Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 77 of 126
Found at i:15536747 original size:21 final size:21
Alignment explanation
Indices: 15536723--15536764 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15536713 TGTGTAATTT
15536723 TTAAAATTTTAAAAATTTAAA
1 TTAAAATTTTAAAAATTTAAA
* **
15536744 TTAAATTTTTAATTATTTAAA
1 TTAAAATTTTAAAAATTTAAA
15536765 GTATATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAAAATTTTAAAAATTTAAA
Found at i:15539176 original size:74 final size:72
Alignment explanation
Indices: 15539032--15539178 Score: 165
Period size: 74 Copynumber: 2.0 Consensus size: 72
15539022 AAATAAATAG
* *
15539032 ATTAATCATATCTAATAATTTATTCGTATATAATCATGTTAATTATGTCATATCTTGTTTTGTTA
1 ATTAATCATATCTAATAATTTATTCGTATATAA-CATGTTAATCATGTCATATCTTGTTGTGTTA
*
15539097 TTTGGGTA
65 ATTGGGTA
* * *
15539105 ATTAATCATATCTAATAGTGTTATTTGTATGTAA-ATGTGTCAATCATGTCGA-A-CTGTGTTGT
1 ATTAATCATATCTAATAAT-TTATTCGTATATAACATGT-T-AATCATGTC-ATATCT-TGTTGT
15539167 GTTAATTGGGTA
61 GTTAATTGGGTA
15539179 TAAATTAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
72 4 0.06
73 21 0.33
74 37 0.59
75 1 0.02
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (72 bp):
ATTAATCATATCTAATAATTTATTCGTATATAACATGTTAATCATGTCATATCTTGTTGTGTTAA
TTGGGTA
Found at i:15539630 original size:16 final size:16
Alignment explanation
Indices: 15539609--15539651 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
15539599 ACTGACCAAA
* *
15539609 TAAATTGGAATAATTT
1 TAAATTAGAATAAATT
*
15539625 TAAATTAAAATAAATT
1 TAAATTAGAATAAATT
*
15539641 TAAATTTGAAT
1 TAAATTAGAAT
15539652 TGCTTAGAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAATTAGAATAAATT
Found at i:15540688 original size:8 final size:8
Alignment explanation
Indices: 15540668--15540697 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
15540658 TGAATTAAAT
15540668 TAAATTT-
1 TAAATTTA
15540675 TAAATTTA
1 TAAATTTA
15540683 TAAATTTA
1 TAAATTTA
15540691 TAAATTT
1 TAAATTT
15540698 TTTCCTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TAAATTTA
Found at i:15540696 original size:16 final size:15
Alignment explanation
Indices: 15540668--15540697 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
15540658 TGAATTAAAT
15540668 TAAATTTTAAATTTA
1 TAAATTTTAAATTTA
15540683 TAAATTTATAAATTT
1 TAAATTT-TAAATTT
15540698 TTTCCTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAAATTTTAAATTTA
Found at i:15542502 original size:46 final size:47
Alignment explanation
Indices: 15542435--15542528 Score: 163
Period size: 46 Copynumber: 2.0 Consensus size: 47
15542425 AGTGATCTAT
* *
15542435 ACACCCATGTATAACATCCTGAGGAGA-TGACTCATTATGGACAACA
1 ACACCCATGTATAAAATCCTGAGGAGACGGACTCATTATGGACAACA
15542481 ACACCCATGTATAAAATCCTGAGGAGACGGACTCATTATGGACAACA
1 ACACCCATGTATAAAATCCTGAGGAGACGGACTCATTATGGACAACA
15542528 A
1 A
15542529 TAAAATTGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 26 0.58
47 19 0.42
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (47 bp):
ACACCCATGTATAAAATCCTGAGGAGACGGACTCATTATGGACAACA
Found at i:15542867 original size:6 final size:6
Alignment explanation
Indices: 15542856--15542924 Score: 79
Period size: 6 Copynumber: 11.8 Consensus size: 6
15542846 TAGGCACAAT
* * *
15542856 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAT ATATAT ATATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
* *
15542904 ATAAAC ACAT-- ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATA
15542925 AGCAACAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
4 3 0.05
6 52 0.95
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAC
Found at i:15545319 original size:2 final size:2
Alignment explanation
Indices: 15545312--15545339 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15545302 TAATTCATTC
15545312 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
15545340 GAATACGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15547030 original size:36 final size:36
Alignment explanation
Indices: 15546982--15547053 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
15546972 AAATCATTTT
*
15546982 TATATTAAATAATAATTTTATTA-ATAAAAATAATAA
1 TATACTAAATAAT-ATTTTATTATATAAAAATAATAA
* * *
15547018 TATACTAAATAATTTTTTATTATATTAAATTAATAA
1 TATACTAAATAATATTTTATTATATAAAAATAATAA
15547054 AATTATTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 8 0.26
36 23 0.74
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (36 bp):
TATACTAAATAATATTTTATTATATAAAAATAATAA
Found at i:15547318 original size:24 final size:25
Alignment explanation
Indices: 15547281--15547334 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 25
15547271 ATTACTATGT
* *
15547281 TTTTTTATTTAAAAT-TATTAGAGA
1 TTTTTCATTAAAAATATATTAGAGA
15547305 TTTTTCATTAAAAATAACTATTAGAGA
1 TTTTTCATTAAAAAT-A-TATTAGAGA
15547332 TTT
1 TTT
15547335 AATCATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 13 0.52
27 12 0.48
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (25 bp):
TTTTTCATTAAAAATATATTAGAGA
Found at i:15547646 original size:25 final size:25
Alignment explanation
Indices: 15547612--15547664 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
15547602 CCCCTCCTGA
15547612 TGCCTTCATTGACCAAGGAAAAAGT
1 TGCCTTCATTGACCAAGGAAAAAGT
15547637 TGCCTTCATTGACCAAGGAAAAAGT
1 TGCCTTCATTGACCAAGGAAAAAGT
15547662 TGC
1 TGC
15547665 TACAGACTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (25 bp):
TGCCTTCATTGACCAAGGAAAAAGT
Found at i:15555219 original size:10 final size:10
Alignment explanation
Indices: 15555206--15555231 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
15555196 ATAAATTATA
15555206 AATTATAAAT
1 AATTATAAAT
15555216 AATTATAAAT
1 AATTATAAAT
15555226 AATTAT
1 AATTAT
15555232 TATTTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AATTATAAAT
Found at i:15555219 original size:17 final size:17
Alignment explanation
Indices: 15555187--15555225 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
15555177 TTATATTTTA
15555187 ATAAA-TATAATAAATT
1 ATAAATTATAATAAATT
15555203 ATAAATTATAA-ATAATT
1 ATAAATTATAATA-AATT
15555220 ATAAAT
1 ATAAAT
15555226 AATTATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAAATTATAATAAATT
Found at i:15556169 original size:29 final size:30
Alignment explanation
Indices: 15556137--15556193 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
15556127 AAAAACTTTG
*
15556137 GAGG-AAAAAAAGGGTTAGGAAAAGATTAA
1 GAGGAAAAAAAAAGGTTAGGAAAAGATTAA
15556166 GAGGAAAAAAAAAGGTTAGGAAAAGATT
1 GAGGAAAAAAAAAGGTTAGGAAAAGATT
15556194 CAGTGCATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.56, C:0.00, G:0.30, T:0.14
Consensus pattern (30 bp):
GAGGAAAAAAAAAGGTTAGGAAAAGATTAA
Found at i:15563405 original size:22 final size:23
Alignment explanation
Indices: 15563363--15563411 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
15563353 TGAATAAATA
* *
15563363 TATTTGAATAATGAAAAATATTAC
1 TATTTAAATAAT-AAAAATATGAC
15563387 TATTTAAATAAT-AAAATATGAC
1 TATTTAAATAATAAAAATATGAC
15563409 TAT
1 TAT
15563412 ACAAAATGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.52
24 11 0.48
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (23 bp):
TATTTAAATAATAAAAATATGAC
Found at i:15563606 original size:18 final size:18
Alignment explanation
Indices: 15563583--15563617 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
15563573 CTCAAAGCCA
15563583 TATTTTT-TTCTTTCTTAC
1 TATTTTTGTT-TTTCTTAC
15563601 TATTTTTGTTTTTCTTA
1 TATTTTTGTTTTTCTTA
