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 139 of 240
Found at i:43283358 original size:54 final size:54
Alignment explanation
Indices: 43283283--43283558 Score: 227
Period size: 54 Copynumber: 5.1 Consensus size: 54
43283273 GGGTATAACA
* * * * *
43283283 GTCATTGTACCCTATGAGGGTATTTCAGTCATTTTACCCTTTGAGGGTAATTTA
1 GTCATTTTACCCTTTGGGGGTAATTCAGTCATTTTACCCTTTGAGGGTAATTTG
* * * * * *
43283337 GTCATTTTACCTTTTGGGGGTAATTCAATCATTCTACCCTTCGAGTGTAATTCG
1 GTCATTTTACCCTTTGGGGGTAATTCAGTCATTTTACCCTTTGAGGGTAATTTG
* * * ** * *
43283391 GTCACTTTACCCTTCGGGGGTAATTCAGTCACTTTACCCTCCGGGGGTAATTCG
1 GTCATTTTACCCTTTGGGGGTAATTCAGTCATTTTACCCTTTGAGGGTAATTTG
* * ** * * *
43283445 ATCATTTTACCC-TTCGGGGTAATTTGGTCATTTTA-CCGTTCAGGGATAATTCG
1 GTCATTTTACCCTTTGGGGGTAATTCAGTCATTTTACCCTTTGAGGG-TAATTTG
* ** * *
43283498 GTCATTTT-CGTCTACGGGGGTAATTCGGTCATTTTA-CCTTTCAGGAGTAATTTG
1 GTCATTTTAC-CCTTTGGGGGTAATTCAGTCATTTTACCCTTTGAGG-GTAATTTG
43283552 GTCATTT
1 GTCATTT
43283559 GCCCGTTATT
Statistics
Matches: 178, Mismatches: 40, Indels: 8
0.79 0.18 0.04
Matches are distributed among these distances:
52 6 0.03
53 33 0.19
54 138 0.78
55 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (54 bp):
GTCATTTTACCCTTTGGGGGTAATTCAGTCATTTTACCCTTTGAGGGTAATTTG
Found at i:43283412 original size:81 final size:81
Alignment explanation
Indices: 43283284--43283558 Score: 261
Period size: 81 Copynumber: 3.4 Consensus size: 81
43283274 GGTATAACAG
* * * * * *
43283284 TCATTGTACCCTAT-GAGGGTATTTCAGTCATTTTACCCTTTGAGGGTAATTTAGTCATTTTACC
1 TCATTCTACCCT-TCGAGGGTAATTCGGTCATTTTACCCTTCGGGGGTAATTCAGTCATTTTACC
* **
43283348 TTTTGGGGGTAATTCAA
65 CTCCGGGGGTAATTCAA
* * *
43283365 TCATTCTACCCTTCGAGTGTAATTCGGTCACTTTACCCTTCGGGGGTAATTCAGTCACTTTACCC
1 TCATTCTACCCTTCGAGGGTAATTCGGTCATTTTACCCTTCGGGGGTAATTCAGTCATTTTACCC
*
43283430 TCCGGGGGTAATTCGA
66 TCCGGGGGTAATTCAA
* * * * * * *
43283446 TCATTTTACCCTTCG-GGGTAATTTGGTCATTTTACCGTTCAGGGATAATTCGGTCATTTT-CGT
1 TCATTCTACCCTTCGAGGGTAATTCGGTCATTTTACCCTTCGGGGGTAATTCAGTCATTTTAC-C
* **
43283509 CTACGGGGGTAATTCGG
65 CTCCGGGGGTAATTCAA
* * *
43283526 TCATTTTACCTTTC-AGGAGTAATTTGGTCATTT
1 TCATTCTACCCTTCGAGG-GTAATTCGGTCATTT
43283559 GCCCGTTATT
Statistics
Matches: 164, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
79 1 0.01
80 68 0.41
81 95 0.58
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (81 bp):
TCATTCTACCCTTCGAGGGTAATTCGGTCATTTTACCCTTCGGGGGTAATTCAGTCATTTTACCC
TCCGGGGGTAATTCAA
Found at i:43285265 original size:26 final size:26
Alignment explanation
Indices: 43285236--43285338 Score: 102
Period size: 26 Copynumber: 4.0 Consensus size: 26
43285226 TCACCAATAT
*
43285236 TGCAGCAAAGCTGCCAGTAATAGTGA
1 TGCAGCAAAGCTGCCAGTAATAGTAA
* *
43285262 TGCAACAAAGCTACCAGTAATAGTAA
1 TGCAGCAAAGCTGCCAGTAATAGTAA
** *
43285288 TATAGCAAAGCTGCCAGTAACAGTATA
1 TGCAGCAAAGCTGCCAGTAATAGTA-A
**
43285315 TGTC-GCAAAGCCACCAGT-ATAGTA
1 TG-CAGCAAAGCTGCCAGTAATAGTA
43285339 TACTTCCCCT
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
26 48 0.77
27 14 0.23
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (26 bp):
TGCAGCAAAGCTGCCAGTAATAGTAA
Found at i:43285337 original size:52 final size:52
Alignment explanation
Indices: 43285239--43285338 Score: 132
Period size: 52 Copynumber: 1.9 Consensus size: 52
43285229 CCAATATTGC
* *
43285239 AGCAAAGCTGCCAGTAATAGTGATGCAACAAAGCTACCAGTAATAGTAATAT
1 AGCAAAGCTGCCAGTAACAGTGATGCAACAAAGCCACCAGTAATAGTAATAT
* *
43285291 AGCAAAGCTGCCAGTAACAGTATATGTC-GCAAAGCCACCAGT-ATAGTA
1 AGCAAAGCTGCCAGTAACAGT-GATG-CAACAAAGCCACCAGTAATAGTA
43285339 TACTTCCCCT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
52 26 0.62
53 15 0.36
54 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (52 bp):
AGCAAAGCTGCCAGTAACAGTGATGCAACAAAGCCACCAGTAATAGTAATAT
Found at i:43285563 original size:54 final size:54
Alignment explanation
Indices: 43285486--43285602 Score: 182
Period size: 54 Copynumber: 2.2 Consensus size: 54
43285476 AAGGGTATCA
*
43285486 CAGTCATTTTACCCTATGGGGGTATTTCAATCATTTTACCCTTTGAGGGTAATT
1 CAGTCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTTTGAGGGTAATT
*
43285540 CAGTCATTTTACCC-ATCGAGGGTATTTCAGTCATTTTACCCTTTGAGGGTAATT
1 CAGTCATTTTACCCTAT-GAGGGTATTTCAATCATTTTACCCTTTGAGGGTAATT
**
43285594 TGGTCATTT
1 CAGTCATTT
43285603 GCCCATGATT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
53 2 0.03
54 56 0.97
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (54 bp):
CAGTCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTTTGAGGGTAATT
Found at i:43285602 original size:27 final size:27
Alignment explanation
Indices: 43285477--43285590 Score: 156
Period size: 27 Copynumber: 4.2 Consensus size: 27
43285467 TCAACTCCTA
** *
43285477 AGGGTATCACAGTCATTTTACCCTATG
1 AGGGTATTTCAGTCATTTTACCCTTTG
* *
43285504 GGGGTATTTCAATCATTTTACCCTTTG
1 AGGGTATTTCAGTCATTTTACCCTTTG
* * *
43285531 AGGGTAATTCAGTCATTTTACCCATCG
1 AGGGTATTTCAGTCATTTTACCCTTTG
43285558 AGGGTATTTCAGTCATTTTACCCTTTG
1 AGGGTATTTCAGTCATTTTACCCTTTG
43285585 AGGGTA
1 AGGGTA
43285591 ATTTGGTCAT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCAGTCATTTTACCCTTTG
Found at i:43287230 original size:28 final size:28
Alignment explanation
Indices: 43287191--43287251 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
43287181 TATACAGTAT
*
43287191 CAGT-ACAGTGTGGGCCTTAGCCCATTA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
43287218 CAGTAACAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
43287246 CAGTAA
1 CAGTAA
43287252 TCAATACAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:43287875 original size:27 final size:27
Alignment explanation
Indices: 43287612--43287889 Score: 335
Period size: 27 Copynumber: 10.3 Consensus size: 27
43287602 AGGTGTATAA
* * * *
43287612 CAGTCATTTTACCGTTTGAGGGTATTT
1 CAGTCATTTTACCCTTCGGGGGTAATT
* * *
43287639 TAGTCATTTTACCCTTCGAGGGTCATT
1 CAGTCATTTTACCCTTCGGGGGTAATT
43287666 CAGTCATTTTACCCTTCGGGGGTAATT
1 CAGTCATTTTACCCTTCGGGGGTAATT
* *
43287693 CAGTAATTTTACCTTTCGGGGGTAATT
1 CAGTCATTTTACCCTTCGGGGGTAATT
** *
43287720 TTGTCATTTTACCCTTCGAGGGTAATT
1 CAGTCATTTTACCCTTCGGGGGTAATT
*
43287747 CAGTCACTTTACCCTTCGGGGGTAATT
1 CAGTCATTTTACCCTTCGGGGGTAATT
*
43287774 CGGTCATTTTACCCTTC-GGGGTAATT
1 CAGTCATTTTACCCTTCGGGGGTAATT
* * * *
43287800 CGGTCACTTTACCTTTAGGGGGTAATT
1 CAGTCATTTTACCCTTCGGGGGTAATT
*
43287827 CAGTCACTTTACCCTTCGGGGGTAATT
1 CAGTCATTTTACCCTTCGGGGGTAATT
** *
43287854 TGGTCATTTTACCCTTCTGGGGTAATT
1 CAGTCATTTTACCCTTCGGGGGTAATT
43287881 CTA-TCATTT
1 C-AGTCATTT
43287890 GCCCATGATT
Statistics
Matches: 216, Mismatches: 33, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 23 0.11
27 193 0.89
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (27 bp):
CAGTCATTTTACCCTTCGGGGGTAATT
Found at i:43290120 original size:50 final size:50
Alignment explanation
Indices: 43290033--43290274 Score: 378
Period size: 50 Copynumber: 4.8 Consensus size: 50
43290023 GATAATAACA
* * ** * *
43290033 TGCCAAAGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATTTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
43290083 TGTCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
43290133 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
43290183 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
43290233 TGCCAATGCCATGTCCCAGGA-ATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCA-GACATGGTCTTACATGGGACCTCT
43290275 TTACCCAAAT
Statistics
Matches: 178, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
50 176 0.99
51 2 0.01
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:43297160 original size:21 final size:21
Alignment explanation
Indices: 43297134--43297173 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
43297124 AACAGTCCAA
43297134 CAAAATCAAAATAGAAAAAAC
1 CAAAATCAAAATAGAAAAAAC
* *
43297155 CAAAATTAATATAGAAAAA
1 CAAAATCAAAATAGAAAAA
43297174 TTATAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.70, C:0.10, G:0.05, T:0.15
Consensus pattern (21 bp):
CAAAATCAAAATAGAAAAAAC
Found at i:43311571 original size:24 final size:25
Alignment explanation
Indices: 43311529--43311575 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
43311519 AAAACTTAAA
43311529 AATAATTATATGATAAATTTAAAAT
1 AATAATTATATGATAAATTTAAAAT
*
43311554 AATAA-TATGTGATAAATTTAAA
1 AATAATTATATGATAAATTTAAA
43311576 CAACATTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (25 bp):
AATAATTATATGATAAATTTAAAAT
Found at i:43314483 original size:23 final size:25
Alignment explanation
Indices: 43314431--43314489 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 25
43314421 CAAATAAAAA
43314431 AATAATAATACAACATAACGTTTAG
1 AATAATAATACAACATAACGTTTAG
* * *
43314456 -GTAATAATACTA-ATAA-TTTTAG
1 AATAATAATACAACATAACGTTTAG
43314478 AATAATAATACA
1 AATAATAATACA
43314490 CAATAACTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
22 5 0.18
23 13 0.46
24 10 0.36
ACGTcount: A:0.53, C:0.08, G:0.07, T:0.32
Consensus pattern (25 bp):
AATAATAATACAACATAACGTTTAG
Found at i:43316348 original size:44 final size:45
Alignment explanation
Indices: 43316269--43316599 Score: 148
Period size: 44 Copynumber: 7.6 Consensus size: 45
43316259 TAATCCGCTT
* * * * ** *
43316269 CACTACAACTTCAGGGAGATAGGA-TTATCGACTTCAATCTGCTC
1 CACTGCAACTTCAAGGAGATAAGACTTGTCTTCTTCAGTCTGCTC
* *
43316313 CACTGCAA-TCTCAAGGAGATAAGATTTG-CTTCTTCAGTCTGCCC
1 CACTGCAACT-TCAAGGAGATAAGACTTGTCTTCTTCAGTCTGCTC
** * *
43316357 CACTGTGACTTCAGGGGGATAAGACTTGTCTTC-TCAGTCTGCTC
1 CACTGCAACTTCAAGGAGATAAGACTTGTCTTCTTCAGTCTGCTC
* * * * * * **
43316401 CACTGCAACTTCAGGGATATAAGACCTG-ATGC--GA-TCCACTC
1 CACTGCAACTTCAAGGAGATAAGACTTGTCTTCTTCAGTCTGCTC
** * * * * *
43316442 TGCTGCAACTTC-AGAGAGATAAGA-TCTAT-TACTTTAATCCGCTC
1 CACTGCAACTTCAAG-GAGATAAGACT-TGTCTTCTTCAGTCTGCTC
* * * ** *
43316486 CACTACAACTTCAAGGAGATAGGA-TTATCGGCTTCAATCTGCTC
1 CACTGCAACTTCAAGGAGATAAGACTTGTCTTCTTCAGTCTGCTC
** * * * * *
43316530 CACTATAACTTCAGGGAAATAAGATTTGTCATCTTC-GATCTGCCC
1 CACTGCAACTTCAAGGAGATAAGACTTGTCTTCTTCAG-TCTGCTC
* *
43316575 CACTGCAACTTCAGGGGGATAAGAC
1 CACTGCAACTTCAAGGAGATAAGAC
43316600 CTGTTGCGAT
Statistics
Matches: 218, Mismatches: 55, Indels: 27
0.73 0.18 0.09
Matches are distributed among these distances:
40 1 0.00
41 26 0.12
42 1 0.00
43 7 0.03
44 140 0.64
45 43 0.20
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (45 bp):
CACTGCAACTTCAAGGAGATAAGACTTGTCTTCTTCAGTCTGCTC
Found at i:43316670 original size:217 final size:217
Alignment explanation
Indices: 43316232--43316639 Score: 520
Period size: 217 Copynumber: 1.9 Consensus size: 217
43316222 CTCTACTGCT
* * * *
43316232 ACTTTAGAGAGATTAGATCGATTACTTTAATCCGCTTCACTACAACTTCAGGGAGATAGGATTAT
