Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 37 of 214
Found at i:10156427 original size:13 final size:13
Alignment explanation
Indices: 10156409--10156433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10156399 ATATTATAAC
10156409 TATTTAAATAGTA
1 TATTTAAATAGTA
10156422 TATTTAAATAGT
1 TATTTAAATAGT
10156434 TATAATTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TATTTAAATAGTA
Found at i:10164616 original size:48 final size:49
Alignment explanation
Indices: 10164532--10164625 Score: 136
Period size: 48 Copynumber: 1.9 Consensus size: 49
10164522 GGGAATTCTA
* * *
10164532 TTGAATCCTTTATCGTTGCAAGATTAGGCTAACTTAGGTGTTTTTACTG
1 TTGAATCCGTTATCATTGCAAGATTAGGCTAACTTAGGCGTTTTTACTG
* *
10164581 TTGAATCCGTTATCATTGCGAG-TTAGGCTGACTTAGGCGTTTTTA
1 TTGAATCCGTTATCATTGCAAGATTAGGCTAACTTAGGCGTTTTTA
10164626 AGCAAAGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 21 0.52
49 19 0.47
ACGTcount: A:0.21, C:0.15, G:0.22, T:0.41
Consensus pattern (49 bp):
TTGAATCCGTTATCATTGCAAGATTAGGCTAACTTAGGCGTTTTTACTG
Found at i:10170163 original size:24 final size:24
Alignment explanation
Indices: 10170136--10170181 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
10170126 AAAATTAATA
10170136 AAATATTTTTAAAACTAATTTTTT
1 AAATATTTTTAAAACTAATTTTTT
* * *
10170160 AAATTTTTTTATAATTAATTTT
1 AAATATTTTTAAAACTAATTTT
10170182 AAATTTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
AAATATTTTTAAAACTAATTTTTT
Found at i:10179065 original size:19 final size:19
Alignment explanation
Indices: 10179041--10179080 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
10179031 TTTTGCAATG
10179041 GGATTTTGTGAGAGTTTTA
1 GGATTTTGTGAGAGTTTTA
10179060 GGATTTTGTGAGAGTTTTA
1 GGATTTTGTGAGAGTTTTA
10179079 GG
1 GG
10179081 GAGAGTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (19 bp):
GGATTTTGTGAGAGTTTTA
Found at i:10183898 original size:57 final size:57
Alignment explanation
Indices: 10183779--10183896 Score: 166
Period size: 57 Copynumber: 2.1 Consensus size: 57
10183769 TCATTTTCAT
* *
10183779 TTTTCTTTTTCATTTTGGAAAAAACCATATTCATTTCCAAATGATTTCATTTCTCCA
1 TTTTCATTTTCATTTTGGAAAAAACCATAATCATTTCCAAATGATTTCATTTCTCCA
** *
10183836 TTTTCATTTTCATTTTGGAGGAAACCTTAATCATTTCCAAATG-TTTCTTATTTCTCCA
1 TTTTCATTTTCATTTTGGAAAAAACCATAATCATTTCCAAATGATTTC--ATTTCTCCA
10183894 TTT
1 TTT
10183897 CACCATTTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
56 4 0.07
57 38 0.70
58 12 0.22
ACGTcount: A:0.25, C:0.19, G:0.07, T:0.49
Consensus pattern (57 bp):
TTTTCATTTTCATTTTGGAAAAAACCATAATCATTTCCAAATGATTTCATTTCTCCA
Found at i:10188366 original size:40 final size:40
Alignment explanation
Indices: 10188268--10188475 Score: 301
Period size: 40 Copynumber: 5.2 Consensus size: 40
10188258 TCCTCGTTCA
* * * * *
10188268 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
10188307 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
10188347 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
10188387 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
10188427 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
10188467 AAGGCCTTC
1 AATGCCTTC
10188476 AGATCTTAGT
Statistics
Matches: 157, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 34 0.22
40 123 0.78
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:10188514 original size:80 final size:80
Alignment explanation
Indices: 10188266--10188530 Score: 257
Period size: 80 Copynumber: 3.3 Consensus size: 80
10188256 GCTCCTCGTT
* * * * * * * * *
10188266 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGAGACTTAACCCAG
* * *
10188330 ATTTAACAACTCGCA
66 ATATAATAACTAGCA
* * * * *
10188345 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGAGACTTAACCCAG
* *
10188410 ATTTAATAACTCGCA
66 ATATAATAACTAGCA
* * **
10188425 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-AGATCTTAGTCCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGAGA-CTTAACCCA
* *
10188489 GATATATTCACTTAGCA
65 GATATAATAAC-TAGCA
*
10188506 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
10188531 CAGCATTCAA
Statistics
Matches: 161, Mismatches: 22, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
79 37 0.23
80 116 0.72
81 8 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGAGACTTAACCCAG
ATATAATAACTAGCA
Found at i:10188514 original size:120 final size:118
Alignment explanation
Indices: 10188266--10188530 Score: 298
Period size: 120 Copynumber: 2.2 Consensus size: 118
10188256 GCTCCTCGTT
* * *
10188266 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGA
* * * * * *
10188331 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
65 TTTAACAACTCGCACAAAGGCCTTCGAGACTTAACCCAGATATAATAACTAGCA
* * * *
10188385 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACATAACCCGG
** * ** * *
10188450 ATTTAGTATCTCGCACAAAGGCCTTC-AGATCTTAGTCCAGATATATTCACTTAGCA
64 ATTTAACAACTCGCACAAAGGCCTTCGAGA-CTTAACCCAGATATAATAAC-TAGCA
10188506 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
10188531 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 22, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
119 34 0.28
120 81 0.68
121 5 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (118 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGAT
TTAACAACTCGCACAAAGGCCTTCGAGACTTAACCCAGATATAATAACTAGCA
Found at i:10196306 original size:40 final size:40
Alignment explanation
Indices: 10196208--10196415 Score: 310
Period size: 40 Copynumber: 5.2 Consensus size: 40
10196198 TCCTCGTTCA
* * * * *
10196208 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
10196247 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
10196287 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
10196327 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
10196367 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
10196407 AAGGCCTTC
1 AATGCCTTC
10196416 AGATCTTAGT
Statistics
Matches: 157, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 34 0.22
40 123 0.78
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:10196454 original size:80 final size:80
Alignment explanation
Indices: 10196211--10196470 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
10196201 TCGTTCAAAT
* * * * * * * * * *
10196211 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGAGACTTAACCCAGATATA
* * *
10196275 ACAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * * * *
10196290 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGAGACTTAACCCAGATATA
* *
10196355 ATAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * **
10196370 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-AGATCTTAGTCCAGATAT
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGAGA-CTTAACCCAGATAT
* *
10196434 ATTCACTTAGCAC-AAA
65 AATAAC-TAGCACGAAA
*
10196450 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
10196471 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
79 33 0.21
80 119 0.76
81 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGAGACTTAACCCAGATATA
ATAACTAGCACGAAA
Found at i:10196454 original size:120 final size:118
Alignment explanation
Indices: 10196206--10196470 Score: 298
Period size: 120 Copynumber: 2.2 Consensus size: 118
10196196 GCTCCTCGTT
* * *
10196206 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGA
* * * * * *
10196271 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
65 TTTAACAACTCGCACAAAGGCCTTCGAGACTTAACCCAGATATAATAACTAGCA
* * * *
10196325 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACATAACCCGG
** * ** * *
10196390 ATTTAGTATCTCGCACAAAGGCCTTC-AGATCTTAGTCCAGATATATTCACTTAGCA
64 ATTTAACAACTCGCACAAAGGCCTTCGAGA-CTTAACCCAGATATAATAAC-TAGCA
10196446 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
10196471 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 22, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
119 34 0.28
120 81 0.68
121 5 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (118 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGAT
TTAACAACTCGCACAAAGGCCTTCGAGACTTAACCCAGATATAATAACTAGCA
Found at i:10199108 original size:12 final size:12
Alignment explanation
Indices: 10199091--10199120 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10199081 TGAGGCTGTT
10199091 ACACGGCCTAGC
1 ACACGGCCTAGC
*
10199103 ACACGGCCTCGC
1 ACACGGCCTAGC
10199115 ACACGG
1 ACACGG
10199121 GCGTGTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.43, G:0.27, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:10201146 original size:19 final size:20
Alignment explanation
Indices: 10201120--10201174 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
10201110 AAAAAAAATT
10201120 AATA-AAAAATATTTTTAAA
1 AATATAAAAATATTTTTAAA
*
10201139 AAT-TAAAAAGTA--TTAAAA
1 AATATAAAAA-TATTTTTAAA
10201157 AATATAAAATATATTTTT
1 AATATAAAA-ATATTTTT
10201175 TATTAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
18 8 0.29
19 15 0.54
20 3 0.11
21 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
AATATAAAAATATTTTTAAA
Found at i:10205048 original size:38 final size:39
Alignment explanation
Indices: 10204960--10205035 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 39
10204950 CTTGAAACCG
* *
10204960 AATT-TAATTATTTAATTTTTTATTTTTGAAGTAAATAA
1 AATTATAATTTTTTAATTTTTTATTTTTAAAGTAAATAA
*
10204998 AATTATAATTTTTTACTTTTTTA-TTTTAAAGTAAATAA
1 AATTATAATTTTTTAATTTTTTATTTTTAAAGTAAATAA
10205036 GGTTAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 18 0.53
39 16 0.47
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (39 bp):
AATTATAATTTTTTAATTTTTTATTTTTAAAGTAAATAA
Found at i:10208400 original size:32 final size:32
Alignment explanation
Indices: 10208363--10208426 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
10208353 CTACTAAGAC
10208363 ACCTGCATTTTTCCCCTTTGACAATCCTCCAA
1 ACCTGCATTTTTCCCCTTTGACAATCCTCCAA
10208395 ACCTGCATTTTTCCCCTTTGACAATCCTCCAA
1 ACCTGCATTTTTCCCCTTTGACAATCCTCCAA
10208427 TGTACTTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.38, G:0.06, T:0.34
Consensus pattern (32 bp):
ACCTGCATTTTTCCCCTTTGACAATCCTCCAA
Found at i:10210674 original size:26 final size:26
Alignment explanation
Indices: 10210645--10210727 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
10210635 TTTATTTTTT
10210645 TACCATTCCTGCGTGATACTCTATTC
1 TACCATTCCTGCGTGATACTCTATTC
* ** ** *
10210671 TACCATTTCAAC-T-ATTTTTCT-TTT
1 TACCATTCCTGCGTGA-TACTCTATTC
10210695 TACCATTCCTGCGTGATACTCTATTC
1 TACCATTCCTGCGTGATACTCTATTC
10210721 TACCATT
1 TACCATT
10210728 TCAACTATTT
Statistics
Matches: 41, Mismatches: 12, Indels: 8
0.67 0.20 0.13
Matches are distributed among these distances:
24 12 0.29
25 10 0.24
26 19 0.46
ACGTcount: A:0.20, C:0.28, G:0.07, T:0.45
Consensus pattern (26 bp):
TACCATTCCTGCGTGATACTCTATTC
Found at i:10210699 original size:50 final size:50
Alignment explanation
Indices: 10210641--10210744 Score: 208
Period size: 50 Copynumber: 2.1 Consensus size: 50
10210631 ATTCTTTATT
10210641 TTTTTACCATTCCTGCGTGATACTCTATTCTACCATTTCAACTATTTTTC
1 TTTTTACCATTCCTGCGTGATACTCTATTCTACCATTTCAACTATTTTTC
10210691 TTTTTACCATTCCTGCGTGATACTCTATTCTACCATTTCAACTATTTTTC
1 TTTTTACCATTCCTGCGTGATACTCTATTCTACCATTTCAACTATTTTTC
10210741 TTTT
1 TTTT
10210745 ACCTTCAATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.19, C:0.25, G:0.06, T:0.50
Consensus pattern (50 bp):
TTTTTACCATTCCTGCGTGATACTCTATTCTACCATTTCAACTATTTTTC
Found at i:10211645 original size:24 final size:24
Alignment explanation
Indices: 10211613--10211658 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
10211603 CTTGAAACCA
* * *
10211613 TTTCTACAGCTCTTTTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
