Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1193
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: 82000
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Found at i:2628 original size:24 final size:24
Alignment explanation
Indices: 2585--2641 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
2575 AGGAAGGAAA
2585 TAAAA-AA-ATTTTAATTTAATAATT
1 TAAAATAATATTTTAA-TTAAT-ATT
2609 TAAAATAATATTTTAA-TAATATT
1 TAAAATAATATTTTAATTAATATT
*
2632 TTAAATAATA
1 TAAAATAATA
2642 AAATAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 12 0.40
24 9 0.30
25 2 0.07
26 7 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TAAAATAATATTTTAATTAATATT
Found at i:2638 original size:12 final size:12
Alignment explanation
Indices: 2601--2641 Score: 57
Period size: 11 Copynumber: 3.4 Consensus size: 12
2591 AATTTTAATT
*
2601 TAATAATTTAAAA
1 TAAT-ATTTTAAA
2614 TAATATTTT-AA
1 TAATATTTTAAA
2625 TAATATTTTAAA
1 TAATATTTTAAA
2637 TAATA
1 TAATA
2642 AAATAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 11 0.42
12 11 0.42
13 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TAATATTTTAAA
Found at i:2642 original size:26 final size:27
Alignment explanation
Indices: 2582--2645 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
2572 TTAAGGAAGG
*
2582 AAATAAAAAAATTTTAATTTAATAATTT
1 AAATAATAAAATTTTAA-TTAATAATTT
* *
2610 -AA-AATAATATTTTAA-TAATATTTT
1 AAATAATAAAATTTTAATTAATAATTT
2634 AAATAATAAAAT
1 AAATAATAAAAT
2646 AAATTTTTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
24 8 0.27
25 2 0.07
26 18 0.60
27 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
AAATAATAAAATTTTAATTAATAATTT
Found at i:3302 original size:17 final size:18
Alignment explanation
Indices: 3264--3309 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
3254 TGAAATAGAT
*
3264 ATAAATAAAAAAACTTTTA
1 ATAAAT-AAAAAACTTTGA
3283 ATAAATAAAAAA-TTTGA
1 ATAAATAAAAAACTTTGA
3300 ATAATATAAA
1 ATAA-ATAAA
3310 TGCTCTTGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 8 0.32
18 11 0.44
19 6 0.24
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
ATAAATAAAAAACTTTGA
Found at i:3400 original size:2 final size:2
Alignment explanation
Indices: 3383--3455 Score: 128
Period size: 2 Copynumber: 36.5 Consensus size: 2
3373 AACTTAACAA
* *
3383 AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3425 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3456 CACGCACACC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3616 original size:14 final size:14
Alignment explanation
Indices: 3597--3627 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3587 ACACTTTCTG
*
3597 AATAATAAATTAAA
1 AATAATAAATGAAA
3611 AATAATAAATGAAA
1 AATAATAAATGAAA
3625 AAT
1 AAT
3628 TAATTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (14 bp):
AATAATAAATGAAA
Found at i:4296 original size:17 final size:17
Alignment explanation
Indices: 4270--4305 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4260 TGCTAAATTC
*
4270 ATCCACTTATACCAAAG
1 ATCCAATTATACCAAAG
*
4287 ATCCAATTATACCTAAG
1 ATCCAATTATACCAAAG
4304 AT
1 AT
4306 GTGACGTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.28
Consensus pattern (17 bp):
ATCCAATTATACCAAAG
Found at i:11536 original size:2 final size:2
Alignment explanation
Indices: 11529--11563 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11519 ATTTGGAAGA
11529 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
11564 AGAACATTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:13167 original size:19 final size:19
Alignment explanation
Indices: 13139--13183 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
13129 AAATTAAAAA
* *
13139 TTAAATTAA-TAAAATATTT
1 TTAAAATAATTAAAA-ATAT
13158 TTAAAATAATTAAAAATAT
1 TTAAAATAATTAAAAATAT
13177 TTAAAAT
1 TTAAAAT