1 ACTTCAGAGAGATAAGATCGATTACTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATTAT
* * *
43316297 CGACTTCAATCTGCTCCACTGCAATCTCAAGGAGATAAGATTTGCTTCTTCAGTCTGCCCCACTG
66 CGACTTCAATCTGCTCCACTACAATCTCAAGGAAATAAGATTTGCATCTTCAGTCTGCCCCACTG
** * * ** * *
43316362 TGACTTCAGGGGGATAAGACTTGTCTTCTCAGTCTGCTCCACTGCAACTTCAGGGATATAAGACC
131 CAACTTCAGGGGGATAAGACCTGTCTGCTCAGTCCACTCCACTGCAACTTCAGAGAGATAAGACC
* * ** *
43316427 TGATGCGATCCACTCTGCTGCA
196 TGATACAATCCACTCCACTACA
*
43316449 ACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATTAT
1 ACTTCAGAGAGATAAGATCGATTACTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATTAT
* * *
43316514 CGGCTTCAATCTGCTCCACTATAA-CTTCAGGGAAATAAGATTTGTCATCTTC-GATCTGCCCCA
66 CGACTTCAATCTGCTCCACTACAATC-TCAAGGAAATAAGATTTG-CATCTTCAG-TCTGCCCCA
* *
43316577 CTGCAACTTCAGGGGGATAAGACCTGT-TGC-GA-TCCACTCTACTGCAACTTCAGAGAGATAAG
128 CTGCAACTTCAGGGGGATAAGACCTGTCTGCTCAGTCCACTCCACTGCAACTTCAGAGAGATAAG
43316639 A
193 A
43316640 TCTATTACTT
Statistics
Matches: 167, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
215 26 0.16
216 2 0.01
217 100 0.60
218 39 0.23
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (217 bp):
ACTTCAGAGAGATAAGATCGATTACTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATTAT
CGACTTCAATCTGCTCCACTACAATCTCAAGGAAATAAGATTTGCATCTTCAGTCTGCCCCACTG
CAACTTCAGGGGGATAAGACCTGTCTGCTCAGTCCACTCCACTGCAACTTCAGAGAGATAAGACC
TGATACAATCCACTCCACTACA
Found at i:43316697 original size:173 final size:173
Alignment explanation
Indices: 43316274--43316698 Score: 536
Period size: 173 Copynumber: 2.5 Consensus size: 173
43316264 CGCTTCACTA
* * * * * * *
43316274 CAACTTCAGGGAGATAGGAT-TATCGACTTCAATCTGCTCCACTGCAA-TCTCAAGGAGATAAGA
1 CAACTTCAGAGAGATAAGATCTAT-TACTTTAATCAGCTCCACTACAACT-TCAAGGAGATAGGA
** * * * ** * *
43316337 TT-TGCTTCTTCAGTCTGCCCCACTGTGACTTCAGGGGGATAAGACTTGTCTTCTCAGTCTGCTC
64 TTAT-CGACTTCAATCTGCCCCACTATAACTTCAGGGAAATAAGACTTGTCATCTCAGTCTGCCC
* *
43316401 CACTGCAACTTCAGGGATATAAGACCTGATGCGATCCACTCTGCTG
128 CACTGCAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTG
*
43316447 CAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAATCAGCTCCACTACAACTTCAAGGAGATAGGATT
* * *
43316512 ATCGGCTTCAATCTGCTCCACTATAACTTCAGGGAAATAAGATTTGTCATCTTC-GATCTGCCCC
66 ATCGACTTCAATCTGCCCCACTATAACTTCAGGGAAATAAGACTTGTCATC-TCAG-TCTGCCCC
* *
43316576 ACTGCAACTTCAGGGGGATAAGACCTGTTGCGATCCACTCTACTG
129 ACTGCAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTG
**
43316621 CAACTTCAGAGAGATAAGATCTATTACTTTAATCAG-TCCACTACAACTTCTGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAATCAGCTCCACTACAACTTCAAGGAGATAGGATT
43316685 ATCGACTTCAATCT
66 ATCGACTTCAATCT
43316699 ACTTCCTTAC
Statistics
Matches: 221, Mismatches: 26, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
173 131 0.59
174 90 0.41
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (173 bp):
CAACTTCAGAGAGATAAGATCTATTACTTTAATCAGCTCCACTACAACTTCAAGGAGATAGGATT
ATCGACTTCAATCTGCCCCACTATAACTTCAGGGAAATAAGACTTGTCATCTCAGTCTGCCCCAC
TGCAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTG
Found at i:43317152 original size:128 final size:128
Alignment explanation
Indices: 43316694--43317121 Score: 707
Period size: 128 Copynumber: 3.3 Consensus size: 128
43316684 TATCGACTTC
43316694 AATCTACTTCCTTACACTTGAAGATAAGATTCGTCGTCTTCGATCTGCTCCGCTACTACTTAGGG
1 AATCTACTTCCTTACACTTGAAGATAAGATTCGTCGTCTTCGATCTGCTCCGCTACTACTTAGGG
** * *
43316759 AGACAAGATCTGCAATTTCTGACCTATTCCACTGGTGGCCAGGGACATAGGACTTGTGGCTTA
66 AGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTA
*
43316822 AATCTGCTTCCTTACACTTGAAGATAAGATTCG-CTGTCTTCGATCTGCTCCGCTACTACTTAGG
1 AATCTACTTCCTTACACTTGAAGATAAGATTCGTC-GTCTTCGATCTGCTCCGCTACTACTTAGG
* * *
43316886 GAGACAAGATCTGCAATTTCCAACTTATTCCATTGCTGGTCAGGGACATAGGACTTGTAGCTTA
65 GAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTA
* * * *
43316950 AATCTACTTTCTTACACTTGAAGATAAGATTCGTCGTCTTCAATCTGCTCTGCTACTGCTTAGGG
1 AATCTACTTCCTTACACTTGAAGATAAGATTCGTCGTCTTCGATCTGCTCCGCTACTACTTAGGG
43317015 AGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTA
66 AGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTA
*
43317078 AATCTGCTTCCTTACACTTGAAGATAAGATTCG-CTGTCTTCGAT
1 AATCTACTTCCTTACACTTGAAGATAAGATTCGTC-GTCTTCGAT
43317122 TTGTTTCCCT
Statistics
Matches: 278, Mismatches: 19, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
127 2 0.01
128 275 0.99
129 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (128 bp):
AATCTACTTCCTTACACTTGAAGATAAGATTCGTCGTCTTCGATCTGCTCCGCTACTACTTAGGG
AGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTA
Found at i:43318294 original size:41 final size:41
Alignment explanation
Indices: 43318237--43318448 Score: 298
Period size: 41 Copynumber: 5.2 Consensus size: 41
43318227 GTTTTCGAGG
* * *
43318237 CTTTAGCGACGTTTTTGAAGAAGCGCTGCTAATTCTCGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
* * * * * *
43318278 CTTTAACGACGCTTTTGAATAACCGCCGCTAATGCACGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
*
43318319 CTTTAGCGGCGTTTTTGAAGAAGTGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
*
43318360 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGATCGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
* * *
43318401 CTTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATTCTCAGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
43318442 CTTTAGC
1 CTTTAGC
43318449 ATTCTTAAAA
Statistics
Matches: 151, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 151 1.00
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.32
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
Found at i:43323252 original size:43 final size:43
Alignment explanation
Indices: 43323057--43323244 Score: 277
Period size: 43 Copynumber: 4.4 Consensus size: 43
43323047 GCGTCGCTAA
* *
43323057 CTTTAGCGGCGCTTTTTCCACAAACGCCGTTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAGAC
43323100 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAGAC
* * *
43323143 CTTTAGCGGCGCTTTTACCACAGACGCCGCTAAAAACCATGAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAGAC
* * * *
43323186 CTTTAGTGGCGCTTTTACCACAAACACCGCTAAAGACCATGGC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAGAC
* *
43323229 TTTTAACGGCGCTTTT
1 CTTTAGCGGCGCTTTT
43323245 CAAACAAATG
Statistics
Matches: 132, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 132 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAGAC
Found at i:43325700 original size:9 final size:9
Alignment explanation
Indices: 43325686--43325711 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
43325676 CAGCAATGGT
43325686 TGTAACCTC
1 TGTAACCTC
43325695 TGTAACCTC
1 TGTAACCTC
43325704 TGTAACCT
1 TGTAACCT
43325712 GTTTGTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.35
Consensus pattern (9 bp):
TGTAACCTC
Found at i:43326719 original size:21 final size:21
Alignment explanation
Indices: 43326676--43326735 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
43326666 ACCCTTGAAA
* * *
43326676 CCCTAAATCTCTAACTCCTAAC
1 CCCTAAACCT-TAAATCCCAAC
43326698 CCCTAAACCTTAAATCCCAAC
1 CCCTAAACCTTAAATCCCAAC
* *
43326719 CCTTAAACCAT-AATCCC
1 CCCTAAACCTTAAATCCC
43326736 TAAATCTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 6 0.18
21 18 0.55
22 9 0.27
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (21 bp):
CCCTAAACCTTAAATCCCAAC
Found at i:43327040 original size:14 final size:14
Alignment explanation
Indices: 43327021--43327063 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
43327011 CTAAACCTGG
43327021 CCCTAAACCTTAAA
1 CCCTAAACCTTAAA
*
43327035 CCCTAACCCTTAAA
1 CCCTAAACCTTAAA
* *
43327049 CCATAAACCATAAA
1 CCCTAAACCTTAAA
43327063 C
1 C
43327064 AATAATCCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (14 bp):
CCCTAAACCTTAAA
Found at i:43327878 original size:41 final size:41
Alignment explanation
Indices: 43327802--43328075 Score: 376
Period size: 41 Copynumber: 6.7 Consensus size: 41
43327792 AATATTTTTT
* * **
43327802 GCGGCGCTTTTTAAAAAACGCCGCTAAA-AATAGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
43327842 GCAGCGCTT-TATCAAAAACGCCGCTCAAGACCAGAGCATTA
1 GCGGCGCTTCT-TCAAAAACGCCGCTAAAGACCAGAGCATTA
*
43327883 GCGGCGCTTCTT-AAGAAACGCCGCTAAAGACCAGAGCACTA
1 GCGGCGCTTCTTCAA-AAACGCCGCTAAAGACCAGAGCATTA
* *
43327924 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACCTGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
43327965 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
43328006 GCGGCGCTTCTTCAAAAACACCGCTAAAGACCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCATTA
43328047 GCGGCGCTT-TTCGAAAAACGCCGCTAAAG
1 GCGGCGCTTCTTC-AAAAACGCCGCTAAAG
43328076 CCCTGAAAAA
Statistics
Matches: 213, Mismatches: 15, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.00
40 28 0.13
41 181 0.85
42 3 0.01
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (41 bp):
GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:43328238 original size:40 final size:41
Alignment explanation
Indices: 43328132--43328248 Score: 123
Period size: 40 Copynumber: 2.9 Consensus size: 41
43328122 GCGCTTTTTG
*
43328132 AAAAACGCCACTAATG-TTCATTTTTAGCGGCG-TTTTCCA
1 AAAAACGCCACTAATGCTTGATTTTTAGCGGCGTTTTTCCA
* * * *
43328171 AAAAACGCCACTAGTACTGGATCTTTAGCGGCGTTTTTCC-
1 AAAAACGCCACTAATGCTTGATTTTTAGCGGCGTTTTTCCA
* * * * *
43328211 TAAAGCGCCGCTAATGCTTGATTTTTAGTGGCATTTTT
1 AAAAACGCCACTAATGCTTGATTTTTAGCGGCGTTTTT
43328249 TGTTCAAACG
Statistics
Matches: 62, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
39 14 0.23
40 42 0.68
41 6 0.10
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (41 bp):
AAAAACGCCACTAATGCTTGATTTTTAGCGGCGTTTTTCCA
Found at i:43328480 original size:18 final size:18
Alignment explanation
Indices: 43328457--43328516 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
43328447 ATGTAATTCT
43328457 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
43328475 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
43328492 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
43328510 AATGTAA
1 AATGTAA
43328517 CTTGTTTTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:43329253 original size:7 final size:7
Alignment explanation
Indices: 43329243--43329276 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
43329233 TCCATTTTAC
43329243 TTTTTCA
1 TTTTTCA
43329250 -TTTTCA
1 TTTTTCA
43329256 TTTTTCA
1 TTTTTCA
43329263 TTTTTCA
1 TTTTTCA
43329270 TTTTTCA
1 TTTTTCA
43329277 CCCCTTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTCA
Found at i:43330186 original size:14 final size:15
Alignment explanation
Indices: 43330162--43330190 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43330152 TTATCTAGAT
