Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168389.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_606, 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: 21667
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Found at i:705 original size:14 final size:14
Alignment explanation
Indices: 679--711 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
669 ATAATTGTTT
*
679 ATTA-TATTTAATA
1 ATTATTATTAAATA
692 ATTATTATTAAATA
1 ATTATTATTAAATA
706 ATTATT
1 ATTATT
712 TTTATTTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTATTATTAAATA
Found at i:764 original size:19 final size:19
Alignment explanation
Indices: 732--769 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
722 TAAACTTTAA
*
732 ATATTAATTATTAATCTAT
1 ATATTAATTATTAAACTAT
751 ATATTAA-TATTTAAACTAT
1 ATATTAATTA-TTAAACTAT
770 TGCAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATTAATTATTAAACTAT
Found at i:1478 original size:19 final size:19
Alignment explanation
Indices: 1454--1512 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
1444 TTCTAATATT
*
1454 AATATTTATAATAATTATA
1 AATATTTAAAATAATTATA
*
1473 AATATTTAAAACTATTTATA
1 AATATTTAAAA-TAATTATA
*
1493 AGTTATTTAAAAT-ATTATA
1 A-ATATTTAAAATAATTATA
1512 A
1 A
1513 TAGTATTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 16 0.47
20 9 0.26
21 9 0.26
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
AATATTTAAAATAATTATA
Found at i:1519 original size:20 final size:20
Alignment explanation
Indices: 1456--1519 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 20
1446 CTAATATTAA
*
1456 TATTTATAATAATTATAA-A-
1 TATTTAAAAT-ATTATAATAG
1475 TATTTAAAACTATT-T-ATAAG
1 TATTTAAAA-TATTATAAT-AG
1495 TTATTTAAAATATTATAATAG
1 -TATTTAAAATATTATAATAG
1516 TATT
1 TATT
1520 AATTTATCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
17 1 0.03
18 1 0.03
19 12 0.32
20 9 0.24
21 12 0.32
22 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (20 bp):
TATTTAAAATATTATAATAG
Found at i:1857 original size:23 final size:25
Alignment explanation
Indices: 1798--1864 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 25
1788 TCTTAATTAT
* *
1798 TTATC-AACAAATTTAATTTTTGAA
1 TTATCAAATAAATATAATTTTTGAA
*
1822 TTATCAAATAAATATTATTTTT-AA
1 TTATCAAATAAATATAATTTTTGAA
*
1846 TT-TGAAATAAATATAATTT
1 TTATCAAATAAATATAATTT
1865 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:1871 original size:23 final size:22
Alignment explanation
Indices: 1827--1879 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
1817 TTGAATTATC
* *
1827 AAATAAATATTATTTTTAATTT
1 AAATAAATATAATTTATAATTT
1849 GAAATAAATATAATTTA-ATATTT
1 -AAATAAATATAATTTATA-ATTT
*
1872 AAAGAAAT
1 AAATAAAT
1880 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:2046 original size:22 final size:22
Alignment explanation
Indices: 1991--2054 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
1981 GTTATTCTAT
*
1991 TTGATTTAA-TATTATTG-ATA
1 TTGAATTAATTATTATTGAATA
2011 -T-AACTTAATATATTATTGAATA
1 TTGAA-TTAAT-TATTATTGAATA
*
2033 TTGAATTAATTATTATTAAATA
1 TTGAATTAATTATTATTGAATA
2055 ATTATTGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
18 1 0.03
19 5 0.14
21 8 0.22
22 14 0.39
23 6 0.17
24 2 0.06
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (22 bp):
TTGAATTAATTATTATTGAATA
Found at i:2239 original size:23 final size:22
Alignment explanation
Indices: 2191--2237 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
2181 TTTATTGCTT
2191 ATAAATAATAATAAATTTAATTA
1 ATAAATAATAAT-AATTTAATTA
*
2214 ATAAATTATAAT-ATTTAA-TA
1 ATAAATAATAATAATTTAATTA
2234 ATAA
1 ATAA
2238 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:2620 original size:15 final size:15
Alignment explanation
Indices: 2600--2643 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
2590 TATTATAGTA
*
2600 TAAATATTAATTATT
1 TAAATATTAATTAAT
2615 TAAATATTTAA-TAAT
1 TAAATA-TTAATTAAT
*
2630 AAAATATTAATTAA
1 TAAATATTAATTAA
2644 AATTATTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 4 0.16
15 17 0.68
16 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAATATTAATTAAT
Found at i:2704 original size:16 final size:17
Alignment explanation
Indices: 2668--2728 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
2658 AGTATATAAT
* *
2668 TAATTAATTACATTTAC
1 TAATTAATTAAATTAAC
2685 TAATTAA-TAAATTAAC
1 TAATTAATTAAATTAAC
2701 TAATATTAATT-AA-TAAC
1 T-A-ATTAATTAAATTAAC
2718 -AA-TAATTAAAT
1 TAATTAATTAAAT
2729 ATTTACAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
13 5 0.14
14 3 0.08
15 1 0.03
16 8 0.22
17 12 0.32
18 7 0.19
19 1 0.03
