Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 30 of 240
Found at i:10534822 original size:32 final size:32
Alignment explanation
Indices: 10534786--10534846 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
10534776 AAATAAACAC
10534786 ATAATTATTCATTT-AATA-TTATAACTATTCAA
1 ATAA-TATT-ATTTAAATAGTTATAACTATTCAA
*
10534818 ATAATATTATTTAAATAGTTATAATTATT
1 ATAATATTATTTAAATAGTTATAACTATT
10534847 TTTCAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
32 14 0.54
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (32 bp):
ATAATATTATTTAAATAGTTATAACTATTCAA
Found at i:10535234 original size:13 final size:13
Alignment explanation
Indices: 10535195--10535244 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
10535185 TCTTCATTGG
10535195 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
* * *
10535208 TGTGGAAAAATGC
1 TTTTGAAAAGTGC
*
10535221 TTTTGAGAAGTGC
1 TTTTGAAAAGTGC
10535234 TTTTGAAAAGT
1 TTTTGAAAAGT
10535245 TTGGTTTAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:10537817 original size:22 final size:22
Alignment explanation
Indices: 10537789--10537857 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
10537779 TATGTACTAT
10537789 TAAATAGAGAGCACTAAAGTGC
1 TAAATAGAGAGCACTAAAGTGC
*
10537811 TATATAGAGAGCAC-AAATGTGC
1 TAAATAGAGAGCACTAAA-GTGC
** *
10537833 TAAACGGAGAGCACTAACGTGC
1 TAAATAGAGAGCACTAAAGTGC
10537855 TAA
1 TAA
10537858 TAATCAGAGC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 3 0.08
22 35 0.88
23 2 0.05
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (22 bp):
TAAATAGAGAGCACTAAAGTGC
Found at i:10546025 original size:2 final size:2
Alignment explanation
Indices: 10546020--10546055 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10546010 CACACACACG
10546020 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10546056 AAAGTAGGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10555002 original size:15 final size:16
Alignment explanation
Indices: 10554984--10555016 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10554974 ATTTAAAAAT
10554984 AATTAAT-AAATTAAA
1 AATTAATGAAATTAAA
*
10554999 AATTAATGTAATTAAA
1 AATTAATGAAATTAAA
10555015 AA
1 AA
10555017 ATATTTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
AATTAATGAAATTAAA
Found at i:10564424 original size:28 final size:29
Alignment explanation
Indices: 10564382--10564438 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
10564372 TAAATATTTT
10564382 TTTTATTTTTATTTTTAAATTTTAAAATA
1 TTTTATTTTTATTTTTAAATTTTAAAATA
* *
10564411 TTTT-TTTTTATTTTTTATTTTTAAAATA
1 TTTTATTTTTATTTTTAAATTTTAAAATA
10564439 ACTTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (29 bp):
TTTTATTTTTATTTTTAAATTTTAAAATA
Found at i:10564444 original size:28 final size:28
Alignment explanation
Indices: 10564387--10564445 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
10564377 ATTTTTTTTA
**
10564387 TTTTTATTTTTAAATTTTAAAATATTTT
1 TTTTTATTTTTAAATTTTAAAATAACTT
* *
10564415 TTTTTATTTTTTATTTTTAAAATAACTT
1 TTTTTATTTTTAAATTTTAAAATAACTT
10564443 TTT
1 TTT
10564446 AATGTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (28 bp):
TTTTTATTTTTAAATTTTAAAATAACTT
Found at i:10564453 original size:26 final size:26
Alignment explanation
Indices: 10564415--10564464 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
10564405 AAAATATTTT
* * *
10564415 TTTTTATTTTTTATTTTTAAAATAAC
1 TTTTTAATGTTTATTTTAAAAATAAC
10564441 TTTTTAATGTTTATTTTAAAAATA
1 TTTTTAATGTTTATTTTAAAAATA
10564465 GGCCGGACTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTTAATGTTTATTTTAAAAATAAC
Found at i:10567465 original size:9 final size:9
Alignment explanation
Indices: 10567448--10567492 Score: 72
Period size: 9 Copynumber: 5.0 Consensus size: 9
10567438 GTTAAAAATG
10567448 AACCGAATT
1 AACCGAATT
*
10567457 AATCGAATT
1 AACCGAATT
*
10567466 ACCCGAATT
1 AACCGAATT
10567475 AACCGAATT
1 AACCGAATT
10567484 AACCGAATT
1 AACCGAATT
10567493 GAGTCCCTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.24
Consensus pattern (9 bp):
AACCGAATT
Found at i:10567642 original size:18 final size:18
Alignment explanation
Indices: 10567602--10567645 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
10567592 AATTTTTATG
**
10567602 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
10567620 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
10567638 CTTGGGTT
1 ATTGGGTT
10567646 TGGATTGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:10569277 original size:23 final size:24
Alignment explanation
Indices: 10569216--10569277 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
10569206 CATTAACAGT
*
10569216 AAGCTCCAGATAGCCATATATCGGG
1 AAGCTCCAGAGAG-CATATATCGGG
* * *
10569241 AAGTTCAAGCGAGC-TATATCGGG
1 AAGCTCCAGAGAGCATATATCGGG
10569264 AAGCTCCAGAGAGC
1 AAGCTCCAGAGAGC
10569278 CATTAATCAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
23 20 0.67
24 1 0.03
25 9 0.30
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.18
Consensus pattern (24 bp):
AAGCTCCAGAGAGCATATATCGGG
Found at i:10569304 original size:26 final size:26
Alignment explanation
Indices: 10569264--10569332 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
10569254 CTATATCGGG
*
10569264 AAGCTC-CAGAGAGCCATTAATC-AA
1 AAGCTCACAAAGAGCCATTAATCGAA
* *
10569288 TAAGCTCACAAAGAGCCTTTAATCGGA
1 -AAGCTCACAAAGAGCCATTAATCGAA
*
10569315 AAGCTCACGAAGAGCCAT
1 AAGCTCACAAAGAGCCAT
10569333 ATATCGGGAC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.16
26 30 0.81
27 1 0.03
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.17
Consensus pattern (26 bp):
AAGCTCACAAAGAGCCATTAATCGAA
Found at i:10569338 original size:26 final size:26
Alignment explanation
Indices: 10569289--10569339 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
10569279 ATTAATCAAT
*
10569289 AAGCTCACAAAGAGCCTTTAATCGGA
1 AAGCTCACAAAGAGCCTATAATCGGA
*
10569315 AAGCTCACGAAGAGCC-ATATATCGG
1 AAGCTCACAAAGAGCCTATA-ATCGG
10569340 GACACTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.18
Consensus pattern (26 bp):
AAGCTCACAAAGAGCCTATAATCGGA
Found at i:10573012 original size:2 final size:2
Alignment explanation
Indices: 10573005--10573031 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10572995 TAGGTCCGCT
10573005 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
10573032 TCTAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:10573160 original size:77 final size:77
Alignment explanation
Indices: 10573048--10573218 Score: 213
Period size: 77 Copynumber: 2.2 Consensus size: 77
10573038 AAATAATCAA
* * * * **
10573048 TGCATGCATATT-AAAAATAGTCAATAGCATATGACCATCTCCACTGACAATCATACACAGAA-A
1 TGCATGCATATTAAAAAATAGTCAACAACATATGACCAGCCCCACCAACAATCATACACA-AACA
10573111 AATTA-AAAAACAC
65 AATTAGAAAAA-AC
* * * *
10573124 TGCATGCATGTTAAAAAATAGTCAACAACATGTGACCAGCCCCACCAACAATCATACATAAACAG
1 TGCATGCATATTAAAAAATAGTCAACAACATATGACCAGCCCCACCAACAATCATACACAAACAA
10573189 ATTAGAAAAAAC
66 ATTAGAAAAAAC
10573201 TGCATGCATATTAAAAAA
1 TGCATGCATATTAAAAAA
10573219 CACTCACTAA
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
76 13 0.16
77 63 0.78
78 5 0.06
ACGTcount: A:0.47, C:0.21, G:0.11, T:0.21
Consensus pattern (77 bp):
TGCATGCATATTAAAAAATAGTCAACAACATATGACCAGCCCCACCAACAATCATACACAAACAA
ATTAGAAAAAAC
Found at i:10575122 original size:23 final size:24
Alignment explanation
Indices: 10575078--10575123 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
10575068 TTTCTCACAT
* **
10575078 TTTCAATTCAATCATTTTTCCACC
1 TTTCAATTCAATAATTAATCCACC
10575102 TTTCAA-TCAATAATTAATCCAC
1 TTTCAATTCAATAATTAATCCAC
10575124 AATTCACACG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTCAATTCAATAATTAATCCACC
Found at i:10575283 original size:3 final size:3
Alignment explanation
Indices: 10575268--10575306 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
10575258 CCACTCATCT
* *
10575268 TAA TAA -AA AAA TAA TAG TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
10575307 TATCTCACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:10576321 original size:28 final size:25
Alignment explanation
Indices: 10576283--10576339 Score: 60
Period size: 28 Copynumber: 2.2 Consensus size: 25
10576273 AAAGCCTTTT
*
10576283 TTTTTAAATTTTCCGAAATAGGCCA
1 TTTTTAAATTTACCGAAATAGGCCA
* *
10576308 GTTTTTAATTATTTACCGGAATGGGCCA
1 -TTTTTAA--ATTTACCGAAATAGGCCA
10576336 TTTT
1 TTTT
10576340 CCCCGAAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 7 0.27
27 4 0.15
28 15 0.58
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (25 bp):
TTTTTAAATTTACCGAAATAGGCCA
Found at i:10576803 original size:126 final size:126
Alignment explanation
Indices: 10576578--10576853 Score: 373
Period size: 126 Copynumber: 2.2 Consensus size: 126
10576568 CGAGTTAACG
*
10576578 TTTCTG-GTCAAATAGTATAAAATCGCTTCTATTAGGATGCTATCAGAGAAGAAATTGTGAAATC
1 TTTCTGAG-CAAATAGTATAAAATCGCTTCTACTAGGATGCTATCAGAGAAGAAATTGTGAAATC
** * * *
10576642 GTGCCCTCGTGGACGCCATTTCGGCACAGTTGGTCATGGAAGAAATAATTTTTTTTTGACGT
65 ACGCCCTCGTGGACGCCATTTCGGCACAGTTGGTCATGGAAGAAATAATTATATTTTGACAT
10576704 TTTCTGAGCAAATAGTATAAAATCGC-TCATACTAGGATGCTAT-ATGAGAAGAAATTGTGAAAT
1 TTTCTGAGCAAATAGTATAAAATCGCTTC-TACTAGGATGCTATCA-GAGAAGAAATTGTGAAAT
** * *
10576767 CACGCCCTCGTGGACGGGATTTC-GCTACAGTTGGTCATGTAGGAAATAATTATATTTTGACAT
64 CACGCCCTCGTGGACGCCATTTCGGC-ACAGTTGGTCATGGAAGAAATAATTATATTTTGACAT
* *
10576830 TTT-TGAGCAAATAGTGTCAAATCG
1 TTTCTGAGCAAATAGTATAAAATCG
10576854 TGCCCTCGTG
Statistics
Matches: 134, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
125 24 0.18
126 109 0.81
127 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (126 bp):
TTTCTGAGCAAATAGTATAAAATCGCTTCTACTAGGATGCTATCAGAGAAGAAATTGTGAAATCA