13184 TATTTATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAAAATAATTAAAAATAT
Found at i:14043 original size:26 final size:26
Alignment explanation
Indices: 14014--14068 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
14004 TTTGTAAATA
*
14014 ATTTTAGATATACATATTAAA-ATTTT
1 ATTTTA-AAATACATATTAAATATTTT
*
14040 ATTTTAAAATATATATTAAATATTTT
1 ATTTTAAAATACATATTAAATATTTT
14066 ATT
1 ATT
14069 CAATAACATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (26 bp):
ATTTTAAAATACATATTAAATATTTT
Found at i:15366 original size:6 final size:6
Alignment explanation
Indices: 15355--15382 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
15345 TAACCAGCAG
15355 ATATAA ATATAA ATATAA ATATAA ATAT
1 ATATAA ATATAA ATATAA ATATAA ATAT
15383 CAACCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAA
Found at i:16263 original size:2 final size:2
Alignment explanation
Indices: 16256--16286 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16246 ACACCAAGCC
16256 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16287 GCTACATTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16515 original size:21 final size:21
Alignment explanation
Indices: 16480--16531 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
16470 TAATTAAGCT
* *
16480 ATTTTATATAATTATTTTTAAA
1 ATTTTA-AAAATTATATTTAAA
*
16502 ATTTTAAAAATTATATTTAAT
1 ATTTTAAAAATTATATTTAAA
16523 ATATTTAAA
1 AT-TTTAAA
16532 TTTTAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTTAAAAATTATATTTAAA
Found at i:16515 original size:29 final size:28
Alignment explanation
Indices: 16483--16538 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 28
16473 TTAAGCTATT
*
16483 TTATA-TAATTATTTTTAAAATTTTAAAAA
1 TTATATTAA-TATATTT-AAATTTTAAAAA
16512 TTATATTTAATATATTTAAATTTTAAA
1 TTATA-TTAATATATTTAAATTTTAAA
16539 TTTTAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 15 0.62
30 6 0.25
31 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TTATATTAATATATTTAAATTTTAAAAA
Found at i:18300 original size:16 final size:16
Alignment explanation
Indices: 18228--18300 Score: 55
Period size: 16 Copynumber: 4.7 Consensus size: 16
18218 AAAAAATTAA
18228 ATTTAATTAATTT-ATAT
1 ATTTAATT--TTTAATAT
18245 ATTT-ATTTTTAA-A-
1 ATTTAATTTTTAATAT
** *
18258 AAATAATATTTAATAT
1 ATTTAATTTTTAATAT
*
18274 ATTTAACTTTTAATAT
1 ATTTAATTTTTAATAT
*
18290 TTTTAATTTTT
1 ATTTAATTTTT
18301 TAAAAAAGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
13 2 0.05
14 11 0.26
15 2 0.05
16 24 0.56
17 4 0.09
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTAATTTTTAATAT
Found at i:19031 original size:2 final size:2
Alignment explanation
Indices: 19024--19049 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19014 CACTTGAACA
19024 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
19050 GCATTCCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20439 original size:20 final size:22
Alignment explanation
Indices: 20414--20455 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
20404 TATAAAATAT
*
20414 AATTAAGTA-AAT-ATATTAAA
1 AATTAAATATAATCATATTAAA
20434 AATTAAATATAATCATATTAAA
1 AATTAAATATAATCATATTAAA
20456 TACATATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
AATTAAATATAATCATATTAAA
Found at i:21593 original size:44 final size:43
Alignment explanation
Indices: 21545--21631 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 43
21535 TATCATTTAA
*
21545 TAAT-AAAATAATTTTATTTAA-ATTTAATTATATTATATAAATAT
1 TAATAAAAATAATTTT-TTTAATATTT--TAATATTATATAAATAT
*
21589 TAATAAAAAATAATTTTTTTAATATTTTAATATTATTTAAATA
1 TAAT-AAAAATAATTTTTTTAATATTTTAATATTATATAAATA
21632 ATAAAAAGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 18 0.47
45 5 0.13
46 15 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (43 bp):
TAATAAAAATAATTTTTTTAATATTTTAATATTATATAAATAT