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATTAATTAAATTAAC
Found at i:2960 original size:28 final size:27
Alignment explanation
Indices: 2910--2962 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
2900 TATATATTAT
2910 TTAAAATTATAATATTATATTATTTAA
1 TTAAAATTATAATATTATATTATTTAA
* *
2937 TTAAATTTATTAATATTATGTTATTT
1 TTAAAATTA-TAATATTATATTATTT
2963 CAATATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (27 bp):
TTAAAATTATAATATTATATTATTTAA
Found at i:4054 original size:12 final size:11
Alignment explanation
Indices: 4037--4080 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 11
4027 TATTTATATG
4037 TTATAATATTA
1 TTATAATATTA
4048 CTTATAAATATCTA
1 -TTAT-AATAT-TA
4062 TTATAACTATTA
1 TTATAA-TATTA
4074 TTATAAT
1 TTATAAT
4081 TAAGTAGTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 1 0.03
12 14 0.48
13 12 0.41
14 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (11 bp):
TTATAATATTA
Found at i:4065 original size:13 final size:12
Alignment explanation
Indices: 4037--4079 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
4027 TATTTATATG
4037 TTAT-AATATTA
1 TTATAAATATTA
4048 CTTATAAATATCTA
1 -TTATAAATAT-TA
*
4062 TTATAACTATTA
1 TTATAAATATTA
4074 TTATAA
1 TTATAA
4080 TTAAGTAGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 12 0.43
13 14 0.50
14 2 0.07
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (12 bp):
TTATAAATATTA
Found at i:4371 original size:17 final size:18
Alignment explanation
Indices: 4337--4379 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
4327 TACTAGTTAT
4337 AATATAATTTATAAAGATA
1 AATA-AATTTATAAAGATA
*
4356 AATAAATTTA-ATAGATA
1 AATAAATTTATAAAGATA
*
4373 ATTAAAT
1 AATAAAT
4380 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:4622 original size:30 final size:30
Alignment explanation
Indices: 4566--4622 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
4556 AAATTATTAT
**
4566 TTATTAATGCTATTTTACATTATAAACTTA
1 TTATTAATAATATTTTACATTATAAACTTA
*
4596 TTATTAATAATATATTTA-ATTTTAAAC
1 TTATTAATAATAT-TTTACATTATAAAC
4623 AAATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (30 bp):
TTATTAATAATATTTTACATTATAAACTTA
Found at i:4672 original size:19 final size:19
Alignment explanation
Indices: 4648--4758 Score: 81
Period size: 19 Copynumber: 5.9 Consensus size: 19
4638 TAATATTAAA
4648 ATAATATAATTATAAATAT
1 ATAATATAATTATAAATAT
* **
4667 ATAATAAAATTATATTTAT
1 ATAATATAATTATAAATAT
*
4686 ATAA-A-GATTAT-AATAT
1 ATAATATAATTATAAATAT
* *
4702 -TAATTATAATTAGAAATTT
1 ATAA-TATAATTATAAATAT
*
4721 AT-AT-TTATTATAAATAT
1 ATAATATAATTATAAATAT
4738 ATTTAATTATAATTATAAATA
1 A--TAA-TATAATTATAAATA
4759 GTTAAATATT
Statistics
Matches: 69, Mismatches: 13, Indels: 17
0.70 0.13 0.17
Matches are distributed among these distances:
15 3 0.04
16 3 0.04
17 17 0.25
18 6 0.09
19 26 0.38
20 2 0.03
21 1 0.01
22 11 0.16
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
ATAATATAATTATAAATAT
Found at i:4680 original size:25 final size:26
Alignment explanation
Indices: 4652--4723 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 26
4642 ATTAAAATAA
4652 TATAATTATAAATATATAATA-AAAT
1 TATAATTATAAATATATAATATAAAT
* * *
4677 TATATTTATATAAAGATTATAATATTAAT
1 TATA-AT-TATAAATA-TATAATATAAAT
* *
4706 TATAATTAGAAATTTATA
1 TATAATTATAAATATATA
4724 TTTATTATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
25 4 0.11
26 5 0.14
27 12 0.33
28 8 0.22
29 7 0.19
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (26 bp):
TATAATTATAAATATATAATATAAAT
Found at i:4740 original size:15 final size:16
Alignment explanation
Indices: 4720--4754 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4710 ATTAGAAATT
4720 TATATTT-ATTATAAA
1 TATATTTAATTATAAA
*
4735 TATATTTAATTATAAT
1 TATATTTAATTATAAA
4751 TATA
1 TATA
4755 AATAGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATATTTAATTATAAA
Found at i:4792 original size:22 final size:22
Alignment explanation
Indices: 4741--4812 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
4731 TAAATATATT
*
4741 TAATTATAATTATAAATAGTTA-AA
1 TAATTATTATTAT-AAT--TTACAA
*
4765 T-ATTATTTTTAATAATTT-CAA
1 TAATTATTATT-ATAATTTACAA
*
4786 TAATTATTATTATAATTTATAA
1 TAATTATTATTATAATTTACAA
4808 TAATT
1 TAATT
4813 TAGTAATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
21 12 0.30
22 15 0.38
23 10 0.25
24 3 0.08
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (22 bp):
TAATTATTATTATAATTTACAA
Found at i:4844 original size:23 final size:23
Alignment explanation
Indices: 4784--4864 Score: 71
Period size: 26 Copynumber: 3.6 Consensus size: 23