10211637 TTTCCACAGCTCCTCTCTTCAC
1 TTTCCACAGCTCCTCTCTTCAC
10211659 TCTCTTCACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.41, G:0.04, T:0.41
Consensus pattern (24 bp):
TTTCCACAGCTCCTCTCTTCACCC
Found at i:10211700 original size:14 final size:14
Alignment explanation
Indices: 10211681--10211710 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10211671 ATCGATTGCA
10211681 GCCTCATCATCTCT
1 GCCTCATCATCTCT
*
10211695 GCCTCATCTTCTCT
1 GCCTCATCATCTCT
10211709 GC
1 GC
10211711 TAGTTTTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.43, G:0.10, T:0.37
Consensus pattern (14 bp):
GCCTCATCATCTCT
Found at i:10211886 original size:13 final size:13
Alignment explanation
Indices: 10211868--10211893 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10211858 CAAATGGGTA
10211868 GTTTTTTGCAAAT
1 GTTTTTTGCAAAT
10211881 GTTTTTTGCAAAT
1 GTTTTTTGCAAAT
10211894 CAGTTTCTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
GTTTTTTGCAAAT
Found at i:10212187 original size:27 final size:27
Alignment explanation
Indices: 10212149--10212206 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
10212139 AAAATTACAG
10212149 CCTTAACACCAATACAGTAGCATCTGA
1 CCTTAACACCAATACAGTAGCATCTGA
10212176 CCTTAACACCAATACAGTAGCATCTGA
1 CCTTAACACCAATACAGTAGCATCTGA
10212203 CCTT
1 CCTT
10212207 CAATGCTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.34, C:0.31, G:0.10, T:0.24
Consensus pattern (27 bp):
CCTTAACACCAATACAGTAGCATCTGA
Found at i:10213580 original size:17 final size:15
Alignment explanation
Indices: 10213546--10213588 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 15
10213536 AATGGCATGG
*
10213546 CATTTGTTTTTGAAA
1 CATTTGTTTTTCAAA
10213561 CATTTGTTTCATTCAAA
1 CATTTGTTT--TTCAAA
10213578 CATTTGTTTTT
1 CATTTGTTTTT
10213589 ATATATACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 11 0.44
17 14 0.56
ACGTcount: A:0.23, C:0.12, G:0.09, T:0.56
Consensus pattern (15 bp):
CATTTGTTTTTCAAA
Found at i:10214519 original size:15 final size:15
Alignment explanation
Indices: 10214499--10214529 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10214489 AAAATATTAA
10214499 CATCATCAATCACAT
1 CATCATCAATCACAT
10214514 CATCATCAATCACAT
1 CATCATCAATCACAT
10214529 C
1 C
10214530 CTTGGCTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.35, G:0.00, T:0.26
Consensus pattern (15 bp):
CATCATCAATCACAT
Found at i:10214714 original size:18 final size:18
Alignment explanation
Indices: 10214653--10214714 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 18
10214643 TCATTGCAAT
10214653 ATATGTAAAAACAATTTA
1 ATATGTAAAAACAATTTA
* * **
10214671 AAATATAAAAATTTATTAATA
1 ATATGTAAAAA-CAATT--TA
10214692 TATATGTAAAAACAATTTA
1 -ATATGTAAAAACAATTTA
10214711 ATAT
1 ATAT
10214715 ATGTAAAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
18 13 0.41
19 5 0.16
21 5 0.16
22 9 0.28
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (18 bp):
ATATGTAAAAACAATTTA
Found at i:10214714 original size:20 final size:20
Alignment explanation
Indices: 10214650--10214723 Score: 80
Period size: 20 Copynumber: 3.7 Consensus size: 20
10214640 AAATCATTGC
10214650 AATATATGTAAAAACAATTT
1 AATATATGTAAAAACAATTT
* ** *
10214670 AA-A-ATATAAAAATTTATTA
1 AATATATGTAAAAA-CAATTT
10214689 ATATATATGTAAAAACAATTT
1 A-ATATATGTAAAAACAATTT
10214710 AATATATGTAAAAA
1 AATATATGTAAAAA
10214724 TAACTTTTCC
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
18 8 0.19
19 5 0.12
20 16 0.38
21 5 0.12
22 8 0.19
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (20 bp):
AATATATGTAAAAACAATTT
Found at i:10214859 original size:14 final size:14
Alignment explanation
Indices: 10214836--10214873 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
10214826 ATATAAAAGT
10214836 AAAACATTTTCCAG
1 AAAACATTTTCCAG
* *
10214850 AAATCATTTTCCGG
1 AAAACATTTTCCAG
10214864 AAAACATTTT
1 AAAACATTTT
10214874 ACTGCCAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.34
Consensus pattern (14 bp):
AAAACATTTTCCAG
Found at i:10226000 original size:104 final size:103
Alignment explanation
Indices: 10225864--10226128 Score: 406
Period size: 103 Copynumber: 2.6 Consensus size: 103
10225854 GTTGTACATA
** *
10225864 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
10225929 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
10225968 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
10226032 TCTGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * * *
10226071 AAGGGGTTGCTAAGTGCTGATTCCTCGATTAAGTGGTGGTGCTAAGTGCGAGATCCAC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCAC
10226129 TAATAACGGT
Statistics
Matches: 147, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 81 0.55
104 66 0.45
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (103 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:10227572 original size:23 final size:23
Alignment explanation
Indices: 10227546--10227600 Score: 85
Period size: 23 Copynumber: 2.3 Consensus size: 23
10227536 TGATTTTTAA
10227546 ATTTTAAATTATTTAGTGATAAT
1 ATTTTAAATTATTTAGTGATAAT
10227569 A-TTTAGAATTATTTAGTGATAAT
1 ATTTTA-AATTATTTAGTGATAAT
10227592 ATTTATAAA
1 ATTT-TAAA
10227601 AAATCTAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 4 0.14
23 19 0.66
24 4 0.14
25 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (23 bp):
ATTTTAAATTATTTAGTGATAAT
Found at i:10227573 original size:13 final size:13
Alignment explanation
Indices: 10227555--10227596 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
10227545 AATTTTAAAT
10227555 TATTTAGTGATAA
1 TATTTAGTGATAA
*
10227568 TATTTA--GA-AT
1 TATTTAGTGATAA
10227578 TATTTAGTGATAA
1 TATTTAGTGATAA
10227591 TATTTA
1 TATTTA
10227597 TAAAAAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 7 0.29
11 2 0.08
12 2 0.08
13 13 0.54
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:10228523 original size:98 final size:98
Alignment explanation
Indices: 10228344--10228540 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
10228334 GTACAATAAA
*
10228344 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
10228409 CCTCTAGAATCTCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
* *
10228442 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACATCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
10228507 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
10228540 A
1 A
10228541 TTATTTTTTA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:10229767 original size:58 final size:58
Alignment explanation
Indices: 10229653--10229766 Score: 162
Period size: 55 Copynumber: 2.0 Consensus size: 58
10229643 ACCTTTAAAA
* *
10229653 AACTGCCAATCGTTCTCTTTTTTATTATTATTTCTCCTCCTTCCCTTTTCTTTTTTTT
1 AACTGCCAATCATTCTCTTTTTTATTATTATTTCTCCTCCCTCCCTTTTCTTTTTTTT
**
10229711 AACTGCCAATCATTCTC-TTTTT-TT-TTATTTCTCCTCCCTCATTTTTCTCTTTTTTT
1 AACTGCCAATCATTCTCTTTTTTATTATTATTTCTCCTCCCTCCCTTTTCT-TTTTTTT
10229767 TATTGTGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
55 21 0.41
56 9 0.18
57 5 0.10
58 16 0.31
ACGTcount: A:0.12, C:0.26, G:0.03, T:0.59
Consensus pattern (58 bp):
AACTGCCAATCATTCTCTTTTTTATTATTATTTCTCCTCCCTCCCTTTTCTTTTTTTT
Found at i:10230374 original size:44 final size:44
Alignment explanation
Indices: 10230308--10230993 Score: 416
Period size: 44 Copynumber: 15.6 Consensus size: 44
10230298 GATCTACCAG
*
10230308 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGAGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGACGTTTTAA
* * *
10230352 TCCGCTCCACTGCAACTTCAGGGAGATAGGATCTGAGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGACGTTTTAA
* * * *
10230396 TCCGCTCCACTGCGACTTCAGGGAGA-AAGGAT-TGTCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAA-GATCTGAC-GTTTTAA
* * * * * * *
10230440 TCTGCTTCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGACGT-TTTAA
* *
10230485 TCTGC-CTCACTGCAACTTCA-GGAGGATAAGA-CTTG-CTTTGCTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATC-TGACGTT--TTAA
* * *
10230530 TCTGCTCCACTGCAACTTTAGGGAGAT-AGAAT-TGTCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG-ATCTGAC-GTTTTAA
* * * * * *
10230574 TCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGACGT-TTTAA
* *
10230619 TCTG-TCTCACTGCAACTTCA-GGAGGATAAGA-CTTG-CTTTGCTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATC-TGACGTT--TTAA
* ***
10230664 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-A-GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGACGTTTTAA
* **
10230705 TCTACT-TTCTGCAACTTCAGGGAGATAAGATCTGACGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGACGTTTTAA
** * * * *
10230748 TCCACTCCACTGTAACTTCAGGGAGATAGGAT-TGTCAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGAC-GTTTTAA
* * * * * *
10230792 TCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGACGT-TTTAA
* *
10230837 CCTGC-CTCACTGCAACTTCA-GGAGGATAAGA-CT--CGCTTTGCTGAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATCTGACG-TTT--T-AA
* * * * ***
10230882 TCTGCTTCACTGCAACTTCAAGAAGATAAGA-CT-A-GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGACGTTTTAA
* * * *
10230923 TCTGCT-CTCTGCAACTTCAGAGAAATAAGATCTGAGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGACGTTTTAA
* *
10230966 TCCGCTCCACTGCAACTTCAAGGAGATA
1 TCTGCTCCACTGCAACTTCAGGGAGATA
10230994 GGACTCAATT
Statistics
Matches: 504, Mismatches: 91, Indels: 94
0.73 0.13 0.14
Matches are distributed among these distances:
40 41 0.08
41 15 0.03
42 5 0.01
43 26 0.05
44 226 0.45
45 179 0.36
46 12 0.02
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGACGTTTTAA
Found at i:10230496 original size:45 final size:45
Alignment explanation
Indices: 10230440--10230914 Score: 292
Period size: 45 Copynumber: 10.7 Consensus size: 45
10230430 TCGGCTTTAA
* * *
10230440 TCTGCTTCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAG
1 TCTGCCTCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
**
10230485 TCTGCCTCACTGCAACTTCA-GGAGGATAAGACTTGCTTTGCTT-AG
1 TCTGCCTCACTGCAACTTCAGGGA-GATAAGACTTGCCAT-CTTCAG
* * * ** * *
10230530 TCTG-CTCCACTGCAACTTTAGGGAGAT-AGAATTGTCGGCTTTAA
1 TCTGCCT-CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
* *
10230574 TCTG-CTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCCT-CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
* **
10230619 TCTGTCTCACTGCAACTTCA-GGAGGATAAGACTTGCTTTGCTT-AG
1 TCTGCCTCACTGCAACTTCAGGGA-GATAAGACTTGCCAT-CTTCAG
* *
10230664 TCTG-CTCCACTGCAACTTCAGGGAGATAAGACTAG--A--TGC-G
1 TCTGCCT-CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
* ** * * * *
10230704 ATCT-ACTTTCTGCAACTTCAGGGAGATAAGA-TCTGACGT-TTTAA
1 -TCTGCCTCACTGCAACTTCAGGGAGATAAGACT-TGCCATCTTCAG
* * * * * *
10230748 TC--CACTCCACTGTAACTTCAGGGAGATAGGA-TTGTCAGCTTTAA
1 TCTGC-CT-CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
* *
10230792 TCTG-CTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCCT-CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
* * ** *
10230837 CCTGCCTCACTGCAACTTCA-GGAGGATAAGACTCGCTTTGC-TGAG
1 TCTGCCTCACTGCAACTTCAGGGA-GATAAGACTTGCCAT-CTTCAG
* * *
10230882 TCTGCTTCACTGCAACTTCAAGAAGATAAGACT
1 TCTGCCTCACTGCAACTTCAGGGAGATAAGACT
10230915 AGATGCGATC
Statistics
Matches: 344, Mismatches: 57, Indels: 58
0.75 0.12 0.13
Matches are distributed among these distances:
39 1 0.00
40 25 0.07
41 5 0.01
43 11 0.03
44 98 0.28
45 185 0.54
46 19 0.06
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (45 bp):
TCTGCCTCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
Found at i:10230572 original size:134 final size:134
Alignment explanation
Indices: 10230399--10230691 Score: 514
Period size: 134 Copynumber: 2.2 Consensus size: 134
