Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168216.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_450, 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: 26496
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Found at i:1024 original size:19 final size:20
Alignment explanation
Indices: 1000--1058 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
990 TATATTAGTT
1000 TTAATATT-TAATTTAAATA
1 TTAATATTATAATTTAAATA
* *
1019 TTAATATTATATTTTAATTA
1 TTAATATTATAATTTAAATA
*
1039 TTTATTTATTATAA-TTAAAT
1 -TTA-ATATTATAATTTAAAT
1059 TATATTATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 8 0.25
20 9 0.28
21 8 0.25
22 7 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTAATATTATAATTTAAATA
Found at i:1048 original size:17 final size:18
Alignment explanation
Indices: 1003--1077 Score: 55
Period size: 20 Copynumber: 3.9 Consensus size: 18
993 ATTAGTTTTA
* *
1003 ATATTTAATTTAAATATT
1 ATATTTATTTTAATTATT
1021 AATATTATATTTTAATTATT
1 -ATATT-TATTTTAATTATT
*
1041 -TATTTATTATAATTAAATT
1 ATATTTATTTTAATT--ATT
1060 ATA-TTATTATTTAATTAT
1 ATATTTA-T-TTTAATTAT
1078 AACAAATTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
17 9 0.20
18 4 0.09
19 13 0.28
20 14 0.30
21 6 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATTTATTTTAATTATT
Found at i:1051 original size:22 final size:23
Alignment explanation
Indices: 1023--1076 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
1013 TAAATATTAA
* *
1023 TATTATATTTTAATTAT-TTATT
1 TATTATAATTAAATTATATTATT
1045 TATTATAATTAAATTATATTA-T
1 TATTATAATTAAATTATATTATT
1067 TATT-TAATTA
1 TATTATAATTA
1077 TAACAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 6 0.21
22 20 0.69
23 3 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTATAATTAAATTATATTATT
Found at i:1061 original size:33 final size:32
Alignment explanation
Indices: 998--1064 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
988 TATATATTAG
998 TTTTAATATTTAATTTAAATATTAATATTATA
1 TTTTAATATTTAATTTAAATATTAATATTATA
*
1030 TTTTAATTATTT-ATTTATTATAATTAA-ATTATA
1 TTTTAA-TATTTAATTTA-AAT-ATTAATATTATA
1063 TT
1 TT
1065 ATTATTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
32 11 0.35
33 15 0.48
34 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (32 bp):
TTTTAATATTTAATTTAAATATTAATATTATA
Found at i:1084 original size:26 final size:27
Alignment explanation
Indices: 1035--1101 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 27
1025 TTATATTTTA
*
1035 ATTATTTATTT-ATTATAATTAAATTAT
1 ATTA-TTATTTAATTATAATCAAATTAT
1062 ATTATTATTTAATTATAA-CAAATTAT
1 ATTATTATTTAATTATAATCAAATTAT
* *
1088 TTTATT-TTAAATTA
1 ATTATTATTTAATTA
1102 ATAAGTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 7 0.19
26 18 0.50
27 11 0.31
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTATTATTTAATTATAATCAAATTAT
Found at i:1117 original size:21 final size:21
Alignment explanation
Indices: 1091--1131 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1081 AAATTATTTT
*
1091 ATTTTAAATTA-ATAAGTAAAA
1 ATTTT-AATTATATAAATAAAA
1112 ATTTTAATTATATAAATAAA
1 ATTTTAATTATATAAATAAA
1132 TGAGACTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
ATTTTAATTATATAAATAAAA
Found at i:1492 original size:21 final size:21
Alignment explanation
Indices: 1467--1519 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
1457 CTAATATTAA
*
1467 TATTTATAATAATTTATAAAT
1 TATTTAAAATAATTTATAAAT
*
1488 TATTTAAAACT-ATTTATAAGT
1 TATTTAAAA-TAATTTATAAAT
1509 TATTTAAAATA
1 TATTTAAAATA
1520 TTATAATAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
TATTTAAAATAATTTATAAAT
Found at i:1512 original size:11 final size:11
Alignment explanation
Indices: 1467--1518 Score: 56
Period size: 10 Copynumber: 5.0 Consensus size: 11
1457 CTAATATTAA
1467 TATTTAT-AAT
1 TATTTATAAAT
*
1477 AATTTATAAAT
1 TATTTATAAAT
*
1488 TATTTA-AAAC
1 TATTTATAAAT
*
1498 TATTTATAAGT
1 TATTTATAAAT
1509 TATTTA-AAAT
1 TATTTATAAAT
1519 ATTATAATAG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 18 0.53
11 16 0.47
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (11 bp):
TATTTATAAAT
Found at i:1532 original size:20 final size:21
Alignment explanation
Indices: 1478--1525 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
1468 ATTTATAATA
*
1478 ATTTATAAATTATTTAAAACT
1 ATTTATAAGTTATTTAAAACT
1499 ATTTATAAGTTATTTAAAA-T
1 ATTTATAAGTTATTTAAAACT
1519 A-TTATAA
1 ATTTATAA
1526 TAGTATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 6 0.23
20 2 0.08
21 18 0.69
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTTATAAGTTATTTAAAACT
Found at i:1870 original size:23 final size:25
Alignment explanation
Indices: 1811--1877 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 25
1801 TCTTAATTAT
* *
1811 TTATC-AACAAATTTAATTTTTGAA
1 TTATCAAATAAATATAATTTTTGAA
*
1835 TTATCAAATAAATATTATTTTT-AA
1 TTATCAAATAAATATAATTTTTGAA
*
1859 TT-TGAAATAAATATAATTT
1 TTATCAAATAAATATAATTT
1878 AATATTTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 15 0.41
24 9 0.24
25 13 0.35
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (25 bp):
TTATCAAATAAATATAATTTTTGAA
Found at i:1884 original size:23 final size:22
Alignment explanation
Indices: 1840--1892 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
1830 TTGAATTATC
* *
1840 AAATAAATATTATTTTTAATTT
1 AAATAAATATAATTTATAATTT
1862 GAAATAAATATAATTTA-ATATTT
1 -AAATAAATATAATTTATA-ATTT
*
1885 AAAGAAAT
1 AAATAAAT
1893 TATTATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
AAATAAATATAATTTATAATTT
Found at i:2246 original size:23 final size:22
Alignment explanation
Indices: 2198--2244 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
2188 TTTATTGCTT
2198 ATAAATAATAATAAATTTAATTA
1 ATAAATAATAAT-AATTTAATTA
*
2221 ATAAATTATAAT-ATTTAA-TA
1 ATAAATAATAATAATTTAATTA
2241 ATAA
1 ATAA
2245 TATCATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 6 0.26
23 11 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAAATAATAATAATTTAATTA
Found at i:2471 original size:16 final size:17
Alignment explanation
Indices: 2455--2497 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
2445 CTTATTTAAT
2455 ATTTTAAATATTAAATA
1 ATTTTAAATATTAAATA
* * *
2472 ATTTTTAATAATAATTA
1 ATTTTAAATATTAAATA
*
2489 AATTTAAAT
1 ATTTTAAAT
2498 GGTTTATACA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTTAAATATTAAATA
Found at i:2626 original size:27 final size:31
Alignment explanation
Indices: 2588--2653 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
2578 ATTTAACATA
*
2588 ATTAA-TATTTT-ATATTATAGT-AT-AAAT
1 ATTAATTATTTTAATATTATAATAATAAAAT
* *
2615 ATTAATTATTTAAATATTTTAATAATAAAAT
1 ATTAATTATTTTAATATTATAATAATAAAAT
2646 ATTAATTA
1 ATTAATTA
2654 AAATTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 5 0.16
28 5 0.16