15563618 AATTTACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.74
Consensus pattern (18 bp):
TATTTTTGTTTTTCTTAC
Found at i:15563727 original size:12 final size:13
Alignment explanation
Indices: 15563703--15563728 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15563693 CCAAAAATTG
15563703 AAAAATTCAAAAA
1 AAAAATTCAAAAA
15563716 AAAAATTCAAAAA
1 AAAAATTCAAAAA
15563729 TTCTTTTAGA
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:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATTCAAAAA
Found at i:15573617 original size:16 final size:16
Alignment explanation
Indices: 15573594--15573635 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
15573584 TTTTAAATTA
*
15573594 TATAAATTTAATTATT
1 TATAAATTTAATCATT
*
15573610 TATGAATTTAATCATT
1 TATAAATTTAATCATT
15573626 TATAAATTTA
1 TATAAATTTA
15573636 TAGTATTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
TATAAATTTAATCATT
Found at i:15575094 original size:91 final size:93
Alignment explanation
Indices: 15575021--15575203 Score: 241
Period size: 92 Copynumber: 2.0 Consensus size: 93
15575011 TAGCCTCTAA
* * * * *
15575021 AATTTTATTTTCAAA-TTTATAGTATTCGT-AAAAAATTGAATCTTAATTAGTAAGTAAAGA-GA
1 AATTCTATTTTCAAACTTGAT-GTACTCGTAAAAAAATGGAATCTTAATTAATAAGTAAA-ACGA
15575083 ACTTTTCTTTTT-ATAAAGTAGACTAAGAT
64 ACTTTTCTTTTTAATAAAGTAGACTAAGAT
*
15575112 AATTCTATTTTCAAACTTGATGTACTCTTAAAAAAATGGAATCTTAATTAATAAGTAAAACGAAC
1 AATTCTATTTTCAAACTTGATGTACTCGTAAAAAAATGGAATCTTAATTAATAAGTAAAACGAAC
* *
15575177 TTTTCTTTTT-ATAAATTAAACTAAGAT
66 TTTTCTTTTTAATAAAGTAGACTAAGAT
15575204 CATTTTTGTT
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
91 21 0.26
92 60 0.74
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (93 bp):
AATTCTATTTTCAAACTTGATGTACTCGTAAAAAAATGGAATCTTAATTAATAAGTAAAACGAAC
TTTTCTTTTTAATAAAGTAGACTAAGAT
Found at i:15575702 original size:15 final size:15
Alignment explanation
Indices: 15575656--15575703 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
15575646 TAATAAAATC
*
15575656 TTTTAATCTATTCAT
1 TTTTAATTTATTCAT
*
15575671 TTTT-A-TT-TT-AA
1 TTTTAATTTATTCAT
15575682 TTTTAATTTATTCAT
1 TTTTAATTTATTCAT
15575697 TTTTAAT
1 TTTTAAT
15575704 GAAAAATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 8
0.70 0.08 0.22
Matches are distributed among these distances:
11 5 0.19
12 3 0.12
13 3 0.12
14 3 0.12
15 12 0.46
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTAATTTATTCAT
Found at i:15582480 original size:21 final size:21
Alignment explanation
Indices: 15582451--15582491 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15582441 AAAAATATAT
* * *
15582451 ATATTATTTTTTAATTTAAAA
1 ATATGATTTTATAACTTAAAA
15582472 ATATGATTTTATAACTTAAA
1 ATATGATTTTATAACTTAAA
15582492 CAAAAAAAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATGATTTTATAACTTAAAA
Found at i:15582598 original size:3 final size:3
Alignment explanation
Indices: 15582592--15582619 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
15582582 ATAATAATAA
15582592 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
15582620 CAATTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:15583209 original size:29 final size:29
Alignment explanation
Indices: 15583160--15583215 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
15583150 GAATCATAAA
*
15583160 TAATTTTTTAATAATTATTTATAAATTAT
1 TAATTTTTTAATAAATATTTATAAATTAT
* *
15583189 TAATTTTTATATTAAAT-TTTATTAATT
1 TAATTTTT-TAATAAATATTTATAAATT
15583216 TATCGATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 17 0.74
30 6 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (29 bp):
TAATTTTTTAATAAATATTTATAAATTAT
Found at i:15583509 original size:2 final size:2
Alignment explanation
Indices: 15583504--15583548 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
15583494 TGTGTGTGTG
15583504 TA TA TA TA TA TA TA TA TA TA TA 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 TA TA TA
15583546 TA T
1 TA T
15583549 GGTTTTACTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15585616 original size:23 final size:24
Alignment explanation
Indices: 15585590--15585638 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
15585580 TTCATATAAA
15585590 ATATAAC-AT-AAATATAATATTTT
1 ATATAACTATCAAATATAAT-TTTT
*
15585613 ATATAACTATCAAATCTAATTTTT
1 ATATAACTATCAAATATAATTTTT
15585637 AT
1 AT
15585639 GAACTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 7 0.30
24 8 0.35
25 8 0.35
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (24 bp):
ATATAACTATCAAATATAATTTTT
Found at i:15588492 original size:17 final size:17
Alignment explanation
Indices: 15588458--15588506 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
15588448 TATTTTATTT
15588458 TAAAAATATTTTAAAACA
1 TAAAAATATTTT-AAACA
15588476 TAAAAATATTGTT-AACA
1 TAAAAATATT-TTAAACA
**
15588493 TATTAATATTTTAA
1 TAAAAATATTTTAA
15588507 TACTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 2 0.07
17 13 0.48
18 10 0.37
19 2 0.07
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (17 bp):
TAAAAATATTTTAAACA
Found at i:15594060 original size:35 final size:35
Alignment explanation
Indices: 15594014--15594080 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
15594004 ATTGAAGTAT
15594014 TTATAAATTTTGATTTGAAAAAATAAAATATAGAA
1 TTATAAATTTTGATTTGAAAAAATAAAATATAGAA
* *
15594049 TTATAAATTTTGGTTTGAAAAAATAAAGTATA
1 TTATAAATTTTGATTTGAAAAAATAAAATATA
15594081 AAAAAAAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (35 bp):
TTATAAATTTTGATTTGAAAAAATAAAATATAGAA
Found at i:15597458 original size:88 final size:88
Alignment explanation
Indices: 15597357--15597536 Score: 333
Period size: 88 Copynumber: 2.0 Consensus size: 88
15597347 TGTACACAAA
15597357 ATATCATAAAAACATATCTCTAAAAATCCAAATTTATTTTAAGATTAAAGAAATGAAAAAGCCCA
1 ATATCATAAAAACATATCTCTAAAAATCCAAATTTATTTTAAGATTAAAGAAATGAAAAAGCCCA
15597422 CCAACCCCATTGTATATATATAT
66 CCAACCCCATTGTATATATATAT
* *
15597445 ATATCATACAAACATATCTCTAAAAATCCCAATTTATTTTAAGATTAAAGAAATGAAAAAGCCCA
1 ATATCATAAAAACATATCTCTAAAAATCCAAATTTATTTTAAGATTAAAGAAATGAAAAAGCCCA
*
15597510 CCAACCCCATTGTATGTATATAT
66 CCAACCCCATTGTATATATATAT
15597533 ATAT
1 ATAT
15597537 ATATTCAAGC
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.30
Consensus pattern (88 bp):
ATATCATAAAAACATATCTCTAAAAATCCAAATTTATTTTAAGATTAAAGAAATGAAAAAGCCCA
CCAACCCCATTGTATATATATAT
Found at i:15597947 original size:104 final size:104
Alignment explanation
Indices: 15597767--15597984 Score: 283
Period size: 104 Copynumber: 2.1 Consensus size: 104
15597757 AAAATCCAAA
* * **
15597767 AGCTTTCATCTTTCTGTTTTGCTGCAGAGGAAATGGTGAAAGAGGCAATAGAAAGTTAACATTTT
1 AGCTTTCATCTTTCTGTTTTACTACAGAGGAAATGGTGAAAGAAACAATAGAAAGTTAACATTTT
*
15597832 TTAATAATTTTTGTCTTTTGGAGATATTTTGTCTTAGTG
66 TTAATAATTTTTGGCTTTTGGAGATATTTTGTCTTAGTG
** * * * * *
15597871 AGCTTTCATCTTTCTGTTTTACTATGGAGGCATTGGTGGAAGAAACAATCGAAAGTTAGCATTTT
1 AGCTTTCATCTTTCTGTTTTACTACAGAGGAAATGGTGAAAGAAACAATAGAAAGTTAACATTTT
* * *
15597936 TTAATCATTTTTGGCTTTTGGAGCTATTTTGTCTTGGTG
66 TTAATAATTTTTGGCTTTTGGAGATATTTTGTCTTAGTG
*
15597975 GGTCTTTCAT
1 AG-CTTTCAT
15597985 AGTTTTCTTA
Statistics
Matches: 97, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
104 90 0.93
105 7 0.07
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.43
Consensus pattern (104 bp):
AGCTTTCATCTTTCTGTTTTACTACAGAGGAAATGGTGAAAGAAACAATAGAAAGTTAACATTTT
TTAATAATTTTTGGCTTTTGGAGATATTTTGTCTTAGTG
Found at i:15598126 original size:34 final size:34
Alignment explanation
