Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 68 of 109
Found at i:13516689 original size:15 final size:15
Alignment explanation
Indices: 13516652--13516681 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
13516642 AGAAAGAAAG
13516652 AAATTATA-TATATT
1 AAATTATATTATATT
13516666 AAATTATATTATATT
1 AAATTATATTATATT
13516681 A
1 A
13516682 TGTTATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATTATATTATATT
Found at i:13520963 original size:12 final size:12
Alignment explanation
Indices: 13520948--13521000 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
13520938 CGAGTTTAGG
*
13520948 TATTTATTTATT
1 TATTTAATTATT
*
13520960 TATTTAACTATTT
1 TATTTAATTA-TT
*
13520973 TATTTACTTATT
1 TATTTAATTATT
* *
13520985 TATTTGATTATC
1 TATTTAATTATT
13520997 TATT
1 TATT
13521001 ATTCTTTAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
12 23 0.70
13 10 0.30
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (12 bp):
TATTTAATTATT
Found at i:13521029 original size:16 final size:16
Alignment explanation
Indices: 13521008--13521041 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
13520998 ATTATTCTTT
13521008 AAATATATGTTT-ATAA
1 AAATATAT-TTTAATAA
13521024 AAATATATTTTAATAA
1 AAATATATTTTAATAA
13521040 AA
1 AA
13521042 GCATTACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
AAATATATTTTAATAA
Found at i:13523921 original size:19 final size:20
Alignment explanation
Indices: 13523889--13523926 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13523879 AGAAAGATGA
*
13523889 GAAAAAATATGTAAAAAAAT
1 GAAAAAATAAGTAAAAAAAT
13523909 GAAAAAA-AAGTAAAAAAA
1 GAAAAAATAAGTAAAAAAA
13523927 AAAATAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (20 bp):
GAAAAAATAAGTAAAAAAAT
Found at i:13524704 original size:24 final size:24
Alignment explanation
Indices: 13524656--13524704 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
13524646 ATTTGATAAT
* *
13524656 TGCATTTGCATCATGGTTGGGACA
1 TGCATTTGCATCATGGTTAGAACA
13524680 TGCATTTGCATCATGGTTAGAACA
1 TGCATTTGCATCATGGTTAGAACA
13524704 T
1 T
13524705 TTGAATCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (24 bp):
TGCATTTGCATCATGGTTAGAACA
Found at i:13524707 original size:20 final size:23
Alignment explanation
Indices: 13524657--13524713 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 23
13524647 TTTGATAATT
*
13524657 GCATTTGCATCATGGTTGGGACA
1 GCATTTGCATCATGGTTGAGACA
13524680 TGCATTTGCATCATGGTT-AGA-A
1 -GCATTTGCATCATGGTTGAGACA
*
13524702 -CATTTGAATCAT
1 GCATTTGCATCAT
13524714 TATATAACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.35
22 1 0.03
23 2 0.06
24 17 0.55
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (23 bp):
GCATTTGCATCATGGTTGAGACA
Found at i:13525163 original size:23 final size:23
Alignment explanation
Indices: 13525137--13525185 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
13525127 AATATTTAAA
13525137 TTTTAG-ATGTAAATCTCTAAAAT
1 TTTTAGAATGT-AATCTCTAAAAT
* * *
13525160 TTTTTGAATGTGATCTTTAAAAT
1 TTTTAGAATGTAATCTCTAAAAT
13525183 TTT
1 TTT
13525186 GGATGTGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.51
Consensus pattern (23 bp):
TTTTAGAATGTAATCTCTAAAAT
Found at i:13525200 original size:22 final size:22
Alignment explanation
Indices: 13525134--13525202 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
13525124 AAAAATATTT
* * *
13525134 AAATTTTAGATGTAAATCTCTA
1 AAATTTTGGATGTGAATCTTTA
*
13525156 AAATTTTTTGAATGTG-ATCTTTA
1 AAA--TTTTGGATGTGAATCTTTA
*
13525179 AAATTTTGGATGTGAATTTTTA
1 AAATTTTGGATGTGAATCTTTA
13525201 AA
1 AA
13525203 TGAAAATATT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 10 0.26
22 11 0.29
23 9 0.24
24 8 0.21
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.46
Consensus pattern (22 bp):
AAATTTTGGATGTGAATCTTTA
Found at i:13525203 original size:21 final size:21
Alignment explanation
Indices: 13525161--13525202 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13525151 CTCTAAAATT
13525161 TTTTGAATGTGATCTTTAAAA
1 TTTTGAATGTGATCTTTAAAA
* *
13525182 TTTTGGATGTGAATTTTTAAA
1 TTTTGAATGTG-ATCTTTAAA
13525203 TGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.50
Consensus pattern (21 bp):
TTTTGAATGTGATCTTTAAAA
Found at i:13525497 original size:18 final size:18
Alignment explanation
Indices: 13525470--13525526 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
13525460 CTTATGTACT
13525470 TGAA-ATTCTTGTGAATA
1 TGAACATTCTTGTGAATA
* *
13525487 T-ACACATTCTTGAGAATC
1 TGA-ACATTCTTGTGAATA
* *
13525505 TGAACATTCTTATGAATT
1 TGAACATTCTTGTGAATA
13525523 TGAA
1 TGAA
13525527 AGTTTTTGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 1 0.03
17 2 0.06
18 28 0.88
19 1 0.03
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (18 bp):
TGAACATTCTTGTGAATA
Found at i:13525567 original size:17 final size:17
Alignment explanation
Indices: 13525547--13525601 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
13525537 AACCTAAAAC
*
13525547 CTTTGCGAAACTGAAAT
1 CTTTGAGAAACTGAAAT
* * *
13525564 CTTTGTGAAACTGGAAC
1 CTTTGAGAAACTGAAAT
13525581 CTTTGAGAAACTTGAAAT
1 CTTTGAGAAAC-TGAAAT
13525599 CTT
1 CTT
13525602 GCAAATCTAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
17 24 0.77
18 7 0.23
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (17 bp):
CTTTGAGAAACTGAAAT
Found at i:13525619 original size:34 final size:33
Alignment explanation
Indices: 13525531--13525619 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 33
13525521 TTTGAAAGTT
* *
13525531 TTTGCAAACCTAAAACCTTTGCGAAACTGAAATC
1 TTTGCAAA-CTAGAACCTTTGAGAAACTGAAATC
* *
13525565 TTTGTGAAACTGGAACCTTTGAGAAACTTGAAATC
1 TTTG-CAAACTAGAACCTTTGAGAAAC-TGAAATC
*
13525600 -TTGCAAATCTAGAATCTTTG
1 TTTGCAAA-CTAGAACCTTTG
13525620 TAAACATAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
33 3 0.07
34 32 0.71
35 10 0.22
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (33 bp):
TTTGCAAACTAGAACCTTTGAGAAACTGAAATC
Found at i:13525706 original size:17 final size:18
Alignment explanation
Indices: 13525666--13525719 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
13525656 GAATTTTTAG
13525666 AATCTTACGAAACTTGAA
1 AATCTTACGAAACTTGAA
* * *
13525684 ATTCTTGCGAATC-TGAA
1 AATCTTACGAAACTTGAA
*
13525701 AATCTTTACGAATCTTGAA
1 AATC-TTACGAAACTTGAA
13525720 TCTTTGCAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 7 0.24
18 18 0.62
19 4 0.14
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
AATCTTACGAAACTTGAA
Found at i:13525738 original size:35 final size:35
Alignment explanation
Indices: 13525660--13525739 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 35
13525650 GTTAATGAAT
* *
13525660 TTTTAGAATCTTACGAAACTTGAAATTCTTGCGAA
1 TTTTAAAATCTTACGAAACTTGAAATTCTTGCAAA
* * *
13525695 TCTGAAAATCTTTACGAATCTTG-AA-TCTTTGCAAA
1 TTTTAAAATC-TTACGAAACTTGAAATTC-TTGCAAA
13525730 TTTTAAAATC
1 TTTTAAAATC
13525740 ATTATGATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
34 2 0.06
35 23 0.64
36 11 0.31
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (35 bp):
TTTTAAAATCTTACGAAACTTGAAATTCTTGCAAA
Found at i:13527210 original size:29 final size:28
Alignment explanation
Indices: 13527151--13527211 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 28
13527141 TGACTTTGAT
*
13527151 TTTATTAATTTATTTTTTGTTTGGTCTTA
1 TTTATTAATTTATTTTATGTTT-GTCTTA
*
13527180 TTTATTTATTTTATTTTATGTTT-TCTCTA
1 TTTA-TTAATTTATTTTATGTTTGTCT-TA
13527209 TTT
1 TTT
13527212 TTATTGATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 3 0.11
29 9 0.32
30 16 0.57
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (28 bp):
TTTATTAATTTATTTTATGTTTGTCTTA
Found at i:13530858 original size:41 final size:41
Alignment explanation
Indices: 13530813--13530898 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
13530803 ATTTTTTTTT
* * *
13530813 TTAATATCAT-ATTAATTAAGGTGTTTC-TTTATTGAAATACC
1 TTAAT-TCATCATCAATTAAGGAGTTTCTTTTA-TGAAACACC
*
13530854 TTAATTGATCATCAATTAAGGAGTTTCTTTTATGAAACACC
1 TTAATTCATCATCAATTAAGGAGTTTCTTTTATGAAACACC
13530895 TTAA
1 TTAA
13530899 CTGATAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
40 3 0.08
41 32 0.82
42 4 0.10
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (41 bp):
TTAATTCATCATCAATTAAGGAGTTTCTTTTATGAAACACC
Found at i:13532482 original size:11 final size:11
Alignment explanation
Indices: 13532466--13532507 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
13532456 AATCCCATAA
13532466 GAGATTTGTTT
1 GAGATTTGTTT
*
13532477 GAGATTTGTTA
1 GAGATTTGTTT
13532488 GAGATTTGTTT
1 GAGATTTGTTT
*
13532499 GGGATTTGT
1 GAGATTTGT
13532508 CAGATATTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:13532493 original size:22 final size:22
Alignment explanation
Indices: 13532465--13532507 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
13532455 AAATCCCATA
13532465 AGAGATTTGTTTGAGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
*
13532487 AGAGATTTGTTTGGGATTTGT
1 AGAGATTTGTTTGAGATTTGT
13532508 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:13532598 original size:52 final size:52
Alignment explanation
Indices: 13532533--13532688 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
13532523 GGATAAGAAA
* * *
13532533 ACTTGCAAAAGAAGAATTCCAAGAGAAAGAGGATTCTTAATAGGTAAGTTTG
1 ACTTGCAAGAGAAGAATTCTAAGAGAAAGAGGATTCTTAATAGGCAAGTTTG
* * *
13532585 ATTTGCAAGAGAAGAATTCTAAAAGGAAAG-GGATTCTTAATAGGCAAGTTTA
1 ACTTGCAAGAGAAGAATTCTAAGA-GAAAGAGGATTCTTAATAGGCAAGTTTG
* * * *
13532637 ACTTACAGGAGAAGAATTCTAAGAG-GAGAGGGATTCTTAATGGGCAAGTTTG
1 ACTTGCAAGAGAAGAATTCTAAGAGAAAGA-GGATTCTTAATAGGCAAGTTTG
13532689 TATGGTTATA
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
50 2 0.02
51 1 0.01
52 80 0.91
53 5 0.06
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (52 bp):
ACTTGCAAGAGAAGAATTCTAAGAGAAAGAGGATTCTTAATAGGCAAGTTTG
Found at i:13533207 original size:31 final size:31
Alignment explanation
Indices: 13533169--13533251 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 31
13533159 GCTTTTCGCC
13533169 CAACAAATGGTATCAGAGCTGTGGTGATCT-T
1 CAACAAATGGTATCAGAGCTGTGGTG-TCTCT
* * *
13533200 CAACAAATGATATCAGAGCTATGGTGTTTCT
1 CAACAAATGGTATCAGAGCTGTGGTGTCTCT
*
13533231 CAACAAGTGGTATCAGAGCTG
1 CAACAAATGGTATCAGAGCTG
13533252 AAGGTTTGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 2 0.04
31 43 0.96
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (31 bp):
CAACAAATGGTATCAGAGCTGTGGTGTCTCT
Found at i:13533360 original size:23 final size:23
Alignment explanation
Indices: 13533305--13533370 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
13533295 AGAGCCGATG
*
13533305 GTTTGAGACATGGGAAGAGTTGACA
1 GTTTGAGATATGGGAAGAGTT-A-A
*
13533330 GTTCGAGATATGGGAAGAGCTT-A
1 GTTTGAGATATGGGAAGAG-TTAA
*
13533353 GTTTGAGATATGAGAAGA
1 GTTTGAGATATGGGAAGA
13533371 AGTAAGCTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.47
25 17 0.47
26 2 0.06
ACGTcount: A:0.33, C:0.06, G:0.35, T:0.26
Consensus pattern (23 bp):
GTTTGAGATATGGGAAGAGTTAA
Found at i:13533597 original size:11 final size:11
Alignment explanation
Indices: 13533581--13533611 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
13533571 AATCCCATAA
13533581 GAGATTTGTTT
1 GAGATTTGTTT
13533592 GAGATTTGTTT
1 GAGATTTGTTT
*
13533603 GGGATTTGT
1 GAGATTTGT
13533612 CAGATATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:13533707 original size:52 final size:52
Alignment explanation
Indices: 13533639--13533740 Score: 134
Period size: 52 Copynumber: 2.0 Consensus size: 52
13533629 ATAAGAAGAC
13533639 TTGCAAAAGAAAAATTCCAAAAGAA-AGAAGATTCTTAATAGGTAAGTTTGAT
1 TTGCAAAAGAAAAATTCCAAAAGAAGAG-AGATTCTTAATAGGTAAGTTTGAT
* * * * * *
13533691 TTGCAAGAGAAGAATTCTAAAAGGAGAGGGATTCTTAATGGGTAAGTTTG
1 TTGCAAAAGAAAAATTCCAAAAGAAGAGAGATTCTTAATAGGTAAGTTTG
13533741 TATGGTTATA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 41 0.95
53 2 0.05
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.27
Consensus pattern (52 bp):
TTGCAAAAGAAAAATTCCAAAAGAAGAGAGATTCTTAATAGGTAAGTTTGAT
Found at i:13550740 original size:135 final size:135
Alignment explanation
Indices: 13550494--13550775 Score: 431
Period size: 135 Copynumber: 2.1 Consensus size: 135
13550484 AAAGATATAT
*
13550494 AAGTTATTTCGACACTCTTAACTTTATATTTTAGCCCTCACCATGATGTACAAAATCATGAGATT
1 AAGTTATTTCGACACCCTTAACTTTATATTTTAGCCCTCACCATGATGTACAAAATCATGAGATT
* ** *
13550559 TATTTCAAAGACATAAGATTAACTCATTTTCTCCAATGAATGGGACCTTATGATTAAAAGATATC
66 TATTTCAAAGACATAAGATTAACTCATTTTCTCCAATGAATAGGACCCCATGATCAAAAGATATC
13550624 AATAG
131 AATAG
** * * ***
13550629 AAGTTATTTCGGTACCCTTAACTTTATATTTTAGCCCTTACTATGATGTATGGAATCATGAGATT
1 AAGTTATTTCGACACCCTTAACTTTATATTTTAGCCCTCACCATGATGTACAAAATCATGAGATT
*
13550694 TATTTCAAAGACATAAGATTAACTCATTTTCTCTAATGAATAGGACCCCATGATCAAAAGATATC
66 TATTTCAAAGACATAAGATTAACTCATTTTCTCCAATGAATAGGACCCCATGATCAAAAGATATC
13550759 AATAG
131 AATAG
13550764 AAG-TATTATCGA
1 AAGTTATT-TCGA
13550776 TTTTCTTTCA
Statistics
Matches: 132, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
134 4 0.03
135 128 0.97
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (135 bp):
AAGTTATTTCGACACCCTTAACTTTATATTTTAGCCCTCACCATGATGTACAAAATCATGAGATT
TATTTCAAAGACATAAGATTAACTCATTTTCTCCAATGAATAGGACCCCATGATCAAAAGATATC
AATAG
Found at i:13557053 original size:19 final size:19
Alignment explanation
Indices: 13557022--13557070 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
13557012 TTTTTGGTAG
*
13557022 ACTTAGGGCTTAGGGATTC
1 ACTTAGGGTTTAGGGATTC
*
13557041 A-TCTAGGGTTTAGGGTTTC
1 ACT-TAGGGTTTAGGGATTC
13557060 ACTTAGGGTTT
1 ACTTAGGGTTT
13557071 TGTTTAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 1 0.04
19 24 0.92
20 1 0.04
ACGTcount: A:0.18, C:0.12, G:0.31, T:0.39
Consensus pattern (19 bp):
ACTTAGGGTTTAGGGATTC
Found at i:13557204 original size:3 final size:3
Alignment explanation
Indices: 13557196--13557259 Score: 69
Period size: 3 Copynumber: 20.7 Consensus size: 3
13557186 TTATATATAT
13557196 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TCT- TTA TCT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA T-TA TTA TTA
*
13557242 TTTA TTA TTT TTA TTA TT
1 -TTA TTA TTA TTA TTA TT
13557260 TAATAATTCT
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
2 2 0.04
3 43 0.81
4 8 0.15
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:13559308 original size:8 final size:8
Alignment explanation
Indices: 13559295--13559378 Score: 52
Period size: 8 Copynumber: 10.8 Consensus size: 8
13559285 CTCCCTTTTA
13559295 TTATATAT
1 TTATATAT
13559303 TTATATAT
1 TTATATAT
*
13559311 CTTTTAATAT
1 -TTAT-ATAT
*
13559321 TT-TA-AA
1 TTATATAT
13559327 TTAT-T-T
1 TTATATAT
*
13559333 TTATATTT
1 TTATATAT
*
13559341 TTATATGT
1 TTATATAT
13559349 TT-TATAT
1 TTATATAT
*
13559356 TTTTATAT
1 TTATATAT
*
13559364 TTTTATAAT
1 TTATAT-AT
13559373 TTATAT
1 TTATAT
13559379 TATTATTATT
Statistics
Matches: 62, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
6 7 0.11
7 9 0.15
8 30 0.48
9 12 0.19
10 4 0.06
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (8 bp):
TTATATAT
Found at i:13559353 original size:17 final size:16
Alignment explanation
Indices: 13559298--13559384 Score: 86
Period size: 17 Copynumber: 5.2 Consensus size: 16
13559288 CCTTTTATTA
*
13559298 TATATTTATATATCTTT
1 TATATTTTTATAT-TTT
*
13559315 TAATATTTTAAATTATTTT
1 T-ATATTTT-TA-TATTTT
13559334 TATATTTTTATATGTTT
1 TATATTTTTATAT-TTT
13559351 TATATTTTTATATTTT
1 TATATTTTTATATTTT
* *
13559367 TATA-ATTTATATTAT
1 TATATTTTTATATTTT
13559382 TAT
1 TAT
13559385 TATTATTATT
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
15 12 0.20
16 10 0.16
17 18 0.30
18 13 0.21
19 5 0.08
20 3 0.05
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (16 bp):
TATATTTTTATATTTT
Found at i:13559384 original size:3 final size:3
Alignment explanation
Indices: 13559376--13559424 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
13559366 TTATAATTTA
13559376 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13559424 T
1 T
13559425 CATTTAATGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13559387 original size:18 final size:18
Alignment explanation
Indices: 13559292--13559423 Score: 71
Period size: 18 Copynumber: 7.4 Consensus size: 18
13559282 AAACTCCCTT
13559292 TTATTATATATTTATA-TA
1 TTATTATA-ATTTATATTA
* * *
13559310 TCTTTTAATATTTTAAATTA
1 T-TATT-ATAATTTATATTA
* *
13559330 TTTTTAT-ATTTTTA-TA
1 TTATTATAATTTATATTA
* *
13559346 TGTTTTAT-ATTTTTA-TA
1 T-TATTATAATTTATATTA
*
13559363 TTTTTATAATTTATATTA
1 TTATTATAATTTATATTA
*
13559381 TTATTATTA-TTATTATTA
1 TTATTATAATTTA-TATTA
*
13559399 TTATTATTA-TTATTATTA
1 TTATTATAATTTA-TATTA
13559417 TTATTAT
1 TTATTAT
13559424 TCATTTAATG
Statistics
Matches: 98, Mismatches: 9, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
16 9 0.09
17 29 0.30
18 42 0.43
19 12 0.12
20 6 0.06
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.67
Consensus pattern (18 bp):
TTATTATAATTTATATTA
Found at i:13560618 original size:22 final size:21
Alignment explanation
Indices: 13560593--13560633 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
13560583 ATTAGGATGT
13560593 TTAAAAAATTAAATCCCTAAAA
1 TTAAAAAATTAAA-CCCTAAAA
* *
13560615 TTAAAGACTTAAACCCTAA
1 TTAAAAAATTAAACCCTAA
13560634 TTTAGAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.54, C:0.17, G:0.02, T:0.27
Consensus pattern (21 bp):
TTAAAAAATTAAACCCTAAAA
Found at i:13563874 original size:13 final size:13
Alignment explanation
Indices: 13563856--13563883 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
13563846 GAGAACCACT
13563856 GGTTATTTTAATA
1 GGTTATTTTAATA
13563869 GGTTATTTTAATA
1 GGTTATTTTAATA
13563882 GG
1 GG