4774 TAATAATTTC
*
4784 AATAATTAT-TATTATAATTTAT
1 AATAATTATATATTATAATTAAT
* *
4806 AATAATTTAGTAATATTTTTATTAAT
1 AATAA-TTA-T-ATATTATAATTAAT
4832 AATAATTATATATTA-AATTAA-
1 AATAATTATATATTATAATTAAT
*
4853 CATAATT-TATAT
1 AATAATTATATAT
4865 CTGAAATAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 5 0.10
21 6 0.12
22 10 0.20
23 8 0.16
24 2 0.04
25 3 0.06
26 15 0.31
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (23 bp):
AATAATTATATATTATAATTAAT
Found at i:5108 original size:16 final size:15
Alignment explanation
Indices: 5076--5138 Score: 56
Period size: 16 Copynumber: 4.0 Consensus size: 15
5066 AATAATTACC
*
5076 TAATTTATTAATATAA
1 TAATATATT-ATATAA
5092 TAATATATTATAGTAA
1 TAATATATTATA-TAA
*
5108 TATTATAATTATATAA
1 TAATAT-ATTATATAA
*
5124 TTAA-ATATTAGATAA
1 -TAATATATTATATAA
5139 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:6444 original size:15 final size:16
Alignment explanation
Indices: 6424--6456 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6414 TTATAATTAA
*
6424 ATAATAATCTAAT-TT
1 ATAATAATATAATATT
6439 ATAATAATATAATATT
1 ATAATAATATAATATT
6455 AT
1 AT
6457 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:6468 original size:19 final size:18
Alignment explanation
Indices: 6445--6511 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 18
6435 ATTTATAATA
6445 ATATAATATTATTATATT
1 ATATAATATTATTATATT
*
6463 ATTATAGTATT-TATATATT
1 A-TATAATATTAT-TATATT
*
6482 ATATAATATTTATTAAATT
1 ATATAATA-TTATTATATT
6501 ATAT-ATATTAT
1 ATATAATATTAT
6512 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:6514 original size:16 final size:16
Alignment explanation
Indices: 6450--6520 Score: 56
Period size: 16 Copynumber: 4.2 Consensus size: 16
6440 TAATAATATA
*
6450 ATAT-TATTATATTATT
1 ATATATATTATA-AATT
*
6466 ATAGTAT-TTATATATT
1 ATA-TATATTATAAATT
6482 ATATAATATTTATTAAATT
1 ATAT-ATA-TTA-TAAATT
*
6501 ATATATATTATAAACT
1 ATATATATTATAAATT
6517 ATAT
1 ATAT
6521 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:6520 original size:35 final size:37
Alignment explanation
Indices: 6445--6520 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
6435 ATTTATAATA
* * *
6445 ATATAATATTATTATATTATTATAGTATTTATATATT
1 ATATAATATTATTAAATTATTATAGTATTTATAAACT
6482 ATATAATATTTATTAAATTA-TATA-TA-TTATAAACT
1 ATATAATA-TTATTAAATTATTATAGTATTTATAAACT
6517 ATAT
1 ATAT
6521 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:6571 original size:16 final size:16
Alignment explanation
Indices: 6550--6605 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
6540 TAAAATGTAA
6550 TTTAATTATATTTAAT
1 TTTAATTATATTTAAT
*
6566 TTTAATTAT-TTGTAAA
1 TTTAATTATATT-TAAT
* *
6582 TATAATTATTATTTTAT
1 TTTAATTA-TATTTAAT
6599 TTATAAT
1 TT-TAAT
6606 AATTATAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 2 0.06
16 19 0.61
17 4 0.13
18 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
TTTAATTATATTTAAT
Found at i:7191 original size:17 final size:19
Alignment explanation
Indices: 7169--7204 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
7159 AATTCCAATA
7169 ATATG-ATTAATAA-ATTT
1 ATATGAATTAATAATATTT
7186 ATATGAATTAATAATATTT
1 ATATGAATTAATAATATTT
7205 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:7336 original size:25 final size:26
Alignment explanation
Indices: 7291--7411 Score: 70
Period size: 28 Copynumber: 4.4 Consensus size: 26
7281 TTAAACTTAT
* *
7291 ATAATTATTTTAAATCCTTA-TATAA
1 ATAATTATTATAAATCATTATTATAA
7316 ATAATTATTATAATAT-ATTATTATAA
1 ATAATTATTATAA-ATCATTATTATAA
* * *
7342 ATATTGTATAATTTAAT-ATTTATTATATA
1 ATAAT-TATTA-TAAATCA-TTATTATA-A
*
7371 ATAA-TATTACTAAATTATTTATAATATAA
1 ATAATTATTA-TAAATCA-TTAT--TATAA
7400 ATAATTAATTAT
1 ATAATT-ATTAT
7412 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:7339 original size:28 final size:28
Alignment explanation
Indices: 7308--7411 Score: 76
Period size: 29 Copynumber: 3.7 Consensus size: 28
7298 TTTTAAATCC
7308 TTATATAAATAATTATTATAATATATTA
1 TTATATAAATAATTATTATAATATATTA
* *
7336 -T-TATAAATATTGTATAATTTAATAT-TTA
1 TTATATAAATAAT-TAT--TATAATATATTA
7364 TTATAT-AATAA-TATTACTAA-ATTATTTA
1 TTATATAAATAATTATTA-TAATA-TA-TTA
*
7392 TAATATAAATAATTAATTAT
1 TTATATAAATAATT-ATTAT
7412 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:7365 original size:41 final size:42
Alignment explanation
Indices: 7315--7411 Score: 110
Period size: 41 Copynumber: 2.3 Consensus size: 42
7305 TCCTTATATA
*
7315 AATAATTATTATA-ATATATTATTA-TAAA-TATTGTATAATTT
1 AATAATTATTATATA-ATAATATTACTAAATTATT-TATAATTT
* *
7356 AATATTTATTATATAATAATATTACTAAATTATTTATAATATA