Indices: 15598087--15598154 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
15598077 TTTGTTTTGT
15598087 TAGTTTTTGGACTGTTTTAC-TTTGGATGCGGTGA
1 TAGTTTTTGGACTGTTTT-CTTTTGGATGCGGTGA
*
15598121 TAGTTTTTGGACTGTTTTCTTTTGGTTGCGGTGA
1 TAGTTTTTGGACTGTTTTCTTTTGGATGCGGTGA
15598155 AAAAAATAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 1 0.03
34 31 0.97
ACGTcount: A:0.12, C:0.09, G:0.29, T:0.50
Consensus pattern (34 bp):
TAGTTTTTGGACTGTTTTCTTTTGGATGCGGTGA
Found at i:15601813 original size:21 final size:21
Alignment explanation
Indices: 15601780--15601825 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
15601770 AAAATTATGC
* *
15601780 AAATAGATTGATTTTTTTTGA
1 AAATAGATCGATTATTTTTGA
* *
15601801 AAATGGATCGATTATTTTTGC
1 AAATAGATCGATTATTTTTGA
15601822 AAAT
1 AAAT
15601826 TATTTTTTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (21 bp):
AAATAGATCGATTATTTTTGA
Found at i:15602657 original size:19 final size:19
Alignment explanation
Indices: 15602634--15602679 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
15602624 TATTTTACAT
*
15602634 ATAAAATTATTTAAATATA
1 ATAAAATTATATAAATATA
* * *
15602653 TTAAAATAATATATATATA
1 ATAAAATTATATAAATATA
15602672 ATAAAATT
1 ATAAAATT
15602680 TAAAATCTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAAAATTATATAAATATA
Found at i:15612572 original size:6 final size:6
Alignment explanation
Indices: 15612561--15612596 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
15612551 GGGGGTAAAA
15612561 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG
1 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG
15612597 AGGGGAGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GAAGGG
Found at i:15614544 original size:34 final size:34
Alignment explanation
Indices: 15614447--15614544 Score: 110
Period size: 35 Copynumber: 2.9 Consensus size: 34
15614437 CATGTCTTGT
* * * *
15614447 AAAATT-TACAACTTATAGGAAATAAAATTTTGA
1 AAAATTATATAACTTATTGGAAATAGATTTTTGA
15614480 AAAATTATATAACTTACTTGGAAATAGATTTTTGA
1 AAAATTATATAACTTA-TTGGAAATAGATTTTTGA
* *
15614515 AAAGTTATATAACTT-TTGGGAAATTGATTT
1 AAAATTATATAACTTATT-GGAAATAGATTT
15614545 ATTAAGGACA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
33 8 0.14
34 19 0.34
35 29 0.52
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (34 bp):
AAAATTATATAACTTATTGGAAATAGATTTTTGA
Found at i:15623793 original size:30 final size:30
Alignment explanation
Indices: 15623751--15623827 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 30
15623741 TTCATTTAAA
*
15623751 AAAAATATTTATTTGAATATA-AATTAAA-AAT
1 AAAAA-ATTTATTT-AA-ATACAATAAAAGAAT
15623782 AAAAAATTTATTTAAATACAATAAAAGAAT
1 AAAAAATTTATTTAAATACAATAAAAGAAT
15623812 -AAAAATTTAATTTAAA
1 AAAAAATTT-ATTTAAA
15623828 AAAGTAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
28 3 0.07
29 16 0.38
30 18 0.43
31 5 0.12
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAAAATTTATTTAAATACAATAAAAGAAT
Found at i:15624175 original size:53 final size:54
Alignment explanation
Indices: 15624112--15624219 Score: 182
Period size: 54 Copynumber: 2.0 Consensus size: 54
15624102 ATGATACTAT
*
15624112 TTCATTAATGAACAAATTATTTTT-AAAAATTAATTTTTATATATTTATTTTAA
1 TTCATTAATGAACAAATTATTTTTAAAAAATTAAATTTTATATATTTATTTTAA
**
15624165 TTCATTAATGAGTAAATTATTTTTAAAAAATTAAATTTTATATATTTATTTTAA
1 TTCATTAATGAACAAATTATTTTTAAAAAATTAAATTTTATATATTTATTTTAA
15624219 T
1 T
15624220 AATTAATATT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
53 22 0.43
54 29 0.57
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (54 bp):
TTCATTAATGAACAAATTATTTTTAAAAAATTAAATTTTATATATTTATTTTAA
Found at i:15625891 original size:14 final size:14
Alignment explanation
Indices: 15625872--15625898 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15625862 TTTCCCTTTG
15625872 TACACTTAATTTTA
1 TACACTTAATTTTA
15625886 TACACTTAATTTT
1 TACACTTAATTTT
15625899 TTAAAGCCAA
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:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (14 bp):
TACACTTAATTTTA
Found at i:15630352 original size:15 final size:15
Alignment explanation
Indices: 15630334--15630368 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15630324 TTAAATCATG
*
15630334 TTATTTTCATATTTT
1 TTATTTACATATTTT
15630349 TTATTTACATATTTT
1 TTATTTACATATTTT
*
15630364 ATATT
1 TTATT
15630369 GCATTTCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATTTACATATTTT
Found at i:15638656 original size:2 final size:2
Alignment explanation
Indices: 15638649--15638687 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
15638639 TAAATATGTG
* *
15638649 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TT TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15638688 TAGATTCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:15638753 original size:17 final size:18
Alignment explanation
Indices: 15638731--15638774 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
15638721 TTGAACCTAA
15638731 TTATATAATTTTTT-AAT
1 TTATATAATTTTTTAAAT
15638748 TTATATATATTTTTTAAAT
1 TTATATA-ATTTTTTAAAT
*
15638767 TTTTATAA
1 TTATATAA
15638775 AATAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 7 0.29
18 8 0.33
19 9 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATATAATTTTTTAAAT
Found at i:15638823 original size:33 final size:33
Alignment explanation
Indices: 15638786--15638856 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
15638776 ATAAAAAAAT
* *
15638786 AATTTTATAGCAAAAT-ATATTTAAATATATTAA
1 AATTTTATAGCAAAATAATATATAAAAAT-TTAA
**
15638819 AATTTTATATTAAAATAATATATAAAAATTTAA
1 AATTTTATAGCAAAATAATATATAAAAATTTAA
15638852 AATTT
1 AATTT
15638857 AAAAATTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 23 0.70
34 10 0.30
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (33 bp):
AATTTTATAGCAAAATAATATATAAAAATTTAA
Found at i:15638829 original size:13 final size:13
Alignment explanation
Indices: 15638811--15638849 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
15638801 TATATTTAAA
15638811 TATATTAAAATTT
1 TATATTAAAATTT
**
15638824 TATATTAAAATAA
1 TATATTAAAATTT
*
15638837 TATATAAAAATTT
1 TATATTAAAATTT
15638850 AAAATTTAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATATTAAAATTT
Found at i:15639866 original size:22 final size:22
Alignment explanation
Indices: 15639841--15639886 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
15639831 TTTACAAGGC
15639841 AATTAACAAT-ATTTATTGATAA
1 AATTAACAATGATTTATT-ATAA
*
15639863 AATTATCAATGATTTATTATAA
1 AATTAACAATGATTTATTATAA
15639885 AA
1 AA
15639887 GTGGTTCCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (22 bp):
AATTAACAATGATTTATTATAA
Found at i:15641480 original size:17 final size:18
Alignment explanation
Indices: 15641458--15641502 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
15641448 TTTTTTATGT
15641458 AAAATTATAAATATAA-A
1 AAAATTATAAATATAATA
*
15641475 AAAATTATAACTATAATA
1 AAAATTATAAATATAATA
15641493 AAATATTATA
1 AAA-ATTATA
15641503 TGTTAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 15 0.60
18 4 0.16
19 6 0.24
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATTATAAATATAATA
Found at i:15642588 original size:5 final size:5
Alignment explanation
Indices: 15642578--15642622 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
15642568 ATTATTTTTG
* *
15642578 TTATA TTATA TTATA TTATA TTATTA TTATA TCATA TCATA TTAT
1 TTATA TTATA TTATA TTATA TTA-TA TTATA TTATA TTATA TTAT
15642623 TATTTTTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 32 0.86