10230389 GTTTTAATCC
* * * *
10230399 GCTCCACTGCGACTTCAGGGAGAAAGGATTGTCGGCTTTAATCTGCTTCACTGCAACTTCAGGAA
1 GCTCCACTGCAACTTCAGGGAGATAGAATTGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGAA
10230464 GATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTA
66 GATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTA
10230529 GTCT
131 GTCT
* * *
10230533 GCTCCACTGCAACTTTAGGGAGATAGAATTGTCGGCTTTAATCTGCTCCACTGTAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGAATTGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGAA
*
10230598 GATAAGATTTGCCATCTTCAGTCTGTCTCACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTA
66 GATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTA
10230663 GTCT
131 GTCT
10230667 GCTCCACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
10230692 AGACTAGATG
Statistics
Matches: 150, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
134 150 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (134 bp):
GCTCCACTGCAACTTCAGGGAGATAGAATTGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGAA
GATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTA
GTCT
Found at i:10230797 original size:218 final size:218
Alignment explanation
Indices: 10230534--10230996 Score: 764
Period size: 218 Copynumber: 2.1 Consensus size: 218
10230524 GCTTAGTCTG
* * *
10230534 CTCCACTGCAACTTTAGGGAGATAGAATTGTCGGCTTTAATCTGCTCCACTGTAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTGTCAGCTTTAATCTGCTCCACTGTAACTTCAGGGAG
* * * *
10230599 ATAAGATTTGCCATCTTCAGTCTGTCTCACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAG
66 ATAAGATTTGCCATCTTCAGCCTGCCTCACTGCAACTTCAGGAGGATAAGACTCGCTTTGCTGAG
* * * * *
10230664 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTTTCTGCAACTTCAGGGAG
131 TCTGCTCCACTGCAACTTCAAGAAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAA
10230729 ATAAGATCTGACGTTTTAATCCA
196 ATAAGATCTGACGTTTTAATCCA
*
10230752 CTCCACTGTAACTTCAGGGAGATAGGATTGTCAGCTTTAATCTGCTCCACTGTAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTGTCAGCTTTAATCTGCTCCACTGTAACTTCAGGGAG
10230817 ATAAGATTTGCCATCTTCAGCCTGCCTCACTGCAACTTCAGGAGGATAAGACTCGCTTTGCTGAG
66 ATAAGATTTGCCATCTTCAGCCTGCCTCACTGCAACTTCAGGAGGATAAGACTCGCTTTGCTGAG
* *
10230882 TCTGCTTCACTGCAACTTCAAGAAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAA
131 TCTGCTCCACTGCAACTTCAAGAAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAA
* *
10230947 ATAAGATCTGAGGTTTTAATCCG
196 ATAAGATCTGACGTTTTAATCCA
*
10230970 CTCCACTGCAACTTCAAGGAGATAGGA
1 CTCCACTGCAACTTCAGGGAGATAGGA
10230997 CTCAATTTAA
Statistics
Matches: 226, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
218 226 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (218 bp):
CTCCACTGCAACTTCAGGGAGATAGGATTGTCAGCTTTAATCTGCTCCACTGTAACTTCAGGGAG
ATAAGATTTGCCATCTTCAGCCTGCCTCACTGCAACTTCAGGAGGATAAGACTCGCTTTGCTGAG
TCTGCTCCACTGCAACTTCAAGAAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAA
ATAAGATCTGACGTTTTAATCCA
Found at i:10236384 original size:98 final size:98
Alignment explanation
Indices: 10236210--10236406 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
10236200 GTACAATAAA
*
10236210 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
10236275 CCTCTAGAATCCCAAACTCAGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
*
10236308 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
10236373 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
10236406 A
1 A
10236407 TTATTTTTTA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
Found at i:10237587 original size:33 final size:32
Alignment explanation
Indices: 10237545--10237653 Score: 109
Period size: 32 Copynumber: 3.5 Consensus size: 32
10237535 CCAATCGTTC
10237545 TCTTTTTTTTTATTATTTCTCCTCCCTCCCTTT
1 TCTTTTTTTTT-TTATTTCTCCTCCCTCCCTTT
** * ** * *
10237578 TC-TTTTTTTTTTA-AACTGC-CAGT-CGTTC
1 TCTTTTTTTTTTTATTTCTCCTCCCTCCCTTT
10237606 TCTTTTTTTTTTTATTTCTCCTCCCTCCCTTT
1 TCTTTTTTTTTTTATTTCTCCTCCCTCCCTTT
*
10237638 TCTCTTTTTTTTTATT
1 TCTTTTTTTTTTTATT
10237654 GTGAAAATAG
Statistics
Matches: 57, Mismatches: 15, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
28 5 0.09
29 13 0.23
30 6 0.11
31 5 0.09
32 26 0.46
33 2 0.04
ACGTcount: A:0.07, C:0.26, G:0.03, T:0.64
Consensus pattern (32 bp):
TCTTTTTTTTTTTATTTCTCCTCCCTCCCTTT
Found at i:10237634 original size:60 final size:62
Alignment explanation
Indices: 10237529--10237651 Score: 223
Period size: 61 Copynumber: 2.0 Consensus size: 62
10237519 CACCTTTAAA
10237529 AAACTGCCAATCGTTCTCTTTTTTTTTATTATTTCTCCTCCCTCCCTTTTCT-TTTTTTTTT
1 AAACTGCCAATCGTTCTCTTTTTTTTTATTATTTCTCCTCCCTCCCTTTTCTCTTTTTTTTT
*
10237590 AAACTGCCAGTCGTTCTCTTTTTTTTT-TTATTTCTCCTCCCTCCCTTTTCTCTTTTTTTTT
1 AAACTGCCAATCGTTCTCTTTTTTTTTATTATTTCTCCTCCCTCCCTTTTCTCTTTTTTTTT
10237651 A
1 A
10237652 TTGTGAAAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
60 24 0.40
61 36 0.60
ACGTcount: A:0.11, C:0.27, G:0.04, T:0.59
Consensus pattern (62 bp):
AAACTGCCAATCGTTCTCTTTTTTTTTATTATTTCTCCTCCCTCCCTTTTCTCTTTTTTTTT
Found at i:10237671 original size:60 final size:61
Alignment explanation
Indices: 10237544--10237672 Score: 154
Period size: 60 Copynumber: 2.1 Consensus size: 61
10237534 GCCAATCGTT
** * * **
10237544 CTCTTTTTTTTTATTATTTCTCCTCCCTCCCTTTTCTTTTTTTTTTAAACTGCCAGTCGTT
1 CTCTTTTTTTTTATTATTTCTCCTCCCTCCCTTTTCTTTTTTTTTTAAACTGAAAATAGGG
***
10237605 CTCTTTTTTTTT-TTATTTCTCCTCCCTCCCTTTTCTCTTTTTTTTTATTGTGAAAATAGGG
1 CTCTTTTTTTTTATTATTTCTCCTCCCTCCCTTTTCT-TTTTTTTTTAAACTGAAAATAGGG
10237666 C-CTTTTT
1 CTCTTTTT
10237673 ATTGATTTCT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
60 30 0.52
61 28 0.48
ACGTcount: A:0.10, C:0.24, G:0.06, T:0.60
Consensus pattern (61 bp):
CTCTTTTTTTTTATTATTTCTCCTCCCTCCCTTTTCTTTTTTTTTTAAACTGAAAATAGGG
Found at i:10241943 original size:25 final size:25
Alignment explanation
Indices: 10241915--10241995 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
10241905 ATGCTCATAT
* * *
10241915 GAGCTATGAATCGGTATGTTCTCAC
1 GAGCTATGAATCAGTAAGCTCTCAC
10241940 GAGCTATGAATCAGTAAGCTCAT-AC
1 GAGCTATGAATCAGTAAGCTC-TCAC
* *
10241965 GAGCTAAGAATCAATAAGCTCTCAC
1 GAGCTATGAATCAGTAAGCTCTCAC
10241990 GAGCTA
1 GAGCTA
10241996 CAAATTGGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 1 0.02
25 47 0.96
26 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (25 bp):
GAGCTATGAATCAGTAAGCTCTCAC
Found at i:10241988 original size:50 final size:50
Alignment explanation
Indices: 10241907--10242019 Score: 136
Period size: 50 Copynumber: 2.3 Consensus size: 50
10241897 GTACATATAT
* ** * * **
10241907 GCTCATATGAGCTATGAATCGGTATGTTCTCACGAGCTATGAATCAGTAA
1 GCTCATATGAGCTAAGAATCAATAAGCTCTCACGAGCTACAAATCAGTAA
* **
10241957 GCTCATACGAGCTAAGAATCAATAAGCTCTCACGAGCTACAAATTGGTAA
1 GCTCATATGAGCTAAGAATCAATAAGCTCTCACGAGCTACAAATCAGTAA
10242007 GCTCATATGAGCT
1 GCTCATATGAGCT
10242020 GTGGTGTGTC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (50 bp):
GCTCATATGAGCTAAGAATCAATAAGCTCTCACGAGCTACAAATCAGTAA
Found at i:10247753 original size:16 final size:16
Alignment explanation
Indices: 10247732--10247764 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10247722 ACCCTTATTT
10247732 GTTTTTAATATGTAGC
1 GTTTTTAATATGTAGC
10247748 GTTTTTAATATGTAGC
1 GTTTTTAATATGTAGC
10247764 G
1 G
10247765 AAGGTCTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.21, T:0.48
Consensus pattern (16 bp):
GTTTTTAATATGTAGC
Found at i:10247914 original size:34 final size:34
Alignment explanation
Indices: 10247871--10247938 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
10247861 TTACTGACGT
10247871 TTGTATTTTGTTTGGTGATG-TGACAAAAAGAGGG
1 TTGTATTTTGTTTGGTGATGCT-ACAAAAAGAGGG
10247905 TTGTATTTTGTTTGGTGATGCTACAAAAAGAGGG
1 TTGTATTTTGTTTGGTGATGCTACAAAAAGAGGG
10247939 GCACATACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 32 0.97
35 1 0.03
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (34 bp):
TTGTATTTTGTTTGGTGATGCTACAAAAAGAGGG
Found at i:10250807 original size:31 final size:31
Alignment explanation
Indices: 10250738--10250807 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
10250728 TTTAAGCCCC
* * * *
10250738 TCAAAATTTTTAAAAGTTCTAATTTAAATCT
1 TCAAAAATATTAAAACTTCTAATTAAAATCT
** *
10250769 TTTAAAATATTAAAACTTTTAATTAAAATCT
1 TCAAAAATATTAAAACTTCTAATTAAAATCT
10250800 TCAAAAAT
1 TCAAAAAT
10250808 TTATGTAAAA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.43
Consensus pattern (31 bp):
TCAAAAATATTAAAACTTCTAATTAAAATCT
Found at i:10253068 original size:14 final size:14
Alignment explanation
Indices: 10253032--10253065 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
10253022 TCATCATTTG
10253032 CCTATAACCAAAAC
1 CCTATAACCAAAAC
10253046 CCTATAACCAAAAC
1 CCTATAACCAAAAC
10253060 CC-ATAA
1 CCTATAA
10253066 ACCCATACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:10255524 original size:21 final size:20
Alignment explanation
Indices: 10255499--10255536 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10255489 CCCCTCCCCA
10255499 AAAAAAACCTTCCAAAAAAT
1 AAAAAAACCTTCCAAAAAAT
*
10255519 AAAAAAACCTTCTAAAAA
1 AAAAAAACCTTCCAAAAA
10255537 CCTTTCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.66, C:0.18, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAAAAACCTTCCAAAAAAT
Found at i:10259143 original size:18 final size:18
Alignment explanation
Indices: 10259116--10259162 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
10259106 AAACTCAAAT
* *
10259116 GATGCAAGCTCATTGAAA
1 GATGCGAGCTCATCGAAA
10259134 GATGCGAGCTCATCGAAA
1 GATGCGAGCTCATCGAAA
*
10259152 GCTGCGAGCTC
1 GATGCGAGCTC
10259163 TCCCAAAGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (18 bp):
GATGCGAGCTCATCGAAA
Found at i:10259170 original size:18 final size:18
Alignment explanation
Indices: 10259111--10259171 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
10259101 CTTGCAAACT
* *
10259111 CAAATGATGCAAGCTCATT
1 CAAA-GATGCGAGCTCATC
*
10259130 GAAAGATGCGAGCTCATC
1 CAAAGATGCGAGCTCATC
* *
10259148 GAAAGCTGCGAGCTC-TCC
1 CAAAGATGCGAGCTCAT-C
10259166 CAAAGA
1 CAAAGA
10259172 CGTGACCTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
17 1 0.03
18 31 0.89
19 3 0.09
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (18 bp):
CAAAGATGCGAGCTCATC
Found at i:10261464 original size:16 final size:18
Alignment explanation
Indices: 10261429--10261466 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
10261419 ATTCTCATTT
10261429 AAATAAAATACAATAGTA
1 AAATAAAATACAATAGTA
10261447 AAATAAAATA-AA-AGTA
1 AAATAAAATACAATAGTA
10261463 AAAT
1 AAAT
10261467 CCATATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAATAGTA
Found at i:10261643 original size:73 final size:73
Alignment explanation
Indices: 10261524--10261665 Score: 248
Period size: 73 Copynumber: 1.9 Consensus size: 73
10261514 TTAAACTTTA
*
10261524 TTAAACTCCATCTATTTGATATTAATTAGAATAAGGTATTTCAATCTTACTACACTCCTATTAGA
1 TTAAACTCCATCTATTTGATATTAATTAAAATAAGGTATTTCAATCTTACTACACTCCTATTAGA
10261589 ATATCTTG
66 ATATCTTG
* * *
10261597 TTAAACTTCATCTATTTGATATTAATTAAAATAAGGTGTTTCAATCTTACTACACTCCTATTCGA
1 TTAAACTCCATCTATTTGATATTAATTAAAATAAGGTATTTCAATCTTACTACACTCCTATTAGA
10261662 ATAT
66 ATAT
10261666 GGTTTTACGA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 65 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.42
Consensus pattern (73 bp):
TTAAACTCCATCTATTTGATATTAATTAAAATAAGGTATTTCAATCTTACTACACTCCTATTAGA
ATATCTTG
Found at i:10268100 original size:85 final size:85
Alignment explanation
Indices: 10267957--10268127 Score: 306
Period size: 85 Copynumber: 2.0 Consensus size: 85
10267947 AATATAACCG