29 8 0.25
30 2 0.06
31 12 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (31 bp):
ATTAATTATTTTAATATTATAATAATAAAAT
Found at i:2950 original size:27 final size:29
Alignment explanation
Indices: 2931--2984 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
2921 TATATATTAT
2931 TTAAA-ATTA-TAATATTATATTATTTAA
1 TTAAATATTATTAATATTATATTATTTAA
* *
2958 TTAAATTTTATTAATATTATGTTATTT
1 TTAAATATTATTAATATTATATTATTT
2985 CAATATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 3 0.13
29 15 0.65
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (29 bp):
TTAAATATTATTAATATTATATTATTTAA
Found at i:3741 original size:22 final size:22
Alignment explanation
Indices: 3711--3765 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
3701 TAATTTGAAT
* *
3711 TAATAAATTATTATTAATACTA-
1 TAATTAATTAATATTAATA-TAC
*
3733 TAATTAATTAATATTTATATAC
1 TAATTAATTAATATTAATATAC
3755 TAATTAATTAA
1 TAATTAATTAA
3766 CTAGTTTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATTAATTAATATTAATATAC
Found at i:3750 original size:26 final size:22
Alignment explanation
Indices: 3708--3765 Score: 55
Period size: 26 Copynumber: 2.5 Consensus size: 22
3698 AAGTAATTTG
*
3708 AATTAATAAATTATTATTAATACTAT
1 AATTAATTAATTATTA-T-ATAC--T
3734 AATTAATTAA-TATTTATATACT
1 AATTAATTAATTA-TTATATACT
3756 AATTAATTAA
1 AATTAATTAA
3766 CTAGTTTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 11 0.37
24 4 0.13
25 3 0.10
26 12 0.40
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (22 bp):
AATTAATTAATTATTATATACT
Found at i:3894 original size:26 final size:26
Alignment explanation
Indices: 3860--3910 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
3850 TTAAATAATA
3860 ATTATTAAATT-TATATATTTATAATTT
1 ATTATTAAATTATA-ATATTTA-AATTT
3887 ATTA-TAAATTATAATATTTAAATT
1 ATTATTAAATTATAATATTTAAATT
3911 ATAGAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 4 0.17
26 13 0.57
27 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
ATTATTAAATTATAATATTTAAATTT
Found at i:3901 original size:40 final size:39
Alignment explanation
Indices: 3851--3949 Score: 105
Period size: 40 Copynumber: 2.5 Consensus size: 39
3841 GTTGGTTTAT
* * *
3851 TAAATAATAATTATTAAATTTATATATTTATAATTTATTA-
1 TAAATTATAA-TATTAAATTTATAGA-ATATAATTTATTAC
3891 TAAATTATAATATTTAAA-TTATAGAATATAATTTATTAC
1 TAAATTATAATA-TTAAATTTATAGAATATAATTTATTAC
3930 TATAATTA-AATATTATAATT
1 TA-AATTATAATATTA-AATT
3950 ACATTAGATA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
38 15 0.29
39 16 0.31
40 20 0.39
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (39 bp):
TAAATTATAATATTAAATTTATAGAATATAATTTATTAC
Found at i:3996 original size:13 final size:13
Alignment explanation
Indices: 3873--3996 Score: 57
Period size: 13 Copynumber: 9.8 Consensus size: 13
3863 ATTAAATTTA
3873 TATATT-TATAAT
1 TATATTATATAAT
3885 T-TATTATA-AAT
1 TATATTATATAAT
* *
3896 TATAATATTTAAAT
1 TATATTATAT-AAT
**
3910 TATAGAATATAAT
1 TATATTATATAAT
3923 T-TATTACTATAAT
1 TATATTA-TATAAT
*
3936 TA-AATATTATAAT
1 TATATTA-TATAAT
* * *
3949 TACATTAGATAAC
1 TATATTATATAAT
*
3962 AAT-TGTCATATAA-
1 TATAT-T-ATATAAT
*
3975 T-TGTTATATAAT
1 TATATTATATAAT
3987 TATATTATAT
1 TATATTATAT
3997 TTATTTGTAA
Statistics
Matches: 83, Mismatches: 17, Indels: 23
0.67 0.14 0.19
Matches are distributed among these distances:
11 14 0.17
12 15 0.18
13 36 0.43
14 18 0.22
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (13 bp):
TATATTATATAAT
Found at i:4240 original size:20 final size:20
Alignment explanation
Indices: 4194--4241 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
4184 AGTAATAATT
* *
4194 TATATTATTTTAATTATAAT
1 TATAATATTTTAATTATAAA
*
4214 TAAAATATTTTATATT-TAAA
1 TATAATATTTTA-ATTATAAA
4234 TATAATAT
1 TATAATAT
4242 AATATACATG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATAATATTTTAATTATAAA
Found at i:5203 original size:34 final size:37
Alignment explanation
Indices: 5127--5218 Score: 97
Period size: 36 Copynumber: 2.6 Consensus size: 37
5117 AATCAAATAT
*
5127 TAAT-TATATTATTAAT-ATTATTAATTTATATATAA
1 TAATATATATTATTAATAATTATTAATATATATATAA
* *
5162 TACTATATATTATTAATAATTGTT-ATATATA-ATAA
1 TAATATATATTATTAATAATTATTAATATATATATAA
*
5197 -AATATATGA-CATTAATAATTAT
1 TAATATAT-ATTATTAATAATTAT
5219 ATCAGATTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
34 17 0.35
35 8 0.17
36 18 0.38
37 5 0.10
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (37 bp):
TAATATATATTATTAATAATTATTAATATATATATAA
Found at i:5678 original size:22 final size:21
Alignment explanation
Indices: 5648--5689 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
5638 TTTGTAATTT
5648 TATTATAATATATAAT-TTAAC
1 TATTATAATAT-TAATATTAAC
5669 TATTAATAATATTAATATTAA
1 TATT-ATAATATTAATATTAA
5690 TAACTATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TATTATAATATTAATATTAAC
Found at i:5687 original size:15 final size:16
Alignment explanation
Indices: 5659--5697 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
5649 ATTATAATAT
5659 ATAAT-TTAACTATTA
1 ATAATATTAACTATTA
5674 ATAATATTAA-TATTA
1 ATAATATTAACTATTA
5689 ATAACTATT
1 ATAA-TATT
5698 TCAAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATATTAACTATTA
Found at i:5773 original size:25 final size:25
Alignment explanation
Indices: 5731--5778 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
5721 TTAATTAATT
5731 ATTATTGATAATAATAATAATATCA
1 ATTATTGATAATAATAATAATATCA
* *
5756 ATTATT-ATATTAACTAATTATAT
1 ATTATTGATAATAA-TAATAATAT
5779 TTGATTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (25 bp):
ATTATTGATAATAATAATAATATCA
Found at i:6814 original size:6 final size:6
Alignment explanation
Indices: 6798--6897 Score: 64
Period size: 6 Copynumber: 16.2 Consensus size: 6
6788 AAATTAGTTA
*
6798 AATTAAT AATTAT AATTAT AATTA- ATTTA- AATTAAT AATTA- AATTTATT
1 AATT-AT AATTAT AATTAT AATTAT AATTAT AATT-AT AATTAT AA-TTA-T
* * **
6847 AATTAT ACAGT-T AATTAT AATTAT ATAATATT AATTAT AACGAT AATTAT
1 AATTAT A-ATTAT AATTAT AATTAT A-ATTA-T AATTAT AATTAT AATTAT
6897 A
1 A
6898 CTAAATATTA
Statistics
Matches: 74, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
5 11 0.15
6 40 0.54
7 19 0.26
8 4 0.05
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (6 bp):
AATTAT
Found at i:7351 original size:22 final size:23
Alignment explanation
Indices: 7290--7396 Score: 71
Period size: 22 Copynumber: 4.6 Consensus size: 23
7280 ATAACTAAGA
*
7290 TATAATAATATTATATTATTATTAAT
1 TATAATAAT-TAAT-TTA-TATTAAT
7316 TATAATAATTAATTTATATTAAT
1 TATAATAATTAATTTATATTAAT
* *
7339 T-TCATTATTAATTTAT-TATAA-
1 TATAATAATTAATTTATAT-TAAT
*
7360 TATAATTA-TAAGTTTAT-TATAAT
1 TATAATAATTAA-TTTATAT-TAAT
* *
7383 AATAAAAATTAATT
1 TATAATAATTAATT
7397 ATTAAATATA
Statistics
Matches: 69, Mismatches: 7, Indels: 13
0.78 0.08 0.15