Found at i:22120 original size:2 final size:2
Alignment explanation
Indices: 22113--22157 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
22103 AGGAAGTAAA
22113 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
22155 AG A
1 AG A
22158 TCGGAATGGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23369 original size:23 final size:22
Alignment explanation
Indices: 23332--23397 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 22
23322 ATACAACTTT
23332 TAAAAAAAATAAAAATA-AGATA
1 TAAAAAAAATAAAAATATA-ATA
*
23354 TAAAAAATAATTAAAATATAATA
1 TAAAAAA-AATAAAAATATAATA
*
23377 TAATAAAAATATATAAATATA
1 TAA-AAAAA-ATAAAAATATA
23398 TTAAAATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 7 0.19
23 16 0.43
24 14 0.38
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (22 bp):
TAAAAAAAATAAAAATATAATA
Found at i:23382 original size:33 final size:33
Alignment explanation
Indices: 23351--23461 Score: 99
Period size: 34 Copynumber: 3.4 Consensus size: 33
23341 TAAAAATAAG
23351 ATATAAAAA-ATAATTAAAATATAATATAATAAAA
1 ATATAAAAATAT-ATTAAAAT-TAATATAATAAAA
* *
23385 ATATATAAATATATTAAAATTTATATAATATAAA
1 ATATAAAAATATATTAAAATTAATATAATA-AAA
* * *
23419 ATATTAATAT-TATT-AAATATAAT-T-AT-AAT
1 ATATAAAAATATATTAAAAT-TAATATAATAAAA
23448 ATATAAAAATATAT
1 ATATAAAAATATAT
23462 AAATATGATA
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
29 10 0.16
30 3 0.05
31 2 0.03
32 5 0.08
33 16 0.25
34 26 0.41
35 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (33 bp):
ATATAAAAATATATTAAAATTAATATAATAAAA
Found at i:23385 original size:16 final size:16
Alignment explanation
Indices: 23360--23448 Score: 65
Period size: 16 Copynumber: 5.4 Consensus size: 16
23350 GATATAAAAA
*
23360 ATAATTAAAATATAAT
1 ATAATAAAAATATAAT
*
23376 ATAATAAAAATATATAA
1 ATAATAAAAATATA-AT
* *
23393 ATATATTAAAAT-TTAT
1 ATA-ATAAAAATATAAT
23409 ATAATATAAAATATTAAT
1 ATAATA-AAAATA-TAAT
* *
23427 ATTAT-TAAATATAATT
1 ATAATAAAAATATAA-T
23443 ATAATA
1 ATAATA
23449 TATAAAAATA
Statistics
Matches: 56, Mismatches: 10, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
15 5 0.09
16 32 0.57
17 5 0.09
18 14 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAATAAAAATATAAT
Found at i:23401 original size:34 final size:34
Alignment explanation
Indices: 23358--23480 Score: 121
Period size: 33 Copynumber: 3.5 Consensus size: 34
23348 AAGATATAAA
23358 AAATA-ATTAAAATATAATATAATAAAAATATAT
1 AAATATATTAAAATATAATATAATAAAAATATAT
*
23391 AAATATATTAAAAT-TTATATAATATAAAATAT-T
1 AAATATATTAAAATATAATATAATA-AAAATATAT
*
23424 -AATATTATTAAATATAATTATAATATATAAAAATATAT
1 AAATA-TATTAAA-AT-ATAAT-ATA-ATAAAAATATAT
23462 AAATATGA-TATAAATATAA
1 AAATAT-ATTA-AAATATAA
23481 AGATTATCGT
Statistics
Matches: 76, Mismatches: 2, Indels: 20
0.78 0.02 0.20
Matches are distributed among these distances:
32 4 0.05
33 22 0.29
34 17 0.22
36 4 0.05
37 13 0.17
38 9 0.12
39 7 0.09
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (34 bp):
AAATATATTAAAATATAATATAATAAAAATATAT
Found at i:23457 original size:21 final size:20
Alignment explanation
Indices: 23433--23480 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
23423 TAATATTATT
23433 AAATATAATTATAATAT-ATAA
1 AAATATAA-TA-AATATGATAA
*
23454 AAATAT-ATAAATATGATAT
1 AAATATAATAAATATGATAA
23473 AAATATAA
1 AAATATAA
23481 AGATTATCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.21
19 11 0.46
20 2 0.08
21 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AAATATAATAAATATGATAA
Found at i:23474 original size:11 final size:10
Alignment explanation
Indices: 23369--23479 Score: 74
Period size: 10 Copynumber: 11.1 Consensus size: 10
23359 AATAATTAAA
23369 ATAT-AATAT
1 ATATAAATAT
*
23378 A-ATAAAAAT
1 ATATAAATAT
23387 ATATAAATAT
1 ATATAAATAT
*
23397 AT-TAAAATTT
1 ATAT-AAATAT
*
23407 ATATAATATAAA