*
10267957 ACATTATACCTCGAATCTAACATTGTCATAAATTTATTACCAAAGTAGTCTTACATTCCTTGAAC
1 ACATTATACCTCAAATCTAACATTGTCATAAATTTATTACCAAAGTAGTCTTACATTCCTTGAAC
10268022 CAAATGCACTCTAATAGTAA
66 CAAATGCACTCTAATAGTAA
* *
10268042 ACATTATACCTCAAATCTAACATTGTCATAATTTTGTTACCAAAGTAGTCTTACATTCCTTGAAC
1 ACATTATACCTCAAATCTAACATTGTCATAAATTTATTACCAAAGTAGTCTTACATTCCTTGAAC
*
10268107 CAAATGTACTCTAATAGTAA
66 CAAATGCACTCTAATAGTAA
10268127 A
1 A
10268128 ATGGTCCCTA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.34
Consensus pattern (85 bp):
ACATTATACCTCAAATCTAACATTGTCATAAATTTATTACCAAAGTAGTCTTACATTCCTTGAAC
CAAATGCACTCTAATAGTAA
Found at i:10270050 original size:26 final size:25
Alignment explanation
Indices: 10270013--10270061 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
10270003 ATATTTTGAG
10270013 TTAAAACATACTATAAAATAAAAATT
1 TTAAAACATACT-TAAAATAAAAATT
*
10270039 TTAAGAAC-TACTTAAGATAAAAA
1 TTAA-AACATACTTAAAATAAAAA
10270062 AAACTTCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 10 0.48
26 8 0.38
27 3 0.14
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.29
Consensus pattern (25 bp):
TTAAAACATACTTAAAATAAAAATT
Found at i:10275538 original size:41 final size:40
Alignment explanation
Indices: 10275420--10275555 Score: 154
Period size: 41 Copynumber: 3.5 Consensus size: 40
10275410 ACTAGTTTGG
*
10275420 CACCCAGTGCCTCATC-AGATAATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGA-ATAATCCGAAGTAATAAATTGA
* * ** *
10275460 CACCCAGTGTCTTATCGGCTAAACCGAAG---TAAATTGA
1 CACCCAGTGCCTCATCGAATAATCCGAAGTAATAAATTGA
*
10275497 CACCTAGTGCCTCATCGAATTAATCCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAA-TAATCCGAAGTAATAAATTGA
*
10275538 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
10275556 CTCGAAGCTG
Statistics
Matches: 77, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
37 22 0.29
38 9 0.12
40 22 0.29
41 24 0.31
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGAATAATCCGAAGTAATAAATTGA
Found at i:10276442 original size:4 final size:4
Alignment explanation
Indices: 10276433--10276493 Score: 50
Period size: 4 Copynumber: 13.8 Consensus size: 4
10276423 CCCTTTTCTT
* *
10276433 TTTC TTTC TTTC TTTC TTTTC TAATTC GTTTGGC TTTC TCTG TTTC TTTC
1 TTTC TTTC TTTC TTTC -TTTC T--TTC -TTT--C TTTC TTTC TTTC TTTC
10276483 TTTC TTTC TTT
1 TTTC TTTC TTT
10276494 TCTATTATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
4 33 0.70
5 6 0.13
6 6 0.13
7 2 0.04
ACGTcount: A:0.03, C:0.21, G:0.07, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:10276543 original size:36 final size:34
Alignment explanation
Indices: 10276491--10276572 Score: 101
Period size: 36 Copynumber: 2.3 Consensus size: 34
10276481 TCTTTCTTTC
* * *
10276491 TTTTCTATTATAATATATATACTTAAACATTAAGAA
1 TTTTATATTATAATATATATA-ATAAAC-TTAAAAA
10276527 TTTTATATTATAATATATATAATAAACTTAAAAA
1 TTTTATATTATAATATATATAATAAACTTAAAAA
*
10276561 TGTTTATTTTAT
1 T-TTTATATTAT
10276573 GCCGCCTCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
34 7 0.17
35 14 0.34
36 20 0.49
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (34 bp):
TTTTATATTATAATATATATAATAAACTTAAAAA
Found at i:10284419 original size:43 final size:43
Alignment explanation
Indices: 10284365--10284488 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 43
10284355 TGTAGCTACG
*
10284365 GCTATTCGCATCGATTTGAGATTTCGTGTAAGACCATAGCTAA
1 GCTATTGGCATCGATTTGAGATTTCGTGTAAGACCATAGCTAA
* * * **
10284408 GCTATTGGCATCGATTTCAAATTTCGTGTAAGACCATAGTTGG
1 GCTATTGGCATCGATTTGAGATTTCGTGTAAGACCATAGCTAA
** * *
10284451 GCTATTGGCATCGATACGAGATTCCCATGTAAGACCAT
1 GCTATTGGCATCGATTTGAGATT-TCGTGTAAGACCAT
10284489 GTCTGGGATA
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
43 56 0.82
44 12 0.18
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (43 bp):
GCTATTGGCATCGATTTGAGATTTCGTGTAAGACCATAGCTAA
Found at i:10290109 original size:31 final size:31
Alignment explanation
Indices: 10290074--10290151 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
10290064 GTATATGTTT
*
10290074 TATACATTGCCGAATTTGATTTGTATATAAA
1 TATACATTGCCGAATTTGAATTGTATATAAA
* * **
10290105 TATACATTGGCGAATTTGAATTGTTTATGGA
1 TATACATTGCCGAATTTGAATTGTATATAAA
* *
10290136 TATATATTGTCGAATT
1 TATACATTGCCGAATT
10290152 AATTTGAGCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.44
Consensus pattern (31 bp):
TATACATTGCCGAATTTGAATTGTATATAAA
Found at i:10290333 original size:43 final size:43
Alignment explanation
Indices: 10290272--10290524 Score: 362
Period size: 43 Copynumber: 5.9 Consensus size: 43
10290262 ACTTTCGAGG
*
10290272 TGAGATTTCGTGTAAGACCATAGCCGGGCTATTGGCATCGATT
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
* * * *
10290315 TGAGATTTCATGTAAGACCATAACAGGGTTATTGGCATCGATT
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
* * *
10290358 TGAGATTTCATGTAAGACCATAGCTAGGCTATTGGCATCAATT
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
* * **
10290401 TAAGATTTCGTGTAAGACCAAATATGGGCTATTGGCATCGATT
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
*
10290444 TGAGATTTCGTGTAAGACCATAGCTGAGCTATTGGCATCGATT
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
* * *
10290487 TTAGATTTTGTGTAAGACCATAACTGGGCTATTGGCAT
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCAT
10290525 TGATACGATA
Statistics
Matches: 185, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 185 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (43 bp):
TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
Found at i:10299362 original size:21 final size:21
Alignment explanation
Indices: 10299338--10299380 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
10299328 ACAAGCTAAA
**
10299338 AAATCTCCCTAGGACTTAATC
1 AAATCTCCCTAAAACTTAATC
10299359 AAATCTCCCTAAAACTTAATC
1 AAATCTCCCTAAAACTTAATC
10299380 A
1 A
10299381 TAATATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.28, G:0.05, T:0.28
Consensus pattern (21 bp):
AAATCTCCCTAAAACTTAATC
Found at i:10300403 original size:2 final size:2
Alignment explanation
Indices: 10300398--10300437 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
10300388 CAAATAAAAC
10300398 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10300438 CTGAGGGGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10301020 original size:6 final size:6
Alignment explanation
Indices: 10301009--10301041 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
10300999 GCTTTGCTTC
10301009 TTGGAG TTGGAG TTGGAG TTGGAG TTGGAG TTG
1 TTGGAG TTGGAG TTGGAG TTGGAG TTGGAG TTG
10301042 AGGGTAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.48, T:0.36
Consensus pattern (6 bp):
TTGGAG
Found at i:10329373 original size:42 final size:42
Alignment explanation
Indices: 10329317--10329398 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
10329307 ACACAATAAC
10329317 AATAATAATAGTTTTATACTCAA-AATAATACTAACTAACAAT
1 AATAATAATAGTTTTATACT-AACAATAATACTAACTAACAAT
* * *
10329359 AATAATATTAGTTTTTTACTAACAATAATACTAAGTAACA
1 AATAATAATAGTTTTATACTAACAATAATACTAACTAACA
10329399 TCTAAACCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 2 0.06
42 34 0.94
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.35
Consensus pattern (42 bp):
AATAATAATAGTTTTATACTAACAATAATACTAACTAACAAT
Found at i:10329578 original size:10 final size:10
Alignment explanation
Indices: 10329550--10329586 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
10329540 AAATACTTTT
10329550 TTTTTCTCTTC
1 TTTTTCTC-TC
*
10329561 TCTTTCTCTC
1 TTTTTCTCTC
10329571 TTTTTCTCTC
1 TTTTTCTCTC
10329581 TTTTTC
1 TTTTTC
10329587 CTGCGCCACC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 17 0.71
11 7 0.29
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTCTCTC
Found at i:10330410 original size:21 final size:21
Alignment explanation
Indices: 10330385--10330436 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
10330375 AGTGGTGGCA
* *
10330385 GTGAGATTAGTTACTGTAGCG
1 GTGAGATTAGGTACTATAGCG
*
10330406 GTGAGATTGGGTACTATAGCG
1 GTGAGATTAGGTACTATAGCG
10330427 GTGAGATTAG
1 GTGAGATTAG
10330437 AAACAATGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.08, G:0.37, T:0.31
Consensus pattern (21 bp):
GTGAGATTAGGTACTATAGCG
Found at i:10334257 original size:94 final size:92
Alignment explanation
Indices: 10334110--10334298 Score: 225
Period size: 94 Copynumber: 2.0 Consensus size: 92
10334100 TAAAGAAGGA
* * * ** *
10334110 AAACAATTGATATTGGAATATTGGACGGGTGTTATGTAAAATGTAGGGGGATTAGGACTAATATT
1 AAACAATTAACATTGGAATATTGGACAGGTGTTATGTAAAATGTAGGGGGATTAAAACTAATATC
* *
10334175 TGGCCATTAGTTTCTCATGTCAAAAAG
66 TGACCATTAATTTCTCATGTCAAAAAG
* * * * *
10334202 AAACAATTAACATTGGAGTATTGGATAGGTGTCATATGTAAAATGTAGTGGGATTAAAATTGATA
1 AAACAATTAACATTGGAATATTGGACAGGTGT--TATGTAAAATGTAGGGGGATTAAAACTAATA
* *
10334267 TCTGACCATTAATTTCTCATGTCCAAAGG
64 TCTGACCATTAATTTCTCATGTCAAAAAG
10334296 AAA
1 AAA
10334299 AGAAAAAAGG
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
92 27 0.34
94 53 0.66
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (92 bp):
AAACAATTAACATTGGAATATTGGACAGGTGTTATGTAAAATGTAGGGGGATTAAAACTAATATC
TGACCATTAATTTCTCATGTCAAAAAG
Found at i:10335636 original size:21 final size:21
Alignment explanation
Indices: 10335610--10335653 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
10335600 AAATAGAGCT
10335610 TCTTTGAGTCTGCTGTGAGTG
1 TCTTTGAGTCTGCTGTGAGTG
*
10335631 TCTTTGAGTCTGTTGTGAGTG
1 TCTTTGAGTCTGCTGTGAGTG
10335652 TC
1 TC
10335654 AATTGAAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.14, G:0.32, T:0.45
Consensus pattern (21 bp):
TCTTTGAGTCTGCTGTGAGTG
Found at i:10336429 original size:30 final size:30
Alignment explanation
Indices: 10336394--10336458 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
10336384 TGGCAAAAAA
*
10336394 CTCTCAAATTTCTCCCTAAATTTCTTAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
*
10336424 CTCTCAAATTTCTCCTTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
10336454 CTCTC
1 CTCTC
10336459 TTTAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.28, C:0.29, G:0.03, T:0.40
Consensus pattern (30 bp):
CTCTCAAATTTCTCCCTAAATTTCTCAAAG
Found at i:10337978 original size:150 final size:150
Alignment explanation
Indices: 10337693--10337979 Score: 450
Period size: 150 Copynumber: 1.9 Consensus size: 150
10337683 TCGACAATTC
* *
10337693 GGGCAGTAATTCCGGATGAATTCTTTCAAAATTCAAACATTTGGCATGTTAATGTCCCATTGGTC
1 GGGCAGTAATTCCGGATGAATTCTTTCAAAATCCAAACATTTGGCATGTTAAGGTCCCATTGGTC
* * * * *
10337758 AACTATGCTACTGTCGAGATGCACCAGACGGATAAAGTGTTGCGACAATTTGGATTCCAACAACG
66 AACTATGCTACTGTCAAGATACACCAGACAGATAAAGTGTTGCGACAATTTAGATTCCAACAACC
*
10337823 GATTCCCATTAGTCAAACTT
131 AATTCCCATTAGTCAAACTT
* *
10337843 GGGCAGTAATTCCGGATGAATTCTTTCAAAATCCGAACATTTGGCATGTTAAGGTCCCATTGTTC
1 GGGCAGTAATTCCGGATGAATTCTTTCAAAATCCAAACATTTGGCATGTTAAGGTCCCATTGGTC
* *
10337908 AACTATGCTACTGTTAAGATACACCAGACAGATAAAGTGTTGCGACAATTTAGATTTCGAA-AAC
66 AACTATGCTACTGTCAAGATACACCAGACAGATAAAGTGTTGCGACAATTTAGA-TTCCAACAAC
10337972 CAATTCCC
130 CAATTCCC
10337980 GAGGCACCTG
Statistics
Matches: 124, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
150 119 0.96
151 5 0.04
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (150 bp):
GGGCAGTAATTCCGGATGAATTCTTTCAAAATCCAAACATTTGGCATGTTAAGGTCCCATTGGTC
AACTATGCTACTGTCAAGATACACCAGACAGATAAAGTGTTGCGACAATTTAGATTCCAACAACC
AATTCCCATTAGTCAAACTT
Found at i:10338813 original size:25 final size:25
Alignment explanation
Indices: 10338785--10338832 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
10338775 AATAAAATAA
*
10338785 AAATTGTTTTTA-ATATTTTAATAGT
1 AAATTATTTTTATAT-TTTTAATAGT