CGCCCTCGTGGACGCCATTTCGGCACAGTTGGTCATGGAAGAAATAATTATATTTTGACAT
Found at i:10580071 original size:29 final size:29
Alignment explanation
Indices: 10580021--10580491 Score: 574
Period size: 29 Copynumber: 16.1 Consensus size: 29
10580011 GTGTAAAATT
*
10580021 ATTATGTTAGGGTTTAGGGTTTTTAATTAA
1 ATTAGGTTAGGG-TTAGGGTTTTTAATTAA
10580051 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
10580080 ATTAGGTTA-GGTTAGGG-TTTTAATTAA
1 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
10580107 ATTAGG---GGG-TAGGGTTTTTAATTAAATTA
1 ATTAGGTTAGGGTTAGGGTTTTTAATT--A--A
10580136 GATTAGGTTAGGGTTTAGGGTTTTTAATTAA
1 -ATTAGGTTAGGG-TTAGGGTTTTTAATTAA
**
10580167 ATTAAATTA-GGTTAGGGTTTTTAATTAATTAA
1 ATTAGGTTAGGGTTAGGG--TTT--TTAATTAA
*
10580199 ATTAGGTTA-GGTTAGGATTTTTAATTAA
1 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
10580227 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
10580256 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
10580285 ATTAGGTTAGGGTTAAGGG-TTTTAATTAA
1 ATTAGGTTAGGGTT-AGGGTTTTTAATTAA
* *
10580314 ATTAGATTA-GGTTAGGG---TTAATTAG
1 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
10580339 ATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAA
1 ATTAGGTTAGGG-TTAGGG--TTT--TT-AATTAA
*
10580374 ATTAGGTTAGGGTTTAGGGTTTTAAATTAA
1 ATTAGGTTAGGG-TTAGGGTTTTTAATTAA
*
10580404 ATTAGGTTAGGCTTAGGGTTTTTAATTAA
1 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
10580433 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
** *
10580462 ATTAAATTA-GGTTAGGGTTTTTAATCAA
1 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
10580490 AT
1 AT
10580492 AATATCAAAA
Statistics
Matches: 395, Mismatches: 18, Indels: 58
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.01
25 25 0.06
26 2 0.01
27 27 0.07
28 55 0.14
29 159 0.40
30 51 0.13
31 2 0.01
32 22 0.06
33 7 0.02
34 2 0.01
35 38 0.10
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (29 bp):
ATTAGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:10580246 original size:148 final size:145
Alignment explanation
Indices: 10580043--10580486 Score: 573
Period size: 148 Copynumber: 3.0 Consensus size: 145
10580033 TTTAGGGTTT
*
10580043 TTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGTTTTAATTAA
1 TTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAATTAA
10580107 ATTAGG-GGGTAGGGTTTTTAATTAAATTAGATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTA
66 ATTAGGTGGGTAGGGTTTTTAATT--A--A-ATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTA
10580171 AATTAGGTTAGGGTTTTTAA
126 AATTAGGTTAGGGTTTTTAA
10580191 TTAATTAAATTAGGTTA-GGTTAGGATTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTA
1 TTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAAATTAGGTTAGGGTTAGGG-TTTTAATTA
* *
10580255 AATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGG-TTTTAATTAAATTAG
65 AATTAGG-T-GGG-TAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAA
10580319 ATTAGGTTAGGG---TTAA
127 ATTAGGTTAGGGTTTTTAA
** *** * *
10580335 TTAGATTAGGTTAGGGTTTAGGGTTTTTA-ATTAAATTAAATTAGGTTAGGGTTTAGGGTTTTAA
1 TTA-ATTAAATTA-GG-TTAGGGTTAGGATTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTT-A
*
10580399 ATTAAATTAGGTTAGGCTTAGGGTTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTTTAATTAAA
61 ATTAAATTAGG-T-GG-GTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAA
10580463 TTAAATTAGGTTAGGGTTTTTAA
123 TTAAATTAGGTTAGGGTTTTTAA
10580486 T
1 T
10580487 CAAATAATAT
Statistics
Matches: 266, Mismatches: 13, Indels: 31
0.86 0.04 0.10
Matches are distributed among these distances:
144 7 0.03
145 7 0.03
146 2 0.01
147 85 0.32
148 125 0.47
149 17 0.06
151 6 0.02
152 3 0.01
153 14 0.05
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (145 bp):
TTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAATTAA
ATTAGGTGGGTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAAATTA
GGTTAGGGTTTTTAA
Found at i:10580338 original size:20 final size:20
Alignment explanation
Indices: 10580313--10580352 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
10580303 GTTTTAATTA
10580313 AATTAGATTAGGTTAGGGTT
1 AATTAGATTAGGTTAGGGTT
10580333 AATTAGATTAGGTTAGGGTT
1 AATTAGATTAGGTTAGGGTT
10580353 TAGGGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (20 bp):
AATTAGATTAGGTTAGGGTT
Found at i:10582630 original size:22 final size:22
Alignment explanation
Indices: 10582589--10582630 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10582579 CAGACTTTTA
*
10582589 TAACAAAAAATAAATTAATATT
1 TAACAAAAAATAAATAAATATT
* *
10582611 TAACTAAAAATACATAAATA
1 TAACAAAAAATAAATAAATA
10582631 AAAATATCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (22 bp):
TAACAAAAAATAAATAAATATT
Found at i:10582632 original size:14 final size:15
Alignment explanation
Indices: 10582615--10582648 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10582605 AATATTTAAC
10582615 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
10582629 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
10582644 TAAAA
1 TAAAA
10582649 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:10582643 original size:15 final size:15
Alignment explanation
Indices: 10582605--10582648 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
10582595 AAAATAAATT
*
10582605 AATAT-TTAACTAAA
1 AATATCTTAAATAAA
*
10582619 AATA-CATAAATAAA
1 AATATCTTAAATAAA
10582633 AATATCTTAAATAAA
1 AATATCTTAAATAAA
10582648 A
1 A
10582649 TTTAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.30
Consensus pattern (15 bp):
AATATCTTAAATAAA
Found at i:10582778 original size:27 final size:28
Alignment explanation
Indices: 10582746--10582800 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
10582736 TTGAAAATAT
10582746 TAAAAAT-TTTAAAATTATT-TTAAAAAA
1 TAAAAATATTTAAAATT-TTCTTAAAAAA
10582773 TAAAAATATTTAAAATTTTCTTAAAAAA
1 TAAAAATATTTAAAATTTTCTTAAAAAA
10582801 AATGAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (28 bp):
TAAAAATATTTAAAATTTTCTTAAAAAA
Found at i:10582881 original size:21 final size:21
Alignment explanation
Indices: 10582837--10582885 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
10582827 TAATATGGAG
*
10582837 TTGAGAGATTTTTTGAAGGAAAT
1 TTGAG-GA-TTTTGGAAGGAAAT
10582860 TGTGAGGATTTTGGAAGG-AAT
1 T-TGAGGATTTTGGAAGGAAAT
10582881 TTGAG
1 TTGAG
10582886 AGTTTAAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
22 9 0.38
23 3 0.12
24 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.37
Consensus pattern (21 bp):
TTGAGGATTTTGGAAGGAAAT
Found at i:10582912 original size:52 final size:52
Alignment explanation
Indices: 10582840--10582939 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
10582830 TATGGAGTTG
* * * *
10582840 AGAGATTTTTTGAAGGAAATTGTGAGGATTTTGGAAGGAATTTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTTGAGAGTTTA
*
10582892 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTTGAAGGAATTTGAGAG
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTTGAGAG
10582940 AATTTTTGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTTGAGAGTTTA
Found at i:10582917 original size:22 final size:22
Alignment explanation
Indices: 10582892--10582960 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
10582882 TGAGAGTTTA
*
10582892 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
*
10582914 AGAGAATTTTTGAAGGAATTTG
1 AGAGAATTTTTGAAGGAAATTG
*
10582936 AGAGAATTTTTGAATGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
10582958 AGA
1 AGA
10582961 TGAGATTTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.32
Consensus pattern (22 bp):
AGAGAATTTTTGAAGGAAATTG
Found at i:10583479 original size:21 final size:21
Alignment explanation
Indices: 10583455--10583497 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10583445 AATAATAACT
10583455 AATAACTAATAATAAATAATA
1 AATAACTAATAATAAATAATA
* * * *
10583476 AATATCTTATACTAATTAATA
1 AATAACTAATAATAAATAATA
10583497 A
1 A
10583498 GCAAATTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAACTAATAATAAATAATA
Found at i:10583629 original size:25 final size:23
Alignment explanation
Indices: 10583585--10583645 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
10583575 ATTTTGATTT
*
10583585 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
10583609 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
10583633 ATATAAATTATAT
1 AT-TTAATTATAT
10583646 TTAAATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:10583648 original size:35 final size:35
Alignment explanation
Indices: 10583593--10583672 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
10583583 TTATTTAATA
* *
10583593 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
* *
10583627 CATATAATATAAATTAT-ATTTAAATATTATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
10583662 ATATAAT-TAAA
1 ATATAATATAAA
10583673 CAAATAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 24 0.60
36 5 0.12
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:10585474 original size:23 final size:23
Alignment explanation
Indices: 10585447--10585491 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
10585437 AAAATGAAAC
* *
10585447 CAAAATTGAAATAACCCTAAATT
1 CAAAATTAAAATAACCCAAAATT
10585470 CAAAATTAAAATAACCCAAAAT
1 CAAAATTAAAATAACCCAAAAT
10585492 AACCTTACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.58, C:0.18, G:0.02, T:0.22
Consensus pattern (23 bp):
CAAAATTAAAATAACCCAAAATT
Found at i:10585975 original size:21 final size:21
Alignment explanation
Indices: 10585949--10585988 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10585939 CAACGTGGCA
10585949 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
10585970 AGTTAACTTGCCACATCAG
1 AGTTAACTGGCCACATCAG
10585989 TGGTCCCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:10586067 original size:31 final size:30
