Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 111 of 130
Found at i:21705164 original size:20 final size:19
Alignment explanation
Indices: 21705132--21705170 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
21705122 CGCTGAAGAA
*
21705132 AGAAAAAATAAAGACAGAG
1 AGAAAAAAAAAAGACAGAG
*
21705151 AGAAAAAAGAAAAGAGAGAG
1 AGAAAAAA-AAAAGACAGAG
21705171 TTAGTTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.69, C:0.03, G:0.26, T:0.03
Consensus pattern (19 bp):
AGAAAAAAAAAAGACAGAG
Found at i:21707619 original size:18 final size:19
Alignment explanation
Indices: 21707596--21707635 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
21707586 CGATCGTAGG
* *
21707596 TTTTCTTTTTTCA-TTTTA
1 TTTTCTATTTACATTTTTA
21707614 TTTTCTATTTACATTTTTA
1 TTTTCTATTTACATTTTTA
21707633 TTT
1 TTT
21707636 ATTTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTCTATTTACATTTTTA
Found at i:21707640 original size:23 final size:23
Alignment explanation
Indices: 21707610--21707689 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 23
21707600 CTTTTTTCAT
21707610 TTTATTTTCTATTTACATTTTTA
1 TTTATTTTCTATTTACATTTTTA
* * *
21707633 TTTATTTTATTTTTCTAAATTTTCTTA
1 TTTATTTT-CTATT-TACA-TTT-TTA
*
21707660 TTTATTTTCTATTTGCA-TTTTA
1 TTTATTTTCTATTTACATTTTTA
*
21707682 TTTGTTTT
1 TTTATTTT
21707690 ATTCTTTTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
22 10 0.22
23 10 0.22
24 3 0.07
25 5 0.11
26 6 0.13
27 11 0.24
ACGTcount: A:0.19, C:0.07, G:0.03, T:0.71
Consensus pattern (23 bp):
TTTATTTTCTATTTACATTTTTA
Found at i:21707705 original size:50 final size:50
Alignment explanation
Indices: 21707601--21707722 Score: 140
Period size: 50 Copynumber: 2.4 Consensus size: 50
21707591 GTAGGTTTTC
*
21707601 TTTTTTCATTTTATTTTCTATTTACATTTTTATTTATTTTATTTTTCTAAA
1 TTTTTT-AATTTATTTTCTATTTACATTTTTATTTATTTTATTTTTCTAAA
* * * *
21707652 TTTTCTT-ATTTATTTTCTATTTGCA-TTTTATTTGTTTTATTCTTTTTATA
1 TTTT-TTAATTTATTTTCTATTTACATTTTTATTTATTTTATT-TTTCTAAA
*
21707702 TTTTTTAATTTCATTTACTAT
1 TTTTTTAATTT-ATTTTCTAT
21707723 CATTATTATT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
49 17 0.28
50 30 0.49
51 12 0.20
52 2 0.03
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (50 bp):
TTTTTTAATTTATTTTCTATTTACATTTTTATTTATTTTATTTTTCTAAA
Found at i:21708685 original size:17 final size:17
Alignment explanation
Indices: 21708658--21708691 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
21708648 AAATAGCTGG
21708658 CAAATAAAATTATTTATT
1 CAAATAAAATT-TTTATT
21708676 CAAA-AAAATTTTTATT
1 CAAATAAAATTTTTATT
21708692 AGATCGAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 6 0.38
18 4 0.25
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (17 bp):
CAAATAAAATTTTTATT
Found at i:21710560 original size:9 final size:8
Alignment explanation
Indices: 21710549--21710636 Score: 67
Period size: 9 Copynumber: 11.0 Consensus size: 8
21710539 ATTTTAATTT
21710549 TTAAAATA
1 TTAAAATA
21710557 TTTAAAATA
1 -TTAAAATA
21710566 TT--AATA
1 TTAAAATA
21710572 TTAAAA-A
1 TTAAAATA
*
21710579 TTAAAAAA
1 TTAAAATA
*
21710587 TTTTAAATA
1 -TTAAAATA
*
21710596 -AAAAATA
1 TTAAAATA
*
21710603 TTAATATTA
1 TTAA-AATA
21710612 TTAAAATA
1 TTAAAATA
*
21710620 TTTTAAATA
1 -TTAAAATA
21710629 TTAAAATA
1 TTAAAATA
