Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 61 of 91
Found at i:10177586 original size:2 final size:2
Alignment explanation
Indices: 10177581--10177618 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
10177571 ACAAGCGTAA
* *
10177581 AT AT AT AT AT AT GT AT GT 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 AT AT
10177619 GTATGCATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10183120 original size:20 final size:20
Alignment explanation
Indices: 10183055--10183122 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
10183045 AAAATCAATT
**
10183055 TTAGTCAATTTTGATCAAAC
1 TTAGTCAAAATTGATCAAAC
10183075 --AGTCAAAATT-AGTCAAA-
1 TTAGTCAAAATTGA-TCAAAC
* *
10183092 TAAAATCAAAATTGATCAAAC
1 T-TAGTCAAAATTGATCAAAC
10183113 TTAGTCAAAA
1 TTAGTCAAAA
10183123 CGGATAGAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
17 1 0.03
18 13 0.35
20 21 0.57
21 2 0.05
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (20 bp):
TTAGTCAAAATTGATCAAAC
Found at i:10185564 original size:15 final size:15
Alignment explanation
Indices: 10185541--10185579 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
10185531 AACATTAGTA
10185541 AAAGAAAAGAAAAAG
1 AAAGAAAAGAAAAAG
* *
10185556 AAAGTAAAGTAAAAG
1 AAAGAAAAGAAAAAG
10185571 AAAGAAAAG
1 AAAGAAAAG
10185580 GTTGTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:10200546 original size:34 final size:35
Alignment explanation
Indices: 10200507--10200583 Score: 104
Period size: 35 Copynumber: 2.2 Consensus size: 35
10200497 TTTTCATTTT
* *
10200507 AATTTATTATTAT-T-ATATAATAATTAATAAATAA
1 AATTTATTATTATATAATA-AAAAAATAATAAATAA
10200541 AATTTATTATTATATAATAAAAAAATAATAAATAA
1 AATTTATTATTATATAATAAAAAAATAATAAATAA
*
10200576 ATTTTATT
1 AATTTATT
10200584 TTGATTTTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 13 0.34
35 22 0.58
36 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (35 bp):
AATTTATTATTATATAATAAAAAAATAATAAATAA
Found at i:10200571 original size:31 final size:31
Alignment explanation
Indices: 10200513--10200572 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
10200503 TTTTAATTTA
**
10200513 TTATTATTATATAATAATTAATAAATAAAAT
1 TTATTATTATATAATAAAAAATAAATAAAAT
10200544 TTATTATTATATAATAAAAAA-ATAATAAA
1 TTATTATTATATAATAAAAAATA-AATAAA
10200573 TAAATTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (31 bp):
TTATTATTATATAATAAAAAATAAATAAAAT
Found at i:10204556 original size:14 final size:15
Alignment explanation
Indices: 10204532--10204561 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
10204522 AGATTTGTTG
10204532 GTCTCAAGTGTTTTA
1 GTCTCAAGTGTTTTA
10204547 GTCT-AAGTGTTTTA
1 GTCTCAAGTGTTTTA
10204561 G
1 G
10204562 GTTTCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.10, G:0.23, T:0.47
Consensus pattern (15 bp):
GTCTCAAGTGTTTTA
Found at i:10205906 original size:2 final size:2
Alignment explanation
Indices: 10205899--10205926 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10205889 TTGCATTTGA
10205899 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
10205927 GTTAGATTTT
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:10215182 original size:25 final size:26
Alignment explanation
Indices: 10215128--10215182 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
10215118 TCTAATATTT
*
10215128 GTATTTTGTATATTATCAAAAATAAA
1 GTATTTTGAATATTATCAAAAATAAA
*
10215154 -TATTTT-AATATT-TCAATAATAATA
1 GTATTTTGAATATTATCAAAAATAA-A
10215178 GTATT
1 GTATT
10215183 ATATTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 9 0.36
24 6 0.24
25 10 0.40
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (26 bp):
GTATTTTGAATATTATCAAAAATAAA
Found at i:10215235 original size:40 final size:39
Alignment explanation
Indices: 10215183--10215278 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 39
10215173 TAATAGTATT
10215183 ATATTATTATTTTAATAATAAATAATAACAT-ATATAATA
1 ATATTATTATTTTAATAATAAATAATAA-ATAATATAATA
* **
10215222 ATATTTATTATTTTAATAATTAATGTTAAATAATATAATA
1 ATA-TTATTATTTTAATAATAAATAATAAATAATATAATA
10215262 ATATTATT-TTCTTAATA
1 ATATTATTATT-TTAATA
10215279 TGAATATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
38 2 0.04
39 16 0.31
40 33 0.65
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (39 bp):
ATATTATTATTTTAATAATAAATAATAAATAATATAATA
Found at i:10222167 original size:18 final size:17
Alignment explanation
Indices: 10222142--10222176 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10222132 ACTTATCTTT
10222142 TTAATAAAATCTTAAAA
1 TTAATAAAATCTTAAAA
*
10222159 TTAATTAAAATTTTAAAA
1 TTAA-TAAAATCTTAAAA
10222177 AATAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAATAAAATCTTAAAA
Found at i:10222624 original size:31 final size:31
Alignment explanation
Indices: 10222574--10222633 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
10222564 ATTTACTTTC
10222574 TAATATTTCATAATAAAATTT-TACACTAACA
1 TAATATTTCATAATAAAATTTAT-CACTAACA
*
10222605 TAATTTTTCATAA-ATAAATTTATCACTAA
1 TAATATTTCATAATA-AAATTTATCACTAA
10222634 TTCATATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 1 0.04
31 24 0.92
32 1 0.04
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.42
Consensus pattern (31 bp):
TAATATTTCATAATAAAATTTATCACTAACA
Found at i:10227360 original size:19 final size:20
Alignment explanation
Indices: 10227333--10227386 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
10227323 TTTTTTGAAA
10227333 TTATAAAAA-TTAAAAAAAT
1 TTATAAAAACTTAAAAAAAT
*
10227352 TTATGAAAACTTAAAAAAAT
1 TTATAAAAACTTAAAAAAAT
* *
10227372 TCA-AAAAACTCAAAA
1 TTATAAAAACTTAAAA
10227387 TTTTATTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (20 bp):
TTATAAAAACTTAAAAAAAT
Found at i:10227365 original size:20 final size:19
Alignment explanation
Indices: 10227333--10227372 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
10227323 TTTTTTGAAA
10227333 TTATAAAAATTAAAAAAAT
1 TTATAAAAATTAAAAAAAT
*
10227352 TTATGAAAACTTAAAAAAAT
1 TTAT-AAAAATTAAAAAAAT
10227372 T
1 T
10227373 CAAAAAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (19 bp):
TTATAAAAATTAAAAAAAT
Found at i:10227392 original size:37 final size:37
Alignment explanation
Indices: 10227346--10227416 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
10227336 TAAAAATTAA
10227346 AAAAATTTATGAAAACTT-AAAAAAATTCAAAAAACTC
1 AAAAATTTATGAAAA-TTCAAAAAAATTCAAAAAACTC
* * *
10227383 AAAATTTTATTAAAATTCCAAAAAATTCAAAAAA
1 AAAAATTTATGAAAATTCAAAAAAATTCAAAAAA
10227417 AGATGAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 2 0.07
37 28 0.93
ACGTcount: A:0.62, C:0.10, G:0.01, T:0.27
Consensus pattern (37 bp):
AAAAATTTATGAAAATTCAAAAAAATTCAAAAAACTC
Found at i:10227950 original size:34 final size:32
Alignment explanation
Indices: 10227882--10227950 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
10227872 TTTGCAAGAA
*
10227882 TAAATTCAAAATAAATAAATTATTTAATATTT
1 TAAATTCAAAATAAATAAATTATTTAATAATT
*
10227914 TAAATT-AAAATAAAATATATCGTATTTAATAATT
1 TAAATTCAAAAT-AAATAAAT--TATTTAATAATT
10227948 TAA
1 TAA
10227951 TATAAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 5 0.16
32 13 0.41
34 14 0.44
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (32 bp):
TAAATTCAAAATAAATAAATTATTTAATAATT
Found at i:10228918 original size:30 final size:30
Alignment explanation
Indices: 10228883--10228958 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
10228873 AATTTGAGTG
*
10228883 AAAATAAATGTTTAAAGGTTCAATTGGATA
1 AAAATAAATGTTTAAAGGTTCAATTAGATA
* * *
10228913 AAAATAAATGTTTAAATGTTTAATTAGATG
1 AAAATAAATGTTTAAAGGTTCAATTAGATA
* *
10228943 AAAGTAAATATTTAAA
1 AAAATAAATGTTTAAA
10228959 AGCTTGATTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.50, C:0.01, G:0.13, T:0.36
Consensus pattern (30 bp):
AAAATAAATGTTTAAAGGTTCAATTAGATA
Found at i:10229100 original size:29 final size:29
Alignment explanation
Indices: 10229044--10229101 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
10229034 GACCTCTATA
* *
10229044 CTTTCATTGTATTTAAGTAAACTTTTATT
1 CTTTCATTGTATCTAAGTAAACTCTTATT
* **
10229073 CTTTCATTGTCTCTAAGTATGCTCTTATT
1 CTTTCATTGTATCTAAGTAAACTCTTATT
10229102 TCAAATTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.22, C:0.16, G:0.09, T:0.53
Consensus pattern (29 bp):
CTTTCATTGTATCTAAGTAAACTCTTATT
Found at i:10229241 original size:27 final size:27
Alignment explanation
Indices: 10229189--10229238 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
10229179 ATTTTAAGGA
10229189 CTTATTAAGGTGTAAAATAAAGTATGG
1 CTTATTAAGGTGTAAAATAAAGTATGG
*
10229216 CTTATT-AGG-GTATAATAAAGTAT
1 CTTATTAAGGTGTAAAATAAAGTAT
10229239 ATGAACTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 13 0.59
26 3 0.14
27 6 0.27
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (27 bp):
CTTATTAAGGTGTAAAATAAAGTATGG
Found at i:10229503 original size:1 final size:1
Alignment explanation
Indices: 10229499--10229525 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
10229489 AAAAATAAGG
10229499 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
10229526 AAGATTATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:10233594 original size:25 final size:24
Alignment explanation
Indices: 10233558--10233608 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
10233548 TTAAATTTTT
* *
10233558 TATTTTGTATATTATTAAACATAAA
1 TATTTTGTATATT-TCAAAAATAAA
10233583 TATTTT-TAATATTTCAAAAATAAA
1 TATTTTGT-ATATTTCAAAAATAAA
10233607 TA
1 TA
10233609 GTATTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (24 bp):
TATTTTGTATATTTCAAAAATAAA
Found at i:10233663 original size:39 final size:40
Alignment explanation
Indices: 10233614--10233711 Score: 96
Period size: 42 Copynumber: 2.5 Consensus size: 40
10233604 AAATAGTATT
10233614 ATATTC-TTATTTTAATAATAAATAATAACAT-ATATAATA
1 ATATTCATTATTTTAATAATAAATAATAA-ATAATATAATA
* * **
10233653 ATATTTTTATTATTTTAATAATTAATGTTAAATAATATAATA
1 ATA--TTCATTATTTTAATAATAAATAATAAATAATATAATA
10233695 ATATT-ATT-TTCTTAATA
1 ATATTCATTATT-TTAATA
10233712 TGAATTTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
38 2 0.04
39 12 0.24
40 2 0.04
41 4 0.08
42 30 0.60
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (40 bp):
ATATTCATTATTTTAATAATAAATAATAAATAATATAATA
Found at i:10233671 original size:42 final size:42
Alignment explanation
Indices: 10233620--10233699 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
10233610 TATTATATTC
