Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold63
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: 2211945
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 524 characters in sequence are not A, C, G, or T
File 3 of 16
Found at i:432247 original size:3 final size:3
Alignment explanation
Indices: 432235--432278 Score: 79
Period size: 3 Copynumber: 14.3 Consensus size: 3
432225 AAATATGTGG
432235 AGA AGAA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AG-A AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
432279 TACAGCAGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:438578 original size:20 final size:21
Alignment explanation
Indices: 438538--438578 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
438528 GTAAAAGGTA
**
438538 ATTTTTAAAAAATAATTAATT
1 ATTTTTAAAAAATAAAAAATT
438559 ATTTTT-AAAAATAAAAAATT
1 ATTTTTAAAAAATAAAAAATT
438579 TAGTAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTTTTAAAAAATAAAAAATT
Found at i:441636 original size:2 final size:2
Alignment explanation
Indices: 441631--441662 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
441621 ACACACACAC
441631 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
441663 GGATGTGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:444788 original size:19 final size:19
Alignment explanation
Indices: 444764--444807 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
444754 TTTTATATTT
*
444764 ATATTTTGA-TATATAATAA
1 ATATTTTGATTAAAT-ATAA
*
444783 ATATTTTTATTAAATATAA
1 ATATTTTGATTAAATATAA
444802 ATATTT
1 ATATTT
444808 AAAAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
ATATTTTGATTAAATATAA
Found at i:450569 original size:19 final size:19
Alignment explanation
Indices: 450545--450584 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
450535 TGTGAGGAAT
*
450545 AGGTGTGAAGCACTAATGA
1 AGGTGTGAAGCAATAATGA
450564 AGGTGTGAAGCAATAATGA
1 AGGTGTGAAGCAATAATGA
450583 AG
1 AG
450585 AAAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.20
Consensus pattern (19 bp):
AGGTGTGAAGCAATAATGA
Found at i:452413 original size:2 final size:2
Alignment explanation
Indices: 452406--452436 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
452396 AATATACATA
452406 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 A
452437 TATATATATA
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:452897 original size:23 final size:24
Alignment explanation
Indices: 452841--452897 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
452831 ATTTGAAATG
* *
452841 ATAAAAAAAATATTTATTATTATA
1 ATAAAAATAATATTTATTATTAAA
* * *
452865 TTTAATATAATA-TTATTATTAAA
1 ATAAAAATAATATTTATTATTAAA
452888 ATAAAAATAA
1 ATAAAAATAA
452898 AATATTAATT
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATAAAAATAATATTTATTATTAAA
Found at i:453185 original size:32 final size:35
Alignment explanation
Indices: 453117--453185 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 35
453107 ATTTAGGTAA
*
453117 AATTTAAATATTATTTTTTATGGTTTAAATTGAATT
1 AATTTAAATATTATTATTTAT-GTTTAAATTGAATT
*
453153 AATTT-AA-ATTATTATTTAT-TTTAAATTTAATT
1 AATTTAAATATTATTATTTATGTTTAAATTGAATT
453185 A
1 A
453186 TAAAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 13 0.42
34 11 0.35
35 2 0.06
36 5 0.16
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (35 bp):
AATTTAAATATTATTATTTATGTTTAAATTGAATT
Found at i:453710 original size:17 final size:19
Alignment explanation
Indices: 453664--453719 Score: 64
Period size: 18 Copynumber: 3.0 Consensus size: 19
453654 TACCTCCTAA
*
453664 TTTAATTT-AATTATTATAAT
1 TTTAATTTAAATTA--ATATT
453684 TTTAATTTAAA-TAATATT
1 TTTAATTTAAATTAATATT
453702 TTTAA-TTAAATTAATATT
1 TTTAATTTAAATTAATATT
453720 ACTTAACTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 5 0.15
18 16 0.48
20 10 0.30
21 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTAATTTAAATTAATATT
Found at i:456827 original size:28 final size:26
Alignment explanation
Indices: 456796--456913 Score: 98
Period size: 28 Copynumber: 4.3 Consensus size: 26
456786 TATTAGAGAT
456796 TAAAAAATAATTAAAATATATATCATAA
1 TAAAAAATAATTAAAATATA-AT-ATAA
*
456824 TAAAAAATAA-TACTAATATAATATTAA
1 TAAAAAATAATTA-AAATATAATA-TAA
456851 TAAATAAATATATTAAAAT-TAATATAA
1 TAAA-AAATA-ATTAAAATATAATATAA
* * * *
456878 T-ATAAATTATTAAAATATTAAAATTTA
1 TAAAAAATAATTAAAATA-TAATA-TAA
456905 TAAAAAATA
1 TAAAAAATA
456914 TATATTAAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
24 8 0.11
25 4 0.05
26 6 0.08
27 18 0.25
28 31 0.42
29 4 0.05
30 2 0.03
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (26 bp):
TAAAAAATAATTAAAATATAATATAA
Found at i:456874 original size:33 final size:32
Alignment explanation
Indices: 456837--456902 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
456827 AAAATAATAC
*
456837 TAATATAATATTAATAAATAAATATATTAAAAT
1 TAATATAATATAAATAAATAAA-ATATTAAAAT
* *
456870 TAATATAATATAAATTATTAAAATATTAAAAT
1 TAATATAATATAAATAAATAAAATATTAAAAT
456902 T
1 T
456903 TATAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.37
33 19 0.63
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
TAATATAATATAAATAAATAAAATATTAAAAT
Found at i:456894 original size:15 final size:15
Alignment explanation
Indices: 456807--456909 Score: 53
Period size: 17 Copynumber: 6.3 Consensus size: 15
456797 AAAAAATAAT
*
456807 TAAAATATATATCATAA
1 TAAAATATAAAT--TAA
* *
456824 TAAAAAATAATACTAA
1 TAAAATATAA-ATTAA
* * *
456840 TATAATATTAATAAA
1 TAAAATATAAATTAA
456855 TAAATATATTAAAATTAA
1 TAAA-ATA-T-AAATTAA
* *
456873 TATAATATAAATTAT
1 TAAAATATAAATTAA
*
456888 TAAAATATTAAAATTTA
1 TAAAATA-T-AAATTAA
456905 TAAAA
1 TAAAA
456910 AATATATATT
Statistics
Matches: 64, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
15 18 0.28
16 15 0.23
17 22 0.34
18 9 0.14
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAAATATAAATTAA
Found at i:456910 original size:18 final size:18
Alignment explanation
Indices: 456854--456910 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 18
456844 ATATTAATAA
* *
456854 ATAAATATATTAAAATTA
1 ATAAAAATATTAAAATTT
*
456872 AT-ATAATA-T-AAA-TT
1 ATAAAAATATTAAAATTT
*
456886 ATTAAAATATTAAAATTT
1 ATAAAAATATTAAAATTT
456904 ATAAAAA
1 ATAAAAA
456911 ATATATATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 3 0.10
15 8 0.27
16 2 0.07
17 7 0.23
18 10 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAAAAATATTAAAATTT
Found at i:456914 original size:34 final size:33
Alignment explanation
Indices: 456855--456920 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 33
456845 TATTAATAAA
* *
456855 TAAATATATTAAAATTAATATAATATAAATTAT
1 TAAATATATTAAAATTAAAAAAATATAAATTAT
*
456888 TAAA-ATATTAAAATTTATAAAAAATATATATTA
1 TAAATATATTAAAA-TTA-AAAAAATATAAATTA
456921 AATACAACTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 9 0.32
33 7 0.25
34 12 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
