Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold74
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: 4633657
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 25 characters in sequence are not A, C, G, or T
File 21 of 24
Found at i:3977565 original size:16 final size:16
Alignment explanation
Indices: 3977528--3977581 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
3977518 ATATCACTTA
*
3977528 ATTAAATA--TATAAT
1 ATTAAATATTTATTAT
3977542 ATTAAATATTTATTAT
1 ATTAAATATTTATTAT
*
3977558 ATTTAATATTTATTTAT
1 ATTAAATATTTA-TTAT
3977575 AATTAAA
1 -ATTAAA
3977582 ATTAAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 8 0.24
16 16 0.48
17 4 0.12
18 5 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTAAATATTTATTAT
Found at i:3977580 original size:17 final size:16
Alignment explanation
Indices: 3977546--3977580 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
3977536 TATAATATTA
*
3977546 AATATTTATTATATTT
1 AATATTTATTATAATT
3977562 AATATTTATTTATAATT
1 AATATTTA-TTATAATT
3977579 AA
1 AA
3977581 AATTAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AATATTTATTATAATT
Found at i:3979592 original size:8 final size:8
Alignment explanation
Indices: 3979557--3979594 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
3979547 TCATGTTAAC
3979557 AAAAGAAA
1 AAAAGAAA
3979565 AAAA-AAA
1 AAAAGAAA
*
3979572 AAAAAAAA
1 AAAAGAAA
3979580 AAAAGAAA
1 AAAAGAAA
*
3979588 GAAAGAA
1 AAAAGAA
3979595 GCCCCGGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:3989591 original size:20 final size:20
Alignment explanation
Indices: 3989556--3989598 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
3989546 TTACATGGAT
3989556 AAAGGTAGATTTTTTAAATAA
1 AAAGGTAGATTTTTT-AATAA
*
3989577 AAAGTTAGA-TTTTTAATAA
1 AAAGGTAGATTTTTTAATAA
3989596 AAA
1 AAA
3989599 AAAAGTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 5 0.24
21 8 0.38
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (20 bp):
AAAGGTAGATTTTTTAATAA
Found at i:3989599 original size:20 final size:21
Alignment explanation
Indices: 3989556--3989622 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
3989546 TTACATGGAT
3989556 AAAGGTAGATTTTTTAAATAA
1 AAAGGTAGATTTTTTAAATAA
*
3989577 AAAGTTAGATTTTTAATAAA-AA
1 AAAGGTAGATTTTT--TAAATAA
* *
3989599 AAAAGT-GTTTTTTTAAAATAA
1 AAAGGTAGATTTTTT-AAATAA
3989620 AAA
1 AAA
3989623 ATGTGAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 1 0.03
20 3 0.08
21 24 0.63
22 6 0.16
23 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.37
Consensus pattern (21 bp):
AAAGGTAGATTTTTTAAATAA
Found at i:3989615 original size:19 final size:22
Alignment explanation
Indices: 3989556--3989622 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 22
3989546 TTACATGGAT
* *
3989556 AAAGGTAGA-TTTTTTAAATAA
1 AAAGTTAGATTTTTTTAAAAAA
*
3989577 AAAGTTAGATTTTTAATAAAAAA
1 AAAGTTAGATTTTT-TTAAAAAA
3989600 AAAG-T-G-TTTTTTTAAAATAA
1 AAAGTTAGATTTTTTTAAAA-AA
3989620 AAA
1 AAA
3989623 ATGTGAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 5 0.13
20 10 0.26
21 9 0.23
22 5 0.13
23 10 0.26
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.37
Consensus pattern (22 bp):
AAAGTTAGATTTTTTTAAAAAA
Found at i:4001911 original size:15 final size:15
Alignment explanation
Indices: 4001891--4001921 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4001881 ATGTTCAATA
4001891 AAATAATAAAAAAAT
1 AAATAATAAAAAAAT
*
4001906 AAATAATAAATAAAT
1 AAATAATAAAAAAAT
4001921 A
1 A
4001922 GATCACATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATAATAAAAAAAT
Found at i:4003237 original size:2 final size:2
Alignment explanation
Indices: 4003232--4003270 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
4003222 CACACACACG
*
4003232 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4003271 ATGGGAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:4003561 original size:15 final size:16
Alignment explanation
Indices: 4003530--4003564 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
4003520 TAAATATTAA
4003530 ATTAAATTTTAAATTT
1 ATTAAATTTTAAATTT
4003546 ATTAAATTTT-AATTT
1 ATTAAATTTTAAATTT
4003561 ATTA
1 ATTA
4003565 TATGAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTAAATTTTAAATTT
Found at i:4007056 original size:13 final size:13
Alignment explanation
Indices: 4007019--4007056 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
4007009 GTCATAATTA
4007019 TTAAAA-ATTAAT
1 TTAAAATATTAAT
*
4007031 TTAAAATAATAAT
1 TTAAAATATTAAT
*
4007044 TTAAAATTTTAAT
1 TTAAAATATTAAT
4007057 AAATATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TTAAAATATTAAT
Found at i:4007329 original size:17 final size:19
Alignment explanation
Indices: 4007307--4007344 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
4007297 AATATATTCC
4007307 TTTTT-AATT-AAATAATA
1 TTTTTAAATTAAAATAATA
4007324 TTTTTAAATTAAAATAATA
1 TTTTTAAATTAAAATAATA
4007343 TT
1 TT
4007345 ATTTTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTTAAATTAAAATAATA
Found at i:4007357 original size:29 final size:31
Alignment explanation
Indices: 4007324--4007383 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
4007314 TTAAATAATA
4007324 TTTTTAA-ATTAAA-ATA-ATATTATTTTATT
1 TTTTTAATATTAAATATATA-ATTATTTTATT
*
4007353 TTTTTAATATTAAATATATAATTTTTTTATT
1 TTTTTAATATTAAATATATAATTATTTTATT
4007384 AATCATCTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 7 0.26
30 6 0.22
31 13 0.48
32 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTTTAATATTAAATATATAATTATTTTATT
Found at i:4012963 original size:2 final size:2
Alignment explanation
Indices: 4012956--4012994 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4012946 TCAATATTTA
4012956 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
4012995 ATGAAGTCAT
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:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:4015716 original size:24 final size:26
Alignment explanation
Indices: 4015676--4015731 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 26
4015666 TTTTAATACG
*
4015676 TTAATAATTTATATTATATAA-AT-T
1 TTAATAATATATATTATATAATATAT
4015700 TTAA-AATATATATTTATATAATATAT
1 TTAATAATATATA-TTATATAATATAT
4015726 TTAATA
1 TTAATA
4015732 TTTTATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 7 0.26
24 12 0.44
25 2 0.07
26 5 0.19
27 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TTAATAATATATATTATATAATATAT
Found at i:4015724 original size:15 final size:15
Alignment explanation
Indices: 4015682--4015725 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
4015672 TACGTTAATA
* *
4015682 ATTTATATTATATAA
1 ATTTATATAATATAT
*
4015697 ATTT-TAAAATATAT
1 ATTTATATAATATAT
4015711 ATTTATATAATATAT
1 ATTTATATAATATAT
4015726 TTAATATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTATATAATATAT
Found at i:4017860 original size:14 final size:15
Alignment explanation
Indices: 4017811--4017870 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
4017801 ATTTATAATA
4017811 ATAAATATAATATTAT
1 ATAAA-ATAATATTAT
* *
4017827 AATAAAATAATAATAA
1 -ATAAAATAATATTAT
*
4017843 ATAAAGT-ATATTAT
1 ATAAAATAATATTAT
4017857 AT-AAATAATTATTA
1 ATAAAATAA-TATTA
4017871 GCTTAGTTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
13 3 0.09
14 8 0.23
15 11 0.31
16 8 0.23