6 5 0.14
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (5 bp):
TTATA
Found at i:15642605 original size:21 final size:21
Alignment explanation
Indices: 15642581--15642626 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
15642571 ATTTTTGTTA
* *
15642581 TATTATATTATATTATATTAT
1 TATTATATCATATCATATTAT
15642602 TATTATATCATATCATATTAT
1 TATTATATCATATCATATTAT
15642623 TATT
1 TATT
15642627 TTTTTCCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTATATCATATCATATTAT
Found at i:15645665 original size:2 final size:2
Alignment explanation
Indices: 15645658--15645691 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
15645648 ACAAAGCATA
15645658 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
15645692 TGGCTTCAAG
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:15646016 original size:45 final size:45
Alignment explanation
Indices: 15645952--15646038 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
15645942 CATCACAAGA
*
15645952 TTGAAGTGATGTGAATCCTTATACACCCCAGTGACACTCCTAAGG
1 TTGAAGTGATGTGAATCCTTATACAACCCAGTGACACTCCTAAGG
* * *
15645997 TTGAAGTGGTGTGAATCCTTATATAACCCAGTGACCCTCCTA
1 TTGAAGTGATGTGAATCCTTATACAACCCAGTGACACTCCTA
15646039 TTATATTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (45 bp):
TTGAAGTGATGTGAATCCTTATACAACCCAGTGACACTCCTAAGG
Found at i:15646082 original size:19 final size:19
Alignment explanation
Indices: 15646058--15646101 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
15646048 ATGTGAGATT
15646058 CATGACTCTTCTTTAGGTC
1 CATGACTCTTCTTTAGGTC
15646077 CATGACTCTTCTTTAGGTC
1 CATGACTCTTCTTTAGGTC
15646096 CATGAC
1 CATGAC
15646102 ATTCTCCCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.39
Consensus pattern (19 bp):
CATGACTCTTCTTTAGGTC
Found at i:15661670 original size:15 final size:16
Alignment explanation
Indices: 15661633--15661669 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
15661623 TTGTTTATAA
*
15661633 ATTTTTAATTTGTATT
1 ATTTTTAATTTGTATC
*
15661649 ATTTTTATTTTGTATC
1 ATTTTTAATTTGTATC
15661665 ATTTT
1 ATTTT
15661670 AATATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (16 bp):
ATTTTTAATTTGTATC
Found at i:15663058 original size:31 final size:32
Alignment explanation
Indices: 15663001--15663064 Score: 94
Period size: 34 Copynumber: 2.0 Consensus size: 32
15662991 TTATTACATG
*
15663001 CCTTTAATGTACTTGCAAGAACACATTTTCCATC
1 CCTTTAATGCACTTGC-A-AACACATTTTCCATC
15663035 CCTTTAATGCACTTGC-AACACATTTTCCAT
1 CCTTTAATGCACTTGCAAACACATTTTCCAT
15663065 TATCATTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 14 0.48
34 15 0.52
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (32 bp):
CCTTTAATGCACTTGCAAACACATTTTCCATC
Found at i:15667716 original size:24 final size:26
Alignment explanation
Indices: 15667689--15667749 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 26
15667679 ACATAATTTT
*
15667689 TTATTTTTATC-AAATTTATAT-ATA
1 TTATTTTTATCAAAATTTAAATCATA
15667713 TTATTTTTATCAAAAATTTAAATCATA
1 TTATTTTTATC-AAAATTTAAATCATA
*
15667740 TCATTTTTAT
1 TTATTTTTAT
15667750 ATTTTTTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 11 0.34
26 9 0.28
27 12 0.38
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (26 bp):
TTATTTTTATCAAAATTTAAATCATA
Found at i:15677156 original size:16 final size:17
Alignment explanation
Indices: 15677115--15677160 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
15677105 TGATCAAAAG
*
15677115 TATTA-AAATTAAATAT
1 TATTATAAATTTAATAT
*
15677131 TATT-TTAATTTAA-AT
1 TATTATAAATTTAATAT
15677146 TATTATAAATTTAAT
1 TATTATAAATTTAAT
15677161 TTGATTCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 6 0.25
16 18 0.75
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTATAAATTTAATAT
Found at i:15686533 original size:19 final size:19
Alignment explanation
Indices: 15686475--15686533 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
15686465 CAAGTAAAAA
*
15686475 TCGGTTTAAATTGATTTAAT
1 TCGG-TTAAATAGATTTAAT
* *
15686495 T-GATTAAAATCA-ATTAAAT
1 TCGGTT-AAAT-AGATTTAAT
15686514 TCGGTTAAATAGATTTAAT
1 TCGGTTAAATAGATTTAAT
15686533 T
1 T
15686534 TATTCGATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 9
0.68 0.11 0.20
Matches are distributed among these distances:
18 3 0.10
19 23 0.77
20 4 0.13
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (19 bp):
TCGGTTAAATAGATTTAAT
Found at i:15687549 original size:2 final size:2
Alignment explanation
Indices: 15687542--15687569 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15687532 TGGTTTTGAA
15687542 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
15687570 GTATTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15697317 original size:21 final size:23
Alignment explanation
Indices: 15697266--15697317 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 23
15697256 ACGTCTCAAA
15697266 ATTATTTTTTAATATCTAATTTTT
1 ATTA-TTTTTAATATCTAATTTTT
*
15697290 A-TA-TTTTAA-AT-TTATTTTT
1 ATTATTTTTAATATCTAATTTTT
15697309 ATTATTTTT
1 ATTATTTTT
15697318 TATCTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 8 0.32
20 4 0.16
21 10 0.40
23 2 0.08
24 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (23 bp):
ATTATTTTTAATATCTAATTTTT
Found at i:15697515 original size:28 final size:28
Alignment explanation
Indices: 15697475--15697531 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
15697465 GGATTAAACA
15697475 TAAAAATGGTTTTTATATTATACACTTT
1 TAAAAATGGTTTTTATATTATACACTTT
*
15697503 TAAAAATGGTTTTTATATTATACATTTT
1 TAAAAATGGTTTTTATATTATACACTTT
15697531 T
1 T
15697532 TATCGATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (28 bp):
TAAAAATGGTTTTTATATTATACACTTT
Found at i:15700398 original size:21 final size:21
Alignment explanation
Indices: 15700372--15700432 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
15700362 GATGTGATTG
** *
15700372 TAAAATTATTTATTATAGTAA
1 TAAAATTAAATATTATAATAA
*
15700393 TTAAATTAAATATTATAATAA
1 TAAAATTAAATATTATAATAA
15700414 TAAAATTAAA-ATTAATAAT
1 TAAAATTAAATATT-ATAAT
15700433 GTGAACATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 3 0.09
21 31 0.91
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAAATTAAATATTATAATAA
Found at i:15702168 original size:21 final size:21
Alignment explanation
Indices: 15702120--15702169 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
15702110 AAAATTATTT
* * *
15702120 ATTATAGTAATTAAATTGAAT
1 ATTATAATAATAAAATTGAAA
15702141 ATTATAATAATAAAATT-AAA
1 ATTATAATAATAAAATTGAAA
15702161 ATTAATAAT
1 ATT-ATAAT
15702170 GTGAATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (21 bp):
ATTATAATAATAAAATTGAAA
Found at i:15706064 original size:23 final size:23
Alignment explanation
Indices: 15706029--15706080 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
15706019 TAAAATAGTA
* * * *
15706029 TTATTATTCTTAAAATATTATTT
1 TTATTAATATTAAAATAATATAT
15706052 TTATTAATATTAAAATAATATAT
1 TTATTAATATTAAAATAATATAT
15706075 TTATTA
1 TTATTA
15706081 TTAAAATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
TTATTAATATTAAAATAATATAT
Found at i:15706084 original size:20 final size:20
Alignment explanation
Indices: 15706018--15706093 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 20
15706008 TTTAAAATAT
* *
15706018 TTAAAATAGTAT-TATTATTC
1 TTAAAATAATATAT-TTATTA
* *
15706038 TTAAAATATTATTTTTATTAATA
1 TTAAAATAATATATTTA-T--TA
15706061 TTAAAATAATATATTTATTA
1 TTAAAATAATATATTTATTA
15706081 TTAAAAT-ATATAT
1 TTAAAATAATATAT