43330162 TTTCTTTTTTCTTTC
1 TTTCTTTTTTCTTTC
43330177 TTTC-TTTTTCTTTC
1 TTTCTTTTTTCTTTC
43330191 ATTTTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTTTTTCTTTC
Found at i:43343008 original size:25 final size:25
Alignment explanation
Indices: 43342946--43343037 Score: 91
Period size: 25 Copynumber: 3.7 Consensus size: 25
43342936 TTCGACCCAT
* * *
43342946 AGCTCGTGTGAGCAAACCGATCTAC
1 AGCTCGAGTGAGCATACTGATCTAC
* *
43342971 AGCTC-ATGAGAGCATACTGATCTAT
1 AGCTCGA-GTGAGCATACTGATCTAC
43342996 AGCTCGAGTGAGCATACTGAT-TCAC
1 AGCTCGAGTGAGCATACTGATCT-AC
43343021 AGCTCGTA-TGAGCATAC
1 AGCTCG-AGTGAGCATAC
43343038 ATGTACAGGA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
24 1 0.02
25 53 0.95
26 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (25 bp):
AGCTCGAGTGAGCATACTGATCTAC
Found at i:43346625 original size:20 final size:20
Alignment explanation
Indices: 43346587--43346625 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43346577 TTGGCTTGTG
**
43346587 TTATGGTATCTTGGTTGTTA
1 TTATGGTATCTTGAATGTTA
*
43346607 TTATGGTATTTTGAATGTT
1 TTATGGTATCTTGAATGTT
43346626 GACAATGATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.23, T:0.56
Consensus pattern (20 bp):
TTATGGTATCTTGAATGTTA
Found at i:43347752 original size:19 final size:19
Alignment explanation
Indices: 43347725--43347762 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
43347715 ACATATCAAT
43347725 CATAAATAAAAAAATATCA
1 CATAAATAAAAAAATATCA
* *
43347744 CATAGATAACAAAATATCA
1 CATAAATAAAAAAATATCA
43347763 ATCTCAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.13, G:0.03, T:0.21
Consensus pattern (19 bp):
CATAAATAAAAAAATATCA
Found at i:43347973 original size:22 final size:22
Alignment explanation
Indices: 43347948--43347990 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
43347938 AAGCCACCAC
43347948 TGATATACAGATATACTGCCAT
1 TGATATACAGATATACTGCCAT
* *
43347970 TGATTTGCAGATATACTGCCA
1 TGATATACAGATATACTGCCA
43347991 CTACTTTCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (22 bp):
TGATATACAGATATACTGCCAT
Found at i:43352630 original size:11 final size:11
Alignment explanation
Indices: 43352605--43352646 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
43352595 TAACATGTTG
43352605 AATTTTA-ATT
1 AATTTTATATT
*
43352615 AATTTTATAAT
1 AATTTTATATT
*
43352626 AATTTTTTATT
1 AATTTTATATT
43352637 AATTTT-TATT
1 AATTTTATATT
43352647 TTTTTTCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 11 0.39
11 17 0.61
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
AATTTTATATT
Found at i:43359756 original size:27 final size:27
Alignment explanation
Indices: 43359724--43360344 Score: 655
Period size: 27 Copynumber: 23.1 Consensus size: 27
43359714 TTTGGACCTA
* * *
43359724 AATACCCCCGAAGGGTAAAATGACCGA
1 AATACCCCTGTAGGGTAAAATGACCGT
* * * *
43359751 AATA-CCTTG-ATGGATAAAATGATCGA
1 AATACCCCTGTA-GGGTAAAATGACCGT
**
43359777 AATA-CCCTCG-ATGGGTAAAATGACCAA
1 AATACCCCT-GTA-GGGTAAAATGACCGT
* * *
43359804 AAT-GCCCTCGATA-GGTAAAATGACTGA
1 AATACCCCT-G-TAGGGTAAAATGACCGT
* * **
43359831 AATGCCCCTATAGGGTAAAATGACCAA
1 AATACCCCTGTAGGGTAAAATGACCGT
* * *
43359858 AATACCCCTATAGGGTAGAAT-ACCGA
1 AATACCCCTGTAGGGTAAAATGACCGT
** *
43359884 AATACCCCCATAGGGTAAAATAACCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
43359911 AATACCCCTGTAGGGTAAAATGACCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
*
43359938 AATACCCCTGTAGGGTAAAATGACTGT
1 AATACCCCTGTAGGGTAAAATGACCGT
* * *
43359965 AATACCCTTGTAGGGTAAAATAACTGT
1 AATACCCCTGTAGGGTAAAATGACCGT
**
43359992 AATACCCCTGTAGGGTAAAATGATTGT
1 AATACCCCTGTAGGGTAAAATGACCGT
* * *
43360019 AATGCCCCTGAAAGGTAAAATGACCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
* *
43360046 AATGCCCCTGTAGGGTAACATGACCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
* *
43360073 AATACCCCTCTAGGATAAAATGACCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
* *
43360100 AATGCCCCTGTAGGGTAAAATGACCAT
1 AATACCCCTGTAGGGTAAAATGACCGT
*
43360127 AATACCCCTGTAGGGTAAAATAACCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
* *
43360154 AATGCCCCTGTAGGGTAAAATGACTGT
1 AATACCCCTGTAGGGTAAAATGACCGT
* * *
43360181 AATGCCCCTATAGGATAAAATGACCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
* * * **
43360208 AATGCCCTTATAGGGTAAAATGATAGT
1 AATACCCCTGTAGGGTAAAATGACCGT
* *
43360235 AATACCCTTGTAGGGTAAAATGACCCT
1 AATACCCCTGTAGGGTAAAATGACCGT
**
43360262 AATACGTCTGTAGGGTAAAATGACCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
* *
43360289 AATA-CCCTGTAGGGTAAAATTACCAT
1 AATACCCCTGTAGGGTAAAATGACCGT
43360315 AATACCCCTGTAGGGTAAAATGACCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
43360342 AAT
1 AAT
43360345 GCCCTGGTGT
Statistics
Matches: 512, Mismatches: 73, Indels: 18
0.85 0.12 0.03
Matches are distributed among these distances:
25 1 0.00
26 70 0.14
27 436 0.85
28 4 0.01
29 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:43360442 original size:24 final size:24
Alignment explanation
Indices: 43360415--43360466 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
43360405 TTAAATGATA
*
43360415 GATTTGTCTGTG-TTTAGTATGACT
1 GATTTGTCTGTGATTT-GAATGACT
43360439 GATTTGTCTGTGATTTGAATGACT
1 GATTTGTCTGTGATTTGAATGACT
43360463 GATT
1 GATT
43360467 CTGAACATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.19, C:0.08, G:0.25, T:0.48
Consensus pattern (24 bp):
GATTTGTCTGTGATTTGAATGACT
Found at i:43360647 original size:26 final size:26
Alignment explanation
Indices: 43360592--43360647 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
43360582 ACACTATTAC
** *
43360592 TGGCAGCTTTGCTGCAATACTGTTGT
1 TGGCAGCTTTGCTGCAATACTACTGA
* *
43360618 TGGCAGCTTTGCTGCGATGCTACTGA
1 TGGCAGCTTTGCTGCAATACTACTGA
43360644 TGGC
1 TGGC
43360648 TTTGTGCCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.14, C:0.21, G:0.30, T:0.34
Consensus pattern (26 bp):
TGGCAGCTTTGCTGCAATACTACTGA
Found at i:43360679 original size:32 final size:32
Alignment explanation
Indices: 43360638--43360869 Score: 195
Period size: 32 Copynumber: 7.3 Consensus size: 32
43360628 GCTGCGATGC
* *
43360638 TACTGATGGCTTTGTGCCAATCATAGT-ACCAT
1 TACTGATGGCTTTGTGCCGATCATA-TCACTAT
* * * *
43360670 TACTGATGGCTTTGTGTCGATTATATTACTGT
1 TACTGATGGCTTTGTGCCGATCATATCACTAT
* * *
43360702 TACCGATGG-TTATGTGTCGATCATTTCACTAT
1 TACTGATGGCTT-TGTGCCGATCATATCACTAT
* **
43360734 TACTGATGG-TTGTGTGTCGATCATATCACTGC
1 TACTGATGGCTT-TGTGCCGATCATATCACTAT
* * *
43360766 TACTGATGGCTTTGTGCCGATCATGTTACCAT
1 TACTGATGGCTTTGTGCCGATCATATCACTAT
* **
43360798 TATTGATGG-TTGTGTGCCGATCATATCACTGC
1 TACTGATGGCTT-TGTGCCGATCATATCACTAT
* * *
43360830 TACTGATGGCTTTGTGCCAATCACATTACTA-
1 TACTGATGGCTTTGTGCCGATCATATCACTAT
*
43360861 TACTTATGG
1 TACTGATGG
43360870 GTTGTAGCCA
Statistics
Matches: 162, Mismatches: 33, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
31 13 0.08
32 145 0.90
33 4 0.02
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATCACTAT
Found at i:43360874 original size:64 final size:64
Alignment explanation
Indices: 43360635--43360858 Score: 283
Period size: 64 Copynumber: 3.5 Consensus size: 64
43360625 TTTGCTGCGA
* * *
43360635 TGCTACTGATGGCTTTGTGCCAATCATAGTACCATTACTGATGGCTT-TGTGTCGATTATATTAC
1 TGCTACTGATGGCTTTGTGCCAATCATATTACCATTACTGATGG-TTGTGTGTCGATCATATCAC
* * * * *
43360699 TGTTACCGATGG-TTATGTGTCGATCAT-TTCACTATTACTGATGGTTGTGTGTCGATCATATCA
1 TGCTACTGATGGCTT-TGTGCCAATCATATT-ACCATTACTGATGGTTGTGTGTCGATCATATCA
43360762 C
64 C
* * * *
43360763 TGCTACTGATGGCTTTGTGCCGATCATGTTACCATTATTGATGGTTGTGTGCCGATCATATCAC
1 TGCTACTGATGGCTTTGTGCCAATCATATTACCATTACTGATGGTTGTGTGTCGATCATATCAC
*
43360827 TGCTACTGATGGCTTTGTGCCAATCACATTAC
1 TGCTACTGATGGCTTTGTGCCAATCATATTAC
43360859 TATACTTATG
Statistics
Matches: 138, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
63 5 0.04
64 129 0.93
65 4 0.03
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (64 bp):
TGCTACTGATGGCTTTGTGCCAATCATATTACCATTACTGATGGTTGTGTGTCGATCATATCAC
Found at i:43362080 original size:44 final size:41
Alignment explanation
Indices: 43361933--43362099 Score: 122
Period size: 43 Copynumber: 3.9 Consensus size: 41
43361923 AAAACTCGTA
* * * * *
43361933 CGATGCCAATGTCCCAGACGTGCTCTTACA-TATAGTCAACTAT
1 CGATGCCAACGTCCCAGACATGGTCTTACACGA-AATCAA--AT
* * *
43361976 CGATGCC-ACTGTCCCAAACAGGGTCTTACACGAAATCATAT
1 CGATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAAT
* *
43362017 ACGATGCCAATGTCTCAGACATGGTCTTACACGTAAATCTCAAAT
1 -CGATGCCAACGTCCCAGACATGGTCTTACACG-AAA--TCAAAT
* * * *
43362062 CGATGCCAACATCCCAGACGTGGTCTTGCGCGAAATCA
1 CGATGCCAACGTCCCAGACATGGTCTTACACGAAATCA
43362100 CATATCGGAG
Statistics
Matches: 98, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
41 5 0.05
42 27 0.28
43 34 0.35
44 27 0.28
45 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (41 bp):
CGATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAAT
Found at i:43369474 original size:79 final size:81
Alignment explanation
Indices: 43369338--43369522 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
43369328 TTGAATGATG
* *
43369338 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
43369402 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
43369417 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
43369479 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
43369497 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43369523 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:43369536 original size:40 final size:40
Alignment explanation
Indices: 43369339--43369522 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
43369329 TGAATGATGT
* * * *
43369339 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
43369379 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
43369419 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
43369457 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
43369498 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43369523 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:43369544 original size:79 final size:79
Alignment explanation
Indices: 43369391--43369555 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
43369381 GGACTAAGAT
* * **
43369391 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
43369456 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
43369470 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
43369533 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
43369549 CCGAAGG
1 CCGAAGG
43369556 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:43380829 original size:1 final size:1
Alignment explanation
