Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168376.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_595, 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: 21937
ACGTcount: A:0.20, C:0.10, G:0.06, T:0.64
Found at i:992 original size:9 final size:9
Alignment explanation
Indices: 961--1002 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
951 TTTTCTTTTC
961 TTTTTTTAA
1 TTTTTTTAA
*
970 TTTTTATTAG
1 TTTTT-TTAA
*
980 TTTTTGT-A
1 TTTTTTTAA
988 TTTTTTTAA
1 TTTTTTTAA
997 TTTTTT
1 TTTTTT
1003 CTTTTGACTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 6 0.22
9 13 0.48
10 8 0.30
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.79
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:1610 original size:18 final size:17
Alignment explanation
Indices: 1578--1619 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
1568 TTATCGTTTT
1578 ATTTTTTTTTATTCTCTA
1 ATTTTTTTTTATTCT-TA
1596 ATTTTTTTATT-TTCTTA
1 ATTTTTTT-TTATTCTTA
*
1613 CTTTTTT
1 ATTTTTT
1620 ACTTTTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 8 0.36
18 12 0.55
19 2 0.09
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTTTTTTTATTCTTA
Found at i:1617 original size:17 final size:16
Alignment explanation
Indices: 1581--1620 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1571 TCGTTTTATT
1581 TTTTTTTATTCTCTAA
1 TTTTTTTATTCTCTAA
* *
1597 TTTTTTTATTTTCTTA
1 TTTTTTTATTCTCTAA
*
1613 CTTTTTTA
1 TTTTTTTA
1621 CTTTTTGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTTTATTCTCTAA
Found at i:1747 original size:39 final size:39
Alignment explanation
Indices: 1649--1759 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 39
1639 TTTTAATTGT
* * *
1649 TATTTTTTCAGTATTTTATTTTAT-TTTTCTTTTATATTAA
1 TATTTTTTC-CTAATTTATTTT-TCTTTTATTTTATATTAA
*
1689 TATTTTCTCCT-ATTT-TTTTTCTTTTATTTTATATTAA
1 TATTTTTTCCTAATTTATTTTTCTTTTATTTTATATTAA
*
1726 TATTTTTTCTTAATTTATTTTTCATTTTTATTTT
1 TATTTTTTCCTAATTTATTTTTC--TTTTATTTT
1760 TTGAATCTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
36 1 0.02
37 28 0.47
38 7 0.12
39 7 0.12
40 8 0.13
41 9 0.15
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.72
Consensus pattern (39 bp):
TATTTTTTCCTAATTTATTTTTCTTTTATTTTATATTAA
Found at i:1794 original size:32 final size:29
Alignment explanation
Indices: 1725--1802 Score: 77
Period size: 32 Copynumber: 2.6 Consensus size: 29
1715 TTTTATATTA
* *
1725 ATATTTTTTCTTAATTTATTTTTCATTTTT
1 ATATTTTGTCTT-TTTTATTTTTCATTTTT
*
1755 ATTTTTTGAATCTTTTTTATTTTTTCATTTTCT
1 ATATTTTG--TCTTTTTTA-TTTTTCATTTT-T
1788 -TATTTTGTCTTTTTT
1 ATATTTTGTCTTTTTT
1803 TTTGCTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
30 14 0.35
31 4 0.10
32 21 0.52
33 1 0.03
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (29 bp):
ATATTTTGTCTTTTTTATTTTTCATTTTT
Found at i:1801 original size:16 final size:15
Alignment explanation
Indices: 1739--1802 Score: 53
Period size: 16 Copynumber: 4.2 Consensus size: 15
1729 TTTTTCTTAA
1739 TTTATTTT-TCATTT
1 TTTATTTTGTCATTT
*
1753 TTATTTTTTGAATC-TTT
1 TT-TATTTTG--TCATTT
*
1770 TTTATTTTTTCATTT
1 TTTATTTTGTCATTT
1785 TCTTATTTTGTC-TTT
1 T-TTATTTTGTCATTT
1800 TTT
1 TTT
1803 TTTGCTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
14 6 0.15
15 13 0.32
16 14 0.35
17 5 0.12
18 2 0.05
ACGTcount: A:0.12, C:0.08, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTATTTTGTCATTT
Found at i:2550 original size:23 final size:23
Alignment explanation
Indices: 2513--2567 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
2503 AACTTTTCTC
* *
2513 TTTTTTA-ATTTTTTTTCT-TTGA
1 TTTTTTATATTGTTTTCCTATT-A
2535 TTTTTTATATTGTTTTCCTATTA
1 TTTTTTATATTGTTTTCCTATTA
*
2558 TTTCTTATAT
1 TTTTTTATAT
2568 GCTTTTCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.25
23 19 0.68
24 2 0.07
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.73
Consensus pattern (23 bp):
TTTTTTATATTGTTTTCCTATTA
Found at i:2657 original size:27 final size:26
Alignment explanation
Indices: 2621--2685 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 26
2611 TGTCATTTCC
2621 TTTTATTTTTGAAATTTTTATTCAAT
1 TTTTATTTTTGAAATTTTTATTCAAT
***
2647 TTTTATCTTTTTTTATTTTTATTCATTATT
1 TTTTAT-TTTTGAAATTTTTATTCA--A-T
2677 TTTTATTTT
1 TTTTATTTT
2686 CTTACTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 6 0.19
27 15 0.47
29 4 0.12
30 7 0.22
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.74
Consensus pattern (26 bp):
TTTTATTTTTGAAATTTTTATTCAAT
Found at i:2659 original size:10 final size:9
Alignment explanation
Indices: 2646--2761 Score: 54
Period size: 9 Copynumber: 11.6 Consensus size: 9
2636 TTTTATTCAA
2646 TTTTTATCTT
1 TTTTTAT-TT
2656 TTTTTATTT
1 TTTTTATTT
*
2665 TTATTCATTAT
1 TT-TTTATT-T
2676 TTTTTA-TT
1 TTTTTATTT
* *
2684 TTCTTACTT
1 TTTTTATTT
*
2693 TTTATATTT
1 TTTTTATTT
2702 TTTATTGCATTT
1 TTT-TT--ATTT
2714 TTGTTTATTTT
1 TT-TTTA-TTT
2725 ATATTTTATATT
1 -T-TTTTAT-TT
2737 CTTTTGTATTT
1 -TTTT-TATTT
* *
2748 TATTTATCT
1 TTTTTATTT
2757 TTTTT
1 TTTTT
2762 GTCTTGCTTT
Statistics
Matches: 83, Mismatches: 11, Indels: 25
0.70 0.09 0.21
Matches are distributed among these distances:
8 6 0.07
9 24 0.29
10 20 0.24
11 12 0.14
12 19 0.23
13 2 0.02
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (9 bp):
TTTTTATTT
Found at i:2665 original size:7 final size:7
Alignment explanation
Indices: 2655--2752 Score: 56
Period size: 7 Copynumber: 13.4 Consensus size: 7
2645 ATTTTTATCT
2655 TTTTTTA
1 TTTTTTA
2662 -TTTTTA
1 TTTTTTA
**
2668 TTCATTA
1 TTTTTTA
2675 TTTTTTA
1 TTTTTTA
2682 TTTTCTTA
1 TTTT-TTA
2690 CTTTTTATA
1 -TTTTT-TA
2699 TTTTTTA
1 TTTTTTA
*
2706 TTGCATTT-
1 TT--TTTTA
*
2714 TTGTTTA
1 TTTTTTA
*
2721 TTTTATA
1 TTTTTTA
*
2728 TTTTATA
1 TTTTTTA
*
2735 TTCTTTTG
1 TT-TTTTA
*
2743 TATTTTA
1 TTTTTTA
2750 TTT
1 TTT
2753 ATCTTTTTTG
Statistics
Matches: 70, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