13563884 CTAACACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (13 bp):
GGTTATTTTAATA
Found at i:13570181 original size:2 final size:2
Alignment explanation
Indices: 13570174--13570204 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13570164 GGCAGTACAT
13570174 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
13570205 CACTTGCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:13571096 original size:19 final size:19
Alignment explanation
Indices: 13571072--13571109 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13571062 CTTGAGCTAC
13571072 CTATCAGTTACAGCTATGT
1 CTATCAGTTACAGCTATGT
13571091 CTATCAGTTACAGCTATGT
1 CTATCAGTTACAGCTATGT
13571110 TAATTTAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (19 bp):
CTATCAGTTACAGCTATGT
Found at i:13575532 original size:21 final size:20
Alignment explanation
Indices: 13575494--13575533 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
13575484 TAATAATAAA
* *
13575494 ATTTTATTTTTTACATTAAT
1 ATTTTATTTTTAAAATTAAT
13575514 ATTTTAATTTTTAAAATTAA
1 ATTTT-ATTTTTAAAATTAA
13575534 AATTAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTATTTTTAAAATTAAT
Found at i:13575797 original size:3 final size:3
Alignment explanation
Indices: 13575789--13575815 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13575779 TTAATAAATA
13575789 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
13575816 TGCGAATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13575921 original size:91 final size:91
Alignment explanation
Indices: 13575811--13575993 Score: 260
Period size: 91 Copynumber: 2.0 Consensus size: 91
13575801 AATAATAATA
* *
13575811 ATAATTGCGAATGCAATTGAT-CTTATGGCATACAATGACACACGTGAAAGTGACAGCATGCAGA
1 ATAATAGCCAATGCAATTGATCCTT-TGGCATACAATGACACACGTGAAAGTGACAGCATGCAGA
*
13575875 TTTTTCTATCCACAAACAAGGTTGATG
65 TTTTTCTATCCACAAACAAGGGTGATG
* * * **
13575902 ATAATAGCCAATGCGATTGATCCTTTTGTATACAATGACACGTGTGAAAGTGACAGCATGCAGAT
1 ATAATAGCCAATGCAATTGATCCTTTGGCATACAATGACACACGTGAAAGTGACAGCATGCAGAT
* *
13575967 TTTTCTTTCCACAATCAAGGGTGATG
66 TTTTCTATCCACAAACAAGGGTGATG
13575993 A
1 A
13575994 ATTGAAACGA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
91 78 0.96
92 3 0.04
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (91 bp):
ATAATAGCCAATGCAATTGATCCTTTGGCATACAATGACACACGTGAAAGTGACAGCATGCAGAT
TTTTCTATCCACAAACAAGGGTGATG
Found at i:13577573 original size:8 final size:8
Alignment explanation
Indices: 13577560--13577645 Score: 91
Period size: 8 Copynumber: 10.8 Consensus size: 8
13577550 TTAAATGATA
13577560 GTTTTAAG
1 GTTTTAAG
13577568 GTTTTAAG
1 GTTTTAAG
* *
13577576 ATTTCAAG
1 GTTTTAAG
*
13577584 ATTTTAAG
1 GTTTTAAG
13577592 GTTTTAAG
1 GTTTTAAG
*
13577600 GTTTCAAG
1 GTTTTAAG
**
13577608 GTTTTGGG
1 GTTTTAAG
13577616 GTTTTAAG
1 GTTTTAAG
**
13577624 GTTACAAG
1 GTTTTAAG
*
13577632 GTTTTAGG
1 GTTTTAAG
13577640 GTTTTA
1 GTTTTA
13577646 CATGGTTTTT
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 63 1.00
ACGTcount: A:0.24, C:0.03, G:0.26, T:0.47
Consensus pattern (8 bp):
GTTTTAAG
Found at i:13577592 original size:24 final size:24
Alignment explanation
Indices: 13577560--13577645 Score: 118
Period size: 24 Copynumber: 3.6 Consensus size: 24
13577550 TTAAATGATA
*
13577560 GTTTTAAGGTTTTAAGATTTCAAG
1 GTTTTAAGGTTTTAAGGTTTCAAG
*
13577584 ATTTTAAGGTTTTAAGGTTTCAAG
1 GTTTTAAGGTTTTAAGGTTTCAAG
** *
13577608 GTTTTGGGGTTTTAAGGTTACAAG
1 GTTTTAAGGTTTTAAGGTTTCAAG
*
13577632 GTTTTAGGGTTTTA
1 GTTTTAAGGTTTTA
13577646 CATGGTTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.24, C:0.03, G:0.26, T:0.47
Consensus pattern (24 bp):
GTTTTAAGGTTTTAAGGTTTCAAG
Found at i:13577907 original size:3 final size:3
Alignment explanation
Indices: 13577894--13577963 Score: 131
Period size: 3 Copynumber: 23.3 Consensus size: 3
13577884 AGAGAGAAAC
*
13577894 TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13577942 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
13577964 TATTTTGTGA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13580412 original size:20 final size:18
Alignment explanation
Indices: 13580389--13580502 Score: 71
Period size: 17 Copynumber: 6.4 Consensus size: 18
13580379 GTATTTTCTC
13580389 TTTGTTTTTGGATTTTTTGT
1 TTTGTTTTT-GA-TTTTTGT
13580409 TTTGATTTCTTGATTTTTGT
1 TTTG-TTT-TTGATTTTTGT
*
13580429 TTT-TTTTT-AATTTT-T
1 TTTGTTTTTGATTTTTGT
13580444 TTTG-TTTTGAATTTTT-T
1 TTTGTTTTTG-ATTTTTGT
* * * *
13580461 TTGGATTTT-CTTTTTTT
1 TTTGTTTTTGATTTTTGT
* *
13580478 TTTGTTTTTGTTTTTTAT
1 TTTGTTTTTGATTTTTGT
13580496 TTT-TTTT
1 TTTGTTTT
13580503 AGGCTTTGCA
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
15 8 0.10
16 10 0.13
17 23 0.29
18 16 0.21
20 14 0.18
21 5 0.06
22 2 0.03
ACGTcount: A:0.08, C:0.02, G:0.11, T:0.79
Consensus pattern (18 bp):
TTTGTTTTTGATTTTTGT
Found at i:13580451 original size:16 final size:16
Alignment explanation
Indices: 13580421--13580486 Score: 62
Period size: 16 Copynumber: 3.9 Consensus size: 16
13580411 TGATTTCTTG
*
13580421 ATTTTTGTTTTTTTTTA
1 ATTTTT-TTTGTTTTTA
*
13580438 ATTTTTTTTGTTTTGA
1 ATTTTTTTTGTTTTTA
13580454 ATTTTTTTTGGATTTTCT-
1 ATTTTTTTT-G-TTTT-TA
*
13580472 TTTTTTTTTGTTTTT
1 ATTTTTTTTGTTTTT
13580487 GTTTTTTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
15 1 0.02
16 21 0.50
17 8 0.19
18 12 0.29
ACGTcount: A:0.09, C:0.02, G:0.09, T:0.80
Consensus pattern (16 bp):
ATTTTTTTTGTTTTTA
Found at i:13580599 original size:46 final size:46
Alignment explanation
Indices: 13580535--13580623 Score: 126
Period size: 46 Copynumber: 1.9 Consensus size: 46
13580525 CTCGATAATT
* *
13580535 TTTTTGAAAATAAGTTTAAAAACTCATTTGGGTAAAAG-CTCAACAA
1 TTTTTGAAAATAAATTTAAAAACTCATTTAGG-AAAAGACTCAACAA
* *
13580581 TTTTTGAAAGTAAATTTAAAAACTCCTTTAGGAAAAGACTCAA
1 TTTTTGAAAATAAATTTAAAAACTCATTTAGGAAAAGACTCAA
13580624 TTTAAAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 5 0.13
46 33 0.87
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (46 bp):
TTTTTGAAAATAAATTTAAAAACTCATTTAGGAAAAGACTCAACAA
Found at i:13580626 original size:29 final size:29
Alignment explanation
Indices: 13580593--13580652 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
13580583 TTTGAAAGTA
13580593 AATTTAAAAACTCCTTTAGGAAAAGACTC
1 AATTTAAAAACTCCTTTAGGAAAAGACTC
* *
13580622 AATTTAAAAATTTCTTTAGGAAAAGACTC
1 AATTTAAAAACTCCTTTAGGAAAAGACTC
13580651 AA
1 AA
13580653 CAACTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (29 bp):
AATTTAAAAACTCCTTTAGGAAAAGACTC
Found at i:13580714 original size:45 final size:46
Alignment explanation
Indices: 13580643--13580944 Score: 203
Period size: 46 Copynumber: 6.7 Consensus size: 46
13580633 TTCTTTAGGA
* * * *
13580643 AAAGACTCAACAAC-TTTAAAAGATAAA-TGAAAAGTTTTTTTAGAT
1 AAAGACTCAACAACTTTTGAAA-ATAAATTTAAAAGCTCTTTTAGAT
* * *
13580688 AAAGGCTCGACAACTTTTGAAAATAAATTTAAAAGCTCTTTTAGGT
1 AAAGACTCAACAACTTTTGAAAATAAATTTAAAAGCTCTTTTAGAT
* * * *
13580734 AAATG-TTTAACAACTTTAGAAAATAAATTTAAAAGCTCGTTTAGAT
1 AAA-GACTCAACAACTTTTGAAAATAAATTTAAAAGCTCTTTTAGAT
* * * *
13580780 AAAAACTCAATAACTTTTGAAAATTAA---AAAA-CTCATTTAGGA-
1 AAAGACTCAACAACTTTTGAAAATAAATTTAAAAGCTCTTTTA-GAT
** * *
13580822 AAAGGTTCAACAACTTCTGAAAATAAATTTAAAAGCT-TATTTAGAA
1 AAAGACTCAACAACTTTTGAAAATAAATTTAAAAGCTCT-TTTAGAT
* * * * * * * *
13580868 AAAAAGCTTAATAAC-TTTAAAGAATAGATTTAAAAGCTCATTTAAAA
1 AAAGA-CTCAACAACTTTTGAA-AATAAATTTAAAAGCTCTTTTAGAT
**
13580915 AAAGGTTCAACAA-TTTTAGAAAATAAATTT
1 AAAGACTCAACAACTTTT-GAAAATAAATTT
13580945 CATCTAAGAA
Statistics
Matches: 197, Mismatches: 44, Indels: 31
0.72 0.16 0.11
Matches are distributed among these distances:
42 28 0.14
43 6 0.03
45 23 0.12
46 107 0.54
47 33 0.17
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.31
Consensus pattern (46 bp):
AAAGACTCAACAACTTTTGAAAATAAATTTAAAAGCTCTTTTAGAT
Found at i:13580747 original size:46 final size:46
Alignment explanation
Indices: 13580697--13580944 Score: 208
Period size: 46 Copynumber: 5.5 Consensus size: 46
13580687 TAAAGGCTCG
* * *
13580697 ACAACTTTTGAAAATAAATTTAAAAGCTCTTTTAGGTAAATGTTTA
1 ACAACTTTTGAAAATAAATTTAAAAGCTCATTTAGGTAAAAGTTCA
* * * **
13580743 ACAACTTTAGAAAATAAATTTAAAAGCTCGTTTAGATAAAAACTCA
1 ACAACTTTTGAAAATAAATTTAAAAGCTCATTTAGGTAAAAGTTCA
* *
13580789 ATAACTTTTGAAAATTAA---AAAA-CTCATTTAGG-AAAAGGTTCA
1 ACAACTTTTGAAAATAAATTTAAAAGCTCATTTAGGTAAAA-GTTCA
* * **
13580831 ACAACTTCTGAAAATAAATTTAAAAGCTTATTTAGAAAAAAAGCTT-A
1 ACAACTTTTGAAAATAAATTTAAAAGCTCATTTAG-GTAAAAG-TTCA
* * * **
13580878 ATAAC-TTTAAAGAATAGATTTAAAAGCTCATTTA-AAAAAAGGTTCA
1 ACAACTTTTGAA-AATAAATTTAAAAGCTCATTTAGGTAAAA-GTTCA
13580924 ACAA-TTTTAGAAAATAAATTT
1 ACAACTTTT-GAAAATAAATTT
13580945 CATCTAAGAA
Statistics
Matches: 162, Mismatches: 27, Indels: 26
0.75 0.13 0.12
Matches are distributed among these distances:
41 4 0.02
42 26 0.16
43 4 0.02
45 12 0.07
46 82 0.51
47 28 0.17
48 6 0.04