10233620 TTATTTTAATAATAAATAATAACAT-ATATAATAATATTTTTA
1 TTATTTTAATAATAAATAATAA-ATAATATAATAATATTTTTA
* **
10233662 TTATTTTAATAATTAATGTTAAATAATATAATAATATT
1 TTATTTTAATAATAAATAATAAATAATATAATAATATT
10233700 ATTTTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (42 bp):
TTATTTTAATAATAAATAATAAATAATATAATAATATTTTTA
Found at i:10233910 original size:15 final size:15
Alignment explanation
Indices: 10233871--10233913 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 15
10233861 TTTAATATAA
10233871 AATATAATATTTTAAT
1 AATA-AATATTTTAAT
10233887 AGTATAAATATTTTAAT
1 A--ATAAATATTTTAAT
10233904 AATAAATATT
1 AATAAATATT
10233914 ACTATTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.36
16 1 0.04
17 12 0.48
18 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
AATAAATATTTTAAT
Found at i:10234119 original size:26 final size:24
Alignment explanation
Indices: 10234088--10234146 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
10234078 AATATTTATA
10234088 ATTTTAATAATAAAT-ATTTTCAAT
1 ATTTTAATAA-AAATAATTTTCAAT
* *
10234112 ATAGTTTATTAAAAATAATTTTTAAT
1 AT--TTTAATAAAAATAATTTTCAAT
10234138 ATTTTAATA
1 ATTTTAATA
10234147 GTTATATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 8 0.28
25 4 0.14
26 17 0.59
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
ATTTTAATAAAAATAATTTTCAAT
Found at i:10238245 original size:3 final size:3
Alignment explanation
Indices: 10238237--10238276 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
10238227 CTTTCATTGT
10238237 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10238277 GCTTGATTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10239423 original size:26 final size:26
Alignment explanation
Indices: 10239394--10239449 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
10239384 ATATTCAATG
10239394 AAAATAAA-CAAATAATAAAATTAAA-T
1 AAAATAAATCAAA-AATAAAA-TAAACT
*
10239420 AAAATAAATTAAAAATAAAATAAACT
1 AAAATAAATCAAAAATAAAATAAACT
10239446 AAAA
1 AAAA
10239450 ATATAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 4 0.15
26 20 0.74
27 3 0.11
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (26 bp):
AAAATAAATCAAAAATAAAATAAACT
Found at i:10239437 original size:16 final size:16
Alignment explanation
Indices: 10239416--10239462 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 16
10239406 TAATAAAATT
*
10239416 AAATAAAATAAATTAA
1 AAATAAAATAAATAAA
10239432 AAATAAAATAAACTAAA
1 AAATAAAATAAA-TAAA
10239449 AATATAAAATAAAT
1 AA-ATAAAATAAAT
10239463 GAAATCAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 12 0.43
17 6 0.21
18 10 0.36
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAAATAAATAAA
Found at i:10239467 original size:16 final size:16
Alignment explanation
Indices: 10239418--10239484 Score: 62
Period size: 18 Copynumber: 3.9 Consensus size: 16
10239408 ATAAAATTAA
* *
10239418 ATAAAATAAATTAAAA
1 ATAAAATAAATGAAAT
*
10239434 ATAAAATAAACTAAAAAT
1 ATAAAATAAA-T-GAAAT
10239452 ATAAAATAAATGAAAT
1 ATAAAATAAATGAAAT
*
10239468 CAGAAAATAAAATGAAA
1 -ATAAAAT-AAATGAAA
10239485 ATGGAAAAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
16 14 0.33
17 8 0.19
18 21 0.49
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (16 bp):
ATAAAATAAATGAAAT
Found at i:10239480 original size:5 final size:5
Alignment explanation
Indices: 10239394--10239461 Score: 52
Period size: 5 Copynumber: 13.6 Consensus size: 5
10239384 ATATTCAATG
* *
10239394 AAAAT AAACA- AATAAT AAAAT TAAAT AAAAT AAATT AAAAAT AAAAT
1 AAAAT AAA-AT AA-AAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT
* *
10239441 AAACT -AAA- AATAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAA
10239462 TGAAATCAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
4 4 0.08
5 37 0.76
6 8 0.16
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:10240218 original size:12 final size:13
Alignment explanation
Indices: 10240196--10240228 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
10240186 ACCAGTTAGG
*
10240196 AAAAAAAATAAAT
1 AAAATAAATAAAT
10240209 -AAATAAATAAAT
1 AAAATAAATAAAT
10240221 AAAATAAA
1 AAAATAAA
10240229 AATAAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:10240256 original size:3 final size:3
Alignment explanation
Indices: 10240250--10240285 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
10240240 GATAATAAGG
*
10240250 ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10240286 TGATATAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10240575 original size:37 final size:37
Alignment explanation
Indices: 10240531--10240633 Score: 107
Period size: 37 Copynumber: 2.8 Consensus size: 37
10240521 AATAGTTCGT
* * *
10240531 AAAATGATTTGGACTGAGTTGAGATCGAAAAGTCAAA
1 AAAATGATTTGGACTGAGTCGAGATCGAAAAATAAAA
* * * * * **
10240568 AAGATGATATAGACTAAGTCGAAATAAAAAAATAAAA
1 AAAATGATTTGGACTGAGTCGAGATCGAAAAATAAAA
*
10240605 AAAATGATTTGGACTGAGTCCAGATCGAA
1 AAAATGATTTGGACTGAGTCGAGATCGAA
10240634 TGACCGAGAC
Statistics
Matches: 48, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.49, C:0.09, G:0.20, T:0.22
Consensus pattern (37 bp):
AAAATGATTTGGACTGAGTCGAGATCGAAAAATAAAA
Found at i:10241807 original size:19 final size:17
Alignment explanation
Indices: 10241785--10241842 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
10241775 TAAGTTTCCA
*
10241785 TTTTCCTCTTTTTCTTTCT
1 TTTTTCTCTTTTTC-TT-T
* *
10241804 TTTTTCACTTTATCTTT
1 TTTTTCTCTTTTTCTTT
* *
10241821 TTTTTTTTTTTTTCTTT
1 TTTTTCTCTTTTTCTTT
10241838 TTTTT
1 TTTTT
10241843 GGTTCTTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
17 19 0.59
18 2 0.06
19 11 0.34
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTCTCTTTTTCTTT
Found at i:10246751 original size:169 final size:168
Alignment explanation
Indices: 10246469--10246809 Score: 587
Period size: 169 Copynumber: 2.0 Consensus size: 168
10246459 GTAATCATCC
* *
10246469 AATAGTTTAGAGGATAGAAATTATATTTTGTTTTTTTATCAATTTTTTTGAAAATTGGTTTATAA
1 AATAGTTTAGAAGATAGAAATTATATTTTGTTTTTTTATCAATTTTTTTGAAAATTGATTTATAA
*
10246534 AATTTTTCAATAGTTTGATGGATTCCATAAATTTACTTAAATTTTTTTTTTTTACAACTTATTTG
66 AATTTTTCAATAGTTTGATGGATTCCATAAATTTACTTAAA--ATTTTTTTTTACAACTTATTTG
10246599 AAAAGATTATTTTTTGTTTTTTATTTTTA-TTTTTTAAAA
129 AAAAGATTATTTTTTGTTTTTTATTTTTATTTTTTTAAAA
* * *
10246638 AATAGTTTAGAAGATAGAAATTATATTTTATTTTTTTTAT-TATTTTTTTGAAAATTGATTTATG
1 AATAGTTTAGAAGATAGAAATTATATTTT-GTTTTTTTATCAATTTTTTTGAAAATTGATTTATA
10246702 AAATTTTTCAATAGTTTGATGGATTCCATAAATTTACTTAAAATTTTTTTTTACAACTTATTTGA
65 AAATTTTTCAATAGTTTGATGGATTCCATAAATTTACTTAAAATTTTTTTTTACAACTTATTTGA
10246767 AAAGATTATTTTTTGTTTTTTATTTTTATTTTTTTAAAA
130 AAAGATTATTTTTTGTTTTTTATTTTTATTTTTTTAAAA
10246806 AATA
1 AATA
10246810 ACAATAGAAT
Statistics
Matches: 164, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
167 50 0.30
168 14 0.09
169 91 0.55
170 9 0.05
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.55
Consensus pattern (168 bp):
AATAGTTTAGAAGATAGAAATTATATTTTGTTTTTTTATCAATTTTTTTGAAAATTGATTTATAA
AATTTTTCAATAGTTTGATGGATTCCATAAATTTACTTAAAATTTTTTTTTACAACTTATTTGAA
AAGATTATTTTTTGTTTTTTATTTTTATTTTTTTAAAA
Found at i:10246886 original size:31 final size:30
Alignment explanation
Indices: 10246838--10246901 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 30
10246828 ATATTTAGTG
10246838 AAAATAAACAAATAATAAAATTAAAAAATTA
1 AAAATAAACAAATAATAAAATTAAAAAA-TA
*
10246869 AAAATATA-AAATAAATAAAATTAAAAAATA
1 AAAATAAACAAAT-AATAAAATTAAAAAATA
10246899 AAA
1 AAA
10246902 TGAAAATGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 9 0.29
31 22 0.71
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.22
Consensus pattern (30 bp):
AAAATAAACAAATAATAAAATTAAAAAATA
Found at i:10246900 original size:17 final size:16
Alignment explanation
Indices: 10246838--10246899 Score: 67
Period size: 17 Copynumber: 3.9 Consensus size: 16
10246828 ATATTTAGTG
10246838 AAAA-TAAACAAATAAT
1 AAAATTAAA-AAATAAT
10246854 AAAATTAAAAAAT--T
1 AAAATTAAAAAATAAT
* *
10246868 AAAAATATAAAATAAAT
1 AAAATTAAAAAAT-AAT
10246885 AAAATTAAAAAATAA
1 AAAATTAAAAAATAA
10246900 AATGAAAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 12 0.32
16 10 0.26
17 16 0.42
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATTAAAAAATAAT
Found at i:10247192 original size:12 final size:12
Alignment explanation
Indices: 10247175--10247210 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
10247165 CATACTCCAC
10247175 TGAAAAATTCAT
1 TGAAAAATTCAT
10247187 TGAAAAATTCAT
1 TGAAAAATTCAT
*
10247199 CGAAAAATTCAT
1 TGAAAAATTCAT
10247211 GGTCATCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.31
Consensus pattern (12 bp):
TGAAAAATTCAT
Found at i:10247726 original size:20 final size:20
Alignment explanation
Indices: 10247677--10247739 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
10247667 ACTAGTTAAG
**
10247677 AAAGAAAATCGAAATAAAAT
1 AAAGAAAATAAAAATAAAAT
*
10247697 AAATAAAATAAAAATAAAAT
1 AAAGAAAATAAAAATAAAAT
* * *
10247717 AGAGATAATAAAGATAATAAT
1 AAAGAAAATAAAAATAA-AAT
10247738 AA
1 AA
10247740 TAATAATATA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
20 30 0.88
21 4 0.12
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.19
Consensus pattern (20 bp):
AAAGAAAATAAAAATAAAAT
Found at i:10247736 original size:3 final size:3
Alignment explanation
Indices: 10247721--10247807 Score: 67
Period size: 3 Copynumber: 29.3 Consensus size: 3
10247711 TAAAATAGAG
*
10247721 ATA ATA A-A GATA ATA ATA ATA ATA AT- ATA ATA ATA ATA AT- ATG
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
10247764 AT- ATA ACA TATAA ATCA ATA ACA A-A ATA ATA ATA ATA GTA ATA A
1 ATA ATA ATA -AT-A AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10247808 CAATTGGTTC
Statistics
Matches: 70, Mismatches: 6, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
2 9 0.13
3 53 0.76
4 7 0.10
5 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:10247752 original size:17 final size:17
Alignment explanation
Indices: 10247730--10247800 Score: 70
Period size: 17 Copynumber: 3.9 Consensus size: 17
10247720 GATAATAAAG
10247730 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
10247747 ATAATAATAATAATATGAT
1 ATAATAATAATAATA--AT
* *
10247766 ATAACATATAAATCAATAAC
1 ATAATA-AT-AAT-AATAAT
*
10247786 AAAATAATAATAATA
1 ATAATAATAATAATA
10247801 GTAATAACAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
17 19 0.42