1 AATAATTATTATATAATAATATTACTAAATTATTTATAAT-TT
7399 AATAATTAATTAT
1 AATAATT-ATTAT
7412 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:7545 original size:24 final size:24
Alignment explanation
Indices: 7517--7562 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
7507 ATATATATAA
*
7517 TATTA-ACTATTAATTAAAAATAGT
1 TATTATACTAATAA-TAAAAATAGT
7541 TATTATACTAATAATAAAAATA
1 TATTATACTAATAATAAAAATA
7563 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:7632 original size:13 final size:13
Alignment explanation
Indices: 7594--7640 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
7584 AATATTGTCA
7594 ATAATATTAATTTAT
1 ATAA-ATTAATTT-T
*
7609 ATTAATT-ATTTT
1 ATAAATTAATTTT
*
7621 ATAAATTAATTTA
1 ATAAATTAATTTT
7634 ATAAATT
1 ATAAATT
7641 TGTTTATTAT
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:7843 original size:22 final size:22
Alignment explanation
Indices: 7818--7884 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 22
7808 TTCAATTGTT
7818 TAATAAAATTAATATTATTATA
1 TAATAAAATTAATATTATTATA
* *
7840 TAATTAAATTAATAATA-TA-A
1 TAATAAAATTAATATTATTATA
*
7860 TAATATAA-T-AT-TTATTATA
1 TAATAAAATTAATATTATTATA
*
7879 TTATAA
1 TAATAA
7885 TAAATATTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
17 2 0.06
18 4 0.11
19 6 0.17
20 7 0.19
21 2 0.06
22 15 0.42
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TAATAAAATTAATATTATTATA
Found at i:7903 original size:13 final size:13
Alignment explanation
Indices: 7885--7909 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7875 TATATTATAA
7885 TAAATATTTAATT
1 TAAATATTTAATT
7898 TAAATATTTAAT
1 TAAATATTTAAT
7910 ATATAATAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAAATATTTAATT
Found at i:7934 original size:17 final size:17
Alignment explanation
Indices: 7824--7939 Score: 54
Period size: 17 Copynumber: 6.9 Consensus size: 17
7814 TGTTTAATAA
*
7824 AATT-AATATTATTATAT
1 AATTAAATAATATTAT-T
*
7841 AATTAAATTAATAATA-T
1 AATTAAA-TAATATTATT
7858 AA-TAATATAATATTTATT
1 AATTAA-ATAATA-TTATT
7876 ATATTATAATAA-A-TATTT
1 A-ATTA-AATAATATTA-TT
*
7894 AATT-TA-AATA-T-TT
1 AATTAAATAATATTATT
7907 AATATATAATAATATTATT
1 AAT-TA-AATAATATTATT
7926 AATTAAATAA-ATTA
1 AATTAAATAATATTA
7940 AATATATTAT
Statistics
Matches: 78, Mismatches: 5, Indels: 33
0.67 0.04 0.28
Matches are distributed among these distances:
13 5 0.06
14 3 0.04
15 3 0.04
16 13 0.17
17 24 0.31
18 10 0.13
19 13 0.17
20 6 0.08
21 1 0.01
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAAATAATATTATT
Found at i:9164 original size:26 final size:29
Alignment explanation
Indices: 9100--9170 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
9090 TTAGTTTAAC
* * *
9100 ATTAAATTAAATAATTATTAATTTATAGT
1 ATTAAATAAAATAATTAATAATTGATAGT
*
9129 ATTAATTAAAATAATTAAT-ATTGATAG-
1 ATTAAATAAAATAATTAATAATTGATAGT
9156 A-TAAATAAATATAAT
1 ATTAAATAAA-ATAAT
9171 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:9194 original size:19 final size:18
Alignment explanation
Indices: 9163--9298 Score: 68
Period size: 17 Copynumber: 7.3 Consensus size: 18
9153 TAGATAAATA
*
9163 AATATAATAATTATTATAT
1 AATA-AATAATTAATATAT
9182 AATAAATAGATTAATATAT
1 AATAAATA-ATTAATATAT
* *
9201 AAT-AATTATTTATAT-T
1 AATAAATAATTAATATAT
*
9217 ATTAAATAATATAA-AT-T
1 AATAAATAAT-TAATATAT
** * *
9234 AATTTATATTTAATATTAAA
1 AATAAATAATTAATA-T-AT
9254 AATAAAT-ATTAATA-AT
1 AATAAATAATTAATATAT
9270 AATTAAGATAATTATAATATTAT
1 AA-TAA-ATAA-T-TAATA-TAT
9293 AATAAA
1 AATAAA
9299 ATAGTTATTT
Statistics
Matches: 88, Mismatches: 15, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
16 9 0.10
17 25 0.28
18 12 0.14
19 23 0.26
20 6 0.07
21 6 0.07
22 3 0.03
23 4 0.05
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (18 bp):
AATAAATAATTAATATAT
Found at i:9227 original size:30 final size:32
Alignment explanation
Indices: 9138--9237 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 32
9128 TATTAATTAA
* * *
9138 AATAATTAATAT-TGATAGATAAATAA-ATAT
1 AATAATTATTATATAATAAATAAATAATATAT
*
9168 AATAATTATTATATAATAAATAGATTAATATAT
1 AATAATTATTATATAATAAATA-AATAATATAT
* *
9201 AATAATTATT-TAT-ATTATTAAATAATATA-
1 AATAATTATTATATAATAAATAAATAATATAT
9230 AATTAATT
1 AA-TAATT
9238 TATATTTAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
29 2 0.03
30 24 0.41
31 12 0.20
32 7 0.12
33 14 0.24
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (32 bp):
AATAATTATTATATAATAAATAAATAATATAT
Found at i:9594 original size:20 final size:19
Alignment explanation
Indices: 9571--9625 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
9561 TAATATTATT
*