Alignment explanation
Indices: 10586032--10586092 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
10586022 CCAGTGATTA
* *
10586032 TTTTGACACTTTTTTATAATGTT-AGTGACTG
1 TTTTGACA-TTTTTCA-AAAGTTGAGTGACTG
*
10586063 TTTTGTCATTTTTCAAAAGTTGAGTGACTG
1 TTTTGACATTTTTCAAAAGTTGAGTGACTG
10586093 AAATAAAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 5 0.19
30 14 0.54
31 7 0.27
ACGTcount: A:0.23, C:0.10, G:0.18, T:0.49
Consensus pattern (30 bp):
TTTTGACATTTTTCAAAAGTTGAGTGACTG
Found at i:10586812 original size:15 final size:15
Alignment explanation
Indices: 10586792--10586899 Score: 60
Period size: 15 Copynumber: 7.2 Consensus size: 15
10586782 TTTATGGAAA
10586792 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
10586807 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
*
10586821 AGTCAAAGATGTGGGT
1 A-TCAAAGATATGGGT
* * **
10586837 ATCAAATAT-TAGAA
1 ATCAAAGATATGGGT
10586851 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
10586867 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
10586881 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
10586897 ATC
1 ATC
10586900 GAGATATTGG
Statistics
Matches: 64, Mismatches: 23, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.67
16 10 0.16
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:10586829 original size:30 final size:30
Alignment explanation
Indices: 10586788--10586899 Score: 188
Period size: 30 Copynumber: 3.7 Consensus size: 30
10586778 CATATTTATG
* *
10586788 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATATTA
*
10586818 GAAAGTCAAAGATGTGGGTATCAAATATTA
1 GAAAGTCAAAGATATGGGTATCAAATATTA
*
10586848 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATATTA
10586878 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
10586900 GAGATATTGG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 77 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.25
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATATTA
Found at i:10591462 original size:15 final size:15
Alignment explanation
Indices: 10591442--10591549 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
10591432 TTTATGGAAA
10591442 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
10591457 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
10591471 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
10591487 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
10591501 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* * **
10591517 ATCAAATAT-TAGAA
1 ATCAAAGATATGGGT
10591531 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
10591547 ATC
1 ATC
10591550 GAGATATTGG
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.66
16 11 0.17
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:10591479 original size:30 final size:30
Alignment explanation
Indices: 10591438--10591549 Score: 197
Period size: 30 Copynumber: 3.7 Consensus size: 30
10591428 CATATTTATG
* *
10591438 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATATTA
*
10591468 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATATTA
10591498 GAAAGTCAAAGATATGGGTATCAAATATTA
1 GAAAGTCAAAGATATGGGTATCAAATATTA
10591528 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
10591550 GAGATATTGG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.25
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATATTA
Found at i:10598991 original size:23 final size:23
Alignment explanation
Indices: 10598964--10599008 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
10598954 GGAAAATATT
10598964 AAATATATATA-TTTTTATTTTTA
1 AAATATA-ATAGTTTTTATTTTTA
10598987 AAATATAATAGTTTTTTATTTT
1 AAATATAATAG-TTTTTATTTT
10599009 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 3 0.15
23 7 0.35
24 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
AAATATAATAGTTTTTATTTTTA
Found at i:10601362 original size:3 final size:3
Alignment explanation
Indices: 10601354--10601390 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
10601344 TTTGTAGGCT
10601354 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10601391 GAAATAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10610958 original size:13 final size:13
Alignment explanation
Indices: 10610916--10610958 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
10610906 TTGCTTTTGG
10610916 AAAGTGC-TGTGA
1 AAAGTGCTTGTGA
10610928 AAATGTGCTTGTGA
1 AAA-GTGCTTGTGA
* *
10610942 AAAGTGTTTTTGA
1 AAAGTGCTTGTGA
10610955 AAAG
1 AAAG
10610959 CTTGGTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 3 0.11
13 16 0.59
14 8 0.30
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.33
Consensus pattern (13 bp):
AAAGTGCTTGTGA
Found at i:10620158 original size:32 final size:32
Alignment explanation
Indices: 10620117--10620179 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
10620107 TGTCCAGTAT
*
10620117 TGTTTTTAGCTTTTGAATTGAGATTCCATCAC
1 TGTTTTTAGCTTCTGAATTGAGATTCCATCAC
*
10620149 TGTTTTTAGCTTCTGAATTGAGTTTCCATCA
1 TGTTTTTAGCTTCTGAATTGAGATTCCATCA
10620180 ATCTATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.48
Consensus pattern (32 bp):
TGTTTTTAGCTTCTGAATTGAGATTCCATCAC
Found at i:10621687 original size:300 final size:293
Alignment explanation
Indices: 10621045--10621899 Score: 836
Period size: 300 Copynumber: 2.9 Consensus size: 293
10621035 TTGTTATGGG
* *
10621045 TTCAAATCTCAGCATATACATATTTTTATTAGTTTTTT-AGTGAAAAGACTAAAATACCCTTAAA
1 TTCAAATCTCA-CATATACATATTTTTATTAGTTTTTTAAGTGAAAAGACTAAAATACTCTCAAA
* * * *
10621109 TAATATTACTTATTTTAATTACAAAAGGACATTCTCGTAATTTTCTAACCGAGTTGTTACTCGGT
65 TAATATTACTTATTTTAATTACAAAAGGACATTCTCGTAACTTCCTAACCAAGTTGTGACTCGGT
* * * *
10621174 TAAGGGTGACACCGACTCAATAAAATAGTTAAATAATAGCAAGTATAGATATACAACTGATAAAT
130 TAAGGGTGACAACGACTCAATAAAAGAGTTAAATAATAGCAAGTAGAGATATACAACTGATAAAG
* * *
10621239 GTAGTAAAGTGTGCATAATAAAATTAAAATGTATAAAAATATAAAAAAAGTTGTAGTTGAATGGT
195 GTAATAAAGTGTGCATAATAAAATTAAAATGTATAAAAATATAAAAAAACTTGTAGTTGAATGAT
*
10621304 AAATTAAAGGTTTAACTAAAGTAATTGGTGTGAA
260 AAATTAAAGGTTTAACTAAAGCAATTGGTGTGAA
* *
10621338 TTCAAATCTCACTAAATTCATATTTTTA-TAGTTTTTTAAAGTGAAAAGACTAAAATACTCTCAA
1 TTCAAATCTCAC-ATATACATATTTTTATTAGTTTTTT-AAGTGAAAAGACTAAAATACTCTCAA
* * *
10621402 ATAATATTACTTATTTTAATTACGAAAGGGCATTCTCGTGACTTCCTAACCAAGTTGATGACTCG
64 ATAATATTACTTATTTTAATTACAAAAGGACATTCTCGTAACTTCCTAACCAAGTTG-TGACTCG
* * **
10621467 GTTGAGGGTGACAATGACTCAA-CCAAGAGCTTAAATTATAGTATAG-AAGTAGAGATATACAA-
128 GTTAAGGGTGACAACGACTCAATAAAAGAG-TT-AA--ATA--ATAGCAAGTAGAGATATACAAC
* * * *****
10621529 TCGATGAAGGTAATAAAGTGTGCATAATAAAATTAAAATGTATAAAATTTTTTTTTTTAACTT-T
187 T-GATAAAGGTAATAAAGTGTGCATAATAAAATTAAAATGTATAAAA--ATATAAAAAAACTTGT
* * * *
10621593 AGTTGAATGATAAATTAAAGGTTTTATTAATGCAATTGGTGTGGA
249 AGTTGAATGATAAATTAAAGGTTTAACTAAAGCAATTGGTGTGAA
* * * * * *
10621638 TTCAAACTTTGC-CATATGCATATATTTATTGGTTTTTTAAGTGAAAAGACTATAATGCTCTCAA
1 TTCAAA-TCT-CACATATACATATTTTTATTAGTTTTTTAAGTGAAAAGACTAAAATACTCTCAA
* * * * * *
10621702 ATAATATTACTTATTTTAATTAAATATTATGAAAGGGCATTCTCATAACTTCTTAATCGAGTTTG
64 ATAATATTACTTATTTTAA-T---TA-CA--AAAGGACATTCTCGTAACTTCCTAACCAAG-TT-
* * * * * *
10621767 GTGACGCGATTAAGGGTGACACCAATTCAAT-CAAGAGCTTAAATAATA--ATA-TA-A-ATATA
120 GTGACTCGGTTAAGGGTGACAACGACTCAATAAAAGAG-TTAAATAATAGCA-AGTAGAGATATA
* * * * *
10621826 CAACTAATAGAGGTAATAAATTGTACATAATAAAATTAAAATGTATAAAAATATTAATAAAAAGT
183 CAACTGATAAAGGTAATAAAGTGTGCATAATAAAATTAAAATGTATAAAAATA-TAA-AAAAACT
*
10621891 TTTAGTTGA
246 TGTAGTTGA
10621900 TAGAAGTTTT
Statistics
Matches: 462, Mismatches: 69, Indels: 54
0.79 0.12 0.09
Matches are distributed among these distances:
292 10 0.02
293 24 0.05
294 78 0.17
295 27 0.06
296 2 0.00
298 5 0.01
299 58 0.13
300 157 0.34
301 27 0.06
302 4 0.01
303 4 0.01
304 2 0.00
305 3 0.01
307 27 0.06
308 33 0.07
309 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.35
Consensus pattern (293 bp):
TTCAAATCTCACATATACATATTTTTATTAGTTTTTTAAGTGAAAAGACTAAAATACTCTCAAAT
AATATTACTTATTTTAATTACAAAAGGACATTCTCGTAACTTCCTAACCAAGTTGTGACTCGGTT
AAGGGTGACAACGACTCAATAAAAGAGTTAAATAATAGCAAGTAGAGATATACAACTGATAAAGG
TAATAAAGTGTGCATAATAAAATTAAAATGTATAAAAATATAAAAAAACTTGTAGTTGAATGATA
AATTAAAGGTTTAACTAAAGCAATTGGTGTGAA
Found at i:10629241 original size:22 final size:21
Alignment explanation
Indices: 10629212--10629278 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
10629202 TGCACTAATG
10629212 AACAGAGAGCACCGAAGTGCT
1 AACAGAGAGCACCGAAGTGCT
* *
10629233 ATACAGAGAGCACAGATGTGCT
1 A-ACAGAGAGCACCGAAGTGCT
10629255 AATCAGAGAGCACC-AACGTGCT
1 AA-CAGAGAGCACCGAA-GTGCT
10629277 AA
1 AA
10629279 TAATCAGATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 3 0.08
22 36 0.92
ACGTcount: A:0.39, C:0.22, G:0.25, T:0.13
Consensus pattern (21 bp):
AACAGAGAGCACCGAAGTGCT
Found at i:10636194 original size:3 final size:3
Alignment explanation
Indices: 10636186--10636210 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10636176 TGCACACCAC
10636186 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
10636211 TGCTTTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:10644487 original size:11 final size:11
Alignment explanation
Indices: 10644471--10644501 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
10644461 ATACCCATAC
10644471 CCCATACCTTG
1 CCCATACCTTG
*
10644482 CCCATACCTTT
1 CCCATACCTTG
10644493 CCCATACCT
1 CCCATACCT
10644502 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:10645073 original size:18 final size:18
Alignment explanation
Indices: 10645044--10645136 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
10645034 TACGATCGTT
*
10645044 TACGGTACTATTCACGTA
1 TACGGAACTATTCACGTA
* *
10645062 TACGGCATTATTCACGTA