10338810 AAATTATTTTTATATTTTTAATA
1 AAATTATTTTTATATTTTTAATA
10338833 AAATAGAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (25 bp):
AAATTATTTTTATATTTTTAATAGT
Found at i:10342039 original size:125 final size:126
Alignment explanation
Indices: 10341816--10342085 Score: 400
Period size: 125 Copynumber: 2.2 Consensus size: 126
10341806 GGCTAAACAT
* * * * * *
10341816 GAACTACTATAGAAAAATAGCGTCGACTTGGGATCTTTTTTCATCAATTTTACTGACAGGGCATC
1 GAACTACTGTAGAAAAAAAGCGTCCACGTGGGAACCTTTTTCATCAATTTTACTGACAGGGCATC
* * *
10341881 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCATTTTTCACACTATTTGTTCAGAAACATATTCTCAAAATTATTTTTTCAA
* *
10341942 GAACTACTGTAGAAAAAAAGCGTCCACGT-GGAACCTTTTTCAAT-AATTTTGCTGACAGTGCAT
1 GAACTACTGTAGAAAAAAAGCGTCCACGTGGGAACCTTTTTC-ATCAATTTTACTGACAGGGCAT
* *
10342005 CCTGCTTGAAGCATTTTTCACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCAA
65 CCTGCTTGAAGCATTTTTCACACTATTTGTTCAGAAACATATTCTCAAAATTATTTTTTCAA
10342067 GAACTACTGTAGAAAAAAA
1 GAACTACTGTAGAAAAAAA
10342086 ATAAAATCCT
Statistics
Matches: 130, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
125 103 0.79
126 27 0.21
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.35
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAAAGCGTCCACGTGGGAACCTTTTTCATCAATTTTACTGACAGGGCATC
CTGCTTGAAGCATTTTTCACACTATTTGTTCAGAAACATATTCTCAAAATTATTTTTTCAA
Found at i:10342247 original size:21 final size:21
Alignment explanation
Indices: 10342221--10342293 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
10342211 TAAAATTCCT
10342221 AAAACCCTAAATTATTTTAAC
1 AAAACCCTAAATTATTTTAAC
* **
10342242 AAAACCCTAAACT-TTACAA-
1 AAAACCCTAAATTATTTTAAC
*
10342261 ATCCAACCCTAAATTATTTTAAC
1 A--AAACCCTAAATTATTTTAAC
*
10342284 AAAATCCTAA
1 AAAACCCTAA
10342294 CCCTAATAAC
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
19 1 0.03
20 4 0.10
21 29 0.74
22 4 0.10
23 1 0.03
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAACCCTAAATTATTTTAAC
Found at i:10345683 original size:22 final size:22
Alignment explanation
Indices: 10345648--10345699 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
10345638 AGTTACAAAA
*
10345648 AGTTTA-AGTATTTGAT-TTGAT
1 AGTTTAGAATATTTG-TCTTGAT
10345669 AGTTTAGAATATTTGTCTTGAT
1 AGTTTAGAATATTTGTCTTGAT
*
10345691 A-ATTAGAAT
1 AGTTTAGAAT
10345700 TCGCCATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (22 bp):
AGTTTAGAATATTTGTCTTGAT
Found at i:10348743 original size:57 final size:57
Alignment explanation
Indices: 10348675--10348805 Score: 156
Period size: 57 Copynumber: 2.3 Consensus size: 57
10348665 AAACAATCTG
* * * * *
10348675 ATATGGCATTGAAATGAATAATGTGAAATTGGTATAAACTTAT-AATTTGATAATTGA
1 ATATGACATTGAAATGAATAAGGTGAAATTAGCATAAACTTATGAA-TTGATAATAGA
* * * *
10348732 ATATGACATTGAAATGAATTAGGTGAAATTAGCATGATCTTATGAATTGATGATAGA
1 ATATGACATTGAAATGAATAAGGTGAAATTAGCATAAACTTATGAATTGATAATAGA
*
10348789 ATATGACATTGAGATGA
1 ATATGACATTGAAATGA
10348806 GTTACGTGAA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 61 0.97
58 2 0.03
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.34
Consensus pattern (57 bp):
ATATGACATTGAAATGAATAAGGTGAAATTAGCATAAACTTATGAATTGATAATAGA
Found at i:10350246 original size:21 final size:21
Alignment explanation
Indices: 10350222--10350271 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
10350212 TGTTCATCAA
10350222 ACTTATTTATCAAATATATAT
1 ACTTATTTATCAAATATATAT
*
10350243 ACTTGATCT-TCAAATATATAT
1 ACTT-ATTTATCAAATATATAT
10350264 A-TTATTTA
1 ACTTATTTA
10350272 CATATCACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 3 0.12
20 2 0.08
21 17 0.68
22 3 0.12
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (21 bp):
ACTTATTTATCAAATATATAT
Found at i:10350432 original size:41 final size:41
Alignment explanation
Indices: 10350387--10350474 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
10350377 GACTTATAGC
* * *
10350387 CCGAATAATTTCACTAGCATT-AAGCCTGCTAGACAATGAGT
1 CCGAATAATATCACCAGC-TTCAAGCCTGCTAGACAATAAGT
* *
10350428 CCGAATTATATCACCGGCTTCAAGCCTGCTAGACAATAAGT
1 CCGAATAATATCACCAGCTTCAAGCCTGCTAGACAATAAGT
*
10350469 CTGAAT
1 CCGAAT
10350475 TACATTCGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 2 0.05
41 38 0.95
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (41 bp):
CCGAATAATATCACCAGCTTCAAGCCTGCTAGACAATAAGT
Found at i:10357860 original size:21 final size:21
Alignment explanation
Indices: 10357836--10357885 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
10357826 TGCTCATCAA
10357836 ACTTATTTATCAAATATATAT
1 ACTTATTTATCAAATATATAT
*
10357857 ACTTGATCT-TCAAATATATAT
1 ACTT-ATTTATCAAATATATAT
10357878 A-TTATTTA
1 ACTTATTTA
10357886 CATATCACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 3 0.12
20 2 0.08
21 17 0.68
22 3 0.12
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (21 bp):
ACTTATTTATCAAATATATAT
Found at i:10358061 original size:41 final size:40
Alignment explanation
Indices: 10357971--10358090 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 40
10357961 TGATTTAATA
* * * * * * *
10357971 CACCGGCTTTTAGCCTGCTAGACTTATAGCCCGAATAATTT
1 CACCGGCATTAAGCCTGCTAGAC-AATAGTCTGAATTATAT
*
10358012 CACTGGCATTAAGCCTGCTAGACAATGAGTCTGAATTATAT
1 CACCGGCATTAAGCCTGCTAGACAAT-AGTCTGAATTATAT
*
10358053 CACCGGCATCAAGCCTGCTAGACAATAAGTCTGAATTA
1 CACCGGCATTAAGCCTGCTAGACAAT-AGTCTGAATTA
10358091 CATTCGATCA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
40 2 0.03
41 65 0.97
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACAATAGTCTGAATTATAT
Found at i:10361223 original size:30 final size:30
Alignment explanation
Indices: 10361187--10361257 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 30
10361177 TGAAATAATC
**
10361187 AATTAAGCCCTCGTAAAATAATAAAAAATT
1 AATTAAGCCCTCACAAAATAATAAAAAATT
* *
10361217 AATTAAGTCCTCACAAAATAATAAAAATTT
1 AATTAAGCCCTCACAAAATAATAAAAAATT
10361247 AATTAAGCCCT
1 AATTAAGCCCT
10361258 ACATATCATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (30 bp):
AATTAAGCCCTCACAAAATAATAAAAAATT
Found at i:10373637 original size:18 final size:20
Alignment explanation
Indices: 10373604--10373645 Score: 70
Period size: 18 Copynumber: 2.2 Consensus size: 20
10373594 TAACATGAAA
10373604 TTTAAATAACTAAAAATCAT
1 TTTAAATAACTAAAAATCAT
10373624 TTTAAAT-A-TAAAAATCAT
1 TTTAAATAACTAAAAATCAT
10373642 TTTA
1 TTTA
10373646 TACTTTCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 14 0.64
19 1 0.05
20 7 0.32
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTAAATAACTAAAAATCAT
Found at i:10375638 original size:14 final size:14
Alignment explanation
Indices: 10375619--10375646 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10375609 GACCTTTGGT
10375619 GATGGTAAAAAAGG
1 GATGGTAAAAAAGG
10375633 GATGGTAAAAAAGG
1 GATGGTAAAAAAGG
10375647 AAGAATCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.36, T:0.14
Consensus pattern (14 bp):
GATGGTAAAAAAGG
Found at i:10378245 original size:5 final size:5
Alignment explanation
Indices: 10378235--10378271 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
10378225 TTCAAGGTTA
10378235 TTTAT TTTAT TTTAT TTTCAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTT-AT TTTAT TTTAT TTTAT T
10378272 CTCTTTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:10378259 original size:16 final size:16
Alignment explanation
Indices: 10378238--10378268 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10378228 AAGGTTATTT
10378238 ATTTTATTTTATTTTC
1 ATTTTATTTTATTTTC
10378254 ATTTTATTTTATTTT
1 ATTTTATTTTATTTT
10378269 ATTCTCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTTTATTTTATTTTC
Found at i:10379381 original size:15 final size:15
Alignment explanation
Indices: 10379361--10379400 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
10379351 TAATTTTTAG
**
10379361 ATTATTATTAGTATT
1 ATTATTATTACCATT
*
10379376 ATTATTAATACCATT
1 ATTATTATTACCATT
10379391 ATTATTATTA
1 ATTATTATTA
10379401 TTCTTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (15 bp):
ATTATTATTACCATT
Found at i:10384559 original size:6 final size:6
Alignment explanation
Indices: 10384542--10384600 Score: 73
Period size: 6 Copynumber: 9.3 Consensus size: 6
10384532 TCACTTTTTA
* *
10384542 AAAAAG AAAAAA AGAAAAT AAAAAT AAAAAT AAAATAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT A-AAAAT AAAAAT AAAAAT -AAA-AAT AAAAAT AAAAAT
10384593 AAAAAT AA
1 AAAAAT AA
10384601 GAGGCCAAGG
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
6 34 0.71
7 11 0.23
8 3 0.06
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:10384571 original size:20 final size:20
Alignment explanation
Indices: 10384542--10384597 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
10384532 TCACTTTTTA
* *
10384542 AAAAAGAAAAA-AAGAAAAT
1 AAAAATAAAAATAAAAAAAT
*
10384561 AAAAATAAAAATAAAATAAT
1 AAAAATAAAAATAAAAAAAT
10384581 AAAAATAAAAATAAAAA
1 AAAAATAAAAATAAAAA
10384598 TAAGAGGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 10 0.31
20 22 0.69
ACGTcount: A:0.84, C:0.00, G:0.04, T:0.12
Consensus pattern (20 bp):
AAAAATAAAAATAAAAAAAT
Found at i:10385652 original size:45 final size:44
Alignment explanation
Indices: 10385554--10385652 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 44
10385544 TGCACTGGGG
*
10385554 CAGATTGAAGATACAAGTCTTATCTCCTTGAAGTTGTAGTGGAG
1 CAGATTGAAGATACAAGTCTTATCTCCTTGAAGTTGTAGTGGAA
* * * *
10385598 CAAACTGAAGATAGCGAA-TCTTAT-TTCTCTGATGTTGTAGTGGAA
1 CAGATTGAAGATA-C-AAGTCTTATCTCCT-TGAAGTTGTAGTGGAA
10385643 CAGATTGAAG
1 CAGATTGAAG
10385653 CTATAAATTA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
44 14 0.31
45 29 0.64
46 2 0.04
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.31
Consensus pattern (44 bp):
CAGATTGAAGATACAAGTCTTATCTCCTTGAAGTTGTAGTGGAA
Found at i:10385731 original size:44 final size:43
Alignment explanation
Indices: 10385666--10386462 Score: 399
Period size: 44 Copynumber: 17.7 Consensus size: 43
10385656 TAAATTACAG
* *
10385666 ATCTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTGGAATAACAA
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTT-GAATAACAA
* * * * *
10385710 ACCTTATCTCCCTAAAGTTGCAATAGAGCAGGTTGAAGATACCA
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAATA-ACAA
* * *
10385754 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAATTATA
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTG-A---AT-AA-CA-A
* * * * * *
10385804 GATCTTATCTCTCTGAAGTTGCAGTAGAGCA-GAT-CATATCAA
1 -ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAATAACAA
** *
10385846 A-CATTATCTCCCTGAAA-TTGCAGTGGAGGTGGTTAAAAATAA-ATCA
1 ATC-TTATCTCCCT-AAAGTTGCAGTGGAGCAGGTT--GAATAACA--A
* * *
10385892 ATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGACAGGCTACAA
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTG-A-ATA----ACAA
* * * * * **
10385941 ATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTAAAGCCACAA
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAA-TAACAA
* * * *
10385985 ACCTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTTAAATAACAA
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGG-TTGAATAACAA
* * * *
10386029 ACCGTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGATACCA
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAATA-ACAA
* * * *
10386073 ATCTTATCTCCCTGAAGTTGCAGTGGAGCATGTTGAAGATACCA
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAATA-ACAA
*
10386117 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT-AA-AACAATGA
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAATAAC-A--A
* * * * * *
10386161 ATCCTATAC-CTCTGAAGTTGCAGTAGTTGCAGTGAGACAGTTCGAAATCACGA