TAAATATATTAAAATTAAAAAAATATAAATTAT
Found at i:457694 original size:27 final size:30
Alignment explanation
Indices: 457662--457725 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 30
457652 AATTTATATA
457662 ATATAAAT-TATTAATATCTC-AA-G-AATT
1 ATATAAATATA-TAATATCTCAAACGTAATT
*
457689 ATATAAATATATAATATTTCAAACGTAATT
1 ATATAAATATATAATATCTCAAACGTAATT
457719 ATATAAA
1 ATATAAA
457726 AAAATATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 16 0.50
28 4 0.12
29 1 0.03
30 11 0.34
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (30 bp):
ATATAAATATATAATATCTCAAACGTAATT
Found at i:458710 original size:14 final size:14
Alignment explanation
Indices: 458666--458716 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
458656 TTTAAAAATT
458666 TTATATTTAATATA
1 TTATATTTAATATA
* * *
458680 -TATTTTTTAAAAAA
1 TTA-TATTTAATATA
458694 TTATATTTAATATA
1 TTATATTTAATATA
*
458708 TTATTTTTA
1 TTATATTTA
458717 TTGAATTAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
13 2 0.07
14 24 0.86
15 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATATTTAATATA
Found at i:458712 original size:29 final size:30
Alignment explanation
Indices: 458641--458715 Score: 104
Period size: 28 Copynumber: 2.6 Consensus size: 30
458631 TATTAAATCT
* *
458641 TATTT-ATTTATTA-TTTTTAAAAATTTTA
1 TATTTAATATATTATTTTTTAAAAATATTA
458669 TATTTAATATA-TATTTTTTAAAAA-ATTA
1 TATTTAATATATTATTTTTTAAAAATATTA
458697 TATTTAATATATTATTTTT
1 TATTTAATATATTATTTTT
458716 ATTGAATTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
28 21 0.50
29 21 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (30 bp):
TATTTAATATATTATTTTTTAAAAATATTA
Found at i:458724 original size:28 final size:28
Alignment explanation
Indices: 458654--458715 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 28
458644 TTATTTATTA
*
458654 TTTTTAAAAATTTTATATTTAATATATAT
1 TTTTTAAAAA-ATTATATTTAATATATAT
458683 TTTTTAAAAAATTATATTTAATATATTAT
1 TTTTTAAAAAATTATATTTAATATA-TAT
458712 TTTT
1 TTTT
458716 ATTGAATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 14 0.45
29 17 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTTTAAAAAATTATATTTAATATATAT
Found at i:467464 original size:10 final size:10
Alignment explanation
Indices: 467459--467484 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
467449 ATTTTTTTTT
467459 AATTTTTTGA
1 AATTTTTTGA
467469 AATTTTTTGA
1 AATTTTTTGA
467479 AATTTT
1 AATTTT
467485 GAATACCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (10 bp):
AATTTTTTGA
Found at i:468579 original size:20 final size:20
Alignment explanation
Indices: 468554--468616 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
468544 AGGATTTTCC
468554 AAATACATGGAGAACTTTAG
1 AAATACATGGAGAACTTTAG
468574 AAATACATGGAGAACTTTAG
1 AAATACATGGAGAACTTTAG
* *
468594 AAATACATGGAAAACTTTTG
1 AAATACATGGAGAACTTTAG
468614 AAA
1 AAA
468617 AAAATTGAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.25
Consensus pattern (20 bp):
AAATACATGGAGAACTTTAG
Found at i:470834 original size:16 final size:18
Alignment explanation
Indices: 470813--470850 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
470803 AGATGCTTCG
470813 ATTA-TTTTAAAAT-AAT
1 ATTATTTTTAAAATAAAT
*
470829 ATTATTTTTTAAATAAAT
1 ATTATTTTTAAAATAAAT
470847 ATTA
1 ATTA
470851 AATATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 8 0.42
18 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTATTTTTAAAATAAAT
Found at i:472087 original size:18 final size:18
Alignment explanation
Indices: 472066--472105 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
472056 ATTAAAATAT
*
472066 TTAATATTTATATTTAT-A
1 TTAATATATAT-TTTATAA
472084 TTAATATATATTTTATAA
1 TTAATATATATTTTATAA
472102 TTAA
1 TTAA
472106 ATAATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAATATATATTTTATAA
Found at i:472116 original size:18 final size:17
Alignment explanation
Indices: 472066--472116 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
472056 ATTAAAATAT
*
472066 TTAATATTTATATTTATA
1 TTAATATATA-ATTTATA
*
472084 TTAATATATATTTTATAA
1 TTAATATATAATTTAT-A
472102 TTAA-ATAATAATTTA
1 TTAATAT-ATAATTTA
472117 AAGTGTATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 7 0.25
18 21 0.75
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAATATATAATTTATA
Found at i:472402 original size:11 final size:11
Alignment explanation
Indices: 472388--472476 Score: 62
Period size: 10 Copynumber: 8.3 Consensus size: 11
472378 TATTTTTTTA
472388 TTATATTATAT
1 TTATATTATAT
*
472399 TTATA-TAAAT
1 TTATATTATAT
*
472409 TT-TAATATAT
1 TTATATTATAT
*
472419 TAATAATGTATA-
1 TTAT-AT-TATAT
*
472431 TTAT-TTAAAT
1 TTATATTATAT
*
472441 TT-TAATATAT
1 TTATATTATAT
*
472451 TTATAATTATTT
1 TTAT-ATTATAT
472463 TTATATTATAT
1 TTATATTATAT
472474 TTA
1 TTA
472477 AATTTATCAA
Statistics
Matches: 59, Mismatches: 11, Indels: 16
0.69 0.13 0.19
Matches are distributed among these distances:
9 6 0.10
10 20 0.34
11 16 0.27
12 13 0.22
13 4 0.07
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (11 bp):
TTATATTATAT
Found at i:472436 original size:26 final size:28
Alignment explanation
Indices: 472383--472468 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 28
472373 GGATTTATTT
* * *
472383 TTTTATTATATT-ATATTTATATAA--A
1 TTTTAATATATTAATATATGTATAATTA
472408 TTTTAATATATTAATA-ATGTAT-ATTA
1 TTTTAATATATTAATATATGTATAATTA
* *
472434 -TTTAA-ATTTTAATATATTTATAATTA
1 TTTTAATATATTAATATATGTATAATTA
*
472460 TTTTTATAT
1 TTTTAATAT
472469 TATATTTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
24 9 0.19
25 25 0.52
26 8 0.17
27 4 0.08
28 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (28 bp):
TTTTAATATATTAATATATGTATAATTA
Found at i:472441 original size:32 final size:33
Alignment explanation
Indices: 472394--472468 Score: 109
Period size: 32 Copynumber: 2.3 Consensus size: 33
472384 TTTATTATAT
472394 TATATTTATATAAATTTTAATATATTAATAATG
1 TATATTTATATAAATTTTAATATATTAATAATG
* *
472427 TATA-TTATTTAAATTTTAATATATTTATAAT-
1 TATATTTATATAAATTTTAATATATTAATAATG
*
472458 TATTTTTATAT
1 TATATTTATAT
472469 TATATTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 3 0.08
32 30 0.81
33 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (33 bp):
TATATTTATATAAATTTTAATATATTAATAATG
Found at i:472448 original size:17 final size:16
Alignment explanation
Indices: 472404--472458 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
472394 TATATTTATA
472404 TAAATTTTAATATA-T
1 TAAATTTTAATATATT
* *
472419 TAATAATGT-ATATTATT
1 TAA-ATTTTAATA-TATT
472436 TAAATTTTAATATATT
1 TAAATTTTAATATATT
472452 TATAATT
1 TA-AATT
472459 ATTTTTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 6 0.19
16 14 0.45
17 11 0.35
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
TAAATTTTAATATATT
Found at i:473299 original size:31 final size:31
Alignment explanation
Indices: 473233--473299 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