6 9 0.13
7 37 0.53
8 15 0.21
9 9 0.13
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.74
Consensus pattern (7 bp):
TTTTTTA
Found at i:2677 original size:29 final size:26
Alignment explanation
Indices: 2634--2697 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 26
2624 TATTTTTGAA
* *
2634 ATTTTTATTCAATTTTTATCTTTTTTT
1 ATTTTTATTCAATTTTT-TATTTTCTT
2661 ATTTTTATTCATTATTTTTTATTTTCTT
1 ATTTTTATTCA--ATTTTTTATTTTCTT
2689 ACTTTTTAT
1 A-TTTTTAT
2698 ATTTTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 11 0.34
28 8 0.25
29 13 0.41
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (26 bp):
ATTTTTATTCAATTTTTTATTTTCTT
Found at i:2724 original size:20 final size:18
Alignment explanation
Indices: 2654--2726 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 18
2644 AATTTTTATC
2654 TTTTTTTATTTTTATTCAT
1 TTTTTTTA-TTTTATTCAT
*
2673 TATTTTTTATTTTCTT-ACT
1 T-TTTTTTATTTTATTCA-T
2692 TTTTATATT-TTTTATTGCAT
1 TTTT-T-TTATTTTATT-CAT
2712 TTTTGTTTATTTTAT
1 TTTT-TTTATTTTAT
2727 ATTTTATATT
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
18 4 0.09
19 18 0.41
20 21 0.48
21 1 0.02
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTTTTTATTTTATTCAT
Found at i:2732 original size:36 final size:37
Alignment explanation
Indices: 2662--2741 Score: 94
Period size: 38 Copynumber: 2.1 Consensus size: 37
2652 TCTTTTTTTA
*
2662 TTTTTATTCATTATTTTTTATTTTCTTACTTTTTATAT
1 TTTTTATTCATTATTTTTTATTTTCATAC-TTTTATAT
2700 TTTTTATTGCATT-TTTGTTTATTTT-ATA-TTTTATAT
1 TTTTTATT-CATTATTT-TTTATTTTCATACTTTTATAT
2736 TCTTTT
1 T-TTTT
2742 GTATTTTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
36 9 0.24
37 4 0.11
38 13 0.34
39 12 0.32
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (37 bp):
TTTTTATTCATTATTTTTTATTTTCATACTTTTATAT
Found at i:3007 original size:17 final size:17
Alignment explanation
Indices: 2983--3022 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
2973 TAAATTTCTC
*
2983 TTTT-TTTTCCTTTTTT
1 TTTTGTTTTCATTTTTT
2999 TTTTGTTTTCATTTTTT
1 TTTTGTTTTCATTTTTT
3016 TCTTTGT
1 T-TTTGT
3023 ATTAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 12 0.57
18 5 0.24
ACGTcount: A:0.03, C:0.10, G:0.05, T:0.82
Consensus pattern (17 bp):
TTTTGTTTTCATTTTTT
Found at i:3327 original size:7 final size:7
Alignment explanation
Indices: 3317--3365 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
3307 TTTCAACTTC
*
3317 TTTTAAT
1 TTTTTAT
3324 TTTTTAT
1 TTTTTAT
* *
3331 CTTTGAT
1 TTTTTAT
3338 TTTTTAT
1 TTTTTAT
3345 TTGTTATAT
1 TT-TT-TAT
3354 TTTTTAT
1 TTTTTAT
3361 TTTTT
1 TTTTT
3366 GTTTGTATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
7 26 0.74
8 4 0.11
9 5 0.14
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (7 bp):
TTTTTAT
Found at i:4675 original size:9 final size:9
Alignment explanation
Indices: 4644--4685 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
4634 TTTTCTTTTC
4644 TTTTTTTAA
1 TTTTTTTAA
*
4653 TTTTTATTAG
1 TTTTT-TTAA
*
4663 TTTTTGT-A
1 TTTTTTTAA
4671 TTTTTTTAA
1 TTTTTTTAA
4680 TTTTTT
1 TTTTTT
4686 CTTTTGACTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 6 0.22
9 13 0.48
10 8 0.30
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.79
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:5305 original size:17 final size:16
Alignment explanation
Indices: 5269--5308 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
5259 ATCGTTTTAT
5269 TTTTTTTATTCTCTAA
1 TTTTTTTATTCTCTAA
* *
5285 TTTTTTTATTTTCTTA
1 TTTTTTTATTCTCTAA
*
5301 CTTTTTTA
1 TTTTTTTA
5309 CTTTTTGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTTTATTCTCTAA
Found at i:5382 original size:18 final size:18
Alignment explanation
Indices: 5361--5418 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
5351 TTTATTTTAT
5361 TTTTCTTTTATATTAATA
1 TTTTCTTTTATATTAATA
** * ** *
5379 TTTTCTCCTATTTTTTTC
1 TTTTCTTTTATATTAATA
*
5397 TTTTATTTTATATTAATA
1 TTTTCTTTTATATTAATA
5415 TTTT
1 TTTT
5419 TTCTTAATTT
Statistics
Matches: 27, Mismatches: 13, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTCTTTTATATTAATA
Found at i:5409 original size:36 final size:40
Alignment explanation
Indices: 5361--5445 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 40
5351 TTTATTTTAT
*
5361 TTTTCTTTTATATTAATATTTTCTCCT-A-TT-TTTTTC-
1 TTTTATTTTATATTAATATTTTCTCCTAATTTATTTTTCA
* *
5397 TTTTATTTTATATTAATATTTTTTCTTAATTTATTTTTCA
1 TTTTATTTTATATTAATATTTTCTCCTAATTTATTTTTCA
5437 TTTTATTTT
1 TTTTATTTT
5446 TTGAATCTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
36 24 0.57
37 1 0.02
38 2 0.05
39 6 0.14
40 9 0.21
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (40 bp):
TTTTATTTTATATTAATATTTTCTCCTAATTTATTTTTCA
Found at i:5474 original size:15 final size:14
Alignment explanation
Indices: 5426--5486 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 14
5416 TTTTTCTTAA
5426 TTTATTTTTCATTT
1 TTTATTTTTCATTT
**
5440 TATT-TTTTGAATCTT
1 T-TTATTTTTCAT-TT
5455 TTTATTTTTCATTT
1 TTTATTTTTCATTT
5469 TCTTATTTTGTC-TTT
1 T-TTATTTT-TCATTT
5484 TTT
1 TTT
5487 TTGCTATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
14 14 0.37
15 22 0.58
16 2 0.05
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.75
Consensus pattern (14 bp):
TTTATTTTTCATTT
Found at i:5486 original size:29 final size:28
Alignment explanation
Indices: 5426--5485 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
5416 TTTTTCTTAA
5426 TTTATTTTTCATTTTATTTTTTGAATCTT
1 TTTATTTTTCATTTTATTTTTTG-ATCTT
*
5455 TTTATTTTTCATTTTCTTATTTTG-TCTT
1 TTTATTTTTCATTTTATT-TTTTGATCTT
5483 TTT
1 TTT
5486 TTTGCTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 7 0.24
29 17 0.59
30 5 0.17
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.75
Consensus pattern (28 bp):
TTTATTTTTCATTTTATTTTTTGATCTT
Found at i:6338 original size:10 final size:9
Alignment explanation
Indices: 6325--6441 Score: 56