1 ATCTTAT-CTCCCTAAAGTTGCAGT-G--G-AG-CAG---GTT-G-AATAACAA
* * ** * ** *
10386214 GTCTTATCTCCCTGAAGTTATAGTGAAGCAGACT-AAAACCACAA
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAATA--ACAA
* * * * * * **
10386258 ATCTCATCCCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAA
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAA-TAACAA
* * * *
10386302 ACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAACAA
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTG-AATAACAA
* * * *
10386346 ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCA
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAATA-ACAA
* * * *
10386390 ATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT-ACTA
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAA--TAACAA
* *
10386434 ATCCTATCTCCCTGAAGTTGCAGTGGAGC
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGC
10386463 GGATTAAAAC
Statistics
Matches: 589, Mismatches: 110, Indels: 108
0.73 0.14 0.13
Matches are distributed among these distances:
40 1 0.00
41 22 0.04
42 8 0.01
43 15 0.03
44 386 0.66
45 22 0.04
46 28 0.05
47 3 0.01
48 8 0.01
49 38 0.06
50 3 0.01
51 29 0.05
52 4 0.01
53 18 0.03
55 2 0.00
56 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (43 bp):
ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAATAACAA
Found at i:10385812 original size:139 final size:138
Alignment explanation
Indices: 10385603--10386147 Score: 488
Period size: 139 Copynumber: 4.0 Consensus size: 138
10385593 TGGAGCAAAC
* * * * * * * *
10385603 TGAAGATAGCGAATCTTATTTCTCTGATGTTGTAGTGGAACAGATTGAAGCTATAAATTACAGAT
1 TGAAGATAACCAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTATAAATTACAGAT
* *
10385668 CTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTGGAATAACAAACCTTATCTCCCTAAAGTTGCAA
66 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTT--AATAACAAACCTTATCTCCCTAAAGTTGCAG
10385733 TAGAGCAGGT
129 TAGAGCAGGT
* *
10385743 TGAAGAT-ACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAATTATAGAT
1 TGAAGATAACCAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTATAAATTACAGAT
* * * *
10385807 CTTATCTCTCTGAAGTTGCAGTAGAGCA-GATCATATCAAACATTATCTCCCTGAAA-TTGCAGT
66 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTAATAACAAACCTTATCTCCCT-AAAGTTGCAGT
* **
10385870 GGAGGTGGT
130 AGAGCAGGT
* * * * * *** *
10385879 TAAAAATAAATCAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAG--ACAGGCTACAAA
1 TGAAGAT-AACCAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTATAAATTACAGA
* * * * * *
10385942 TCTTATCTCCCTGAAGTTGCAATGGAGTAGATTAA-AGCCACAAACCTTATCTCTCTAAAGTTGC
65 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTAATA---ACAAACCTTATCTCCCTAAAGTTGC
10386006 AGTAGAGCAGGT
127 AGTAGAGCAGGT
* * * * * *
10386018 TTAA-ATAACAAACCGTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAG--AT--A--CCA-AT
1 TGAAGATAACCAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTATAAATTACAGAT
* * * * * *
10386075 CTTATCTCCCTGAAGTTGCAGTGGAGCATGTTGAAGATACCAATCTTATCTCCCTAAAGTTGCAG
66 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTT-AATA-ACAAACCTTATCTCCCTAAAGTTGCAG
*
10386140 TGGAGCAG
129 TAGAGCAG
10386148 ATTAAAACAA
Statistics
Matches: 335, Mismatches: 60, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
132 61 0.18
133 4 0.01
134 1 0.00
136 67 0.20
137 43 0.13
138 46 0.14
139 106 0.32
140 7 0.02
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (138 bp):
TGAAGATAACCAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTATAAATTACAGAT
CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTAATAACAAACCTTATCTCCCTAAAGTTGCAGTA
GAGCAGGT
Found at i:10386343 original size:317 final size:315
Alignment explanation
Indices: 10385668--10386619 Score: 1228
Period size: 317 Copynumber: 3.0 Consensus size: 315
10385658 AATTACAGAT
* *
10385668 CTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTGGAATAACAAACCTTATCTCCCTAAAGTTGCAA
1 CTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTATCTCCCTAAAGTTGCAG
*
10385733 TAGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAA
66 TGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--
* * * * * * *
10385798 ATTATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAA--ACAT-TAT-CTCCCT
127 A--CTA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAATGA-ATCTATAC-CTCT
* * * ** *
10385859 GAAATTGCAGTGGAGGTG--GTTA-A-AAAT-AAATCA--A-TCTTATCTCCCTAAAGTTGCAGT
187 GAAGTTGCAGT--AGTTGCAGTGAGACAGTTGAAATCACGAGTCTTATCTCCCTGAAGTTGCAGT
* * * * *
10385916 GGAGTAGATTGAAGACAGGCTACAAATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTAAAGCC
250 GGAGCAGATT-AA-A-A--CCACAAATCTCATCCCCCTGAAGTTGCAGTGGAGTAGATTAAAGCC
10385981 ACAAAC
310 ACAAAC
* *
10385987 CTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTTAAATAACAAACCGTATCTCCCTAAAGTTGCAG
1 CTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTATCTCCCTAAAGTTGCAG
*
10386052 TGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCATG-TTGAAGATACC
66 TGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGATACT
*
10386116 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACAATGAATCCTATACCTCTGAAGTTG
130 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAATGAAT-CTATACCTCTGAAGTTG
** *
10386181 CAGTAGTTGCAGTGAGACAGTTCGAAATCACGAGTCTTATCTCCCTGAAGTTATAGTGAAGCAGA
194 CAGTAGTTGCAGTGAGACAGTT-GAAATCACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
*
10386246 CTAAAACCACAAATCTCATCCCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAAC
258 TTAAAACCACAAATCTCATCCCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAAC
* *
10386304 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTATCTCCCTAAAGTTGCAG
* *
10386369 TGGAGCAGGTTGAAGATACCAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTA
66 TGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTA
* * * * *
10386434 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACGATGAATGCTATACCTCTAAAGTTGT
131 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAATGAAT-CTATACCTCTGAAGTTGC
*
10386499 AGTAGTTGCAGTGAGGCAGTTTGAAATCACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
195 AGTAGTTGCAGTGAGACAG-TTGAAATCACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * *
10386564 TAAAACCACAAATCTCGTCCCCCTGAAGTTACAGTGGAGCAGACTAAAACCACAAA
259 TAAAACCACAAATCTCATCCCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAA
10386620 TCTTGTCCCC
Statistics
Matches: 563, Mismatches: 53, Indels: 36
0.86 0.08 0.06
Matches are distributed among these distances:
312 35 0.06
313 7 0.01
314 1 0.00
315 20 0.04
316 3 0.01
317 339 0.60
318 2 0.00
319 124 0.22
320 2 0.00
321 3 0.01
322 27 0.05
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (315 bp):
CTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTATCTCCCTAAAGTTGCAG
TGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTA
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAATGAATCTATACCTCTGAAGTTGCA
GTAGTTGCAGTGAGACAGTTGAAATCACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
AAACCACAAATCTCATCCCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAAC
Found at i:10386588 original size:44 final size:44
Alignment explanation
Indices: 10386540--10386641 Score: 177
Period size: 44 Copynumber: 2.3 Consensus size: 44
10386530 AGTCTTATCT
*
10386540 CCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAAATCTCGTCC
1 CCCTGAAGTTGCAGTGGAGCAGACTAAAACCACAAATCTCGTCC
* *
10386584 CCCTGAAGTTACAGTGGAGCAGACTAAAACCACAAATCTTGTCC
1 CCCTGAAGTTGCAGTGGAGCAGACTAAAACCACAAATCTCGTCC
10386628 CCCTGAAGTTGCAG
1 CCCTGAAGTTGCAG
10386642 GCAAAGTAGA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTGGAGCAGACTAAAACCACAAATCTCGTCC
Found at i:10386634 original size:185 final size:176
Alignment explanation
Indices: 10386223--10386641 Score: 419
Period size: 185 Copynumber: 2.3 Consensus size: 176
10386213 AGTCTTATCT
* * * *
10386223 CCCTGAAGTTATAGTGAAGCAGACTAAAACCACAAATCTCATCCCCCTGAAGTTGCAGTGGAGTA
1 CCCTGAAGTTACAGTGGAGCAGACTAAAACCACAAATCTTATCCCCCTGAAGTTGCAGTGGAGCA
* *
10386288 GATTAAAGCCACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTAT
66 GATTAAAACCACAAACCTTACCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTAT
* * * * * **
10386353 CTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATTT
131 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAAACACAAATCTCATCC
* * * * * * * * *
10386399 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCCTATCTCCCTGAAGTTGCAGTGGAGCG
1 CCCTGAAGTTACAGTGGAGCAGACTAAAACCACAAATCTTATCCCCCTGAAGTTGCAGTGGAGCA
* * ** * * *
10386464 GATTAAAACGATGAATGCTATACCTCTAAAGTTGTAGTAGTTGCAGT-GAGGCAGTTTGAAATCA
66 GATTAAAACCA-CAAACCT-TACCTCT----CTG-A--AGTTGCAGTAGA-GCAGGTTGAAATAA
* ** *
10386528 CGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAACCACAAATCTCGTCC
121 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAA-CACAAATCTCATCC
*
10386584 CCCTGAAGTTACAGTGGAGCAGACTAAAACCACAAATCTTGTCCCCCTGAAGTTGCAG
1 CCCTGAAGTTACAGTGGAGCAGACTAAAACCACAAATCTTATCCCCCTGAAGTTGCAG
10386642 GCAAAGTAGA
Statistics
Matches: 190, Mismatches: 42, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
176 61 0.32
177 4 0.02
178 6 0.03
182 2 0.01
183 1 0.01
184 5 0.03
185 111 0.58
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (176 bp):
CCCTGAAGTTACAGTGGAGCAGACTAAAACCACAAATCTTATCCCCCTGAAGTTGCAGTGGAGCA
GATTAAAACCACAAACCTTACCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTAT
CTCCCTGAAGTTGCAGTGGAGCAGATTGAAAACACAAATCTCATCC
Found at i:10386638 original size:141 final size:141
Alignment explanation
Indices: 10386361--10386620 Score: 319
Period size: 141 Copynumber: 1.8 Consensus size: 141
10386351 ATCTCCCTGA
* *
10386361 AGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGA
1 AGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
* * * * * * * * ** *
10386426 AGCTACTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACGATGAATGCTATACCTCT
66 AACCACAAATCCTATCCCCCTGAAGTTACAGTGGAGCAGACTAAAACCACAAATGCTATACCCCT
10386491 AAAGTTGTAGT
131 AAAGTTGTAGT
* * *
10386502 AGTTGCAGT-GAGGCAGTTTGAA-ATCACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 AGTTGCAGTGGA-GCAGGTTGAAGAT-ACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
*
10386565 AAAACCACAAAT-CTCGTCCCCCTGAAGTTACAGTGGAGCAGACTAAAACCACAAAT
64 AAAACCACAAATCCT-ATCCCCCTGAAGTTACAGTGGAGCAGACTAAAACCACAAAT
10386621 CTTGTCCCCC
Statistics
Matches: 100, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
140 6 0.06
141 94 0.94
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (141 bp):
AGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
AACCACAAATCCTATCCCCCTGAAGTTACAGTGGAGCAGACTAAAACCACAAATGCTATACCCCT
AAAGTTGTAGT
Found at i:10387807 original size:14 final size:14
Alignment explanation
Indices: 10387788--10387817 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10387778 TAAAACCGAA
*
10387788 TATACATATGTATT
1 TATACATATATATT
10387802 TATACATATATATT
1 TATACATATATATT
10387816 TA
1 TA
10387818 AATGTCAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (14 bp):
TATACATATATATT
Found at i:10388471 original size:41 final size:41
Alignment explanation
Indices: 10388413--10388521 Score: 148
Period size: 41 Copynumber: 2.7 Consensus size: 41
10388403 CCTGATTCAA
* *
10388413 TTCACCGGCAATT-AGCCTGCTAGACTTAAAGTCCGAGTTAT
1 TTCACCGGC-ATTAAGCCTGCTAGACTTAAAGTCCGAATTAC
* *
10388454 TTCACCGGCATTAAGCCTGCTGGACATAAAGTCCGAATTAC
1 TTCACCGGCATTAAGCCTGCTAGACTTAAAGTCCGAATTAC
* *
10388495 ATCACCGGCCTTAAGCCTGCTAGACTT
1 TTCACCGGCATTAAGCCTGCTAGACTT
10388522 TAAGCCTGAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
40 3 0.05
41 56 0.95
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (41 bp):