17 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAAATAATATTAT
Found at i:4017862 original size:28 final size:28
Alignment explanation
Indices: 4017805--4017865 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
4017795 AATTTTATTT
*
4017805 ATAATAATAAATATAATATTATAATAAA
1 ATAATAATAAATAAAATATTATAATAAA
4017833 ATAATAATAAATAAAGTATATTAT-AT-AA
1 ATAATAATAAATAAA--ATATTATAATAAA
4017861 ATAAT
1 ATAAT
4017866 TATTAGCTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 21 0.70
29 2 0.07
30 7 0.23
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (28 bp):
ATAATAATAAATAAAATATTATAATAAA
Found at i:4017995 original size:2 final size:2
Alignment explanation
Indices: 4017988--4018015 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4017978 TCCTATAAAT
4017988 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
4018016 CACATATACA
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4018607 original size:1 final size:1
Alignment explanation
Indices: 4018601--4018625 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
4018591 TATGGCCCTC
4018601 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
4018626 CTGTCTTTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4021493 original size:31 final size:31
Alignment explanation
Indices: 4021458--4021519 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
4021448 GAGTTTCCAG
4021458 GCAGAATAACAAATTTCAAAAAATGAAAACA
1 GCAGAATAACAAATTTCAAAAAATGAAAACA
* *
4021489 GCAGAATATCAATTTTCAAAAAATGAAAACA
1 GCAGAATAACAAATTTCAAAAAATGAAAACA
4021520 AGAAGCTGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.58, C:0.13, G:0.10, T:0.19
Consensus pattern (31 bp):
GCAGAATAACAAATTTCAAAAAATGAAAACA
Found at i:4028850 original size:21 final size:20
Alignment explanation
Indices: 4028784--4028851 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
4028774 ATAAATTTAT
*
4028784 TTTATTATTTTAAAATATAAAA
1 TTTATTATTTTATAAT-T-AAA
* *
4028806 ATTATTATTATTATTA-TAATA
1 TTTATTATT-TTATAATTAA-A
4028827 TTTATATATTTTATAATTAAA
1 TTTAT-TATTTTATAATTAAA
4028848 TTTA
1 TTTA
4028852 AATACTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
20 2 0.05
21 16 0.43
22 15 0.41
23 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTATTATTTTATAATTAAA
Found at i:4028925 original size:23 final size:21
Alignment explanation
Indices: 4028887--4028941 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 21
4028877 ATTCATCTTA
* * *
4028887 AATTTAATTTATTTTAATATT
1 AATTAAATTTAATTTAATATG
4028908 ATATCTAAATTTAATTTAATATG
1 A-AT-TAAATTTAATTTAATATG
4028931 AATTAAATTTA
1 AATTAAATTTA
4028942 TTAAATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 9 0.31
22 4 0.14
23 16 0.55
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
AATTAAATTTAATTTAATATG
Found at i:4029512 original size:22 final size:21
Alignment explanation
Indices: 4029479--4029555 Score: 75
Period size: 22 Copynumber: 3.6 Consensus size: 21
4029469 ATATTAAAAA
4029479 TAAAA-AATTAAATTAAATTT
1 TAAAATAATTAAATTAAATTT
**
4029499 TAAAATTAATTAAATTAAATGA
1 TAAAA-TAATTAAATTAAATTT
* *
4029521 TAAAATATTTAAATTTAATTT
1 TAAAATAATTAAATTAAATTT
* *
4029542 ATTATATAATTAAA
1 -TAAAATAATTAAA
4029556 ATTATTTAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
20 5 0.11
21 12 0.27
22 28 0.62
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (21 bp):
TAAAATAATTAAATTAAATTT
Found at i:4029553 original size:38 final size:37
Alignment explanation
Indices: 4029511--4029595 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 37
4029501 AAATTAATTA
4029511 AATTAAATGATAAAATATTTAAATTTAATTTA-TTATAT
1 AATTAAATGATAAAA-ATTTAAATTTAATTTATTTA-AT
* **
4029549 AATTAAAATTATTTAAATTTAAATTTAATTTATTTAAT
1 AATT-AAATGATAAAAATTTAAATTTAATTTATTTAAT
4029587 AATTTAAAT
1 AA-TTAAAT
4029596 TAAAATTCAG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
38 28 0.68
39 13 0.32
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (37 bp):
AATTAAATGATAAAAATTTAAATTTAATTTATTTAAT
Found at i:4029590 original size:17 final size:17
Alignment explanation
Indices: 4029532--4029593 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
4029522 AAAATATTTA
4029532 AATTTAATTTA-TTATAT
1 AATTTAATTTATTTA-AT
* *
4029549 AATTAAAATTATTTAAATTT
1 AATTTAATTTATTT-AA--T
4029569 AAATTTAATTTATTTAAT
1 -AATTTAATTTATTTAAT
4029587 AATTTAA
1 AATTTAA
4029594 ATTAAAATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
17 16 0.44
18 4 0.11
19 1 0.03
20 3 0.08
21 12 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTAATTTATTTAAT
Found at i:4030462 original size:18 final size:18
Alignment explanation
Indices: 4030419--4030455 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4030409 GTAATTTACA
4030419 TTCCTTTTATCAGTTGTT
1 TTCCTTTTATCAGTTGTT
4030437 TTCCTTTTATCAGTTGTT
1 TTCCTTTTATCAGTTGTT
4030455 T
1 T
4030456 ATCTTTTTTT
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:0.11, C:0.16, G:0.11, T:0.62
Consensus pattern (18 bp):
TTCCTTTTATCAGTTGTT
Found at i:4041271 original size:14 final size:14
Alignment explanation
Indices: 4041249--4041278 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4041239 TATATCTTTC
*
4041249 AACACTTTTTATTA
1 AACAATTTTTATTA
4041263 AACAATTTTTATTA
1 AACAATTTTTATTA
4041277 AA
1 AA
4041279 TAACATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (14 bp):
AACAATTTTTATTA
Found at i:4041666 original size:2 final size:2
Alignment explanation
Indices: 4041659--4041690 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4041649 TCCGATTCTT
*
4041659 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4041691 GTAGAGAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4043610 original size:16 final size:17
Alignment explanation
Indices: 4043577--4043611 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4043567 TTTTAAATAA
4043577 TAATATATGAAGTTAAT
1 TAATATATGAAGTTAAT
*
4043594 TAAT-TATGAGGTTAAT
1 TAATATATGAAGTTAAT
4043610 TA
1 TA
4043612 TGAGATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (17 bp):
TAATATATGAAGTTAAT
Found at i:4044471 original size:18 final size:18
Alignment explanation
Indices: 4044430--4044473 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
4044420 TCAAAAGTTC
*
4044430 AATTAATTTTATATTTTT
1 AATTAAATTTATATTTTT
*
4044448 ACTTAAATTTAT-TTTTT
1 AATTAAATTTATATTTTT
4044465 AAATTAAAT
1 -AATTAAAT
4044474 ATTTTATCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTAAATTTATATTTTT
Found at i:4045826 original size:2 final size:2
Alignment explanation
Indices: 4045819--4045852 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
4045809 CCGTCTTAGT
4045819 TA TA TA TA TA TA TA TA TA TA TA TA T- TCA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
4045853 ATTATAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 28 0.93
3 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4053887 original size:2 final size:2
Alignment explanation
Indices: 4053880--4053917 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4053870 TTTTTCATAA
4053880 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
4053918 GTAGTTCATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4059694 original size:3 final size:3
Alignment explanation
Indices: 4059686--4059733 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
4059676 TAATATAAGC
*