473223 ATAGTTAACT
**
473233 AAAAAAAACATATAATAAATTTTATTATATT
1 AAAAAAAACATATAATAAATTTTATTATAGA
*
473264 AAAAAAAACATACTCATAAGATTTT-TTA-AGA
1 AAAAAAAACATA-TAATAA-ATTTTATTATAGA
473295 AAAAA
1 AAAAA
473300 GTCGATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 18 0.58
32 8 0.26
33 5 0.16
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (31 bp):
AAAAAAAACATATAATAAATTTTATTATAGA
Found at i:474300 original size:21 final size:21
Alignment explanation
Indices: 474274--474324 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
474264 TCTCTTTACT
*
474274 TATATTATATTTAAATTTTTA
1 TATATTATATTTAAATTTATA
* *
474295 TATATTATAATTATATTTATA
1 TATATTATATTTAAATTTATA
474316 -ATATTATAT
1 TATATTATAT
474325 ATTTATATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATATTATATTTAAATTTATA
Found at i:474306 original size:16 final size:16
Alignment explanation
Indices: 474278--474399 Score: 50
Period size: 16 Copynumber: 7.8 Consensus size: 16
474268 TTTACTTATA
474278 TTATAT-TTA-AATTT
1 TTATATATTATAATTT
474292 TTATATATTATAATTATAT
1 TTATATATTATAA-T-T-T
*
474311 TTATAATATTAT-ATAT
1 TTAT-ATATTATAATTT
474327 TTATATA--A-AA-TT
1 TTATATATTATAATTT
*
474339 TTATATATTAAAAATATTT
1 TTATATATT--ATA-ATTT
*
474358 TTATATATT-TTATATT
1 TTATATATTATAAT-TT
*
474374 TTAT-T-TTAATTATTT
1 TTATATATT-ATAATTT
474389 TT-TATATTATA
1 TTATATATTATA
474400 TAATTATAAC
Statistics
Matches: 84, Mismatches: 5, Indels: 37
0.67 0.04 0.29
Matches are distributed among these distances:
12 8 0.10
13 2 0.02
14 9 0.11
15 16 0.19
16 20 0.24
17 2 0.02
18 3 0.04
19 17 0.20
20 7 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATATATTATAATTT
Found at i:474310 original size:27 final size:26
Alignment explanation
Indices: 474273--474332 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 26
474263 ATCTCTTTAC
*
474273 TTATATTATATTTA-AATTTTTATATA
1 TTATATTATATTTATAA-TATTATATA
474299 TTATAATTATATTTATAATATTATATA
1 TTAT-ATTATATTTATAATATTATATA
474326 TTTATAT
1 -TTATAT
474333 AAAATTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 4 0.13
27 20 0.67
28 6 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TTATATTATATTTATAATATTATATA
Found at i:474339 original size:27 final size:27
Alignment explanation
Indices: 474292--474348 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
474282 ATTTAAATTT
* *
474292 TTATATATTATAATTATA-TTTATAATA
1 TTATATATTATAATAAAATTTTAT-ATA
474319 TTATATATT-TATATAAAATTTTATATA
1 TTATATATTATA-ATAAAATTTTATATA
474346 TTA
1 TTA
474349 AAAATATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 2 0.08
27 19 0.73
28 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TTATATATTATAATAAAATTTTATATA
Found at i:474361 original size:47 final size:46
Alignment explanation
Indices: 474274--474374 Score: 130
Period size: 47 Copynumber: 2.2 Consensus size: 46
474264 TCTCTTTACT
* * * *
474274 TATATTATATTTAAATTTTTATATATTATAATTATATTTATAATATTA
1 TATATT-TATATAAAATTTTATATATTAAAAATATATTTAT-ATATTA
* *
474322 TATATTTATATAAAATTTTATATATTAAAAATATTTTTATATATTT
1 TATATTTATATAAAATTTTATATATTAAAAATATATTTATATATTA
474368 TATATTT
1 TATATTT
474375 TATTTTAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 12 0.26
47 29 0.62
48 6 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (46 bp):
TATATTTATATAAAATTTTATATATTAAAAATATATTTATATATTA
Found at i:474380 original size:12 final size:13
Alignment explanation
Indices: 474358--474398 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
474348 AAAAATATTT
474358 TTATATATTTTATA
1 TTAT-TATTTTATA
474372 TT-TTATTTTA-A
1 TTATTATTTTATA
474383 TTATT-TTTTATA
1 TTATTATTTTATA
474395 TTAT
1 TTAT
474399 ATAATTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 8 0.32
12 14 0.56
13 1 0.04
14 2 0.08
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTATTTTATA
Found at i:474861 original size:18 final size:19
Alignment explanation
Indices: 474838--474876 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
474828 GTATATAATT
474838 TTGAAA-AAAATAAAAATA
1 TTGAAATAAAATAAAAATA
474856 TTGAAATAAAATAAAAATA
1 TTGAAATAAAATAAAAATA
474875 TT
1 TT
474877 TCATCTCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
TTGAAATAAAATAAAAATA
Found at i:475914 original size:22 final size:21
Alignment explanation
Indices: 475872--475930 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
475862 TTTATAAATT
* **
475872 TATTTTATTATTAAA-AAATA
1 TATTTTATAATTAAATTTATA
475892 T-TTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
475912 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
475931 AGTTAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 5 0.15
19 7 0.21
20 5 0.15
21 11 0.33
22 5 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:476216 original size:2 final size:2
Alignment explanation
Indices: 476209--476251 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
476199 ATTTCATTTC
476209 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
476251 A
1 A
476252 ACCATTTCTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:476450 original size:14 final size:14
Alignment explanation
Indices: 476433--476471 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
476423 ACTCTGATTA
476433 ATTTATATAAAT-AT
1 ATTTA-ATAAATAAT
*
476447 ATTTAAAAAATAAT
1 ATTTAATAAATAAT
476461 ATTTAATAAAT
1 ATTTAATAAAT
476472 TTAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTTAATAAATAAT
Found at i:476874 original size:30 final size:31
Alignment explanation
Indices: 476818--476875 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
476808 AATAAACTTT
**
476818 TAATTTTTAATTTGTTTCTAAAATAAATAAA
1 TAATTTTTAATTTGTACCTAAAATAAATAAA
476849 TAATTTTTAATTTGTACCT-AAATAAAT
1 TAATTTTTAATTTGTACCTAAAATAAAT
476876 CTTTAACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (31 bp):
TAATTTTTAATTTGTACCTAAAATAAATAAA
Found at i:477183 original size:22 final size:23
Alignment explanation
Indices: 477149--477191 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
477139 ATCTAATTGC
477149 AGTTAGCATTATATA-TACCTAGG
1 AGTTAGCATTATA-AGTACCTAGG
*
477172 AGTTGGCA-TATAAGTACCTA
1 AGTTAGCATTATAAGTACCTA
477192 TATATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 1 0.06
22 10 0.56
23 7 0.39
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (23 bp):
AGTTAGCATTATAAGTACCTAGG
Found at i:479590 original size:16 final size:16
Alignment explanation
Indices: 479569--479602 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
479559 TGAAGAAATC
479569 ATTAACAAAAGCTTTA
1 ATTAACAAAAGCTTTA
479585 ATTAACAAAAGCTTTA
1 ATTAACAAAAGCTTTA
479601 AT
1 AT
479603 AACTATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (16 bp):
ATTAACAAAAGCTTTA
Found at i:480301 original size:2 final size:2
Alignment explanation
Indices: 480294--480329 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
480284 TTAATATGTA