Indices: 43380777--43380809 Score: 57
Period size: 1 Copynumber: 33.0 Consensus size: 1
43380767 GAACCTAATA
*
43380777 TTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
43380810 GACTATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:43382543 original size:59 final size:59
Alignment explanation
Indices: 43382451--43382574 Score: 212
Period size: 59 Copynumber: 2.1 Consensus size: 59
43382441 ATTTGTCGGG
*
43382451 CCTTTGTTCTCGTTATTGGGCTTTATGGTAGTTTGAGTCCATCACGTTCTTGGGTTGGA
1 CCTTTGTTCTCGTCATTGGGCTTTATGGTAGTTTGAGTCCATCACGTTCTTGGGTTGGA
* * *
43382510 CCTTTGTTCTCGTCATTGGGCTTTGTGGTAGTTTGAGTCCATTACGTTCTTGGGTTGGG
1 CCTTTGTTCTCGTCATTGGGCTTTATGGTAGTTTGAGTCCATCACGTTCTTGGGTTGGA
43382569 CCTTTG
1 CCTTTG
43382575 AGACTCGTAC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.10, C:0.18, G:0.28, T:0.44
Consensus pattern (59 bp):
CCTTTGTTCTCGTCATTGGGCTTTATGGTAGTTTGAGTCCATCACGTTCTTGGGTTGGA
Found at i:43382944 original size:18 final size:18
Alignment explanation
Indices: 43382923--43382982 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
43382913 TGCATGGAGC
43382923 GCATGGTTTGCATGAAAT
1 GCATGGTTTGCATGAAAT
** *
43382941 GCATGGAATGCATGAAGT
1 GCATGGTTTGCATGAAAT
** *
43382959 GCATATTTTGCATGGAAT
1 GCATGGTTTGCATGAAAT
43382977 GCATGG
1 GCATGG
43382983 AGTGCATGCC
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (18 bp):
GCATGGTTTGCATGAAAT
Found at i:43382961 original size:27 final size:28
Alignment explanation
Indices: 43382931--43382990 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
43382921 GCGCATGGTT
43382931 TGCATGA-AATGCATGGAATGCATGAAG
1 TGCATGATAATGCATGGAATGCATGAAG
** *
43382958 TGCAT-ATTTTGCATGGAATGCATGGAG
1 TGCATGATAATGCATGGAATGCATGAAG
43382985 TGCATG
1 TGCATG
43382991 CCCAAACTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (28 bp):
TGCATGATAATGCATGGAATGCATGAAG
Found at i:43382979 original size:9 final size:9
Alignment explanation
Indices: 43382931--43382990 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
43382921 GCGCATGGTT
*
43382931 TGCATGAAA
1 TGCATGGAA
43382940 TGCATGGAA
1 TGCATGGAA
43382949 TGCAT-GAA
1 TGCATGGAA
****
43382957 GTGCATATTT
1 -TGCATGGAA
43382967 TGCATGGAA
1 TGCATGGAA
*
43382976 TGCATGGAG
1 TGCATGGAA
43382985 TGCATG
1 TGCATG
43382991 CCCAAACTTG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
8 3 0.08
9 37 0.93
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (9 bp):
TGCATGGAA
Found at i:43383042 original size:36 final size:36
Alignment explanation
Indices: 43382991--43383061 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
43382981 GGAGTGCATG
*
43382991 CCCAAACTTGATCAATTAAACCCGTGACAGCTTCTA
1 CCCAAACTTGATCAATTAAACCCATGACAGCTTCTA
*
43383027 CCCAAACTTGTTCAATTAAACCCATGACAGCTTCT
1 CCCAAACTTGATCAATTAAACCCATGACAGCTTCT
43383062 TTAAACTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.32, C:0.31, G:0.10, T:0.27
Consensus pattern (36 bp):
CCCAAACTTGATCAATTAAACCCATGACAGCTTCTA
Found at i:43388830 original size:19 final size:17
Alignment explanation
Indices: 43388791--43388830 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
43388781 TTTTATCTAA
*
43388791 TCAATCAAATGTTGTTT
1 TCAATCAAATGTTGCTT
43388808 TCAATTCAAATGTTGACTT
1 TCAA-TCAAATGTTG-CTT
43388827 TCAA
1 TCAA
43388831 CTTAAGACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 10 0.50
19 6 0.30
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (17 bp):
TCAATCAAATGTTGCTT
Found at i:43392169 original size:10 final size:10
Alignment explanation
Indices: 43392151--43392180 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
43392141 GGCACTTAGA
*
43392151 TTGGGATGTT
1 TTGGTATGTT
43392161 TTGGTATGTT
1 TTGGTATGTT
43392171 TTGGTATGTT
1 TTGGTATGTT
43392181 GTAGACTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.33, T:0.57
Consensus pattern (10 bp):
TTGGTATGTT
Found at i:43397525 original size:13 final size:13
Alignment explanation
Indices: 43397507--43397533 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43397497 AGTTTTTCAT
43397507 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
43397520 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
43397533 T
1 T
43397534 TTGGTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:43404658 original size:95 final size:96
Alignment explanation
Indices: 43404486--43404670 Score: 266
Period size: 95 Copynumber: 1.9 Consensus size: 96
43404476 AGAAGAGTAT
* * * **
43404486 GATTGATCTCTCACCTGTTGTGAAATGTTATTGGTGTAGTTTAAAAGATCATGAGGGTTCCCAAT
1 GATTGAGCTATCACCTGTTGTGAAATGTTATTGGTGTAGATTAAAAGATCACAAGGGTTCCCAAT
43404551 GTCCAATTAAATATCC-ACATAGAGAGAATAA
66 GTCCAATTAAATATCCAACA-AGAGAGAATAA
* * * *
43404582 GATTGAGCTATCACCTTTTGTGCAATGTTATTGGTGTA-ATTCAAAGATCACAAGGGTTTCCAAT
1 GATTGAGCTATCACCTGTTGTGAAATGTTATTGGTGTAGATTAAAAGATCACAAGGGTTCCCAAT
43404646 GTCCAATTAAATATCCAACAAGAGA
66 GTCCAATTAAATATCCAACAAGAGA
43404671 AGAAAGTAAG
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
95 42 0.53
96 37 0.47
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (96 bp):
GATTGAGCTATCACCTGTTGTGAAATGTTATTGGTGTAGATTAAAAGATCACAAGGGTTCCCAAT
GTCCAATTAAATATCCAACAAGAGAGAATAA
Found at i:43406696 original size:93 final size:94
Alignment explanation
Indices: 43406520--43406698 Score: 288
Period size: 93 Copynumber: 1.9 Consensus size: 94
43406510 TTTAAATCAC
* * *
43406520 ATTGGATTCAATTTTAATGTCTATTTTTTATATATTATCCCAACAGTGTATTTATTAGCTTTATA
1 ATTGGATCCAATTTTAATGTCCAATTTTTATATATTATCCCAACAGTGTATTTATTAGCTTTATA
** *
43406585 TTTTTAGGTTCTTGTTTATTAAGAATTAT
66 TTTTTAGGGCCTTATTTATTAAGAATTAT
*
43406614 ATTGGATCCAATTTTAATGTCCAATTTTTATA-ATTATTCCAACAGTGTATTTATTAGCTTTATA
1 ATTGGATCCAATTTTAATGTCCAATTTTTATATATTATCCCAACAGTGTATTTATTAGCTTTATA
43406678 TTTTTAGGGCCTTATTTATTA
66 TTTTTAGGGCCTTATTTATTA
43406699 TGTATTTTAG
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
93 49 0.63
94 29 0.37
ACGTcount: A:0.28, C:0.10, G:0.11, T:0.51
Consensus pattern (94 bp):
ATTGGATCCAATTTTAATGTCCAATTTTTATATATTATCCCAACAGTGTATTTATTAGCTTTATA
TTTTTAGGGCCTTATTTATTAAGAATTAT
Found at i:43408926 original size:20 final size:20
Alignment explanation
Indices: 43408832--43408932 Score: 96
Period size: 20 Copynumber: 5.0 Consensus size: 20
43408822 TTGTACAAGA
*
43408832 TTGCACTTCGATGCCTCTAT
1 TTGCACTTCGATGCCTCTGT
* * * *
43408852 TTACACTTCGGTGTCTCTAT
1 TTGCACTTCGATGCCTCTGT
* *
43408872 TTGCACTACGATGCCTCTGA
1 TTGCACTTCGATGCCTCTGT
*
43408892 TTGCACAATC-ATGCCTCTGT
1 TTGCAC-TTCGATGCCTCTGT
* *
43408912 TTGCACTTCGGTGCCTTTGT
1 TTGCACTTCGATGCCTCTGT
43408932 T
1 T
43408933 ACACATCTAT
Statistics
Matches: 64, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
19 2 0.03
20 61 0.95
21 1 0.02
ACGTcount: A:0.15, C:0.28, G:0.18, T:0.40
Consensus pattern (20 bp):
TTGCACTTCGATGCCTCTGT
Found at i:43409632 original size:21 final size:23
Alignment explanation
Indices: 43409606--43409655 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
43409596 ATGTGTGTTA
* *
43409606 TGTTTAA-TAAGTC-TTTTCATG
1 TGTTTAATTAACTCATTTTAATG
43409627 TGTTTAATTAACTCATTTTAATG
1 TGTTTAATTAACTCATTTTAATG
43409650 TGTTTA
1 TGTTTA
43409656 TTGCAGGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.28
22 5 0.20
23 13 0.52
ACGTcount: A:0.26, C:0.08, G:0.12, T:0.54
Consensus pattern (23 bp):
TGTTTAATTAACTCATTTTAATG
Found at i:43421609 original size:21 final size:21
Alignment explanation
Indices: 43421585--43421627 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
43421575 AAATATTTAG
* *
43421585 TTAAAATTTAACAATAAAATT
1 TTAAAATTTAAAAACAAAATT
*
43421606 TTAAATTTTAAAAACAAAATT
1 TTAAAATTTAAAAACAAAATT
43421627 T
1 T
43421628 GATTAGTAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAAATTTAAAAACAAAATT
Found at i:43435252 original size:59 final size:59
Alignment explanation
Indices: 43435160--43435283 Score: 212
Period size: 59 Copynumber: 2.1 Consensus size: 59
43435150 ATTTGTCGGG
*
43435160 CCTTTGTTCTCGTTATTGGGCTTTATGGTAGTTTGAGTCCATCACGTTCTTGGGTTGGA
1 CCTTTGTTCTCGTCATTGGGCTTTATGGTAGTTTGAGTCCATCACGTTCTTGGGTTGGA
* * *
43435219 CCTTTGTTCTCGTCATTGGGCTTTGTGGTAGTTTGAGTCCATTACGTTCTTGGGTTGGG
1 CCTTTGTTCTCGTCATTGGGCTTTATGGTAGTTTGAGTCCATCACGTTCTTGGGTTGGA
43435278 CCTTTG
1 CCTTTG
43435284 AGACTCGTAC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.10, C:0.18, G:0.28, T:0.44
Consensus pattern (59 bp):
CCTTTGTTCTCGTCATTGGGCTTTATGGTAGTTTGAGTCCATCACGTTCTTGGGTTGGA
Found at i:43435654 original size:18 final size:18
Alignment explanation
Indices: 43435633--43435692 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
43435623 TGCATGGAGC
43435633 GCATGGTTTGCATGAAAT
1 GCATGGTTTGCATGAAAT
** *
43435651 GCATGGAATGCATGAAGT
1 GCATGGTTTGCATGAAAT
** *
43435669 GCATATTTTGCATGGAAT
1 GCATGGTTTGCATGAAAT
43435687 GCATGG
1 GCATGG
43435693 AGTGCATGCC
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (18 bp):
GCATGGTTTGCATGAAAT
Found at i:43435671 original size:27 final size:28
Alignment explanation
Indices: 43435641--43435700 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
43435631 GCGCATGGTT
43435641 TGCATGA-AATGCATGGAATGCATGAAG
1 TGCATGATAATGCATGGAATGCATGAAG
** *
43435668 TGCAT-ATTTTGCATGGAATGCATGGAG
1 TGCATGATAATGCATGGAATGCATGAAG
43435695 TGCATG
1 TGCATG
43435701 CCCAAACTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (28 bp):
TGCATGATAATGCATGGAATGCATGAAG
Found at i:43435689 original size:9 final size:9
Alignment explanation
Indices: 43435641--43435700 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
43435631 GCGCATGGTT
*
43435641 TGCATGAAA
1 TGCATGGAA
43435650 TGCATGGAA
1 TGCATGGAA
43435659 TGCAT-GAA
1 TGCATGGAA
****
43435667 GTGCATATTT
1 -TGCATGGAA
43435677 TGCATGGAA
1 TGCATGGAA
*
43435686 TGCATGGAG
1 TGCATGGAA
43435695 TGCATG
1 TGCATG
43435701 CCCAAACTTG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
8 3 0.08
9 37 0.93
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (9 bp):
TGCATGGAA
Found at i:43435752 original size:36 final size:36
Alignment explanation
Indices: 43435701--43435771 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
43435691 GGAGTGCATG
*
43435701 CCCAAACTTGATCAATTAAACCCGTGACAGCTTCTA
1 CCCAAACTTGATCAATTAAACCCATGACAGCTTCTA
*
43435737 CCCAAACTTGTTCAATTAAACCCATGACAGCTTCT
1 CCCAAACTTGATCAATTAAACCCATGACAGCTTCT
43435772 TTAAACTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.32, C:0.31, G:0.10, T:0.27
Consensus pattern (36 bp):
CCCAAACTTGATCAATTAAACCCATGACAGCTTCTA
Found at i:43441554 original size:19 final size:17
Alignment explanation
Indices: 43441515--43441554 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
43441505 TTTTATCTAA
*
43441515 TCAATCAAATGTTGTTT
1 TCAATCAAATGTTGCTT
43441532 TCAATTCAAATGTTGACTT