15706094 ACTACTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
19 6 0.12
20 23 0.48
21 2 0.04
22 1 0.02
23 16 0.33
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (20 bp):
TTAAAATAATATATTTATTA
Found at i:15706769 original size:22 final size:21
Alignment explanation
Indices: 15706734--15706784 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
15706724 ATAGATATAA
*
15706734 AAAAATAATTTAAAATTTTAAT
1 AAAAATAATATAAAA-TTTAAT
* *
15706756 AAAAATTATATAAAATTTGAT
1 AAAAATAATATAAAATTTAAT
15706777 AAAAATAA
1 AAAAATAA
15706785 AATATATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAAATAATATAAAATTTAAT
Found at i:15707378 original size:4 final size:4
Alignment explanation
Indices: 15707371--15707429 Score: 118
Period size: 4 Copynumber: 14.8 Consensus size: 4
15707361 AATATATATA
15707371 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15707419 TATG TATG TAT
1 TATG TATG TAT
15707430 TTTCCATGGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 55 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:15724171 original size:40 final size:39
Alignment explanation
Indices: 15724099--15724178 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 39
15724089 TGATTATGAT
*
15724099 AGTTTCATGTTGAATCATCTCGGATTCAGATCACATTGA
1 AGTTTCATGTTGAATCATCTCGAATTCAGATCACATTGA
* * **
15724138 AGTTTCATGTTTGGATCATTTCGAATTTGGATCACATTGA
1 AGTTTCATG-TTGAATCATCTCGAATTCAGATCACATTGA
15724178 A
1 A
15724179 TTCAGGTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
39 9 0.26
40 26 0.74
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.39
Consensus pattern (39 bp):
AGTTTCATGTTGAATCATCTCGAATTCAGATCACATTGA
Found at i:15727041 original size:2 final size:2
Alignment explanation
Indices: 15727036--15727066 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15727026 AAAAAAAAAA
15727036 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15727067 ATCAATCTCA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15728878 original size:2 final size:2
Alignment explanation
Indices: 15728871--15728910 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
15728861 CTTCTGTGTA
* *
15728871 AT AT AT AT AT AT AT AT AT GT AT AT AT TT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15728911 TAATCTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
AT
Found at i:15728922 original size:14 final size:14
Alignment explanation
Indices: 15728869--15728914 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
15728859 ACCTTCTGTG
15728869 TAATATATATATA-
1 TAATATATATATAT
*
15728882 TATATATGTATATAT
1 TA-ATATATATATAT
*
15728897 TTATATATATATAT
1 TAATATATATATAT
15728911 TAAT
1 TAAT
15728915 CTTTATATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 2 0.07
14 24 0.89
15 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
TAATATATATATAT
Found at i:15731751 original size:2 final size:2
Alignment explanation
Indices: 15731744--15731780 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
15731734 CAAAGTGTAT
*
15731744 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15731781 TTATGAATGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15738340 original size:8 final size:8
Alignment explanation
Indices: 15738319--15738348 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
15738309 AAATATTTAA
15738319 AAAATATAT
1 AAAATAT-T
15738328 AAAATATT
1 AAAATATT
15738336 AAAATATT
1 AAAATATT
15738344 AAAAT
1 AAAAT
15738349 TATAGAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 14 0.67
9 7 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAATATT
Found at i:15741100 original size:12 final size:13
Alignment explanation
Indices: 15741083--15741112 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15741073 AGAGACACGG
15741083 AAGAAAAG-GGGA
1 AAGAAAAGAGGGA
15741095 AAGAAAAGAGGGA
1 AAGAAAAGAGGGA
15741108 AAGAA
1 AAGAA
15741113 GAAAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
AAGAAAAGAGGGA
Found at i:15742127 original size:32 final size:33
Alignment explanation
Indices: 15742086--15742152 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
15742076 ATTAATTTAA
*
15742086 TAAAAATAATAAATAT-ATATAAATGATTAATT
1 TAAAAATAATAAATATAATACAAATGATTAATT
15742118 TAAAAATAATAAATATAATACAAATGATTAATT
1 TAAAAATAATAAATATAATACAAATGATTAATT
15742151 TA
1 TA
15742153 TTTTAATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 16 0.48
33 17 0.52
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (33 bp):
TAAAAATAATAAATATAATACAAATGATTAATT
Found at i:15742441 original size:15 final size:15
Alignment explanation
Indices: 15742423--15742467 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
15742413 TATCTTTATT
*
15742423 AATATAATATATATA
1 AATATAAAATATATA
*
15742438 AATATAAAATAAATA
1 AATATAAAATATATA
15742453 AATAATAAAATATAT
1 AAT-ATAAAATATAT
15742468 CCTTTTATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AATATAAAATATATA
Found at i:15742781 original size:23 final size:21
Alignment explanation
Indices: 15742755--15742807 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 21
15742745 TAAAGTATTA
*
15742755 AATAATATTTTAATAAAATATAT
1 AATAATATTTAAAT-AAATA-AT
*
15742778 AATATATAATTAAATAAATAAT
1 AATA-ATATTTAAATAAATAAT
*
15742800 AAAAATAT
1 AATAATAT
15742808 ATTTTTCTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.12
22 5 0.20
23 9 0.36
24 8 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AATAATATTTAAATAAATAAT
Found at i:15747544 original size:2 final size:2
Alignment explanation
Indices: 15747537--15747565 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15747527 CTATTCTCAC
15747537 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15747566 TACAAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15755505 original size:19 final size:19
Alignment explanation
Indices: 15755481--15755532 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 19
15755471 ATTTAATTTT
15755481 ATATTTATATTAAAAAATA
1 ATATTTATATTAAAAAATA
*
15755500 ATATTTTATATTTTAAAAATA
1 ATA-TTTATA-TTAAAAAATA
15755521 ATATTT-TATTAA
1 ATATTTATATTAA
15755533 TTTTTGGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 3 0.10
19 5 0.17
20 9 0.31
21 12 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATTTATATTAAAAAATA
Found at i:15755537 original size:24 final size:21
Alignment explanation
Indices: 15755484--15755529 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
15755474 TAATTTTATA
*
15755484 TTTATA-TTAAAAAATAATAT
1 TTTATATTTTAAAAATAATAT
15755504 TTTATATTTTAAAAATAATAT
1 TTTATATTTTAAAAATAATAT
15755525 TTTAT
1 TTTAT
15755530 TAATTTTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTATATTTTAAAAATAATAT
Found at i:15765840 original size:23 final size:23
Alignment explanation
Indices: 15765795--15765841 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
15765785 CTCATTTAAG
* *
15765795 TTAAACGAATTCATTTGTGAATA
1 TTAAACGAATTCATTTATAAATA
15765818 TTAAACGAATAT-ATTTATAAATA
1 TTAAACGAAT-TCATTTATAAATA
15765841 T
1 T
15765842 ATATAATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (23 bp):
TTAAACGAATTCATTTATAAATA
Found at i:15783589 original size:2 final size:2
Alignment explanation
Indices: 15783582--15783612 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15783572 AAATAAATAA
15783582 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15783613 ATCCCAAACC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15793158 original size:25 final size:25
Alignment explanation