Matches are distributed among these distances:
21 5 0.07
22 31 0.45
23 15 0.22
24 6 0.09
25 3 0.04
26 9 0.13
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (23 bp):
TATAATAATTAATTTATATTAAT
Found at i:7507 original size:13 final size:12
Alignment explanation
Indices: 7489--7521 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
7479 AATTATGTTA
7489 TTATATAATAAAT
1 TTATATAAT-AAT
7502 TTATATAATAAT
1 TTATATAATAAT
7514 TTA-ATAAT
1 TTATATAAT
7522 TATAATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 6 0.30
13 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TTATATAATAAT
Found at i:7849 original size:180 final size:181
Alignment explanation
Indices: 7540--7984 Score: 467
Period size: 180 Copynumber: 2.5 Consensus size: 181
7530 TTGTTTGCTA
* * * * *
7540 AATCAGTTCAAATAGTTAAGACTA-TTAGAACAATTATCCATTTCAAATCGTTTTGACCTTTTGT
1 AATCAATTCAAATAGTTATGACTATTTA-AACAATTATCTATTTCAAATCATTATGACCTTTTGT
* * * *
7604 TTAATCATAAAATAATTGCTTCAACTCATACATGCTTATTCAAAATAAAATAACACTAATTTATT
65 TTTATCATAAAATAATTGTTTCAACTCATAAAAGCTTATTCAAAATAAAATAACACTAATTTATT
**
7669 AACATTCA-AAAAATTGTTAAGTAAGA-AATTAGAAA-AAAAATCTA-TTTA-CTG
130 AACATT-ATAAAAATTAATAAGTAAGAGAATTA-AAACAAAAATC-AGTTTATC-G
* * * * * *
7720 AA-CAAGTTCAAATATTTTTTACTATTTAAACAATTATCTATTTAAAATCATTATGACCTTATAT
1 AATCAA-TTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATGACCTTTTGT
** * * * * *
7784 TTTATCATAAAATAATTGTTTCAGTTCATAAAAGTTTA-TCTGAAATAAAATAATATTACTTTAT
65 TTTATCATAAAATAATTGTTTCAACTCATAAAAGCTTATTC-AAAATAAAATAACACTAATTTAT
* * * *
7848 TAATATTATAAAAATTAATAAGTTAGAGATTTAAAACATAAATCAGTTTATCG
129 TAACATTATAAAAATTAATAAGTAAGAGAATTAAAACAAAAATCAGTTTATCG
* * **
7901 AATCAATTCAAATAGTTATGGCCATTTAAACAATTATCTATTTCAAATCATTATGAATTTTTGTT
1 AATCAATTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATGACCTTTTGTT
*
7966 TTGTCATAAAA-AATTGTTT
66 TTATCATAAAATAATTGTTT
7985 AAATTATTTT
Statistics
Matches: 217, Mismatches: 39, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
179 5 0.02
180 129 0.59
181 79 0.36
182 4 0.02
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (181 bp):
AATCAATTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATGACCTTTTGTT
TTATCATAAAATAATTGTTTCAACTCATAAAAGCTTATTCAAAATAAAATAACACTAATTTATTA
ACATTATAAAAATTAATAAGTAAGAGAATTAAAACAAAAATCAGTTTATCG
Found at i:8024 original size:18 final size:19
Alignment explanation
Indices: 8001--8040 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
7991 TTTTATTTAA
8001 ATAATATT-AATTAAAATT
1 ATAATATTAAATTAAAATT
8019 ATAATATTAAAATTAAAATT
1 ATAATATT-AAATTAAAATT
8039 AT
1 AT
8041 TTTAATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
20 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAATATTAAATTAAAATT
Found at i:8134 original size:24 final size:24
Alignment explanation
Indices: 8104--8188 Score: 70
Period size: 24 Copynumber: 3.6 Consensus size: 24
8094 AATATAATTA
8104 AATTATATTATATTTAATTTATTT
1 AATTATATTATATTTAATTTATTT
* *
8128 AATTATATAATA-TTAA-ATATTT
1 AATTATATTATATTTAATTTATTT
* * *
8150 -ATTATAATATAATAAATATTATATT
1 AATTATATTATATTTAAT-TTAT-TT
*
8175 AATAATATTA-ATTT
1 AATTATATTATATTT
8189 TATTAAACAA
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
21 9 0.20
22 8 0.17
23 4 0.09
24 14 0.30
25 4 0.09
26 7 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTATATTATATTTAATTTATTT
Found at i:8173 original size:26 final size:25
Alignment explanation
Indices: 8104--8174 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 25
8094 AATATAATTA
* *
8104 AATTATATTATATTTA-ATTTATTT
1 AATTATATAATATTAATATTTATTT
8128 AATTATATAATATTAAATATTTATTAT
1 AATTATATAATATT-AATATTTATT-T
8155 AA-TATAATAAATATT-ATATT
1 AATTAT-AT-AATATTAATATT
8175 AATAATATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
24 13 0.32
25 1 0.03
26 15 0.38
27 5 0.12
28 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
AATTATATAATATTAATATTTATTT
Found at i:8264 original size:17 final size:18
Alignment explanation
Indices: 8231--8268 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
8221 TTATCAAAAC
8231 TAATATTAAGATAATTAA
1 TAATATTAAGATAATTAA
*
8249 TAATATTAA-TTAATTAA
1 TAATATTAAGATAATTAA
8266 TAA
1 TAA
8269 GCATTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TAATATTAAGATAATTAA
Found at i:8649 original size:20 final size:21
Alignment explanation
Indices: 8597--8651 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
8587 AAATATATTA
**
8597 TAATTATAATTATTGTAAACT
1 TAATTATAATTATAATAAACT
* *
8618 T-ATTAGATTTATAAT-AACT
1 TAATTATAATTATAATAAACT
8637 TAATTATAATTATAA
1 TAATTATAATTATAA
8652 ATATAAATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 5 0.19
20 21 0.78
21 1 0.04
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (21 bp):
TAATTATAATTATAATAAACT
Found at i:9127 original size:22 final size:20
Alignment explanation
Indices: 9090--9134 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
9080 AGTAGTTATG
9090 ATTTATAATAAATATTTTATTT
1 ATTTATAATAAATA--TTATTT
* *
9112 ATTTATAATTACTATTATTT
1 ATTTATAATAAATATTATTT
9132 ATT
1 ATT
9135 AATTAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
22 12 0.57
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTATAATAAATATTATTT
Found at i:9336 original size:17 final size:18
Alignment explanation
Indices: 9302--9344 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
9292 TACTAGTTAT
9302 AATATAATTTATAAAGATA
1 AATA-AATTTATAAAGATA
*
9321 AATAAATTTA-ATAGATA
1 AATAAATTTATAAAGATA
*
9338 ATTAAAT
1 AATAAAT
9345 AAATTTACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 12 0.55
18 6 0.27
19 4 0.18
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
AATAAATTTATAAAGATA
Found at i:9546 original size:39 final size:40
Alignment explanation
Indices: 9503--9584 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 40
9493 ATTTTACTAG
* *
9503 TTATATTTAATACT-ATAATATAA-ATTAATAA-ATTTATTA
1 TTATA-TTAATAATGATAATATAACA-TAATAATACTTATTA
*
9542 TTATATTAATAATGCTAATATAACATAATAATACTTATTA
1 TTATATTAATAATGATAATATAACATAATAATACTTATTA
9582 TTA
1 TTA
9585 ATAAATATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
38 7 0.19
39 19 0.51
40 11 0.30
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.46
Consensus pattern (40 bp):
TTATATTAATAATGATAATATAACATAATAATACTTATTA
Found at i:10108 original size:16 final size:15
Alignment explanation
Indices: 10076--10138 Score: 56
Period size: 16 Copynumber: 4.0 Consensus size: 15
10066 AATAATTACC
*
10076 TAATTTATTAATATAA
1 TAATATATT-ATATAA
10092 TAATATATTATAGTAA
1 TAATATATTATA-TAA
*
10108 TATTATAATTATATAA
1 TAATAT-ATTATATAA
*
10124 TTAA-ATATTAGATAA
1 -TAATATATTATATAA
10139 ACTTATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 11 0.28
16 21 0.52
17 8 0.20
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (15 bp):