4059686 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4059734 CATTTATATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:4062286 original size:21 final size:21
Alignment explanation
Indices: 4062246--4062286 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4062236 AAAAAAGATA
*
4062246 GTAAAATTTATTATTATAATC
1 GTAAAATTTATAATTATAATC
4062267 GTAAAATTATATAATT-TAAT
1 GTAAAATT-TATAATTATAAT
4062287 TAAAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (21 bp):
GTAAAATTTATAATTATAATC
Found at i:4068475 original size:12 final size:12
Alignment explanation
Indices: 4068460--4068493 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4068450 TCCTATGTCA
4068460 AATCCTTTTCTG
1 AATCCTTTTCTG
*
4068472 AATCCATTTCTG
1 AATCCTTTTCTG
*
4068484 TATCCTTTTC
1 AATCCTTTTC
4068494 CTTTTGCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.18, C:0.26, G:0.06, T:0.50
Consensus pattern (12 bp):
AATCCTTTTCTG
Found at i:4068976 original size:2 final size:2
Alignment explanation
Indices: 4068969--4068993 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4068959 TGATTGAATC
4068969 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 T
4068994 TTCATTCGTC
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4070092 original size:24 final size:24
Alignment explanation
Indices: 4070060--4070108 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
4070050 TGCTTATGGT
*
4070060 AGGATATTTTGGGATTTGACATGA
1 AGGATATTTTGGGATATGACATGA
4070084 AGGATATTTTGGGATATGACATGA
1 AGGATATTTTGGGATATGACATGA
4070108 A
1 A
4070109 ACACATTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.35
Consensus pattern (24 bp):
AGGATATTTTGGGATATGACATGA
Found at i:4071945 original size:2 final size:2
Alignment explanation
Indices: 4071938--4071971 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4071928 TTTAATTTAT
4071938 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
4071972 CACATGGTAT
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:4072874 original size:15 final size:15
Alignment explanation
Indices: 4072847--4072932 Score: 73
Period size: 15 Copynumber: 5.7 Consensus size: 15
4072837 AGGGACCTCA
4072847 TCATCCTCATCTTCT
1 TCATCCTCATCTTCT
* * *
4072862 TCGTCCTCCTCTTTT
1 TCATCCTCATCTTCT
*
4072877 TCATCCTCATCGTCT
1 TCATCCTCATCTTCT
* * *
4072892 TCATCCCCATCATCA
1 TCATCCTCATCTTCT
* * *
4072907 TCATCATCATCATCA
1 TCATCCTCATCTTCT
*
4072922 TCATCATCATC
1 TCATCCTCATC
4072933 ATCCTCCTCG
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 59 1.00
ACGTcount: A:0.19, C:0.40, G:0.02, T:0.40
Consensus pattern (15 bp):
TCATCCTCATCTTCT
Found at i:4072907 original size:3 final size:3
Alignment explanation
Indices: 4072899--4072935 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
4072889 TCTTCATCCC
4072899 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
4072936 CTCCTCGTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:4075029 original size:2 final size:2
Alignment explanation
Indices: 4075024--4075072 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
4075014 AAAAGAATGA
*
4075024 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG CG 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
4075066 AG AG AG A
1 AG AG AG A
4075073 CACCTGAGCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.02, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4076328 original size:9 final size:9
Alignment explanation
Indices: 4076316--4076348 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
4076306 TTTAAGAATT
4076316 TTTTTTTGA
1 TTTTTTTGA
4076325 TTTTTTTGA
1 TTTTTTTGA
*
4076334 -TTTTTTAA
1 TTTTTTTGA
4076342 TTTTTTT
1 TTTTTTT
4076349 TAATTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (9 bp):
TTTTTTTGA
Found at i:4076355 original size:17 final size:17
Alignment explanation
Indices: 4076318--4076357 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
4076308 TAAGAATTTT
* *
4076318 TTTTTGATTTTTTTGAT
1 TTTTTAATTTTTTTGAA
*
4076335 TTTTTAATTTTTTTTAA
1 TTTTTAATTTTTTTGAA
4076352 TTTTTA
1 TTTTTA
4076358 TTATACAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (17 bp):
TTTTTAATTTTTTTGAA
Found at i:4083554 original size:2 final size:2
Alignment explanation
Indices: 4083547--4083574 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4083537 TGTGATATTC
4083547 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
4083575 CCAGTACAAG
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4084010 original size:3 final size:3
Alignment explanation
Indices: 4084002--4084035 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4083992 ATGACACGAA
4084002 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4084036 GGAGATGTTA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4084754 original size:21 final size:22
Alignment explanation
Indices: 4084715--4084760 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
4084705 TAAATTTATC
*
4084715 AAATGTTTTACAATGTAATA-A
1 AAATATTTTACAATGTAATATA
4084736 AAATATTTTACAAAT-TAATATA
1 AAATATTTTAC-AATGTAATATA
4084758 AAA
1 AAA
4084761 ATAAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (22 bp):
AAATATTTTACAATGTAATATA
Found at i:4087246 original size:68 final size:68
Alignment explanation
Indices: 4087137--4087271 Score: 270
Period size: 68 Copynumber: 2.0 Consensus size: 68
4087127 CAAGTTGGTT
4087137 TTATCCCATCTTCTTACTGATGTTTTTCTTCAAAAGTTTCGTGATTGTGCTCTTGAGGTGATTTT
1 TTATCCCATCTTCTTACTGATGTTTTTCTTCAAAAGTTTCGTGATTGTGCTCTTGAGGTGATTTT
4087202 TCG
66 TCG
4087205 TTATCCCATCTTCTTACTGATGTTTTTCTTCAAAAGTTTCGTGATTGTGCTCTTGAGGTGATTTT
1 TTATCCCATCTTCTTACTGATGTTTTTCTTCAAAAGTTTCGTGATTGTGCTCTTGAGGTGATTTT
4087270 TC
66 TC
4087272 CTTAAGTGGT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.16, C:0.18, G:0.17, T:0.49
Consensus pattern (68 bp):
TTATCCCATCTTCTTACTGATGTTTTTCTTCAAAAGTTTCGTGATTGTGCTCTTGAGGTGATTTT
TCG
Found at i:4091313 original size:2 final size:2
Alignment explanation
Indices: 4091301--4091331 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4091291 TTGAAAGGTT
*
4091301 TA TA TA CA 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
4091332 CGTGTTCCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4092988 original size:2 final size:2
Alignment explanation
Indices: 4092981--4093014 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4092971 CTTTAAAACC
4092981 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
4093015 TTTCCCATCA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4095393 original size:20 final size:19
Alignment explanation
Indices: 4095316--4095408 Score: 72
Period size: 20 Copynumber: 5.1 Consensus size: 19
4095306 AATTTATATT
*
4095316 AAATATTATATTTTTAATT-
1 AAATATT-TATTTTAAATTA
**
4095335 AAATATTTATCGT-AATT-
1 AAATATTTATTTTAAATTA
*
4095352 -AATATTTATTTAAAATTA
1 AAATATTTATTTTAAATTA
* *
4095370 AAATTATTTATTTTATATTT
1 AAA-TATTTATTTTAAATTA
4095390 AAAT-TTTATTTT-AATTA
1 AAATATTTATTTTAAATTA
4095407 AA
1 AA
4095409 TAATGCTTTG
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
16 9 0.15
17 13 0.22
18 12 0.20
19 10 0.17
20 16 0.27
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (19 bp):
AAATATTTATTTTAAATTA
Found at i:4095587 original size:35 final size:36
Alignment explanation
Indices: 4095534--4095601 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 36
4095524 AAAATAATTA