480294 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
480330 TGTAAATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:482189 original size:23 final size:23
Alignment explanation
Indices: 482162--482206 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
482152 AAATTATATA
*
482162 TATTAAATTTTAAATTTTAAATT
1 TATTAAATGTTAAATTTTAAATT
**
482185 TATTAAATGTTATCTTTTAAAT
1 TATTAAATGTTAAATTTTAAAT
482207 ATAATAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
TATTAAATGTTAAATTTTAAATT
Found at i:482865 original size:27 final size:27
Alignment explanation
Indices: 482827--482879 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
482817 TCCATACATA
*
482827 CAGCCGAAATATAATCTGCTGTCCATG
1 CAGCCAAAATATAATCTGCTGTCCATG
*
482854 CAGCCAAAATATAATCTGCTTTCCAT
1 CAGCCAAAATATAATCTGCTGTCCAT
482880 CTTTCAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.28
Consensus pattern (27 bp):
CAGCCAAAATATAATCTGCTGTCCATG
Found at i:484958 original size:11 final size:10
Alignment explanation
Indices: 484942--484984 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
484932 ATTATTATTT
484942 TTTTAATAAAA
1 TTTTAA-AAAA
484953 TTTTAAAAAA
1 TTTTAAAAAA
* *
484963 TTATTCAAATA
1 TT-TTAAAAAA
484974 TTTTAAAAAA
1 TTTTAAAAAA
484984 T
1 T
484985 CTATATTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 13 0.48
11 14 0.52
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:484976 original size:21 final size:23
Alignment explanation
Indices: 484952--485002 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
484942 TTTTAATAAA
484952 ATTTTAAAAAA-T-TATTCAAAT
1 ATTTTAAAAAACTATATTCAAAT
*
484973 ATTTTAAAAAATCTATATTCTAAT
1 ATTTTAAAAAA-CTATATTCAAAT
484997 ATTTTA
1 ATTTTA
485003 TTGATATTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 11 0.42
23 1 0.04
24 14 0.54
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTTTAAAAAACTATATTCAAAT
Found at i:490103 original size:2 final size:2
Alignment explanation
Indices: 490098--490130 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
490088 AATCTCTCTT
*
490098 TA TA TA TT TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
490131 AAGGAGATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:492121 original size:14 final size:14
Alignment explanation
Indices: 492104--492143 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
492094 ATAAAATAAT
492104 ATTTTATAATTTAA
1 ATTTTATAATTTAA
*
492118 ATTTTATAATATTAT
1 ATTTTATAAT-TTAA
*
492133 ATTTTAAAATT
1 ATTTTATAATT
492144 AATCATTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTTATAATTTAA
Found at i:494452 original size:32 final size:32
Alignment explanation
Indices: 494396--494463 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
494386 TTATGAAATC
* *
494396 AATTTAAACTTAATTCAATTCAAA-TATAAAA
1 AATTTAAACTTAATTAAATCCAAATTATAAAA
*
494427 AATTTAAATTATAATTAAATCCAAATTATAAAA
1 AATTTAAACT-TAATTAAATCCAAATTATAAAA
494460 AATT
1 AATT
494464 CTAGGTGCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 9 0.28
32 12 0.38
33 11 0.34
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (32 bp):
AATTTAAACTTAATTAAATCCAAATTATAAAA
Found at i:494543 original size:3 final size:3
Alignment explanation
Indices: 494537--494564 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
494527 TTATTCATCA
494537 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
494565 TAGTTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:496631 original size:16 final size:15
Alignment explanation
Indices: 496605--496635 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
496595 AAAATAAAAG
496605 TAAAAAATTTAAATA
1 TAAAAAATTTAAATA
496620 TAAAAAATTTTAAATA
1 TAAAAAA-TTTAAATA
496636 ATTTTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAAAAATTTAAATA
Found at i:497559 original size:11 final size:12
Alignment explanation
Indices: 497545--497668 Score: 50
Period size: 11 Copynumber: 10.3 Consensus size: 12
497535 TTTATATTAT
497545 TTTTA-TTATAA
1 TTTTATTTATAA
497556 TTTTATTTATAA
1 TTTTATTTATAA
*
497568 TAATATATTTATACA
1 T--TTTATTTATA-A
**
497583 -TAAATTTTATAA
1 TTTTA-TTTATAA
*
497595 TATTA--T-TAA
1 TTTTATTTATAA
497604 TTTATATTATATAAA
1 TTT-TATT-TAT-AA
*
497619 TTTTATGTATAAA
1 TTTTATTTAT-AA
*
497632 TTTTATATA-AA
1 TTTTATTTATAA
497643 TTTTATTT-TAA
1 TTTTATTTATAA
497654 TTATT-TTTAT-A
1 TT-TTATTTATAA
497665 TTTT
1 TTTT
497669 TTAAATGTTA
Statistics
Matches: 89, Mismatches: 9, Indels: 31
0.69 0.07 0.24
Matches are distributed among these distances:
9 5 0.06
10 5 0.06
11 24 0.27
12 14 0.16
13 22 0.25
14 13 0.15
15 6 0.07
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.60
Consensus pattern (12 bp):
TTTTATTTATAA
Found at i:497570 original size:15 final size:15
Alignment explanation
Indices: 497546--497660 Score: 52
Period size: 15 Copynumber: 7.9 Consensus size: 15
497536 TTATATTATT
*
497546 TTTATTATAATTTTA
1 TTTATAATAATTTTA
*
497561 TTTATAATAA-TATA
1 TTTATAATAATTTTA
497575 TTTATACATAAATTTTA
1 TTTATA-AT-AATTTTA
* *
497592 TAATATTATTAA-TTTA
1 T-TTA-TAATAATTTTA
497608 TATTAT-ATAAATTTTA
1 T-TTATAAT-AATTTTA
*
497624 TGTAT-A-AATTTTA
1 TTTATAATAATTTTA
497637 --TAT-A-AATTTTA
1 TTTATAATAATTTTA
*
497648 TTT-TAATTATTTT
1 TTTATAATAATTTT
497661 TATATTTTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 23
0.71 0.08 0.21
Matches are distributed among these distances:
11 11 0.14
12 1 0.01
13 9 0.11
14 15 0.19
15 18 0.22
16 15 0.19
17 6 0.08
18 3 0.04
19 2 0.03
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (15 bp):
TTTATAATAATTTTA
Found at i:497578 original size:14 final size:13
Alignment explanation
Indices: 497559--497596 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
497549 ATTATAATTT
497559 TATTTATAATAATA
1 TATTTATAATAA-A
497573 TATTTATACATAAA
1 TATTTATA-ATAAA
497587 T-TTTATAATA
1 TATTTATAATA
497597 TTATTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.13
13 6 0.26
14 10 0.43
15 4 0.17
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TATTTATAATAAA
Found at i:497593 original size:13 final size:13
Alignment explanation
Indices: 497561--497648 Score: 65
Period size: 13 Copynumber: 6.4 Consensus size: 13
497551 TATAATTTTA
497561 TTTATA-ATAATAT
1 TTTATATATAA-AT
*
497574 ATTTATACATAAAT
1 -TTTATATATAAAT
497588 TTTATAATATTATTAAT
1 TTTAT-ATA-TA--AAT
497605 TTATATTATATAAAT
1 TT-TA-TATATAAAT
*
497620 TTTATGTATAAA-
1 TTTATATATAAAT
497632 TTT-TATATAAAT
1 TTTATATATAAAT
497644 TTTAT
1 TTTAT
497649 TTTAATTATT
Statistics
Matches: 62, Mismatches: 3, Indels: 19
0.74 0.04 0.23
Matches are distributed among these distances:
11 7 0.11
12 6 0.10
13 13 0.21
14 12 0.19
15 11 0.18
17 7 0.11
18 5 0.08
19 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (13 bp):
TTTATATATAAAT
Found at i:497623 original size:16 final size:17
Alignment explanation
Indices: 497582--497624 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
497572 ATATTTATAC