1 ATATAA-AT-AT
*
23419 ATATTAATAT
1 ATATAAATAT
23429 -TATTAAATAT
1 ATA-TAAATAT
23439 A-ATTATAATAT
1 ATA-TA-AATAT
23450 ATA-AAA-AT
1 ATATAAATAT
23458 ATATAAATAT
1 ATATAAATAT
23468 GATATAAATAT
1 -ATATAAATAT
23479 A
1 A
23480 AAGATTATCG
Statistics
Matches: 81, Mismatches: 8, Indels: 25
0.71 0.07 0.22
Matches are distributed among these distances:
8 7 0.09
9 14 0.17
10 33 0.41
11 21 0.26
12 6 0.07
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (10 bp):
ATATAAATAT
Found at i:24634 original size:21 final size:19
Alignment explanation
Indices: 24576--24642 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 19
24566 ATTTTTGATA
24576 TAAATAAAATATTAATAATTTT
1 TAAATAAAA-ATTAAT--TTTT
*
24598 TAAATAAAAATAAATTTTT
1 TAAATAAAAATTAATTTTT
24617 TAAAATAATAAATTAA-TTTT
1 T-AAATAA-AAATTAATTTTT
24637 TAAATA
1 TAAATA
24643 TTATTTTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
19 10 0.24
20 11 0.27
21 11 0.27
22 9 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAATAAAAATTAATTTTT
Found at i:24698 original size:32 final size:31
Alignment explanation
Indices: 24656--24726 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
24646 TTTTAAATAA
* * **
24656 AATAATATTTTTTAAAATTTTATATTTATTTT
1 AATAAAATTTTTTAAAA-TATATATAAATTTT
24688 AATAAAA-TTTTTAAAATATATATAAATTTT
1 AATAAAATTTTTTAAAATATATATAAATTTT
*
24718 AATTAAATT
1 AATAAAATT
24727 AATATTAGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
30 17 0.52
31 10 0.30
32 6 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
AATAAAATTTTTTAAAATATATATAAATTTT
Found at i:24705 original size:51 final size:47
Alignment explanation
Indices: 24587--24717 Score: 127
Period size: 51 Copynumber: 2.6 Consensus size: 47
24577 AAATAAAATA
24587 TTAATAATTTTTAAATAAAAATAAATTTTTTAAAATAATAAATTAATTT
1 TTAA-AATTTTTAAAT-AAAATAAATTTTTTAAAATAATAAATTAATTT
** * *
24636 TTAAATATTATTTTAAATAAAATAATATTTTTTAAAATTTTATATTTATTT
1 TTAAA-A-T-TTTTAAATAAAATAA-ATTTTTTAAAATAATAAATTAATTT
*
24687 TAATAAAATTTTTAAAATATATATAAATTTT
1 T--TAAAATTTTT-AAATA-AAATAAATTTT
24718 AATTAAATTA
Statistics
Matches: 69, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
48 1 0.01
49 5 0.07
50 12 0.17
51 41 0.59
52 6 0.09
53 4 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (47 bp):
TTAAAATTTTTAAATAAAATAAATTTTTTAAAATAATAAATTAATTT
Found at i:24717 original size:30 final size:31
Alignment explanation
Indices: 24664--24726 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
24654 AAAATAATAT
* **
24664 TTTTTAAAATTTTATATTTATTTTAATAAAA
1 TTTTTAAAATTATATATAAATTTTAATAAAA
*
24695 TTTTTAAAA-TATATATAAATTTTAATTAAA
1 TTTTTAAAATTATATATAAATTTTAATAAAA
24725 TT
1 TT
24727 AATATTAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 19 0.68
31 9 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (31 bp):
TTTTTAAAATTATATATAAATTTTAATAAAA
Found at i:26428 original size:2 final size:2
Alignment explanation
Indices: 26423--26461 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
26413 AGTGTGTGCG
26423 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26462 GTGCAAGGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:28770 original size:28 final size:30
Alignment explanation
Indices: 28739--28800 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
28729 AAATAATGAA
*
28739 AATATA-TAATA-TTTATATTTTTAAAATT
1 AATATATTAATATTTTATATTTATAAAATT
*
28767 AATATATTATTATTTTATATTTATAAAATT
1 AATATATTAATATTTTATATTTATAAAATT
28797 AATA
1 AATA
28801 AAAAACATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 6 0.20
29 4 0.13
30 20 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
AATATATTAATATTTTATATTTATAAAATT
Found at i:29054 original size:18 final size:18
Alignment explanation
Indices: 29007--29067 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