Indices: 15793129--15793177 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
15793119 TTTTTTTTTT
15793129 TTTAATACAGTTTCTATTATCCTTG
1 TTTAATACAGTTTCTATTATCCTTG
***
15793154 TTTAATAGTTTTTCTATTATCCTT
1 TTTAATACAGTTTCTATTATCCTT
15793178 TCAGAGTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.22, C:0.14, G:0.06, T:0.57
Consensus pattern (25 bp):
TTTAATACAGTTTCTATTATCCTTG
Found at i:15796701 original size:13 final size:13
Alignment explanation
Indices: 15796683--15796732 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
15796673 AGTTTATTTG
*
15796683 TTTTTAAATTTTA
1 TTTTTAAATATTA
*
15796696 TTTTTATATATTA
1 TTTTTAAATATTA
*
15796709 -TTTT-AATATAA
1 TTTTTAAATATTA
15796720 TTTTTAATATATT
1 TTTTTAA-ATATT
15796733 TAAATATATT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
11 5 0.17
12 8 0.28
13 12 0.41
14 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTTTAAATATTA
Found at i:15796707 original size:10 final size:11
Alignment explanation
Indices: 15796694--15796743 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
15796684 TTTTAAATTT
15796694 TATTTTT-ATA
1 TATTTTTAATA
15796704 TATTATTTTAATA
1 TA-T-TTTTAATA
15796717 TAATTTTTAATA
1 T-ATTTTTAATA
*
15796729 TA-TTTAAATA
1 TATTTTTAATA
15796739 TATTT
1 TATTT
15796744 AGATATAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
10 11 0.32
11 4 0.12
12 13 0.38
13 5 0.15
14 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTTTTAATA
Found at i:15796789 original size:17 final size:18
Alignment explanation
Indices: 15796769--15796809 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
15796759 ATTTTTATTT
15796769 TATAAAAATT-TAAAATA
1 TATAAAAATTATAAAATA
*
15796786 TATATAAATTAATAAAATA
1 TATAAAAATT-ATAAAATA
15796805 TATAA
1 TATAA
15796810 TTTAGTTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 9 0.45
19 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TATAAAAATTATAAAATA
Found at i:15808038 original size:25 final size:28
Alignment explanation
Indices: 15808010--15808077 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 28
15808000 TTTATATATT
15808010 TATATTATATTTTA-T-ATA-AAAAATA
1 TATATTATATTTTATTGATATAAAAATA
15808035 TATATTATAATTTATATTGATATAAAAATA
1 TATATTAT-ATTT-TATTGATATAAAAATA
*
15808065 TATAATATATTTT
1 TATATTATATTTT
15808078 TTATTTTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
25 8 0.22
26 4 0.11
27 2 0.05
28 2 0.05
29 7 0.19
30 14 0.38
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (28 bp):
TATATTATATTTTATTGATATAAAAATA
Found at i:15808062 original size:30 final size:31
Alignment explanation
Indices: 15808002--15808082 Score: 87
Period size: 30 Copynumber: 2.6 Consensus size: 31
15807992 TATTAAAATT
*
15808002 TATATATT-T-ATATTATATTTTATATAAAAAA
1 TATATATTATAAT-TTATA-TTGATATAAAAAA
15808033 TATATATTATAATTTATATTGATAT-AAAAA
1 TATATATTATAATTTATATTGATATAAAAAA
* * *
15808063 TATATAATATATTTTTTATT
1 TATATATTATAATTTATATT
15808083 TTATTAAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
30 22 0.50
31 14 0.32
32 6 0.14
33 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (31 bp):
TATATATTATAATTTATATTGATATAAAAAA
Found at i:15809895 original size:13 final size:14
Alignment explanation
Indices: 15809877--15809906 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15809867 TTTCTTTTTT
15809877 TTTCTC-ATATTTC
1 TTTCTCGATATTTC
15809890 TTTCTCGATATTTC
1 TTTCTCGATATTTC
15809904 TTT
1 TTT
15809907 GTCTCTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.13, C:0.20, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTCTCGATATTTC
Found at i:15810759 original size:3 final size:3
Alignment explanation
Indices: 15810751--15810786 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
15810741 AAATTGATGC
15810751 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15810787 TTATTACTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15810800 original size:3 final size:3
Alignment explanation
Indices: 15810787--15810847 Score: 50
Period size: 3 Copynumber: 20.3 Consensus size: 3
15810777 TAATAATAAT
* * * * * * *
15810787 TTA TTA CTA TTA TTA TTA TTA TTA TTG TTG TTG TTA TTG TTG TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
15810835 TTA TTA TTG TTA T
1 TTA TTA TTA TTA T
15810848 ACAAACTTTG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.21, C:0.02, G:0.11, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:15810823 original size:12 final size:12
Alignment explanation
Indices: 15810808--15810847 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
15810798 ATTATTATTA
15810808 TTATTGTTGTTG
1 TTATTGTTGTTG
15810820 TTATTGTTGTTG
1 TTATTGTTGTTG
* *
15810832 TTATTATTATTG
1 TTATTGTTGTTG
15810844 TTAT
1 TTAT
15810848 ACAAACTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.17, T:0.68
Consensus pattern (12 bp):
TTATTGTTGTTG
Found at i:15810823 original size:15 final size:15
Alignment explanation
Indices: 15810787--15810845 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
15810777 TAATAATAAT
* * *
15810787 TTATTACTATTATTA
1 TTATTATTATTGTTG
15810802 TTATTATTATTGTTG
1 TTATTATTATTGTTG
* *
15810817 TTGTTATTGTTGTTG
1 TTATTATTATTGTTG
15810832 TTATTATTATTGTT
1 TTATTATTATTGTT
15810846 ATACAAACTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.20, C:0.02, G:0.12, T:0.66
Consensus pattern (15 bp):
TTATTATTATTGTTG
Found at i:15820475 original size:13 final size:13
Alignment explanation
Indices: 15820457--15820487 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15820447 TACAATAGTG
*
15820457 TTTTTGTTTTTGT
1 TTTTTGTTTTGGT
15820470 TTTTTGTTTTGGT
1 TTTTTGTTTTGGT
15820483 TTTTT
1 TTTTT
15820488 AAGAGAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (13 bp):
TTTTTGTTTTGGT
Found at i:15824913 original size:6 final size:6
Alignment explanation
Indices: 15824882--15824915 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
15824872 CGTGACCGCC
* *
15824882 ATAGGG ACAGGG ACAGGG ATAGGG ATAGGG ATAG
1 ATAGGG ATAGGG ATAGGG ATAGGG ATAGGG ATAG
15824916 AGACCGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.35, C:0.06, G:0.47, T:0.12
Consensus pattern (6 bp):
ATAGGG
Found at i:15826581 original size:33 final size:33
Alignment explanation
Indices: 15826544--15826607 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
15826534 GGTTTTTTTA
15826544 TATATTACATGACTGACCTACCTACCTTATTAT
1 TATATTACATGACTGACCTACCTACCTTATTAT
15826577 TATATTACATGACTGACCTACCTACCTTATT
1 TATATTACATGACTGACCTACCTACCTTATT
15826608 TTTCTTCTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.39
Consensus pattern (33 bp):
TATATTACATGACTGACCTACCTACCTTATTAT
Found at i:15830075 original size:16 final size:16
Alignment explanation
Indices: 15829993--15830114 Score: 59
Period size: 16 Copynumber: 7.6 Consensus size: 16
15829983 GAACTTATTT
15829993 GAATTCAAATTGAT-C
1 GAATTCAAATTGATCC
*
15830008 TAATTTCAAATTGAAT-C
1 GAA-TTCAAATTG-ATCC
* ** * *
15830025 AAATTTTATTTGATTC
1 GAATTCAAATTGATCC
* * * *
15830041 GAATTCGACTTAATAC
1 GAATTCAAATTGATCC
15830057 GAATTCAAATTGATCC
1 GAATTCAAATTGATCC
* *
15830073 GAATCCAAATTCATCC
1 GAATTCAAATTGATCC
* * * *
15830089 GTACTAAAATTGATCT
1 GAATTCAAATTGATCC
*
15830105 GAATTTAAAT
1 GAATTCAAAT
15830115 CTAAAATGAT
Statistics
Matches: 78, Mismatches: 26, Indels: 5
0.72 0.24 0.05
Matches are distributed among these distances:
15 4 0.05
16 69 0.88
17 5 0.06
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.37
Consensus pattern (16 bp):
GAATTCAAATTGATCC
Found at i:15830927 original size:15 final size:15