497582 ATAAATTTTATAATATT
1 ATAAATTTTATAATATT
* *
497599 ATTAA-TTTATATTA-T
1 ATAAATTTTATAATATT
497614 ATAAATTTTAT
1 ATAAATTTTAT
497625 GTATAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 5 0.23
16 13 0.59
17 4 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATAAATTTTATAATATT
Found at i:497633 original size:45 final size:47
Alignment explanation
Indices: 497548--497638 Score: 118
Period size: 45 Copynumber: 2.0 Consensus size: 47
497538 ATATTATTTT
497548 TATTATAATTTTATTTATAATAATATATTTATACATAAATTTTATAA
1 TATTATAATTTTATTTATAATAATATATTTATACATAAATTTTATAA
**
497595 TATTATTAA-TTTATATTAT-ATAA-AT-TTTATGTATAAATTTTATA
1 TATTA-TAATTTTAT-TTATAATAATATATTTATACATAAATTTTATA
497639 TAAATTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
45 17 0.43
46 2 0.05
47 14 0.35
48 7 0.17
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (47 bp):
TATTATAATTTTATTTATAATAATATATTTATACATAAATTTTATAA
Found at i:497664 original size:24 final size:24
Alignment explanation
Indices: 497595--497664 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 24
497585 AATTTTATAA
*
497595 TATTATTAATTTATATTATATAAATTT
1 TATT-TTAA-TTAT-TTTTATAAATTT
*
497622 TATGTATAA--ATTTTATATAAATTT
1 TAT-TTTAATTATTTT-TATAAATTT
497646 TATTTTAATTATTTTTATA
1 TATTTTAATTATTTTTATA
497665 TTTTTTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
23 6 0.17
24 18 0.50
25 5 0.14
27 6 0.17
28 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (24 bp):
TATTTTAATTATTTTTATAAATTT
Found at i:497741 original size:2 final size:2
Alignment explanation
Indices: 497734--497758 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
497724 TGGAACTGTG
497734 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
497759 TGAGGTAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:497984 original size:18 final size:18
Alignment explanation
Indices: 497957--497995 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
497947 AATCATTATC
* *
497957 TTTATTTTATTTTATTTA
1 TTTATATTATTTAATTTA
497975 TTTATATTATTTAATTTA
1 TTTATATTATTTAATTTA
497993 TTT
1 TTT
497996 TTATATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATATTATTTAATTTA
Found at i:498805 original size:2 final size:2
Alignment explanation
Indices: 498798--498824 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
498788 ATCACCATGC
498798 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 A
498825 ATAGTGACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:501454 original size:2 final size:2
Alignment explanation
Indices: 501447--501496 Score: 66
Period size: 2 Copynumber: 25.0 Consensus size: 2
501437 TTAATATGTA
*
501447 CT CT CT CT CT CT CT CT CT CGT CT CT CT -T CC CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT C-T CT CT CT CT CT CT CT CT CT CT CT
*
501489 CT GT CT CT
1 CT CT CT CT
501497 TGTAAATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
1 1 0.02
2 39 0.93
3 2 0.05
ACGTcount: A:0.00, C:0.48, G:0.04, T:0.48
Consensus pattern (2 bp):
CT
Found at i:517966 original size:26 final size:24
Alignment explanation
Indices: 517936--517988 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
517926 TTATTTTTTT
* *
517936 AAAATATAGTATTTTTAAATAAAATA
1 AAAATATA-AATTTTTAAAGAAAA-A
*
517962 AAAATTTAAATTTTTAAAGAAAAA
1 AAAATATAAATTTTTAAAGAAAAA
517986 AAA
1 AAA
517989 TTATTTATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.17
25 13 0.54
26 7 0.29
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (24 bp):
AAAATATAAATTTTTAAAGAAAAA
Found at i:518186 original size:22 final size:21
Alignment explanation
Indices: 518144--518202 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
518134 TTTATAAATT
* **
518144 TATTTTATTATTAAA-AAATA
1 TATTTTATAATTAAATTTATA
518164 T-TTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
518184 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
518203 AGTTAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 5 0.15
19 7 0.21
20 5 0.15
21 11 0.33
22 5 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:518487 original size:2 final size:2
Alignment explanation
Indices: 518480--518517 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
518470 ATTTCATTTC
518480 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- 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
518518 ACCATTTCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:518715 original size:14 final size:14
Alignment explanation
Indices: 518698--518736 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
518688 ACTCTGATTA
518698 ATTTATATAAAT-AT
1 ATTTA-ATAAATAAT
*
518712 ATTTAAAAAATAAT
1 ATTTAATAAATAAT
518726 ATTTAATAAAT
1 ATTTAATAAAT
518737 TTAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTTAATAAATAAT
Found at i:519141 original size:30 final size:31
Alignment explanation
Indices: 519085--519142 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
519075 AATAAACTTT
**
519085 TAATTTTTAATTTGTTTCTAAAATAAATAAA
1 TAATTTTTAATTTGTACCTAAAATAAATAAA
519116 TAATTTTTAATTTGTACCT-AAATAAAT
1 TAATTTTTAATTTGTACCTAAAATAAAT
519143 CTTTAACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (31 bp):
TAATTTTTAATTTGTACCTAAAATAAATAAA
Found at i:519442 original size:23 final size:23
Alignment explanation
Indices: 519416--519459 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
519406 ATCTAATGGC
*
519416 AGTTAGCATTATATA-TACCTAGG
1 AGTTAGCAATATA-AGTACCTAGG
*
519439 AGTTGGCAATATAAGTACCTA
1 AGTTAGCAATATAAGTACCTA
519460 TATAGTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (23 bp):
AGTTAGCAATATAAGTACCTAGG
Found at i:521712 original size:2 final size:2
Alignment explanation
Indices: 521707--521737 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
521697 AGCAAGAAAT
521707 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
521738 TGGAACTAGG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:524096 original size:20 final size:20
Alignment explanation
Indices: 524060--524098 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
524050 TAACAAGAAA
524060 AATAATATTATCAATTGATAT
1 AATAATATTAT-AATTGATAT
524081 AATATATATTAT-ATTGAT
1 AATA-ATATTATAATTGAT
524099 TTGAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 4 0.24
22 7 0.41
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (20 bp):
AATAATATTATAATTGATAT
Found at i:524335 original size:2 final size:2
Alignment explanation
Indices: 524328--524361 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
524318 GTGAGTACTC
524328 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
524362 AATGAAGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:524440 original size:23 final size:23
Alignment explanation
Indices: 524414--524458 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
524404 ATATTATATA
*
524414 TATTAAATTTTAAATTTTAAATT
1 TATTAAATGTTAAATTTTAAATT
**
524437 TATTAAATGTTATCTTTTAAAT
1 TATTAAATGTTAAATTTTAAAT