4095534 AATATTTTGATCGCTTTAC-TTTTAAACTGTAGCAT
1 AATATTTTGATCGCTTTACTTTTTAAACTGTAGCAT
*** *
4095569 AATATTTTGATTTTTTTACTTTTTAAATTGTAG
1 AATATTTTGATCGCTTTACTTTTTAAACTGTAG
4095602 TAAATAAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 16 0.57
36 12 0.43
ACGTcount: A:0.28, C:0.09, G:0.10, T:0.53
Consensus pattern (36 bp):
AATATTTTGATCGCTTTACTTTTTAAACTGTAGCAT
Found at i:4095659 original size:52 final size:51
Alignment explanation
Indices: 4095571--4095668 Score: 126
Period size: 52 Copynumber: 1.9 Consensus size: 51
4095561 TGTAGCATAA
* * * **
4095571 TATTTTGATTTTTTTACTTTTTAAATTGTAGTAAATAAGAAATAATAATTCAG
1 TATTTTAATTATTTTACTTTTTAAATTATAACAAATAA-AAA-AATAATTCAG
4095624 TATTTTAATTATTTT-CTTTTTAAATTATAACAAATAAAAAAATAA
1 TATTTTAATTATTTTACTTTTTAAATTATAACAAATAAAAAAATAA
4095669 CAAACAATGT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
50 5 0.12
51 3 0.08
52 19 0.47
53 13 0.32
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (51 bp):
TATTTTAATTATTTTACTTTTTAAATTATAACAAATAAAAAAATAATTCAG
Found at i:4095927 original size:15 final size:14
Alignment explanation
Indices: 4095901--4095943 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
4095891 AAAAATTATA
*
4095901 AAAATTACAATATT
1 AAAATTAAAATATT
* *
4095915 AAATTTAATAATATA
1 AAAATTAA-AATATT
4095930 AAAATTAAAATATT
1 AAAATTAAAATATT
4095944 CTTTTATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATTAAAATATT
Found at i:4095958 original size:30 final size:29
Alignment explanation
Indices: 4095886--4095965 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
4095876 TATTTGTTAC
* *
4095886 AATTTAAAAATTATAAAAATTACAATATTA
1 AATTTAATAA-TATAAAAATTAAAATATTA
4095916 AATTTAATAATATAAAAATTAAAATATT-
1 AATTTAATAATATAAAAATTAAAATATTA
**
4095944 CTTTTATTATAATATAAAAATT
1 AATTTA--ATAATATAAAAATT
4095966 TTCAATTAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
28 4 0.09
29 17 0.39
30 23 0.52
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
AATTTAATAATATAAAAATTAAAATATTA
Found at i:4096475 original size:2 final size:2
Alignment explanation
Indices: 4096468--4096493 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4096458 CAACCAATAG
4096468 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
4096494 GTGTCTGTGT
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:4101280 original size:15 final size:15
Alignment explanation
Indices: 4101260--4101296 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
4101250 TAATTTTAAA
4101260 TTAAATTAAATTATT
1 TTAAATTAAATTATT
* *
4101275 TTAAATGAGATTATT
1 TTAAATTAAATTATT
4101290 TTAAATT
1 TTAAATT
4101297 TTAAAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (15 bp):
TTAAATTAAATTATT
Found at i:4101287 original size:20 final size:21
Alignment explanation
Indices: 4101241--4101301 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
4101231 TTTACTTATA
* *
4101241 AGATCAAATTAATTTTAAATT
1 AGATTAAATTAATTTTAAATG
*
4101262 AAATTAAATT-ATTTTAAATG
1 AGATTAAATTAATTTTAAATG
**
4101282 AGATTATTTTAAATTTTAAA
1 AGATTAAATT-AATTTTAAA
4101302 ATTTTAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
20 16 0.50
21 8 0.25
22 8 0.25
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (21 bp):
AGATTAAATTAATTTTAAATG
Found at i:4101518 original size:53 final size:53
Alignment explanation
Indices: 4101394--4101511 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
4101384 AGTTCAGATC
* *
4101394 ATTTCAGATTCGGATCAATCGAGTTTAATACTTAAGTTAATCAAGTTTCAATT
1 ATTTTAGATTCGGATCAATCGAGTTTAACACTTAAGTTAATCAAGTTTCAATT
*
4101447 ATTTTAGATTCGGATCAATCGAGTTTAACACTTAAGTTAATCGAGTTTCAATT
1 ATTTTAGATTCGGATCAATCGAGTTTAACACTTAAGTTAATCAAGTTTCAATT
4101500 ATTTTAGATTCG
1 ATTTTAGATTCG
4101512 AGTCAATTAG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 62 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (53 bp):
ATTTTAGATTCGGATCAATCGAGTTTAACACTTAAGTTAATCAAGTTTCAATT
Found at i:4101550 original size:53 final size:53
Alignment explanation
Indices: 4101394--4101529 Score: 195
Period size: 53 Copynumber: 2.6 Consensus size: 53
4101384 AGTTCAGATC
* * * *
4101394 ATTTCAGATTCGGATCAATCGAGTTTAATACTTAAGTTAATCAAGTTTCAATT
1 ATTTTAGATTCGGATCAATAGAGTTTAACACTTAAGTTAATCGAGTTTCAATT
*
4101447 ATTTTAGATTCGGATCAATCGAGTTTAACACTTAAGTTAATCGAGTTTCAATT
1 ATTTTAGATTCGGATCAATAGAGTTTAACACTTAAGTTAATCGAGTTTCAATT
4101500 ATTTTAGATTC-GAGTCAATTAGA-TTTAACA
1 ATTTTAGATTCGGA-TCAA-TAGAGTTTAACA
4101530 TTCGGGTTAA
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
52 2 0.03
53 72 0.94
54 3 0.04
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (53 bp):
ATTTTAGATTCGGATCAATAGAGTTTAACACTTAAGTTAATCGAGTTTCAATT
Found at i:4102582 original size:27 final size:30
Alignment explanation
Indices: 4102551--4102611 Score: 92
Period size: 27 Copynumber: 2.1 Consensus size: 30
4102541 TGTAATGAAA
4102551 AATATTTTAATTTTA-ATTATT-AAATT-T
1 AATATTTTAATTTTATATTATTAAAATTAT
*
4102578 AATATTTTAATTTTATATTTTTAAAATTAT
1 AATATTTTAATTTTATATTATTAAAATTAT
4102608 AATA
1 AATA
4102612 AATAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 15 0.50
28 5 0.17
29 5 0.17
30 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
AATATTTTAATTTTATATTATTAAAATTAT
Found at i:4102589 original size:13 final size:13
Alignment explanation
Indices: 4102551--4102598 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
4102541 TGTAATGAAA
4102551 AATATTTTAATTTT
1 AATATTTTAA-TTT
*
4102565 AAT-TATTAAATTT
1 AATAT-TTTAATTT
4102578 AATATTTTAATTT
1 AATATTTTAATTT
*
4102591 TATATTTT
1 AATATTTT
4102599 TAAAATTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 21 0.72
14 8 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AATATTTTAATTT
Found at i:4102599 original size:14 final size:13
Alignment explanation
Indices: 4102555--4102601 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
4102545 ATGAAAAATA
4102555 TTTTAATTTTAAT
1 TTTTAATTTTAAT
* *
4102568 TATTAAATTTAAT
1 TTTTAATTTTAAT
4102581 ATTTTAATTTTATAT
1 -TTTTAATTTTA-AT
4102596 TTTTAA
1 TTTTAA
4102602 AATTATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
13 11 0.39
14 15 0.54
15 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:4102623 original size:18 final size:19
Alignment explanation
Indices: 4102600--4102642 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
4102590 TTATATTTTT
4102600 AAAATTATAATAA-ATAAA
1 AAAATTATAATAATATAAA
*
4102618 AAAA-T-TAATAATATTAA
1 AAAATTATAATAATATAAA
4102635 AAAATTAT
1 AAAATTAT
4102643 TTAAATTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
16 6 0.29
17 9 0.43
18 5 0.24
19 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATTATAATAATATAAA
Found at i:4102845 original size:14 final size:14
Alignment explanation
Indices: 4102828--4102877 Score: 66
Period size: 14 Copynumber: 3.5 Consensus size: 14
4102818 GATAACTTAA
4102828 AAAATATAAATATT
1 AAAATATAAATATT
4102842 AAAATATTAAAT-TT
1 AAAATA-TAAATATT
*
4102856 AATAATATAAAAATT
1 AA-AATATAAATATT
4102871 AAAATAT
1 AAAATAT
4102878 TTTTTTAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 19 0.59
15 13 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAATATAAATATT
Found at i:4102848 original size:8 final size:8
Alignment explanation
Indices: 4102835--4102878 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
4102825 TAAAAAATAT
4102835 AAATATTA
1 AAATATTA
4102843 AAATATT-
