAAGTATGACACATTTTTTTATAT
1 ACCAACCATGACACAATTTTTGATAT
38013499 TTTATATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.36
Consensus pattern (27 bp):
ACCAACCATGACACAATTTTTGATATA
Found at i:38026466 original size:37 final size:37
Alignment explanation
Indices: 38026416--38026604 Score: 306
Period size: 37 Copynumber: 5.1 Consensus size: 37
38026406 ACCTTTAGCT
* * *
38026416 CGGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
38026453 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
38026490 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* * *
38026527 CGGACATACTCTCCATACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* *
38026564 CGGACATAATCTCCACACGTAGTCATCGGGTCTCACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
38026601 CGGA
1 CGGA
38026605 ATATATTTCC
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 143 1.00
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.22
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:38026994 original size:22 final size:22
Alignment explanation
Indices: 38026922--38026994 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
38026912 TTCGGCCTCA
38026922 TCACATATATGCATGTTCATAT
1 TCACATATATGCATGTTCATAT
* * ** *
38026944 TCATCACATAGGCCATTCGGCCTTA-
1 TCA-CATATATG-CA-T-GTTCATAT
38026969 TCACATATATGCATGTTCATAT
1 TCACATATATGCATGTTCATAT
38026991 TCAC
1 TCAC
38026995 CACATTGGCC
Statistics
Matches: 36, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
21 4 0.11
22 8 0.22
23 8 0.22
24 8 0.22
25 4 0.11
26 4 0.11
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.36
Consensus pattern (22 bp):
TCACATATATGCATGTTCATAT
Done.