Period size: 9 Copynumber: 11.6 Consensus size: 9
6315 TTTTATTCAA
6325 TTTTTATCTT
1 TTTTTAT-TT
6335 TTTTTATTT
1 TTTTTATTT
6344 TTTATTCATTAT
1 TTT-TT-ATT-T
6356 TTTTTA-TT
1 TTTTTATTT
* *
6364 TTCTTACTT
1 TTTTTATTT
*
6373 TTTATATTT
1 TTTTTATTT
6382 TTTATTGCATTT
1 TTT-TT--ATTT
6394 TTGTTTATTTT
1 TT-TTTA-TTT
6405 ATATTTTATATT
1 -T-TTTTAT-TT
6417 CTTTTGTATTT
1 -TTTT-TATTT
* *
6428 TATTTATCT
1 TTTTTATTT
6437 TTTTT
1 TTTTT
6442 GTCTTGCTTT
Statistics
Matches: 85, Mismatches: 9, Indels: 27
0.70 0.07 0.22
Matches are distributed among these distances:
8 6 0.07
9 25 0.29
10 15 0.18
11 14 0.16
12 23 0.27
13 2 0.02
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (9 bp):
TTTTTATTT
Found at i:6344 original size:7 final size:7
Alignment explanation
Indices: 6334--6432 Score: 65
Period size: 7 Copynumber: 13.4 Consensus size: 7
6324 ATTTTTATCT
6334 TTTTTTA
1 TTTTTTA
6341 TTTTTTA
1 TTTTTTA
**
6348 TTCATTA
1 TTTTTTA
6355 TTTTTTA
1 TTTTTTA
6362 TTTTCTTA
1 TTTT-TTA
6370 CTTTTTATA
1 -TTTTT-TA
6379 TTTTTTA
1 TTTTTTA
*
6386 TTGCATTT-
1 TT--TTTTA
*
6394 TTGTTTA
1 TTTTTTA
*
6401 TTTTATA
1 TTTTTTA
*
6408 TTTTATA
1 TTTTTTA
*
6415 TTCTTTTG
1 TT-TTTTA
*
6423 TATTTTA
1 TTTTTTA
6430 TTT
1 TTT
6433 ATCTTTTTTG
Statistics
Matches: 72, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
6 3 0.04
7 45 0.62
8 15 0.21
9 9 0.12
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (7 bp):
TTTTTTA
Found at i:6358 original size:29 final size:28
Alignment explanation
Indices: 6314--6377 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
6304 ATTTTTGAAA
* * *
6314 TTTTTATTCAATTTTTATCTTTTTTTAT
1 TTTTTATTCAATTTTTATATTTTCTTAC
6342 TTTTTATTCATTATTTTT-TATTTTCTTAC
1 TTTTTATTCA--ATTTTTATATTTTCTTAC
6371 TTTTTAT
1 TTTTTAT
6378 ATTTTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 10 0.32
29 15 0.48
30 6 0.19
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (28 bp):
TTTTTATTCAATTTTTATATTTTCTTAC
Found at i:6412 original size:36 final size:37
Alignment explanation
Indices: 6334--6421 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 37
6324 ATTTTTATCT
* *
6334 TTTTTTATTTTTTATTCATTATTTTTTATTTTCTTAC
1 TTTTATATTTTTTATTCATTATTTTTTATTTTCATAC
6371 TTTTTATATTTTTTATTGCATT-TTTGTTTATTTT-ATA-
1 -TTTTATATTTTTTATT-CATTATTT-TTTATTTTCATAC
6408 TTTTATATTCTTTT
1 TTTTATATT-TTTT
6422 GTATTTTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
36 9 0.20
37 4 0.09
38 20 0.44
39 12 0.27
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (37 bp):
TTTTATATTTTTTATTCATTATTTTTTATTTTCATAC
Found at i:6682 original size:17 final size:17
Alignment explanation
Indices: 6662--6702 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
6652 TAAATTTCTC
*
6662 TTTTT-TTTTCCTTTTT
1 TTTTTGTTTTCATTTTT
6678 TTTTTGTTTTCATTTTT
1 TTTTTGTTTTCATTTTT
6695 TTCTTTGT
1 TT-TTTGT
6703 ATTAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.23
17 12 0.55
18 5 0.23
ACGTcount: A:0.02, C:0.10, G:0.05, T:0.83
Consensus pattern (17 bp):
TTTTTGTTTTCATTTTT
Found at i:7006 original size:7 final size:7
Alignment explanation
Indices: 6996--7044 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
6986 TTTCAACTTC
*
6996 TTTTAAT
1 TTTTTAT
7003 TTTTTAT
1 TTTTTAT
* *
7010 CTTTGAT
1 TTTTTAT
7017 TTTTTAT
1 TTTTTAT
7024 TTGTTATAT
1 TT-TT-TAT
7033 TTTTTAT
1 TTTTTAT
7040 TTTTT
1 TTTTT
7045 GTTTGTATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
7 26 0.74
8 4 0.11
9 5 0.14
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (7 bp):
TTTTTAT
Found at i:7053 original size:110 final size:115
Alignment explanation
Indices: 6885--7123 Score: 292
Period size: 110 Copynumber: 2.1 Consensus size: 115
6875 TTTCCCTCTG
* * *
6885 TTAATTTTTGTATCTTTGATTTTTTTATTTTTTCTTATTACATTATTTTTGCTTGTATTTTCTAA
1 TTAATTTTTGTATCTTTGATTTTTTTATTTGTTCATATTACATTATTTTTGCTTGTATTTTATAA
*
6950 ATTAATTTT-TTTTCTACTTTGTCATCCCTT-TTCATTTTTCAACTTCTT
66 ACTAATTTTATTTTCTACTTTGTCATCCCTTCTTCATTTTTCAACTTCTT
** *
6998 TTAATTTTT-TATCTTTGA-TTTTTTATTTGTT-ATATT-TTTTATTTTTTGTTTGTATTTTATA
1 TTAATTTTTGTATCTTTGATTTTTTTATTTGTTCATATTACATTA-TTTTTGCTTGTATTTTATA
* ** * * *
7059 AACTAATTTTATTTTCTATTTTGTCATCTTTTCTTCATTTTTGAAATTTTT
65 AACTAATTTTATTTTCTACTTTGTCATCCCTTCTTCATTTTTCAACTTCTT
*
7110 ATTAGTTTTTGTAT
1 -TTAATTTTTGTAT
7124 TTTTATAATT
Statistics
Matches: 107, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
109 3 0.03
110 30 0.28
111 30 0.28
112 24 0.22
113 17 0.16
114 3 0.03
ACGTcount: A:0.19, C:0.09, G:0.05, T:0.67
Consensus pattern (115 bp):
TTAATTTTTGTATCTTTGATTTTTTTATTTGTTCATATTACATTATTTTTGCTTGTATTTTATAA
ACTAATTTTATTTTCTACTTTGTCATCCCTTCTTCATTTTTCAACTTCTT
Found at i:8320 original size:9 final size:9
Alignment explanation
Indices: 8289--8330 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
8279 TTTTCTTTTC
8289 TTTTTTTAA
1 TTTTTTTAA
*
8298 TTTTTATTAG
1 TTTTT-TTAA
*
8308 TTTTTGT-A
1 TTTTTTTAA
8316 TTTTTTTAA
1 TTTTTTTAA
8325 TTTTTT
1 TTTTTT
8331 CTTTTGACTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 6 0.22
9 13 0.48
10 8 0.30
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.79
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:8951 original size:17 final size:16
Alignment explanation
Indices: 8915--8954 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
8905 ATCGTTTTAT
8915 TTTTTTTATTCTCTAA
1 TTTTTTTATTCTCTAA
* *
8931 TTTTTTTATTTTCTTA
1 TTTTTTTATTCTCTAA
*
8947 CTTTTTTA
1 TTTTTTTA
8955 CTTTTTGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTTTATTCTCTAA
Found at i:9081 original size:39 final size:39
Alignment explanation
Indices: 8983--9093 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 39
8973 TTTTAATTGT
* * *
8983 TATTTTTTCAGTATTTTATTTTAT-TTTTCTTTTATATTAA
1 TATTTTTTC-CTAATTTATTTT-TCTTTTATTTTATATTAA
*
9023 TATTTTCTCCT-ATTT-TTTTTCTTTTATTTTATATTAA
1 TATTTTTTCCTAATTTATTTTTCTTTTATTTTATATTAA