TAATATATTATATAA
Found at i:10679 original size:16 final size:17
Alignment explanation
Indices: 10658--10691 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10648 AATAGTCATG
10658 TCCATTT-GAACTATTA
1 TCCATTTCGAACTATTA
*
10674 TCCATTTCGAATTATTA
1 TCCATTTCGAACTATTA
10691 T
1 T
10692 GACATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (17 bp):
TCCATTTCGAACTATTA
Found at i:11330 original size:25 final size:24
Alignment explanation
Indices: 11262--11348 Score: 58
Period size: 24 Copynumber: 3.8 Consensus size: 24
11252 CTAATAAATA
* * *
11262 AATAATTATATTTATTA-ATTTTC
1 AATAATTATATTAAATATATTTTT
*
11285 AA-AA-TAT-TTAACAAATA-TTTT
1 AATAATTATATTAA-ATATATTTTT
11306 AATAATTATTATTAAATATATTTTT
1 AATAATTA-TATTAAATATATTTTT
* * *
11331 ACTAGTTATATTTAATAT
1 AATAATTATATTAAATAT
11349 TATAATATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 13
0.70 0.11 0.19
Matches are distributed among these distances:
20 3 0.06
21 9 0.18
22 5 0.10
23 4 0.08
24 14 0.29
25 14 0.29
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (24 bp):
AATAATTATATTAAATATATTTTT
Found at i:11447 original size:15 final size:16
Alignment explanation
Indices: 11427--11459 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11417 TTATAATTAA
*
11427 ATAATAATCTAAT-TT
1 ATAATAATATAATATT
11442 ATAATAATATAATATT
1 ATAATAATATAATATT
11458 AT
1 AT
11460 TATATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAATAATATAATATT
Found at i:11471 original size:19 final size:18
Alignment explanation
Indices: 11448--11514 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 18
11438 ATTTATAATA
11448 ATATAATATTATTATATT
1 ATATAATATTATTATATT
*
11466 ATTATAGTATT-TATATATT
1 A-TATAATATTAT-TATATT
*
11485 ATATAATATTTATTAAATT
1 ATATAATA-TTATTATATT
11504 ATAT-ATATTAT
1 ATATAATATTAT
11515 AAACTATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
17 4 0.10
18 11 0.26
19 26 0.62
20 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (18 bp):
ATATAATATTATTATATT
Found at i:11517 original size:16 final size:16
Alignment explanation
Indices: 11453--11523 Score: 56
Period size: 16 Copynumber: 4.2 Consensus size: 16
11443 TAATAATATA
*
11453 ATAT-TATTATATTATT
1 ATATATATTATA-AATT
*
11469 ATAGTAT-TTATATATT
1 ATA-TATATTATAAATT
11485 ATATAATATTTATTAAATT
1 ATAT-ATA-TTA-TAAATT
*
11504 ATATATATTATAAACT
1 ATATATATTATAAATT
11520 ATAT
1 ATAT
11524 TTAGTAATTG
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
15 1 0.02
16 21 0.45
17 9 0.19
18 7 0.15
19 9 0.19
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (16 bp):
ATATATATTATAAATT
Found at i:11523 original size:35 final size:37
Alignment explanation
Indices: 11448--11523 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
11438 ATTTATAATA
* * *
11448 ATATAATATTATTATATTATTATAGTATTTATATATT
1 ATATAATATTATTAAATTATTATAGTATTTATAAACT
11485 ATATAATATTTATTAAATTA-TATA-TA-TTATAAACT
1 ATATAATA-TTATTAAATTATTATAGTATTTATAAACT
11520 ATAT
1 ATAT
11524 TTAGTAATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 11 0.31
36 2 0.06
37 12 0.34
38 10 0.29
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (37 bp):
ATATAATATTATTAAATTATTATAGTATTTATAAACT
Found at i:11583 original size:15 final size:14
Alignment explanation
Indices: 11550--11592 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
11540 GGATAAAATA
*
11550 TAATTTAATTGTATT
1 TAATTTAATTAT-TT
11565 TAATTTAATTATTT
1 TAATTTAATTATTT
*
11579 GTAATATAATTATT
1 -TAATTTAATTATT
11593 ATTTTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (14 bp):
TAATTTAATTATTT
Found at i:12761 original size:17 final size:17
Alignment explanation
Indices: 12739--12777 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
12729 AACCATATTA
12739 AAAATAA-ATTAATAATT
1 AAAATAATATTAA-AATT
12756 AAAATAATATTAAAATT
1 AAAATAATATTAAAATT
12773 AAAAT
1 AAAAT
12778 CCTTATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATAATATTAAAATT
Found at i:13248 original size:13 final size:14
Alignment explanation
Indices: 13223--13260 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
13213 ATAATAATGT
13223 TAATAAATTAAA-TA
1 TAAT-AATTAAATTA
*
13237 TAATAGTTAAATTA
1 TAATAATTAAATTA
13251 TAATAATTAA
1 TAATAATTAA
13261 TAAGTAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (14 bp):
TAATAATTAAATTA
Found at i:13329 original size:19 final size:19
Alignment explanation
Indices: 13305--13364 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
13295 TATTTAATTA
13305 TATAATATTAAATATTTAT
1 TATAATATTAAATATTTAT
13324 TATAATATAATAAATATTATAT
1 TATAATAT--TAAATATT-TAT
*
13346 AATAATATT-AAT-TTTAT
1 TATAATATTAAATATTTAT
13363 TA
1 TA
13365 AACAATTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
17 4 0.11
18 2 0.06
19 11 0.31
20 1 0.03
21 8 0.22
22 10 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATAATATTAAATATTTAT
Found at i:13345 original size:26 final size:25
Alignment explanation
Indices: 13292--13342 Score: 59
Period size: 26 Copynumber: 1.9 Consensus size: 25
13282 AACATATTTA
13292 ATTTATTTAATTATATAATATTAAAT
1 ATTTATTTAATTATATAATATT-AAT
13318 ATTTATTATAA-TATAATAAATATTA
1 ATTTATT-TAATTAT-AT-AATATTA
13343 TATAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
26 10 0.45
27 6 0.27
28 6 0.27
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTTATTTAATTATATAATATTAAT
Found at i:13350 original size:17 final size:17
Alignment explanation
Indices: 13301--13352 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 17
13291 AATTTATTTA
*
13301 ATTATATAATATTAAAT
1 ATTATATAATAATAAAT
13318 ATTTATTATAATATAATAAAT
1 A-TTA-TAT-A-ATAATAAAT
13339 ATTATATAATAATA
1 ATTATATAATAATA
13353 TTAATTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
17 7 0.23
18 4 0.13
19 6 0.20
20 4 0.13
21 9 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTATATAATAATAAAT
Found at i:14195 original size:19 final size:19
Alignment explanation
Indices: 14171--14227 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
14161 ATATAGTTAT
14171 TAATTATTAAATAAATTAA
1 TAATTATTAAATAAATTAA
* * *
14190 TAATTAATAAATAGATAAA
1 TAATTATTAAATAAATTAA
*
14209 TAATT-TT-AATAATTTAA
1 TAATTATTAAATAAATTAA
14226 TA
1 TA
14228 TTAAAATTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
17 9 0.29
18 1 0.03
19 21 0.68
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
TAATTATTAAATAAATTAA
Found at i:14542 original size:17 final size:18
Alignment explanation
Indices: 14508--14550 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
14498 TACTAGTTAT
14508 AATATAATTTATAAAGATA
1 AATA-AATTTATAAAGATA
*
14527 AATAAATTTA-ATAGATA
1 AATAAATTTATAAAGATA
*
14544 ATTAAAT
1 AATAAAT
14551 AAATTTACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 12 0.55
18 6 0.27
19 4 0.18