1 TACGGAACTATTCACGTA
*
10645080 TACGGTACTATTCACGTA
1 TACGGAACTATTCACGTA
10645098 TACGGAACTATTCACGTA
1 TACGGAACTATTCACGTA
* **
10645116 TACGGTACTGCTCACGTA
1 TACGGAACTATTCACGTA
10645134 TAC
1 TAC
10645137 AGTAGTTGGG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (18 bp):
TACGGAACTATTCACGTA
Found at i:10645091 original size:36 final size:36
Alignment explanation
Indices: 10645044--10645136 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
10645034 TACGATCGTT
* *
10645044 TACGGTACTATTCACGTATACGGCATTATTCACGTA
1 TACGGTACTATTCACGTATACGGAACTATTCACGTA
10645080 TACGGTACTATTCACGTATACGGAACTATTCACGTA
1 TACGGTACTATTCACGTATACGGAACTATTCACGTA
**
10645116 TACGGTACTGCTCACGTATAC
1 TACGGTACTATTCACGTATAC
10645137 AGTAGTTGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGAACTATTCACGTA
Found at i:10649206 original size:11 final size:11
Alignment explanation
Indices: 10649190--10649220 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
10649180 ATACCCATAC
10649190 CCCATACCTTG
1 CCCATACCTTG
*
10649201 CCCATACCTTT
1 CCCATACCTTG
10649212 CCCATACCT
1 CCCATACCT
10649221 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:10654424 original size:124 final size:125
Alignment explanation
Indices: 10654243--10654487 Score: 352
Period size: 124 Copynumber: 2.0 Consensus size: 125
10654233 AAATAGTGGG
** * *
10654243 AAATCGCTTCTACCAAGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAAGATGCTATATAAGAAGAAATTGTGAAATAGTCGCCTCGTGGACGCGATT
*
10654308 TCGCTACAG-TGGTCATGTAAGAAATGA-TTTTTTTTGACGTTTTCTGAGCAAATAATATA
66 TCGCTACAGTTGGTCATGTAAGAAATAATTTTTTTTTGACG-TTTCTGAGCAAATAATATA
* * * *
10654367 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCG-CGCTCTTGTGGACGCGAT
1 AAATCGCTGATACCAAGATGCTATATAAGAAGAAATTGTGAAATAGTCGC-CTCGTGGACGCGAT
*
10654431 TTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTTTGACGTTTCTGAGCAAATA
65 TTCGCTACAGTTGGTCATGTAAGAAATAA-TTTTTTTTTGACGTTTCTGAGCAAATA
10654488 GTGCCAAATC
Statistics
Matches: 107, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
123 2 0.02
124 63 0.59
125 16 0.15
126 14 0.13
127 12 0.11
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (125 bp):
AAATCGCTGATACCAAGATGCTATATAAGAAGAAATTGTGAAATAGTCGCCTCGTGGACGCGATT
TCGCTACAGTTGGTCATGTAAGAAATAATTTTTTTTTGACGTTTCTGAGCAAATAATATA
Found at i:10657899 original size:28 final size:29
Alignment explanation
Indices: 10657718--10658412 Score: 573
Period size: 23 Copynumber: 26.3 Consensus size: 29
10657708 GGTTTTTACA
10657718 TTAATTAAATTAGGTTAGGGTTAGGGATTT
1 TTAATTAAATTAGGTTAGGGTTAGGG-TTT
** * ** * * *
10657748 CAAATAAAATGATAAATCAGGGTAAGAGTTT
1 TTAATTAAAT--TAGGTTAGGGTTAGGGTTT
*
10657779 TTAATTAAATTAGGTTAGGGTTAGGGATT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10657808 TTAATTAAAATAGGTTAGGGTTAGGG-TT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* * *
10657836 TTCATGTAAAATAGGTTAGGGTTGGGGTTT
1 TTAAT-TAAATTAGGTTAGGGTTAGGGTTT
*
10657866 TTAATTAAATTAGGTTA-GGTTAGGGATT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10657894 TCAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
10657923 TTAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
10657952 TTAATT--A--A-G-TAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
10657975 TTAATTAAATTA---T---GTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
10657998 TTAATTTAATTAAGTTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
10658026 TTAATT-AA--A--TTA-GGTTAGGG-TT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10658048 TTAATTAAATTATGTTAGGGTTA-GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
10658076 TTAATT--A--A-G-TAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10658099 TTAATTAAGTTA---TA---TTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
10658122 TTAATTTAATTAAGTTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10658150 TTAATT--A--A-GTTA-TGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
10658173 TTAATTAAATTAGGTTA----T--GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
10658196 TTAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
10658225 TTAATT--A--A-G-TAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
10658248 TTAATT--A--A-GTTA-TGTTATGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* * *
10658271 TTAATTTAATTAAGTTA-GGTTAGGTTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10658299 TTAATT--A--A-GTTA-TGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
10658322 TTAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
10658351 TTAATT--A--A-G-TAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10658374 TTAATTAAATTAGGTTAGGATTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10658403 TTAATCAAAT
1 TTAATTAAAT
10658413 AATGTCAAAA
Statistics
Matches: 563, Mismatches: 42, Indels: 121
0.78 0.06 0.17
Matches are distributed among these distances:
22 16 0.03
23 204 0.36
24 8 0.01
25 11 0.02
26 9 0.02
27 17 0.03
28 102 0.18
29 162 0.29
30 13 0.02
31 10 0.02
32 11 0.02
ACGTcount: A:0.30, C:0.01, G:0.24, T:0.45
Consensus pattern (29 bp):
TTAATTAAATTAGGTTAGGGTTAGGGTTT
Found at i:10658027 original size:51 final size:52
Alignment explanation
Indices: 10657775--10658392 Score: 501
Period size: 51 Copynumber: 12.0 Consensus size: 52
10657765 CAGGGTAAGA
* * * *
10657775 GTTTTTAATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGG
1 GTTTTTAATTTAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
* * * * *
10657827 GTTAGGGTTTTCATGTAAAATAGGTTAGGGTTGGGGTTTTTAATTAAATTAGGTTA-G
1 G-T----TTTTAAT-TTAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
* *
10657884 GTTAGGGATTTCAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTT-----TTT-AATTTAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
* *
10657942 GTTAGGGTT--TTTAATTAAG-TAGGGTTAGGGTTTTTAATTAAATTATGTTAGG
1 GTT---TTTAATTTAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
10657994 GTTTTTAATTTAATTAAGTTA-GGTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTTAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
* * *
10658045 G-TTTTAATTAAATTATGTTAGGGTTA-GGTTTTTAATT-AAGTAGGGTTAGG
1 GTTTTTAATTTAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTA-GGTTAGG
* *
10658095 GTTTTTAA-TTAAGTTATA-TTAGGGTT---TTTAATTTAATTAAGTTAGGTTAGG
1 GTTTTTAATTTAA-TTA-AGTTAGGGTTAGGGTT--TTTAATTAAATTAGGTTAGG
* *
10658146 G---TT--TTTAATTAAGTTA-TGTTAGGGTTTTTAATTAAATTAGGTTATG
1 GTTTTTAATTTAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
* * *
10658192 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT-AAGTAGGGTTAGG
1 GTTTTTAATTTAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTA-GGTTAGG
* * * *
10658244 G---TT--TTTAATTAAGTTA-TGTTATGGTTTTTAATTTAATTAAGTTA-G
1 GTTTTTAATTTAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
*
10658289 GTTAGGTTT--TTTAATTAAGTTA-TGTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTT---TTTAATTTAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
*
10658341 GTTAGGGTT--TTTAATTAAG-TAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTT---TTTAATTTAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
10658393 ATTAGGGTTT
Statistics
Matches: 477, Mismatches: 44, Indels: 90
0.78 0.07 0.15
Matches are distributed among these distances:
45 6 0.01
46 44 0.09
47 19 0.04
48 4 0.01
49 12 0.03
50 39 0.08
51 134 0.28
52 113 0.24
53 9 0.02
56 4 0.01
57 50 0.10
58 43 0.09
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (52 bp):
GTTTTTAATTTAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
Found at i:10660568 original size:14 final size:15
Alignment explanation
Indices: 10660551--10660584 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10660541 AATAAATATC
10660551 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
10660565 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
10660580 TAAAA
1 TAAAA
10660585 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:10660809 original size:22 final size:22
Alignment explanation
Indices: 10660779--10660820 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10660769 ATTTGGAGAT
*
10660779 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
10660801 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
10660821 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:10660828 original size:30 final size:30
Alignment explanation
Indices: 10660792--10660850 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
10660782 TTGAAGGAAA
* *
10660792 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
10660822 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
10660851 AAATTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:10660841 original size:52 final size:51
Alignment explanation
Indices: 10660770--10660872 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 51
10660760 TTAATATGGA
* * *
10660770 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
10660821 TTTGAGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
10660873 AATTTTTGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 4 0.09
52 33 0.72
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.32
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:10660847 original size:22 final size:22
Alignment explanation
Indices: 10660822--10660913 Score: 125
Period size: 22 Copynumber: 4.2 Consensus size: 22
10660812 ATTTGAGAGT
10660822 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
*
10660844 TTGAGAGAAATTTT-GAAGGGAA
1 TTGAGAG-AATTTTGGAAGGAAA
*
10660866 TTGAGAGAATTTTTGAAAGG-AA
1 TTGAGAGAA-TTTTGGAAGGAAA
*
10660888 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
10660910 TTGA
1 TTGA
10660914 TATTGAATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
21 10 0.16