524459 ATAATAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
TATTAAATGTTAAATTTTAAATT
Found at i:525117 original size:27 final size:27
Alignment explanation
Indices: 525079--525131 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
525069 TCCATACATA
*
525079 CAGCCGAAATATAATCTGCTGTCCATG
1 CAGCCAAAATATAATCTGCTGTCCATG
*
525106 CAGCCAAAATATAATCTGCTTTCCAT
1 CAGCCAAAATATAATCTGCTGTCCAT
525132 CTTTCAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.28
Consensus pattern (27 bp):
CAGCCAAAATATAATCTGCTGTCCATG
Found at i:527201 original size:11 final size:10
Alignment explanation
Indices: 527185--527227 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
527175 ATTATTATTT
527185 TTTTAATAAAA
1 TTTTAA-AAAA
527196 TTTTAAAAAA
1 TTTTAAAAAA
* *
527206 TTATTCAAATA
1 TT-TTAAAAAA
527217 TTTTAAAAAA
1 TTTTAAAAAA
527227 T
1 T
527228 CTATATTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 13 0.48
11 14 0.52
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:527219 original size:21 final size:23
Alignment explanation
Indices: 527195--527245 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
527185 TTTTAATAAA
527195 ATTTTAAAAAA-T-TATTCAAAT
1 ATTTTAAAAAACTATATTCAAAT
*
527216 ATTTTAAAAAATCTATATTCTAAT
1 ATTTTAAAAAA-CTATATTCAAAT
527240 ATTTTA
1 ATTTTA
527246 TTGATATTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 11 0.42
23 1 0.04
24 14 0.54
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTTTAAAAAACTATATTCAAAT
Found at i:527621 original size:16 final size:17
Alignment explanation
Indices: 527588--527639 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
527578 ATAAATATTT
527588 AAAAAAAATAAAAAATC
1 AAAAAAAATAAAAAATC
*
527605 AAAACAAATAAACATCAACTC
1 AAAAAAAATAAA-A--AA-TC
527626 AAAAAAAA-AAAAAA
1 AAAAAAAATAAAAAA
527640 AAAGAGTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 13 0.45
18 1 0.03
19 1 0.03
20 5 0.17
21 9 0.31
ACGTcount: A:0.79, C:0.12, G:0.00, T:0.10
Consensus pattern (17 bp):
AAAAAAAATAAAAAATC
Found at i:531041 original size:3 final size:3
Alignment explanation
Indices: 531028--531063 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
531018 AATTTATTTT
531028 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
531064 ATAAATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:533981 original size:2 final size:2
Alignment explanation
Indices: 533974--534015 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
533964 CAATTAGGGT
*
533974 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
534015 T
1 T
534016 TAAATTAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:534302 original size:15 final size:14
Alignment explanation
Indices: 534266--534307 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
534256 TAATAAAATA
534266 ATATTTTAAAATTT
1 ATATTTTAAAATTT
* *
534280 AAATTTTATAATATT
1 ATATTTTAAAAT-TT
534295 ATATTTTAAAATT
1 ATATTTTAAAATT
534308 AATCATTGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATTTTAAAATTT
Found at i:536605 original size:32 final size:34
Alignment explanation
Indices: 536569--536635 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
536559 ATGAAATCAA
* *
536569 TTTAAACT-TAATTCAATTCAAA-TATAAAAAAT
1 TTTAAACTATAATTAAATCCAAATTATAAAAAAT
*
536601 TTTAAATTATAATTAAATCCAAATTATAAAAAAT
1 TTTAAACTATAATTAAATCCAAATTATAAAAAAT
536635 T
1 T
536636 CTAGATGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 7 0.23
33 12 0.40
34 11 0.37
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (34 bp):
TTTAAACTATAATTAAATCCAAATTATAAAAAAT
Found at i:536715 original size:3 final size:3
Alignment explanation
Indices: 536709--536742 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
536699 TTATTCATCA
536709 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
536743 TAGTTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:538809 original size:14 final size:14
Alignment explanation
Indices: 538784--538821 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
538774 TTTTAAAAAA
538784 TAAAAGTAAAAAATT
1 TAAAA-TAAAAAATT
538799 TAAATATAAAAAATT
1 TAAA-ATAAAAAATT
538814 TAAAATAA
1 TAAAATAA
538822 TTTTTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.18
15 17 0.77
16 1 0.05
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (14 bp):
TAAAATAAAAAATT
Found at i:539758 original size:15 final size:15
Alignment explanation
Indices: 539734--539849 Score: 52
Period size: 15 Copynumber: 7.9 Consensus size: 15
539724 TTATATTATT
*
539734 TTTATTATAATTTTA
1 TTTATAATAATTTTA
*
539749 TTTATAATAA-TATA
1 TTTATAATAATTTTA
539763 TTTATACATAAATTTTA
1 TTTATA-AT-AATTTTA
* *
539780 TAATATTATTAA-TTTA
1 T-TTA-TAATAATTTTA
*
539796 TATTAT-ATAAATTATA
1 T-TTATAAT-AATTTTA
*
539812 TGTAT-A-AATTTTA
1 TTTATAATAATTTTA
539825 --TATAAT-ATTTTA
1 TTTATAATAATTTTA
*
539837 TTT-TAATTATTTT
1 TTTATAATAATTTT
539850 TTATATTTTG
Statistics
Matches: 79, Mismatches: 10, Indels: 25
0.69 0.09 0.22
Matches are distributed among these distances:
11 3 0.04
12 7 0.09
13 10 0.13
14 16 0.20
15 18 0.23
16 14 0.18
17 6 0.08
18 3 0.04
19 2 0.03
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.58
Consensus pattern (15 bp):
TTTATAATAATTTTA
Found at i:539766 original size:14 final size:13
Alignment explanation
Indices: 539747--539784 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
539737 ATTATAATTT
539747 TATTTATAATAATA
1 TATTTATAATAA-A
539761 TATTTATACATAAA
1 TATTTATA-ATAAA
539775 T-TTTATAATA
1 TATTTATAATA
539785 TTATTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.13
13 6 0.26
14 10 0.43
15 4 0.17
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TATTTATAATAAA
Found at i:540188 original size:18 final size:18
Alignment explanation
Indices: 540152--540190 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
540142 AATCATTCTC
* * *
540152 TTTATTTTATTTTATTTA
1 TTTATATTATTTAAATTA
540170 TTTATATTATTTAAATTA
1 TTTATATTATTTAAATTA
540188 TTT
1 TTT
540191 TTATATAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATATTATTTAAATTA
Found at i:541009 original size:2 final size:2
Alignment explanation
Indices: 541002--541032 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
540992 ATCACCATGC
541002 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
541033 ATAGTGACCC
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:541386 original size:18 final size:18
Alignment explanation
Indices: 541358--541401 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
541348 TTCATAATTT
*
541358 TATTT-TAAATTTTAAAA
1 TATTTATAAATTATAAAA
*
541375 TATTTATAAATTATAATA
1 TATTTATAAATTATAAAA
*
541393 TTTTTATAA
1 TATTTATAA
541402 TTAAAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTTATAAATTATAAAA
Found at i:541409 original size:17 final size:16
Alignment explanation
Indices: 541369--541410 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
541359 ATTTTAAATT