18 3 0.07
19 9 0.20
20 7 0.16
21 3 0.07
22 4 0.09
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:10258213 original size:12 final size:13
Alignment explanation
Indices: 10258186--10258215 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
10258176 TTTTTCCCTC
10258186 TTTTTTTTTTAGT
1 TTTTTTTTTTAGT
10258199 TTTTTTTTTTA-T
1 TTTTTTTTTTAGT
10258211 TTTTT
1 TTTTT
10258216 CGTGCTGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.07, C:0.00, G:0.03, T:0.90
Consensus pattern (13 bp):
TTTTTTTTTTAGT
Found at i:10261091 original size:564 final size:564
Alignment explanation
Indices: 10260012--10261113 Score: 1956
Period size: 564 Copynumber: 2.0 Consensus size: 564
10260002 TGTGCCCAAA
**
10260012 CCAATCATGACTGGTAACAAAGGTCAATGGTTCACCGGTAGCATTGTAAACCAGGCAGAGTGTGG
1 CCAATCATGACCAGTAACAAAGGTCAATGGTTCACCGGTAGCATTGTAAACCAGGCAGAGTGTGG
*
10260077 AGACTCCAGTGCCCCATTGACTTTTCAACGCCTTCACGTATCCCAAAGCCTTTTCGTACTTATCA
66 AGACTCCAGTGCCCCATTGACTTTTCAACGCCTTCACGTATCCCAAAGCCTTTTCGTACTTACCA
10260142 TCTCTTTCTTTCCATCGCCTAGCCACATCTGCTCTGATTTGGCGTGCCCTGTTCGCATACTCCGG
131 TCTCTTTCTTTCCATCGCCTAGCCACATCTGCTCTGATTTGGCGTGCCCTGTTCGCATACTCCGG
10260207 GATTCCCATCACAACATTTTCGGTGACGGGCTCCCCAAACACGTCAGTTGCCAATGCCATAGTTG
196 GATTCCCATCACAACATTTTCGGTGACGGGCTCCCCAAACACGTCAGTTGCCAATGCCATAGTTG
10260272 ATTCTTGTGAGTGTTTTAGCAATTAAGAACCTCCTTTAGTTCCCAAACACACGTTTATAATACCT
261 ATTCTTGTGAGTGTTTTAGCAATTAAGAACCTCCTTTAGTTCCCAAACACACGTTTATAATACCT
*
10260337 GATGGAGAGTACCGTCCTTTTCATGCATTAAGATATTGCCCAATTACAACATTAATGAATATAGC
326 GATGGAGAGTACCGTCCTTTTCATGCATTAAGATATTGCCCAATTACAACATTAATGAAAATAGC
* **
10260402 TATTTGAGTGTTCAAGCAAAAATTTAGGTTTGGAAAAATGATACCTACCTGTCCCTCCCTTGTCC
391 TATTTGAGTGTTCAAGCAAAAATTTAGGTTTGGAAAAATGATAACTACCTACCCCTCCCTTGTCC
* * *
10260467 TGATTAGCGAGGCAATTTTATTGTTTTTGTCCCACCACTAGTCGAATTTAGGTTTAGAAAAATGA
456 TGATTAGCAAGGCAATTTTATTGTTTTTATCCCACCACTAGTCGAATTTAGGTATAGAAAAATGA
10260532 CACCTACCTACCCCTCCCCTCTCCCGATTCAAATTTATTGTCAC
521 CACCTACCTACCCCTCCCCTCTCCCGATTCAAATTTATTGTCAC
*
10260576 CCAATCATGACCAGTAACAAAGGTCAATGGTTCACCGGTAGCATTGTAAACGAGGCAGAGTGTGG
1 CCAATCATGACCAGTAACAAAGGTCAATGGTTCACCGGTAGCATTGTAAACCAGGCAGAGTGTGG
* * * *
10260641 AGACTCCTGTGCCCCATTGACTTTTCAACGCCTTGACGTATTCCAAAGCTTTTTCGTACTTACCA
66 AGACTCCAGTGCCCCATTGACTTTTCAACGCCTTCACGTATCCCAAAGCCTTTTCGTACTTACCA
10260706 TCTCTTTCTTTCCATCGCCTAGCCACATCTGCTCTGATTTGGCGTGCCCTGTTCGCATACTCCGG
131 TCTCTTTCTTTCCATCGCCTAGCCACATCTGCTCTGATTTGGCGTGCCCTGTTCGCATACTCCGG
10260771 GATTCCCATCACAACATTTTCGGTGACGGGCTCCCCAAACACGTCAGTTGCCAATGCCATAGTTG
196 GATTCCCATCACAACATTTTCGGTGACGGGCTCCCCAAACACGTCAGTTGCCAATGCCATAGTTG
*
10260836 ATTCTTGTGAGTGTTTTAGTAATTAAGAACCTCCTTTAGTTCCCAAACACACGCTTATATAATAC
261 ATTCTTGTGAGTGTTTTAGCAATTAAGAACCTCCTTTAGTTCCCAAACACACG-TT-TATAATAC
* *
10260901 CTGATGGAGAGTACTGTCCTTTTCATGCATTAAGATATTGCCCAATTACAACATTGATGAAAATA
324 CTGATGGAGAGTACCGTCCTTTTCATGCATTAAGATATTGCCCAATTACAACATTAATGAAAATA
* * *
10260966 GCTATTTGAGTGTTCAAGCAACAATTTAGGTTTGGAAAAATGGTAACTGCCTACCCCTCCCTTGT
389 GCTATTTGAGTGTTCAAGCAAAAATTTAGGTTTGGAAAAATGATAACTACCTACCCCTCCCTTGT
* *
10261031 CCTGATTAGCAAGTCAATTTTATTGTTTTTATCCCACCACTTGTCGAATTTA-G-ATAGAAAAAT
454 CCTGATTAGCAAGGCAATTTTATTGTTTTTATCCCACCACTAGTCGAATTTAGGTATAGAAAAAT
*
10261094 GATACCTACCTACCCCTCCC
519 GACACCTACCTACCCCTCCC
10261114 TTGTCGTGAT
Statistics
Matches: 512, Mismatches: 24, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
564 332 0.65
565 3 0.01
566 177 0.35
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (564 bp):
CCAATCATGACCAGTAACAAAGGTCAATGGTTCACCGGTAGCATTGTAAACCAGGCAGAGTGTGG
AGACTCCAGTGCCCCATTGACTTTTCAACGCCTTCACGTATCCCAAAGCCTTTTCGTACTTACCA
TCTCTTTCTTTCCATCGCCTAGCCACATCTGCTCTGATTTGGCGTGCCCTGTTCGCATACTCCGG
GATTCCCATCACAACATTTTCGGTGACGGGCTCCCCAAACACGTCAGTTGCCAATGCCATAGTTG
ATTCTTGTGAGTGTTTTAGCAATTAAGAACCTCCTTTAGTTCCCAAACACACGTTTATAATACCT
GATGGAGAGTACCGTCCTTTTCATGCATTAAGATATTGCCCAATTACAACATTAATGAAAATAGC
TATTTGAGTGTTCAAGCAAAAATTTAGGTTTGGAAAAATGATAACTACCTACCCCTCCCTTGTCC
TGATTAGCAAGGCAATTTTATTGTTTTTATCCCACCACTAGTCGAATTTAGGTATAGAAAAATGA
CACCTACCTACCCCTCCCCTCTCCCGATTCAAATTTATTGTCAC
Found at i:10261146 original size:87 final size:87
Alignment explanation
Indices: 10261000--10261162 Score: 245
Period size: 87 Copynumber: 1.9 Consensus size: 87
10260990 TTTAGGTTTG
* *
10261000 GAAAAATGGTAACTGCCTACCCCTCCCTTGTCCTGATTAGCAAGTCAATTTTATTGTTTTTATCC
1 GAAAAATGATAACTACCTACCCCTCCCTTGTCCTGATTAGCAAGTCAATTTTATTGTTTTTATCC
*
10261065 CACCACTTGTCGAATTTAGATA
66 CACCACCTGTCGAATTTAGATA
* * * * *
10261087 GAAAAATGATACCTACCTACCCCTCCCTTGTCGTGATTGGCAAGTCACTTTTATTGTTTTTGTCC
1 GAAAAATGATAACTACCTACCCCTCCCTTGTCCTGATTAGCAAGTCAATTTTATTGTTTTTATCC
*
10261152 CATCACCTGTC
66 CACCACCTGTC
10261163 CATTGGCTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 67 1.00
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (87 bp):
GAAAAATGATAACTACCTACCCCTCCCTTGTCCTGATTAGCAAGTCAATTTTATTGTTTTTATCC
CACCACCTGTCGAATTTAGATA
Found at i:10262742 original size:23 final size:23
Alignment explanation
Indices: 10262696--10262758 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
10262686 AATTTATCAA
* *
10262696 TTAAAAAATAAATATACAATATTT
1 TTAAAAAATAAATATA-AAAAATT
*
10262720 TTAAAAATTAAATA-AAAAAATT
1 TTAAAAAATAAATATAAAAAATT
* *
10262742 TTAAAATATAAAAATAA
1 TTAAAAAATAAATATAA
10262759 TATTATAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 16 0.50
23 3 0.09
24 13 0.41
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TTAAAAAATAAATATAAAAAATT
Found at i:10262975 original size:15 final size:15
Alignment explanation
Indices: 10262957--10262990 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
10262947 TTGATTTGAA
10262957 AAAATAAAATATAAT
1 AAAATAAAATATAAT
*
10262972 AAAATAAATTATAAT
1 AAAATAAAATATAAT
10262987 AAAA
1 AAAA
10262991 AATAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATAAAATATAAT
Found at i:10267296 original size:19 final size:18
Alignment explanation
Indices: 10267268--10267303 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
10267258 TCTGATCGAA
10267268 AAACTCGTCGAAAAATTC
1 AAACTCGTCGAAAAATTC
*
10267286 AAACTTCGTCGGAAAATT
1 AAAC-TCGTCGAAAAATT
10267304 TTCTCAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (18 bp):
AAACTCGTCGAAAAATTC
Found at i:10267666 original size:22 final size:21
Alignment explanation
Indices: 10267641--10267750 Score: 64
Period size: 22 Copynumber: 5.0 Consensus size: 21
10267631 TAAAAAAGAT
*
10267641 AAATATATTA-ATAGATAACAAA
1 AAATA-ATTAGATAAATAA-AAA
*
10267663 AAATAATTAGATAAATAAAAG
1 AAATAATTAGATAAATAAAAA
*
10267684 AAATAGATAAATGATAATAATAAAAA
1 AAATA-AT-TA-GAT-A-AATAAAAA
* * *
10267710 AATAAAAGTAGATAAATAATAA
1 AA-ATAATTAGATAAATAAAAA
*
10267732 AAAT-ATTA-ATAGATAAAAA
1 AAATAATTAGATAAATAAAAA
10267751 TTAAAAAAAT
Statistics
Matches: 69, Mismatches: 12, Indels: 17
0.70 0.12 0.17
Matches are distributed among these distances:
19 9 0.13
20 3 0.04
21 12 0.17
22 23 0.33
23 2 0.03
24 6 0.09
25 2 0.03
26 10 0.14
27 2 0.03
ACGTcount: A:0.67, C:0.01, G:0.07, T:0.25
Consensus pattern (21 bp):
AAATAATTAGATAAATAAAAA
Found at i:10267682 original size:17 final size:16
Alignment explanation
Indices: 10267637--10267728 Score: 62
Period size: 17 Copynumber: 5.6 Consensus size: 16
10267627 AAAATAAAAA
* *
10267637 AGATAAATATATTAAT
1 AGATAAATAAAATAAT
*
10267653 AGATAACAAAAAATAATT
1 AGATAA-ATAAAATAA-T
*
10267671 AGATAAATAAAAGAAAT
1 AGATAAATAAAA-TAAT
*
10267688 AGATAAATGATAATAAT
1 AGATAAAT-AAAATAAT
* * *
10267705 AAAAAAAT-AAA-AGT
1 AGATAAATAAAATAAT
10267719 AGATAAATAA
1 AGATAAATAA
10267729 TAAAAATATT
Statistics
Matches: 58, Mismatches: 13, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
14 8 0.14
15 3 0.05
16 6 0.10
17 29 0.50
18 12 0.21
ACGTcount: A:0.66, C:0.01, G:0.09, T:0.24
Consensus pattern (16 bp):
AGATAAATAAAATAAT
Found at i:10267712 original size:25 final size:25
Alignment explanation
Indices: 10267676--10267765 Score: 82
Period size: 23 Copynumber: 3.6 Consensus size: 25
10267666 TAATTAGATA
10267676 AATAAAAGAAATAGATAAAT-GAT-AAT
1 AATAAAA-AAATA-A-AAATAGATAAAT
*
10267702 AATAAAAAAATAAAAGTAGATAAAT
1 AATAAAAAAATAAAAATAGATAAAT
**
10267727 AAT--AAAAATATTAATAGATAAA-
1 AATAAAAAAATAAAAATAGATAAAT
10267749 AATTAAAAAAATAAAAA
1 AA-TAAAAAAATAAAAA
10267766 AATATTAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
22 2 0.04
23 20 0.38
24 4 0.08
25 20 0.38
26 7 0.13
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (25 bp):
AATAAAAAAATAAAAATAGATAAAT
Found at i:10267730 original size:17 final size:17
Alignment explanation
Indices: 10267670--10267736 Score: 54
Period size: 17 Copynumber: 4.1 Consensus size: 17
10267660 AAAAAATAAT
10267670 TAGATAAATAA-AAGAAA
1 TAGATAAATAATAAG-AA
* *
10267687 TAGATAAATGATAATAA
1 TAGATAAATAATAAGAA
10267704 TA-A-AAA-AATAA-AA
1 TAGATAAATAATAAGAA
*
10267717 GTAGATAAATAATAAAAA
1 -TAGATAAATAATAAGAA
10267735 TA
1 TA
10267737 TTAATAGATA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
13 2 0.05
14 6 0.15
15 4 0.10
16 4 0.10
17 21 0.51
18 4 0.10
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (17 bp):
TAGATAAATAATAAGAA
Found at i:10267736 original size:48 final size:49
Alignment explanation
Indices: 10267629--10267764 Score: 140
Period size: 48 Copynumber: 2.8 Consensus size: 49
10267619 AATTAATCAA
* * *
10267629 AATAAAAA-AGATAAATATATTAATAGATAACAAAAA-ATAATTAGATAAAT
1 AATAAAAATAGATAAATAGA-TAATA-ATAA-AAAAATAAAAGTAGATAAAT
10267679 AA-AAGAAATAGATAAAT-GATAATAATAAAAAAATAAAAGTAGATAAAT
1 AATAA-AAATAGATAAATAGATAATAATAAAAAAATAAAAGTAGATAAAT
* *
10267727 AATAAAAAT--ATTAATAGATAAAAATTAAAAAAATAAAA
1 AATAAAAATAGATAAATAGATAATAA-TAAAAAAATAAAA
10267765 AAATATTAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
46 5 0.07
47 12 0.16
48 35 0.47
49 9 0.12
50 6 0.08
51 8 0.11
ACGTcount: A:0.69, C:0.01, G:0.07, T:0.24
Consensus pattern (49 bp):
AATAAAAATAGATAAATAGATAATAATAAAAAAATAAAAGTAGATAAAT
Found at i:10267767 original size:33 final size:35
Alignment explanation
Indices: 10267723--10267800 Score: 108
Period size: 33 Copynumber: 2.3 Consensus size: 35
10267713 AAAAGTAGAT
*
10267723 AAATAATAAAAATATTAATAGATA-A-AAATTAA-AA
1 AAATAA-AAAAATATTAATAAATAGAGAAA-TAATAA
10267757 AAATAAAAAAATATTAATAAATAGAGAAATAATAA
1 AAATAAAAAAATATTAATAAATAGAGAAATAATAA
10267792 AAATAAAAA
1 AAATAAAAA
10267801 TAAAAGCTAG
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