1 TCAA-TCAAATGTTG-CTT
43441551 TCAA
1 TCAA
43441555 CTTAAGACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 10 0.50
19 6 0.30
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (17 bp):
TCAATCAAATGTTGCTT
Found at i:43444890 original size:10 final size:10
Alignment explanation
Indices: 43444872--43444901 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
43444862 GGCACTTAGA
*
43444872 TTGGGATGTT
1 TTGGTATGTT
43444882 TTGGTATGTT
1 TTGGTATGTT
43444892 TTGGTATGTT
1 TTGGTATGTT
43444902 GTAGACTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.33, T:0.57
Consensus pattern (10 bp):
TTGGTATGTT
Found at i:43450222 original size:13 final size:13
Alignment explanation
Indices: 43450204--43450230 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43450194 AGTTTTTCAT
43450204 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
43450217 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
43450230 T
1 T
43450231 TTGGTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:43457313 original size:95 final size:96
Alignment explanation
Indices: 43457141--43457325 Score: 266
Period size: 95 Copynumber: 1.9 Consensus size: 96
43457131 AGAAGAGTAT
* * * **
43457141 GATTGATCTCTCACCTGTTGTGAAATGTTATTGGTGTAGTTTAAAAGATCATGAGGGTTCCCAAT
1 GATTGAGCTATCACCTGTTGTGAAATGTTATTGGTGTAGATTAAAAGATCACAAGGGTTCCCAAT
43457206 GTCCAATTAAATATCC-ACATAGAGAGAATAA
66 GTCCAATTAAATATCCAACA-AGAGAGAATAA
* * * *
43457237 GATTGAGCTATCACCTTTTGTGCAATGTTATTGGTGTA-ATTCAAAGATCACAAGGGTTTCCAAT
1 GATTGAGCTATCACCTGTTGTGAAATGTTATTGGTGTAGATTAAAAGATCACAAGGGTTCCCAAT
43457301 GTCCAATTAAATATCCAACAAGAGA
66 GTCCAATTAAATATCCAACAAGAGA
43457326 AGAAAGTAAG
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
95 42 0.53
96 37 0.47
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (96 bp):
GATTGAGCTATCACCTGTTGTGAAATGTTATTGGTGTAGATTAAAAGATCACAAGGGTTCCCAAT
GTCCAATTAAATATCCAACAAGAGAGAATAA
Found at i:43459339 original size:93 final size:93
Alignment explanation
Indices: 43459164--43459341 Score: 277
Period size: 93 Copynumber: 1.9 Consensus size: 93
43459154 TTTAAATCAC
* * *
43459164 ATTGGATTCAATTTAATGTCTATTTTTTATATATTATCCCAACAGTGTATTTATTAGCTTTATAT
1 ATTGGATCCAATTTAATGTCCAATTTTTATATATTATCCCAACAGTGTATTTATTAGCTTTATAT
** *
43459229 TTTTAGGTTCTTGTTTATTAAGAATTAT
66 TTTTAGGGCCTTATTTATTAAGAATTAT
*
43459257 ATTGGATCCAATTTTAATGTCCAATTTTTATA-ATTATTCCAACAGTGTATTTATTAGCTTTATA
1 ATTGGATCCAA-TTTAATGTCCAATTTTTATATATTATCCCAACAGTGTATTTATTAGCTTTATA
43459321 TTTTTAGGGCCTTATTTATTA
65 TTTTTAGGGCCTTATTTATTA
43459342 TGTATTTAGG
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
93 59 0.77
94 18 0.23
ACGTcount: A:0.28, C:0.10, G:0.11, T:0.51
Consensus pattern (93 bp):
ATTGGATCCAATTTAATGTCCAATTTTTATATATTATCCCAACAGTGTATTTATTAGCTTTATAT
TTTTAGGGCCTTATTTATTAAGAATTAT
Found at i:43461562 original size:20 final size:20
Alignment explanation
Indices: 43461468--43461568 Score: 96
Period size: 20 Copynumber: 5.0 Consensus size: 20
43461458 TTGTACAAGA
*
43461468 TTGCACTTCGATGCCTCTAT
1 TTGCACTTCGATGCCTCTGT
* * * *
43461488 TTACACTTCGGTGTCTCTAT
1 TTGCACTTCGATGCCTCTGT
* *
43461508 TTGCACTACGATGCCTCTGA
1 TTGCACTTCGATGCCTCTGT
*
43461528 TTGCACAATC-ATGCCTCTGT
1 TTGCAC-TTCGATGCCTCTGT
* *
43461548 TTGCACTTCGGTGCCTTTGT
1 TTGCACTTCGATGCCTCTGT
43461568 T
1 T
43461569 ACACATCTAT
Statistics
Matches: 64, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
19 2 0.03
20 61 0.95
21 1 0.02
ACGTcount: A:0.15, C:0.28, G:0.18, T:0.40
Consensus pattern (20 bp):
TTGCACTTCGATGCCTCTGT
Found at i:43462266 original size:21 final size:23
Alignment explanation
Indices: 43462240--43462289 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
43462230 ATGTGTGTTA
* *
43462240 TGTTTAA-TAAGTC-TTTTCATG
1 TGTTTAATTAACTCATTTTAATG
43462261 TGTTTAATTAACTCATTTTAATG
1 TGTTTAATTAACTCATTTTAATG
43462284 TGTTTA
1 TGTTTA
43462290 TTGCAGGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.28
22 5 0.20
23 13 0.52
ACGTcount: A:0.26, C:0.08, G:0.12, T:0.54
Consensus pattern (23 bp):
TGTTTAATTAACTCATTTTAATG
Found at i:43472757 original size:27 final size:27
Alignment explanation
Indices: 43472727--43472788 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
43472717 TGTTAGGACG
* *
43472727 GTAAACACAAGGTAGTCTACTGGGATA
1 GTAAACACAAGGTAGCCCACTGGGATA
* *
43472754 GTAAACACGAGGTAGCCCATTGGGATA
1 GTAAACACAAGGTAGCCCACTGGGATA
*
43472781 GAAAACAC
1 GTAAACAC
43472789 GGAGAGTCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.18
Consensus pattern (27 bp):
GTAAACACAAGGTAGCCCACTGGGATA
Found at i:43474384 original size:21 final size:21
Alignment explanation
Indices: 43474360--43474402 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
43474350 AAATATTTAG
* *
43474360 TTAAAATTTAACAATAAAATT
1 TTAAAATTTAAAAACAAAATT
*
43474381 TTAAATTTTAAAAACAAAATT
1 TTAAAATTTAAAAACAAAATT
43474402 T
1 T
43474403 GATTAGTAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAAATTTAAAAACAAAATT
Found at i:43475799 original size:45 final size:45
Alignment explanation
Indices: 43475735--43475925 Score: 282
Period size: 45 Copynumber: 4.3 Consensus size: 45
43475725 ACCCGCAACG
43475735 AAACCACCTCCCTCTCCTACTGTGGCACCACCATCACCTGCTAAT
1 AAACCACCTCCCTCTCCTACTGTGGCACCACCATCACCTGCTAAT
* *
43475780 AAACCACCCCCCTCTCCTACTATGGCACCACCATCACCTGCTAAT
1 AAACCACCTCCCTCTCCTACTGTGGCACCACCATCACCTGCTAAT
* *
43475825 AAACCACCTCCCTCTCCTACTGCGGCACCACCATCACCTGCTACT
1 AAACCACCTCCCTCTCCTACTGTGGCACCACCATCACCTGCTAAT
* *
43475870 AAACCACCTCCCTCTCCTAC--TGGTA-CACCACCACCTGCT-AT
1 AAACCACCTCCCTCTCCTACTGTGGCACCACCATCACCTGCTAAT
*
43475911 AAAACCACCACCCTC
1 -AAACCACCTCCCTC
43475926 GCCATTTGTG
Statistics
Matches: 134, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
41 1 0.01
42 26 0.19
43 3 0.02
45 104 0.78
ACGTcount: A:0.26, C:0.47, G:0.07, T:0.20
Consensus pattern (45 bp):
AAACCACCTCCCTCTCCTACTGTGGCACCACCATCACCTGCTAAT
Found at i:43475877 original size:21 final size:21
Alignment explanation
Indices: 43475761--43475877 Score: 58
Period size: 21 Copynumber: 5.3 Consensus size: 21
43475751 CTACTGTGGC
*
43475761 ACCACCATCACCTGCTAATAA
1 ACCACCATCACCTGCTACTAA
* * * *
43475782 ACCACC-CCCCTCTCCTACTATGGC
1 ACCACCATCAC-CTGCTACTA---A
*
43475806 ACCACCATCACCTGCTAATAA
1 ACCACCATCACCTGCTACTAA
* * **
43475827 ACCACC-TCCCTCTCCTACTGCGGC
1 ACCACCATCAC-CTGCTACT---AA
43475851 ACCACCATCACCTGCTACTAA
1 ACCACCATCACCTGCTACTAA
43475872 ACCACC
1 ACCACC
43475878 TCCCTCTCCT
Statistics
Matches: 67, Mismatches: 19, Indels: 20
0.63 0.18 0.19
Matches are distributed among these distances:
20 5 0.07
21 31 0.46
24 26 0.39
25 5 0.07
ACGTcount: A:0.27, C:0.47, G:0.07, T:0.19
Consensus pattern (21 bp):
ACCACCATCACCTGCTACTAA
Found at i:43475877 original size:24 final size:24
Alignment explanation
Indices: 43475760--43475877 Score: 61
Period size: 24 Copynumber: 5.2 Consensus size: 24
43475750 CCTACTGTGG
*
43475760 CACCACCATCACCTGCTAATAAAC
1 CACCACCATCACCTGCTACTAAAC
* ***
43475784 CACC-CC--C-CTCTCCTACTATGG
1 CACCACCATCAC-CTGCTACTAAAC
*
43475805 CACCACCATCACCTGCTAATAAAC
1 CACCACCATCACCTGCTACTAAAC
* * * ****
43475829 CACCTCC--C-TCTCCTACTGCGG
1 CACCACCATCACCTGCTACTAAAC
43475850 CACCACCATCACCTGCTACTAAAC
1 CACCACCATCACCTGCTACTAAAC
43475874 CACC
1 CACC
43475878 TCCCTCTCCT
Statistics
Matches: 61, Mismatches: 25, Indels: 16
0.60 0.25 0.16
Matches are distributed among these distances:
20 1 0.02
21 24 0.39
22 3 0.05
23 3 0.05
24 29 0.48
25 1 0.02
ACGTcount: A:0.27, C:0.47, G:0.07, T:0.19
Consensus pattern (24 bp):
CACCACCATCACCTGCTACTAAAC
Found at i:43475899 original size:24 final size:24
Alignment explanation
Indices: 43475827--43475901 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
43475817 CTGCTAATAA
*
43475827 ACCACCTCCCTCTCCTACTGCG-GC
1 ACCACCTCCCTCTCCTACTG-GTAC
* * *
43475851 ACCACCATCAC-CTGCTAC---TAA
1 ACCACC-TCCCTCTCCTACTGGTAC
43475872 ACCACCTCCCTCTCCTACTGGTAC
1 ACCACCTCCCTCTCCTACTGGTAC
43475896 ACCACC
1 ACCACC
43475902 ACCTGCTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
20 3 0.08
21 12 0.32
24 20 0.53
25 3 0.08
ACGTcount: A:0.21, C:0.51, G:0.08, T:0.20
Consensus pattern (24 bp):
ACCACCTCCCTCTCCTACTGGTAC
Found at i:43476212 original size:16 final size:16
Alignment explanation
Indices: 43476191--43476260 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
43476181 TTTGGTTCGC
* *
43476191 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
43476207 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
43476223 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
43476239 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
43476255 TGTAAT
1 TGTAAT
43476261 AGCAAATCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:43476344 original size:39 final size:43
Alignment explanation
Indices: 43476239--43476348 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
43476229 GGAATAGAGG
43476239 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * * ***
43476284 TGTAATGGAATATAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
43476324 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
43476349 TAATGGAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 19 0.35
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.40
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:43476515 original size:18 final size:17
Alignment explanation
Indices: 43476494--43476528 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43476484 TTATTATTAA
*
43476494 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
43476512 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
43476529 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:43476612 original size:120 final size:120
Alignment explanation
Indices: 43476472--43477000 Score: 893
Period size: 120 Copynumber: 4.4 Consensus size: 120
43476462 ATTTAATCAT
* *
43476472 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
* * * * * * *
43476537 ATCAATATTTTTATCTGAATTTACTAAAATAATAATATATGATACTATAAAATATA
65 TTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
*
43476593 TTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
**
43476658 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATA
66 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
43476713 ATTTAACAT-A--ATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
*
43476775 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
66 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
*
43476830 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
43476895 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
66 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