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (46 bp):
ACAACTTTTGAAAATAAATTTAAAAGCTCATTTAGGTAAAAGTTCA
Found at i:13581159 original size:33 final size:33
Alignment explanation
Indices: 13581113--13581176 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
13581103 TCAGTACCAA
*
13581113 CTAAACCATGCTTAAACCTCATCTT-GGTGCTTG
1 CTAAACCAAGCTTAAACCTCAT-TTGGGTGCTTG
* *
13581146 CTAAACTAAGCTTAAATCTCATTTGGGTGCT
1 CTAAACCAAGCTTAAACCTCATTTGGGTGCT
13581177 AGTTAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 25 0.93
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (33 bp):
CTAAACCAAGCTTAAACCTCATTTGGGTGCTTG
Found at i:13583022 original size:14 final size:14
Alignment explanation
Indices: 13583003--13583029 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13582993 TTTGCTAATA
13583003 AAAAAATAAAAAAC
1 AAAAAATAAAAAAC
13583017 AAAAAATAAAAAA
1 AAAAAATAAAAAA
13583030 ATAGGTAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.04, G:0.00, T:0.07
Consensus pattern (14 bp):
AAAAAATAAAAAAC
Found at i:13583730 original size:135 final size:135
Alignment explanation
Indices: 13583511--13583787 Score: 484
Period size: 135 Copynumber: 2.1 Consensus size: 135
13583501 AAATTTAAAA
* *
13583511 AATAAAAATTTAGGAATTAAATACTAATTACCTTGAGATTTTTAGAAATTTTAAATAGTAAATTC
1 AATAAAAATTTAGGAATTAAATACTAATTACCTTGAGATTATTAGAAATTTCAAATAGTAAATTC
13583576 TTAAGAAATCTTTAGGTGAGAAATTTCTCTAAATTTATCTCAAATTGTGAAATAATTTAGATGAA
66 TTAAGAAATCTTTAGGTGAGAAATTTCTCTAAATTTATCTCAAATTGTGAAATAATTTAGATGAA
13583641 ATTTC
131 ATTTC
13583646 AATAAAAATTT-GGAAATTAAATACTAATTACCTTGAGATTATTAGAAATTTCAAATAGTAAATT
1 AATAAAAATTTAGG-AATTAAATACTAATTACCTTGAGATTATTAGAAATTTCAAATAGTAAATT
* * *
13583710 CTTAAGAAATCTTTATGTGAGAAATTTCTCTAAATTTGTCTCAAATTGTGGAATAATTTAGATGA
65 CTTAAGAAATCTTTAGGTGAGAAATTTCTCTAAATTTATCTCAAATTGTGAAATAATTTAGATGA
*
13583775 AATTTT
130 AATTTC
13583781 AATAAAA
1 AATAAAA
13583788 GTAATTGTAT
Statistics
Matches: 135, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
134 2 0.01
135 133 0.99
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (135 bp):
AATAAAAATTTAGGAATTAAATACTAATTACCTTGAGATTATTAGAAATTTCAAATAGTAAATTC
TTAAGAAATCTTTAGGTGAGAAATTTCTCTAAATTTATCTCAAATTGTGAAATAATTTAGATGAA
ATTTC
Found at i:13584105 original size:4 final size:4
Alignment explanation
Indices: 13584096--13584127 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
13584086 TTTAAAAATC
13584096 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
13584128 ATTTTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:13585043 original size:8 final size:7
Alignment explanation
Indices: 13585030--13585122 Score: 55
Period size: 8 Copynumber: 12.3 Consensus size: 7
13585020 TCTTTCCATC
13585030 TTTTCTT
1 TTTTCTT
13585037 TTGTTCTT
1 TT-TTCTT
13585045 TTTT-TT
1 TTTTCTT
13585051 TTTTCATT
1 TTTTC-TT
*
13585059 TTCTCTTT
1 TTTTC-TT
13585067 TTTTCTT
1 TTTTCTT
13585074 TCTTTCATT
1 T-TTTC-TT
*
13585083 TTTTTTAT
1 TTTTCT-T
13585091 CTTTTCATT
1 -TTTTC-TT
*
13585100 TTTTCACT
1 TTTTC-TT
*
13585108 TTGTC-T
1 TTTTCTT
13585114 TTTTCTT
1 TTTTCTT
13585121 TT
1 TT
13585123 CTTTGAGTGG
Statistics
Matches: 69, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
6 11 0.16
7 11 0.16
8 38 0.55
9 8 0.12
10 1 0.01
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.77
Consensus pattern (7 bp):
TTTTCTT
Found at i:13585054 original size:21 final size:21
Alignment explanation
Indices: 13585030--13585122 Score: 59
Period size: 21 Copynumber: 4.4 Consensus size: 21
13585020 TCTTTCCATC
13585030 TTTTCTTTTGTTCT-TTTTTTT
1 TTTTCTTTT-TTCTCTTTTTTT
*
13585051 TTTTC-ATTTTCTCTTTTTTT
1 TTTTCTTTTTTCTCTTTTTTT
* * *
13585071 CTTTCTTTCATTT-T-TTTTATC
1 TTTTCTTT--TTTCTCTTTTTTT
* * *
13585092 TTTTCATTTTTTCACTTTGTCT
1 TTTTC-TTTTTTCTCTTTTTTT
13585114 TTTTCTTTT
1 TTTTCTTTT
13585123 CTTTGAGTGG
Statistics
Matches: 54, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
19 4 0.07
20 16 0.30
21 19 0.35
22 12 0.22
23 3 0.06
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTCTTTTTTCTCTTTTTTT
Found at i:13589606 original size:15 final size:16
Alignment explanation
Indices: 13589586--13589623 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13589576 AAGGGTAAAA
*
13589586 TCTTTTTTA-ACTTTT
1 TCTTTTTCACACTTTT
13589601 TCTTTTTCACACTTTT
1 TCTTTTTCACACTTTT
*
13589617 GCTTTTT
1 TCTTTTT
13589624 ATTTGGCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.11, C:0.18, G:0.03, T:0.68
Consensus pattern (16 bp):
TCTTTTTCACACTTTT
Found at i:13591517 original size:8 final size:8
Alignment explanation
Indices: 13591481--13591524 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
13591471 AAAGGATGGG
13591481 TTTAGGGT
1 TTTAGGGT
*
13591489 TTTAAGGT
1 TTTAGGGT
13591497 TTT-GAGGT
1 TTTAG-GGT
13591505 TTTAGGGT
1 TTTAGGGT
*
13591513 TTTAGAGT
1 TTTAGGGT
13591521 TTTA
1 TTTA
13591525 CACGATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
8 30 0.97
9 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (8 bp):
TTTAGGGT
Found at i:13592679 original size:20 final size:21
Alignment explanation
Indices: 13592643--13592694 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
13592633 ACCCAAATTA
13592643 ATAAAATATTATTTTTTGAAAT
1 ATAAAATATTA-TTTTTGAAAT
*
13592665 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTGAAAT
13592686 AT-AAATATT
1 ATAAAATATT
13592695 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTGAAAT
Found at i:13592685 original size:21 final size:22
Alignment explanation
Indices: 13592643--13592694 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
13592633 ACCCAAATTA
13592643 ATAAAATATTATTTTTTGAAAT
1 ATAAAATATTATTTTTTGAAAT
13592665 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTGAAAT
13592686 AT-AAATATT
1 ATAAAATATT
13592695 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTGAAAT
Found at i:13603677 original size:3 final size:3
Alignment explanation
Indices: 13603669--13603710 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
13603659 GCAATTGGCT
**
13603669 TAA TAA TAA TAA TAA CGA TAA TAA TAA TAA TAA T-A TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
13603711 TATTATTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13604092 original size:2 final size:2
Alignment explanation
Indices: 13604085--13604118 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13604075 TAATAGATAG
13604085 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13604119 TGAAAATTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13604517 original size:2 final size:2
Alignment explanation
Indices: 13604512--13604547 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
13604502 AAAAGAAAGT
* *
13604512 TA TA TA TA TA CA TA CA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13604548 GAGAGAGAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:13605634 original size:19 final size:21
Alignment explanation
Indices: 13605588--13605634 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 21
13605578 ATAGATTTTA
13605588 TTAATATTTTAGTTAGATAAAT
1 TTAAT-TTTTAGTTAGATAAAT
13605610 TT-ATTTTTA-TTA-ATAAAT
1 TTAATTTTTAGTTAGATAAAT
13605628 TTAATTT
1 TTAATTT
13605635 CAATTGTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 8 0.33
19 7 0.29
20 5 0.21
21 2 0.08
22 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (21 bp):
TTAATTTTTAGTTAGATAAAT
Found at i:13605908 original size:6 final size:6
Alignment explanation
Indices: 13605897--13605921 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13605887 TCGGATCCAA
13605897 AAAATT AAAATT AAAATT AAAATT A
1 AAAATT AAAATT AAAATT AAAATT A
13605922 TTTCGAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:13607615 original size:41 final size:38
Alignment explanation
Indices: 13607570--13607650 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
13607560 CAATTTGAAT
* *
13607570 TCGAAATAATAAAAAAAAAAATTAACAATTTGAACTTAAGA
1 TCGAAATAAT--AAAAAAAAA-CAACAATTTGAACCTAAGA
13607611 TCGAAATAATAAAAAAAAACAACAATTTGAACCTAAGA
1 TCGAAATAATAAAAAAAAACAACAATTTGAACCTAAGA
13607649 TC
1 TC
13607651 AATTTAATCT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 19 0.50
39 9 0.24
41 10 0.26
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (38 bp):
TCGAAATAATAAAAAAAAACAACAATTTGAACCTAAGA
Found at i:13610351 original size:19 final size:20
Alignment explanation
Indices: 13610315--13610352 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13610305 TTACTAAAAC
*
13610315 TATTTTTATATATCAAATAG
1 TATTTTTATAAATCAAATAG
*
13610335 TATTTTTGTAAAT-AAATA
1 TATTTTTATAAATCAAATA
13610353 TTTTCAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
TATTTTTATAAATCAAATAG
Found at i:13612684 original size:40 final size:41
Alignment explanation
Indices: 13612609--13612688 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 41
13612599 TCAATGATCC