33 16 0.40
34 10 0.25
35 14 0.35
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (35 bp):
AAATAAAAAAATATTAATAAATAGAGAAATAATAA
Found at i:10268159 original size:41 final size:41
Alignment explanation
Indices: 10268079--10268309 Score: 288
Period size: 41 Copynumber: 5.7 Consensus size: 41
10268069 TCATCTAAAT
* * * *
10268079 AGAGACTCCACGACCTT-GAAAATAGATGG-TACC-CTAATC
1 AGAGGCTCAACGACTTTGGAAAATAAATGGCT-CCTCTAATC
* * **
10268118 AGAGGCTCAATGACTTTGAAAAATAAATGTTTCCTCTAATC
1 AGAGGCTCAACGACTTTGGAAAATAAATGGCTCCTCTAATC
*
10268159 AGAGGCTCAATGACTTTGGAAAATAAATGGCTCCTCTAATC
1 AGAGGCTCAACGACTTTGGAAAATAAATGGCTCCTCTAATC
* * *
10268200 AAAGGCTTAACGACTTTGGGAAATAAATGGCTCCTCTAATC
1 AGAGGCTCAACGACTTTGGAAAATAAATGGCTCCTCTAATC
* * *
10268241 AAAGGCTCAACAACTTTGAAAAATAAATGGCTCCTCTAATC
1 AGAGGCTCAACGACTTTGGAAAATAAATGGCTCCTCTAATC
*
10268282 AGAGGCTCAACGACTTTGGAAACTAAAT
1 AGAGGCTCAACGACTTTGGAAAATAAAT
10268310 TACAATTCTC
Statistics
Matches: 167, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 13 0.08
40 11 0.07
41 143 0.86
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (41 bp):
AGAGGCTCAACGACTTTGGAAAATAAATGGCTCCTCTAATC
Found at i:10268356 original size:123 final size:123
Alignment explanation
Indices: 10268112--10268526 Score: 344
Period size: 123 Copynumber: 3.4 Consensus size: 123
10268102 AGATGGTACC
* ** *
10268112 CTAATCAGAGGCTCAATGACTTTGAAAAATAAATGTTTCCTCTAATCAGAGGCTCAATGACTTTG
1 CTAATCAGAGGCTCAATAACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTG
** * * ***
10268177 GAAAATAAATGGCTCCTCTAATCAAAGGCTTAACGACTTTGGGAAATAAATGGCTCCT
66 GAAAATAAATTACTCCTCTAAGCAAAGGCATAACGACTTTCAAAAATAAATGGCTCCT
* *
10268235 CTAATCAAAGGCTCAACAACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTG
1 CTAATCAGAGGCTCAATAACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTG
* * * * *
10268300 GAAACTAAATTACAATTCTCTAAGCAGAA-GCATCATGAC-TTCAAAAATGAAT-GCTCCT
66 GAAAATAAATTAC--TCCTCTAAGCA-AAGGCATAACGACTTTCAAAAATAAATGGCTCCT
* * * * * *
10268358 CTAAAT-AGAGGCACCATAACTTTGAAAAGTAAATTGCTTCTCTAAAT-AGAGGCAATC-TCGAC
1 CT-AATCAGAGGCTCAATAACTTTGAAAAATAAATGGCTCCTCT-AATCAGAGGC--TCAACGAC
* * * * * * * *
10268420 TTTGGAAAATAAATTATTCTTTTAAACAGAGG-AGTCACGACTTTGAAAAA-AAATTGCTCCT
62 TTTGGAAAATAAATTACTCCTCTAAGCAAAGGCA-TAACGACTTTCAAAAATAAATGGCTCCT
* *** * *
10268481 CTAAACAGAGGCAGTAGAACTTTGAAAAAATAAATTGCTCCT-TAAT
1 CTAATCAGAGGCTCAATAACTTTG-AAAAATAAATGGCTCCTCTAAT
10268527 AATCATGTCC
Statistics
Matches: 237, Mismatches: 42, Indels: 27
0.77 0.14 0.09
Matches are distributed among these distances:
121 2 0.01
122 22 0.09
123 144 0.61
124 49 0.21
125 18 0.08
126 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (123 bp):
CTAATCAGAGGCTCAATAACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTG
GAAAATAAATTACTCCTCTAAGCAAAGGCATAACGACTTTCAAAAATAAATGGCTCCT
Found at i:10269125 original size:22 final size:22
Alignment explanation
Indices: 10269078--10269136 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
10269068 GGTTTCACTC
*
10269078 CTCAAAGATTCTCATTTTAAAA
1 CTCAAAGATTCTCATTTGAAAA
***
10269100 CTCAAAGATTCTCATTTGAGTT
1 CTCAAAGATTCTCATTTGAAAA
*
10269122 CTCAAAAATTCTCAT
1 CTCAAAGATTCTCAT
10269137 CAACATATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (22 bp):
CTCAAAGATTCTCATTTGAAAA
Found at i:10270295 original size:19 final size:19
Alignment explanation
Indices: 10270273--10270316 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
10270263 TGAGTCTTCC
10270273 TTTTTCTTTCTTTCATCTT
1 TTTTTCTTTCTTTCATCTT
* **
10270292 TTTTTCTTTTTTTTTTCTT
1 TTTTTCTTTCTTTCATCTT
10270311 TTTTTC
1 TTTTTC
10270317 CTTTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTCTTTCTTTCATCTT
Found at i:10270297 original size:11 final size:10
Alignment explanation
Indices: 10270273--10270333 Score: 65
Period size: 9 Copynumber: 6.3 Consensus size: 10
10270263 TGAGTCTTCC
10270273 TTTT-TCTTT
1 TTTTCTCTTT
*
10270282 CTTTCATCTTT
1 TTTTC-TCTTT
10270293 TTTTCT-TTT
1 TTTTCTCTTT
*
10270302 TTTTTTCTTT
1 TTTTCTCTTT
10270312 TTTTC-CTTT
1 TTTTCTCTTT
*
10270321 TTTTTTCTTT
1 TTTTCTCTTT
10270331 TTT
1 TTT
10270334 CACCTTTCAC
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
9 19 0.44
10 15 0.35
11 9 0.21
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTCTCTTT
Found at i:10270309 original size:30 final size:30
Alignment explanation
Indices: 10270273--10270333 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
10270263 TGAGTCTTCC
10270273 TTTTTCTTTCTTTCATCTTTTTTTCTTTTT
1 TTTTTCTTTCTTTCATCTTTTTTTCTTTTT
* * *
10270303 TTTTTCTTTTTTTCCTTTTTTTTTCTTTTT
1 TTTTTCTTTCTTTCATCTTTTTTTCTTTTT
10270333 T
1 T
10270334 CACCTTTCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (30 bp):
TTTTTCTTTCTTTCATCTTTTTTTCTTTTT
Found at i:10270321 original size:19 final size:19
Alignment explanation
Indices: 10270288--10270333 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
10270278 CTTTCTTTCA
*
10270288 TCTTTTTTTCTTTTTTTTT
1 TCTTTTTTTCCTTTTTTTT
10270307 TCTTTTTTTCCTTTTTTTT
1 TCTTTTTTTCCTTTTTTTT
10270326 TCTTTTTT
1 TCTTTTTT
10270334 CACCTTTCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (19 bp):
TCTTTTTTTCCTTTTTTTT
Found at i:10270339 original size:20 final size:19
Alignment explanation
Indices: 10270288--10270340 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
10270278 CTTTCTTTCA
* *
10270288 TCTTTTTTTCTTTTTTTTT
1 TCTTTTTTACCTTTTTTTT
*
10270307 TCTTTTTTTCCTTTTTTTT
1 TCTTTTTTACCTTTTTTTT
10270326 TCTTTTTTCACCTTT
1 TCTTTTTT-ACCTTT
10270341 CACCATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 26 0.84
20 5 0.16
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (19 bp):
TCTTTTTTACCTTTTTTTT
Found at i:10270374 original size:33 final size:33
Alignment explanation
Indices: 10270318--10270381 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
10270308 CTTTTTTTCC
10270318 TTTTTTTTTCTTTTTTCACCTTTCA-CCATTTT
1 TTTTTTTTTCTTTTTTCACCTTTCATCCATTTT
* *
10270350 TTTTTCTTTTTTTTTTTCATCTTTCATCCATT
1 TTTTT-TTTTCTTTTTTCACCTTTCATCCATT
10270382 AGTAATATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 5 0.18
33 18 0.64
34 5 0.18
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.70
Consensus pattern (33 bp):
TTTTTTTTTCTTTTTTCACCTTTCATCCATTTT
Found at i:10272655 original size:793 final size:793
Alignment explanation
Indices: 10271129--10272715 Score: 2960
Period size: 793 Copynumber: 2.0 Consensus size: 793
10271119 GAAAGGTGAC
*
10271129 AAAGCATGAAACAGTAGTTGAATGAAGGAGAAAATATAATGAAATACATTAAATTACCTTTTATT
1 AAAGCATGAAACAGTAGTTGAATGAAAGAGAAAATATAATGAAATACATTAAATTACCTTTTATT
*
10271194 GAAATGATAACAAATGAAATCCTACTGCCTAGAAGAAACCTAACATTATTCTAAAAAAAATCTTA
66 GAAATGATAACAAATGAAATCCTACTGCCTAAAAGAAACCTAACATTATTCTAAAAAAAATCTTA
10271259 GAATGACAAGAAACTTTCAATCAGCCTTATCTTCATTCTTCAAAATTATCCCCTTATGCGATCAG
131 GAATGACAAGAAACTTTCAATCAGCCTTATCTTCATTCTTCAAAATTATCCCCTTATGCGATCAG
10271324 GTGAAGAATCTTTATTGGCATCTTGCCCCTCAATTCATTGTGACTCTCCGGACCCTTTCTGACCA
196 GTGAAGAATCTTTATTGGCATCTTGCCCCTCAATTCATTGTGACTCTCCGGACCCTTTCTGACCA
10271389 ATGTGTTCTTGATTTTCACTCAGAACATTATGATTTGGTAATGGGTTACCACTAACATTAGGTGT
261 ATGTGTTCTTGATTTTCACTCAGAACATTATGATTTGGTAATGGGTTACCACTAACATTAGGTGT
*
10271454 TGTTGCTCTTTTTTGATCAAAACTTACCATTTCATCATTGATTAACCGTTGCACCTTATGCTTTA
326 TGTTGCTCTTCTTTGATCAAAACTTACCATTTCATCATTGATTAACCGTTGCACCTTATGCTTTA
10271519 AAGCAGTGCAATTTTTAGTAGAATGGCCAGTAATTCCATAGTGGTAGTCACAATGGACTGTAGGA
391 AAGCAGTGCAATTTTTAGTAGAATGGCCAGTAATTCCATAGTGGTAGTCACAATGGACTGTAGGA
* * * *
10271584 TCATACCACTTAGGATAGGGTGGCTTGAGCGGCTTCACACAGTTGGAGGTAATCAAGTGGCTATT
456 TCATACCACTTAGGATAGGGTGACTTGAGCGACTCCACACAGTTGGAGGCAATCAAGTGGCTATT
10271649 ATAGAGTTCTCGATATAAATCCATATAAGTCATGGAGATTGCATCAAATACAGGTTTTTCTTGAG
521 ATAGAGTTCTCGATATAAATCCATATAAGTCATGGAGATTGCATCAAATACAGGTTTTTCTTGAG
* *
10271714 TAATCTGTTGCTCTCGTGAACCACTTGCTGGGTTAGTATGGTGAATTTGGGGTCTTACAGGAGTT
586 TAATCTGTTGCTCTCGTGAACCACTTGCTAGGTTAGTAGGGTGAATTTGGGGTCTTACAGGAGTT
10271779 TGAATGTTAAGGCTATATGTAAGATCTTGAGGGCTAAAAATTGATCGGTATATGGATGAATAAGG
651 TGAATGTTAAGGCTATATGTAAGATCTTGAGGGCTAAAAATTGATCGGTATATGGATGAATAAGG
*
10271844 TGGTTGTGAAGCTAGCTGATATAGGTAAGATAAGGCATTATTCACAGTAGGATAGTATGGAGAGT
716 TGGTTGTGAAGCTAGCTGATATAGGTAAGATAAGGCATTATTCACAGTAGGATAGTATGGACAGT
10271909 AACCTTGGGGTGG
781 AACCTTGGGGTGG
10271922 AAAGCATGAAACAGTAGTTGAATGAAAGAGAAAATATAATGAAATACATTAAATTACCTTTTATT
1 AAAGCATGAAACAGTAGTTGAATGAAAGAGAAAATATAATGAAATACATTAAATTACCTTTTATT
* *
10271987 GAAATGATAACAAATGAAATCCTACTGCCTAAAAGAAACCTAATATTATTCTAAAAAAATTCTTA
66 GAAATGATAACAAATGAAATCCTACTGCCTAAAAGAAACCTAACATTATTCTAAAAAAAATCTTA
10272052 GAATGACAAGAAACTTTCAATCAGCCTTATCTTCATTCTTCAAAATTATCCCCTTATGCGATCAG
131 GAATGACAAGAAACTTTCAATCAGCCTTATCTTCATTCTTCAAAATTATCCCCTTATGCGATCAG
*
10272117 GTGAAGAATCTTTATTGGCATCTTGCCCCTCAATTCATTGTGACTCTCCGGACCCTTTCTGATCA
196 GTGAAGAATCTTTATTGGCATCTTGCCCCTCAATTCATTGTGACTCTCCGGACCCTTTCTGACCA
10272182 ATGTGTTCTTGATTTTCACTCAGAACATTATGATTTGGTAATGGGTTACCACTAACATTAGGTGT
261 ATGTGTTCTTGATTTTCACTCAGAACATTATGATTTGGTAATGGGTTACCACTAACATTAGGTGT
*
10272247 TGTTGCTCTTCTTTGATCAAAACTTACCATTTCATCATTGATTAATCGTTGCACCTTATGCTTTA
326 TGTTGCTCTTCTTTGATCAAAACTTACCATTTCATCATTGATTAACCGTTGCACCTTATGCTTTA
*
10272312 AAGCAGTGCAATTTTTAGTAGAATGGCCAGTAATTCCATAGTGGTAGTCATAATGGACTGTAGGA
391 AAGCAGTGCAATTTTTAGTAGAATGGCCAGTAATTCCATAGTGGTAGTCACAATGGACTGTAGGA
10272377 TCATACCACTTAGGATAGGGTGACTTGAGCGACTCCACACAGTTGGAGGCAATCAAGTGGCTATT
456 TCATACCACTTAGGATAGGGTGACTTGAGCGACTCCACACAGTTGGAGGCAATCAAGTGGCTATT
* * * *
10272442 ATAGAGTTCTCGATATAAATCTATATAAGTCATGGGGATTGCATCAAATACAGGTTTTTTTTTAG
521 ATAGAGTTCTCGATATAAATCCATATAAGTCATGGAGATTGCATCAAATACAGGTTTTTCTTGAG
*
10272507 TAATCTGTTGTTCTCGTGAACCACTTGCTAGGTTAGTAGGGTGAATTT-GGGTCTTACAAGGAGT
586 TAATCTGTTGCTCTCGTGAACCACTTGCTAGGTTAGTAGGGTGAATTTGGGGTCTTAC-AGGAGT
*
10272571 TTGAATGTTAAGGCTATATGTAAGATCTTGAGGGCTAAAAATTGATCGGTATATGGATGACTAAG
650 TTGAATGTTAAGGCTATATGTAAGATCTTGAGGGCTAAAAATTGATCGGTATATGGATGAATAAG
*
10272636 GTGGTTGTGAAGCTAGCTGATATGGGTAAGATAAGGCATTATTCACAGTAGGATAGTATGGACAG
715 GTGGTTGTGAAGCTAGCTGATATAGGTAAGATAAGGCATTATTCACAGTAGGATAGTATGGACAG
10272701 TAACCTTGGGGTGG
780 TAACCTTGGGGTGG
10272715 A
1 A
10272716 TAGGGTTGAT
Statistics
Matches: 771, Mismatches: 22, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
792 9 0.01
793 762 0.99