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
AATAAATTTATAAAGATA
Found at i:15143 original size:17 final size:17
Alignment explanation
Indices: 15122--15162 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
15112 TGACTATTAT
15122 TAATATTTATACTAATAA
1 TAATATTTATACTAA-AA
*
15140 -AATAATTATACTAAAA
1 TAATATTTATACTAAAA
15156 TAATATT
1 TAATATT
15163 CAATTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATATTTATACTAAAA
Found at i:15311 original size:16 final size:15
Alignment explanation
Indices: 15279--15341 Score: 56
Period size: 16 Copynumber: 4.0 Consensus size: 15
15269 AATAATTACC
*
15279 TAATTTATTAGTATAA
1 TAATATATTA-TATAA
15295 TAATATATTATAGTAA
1 TAATATATTATA-TAA
*
15311 TATTATAATTATATAA
1 TAATAT-ATTATATAA
*
15327 TTAA-ATATTAGATAA
1 -TAATATATTATATAA
15342 ACTTATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 10 0.25
16 22 0.55
17 8 0.20
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (15 bp):
TAATATATTATATAA
Found at i:16340 original size:39 final size:39
Alignment explanation
Indices: 16297--16385 Score: 94
Period size: 39 Copynumber: 2.3 Consensus size: 39
16287 TATTTGTTCA
* * *
16297 ATATTTTATTTATTAGACC-CAATTATT-GATAATAATTAT
1 ATATTTGATTAATTAAACCACAATTATTAGAT-A-AATTAT
*
16336 ATATTTGATTAATTAAACCATAATTATTAGATAAATTAT
1 ATATTTGATTAATTAAACCACAATTATTAGATAAATTAT
*
16375 AT-TATGATTAA
1 ATATTTGATTAA
16386 GCTTGTATGA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
38 8 0.19
39 24 0.56
40 8 0.19
41 3 0.07
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (39 bp):
ATATTTGATTAATTAAACCACAATTATTAGATAAATTAT
Found at i:16522 original size:25 final size:24
Alignment explanation
Indices: 16455--16540 Score: 58
Period size: 24 Copynumber: 3.8 Consensus size: 24
16445 CTAATAAATA
* * *
16455 AATAATTATATTTATTA-ATTTTC
1 AATAATTATATTAAATATATTTTT
16478 AA-AA-TAT-TTAACA-ATA-TTTT
1 AATAATTATATTAA-ATATATTTTT
16498 AATAATTATTATTAAATATATTTTT
1 AATAATTA-TATTAAATATATTTTT
* * *
16523 ACTAGTTATATTTAATAT
1 AATAATTATATTAAATAT
16541 TATAATATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 15
0.70 0.09 0.21
Matches are distributed among these distances:
20 9 0.18
21 6 0.12
22 4 0.08
23 4 0.08
24 16 0.33
25 10 0.20
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52
Consensus pattern (24 bp):
AATAATTATATTAAATATATTTTT
Found at i:16636 original size:15 final size:16
Alignment explanation
Indices: 16616--16648 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
16606 TTATAATTAA
*
16616 ATAATAATCTAAT-TT
1 ATAATAATATAATATT
16631 ATAATAATATAATATT
1 ATAATAATATAATATT
16647 AT
1 AT
16649 TATATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAATAATATAATATT
Found at i:16660 original size:19 final size:18
Alignment explanation
Indices: 16637--16703 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 18
16627 ATTTATAATA
16637 ATATAATATTATTATATT
1 ATATAATATTATTATATT
*
16655 ATTATAGTATT-TATATATT
1 A-TATAATATTAT-TATATT
*
16674 ATATAATATTTATTAAATT
1 ATATAATA-TTATTATATT
16693 ATAT-ATATTAT
1 ATATAATATTAT
16704 AAACTATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
17 4 0.10
18 11 0.26
19 26 0.62
20 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (18 bp):
ATATAATATTATTATATT
Found at i:16706 original size:16 final size:16
Alignment explanation
Indices: 16642--16712 Score: 56
Period size: 16 Copynumber: 4.2 Consensus size: 16
16632 TAATAATATA
*
16642 ATAT-TATTATATTATT
1 ATATATATTATA-AATT
*
16658 ATAGTAT-TTATATATT
1 ATA-TATATTATAAATT
16674 ATATAATATTTATTAAATT
1 ATAT-ATA-TTA-TAAATT
*
16693 ATATATATTATAAACT
1 ATATATATTATAAATT
16709 ATAT
1 ATAT
16713 TTAGTAATTG
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
15 1 0.02
16 21 0.45
17 9 0.19
18 7 0.15
19 9 0.19
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (16 bp):
ATATATATTATAAATT
Found at i:16712 original size:35 final size:37
Alignment explanation
Indices: 16637--16712 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
16627 ATTTATAATA
* * *
16637 ATATAATATTATTATATTATTATAGTATTTATATATT
1 ATATAATATTATTAAATTATTATAGTATTTATAAACT
16674 ATATAATATTTATTAAATTA-TATA-TA-TTATAAACT
1 ATATAATA-TTATTAAATTATTATAGTATTTATAAACT
16709 ATAT
1 ATAT
16713 TTAGTAATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 11 0.31
36 2 0.06
37 12 0.34
38 10 0.29
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (37 bp):
ATATAATATTATTAAATTATTATAGTATTTATAAACT
Found at i:17383 original size:17 final size:19
Alignment explanation
Indices: 17361--17396 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
17351 AATTCCAATA
17361 ATATG-ATTAATAA-ATTT
1 ATATGAATTAATAATATTT
17378 ATATGAATTAATAATATTT
1 ATATGAATTAATAATATTT
17397 TACTTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 8 0.47
19 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (19 bp):
ATATGAATTAATAATATTT
Found at i:17528 original size:25 final size:26
Alignment explanation
Indices: 17483--17603 Score: 70
Period size: 28 Copynumber: 4.4 Consensus size: 26
17473 TTAAACTTAT
* *
17483 ATAATTATTTTAAATCCTTA-TATAA
1 ATAATTATTATAAATCATTATTATAA
17508 ATAATTATTATAATAT-ATTATTATAA
1 ATAATTATTATAA-ATCATTATTATAA
* * *
17534 ATATTGTATAATTTAAT-ATTTATTATATA
1 ATAAT-TATTA-TAAATCA-TTATTATA-A
*
17563 ATAA-TATTACTAAATTATTTATAATATAA
1 ATAATTATTA-TAAATCA-TTAT--TATAA
17592 ATAATTAATTAT
1 ATAATT-ATTAT
17604 GTACTTGGGA
Statistics
Matches: 76, Mismatches: 9, Indels: 17
0.75 0.09 0.17
Matches are distributed among these distances:
25 15 0.20
26 11 0.14
27 15 0.20
28 16 0.21
29 9 0.12
30 6 0.08
31 4 0.05
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (26 bp):
ATAATTATTATAAATCATTATTATAA
Found at i:17531 original size:28 final size:28
Alignment explanation
Indices: 17500--17603 Score: 76
Period size: 29 Copynumber: 3.7 Consensus size: 28
17490 TTTTAAATCC
17500 TTATATAAATAATTATTATAATATATTA
1 TTATATAAATAATTATTATAATATATTA
* *
17528 -T-TATAAATATTGTATAATTTAATAT-TTA
1 TTATATAAATAAT-TAT--TATAATATATTA
17556 TTATAT-AATAA-TATTACTAA-ATTATTTA
1 TTATATAAATAATTATTA-TAATA-TA-TTA
*
17584 TAATATAAATAATTAATTAT
1 TTATATAAATAATT-ATTAT
17604 GTACTTGGGA
Statistics
Matches: 59, Mismatches: 5, Indels: 22
0.69 0.06 0.26
Matches are distributed among these distances:
25 2 0.03
26 13 0.22
27 7 0.12
28 11 0.19
29 17 0.29
30 5 0.08
31 4 0.07
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (28 bp):
TTATATAAATAATTATTATAATATATTA
Found at i:17557 original size:41 final size:42
Alignment explanation
Indices: 17507--17603 Score: 110
Period size: 41 Copynumber: 2.3 Consensus size: 42
17497 TCCTTATATA
*
17507 AATAATTATTATA-ATATATTATTA-TAAA-TATTGTATAATTT
1 AATAATTATTATATA-ATAATATTACTAAATTATT-TATAATTT
* *
17548 AATATTTATTATATAATAATATTACTAAATTATTTATAATATA
1 AATAATTATTATATAATAATATTACTAAATTATTTATAAT-TT