13612609 TTTGAGTCCTAGTGTCTGATAATAAATCTTAGATACTCACT
1 TTTGAGTCCTAGTGTCTGATAATAAATCTTAGATACTCACT
* *
13612650 TTTGAGTCCTAGTGT-TGGTCATAAATCTTAGATACTCAC
1 TTTGAGTCCTAGTGTCTGATAATAAATCTTAGATACTCAC
13612689 GATCACTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
40 22 0.59
41 15 0.41
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (41 bp):
TTTGAGTCCTAGTGTCTGATAATAAATCTTAGATACTCACT
Found at i:13617273 original size:23 final size:22
Alignment explanation
Indices: 13617247--13617297 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
13617237 TATTATTAAT
** *
13617247 AAAAATCATTTTTTATTTTTCTC
1 AAAAATCAGATTTTATTTTT-TA
*
13617270 AAAAATTAGATTTTATTTTTTA
1 AAAAATCAGATTTTATTTTTTA
13617292 AAAAAT
1 AAAAAT
13617298 AAATATTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (22 bp):
AAAAATCAGATTTTATTTTTTA
Found at i:13617305 original size:23 final size:23
Alignment explanation
Indices: 13617257--13617299 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
13617247 AAAAATCATT
* *
13617257 TTTTATTTTTCTCAAAAATTAGA
1 TTTTATTTTTCTAAAAAATAAGA
13617280 TTTTATTTTT-TAAAAAATAA
1 TTTTATTTTTCTAAAAAATAA
13617300 ATATTTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (23 bp):
TTTTATTTTTCTAAAAAATAAGA
Found at i:13617915 original size:16 final size:16
Alignment explanation
Indices: 13617906--13617938 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
13617896 AAAATATGAA
13617906 ATTGAAAAAATAAAAT
1 ATTGAAAAAATAAAAT
13617922 ATTGAAAAAAATAAAAT
1 ATTG-AAAAAATAAAAT
13617939 TTATATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (16 bp):
ATTGAAAAAATAAAAT
Found at i:13617939 original size:31 final size:31
Alignment explanation
Indices: 13617870--13617939 Score: 72
Period size: 31 Copynumber: 2.2 Consensus size: 31
13617860 ATAAAAATGT
* *
13617870 TAAAATTTGAAAAAATACAAAACTTCAAAATA
1 TAAAA-TTGAAAAAATACAAAACTTAAAAAAA
*
13617902 TGAAATTGAAAAAATA-AAATA-TTGAAAAAAA
1 TAAAATTGAAAAAATACAAA-ACTT-AAAAAAA
13617933 TAAAATT
1 TAAAATT
13617940 TATATTATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
30 5 0.16
31 23 0.72
32 4 0.12
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (31 bp):
TAAAATTGAAAAAATACAAAACTTAAAAAAA
Found at i:13619632 original size:23 final size:23
Alignment explanation
Indices: 13619601--13619648 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
13619591 TAATTAAGAT
* *
13619601 TTAAGCATTCTCTCTATTGTAGC
1 TTAAACATTCTCTCCATTGTAGC
13619624 TTAAACATTCTCTCCATTGTAGC
1 TTAAACATTCTCTCCATTGTAGC
13619647 TT
1 TT
13619649 CCCCAACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (23 bp):
TTAAACATTCTCTCCATTGTAGC
Found at i:13621145 original size:2 final size:2
Alignment explanation
Indices: 13621138--13621164 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13621128 AAAGTAATGA
13621138 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
13621165 AAAAAGAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13633223 original size:59 final size:59
Alignment explanation
Indices: 13633151--13633268 Score: 209
Period size: 59 Copynumber: 2.0 Consensus size: 59
13633141 TTCTCACTTT
* *
13633151 TTAAAGTTTAGCTTTCTCACAACTTCTTGTAATCCCTATCTCGCAATTCAGAACTAATC
1 TTAAAGTTTAGCTTTCTCACAACTTCTAGTAACCCCTATCTCGCAATTCAGAACTAATC
*
13633210 TTAAAGTTTAGCTTTCTCACAACTTCTAGTAACCCCTATCTCGTAATTCAGAACTAATC
1 TTAAAGTTTAGCTTTCTCACAACTTCTAGTAACCCCTATCTCGCAATTCAGAACTAATC
13633269 CAATAAATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.36
Consensus pattern (59 bp):
TTAAAGTTTAGCTTTCTCACAACTTCTAGTAACCCCTATCTCGCAATTCAGAACTAATC
Found at i:13634836 original size:12 final size:12
Alignment explanation
Indices: 13634819--13634844 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13634809 ATATAATAAA
13634819 TTCTCTCTCTCT
1 TTCTCTCTCTCT
13634831 TTCTCTCTCTCT
1 TTCTCTCTCTCT
13634843 TT
1 TT
13634845 ATATATAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (12 bp):
TTCTCTCTCTCT
Found at i:13635991 original size:30 final size:29
Alignment explanation
Indices: 13635925--13635992 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
13635915 ATAACTTTAT
* * *
13635925 TTAAATAAATCTTTATATTTTTATTACAT
1 TTAAATAAATATTTATATTTTAATTACAC
*
13635954 TTGAATAAATATTTA-ATCTTTAATTTACAC
1 TTAAATAAATATTTATAT-TTTAA-TTACAC
13635984 TTAAATAAA
1 TTAAATAAA
13635993 CACATTTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 2 0.06
29 17 0.53
30 13 0.41
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.49
Consensus pattern (29 bp):
TTAAATAAATATTTATATTTTAATTACAC
Found at i:13639432 original size:24 final size:25
Alignment explanation
Indices: 13639382--13639432 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
13639372 TAAAATTCCT
*
13639382 TATTTTTTTAGTATTTCTAAATGTA
1 TATTTTTTTAGTATTTATAAATGTA
13639407 TATTTTTTTAG-ATCTTATAAAT-TA
1 TATTTTTTTAGTAT-TTATAAATGTA
13639431 TA
1 TA
13639433 AGCTATTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (25 bp):
TATTTTTTTAGTATTTATAAATGTA
Found at i:13641958 original size:19 final size:19
Alignment explanation
Indices: 13641934--13641972 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
13641924 TTTTTTTAAA
13641934 TTTTAACT-CATATAACTAC
1 TTTTAACTAC-TATAACTAC
13641953 TTTTAACTACTATAACTAC
1 TTTTAACTACTATAACTAC
13641972 T
1 T
13641973 ATGTATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (19 bp):
TTTTAACTACTATAACTAC
Found at i:13645790 original size:37 final size:37
Alignment explanation
Indices: 13645735--13645812 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 37
13645725 TAAAATACTT
*
13645735 ATTTATTTTATTTTATTCATATATAATTTTAATTAAA
1 ATTTATTTTATTTAATTCATATATAATTTTAATTAAA
* *
13645772 ATTTATTTTATTTAATTCATGTATAATTTTTATTAAA
1 ATTTATTTTATTTAATTCATATATAATTTTAATTAAA
13645809 ATTT
1 ATTT
13645813 TAAATTGCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (37 bp):
ATTTATTTTATTTAATTCATATATAATTTTAATTAAA
Found at i:13645800 original size:21 final size:20
Alignment explanation
Indices: 13645739--13645801 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
13645729 ATACTTATTT
*
13645739 ATTTTATTTTATTCATATATA
1 ATTTTATTTAATTCAT-TATA
* *
13645760 ATTTTAATTAA--AATT-T-
1 ATTTTATTTAATTCATTATA
13645776 ATTTTATTTAATTCATGTATA
1 ATTTTATTTAATTCAT-TATA
13645797 ATTTT
1 ATTTT
13645802 TATTAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 10
0.68 0.11 0.21
Matches are distributed among these distances:
16 10 0.31
17 1 0.03
18 3 0.09
19 3 0.09
20 1 0.03
21 14 0.44
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTTTATTTAATTCATTATA
Found at i:13649240 original size:16 final size:15
Alignment explanation
Indices: 13649206--13649244 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
13649196 TTTGACTTTT
13649206 TAAATAAAATAAAAG
1 TAAATAAAATAAAAG
13649221 TAAATCAAAATAATAA-
1 TAAAT-AAAATAA-AAG
13649237 TAAATAAA
1 TAAATAAA
13649245 TCAAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 8 0.36
16 12 0.55
17 2 0.09
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (15 bp):
TAAATAAAATAAAAG
Found at i:13649246 original size:20 final size:21
Alignment explanation
Indices: 13649207--13649261 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 21
13649197 TTGACTTTTT
13649207 AAATAAAATAAAAGTAAATCA
1 AAATAAAATAAAAGTAAATCA
13649228 AAATAATAAT-AAA-TAAATCA
1 AAATAA-AATAAAAGTAAATCA
*
13649248 AATTAAAATTAAAA
1 AAATAAAA-TAAAA
13649262 ATTTTCTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.07
20 13 0.43
21 12 0.40
22 3 0.10
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.24
Consensus pattern (21 bp):
AAATAAAATAAAAGTAAATCA
Found at i:13653082 original size:32 final size:32
Alignment explanation
Indices: 13653046--13653122 Score: 84
Period size: 32 Copynumber: 2.3 Consensus size: 32
13653036 ACTTTTAACA
* ** *
13653046 TTTTCTAAAATTTATTTTTGAAAAGTA-ATAAT
1 TTTTC-AAAATTCATTTTCAAAAAATATATAAT
13653078 TTTTCAAAAATTCATTTTCAAAAAATATTATAAT
1 TTTTC-AAAATTCATTTTCAAAAAATA-TATAAT
13653112 TTTTCAAAATT
1 TTTTCAAAATT
13653123 AAAAAGATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
32 22 0.58
33 6 0.16
34 10 0.26
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (32 bp):
TTTTCAAAATTCATTTTCAAAAAATATATAAT
Found at i:13653770 original size:2 final size:2
Alignment explanation
Indices: 13653763--13653809 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
13653753 GTTCATAACT
13653763 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
13653805 TC TC T
1 TC TC T
13653810 TTTATGCTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:13657668 original size:265 final size:265
Alignment explanation
Indices: 13657191--13657717 Score: 867
Period size: 265 Copynumber: 2.0 Consensus size: 265
13657181 TTAGTTTATA
* * * * * *
13657191 AAGTTTTATAATATTGAAATATCAAAGCACATAAGGTTGTTTACTATTACCATGTTGATAAGGTA
1 AAGTTTTATAATACTGAAATATAAAAACACATAAAGTTGTTTACCACTACCATGTTGATAAGGTA