22 42 0.68
23 10 0.16
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.30
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:10660871 original size:44 final size:44
Alignment explanation
Indices: 10660822--10660913 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
10660812 ATTTGAGAGT
* *
10660822 TTGAGAGAA-TTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAAGG-AATTGAGAGAAATTTTGAAGGAAA
*
10660866 TTGAGAGAATTTTTGAAAGGAATTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAAGGAATTGAGAGAAATTTTGAAGGAAA
10660910 TTGA
1 TTGA
10660914 TATTGAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 35 0.80
45 9 0.20
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.30
Consensus pattern (44 bp):
TTGAGAGAATTTTTGAAAGGAATTGAGAGAAATTTTGAAGGAAA
Found at i:10671740 original size:30 final size:32
Alignment explanation
Indices: 10671681--10671740 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
10671671 ATATATTATA
* * *
10671681 ATATTATATCTTAATTATTAAGTATATATATT
1 ATATTATATATTAATTAATAAGTAAATATATT
10671713 ATATTATATATT-A-TAATAAGTAAATATA
1 ATATTATATATTAATTAATAAGTAAATATA
10671741 ATAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.52
31 1 0.04
32 11 0.44
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (32 bp):
ATATTATATATTAATTAATAAGTAAATATATT
Found at i:10671740 original size:32 final size:33
Alignment explanation
Indices: 10671667--10671740 Score: 80
Period size: 35 Copynumber: 2.2 Consensus size: 33
10671657 CTTAAAGTTA
* *
10671667 AAATATATATTATAATATTATATCTTAATTATT
1 AAATATATATTATAATATTATATCTTAATAAGT
*
10671700 AAGTATATATATTATATTA-TATAT-TATAATAAGT
1 AA--ATATATATTATAATATTATATCT-TAATAAGT
10671734 AAATATA
1 AAATATA
10671741 ATAAATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
32 5 0.14
33 3 0.09
34 13 0.37
35 14 0.40
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (33 bp):
AAATATATATTATAATATTATATCTTAATAAGT
Found at i:10675044 original size:44 final size:44
Alignment explanation
Indices: 10674981--10675079 Score: 180
Period size: 44 Copynumber: 2.2 Consensus size: 44
10674971 ACTTCTGATC
10674981 AGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACA
1 AGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACA
*
10675025 AGTGATAAGTGGTAGCTTTAGCTTCACTTATCTGATCAGTGACA
1 AGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACA
*
10675069 AGTGACAAGTG
1 AGTGATAAGTG
10675080 ATAAGTGATA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (44 bp):
AGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACA
Found at i:10675124 original size:57 final size:57
Alignment explanation
Indices: 10675013--10675202 Score: 308
Period size: 57 Copynumber: 3.3 Consensus size: 57
10675003 TGCACTTATC
* * *
10675013 TGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTTCACTTATCTGATCAGTGACAAG
1 TGATAAGTGATAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACAAG
* *
10675071 TGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATTAGTGACAAG
1 TGATAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAG
10675128 TGATAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAG
1 TGATAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAG
* *
10675185 AGATAAATGATAAGTGAT
1 TGATAAGTGATAAGTGAT
10675203 TCCATGTAAG
Statistics
Matches: 123, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
57 98 0.80
58 25 0.20
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (57 bp):
TGATAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAG
Found at i:10675135 original size:7 final size:7
Alignment explanation
Indices: 10675114--10675150 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
10675104 TACACTTATC
*
10675114 TGATTAG
1 TGATAAG
*
10675121 TGACAAG
1 TGATAAG
10675128 TGATAAG
1 TGATAAG
10675135 TGATAAG
1 TGATAAG
10675142 TGATAAG
1 TGATAAG
10675149 TG
1 TG
10675151 GTAGCTTAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.38, C:0.03, G:0.30, T:0.30
Consensus pattern (7 bp):
TGATAAG
Found at i:10676843 original size:41 final size:39
Alignment explanation
Indices: 10676798--10676931 Score: 112
Period size: 40 Copynumber: 3.4 Consensus size: 39
10676788 ACTTCAAGTC
*
10676798 GATGAGACACTGGGTGTCAATTTATTACTTCGGATTAATTT
1 GATGAGACACTGGGTGTCAA-TTATTACTTCGGATT-ATCT
* * * *
10676839 GATGATG-CACTAGGTGCCAA-T-TTACTTCGGTTTAGCT
1 GATGA-GACACTGGGTGTCAATTATTACTTCGGATTATCT
* * * * *
10676876 GATGAGACATTGGGTATCAAATTATTACTTTGAATTATCC
1 GATGAGACACTGGGTGTC-AATTATTACTTCGGATTATCT
*
10676916 GATGAGGCACTGGGTG
1 GATGAGACACTGGGTG
10676932 CCAAACTGAT
Statistics
Matches: 71, Mismatches: 17, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
36 1 0.01
37 14 0.20
38 13 0.18
39 2 0.03
40 24 0.34
41 16 0.23
42 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (39 bp):
GATGAGACACTGGGTGTCAATTATTACTTCGGATTATCT
Found at i:10678570 original size:60 final size:60
Alignment explanation
Indices: 10678480--10678598 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 60
10678470 ATTTTTGAAA
* * * * **
10678480 TTTTTAGAATTATAATTAAATTGACAAATTTTATAAATGTTGAGGGTTAAATTTATTAAT
1 TTTTTAGAATTATAACTAAAATGACAAATTTTATAAATATTAACAGTTAAATTTATTAAT
10678540 TTTTTAGAATT-TGAACTAAAATGACAAATTTTATAAATATTAACAGTTAAATTTATTAA
1 TTTTTAGAATTAT-AACTAAAATGACAAATTTTATAAATATTAACAGTTAAATTTATTAA
10678599 ATTTAAAGTC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 1 0.02
60 51 0.98
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (60 bp):
TTTTTAGAATTATAACTAAAATGACAAATTTTATAAATATTAACAGTTAAATTTATTAAT
Found at i:10678604 original size:22 final size:21
Alignment explanation
Indices: 10678564--10678619 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
10678554 ACTAAAATGA
10678564 CAAATTTTATAAATATTAACAGT
1 CAAA-TTTATAAATATTAA-AGT
*
10678587 TAAATTTATTAAAT-TTAAAGT
1 CAAATTTA-TAAATATTAAAGT
*
10678608 CAAATTAATAAA
1 CAAATTTATAAA
10678620 ATAGGTAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 4 0.14
21 9 0.31
22 8 0.28
23 8 0.28
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (21 bp):
CAAATTTATAAATATTAAAGT
Found at i:10684887 original size:29 final size:28
Alignment explanation
Indices: 10684855--10684915 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
10684845 AAAGGCTGGT
10684855 TTTTTTCAA-AATTTACCGAAATGGGCCGA
1 TTTTTT-AATAATTTACCGAAATGGGCC-A
* *
10684884 TTTTTTAATTATTTACCGGAATGGGCCA
1 TTTTTTAATAATTTACCGAAATGGGCCA
10684912 TTTT
1 TTTT
10684916 CCTCGAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.24
29 22 0.76
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (28 bp):
TTTTTTAATAATTTACCGAAATGGGCCA
Found at i:10687928 original size:181 final size:174
Alignment explanation
Indices: 10687621--10687971 Score: 472
Period size: 181 Copynumber: 2.0 Consensus size: 174
10687611 CATATATATA
* * *
10687621 TTTATCTATTTAACCAGCTTTCAGCGACTAATATTTTTTTCAGCTTGCACATGTGTCTTGTGAGC
1 TTTATCTATTTAACAAGCTTTCAGCAACTAATATTTTTTTCAGCTTGCACACGTGTCTTGTGAGC
* * * *
10687686 ACTTGAATTCATCAAAAGACATTACAGAAGAAATTCTTTTATCATGTTCTTGGTTGCATCACCTA
66 ACATGAATTCATCAAAAGACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATCACCTA
* * * *
10687751 TTAAGGAAACATATATTTCCTTAGTATGTCTCTCAATAAGGCATTTCT
131 TTAA-G-AA-A-ACATTTCATTAGCATGTCTCTCAATAAAGCATTTCT
* *
10687799 TTTATCTATTTAACAAGCTTTCTA-CAAGTAA-ATTTTTCCTTCATCTTGCAGGCACGTGTCTTG
1 TTTATCTATTTAACAAGCTTTC-AGCAACTAATATTTTT--TTCAGCTTGCA--CACGTGTCTTG
* *
10687862 TGAGTACATGAATTCATCTAAAGACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATC
61 TGAGCACATGAATTCATCAAAAGACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATC
10687927 ACCTATTAAGAAAACATTTCATTAGCATGTCTCTCAATAAAGCAT
126 ACCTATTAAGAAAACATTTCATTAGCATGTCTCTCAATAAAGCAT
10687972 CTTTTTTTGG
Statistics
Matches: 153, Mismatches: 15, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
177 34 0.22
178 27 0.18
179 13 0.08
180 1 0.01
181 78 0.51
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (174 bp):
TTTATCTATTTAACAAGCTTTCAGCAACTAATATTTTTTTCAGCTTGCACACGTGTCTTGTGAGC
ACATGAATTCATCAAAAGACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATCACCTA
TTAAGAAAACATTTCATTAGCATGTCTCTCAATAAAGCATTTCT
Found at i:10697452 original size:81 final size:82
Alignment explanation
Indices: 10697365--10697539 Score: 257
Period size: 81 Copynumber: 2.2 Consensus size: 82
10697355 GGGGCGAAAT
* *
10697365 TTTTTAGGGGGTC-GGAATTAAATTATAATTTTTATGATTGTAAAAATATAATTATTAAA-GTAT
1 TTTTTAGGGGGTCTGAAATTAAATTATAATTTTTACGATTGTAAAAATATAATTATTAAATG-AT
*
10697428 TAACTAAAAAATTTATCA
65 TAAATAAAAAATTTATCA
* *
10697446 TTTTTAGGCGG-CTGAAATTAAATTATAATTTTTACGATTGTAAAAATATAATTGTTAAATGATT
1 TTTTTAGGGGGTCTGAAATTAAATTATAATTTTTACGATTGTAAAAATATAATTATTAAATGATT
* *
10697510 AAATCAAAATTTTATCA
66 AAATAAAAAATTTATCA
10697527 TTTTTAGGGGGTC
1 TTTTTAGGGGGTC
10697540 AAAATGTAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
80 1 0.01
81 80 0.96
82 2 0.02
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (82 bp):
TTTTTAGGGGGTCTGAAATTAAATTATAATTTTTACGATTGTAAAAATATAATTATTAAATGATT
AAATAAAAAATTTATCA
Found at i:10698234 original size:31 final size:31
Alignment explanation
Indices: 10698184--10698254 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
10698174 AAAAAAAACT
* *
10698184 AATTTCACT-TTTTTTAAATGTTAATG-GTCA
1 AATTTAACTCTTTTTAAAATGTTAA-GAGTCA
* *
10698214 AATTTGACTCTTTTTAAAATGTTGAGAGTCA
1 AATTTAACTCTTTTTAAAATGTTAAGAGTCA
10698245 AATTTAACTC
1 AATTTAACTC
10698255 AAGAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 9 0.26
31 26 0.74
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (31 bp):
AATTTAACTCTTTTTAAAATGTTAAGAGTCA
Found at i:10707954 original size:4 final size:4
Alignment explanation
Indices: 10707945--10707999 Score: 110
Period size: 4 Copynumber: 13.8 Consensus size: 4