*
9060 TATTTTTTCTTAATTTATTTTTCATTTTTATTTT
1 TATTTTTTCCTAATTTATTTTTC--TTTTATTTT
9094 TTGAATCTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
36 1 0.02
37 28 0.47
38 7 0.12
39 7 0.12
40 8 0.13
41 9 0.15
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.72
Consensus pattern (39 bp):
TATTTTTTCCTAATTTATTTTTCTTTTATTTTATATTAA
Found at i:9128 original size:32 final size:29
Alignment explanation
Indices: 9059--9136 Score: 77
Period size: 32 Copynumber: 2.6 Consensus size: 29
9049 TTTTATATTA
* *
9059 ATATTTTTTCTTAATTTATTTTTCATTTTT
1 ATATTTTGTCTT-TTTTATTTTTCATTTTT
*
9089 ATTTTTTGAATCTTTTTTATTTTTTCATTTTCT
1 ATATTTTG--TCTTTTTTA-TTTTTCATTTT-T
9122 -TATTTTGTCTTTTTT
1 ATATTTTGTCTTTTTT
9137 TTTGCTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
30 14 0.35
31 4 0.10
32 21 0.52
33 1 0.03
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (29 bp):
ATATTTTGTCTTTTTTATTTTTCATTTTT
Found at i:9135 original size:16 final size:15
Alignment explanation
Indices: 9073--9136 Score: 53
Period size: 16 Copynumber: 4.2 Consensus size: 15
9063 TTTTTCTTAA
9073 TTTATTTT-TCATTT
1 TTTATTTTGTCATTT
*
9087 TTATTTTTTGAATC-TTT
1 TT-TATTTTG--TCATTT
*
9104 TTTATTTTTTCATTT
1 TTTATTTTGTCATTT
9119 TCTTATTTTGTC-TTT
1 T-TTATTTTGTCATTT
9134 TTT
1 TTT
9137 TTTGCTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
14 6 0.15
15 13 0.32
16 14 0.35
17 5 0.12
18 2 0.05
ACGTcount: A:0.12, C:0.08, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTATTTTGTCATTT
Found at i:9530 original size:20 final size:21
Alignment explanation
Indices: 9507--9559 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
9497 TCTTTTTCAC
*
9507 TTTTTTAATTTTT-ATTCATT-
1 TTTTTT-ATTTTTGATTAATTA
*
9527 TTTTGTATTTTTGATTAATTA
1 TTTTTTATTTTTGATTAATTA
*
9548 TTTTTTCTTTTT
1 TTTTTTATTTTT
9560 TTTTTTGTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 6 0.22
20 11 0.41
21 10 0.37
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (21 bp):
TTTTTTATTTTTGATTAATTA
Found at i:9884 original size:23 final size:23
Alignment explanation
Indices: 9847--9901 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
9837 AACTTTTCTC
* *
9847 TTTTTTA-ATTTTTTTTCT-TTGA
1 TTTTTTATATTGTTTTCCTATT-A
9869 TTTTTTATATTGTTTTCCTATTA
1 TTTTTTATATTGTTTTCCTATTA
*
9892 TTTCTTATAT
1 TTTTTTATAT
9902 GCTTTTCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.25
23 19 0.68
24 2 0.07
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.73
Consensus pattern (23 bp):
TTTTTTATATTGTTTTCCTATTA
Found at i:9991 original size:9 final size:8
Alignment explanation
Indices: 9979--10170 Score: 52
Period size: 9 Copynumber: 22.1 Consensus size: 8
9969 TTTTATTCAA
9979 TTTTATCTT
1 TTTTAT-TT
9988 TTTTATTT
1 TTTTATTT
9996 TTATTCATTAT
1 TT-TT-ATT-T
10007 TTTTA-TT
1 TTTTATTT
* *
10014 TCTTACTT
1 TTTTATTT
*
10022 TTATATTT
1 TTTTATTT
10030 TTATTGCATTT
1 TT-TT--ATTT
* *
10041 TTGT-TTA
1 TTTTATTT
10048 TTTTATATT
1 TTTTAT-TT
*
10057 TTATATTCT
1 TTTTATT-T
10066 TTTGTATTT
1 TTT-TATTT
10075 TATTTATCTT
1 T-TTTAT-TT
*
10085 TTTTGTCTT
1 TTTTAT-TT
*
10094 GCTTTAATATT
1 --TTTTAT-TT
* *
10105 TTTTCTTA
1 TTTTATTT
10113 TTTTA--T
1 TTTTATTT
10119 TTTTA-TT
1 TTTTATTT
10126 TTTTATTT
1 TTTTATTT
*
10134 TGGTTGATTT
1 T--TTTATTT
10144 TTTTATTT
1 TTTTATTT
* *
10152 CTTTCTTT
1 TTTTATTT
10160 ATTTATATTT
1 -TTT-TATTT
10170 T
1 T
10171 CATAAATTTT
Statistics
Matches: 136, Mismatches: 26, Indels: 42
0.67 0.13 0.21
Matches are distributed among these distances:
6 5 0.04
7 16 0.12
8 36 0.26
9 38 0.28
10 26 0.19
11 15 0.11
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.73
Consensus pattern (8 bp):
TTTTATTT
Found at i:9998 original size:6 final size:6
Alignment explanation
Indices: 9987--10034 Score: 51
Period size: 6 Copynumber: 7.3 Consensus size: 6
9977 AATTTTATCT
*
9987 TTTTTA TTTTTA TTCATTA TTTTTA TTTCTTA CTTTTATA TTTTTA TT
1 TTTTTA TTTTTA TT-TTTA TTTTTA TTT-TTA -TTTT-TA TTTTTA TT
10035 GCATTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
6 18 0.50
7 13 0.36
8 5 0.14
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:10029 original size:34 final size:36
Alignment explanation
Indices: 9978--10063 Score: 110
Period size: 34 Copynumber: 2.5 Consensus size: 36
9968 ATTTTATTCA
*
9978 ATTTTAT-CTTTTTTATTTTTATT-CATTATT-TTT
1 ATTTTATACTTTTATATTTTTATTGCATTATTGTTT
*
10011 ATTTCT-TACTTTTATATTTTTATTGCATTTTTGTTT
1 ATTT-TATACTTTTATATTTTTATTGCATTATTGTTT
10047 ATTTTATA-TTTTATATT
1 ATTTTATACTTTTATATT
10064 CTTTTGTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
33 5 0.11
34 16 0.35
35 16 0.35
36 9 0.20
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (36 bp):
ATTTTATACTTTTATATTTTTATTGCATTATTGTTT
Found at i:10329 original size:16 final size:16
Alignment explanation
Indices: 10306--10343 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
10296 TAAATTTCTC
*
10306 TTTT-TTTTCCTTTTT
1 TTTTGTTTTCATTTTT
10321 TTTTGTTTTCATTTTT
1 TTTTGTTTTCATTTTT
10337 TCTTTGT
1 T-TTTGT
10344 ATTAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 11 0.55
17 5 0.25
ACGTcount: A:0.03, C:0.11, G:0.05, T:0.82
Consensus pattern (16 bp):
TTTTGTTTTCATTTTT
Found at i:10647 original size:7 final size:7
Alignment explanation
Indices: 10637--10684 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
10627 TTTCAACTTC
*
10637 TTTTAAT
1 TTTTTAT
10644 TTTTTAT
1 TTTTTAT
* *
10651 CTTTGAT
1 TTTTTAT
10658 TTTTTAT
1 TTTTTAT
10665 TTGTTATAT
1 TT-TT-TAT
10674 TTTTTAT
1 TTTTTAT
10681 TTTT
1 TTTT
10685 GTTTGTATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
7 25 0.74
8 4 0.12
9 5 0.15
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (7 bp):
TTTTTAT
Found at i:10693 original size:108 final size:114
Alignment explanation
Indices: 10525--10763 Score: 276
Period size: 111 Copynumber: 2.1 Consensus size: 114
10515 TTTCCCTCTG
* * *