* * *
13657256 TGAGGTTTTTGTGAGCACATTTTGAAAATAACTAATTATTTCAACAAGCTTAAGGGGTTGAATGT
66 CGAGGTTTTTGTGAGCACATTTTGAAAATAACTAACTATTTCAACAAGCATAAGGGGTTGAATGT
* *
13657321 TGAAATAATGGACCAGTTCCCTCTAAGGCAAACTTTAAAATTGTTTCCTTTTAGGAATAAAGATA
131 TGAAATAATGGACCAGTTCCCTCTAAGACAAACTTCAAAATTGTTTCCTTTTAGGAATAAAGATA
* * *
13657386 TGGATTCTATTATAATGCACAGAAGGGAACATGTGGTTTAAATATTATGAATGCTATTATAATTT
196 TGGATTCCATCATAATGCACAAAAGGGAACATGTGGTTTAAATATTATGAATGCTATTATAATTT
13657451 AAAAG
261 AAAAG
*
13657456 AAGTTTTATAATACTGAAATATAAAAACACATAAAGTTGTTTACCACTACTATGTTGATAAGGTA
1 AAGTTTTATAATACTGAAATATAAAAACACATAAAGTTGTTTACCACTACCATGTTGATAAGGTA
13657521 CGAGGTTTTTGTGAGCACATTTTGAAAATAACTAACTATTTCAACAAGCATAAGGGGTTGAATGT
66 CGAGGTTTTTGTGAGCACATTTTGAAAATAACTAACTATTTCAACAAGCATAAGGGGTTGAATGT
** *
13657586 TGAAATAATGGACTGGTTCCC-CTTAAGACAAACTTCATAATTGTTTCCTTTTAGGAATAAAGAT
131 TGAAATAATGGACCAGTTCCCTC-TAAGACAAACTTCAAAATTGTTTCCTTTTAGGAATAAAGAT
*
13657650 ATGGATTCCATCATAATGCACAAAAGGGAACATGTGGTTTAAATATTATGAGTGCTATTATAATT
195 ATGGATTCCATCATAATGCACAAAAGGGAACATGTGGTTTAAATATTATGAATGCTATTATAATT
13657715 TAA
260 TAA
13657718 GAGAGAGAGA
Statistics
Matches: 242, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
264 1 0.00
265 241 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (265 bp):
AAGTTTTATAATACTGAAATATAAAAACACATAAAGTTGTTTACCACTACCATGTTGATAAGGTA
CGAGGTTTTTGTGAGCACATTTTGAAAATAACTAACTATTTCAACAAGCATAAGGGGTTGAATGT
TGAAATAATGGACCAGTTCCCTCTAAGACAAACTTCAAAATTGTTTCCTTTTAGGAATAAAGATA
TGGATTCCATCATAATGCACAAAAGGGAACATGTGGTTTAAATATTATGAATGCTATTATAATTT
AAAAG
Found at i:13658128 original size:41 final size:40
Alignment explanation
Indices: 13658047--13658171 Score: 155
Period size: 40 Copynumber: 3.1 Consensus size: 40
13658037 TTTTTTCATA
* * *
13658047 TTTTCAATAAAAATTGTATTTTTATTTTAGAAATGTTATC
1 TTTTCAATAAAAATTATGTTTTTATCTTAGAAATGTTATC
13658087 TTTTCAATAAAAATTATGTTTTCTATCTTAGAAATGTTATC
1 TTTTCAATAAAAATTATGTTTT-TATCTTAGAAATGTTATC
* * *
13658128 -TTTCAACAAAGATTATGTTTTTTATCTTTA-AAATGTCATC
1 TTTTCAATAAAAATTATG-TTTTTATC-TTAGAAATGTTATC
13658168 TTTT
1 TTTT
13658172 GTTGAATTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
40 48 0.64
41 27 0.36
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (40 bp):
TTTTCAATAAAAATTATGTTTTTATCTTAGAAATGTTATC
Found at i:13658304 original size:72 final size:75
Alignment explanation
Indices: 13658132--13658305 Score: 205
Period size: 71 Copynumber: 2.4 Consensus size: 75
13658122 GTTATCTTTC
* * * *
13658132 AACAAAGATTATGTTTTTTATCTTTA-AAATGTCATCTTTTGTTGAATTTTAAAAAATATATTTT
1 AACAAAGATTATGTTTTCTATC-TTAGAAATATCATCTTTTATTGAATTATAAAAAATATATTTT
13658196 TTCATATTATT
65 TTCATATTATT
* * ** *
13658207 AACAAAGA-TACGTTTTCTATTTTAGAAATATTGTC-TTTATTGAATTAT-AAAAAT-TTTTTTT
1 AACAAAGATTATGTTTTCTATCTTAGAAATATCATCTTTTATTGAATTATAAAAAATATATTTTT
*
13658268 TCATATTTTT
66 TCATATTATT
*
13658278 AACAAAGATTGTGTTTTCTATCTTAGAA
1 AACAAAGATTATGTTTTCTATCTTAGAA
13658306 GCATTATTAG
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
71 23 0.27
72 22 0.26
73 14 0.17
74 17 0.20
75 8 0.10
ACGTcount: A:0.34, C:0.07, G:0.08, T:0.50
Consensus pattern (75 bp):
AACAAAGATTATGTTTTCTATCTTAGAAATATCATCTTTTATTGAATTATAAAAAATATATTTTT
TCATATTATT
Found at i:13659614 original size:3 final size:3
Alignment explanation
Indices: 13659608--13659639 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
13659598 ATTTAATTAC
13659608 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
13659640 ATTTAACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:13666369 original size:18 final size:19
Alignment explanation
Indices: 13666334--13666374 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
13666324 AATTTTTGAA
13666334 AATTAATAAAGATAATTTT
1 AATTAATAAAGATAATTTT
*
13666353 AATTAA-AAAGAATATTTTT
1 AATTAATAAAG-ATAATTTT
13666372 AAT
1 AAT
13666375 AATTAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
AATTAATAAAGATAATTTT
Found at i:13679370 original size:13 final size:13
Alignment explanation
Indices: 13679334--13679364 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
13679324 TAGAAATAAG
13679334 TAAATAAATAATT
1 TAAATAAATAATT
13679347 TAAATAAATAATT
1 TAAATAAATAATT
13679360 TAAAT
1 TAAAT
13679365 CGATAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAATAAATAATT
Found at i:13679501 original size:26 final size:24
Alignment explanation
Indices: 13679451--13679513 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 24
13679441 TATTTAATAA
** *
13679451 TAAAAATTTTATTAATATTTTTAT
1 TAAAAATTTTATTAATAAATATAT
13679475 TAAAAATATTTATTTAATAAATATAT
1 TAAAAAT-TTTA-TTAATAAATATAT
13679501 T-AAAA-TTTATTAA
1 TAAAAATTTTATTAA
13679514 AATTTTACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 4 0.12
23 4 0.12
24 7 0.21
25 8 0.24
26 11 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TAAAAATTTTATTAATAAATATAT
Found at i:13680287 original size:22 final size:22
Alignment explanation
Indices: 13680254--13680312 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 22
13680244 TTCAGTTTAC
13680254 AAAATTTTAAAATTTAA-AAGTTT
1 AAAA-TTTAAAATTTAATAA-TTT
13680277 AAAATTTAAAATTTAATAATTT
1 AAAATTTAAAATTTAATAATTT
*
13680299 AATATTTAAAATTT
1 AAAATTTAAAATTT
13680313 TATTGTATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 28 0.82
23 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
AAAATTTAAAATTTAATAATTT
Found at i:13680314 original size:8 final size:7
Alignment explanation
Indices: 13680254--13680312 Score: 82
Period size: 7 Copynumber: 8.0 Consensus size: 7
13680244 TTCAGTTTAC
13680254 AAAATTTT
1 AAAA-TTT
13680262 AAAATTT
1 AAAATTT
13680269 AAAAGTTT
1 AAAA-TTT
13680277 AAAATTT
1 AAAATTT
13680284 AAAATTT
1 AAAATTT
13680291 AATAATTT
1 AA-AATTT
*
13680299 AATATTT
1 AAAATTT
13680306 AAAATTT
1 AAAATTT
13680313 TATTGTATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
7 29 0.62
8 18 0.38
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (7 bp):
AAAATTT
Found at i:13680314 original size:15 final size:14
Alignment explanation
Indices: 13680254--13680312 Score: 82
Period size: 15 Copynumber: 4.0 Consensus size: 14
13680244 TTCAGTTTAC
13680254 AAAATTTTAAAATTT
1 AAAA-TTTAAAATTT
13680269 AAAAGTTTAAAATTT
1 AAAA-TTTAAAATTT
13680284 AAAATTTAATAATTT
1 AAAATTTAA-AATTT
*
13680299 AATATTTAAAATTT
1 AAAATTTAAAATTT
13680313 TATTGTATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.24
15 31 0.76
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (14 bp):
AAAATTTAAAATTT
Found at i:13680362 original size:15 final size:15
Alignment explanation
Indices: 13680255--13680362 Score: 58
Period size: 15 Copynumber: 7.8 Consensus size: 15
13680245 TCAGTTTACA
*
13680255 AAATTTTAAAATTTA
1 AAATTTTAAAATTTT
*
13680270 AAAGTTTAAAA-TTT
1 AAATTTTAAAATTTT
*
13680284 AAAATTTAATAA-TTT
1 AAATTTTAA-AATTTT
13680299 -AATATTTAAAATTTT
1 AAAT-TTTAAAATTTT
* *
13680314 --ATTGTATAATTTT
1 AAATTTTAAAATTTT
*
13680327 -TA-TTT---ATTTT
1 AAATTTTAAAATTTT
*
13680337 AAA-TATAAAATTTT
1 AAATTTTAAAATTTT
13680351 AAATTTTAAAAT
1 AAATTTTAAAAT
13680363 ATAATTTAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 18
0.73 0.10 0.18
Matches are distributed among these distances:
10 5 0.07
11 3 0.04
13 11 0.15
14 25 0.34
15 30 0.41
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
AAATTTTAAAATTTT
Found at i:13680362 original size:22 final size:22
Alignment explanation
Indices: 13680254--13680366 Score: 70
Period size: 22 Copynumber: 5.1 Consensus size: 22
13680244 TTCAGTTTAC
* *
13680254 AAAATTTTAAAATTTAAAAGTTT
1 AAAATTTTAAATTTTAAAA-TAT
* *
13680277 AAAA-TTTAAAATTTAATAATTT
1 AAAATTTTAAATTTTAA-AATAT
* * ***
13680299 AATATTTAAAATTTTATTGTAT
1 AAAATTTTAAATTTTAAAATAT
* *
13680321 -AATTTTTATTTATTTT-AAATAT
1 AAAATTTTA--AATTTTAAAATAT
13680343 AAAATTTTAAATTTTAAAATAT
1 AAAATTTTAAATTTTAAAATAT
13680365 AA
1 AA
13680367 TTTAATTTAA
Statistics
Matches: 68, Mismatches: 16, Indels: 13
0.70 0.16 0.13
Matches are distributed among these distances:
21 10 0.15
22 31 0.46
23 27 0.40
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
AAAATTTTAAATTTTAAAATAT
Found at i:13680386 original size:15 final size:16
Alignment explanation
Indices: 13680359--13680388 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13680349 TTAAATTTTA
13680359 AAATATAATTTAATTT
1 AAATATAATTTAATTT
13680375 AAATAT-ATTTAATT
1 AAATATAATTTAATT
13680389 CAAACACCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATATAATTTAATTT
Found at i:13680872 original size:21 final size:21
Alignment explanation
Indices: 13680846--13680888 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
13680836 TAAAATTATA
13680846 TATTTTCAAGTCAATAAAATT
1 TATTTTCAAGTCAATAAAATT
* *
13680867 TATTTTCAATTTAATAAAATT
1 TATTTTCAAGTCAATAAAATT
13680888 T
1 T
13680889 TTATTTAAAT