541369 TTAAAATATTTATAAA
1 TTAAAATATTTATAAA
* *
541385 TTATAATATTTTTATAA
1 TTAAAATATTTATA-AA
541402 TTAAAATAT
1 TTAAAATAT
541411 AAAAAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAAATATTTATAAA
Found at i:541721 original size:20 final size:20
Alignment explanation
Indices: 541698--541758 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
541688 AAAATAATAA
*
541698 AATAAATTTTTTATTAATTT
1 AATAAATTTTTTATTAATTC
* **
541718 AAT-ATTATTTTTACAAATTC
1 AATAAAT-TTTTTATTAATTC
*
541738 AATAAATTTTTAATTAATTC
1 AATAAATTTTTTATTAATTC
541758 A
1 A
541759 CTCAAAAATC
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
19 2 0.06
20 27 0.87
21 2 0.06
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (20 bp):
AATAAATTTTTTATTAATTC
Found at i:542617 original size:19 final size:18
Alignment explanation
Indices: 542593--542631 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
542583 AGAATACAGC
542593 TTTTAAATTTTATATTATT
1 TTTTAAATTTTATATT-TT
542612 TTTTAAATTTTATATTTT
1 TTTTAAATTTTATATTTT
542630 TT
1 TT
542632 AAATAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTAAATTTTATATTTT
Found at i:542629 original size:16 final size:18
Alignment explanation
Indices: 542593--542635 Score: 63
Period size: 16 Copynumber: 2.4 Consensus size: 18
542583 AGAATACAGC
542593 TTTTAAATTTTATATTATT
1 TTTTAAA-TTTATATTATT
542612 TTTTAAATTT-TA-TATT
1 TTTTAAATTTATATTATT
542628 TTTTAAAT
1 TTTTAAAT
542636 AATATAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.50
17 2 0.08
18 3 0.12
19 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTAAATTTATATTATT
Found at i:542641 original size:16 final size:16
Alignment explanation
Indices: 542608--542641 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
542598 AATTTTATAT
**
542608 TATTTTTTAAATTTTA
1 TATTTTTTAAATAATA
542624 TATTTTTTAAATAATA
1 TATTTTTTAAATAATA
542640 TA
1 TA
542642 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTTTTAAATAATA
Found at i:548286 original size:2 final size:2
Alignment explanation
Indices: 548279--548313 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
548269 GTACTAAGGT
548279 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
548314 TCTTGATATT
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:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:560215 original size:18 final size:18
Alignment explanation
Indices: 560192--560228 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
560182 AAATACAGAT
560192 ACTTCAAGAAAAATGAAG
1 ACTTCAAGAAAAATGAAG
560210 ACTTCAAGAAAAATGAAG
1 ACTTCAAGAAAAATGAAG
560228 A
1 A
560229 GTCAAAAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.16, T:0.16
Consensus pattern (18 bp):
ACTTCAAGAAAAATGAAG
Found at i:560233 original size:17 final size:18
Alignment explanation
Indices: 560195--560233 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
560185 TACAGATACT
*
560195 TCAAGAAAAATGAAGACT
1 TCAAGAAAAATGAAGACG
560213 TCAAGAAAAATGAAGA-G
1 TCAAGAAAAATGAAGACG
560230 TCAA
1 TCAA
560234 AAGGGTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.56, C:0.10, G:0.18, T:0.15
Consensus pattern (18 bp):
TCAAGAAAAATGAAGACG
Found at i:567636 original size:15 final size:17
Alignment explanation
Indices: 567600--567635 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
567590 TTTTTTGGTT
567600 AAATTATTAAATATCAAA
1 AAATTATTAAATAT-AAA
567618 AAATT-TTAAATATAAA
1 AAATTATTAAATATAAA
567634 AA
1 AA
567636 TAATACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 8 0.44
18 5 0.28
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATTATTAAATATAAA
Found at i:567912 original size:19 final size:20
Alignment explanation
Indices: 567888--567943 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 20
567878 TACGAATTAA
567888 ATTTTAATATAAAAAATA-T
1 ATTTTAATATAAAAAATATT
**
567907 ATTTT-ATAATTTAAAATATT
1 ATTTTAAT-ATAAAAAATATT
**
567927 ATTAAAATATAAAAAAT
1 ATTTTAATATAAAAAAT
567944 GAATTATAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
18 2 0.07
19 13 0.46
20 11 0.39
21 2 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATTTTAATATAAAAAATATT
Found at i:575650 original size:2 final size:2
Alignment explanation
Indices: 575643--575670 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
575633 AAAGTAATAA
575643 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
575671 TAATACTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:577322 original size:2 final size:2
Alignment explanation
Indices: 577317--577355 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
577307 GTATACATAC
577317 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
577356 GATAATGATT
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:579021 original size:40 final size:40
Alignment explanation
Indices: 578972--579080 Score: 98
Period size: 42 Copynumber: 2.7 Consensus size: 40
578962 TTTATTTAAA
* *
578972 ATTA-ATTTAAATTAAATTTATATTAATCTATAAATATTT
1 ATTATATTTAAATTAAATTTATAATAATATATAAATATTT
** * *
579011 A-TATTATTTAAAAAAAATAATAATAATAATATATTAATATTT
1 ATTA-TATTTAAATTAAAT--TTATAATAATATATAAATATTT
579053 ATTATATTTTATAATTAAATTTA-AATAA
1 ATTATA-TTTA-AATTAAATTTATAATAA
579081 AAATATTTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
38 2 0.04
39 1 0.02
40 11 0.20
41 5 0.09
42 23 0.43
43 6 0.11
44 6 0.11
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (40 bp):
ATTATATTTAAATTAAATTTATAATAATATATAAATATTT
Found at i:582342 original size:20 final size:20
Alignment explanation
Indices: 582300--582343 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
582290 ATTAAATTCC
*
582300 ATAAAATTAAAAATATAATT
1 ATAAAATTAAAAATATAACT
* * *
582320 ATAAAATTTAATATTTAACT
1 ATAAAATTAAAAATATAACT
582340 ATAA
1 ATAA
582344 TATAAGATGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAAAATTAAAAATATAACT
Found at i:582737 original size:25 final size:24
Alignment explanation
Indices: 582706--582752 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
582696 AATTACGAAA
*
582706 ATAATAAATATTATTATAATTAATT
1 ATAATAAATATT-TAATAATTAATT
582731 ATAATAAATATTTAATAATTAA
1 ATAATAAATATTTAATAATTAA
582753 AAAATTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
ATAATAAATATTTAATAATTAATT
Found at i:582967 original size:26 final size:27
Alignment explanation
Indices: 582932--582986 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
582922 TATATTTAAT
* *
582932 TTTTTAATATATTTTTTTAAAAT-TATA
1 TTTTTAATAT-TTATATTAAAATATATA
582959 TTTTT-ATATTTATATTAAAATATATA
1 TTTTTAATATTTATATTAAAATATATA
582985 TT
1 TT
582987 AATTATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 10 0.40
26 10 0.40
27 5 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TTTTTAATATTTATATTAAAATATATA
Found at i:584277 original size:2 final size:2
Alignment explanation
Indices: 584270--584311 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
584260 TTGTCTGCTT