10525 TTAATTTTTGTATCTTTGATTTTTTTTATTTTTTTCTTATTACATTATTTTTGCTTGTATTTTCT
1 TTAATTTTTGTATCTTTGA-TTTTTTTATTTTTATATTATT--ATTATTTTTGCTTGTATTTTAT
*
10590 AAATTAA-TTT-TTTTCTACTTTGTCATCCCTT-TTCATTTTTCAACTTCTT
63 AAACTAATTTTATTTTCTACTTTGTCATCCCTTCTTCATTTTTCAACTTCTT
*
10639 TTAATTTTT-TATCTTTGA-TTTTTTATTTGTTATATT-TT-TTATTTTTGTTTGTATTTTATAA
1 TTAATTTTTGTATCTTTGATTTTTTTATTT-TTATATTATTATTATTTTTGCTTGTATTTTATAA
* ** * * *
10700 ACTAATTTTATTTTCTATTTTGTCATCTTTTCTTCATTTTTGAAATTTTT
65 ACTAATTTTATTTTCTACTTTGTCATCCCTTCTTCATTTTTCAACTTCTT
*
10750 ATTAGTTTTTGTAT
1 -TTAATTTTTGTAT
10764 TTTTATAATT
Statistics
Matches: 107, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
108 25 0.23
109 3 0.03
110 18 0.17
111 27 0.25
112 13 0.12
113 12 0.11
114 9 0.08
ACGTcount: A:0.19, C:0.09, G:0.05, T:0.67
Consensus pattern (114 bp):
TTAATTTTTGTATCTTTGATTTTTTTATTTTTATATTATTATTATTTTTGCTTGTATTTTATAAA
CTAATTTTATTTTCTACTTTGTCATCCCTTCTTCATTTTTCAACTTCTT
Found at i:12609 original size:15 final size:16
Alignment explanation
Indices: 12591--12628 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
12581 ATCGTTTTAT
12591 TTTTTTATTCTC-TAA
1 TTTTTTATTCTCTTAA
* *
12606 TTTTTTATTTTCTTAC
1 TTTTTTATTCTCTTAA
12622 TTTTTTA
1 TTTTTTA
12629 CTTTTTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTATTCTCTTAA
Found at i:12625 original size:16 final size:15
Alignment explanation
Indices: 12591--12633 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
12581 ATCGTTTTAT
*
12591 TTTTTTATTCTCTAA
1 TTTTTTATTTTCTAA
*
12606 TTTTTTATTTTCTTAC
1 TTTTTTATTTTC-TAA
12622 TTTTTTACTTTT
1 TTTTTTA-TTTT
12634 TGTTTTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 9 0.38
17 4 0.17
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTATTTTCTAA
Found at i:12755 original size:39 final size:39
Alignment explanation
Indices: 12657--12767 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 39
12647 TTTTAATTGT
* * *
12657 TATTTTTTCAGTATTTTATTTTAT-TTTTCTTTTATATTAA
1 TATTTTTTC-CTAATTTATTTT-TCTTTTATTTTATATTAA
*
12697 TATTTTCTCCT-ATTT-TTTTTCTTTTATTTTATATTAA
1 TATTTTTTCCTAATTTATTTTTCTTTTATTTTATATTAA
*
12734 TATTTTTTCTTAATTTATTTTTCATTTTTATTTT
1 TATTTTTTCCTAATTTATTTTTC--TTTTATTTT
12768 TTGAATCTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
36 1 0.02
37 28 0.47
38 7 0.12
39 7 0.12
40 8 0.13
41 9 0.15
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.72
Consensus pattern (39 bp):
TATTTTTTCCTAATTTATTTTTCTTTTATTTTATATTAA
Found at i:12801 original size:31 final size:29
Alignment explanation
Indices: 12733--12809 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 29
12723 TTTTATATTA
* *
12733 ATATTTTTTCTTAATTTATTTTTCATTTTT
1 ATATTTTGTCTT-TTTTATTTTTCATTTTT
*
12763 ATTTTTTGAATCTTTTTTATTTTTCATTTTCT
1 ATATTTTG--TCTTTTTTATTTTTCATTTT-T
12795 -TATTTTGTCTTTTTT
1 ATATTTTGTCTTTTTT
12810 TTGCTATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
29 8 0.20
30 6 0.15
31 21 0.52
32 5 0.12
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (29 bp):
ATATTTTGTCTTTTTTATTTTTCATTTTT
Found at i:12811 original size:31 final size:31
Alignment explanation
Indices: 12747--12809 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
12737 TTTTTCTTAA
*
12747 TTTATTTTTCATTTTTATTTTTTGAATCTTT
1 TTTATTTTTCATTTTTATATTTTGAATCTTT
12778 TTTATTTTTCATTTTCT-TATTTTG--TCTTT
1 TTTATTTTTCATTTT-TATATTTTGAATCTTT
12807 TTT
1 TTT
12810 TTGCTATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 8 0.27
31 21 0.70
32 1 0.03
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.76
Consensus pattern (31 bp):
TTTATTTTTCATTTTTATATTTTGAATCTTT
Found at i:13217 original size:19 final size:19
Alignment explanation
Indices: 13169--13219 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
13159 ATTTTTTTTA
* *
13169 TTTTGTCATTCTTTTTCACT
1 TTTTGTAATT-TTTTTCAAT
13189 TTTT-TAATTTTTATTCAAT
1 TTTTGTAATTTTT-TTCAAT
13208 TTTTGT-ATTTTT
1 TTTTGTAATTTTT
13220 GATTAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 3 0.11
19 19 0.70
20 5 0.19
ACGTcount: A:0.16, C:0.10, G:0.04, T:0.71
Consensus pattern (19 bp):
TTTTGTAATTTTTTTCAAT
Found at i:13564 original size:23 final size:23
Alignment explanation
Indices: 13539--13581 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
13529 TTTTAATTTT
13539 TTTTCTT-TGATTTTTTATATTG
1 TTTTCTTATGATTTTTTATATTG
* *
13561 TTTTCTTATTATTTCTTATAT
1 TTTTCTTATGATTTTTTATAT
13582 GCTTTTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.72
Consensus pattern (23 bp):
TTTTCTTATGATTTTTTATATTG
Found at i:13673 original size:10 final size:9
Alignment explanation
Indices: 13660--13764 Score: 68
Period size: 9 Copynumber: 11.1 Consensus size: 9
13650 TTTTATTCAA
13660 TTTTTATCTT
1 TTTTTAT-TT
13670 TTTTTA-TT
1 TTTTTATTT
13678 TTTTTATTT
1 TTTTTATTT
*
13687 TTGATTCATTAT
1 TT--TTTATT-T
13699 TTTTTATTGT
1 TTTTTATT-T
*
13709 ATTTTTGTTT
1 -TTTTTATTT
* *
13719 ATTTTATAT
1 TTTTTATTT
*
13728 TTTATATTT
1 TTTTTATTT
*
13737 TTTGTATTT
1 TTTTTATTT
* *
13746 TATTTATCT
1 TTTTTATTT
*
13755 TTTTTGTTT
1 TTTTTATTT
13764 T
1 T
13765 GCTTTAATAT
Statistics
Matches: 73, Mismatches: 17, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
8 8 0.11
9 37 0.51
10 13 0.18
11 12 0.16
12 3 0.04
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (9 bp):
TTTTTATTT
Found at i:13679 original size:7 final size:7
Alignment explanation
Indices: 13669--13750 Score: 58
Period size: 7 Copynumber: 11.4 Consensus size: 7
13659 ATTTTTATCT
13669 TTTTTTA
1 TTTTTTA
13676 TTTTTTTA
1 -TTTTTTA
*
13684 TTTTTGA
1 TTTTTTA
**
13691 TTCATTA
1 TTTTTTA
13698 TTTTTTA
1 TTTTTTA
13705 TTGTATTT-
1 TT-T-TTTA
*
13713 TTGTTTA
1 TTTTTTA
*
13720 TTTTATA
1 TTTTTTA
*
13727 TTTTATA
1 TTTTTTA
*
13734 TTTTTTG
1 TTTTTTA
*
13741 TATTTTA
1 TTTTTTA
13748 TTT
1 TTT
13751 ATCTTTTTTG
Statistics
Matches: 57, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
6 3 0.05
7 41 0.72
8 10 0.18