Alignment explanation
Indices: 15830907--15830937 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15830897 TGAGCCCCAT
15830907 TTATTTTCATTTTTA
1 TTATTTTCATTTTTA
*
15830922 TTATTTTGATTTTTA
1 TTATTTTCATTTTTA
15830937 T
1 T
15830938 AGTTTTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.74
Consensus pattern (15 bp):
TTATTTTCATTTTTA
Found at i:15832190 original size:26 final size:23
Alignment explanation
Indices: 15832156--15832223 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 23
15832146 TTAATTTACA
15832156 TATATAAAATTAAAAATAAAAAT
1 TATATAAAATTAAAAATAAAAAT
15832179 TATACAATAAAAATTAAAAAT-AAAAT
1 TAT---AT-AAAATTAAAAATAAAAAT
*
15832205 TATATAAAATAAAAAATAA
1 TATATAAAATTAAAAATAA
15832224 GTTTAATTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
26 10 0.26
27 12 0.31
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (23 bp):
TATATAAAATTAAAAATAAAAAT
Found at i:15832193 original size:27 final size:27
Alignment explanation
Indices: 15832148--15832219 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
15832138 AATTATATTT
15832148 AATT-TACATATATAAAATTAAAAATAAA
1 AATTATACA-ATA-AAAATTAAAAATAAA
15832176 AATTATACAATAAAAATTAAAAATAAA
1 AATTATACAATAAAAATTAAAAATAAA
* *
15832203 ATTATATAAAATAAAAA
1 AAT-TATACAATAAAAA
15832220 ATAAGTTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 17 0.43
28 19 0.47
29 4 0.10
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (27 bp):
AATTATACAATAAAAATTAAAAATAAA
Found at i:15832215 original size:28 final size:27
Alignment explanation
Indices: 15832161--15832219 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
15832151 TTACATATAT
*
15832161 AAAATTAAAAATAAAAATTATACAATA
1 AAAATTAAAAATAAAAATTATAAAATA
*
15832188 AAAATTAAAAATAAAATTATATAAAATA
1 AAAATTAAAAATAAAAAT-TATAAAATA
15832216 AAAA
1 AAAA
15832220 ATAAGTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 17 0.59
28 12 0.41
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (27 bp):
AAAATTAAAAATAAAAATTATAAAATA
Found at i:15832248 original size:20 final size:22
Alignment explanation
Indices: 15832220--15832267 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
15832210 AAAATAAAAA
*
15832220 ATAAGTTTA-ATTAA-ATATAT
1 ATAATTTTATATTAATATATAT
* *
15832240 ATAATTTTATTTTAATTTATAT
1 ATAATTTTATATTAATATATAT
15832262 ATAATT
1 ATAATT
15832268 CACGTATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 8 0.35
21 4 0.17
22 11 0.48
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
ATAATTTTATATTAATATATAT
Found at i:15832529 original size:23 final size:21
Alignment explanation
Indices: 15832503--15832544 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
15832493 TTGATCCAAG
15832503 TTTGATTATTTTATTTATTTTAT
1 TTTGATT-TTTT-TTTATTTTAT
*
15832526 TTTGATTTTTTTTTGTTTT
1 TTTGATTTTTTTTTATTTT
15832545 GCTATTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 4 0.22
23 7 0.39
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (21 bp):
TTTGATTTTTTTTTATTTTAT
Found at i:15832715 original size:19 final size:19
Alignment explanation
Indices: 15832691--15832847 Score: 120
Period size: 20 Copynumber: 7.9 Consensus size: 19
15832681 ATTGCATGTT
15832691 TTTGCATGATTAATTATTA
1 TTTGCATGATTAATTATTA
*
15832710 TTTGCATGATTTTATTAATATA
1 TTTGCATGA-TTAATT-AT-TA
* *
15832732 TTTGCATAATTATTTATTA
1 TTTGCATGATTAATTATTA
* *
15832751 ATTGCATGATTATTTATATA
1 TTTGCATGATTAATTAT-TA
*
15832771 TTTGTATGATT-ATTAATATA
1 TTTGCATGATTAATT-AT-TA
*
15832791 TTTACATGATTAATAATATT-
1 TTTGCATGATTAAT--TATTA
* * * *
15832811 TTTACATGATTCATTTTTG
1 TTTGCATGATTAATTATTA
*
15832830 TTTGCATGATTTATTATT
1 TTTGCATGATTAATTATT
15832848 TGTATAATTT
Statistics
Matches: 113, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
18 3 0.03
19 43 0.38
20 45 0.40
21 9 0.08
22 12 0.11
23 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTGCATGATTAATTATTA
Found at i:15832728 original size:24 final size:25
Alignment explanation
Indices: 15832699--15832753 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
15832689 TTTTTGCATG
*
15832699 ATTAATTATTATTTGCATGA-T-TTT
1 ATTAATTA-TATTTGCATAATTATTT
15832723 ATTAA-TATATTTGCATAATTATTT
1 ATTAATTATATTTGCATAATTATTT
15832747 ATTAATT
1 ATTAATT
15832754 GCATGATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 10 0.37
23 3 0.11
24 13 0.48
25 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (25 bp):
ATTAATTATATTTGCATAATTATTT
Found at i:15832744 original size:20 final size:20
Alignment explanation
Indices: 15832691--15832821 Score: 133
Period size: 20 Copynumber: 6.5 Consensus size: 20
15832681 ATTGCATGTT
15832691 TTTGCATGATTAATT-AT-TA
1 TTTGCATGATT-ATTAATATA
15832710 TTTGCATGATTTTATTAATATA
1 TTTGCATGA--TTATTAATATA
* *
15832732 TTTGCATAATTATTTAT-TA
1 TTTGCATGATTATTAATATA
* *
15832751 ATTGCATGATTATTTATATA
1 TTTGCATGATTATTAATATA
*
15832771 TTTGTATGATTATTAATATA
1 TTTGCATGATTATTAATATA
* * *
15832791 TTTACATGATTAATAATATT
1 TTTGCATGATTATTAATATA
*
15832811 TTTACATGATT
1 TTTGCATGATT
15832822 CATTTTTGTT
Statistics
Matches: 96, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
19 26 0.27
20 56 0.58
21 4 0.04
22 10 0.10
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (20 bp):
TTTGCATGATTATTAATATA
Found at i:15834552 original size:2 final size:2
Alignment explanation
Indices: 15834545--15834578 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
15834535 GGTTGAACAA
* *
15834545 AT AT AT AT AT AG AC 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
15834579 GTACATACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:15837465 original size:12 final size:12
Alignment explanation
Indices: 15837429--15837471 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
15837419 CGAAGAGATA
*
15837429 TTTTTATTAATT
1 TTTTTATAAATT
*
15837441 TTTTTGT-AA-T
1 TTTTTATAAATT
15837451 TTTTTATAAATT
1 TTTTTATAAATT
15837463 TTTTTATAA
1 TTTTTATAA
15837472 CATATTCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 7 0.26
11 4 0.15
12 16 0.59
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (12 bp):
TTTTTATAAATT
Found at i:15839637 original size:32 final size:33
Alignment explanation
Indices: 15839592--15839669 Score: 97
Period size: 32 Copynumber: 2.4 Consensus size: 33
15839582 TCATAAAGGG
*
15839592 ATAAAG-CTCATTTGCTTAATTTTTTATAATA-A
1 ATAAAGCCT-ATTTGCTTAATTATTTATAATATA
* *
15839624 ATAAAGCCTATTTGCTTTATTATTTATAATATG
1 ATAAAGCCTATTTGCTTAATTATTTATAATATA
*
15839657 ATAAAACCTATTT
1 ATAAAGCCTATTT
15839670 TTTTTTACAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
32 26 0.65
33 14 0.35
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.46
Consensus pattern (33 bp):
ATAAAGCCTATTTGCTTAATTATTTATAATATA
Found at i:15840633 original size:10 final size:10
Alignment explanation
Indices: 15840602--15840666 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
15840592 AAAAAAATTG
15840602 AAATTTTAATA
1 AAATTTTAA-A
**
15840613 AAATTCCAAA
1 AAATTTTAAA
15840623 AAATTTTAAAA
1 AAATTTT-AAA
*
15840634 AAATTTTGAA
1 AAATTTTAAA
*
15840644 AAA-TTCAAA
1 AAATTTTAAA
* *
15840653 AAAATATAAA
1 AAATTTTAAA
15840663 AAAT
1 AAAT
15840667 AAAAATGGTA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
9 7 0.17
10 18 0.43
11 17 0.40
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.31
Consensus pattern (10 bp):
AAATTTTAAA
Found at i:15840721 original size:11 final size:11
Alignment explanation
Indices: 15840705--15840746 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