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (793 bp):
AAAGCATGAAACAGTAGTTGAATGAAAGAGAAAATATAATGAAATACATTAAATTACCTTTTATT
GAAATGATAACAAATGAAATCCTACTGCCTAAAAGAAACCTAACATTATTCTAAAAAAAATCTTA
GAATGACAAGAAACTTTCAATCAGCCTTATCTTCATTCTTCAAAATTATCCCCTTATGCGATCAG
GTGAAGAATCTTTATTGGCATCTTGCCCCTCAATTCATTGTGACTCTCCGGACCCTTTCTGACCA
ATGTGTTCTTGATTTTCACTCAGAACATTATGATTTGGTAATGGGTTACCACTAACATTAGGTGT
TGTTGCTCTTCTTTGATCAAAACTTACCATTTCATCATTGATTAACCGTTGCACCTTATGCTTTA
AAGCAGTGCAATTTTTAGTAGAATGGCCAGTAATTCCATAGTGGTAGTCACAATGGACTGTAGGA
TCATACCACTTAGGATAGGGTGACTTGAGCGACTCCACACAGTTGGAGGCAATCAAGTGGCTATT
ATAGAGTTCTCGATATAAATCCATATAAGTCATGGAGATTGCATCAAATACAGGTTTTTCTTGAG
TAATCTGTTGCTCTCGTGAACCACTTGCTAGGTTAGTAGGGTGAATTTGGGGTCTTACAGGAGTT
TGAATGTTAAGGCTATATGTAAGATCTTGAGGGCTAAAAATTGATCGGTATATGGATGAATAAGG
TGGTTGTGAAGCTAGCTGATATAGGTAAGATAAGGCATTATTCACAGTAGGATAGTATGGACAGT
AACCTTGGGGTGG
Found at i:10276138 original size:21 final size:21
Alignment explanation
Indices: 10276082--10276145 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
10276072 ATTATGTAAT
10276082 AATGCTAGAACATGAGAAT-A
1 AATGCTAGAACATGAGAATGA
* *
10276102 AA-GAT-GATGCAT-AGAATGA
1 AATGCTAGA-ACATGAGAATGA
10276121 AATGCTAGAACATGAGAATGA
1 AATGCTAGAACATGAGAATGA
10276142 AATG
1 AATG
10276146 ATATATAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
20 7 0.20
21 13 0.37
ACGTcount: A:0.48, C:0.08, G:0.23, T:0.20
Consensus pattern (21 bp):
AATGCTAGAACATGAGAATGA
Found at i:10277626 original size:15 final size:15
Alignment explanation
Indices: 10277605--10277649 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
10277595 TAATTTCAAA
10277605 AATTTTTTATTTTTT
1 AATTTTTTATTTTTT
*
10277620 TA-TTTTTATGTTTTT
1 AATTTTTTAT-TTTTT
*
10277635 AATTTTTTCTTTTTT
1 AATTTTTTATTTTTT
10277650 GGTTTGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 7 0.28
15 12 0.48
16 6 0.24
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (15 bp):
AATTTTTTATTTTTT
Found at i:10277796 original size:26 final size:26
Alignment explanation
Indices: 10277744--10277796 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
10277734 CACCTAAAAA
* *
10277744 TTTTATAAAAATCTATCATTTGAAAT
1 TTTTATAAAAATCTACCATTGGAAAT
*
10277770 TTTTAT-AAATTCTACCATTGGATAAT
1 TTTTATAAAAATCTACCATTGGA-AAT
10277796 T
1 T
10277797 AATATTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (26 bp):
TTTTATAAAAATCTACCATTGGAAAT
Found at i:10278665 original size:16 final size:16
Alignment explanation
Indices: 10278634--10278677 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
10278624 TAAATATATT
10278634 AATAGATAACAAAAA-A
1 AATAGATAA-AAAAAGA
10278650 TAATTAGATAAAAAAAGA
1 -AA-TAGATAAAAAAAGA
10278668 AATAGATAAA
1 AATAGATAAA
10278678 TGATAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.32
17 9 0.36
18 8 0.32
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.18
Consensus pattern (16 bp):
AATAGATAAAAAAAGA
Found at i:10278695 original size:7 final size:7
Alignment explanation
Indices: 10278685--10278794 Score: 73
Period size: 7 Copynumber: 15.0 Consensus size: 7
10278675 AAATGATAAT
10278685 AATAAAA
1 AATAAAA
10278692 AATAAAA
1 AATAAAA
*
10278699 GCAGATAAAT
1 --A-ATAAAA
10278709 AATAAAA
1 AATAAAA
*
10278716 ATATTAATA
1 A-A-TAAAA
*
10278725 GATAAAA
1 AATAAAA
10278732 AATAAAA
1 AATAAAA
10278739 AATAAAAA
1 AAT-AAAA
*
10278747 AATAAATT
1 AATAAA-A
10278755 AATAAATA
1 AATAAA-A
* *
10278763 GATAAAT
1 AATAAAA
10278770 AAT-AAA
1 AATAAAA
10278776 AAT-AAA
1 AATAAAA
10278782 AAT-AAA
1 AATAAAA
10278788 AATAAAA
1 AATAAAA
10278795 GTCAATTAAG
Statistics
Matches: 83, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
6 17 0.20
7 34 0.41
8 22 0.27
9 5 0.06
10 5 0.06
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.21
Consensus pattern (7 bp):
AATAAAA
Found at i:10278717 original size:23 final size:23
Alignment explanation
Indices: 10278682--10278788 Score: 82
Period size: 23 Copynumber: 4.7 Consensus size: 23
10278672 GATAAATGAT
10278682 AATAATAAAAAATAAAAGCAGATA
1 AATAATAAAAAATAAAA-CAGATA
* *
10278706 AATAAT-AAAAATATTAATAGATA
1 AATAATAAAAAATA-AAACAGATA
* *
10278729 AAAAATAAAAAATAAAA-AAATA
1 AATAATAAAAAATAAAACAGATA
* *
10278751 AATTAATAAATAGAT-AAATA-ATA
1 AA-TAATAAA-AAATAAAACAGATA
10278774 AA-AAT-AAAAATAAAA
1 AATAATAAAAAATAAAA
10278789 ATAAAAGTCA
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
19 3 0.04
20 5 0.07
21 3 0.04
22 6 0.09
23 33 0.48
24 19 0.28
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (23 bp):
AATAATAAAAAATAAAACAGATA
Found at i:10278753 original size:12 final size:13
Alignment explanation
Indices: 10278703--10278793 Score: 85
Period size: 15 Copynumber: 6.4 Consensus size: 13
10278693 ATAAAAGCAG
10278703 ATAAATAATAAAA
1 ATAAATAATAAAA
10278716 ATATTAATAGATAAAAA
1 ATA--AATA-AT-AAAA
*
10278733 ATAAAAAATAAAAAA
1 ATAAATAAT--AAAA
10278748 ATAAATTAATAAATA
1 ATAAA-TAATAAA-A
10278763 GATAAATAATAAAA
1 -ATAAATAATAAAA
10278777 ATAAA-AATAAAA
1 ATAAATAATAAAA
10278789 ATAAA
1 ATAAA
10278794 AGTCAATTAA
Statistics
Matches: 68, Mismatches: 2, Indels: 17
0.78 0.02 0.20
Matches are distributed among these distances:
12 12 0.18
13 8 0.12
14 6 0.09
15 25 0.37
16 10 0.15
17 7 0.10
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (13 bp):
ATAAATAATAAAA
Found at i:10278788 original size:5 final size:6
Alignment explanation
Indices: 10278729--10278794 Score: 60
Period size: 6 Copynumber: 9.7 Consensus size: 6
10278719 TTAATAGATA
10278729 AAAAAT AAAAAAT AAAAAAAT AAATTAAT AAATAGAT AAATAAT AAAAAT
1 AAAAAT -AAAAAT --AAAAAT AAA--AAT AAA-A-AT AAA-AAT AAAAAT
10278779 AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAA
10278795 GTCAATTAAG
Statistics
Matches: 55, Mismatches: 0, Indels: 9
0.86 0.00 0.14
Matches are distributed among these distances:
6 22 0.40
7 13 0.24
8 20 0.36
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:10284079 original size:21 final size:21
Alignment explanation
Indices: 10284041--10284080 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10284031 TTATGTCATA
*
10284041 TAAAACATTAACACTTCGTAT
1 TAAAACATTAACAATTCGTAT
* *
10284062 TAAAATATTAATAATTCGT
1 TAAAACATTAACAATTCGT
10284081 GTATTCATGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (21 bp):
TAAAACATTAACAATTCGTAT
Found at i:10287431 original size:6 final size:6
Alignment explanation
Indices: 10287414--10287443 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
10287404 AATAAAATAT
*
10287414 TTCGAG TCCGAG TTCGAG TTCGAG TTCGAG
1 TTCGAG TTCGAG TTCGAG TTCGAG TTCGAG
10287444 CATGAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (6 bp):
TTCGAG
Found at i:10291507 original size:24 final size:23
Alignment explanation
Indices: 10291466--10291510 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
10291456 ATGTGACATC
10291466 TTTTTATATTTTTAATTATATTA
1 TTTTTATATTTTTAATTATATTA
* *
10291489 TTTTTGTATTTTATTATTATAT
1 TTTTTATATTTT-TAATTATAT
10291511 CGTATTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTTATATTTTTAATTATATTA
Found at i:10305621 original size:18 final size:19
Alignment explanation
Indices: 10305598--10305633 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10305588 ACAACATATT
10305598 AAAAGTGCAAG-GAGATTG
1 AAAAGTGCAAGAGAGATTG
*
10305616 AAAAGTGGAAGAGAGATT
1 AAAAGTGCAAGAGAGATT
10305634 TTTTGTGGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.03, G:0.33, T:0.17
Consensus pattern (19 bp):
AAAAGTGCAAGAGAGATTG
Found at i:10306601 original size:3 final size:3
Alignment explanation
Indices: 10306593--10306620 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10306583 GGAAAGAAAT
10306593 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10306621 ATAAAATTAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10307332 original size:2 final size:2
Alignment explanation
Indices: 10307325--10307357 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10307315 ATTAAAACTC
10307325 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 A
10307358 ACTTAATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10307501 original size:2 final size:2
Alignment explanation
Indices: 10307494--10307519 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10307484 ATAAGAAGGG
10307494 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
10307520 TAACTAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10308321 original size:23 final size:21
Alignment explanation
Indices: 10308266--10308322 Score: 53
Period size: 24 Copynumber: 2.6 Consensus size: 21
10308256 TAATAATATT
10308266 ATTAAT-AATTTACAAAATAA
1 ATTAATAAATTTACAAAATAA
* * *
10308286 ATAAATATTATTTTCAAAAATTAA
1 ATTAATA-AATTTAC-AAAA-TAA
10308310 ATTAATAAATTTA
1 ATTAATAAATTTA
10308323 AAAGTATAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
20 5 0.19
22 5 0.19
23 8 0.30
24 9 0.33
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTAATAAATTTACAAAATAA
Found at i:10309219 original size:2 final size:2
Alignment explanation
Indices: 10309212--10309254 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
10309202 CAGGTTCTTC
10309212 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10309254 C
1 C
10309255 CTCATTTTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:10309786 original size:4 final size:4
Alignment explanation
Indices: 10309779--10309812 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
10309769 TATATATATA
*
10309779 TATG TATG TATG TATT TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TA
10309813 ATCTCCTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (4 bp):
TATG
Found at i:10315133 original size:44 final size:45
Alignment explanation
Indices: 10315057--10315154 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 45
10315047 CTAATAAGTA
* * *
10315057 ATTAGATATTGTTCGAATAAAGTTTGAATTATGAAGATATTTTCC
1 ATTAAATATTGTACGAATAAAGTTTGAATTATGAAGATATCTTCC
*
10315102 ATTAAATATTGTACGAAT-AAGTTTGAATTATGAAGATCTCTTCC
1 ATTAAATATTGTACGAATAAAGTTTGAATTATGAAGATATCTTCC
*
10315146 ATTATATAT
1 ATTAAATAT
10315155 GTTCCTCATA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 32 0.67
45 16 0.33
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (45 bp):
ATTAAATATTGTACGAATAAAGTTTGAATTATGAAGATATCTTCC
Found at i:10319926 original size:25 final size:25
Alignment explanation
Indices: 10319870--10319927 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
10319860 TAAAAGAATA