10707935 GAAATCAATT
10707945 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
10707993 ATAC ATA
1 ATAC ATA
10708000 TAAATGAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:10710121 original size:45 final size:45
Alignment explanation
Indices: 10710053--10710146 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
10710043 AACAAATACT
* * *
10710053 CGGTGGATTCAACACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTC
* * *
10710098 CGGTGGAATCAGCACATAACAACCACCTTACTAATTAATGATGTT
1 CGGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTC
10710143 CGGT
1 CGGT
10710147 TCACATAGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTC
Found at i:10710210 original size:51 final size:51
Alignment explanation
Indices: 10710148--10710288 Score: 194
Period size: 51 Copynumber: 2.8 Consensus size: 51
10710138 ATGTTCGGTT
* * *
10710148 CACATAGTAGCCTGCACATAGTACTATACATGTGACCATTACCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCCGATA
* * * *
10710199 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATAACCATCCGATA
*
10710250 CGCATAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
10710289 CACTTTCACT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
50 2 0.03
51 74 0.95
52 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCCGATA
Found at i:10712883 original size:16 final size:15
Alignment explanation
Indices: 10712862--10712903 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
10712852 ATTAACACTA
*
10712862 AAAAATTTAAAATTTT
1 AAAAATCTAAAA-TTT
*
10712878 AAAAATCTAATATTT
1 AAAAATCTAAAATTT
10712893 -AAAATCTAAAA
1 AAAAATCTAAAA
10712904 CAACAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 10 0.43
15 3 0.13
16 10 0.43
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAAATCTAAAATTT
Found at i:10713446 original size:49 final size:48
Alignment explanation
Indices: 10713346--10713451 Score: 146
Period size: 49 Copynumber: 2.2 Consensus size: 48
10713336 GGGTGGCCCA
10713346 ACAATGAT-GACTTTCACTATTTACATTCTATCATCCTGAGTGGTCCG
1 ACAATGATGGACTTTCACTATTTACATTCTATCATCCTGAGTGGTCCG
* *
10713393 ACAATGATGGA-TTTCACTATTTGCATATTTTATCATCCTGAGT-GTCCTG
1 ACAATGATGGACTTTCACTATTT--ACATTCTATCATCCTGAGTGGTCC-G
10713442 ACAATGATGG
1 ACAATGATGG
10713452 TTTTAAATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
47 19 0.36
48 6 0.11
49 28 0.53
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (48 bp):
ACAATGATGGACTTTCACTATTTACATTCTATCATCCTGAGTGGTCCG
Found at i:10717472 original size:2 final size:2
Alignment explanation
Indices: 10717467--10717502 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10717457 TATATGTTTA
10717467 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
10717503 AGGAATTCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:10719937 original size:42 final size:42
Alignment explanation
Indices: 10719857--10719996 Score: 176
Period size: 42 Copynumber: 3.3 Consensus size: 42
10719847 TCCCAGATGT
* *
10719857 GGTCTTACATGTAATCAAATAACGATGCCACTGTCCCAGACAG
1 GGTCTTACACGTAATCAAAT-ACGATGCCAATGTCCCAGACAG
* *
10719900 GGTCTTACACGTAATCATATACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATCAAATACGATGCCAATGTCCCAGACAG
*
10719942 GATCTTACACGTAAATCTAAAATA-GATGCCAATGTCCCAGAC-G
1 GGTCTTACACGT-AATC--AAATACGATGCCAATGTCCCAGACAG
10719985 TGGTCTTACACG
1 -GGTCTTACACG
10719997 ATATCACATA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
42 31 0.36
43 22 0.26
44 28 0.33
45 4 0.05
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATACGATGCCAATGTCCCAGACAG
Found at i:10719982 original size:44 final size:42
Alignment explanation
Indices: 10719838--10719996 Score: 185
Period size: 43 Copynumber: 3.7 Consensus size: 42
10719828 AGCTCGTACA
** ** *
10719838 ATGCCAACATCCCAGATGTGGTCTTACATGTAATCAAATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAAT-ACG
* * *
10719881 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCATATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATACG
*
10719923 ATGCCAATGTCCCAGACATGATCTTACACGTAAATCTAAAATA-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGT-AATC--AAATACG
*
10719967 ATGCCAATGTCCCAGACGTGGTCTTACACG
1 ATGCCAATGTCCCAGACATGGTCTTACACG
10719997 ATATCACATA
Statistics
Matches: 99, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
42 31 0.31
43 35 0.35
44 29 0.29
45 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATACG
Found at i:10721089 original size:13 final size:13
Alignment explanation
Indices: 10721071--10721095 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10721061 ACAAACGATA
10721071 AAATTTTCACACG
1 AAATTTTCACACG
10721084 AAATTTTCACAC
1 AAATTTTCACAC
10721096 ATTTTAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:10721577 original size:20 final size:18
Alignment explanation
Indices: 10721527--10721578 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
10721517 CTACAAGATA
10721527 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
10721544 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
*
10721564 AGTATTAAATTAATA
1 AATATTAAATTAATA
10721579 AAATATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 11 0.38
18 1 0.03
19 3 0.10
20 14 0.48
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:10721638 original size:68 final size:71
Alignment explanation
Indices: 10721494--10721638 Score: 163
Period size: 68 Copynumber: 2.1 Consensus size: 71
10721484 TATTAAATCT
*
10721494 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAAATTTAATATTAAGATAATC
1 TATTAAATTAATAAAATATTTATCTA-AAGATAAATATTAAATTAAATTTAATATTAAGATAATC
*** *
10721559 ACTTTAG
65 AAAATAA
** * *
10721566 TATTAAATTAATAAAATATTT-T-T-AAGATACGTATTAAATTAAATTTAATATTAA-ATCTATT
1 TATTAAATTAATAAAATATTTATCTAAAGATAAATATTAAATTAAATTTAATATTAAGAT-AATC
10721627 AAAATAA
65 AAAATAA
10721634 TATTA
1 TATTA
10721639 TTTTTGGAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
67 2 0.03
68 39 0.62
70 1 0.02
71 1 0.02
72 20 0.32
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (71 bp):
TATTAAATTAATAAAATATTTATCTAAAGATAAATATTAAATTAAATTTAATATTAAGATAATCA
AAATAA
Found at i:10723843 original size:25 final size:25
Alignment explanation
Indices: 10723815--10723901 Score: 113
Period size: 25 Copynumber: 3.5 Consensus size: 25
10723805 ACAAACTATA
10723815 AACGGGAAGCTCCTTCGAGCTGAAT
1 AACGGGAAGCTCCTTCGAGCTGAAT
*
10723840 AACGGGAAGCT-CTTGCGAGCTGTAT
1 AACGGGAAGCTCCTT-CGAGCTGAAT
* * *
10723865 AACAGGAAGCTCATGCGAGCTGAAT
1 AACGGGAAGCTCCTTCGAGCTGAAT
*
10723890 AACGAGAAGCTC
1 AACGGGAAGCTC
10723902 ATTTGAGAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
24 3 0.06
25 49 0.92
26 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.29, T:0.18
Consensus pattern (25 bp):
AACGGGAAGCTCCTTCGAGCTGAAT
Found at i:10734223 original size:47 final size:48
Alignment explanation
Indices: 10734171--10734340 Score: 150
Period size: 47 Copynumber: 3.5 Consensus size: 48
10734161 TGGTTGGACC
* *
10734171 ATGGCAACA-TGTGATATGTGATTTTCGTATAAGACCATAATTGGGAT
1 ATGGCATCAGTGTGATATGTGATTTTCGTATAAGACTATAATTGGGAT
* * *
10734218 ATGGCATC-GATGTGATGTGATTATGAGTTTCCGTATAAGACTATATTTGGGAT
1 ATGGCATCAG-TGTGA--T-A-TGTGA-TTTTCGTATAAGACTATAATTGGGAT
* * ** * *
10734271 ATGGCATTAGTGTGATATGTGCTACT-GTGTAGGACTAT-ATCTGGGAT
1 ATGGCATCAGTGTGATATGTGATTTTCGTATAAGACTATAAT-TGGGAT
10734318 ATGGCATCAGTGTGATATGTGAT
1 ATGGCATCAGTGTGATATGTGAT
10734341 CCGTATAAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
46 1 0.01
47 44 0.45
48 6 0.06
49 3 0.03
50 2 0.02
51 2 0.02
52 4 0.04
53 35 0.36
54 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.36
Consensus pattern (48 bp):
ATGGCATCAGTGTGATATGTGATTTTCGTATAAGACTATAATTGGGAT
Found at i:10734285 original size:53 final size:53
Alignment explanation
Indices: 10734179--10734286 Score: 139
Period size: 53 Copynumber: 2.0 Consensus size: 53
10734169 CCATGGCAAC
* * *
10734179 ATGTGATATGTGATTTTCGTATAAGACCATAATTGGGATATGGCATCGATGTG
1 ATGTGATATGAGATTTCCGTATAAGACCATAATTGGGATATGGCATAGATGTG
* *
10734232 ATGTGATTATGAG-TTTCCGTATAAGACTATATTTGGGATATGGCATTAG-TGTG
1 ATGTGA-TATGAGATTTCCGTATAAGACCATAATTGGGATATGGCA-TAGATGTG
10734285 AT
1 AT
10734287 ATGTGCTACT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 41 0.85
54 7 0.15
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (53 bp):
ATGTGATATGAGATTTCCGTATAAGACCATAATTGGGATATGGCATAGATGTG
Found at i:10734485 original size:33 final size:32
Alignment explanation
Indices: 10734353--10734489 Score: 94
Period size: 33 Copynumber: 4.1 Consensus size: 32
10734343 GTATAAAACT
10734353 ATAGCTGGACTATGGCATTCTGATGATAAGACC
1 ATAGCTGGACTATGGCATTCTGATG-TAAGACC
* ** * * * *
10734386 ATAACTGGGTTATGGCACTATGAACGTAAGATC
1 ATAGCTGGACTATGGCATTCTG-ATGTAAGACC
* * * * * *
10734419 ATGGTTGGATTATGACAGTGTTTATATGTAAGACC
1 ATAGCTGGACTATGGCA-T-TCT-GATGTAAGACC
*
10734454 ATAGCTGGCCTATGGCATTCTGATGATAAGACC
1 ATAGCTGGACTATGGCATTCTGATG-TAAGACC
10734487 ATA
1 ATA
10734490 ACTAAGTTAT
Statistics
Matches: 75, Mismatches: 24, Indels: 10
0.69 0.22 0.09
Matches are distributed among these distances:
32 3 0.04
33 47 0.63
34 3 0.04
35 22 0.29
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (32 bp):
ATAGCTGGACTATGGCATTCTGATGTAAGACC
Found at i:10734546 original size:24 final size:24
Alignment explanation
Indices: 10734509--10734559 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
10734499 TGGCACTACG
10734509 AATGTAAAGAATGAATTAACGGAA
1 AATGTAAAGAATGAATTAACGGAA
* *
10734533 AATGTAAA-AGATGAATTGACGGCA
1 AATGTAAAGA-ATGAATTAACGGAA
10734557 AAT
1 AAT
10734560 TACCCAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.51, C:0.06, G:0.22, T:0.22
Consensus pattern (24 bp):
AATGTAAAGAATGAATTAACGGAA
Found at i:10742727 original size:57 final size:57