9 3 0.05
ACGTcount: A:0.17, C:0.01, G:0.05, T:0.77
Consensus pattern (7 bp):
TTTTTTA
Found at i:13720 original size:22 final size:22
Alignment explanation
Indices: 13695--13748 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
13685 TTTTGATTCA
* * *
13695 TTATTTTTTATTGTATTTTTGT
1 TTATTTTATATTGTATATTTTT
*
13717 TTATTTTATATTTTATATTTTT
1 TTATTTTATATTGTATATTTTT
13739 TGTATTTTAT
1 T-TATTTTAT
13749 TTATCTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.76
Consensus pattern (22 bp):
TTATTTTATATTGTATATTTTT
Found at i:13720 original size:36 final size:32
Alignment explanation
Indices: 13661--13752 Score: 91
Period size: 32 Copynumber: 2.8 Consensus size: 32
13651 TTTATTCAAT
*
13661 TTTTATCTTTTTT-TA-TTTTTTTATTTT-TGA
1 TTTTATATTTTTTGTATTTTTTTTATTTTAT-A
*
13691 TTCATTATTTTTTATTGTATTTTTGTTTATTTTATA
1 TT--TTATATTTT-TTGTATTTTT-TTTATTTTATA
*
13727 TTTTATATTTTTTGTATTTTATTTAT
1 TTTTATATTTTTTGTATTTTTTTTAT
13753 CTTTTTTGTT
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
30 2 0.04
32 13 0.25
33 11 0.21
34 10 0.19
35 4 0.08
36 11 0.21
37 1 0.02
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.76
Consensus pattern (32 bp):
TTTTATATTTTTTGTATTTTTTTTATTTTATA
Found at i:13777 original size:20 final size:20
Alignment explanation
Indices: 13728--13779 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
13718 TATTTTATAT
*
13728 TTTATATTTTTTGTATTTTA
1 TTTATATTTTTTGTATTTGA
* *
13748 TTTATCTTTTTTGT-TTTGC
1 TTTATATTTTTTGTATTTGA
13767 TTTAATATTTTTT
1 TTT-ATATTTTTT
13780 TCTTATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.75
Consensus pattern (20 bp):
TTTATATTTTTTGTATTTGA
Found at i:13800 original size:35 final size:35
Alignment explanation
Indices: 13768--13834 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
13758 TTGTTTTGCT
13768 TTAATATTTT-TTTCTTAT-TTTATTTTTATTTTGG
1 TTAATATTTTATTTCTT-TCTTTATTTTTATTTTGG
* * *
13802 TTGATTTTTTATTTCTTTCTTTATTTATATTTT
1 TTAATATTTTATTTCTTTCTTTATTTTTATTTT
13835 CATAAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 9 0.32
35 19 0.68
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.75
Consensus pattern (35 bp):
TTAATATTTTATTTCTTTCTTTATTTTTATTTTGG
Found at i:14800 original size:21 final size:21
Alignment explanation
Indices: 14776--14859 Score: 54
Period size: 19 Copynumber: 4.2 Consensus size: 21
14766 AACAAAATTA
14776 TATTGTATAATATTTATCTTT
1 TATTGTATAATATTTATCTTT
***
14797 TATT-TAATAA-ATTT-TGGAT
1 TATTGT-ATAATATTTATCTTT
* *
14816 TATTTTAT-TTA-TTAT-TTT
1 TATTGTATAATATTTATCTTT
*
14834 GGATTGTATAATATTTATCTTT
1 -TATTGTATAATATTTATCTTT
14856 TATT
1 TATT
14860 TGATACAATT
Statistics
Matches: 45, Mismatches: 10, Indels: 16
0.63 0.14 0.23
Matches are distributed among these distances:
18 3 0.07
19 16 0.36
20 8 0.18
21 15 0.33
22 3 0.07
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (21 bp):
TATTGTATAATATTTATCTTT
Found at i:14821 original size:24 final size:22
Alignment explanation
Indices: 14794--14838 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
14784 AATATTTATC
14794 TTTTATTTAATAAATTTTGGATTA
1 TTTTATTT-AT-AATTTTGGATTA
*
14818 TTTTATTTATTATTTTGGATT
1 TTTTATTTATAATTTTGGATT
14839 GTATAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 2 0.10
24 8 0.40
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (22 bp):
TTTTATTTATAATTTTGGATTA
Found at i:15523 original size:30 final size:28
Alignment explanation
Indices: 15482--15537 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
15472 TTTTATCCAC
*
15482 ACTTCTTTCTTTTGTTTTTATTTTTTATTA
1 ACTTCTTTC-TTT-TTTTAATTTTTTATTA
*
15512 ACTTTTTTCTTTTTTTAATTTTTTAT
1 ACTTCTTTCTTTTTTTAATTTTTTAT
15538 CATTGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.54
29 3 0.12
30 8 0.33
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (28 bp):
ACTTCTTTCTTTTTTTAATTTTTTATTA
Found at i:16263 original size:15 final size:16
Alignment explanation
Indices: 16245--16283 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
16235 TTATCGTTTT
16245 ATTTTTTATTCTC-TA
1 ATTTTTTATTCTCTTA
*
16260 ATTTTTTATTTTCTTA
1 ATTTTTTATTCTCTTA
*
16276 CTTTTTTA
1 ATTTTTTA
16284 CTTTTTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTTTTTATTCTCTTA
Found at i:16280 original size:16 final size:15
Alignment explanation
Indices: 16245--16288 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
16235 TTATCGTTTT
*
16245 ATTTTTTATTCTCTA
1 ATTTTTTATTTTCTA
16260 ATTTTTTATTTTCTTA
1 ATTTTTTATTTTC-TA
*
16276 CTTTTTTACTTTT
1 ATTTTTTA-TTTT
16289 TGTTTTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 9 0.36
17 4 0.16
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTTTATTTTCTA
Found at i:16560 original size:17 final size:17
Alignment explanation
Indices: 16545--16596 Score: 70
Period size: 17 Copynumber: 3.0 Consensus size: 17
16535 GCTTTTTTTT
*
16545 TTTTTTCATATGTTTTCA
1 TTTTTTCAT-TGTTTTAA
16563 TTTTTT-ATTTGTTTTAA
1 TTTTTTCA-TTGTTTTAA
16580 TTTTTTCATTGTTTTAA
1 TTTTTTCATTGTTTTAA
16597 ACTTTTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 23 0.74
18 8 0.26
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTTTTCATTGTTTTAA
Found at i:16566 original size:25 final size:24
Alignment explanation
Indices: 16537--16594 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
16527 TTCTTTTTGC
*
16537 TTTTTTTTTTTTTTCATATGTTTTCA
1 TTTTTTTTTGTTTT-A-ATGTTTTCA
*
16563 TTTTTTATTTGTTTTAATTTTTTCA
1 TTTTTT-TTTGTTTTAATGTTTTCA
*
16588 TTGTTTT
1 TTTTTTT
16595 AAACTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 1 0.04
25 13 0.46
26 7 0.25
27 7 0.25
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.78
Consensus pattern (24 bp):
TTTTTTTTTGTTTTAATGTTTTCA
Found at i:17005 original size:11 final size:11
Alignment explanation
Indices: 16991--17015 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16981 TTTATTTTGG
16991 TTTCTTTTTTA