28997 TTTATTTAAA
*
29007 TTTAATTATAAATATATAT
1 TTTAATTAAAAATA-ATAT
*
29026 ATTAATATAAAAATAATAT
1 TTTAAT-TAAAAATAATAT
*
29045 TTTAATTAAAAATAATAA
1 TTTAATTAAAAATAATAT
29063 TTTAA
1 TTTAA
29068 AATGATGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 16 0.43
19 14 0.38
20 7 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTAATTAAAAATAATAT
Found at i:29065 original size:19 final size:19
Alignment explanation
Indices: 29007--29065 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
28997 TTTATTTAAA
*
29007 TTTAATTATAAAT-ATATAT
1 TTTAATTAAAAATAATA-AT
*
29026 ATTAATATAAAAATAAT-AT
1 TTTAAT-TAAAAATAATAAT
29045 TTTAATTAAAAATAATAAT
1 TTTAATTAAAAATAATAAT
29064 TT
1 TT
29066 AAAATGATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 10 0.29
19 16 0.47
20 6 0.18
21 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTAATTAAAAATAATAAT
Found at i:32194 original size:20 final size:18
Alignment explanation
Indices: 32172--32248 Score: 79
Period size: 20 Copynumber: 4.3 Consensus size: 18
32162 TTTTTAAAAA
32172 ATTTAAATATAAATTAAAT
1 ATTTAAATATAAA-TAAAT
*
32191 AATTTTAATATCAAATAAAT
1 -ATTTAAATAT-AAATAAAT
32211 A-TTAAATAT-AATAAAT
1 ATTTAAATATAAATAAAT
* *
32227 ATTT-AATAAAAATATAT
1 ATTTAAATATAAATAAAT
32244 ATTTA
1 ATTTA
32249 GTTAAATGGT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
16 12 0.24
17 12 0.24
18 7 0.14
19 1 0.02
20 14 0.29
21 3 0.06
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTAAATATAAATAAAT
Found at i:32206 original size:21 final size:20
Alignment explanation
Indices: 32165--32232 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
32155 TATTTAGTTT
*
32165 TTAAAAAATTTAAATATAAA
1 TTAAATAATTTAAATATAAA
*
32185 TTAAATAATTTTAATATCAAA
1 TTAAATAATTTAAATAT-AAA
32206 -TAAAT-A-TTAAATAT-AA
1 TTAAATAATTTAAATATAAA
32222 -TAAAT-ATTTAA
1 TTAAATAATTTAA
32233 TAAAAATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
16 8 0.19
17 4 0.09
18 7 0.16
19 1 0.02
20 20 0.47
21 3 0.07
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAAATAATTTAAATATAAA
Found at i:32240 original size:17 final size:16
Alignment explanation
Indices: 32180--32248 Score: 57
Period size: 16 Copynumber: 4.0 Consensus size: 16
32170 AAATTTAAAT
*
32180 ATAAATTAAATAATTTTA
1 ATAAAATAAAT-A-TTTA
*
32198 ATATCAAATAAATATTAA
1 ATA--AAATAAATATTTA
*
32216 ATATAATAAATATTTA
1 ATAAAATAAATATTTA
*
32232 ATAAAAATATATATTTA
1 AT-AAAATAAATATTTA
32249 GTTAAATGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
16 13 0.31
17 12 0.29
18 9 0.21
19 1 0.02
20 7 0.17
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAAAATAAATATTTA
Found at i:32783 original size:3 final size:3
Alignment explanation
Indices: 32775--32811 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
32765 ATATTTTTAA
*
32775 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
32812 AAACAGGTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:34038 original size:10 final size:10
Alignment explanation
Indices: 34023--34056 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
34013 TCTTTCAGAG
34023 TTATATTTTT
1 TTATATTTTT
34033 TTATATCTTTT
1 TTATAT-TTTT
34044 TT-TATTTTT
1 TTATATTTTT
34053 TTAT
1 TTAT
34057 CAATGGCTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 6 0.27
10 10 0.45
11 6 0.27
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (10 bp):
TTATATTTTT
Found at i:35323 original size:24 final size:24
Alignment explanation
Indices: 35296--35375 Score: 81
Period size: 24 Copynumber: 3.2 Consensus size: 24
35286 CCATATTTCA
35296 AAATATAATATAAAAATATAATAT
1 AAATATAATATAAAAATATAATAT
* **
35320 AAATATTATATATTTAATA-AATAT
1 AAATATAATATA-AAAATATAATAT
* *
35344 AAAAATAATATAATAAATATAAAAT
1 AAATATAATATAA-AAATATAATAT
35369 AACATAT
1 AA-ATAT
35376 TTAATACACA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