21710637 AAAAGTCTAG
Statistics
Matches: 63, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
6 6 0.10
7 12 0.19
8 17 0.27
9 28 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TTAAAATA
Found at i:21710569 original size:17 final size:17
Alignment explanation
Indices: 21710549--21710636 Score: 80
Period size: 17 Copynumber: 5.5 Consensus size: 17
21710539 ATTTTAATTT
21710549 TTAAAATATTTAAAATA
1 TTAAAATATTTAAAATA
21710566 TT--AATA-TTAAAA-A
1 TTAAAATATTTAAAATA
* *
21710579 TTAAAAAATTTTAAATA
1 TTAAAATATTTAAAATA
* *
21710596 -AAAAATA-TTAATATTA
1 TTAAAATATTTAA-AATA
*
21710612 TTAAAATATTTTAAATA
1 TTAAAATATTTAAAATA
21710629 TTAAAATA
1 TTAAAATA
21710637 AAAAGTCTAG
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
13 3 0.05
14 6 0.11
15 10 0.18
16 13 0.24
17 20 0.36
18 3 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAATATTTAAAATA
Found at i:21710578 original size:24 final size:24
Alignment explanation
Indices: 21710542--21710634 Score: 64
Period size: 23 Copynumber: 3.9 Consensus size: 24
21710532 TTATTTAATT
* * *
21710542 TTAATTTTTAAAATATTTAAAATA
1 TTAATATTAAAAATATTAAAAATA
* *
21710566 TTAATATTAAAAAT-TAAAAAATT
1 TTAATATTAAAAATATTAAAAATA
* * *
21710589 TTAA-ATAAAAAATATTAATATTA
1 TTAATATTAAAAATATTAAAAATA
**
21710612 TTAAAATATTTTAAATATTAAAA
1 TT--AATATTAAAAATATTAAAA
21710635 TAAAAAGTCT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
22 8 0.16
23 17 0.33
24 12 0.24
25 2 0.04
26 12 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TTAATATTAAAAATATTAAAAATA
Found at i:21710623 original size:33 final size:34
Alignment explanation
Indices: 21710560--21710628 Score: 95
Period size: 33 Copynumber: 2.0 Consensus size: 34
21710550 TAAAATATTT
21710560 AAAATATTAATATTAAAAATTAAAAAATTTTAAATAA
1 AAAATATTAATATT---AATTAAAAAATTTTAAATAA
*
21710597 AAAATATTAATATT-ATTAAAATATTTTAAATA
1 AAAATATTAATATTAATTAAAAAATTTTAAATA
21710629 TTAAAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 17 0.55
37 14 0.45
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (34 bp):
AAAATATTAATATTAATTAAAAAATTTTAAATAA
Found at i:21710633 original size:40 final size:38
Alignment explanation
Indices: 21710560--21710640 Score: 92
Period size: 37 Copynumber: 2.1 Consensus size: 38
21710550 TAAAATATTT
*
21710560 AAAATATTAATATTAAAAATTAAAAAAT-TTTAAATAA
1 AAAATATTAATATTAAAAATTAAAAAATATTAAAATAA
***
21710597 AAAATATTAATATTATTAAAATATTTTAAATATTAAAATAA
1 AAAATATTAATATTA--AAAAT-TAAAAAATATTAAAATAA
21710638 AAA
1 AAA
21710641 GTCTAGTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 15 0.42
39 5 0.14
40 5 0.14
41 11 0.31
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (38 bp):
AAAATATTAATATTAAAAATTAAAAAATATTAAAATAA
Found at i:21710778 original size:32 final size:30
Alignment explanation
Indices: 21710727--21710787 Score: 95
Period size: 32 Copynumber: 2.0 Consensus size: 30
21710717 TACATCATAT
*
21710727 ATCTATTATTTTTTAAATATTTATATTTGA
1 ATCTATTAATTTTTAAATATTTATATTTGA
21710757 ATCTATTTAATTTTTATAATATTTATATTTG
1 ATCTA-TTAATTTTTA-AATATTTATATTTG
21710788 TTTAAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 5 0.18
31 9 0.32
32 14 0.50
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (30 bp):
ATCTATTAATTTTTAAATATTTATATTTGA