9571 ATAATTATTATAATATTTGG
1 ATAATTATTATAATAATT-G
9591 ATAATTTATTCAT-ATAATTG
1 ATAA-TTATT-ATAATAATTG
9611 ATAATTATTA-AATAA
1 ATAATTATTATAATAA
9626 ACTAATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
20 9 0.29
21 10 0.32
22 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (19 bp):
ATAATTATTATAATAATTG
Found at i:9724 original size:17 final size:18
Alignment explanation
Indices: 9683--9727 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
9673 ATAATTAAAG
9683 TACTTAAT-TT-ATAATT
1 TACTTAATATTAATAATT
*
9699 TAATTAATATTAATAA-T
1 TACTTAATATTAATAATT
9716 TACTTAATATTA
1 TACTTAATATTA
9728 TTAACATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.28
17 14 0.56
18 4 0.16
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (18 bp):
TACTTAATATTAATAATT
Found at i:9771 original size:21 final size:21
Alignment explanation
Indices: 9711--9768 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
9701 ATTAATATTA
9711 ATAATTACTTAATATTATTAAC
1 ATAATTA-TTAATATTATTAAC
* **
9733 ATAATGATTAATATTATTAGG
1 ATAATTATTAATATTATTAAC
9754 ATAATTATATAATAT
1 ATAATTAT-TAATAT
9769 ATTTTATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (21 bp):
ATAATTATTAATATTATTAAC
Found at i:9820 original size:28 final size:28
Alignment explanation
Indices: 9757--9835 Score: 71
Period size: 28 Copynumber: 2.9 Consensus size: 28
9747 TATTAGGATA
9757 ATTATATAATATATTTTATATATTAAAAT
1 ATTAT-TAATATATTTTATATATTAAAAT
9786 -TTAATTAA-ATATTATTATATA-TAATAAT
1 ATT-ATTAATATATT-TTATATATTAA-AAT
*
9814 ATTATT-AT-TATTATAT-TATTAA
1 ATTATTAATATATTTTATATATTAA
9836 TTTTATTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
25 2 0.05
26 6 0.14
27 13 0.30
28 18 0.42
29 4 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
ATTATTAATATATTTTATATATTAAAAT
Found at i:11090 original size:180 final size:179
Alignment explanation
Indices: 10766--11528 Score: 831
Period size: 180 Copynumber: 4.2 Consensus size: 179
10756 ATAATATCAA
* * * * * ** *
10766 TTTTGTCATAAAACAAATGTTTTTGTTCATATAAGTTTGTTTGGAATAAAATAATAT-TAATTTA
1 TTTTCTCATAAAACAATTGTTTTTGTTCATACAAGCTTATTCAGAATAACATAAT-TCTAATTTA
* * * * *
10830 TTAATATTTCAAAAATTAATACGTAAGAGATTTAAAAAATAAATTTGTTTGCCAT-CCTAGTTCA
65 TTAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAATGAA-TT-TTTGACATAACTAGTTCA
* * * * * * *
10894 ATTAGTTATAACTATTTGACCAAATATTTATTTCAAATCATTATGATCATTTC
128 AATAATTATGACTATTTGAACAATTATTTATTTCAAATCATTATGA-CCTTTG
* * * *
10947 TTTTATCATAAAACAATTGTTTTT-TTCATATAATCTTATTC-GAAATAA-AGTAATGCTAATTT
1 TTTTCTCATAAAACAATTGTTTTTGTTCATACAAGCTTATTCAG-AATAACA-TAATTCTAATTT
** * * * * *
11009 ATTAATATTTTAAAAATTAATAAGTAATG-GATTTAGAAAATGTATCTTTTGGCTTAACTAGTGC
64 ATTAATATTCCAAAAATTAATAAGTAA-GAGATTTAAAAAATGAAT-TTTTGACATAACTAGTTC
* *
11073 AAACAATTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTG
127 AAATAATTATGACTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTG
* *
11126 TTTTCTTATAAAACAATTGTTTTTGTTCATACAAGCTTATTCAGATTAACATAATTCTAATTTAT
1 TTTTCTCATAAAACAATTGTTTTTGTTCATACAAGCTTATTCAGAATAACATAATTCTAATTTAT
* * ** *
11191 TAATATTCCAAAAATTAATAAGTGAGAGATTTAAAAAATGAATTTGTTTACCGAACAAGTTCAAA
66 TAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAATGAATTT-TTGACATAACTAGTTCAAA
*
11256 TAATTATGGCTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTG
130 TAATTATGACTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTG
* *
11306 TTTTCTTATAAAACAATTGTTTTTGTTCATACAAGCTTATTCAGATTAACATAATTCTAATTTAT
1 TTTTCTCATAAAACAATTGTTTTTGTTCATACAAGCTTATTCAGAATAACATAATTCTAATTTAT
* * ** *
11371 TAATATTCCAAAAATTAATAAGTGAGAGATTTAAAAAATGAATTTGTTTACCGAACAAGTTCAAA
66 TAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAATGAATTT-TTGACATAACTAGTTCAAA
* * * * *
11436 TAATTATGGCTATTTGAACAATTATCTAGTTCAAAT-TTCTATAACCTTTTG
130 TAATTATGACTATTTGAACAATTATTTATTTCAAATCAT-TATGACC-TTTG
* * * *
11487 TATTGTCATAAAATAATT-TTTTCTATTCAGTACAAGCTTATT
1 TTTTCTCATAAAACAATTGTTTT-TGTTCA-TACAAGCTTATT
11529 TAAATTTGTT
Statistics
Matches: 513, Mismatches: 54, Indels: 29
0.86 0.09 0.05
Matches are distributed among these distances:
179 39 0.08
180 414 0.81
181 48 0.09
182 12 0.02
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (179 bp):
TTTTCTCATAAAACAATTGTTTTTGTTCATACAAGCTTATTCAGAATAACATAATTCTAATTTAT
TAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAATGAATTTTTGACATAACTAGTTCAAAT
AATTATGACTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTG
Found at i:11106 original size:16 final size:17
Alignment explanation
Indices: 11074--11106 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11064 AACTAGTGCA