* *
10319870 GGTTCGAGTCTAGTAACCAGAACAG
1 GGTTCGGGTCTACTAACCAGAACAG
*
10319895 GATTCGGGTCTACTAACCAGAACAG
1 GGTTCGGGTCTACTAACCAGAACAG
10319920 GGTTCGGG
1 GGTTCGGG
10319928 AGTTCGGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.21
Consensus pattern (25 bp):
GGTTCGGGTCTACTAACCAGAACAG
Found at i:10321790 original size:29 final size:28
Alignment explanation
Indices: 10321761--10321849 Score: 89
Period size: 29 Copynumber: 3.3 Consensus size: 28
10321751 ATAAATGATA
10321761 AAATAAAAATAAAAAT-ATATATATTAAT
1 AAATAAAAATAAAAATAATA-ATATTAAT
**
10321789 AAATAAATAATATTAATAATAATATTAAT
1 AAATAAA-AATAAAAATAATAATATTAAT
* *
10321818 AAATAAACA-AAAAATAACAA-A-TAA-
1 AAATAAAAATAAAAATAATAATATTAAT
10321842 AAATAAAA
1 AAATAAAA
10321850 TGCAAATGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
24 7 0.13
25 3 0.06
26 1 0.02
27 8 0.15
28 8 0.15
29 22 0.42
30 3 0.06
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (28 bp):
AAATAAAAATAAAAATAATAATATTAAT
Found at i:10321822 original size:57 final size:60
Alignment explanation
Indices: 10321682--10321833 Score: 154
Period size: 57 Copynumber: 2.5 Consensus size: 60
10321672 TAAAAAAGAA
*
10321682 AATAATAATAATAATAGATAAATAATAAAAATATATATATATCAATAGGTAAATAAAAAATATT
1 AATAATAAT-ATAATAAATAAA-AATAAAAATATATATATAT-AATA-GTAAATAAAAAATATT
* * *
10321746 AACAGATAA-ATGATAAAATAAAAATAAAAATATATATAT-T-A-A-TAAATAAATAATATT
1 AATA-ATAATATAAT-AAATAAAAATAAAAATATATATATATAATAGTAAATAAAAAATATT
*
10321803 AATAATAATATTAATAAATAAACA-AAAAATA
1 AATAATAATA-TAATAAATAAAAATAAAAATA
10321834 ACAAATAAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
56 11 0.14
57 26 0.34
58 3 0.04
59 1 0.01
60 1 0.01
62 1 0.01
63 21 0.27
64 9 0.12
65 4 0.05
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (60 bp):
AATAATAATATAATAAATAAAAATAAAAATATATATATATAATAGTAAATAAAAAATATT
Found at i:10323579 original size:28 final size:28
Alignment explanation
Indices: 10323497--10323580 Score: 68
Period size: 28 Copynumber: 3.0 Consensus size: 28
10323487 TATTTTATTA
*
10323497 ATAAATAATATA-TATTTATTTAACTTAAAT
1 ATAAATAATATATTA-TTATTAAAC--AAAT
* **
10323527 -TTAA-AATATATT-TTAAAAAACCAAAT
1 ATAAATAATATATTATTATTAAA-CAAAT
10323553 ATAAATAATATATTATTATTAAACAAAT
1 ATAAATAATATATTATTATTAAACAAAT
10323581 TACGCCAAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
26 4 0.10
27 8 0.19
28 20 0.48
29 10 0.24
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (28 bp):
ATAAATAATATATTATTATTAAACAAAT
Found at i:10325908 original size:45 final size:45
Alignment explanation
Indices: 10325852--10325950 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 45
10325842 CTAATAAGTA
* * *
10325852 ATTAGATATTGTACGAATAAAGTTTGAATTATGAAGATATTTTCC
1 ATTAAATATTGTACGAAAAAAGTTTGAATTATGAAGATATCTTCC
*
10325897 ATTAAATATTGTACGAAAAAAGTTTGAATTATGAAGATCTCTTCC
1 ATTAAATATTGTACGAAAAAAGTTTGAATTATGAAGATATCTTCC
*
10325942 ATTATATAT
1 ATTAAATAT
10325951 GTTTCTCATA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (45 bp):
ATTAAATATTGTACGAAAAAAGTTTGAATTATGAAGATATCTTCC
Found at i:10330246 original size:40 final size:40
Alignment explanation
Indices: 10330171--10330250 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
10330161 CTGATGAGGC
*
10330171 TCTTTCTGAAGTATTTCTTTTCAATTCTACTTATATATAT
1 TCTTTCTGAAGTATTTCTTTTCAATTCTACATATATATAT
** * *
10330211 TCTTTCTGAAGTATTTCTTTTTTATTTTTCATATATATAT
1 TCTTTCTGAAGTATTTCTTTTCAATTCTACATATATATAT
10330251 ATGTATGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.24, C:0.12, G:0.05, T:0.59
Consensus pattern (40 bp):
TCTTTCTGAAGTATTTCTTTTCAATTCTACATATATATAT
Found at i:10330257 original size:4 final size:4
Alignment explanation
Indices: 10330250--10330283 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
10330240 CATATATATA
10330250 TATG TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TA
10330284 ATCTCCTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:10335598 original size:44 final size:45
Alignment explanation
Indices: 10335522--10335619 Score: 153
Period size: 44 Copynumber: 2.2 Consensus size: 45
10335512 CTAATAAGTA
* * *
10335522 ATTAGATATTGTTCGAATAAAGTTTGAATTATGAAGATCTTTTCC
1 ATTAAATATTGTACGAATAAAGTTTGAATTATGAAGATCTCTTCC
10335567 ATTAAATATTGTACGAAT-AAGTTTGAATTATGAAGATCTCTTCC
1 ATTAAATATTGTACGAATAAAGTTTGAATTATGAAGATCTCTTCC
*
10335611 ATTATATAT
1 ATTAAATAT
10335620 GTTCCTCATA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 33 0.67
45 16 0.33
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (45 bp):
ATTAAATATTGTACGAATAAAGTTTGAATTATGAAGATCTCTTCC
Found at i:10339549 original size:31 final size:31
Alignment explanation
Indices: 10339514--10339579 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
10339504 TTTCTTACAT
*
10339514 TTTTTATTA-ATTT-ATATTATTATTAGGTTTA
1 TTTTTATTATATTTAATATT-TT-TTAAGTTTA
*
10339545 TTTTTATTATTTTTAATATTTTTTAAGTTTA
1 TTTTTATTATATTTAATATTTTTTAAGTTTA
10339576 TTTT
1 TTTT
10339580 AAAATTAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 21 0.68
32 5 0.16
33 5 0.16
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (31 bp):
TTTTTATTATATTTAATATTTTTTAAGTTTA
Found at i:10340813 original size:50 final size:49
Alignment explanation
Indices: 10340737--10341005 Score: 332
Period size: 50 Copynumber: 5.5 Consensus size: 49
10340727 TTTGAAATTT
** * * *
10340737 AAAAGCTTTTCTAATCAAAGGCTCAACAACTTTAAAATTCATCATCTTGG
1 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTCAT-ATCTTGA
* * * *
10340787 GAAAGCTCCTCTAAACAGAGGCTCAACAATTTTAAAATTCATCATCTTGG
1 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTCAT-ATCTTGA
*
10340837 AAAAGCTCCTCTAAGCAGAGCCTCAACAACTTTAAAAATT-A-ATCTTGA
1 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTT-AAAATTCATATCTTGA
*
10340885 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTCTAAAA-TC-TATCTTGA
1 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTCATATCTTGA
* * * *
10340932 AAAAGCTTCTATAAGTAGAGGCTCAACAACTTTAAAAATC-TATCTTGA
1 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTCATATCTTGA
*
10340980 AAAAGCTCCTCTAAGTAGAGGCTCAA
1 AAAAGCTCCTCTAAGCAGAGGCTCAA
10341006 TAACATAAAA
Statistics
Matches: 196, Mismatches: 19, Indels: 10
0.87 0.08 0.04
Matches are distributed among these distances:
46 1 0.01
47 44 0.22
48 71 0.36
50 74 0.38
51 6 0.03
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.27
Consensus pattern (49 bp):
AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTCATATCTTGA
Found at i:10340900 original size:48 final size:47
Alignment explanation
Indices: 10340737--10341005 Score: 299
Period size: 48 Copynumber: 5.6 Consensus size: 47
10340727 TTTGAAATTT
** * * *
10340737 AAAAGCTTTTCTAATCAAAGGCTCAACAACTTTAAAATTCATCATCTTGG
1 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATT-A--ATCTTGA
* * * *
10340787 GAAAGCTCCTCTAAACAGAGGCTCAACAATTTTAAAATTCATCATCTTGG
1 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATT-A--ATCTTGA
*
10340837 AAAAGCTCCTCTAAGCAGAGCCTCAACAACTTTAAAAATTAATCTTGA
1 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTT-AAAATTAATCTTGA
*
10340885 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTCTAAAATCT-ATCTTGA
1 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAT-TAATCTTGA
* * *
10340932 AAAAGCTTCTATAAGTAGAGGCTCAACAACTTTAAAAATCT-ATCTTGA
1 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTT-AAAAT-TAATCTTGA
*
10340980 AAAAGCTCCTCTAAGTAGAGGCTCAA
1 AAAAGCTCCTCTAAGCAGAGGCTCAA
10341006 TAACATAAAA
Statistics
Matches: 197, Mismatches: 19, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
47 41 0.21
48 76 0.39
50 74 0.38
51 6 0.03
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.27
Consensus pattern (47 bp):
AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTAATCTTGA
Found at i:10340980 original size:95 final size:99
Alignment explanation
Indices: 10340755--10341005 Score: 341
Period size: 95 Copynumber: 2.6 Consensus size: 99
10340745 TTCTAATCAA
* * ** * * *
10340755 AGGCTCAACAACTTTAAAATTCATCATCTTGGGAAAGCTCCTCTAAACAGAGGCTCAACAATTTT
1 AGGCTCAACAACTTTAAAAATC-TAATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTCT
* *
10340820 AAAATTCATCATCTTGGAAAAGCTCCTCTAAGCAG
65 AAAATTCATCATCTTGAAAAAGCTCCTATAAGCAG
*
10340855 AGCCTCAACAACTTTAAAAAT-TAATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTCTA
1 AGGCTCAACAACTTTAAAAATCTAATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTCTA
* *
10340919 AAA-TC-T-ATCTTGAAAAAGCTTCTATAAGTAG
66 AAATTCATCATCTTGAAAAAGCTCCTATAAGCAG
*
10340950 AGGCTCAACAACTTTAAAAATCT-ATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAA
1 AGGCTCAACAACTTTAAAAATCTAATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAA
10341006 TAACATAAAA
Statistics
Matches: 136, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
95 73 0.54
96 2 0.01
97 2 0.01
98 40 0.29
100 19 0.14
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (99 bp):
AGGCTCAACAACTTTAAAAATCTAATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTCTA
AAATTCATCATCTTGAAAAAGCTCCTATAAGCAG
Found at i:10341051 original size:19 final size:19
Alignment explanation
Indices: 10341027--10341064 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10341017 CTCAACAACT
*
10341027 TTAAAATTCATCTTGAAAA
1 TTAAAATCCATCTTGAAAA
10341046 TTAAAATCCATCTTGAAAA
1 TTAAAATCCATCTTGAAAA
10341065 AGCTTCTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.34
Consensus pattern (19 bp):
TTAAAATCCATCTTGAAAA
Found at i:10341177 original size:49 final size:48
Alignment explanation
Indices: 10341046--10341210 Score: 215
Period size: 48 Copynumber: 3.4 Consensus size: 48
10341036 ATCTTGAAAA
* *
10341046 TTAAAA-TCCATCTTGAAAAAGCTTCTCTAAGCAGAGACTCAACAACT
1 TTAAAATTCCATCTTGAAAAAGCTTCTCTAAACAGAGGCTCAACAACT
* * * * *
10341093 TTAAAAATCCATCTTGAAAAAGTTTCTTTCAACAGAGGCTCAATAACT
1 TTAAAATTCCATCTTGAAAAAGCTTCTCTAAACAGAGGCTCAACAACT
* * * *
10341141 TTAAAATTCTCATATTGAAAAAGCTCCTCTAAACAGAAGTTCAACAACT
1 TTAAAATTC-CATCTTGAAAAAGCTTCTCTAAACAGAGGCTCAACAACT
10341190 TTAAAATTCCATCTTGAAAAA
1 TTAAAATTCCATCTTGAAAAA
10341211 TAACTTCGAA
Statistics
Matches: 100, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
47 6 0.06
48 54 0.54
49 40 0.40
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (48 bp):
TTAAAATTCCATCTTGAAAAAGCTTCTCTAAACAGAGGCTCAACAACT
Found at i:10341618 original size:99 final size:99
Alignment explanation
Indices: 10341501--10341730 Score: 352