Found at i:21710916 original size:12 final size:12
Alignment explanation
Indices: 21710899--21710941 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
21710889 ATTACTTAAA
21710899 TTTAAATATTAT
1 TTTAAATATTAT
21710911 TTTAAATATTA-
1 TTTAAATATTAT
21710922 -TTAAA-A-TAT
1 TTTAAATATTAT
21710931 TTTAAATATTA
1 TTTAAATATTA
21710942 AAAAAGAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
8 2 0.07
9 1 0.04
10 10 0.37
11 1 0.04
12 13 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TTTAAATATTAT
Found at i:21712820 original size:36 final size:36
Alignment explanation
Indices: 21712773--21712848 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
21712763 ATATGATAGT
*
21712773 CAACTATAAAACCATTAATTACGCCAATCTAAAGAC
1 CAACTATAAAACCATTAATTACGCCAATCCAAAGAC
21712809 CAACTATAAAACCATTAATTACGCCAATCCAAAGAC
1 CAACTATAAAACCATTAATTACGCCAATCCAAAGAC
21712845 CAAC
1 CAAC
21712849 AGTATCATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.47, C:0.28, G:0.05, T:0.20
Consensus pattern (36 bp):
CAACTATAAAACCATTAATTACGCCAATCCAAAGAC
Found at i:21726027 original size:41 final size:41
Alignment explanation
Indices: 21725967--21726051 Score: 107
Period size: 41 Copynumber: 2.1 Consensus size: 41
21725957 AATGAAATAT
* * * *
21725967 CTATAATAAAGATCCAATTTTAATATATTACAAGAGAGCAA
1 CTATAATAAAGATCCAATTTAAACATATTACAAGAAAGAAA
* * *
21726008 CTATAATAAGGATCTAATTTAAACATATTATAAGAAAGAAA
1 CTATAATAAAGATCCAATTTAAACATATTACAAGAAAGAAA
21726049 CTA
1 CTA
21726052 ATTTCACCGT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (41 bp):
CTATAATAAAGATCCAATTTAAACATATTACAAGAAAGAAA
Found at i:21726586 original size:27 final size:24
Alignment explanation
Indices: 21726553--21726608 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 24
21726543 TTAAAAACTT
21726553 ATAAATATGATATAAATTAAAATTTGA
1 ATAAATATGATATAAA-T-AAATTT-A
* *
21726580 ATAAATATTATATATATAAATTTA
1 ATAAATATGATATAAATAAATTTA
21726604 ATAAA
1 ATAAA
21726609 AAATATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 6 0.22
25 6 0.22
26 1 0.04
27 14 0.52
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (24 bp):
ATAAATATGATATAAATAAATTTA
Found at i:21730404 original size:5 final size:5
Alignment explanation
Indices: 21730395--21730428 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
21730385 TCTCTTCTTT
*
21730395 CAAAA -AAAA AAAAA CAAAA CAAAA CAAAA CAAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA
21730429 ACCAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:21730650 original size:23 final size:24
Alignment explanation
Indices: 21730620--21730680 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
21730610 AAAAAACTCA
*
21730620 AAAAGTAAAAAAAA-TTAAAAATT
1 AAAAGTAAAAAAAAGTCAAAAATT
*
21730643 AAAAGTAAAAAAAAGTCAAAAGTT
1 AAAAGTAAAAAAAAGTCAAAAATT
**
21730667 AAAAAAAAAAAAAA
1 AAAAGTAAAAAAAA
21730681 AAGAAAACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
23 14 0.42
24 19 0.58
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.15
Consensus pattern (24 bp):
AAAAGTAAAAAAAAGTCAAAAATT
Found at i:21730656 original size:17 final size:18
Alignment explanation
Indices: 21730636--21730675 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
21730626 AAAAAAAATT
*
21730636 AAAAATTAAAAG-TAAAA