TTCACCGGCATTAAGCCTGCTAGACTTAAAGTCCGAATTAC
Found at i:10391387 original size:15 final size:15
Alignment explanation
Indices: 10391367--10391406 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
10391357 TAATTTTTAG
**
10391367 ATTATTATTAGTATT
1 ATTATTATTACCATT
*
10391382 ATTATTAATACCATT
1 ATTATTATTACCATT
10391397 ATTATTATTA
1 ATTATTATTA
10391407 TTCTTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (15 bp):
ATTATTATTACCATT
Found at i:10396475 original size:5 final size:5
Alignment explanation
Indices: 10396467--10396500 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
10396457 AAGAAAAAAG
10396467 AATAA AATAA AATAA ATATAAA AATAA AATAA AA
1 AATAA AATAA AATAA A-AT-AA AATAA AATAA AA
10396501 ATAAGAGGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 20 0.74
6 4 0.15
7 3 0.11
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:10396477 original size:22 final size:21
Alignment explanation
Indices: 10396452--10396501 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
10396442 CTTCACTTTT
10396452 TAAAAAAGA-AAAAAGAATAAAA
1 TAAAAAA-ATAAAAA-AATAAAA
*
10396474 TAAAATAAATATAAAAATAAAA
1 TAAAA-AAATAAAAAAATAAAA
10396496 TAAAAA
1 TAAAAA
10396502 TAAGAGGCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.04
22 18 0.72
23 6 0.24
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (21 bp):
TAAAAAAATAAAAAAATAAAA
Found at i:10396490 original size:17 final size:17
Alignment explanation
Indices: 10396470--10396504 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
10396460 AAAAAAGAAT
*
10396470 AAAATAAAATAAATATA
1 AAAATAAAATAAAAATA
10396487 AAAATAAAATAAAAATA
1 AAAATAAAATAAAAATA
10396504 A
1 A
10396505 GAGGCCAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAATAAAATAAAAATA
Found at i:10397552 original size:45 final size:44
Alignment explanation
Indices: 10397454--10397552 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 44
10397444 TTGCACTGGG
*
10397454 CAGATTGAAGATACAAGTCTTATCTCCTTGAAGTTGTAGTGGAG
1 CAGATTGAAGATACAAGTCTTATCTCCTTGAAGTTGTAGTGGAA
* * * *
10397498 CAAACTGAAGATAGCGAA-TCTTAT-TTCTCTGATGTTGTAGTGGAA
1 CAGATTGAAGATA-C-AAGTCTTATCTCCT-TGAAGTTGTAGTGGAA
10397543 CAGATTGAAG
1 CAGATTGAAG
10397553 CTATAAATTA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
44 14 0.31
45 29 0.64
46 2 0.04
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.31
Consensus pattern (44 bp):
CAGATTGAAGATACAAGTCTTATCTCCTTGAAGTTGTAGTGGAA
Found at i:10397673 original size:44 final size:44
Alignment explanation
Indices: 10397566--10398360 Score: 507
Period size: 44 Copynumber: 17.7 Consensus size: 44
10397556 TAAATTACAG
* * * * *
10397566 ATCTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTGGA-ATAACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCA
* * * *
10397609 ACCTTATCTCCCTAAAGTTGCAATAGAGCAGGTTGAAGATACCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCA
* **
10397653 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAATTATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG--AT--A--CCA
* * ** *
10397703 GATCTTATCTCTCTGAAGTTGCAGTAGAGCA----GATCATATCA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCA
* * ** * *
10397744 AACATTATCTCCCTGAAATTGCAGTGGAGGTGGTT-AAAATAAATCA
1 ATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGAT--ACCA
* * * *
10397790 ATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGACAGGCTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG--A---TACCA
* * * * ** *
10397839 ATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTAAAGCCACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCA
* * * * * *
10397883 ACCTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTTAA-ATAACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGAT-ACCA
* * *
10397927 ACCGTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGATACCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCA
*
10397971 ATCTTATCTCCCTGAAGTTGCAGTGGAGCATGTTGAAGATACCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCA
* * * * **
10398015 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAAACAATGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGA-TACCA
* * * *
10398059 ATCCTATAC-CTCTGAAGTTGCAGTAGTTGCAGTGAGACAGTTCGAA-ATCACGA
1 ATCTTAT-CTCCCTGAAGTTGCAGT-G--G-AG-CAG---GTT-GAAGAT-ACCA
* ** * ** * * *
10398112 GTCTTATCTCCCTGAAGTTATAGTGAAGCAGACT-AAAACCACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGA-TACCA
* * * * * ** *
10398156 ATCTCATCCCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCA
* * * *
10398200 ACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-ATAACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGAT-ACCA
*
10398244 ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCA
* * * *
10398288 ATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCA
*
10398332 ATCCTATCTCCCTGAAGTTGCAGTGGAGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGC
10398361 GGATTAAAAC
Statistics
Matches: 596, Mismatches: 114, Indels: 83
0.75 0.14 0.10
Matches are distributed among these distances:
40 2 0.00
41 23 0.04
43 39 0.07
44 378 0.63
45 37 0.06
46 10 0.02
47 3 0.01
48 6 0.01
49 41 0.07
50 1 0.00
51 29 0.05
52 4 0.01
53 21 0.04
54 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCA
Found at i:10398185 original size:317 final size:315
Alignment explanation
Indices: 10397568--10398516 Score: 1219
Period size: 317 Copynumber: 3.0 Consensus size: 315
10397558 AATTACAGAT
* *
10397568 CTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTGGAATAAC-AACCTTATCTCCCTAAAGTTGCAA
1 CTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTATCTCCCTAAAGTTGCAG
*
10397632 TAGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAA
66 TGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--
* * * * * * *
10397697 ATTATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAA--ACAT-TAT-CTCCCT
127 A--CTA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAATGA-ATCTATAC-CTCT
* * * * *
10397758 GAAATTGCAGTGGAGGTG--GTTA-A-A-AT-AAATCA--A-TCTTATCTCCCTAAAGTTGCAGT
187 GAAGTTGCAGT--AGTTGCAGTGAGACAGTTGAAATCACGAGTCTTATCTCCCTGAAGTTGCAGT
* * * * *
10397814 GGAGTAGATTGAAGACAGGCTACAAATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTAAAGCC
250 GGAGCAGATT-AA-A-A--CCACAAATCTCATCCCCCTGAAGTTGCAGTGGAGTAGATTAAAGCC
10397879 ACAAAC
310 ACAAAC
* *
10397885 CTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTTAAATAACAAACCGTATCTCCCTAAAGTTGCAG
1 CTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTATCTCCCTAAAGTTGCAG
*
10397950 TGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCATG-TTGAAGATACC
66 TGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGATACT
*
10398014 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACAATGAATCCTATACCTCTGAAGTTG
130 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAATGAAT-CTATACCTCTGAAGTTG
** *
10398079 CAGTAGTTGCAGTGAGACAGTTCGAAATCACGAGTCTTATCTCCCTGAAGTTATAGTGAAGCAGA
194 CAGTAGTTGCAGTGAGACAGTT-GAAATCACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
*
10398144 CTAAAACCACAAATCTCATCCCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAAC
258 TTAAAACCACAAATCTCATCCCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAAC
* *
10398202 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTATCTCCCTAAAGTTGCAG
* *
10398267 TGGAGCAGGTTGAAGATACCAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTA
66 TGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTA
* * * *
10398332 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACGATGAATGCTATACCTCT-AAGTTGT
131 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAATGAAT-CTATACCTCTGAAGTTGC
*
10398396 AGTAGTTGCAGTGAGGCAGTTTGAAATCACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
195 AGTAGTTGCAGTGAGACAG-TTGAAATCACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * *
10398461 TAAAACCACAAATCTCGTCCCCCTGAAGTTACAGTGGAGCAGACTAAAACCACAAA
259 TAAAACCACAAATCTCATCCCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAA
10398517 TCTTGTCCCC
Statistics
Matches: 562, Mismatches: 51, Indels: 39
0.86 0.08 0.06
Matches are distributed among these distances:
311 35 0.06
312 7 0.01
313 1 0.00
314 20 0.04
315 2 0.00
316 118 0.21
317 262 0.47
318 78 0.14
319 8 0.01
320 1 0.00
321 3 0.01
322 27 0.05
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (315 bp):
CTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTATCTCCCTAAAGTTGCAG
TGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTA
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAATGAATCTATACCTCTGAAGTTGCA
GTAGTTGCAGTGAGACAGTTGAAATCACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
AAACCACAAATCTCATCCCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAAC
Found at i:10398449 original size:140 final size:140
Alignment explanation
Indices: 10398259--10398510 Score: 339
Period size: 140 Copynumber: 1.8 Consensus size: 140
10398249 ATCTCCCTGA
* *
10398259 AGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGA
1 AGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
* * * * * * *
10398324 AGCTACTAATC-CTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACGATGAATGCTATACCTC
66 AACCACAAATCTC-ATCCCCCTGAAGTTACAGTGGAGCAGACTAAAACGATGAATGCTATACCTC
10398388 TAAGTTGTAGT
130 TAAGTTGTAGT
* * *
10398399 AGTTGCAGT-GAGGCAGTTTGAA-ATCACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 AGTTGCAGTGGA-GCAGGTTGAAGAT-ACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
*
10398462 AAAACCACAAATCTCGTCCCCCTGAAGTTACAGTGGAGCAGACTAAAAC
64 AAAACCACAAATCTCATCCCCCTGAAGTTACAGTGGAGCAGACTAAAAC
10398511 CACAAATCTT
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
139 4 0.04
140 91 0.95
141 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (140 bp):
AGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
AACCACAAATCTCATCCCCCTGAAGTTACAGTGGAGCAGACTAAAACGATGAATGCTATACCTCT
AAGTTGTAGT
Found at i:10398485 original size:44 final size:44
Alignment explanation
Indices: 10398437--10398538 Score: 177
Period size: 44 Copynumber: 2.3 Consensus size: 44
10398427 AGTCTTATCT
*
10398437 CCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAAATCTCGTCC
1 CCCTGAAGTTGCAGTGGAGCAGACTAAAACCACAAATCTCGTCC
* *
10398481 CCCTGAAGTTACAGTGGAGCAGACTAAAACCACAAATCTTGTCC
1 CCCTGAAGTTGCAGTGGAGCAGACTAAAACCACAAATCTCGTCC
10398525 CCCTGAAGTTGCAG
1 CCCTGAAGTTGCAG
10398539 GCAAAGTAGA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTGGAGCAGACTAAAACCACAAATCTCGTCC
Found at i:10398531 original size:184 final size:176
Alignment explanation
Indices: 10398121--10398538 Score: 426
Period size: 184 Copynumber: 2.3 Consensus size: 176
10398111 AGTCTTATCT
* * * *
10398121 CCCTGAAGTTATAGTGAAGCAGACTAAAACCACAAATCTCATCCCCCTGAAGTTGCAGTGGAGTA
1 CCCTGAAGTTACAGTGGAGCAGACTAAAACCACAAATCTTATCCCCCTGAAGTTGCAGTGGAGCA
* *
10398186 GATTAAAGCCACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTAT
66 GATTAAAACCACAAACCTTACCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTAT
* * * * * **
10398251 CTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATTT
131 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAAACACAAATCTCATCC
* * * * * * * * *
10398297 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCCTATCTCCCTGAAGTTGCAGTGGAGCG
1 CCCTGAAGTTACAGTGGAGCAGACTAAAACCACAAATCTTATCCCCCTGAAGTTGCAGTGGAGCA
* * ** * * *
10398362 GATTAAAACGATGAATGCTATACCTCTAAGTTGTAGTAGTTGCAGT-GAGGCAGTTTGAAATCAC
66 GATTAAAACCA-CAAACCT-TACCTCT---CTG-A--AGTTGCAGTAGA-GCAGGTTGAAATAAC
* ** *
10398426 GAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAACCACAAATCTCGTCC
122 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAA-CACAAATCTCATCC