Period size: 99 Copynumber: 2.3 Consensus size: 99
10341491 AAAATGCCTT
** * * **
10341501 AGATATCACCACTAAAGGAAACTCGAATATCCTCATTGAAAAAATGCAAATAAAGCTTTAACACT
1 AGATATCACCACCGAAGGAAACTCAAATATCATCATCAAAAAAATGCAAATAAAGCTTTAACACT
*
10341566 CGGATATCACCATCGAAAATATGCAAATAACTTC
66 CGGATATCACCACCGAAAATATGCAAATAACTTC
*
10341600 AGATATCACCACCGAAGGAAACTCAAATATCATTATCAAAAAAATGCAAATAAAGCTTTAACACT
1 AGATATCACCACCGAAGGAAACTCAAATATCATCATCAAAAAAATGCAAATAAAGCTTTAACACT
*
10341665 CGGATATCACCACCGAAAATATGCAAATGACTTC
66 CGGATATCACCACCGAAAATATGCAAATAACTTC
* * *
10341699 GGATATCGCCACCGAGGGAAACTCAAATATCA
1 AGATATCACCACCGAAGGAAACTCAAATATCA
10341731 CTATATGATT
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 119 1.00
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.21
Consensus pattern (99 bp):
AGATATCACCACCGAAGGAAACTCAAATATCATCATCAAAAAAATGCAAATAAAGCTTTAACACT
CGGATATCACCACCGAAAATATGCAAATAACTTC
Found at i:10341763 original size:242 final size:245
Alignment explanation
Indices: 10341510--10341954 Score: 574
Period size: 242 Copynumber: 1.8 Consensus size: 245
10341500 TAGATATCAC
* * *
10341510 CACTAAAGGAAACTCGAATATC-CTCATTGAAAAAATGCAAATAAAGCTTTAACACTCGGATATC
1 CACTAAAGGAAACTCAAATATCAC-CATCGAAAAAATGCAAATAAAGCCTTAACACTCGGATATC
* * ** * *
10341574 ACCATCGAAAATATGCAAATAACTTCAGATATCACCACC-GAAGGAA-A-CTCAAATATCATTAT
65 ACCACCGAAAAGATGCAAATAACTTCAGATATCACCACCAGAAAAAAGATCCCAAATATCATCAT
* *
10341636 CAAAAAAATGCAAATAAAGCTTTAACACTCGGATATCACCACCGAAAATATGCAAATGACTTCGG
130 CAAAAAAATGCAAATAAAGCTTTAACACTCGAATATCACCACCGAAAATATACAAATGACTTCGG
10341701 ATATCGCCACCGAGGGAAACTCAAATATCACTATATGATTTTGAATATCGT
195 ATATCGCCACCGAGGGAAACTCAAATATCACTATATGATTTTGAATATCGT
* * * * *
10341752 CACTGAAGGAAACTCAAATATCACCATCGAGAAACTGTAAATAAAGCCTTACCACTCGGATATCA
1 CACTAAAGGAAACTCAAATATCACCATCGAAAAAATGCAAATAAAGCCTTAACACTCGGATATCA
* * **
10341817 CCACCGAAAAGATGCAAGTAACTTCGGATATCACCACCAAAAGAAAAAATGATCCCAAATATTGT
66 CCACCGAAAAGATGCAAATAACTTCAGATATCACCACC---AGAAAAAA-GATCCCAAATATCAT
* * * * * * *
10341882 CATCAAGAAAATGCAATTCAAGCTTTAACACTTGAATATCACCACTGAGAATATACAAATGATTT
127 CATCAAAAAAATGCAAATAAAGCTTTAACACTCGAATATCACCACCGAAAATATACAAATGACTT
10341947 CGGATATC
192 CGGATATC
10341955 ACCATCGAAT
Statistics
Matches: 168, Mismatches: 27, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
242 89 0.53
243 1 0.01
246 5 0.03
248 1 0.01
249 72 0.43
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.23
Consensus pattern (245 bp):
CACTAAAGGAAACTCAAATATCACCATCGAAAAAATGCAAATAAAGCCTTAACACTCGGATATCA
CCACCGAAAAGATGCAAATAACTTCAGATATCACCACCAGAAAAAAGATCCCAAATATCATCATC
AAAAAAATGCAAATAAAGCTTTAACACTCGAATATCACCACCGAAAATATACAAATGACTTCGGA
TATCGCCACCGAGGGAAACTCAAATATCACTATATGATTTTGAATATCGT
Found at i:10342335 original size:34 final size:34
Alignment explanation
Indices: 10342253--10342337 Score: 102
Period size: 33 Copynumber: 2.5 Consensus size: 34
10342243 ATGCAAAAGA
*
10342253 AAATGCAAATGTCTTTTCTTAAATGATGACCATG
1 AAATGCAAATGTCTTTTCTTAAAAGATGACCATG
* * * *
10342287 AGATGAAAAT-TCTTTTGTTAAAAGATG-CACATT
1 AAATGCAAATGTCTTTTCTTAAAAGATGAC-CATG
10342320 AAATGCAAATGTCTTTTC
1 AAATGCAAATGTCTTTTC
10342338 CAAAAATACT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
32 1 0.02
33 26 0.63
34 14 0.34
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36
Consensus pattern (34 bp):
AAATGCAAATGTCTTTTCTTAAAAGATGACCATG
Found at i:10343250 original size:26 final size:26
Alignment explanation
Indices: 10343206--10343256 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
10343196 TAGAGCTTTA
* *
10343206 TTTTTTACTTTTCTCTTATGTTTTCT
1 TTTTTTACTTTTCTATTATGATTTCT
* *
10343232 TTTTTTTCTTTTTTATTATGATTTC
1 TTTTTTACTTTTCTATTATGATTTC
10343257 ATCGTGCACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.10, C:0.12, G:0.04, T:0.75
Consensus pattern (26 bp):
TTTTTTACTTTTCTATTATGATTTCT
Found at i:10343920 original size:10 final size:11
Alignment explanation
Indices: 10343906--10343934 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
10343896 TTTTTATCAC
10343906 CTTTTTTTTCT
1 CTTTTTTTTCT
10343917 -TTTTTTTTCT
1 CTTTTTTTTCT
10343927 CTTTTTTT
1 CTTTTTTT
10343935 GGGATCGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
CTTTTTTTTCT
Found at i:10346185 original size:30 final size:30
Alignment explanation
Indices: 10346151--10346215 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
10346141 AGGGGCAAAG
10346151 GGGTGAACA-GAGAGGTGGCAATGTATGTAA
1 GGGTGAACATGAG-GGTGGCAATGTATGTAA
*
10346181 GGGTGAACATGAGGGTGGCAGTGTATGTAA
1 GGGTGAACATGAGGGTGGCAATGTATGTAA
10346211 GGGTG
1 GGGTG
10346216 TATGCAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 30 0.91
31 3 0.09
ACGTcount: A:0.28, C:0.06, G:0.45, T:0.22
Consensus pattern (30 bp):
GGGTGAACATGAGGGTGGCAATGTATGTAA
Found at i:10346300 original size:49 final size:49
Alignment explanation
Indices: 10346222--10346324 Score: 138
Period size: 49 Copynumber: 2.1 Consensus size: 49
10346212 GGTGTATGCA
* * *
10346222 AAATTCTCATCCGAAAAAGGGCTTCTCTCAGTAGAGGCTCAACAACTTT
1 AAATTCTCATCCGAAAAAGAGCTTCTCTCAGCAAAGGCTCAACAACTTT
*
10346271 AAATTCTTATCTCGAAAAA-AGC-TCATCTCAGCAAAGGCTCAACAACTTT
1 AAATTCTCATC-CGAAAAAGAGCTTC-TCTCAGCAAAGGCTCAACAACTTT
10346320 AAATT
1 AAATT
10346325 AAACCATTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
48 2 0.04
49 39 0.81
50 7 0.15
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (49 bp):
AAATTCTCATCCGAAAAAGAGCTTCTCTCAGCAAAGGCTCAACAACTTT
Found at i:10346641 original size:147 final size:147
Alignment explanation
Indices: 10346374--10346667 Score: 423
Period size: 147 Copynumber: 2.0 Consensus size: 147
10346364 GATAAATAAT
* *
10346374 CTCAGATATCACCATCGAGAAGATACAAATGACTTCGGATATCGTCACTAAAGGAAACTCAAATA
1 CTCAGATATCACCATCGAGAAGATACAAATGACTTCGGATATCGCCACGAAAGGAAACTCAAATA
* * *
10346439 TCACCATCGAGAAAATGCATTTCAAGATTTAATACTTGGATATCACCACTGAGAGAATGCAAATG
66 TCACCATCAAGAAAATGCAATTCAAGATTTAATACTCGGATATCACCACTGAGAGAATGCAAATG
10346504 CAAATTCAAACTTTAAA
131 CAAATTCAAACTTTAAA
* * * * *
10346521 CTCAGTTATCACCATCGATAATATGCAAAT-ATCTTCGGATATCGCCACCGAAAGG-AACTCGAA
1 CTCAGATATCACCATCGAGAAGATACAAATGA-CTTCGGATATCGCCA-CGAAAGGAAACTCAAA
* *
10346584 TATCACCATCAAGAAAATGCAATTGAAGCTTTAATACTCGGATATCACCA-TCGAGAGAATGCAA
64 TATCACCATCAAGAAAATGCAATTCAAGATTTAATACTCGGATATCACCACT-GAGAGAATGCAA
*
10346648 ATGTAAATTCAAACTTTAAA
128 ATGCAAATTCAAACTTTAAA
10346668 AAGGGAACTC
Statistics
Matches: 131, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
146 2 0.02
147 123 0.94
148 6 0.05
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.25
Consensus pattern (147 bp):
CTCAGATATCACCATCGAGAAGATACAAATGACTTCGGATATCGCCACGAAAGGAAACTCAAATA
TCACCATCAAGAAAATGCAATTCAAGATTTAATACTCGGATATCACCACTGAGAGAATGCAAATG
CAAATTCAAACTTTAAA
Found at i:10346745 original size:196 final size:188
Alignment explanation
Indices: 10346499--10346935 Score: 552
Period size: 196 Copynumber: 2.3 Consensus size: 188
10346489 GAGAGAATGC
* * * * *
10346499 AAATGCAAATTCAAACTTTAA-ACTCAGTTATCACCATCGATAATATGCAAATATCTTCGGATAT
1 AAATGC-AATTC-AACTTTAATACTCGGATATCACCACCGAGAAAATGCAAATATCTTCGGATAT
* * * *
10346563 CGCCACCGAAAGGAACTCGAATATCACCATCAAGAAAATGCAATTGAAGCTTTAATACTCGGATA
64 CGCCACAGAAAGAAACTCAAATATCACCATCAAGAAAATGCAATTCAAGCTTTAATACTCGGATA
* * * * *
10346628 TCACCATCGAGAGAATGCAAATGTAAATTCAAACTTTAAAAAGGGAACTCAAATATCACCATCGA
129 TCACCATCGAGAGAATACAAATGAAAATTCAAAATTT----A---AACTCAAATATCACCACCAA
10346693 GA
187 GA
* * *
10346695 AAATGCAATTCAAGCTTTAATGCTCGGATATCACCACCGAGAAGATGCAAATATCTTCGGATATT
1 AAATGCAATTCAA-CTTTAATACTCGGATATCACCACCGAGAAAATGCAAATATCTTCGGATATC
* * * *
10346760 GTCATAGAAAGAAACTCAAATATCACCATCGAGAAAATGCAATTCAAGTTTTAATACTCGGATAT
65 GCCACAGAAAGAAACTCAAATATCACCATCAAGAAAATGCAATTCAAGCTTTAATACTCGGATAT
**
10346825 CACCATCGAGAGAATACAAATGAAAATTCAAAATTTAAACTCGTATATCACCACCAAGA
130 CACCATCGAGAGAATACAAATGAAAATTCAAAATTTAAACTCAAATATCACCACCAAGA
*
10346884 AAATGCAATTCAAATCTTAATACTCGGATATCACCACCGAGAAAATGCAAAT
1 AAATGCAATTCAACT-TTAATACTCGGATATCACCACCGAGAAAATGCAAAT
10346936 GAATTTTTTA
Statistics
Matches: 213, Mismatches: 25, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
188 1 0.00
189 65 0.31
192 1 0.00
194 2 0.01
195 11 0.05
196 133 0.62
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (188 bp):
AAATGCAATTCAACTTTAATACTCGGATATCACCACCGAGAAAATGCAAATATCTTCGGATATCG
CCACAGAAAGAAACTCAAATATCACCATCAAGAAAATGCAATTCAAGCTTTAATACTCGGATATC
ACCATCGAGAGAATACAAATGAAAATTCAAAATTTAAACTCAAATATCACCACCAAGA
Found at i:10346845 original size:99 final size:98
Alignment explanation
Indices: 10346499--10346835 Score: 391
Period size: 99 Copynumber: 3.4 Consensus size: 98
10346489 GAGAGAATGC
* * * * *
10346499 AAATGCAAATTCAAACTTTAA-ACTCAGTTATCACCATCGATAATATGCAAATATCTTCGGATAT
1 AAATGC-AATTCAAGCTTTAATACTCGGATATCACCATCGAGAAGATGCAAATATCTTCGGATAT
* * * * *
10346563 CGCCACCGAAAGGAACTCGAATATCACCATCAAGA
65 TGTCA-AGAAAGGAACTCAAATATCACCATCGAGA
* ** *
10346598 AAATGCAATTGAAGCTTTAATACTCGGATATCACCATCGAG-AGAATGCAAATGTAAATTC--AA
1 AAATGCAATTCAAGCTTTAATACTCGGATATCACCATCGAGAAG-ATGCAAA--TATCTTCGGAT
10346660 ACTT-T-AA-AAAGGGAACTCAAATATCACCATCGAGA
63 A-TTGTCAAGAAA-GGAACTCAAATATCACCATCGAGA
* *
10346695 AAATGCAATTCAAGCTTTAATGCTCGGATATCACCACCGAGAAGATGCAAATATCTTCGGATATT
1 AAATGCAATTCAAGCTTTAATACTCGGATATCACCATCGAGAAGATGCAAATATCTTCGGATATT
*
10346760 GTCATAGAAAGAAACTCAAATATCACCATCGAGA
66 GTCA-AGAAAGGAACTCAAATATCACCATCGAGA
*
10346794 AAATGCAATTCAAGTTTTAATACTCGGATATCACCATCGAGA
1 AAATGCAATTCAAGCTTTAATACTCGGATATCACCATCGAGA
10346836 GAATACAAAT
Statistics
Matches: 201, Mismatches: 24, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
95 5 0.02
96 5 0.02
97 70 0.35
98 17 0.08
99 95 0.47
100 4 0.02
101 5 0.02
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.25
Consensus pattern (98 bp):
AAATGCAATTCAAGCTTTAATACTCGGATATCACCATCGAGAAGATGCAAATATCTTCGGATATT
GTCAAGAAAGGAACTCAAATATCACCATCGAGA
Found at i:10346909 original size:42 final size:42
Alignment explanation
Indices: 10346779--10346964 Score: 176
Period size: 42 Copynumber: 4.3 Consensus size: 42
10346769 AGAAACTCAA
* * *
10346779 ATATCACCATCGAGAAAATGCAATTCAAGTTTTAATACTCGG
1 ATATCACCACCAAGAAAATGCAATTCAAATTTTAATACTCGG
* * * *
10346821 ATATCACCATCGAGAGAATACAAATGAAAATTCAAAATTTAA-ACTCGT
1 ATATCACCA-CCA-AG---A-AAATG-CAATTCAAATTTTAATACTCGG
*
10346869 ATATCACCACCAAGAAAATGCAATTCAAATCTTAATACTCGG