*
43476950 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
1 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
43477001 CTAAAGTTTG
Statistics
Matches: 389, Mismatches: 16, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
117 112 0.29
118 1 0.00
119 1 0.00
120 272 0.70
121 3 0.01
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
Found at i:43476854 original size:26 final size:26
Alignment explanation
Indices: 43476824--43476981 Score: 83
Period size: 26 Copynumber: 6.5 Consensus size: 26
43476814 AATACTATAT
43476824 AATATAATTTAAAATAATTATTATTA
1 AATATAATTTAAAATAATTATTATTA
*
43476850 AATATAATTTAATAA-AAATA-TA-T-
1 AATATAATTTAA-AATAATTATTATTA
* ** *
43476873 AATTTAA--TAAAATTCTTAATATTA
1 AATATAATTTAAAATAATTATTATTA
* * *
43476897 AATAT--TCTT-ATATGAATT-TAATAA
1 AATATAAT-TTAAAAT-AATTATTATTA
* * *
43476921 AATCATAA--T-ATATAA-TACTATAA
1 AAT-ATAATTTAAAATAATTATTATTA
43476944 AATATAATTTAAAATAATTATTATTA
1 AATATAATTTAAAATAATTATTATTA
43476970 AATATAATTTAA
1 AATATAATTTAA
43476982 TAAAAATATA
Statistics
Matches: 98, Mismatches: 17, Indels: 34
0.66 0.11 0.23
Matches are distributed among these distances:
20 2 0.02
21 5 0.05
22 7 0.07
23 16 0.16
24 20 0.20
25 12 0.12
26 34 0.35
27 2 0.02
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.43
Consensus pattern (26 bp):
AATATAATTTAAAATAATTATTATTA
Found at i:43476897 original size:18 final size:18
Alignment explanation
Indices: 43476731--43476884 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
43476721 TAATTATTAA
43476731 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
43476749 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ****
43476767 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
43476786 ATATGAATTTAAT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
43476804 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* *
43476820 ATATAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
43476839 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
43476851 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
43476869 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
43476885 TTCTTAATAT
Statistics
Matches: 99, Mismatches: 23, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 2 0.02
15 5 0.05
16 8 0.08
17 16 0.16
18 41 0.41
19 15 0.15
20 3 0.03
21 3 0.03
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:43476901 original size:237 final size:239
Alignment explanation
Indices: 43476472--43477000 Score: 882
Period size: 237 Copynumber: 2.2 Consensus size: 239
43476462 ATTTAATCAT
* *
43476472 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAA-ATAA-TATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
* * * * * * *
43476537 ATCAATATTTTTATCTGAATTTACTAAAATAATAATATATGATACTATAAAATATATTTTAACAT
64 ATAAATATTCTTATATGAATTTAATAAAATAATAATATATAATACTATAAAATATAATTTAAAAT
43476602 AATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTC
129 AATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTC
**
43476667 TTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATA
194 TTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
* *
43476713 ATTTAACAT-A-ATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 ATTTAAAATAATATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAAT
* *
43476776 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAATTTAAAATAA
66 AAATATTCTTATATGAATTTAATAAAATAATAATATATAATACTATAAAATATAATTTAAAATAA
43476841 TTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
131 TTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
43476906 ATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
196 ATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
43476950 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
1 ATTTAAAATAA-TATTATTAAATATAATTTAATAAAAATATATAATTTAAT
43477001 CTAAAGTTTG
Statistics
Matches: 269, Mismatches: 16, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
237 221 0.82
238 1 0.00
239 1 0.00
240 40 0.15
241 6 0.02
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (239 bp):
ATTTAAAATAATATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTAATAAAATAATAATATATAATACTATAAAATATAATTTAAAATAA
TTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
ATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
Found at i:43495264 original size:22 final size:22
Alignment explanation
Indices: 43495236--43495304 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
43495226 TTACTGATTA
*
43495236 TTAGCACATTAGTGCTCTCCGT
1 TTAGCACATTAGTGCTCTCTGT
*
43495258 TTAGCACATTTGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
* ** *
43495280 ATAGCATTTTAGTGTTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
43495302 TTA
1 TTA
43495305 ATAGTGCATA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.45
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCTGT
Found at i:43495765 original size:51 final size:49
Alignment explanation
Indices: 43495636--43495830 Score: 221
Period size: 51 Copynumber: 3.9 Consensus size: 49
43495626 GAAGTTGCTA
* *
43495636 GGTCACGTATGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-ATGAT
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-GAT
* * * * *
43495685 AGGTCACTTGTGTAGTACTATGTGTAGGCTACTATGCGTACCGGATAGCTT
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-AT
* * *
43495736 CGATCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGAAAT
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT--AGAT
* *
43495788 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCGG
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
43495831 GTACCATTGA
Statistics
Matches: 122, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
50 40 0.33
51 80 0.66
52 1 0.01
53 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGAT
Found at i:43495824 original size:26 final size:26
Alignment explanation
Indices: 43495743--43495824 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
43495733 CTTCGATCAC
43495743 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* * *
43495769 ACGTGTA-T-CGGATG-GAAATGG-TCAC-
1 ATGTGTAGTAC-TATGTG-CA-GGCT-ACT
43495794 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
43495820 ATGTG
1 ATGTG
43495825 AACCGGGTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.39
26 21 0.51
27 2 0.05
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:43495830 original size:102 final size:101
Alignment explanation
Indices: 43495645--43495830 Score: 293
Period size: 102 Copynumber: 1.8 Consensus size: 101
43495635 AGGTCACGTA
* * *
43495645 TGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCACTTGTGTAGTACTATGTGT
1 TGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAAAGGTCACATGTGTAGTACTATGTGC
*
43495710 AGGCTACTATGCGTACCGGATAGCTTCGATCACATG
66 AGGCTACTATGCGAACCGGATAGCTTCGATCACATG
*
43495746 TGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGGAAATGGTCACATGTGTAGTACTATGT
1 TGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAT-GAAA-GGTCACATGTGTAGTACTATGT
*
43495810 GCAGGCTACTATGTGAACCGG
64 GCAGGCTACTATGCGAACCGG
43495831 GTACCATTGA
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
100 2 0.03
101 36 0.47
102 39 0.51
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (101 bp):
TGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAAAGGTCACATGTGTAGTACTATGTGC
AGGCTACTATGCGAACCGGATAGCTTCGATCACATG
Found at i:43504467 original size:21 final size:23
Alignment explanation
Indices: 43504441--43504485 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
43504431 ATCACCAGAC
43504441 ACGGCGATG-C-CAGTGGTTACG
1 ACGGCGATGTCTCAGTGGTTACG
* *
43504462 ACGGCGGTGTCTCGGTGGTTACG
1 ACGGCGATGTCTCAGTGGTTACG
43504485 A
1 A
43504486 AGGGAGTGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 1 0.05
23 11 0.55
ACGTcount: A:0.16, C:0.22, G:0.40, T:0.22
Consensus pattern (23 bp):
ACGGCGATGTCTCAGTGGTTACG
Found at i:43504652 original size:37 final size:37
Alignment explanation
Indices: 43504606--43504676 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
43504596 AAAAATAATA
*
43504606 TTATTTTAATAGTTTAATATTAAATTTAAT-TTAACAC
1 TTATATTAATAGTTTAATATT-AATTTAATATTAACAC
* **
43504643 TTATATTAATTGTTTTTTATTAATTTAATATTAA
1 TTATATTAATAGTTTAATATTAATTTAATATTAA
43504677 AGTGATTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 8 0.28
37 21 0.72
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (37 bp):
TTATATTAATAGTTTAATATTAATTTAATATTAACAC
Found at i:43506908 original size:11 final size:11
Alignment explanation
Indices: 43506894--43506931 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
43506884 TTTTTTTTAA
43506894 TTTTAAAATAT
1 TTTTAAAATAT
*
43506905 TTTTAAAATAC
1 TTTTAAAATAT
43506916 TTTTAAAATACT
1 TTTTAAAATA-T
43506928 TTTT
1 TTTT
43506932 TAGTTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:43507254 original size:46 final size:45
Alignment explanation
Indices: 43507174--43507312 Score: 217
Period size: 46 Copynumber: 3.0 Consensus size: 45
43507164 CATGGCAAAG
43507174 TGTG-GAACGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
1 TGTGAGAA-GTAGGTATGGTATTTCAGT-AAGAAAACCATACTGAGT
43507220 TGTGAGAAGTAGGTATGGTATTTCAGTAACGAAAACCATACTGAGT
1 TGTGAGAAGTAGGTATGGTATTTCAGTAA-GAAAACCATACTGAGT
* *
43507266 TGTGAAAAGTAGGTATGGTATTTCAGTGAAAAAAACCATACTGAGT
1 TGTGAGAAGTAGGTATGGTATTTCAGT-AAGAAAACCATACTGAGT
43507312 T
1 T
43507313 ATAGCATTGT
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
45 2 0.02
46 81 0.92
47 5 0.06
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (45 bp):
TGTGAGAAGTAGGTATGGTATTTCAGTAAGAAAACCATACTGAGT
Found at i:43512168 original size:47 final size:47
Alignment explanation
Indices: 43512090--43512545 Score: 714
Period size: 47 Copynumber: 9.6 Consensus size: 47
43512080 CCCTTCGGGA
* * * * * *
43512090 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43512137 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43512184 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43512231 CTTATAACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43512278 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43512327 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43512374 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43512423 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43512470 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43512519 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
43512546 TATTCAAATA
Statistics
Matches: 379, Mismatches: 24, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
47 244 0.64
49 135 0.36
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43512328 original size:96 final size:96