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:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (21 bp):
TATTTTCAAGTCAATAAAATT
Found at i:13682093 original size:32 final size:33
Alignment explanation
Indices: 13682028--13682111 Score: 107
Period size: 32 Copynumber: 2.6 Consensus size: 33
13682018 TTTTACTCTT
* *
13682028 TTCGAATTCGATTTGATTTTATGTTTTAATATA
1 TTCGAATTTGATTTGATTTGATGTTTTAATATA
* * *
13682061 TTCGAATTTAATTTTATTTGAT-TTTTATTATA
1 TTCGAATTTGATTTGATTTGATGTTTTAATATA
*
13682093 TTTGAATTTGATTTGATTT
1 TTCGAATTTGATTTGATTT
13682112 TAATATTATA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 25 0.58
33 18 0.42
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.60
Consensus pattern (33 bp):
TTCGAATTTGATTTGATTTGATGTTTTAATATA
Found at i:13682094 original size:16 final size:16
Alignment explanation
Indices: 13682051--13682101 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
13682041 TGATTTTATG
* *
13682051 TTTTAATATATTCGAA
1 TTTTATTATATTTGAA
* * *
13682067 TTTAATTTTATTTGAT
1 TTTTATTATATTTGAA
13682083 TTTTATTATATTTGAA
1 TTTTATTATATTTGAA
13682099 TTT
1 TTT
13682102 GATTTGATTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (16 bp):
TTTTATTATATTTGAA
Found at i:13682127 original size:27 final size:25
Alignment explanation
Indices: 13682068--13682137 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 25
13682058 ATATTCGAAT
*
13682068 TTAATTTTATTTGATTTTTATTATA
1 TTAAATTTATTTGATTTTTATTATA
*
13682093 TTTGAATTTGATTTGATTTTAATATTATA
1 -TTAAATTT-ATTTGATTTT--TATTATA
13682122 -TAAATTATATTTGATT
1 TTAAATT-TATTTGATT
13682138 CGATTTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
26 6 0.16
27 23 0.62
28 1 0.03
29 7 0.19
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.61
Consensus pattern (25 bp):
TTAAATTTATTTGATTTTTATTATA
Found at i:13682137 original size:32 final size:31
Alignment explanation
Indices: 13682098--13682164 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
13682088 TTATATTTGA
* * *
13682098 ATTTGATTTGATTTTAATATTATATAAATTA-T
1 ATTTGATTCGA-TTTAAAATTA-ATAAAATATT
13682130 ATTTGATTCGATTTAAAATTAATAAAATATT
1 ATTTGATTCGATTTAAAATTAATAAAATATT
13682161 ATTT
1 ATTT
13682165 TTTAAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 7 0.23
31 14 0.45
32 10 0.32
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.52
Consensus pattern (31 bp):
ATTTGATTCGATTTAAAATTAATAAAATATT
Found at i:13682193 original size:21 final size:21
Alignment explanation
Indices: 13682150--13682202 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
13682140 ATTTAAAATT
13682150 AATA-AAATATTATTTTTTAA
1 AATATAAATATTATTTTTTAA
13682170 AATATAAAGTATTATTTTTT-A
1 AATATAAA-TATTATTTTTTAA
13682191 AATATAAATATT
1 AATATAAATATT
13682203 TAAAAATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 8 0.26
21 12 0.39
22 11 0.35
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATATAAATATTATTTTTTAA
Found at i:13682226 original size:8 final size:8
Alignment explanation
Indices: 13682192--13682246 Score: 51
Period size: 8 Copynumber: 7.1 Consensus size: 8
13682182 TATTTTTTAA
13682192 ATATAAAT
1 ATATAAAT
* *
13682200 ATTTAAAA
1 ATATAAAT
* *
13682208 ATATCATT
1 ATATAAAT
13682216 ATATAAAT
1 ATATAAAT
13682224 ATAT--AT
1 ATATAAAT
13682230 ATATAAAT
1 ATATAAAT
*
13682238 AAATAAAT
1 ATATAAAT
13682246 A
1 A
13682247 ATTAATTAAT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
6 6 0.17
8 30 0.83
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAAAT
Found at i:13683585 original size:21 final size:22
Alignment explanation
Indices: 13683556--13683600 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
13683546 TTTGATTGAT
* *
13683556 TTAAATAATTTTAA-ATTATAA
1 TTAAATAATTATAATATAATAA
*
13683577 TTAATTAATTATAATATAATAA
1 TTAAATAATTATAATATAATAA
13683599 TT
1 TT
13683601 CAAGTGACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAAATAATTATAATATAATAA
Found at i:13685511 original size:16 final size:15
Alignment explanation
Indices: 13685492--13685524 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
13685482 AAATATAACT
13685492 TTTAAATATAATTTAA
1 TTTAAATAT-ATTTAA
13685508 TTTAAATATATTTAA
1 TTTAAATATATTTAA
13685523 TT
1 TT
13685525 CAGCTGTCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTAAATATATTTAA
Found at i:13686816 original size:22 final size:22
Alignment explanation
Indices: 13686786--13686827 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13686776 TTCATTCACT
*
13686786 TTTTCTTTTCTTACT-TAATTAA
1 TTTTATTTT-TTACTCTAATTAA
13686808 TTTTATTTTTTACTCTAATT
1 TTTTATTTTTTACTCTAATT
13686828 TTTAATCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTATTTTTTACTCTAATTAA
Found at i:13689798 original size:145 final size:146
Alignment explanation
Indices: 13689542--13689904 Score: 392
Period size: 145 Copynumber: 2.5 Consensus size: 146
13689532 AAAAATTATG
* * * ** * * *
13689542 AAATATTATAAAGTTAATATATGAAAAGTTTCATGAAAATCTGAGCTTGGAAAGGTCAAATTACG
1 AAATATTATAAAATTAAGATTTGAAAAGTTTCATGAAAATCCAAGCTCGAAAAGATCAAATTACG
** * * * * * *
13689607 AAAATATTATTATAGGGGTATTTTGGTAATTTCATACTTTTTAGGGTACTGCTGTGATTTCAAAT
66 AAAATACCATTATAGAGATATTTCGGTAATTTCACACTTTTCAGGGTACTGCTATGATTTCAAAT
13689672 GCACCAAAAATCA-AA
131 GCACCAAAAATCATAA
* *
13689687 AAATATTATAAAATTAAGATTTTAAAAGTTTCATGAAAATCCAAGCTCGAAAAAGAT-AAATTAT
1 AAATATTATAAAATTAAGATTTGAAAAGTTTCATGAAAATCCAAGCTCG-AAAAGATCAAATTAC
* * *
13689751 GAAAATACCCTTATAGATATATTTCGGTAATTTCACACTTTTCAGGGTACTGTTATGATTTCAAA
65 GAAAATACCATTATAGAGATATTTCGGTAATTTCACACTTTTCAGGGTACTGCTATGATTTCAAA
* *
13689816 TGCACCAAAACTCATGA
130 TGCACCAAAAATCATAA
* * ** * * * *
13689833 AAATATTATAAAA-TAGAGATTTGGAAATTTTCACAAAAATTCGAGCTC-AGAAGATCAAATTAT
1 AAATATTATAAAATTA-AGATTTGAAAAGTTTCATGAAAATCCAAGCTCGAAAAGATCAAATTAC
*
13689896 GAATATACC
65 GAAAATACC
13689905 CCCTAAATGG
Statistics
Matches: 182, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
144 6 0.03
145 132 0.73
146 44 0.24
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (146 bp):
AAATATTATAAAATTAAGATTTGAAAAGTTTCATGAAAATCCAAGCTCGAAAAGATCAAATTACG
AAAATACCATTATAGAGATATTTCGGTAATTTCACACTTTTCAGGGTACTGCTATGATTTCAAAT
GCACCAAAAATCATAA
Found at i:13694938 original size:28 final size:26
Alignment explanation
Indices: 13694907--13694958 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
13694897 CAGTTCTTGC
*
13694907 AAATTTAATTTTCAGTTTATGTTTCATG
1 AAATTTAAATTT-AGTTT-TGTTTCATG
13694935 AAATTTAAATTTAGTTTTGTTTCA
1 AAATTTAAATTTAGTTTTGTTTCA
13694959 ATTCTAGGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 7 0.30
27 5 0.22
28 11 0.48
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.54
Consensus pattern (26 bp):
AAATTTAAATTTAGTTTTGTTTCATG
Found at i:13695122 original size:20 final size:19
Alignment explanation
Indices: 13695092--13695134 Score: 77
Period size: 20 Copynumber: 2.2 Consensus size: 19
13695082 CAGAGTTTCG
13695092 GTTTGTTTAAGTTTAGCTA
1 GTTTGTTTAAGTTTAGCTA
13695111 GTTTGCTTTAAGTTTAGCTA
1 GTTTG-TTTAAGTTTAGCTA
13695131 GTTT
1 GTTT
13695135 TAATTTTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.19, C:0.07, G:0.21, T:0.53
Consensus pattern (19 bp):
GTTTGTTTAAGTTTAGCTA
Found at i:13697618 original size:22 final size:22
Alignment explanation
Indices: 13697584--13697626 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13697574 AACATTAAAT
13697584 AAAATGAAAAAAAGGAAAAAAG
1 AAAATGAAAAAAAGGAAAAAAG
*
13697606 AAAAT-AAATAAAATGAAAAAA
1 AAAATGAAA-AAAAGGAAAAAA
13697627 AAATGATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (22 bp):
AAAATGAAAAAAAGGAAAAAAG
Found at i:13697879 original size:59 final size:58
Alignment explanation
Indices: 13697688--13697911 Score: 324
Period size: 58 Copynumber: 3.8 Consensus size: 58
13697678 TGCTTTCGTA
* *
13697688 CAAGAAAAATTGATACTTTCAATTTTTTTTCAAAAATATTTTTTAGAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTT
* *
13697746 CAAAAAAAATTGATACTTTCAACCTTTTCTCAAAAATATTTTTTAGAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTT
* * *
13697804 TAAGGAAAATTGATACTTTCAATTTTTTCTCAAAAATATTTTTTAGAAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAG-AAAACTTATTTT
* * * *
13697863 CAAGGAAAATTAATACTTTCAACTTTTCCTTAAAAAATATTTTTT-GAAA
1 CAAGAAAAATTGATACTTTCAACTTTTTC-TCAAAAATATTTTTTAGAAA
13697912 TTTTATTTAA
Statistics
Matches: 150, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
58 98 0.65
59 38 0.25
60 14 0.09
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTT
Found at i:13697932 original size:5 final size:5
Alignment explanation
Indices: 13697924--13697991 Score: 70
Period size: 5 Copynumber: 13.4 Consensus size: 5
13697914 TTATTTAAAG
13697924 AAAAT -AAA- AAAAT AAAAT AAAAT AAAAAT AAAAAT AAAGAT AAAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAA-AT -AAAAT
*
13697971 AGAAT AAAA- AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AA
13697992 GAAATACTAA