1 AAAAATCAAAAGTTAAAA
*
21730653 AAAAGTCAAAAGTTAAAA
1 AAAAATCAAAAGTTAAAA
21730671 AAAAA
1 AAAAA
21730676 AAAAAAAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (18 bp):
AAAAATCAAAAGTTAAAA
Found at i:21736498 original size:26 final size:25
Alignment explanation
Indices: 21736451--21736506 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
21736441 TTGATTAAAA
21736451 AGAAAAAGAAATAAAAAGAAAAGATG
1 AGAAAAAGAAATAAAAAGAAAA-ATG
**
21736477 AGAAAAAGATGTACAAAA-AAAAATG
1 AGAAAAAGAAATA-AAAAGAAAAATG
21736502 A-AAAA
1 AGAAAA
21736507 GCAAAAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 4 0.15
25 4 0.15
26 15 0.56
27 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.16, T:0.09
Consensus pattern (25 bp):
AGAAAAAGAAATAAAAAGAAAAATG
Found at i:21737252 original size:19 final size:19
Alignment explanation
Indices: 21737228--21737265 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
21737218 TCTAGGCCCA
21737228 AGTAGGCCTATTGGTGTCT
1 AGTAGGCCTATTGGTGTCT
*
21737247 AGTAGGCTTATTGGTGTCT
1 AGTAGGCCTATTGGTGTCT
21737266 GAACCCAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.13, G:0.32, T:0.39
Consensus pattern (19 bp):
AGTAGGCCTATTGGTGTCT
Found at i:21737429 original size:24 final size:26
Alignment explanation
Indices: 21737368--21737429 Score: 51
Period size: 24 Copynumber: 2.4 Consensus size: 26
21737358 GTATACATTT
21737368 ATATTTATA--TTATTATTATTATTATTC
1 ATATTTATACTTTATTATTA-T--TATTC
21737395 ATATTTATACTTTATT-TTATT-TTC
1 ATATTTATACTTTATTATTATTATTC
* *
21737419 ATTTTTTTACT
1 ATATTTATACT
21737430 ATTTTCCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
24 12 0.39
25 1 0.03
27 10 0.32
28 3 0.10
29 5 0.16
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.66
Consensus pattern (26 bp):
ATATTTATACTTTATTATTATTATTC
Found at i:21737852 original size:21 final size:21
Alignment explanation
Indices: 21737826--21737875 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
21737816 TTATGGGAAT
*
21737826 AATTTGGGCAAAA-TTTGGAGA
1 AATTTGGG-AAAAGTTTGAAGA
21737847 AATTTGGGAAAAGTTTGAAGA
1 AATTTGGGAAAAGTTTGAAGA
21737868 AATTTGGG
1 AATTTGGG
21737876 TTTTTCTGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.38, C:0.02, G:0.30, T:0.30
Consensus pattern (21 bp):
AATTTGGGAAAAGTTTGAAGA
Found at i:21738360 original size:10 final size:8
Alignment explanation
Indices: 21738270--21738311 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
21738260 TAATCACAGG
*
21738270 TTTTTCTT
1 TTTTTATT
*
21738278 TTTTCATT
1 TTTTTATT
21738286 TTTTTATT
1 TTTTTATT
21738294 TTTTTATT
1 TTTTTATT
21738302 TTTTTATT
1 TTTTTATT
21738310 TT
1 TT
21738312 ATTTTTAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTATT
Found at i:21738435 original size:24 final size:24
Alignment explanation
Indices: 21738406--21738508 Score: 91
Period size: 24 Copynumber: 4.0 Consensus size: 24
21738396 AATGAGATTC
21738406 AATAAAAAAATATTTTCAAATAAA
1 AATAAAAAAATATTTTCAAATAAA
* *
21738430 AATAAAAATATCTTTTCAAATAAA
1 AATAAAAAAATATTTTCAAATAAA
**
21738454 AATTTTCAAAAAAATCCTTTC-AATAAA
1 AA---T-AAAAAAATATTTTCAAATAAA
21738481 AATAAAAATATATATGTTTTCAAATAAA
1 AATAAAAA-A-ATA--TTTTCAAATAAA
21738509 CAAAAATATT
Statistics
Matches: 64, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