17591 AATAATTAATTAT
1 AATAATT-ATTAT
17604 GTACTTGGGA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
41 20 0.43
42 11 0.23
43 11 0.23
44 5 0.11
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (42 bp):
AATAATTATTATATAATAATATTACTAAATTATTTATAATTT
Found at i:17737 original size:24 final size:24
Alignment explanation
Indices: 17709--17754 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
17699 ATATATATAA
*
17709 TATTA-ACTATTAATTAAAAATAGT
1 TATTATACTAATAA-TAAAAATAGT
17733 TATTATACTAATAATAAAAATA
1 TATTATACTAATAATAAAAATA
17755 CTTTAATAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (24 bp):
TATTATACTAATAATAAAAATAGT
Found at i:17824 original size:13 final size:13
Alignment explanation
Indices: 17786--17832 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
17776 AATATTGTCA
17786 ATAATATTAATTTAT
1 ATAA-ATTAATTT-T
*
17801 ATTAATT-ATTTT
1 ATAAATTAATTTT
*
17813 ATAAATTAATTTA
1 ATAAATTAATTTT
17826 ATAAATT
1 ATAAATT
17833 TGTTTATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 7 0.25
13 15 0.54
14 3 0.11
15 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATAAATTAATTTT
Found at i:18034 original size:13 final size:13
Alignment explanation
Indices: 18018--18119 Score: 60
Period size: 13 Copynumber: 8.3 Consensus size: 13
18008 TTAATAAAAT
18018 TAATATTATTATA
1 TAATATTATTATA
*
18031 TAAT-TAATTA-A
1 TAATATTATTATA
* *
18042 TAATATAATAATA
1 TAATATTATTATA
18055 TAATA-T-TTAT-
1 TAATATTATTATA
*
18065 T-ATATTATAATA
1 TAATATTATTATA
18077 -AATATTTAATT-TA
1 TAATA-TT-ATTATA
*
18090 -AATATTTAATATA
1 TAATA-TTATTATA
*
18103 TAATAATATTATA
1 TAATATTATTATA
18116 TAAT
1 TAAT
18120 TAAATAAATT
Statistics
Matches: 70, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
9 3 0.04
10 2 0.03
11 11 0.16
12 15 0.21
13 33 0.47
14 6 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TAATATTATTATA
Found at i:18037 original size:17 final size:17
Alignment explanation
Indices: 18015--18143 Score: 67
Period size: 17 Copynumber: 7.6 Consensus size: 17
18005 TGTTTAATAA
*
18015 AATTAATATTATTATAT
1 AATTAATAATATTATAT
*
18032 AATTAATTAATAATATAAT
1 AATTAA-TAATATTAT-AT
*
18051 AATATAATATTTATTATAT
1 AAT-TAATA-ATATTATAT
* *
18070 TA-TAATAA-A-TATTT
1 AATTAATAATATTATAT
*
18084 AATTTA-AATATT-TA-
1 AATTAATAATATTATAT
18098 ATATATAATAATATTATAT
1 A-AT-TAATAATATTATAT
*
18117 AATTAAATAA-ATTAAAT
1 AATT-AATAATATTATAT
18134 ATATT-ATAAT
1 A-ATTAATAAT
18144 GATAAACATT
Statistics
Matches: 85, Mismatches: 12, Indels: 30
0.67 0.09 0.24
Matches are distributed among these distances:
14 8 0.09
15 7 0.08
16 7 0.08
17 25 0.29
18 19 0.22
19 11 0.13
20 8 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAATAATATTATAT
Found at i:19095 original size:36 final size:36
Alignment explanation
Indices: 19033--19101 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
19023 TAACTTATAA
* *
19033 TTATATTATAGTTATTATTTTATAAATTAATATACC
1 TTATATTATAATTATTATTTTATAAATAAATATACC
19069 TTAT-TTATAATTATTTATTATT-TAAATAAATAT
1 TTATATTATAATTA-TTATT-TTATAAATAAATAT
19102 TATAATCTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 8 0.28
36 19 0.66
37 2 0.07
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (36 bp):
TTATATTATAATTATTATTTTATAAATAAATATACC
Found at i:19208 original size:46 final size:44
Alignment explanation
Indices: 19129--19226 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 44
19119 TAATTGATAT
* *
19129 ATTAATTTTATTATTTTATAATTATAAGTAATAAAAT-ATATAATA
1 ATTAATTTAATTATTATATAATTATAAG-AAT-AAATGATATAATA
*
19174 ATTTAATTTAATTATTATATTAATTATTAA-AATAATTGATATAATA
1 A-TTAATTTAATTATTATA-TAATTA-TAAGAATAAATGATATAATA
19220 ATTAATT
1 ATTAATT
19227 ATTCTTAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
45 10 0.22
46 27 0.59
47 6 0.13
48 3 0.07
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (44 bp):
ATTAATTTAATTATTATATAATTATAAGAATAAATGATATAATA
Found at i:19358 original size:26 final size:29
Alignment explanation
Indices: 19294--19364 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
19284 TTAGTTTAAC
* * *
19294 ATTAAATTAAATAATTATTAATTTATAGT
1 ATTAAATAAAATAATTAATAATTGATAGT
*
19323 ATTAATTAAAATAATTAAT-ATTGATAG-
1 ATTAAATAAAATAATTAATAATTGATAGT
19350 A-TAAATAAATATAAT
1 ATTAAATAAA-ATAAT
19365 AATTATTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.19
27 6 0.17
28 7 0.19
29 16 0.44
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (29 bp):
ATTAAATAAAATAATTAATAATTGATAGT
Found at i:19386 original size:35 final size:35
Alignment explanation
Indices: 19346--19418 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
19336 ATTAATATTG
19346 ATAGATAAATAAATATAATAATT-ATTATA-TAATAA
1 ATAGATAAAT--ATATAATAATTAATTATATTAATAA
* *
19381 ATAGATTAATATATAATAATTAATTATATTATTAA
1 ATAGATAAATATATAATAATTAATTATATTAATAA
19416 ATA
1 ATA
19419 ATATAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 11 0.32
34 6 0.18
35 17 0.50
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (35 bp):
ATAGATAAATATATAATAATTAATTATATTAATAA
Found at i:19388 original size:19 final size:18
Alignment explanation
Indices: 19357--19492 Score: 77
Period size: 19 Copynumber: 7.3 Consensus size: 18
19347 TAGATAAATA
*
19357 AATATAATAATTATTATAT
1 AATA-AATAATTAATATAT
19376 AATAAATAGATTAATATAT
1 AATAAATA-ATTAATATAT
*
19395 AATAATTAATT-ATAT-T
1 AATAAATAATTAATATAT
*
19411 ATTAAATAATATAA-AT-T
1 AATAAATAAT-TAATATAT
** * *
19428 AATTTATATTTAATATTAAA
1 AATAAATAATTAATA-T-AT
19448 AATAAAT-ATTAATA-AT
1 AATAAATAATTAATATAT
19464 AATTAAGATAATTATAATATTAT
1 AA-TAA-ATAA-T-TAATA-TAT
19487 AATAAA
1 AATAAA
19493 ATAGTTTTTT
Statistics
Matches: 90, Mismatches: 13, Indels: 26
0.70 0.10 0.20
Matches are distributed among these distances:
16 15 0.17
17 18 0.20
18 11 0.12
19 27 0.30
20 6 0.07
21 6 0.07
22 3 0.03
23 4 0.04
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (18 bp):
AATAAATAATTAATATAT
Found at i:19390 original size:23 final size:22
Alignment explanation
Indices: 19331--19431 Score: 61
Period size: 23 Copynumber: 4.5 Consensus size: 22
19321 GTATTAATTA
19331 AAATAATTAA-TATTGATAGATAAAT
1 AAATAATTAATTATT-AT--AT-AAT
*
19356 AAATATAATAATTATTATATAAT
1 AAATA-ATTAATTATTATATAAT
19379 AAATAGATT-A--A-TATATAAT
1 AAATA-ATTAATTATTATATAAT
* *
19398 AATTAATTATATTATTAAATAAT
1 AAATAATTA-ATTATTATATAAT
*
19421 ATA-AATTAATT
1 AAATAATTAATT
19432 TATATTTAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
18 3 0.05
19 12 0.19
20 2 0.03
21 3 0.05
22 7 0.11
23 18 0.29
24 2 0.03
25 5 0.08
26 6 0.10
27 4 0.06
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (22 bp):
AAATAATTAATTATTATATAAT
Found at i:19421 original size:30 final size:31
Alignment explanation
Indices: 19332--19431 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 31
19322 TATTAATTAA
* *