*
10398481 CCCTGAAGTTACAGTGGAGCAGACTAAAACCACAAATCTTGTCCCCCTGAAGTTGCAG
1 CCCTGAAGTTACAGTGGAGCAGACTAAAACCACAAATCTTATCCCCCTGAAGTTGCAG
10398539 GCAAAGTAGA
Statistics
Matches: 190, Mismatches: 42, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
176 61 0.32
177 4 0.02
178 6 0.03
181 2 0.01
182 1 0.01
183 5 0.03
184 111 0.58
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (176 bp):
CCCTGAAGTTACAGTGGAGCAGACTAAAACCACAAATCTTATCCCCCTGAAGTTGCAGTGGAGCA
GATTAAAACCACAAACCTTACCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTAT
CTCCCTGAAGTTGCAGTGGAGCAGATTGAAAACACAAATCTCATCC
Found at i:10399701 original size:14 final size:14
Alignment explanation
Indices: 10399682--10399711 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10399672 TAAAACCGAA
*
10399682 TATACATATGTATT
1 TATACATATATATT
10399696 TATACATATATATT
1 TATACATATATATT
10399710 TA
1 TA
10399712 AATGTCAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (14 bp):
TATACATATATATT
Found at i:10400365 original size:41 final size:41
Alignment explanation
Indices: 10400307--10400415 Score: 148
Period size: 41 Copynumber: 2.7 Consensus size: 41
10400297 CCTGATTCAA
* *
10400307 TTCACCGGCAATT-AGCCTGCTAGACTTAAAGTCCGAGTTAT
1 TTCACCGGC-ATTAAGCCTGCTAGACTTAAAGTCCGAATTAC
* *
10400348 TTCACCGGCATTAAGCCTGCTGGACATAAAGTCCGAATTAC
1 TTCACCGGCATTAAGCCTGCTAGACTTAAAGTCCGAATTAC
* *
10400389 ATCACCGGCCTTAAGCCTGCTAGACTT
1 TTCACCGGCATTAAGCCTGCTAGACTT
10400416 TAAGCCTGAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
40 3 0.05
41 56 0.95
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (41 bp):
TTCACCGGCATTAAGCCTGCTAGACTTAAAGTCCGAATTAC
Found at i:10403300 original size:15 final size:15
Alignment explanation
Indices: 10403280--10403319 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
10403270 TAATTTTTAG
**
10403280 ATTATTATTAGTATT
1 ATTATTATTACCATT
*
10403295 ATTATTAATACCATT
1 ATTATTATTACCATT
10403310 ATTATTATTA
1 ATTATTATTA
10403320 TTCTTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (15 bp):
ATTATTATTACCATT
Found at i:10410607 original size:4 final size:4
Alignment explanation
Indices: 10410600--10410625 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
10410590 TATTTGAATG
10410600 ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA AT
10410626 TTAATTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:10410663 original size:15 final size:15
Alignment explanation
Indices: 10410645--10410676 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10410635 CATTTTACTA
10410645 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
10410660 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
10410675 TT
1 TT
10410677 TGCACGCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:10419375 original size:31 final size:31
Alignment explanation
Indices: 10419340--10419401 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
10419330 TAACATCCTT
*
10419340 GTGACTTAAAT-AAATATTTTTGAATAGTTTA
1 GTGACTTAAATGAAA-ACTTTTGAATAGTTTA
*
10419371 GTGACTTAAATGAAAACTTTTGAATATTTTA
1 GTGACTTAAATGAAAACTTTTGAATAGTTTA
10419402 ATTACCATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.44
Consensus pattern (31 bp):
GTGACTTAAATGAAAACTTTTGAATAGTTTA
Found at i:10422467 original size:164 final size:164
Alignment explanation
Indices: 10422055--10422542 Score: 750
Period size: 161 Copynumber: 3.0 Consensus size: 164
10422045 TTCAATCATT
* * * * *
10422055 GTGTTGTTGTATCCTAGGAGACAGTCGATCAATATTTCTCCTAGTACCTTAGGAGCGGCCGAATT
1 GTGTTGTTGTATCCTAGGAGACAGTCGACCAACATTTCTCCAAGTACCTTAGGAACGGTCGAATT
*
10422120 TGTCTTAAGGAAACTGTGTAAAACAAGCCTCAACATCTAGTAAAACTCGATTCTTCTTTTTGATT
66 TGTCTTAAGGAAACTGTGTAAAACAAGCCTCAACATCTAATAAAACTCGATTCTTCTTTTTGATT
*
10422185 TTTGGTTTTCGTTATGTTATTTATTGGTTTTTCA
131 TCTGGTTTTCGTTATGTTATTTATTGGTTTTTCA
*
10422219 --G-TGTTGTATCCTAGGAGACAGTCGACCAACGTTTCTCCAAGTACCTTA-GAAGCGGTCGAAT
1 GTGTTGTTGTATCCTAGGAGACAGTCGACCAACATTTCTCCAAGTACCTTAGGAA-CGGTCGAAT
* * * **
10422280 TTGTCTTAAGGAAACTATGTAAAACAAACCTCATCATCTAATAAAACTCGATTCTTCTTTTCAAT
65 TTGTCTTAAGGAAACTGTGTAAAACAAGCCTCAACATCTAATAAAACTCGATTCTTCTTTTTGAT
10422345 TTCTGGTTTTCGTTATGTTATTTATTGGTTTTTCA
130 TTCTGGTTTTCGTTATGTTATTTATTGGTTTTTCA
* *
10422380 GTGTTGTTGTATCCTAGGAGACAGTCGACCAACACTTCTCCAAGTACCTTAGGAACGGTCAAATT
1 GTGTTGTTGTATCCTAGGAGACAGTCGACCAACATTTCTCCAAGTACCTTAGGAACGGTCGAATT
* * *
10422445 TGTCTTAAGGAAACTGTGTAAAACAGGCGTCAACATTTAATAAAACTCGATTCTTCTTTTTGATT
66 TGTCTTAAGGAAACTGTGTAAAACAAGCCTCAACATCTAATAAAACTCGATTCTTCTTTTTGATT
* * *
10422510 TCTGGTTTTTGTTATATTATTTATTAGTTTTTC
131 TCTGGTTTTCGTTATGTTATTTATTGGTTTTTC
10422543 GTATCTGATA
Statistics
Matches: 292, Mismatches: 27, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
160 2 0.01
161 144 0.49
162 1 0.00
163 1 0.00
164 141 0.48
165 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.39
Consensus pattern (164 bp):
GTGTTGTTGTATCCTAGGAGACAGTCGACCAACATTTCTCCAAGTACCTTAGGAACGGTCGAATT
TGTCTTAAGGAAACTGTGTAAAACAAGCCTCAACATCTAATAAAACTCGATTCTTCTTTTTGATT
TCTGGTTTTCGTTATGTTATTTATTGGTTTTTCA
Found at i:10422584 original size:5 final size:5
Alignment explanation
Indices: 10422568--10422596 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
10422558 AATATAAATT
10422568 ATTTA A-TTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
10422597 TATATCAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTTA
Found at i:10424678 original size:31 final size:32
Alignment explanation
Indices: 10424643--10424712 Score: 106
Period size: 31 Copynumber: 2.2 Consensus size: 32
10424633 TTACAATTTG
* *
10424643 GTCATTGAATTATTCTAAAAAA-TTTATTTAA
1 GTCATTGAACTATTCAAAAAAATTTTATTTAA
*
10424674 GTCATTGAACTATTCAAAAAAATTTTATTTTA
1 GTCATTGAACTATTCAAAAAAATTTTATTTAA
10424706 GTCATTG
1 GTCATTG
10424713 GACTGTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
31 20 0.57
32 15 0.43
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.44
Consensus pattern (32 bp):
GTCATTGAACTATTCAAAAAAATTTTATTTAA
Found at i:10435218 original size:41 final size:41
Alignment explanation
Indices: 10435161--10435244 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
10435151 GGTAAACTAG
10435161 GATATTTTGAATACTGTTGTAAATGATTATCATGGAGTATA
1 GATATTTTGAATACTGTTGTAAATGATTATCATGGAGTATA
*
10435202 GATATTTTGGATACTGTTGTAAATGATTATCATGGAGTATA
1 GATATTTTGAATACTGTTGTAAATGATTATCATGGAGTATA
10435243 GA
1 GA
10435245 CCTTATAACT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.40
Consensus pattern (41 bp):
GATATTTTGAATACTGTTGTAAATGATTATCATGGAGTATA
Found at i:10436621 original size:26 final size:26
Alignment explanation
Indices: 10436599--10436666 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
10436589 TTGTAAATTC
* *
10436599 CAAATAATAAAAGTATTTTTAAATAT
1 CAAATAATAAAAATATTATTAAATAT
10436625 CAAATAATAAAAATATTATTAAATAT
1 CAAATAATAAAAATATTATTAAATAT
*
10436651 CAAATAAAAATAAATA
1 CAAATAATAA-AAATA
10436667 ATAATAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 33 0.87
27 5 0.13
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (26 bp):
CAAATAATAAAAATATTATTAAATAT
Found at i:10445738 original size:56 final size:50
Alignment explanation
Indices: 10445663--10445858 Score: 155
Period size: 50 Copynumber: 3.8 Consensus size: 50
10445653 ACATTAGGGG
* * *
10445663 GATGAGA--TCCCATGTAAGACCATGTATGGGACATGGCATTAACATTATTGA
1 GATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTAACA-CA--GA
* *
10445714 GGTTATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGACACAGA
1 -G--ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTAACACAGA
* * * * *
10445767 GATGAGAGGTCCCTCGTAAGACCATGTCTGGAACATGACA-TAGGCACCGA
1 GATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTA-ACACAGA
* ** * * * *
10445817 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGACATT
1 GATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATT
10445859 GGCAGTATAG
Statistics
Matches: 118, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
49 1 0.01
50 72 0.61
51 1 0.01
52 2 0.02
53 2 0.02
54 6 0.05
55 1 0.01
56 33 0.28
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTAACACAGA
Found at i:10445776 original size:50 final size:50
Alignment explanation
Indices: 10445718--10445857 Score: 163
Period size: 50 Copynumber: 2.8 Consensus size: 50
10445708 TATTGAGGTT
* * *
10445718 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGACACAGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGACATAGACACAGAG
* * * * *
10445768 ATGAGAGGTCCCTCGTAAGACCATGTCTGGAACATGACATAGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGACATAGACACAGAG
** * * *
10445818 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGACAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGACAT
10445858 TGGCAGTATA
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGACATAGACACAGAG
Found at i:10447043 original size:124 final size:124
Alignment explanation
Indices: 10446823--10447166 Score: 573
Period size: 124 Copynumber: 2.8 Consensus size: 124
10446813 CGAGTTGATA
* *
10446823 TTTCTGATG-AAATAGTATAAAATCGCTTTTAGCAGGATGCTTTTTGAGAAGAATTTGTGAAATT
1 TTTCTGA-GCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATC
*
10446887 GCGGCCTCGTGAACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTGACT
65 GCGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTGACT
*
10446947 TTTCTGAGCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCA
1 TTTCTGAGCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
*
10447012 CGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATATTTTTTTTTGACT
66 CGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTGACT
* * *
10447071 TTTCTGACCAAATAGTATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
1 TTTCTGAGCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
* * *
10447136 CGGCCTTGTGGGCGCGCATTTGCTACAGTAG
66 CGGCCTCGTGGACGCGCTTTTGCTACAGTAG
10447167 CATGTTTGGG
Statistics
Matches: 207, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
123 1 0.00
124 206 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (124 bp):
TTTCTGAGCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
CGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTGACT
Found at i:10450234 original size:19 final size:20
Alignment explanation
Indices: 10450210--10450316 Score: 124
Period size: 19 Copynumber: 5.7 Consensus size: 20
10450200 TCAAATTATA
10450210 TAAAATTAT-AAATGGTTAG
1 TAAAATTATCAAATGGTTAG
10450229 TAAAATTATCAAAT--TATA-
1 TAAAATTATCAAATGGT-TAG
*
10450247 TAAAATTAT-TAATGGTTAG
1 TAAAATTATCAAATGGTTAG
10450266 TAAAATTATCAAAT--TATA-
1 TAAAATTATCAAATGGT-TAG
10450284 TAAAATTAT-AAATGGTTAG
1 TAAAATTATCAAATGGTTAG
10450303 TAAAATTATCAAAT
1 TAAAATTATCAAAT
10450317 TATATAAAAT
Statistics
Matches: 75, Mismatches: 2, Indels: 21
0.77 0.02 0.21
Matches are distributed among these distances:
17 7 0.09
18 24 0.32
19 33 0.44
20 11 0.15
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.38
Consensus pattern (20 bp):
TAAAATTATCAAATGGTTAG
Found at i:10450242 original size:37 final size:37
Alignment explanation
Indices: 10450200--10450327 Score: 247
Period size: 37 Copynumber: 3.5 Consensus size: 37
10450190 TTGTATTAAC
10450200 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
*
10450237 TCAAATTATATAAAATTATTAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
10450274 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
10450311 TCAAATTATATAAAATT
1 TCAAATTATATAAAATT
10450328 GGATTAGTGT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 89 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (37 bp):
TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
Done.