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
4 10 0.18
5 27 0.49
6 15 0.27
7 3 0.05
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:13697940 original size:6 final size:6
Alignment explanation
Indices: 13697924--13697997 Score: 71
Period size: 6 Copynumber: 12.0 Consensus size: 6
13697914 TTATTTAAAG
* *
13697924 AAAATA AAAAAA TAAAAT- AAAATA AAAATA AAAATA AAGATA AAAATA
1 AAAATA AAAATA -AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
13697972 GAATAAAA AAAAT- AAAATA AGAAATA
1 -AA-AATA AAAATA AAAATA A-AAATA
13697998 CTAAATAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
5 10 0.18
6 30 0.54
7 13 0.23
8 3 0.05
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:13698788 original size:6 final size:6
Alignment explanation
Indices: 13698787--13698872 Score: 95
Period size: 6 Copynumber: 14.2 Consensus size: 6
13698777 AAGAAAAAGA
*
13698787 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AATAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* * *
13698834 AATAGAT AAATAAT AATAAT AATAAAT AAGAA- AAAAAT A
1 AA-AAAT AAA-AAT AAAAAT AA-AAAT AAAAAT AAAAAT A
13698873 TAATAATATA
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
5 8 0.12
6 46 0.68
7 14 0.21
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:13698846 original size:16 final size:16
Alignment explanation
Indices: 13698790--13698945 Score: 87
Period size: 16 Copynumber: 9.9 Consensus size: 16
13698780 AAAAAGAAAA
*
13698790 AATAA-AAATAAAAAT
1 AATAATAAATAATAAT
* *
13698805 AAAAATAAA-AATAAA
1 AATAATAAATAATAAT
13698820 AATAA-AAATAAT-AT
1 AATAATAAATAATAAT
13698834 AATAGATAAATAATAAT
1 AATA-ATAAATAATAAT
*
13698851 AATAATAAATAAGAA-
1 AATAATAAATAATAAT
*
13698866 AAAAATATAATAATATAT
1 AATAATA-AATAATA-AT
** *
13698884 GTTAATAGATGAAT-A-
1 AATAATAAAT-AATAAT
* * *
13698899 AAT-ATATATGTATATT
1 AATAATAAAT-AATAAT
*
13698915 AATAA-ATAATAATAGT
1 AATAATA-AATAATAAT
13698931 AATAATAAATAATAA
1 AATAATAAATAATAA
13698946 AAATTTAGAG
Statistics
Matches: 106, Mismatches: 21, Indels: 27
0.69 0.14 0.18
Matches are distributed among these distances:
14 16 0.15
15 23 0.22
16 47 0.44
17 13 0.12
18 7 0.07
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (16 bp):
AATAATAAATAATAAT
Found at i:13698848 original size:3 final size:3
Alignment explanation
Indices: 13698790--13698945 Score: 68
Period size: 3 Copynumber: 49.7 Consensus size: 3
13698780 AAAAAGAAAA
* * * * * *
13698790 AAT AAA AAT AAA AAT AAA AAT AAA AAT AAA AAT AAA AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
13698837 AGAT AAAT AAT AAT AAT AAT AAAT AAG AA- AAA AAT -AT AAT AAT ATAT
1 A-AT -AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT A-AT
** * * *
13698884 GTT AAT AGAT GAAT AA- ATAT ATAT GTAT ATT AAT AAAT AAT AAT AGT
1 AAT AAT A-AT -AAT AAT A-AT A-AT -AAT AAT AAT -AAT AAT AAT AAT
13698931 AAT AAT AAAT AAT AA
1 AAT AAT -AAT AAT AA
13698946 AAATTTAGAG
Statistics
Matches: 115, Mismatches: 24, Indels: 28
0.69 0.14 0.17
Matches are distributed among these distances:
2 7 0.06
3 81 0.70
4 25 0.22
5 2 0.02
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:13699281 original size:42 final size:41
Alignment explanation
Indices: 13699141--13699540 Score: 271
Period size: 43 Copynumber: 9.5 Consensus size: 41
13699131 ATTTGATCAA
* * *
13699141 AGCTCCTCTAAGCAGAGGCTCAAC-AACTTTTAAAAACATAAACAA
1 AGCTCCTCTAATCAGAGGCTCAACGAAC-TTT-GAAA-AT-AA-AT
13699186 AGCTCCTCTAATCAGAGGCTCAAC-AACTTTGAAAATAAAT
1 AGCTCCTCTAATCAGAGGCTCAACGAACTTTGAAAATAAAT
* * * **
13699226 AGCTCTTTTAATCAGAGACTCAACGATTTTTGAAAAGTAAAT
1 AGCTCCTCTAATCAGAGGCTCAACGAACTTTGAAAA-TAAAT
* * *
13699268 TGCTCCTCTAATCAGAGGCTCGACG-ACTTTGAAAAATAAACAA
1 AGCTCCTCTAATCAGAGGCTCAACGAACTTTG-AAAAT-AA-AT
*
13699311 AGCTCATCTAATCAGAGGCTCAAC-AACTTTGAAAATAAAT
1 AGCTCCTCTAATCAGAGGCTCAACGAACTTTGAAAATAAAT
* * * ***
13699351 AGCTCTTCTAATTAGAGGCTCAATGGTTTTTGAAAAGTAAAT
1 AGCTCCTCTAATCAGAGGCTCAACGAACTTTGAAAA-TAAAT
* * *
13699393 TGCTCCTCTAATCAGAGGCTCGACG-ACTTTGGAAAATAAACAA
1 AGCTCCTCTAATCAGAGGCTCAACGAACTTT-GAAAAT-AA-AT
* * *
13699436 AGCTCCTATAAACAGAGGC-AAAC-ATGACTGTTGAAAAATAAATT
1 AGCTCCTCTAATCAGAGGCTCAACGA--ACT-TTG-AAAATAAA-T
* * *
13699480 A-CTCCTCTAAACAGAGG--AAACCGTGACTTTGGAAAAATAAAT
1 AGCTCCTCTAATCAGAGGCTCAA-CG-AACTTT-G-AAAATAAAT
* *
13699522 TGCTCCTCTAAACAGAGGC
1 AGCTCCTCTAATCAGAGGC
13699541 AATCATGACT
Statistics
Matches: 289, Mismatches: 43, Indels: 47
0.76 0.11 0.12
Matches are distributed among these distances:
40 44 0.15
41 30 0.10
42 78 0.27
43 94 0.33
44 10 0.03
45 33 0.11
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.25
Consensus pattern (41 bp):
AGCTCCTCTAATCAGAGGCTCAACGAACTTTGAAAATAAAT
Found at i:13699373 original size:125 final size:125
Alignment explanation
Indices: 13699142--13699454 Score: 491
Period size: 125 Copynumber: 2.5 Consensus size: 125
13699132 TTTGATCAAA
* * * *
13699142 GCTCCTCTAAGCAGAGGCTCAACAACTTTTAAAAACATAAACAAAGCTCCTCTAATCAGAGGCTC
1 GCTCCTCTAATCAGAGGCTCGACGAC-TTTGAAAA-ATAAACAAAGCTCCTCTAATCAGAGGCTC
*
13699207 AACAACTTTGAAAATAAATAGCTCTTTTAATCAGAGACTCAACGATTTTTGAAAAGTAAATT
64 AACAACTTTGAAAATAAATAGCTCTTCTAATCAGAGACTCAACGATTTTTGAAAAGTAAATT
*
13699269 GCTCCTCTAATCAGAGGCTCGACGACTTTGAAAAATAAACAAAGCTCATCTAATCAGAGGCTCAA
1 GCTCCTCTAATCAGAGGCTCGACGACTTTGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAA
* * * *
13699334 CAACTTTGAAAATAAATAGCTCTTCTAATTAGAGGCTCAATGGTTTTTGAAAAGTAAATT
66 CAACTTTGAAAATAAATAGCTCTTCTAATCAGAGACTCAACGATTTTTGAAAAGTAAATT
* * *
13699394 GCTCCTCTAATCAGAGGCTCGACGACTTTGGAAAATAAACAAAGCTCCTATAAACAGAGGC
1 GCTCCTCTAATCAGAGGCTCGACGACTTTGAAAAATAAACAAAGCTCCTCTAATCAGAGGC
13699455 AAACATGACT
Statistics
Matches: 172, Mismatches: 14, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
125 142 0.83
126 7 0.04
127 23 0.13
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.26
Consensus pattern (125 bp):
GCTCCTCTAATCAGAGGCTCGACGACTTTGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAA
CAACTTTGAAAATAAATAGCTCTTCTAATCAGAGACTCAACGATTTTTGAAAAGTAAATT
Found at i:13699485 original size:43 final size:42
Alignment explanation
Indices: 13699379--13699564 Score: 180
Period size: 43 Copynumber: 4.3 Consensus size: 42
13699369 CTCAATGGTT
* * * * *
13699379 TTTGAAAAGTAAATTGCTCCTCTAATCAGAGGC--TCGACGAC
1 TTTGAAAAATAAATTACTCCTCTAAACAGAGGCAAAC-ATGAC
* ** *
13699420 TTTGGAAAATAAACAAAGCTCCTATAAACAGAGGCAAACATGAC
1 TTTGAAAAATAAA-TTA-CTCCTCTAAACAGAGGCAAACATGAC
*
13699464 TGTTGAAAAATAAATTACTCCTCTAAACAGAGG-AAACCGTGAC
1 T-TTGAAAAATAAATTACTCCTCTAAACAGAGGCAAA-CATGAC
* *
13699507 TTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAATCATGAC
1 TTT-GAAAAATAAATTACTCCTCTAAACAGAGGCAAACATGAC
13699550 TTTGAAAAAATAAAT
1 TTTG-AAAAATAAAT
13699565 GCTCCTTGAC
Statistics
Matches: 119, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
41 11 0.09
42 6 0.05
43 82 0.69
44 8 0.07
45 12 0.10
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (42 bp):
TTTGAAAAATAAATTACTCCTCTAAACAGAGGCAAACATGAC
Found at i:13699488 original size:86 final size:83
Alignment explanation
Indices: 13699379--13699564 Score: 214
Period size: 86 Copynumber: 2.2 Consensus size: 83
13699369 CTCAATGGTT
* * *
13699379 TTTGAAAAGTAAATTGCTCCTCTAATCAGAGG-CTCGACGACTTTGG-AAAATAAACAAAGCTCC
1 TTTGAAAAATAAATTACTCCTCTAAACAGAGGAC-CG-CGACTTTGGAAAAAT-AA-AAAGCTCC
13699442 TATAAACAGAGGCAAACATGAC
62 TATAAACAGAGGCAAACATGAC
* **
13699464 TGTTGAAAAATAAATTACTCCTCTAAACAGAGGAAACCGTGACTTTGGAAAAATAAATTGCTCCT
1 T-TTGAAAAATAAATTACTCCTCTAAACAGAGG--ACCGCGACTTTGGAAAAATAAAAAGCTCCT
* *
13699529 CTAAACAGAGGCAATCATGAC
63 ATAAACAGAGGCAAACATGAC
13699550 TTTGAAAAAATAAAT
1 TTTG-AAAAATAAAT
13699565 GCTCCTTGAC
Statistics
Matches: 87, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
85 4 0.05
86 65 0.75
87 10 0.11
88 7 0.08
89 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (83 bp):
TTTGAAAAATAAATTACTCCTCTAAACAGAGGACCGCGACTTTGGAAAAATAAAAAGCTCCTATA
AACAGAGGCAAACATGAC
Found at i:13700600 original size:14 final size:15
Alignment explanation
Indices: 13700583--13700622 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
13700573 TTTTTTTTCA
13700583 TTCACTTTTTT-CTT
1 TTCACTTTTTTCCTT
13700597 TTCA-TTTTTTCCTT
1 TTCACTTTTTTCCTT
13700611 TTACACTTTTTT
1 TT-CACTTTTTT
13700623 TTATTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 2 0.09
16 6 0.26
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.70
Consensus pattern (15 bp):
TTCACTTTTTTCCTT
Found at i:13700647 original size:21 final size:22
Alignment explanation
Indices: 13700621--13700663 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
13700611 TTACACTTTT
13700621 TTTTATTTTT-TATTTTTTTCA
1 TTTTATTTTTCTATTTTTTTCA
*
13700642 TTTTATTTTTCTCTTTTTTTCA
1 TTTTATTTTTCTATTTTTTTCA
13700664 AGCATAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTATTTTTCTATTTTTTTCA
Done.