1 AAATATTA
4102850 AAAT-TTA
1 AAATATTA
4102857 ATAATA-TA
1 A-AATATTA
4102865 AAA-ATTA
1 AAATATTA
4102872 AAATATT
1 AAATATT
4102879 TTTTTAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
6 3 0.10
7 12 0.39
8 16 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
AAATATTA
Found at i:4103552 original size:3 final size:3
Alignment explanation
Indices: 4103544--4103576 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
4103534 GGCAATAGTT
*
4103544 ATA ATA ATA ATA ATA TTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4103577 TTATTATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:4103584 original size:6 final size:6
Alignment explanation
Indices: 4103548--4103591 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
4103538 ATAGTTATAA
* * * *
4103548 TAATAA TAATAT TAATAA TAATAA TAATAT TATTAT TAATAT TA
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TA
4103592 GTGATGTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
TAATAT
Found at i:4104923 original size:11 final size:11
Alignment explanation
Indices: 4104904--4104951 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
4104894 ATAAATCTAA
*
4104904 ATTAATTATAT
1 ATTATTTATAT
4104915 ATTATTTATAT
1 ATTATTTATAT
*
4104926 TTTATTTATAT
1 ATTATTTATAT
4104937 -TTATTATATTAT
1 ATTATT-TA-TAT
4104949 ATT
1 ATT
4104952 TAAAATATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 5 0.16
11 22 0.69
12 3 0.09
13 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTATTTATAT
Found at i:4104926 original size:9 final size:9
Alignment explanation
Indices: 4104912--4105045 Score: 61
Period size: 9 Copynumber: 15.1 Consensus size: 9
4104902 AAATTAATTA
4104912 TATATTATT
1 TATATTATT
4104921 TATATTTTATT
1 TATA--TTATT
4104932 TATATT-TAT
1 TATATTAT-T
4104941 TATATTATATT
1 TATA-T-TATT
* *
4104952 TAAAATATT
1 TATATTATT
4104961 T-TA-TATT
1 TATATTATT
*
4104968 TATATAAATT
1 TATAT-TATT
* *
4104978 T-TAATATG
1 TATATTATT
4104986 TATA--ATT
1 TATATTATT
4104993 TATATTATT
1 TATATTATT
*
4105002 TAAATT-TT
1 TATATTATT
* * *
4105010 AAAAATATT
1 TATATTATT
4105019 TATA-TATT
1 TATATTATT
4105027 TATATTA-T
1 TATATTATT
4105035 TATTATTATT
1 TA-TATTATT
4105045 T
1 T
4105046 TTTGTCAATA
Statistics
Matches: 96, Mismatches: 13, Indels: 31
0.69 0.09 0.22
Matches are distributed among these distances:
7 11 0.11
8 24 0.25
9 39 0.41
10 7 0.07
11 14 0.15
12 1 0.01
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (9 bp):
TATATTATT
Found at i:4104937 original size:6 final size:6
Alignment explanation
Indices: 4104917--4104972 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
4104907 AATTATATAT
**
4104917 TATTTA TATTT- TATTTA TATTTA TTATATTA TATTTA -AAATA T-TTTA
1 TATTTA TATTTA TATTTA TATTTA -TAT-TTA TATTTA TATTTA TATTTA
4104964 TATTTA TAT
1 TATTTA TAT
4104973 AAATTTTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 11 0.27
6 21 0.51
7 6 0.15
8 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TATTTA
Found at i:4104948 original size:14 final size:13
Alignment explanation
Indices: 4104914--4104953 Score: 57
Period size: 11 Copynumber: 3.2 Consensus size: 13
4104904 ATTAATTATA
4104914 TATTATTTATA-T
1 TATTATTTATATT
4104926 T-TTATTTATATT
1 TATTATTTATATT
4104938 TATTATATTATATT
1 TATTAT-TTATATT
4104952 TA
1 TA
4104954 AAATATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.36
12 3 0.12
13 4 0.16
14 9 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTATTTATATT
Found at i:4105008 original size:30 final size:32
Alignment explanation
Indices: 4104956--4105035 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 32
4104946 TATATTTAAA
*
4104956 ATAT-TTTATATTTATATAAATTTT-AATATGT
1 ATATATTTATA-TTATTTAAATTTTAAATATGT
*
4104987 ATA-ATTTATATTATTTAAATTTTAAAAATATTT
1 ATATATTTATATTATTTAAATTTT--AAATATGT
4105020 ATATATTTATATTATT
1 ATATATTTATATTATT
4105036 ATTATTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
30 12 0.29
31 9 0.21
33 9 0.21
34 12 0.29
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (32 bp):
ATATATTTATATTATTTAAATTTTAAATATGT
Found at i:4106613 original size:2 final size:2
Alignment explanation
Indices: 4106606--4106635 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4106596 TTATTGGTTG
4106606 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
4106636 TGGTGTTTAG
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:4116156 original size:13 final size:13
Alignment explanation
Indices: 4116131--4116165 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
4116121 TATTTAAATA
4116131 AATTTTA-TTTTT
1 AATTTTATTTTTT
4116143 AATTTTATTTTTT
1 AATTTTATTTTTT
*
4116156 AACTTTATTT
1 AATTTTATTT
4116166 AAGATAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (13 bp):
AATTTTATTTTTT
Found at i:4116235 original size:16 final size:16
Alignment explanation
Indices: 4116210--4116275 Score: 53
Period size: 15 Copynumber: 4.0 Consensus size: 16
4116200 CATAACTTTT
*
4116210 AATTTATAATTAAATA
1 AATTTTTAATTAAATA
*
4116226 AATTTTTAATATAAATT
1 AATTTTTAAT-TAAATA
* *
4116243 AATCATTTTATTTGAATA
1 AAT--TTTTAATTAAATA
*
4116261 AA-ATTTAATTAAATA
1 AATTTTTAATTAAATA
4116276 TAAATAAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
15 10 0.26
16 9 0.23
17 8 0.21
18 6 0.15
19 6 0.15
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
AATTTTTAATTAAATA
Found at i:4116971 original size:17 final size:17
Alignment explanation
Indices: 4116951--4116987 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
4116941 GAATGTATTG
*
4116951 AAATAGTATATATATAT
1 AAATAGTATATAAATAT
4116968 AAATAGTATATAAATAT
1 AAATAGTATATAAATAT
4116985 AAA
1 AAA
4116988 AATCAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
AAATAGTATATAAATAT
Found at i:4117378 original size:16 final size:16
Alignment explanation
Indices: 4117357--4117387 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4117347 TAAAATTATA
4117357 TTATGTAATAATATTT
1 TTATGTAATAATATTT
*
4117373 TTATGTAATTATATT
1 TTATGTAATAATATT
4117388 AAGAATATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TTATGTAATAATATTT
Found at i:4126271 original size:18 final size:20
Alignment explanation
Indices: 4126234--4126271 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4126224 TAAATTACTG
*
4126234 TATATAACATAATATTATTA
1 TATATAACATAATATCATTA
4126254 TATATAA-ATAATA-CATTA
1 TATATAACATAATATCATTA
4126272 ATTAATCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 6 0.35
20 7 0.41
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TATATAACATAATATCATTA
Found at i:4130223 original size:21 final size:22
Alignment explanation
Indices: 4130175--4130225 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
4130165 TATGTTATTA
4130175 TATTAAATTTTTCGATAAAGTT
1 TATTAAATTTTTCGATAAAGTT
* *
4130197 TTTTAAATTTTATTGAT-AA-TT
1 TATTAAATTTT-TCGATAAAGTT
4130218 TATTAAAT
1 TATTAAAT
4130226 AATTTTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 9 0.36
22 12 0.48
23 4 0.16
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (22 bp):
TATTAAATTTTTCGATAAAGTT
Found at i:4130380 original size:38 final size:38
Alignment explanation
Indices: 4130329--4130404 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
4130319 AAAACGTGAA
4130329 ATTTAAGTTAATTTCATTCAACAAAATGATCGTCAAAT
1 ATTTAAGTTAATTTCATTCAACAAAATGATCGTCAAAT
4130367 ATTTAAGTTAATTTCATTCAACAAAATGATCGTCAAAT