Alignment explanation
Indices: 43512090--43512545 Score: 803
Period size: 96 Copynumber: 4.8 Consensus size: 96
43512080 CCCTTCGGGA
* * * * *
43512090 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
43512153 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
43512184 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATAACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
43512247 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
43512278 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
43512343 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
43512374 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
43512439 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
43512470 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
43512535 ACTTTCACATT
66 ACTTTCACATT
43512546 TATTCAAATA
Statistics
Matches: 345, Mismatches: 13, Indels: 6
0.95 0.04 0.02
Matches are distributed among these distances:
93 1 0.00
94 90 0.26
96 254 0.74
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43512346 original size:143 final size:141
Alignment explanation
Indices: 43512090--43512545 Score: 714
Period size: 143 Copynumber: 3.2 Consensus size: 141
43512080 CCCTTCGGGA
* * * * * * *
43512090 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATAACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
43512155 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
43512220 GGCTATTAGGC
131 GGCCATTAGGC
* *
43512231 CTTATAACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATAACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATAC
* *
43512296 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
43512361 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
43512374 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTAT-A-ACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
43512439 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
* *
43512504 CATTGGCCATTCGGC
127 CATCGGCCATTAGGC
*
43512519 CTTATCACATATATACACTTTCACATT
1 CTTATAACATATATACACTTTCACATT
43512546 TATTCAAATA
Statistics
Matches: 288, Mismatches: 21, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
141 46 0.16
143 153 0.53
144 1 0.00
145 88 0.31
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATAACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:43515512 original size:26 final size:26
Alignment explanation
Indices: 43515476--43515528 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
43515466 CCAAGGGTTC
43515476 CATAGGGCAAATCTATCCTTTTTTTT
1 CATAGGGCAAATCTATCCTTTTTTTT
43515502 CATAGGGCAAATCTATCCTTTTTTTT
1 CATAGGGCAAATCTATCCTTTTTTTT
43515528 C
1 C
43515529 TCTTTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.45
Consensus pattern (26 bp):
CATAGGGCAAATCTATCCTTTTTTTT
Found at i:43515705 original size:11 final size:12
Alignment explanation
Indices: 43515681--43515710 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
43515671 AAGAAGAAGC
43515681 AAAAAGCGCAAA
1 AAAAAGCGCAAA
*
43515693 AAAAATCGCAAA
1 AAAAAGCGCAAA
43515705 AAAAAG
1 AAAAAG
43515711 TTGCCTACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.70, C:0.13, G:0.13, T:0.03
Consensus pattern (12 bp):
AAAAAGCGCAAA
Found at i:43524487 original size:35 final size:35
Alignment explanation
Indices: 43524391--43524518 Score: 132
Period size: 36 Copynumber: 3.5 Consensus size: 35
43524381 TATCCAACCC
* * *
43524391 TTTTAAGGTTTTCTTAGATGGGTTTATTTCAATCTT
1 TTTTAAGGTTGTCTTAGACGTGTTTATTT-AATCTT
* *
43524427 TTTTAAGGTTGCCTTAGACAATGTTTATCTTAA-CTT
1 TTTTAAGGTTGTCTTAGAC-GTGTTTAT-TTAATCTT
* *
43524463 TTTTAAGGTTATCTTAAACGTGTTTATTTTAACTCTTT
1 TTTTAAGGTTGTCTTAGACGTGTTTA-TTTAA-TC-TT
43524501 TTTTAAGGTTGTCTTAGA
1 TTTTAAGGTTGTCTTAGA
43524519 TAATGTCTAG
Statistics
Matches: 75, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
35 10 0.13
36 36 0.48
37 9 0.12
38 20 0.27
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.52
Consensus pattern (35 bp):
TTTTAAGGTTGTCTTAGACGTGTTTATTTAATCTT
Found at i:43524540 original size:74 final size:71
Alignment explanation
Indices: 43524365--43524625 Score: 208
Period size: 72 Copynumber: 3.6 Consensus size: 71
43524355 TAGAAAAAAA
* * * * * *
43524365 TTGCTTTAGAC-ATGTCTATCCAACCCTTTTAAGGTTTTCTTAGATGGGTTTATTTCAATCTTTT
1 TTGCCTTAGACAATGTCTATCTAACCTTTTTAAGGTTATCTTAAACGGGTTTATTTCAATCTTTT
43524429 TTAAGG
66 TTAAGG
* * * *
43524435 TTGCCTTAGACAATGTTTATCTTAACTTTTTTAAGGTTATCTTAAACGTGTTTATTTTAACTCTT
1 TTGCCTTAGACAATGTCTATC-TAACCTTTTTAAGGTTATCTTAAACGGGTTTATTTCAA-TC-T
43524500 TTTTTAAGG
63 TTTTTAAGG
* * * * ** *
43524509 TTGTCTTAGATAATGTCTAGTCTAACCTTTTT-AGGATTGTCTTAGAC-AATATCTATCTCAA-C
1 TTGCCTTAGACAATGTCTA-TCTAACCTTTTTAAGG-TTATCTTAAACGGGT-T-TATTTCAATC
*
43524571 TTTTTTAAGA
62 TTTTTTAAGG
* * * * *
43524581 TTTCCTTAGACGAGGT-TATCTCAACCCTTTTAAGGTTGTCTTAAA
1 TTGCCTTAGACAATGTCTATCT-AACCTTTTTAAGGTTATCTTAAA
43524626 TAAGGCTATT
Statistics
Matches: 153, Mismatches: 28, Indels: 19
0.76 0.14 0.09
Matches are distributed among these distances:
70 13 0.08
71 27 0.18
72 53 0.35
73 7 0.05
74 45 0.29
75 8 0.05
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.46
Consensus pattern (71 bp):
TTGCCTTAGACAATGTCTATCTAACCTTTTTAAGGTTATCTTAAACGGGTTTATTTCAATCTTTT
TTAAGG
Found at i:43524549 original size:36 final size:36
Alignment explanation
Indices: 43524500--43524623 Score: 105
Period size: 36 Copynumber: 3.5 Consensus size: 36
43524490 TTTAACTCTT
* *
43524500 TTTTTAAGG-TTGTCTTAGATAATGTCTAGTCT-AACC
1 TTTTT-AGGATTGTCTTAGACAATATCTA-TCTCAACC
*
43524536 TTTTTAGGATTGTCTTAGACAATATCTATCTCAACT
1 TTTTTAGGATTGTCTTAGACAATATCTATCTCAACC
* * **
43524572 TTTTTAAGATT-TCCTTAGACGAGGT-TATCTCAACCC
1 TTTTTAGGATTGT-CTTAGACAATATCTATCTCAA-CC
*
43524608 TTTTAAGG-TTGTCTTA
1 TTTTTAGGATTGTCTTA
43524624 AATAAGGCTA
Statistics
Matches: 73, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
35 21 0.29
36 52 0.71
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (36 bp):
TTTTTAGGATTGTCTTAGACAATATCTATCTCAACC
Found at i:43524611 original size:110 final size:105
Alignment explanation
Indices: 43524426--43524653 Score: 242
Period size: 110 Copynumber: 2.1 Consensus size: 105
43524416 ATTTCAATCT
* * * * * * *
43524426 TTTTTAAGGTTGCCTTAGACAATGTTTATCTTAACTTTTTTAAGGTTATCTTAAACGTGTTTATT
1 TTTTT-AGGTTGCCTTAGACAATATCTATCTCAACTTTTTTAAGATTATCTTAAACGAGGTTATC
* * * * *
43524491 TTAACTCTTTTTTTAAGGTTGTCTTAGATAATGTCTAGTCTAACC
65 TCAAC-C--CTTTTAAGGTTGTCTTAAATAA-GGCTAGTCTAAAC
* *
43524536 TTTTTAGGATTGTCTTAGACAATATCTATCTCAACTTTTTTAAGATT-TCCTTAGACGAGGTTAT
1 TTTTTAGG-TTGCCTTAGACAATATCTATCTCAACTTTTTTAAGATTAT-CTTAAACGAGGTTAT
*
43524600 CTCAACCCTTTTAAGGTTGTCTTAAATAAGGCTATTCTAAAC
64 CTCAACCCTTTTAAGGTTGTCTTAAATAAGGCTAGTCTAAAC
43524642 TTTTTAAGGTTG
1 TTTTT-AGGTTG
43524654 TTAGATGGGG
Statistics
Matches: 100, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
106 18 0.18
107 23 0.23
109 5 0.05
110 54 0.54
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (105 bp):
TTTTTAGGTTGCCTTAGACAATATCTATCTCAACTTTTTTAAGATTATCTTAAACGAGGTTATCT
CAACCCTTTTAAGGTTGTCTTAAATAAGGCTAGTCTAAAC
Found at i:43524953 original size:31 final size:31
Alignment explanation
Indices: 43524918--43524983 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
43524908 AATAGAAGCA
*
43524918 AAGAAAGTTGAAATAAATGAAAACTTAAACT
1 AAGAAAATTGAAATAAATGAAAACTTAAACT
43524949 AAGAAAATTGAAATAAATGAAAACTTAAACT
1 AAGAAAATTGAAATAAATGAAAACTTAAACT
43524980 AAGA
1 AAGA
43524984 GTAAAAGGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.61, C:0.06, G:0.12, T:0.21
Consensus pattern (31 bp):
AAGAAAATTGAAATAAATGAAAACTTAAACT
Found at i:43530654 original size:12 final size:12
Alignment explanation
Indices: 43530637--43530661 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43530627 GTATCTATTG
43530637 TTGTGAAGAAAT
1 TTGTGAAGAAAT
43530649 TTGTGAAGAAAT
1 TTGTGAAGAAAT
43530661 T
1 T
43530662 ATGCAAAGAG
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:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (12 bp):
TTGTGAAGAAAT
Found at i:43532625 original size:25 final size:27
Alignment explanation
Indices: 43532573--43532636 Score: 87
Period size: 25 Copynumber: 2.4 Consensus size: 27
43532563 ATAAAAAACA
43532573 ACCAAAATATTATAACTTTTTTTTTATTT
1 ACCAAAATATTATAA--TTTTTTTTATTT
43532602 ACCAAAATATTAT-A-TTTTTTTATTT
1 ACCAAAATATTATAATTTTTTTTATTT
*
43532627 ATCAAAATAT
1 ACCAAAATAT
43532637 ACCAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
25 20 0.59
28 1 0.03
29 13 0.38
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (27 bp):
ACCAAAATATTATAATTTTTTTTATTT
Found at i:43533275 original size:19 final size:19
Alignment explanation
Indices: 43533251--43533346 Score: 124
Period size: 19 Copynumber: 5.2 Consensus size: 19
43533241 TCTAATTAAG
*
43533251 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTCATT
* *
43533270 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTCATT
*
43533288 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTCATT
* *
43533307 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTCATT
43533325 TAATAACTCTATTTTCATT
1 TAATAACTCTATTTTCATT
43533344 TAA
1 TAA
43533347 AATATAAAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
18 30 0.47
19 34 0.53
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTCATT
Found at i:43533292 original size:37 final size:37
Alignment explanation
Indices: 43533251--43533346 Score: 183
Period size: 37 Copynumber: 2.6 Consensus size: 37
43533241 TCTAATTAAG
43533251 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
43533288 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
*
43533325 TAATAACTCTATTTTCATTTAA
1 TAATAACTCTATTTTAATTTAA
43533347 AATATAAAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.49
Consensus pattern (37 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
Found at i:43533579 original size:82 final size:82
Alignment explanation
Indices: 43533415--43533571 Score: 314
Period size: 82 Copynumber: 1.9 Consensus size: 82
43533405 TTAATTAAAA
43533415 TAGTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAG
1 TAGTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAG
43533480 TTTATGTTTCCATTATT
66 TTTATGTTTCCATTATT
43533497 TAGTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAG
1 TAGTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAG
43533562 TTTATGTTTC
66 TTTATGTTTC
43533572 TGTTATTTTT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (82 bp):
TAGTCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAG
TTTATGTTTCCATTATT
Found at i:43533724 original size:19 final size:19