Alignment explanation
Indices: 10742650--10742758 Score: 175
Period size: 57 Copynumber: 1.9 Consensus size: 57
10742640 GATCCTATCC
*
10742650 TGATATAGCCCTCCCAAAGAATATGTGTGAAAA-AGATCTAGCCCGGACGGGTGATCT
1 TGATATAGCCCTCCCAAAGAATATGTG-GAAAATAGATCTAGCCCAGACGGGTGATCT
* *
10742707 TGATATAGCCCTCCCGAAGAATATGTGGAAAATAGATTTAGCCCAGACGGGT
1 TGATATAGCCCTCCCAAAGAATATGTGGAAAATAGATCTAGCCCAGACGGGT
10742759 AATTCGAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
56 5 0.10
57 43 0.90
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (57 bp):
TGATATAGCCCTCCCAAAGAATATGTGGAAAATAGATCTAGCCCAGACGGGTGATCT
Found at i:10742990 original size:67 final size:67
Alignment explanation
Indices: 10742882--10743016 Score: 216
Period size: 67 Copynumber: 2.0 Consensus size: 67
10742872 TGAATTTATA
* * *
10742882 TTACAGGGGATTTAGTCTGGACTGGTAATCCCACTGTAAGAAATGAGATTAGCGGGAGTGTGCTC
1 TTACAGGGGATTTAGCCTAGACTGGTAATCCCACTGTAAGAAATGAGATTAGCGAGAGTGTGCTC
10742947 TC
66 TC
* * *
10742949 TTACAGGGGATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATGAGGTTTGCGAGAGTGTGCTC
1 TTACAGGGGATTTAGCCTAGACTGGTAATCCCACTGTAAGAAATGAGATTAGCGAGAGTGTGCTC
10743014 TC
66 TC
10743016 T
1 T
10743017 GAATTGGAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (67 bp):
TTACAGGGGATTTAGCCTAGACTGGTAATCCCACTGTAAGAAATGAGATTAGCGAGAGTGTGCTC
TC
Found at i:10760072 original size:18 final size:18
Alignment explanation
Indices: 10760051--10760089 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
10760041 TATATCTATT
10760051 ATACATTATAAACTATAA
1 ATACATTATAAACTATAA
10760069 ATACATTATAAACTATAA
1 ATACATTATAAACTATAA
10760087 ATA
1 ATA
10760090 TATCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (18 bp):
ATACATTATAAACTATAA
Found at i:10761693 original size:41 final size:41
Alignment explanation
Indices: 10761631--10761905 Score: 487
Period size: 41 Copynumber: 6.7 Consensus size: 41
10761621 CTTAATTTAA
* *
10761631 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
10761673 CAAATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* *
10761714 TAGATCACCGGCACTTAGCCTGCTAGGTTCATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
10761755 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
10761796 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
10761837 CAAATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
10761878 CAGATCACCGGCACTTAGCCTGCTAGGT
1 CAGATCACCGGCACTTAGCCTGCTAGGT
10761906 ATAGTCTGAA
Statistics
Matches: 223, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
41 220 0.99
42 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:10771718 original size:23 final size:22
Alignment explanation
Indices: 10771692--10771735 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
10771682 AAAACTTCAC
10771692 CACCAATCAAATCCTAGACCTTT
1 CACCAATCAAATCCTAG-CCTTT
* *
10771715 CACCCATCACATCCTAGCCTT
1 CACCAATCAAATCCTAGCCTT
10771736 CTCTTTACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.30, C:0.41, G:0.05, T:0.25
Consensus pattern (22 bp):
CACCAATCAAATCCTAGCCTTT
Found at i:10790892 original size:20 final size:19
Alignment explanation
Indices: 10790851--10790893 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
10790841 TATTTTTTAC
*
10790851 TTTTTATTTTTAAAATATT
1 TTTTTATTTTTAAAATAAT
10790870 TTTTTATTTTTAAAATAAAT
1 TTTTTATTTTTAAAAT-AAT
10790890 TTTT
1 TTTT
10790894 GGTGTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTATTTTTAAAATAAT
Found at i:10802067 original size:21 final size:21
Alignment explanation
Indices: 10802021--10802067 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
10802011 ATTTACAACT
*
10802021 TTATTTTTAGAAATTTAATCC
1 TTATTTTTAGAAATTTAATCA
* *
10802042 CTATTTCTTAGACATTTAAT-A
1 TTATTT-TTAGAAATTTAATCA
10802063 TTATT
1 TTATT
10802068 AAATTACATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.32, C:0.11, G:0.04, T:0.53
Consensus pattern (21 bp):
TTATTTTTAGAAATTTAATCA
Found at i:10806620 original size:30 final size:30
Alignment explanation
Indices: 10806584--10806649 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
10806574 TGTTAATCGA
** * *
10806584 TAAAAAATTGTAAA-AATTTATGAAAATTAT
1 TAAAAAATACTAAATAA-TTATAAAAATAAT
10806614 TAAAAAATACTAAATAATTATAAAAATAAT
1 TAAAAAATACTAAATAATTATAAAAATAAT
10806644 TAAAAA
1 TAAAAA
10806650 GTGGTCTCGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (30 bp):
TAAAAAATACTAAATAATTATAAAAATAAT
Found at i:10806847 original size:29 final size:29
Alignment explanation
Indices: 10806791--10806846 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
10806781 GTTGTTGAAA
*
10806791 TTTATAAAAAAATGTAATATATTTAAAAT
1 TTTATAAAAAAATGTAATAAATTTAAAAT
10806820 TTTATAAAAAAAT-TAA-AAATTATAAAA
1 TTTATAAAAAAATGTAATAAATT-TAAAA
10806847 ACATATACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 4 0.16
28 8 0.32
29 13 0.52
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (29 bp):
TTTATAAAAAAATGTAATAAATTTAAAAT
Found at i:10836430 original size:20 final size:19
Alignment explanation
Indices: 10836389--10836431 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
10836379 TATTTTTTAC
*
10836389 TTTTTATTTTTAAAATATT
1 TTTTTATTTTTAAAATAAT
10836408 TTTTTATTTTTAAAATAAAT
1 TTTTTATTTTTAAAAT-AAT
10836428 TTTT
1 TTTT
10836432 GGGTTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTATTTTTAAAATAAT
Found at i:10847596 original size:21 final size:21
Alignment explanation
Indices: 10847550--10847596 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
10847540 ATTTACAACT
*
10847550 TTATTTTTAGAAATTTAATCC
1 TTATTTTTAGAAATTTAATCA
* *
10847571 CTATTTCTTAGACATTTAAT-A
1 TTATTT-TTAGAAATTTAATCA
10847592 TTATT
1 TTATT
10847597 AAATTACATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.32, C:0.11, G:0.04, T:0.53
Consensus pattern (21 bp):
TTATTTTTAGAAATTTAATCA
Found at i:10848580 original size:17 final size:18
Alignment explanation
Indices: 10848558--10848591 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10848548 TAAAAATAAT
10848558 TAAAAT-TTAATAAAAAC
1 TAAAATATTAATAAAAAC
*
10848575 TAAAATATTATTAAAAA
1 TAAAATATTAATAAAAA
10848592 AATGTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAATATTAATAAAAAC
Found at i:10868908 original size:40 final size:40
Alignment explanation
Indices: 10868810--10869072 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
10868800 TCCTCGTTCA
* * ** *
10868810 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* *
10868849 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
10868889 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
10868929 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
10868969 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
10869009 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
10869049 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
10869073 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:10876136 original size:43 final size:43
Alignment explanation
Indices: 10876087--10876224 Score: 188
Period size: 43 Copynumber: 3.2 Consensus size: 43
10876077 CGGAAAAAAT
* * * *
10876087 GCCGCTAAAGACTACGACCTTTAGCGGCACTTTTTTCATAAAC
1 GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAAC
*
10876130 GCCGCTAAAGACCACGACCTTTAGCGGCGC-TCTTCCAACAAAC
1 GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCC-ACAAAC
* * *
10876173 GCCGCTAAAGACCACAACCTTTAGCGACGCTTTTCCCACAAAC
1 GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAAC
10876216 GCCGCTAAA
1 GCCGCTAAA
10876225 AATATAATCT
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
42 4 0.05
43 76 0.90
44 4 0.05
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (43 bp):
GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAAC
Found at i:10878986 original size:10 final size:10
Alignment explanation
Indices: 10878971--10879001 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
10878961 CTAATAATGT
10878971 AAGTTAAGCA
1 AAGTTAAGCA
10878981 AAGTTAAGCA
1 AAGTTAAGCA
*
10878991 AAGTCAAGCA
1 AAGTTAAGCA
10879001 A
1 A
10879002 GTCCACCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.16
Consensus pattern (10 bp):
AAGTTAAGCA
Found at i:10882068 original size:24 final size:24
Alignment explanation
Indices: 10882028--10882074 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
10882018 AATTATTGCT
10882028 TATGCAAAAAATTATTTCATTTTAC
1 TATGCAAAAAA-TATTTCATTTTAC
*
10882053 TATGCTAAAAAA-ATTTTATTTT
1 TATGC-AAAAAATATTTCATTTT
10882075 GTTTTTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 5 0.25
26 6 0.30
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (24 bp):
TATGCAAAAAATATTTCATTTTAC
Found at i:10882179 original size:74 final size:77
Alignment explanation
Indices: 10882093--10882248 Score: 228
Period size: 75 Copynumber: 2.1 Consensus size: 77
10882083 ATAAATTGAT
* *
10882093 TTTTTTGCGGCG-TTTTTATGAAAACGCCGCTAAATGTTTTGCTATATAAAAT-CGCTA-TTTTT
1 TTTTTTGCGGCGTTTTTTATAAAAACACCGCTAAATGTTTTGCTATATAAAATGCGCTATTTTTT
10882155 AAAGTAAAATCA
66 AAAGTAAAATCA
* * *
10882167 TTTTTTGTGGCGTTTTTTATAAAAACACCGCTAAATGTTTTGCTATATGAAATGCGTTATTTTTT
1 TTTTTTGCGGCGTTTTTTATAAAAACACCGCTAAATGTTTTGCTATATAAAATGCGCTA-TTTTT
*
10882232 TAAAGTAAAATTA
65 TAAAGTAAAATCA
10882245 TTTT
1 TTTT
10882249 ACTATCAAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
74 11 0.15
75 37 0.51
76 4 0.06
78 20 0.28
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (77 bp):
TTTTTTGCGGCGTTTTTTATAAAAACACCGCTAAATGTTTTGCTATATAAAATGCGCTATTTTTT
AAAGTAAAATCA
Found at i:10883066 original size:21 final size:21
Alignment explanation
Indices: 10883040--10883154 Score: 88
Period size: 21 Copynumber: 5.5 Consensus size: 21
10883030 CTAATTAATA
**
10883040 TAACCCTTAATCCCTAACCTT