1 ATTTAAGTTAATTTCATTCAACAAAATGATCGTCAAAT
4130405 TCCAACGCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (38 bp):
ATTTAAGTTAATTTCATTCAACAAAATGATCGTCAAAT
Found at i:4131824 original size:18 final size:20
Alignment explanation
Indices: 4131776--4131824 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 20
4131766 TCTTAAATTA
4131776 ATTTAAA-TAAATATTTTAT
1 ATTTAAATTAAATATTTTAT
* *
4131795 ATTT-TATAAAATA-TTTAT
1 ATTTAAATTAAATATTTTAT
4131813 -TTTAAATTAAAT
1 ATTTAAATTAAAT
4131825 TAAATTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
17 3 0.12
18 12 0.50
19 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTAAATTAAATATTTTAT
Found at i:4131829 original size:23 final size:23
Alignment explanation
Indices: 4131768--4131829 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
4131758 GAAAATTTTC
*
4131768 TTAAATTAATTTAAATAAATATT
1 TTAAATTAAATTAAATAAATATT
* ** * **
4131791 TTATATTTTATAAAATATTTATT
1 TTAAATTAAATTAAATAAATATT
4131814 TTAAATTAAATTAAAT
1 TTAAATTAAATTAAAT
4131830 TTATACTATA
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTAAATTAAATTAAATAAATATT
Found at i:4132098 original size:19 final size:19
Alignment explanation
Indices: 4132062--4132119 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
4132052 AAAATTAAAA
*
4132062 ATTTATATTTTTATAAATT
1 ATTTATATTTATATAAATT
4132081 ATTTCATATTTATA-AAATT
1 ATTT-ATATTTATATAAATT
*
4132100 AGTTTAAATTATAATATAAA
1 A-TTTATATT-T-ATATAAA
4132120 ATTTTAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
19 14 0.44
20 12 0.38
21 3 0.09
22 3 0.09
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
ATTTATATTTATATAAATT
Found at i:4135790 original size:50 final size:50
Alignment explanation
Indices: 4135715--4135923 Score: 382
Period size: 50 Copynumber: 4.2 Consensus size: 50
4135705 AGTTGTTGTC
*
4135715 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
*
4135765 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
*
4135815 ATTGTTGGCAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
*
4135865 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
4135915 ATTGTTGAC
1 ATTGTTGAC
4135924 TCTAAGTATA
Statistics
Matches: 153, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 153 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (50 bp):
ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
Found at i:4140400 original size:50 final size:50
Alignment explanation
Indices: 4140325--4140583 Score: 464
Period size: 50 Copynumber: 5.2 Consensus size: 50
4140315 AGTTGTTGTC
*
4140325 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
*
4140375 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
*
4140425 ATTGTTGACAATTCTTCACCAACTTTTGACAATAGAAGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
*
4140475 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGTCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
* *
4140525 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAAGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
4140575 ATTGTTGAC
1 ATTGTTGAC
4140584 TCTAAGTATA
Statistics
Matches: 200, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 200 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (50 bp):
ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
Found at i:4144123 original size:2 final size:2
Alignment explanation
Indices: 4144118--4144143 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4144108 TATATTGTGT
4144118 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
4144144 CTATTACATC
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):
TA
Found at i:4145789 original size:15 final size:16
Alignment explanation
Indices: 4145752--4145793 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
4145742 ATCAATTTGA
4145752 TTTAAAATAATATTTT
1 TTTAAAATAATATTTT
4145768 TAATTAAAATAATA-TTT
1 T--TTAAAATAATATTTT
4145785 TTTAAAATA
1 TTTAAAATA
4145794 TTAATTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.33
16 1 0.04
17 4 0.17
18 11 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTAAAATAATATTTT
Found at i:4145817 original size:22 final size:20
Alignment explanation
Indices: 4145789--4145830 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
4145779 ATATTTTTTA
4145789 AAATATTAATTATAAAATATAT
1 AAATATTAA-TATAAAA-ATAT
4145811 AAATATTAATATAAAAATAT
1 AAATATTAATATAAAAATAT
4145831 TTTTTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 7 0.35
22 9 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATATTAATATAAAAATAT
Found at i:4145987 original size:3 final size:3
Alignment explanation
Indices: 4145979--4146006 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4145969 AATGATATTT
4145979 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4146007 AAGTGCTATA
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):
ATA
Found at i:4146031 original size:15 final size:17
Alignment explanation
Indices: 4146013--4146048 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
4146003 ATAAAAGTGC
4146013 TATAATTAAAT-A-ATT
1 TATAATTAAATGATATT
4146028 TATAATTAAATGATATT
1 TATAATTAAATGATATT
4146045 TATA
1 TATA
4146049 TATAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.58
16 1 0.05
17 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TATAATTAAATGATATT
Found at i:4147970 original size:166 final size:167
Alignment explanation
Indices: 4147690--4148007 Score: 602
Period size: 166 Copynumber: 1.9 Consensus size: 167
4147680 ATTTATATTA
*
4147690 GTTCTTACAGCTCATGGTTAATCACATGAATTTTAAAAAAAAATTCTCTTAAATTCATTATGCAT
1 GTTCTTACAGCTCATGGTTAACCACATGAATTTTAAAAAAAAATTCTCTTAAATTCATTATGCAT
*
4147755 TGGTCAACGATTTTATCAAGTTAACCAAAGCCAAAAACATATGAAATATGTTTCCGATGTCATTT
66 TGGTCAACGATTTTATCAAGTTAACCAAAGCCAAAAACATATAAAATATGTTTCCGATGTCATTT
4147820 GGCAAAGTAAATCATCTCTAAAATTCATTATGCATTG
131 GGCAAAGTAAATCATCTCTAAAATTCATTATGCATTG
4147857 GTTCTTACAGCTCATGGTTAACCACATGAA-TTTAAAAAAAAATTCTCTTAAATTCATTATGCAT
1 GTTCTTACAGCTCATGGTTAACCACATGAATTTTAAAAAAAAATTCTCTTAAATTCATTATGCAT
4147921 TGGTCAACGATTTTATCAAGTTAACCAAAGCCAAAAACATATAAAATATGTTTCCGATGTCATTT
66 TGGTCAACGATTTTATCAAGTTAACCAAAGCCAAAAACATATAAAATATGTTTCCGATGTCATTT
*
4147986 GGCAAAGTGAATCATCTCTAAA
131 GGCAAAGTAAATCATCTCTAAA
4148008 TCACTCATTT
Statistics
Matches: 148, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
166 119 0.80
167 29 0.20
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.34
Consensus pattern (167 bp):
GTTCTTACAGCTCATGGTTAACCACATGAATTTTAAAAAAAAATTCTCTTAAATTCATTATGCAT
TGGTCAACGATTTTATCAAGTTAACCAAAGCCAAAAACATATAAAATATGTTTCCGATGTCATTT
GGCAAAGTAAATCATCTCTAAAATTCATTATGCATTG
Found at i:4149333 original size:2 final size:2
Alignment explanation
Indices: 4149326--4149362 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4149316 TTGTTGTTTA
4149326 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 A
4149363 ACTCATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4150275 original size:22 final size:22
Alignment explanation
Indices: 4150232--4150275 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
4150222 ATTATTTGAT
* **
4150232 AATTATAAATTTTAAATTTTAA
1 AATTATAAATTTAAAAAATTAA
*
4150254 AATTATTAATTTAAAAAATTAA
1 AATTATAAATTTAAAAAATTAA
4150276 TTTAATAATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTATAAATTTAAAAAATTAA
Found at i:4160276 original size:19 final size:18
Alignment explanation
Indices: 4160234--4160276 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
4160224 ATAATTCATA
4160234 TATATATATATATTATAT
1 TATATATATATATTATAT
* *
4160252 TAATATATTTTTATTATAAT
1 T-ATATATATATATTAT-AT
4160272 TATAT
1 TATAT
4160277 TAAAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 17 0.81
20 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATATATATATATTATAT
Found at i:4160318 original size:33 final size:33
Alignment explanation
Indices: 4160281--4160361 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 33
4160271 TTATATTAAA
4160281 AATAATA-TATATTTAAATAAATTTCAACATATT
1 AATAATATTATA-TTAAATAAATTTCAACATATT
* * *
4160314 AATAATATTATATTAATTAAATTTTAATATATT
1 AATAATATTATATTAAATAAATTTCAACATATT
*
4160347 CAT--TATT-TATTAAAT
1 AATAATATTATATTAAAT
4160362 TGTATTTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
30 7 0.17
31 4 0.10
33 27 0.64
34 4 0.10
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (33 bp):
AATAATATTATATTAAATAAATTTCAACATATT
Found at i:4160359 original size:26 final size:25
Alignment explanation
Indices: 4160312--4160362 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
4160302 TTTCAACATA
4160312 TTAATAATATTATATTAATTAAATT
1 TTAATAATATTATATTAATTAAATT
*
4160337 TTAAT-ATATTCATTATTTATTAAATT
1 TTAATAATATT-A-TATTAATTAAATT
4160363 GTATTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 5 0.22
25 6 0.26
26 12 0.52
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
TTAATAATATTATATTAATTAAATT
Found at i:4164031 original size:5 final size:5
Alignment explanation
Indices: 4164023--4164055 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
4164013 TTATTTTATA
4164023 AAAAT AAAAT AAAAT AAAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AA
4164056 TTATAATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:4164036 original size:11 final size:11
Alignment explanation
Indices: 4164023--4164052 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4164013 TTATTTTATA
4164023 AAAAT-AAAAT
1 AAAATAAAAAT
4164033 AAAATAAAAAT
1 AAAATAAAAAT
4164044 AAAATAAAA
1 AAAATAAAA
4164053 TAATTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:4164061 original size:16 final size:16
Alignment explanation
Indices: 4164020--4164055 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
4164010 TATTTATTTT
4164020 ATAAAAATAAAATAAA
1 ATAAAAATAAAATAAA
4164036 ATAAAAATAAAATAAA
1 ATAAAAATAAAATAAA
4164052 ATAA
1 ATAA
4164056 TTATAATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
ATAAAAATAAAATAAA
Found at i:4164411 original size:14 final size:12
Alignment explanation
Indices: 4164385--4164410 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4164375 TTTTTATGGT
4164385 TAAAATTTTATA
1 TAAAATTTTATA
4164397 TAAAATTTTATA
1 TAAAATTTTATA
4164409 TA
1 TA
4164411 TTAATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TAAAATTTTATA
Found at i:4165898 original size:2 final size:2
Alignment explanation
Indices: 4165891--4165930 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
4165881 TCTAATACAA
* *
4165891 AT AT AT AT AT AT AT AT AT GT A- AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4165931 CACGCGGTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4165916 original size:21 final size:21
Alignment explanation
Indices: 4165890--4165929 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4165880 CTCTAATACA
*
4165890 AATATATATATATATATATGT
1 AATATATATATACATATATGT
4165911 AATATATATATACATATAT
1 AATATATATATACATATAT
4165930 ACACGCGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (21 bp):
AATATATATATACATATATGT
Found at i:4166780 original size:2 final size:2
Alignment explanation
Indices: 4166773--4166801 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4166763 CTGCAACTTT
4166773 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 T
4166802 TATGCCAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4169052 original size:11 final size:11
Alignment explanation
Indices: 4169036--4169072 Score: 56
Period size: 11 Copynumber: 3.2 Consensus size: 11
4169026 AATTATTAAA
4169036 TATATTATATT
1 TATATTATATT
4169047 TATATTGTATATT
1 TATA-T-TATATT
4169060 TATATTATATT
1 TATATTATATT
4169071 TA
1 TA
4169073 AAATTATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 12 0.50
12 2 0.08
13 10 0.42
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (11 bp):
TATATTATATT
Found at i:4169057 original size:13 final size:13
Alignment explanation
Indices: 4169041--4169065 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4169031 TTAAATATAT
4169041 TATATTTATATTG
1 TATATTTATATTG
4169054 TATATTTATATT
1 TATATTTATATT
4169066 ATATTTAAAA
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TATATTTATATTG
Found at i:4169604 original size:22 final size:25
Alignment explanation
Indices: 4169566--4169627 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
4169556 TCACAAATAA
*
4169566 AATTTTAA-AAA-AATAATATATATT
1 AATTTTAATAAATAATTA-ATATATT
*
4169590 TA-TTTAATAAATAATTAATATATT
1 AATTTTAATAAATAATTAATATATT
*
4169614 AATTTTCATAAATA
1 AATTTTAATAAATA
4169628 CATCATATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
23 5 0.16
24 12 0.39
25 14 0.45
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
AATTTTAATAAATAATTAATATATT
Found at i:4171741 original size:18 final size:19
Alignment explanation
Indices: 4171715--4171751 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
4171705 TTTCTACGGA
4171715 CGGTGGAAATCGAACGGTT
1 CGGTGGAAATCGAACGGTT
*
4171734 CGGT-GAAATCGGACGGTT
1 CGGTGGAAATCGAACGGTT
4171752 ATCGAGCGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.24, C:0.16, G:0.38, T:0.22
Consensus pattern (19 bp):
CGGTGGAAATCGAACGGTT
Found at i:4172962 original size:18 final size:18
Alignment explanation
Indices: 4172922--4172979 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
4172912 TTTTATATTT
* *
4172922 TTTAT-TATTTATATAAA
1 TTTATATATATATATATA
* *
4172939 TATATAT-TA-ATATCTA
1 TTTATATATATATATATA
4172955 TTTATATATATATATATA
1 TTTATATATATATATATA
4172973 TTTATAT
1 TTTATAT
4172980 CTATTTTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 11 0.34
17 7 0.22
18 14 0.44
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTATATATATATATATA
Found at i:4172963 original size:28 final size:27
Alignment explanation
Indices: 4172929--4173004 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 27
4172919 TTTTTTATTA
4172929 TTTATATAAATATATATTAATATCTAT
1 TTTATATAAATATATATTAATATCTAT
* *
4172956 TTATATATATATATATATTTATATCTAT
1 TT-TATATAAATATATATTAATATCTAT
4172984 TTTATACTAAATAT-TA-TAATA
1 TTTATA-TAAATATATATTAATA
4173005 AACTCCTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
26 4 0.09
27 8 0.19
28 31 0.72
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (27 bp):
TTTATATAAATATATATTAATATCTAT
Found at i:4172978 original size:10 final size:10
Alignment explanation
Indices: 4172938--4172989 Score: 56
Period size: 10 Copynumber: 5.5 Consensus size: 10
4172928 ATTTATATAA
*
4172938 ATATATATTA
1 ATATATATTT
*
4172948 ATATCTATTT
1 ATATATATTT
4172958 ATATATA--T
1 ATATATATTT
4172966 ATATATATTT
1 ATATATATTT
*
4172976 ATATCTATTT
1 ATATATATTT
4172986 -TATA
1 ATATA
4172990 CTAAATATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