Alignment explanation
Indices: 43533663--43533726 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
43533653 AATTTTTTAA
43533663 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
* * *
43533682 AAATGAGAATAG-TTTATT
1 AAATTAAAATAGAGTTATT
*
43533700 ACATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
43533719 AAATTAAA
1 AAATTAAA
43533727 CTATTTTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
18 14 0.39
19 22 0.61
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.36
Consensus pattern (19 bp):
AAATTAAAATAGAGTTATT
Found at i:43534124 original size:28 final size:28
Alignment explanation
Indices: 43534089--43534151 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
43534079 TTTCTTTGTT
**
43534089 ATATTTTGGTAAATAAAAAAATTTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
43534117 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
43534145 ATATTTT
1 ATATTTT
43534152 AGTTATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:43543482 original size:8 final size:7
Alignment explanation
Indices: 43543440--43543502 Score: 72
Period size: 7 Copynumber: 8.6 Consensus size: 7
43543430 TAAAGAGGTG
43543440 TTAGGGT
1 TTAGGGT
43543447 TTAGGGTTT
1 TTAGGG--T
*
43543456 TTAGGAT
1 TTAGGGT
*
43543463 TTAAGGT
1 TTAGGGT
43543470 TTAGGGTT
1 TTAGGG-T
43543478 TTAGGGT
1 TTAGGGT
43543485 TTAGGGT
1 TTAGGGT
*
43543492 TTAAGGT
1 TTAGGGT
43543499 TTAG
1 TTAG
43543503 CCTCGATACA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
7 34 0.72
8 7 0.15
9 6 0.13
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Found at i:43543482 original size:22 final size:22
Alignment explanation
Indices: 43543444--43543500 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
43543434 GAGGTGTTAG
43543444 GGTTTAGGGTTTTTAGGATTTAA
1 GGTTTAGGG-TTTTAGGATTTAA
* *
43543467 GGTTTAGGGTTTTAGGGTTTAG
1 GGTTTAGGGTTTTAGGATTTAA
*
43543489 GGTTTAAGGTTT
1 GGTTTAGGGTTT
43543501 AGCCTCGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
22 22 0.71
23 9 0.29
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (22 bp):
GGTTTAGGGTTTTAGGATTTAA
Found at i:43543590 original size:29 final size:28
Alignment explanation
Indices: 43543521--43543595 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
43543511 CATTCCAACC
* * *
43543521 TTAAACCTTAAACCTTAAATCTTAAACA
1 TTAAACCCTAAACCCTAAATCCTAAACA
*
43543549 TTAAACTCTAAACCCTAAATCCTAAA-A
1 TTAAACCCTAAACCCTAAATCCTAAACA
43543576 TTTTAAACCCTAAACCCTAA
1 --TTAAACCCTAAACCCTAA
43543596 CACCTCTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
27 1 0.03
28 22 0.55
29 17 0.43
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.29
Consensus pattern (28 bp):
TTAAACCCTAAACCCTAAATCCTAAACA
Found at i:43543595 original size:7 final size:7
Alignment explanation
Indices: 43543517--43543591 Score: 62
Period size: 7 Copynumber: 10.6 Consensus size: 7
43543507 GATACATTCC
43543517 AACCTTA
1 AACCTTA
43543524 AACCTTA
1 AACCTTA
43543531 AACCTTA
1 AACCTTA
*
43543538 AATCTTA
1 AACCTTA
*
43543545 AACATTA
1 AACCTTA
43543552 AA-CTCTA
1 AACCT-TA
*
43543559 AACCCTA
1 AACCTTA
*
43543566 AATCCTAA
1 AA-CCTTA
**
43543574 AATTTTA
1 AACCTTA
*
43543581 AACCCTA
1 AACCTTA
43543588 AACC
1 AACC
43543592 CTAACACCTC
Statistics
Matches: 52, Mismatches: 13, Indels: 6
0.73 0.18 0.08
Matches are distributed among these distances:
6 1 0.02
7 45 0.87
8 6 0.12
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (7 bp):
AACCTTA
Found at i:43545488 original size:23 final size:23
Alignment explanation
Indices: 43545461--43545506 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
43545451 TTTGTTACTG
43545461 TAATAATGAAATTAATTAAAATA
1 TAATAATGAAATTAATTAAAATA
43545484 TAATAATGAAATTAATTAAAATA
1 TAATAATGAAATTAATTAAAATA
43545507 ATCTCCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (23 bp):
TAATAATGAAATTAATTAAAATA
Found at i:43545986 original size:27 final size:27
Alignment explanation
Indices: 43545956--43546011 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
43545946 TAGAGAGGAA
* *
43545956 AGAGAGGATGGTGAATTAGAAGTAGAT
1 AGAGAGGATAGTGAATGAGAAGTAGAT
* *
43545983 AGAGAGGATAGTGGATGAGAAGTGGAT
1 AGAGAGGATAGTGAATGAGAAGTAGAT
43546010 AG
1 AG
43546012 GGAAAGATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (27 bp):
AGAGAGGATAGTGAATGAGAAGTAGAT
Found at i:43546234 original size:43 final size:42
Alignment explanation
Indices: 43546185--43546326 Score: 169
Period size: 43 Copynumber: 3.3 Consensus size: 42
43546175 TTGCTTCCAC
* * * *
43546185 GTTGCTTCTTTTTTTTGTTTGAACCTGAATGTTGCTTTCTCAA
1 GTTGCTTC-CTTTTTTGTTTGAACATGGATGTTGCTTTCCCAA
* * *
43546228 GTTGCTTCCTTTTTTGTATGAACTTGGTTGTTTGCTTTCCCAA
1 GTTGCTTCCTTTTTTGTTTGAACATGGATG-TTGCTTTCCCAA
* *
43546271 ATTGCTTCCTTTTTTGTTT-ACACATGGATGTTGCTTTCCCAT
1 GTTGCTTCCTTTTTTGTTTGA-ACATGGATGTTGCTTTCCCAA
43546313 GTTGCTTCCTTTTT
1 GTTGCTTCCTTTTT
43546327 GATAATTTTC
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
42 42 0.49
43 43 0.51
ACGTcount: A:0.12, C:0.19, G:0.16, T:0.53
Consensus pattern (42 bp):
GTTGCTTCCTTTTTTGTTTGAACATGGATGTTGCTTTCCCAA
Found at i:43546284 original size:42 final size:42
Alignment explanation
Indices: 43546185--43546326 Score: 153
Period size: 42 Copynumber: 3.3 Consensus size: 42
43546175 TTGCTTCCAC
* * * *
43546185 GTTGCTTCTTTTTTTTGTTTGA-ACCTGAATGTTGCTTTCTCAA
1 GTTGCTTC-CTTTTTTG-TTGACACATGGATGTTGCTTTCCCAA
* *
43546228 GTTGCTTCCTTTTTTGTATGA-ACTTGGTTGTTTGCTTTCCCAA
1 GTTGCTTCCTTTTTTGT-TGACACATGGATG-TTGCTTTCCCAA
* * *
43546271 ATTGCTTCCTTTTTTGTTTACACATGGATGTTGCTTTCCCAT
1 GTTGCTTCCTTTTTTGTTGACACATGGATGTTGCTTTCCCAA
43546313 GTTGCTTCCTTTTT
1 GTTGCTTCCTTTTT
43546327 GATAATTTTC
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 42 0.49
43 42 0.49
ACGTcount: A:0.12, C:0.19, G:0.16, T:0.53
Consensus pattern (42 bp):
GTTGCTTCCTTTTTTGTTGACACATGGATGTTGCTTTCCCAA
Found at i:43548519 original size:78 final size:78
Alignment explanation
Indices: 43548390--43548547 Score: 298
Period size: 78 Copynumber: 2.0 Consensus size: 78
43548380 ACATATTCTT
*
43548390 TACATGCTTTATTAGATACCGGAGTTACAACTAGTAGTTGCAGAAAAAATGTCATTCCTTTAGAA
1 TACATGCTTTATTAGATACCGGAGCTACAACTAGTAGTTGCAGAAAAAATGTCATTCCTTTAGAA
43548455 AAATGGGAACCTA
66 AAATGGGAACCTA
*
43548468 TACATGCTTTATTAGATACTGGAGCTACAACTAGTAGTTGCAGAAAAAATGTCATTCCTTTAGAA
1 TACATGCTTTATTAGATACCGGAGCTACAACTAGTAGTTGCAGAAAAAATGTCATTCCTTTAGAA
43548533 AAATGGGAACCTA
66 AAATGGGAACCTA
43548546 TA
1 TA
43548548 AAGCATCCAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (78 bp):
TACATGCTTTATTAGATACCGGAGCTACAACTAGTAGTTGCAGAAAAAATGTCATTCCTTTAGAA
AAATGGGAACCTA
Found at i:43549063 original size:14 final size:14
Alignment explanation
Indices: 43549036--43549075 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
43549026 CATATAAATT
*
43549036 AAAGAATTATTAGAA
1 AAAG-ATTAATAGAA
43549051 AAAGATTAATAGAA
1 AAAGATTAATAGAA
43549065 AAA-ATTAATAG
1 AAAGATTAATAG
43549076 TCCACATTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 8 0.33
14 12 0.50
15 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (14 bp):
AAAGATTAATAGAA
Found at i:43549067 original size:15 final size:15
Alignment explanation
Indices: 43549036--43549075 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
43549026 CATATAAATT
*
43549036 AAAGAATTATTAGAA
1 AAAGAATTAATAGAA
43549051 AAAG-ATTAATAG-A
1 AAAGAATTAATAGAA
43549064 AAA-AATTAATAG
1 AAAGAATTAATAG
43549076 TCCACATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 12 0.52
14 7 0.30
15 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (15 bp):
AAAGAATTAATAGAA
Found at i:43555537 original size:40 final size:41
Alignment explanation
Indices: 43555457--43555543 Score: 131
Period size: 40 Copynumber: 2.1 Consensus size: 41
43555447 AGTAAAGTTA
*
43555457 GAAACCTTCTAATAATGTTAAAGAAATTTGAAAAATACTTT
1 GAAACCTTCTAATAATGTTAAAGAAAGTTGAAAAATACTTT
* * *
43555498 GGAACCTTTTAATTATGTTAAA-AAAGTTGAAAAATACTTT
1 GAAACCTTCTAATAATGTTAAAGAAAGTTGAAAAATACTTT
43555538 GAAACC
1 GAAACC
43555544 ATGTTTTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 22 0.54
41 19 0.46
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.33
Consensus pattern (41 bp):
GAAACCTTCTAATAATGTTAAAGAAAGTTGAAAAATACTTT
Found at i:43559627 original size:68 final size:68
Alignment explanation
Indices: 43559509--43559709 Score: 188
Period size: 68 Copynumber: 3.0 Consensus size: 68
43559499 CATGAGAAAG
* * * ** *
43559509 CATGGCATCATAATGTGTAAGACCATTGCTGGGTTATGAAAATATATGAAGTCCACCAATACAGT
1 CATGACATCATAATGTGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCCACCAATACAGT
43559574 AAA
66 AAA
* * * * ***
43559577 CATGACATTATAATATGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTTCGCTGGGT-CAG
1 CATGACATCATAATGTGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCCAC-CAATACAG
43559641 TAAA
65 TAAA
* ** * * * * * *
43559645 CATGTCATCATTTTGTGTAAGAGCATAACTGGGCTATGGCAGCATATTAACTCCACCAAGACAGT
1 CATGACATCATAATGTGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCCACCAATACAGT
43559710 GAACTAGGAA
Statistics
Matches: 102, Mismatches: 29, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
68 101 0.99
69 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (68 bp):
CATGACATCATAATGTGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCCACCAATACAGT
AAA
Found at i:43567357 original size:17 final size:17
Alignment explanation
Indices: 43567335--43567367 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
43567325 CCATCTTTGA
43567335 CCATCCCAT-CACACCAC
1 CCATCCC-TGCACACCAC
43567352 CCATCCCTGCACACCA
1 CCATCCCTGCACACCA
43567368 TATAGTGTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.27, C:0.58, G:0.03, T:0.12
Consensus pattern (17 bp):
CCATCCCTGCACACCAC
Found at i:43568409 original size:15 final size:15
Alignment explanation
Indices: 43568385--43568415 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
43568375 GTTTTTGAGA
*
43568385 AAATAGAATAAAATG
1 AAATAAAATAAAATG
43568400 AAATAAAATAAAATG
1 AAATAAAATAAAATG
43568415 A
1 A
43568416 TTAAGTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (15 bp):
AAATAAAATAAAATG
Found at i:43578241 original size:20 final size:20
Alignment explanation
Indices: 43578216--43578277 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
43578206 TTGAAATAAA
43578216 ATTAAAATATTAAATAATTT
1 ATTAAAATATTAAATAATTT
* *
43578236 ATTAAAATAATAAAT--TAT
1 ATTAAAATATTAAATAATTT
*
43578254 ATTAACTATATT-AATAATTT
1 ATTAA-AATATTAAATAATTT
43578274 ATTA
1 ATTA
43578278 TATGATTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 10 0.29
19 4 0.12
20 20 0.59
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTAAAATATTAAATAATTT
Done.