1 TAACCCTTAATCCCTAACCCC
* *
10883061 TAACCCCTAA-CCTTTAACCCC
1 TAACCCTTAATCC-CTAACCCC
* *
10883082 TAACTCTTAATCTCTAACCCC
1 TAACCCTTAATCCCTAACCCC
* ** *
10883103 TAACTCTTAATCTGTAACCCT
1 TAACCCTTAATCCCTAACCCC
* * *
10883124 TAACCCCTAACCCCTAACCCA
1 TAACCCTTAATCCCTAACCCC
*
10883145 TAAACCTTAA
1 TAACCCTTAA
10883155 ATCATAACCC
Statistics
Matches: 74, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
20 2 0.03
21 71 0.96
22 1 0.01
ACGTcount: A:0.31, C:0.39, G:0.01, T:0.29
Consensus pattern (21 bp):
TAACCCTTAATCCCTAACCCC
Found at i:10883071 original size:7 final size:7
Alignment explanation
Indices: 10883040--10883143 Score: 64
Period size: 7 Copynumber: 14.9 Consensus size: 7
10883030 CTAATTAATA
*
10883040 TAACCCT
1 TAACCCC
*
10883047 TAATCCC
1 TAACCCC
**
10883054 TAACCTT
1 TAACCCC
10883061 TAACCCC
1 TAACCCC
**
10883068 TAACCTT
1 TAACCCC
10883075 TAACCCC
1 TAACCCC
* *
10883082 TAACTCT
1 TAACCCC
* *
10883089 TAATCTC
1 TAACCCC
10883096 TAACCCC
1 TAACCCC
* *
10883103 TAACTCT
1 TAACCCC
* **
10883110 TAATCTG
1 TAACCCC
*
10883117 TAACCCT
1 TAACCCC
10883124 TAACCCC
1 TAACCCC
10883131 TAACCCC
1 TAACCCC
10883138 TAACCC
1 TAACCC
10883144 ATAAACCTTA
Statistics
Matches: 68, Mismatches: 29, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
7 68 1.00
ACGTcount: A:0.29, C:0.41, G:0.01, T:0.29
Consensus pattern (7 bp):
TAACCCC
Found at i:10883091 original size:14 final size:14
Alignment explanation
Indices: 10883040--10883143 Score: 84
Period size: 14 Copynumber: 7.4 Consensus size: 14
10883030 CTAATTAATA
*
10883040 TAACCCTTAATCCC
1 TAACCCTTAACCCC
*
10883054 TAACCTTTAACCCC
1 TAACCCTTAACCCC
*
10883068 TAACCTTTAACCCC
1 TAACCCTTAACCCC
* * *
10883082 TAACTCTTAATCTC
1 TAACCCTTAACCCC
* * *
10883096 TAACCCCTAACTCT
1 TAACCCTTAACCCC
* *
10883110 TAA-TCTGTAACCCT
1 TAACCCT-TAACCCC
*
10883124 TAACCCCTAACCCC
1 TAACCCTTAACCCC
10883138 TAACCC
1 TAACCC
10883144 ATAAACCTTA
Statistics
Matches: 70, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
13 1 0.01
14 68 0.97
15 1 0.01
ACGTcount: A:0.29, C:0.41, G:0.01, T:0.29
Consensus pattern (14 bp):
TAACCCTTAACCCC
Found at i:10883160 original size:14 final size:14
Alignment explanation
Indices: 10883143--10883172 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10883133 ACCCCTAACC
10883143 CATAAACCTTAAAT
1 CATAAACCTTAAAT
*
10883157 CATAACCCTTAAAT
1 CATAAACCTTAAAT
10883171 CA
1 CA
10883173 GAATCCCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (14 bp):
CATAAACCTTAAAT
Found at i:10885053 original size:14 final size:13
Alignment explanation
Indices: 10885034--10885081 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
10885024 GTTACTACTA
*
10885034 TTATATCATTAGTT
1 TTATATTATTA-TT
10885048 TTATATTATTATT
1 TTATATTATTATT
*
10885061 GTTATATTTTTATT
1 -TTATATTATTATT
10885075 TTATATT
1 TTATATT
10885082 TACTTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 9 0.29
14 22 0.71
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (13 bp):
TTATATTATTATT
Found at i:10885163 original size:20 final size:20
Alignment explanation
Indices: 10885138--10885184 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
10885128 TAACTATTTA
*
10885138 TATATATCTTTATATCTTAT
1 TATATATCTATATATCTTAT
* *
10885158 TATATATCTATATGTCTTGT
1 TATATATCTATATATCTTAT
10885178 TATATAT
1 TATATAT
10885185 ATGTGTATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (20 bp):
TATATATCTATATATCTTAT
Found at i:10889187 original size:125 final size:125
Alignment explanation
Indices: 10888970--10889246 Score: 439
Period size: 125 Copynumber: 2.2 Consensus size: 125
10888960 CCATTTTTAT
10888970 GCGCTTTTGCTACAGTAGGTCCT-AAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT
1 GCGCTTTTGCTACAGTAGGTCCTGAAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT
* * * * *
10889034 AAAATCGCTTCTAGCAAGATGATGTTTGATAAGAATTTGTGAAATCGCGGCCTCGTGGAC
66 AAAATCGCTTCAAACAAGATGATATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGAC
*
10889094 GCGCTTTTGCTACGGTAGGTCCTGAAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT
1 GCGCTTTTGCTACAGTAGGTCCTGAAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT
* * * * *
10889159 AAAATCGCTTCAAACAGGATGCTATTTGAGAAGAATTTGTGAAATTGTGCCCTCGTGGAT
66 AAAATCGCTTCAAACAAGATGATATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGAC
*
10889219 GCGCTTTTGCTACAGTAAGTCCTGAAAA
1 GCGCTTTTGCTACAGTAGGTCCTGAAAA
10889247 TTGAGAGGAA
Statistics
Matches: 139, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
124 22 0.16
125 117 0.84
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (125 bp):
GCGCTTTTGCTACAGTAGGTCCTGAAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT
AAAATCGCTTCAAACAAGATGATATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGAC
Found at i:10899323 original size:21 final size:21
Alignment explanation
Indices: 10899289--10899329 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10899279 AGAAGAAGAA
*
10899289 CCCAAGAAGTCTAATATCAAG
1 CCCAAGAAGTCTAAGATCAAG
10899310 CCCAAGAAAG-CTAAGATCAA
1 CCCAAG-AAGTCTAAGATCAA
10899330 CTAGTACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.46, C:0.24, G:0.15, T:0.15
Consensus pattern (21 bp):
CCCAAGAAGTCTAAGATCAAG
Found at i:10909201 original size:10 final size:11
Alignment explanation
Indices: 10909170--10909202 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
10909160 CGACCCACCC
10909170 ATATTAATGTTT
1 ATATTAAT-TTT
10909182 ATATTAATTTT
1 ATATTAATTTT
10909193 ATA-TAATTTT
1 ATATTAATTTT
10909203 TAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 6 0.29
12 8 0.38
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (11 bp):
ATATTAATTTT
Found at i:10911041 original size:49 final size:48
Alignment explanation
Indices: 10910969--10911131 Score: 202
Period size: 49 Copynumber: 3.4 Consensus size: 48
10910959 TGTTAAGCCA
* * *
10910969 TGTG-GGGGCACACGGTGTGTGTGATTACACGGGTAAATCAGGTAGGT
1 TGTGTGGGGCACAAGGCGTGTGTGATTACATGGGTAAATCAGGTAGGT
* *
10911016 TGTGTGGGGCACATGGGCGTGTGTGATTACATGGGTAAATCAGGTAGGC
1 TGTGTGGGGCACA-AGGCGTGTGTGATTACATGGGTAAATCAGGTAGGT
* * * *
10911065 CGTGTGAGGCACACAGGCGTATGCGATTACATGGGTAAATCAGGTAGGT
1 TGTGTGGGGCACA-AGGCGTGTGTGATTACATGGGTAAATCAGGTAGGT
*
10911114 TGTGTAGGGCACACAGGC
1 TGTGTGGGGCACA-AGGC
10911132 AAATTAGGTA
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
47 4 0.04
48 8 0.08
49 88 0.88
ACGTcount: A:0.23, C:0.15, G:0.39, T:0.24
Consensus pattern (48 bp):
TGTGTGGGGCACAAGGCGTGTGTGATTACATGGGTAAATCAGGTAGGT
Found at i:10912253 original size:5 final size:6
Alignment explanation
Indices: 10912203--10912252 Score: 55
Period size: 6 Copynumber: 7.5 Consensus size: 6
10912193 CAAAAATAAC
10912203 AAAATAA AAAATA AAAATA AAATTTATA CAAAATA AAAATA AAAATA AAA
1 AAAAT-A AAAATA AAAATA AAA---ATA -AAAATA AAAATA AAAATA AAA
10912253 TTATAAACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
6 25 0.64
7 8 0.21
9 3 0.08
10 3 0.08
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:10912266 original size:29 final size:28
Alignment explanation
Indices: 10912200--10912266 Score: 98
Period size: 28 Copynumber: 2.3 Consensus size: 28
10912190 TAACAAAAAT
10912200 AACAAAATAAAAAATAAAAATAAAATTTA
1 AACAAAAT-AAAAATAAAAATAAAATTTA
*
10912229 TACAAAATAAAAATAAAAATAAAATTATA
1 AACAAAATAAAAATAAAAATAAAATT-TA
*
10912258 AACATAATA
1 AACAAAATA
10912267 TACTAGTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 18 0.53
29 16 0.47
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (28 bp):
AACAAAATAAAAATAAAAATAAAATTTA
Found at i:10912572 original size:3 final size:3
Alignment explanation
Indices: 10912564--10912623 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
10912554 TGCGGTAAGT
* *
10912564 ATA ATA ATA AAA ATA TATA AT- ATA ATA ATA ATA A-A CTA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
10912608 ATTCA GTA ATA ATA AT
1 A-T-A ATA ATA ATA AT
10912624 GTAATATATA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 3 0.07
3 37 0.80
4 5 0.11
5 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10912597 original size:14 final size:14
Alignment explanation
Indices: 10912564--10912609 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
10912554 TGCGGTAAGT
10912564 ATAATAATA-AA-A
1 ATAATAATATAATA
10912576 ATATATAATATAATA
1 ATA-ATAATATAATA
10912591 ATAATAA-ACTAATA
1 ATAATAATA-TAATA
10912605 ATAAT
1 ATAAT
10912610 TCAGTAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.10
13 7 0.23
14 16 0.53
15 4 0.13
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATAATATAATA
Found at i:10912608 original size:11 final size:10
Alignment explanation
Indices: 10912566--10912608 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 10
10912556 CGGTAAGTAT
10912566 AATAATAA-A
1 AATAATAATA
10912575 AATATATAATA
1 AATA-ATAATA
10912586 TAATAATAATA
1 -AATAATAATA
10912597 AACTAATAATA
1 AA-TAATAATA
10912608 A
1 A
10912609 TTCAGTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.13
10 6 0.20
11 16 0.53
12 4 0.13
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (10 bp):
AATAATAATA
Found at i:10919334 original size:25 final size:25
Alignment explanation
Indices: 10919261--10919351 Score: 62
Period size: 25 Copynumber: 3.6 Consensus size: 25
10919251 TCACCACAGC
* *
10919261 TCGTATGAGCTTACCGGT-TTGCAGC
1 TCGTATGAGCTTACC-GTATTTCAGT
* * **
10919286 TCGTAAGAACTTATAG-ATTCTCAGT
1 TCGTATGAGCTTACCGTATT-TCAGT
10919311 TCGTATGAGCTTACCGTATTTCAGCT
1 TCGTATGAGCTTACCGTATTTCAG-T
* *
10919337 T-GGAGGAGCTTACCG
1 TCGTATGAGCTTACCG
10919352 ATTATGGCTC
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
24 3 0.06
25 42 0.84
26 5 0.10
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (25 bp):
TCGTATGAGCTTACCGTATTTCAGT
Done.