19332 AATAATTAATAT-TGATAGATAAATAA-ATAT
1 AATAATTATTATAT-ATAAATAAATAATATAT
*
19362 AATAATTATTATATAATAAATAGATTAATATAT
1 AATAATTATTATAT-ATAAATA-AATAATATAT
*
19395 AATAATTAATTATAT-T-ATTAAATAATATA-
1 AATAATT-ATTATATATAAATAAATAATATAT
19424 AATTAATT
1 AA-TAATT
19432 TATATTTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
29 2 0.03
30 24 0.41
31 10 0.17
32 5 0.08
33 11 0.19
34 7 0.12
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (31 bp):
AATAATTATTATATATAAATAAATAATATAT
Found at i:19971 original size:15 final size:16
Alignment explanation
Indices: 19953--19997 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 16
19943 TATTAGGATA
*
19953 TTATCTATT-AATATT
1 TTATATATTAAATATT
19968 TTATATATTAAATA-T
1 TTATATATTAAATATT
19983 TTA-A-ATTAAATATT
1 TTATATATTAAATATT
19997 T
1 T
19998 ATTATAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 8 0.30
14 3 0.11
15 12 0.44
16 4 0.15
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATATATTAAATATT
Found at i:19992 original size:13 final size:13
Alignment explanation
Indices: 19974--19998 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19964 TATTTTATAT
19974 ATTAAATATTTAA
1 ATTAAATATTTAA
19987 ATTAAATATTTA
1 ATTAAATATTTA
19999 TTATAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAAATATTTAA
Found at i:20030 original size:34 final size:32
Alignment explanation
Indices: 19959--20034 Score: 81
Period size: 34 Copynumber: 2.4 Consensus size: 32
19949 GATATTATCT
19959 ATTAATATT-TTAT-ATAT--TAAATATTTAA
1 ATTAATATTATTATAATATAATAAATATTTAA
19987 ATTAAATATTTATTATAATATAATAAATATTATATA
1 ATT-AATA-TTATTATAATATAATAAATATT-TA-A
20023 ATT-ATATTATTA
1 ATTAATATTATTA
20035 ATTTTATTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
28 3 0.08
29 4 0.10
30 2 0.05
31 4 0.10
32 4 0.10
33 6 0.15
34 11 0.28
35 2 0.05
36 4 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (32 bp):
ATTAATATTATTATAATATAATAAATATTTAA
Found at i:20109 original size:13 final size:14
Alignment explanation
Indices: 20091--20139 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
20081 AATATTTAGA
20091 TAATTAA-TAATAT
1 TAATTAATTAATAT
20104 TAATTAATTAATAT
1 TAATTAATTAATAT
*
20118 TCTATTATATTAA-A-
1 T-AATTA-ATTAATAT
20132 TAATTAAT
1 TAATTAAT
20140 AAGAATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 2 0.06
13 11 0.35
14 8 0.26
15 5 0.16
16 5 0.16
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
TAATTAATTAATAT
Found at i:20192 original size:32 final size:30
Alignment explanation
Indices: 20123--20183 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
20113 AATATTCTAT
20123 TATATTAAATAATTAATAAGAATTTATTTAA
1 TATATTAAATAA-TAATAAGAATTTATTTAA
* *
20154 TATATTAAATAA-ATTAAGTATTTATTTAA
1 TATATTAAATAATAATAAGAATTTATTTAA
20183 T
1 T
20184 TAAATATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 16 0.57
31 12 0.43
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
TATATTAAATAATAATAAGAATTTATTTAA
Found at i:20197 original size:29 final size:30
Alignment explanation
Indices: 20099--20199 Score: 76
Period size: 29 Copynumber: 3.5 Consensus size: 30
20089 GATAATTAAT
20099 AATATTAATTAATTAA-TATTCTA-TTATATTA
1 AATATTAA-TAATTAAGTATT-TATTTA-ATTA
* *
20130 AATA--ATTAA-TAAGAATTTATTTAA-T-
1 AATATTAATAATTAAGTATTTATTTAATTA
20155 -ATATTAAATAAATTAAGTATTTATTTAATTA
1 AATATT-AAT-AATTAAGTATTTATTTAATTA
20186 AATATT-ATAATTAA
1 AATATTAATAATTAA
20200 AATGTTTGGA
Statistics
Matches: 56, Mismatches: 4, Indels: 22
0.68 0.05 0.27
Matches are distributed among these distances:
24 3 0.05
26 1 0.02
27 8 0.14
28 11 0.20
29 21 0.38
30 3 0.05
31 4 0.07
32 5 0.09
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.48
Consensus pattern (30 bp):
AATATTAATAATTAAGTATTTATTTAATTA
Found at i:20653 original size:26 final size:26
Alignment explanation
Indices: 20589--20653 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 26
20579 ATCAAATTAT
* *
20589 TAATAATTTATATTAATTATAATAGA
1 TAATAACTTATATTAAATATAATAGA
*
20615 TAAT-ACATA-ATTAAATA-AATAGA
1 TAATAACTTATATTAAATATAATAGA
20638 TAATAACTTATCATTA
1 TAATAACTTAT-ATTA
20654 TTTTATAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
23 10 0.31
24 11 0.34
25 3 0.09
26 8 0.25
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (26 bp):
TAATAACTTATATTAAATATAATAGA
Found at i:21302 original size:180 final size:179
Alignment explanation
Indices: 20978--21503 Score: 542
Period size: 180 Copynumber: 2.9 Consensus size: 179
20968 ATAATATCAA
* * * * * *
20978 TTTTGTCATAAAACAAATGTTTTTGTTCATATAAGT-TTGTTTGGAATAAAATAATATTAATTTA
1 TTTTATCATAAAACAATTGTTTTTGTTCATATAA-TCTTATTCGAAAT-AAATAATACTAATTTA
* * * *
21042 TTAATATTTCAAAAATTAATACGTAAGAGATTTAAAAAATAAATTTGTTTGCCATACCAGTTCAA
64 TTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTGTTTGCCATACCAGTGCAA
** * * *
21107 TTAGTTATAACTATTTGACCAAATATTTATTTCAAATCATTATGATCATTTC
129 ACAATTATAACTATTTGAACAAATATCTATTTCAAATCATTATGA-CATTTC
*
21159 TTTTATCATAAAACAATTG-TTTTGTTCATATAATCTTATTCGAAATAAAGTAATGCTAATTTAT
1 TTTTATCATAAAACAATTGTTTTTGTTCATATAATCTTATTCGAAATAAA-TAATACTAATTTAT
* * * * * *
21223 TAATATTTTAAAAATTAATAAGTAATG-GATTTAGAAAATGTATCT-TTTGGCTTAACTAGTGCA
65 TAATATTTCAAAAATTAATAAGTAA-GAGATTTAAAAAATGAATCTGTTTGCCAT-ACCAGTGCA
* * * *
21286 AACAATTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTG
128 AACAATTATAACTATTTGAACAAATATCTATTTCAAATCATTATGACATTTC
* * * * * *
21338 TTTTCTTATAAAACAATTGTTTTTGTTCATACAAGCTTATTC-AGATTAACATAATTCTAATTTA
1 TTTTATCATAAAACAATTGTTTTTGTTCATATAATCTTATTCGA-AATAA-ATAATACTAATTTA
* * * * * *
21402 TTAATATTCCAAAAATTAATAAGTGAGAGATTTAAAAAATGAATTTGTTTACCGA-ACAAGTTCA
64 TTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTGTTTGCC-ATACCAGTGCA
* ** * *
21466 AATAATTATGGCTATTTGAACAATTATCTAGTTCAAAT
128 AACAATTATAACTATTTGAACAAATATCTATTTCAAAT
21504 TTCTATAACC
Statistics
Matches: 289, Mismatches: 46, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
179 33 0.11
180 233 0.81
181 23 0.08
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (179 bp):
TTTTATCATAAAACAATTGTTTTTGTTCATATAATCTTATTCGAAATAAATAATACTAATTTATT
AATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTGTTTGCCATACCAGTGCAAAC
AATTATAACTATTTGAACAAATATCTATTTCAAATCATTATGACATTTC
Found at i:21318 original size:16 final size:17
Alignment explanation
Indices: 21286--21318 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
21276 AACTAGTGCA
21286 AACAATTATGACTATTTG
1 AACAATTAT-ACTATTTG
21304 AACAATTAT-CTATTT
1 AACAATTATACTATTT
21319 CAAATCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (17 bp):
AACAATTATACTATTTG
Found at i:21676 original size:120 final size:120
Alignment explanation
Indices: 21443--21679 Score: 280
Period size: 120 Copynumber: 2.0 Consensus size: 120
21433 TTAAAAAATG
* * *