1 TTTCTTTTTTA
17002 TTTCTTTTTTA
1 TTTCTTTTTTA
17013 TTT
1 TTT
17016 ATATTTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTCTTTTTTA
Found at i:17507 original size:19 final size:19
Alignment explanation
Indices: 17483--17528 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
17473 TTTTTATATC
17483 TTTATTTCTTATTATTTGT
1 TTTATTTCTTATTATTTGT
* *
17502 TTTATTTTTTATTTTTTGT
1 TTTATTTCTTATTATTTGT
17521 TTGTATTT
1 TT-TATTT
17529 TATAAACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.13, C:0.02, G:0.07, T:0.78
Consensus pattern (19 bp):
TTTATTTCTTATTATTTGT
Found at i:17601 original size:17 final size:17
Alignment explanation
Indices: 17559--17608 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
17549 ATTTTGTCGT
17559 TTTTTCTTTATTTTTGAA
1 TTTTT-TTTATTTTTGAA
* * *
17577 ATTTTTTTGTTTTTGTA
1 TTTTTTTTATTTTTGAA
17594 TTTTTTTTAATTTTT
1 TTTTTTTT-ATTTTT
17609 TCTTTTGACT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.14, C:0.02, G:0.06, T:0.78
Consensus pattern (17 bp):
TTTTTTTTATTTTTGAA
Found at i:18110 original size:122 final size:122
Alignment explanation
Indices: 17963--18202 Score: 426
Period size: 122 Copynumber: 2.0 Consensus size: 122
17953 TTTATTACTT
17963 ATTATTTTATTTACTATTTTGGATTGTATAATATTTATCTTATATTTAATACAATTTGTTAAGAG
1 ATTATTTTATTTACTATTTTGGATTGTATAATATTTATCTTATATTTAATACAATTTGTTAAGAG
18028 ATAATAATTATCTTTATTATTTTCTTTTGGAATTTTATTGGCTTATATATAATTTTA
66 ATAATAATTATCTTTATTATTTTCTTTTGGAATTTTATTGGCTTATATATAATTTTA
* * * *
18085 ATTATTTTATTTATTATTTTGGATTGTATAATATTTATCTTTTATTTATTACAATTTGTTAAGTG
1 ATTATTTTATTTACTATTTTGGATTGTATAATATTTATCTTATATTTAATACAATTTGTTAAGAG
* *
18150 ATAATAATTATTTTTGTTATTTTCTTTTGGAATTTTATTGGCTTATATATAAT
66 ATAATAATTATCTTTATTATTTTCTTTTGGAATTTTATTGGCTTATATATAAT
18203 AACACTAGTT
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
122 112 1.00
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (122 bp):
ATTATTTTATTTACTATTTTGGATTGTATAATATTTATCTTATATTTAATACAATTTGTTAAGAG
ATAATAATTATCTTTATTATTTTCTTTTGGAATTTTATTGGCTTATATATAATTTTA
Found at i:18483 original size:17 final size:16
Alignment explanation
Indices: 18457--18508 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 16
18447 ATTTTCTTAA
18457 TTTTTTATTTATTATT
1 TTTTTTATTTATTATT
18473 TTTTGTTATTTAGTATATT
1 TTTT-TTATTTA-T-TATT
18492 TTTCTTT-TTT-TTATT
1 TTT-TTTATTTATTATT
18507 TT
1 TT
18509 CATTCCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
15 6 0.19
16 5 0.16
17 7 0.22
18 4 0.12
19 9 0.28
20 1 0.03
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (16 bp):
TTTTTTATTTATTATT
Found at i:18483 original size:24 final size:22
Alignment explanation
Indices: 18447--18508 Score: 52
Period size: 24 Copynumber: 2.6 Consensus size: 22
18437 CTTTTTATGC
* * *
18447 ATTTTCTTAATTTTTTATTTATT
1 ATTTTTTTTATTTTATATTT-TT
18470 ATTTTTTGTTATTTAGTATATTTTT
1 ATTTTTT-TTATTT--TATATTTTT
*
18495 CTTTTTTTTATTTT
1 ATTTTTTTTATTTT
18509 CATTCCTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
22 1 0.03
23 6 0.19
24 11 0.34
25 8 0.25
26 6 0.19
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (22 bp):
ATTTTTTTTATTTTATATTTTT
Found at i:18789 original size:16 final size:15
Alignment explanation
Indices: 18765--18808 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
18755 TTTTTCTTCT
18765 TTTA-ATTTTTTATC
1 TTTATATTTTTTATC
18779 TTTGAT-TTTTTATATC
1 TTT-ATATTTTT-TATC
18795 TTTATATTTTTTAT
1 TTTATATTTTTTAT
18809 TTTTTGTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 3 0.12
15 11 0.42
16 12 0.46
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTATATTTTTTATC
Found at i:18805 original size:17 final size:16
Alignment explanation
Indices: 18770--18808 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
18760 CTTCTTTTAA
18770 TTTTT-TATCTTTGAT
1 TTTTTATATCTTTGAT
*
18785 TTTTTATATCTTTATAT
1 TTTTTATATCTTT-GAT
18802 TTTTTAT
1 TTTTTAT
18809 TTTTTGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.24
16 7 0.33
17 9 0.43
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTTATATCTTTGAT
Found at i:18865 original size:18 final size:19
Alignment explanation
Indices: 18844--18892 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
18834 ATTTTTTCTA
*
18844 TTTTGTCGTTTTTATCA-T
1 TTTTGTCATTTTTATCAGT
* *
18862 TTTTTTCATTTTTATTAGT
1 TTTTGTCATTTTTATCAGT
18881 TTTTGT-ATTTTT
1 TTTTGTCATTTTT
18893 TTAAAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.12, C:0.06, G:0.08, T:0.73
Consensus pattern (19 bp):
TTTTGTCATTTTTATCAGT
Found at i:19310 original size:45 final size:45
Alignment explanation
Indices: 19219--19322 Score: 115
Period size: 45 Copynumber: 2.4 Consensus size: 45
19209 ATTTGCTTTC
* **
19219 TTTTTT-TTTGTT-TTAATTTTTTTTATATATTTTGTATTTTCAT
1 TTTTTTATTTGTTCTTAATTTTTCTTATATATTTTGTATTCACAT
* * *
19262 TTTTTTATTTGTTCTTACTTTTTCTTATATCTTTT-TGTTCACATT
1 TTTTTTATTTGTTCTTAATTTTTCTTATATATTTTGTATTCACA-T
*
19307 TTTTTTATTTCTTCTT
1 TTTTTTATTTGTTCTT
19323 TACAATTTCA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
43 6 0.12
44 11 0.22
45 34 0.67
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.74
Consensus pattern (45 bp):
TTTTTTATTTGTTCTTAATTTTTCTTATATATTTTGTATTCACAT
Found at i:19566 original size:13 final size:13
Alignment explanation
Indices: 19549--19621 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
19539 TATTAGCTAA
19549 TTTTTTATTT-TT
1 TTTTTTATTTATT
*
19561 TGTTTTTGTTTATT
1 T-TTTTTATTTATT
* *
19575 TTTTTTCTTAATT
1 TTTTTTATTTATT
19588 TATTTTTCATTTATT
1 T-TTTTT-ATTTATT
*
19603 TTTTAT-TTTATT
1 TTTTTTATTTATT
19615 TTATTTT
1 TT-TTTT
19622 TTCATTTTCT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
12 9 0.18
13 22 0.45
14 12 0.24
15 6 0.12
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (13 bp):
TTTTTTATTTATT
Found at i:19611 original size:17 final size:18
Alignment explanation