1 ATATCACCACCAAGAAAATGCAATTCAAATTTTAATACTCGG
* * * * *
10346911 ATATCACCACCGAGAAAATGCAAATGAATTTTTTAATACTCGA
1 ATATCACCACCAAGAAAATGCAATTCAA-ATTTTAATACTCGG
10346954 ATATCACCACC
1 ATATCACCACC
10346965 TAGTGATTTT
Statistics
Matches: 117, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
41 12 0.10
42 44 0.38
43 23 0.20
44 2 0.02
46 2 0.02
47 3 0.03
48 19 0.16
49 12 0.10
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (42 bp):
ATATCACCACCAAGAAAATGCAATTCAAATTTTAATACTCGG
Found at i:10347684 original size:18 final size:18
Alignment explanation
Indices: 10347661--10347696 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10347651 CGACTTTTCT
10347661 TTCCATTTTTTCATCCTC
1 TTCCATTTTTTCATCCTC
10347679 TTCCATTTTTTCATCCTC
1 TTCCATTTTTTCATCCTC
10347697 AAATCAAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.33, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCCATTTTTTCATCCTC
Found at i:10348298 original size:10 final size:10
Alignment explanation
Indices: 10348285--10348316 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
10348275 TTTTTCTCAT
10348285 TTTTTTGTTA
1 TTTTTTGTTA
10348295 TTTTTTGTTA
1 TTTTTTGTTA
10348305 TTTTTT-TTA
1 TTTTTTGTTA
10348314 TTT
1 TTT
10348317 CATCATGCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 6 0.27
10 16 0.73
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.84
Consensus pattern (10 bp):
TTTTTTGTTA
Found at i:10353350 original size:21 final size:23
Alignment explanation
Indices: 10353326--10353371 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
10353316 ATTTTCTTTT
*
10353326 TTCTTAATTT-TTTATT-ATTTA
1 TTCTTAATTTATTAATTAATTTA
10353347 TTCTTAATTTATTAATTAATTTA
1 TTCTTAATTTATTAATTAATTTA
10353370 TT
1 TT
10353372 GTTTTATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.45
22 5 0.23
23 7 0.32
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (23 bp):
TTCTTAATTTATTAATTAATTTA
Found at i:10354586 original size:30 final size:30
Alignment explanation
Indices: 10354545--10354629 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
10354535 AACAGGGGCA
10354545 CAAGGGTGAACAGAGAGGTGGCAATGTATG
1 CAAGGGTGAACAGAGAGGTGGCAATGTATG
* * *
10354575 C-AGGCGTGAACATG-GGGGTGGTAGTGTATG
1 CAAGG-GTGAACA-GAGAGGTGGCAATGTATG
10354605 CAAGGGTGAACAGA-AGGTGGCAATG
1 CAAGGGTGAACAGAGAGGTGGCAATG
10354630 GTGCCGTGCA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
29 12 0.27
30 29 0.64
31 4 0.09
ACGTcount: A:0.29, C:0.11, G:0.42, T:0.18
Consensus pattern (30 bp):
CAAGGGTGAACAGAGAGGTGGCAATGTATG
Found at i:10364432 original size:17 final size:18
Alignment explanation
Indices: 10364401--10364434 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10364391 GATAAAGTAT
10364401 ATAAAAATAAGATTAAAG
1 ATAAAAATAAGATTAAAG
*
10364419 ATAAAATTAA-ATTAAA
1 ATAAAAATAAGATTAAA
10364435 AATAGAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (18 bp):
ATAAAAATAAGATTAAAG
Found at i:10364462 original size:19 final size:19
Alignment explanation
Indices: 10364435--10364471 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10364425 TTAAATTAAA
*
10364435 AATAGAATAAAAATAAATG
1 AATAAAATAAAAATAAATG
*
10364454 AATAAAATAAAGATAAAT
1 AATAAAATAAAAATAAAT
10364472 ACAAAGATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (19 bp):
AATAAAATAAAAATAAATG
Found at i:10364500 original size:17 final size:17
Alignment explanation
Indices: 10364440--10364524 Score: 69
Period size: 17 Copynumber: 5.3 Consensus size: 17
10364430 TTAAAAATAG
10364440 AATAAAAAT-AA-ATG-
1 AATAAAAATAAAGATGA
10364454 AAT-AAAATAAAGAT-A
1 AATAAAAATAAAGATGA
10364469 AATACAAAGAT-AAGATGA
1 AATA-AAA-ATAAAGATGA
10364487 AATAAAAATAAAGA-GAA
1 AATAAAAATAAAGATG-A
* *
10364504 AATAATAATAAA-AGGA
1 AATAAAAATAAAGATGA
10364520 AATAA
1 AATAA
10364525 GATTAAAAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 18
0.76 0.01 0.23
Matches are distributed among these distances:
13 5 0.08
14 5 0.08
15 5 0.08
16 10 0.17
17 28 0.47
18 7 0.12
ACGTcount: A:0.71, C:0.01, G:0.11, T:0.18
Consensus pattern (17 bp):
AATAAAAATAAAGATGA
Found at i:10366082 original size:67 final size:67
Alignment explanation
Indices: 10365954--10366083 Score: 197
Period size: 67 Copynumber: 1.9 Consensus size: 67
10365944 TAAAGCAATA
* ***
10365954 TTGCCTAATAAGTAATCAAATATTGTACCAATAAAGTTTGAATCATGTAGATCTTTTCCATTAAA
1 TTGCCTAATAAGTAATCAAATATTGTACCAATAAAGTTTGAATCATGAAGATCTCAGCCATTAAA
10366019 TG
66 TG
* * *
10366021 TTGCCTAATAAGTAATTAAATATTGTACCAATAAAGTTTGATTTATGAAGATCTCAGCCATTA
1 TTGCCTAATAAGTAATCAAATATTGTACCAATAAAGTTTGAATCATGAAGATCTCAGCCATTA
10366084 TATATGTTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 56 1.00
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (67 bp):
TTGCCTAATAAGTAATCAAATATTGTACCAATAAAGTTTGAATCATGAAGATCTCAGCCATTAAA
TG
Found at i:10368187 original size:19 final size:18
Alignment explanation
Indices: 10368145--10368189 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
10368135 TATGTATTTC
*
10368145 AATATTTTTTATATAATA
1 AATATTTTATATATAATA
*
10368163 AA-ATTTTATGTATAATAA
1 AATATTTTATATATAAT-A
10368181 AATATTTTA
1 AATATTTTA
10368190 AATAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
AATATTTTATATATAATA
Found at i:10368194 original size:17 final size:16
Alignment explanation
Indices: 10368150--10368200 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
10368140 ATTTCAATAT
10368150 TTTTTATATAATAAAA
1 TTTTTATATAATAAAA
*
10368166 TTTTATGTATAATAAAA
1 TTTT-TATATAATAAAA
*
10368183 TATTTTAAATAA-AAAA
1 T-TTTTATATAATAAAA
10368199 TT
1 TT
10368201 AAAATTTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 1 0.03
16 9 0.30
17 17 0.57
18 3 0.10
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
TTTTTATATAATAAAA
Found at i:10369886 original size:144 final size:144
Alignment explanation
Indices: 10369667--10369950 Score: 373
Period size: 144 Copynumber: 2.0 Consensus size: 144
10369657 TTACAATAAT
* *
10369667 TTTTACTCTTTACAATGGAAAAGTTGATTTAGATCAAATATAAAAAGAGTCAATTAGAATGATGA
1 TTTTACTCTTTACAATGGAAAAGTTGAATTAGATCAAATATAAAAAGAGTCAATTAGAATAATGA
*
10369732 TAATAAGAATAAAGCAACAATTAAAAATATACCATCTTTTTC-TTTTGT-AGAAA-TTTTTATGA
66 TAATAAGAATAAAGCAACAATTAAAAATATACCATC-TTTTCGTTTAGTAAGAAATTTTTTATGA
10369794 AAAATACAAAATGCC
130 AAAATACAAAATGCC
* * * *
10369809 TTTTACTCTTTTCAAATGGAGAAA-TT-AATTAGCATCAAAATATCAAAAA-CGTCATTTTGAAT
1 TTTTACTCTTTAC-AATGGA-AAAGTTGAATTAG-ATC-AAATAT-AAAAAGAGTCAATTAGAAT
* *
10369871 AATGGTAATCAGAATAAAGCAACAATTAAAAATATACCATCTTTTCGTTTAGTAAGAAATTTTTT
61 AATGATAATAAGAATAAAGCAACAATTAAAAATATACCATCTTTTCGTTTAGTAAGAAATTTTTT
* *
10369936 ATGGAAAATGCAAAA
126 ATGAAAAATACAAAA
10369951 ATAATTATTG
Statistics
Matches: 123, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
142 17 0.14
143 16 0.13
144 62 0.50
145 10 0.08
146 18 0.15
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (144 bp):
TTTTACTCTTTACAATGGAAAAGTTGAATTAGATCAAATATAAAAAGAGTCAATTAGAATAATGA
TAATAAGAATAAAGCAACAATTAAAAATATACCATCTTTTCGTTTAGTAAGAAATTTTTTATGAA
AAATACAAAATGCC
Found at i:10371378 original size:12 final size:11
Alignment explanation
Indices: 10371349--10371374 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10371339 CGAAATCTAG
10371349 AAAATTTCCAA
1 AAAATTTCCAA
10371360 AAAATTTCCAA
1 AAAATTTCCAA
10371371 AAAA
1 AAAA
10371375 ATTTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATTTCCAA
Found at i:10371997 original size:42 final size:42
Alignment explanation
Indices: 10371870--10372227 Score: 426
Period size: 42 Copynumber: 8.5 Consensus size: 42
10371860 AAACTCAACG
* *
10371870 ACTTTGGAAAAATAAA-TACTCCTTTAAATAGAGGC-ACCACA
1 ACTTT-GAAAAATAAATTGCTCCTCTAAATAGAGGCAACCACA
* * *
10371911 ACTTTTAAAAAATAAAAATGCTCCTCTAAATA-A-ACATACCACA
1 AC-TTTGAAAAAT-AAATTGCTCCTCTAAATAGAGGCA-ACCACA
*
10371954 ACTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCAACAACA
1 ACTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCAACCACA
*
10371996 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAA-CACA
1 ACTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCAACCACA
* *
10372037 ACTTGGGAAAAATAAATTGCTCATCTCTAAATAAAGGCAACCACA
1 ACTT-TGAAAAATAAATTGCTC--CTCTAAATAGAGGCAACCACA
* *
10372082 ACTTTG-AAAATCAAATTGCTCCTCTAAACAAAGGCAA-CACA
1 ACTTTGAAAAAT-AAATTGCTCCTCTAAATAGAGGCAACCACA
*
10372123 ACTTTGAAAAAATAAATTGCTCCTCTAAATAGAGACAACCACA
1 ACTTTG-AAAAATAAATTGCTCCTCTAAATAGAGGCAACCACA
* ** *
10372166 ACTTTGAAAAATAAATTGCTCATCTAAACGGAGGC-ACCACC
1 ACTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCAACCACA
*
10372207 ACGTTGAAAAATAAATTGCTC
1 ACTTTGAAAAATAAATTGCTC
10372228 GTCGACAATC
Statistics
Matches: 278, Mismatches: 24, Indels: 30
0.84 0.07 0.09
Matches are distributed among these distances:
41 68 0.24
42 136 0.49
43 42 0.15
44 24 0.09
45 8 0.03
ACGTcount: A:0.45, C:0.21, G:0.11, T:0.23
Consensus pattern (42 bp):
ACTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCAACCACA
Found at i:10372117 original size:128 final size:126
Alignment explanation
Indices: 10371865--10372190 Score: 430
Period size: 128 Copynumber: 2.6 Consensus size: 126
10371855 AACAGAAACT
* * * * * *
10371865 CAACGACTTTGGAAAAATAAA-TACTCCTTTAAATAGAGGCACCACAACTTTTAAAAAATAAAAA
1 CAACAACTTT-GAAAAATAAATTGCTCCTCTAAATAGAGGCAACACAAC-TTTGAAAAAT-AAAT
* *
10371929 TGCTC--CTCTAAATAAACATACCACAACTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCAA
63 TGCTCATCTCTAAATAAACATACCACAACTTTGAAAAATAAATTGCTCCTCTAAACAAAGGCAA
* *
10371991 CAACAACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACACAACTTGGGAAAAATAAATTG
1 CAACAACTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCAACACAACTT-TGAAAAATAAATTG
10372056 CTCATCTCTAAATAAAGGCA-ACCACAACTTTG-AAAATCAAATTGCTCCTCTAAACAAAGGCAA
65 CTCATCTCTAAATAAA--CATACCACAACTTTGAAAAAT-AAATTGCTCCTCTAAACAAAGGCAA
*
10372119 C-ACAACTTTGAAAAAATAAATTGCTCCTCTAAATAGAGACAACCACAACTTTGAAAAATAAATT
1 CAACAACTTTG-AAAAATAAATTGCTCCTCTAAATAGAGGCAA-CACAACTTTGAAAAATAAATT
10372183 GCTCATCT
64 GCTCATCT
10372191 AAACGGAGGC
Statistics
Matches: 178, Mismatches: 13, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
125 20 0.11
126 38 0.21
127 25 0.14
128 85 0.48
129 10 0.06
ACGTcount: A:0.45, C:0.21, G:0.10, T:0.24
Consensus pattern (126 bp):
CAACAACTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCAACACAACTTTGAAAAATAAATTGC
TCATCTCTAAATAAACATACCACAACTTTGAAAAATAAATTGCTCCTCTAAACAAAGGCAA
Done.