11074 AACAATTATGACTATTTG
1 AACAATTAT-ACTATTTG
11092 AACAATTAT-CTATTT
1 AACAATTATACTATTT
11107 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:12463 original size:182 final size:180
Alignment explanation
Indices: 12087--12519 Score: 465
Period size: 182 Copynumber: 2.4 Consensus size: 180
12077 ATTCAGTAAA
*
12087 CAAATTTA-TTTTTAAATCTCTTACTTATTAATTTTTAAAATATTATTAAATTAGTATTATTTTA
1 CAAATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTATTATTTTA
* ** * * * * *
12151 ATCCAAATAAGCTTGTACGAACAAAACAATTGTTTTACGTTAAAAGAAAATGTCATAACGATTTG
66 TTCCAAATAAAATAGTACGAACAAAACAATTGTTTGACGATAAAAAAAAAGGTCATAACGATTTG
* ** ** * *
12216 AAATAGATAATCATTCATCGAGTCTTAACTATTTGAACTGGTTTGGCAAT
131 AAATAAATAATCATTCAAAGAGTCAAAACTATTTGAAATGGTTTGGCAAG
* * * * *
12266 TAAATTTATTTTTTAATTTTCTTAGTTATTAAGTTTCAAAATATTATTAAATTAGTATTATTTTA
1 CAAATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTATTATTTTA
* * * * * *
12331 TTCTAAATAAAATAGTATGAACAGAACCAATTGTTTGATGATAAAATAAAAAGGTTATAATGATT
66 TTCCAAATAAAATAGTACGAACA-AAACAATTGTTTGACGATAAAA-AAAAAGGTCATAACGATT
* * * *
12396 TGAAATAAATAATTATTGAAATAGTCAAAACTATTTGAAATGGTTTGGTAAG
129 TGAAATAAATAATCATTCAAAGAGTCAAAACTATTTGAAATGGTTTGGCAAG
* ** * * * * *
12448 CAGATTT-TCTTTTTAAATCTCTTACAGATTTATTTTCTAAATATTAATAAAATAATATTATTTT
1 CAAATTTAT-TTTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTATTATTTT
*
12512 ATTTCAAA
65 ATTCCAAA
12520 CAAACTTATA
Statistics
Matches: 204, Mismatches: 46, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
179 7 0.03
180 68 0.33
181 19 0.09
182 110 0.54
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (180 bp):
CAAATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTATTATTTTA
TTCCAAATAAAATAGTACGAACAAAACAATTGTTTGACGATAAAAAAAAAGGTCATAACGATTTG
AAATAAATAATCATTCAAAGAGTCAAAACTATTTGAAATGGTTTGGCAAG
Found at i:13727 original size:18 final size:21
Alignment explanation
Indices: 13695--13734 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
13685 TTAAATAGTT
13695 AAATGTTATATTAA-TATTAA
1 AAATGTTATATTAATTATTAA
13715 AAAT-TTATA-TAATTATTAA
1 AAATGTTATATTAATTATTAA
13734 A
1 A
13735 TTAAAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.16
19 12 0.63
20 4 0.21
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
AAATGTTATATTAATTATTAA
Found at i:13969 original size:11 final size:11
Alignment explanation
Indices: 13953--14079 Score: 64
Period size: 11 Copynumber: 11.5 Consensus size: 11
13943 TTGTAATTAG
13953 TATTATTATAT
1 TATTATTATAT
* *
13964 TATTATTAAAC
1 TATTATTATAT
*
13975 TACTAATTAATAT
1 TA-TTATT-ATAT
* *
13988 TGTCATTAT-T
1 TATTATTATAT
13998 TAATTTATTATAT
1 T-A-TTATTATAT
* *
14011 TAATATTTATAA
1 TATTA-TTATAT
*
14023 TATTACTA-AT
1 TATTATTATAT
*
14033 AATTA--ATAT
1 TATTATTATAT
*
14042 TATTATAATAT
1 TATTATTATAT
*
14053 AATTATTATAT
1 TATTATTATAT
* *
14064 TATTTTTATAA
1 TATTATTATAT
14075 TATTA
1 TATTA
14080 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:14037 original size:25 final size:26
Alignment explanation
Indices: 14006--14084 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 26
13996 TTTAATTTAT
14006 TATATTAATATTTATAATATTACTAA
1 TATATTAATATTTATAATATTACTAA
* * *
14032 TA-ATTAATATTATTATAATATAATTAT
1 TATATTAATA-T-TTATAATATTACTAA
* *
14059 TATATT-ATTTTTATAATATTAGTAA
1 TATATTAATATTTATAATATTACTAA
14084 T
1 T
14085 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:14055 original size:16 final size:16
Alignment explanation
Indices: 14018--14062 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
14008 TATTAATATT
14018 TATAATATTACTAATAA
1 TATAATATTA-TAATAA
*
14035 T-TAATATTATTATAA
1 TATAATATTATAATAA
14050 TATAATTATTATA
1 TATAA-TATTATA
14063 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:14420 original size:19 final size:18
Alignment explanation
Indices: 14396--14434 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
14386 TGTTTGAAAT
14396 ATTAATAATTAATATTTTA
1 ATTAATAATTAAT-TTTTA
*
14415 ATTAATAATTTATTTTTA
1 ATTAATAATTAATTTTTA
14433 AT
1 AT
14435 AAAATAACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTAATAATTAATTTTTA
Found at i:14441 original size:19 final size:19
Alignment explanation
Indices: 14399--14437 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
14389 TTGAAATATT
*
14399 AATAATTAATATTTTAATT
1 AATAATTAATATTTTAATA
*
14418 AATAATTTAT-TTTTAATA
1 AATAATTAATATTTTAATA
14436 AA
1 AA
14438 ATAACGTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATAATTAATATTTTAATA
Found at i:15488 original size:20 final size:20
Alignment explanation