Indices: 19586--19630 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 18
19576 TTTTTCTTAA
19586 TTTATTTTTCA-TTTATTT
1 TTTA-TTTTCATTTTATTT
19604 TTTATTTT-ATTTTATTT
1 TTTATTTTCATTTTATTT
19621 TTTCATTTTC
1 TTT-ATTTTC
19631 TTATTTTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 1 0.04
17 14 0.58
18 9 0.38
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTATTTTCATTTTATTT
Found at i:19648 original size:26 final size:25
Alignment explanation
Indices: 19548--19637 Score: 69
Period size: 28 Copynumber: 3.5 Consensus size: 25
19538 TTATTAGCTA
19548 ATTTTTTATTTT-TTGTT-TTTGTTT-
1 ATTTTTTATTTTATT-TTATTT-TTTC
* * * *
19572 ATTTTTTTTCTTAATTTATTTTTCATTT
1 ATTTTTTATTTTATTTTA-TTTT--TTC
19600 ATTTTTTATTTTATTTTATTTTTTC
1 ATTTTTTATTTTATTTTATTTTTTC
19625 ATTTTCTTATTTT
1 ATTTT-TTATTTT
19638 GTCTTTTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
24 12 0.23
25 9 0.17
26 10 0.19
27 6 0.12
28 15 0.29
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.79
Consensus pattern (25 bp):
ATTTTTTATTTTATTTTATTTTTTC
Found at i:20085 original size:19 final size:19
Alignment explanation
Indices: 20037--20087 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
20027 TATTTTTTTA
* *
20037 TTTTGTCATTCTTTTTCACT
1 TTTTGTAATT-TTTTTCAAT
20057 TTTT-TAATTTTTATTCAAT
1 TTTTGTAATTTTT-TTCAAT
20076 TTTTGT-ATTTTT
1 TTTTGTAATTTTT
20088 GATTAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 3 0.11
19 19 0.70
20 5 0.19
ACGTcount: A:0.16, C:0.10, G:0.04, T:0.71
Consensus pattern (19 bp):
TTTTGTAATTTTTTTCAAT
Found at i:20126 original size:20 final size:23
Alignment explanation
Indices: 20103--20149 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
20093 ATTATTTTTT
20103 CTTT-TTT-TCTTTTTT-TTGTA
1 CTTTGTTTATCTTTTTTGTTGTA
*
20123 CTTTGTTTATCTTTTTTGTTTTA
1 CTTTGTTTATCTTTTTTGTTGTA
20146 CTTT
1 CTTT
20150 AATATTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 3 0.13
22 8 0.35
23 8 0.35
ACGTcount: A:0.06, C:0.11, G:0.06, T:0.77
Consensus pattern (23 bp):
CTTTGTTTATCTTTTTTGTTGTA
Found at i:20430 original size:20 final size:22
Alignment explanation
Indices: 20407--20446 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
20397 TTTTAATTTT
20407 TTTCTT-TGATTT-TTATATTG
1 TTTCTTATGATTTCTTATATTG
*
20427 TTTCTTATTATTTCTTATAT
1 TTTCTTATGATTTCTTATAT
20447 GCTTTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 5 0.29
22 6 0.35
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTCTTATGATTTCTTATATTG
Found at i:20540 original size:7 final size:7
Alignment explanation
Indices: 20530--20607 Score: 59
Period size: 7 Copynumber: 10.9 Consensus size: 7
20520 CATTTTTATC
20530 TTTTTTA
1 TTTTTTA
20537 TTTTTTGA
1 TTTTTT-A
**
20545 TTCATTA
1 TTTTTTA
20552 TTTTTTA
1 TTTTTTA
*
20559 TTTCTTA
1 TTTTTTA
*
20566 CTTTTTA
1 TTTTTTA
*
20573 TATTTTA
1 TTTTTTA
20580 TTGTATTT-
1 TT-T-TTTA
*
20588 TTTTATA
1 TTTTTTA
*
20595 TTTTATA
1 TTTTTTA
20602 TTTTTT
1 TTTTTT
20608 TGTATTTTAT
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
6 2 0.04
7 42 0.76
8 8 0.15
9 3 0.05
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.76
Consensus pattern (7 bp):
TTTTTTA
Found at i:20603 original size:27 final size:28
Alignment explanation
Indices: 20568--20626 Score: 93
Period size: 27 Copynumber: 2.1 Consensus size: 28
20558 ATTTCTTACT
20568 TTTTATATTTTATTGTATTTT-TTTATA
1 TTTTATATTTTATTGTATTTTATTTATA
* *
20595 TTTTATATTTTTTTGTATTTTATTTATC
1 TTTTATATTTTATTGTATTTTATTTATA
20623 TTTT
1 TTTT
20627 GTTTTGCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 20 0.69
28 9 0.31
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (28 bp):
TTTTATATTTTATTGTATTTTATTTATA
Found at i:20607 original size:36 final size:34
Alignment explanation
Indices: 20523--20626 Score: 93
Period size: 36 Copynumber: 2.9 Consensus size: 34
20513 TTTTATTCAT
* * *
20523 TTTTATCTTTTTTATTTTTTGATTCATTATTTTTTA
1 TTTTATATTTTTTATATTTT-ATTTATT-TTTTTTA
*
20559 TTTCT-TACTTTTTATATTTTATTGTATTTTTTTATA
1 TTT-TATATTTTTTATATTTTATT-TATTTTTTT-TA
* *
20595 TTTTATATTTTTTTGTATTTTATTTATCTTTT
1 TTTTATA-TTTTTTATATTTTATTTATTTTTT
20627 GTTTTGCTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
35 9 0.16
36 32 0.57
37 15 0.27
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (34 bp):
TTTTATATTTTTTATATTTTATTTATTTTTTTTA
Found at i:20658 original size:16 final size:16
Alignment explanation
Indices: 20568--20670 Score: 70
Period size: 16 Copynumber: 6.2 Consensus size: 16
20558 ATTTCTTACT
*
20568 TTTTATATTTTATTGTA
1 TTTTAT-TTTTATTTTA
*
20585 TTTT-TTTATATTTTA
1 TTTTATTTTTATTTTA
20600 TATTT-TTTTGTATTTTA
1 T-TTTATTTT-TATTTTA
* *
20617 -TTTATCTTTTGTTTTGC
1 TTTTAT-TTTTATTTT-A
20634 TTTAATATTTTT-TTCTTA
1 TTT--TATTTTTATT-TTA
20652 TTTTATTTTTATTTTA
1 TTTTATTTTTATTTTA
20668 TTT
1 TTT
20671 GGTTGATTTT
Statistics
Matches: 70, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
15 12 0.17
16 26 0.37
17 16 0.23
18 7 0.10
19 6 0.09
20 3 0.04
ACGTcount: A:0.17, C:0.03, G:0.04, T:0.76
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:20764 original size:12 final size:13
Alignment explanation
Indices: 20738--20767 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
20728 TTTTTTTTAA
20738 TTTTTCTATCTTT
1 TTTTTCTATCTTT
*
20751 TTTTTCTTTCTTT
1 TTTTTCTATCTTT
20764 TTTT
1 TTTT
20768 ATTTATCGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTCTATCTTT
Found at i:21189 original size:23 final size:25
Alignment explanation
Indices: 21162--21210 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
21152 TTTTAATTTT
21162 TATCTT-TGATTT-TTATATCTTTA
1 TATCTTATGATTTGTTATATCTTTA
* *
21185 TATCTTATTATTTGTTATATTTTTA
1 TATCTTATGATTTGTTATATCTTTA
21210 T
1 T
21211 TTTGTTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
24 5 0.23
25 11 0.50
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.67
Consensus pattern (25 bp):
TATCTTATGATTTGTTATATCTTTA
Done.