24 30 0.70
25 10 0.23
26 3 0.07
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (24 bp):
AAATATAATATAAAAATATAATAT
Found at i:35325 original size:11 final size:11
Alignment explanation
Indices: 35296--35370 Score: 59
Period size: 13 Copynumber: 6.7 Consensus size: 11
35286 CCATATTTCA
35296 AAATATAATAT
1 AAATATAATAT
35307 AAAAATATAATAT
1 --AAATATAATAT
35320 AAATATTATATATT
1 AAATA-TA-ATA-T
*
35334 TAATA-AATAT
1 AAATATAATAT
*
35344 AAAAATAATAT
1 AAATATAATAT
35355 -AATA-AATAT
1 AAATATAATAT
35364 AAA-ATAA
1 AAATATAA
35371 CATATTTAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
9 6 0.12
10 11 0.21
11 13 0.25
12 3 0.06
13 14 0.27
14 5 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATATAATAT
Found at i:35357 original size:20 final size:19
Alignment explanation
Indices: 35297--35367 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
35287 CATATTTCAA
35297 AATATAATATAAAAATATA-
1 AATA-AATATAAAAATATAT
* * *
35316 ATATAAATAT-TATATATTT
1 A-ATAAATATAAAAATATAT
35335 AATAAATATAAAAATAATAT
1 AATAAATATAAAAAT-ATAT
35355 AATAAATATAAAA
1 AATAAATATAAAA
35368 TAACATATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
18 13 0.31
19 10 0.24
20 19 0.45
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AATAAATATAAAAATATAT
Found at i:35380 original size:43 final size:42
Alignment explanation
Indices: 35287--35381 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 42
35277 TAATGAATGC
* * *
35287 CATATTTCA-AAATATAATATAAAAATATAATATAAATATTA
1 CATATTTAATAAATATAAAATAAAAATATAATATAAATATAA
*
35328 TATATTTAATAAATATAAAAATAATATAATA-AATATAAA-ATAA
1 CATATTTAATAAATAT-AAAATAA-A-AATATAATATAAATATAA
35371 CATATTTAATA
1 CATATTTAATA
35382 CACATACTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
41 7 0.16
42 6 0.13
43 19 0.42
44 9 0.20
45 4 0.09
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (42 bp):
CATATTTAATAAATATAAAATAAAAATATAATATAAATATAA
Found at i:41247 original size:16 final size:18
Alignment explanation
Indices: 41213--41249 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
41203 ATTTTAAGGC
41213 TTTCTATAGACATAAAAA
1 TTTCTATAGACATAAAAA
*
41231 TTTCT-TAG-CATATAAA
1 TTTCTATAGACATAAAAA
41247 TTT
1 TTT
41250 AACATCAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 3 0.17
18 5 0.28
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (18 bp):
TTTCTATAGACATAAAAA
Found at i:43934 original size:19 final size:19
Alignment explanation
Indices: 43910--43950 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
43900 AAACAACCCA
*
43910 AATTTGATCTTGTAATAAT
1 AATTTGATCCTGTAATAAT
43929 AATTTGATCCTGTAATAAT
1 AATTTGATCCTGTAATAAT
43948 AAT
1 AAT
43951 CAGATCAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (19 bp):
AATTTGATCCTGTAATAAT
Found at i:43956 original size:19 final size:19
Alignment explanation
Indices: 43915--43956 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
43905 ACCCAAATTT
* **
43915 GATCTTGTAATAATAATTT
1 GATCCTGTAATAATAATCA
43934 GATCCTGTAATAATAATCA
1 GATCCTGTAATAATAATCA
43953 GATC
1 GATC
43957 AAGTGATAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (19 bp):
GATCCTGTAATAATAATCA
Found at i:51767 original size:25 final size:25
Alignment explanation
Indices: 51739--51788 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
51729 CTACCTCCAG
51739 TTAAGAAACTCAGCTCAAATTCTAA
1 TTAAGAAACTCAGCTCAAATTCTAA
*
51764 TTAAGAAACTCAGCTCAAGTTCTAA
1 TTAAGAAACTCAGCTCAAATTCTAA
51789 ATGTAAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (25 bp):
TTAAGAAACTCAGCTCAAATTCTAA
Found at i:56284 original size:40 final size:39
Alignment explanation
Indices: 56208--56285 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
56198 TTATATTATA
*
56208 ATTATTTTTAAATAAAATATTTATATTTAAATTTTATTT
1 ATTATTTTTAAATAAAATATTTATATTTAAAATTTATTT