Indices: 15463--15500 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15453 CGTTATGTAT
15463 ATATACTTAAAACTTTATTA
1 ATATACTTAAAACTTTATTA
*
15483 ATATACTTAAAATTTTAT
1 ATATACTTAAAACTTTAT
15501 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:15652 original size:19 final size:17
Alignment explanation
Indices: 15618--15688 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 17
15608 AGTATATTAT
15618 AATTATTATATTAAATA
1 AATTATTATATTAAATA
15635 AATTATTAGTAGTTAAATTA
1 AATTATTA-TA-TTAAA-TA
* *
15655 ATTGTATTAATTATAAAATA
1 AAT-TATT-A-TATTAAATA
15675 AATTATTAATATTA
1 AATTATT-ATATTA
15689 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:16136 original size:15 final size:16
Alignment explanation
Indices: 16102--16144 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
16092 TTATTACATG
* *
16102 TATTATAAATTATTAT
1 TATTATAAATTAATAA
16118 TATT-TAAATTAATAA
1 TATTATAAATTAATAA
*
16133 TATTATTAATTA
1 TATTATAAATTA
16145 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
Found at i:17058 original size:12 final size:13
Alignment explanation
Indices: 17037--17069 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
17027 AGATATATTT
17037 TTAA-TAAAAAAA
1 TTAATTAAAAAAA
17049 -TAATTAAAAAAA
1 TTAATTAAAAAAA
17061 TTAATTAAA
1 TTAATTAAA
17070 CCTTTTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.16
12 8 0.42
13 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
TTAATTAAAAAAA
Found at i:18197 original size:52 final size:54
Alignment explanation
Indices: 18068--18194 Score: 195
Period size: 52 Copynumber: 2.4 Consensus size: 54
18058 TTTTTGAATA
18068 GGCCCAAATGGTGGAAAATTTAGAAATTCCAAAAAGAGAAAATATTTCTAAATT
1 GGCCCAAATGGTGGAAAATTTAGAAATTCCAAAAAGAGAAAATATTTCTAAATT
* * *
18122 GACCTAAATGGTGGAAAATTTAGAAATT-C-AAAAGAGAAAATATTTCTAATTT
1 GGCCCAAATGGTGGAAAATTTAGAAATTCCAAAAAGAGAAAATATTTCTAAATT
*
18174 GGCCCAAATGGTAGAATAATT
1 GGCCCAAATGGTGGAA-AATT
18195 AGATATATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
52 35 0.53
53 5 0.08
54 26 0.39
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.28
Consensus pattern (54 bp):
GGCCCAAATGGTGGAAAATTTAGAAATTCCAAAAAGAGAAAATATTTCTAAATT
Found at i:18506 original size:9 final size:9
Alignment explanation
Indices: 18492--18516 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
18482 TTCTAGTTTG
18492 TATAATTAC
1 TATAATTAC
18501 TATAATTAC
1 TATAATTAC
18510 TATAATT
1 TATAATT
18517 TTATTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (9 bp):
TATAATTAC
Found at i:19052 original size:25 final size:24
Alignment explanation
Indices: 19024--19098 Score: 57
Period size: 26 Copynumber: 3.1 Consensus size: 24
19014 ACAATTAATA
19024 ATTAAAATATTTTTAATTAATTATT
1 ATTAAAATA-TTTTAATTAATTATT
* *
19049 ATTATTAATAATTTTAAATAA-TATT
1 ATTA-AAAT-ATTTTAATTAATTATT
* * *
19074 A--AAATTATTTAAATTAATTAAT
1 ATTAAAATATTTTAATTAATTATT
19096 ATT
1 ATT
19099 CAACTAATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 11
0.68 0.12 0.20
Matches are distributed among these distances:
21 9 0.24
22 6 0.16
23 1 0.03
25 9 0.24
26 12 0.32
27 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTAAAATATTTTAATTAATTATT
Found at i:19108 original size:25 final size:25
Alignment explanation
Indices: 19062--19109 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
19052 ATTAATAATT
*
19062 TTAAATAATATTAAAATTATTTAAA
1 TTAAATAATATTAAAATAATTTAAA
* * *
19087 TTAATTAATATTCAACTAATTTA
1 TTAAATAATATTAAAATAATTTA
19110 TGAATAATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
TTAAATAATATTAAAATAATTTAAA
Found at i:19116 original size:47 final size:47
Alignment explanation
Indices: 19019--19132 Score: 119
Period size: 47 Copynumber: 2.4 Consensus size: 47
19009 TTTAAACAAT
*
19019 TAATAATTAAAA-TATTTTTAATTAATTATTATTATTAATAATTTTAAA
1 TAATAATTAAAATTA-TTTAAATTAATTA-TATTATTAATAATTTTAAA
*
19067 TAAT-ATTAAAATTATTTAAATTAATTA-A-TATTCAACTAATTTATGAA
1 TAATAATTAAAATTATTTAAATTAATTATATTATT-AA-TAATTT-TAAA
19114 TAATAAATTATAAATTATT
1 TAAT-AATTA-AAATTATT
19133 ACTAATATGA
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
44 4 0.07
45 3 0.05
46 6 0.11
47 26 0.46
48 6 0.11
49 4 0.07
50 8 0.14
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (47 bp):
TAATAATTAAAATTATTTAAATTAATTATATTATTAATAATTTTAAA
Found at i:19193 original size:34 final size:33
Alignment explanation
Indices: 19120--19194 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 33
19110 TGAATAATAA
*
19120 ATTATAAATTATTACTAATATGATTATTAATAT
1 ATTATAAATTATTACTAATATGATTATTAAAAT
*
19153 AGTTATAAATTATATA-TATATAT-ATTGTTATAAAT
1 A-TTATAAATTAT-TACTA-ATATGATTATTA-AAAT