21443 AATTTGTTTACCGAACAAGTTCAAATAATTATGGCTATTTGAACAATTATCTAGTTCAAATTTCT
1 AATTTGTTTACCGAACAAGTTCAAATAATTATGACTATTGGAACAATTATCTAGTTCAAATATCT
* *
21508 ATAACCTTTTGTATTGTCATAAAATAATTTTTTCTATTCGTACAAGCTTATTTCA
66 ATAACCTTTTGTATTGTCATAAAACAATTTTTTCTATTCATACAAGCTTATTTCA
* * ** * * * *
21563 AATTTGTTTACCGAATAATTTTGAATAGTTATGATTATTGGAACAATTATTTATTTCAAATCAT-
1 AATTTGTTTACCGAACAAGTTCAAATAATTATGACTATTGGAACAATTATCTAGTTCAAAT-ATC
* * * **
21627 TATGACCTTTTGTTTTGTCATAAAACAATTATTTT-TGTTCATATTAGCTTATT
65 TATAACCTTTTGTATTGTCATAAAACAATT-TTTTCTATTCATACAAGCTTATT
21680 CAGATTAAAA
Statistics
Matches: 97, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
120 92 0.95
121 5 0.05
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (120 bp):
AATTTGTTTACCGAACAAGTTCAAATAATTATGACTATTGGAACAATTATCTAGTTCAAATATCT
ATAACCTTTTGTATTGTCATAAAACAATTTTTTCTATTCATACAAGCTTATTTCA
Found at i:21965 original size:21 final size:23
Alignment explanation
Indices: 21941--21991 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
21931 ATTATAAATA
21941 AATAATTTAATAT-TA-AGTATT
1 AATAATTTAATATATATAGTATT
* *
21962 AATAGATTTATTATATATATTATT
1 AATA-ATTTAATATATATAGTATT
21986 AATAAT
1 AATAAT
21992 ACAATTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 4 0.16
22 8 0.32
23 4 0.16
24 9 0.36
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
AATAATTTAATATATATAGTATT
Found at i:22528 original size:182 final size:179
Alignment explanation
Indices: 22124--22555 Score: 447
Period size: 182 Copynumber: 2.4 Consensus size: 179
22114 ATTCAGTAAA
22124 CAAATTTA-TTTTTAAATCTCTTACTTATTAATTTT-TAAAATATTATTAAATTAGTATTATTTT
1 CAAATTTATTTTTTAAATCTCTTACTTATTAATTTTCT-AAATATTATTAAATTAGTATTATTTT
* ** * * * *
22187 AATCCAAATAAGCTTGTACGAACAAAACAATTGTTTTACGTTAAAAAAAATGTCATAACGATTTG
65 ATTCCAAATAAAATAGTACGAACAAAACAATTGTTTGACGTAAAAAAAAAGGTCATAACGATTTG
* ** ** * *
22252 AAATAGATAATCATTCATCGAGTCTTAACTATTTGAACTGGTTTGGCAAT
130 AAATAAATAATCATTCAAAGAGTCAAAACTATTTGAAATGGTTTGGCAAG
* * * * * *
22302 TAAATTTATTTTTTAATTTTCTTAGTTATTAAGTTTCAAAATATTATTAAATTAGTATTATTTTA
1 CAAATTTATTTTTTAAATCTCTTACTTATTAATTTTCTAAATATTATTAAATTAGTATTATTTTA
* * * * * *
22367 TTCTAAATAAAATAGTATGAACAGAACCAATTGTTTGATGATAAAATAAAAAGGTTATAATGATT
66 TTCCAAATAAAATAGTACGAACA-AAACAATTGTTTGACG-TAAAA-AAAAAGGTCATAACGATT
* * * *
22432 TGAAATAAATAATTATTGAAATAGTCAAAACTATTTGAAATGGTTTGGTAAG
128 TGAAATAAATAATCATTCAAAGAGTCAAAACTATTTGAAATGGTTTGGCAAG
* ** * * ** *
22484 CAGATTT-TCTTTTTAAATCTCTTACAGATTTATTTTCTAAATATTAATAAAACAATATTATTTT
1 CAAATTTAT-TTTTTAAATCTCTTACTTATTAATTTTCTAAATATTATTAAATTAGTATTATTTT
*
22548 ATTTCAAA
65 ATTCCAAA
22556 CAAACTTATA
Statistics
Matches: 202, Mismatches: 46, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
178 7 0.03
179 67 0.33
180 13 0.06
181 5 0.02
182 110 0.54
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (179 bp):
CAAATTTATTTTTTAAATCTCTTACTTATTAATTTTCTAAATATTATTAAATTAGTATTATTTTA
TTCCAAATAAAATAGTACGAACAAAACAATTGTTTGACGTAAAAAAAAAGGTCATAACGATTTGA
AATAAATAATCATTCAAAGAGTCAAAACTATTTGAAATGGTTTGGCAAG
Found at i:24015 original size:11 final size:11
Alignment explanation
Indices: 23999--24125 Score: 64
Period size: 11 Copynumber: 11.5 Consensus size: 11
23989 TTGTAATTAG
23999 TATTATTATAT
1 TATTATTATAT
* *
24010 TATTATTAAAC
1 TATTATTATAT
*
24021 TACTAATTAATAT
1 TA-TTATT-ATAT
* *
24034 TGTCATTAT-T
1 TATTATTATAT
24044 TAATTTATTATAT
1 T-A-TTATTATAT
* *
24057 TAATATTTATAA
1 TATTA-TTATAT
*
24069 TATTACTA-AT
1 TATTATTATAT
*
24079 AATTA--ATAT
1 TATTATTATAT
*
24088 TATTATAATAT
1 TATTATTATAT
*
24099 AATTATTATAT
1 TATTATTATAT
* *
24110 TATTTTTATAA
1 TATTATTATAT
24121 TATTA
1 TATTA
24126 GTAATTTTGT
Statistics
Matches: 85, Mismatches: 22, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
8 1 0.01
9 6 0.07
10 7 0.08
11 42 0.49
12 24 0.28
13 5 0.06
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (11 bp):
TATTATTATAT
Found at i:24083 original size:25 final size:26
Alignment explanation
Indices: 24052--24130 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 26
24042 TTTAATTTAT
24052 TATATTAATATTTATAATATTACTAA
1 TATATTAATATTTATAATATTACTAA
* * *
24078 TA-ATTAATATTATTATAATATAATTAT
1 TATATTAATA-T-TTATAATATTACTAA
* *
24105 TATATT-ATTTTTATAATATTAGTAA
1 TATATTAATATTTATAATATTACTAA
24130 T
1 T
24131 TTTGTTATCC
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
25 20 0.47
26 4 0.09
27 16 0.37
28 3 0.07
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (26 bp):
TATATTAATATTTATAATATTACTAA
Found at i:24101 original size:16 final size:16
Alignment explanation
Indices: 24064--24108 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
24054 TATTAATATT
24064 TATAATATTACTAATAA
1 TATAATATTA-TAATAA
*
24081 T-TAATATTATTATAA
1 TATAATATTATAATAA
24096 TATAATTATTATA
1 TATAA-TATTATA
24109 TTATTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 6 0.25
16 11 0.46
17 7 0.29
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TATAATATTATAATAA
Found at i:25367 original size:24 final size:23
Alignment explanation
Indices: 25330--25390 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
25320 TAATTATGTT
*
25330 TATTTAATT-ATATATAATATTAAC
1 TATTT-ATTAATATATAAT-TTAAA
*
25354 TA-TTATTAAGTATATTATTTAAA
1 TATTTATTAA-TATATAATTTAAA
25377 TATTTATTAATATA
1 TATTTATTAATATA
25391 CATAATTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 3 0.09
23 13 0.41
24 16 0.50
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TATTTATTAATATATAATTTAAA
Found at i:25527 original size:20 final size:20
Alignment explanation
Indices: 25502--25539 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25492 GGTTATGTAT
25502 ATATACTTAAAACTTTATTA
1 ATATACTTAAAACTTTATTA
*
25522 ATATACTTAAAATTTTAT
1 ATATACTTAAAACTTTAT
25540 ATATTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATACTTAAAACTTTATTA
Found at i:25691 original size:19 final size:17
Alignment explanation
Indices: 25657--25727 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 17
25647 AGTATATTAT
25657 AATTATTATATTAAATA
1 AATTATTATATTAAATA
25674 AATTATTAGTAGTTAAATTA
1 AATTATTA-TA-TTAAA-TA
* *
25694 ATTGTATTAATTATAAAATA
1 AAT-TATT-A-TATTAAATA
25714 AATTATTAATATTA
1 AATTATT-ATATTA
25728 TTTCAAATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
17 8 0.18
18 6 0.14
19 11 0.25
20 8 0.18
21 8 0.18
22 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (17 bp):
AATTATTATATTAAATA
Found at i:26175 original size:15 final size:16
Alignment explanation
Indices: 26141--26183 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
26131 TTATTACATG
* *
26141 TATTATAAATTATTAT
1 TATTATAAATTAATAA
26157 TATT-TAAATTAATAA
1 TATTATAAATTAATAA
*
26172 TATTATTAATTA
1 TATTATAAATTA
26184 TAACTAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTATAAATTAATAA
Done.