*
56247 ATTATTTTT-TATCAAAAT-TTTAATATTTAAAAATTTATT
1 ATTATTTTTAAAT-AAAATATTT-ATATTT-AAAATTTATT
56286 AAATTTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
38 5 0.15
39 20 0.59
40 9 0.26
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (39 bp):
ATTATTTTTAAATAAAATATTTATATTTAAAATTTATTT
Found at i:56600 original size:19 final size:18
Alignment explanation
Indices: 56565--56609 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
56555 TTCATTTGTT
*
56565 ATTTTA-ATTTAAGAAAA
1 ATTTTATATTTAAAAAAA
56582 ATTTTATATATTAAAAAAA
1 ATTTTATAT-TTAAAAAAA
56601 A-TTTATATT
1 ATTTTATATT
56610 AATATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 7 0.28
18 9 0.36
19 9 0.36
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATTTTATATTTAAAAAAA
Found at i:57033 original size:13 final size:13
Alignment explanation
Indices: 57015--57045 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
57005 TGTGAACATG
57015 AATATTTTACTAT
1 AATATTTTACTAT
*
57028 AATATTTTATTAT
1 AATATTTTACTAT
57041 AATAT
1 AATAT
57046 AAAAAAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (13 bp):
AATATTTTACTAT
Found at i:59772 original size:41 final size:42
Alignment explanation
Indices: 59725--59804 Score: 128
Period size: 41 Copynumber: 1.9 Consensus size: 42
59715 ATATGAATAG
*
59725 AATATAAAAAATTAATTA-AAATATGATATAAA-ATATAACAT
1 AATATAAAAAAATAA-TACAAATATGATATAAATATATAACAT
59766 AATATAAAAAAATAATACAAATATGATATAAATATATAA
1 AATATAAAAAAATAATACAAATATGATATAAATATATAA
59805 ATATTTTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
40 2 0.06
41 28 0.78
42 6 0.17
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (42 bp):
AATATAAAAAAATAATACAAATATGATATAAATATATAACAT
Found at i:59788 original size:19 final size:19
Alignment explanation
Indices: 59725--59789 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 19
59715 ATATGAATAG
*
59725 AATATAAAAAATTAATTA-A
1 AATATAAAAAAATAA-TACA
*
59744 AATATGATATAAAAT-ATAACA
1 AATAT-A-AAAAAATAAT-ACA
59765 TAATATAAAAAAATAATACA
1 -AATATAAAAAAATAATACA
59785 AATAT
1 AATAT
59790 GATATAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
19 11 0.30
20 12 0.32
21 9 0.24
22 5 0.14
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (19 bp):
AATATAAAAAAATAATACA
Found at i:59806 original size:19 final size:19
Alignment explanation
Indices: 59743--59808 Score: 55
Period size: 19 Copynumber: 3.3 Consensus size: 19
59733 AAATTAATTA
59743 AAATATGATATAAA-ATAT
1 AAATATGATATAAATATAT
* *
59761 AACATAAT-ATAAAAAAATAATAC
1 AA-AT-ATGAT--ATAAAT-ATAT
59784 AAATATGATATAAATATAT
1 AAATATGATATAAATATAT
59803 AAATAT
1 AAATAT
59809 TTTAAAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
18 2 0.05
19 13 0.35
20 7 0.19
21 6 0.16
22 4 0.11
23 5 0.14
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (19 bp):
AAATATGATATAAATATAT
Found at i:61067 original size:14 final size:16
Alignment explanation
Indices: 61015--61067 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 16
61005 ATCTATAAAC
*
61015 ACTTTTATG-ATACTAT
1 ACTTTTAAGAATA-TAT
61031 A-TTTTAAGAATATAT
1 ACTTTTAAGAATATAT
*
61046 ATTTTTAA-AATAT-T
1 ACTTTTAAGAATATAT
61060 ACTTTTAA
1 ACTTTTAA
61068 TTTTTTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 8 0.24
15 15 0.45
16 10 0.30
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.51
Consensus pattern (16 bp):
ACTTTTAAGAATATAT
Found at i:62874 original size:29 final size:29
Alignment explanation
Indices: 62825--62881 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
62815 TATTATCAAT
*
62825 AATAAAATCACATTATGAAAATT-AATTA
1 AATAAAATCACATCATGAAAATTGAATTA
62853 AATAAAATTCACATCACT-AAAATTGAATT
1 AATAAAA-TCACATCA-TGAAAATTGAATT
62882 TAAAGAGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 7 0.28
29 13 0.52
30 5 0.20