19188 ATTATAA
1 ATTATAA
19195 GCTTTTATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
33 1 0.03
34 25 0.69
35 10 0.28
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (33 bp):
ATTATAAATTATTACTAATATGATTATTAAAAT
Found at i:19534 original size:15 final size:16
Alignment explanation
Indices: 19516--19638 Score: 57
Period size: 15 Copynumber: 7.8 Consensus size: 16
19506 ATTATAATAC
19516 AATTAAATTAA-TATT
1 AATTAAATTAATTATT
*
19531 AATTATATTAATTATT
1 AATTAAATTAATTATT
* *
19547 AATATTTAGTATTCAATACATTT
1 -A-A-TTA-AATT-AAT-TA-TT
*
19570 AATTTAATTAATT-TT
1 AATTAAATTAATTATT
19585 AATTAAATTAATTA-T
1 AATTAAATTAATTATT
*
19600 -ATT-CATT-ATCT-TT
1 AATTAAATTAAT-TATT
*
19613 AATT-AA-TAAATATT
1 AATTAAATTAATTATT
19627 AATTAAATTAAT
1 AATTAAATTAAT
19639 GTAACTATAA
Statistics
Matches: 82, Mismatches: 10, Indels: 31
0.67 0.08 0.25
Matches are distributed among these distances:
12 2 0.02
13 7 0.09
14 14 0.17
15 27 0.33
16 7 0.09
17 1 0.01
18 4 0.05
19 6 0.07
20 6 0.07
21 4 0.05
22 2 0.02
23 2 0.02
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (16 bp):
AATTAAATTAATTATT
Found at i:19595 original size:19 final size:19
Alignment explanation
Indices: 19568--19638 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 19
19558 TTCAATACAT
*
19568 TTAATTTAATTAATTTTAA
1 TTAAATTAATTAATTTTAA
*
19587 TTAAATTAATTATATTCATTATC
1 TTAAATTAATTA-ATT--TTA-A
* * *
19610 TTTAATTAATAAATATTAA
1 TTAAATTAATTAATTTTAA
19629 TTAAATTAAT
1 TTAAATTAAT
19639 GTAACTATAA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
19 20 0.49
20 6 0.15
22 5 0.12
23 10 0.24
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAAATTAATTAATTTTAA
Found at i:19829 original size:21 final size:22
Alignment explanation
Indices: 19788--19846 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 22
19778 TTGAAATTAA
*
19788 TATTAATAATAAATAACTTAT-TT
1 TATTAAT-AT-AATAACTTATAGT
19811 TGATTAATATAATAA-TTATAGT
1 T-ATTAATATAATAACTTATAGT
19833 TATTAATAGTAATA
1 TATTAATA-TAATA
19847 TAATTAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
21 11 0.34
22 12 0.38
23 3 0.09
24 6 0.19
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (22 bp):
TATTAATATAATAACTTATAGT
Found at i:21063 original size:25 final size:25
Alignment explanation
Indices: 21030--21099 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
21020 TATATGAATC
**
21030 TATTCAAATATT-TTATATAATTATAG
1 TATT-AAATATTATTA-ATAAAAATAG
21056 TATTAAATATTATTAATAAAAATAG
1 TATTAAATATTATTAATAAAAATAG
*
21081 TAATAATATATTACTTAAT
1 TATTAA-ATATTA-TTAAT
21100 TAATATAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 20 0.53
26 13 0.34
27 5 0.13
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (25 bp):
TATTAAATATTATTAATAAAAATAG
Found at i:21108 original size:21 final size:20
Alignment explanation
Indices: 21083--21121 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21073 AAAAATAGTA
21083 ATAATATATTACTTAATTAAT
1 ATAATATA-TACTTAATTAAT
*
21104 ATAATATATATTTAATTA
1 ATAATATATACTTAATTA
21122 TAACATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAATATATACTTAATTAAT
Found at i:21488 original size:24 final size:22
Alignment explanation
Indices: 21439--21494 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 22
21429 TAATATATTG
21439 TTATTTATCTAAATATATTATAA
1 TTATTTAT-TAAATATATTATAA
21462 TTATTTATTATATATATAATTAT-A
1 TTATTTATTA-A-ATAT-ATTATAA
21486 TTATTTATT
1 TTATTTATT
21495 TTATTAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 2 0.07
23 9 0.30
24 14 0.47
25 5 0.17
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATTTATTAAATATATTATAA
Found at i:21499 original size:12 final size:12
Alignment explanation
Indices: 21454--21500 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
21444 TATCTAAATA
21454 TATTATAATTATT
1 TATTAT-ATTATT
21467 TATTATA-TATAT
1 TATTATATTAT-T
*
21479 AATTATATTATT
1 TATTATATTATT
*
21491 TATTTTATTA
1 TATTATATTA
21501 ATAATAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
11 3 0.10
12 17 0.59
13 9 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATATTATT
Found at i:21504 original size:24 final size:23
Alignment explanation
Indices: 21450--21510 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
21440 TATTTATCTA
21450 AATATATTATAATTATTTATTATAT
1 AATA-ATTAT-ATTATTTATTATAT
*
21475 ATATAATTATATTATTTATTTTATT
1 A-ATAATTATATTATTTATTATA-T
*
21500 AATAATAATAT
1 AATAATTATAT
21511 ATCGATACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 21 0.66
25 8 0.25
26 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
AATAATTATATTATTTATTATAT
Done.