15840695 AAATCTTCAG
15840705 AATTTTTATAA
1 AATTTTTATAA
15840716 AATTTTT-TACA
1 AATTTTTATA-A
*
15840727 ACTTTTTA-AA
1 AATTTTTATAA
15840737 AATTTTTATA
1 AATTTTTATA
15840747 TTTTTCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (11 bp):
AATTTTTATAA
Found at i:15840732 original size:10 final size:10
Alignment explanation
Indices: 15840705--15840763 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
15840695 AAATCTTCAG
15840705 AATTTTTATAA
1 AATTTTTA-AA
*
15840716 AATTTTTTACA
1 AA-TTTTTAAA
*
15840727 ACTTTTTAAA
1 AATTTTTAAA
15840737 AATTTTT--A
1 AATTTTTAAA
*
15840745 TATTTTTCAAA
1 AATTTTT-AAA
15840756 AATTTTTA
1 AATTTTTA
15840764 GATTTTTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
8 7 0.18
10 14 0.37
11 11 0.29
12 6 0.16
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:15840751 original size:19 final size:19
Alignment explanation
Indices: 15840705--15840770 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
15840695 AAATCTTCAG
*
15840705 AATTTTTATAAAATTTTTTA
1 AATTTTT-TAAAAATTTTTA
*
15840725 CAACTTTTTAAAAATTTTTA
1 -AATTTTTTAAAAATTTTTA
* *
15840745 TATTTTTCAAAAATTTTTA
1 AATTTTTTAAAAATTTTTA
*
15840764 GATTTTT
1 AATTTTT
15840771 AATTTTAACT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 22 0.56
20 11 0.28
21 6 0.15
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (19 bp):
AATTTTTTAAAAATTTTTA
Found at i:15843524 original size:19 final size:19
Alignment explanation
Indices: 15843500--15843539 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
15843490 TGACTGACTT
15843500 AAGCGTTGCAACACGTCTC
1 AAGCGTTGCAACACGTCTC
15843519 AAGCGTTGCAACACGTCTC
1 AAGCGTTGCAACACGTCTC
15843538 AA
1 AA
15843540 AGAACCAACT
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:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (19 bp):
AAGCGTTGCAACACGTCTC
Found at i:15843692 original size:2 final size:2
Alignment explanation
Indices: 15843685--15843709 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15843675 ACATACCTCC
15843685 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 A
15843710 GTTGTATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15845738 original size:2 final size:2
Alignment explanation
Indices: 15845731--15845771 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
15845721 CAAGAGTTGA
15845731 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15845772 AAACAAAAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15846892 original size:20 final size:20
Alignment explanation
Indices: 15846851--15846891 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
15846841 TCCCTCCTTC
* *
15846851 TTCTTTTTTTTTTTTTCATT
1 TTCTTTATTTTTTATTCATT
15846871 TTCTTTATTTTTTATT-ATT
1 TTCTTTATTTTTTATTCATT
15846890 TT
1 TT
15846892 TTTGTTTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (20 bp):
TTCTTTATTTTTTATTCATT
Found at i:15847165 original size:24 final size:24
Alignment explanation
Indices: 15847138--15847185 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
15847128 ATATAAAAAA
*
15847138 TATATTT-TATTATTTATTTAATTT
1 TATATTTATA-TATGTATTTAATTT
*
15847162 TATATTTATATATGTATTTTATTT
1 TATATTTATATATGTATTTAATTT
15847186 AAAAGTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
TATATTTATATATGTATTTAATTT
Found at i:15848053 original size:16 final size:15
Alignment explanation
Indices: 15848014--15848049 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
15848004 GTTAAATATG
15848014 ATTGATCATCTAAAA
1 ATTGATCATCTAAAA
15848029 AGTTGATCATCTAAAA
1 A-TTGATCATCTAAAA
15848045 ATTGA
1 ATTGA
15848050 ATCAATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (15 bp):
ATTGATCATCTAAAA
Found at i:15848254 original size:265 final size:265
Alignment explanation
Indices: 15847781--15848297 Score: 847
Period size: 265 Copynumber: 2.0 Consensus size: 265
15847771 TATTCTATAG
* *
15847781 TTGAATCAATCATTTTCGATTTAGATTGTCTTGAGTTCCAACTAGATTTGGATTAGGATGAAAAT
1 TTGAATCAATCATTTTCAATTTAGATTGTCTTGAGTTCCAACTAGATTTGGATTAGGATAAAAAT
*
15847846 AAAAGGGTAATTAAATTTTCATAAAAATTAGTTATTTTAATTTTTAGTTTTAATTTTGGGTTATT
66 AAAAGGGTAATTAAATTTTCATAAAAATTAGTTATTTTAATTTTTAGTTTTAAGTTTGGGTTATT
* * * *
15847911 ATTGATTTAGATATATTATAATGATTTTAGGGACTGCTAGTCGAATTTTAAAAAATTAAATCAAA
131 ATTGATTTAGATATATTATAACGATTTTAGGGACTGCTAGACAAATTTTAAAAAATCAAATCAAA
*
15847976 ACTTGAGGAGTCGTCATTAATCTTTTTAGTTAAATATGATTGATCATCTAAAAAGTTGATCATCT
196 ACTTGAGGAGTCGTCATTAATATTTTTAGTTAAATATGATTGATCATCTAAAAAGTTGATCATCT
15848041 AAAAA
261 AAAAA
*
15848046 TTGAATCAATCATTTTCAATTTAGATTTTCTTGAGTTCCAACTAGATTTGGATTAGGATAAAAAT
1 TTGAATCAATCATTTTCAATTTAGATTGTCTTGAGTTCCAACTAGATTTGGATTAGGATAAAAAT
15848111 AAAAGGGTAATTAAATTTTCATAAAAATTAGTTATTTTAATTTTTAGTTTTAAGTTTGGGTTATT
66 AAAAGGGTAATTAAATTTTCATAAAAATTAGTTATTTTAATTTTTAGTTTTAAGTTTGGGTTATT
* * * * * *
15848176 GTTGGTTTGGATCTATTATAACGATTTTAGGGA-TCGCTAGACAAATTTTAAGAAATCAAATCGA
131 ATTGATTTAGATATATTATAACGATTTTAGGGACT-GCTAGACAAATTTTAAAAAATCAAATCAA
* ** *
15848240 AACTTGGGGAGTCGTCATTAATATTTTTTTTTAAATATGATTGTTCATCTAAAAAGTT
195 AACTTGAGGAGTCGTCATTAATATTTTTAGTTAAATATGATTGATCATCTAAAAAGTT
15848298 TATTTTTTTA
Statistics
Matches: 232, Mismatches: 19, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
264 1 0.00
265 231 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (265 bp):
TTGAATCAATCATTTTCAATTTAGATTGTCTTGAGTTCCAACTAGATTTGGATTAGGATAAAAAT
AAAAGGGTAATTAAATTTTCATAAAAATTAGTTATTTTAATTTTTAGTTTTAAGTTTGGGTTATT
ATTGATTTAGATATATTATAACGATTTTAGGGACTGCTAGACAAATTTTAAAAAATCAAATCAAA
ACTTGAGGAGTCGTCATTAATATTTTTAGTTAAATATGATTGATCATCTAAAAAGTTGATCATCT
AAAAA
Found at i:15856947 original size:13 final size:13
Alignment explanation
Indices: 15856929--15856953 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15856919 ATATCAATAT
15856929 TAAAAAAATTTTC
1 TAAAAAAATTTTC
15856942 TAAAAAAATTTT
1 TAAAAAAATTTT
15856954 AAAAAGATTT
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:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAAAAATTTTC
Found at i:15856956 original size:11 final size:11
Alignment explanation
Indices: 15856928--15856968 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
15856918 CATATCAATA
15856928 TTAAAAAAATTT
1 TTAAAAAAA-TT
15856940 TCTAAAAAAATT
1 T-TAAAAAAATT
*
15856952 TTAAAAAGATT
1 TTAAAAAAATT
15856963 TTAAAA
1 TTAAAA
15856969 GTTAAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 15 0.56
12 4 0.15
13 8 0.30
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (11 bp):
TTAAAAAAATT
Found at i:15857062 original size:16 final size:15
Alignment explanation
Indices: 15857024--15857062 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
15857014 CAAAAATTGA
15857024 TAAAAATAAAAATTT
1 TAAAAATAAAAATTT
15857039 TAATAAATAAAATATTT
1 TAA-AAATAAAA-ATTT
*
15857056 TTAAAAT
1 TAAAAAT
15857063 TCAAACAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 12 0.57
17 6 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAAAATAAAAATTT
Found at i:15857237 original size:16 final size:16
Alignment explanation
Indices: 15857217--15857274 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 16
15857207 AATTTTTCAT
*
15857217 TTTTTATTTTTGTTAAA
1 TTTTTAATTTT-TTAAA
15857234 TTTTTAATTTTTTAAA
1 TTTTTAATTTTTTAAA
*
15857250 TTAATTTTAAATTTTTAGAA
1 -T--TTTTAATTTTTTA-AA
15857270 TTTTT
1 TTTTT
15857275 GAAAAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
16 5 0.14
17 15 0.43
19 13 0.37
20 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTTTAATTTTTTAAA
Done.