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.32
Consensus pattern (29 bp):
AATAAAATCACATCATGAAAATTGAATTA
Found at i:64223 original size:3 final size:3
Alignment explanation
Indices: 64215--64244 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
64205 TATGTACTTC
64215 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
64245 CTCAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:64795 original size:148 final size:148
Alignment explanation
Indices: 64527--64819 Score: 507
Period size: 148 Copynumber: 2.0 Consensus size: 148
64517 AAACATAACA
64527 TCAAATTAAGTATAGATAATTACATGTGAAAACATTATCAGCATCCTCATTGTACTCATTCAAAA
1 TCAAATTAAGTATAGATAATTACATGTGAAAACATTATCAGCATCCTCATTGTACTCATTCAAAA
*
64592 ATAATATCAATTAATGATGTGTTGACGATTCGTGAACGCATGAAGAAAGTATTAATATTCTCCAA
66 ATAATATCAATTAATGATGTGTTGACGATTCATGAACGCATGAAGAAAGTATTAATATTCTCCAA
*
64657 TCAATTAATATAACTGTG
131 TCAATTAACATAACTGTG
* * *
64675 TCAAATTAAGTATAGATAATTACATGTGAAAAGATTATTAGCATCCTTATTGTACTCATTCAAAA
1 TCAAATTAAGTATAGATAATTACATGTGAAAACATTATCAGCATCCTCATTGTACTCATTCAAAA
* *
64740 ATAATATCAATTAATGATGTGTT-ACCGATTCATGAACGCGTGAAGAAAGTATTAATATTCTTCA
66 ATAATATCAATTAATGATGTGTTGA-CGATTCATGAACGCATGAAGAAAGTATTAATATTCTCCA
64804 ATCAATTAACATAACT
130 ATCAATTAACATAACT
64820 CTGACTTTGA
Statistics
Matches: 137, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
147 1 0.01
148 136 0.99
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (148 bp):
TCAAATTAAGTATAGATAATTACATGTGAAAACATTATCAGCATCCTCATTGTACTCATTCAAAA
ATAATATCAATTAATGATGTGTTGACGATTCATGAACGCATGAAGAAAGTATTAATATTCTCCAA
TCAATTAACATAACTGTG
Found at i:70308 original size:17 final size:17
Alignment explanation
Indices: 70286--70324 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
70276 TTATAATTTT
70286 TTATTTATAAATAAAAA
1 TTATTTATAAATAAAAA
* *
70303 TTATTTATAAATTAAAT
1 TTATTTATAAATAAAAA
70320 TTATT
1 TTATT
70325 AAACTTAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATTTATAAATAAAAA
Found at i:70390 original size:16 final size:17
Alignment explanation
Indices: 70366--70407 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
70356 TATTTTAATT
*
70366 ATAATAAATAT-AAATA
1 ATAAAAAATATAAAATA
*
70382 ATAAAAAAT-TAAAATT
1 ATAAAAAATATAAAATA
70398 ATAAAAAATA
1 ATAAAAAATA
70408 ATTACAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 1 0.05
16 21 0.95
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAAAATATAAAATA
Found at i:71265 original size:13 final size:13
Alignment explanation
Indices: 71247--71271 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71237 TAAAAATATT
71247 ATATATAATTTTA
1 ATATATAATTTTA
71260 ATATATAATTTT
1 ATATATAATTTT
71272 TGTGTGTGTA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATATAATTTTA
Found at i:72507 original size:27 final size:27
Alignment explanation
Indices: 72457--72508 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
72447 TAATCTTGTA
* *
72457 ATTTTTCCACTTGGTCAGCAAACTTCT
1 ATTTTACCACTTGGTCAACAAACTTCT
72484 ATTTTACCACTTGGT-AACATAACTT
1 ATTTTACCACTTGGTCAACA-AACTT
72509 TAGATGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
ATTTTACCACTTGGTCAACAAACTTCT
Found at i:77787 original size:2 final size:2
Alignment explanation
Indices: 77780--77821 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
77770 CAAGGTTCCA
77780 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
77822 TAGAAAAGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:81179 original size:16 final size:17
Alignment explanation
Indices: 81145--81180 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
81135 TATTTTTAAC
81145 AATGATATCAACTTTTG
1 AATGATATCAACTTTTG
81162 AATGATATCAAC-TTTG
1 AATGATATCAACTTTTG
81178 AAT
1 AAT
81181 AGGGCCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (17 bp):
AATGATATCAACTTTTG
Done.