8 8 0.23
9 3 0.09
10 24 0.69
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (10 bp):
ATATATATTT
Found at i:4173184 original size:27 final size:28
Alignment explanation
Indices: 4173148--4173203 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
4173138 TTTAAAGATC
* * *
4173148 ATAAACTTTTTTTTACTTATTATT-TTT
1 ATAAACTTTTTCTCACTCATTATTATTT
*
4173175 ATAAATTTTTTCTCACTCATTATTATTT
1 ATAAACTTTTTCTCACTCATTATTATTT
4173203 A
1 A
4173204 AGTAATTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (28 bp):
ATAAACTTTTTCTCACTCATTATTATTT
Found at i:4174219 original size:3 final size:3
Alignment explanation
Indices: 4174211--4174247 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
4174201 TGCATGGACA
4174211 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4174248 TGGTTCATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4174890 original size:2 final size:2
Alignment explanation
Indices: 4174883--4174909 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4174873 TCATGTGCTT
4174883 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 T
4174910 GGATCCTTCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4175209 original size:50 final size:50
Alignment explanation
Indices: 4175155--4175303 Score: 160
Period size: 50 Copynumber: 3.0 Consensus size: 50
4175145 TTAGTCAAAA
* *
4175155 ATTTTAAATTTTTA-CTGTTTATATCGATACATTATTCATTGTATCGATAT
1 ATTTTAAATTTTTACCTG-ATGTATCGATACATTATTCATTGTATCGATAT
* * * *
4175205 ATTTTGAATTTTTACCCAGATGTATCGATATATT-TTTATTGTATCGATAT
1 ATTTTAAATTTTTA-CCTGATGTATCGATACATTATTCATTGTATCGATAT
* * * *
4175255 ATTCTAGA-TTTTACCTAGATGTATCGATACATTATTCAATGTATTGATA
1 ATTTTAAATTTTTACCT-GATGTATCGATACATTATTCATTGTATCGATA
4175304 CATGCAGCCA
Statistics
Matches: 81, Mismatches: 14, Indels: 8
0.79 0.14 0.08
Matches are distributed among these distances:
48 2 0.02
49 20 0.25
50 45 0.56
51 12 0.15
52 2 0.02
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (50 bp):
ATTTTAAATTTTTACCTGATGTATCGATACATTATTCATTGTATCGATAT
Found at i:4179587 original size:20 final size:20
Alignment explanation
Indices: 4179562--4179635 Score: 123
Period size: 20 Copynumber: 3.7 Consensus size: 20
4179552 GGAAAAAGAC
4179562 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
4179582 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
4179602 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
4179622 TA-CATGTATCGATA
1 -AGAATGTATCGATA
4179636 TATATGGATA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
20 51 0.98
21 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:4180454 original size:30 final size:30
Alignment explanation
Indices: 4180386--4180483 Score: 101
Period size: 32 Copynumber: 3.2 Consensus size: 30
4180376 GTAGAAGGGT
* * *
4180386 TGCCACCAACTTGTGTGGGTTTTAGAGAAAGT
1 TGCCACTAACTTGTGTGGGCTTT-GA-AAAGA
*
4180418 TGCCACTAACTTGTGTGGGCTTTGAAAGGA
1 TGCCACTAACTTGTGTGGGCTTTGAAAAGA
* *
4180448 TGCCACTGAC-T-TGTGAGCTTTTGAAAAGA
1 TGCCACTAACTTGTGTGGGC-TTTGAAAAGA
4180477 TGCCACT
1 TGCCACT
4180484 GGCTTGTGGG
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.10
29 17 0.29
30 12 0.21
31 2 0.03
32 21 0.36
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (30 bp):
TGCCACTAACTTGTGTGGGCTTTGAAAAGA
Found at i:4180533 original size:28 final size:28
Alignment explanation
Indices: 4180501--4180900 Score: 356
Period size: 28 Copynumber: 14.3 Consensus size: 28
4180491 GGGCATGTGT
* *
4180501 CACTGACTTATGGGCTTTGAAAGGGTAC
1 CACTGACTTGTGGGCTTTGAAAGGGTGC
* *** *
4180529 CACTGACTTGTAGGCTTTGAAATAATGT
1 CACTGACTTGTGGGCTTTGAAAGGGTGC
* * * **
4180557 CACTGACTTATAGGTTTTGAAAATGTGC
1 CACTGACTTGTGGGCTTTGAAAGGGTGC
* *
4180585 TACTGACTTGTGGGCTTTGAAAATGG-GC
1 CACTGACTTGTGGGCTTTG-AAAGGGTGC
* *
4180613 CATTGACTTGTGGGCTTTGAAAAGGTGC
1 CACTGACTTGTGGGCTTTGAAAGGGTGC
* * *
4180641 CACTAACTTGTGGACTTTGAAAGGATGC
1 CACTGACTTGTGGGCTTTGAAAGGGTGC
* * * *
4180669 CACTAACTTGTTGGTTTTGAAAGGATGC
1 CACTGACTTGTGGGCTTTGAAAGGGTGC
* *
4180697 CACTGACTTGTGGGCTTAGAAAGGGCGC
1 CACTGACTTGTGGGCTTTGAAAGGGTGC
* **
4180725 CACTGAC-TGATAGGCTTTGAAAAAGTGC
1 CACTGACTTG-TGGGCTTTGAAAGGGTGC
* * *
4180753 CACTGACTCGTGGGCTTAGAAAGGGTGT
1 CACTGACTTGTGGGCTTTGAAAGGGTGC
* * **
4180781 CACTAACTGGTGGGCTTTGAAAAAGTGC
1 CACTGACTTGTGGGCTTTGAAAGGGTGC
* * *
4180809 CACTGACTCGTGGGCTTTGGAAGGATGC
1 CACTGACTTGTGGGCTTTGAAAGGGTGC
* **
4180837 CACTGACTCGTGGGCTTTGGAAA-AATGC
1 CACTGACTTGTGGGCTTT-GAAAGGGTGC
** *
4180865 CACAAACTTGTGGGCTTAGAAAGGGTGC
1 CACTGACTTGTGGGCTTTGAAAGGGTGC
4180893 CACTGACT
1 CACTGACT
4180901 GTTTCATCAT
Statistics
Matches: 297, Mismatches: 69, Indels: 12
0.79 0.18 0.03
Matches are distributed among these distances:
27 11 0.04
28 278 0.94
29 8 0.03
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (28 bp):
CACTGACTTGTGGGCTTTGAAAGGGTGC
Found at i:4180576 original size:56 final size:55
Alignment explanation
Indices: 4180413--4180900 Score: 310
Period size: 56 Copynumber: 8.8 Consensus size: 55
4180403 GGTTTTAGAG
* * * * *
4180413 AAAGTTGCCACTAACTTGTGTGGGCTTTGAAAGGATGCCACTGACTTGTGAGCTTTTGA
1 AAAGGTGCCACTGAC-T-TGTGGGCTTTGAAA-AATGCCACTGACTTATGGGC-TTTGA
* * * *
4180472 AAAGATGCCACTGGCTTGTGGGC-ATG-----TGTCACTGACTTATGGGCTTTGA
1 AAAGGTGCCACTGACTTGTGGGCTTTGAAAAATGCCACTGACTTATGGGCTTTGA
* * * * * *
4180521 AAGGGTACCACTGACTTGTAGGCTTTGAAATAATGTCACTGACTTATAGGTTTTGA
1 AAAGGTGCCACTGACTTGTGGGCTTTGAAA-AATGCCACTGACTTATGGGCTTTGA
* * * *
4180577 AAATGTGCTACTGACTTGTGGGCTTTG-AAAATGGGCCATTGACTTGTGGGCTTTGA
1 AAAGGTGCCACTGACTTGTGGGCTTTGAAAAAT--GCCACTGACTTATGGGCTTTGA
* * * * * * *
4180633 AAAGGTGCCACTAACTTGTGGACTTTGAAAGGATGCCACTAACTTGTTGGTTTTG-
1 AAAGGTGCCACTGACTTGTGGGCTTTGAAA-AATGCCACTGACTTATGGGCTTTGA
* *** * *
4180688 AAAGGATGCCACTGACTTGTGGGCTTAGAAAGGGCGCCACTGACTGATAGGCTTTGA
1 AAAGG-TGCCACTGACTTGTGGGCTTTGAAA-AATGCCACTGACTTATGGGCTTTGA
* * * ** * * **
4180745 AAAAGTGCCACTGACTCGTGGGCTTAGAAAGGGTGTCACTAACTGGTGGGCTTTGA
1 AAAGGTGCCACTGACTTGTGGGCTTTGAAA-AATGCCACTGACTTATGGGCTTTGA
* * ** **
4180801 AAAAGTGCCACTGACTCGTGGGCTTTGGAAGGATGCCACTGACTCGTGGGCTTTGGA
1 AAAGGTGCCACTGACTTGTGGGCTTT-GAAAAATGCCACTGACTTATGGGCTTT-GA
* ** * **
4180858 AAA-ATGCCACAAACTTGTGGGCTTAGAAAGGGTGCCACTGACT
1 AAAGGTGCCACTGACTTGTGGGCTTTGAAA-AATGCCACTGACT
4180901 GTTTCATCAT
Statistics
Matches: 349, Mismatches: 64, Indels: 35
0.78 0.14 0.08
Matches are distributed among these distances:
49 23 0.07
50 17 0.05
54 3 0.01
55 10 0.03
56 260 0.74
57 21 0.06
58 3 0.01
59 12 0.03
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (55 bp):
AAAGGTGCCACTGACTTGTGGGCTTTGAAAAATGCCACTGACTTATGGGCTTTGA
Found at i:4187511 original size:3 final size:3
Alignment explanation
Indices: 4187503--4187528 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4187493 ACCAATTACA
4187503 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
4187529 CTAACATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4187634 original size:19 final size:19
Alignment explanation
Indices: 4187610--4187655 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
4187600 GGTCATGTGA
4187610 AGAGAAAGAGAA-GAACAAG
1 AGAGAAAGAGAATGAA-AAG
*
4187629 AGAGAAAAAGAATGAAAAG
1 AGAGAAAGAGAATGAAAAG
*
4187648 ACAGAAAG
1 AGAGAAAG
4187656 GGGAGAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.65, C:0.04, G:0.28, T:0.02
Consensus pattern (19 bp):
AGAGAAAGAGAATGAAAAG
Done.