584270 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
584311 T
1 T
584312 GATTAACTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:586466 original size:2 final size:2
Alignment explanation
Indices: 586459--586490 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
586449 ATTCATCTGT
586459 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
586491 AGACCAGTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:589495 original size:14 final size:14
Alignment explanation
Indices: 589464--589496 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
589454 TTATATCTTT
*
589464 TTATTATTAAAAAA
1 TTATAATTAAAAAA
589478 -TATAATTAAAAAA
1 TTATAATTAAAAAA
589491 TTATAA
1 TTATAA
589497 ATATTAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TTATAATTAAAAAA
Found at i:590325 original size:15 final size:16
Alignment explanation
Indices: 590305--590343 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
590295 TATATAAATA
*
590305 ATTTTTTTC-ATTTAT
1 ATTTTTTACAATTTAT
590320 ATTTTTTACAATTTAT
1 ATTTTTTACAATTTAT
590336 ATTTTTTA
1 ATTTTTTA
590344 ATTCACCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTTTTACAATTTAT
Found at i:590981 original size:15 final size:15
Alignment explanation
Indices: 590961--590989 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
590951 TGGATTAGAC
590961 CTGGGATTGAGTTAT
1 CTGGGATTGAGTTAT
590976 CTGGGATTGAGTTA
1 CTGGGATTGAGTTA
590990 AGAATTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.34, T:0.38
Consensus pattern (15 bp):
CTGGGATTGAGTTAT
Found at i:591022 original size:21 final size:22
Alignment explanation
Indices: 590998--591038 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
590988 TAAGAATTAA
590998 ATTTTAAATATATAT-TTTATT
1 ATTTTAAATATATATATTTATT
* *
591019 ATTTTTAATTTATATATTTA
1 ATTTTAAATATATATATTTA
591039 AATTATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTTTAAATATATATATTTATT
Found at i:592648 original size:2 final size:2
Alignment explanation
Indices: 592641--592676 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
592631 TAGTATATTC
592641 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
592677 CGATTAATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:592904 original size:22 final size:24
Alignment explanation
Indices: 592879--592930 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
592869 AAAATATTTT
592879 ATATTTAAAT-TT-A-ATTATAAAA
1 ATATTTAAATATTAATATTA-AAAA
*
592901 ATATATAAATATTAATATTAAAAA
1 ATATTTAAATATTAATATTAAAAA
592925 ATATTT
1 ATATTT
592931 TTAATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 9 0.36
23 2 0.08
24 10 0.40
25 4 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
ATATTTAAATATTAATATTAAAAA
Found at i:596210 original size:13 final size:13
Alignment explanation
Indices: 596192--596216 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
596182 AATTCAAAAT
596192 TTAATTTAATTAA
1 TTAATTTAATTAA
596205 TTAATTTAATTA
1 TTAATTTAATTA
596217 TTATTAAAAA
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):
TTAATTTAATTAA
Found at i:596893 original size:2 final size:2
Alignment explanation
Indices: 596886--596915 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
596876 AATTCTTGAG
596886 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
596916 TGATGGATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:597865 original size:2 final size:2
Alignment explanation
Indices: 597858--597900 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
597848 TTAACAAAAT
* *
597858 TA TA TA TA TA TA TA TA TA TA AA TA TA TA -A TA TA -A GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
597898 TA T
1 TA T
597901 CAACTGCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (2 bp):
TA
Found at i:599349 original size:12 final size:12
Alignment explanation
Indices: 599319--599353 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
599309 TTAATTCATG
599319 ATATAAAA-ATA
1 ATATAAAATATA
599330 AT-TAAAATATA
1 ATATAAAATATA
599341 ATATAAAATATA
1 ATATAAAATATA
599353 A
1 A
599354 AATGAGCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.23
11 7 0.32
12 10 0.45
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
ATATAAAATATA
Found at i:600942 original size:79 final size:79
Alignment explanation
Indices: 600851--601005 Score: 238
Period size: 79 Copynumber: 2.0 Consensus size: 79
600841 ACAATTATTA
* *
600851 TCACCTCTCTCGATTGTCAAAAGTTGATGAAGAATAATCAACAATTACGATCATATCTCTCGATT
1 TCACCTCTCTCGATTGTCAAAAGTTGATGAAAAATAATCAACAATTACGATCACATCTCTCGATT
600916 GTCAAAGGTTAGTG
66 GTCAAAGGTTAGTG
* * * * * *
600930 TCACTTCTCTCGATTGTTAAAAGTTGGTGAAAAATAGTTAACAATTACGATCACCTCTCTCGATT
1 TCACCTCTCTCGATTGTCAAAAGTTGATGAAAAATAATCAACAATTACGATCACATCTCTCGATT
600995 GTCAAAGGTTA
66 GTCAAAGGTTA
601006 ATGAAGAATA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 68 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (79 bp):
TCACCTCTCTCGATTGTCAAAAGTTGATGAAAAATAATCAACAATTACGATCACATCTCTCGATT
GTCAAAGGTTAGTG
Found at i:607443 original size:16 final size:16
Alignment explanation
Indices: 607418--607454 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
607408 AGATATAATT
*
607418 TATAAAAAAATTTTAAA
1 TATAAAAAAA-TATAAA
607435 TATAAAAAAATATAAA
1 TATAAAAAAATATAAA
607451 TATA
1 TATA
607455 TTTATATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TATAAAAAAATATAAA
Found at i:607480 original size:19 final size:20
Alignment explanation
Indices: 607451--607489 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
607441 AAAATATAAA
607451 TATATTTATATTAAATATAT
1 TATATTTATATTAAATATAT
*
607471 TATA-TTATATTATATATAT
1 TATATTTATATTAAATATAT
607490 ATGAGATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATATTTATATTAAATATAT
Found at i:607827 original size:16 final size:16
Alignment explanation
Indices: 607801--607883 Score: 62
Period size: 16 Copynumber: 4.9 Consensus size: 16
607791 TTTATATATT
607801 ATAATTATATTTA-AA
1 ATAATTATATTTATAA
607816 ATAATATATATTTATAA
1 ATAAT-TATATTTATAA
* * *
607833 AT-ATTTTAATATATTA
1 ATAATTAT-ATTTATAA
607849 ATAATTTATATTATATAAA
1 ATAA-TTATATT-TAT-AA
*
607868 ATTTATTATATTTATA
1 A-TAATTATATTTATA
607884 TGTACATATT
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
15 7 0.13
16 18 0.34
17 8 0.15
18 9 0.17
19 9 0.17
20 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATAATTATATTTATAA
Found at i:607857 original size:27 final size:28
Alignment explanation
Indices: 607793--607858 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
607783 TTTATATGTT
*
607793 TATATA-TTATAATTATATTTAAAATAA
1 TATATATTTATAAATATATTTAAAATAA
* *
607820 TATATATTTATAAATAT-TTTAATATAT
1 TATATATTTATAAATATATTTAAAATAA
607847 TA-ATAATTTATA
1 TATAT-ATTTATA
607859 TTATATAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 2 0.06
27 23 0.68
28 9 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TATATATTTATAAATATATTTAAAATAA
Done.