23 5 0.08
24 26 0.41
25 2 0.03
27 13 0.20
28 18 0.28
ACGTcount: A:0.58, C:0.08, G:0.01, T:0.33
Consensus pattern (24 bp):
AATAAAAAAATATTTTCAAATAAA
Found at i:21748929 original size:50 final size:50
Alignment explanation
Indices: 21748823--21748950 Score: 127
Period size: 50 Copynumber: 2.5 Consensus size: 50
21748813 AGAAGTACTT
* * *
21748823 TGCTTGAACTAAAAAAAAAAAAAAGAGTTCAAGTTGAAAACTTGAAAGGC
1 TGCTTGAACCAAAAAAAAAAAAAAGAGTTCAAGTTAAAAACTTGAAAGAC
* *
21748873 TGCTTGAACCCAAAAAAAAAAGAA-AGTTCAAGTTAAAAA-TCTGAAAAGAC
1 TGCTTGAACCAAAAAAAAAAAAAAGAGTTCAAGTTAAAAACT-TG-AAAGAC
21748923 -GACTTGAACCTACCAAAAAAATAAAAAA
1 TG-CTTGAACC-A--AAAAAAA-AAAAAA
21748951 AAGGGTAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
48 1 0.02
49 17 0.27
50 34 0.53
53 7 0.11
54 5 0.08
ACGTcount: A:0.55, C:0.13, G:0.14, T:0.18
Consensus pattern (50 bp):
TGCTTGAACCAAAAAAAAAAAAAAGAGTTCAAGTTAAAAACTTGAAAGAC
Found at i:21749564 original size:41 final size:41
Alignment explanation
Indices: 21749504--21749685 Score: 195
Period size: 41 Copynumber: 4.4 Consensus size: 41
21749494 ATAAAAATAA
* * * *
21749504 GCATTTAGGCTGATAAAAAATGATTTTTTTGCTAAAGATAT
1 GCATTCAGGTTGATAAAAAATGATTTTTTTGCCAAAGATGT
* * *
21749545 GCATTCAGGTTGATGAAAAAGGGTTTTTTTGCCAAAGATGT
1 GCATTCAGGTTGATAAAAAATGATTTTTTTGCCAAAGATGT
* *
21749586 GCCTTCAGGTTGATAAAAAAATGATTTTTTTTACCAAAGATGT
1 GCATTCAGGTTGAT-AAAAAATGA-TTTTTTTGCCAAAGATGT
* ** * * *
21749629 GCATTTAGACTGATAAAAGATGGTTTCTTTGCC-AAGATGT
1 GCATTCAGGTTGATAAAAAATGATTTTTTTGCCAAAGATGT
*
21749669 GCATTCAAGTTGATAAA
1 GCATTCAGGTTGATAAA
21749686 GGATGGTTTC
Statistics
Matches: 115, Mismatches: 24, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
40 20 0.17
41 55 0.48
42 13 0.11
43 27 0.23
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (41 bp):
GCATTCAGGTTGATAAAAAATGATTTTTTTGCCAAAGATGT
Found at i:21749681 original size:83 final size:83
Alignment explanation
Indices: 21749514--21749685 Score: 215
Period size: 84 Copynumber: 2.1 Consensus size: 83
21749504 GCATTTAGGC
* * ** *
21749514 TGAT-AAAAAATGATTTTTTTGCTAAAGATATGCATTCAGGTTGATGAAAAAGGGTTTTTTTGCC
1 TGATAAAAAAATGATTTTTTTACCAAAGATATGCATTCAGACTGATGAAAAAGGGTTTCTTTGCC
* *
21749578 AAAGATGTGCCTTCAGGT
66 AAAGATGTGCATTCAAGT
* * *
21749596 TGATAAAAAAATGATTTTTTTTACCAAAGATGTGCATTTAGACTGAT-AAAAGATGGTTTCTTTG
1 TGATAAAAAAATGA-TTTTTTTACCAAAGATATGCATTCAGACTGATGAAAA-AGGGTTTCTTTG
21749660 CC-AAGATGTGCATTCAAGT
64 CCAAAGATGTGCATTCAAGT
21749679 TGATAAA
1 TGATAAA
21749686 GGATGGTTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
82 4 0.05
83 35 0.45
84 38 0.49
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (83 bp):
TGATAAAAAAATGATTTTTTTACCAAAGATATGCATTCAGACTGATGAAAAAGGGTTTCTTTGCC
AAAGATGTGCATTCAAGT
Found at i:21750107 original size:118 final size:118
Alignment explanation
Indices: 21749875--21750403 Score: 481
Period size: 119 Copynumber: 4.4 Consensus size: 118
21749865 TTATATTATC
* * * * * * *
21749875 CGATCACTTGATCTTGACTCAATTCAGATTATTTCTTATGATTCGTGATTTCATTCTGGTCATTA
1 CGATCACTTGATCTTGGCT-TATCCAGATCATTTCTTATGATTCGTGATTTCATCCTGATCATTT
* * * *
21749940 ATTTTTGACCTCATCTCGATCCTAGTCACTTTACTTTGACTCATAGTTTCATC-
65 ATTTTTGACCTCAACTCGATCCTGGTCACTTTATTTTGACTCATGGTTTCATCT
* * * * *
21749993 CTAGTCACTTGATCTTGGCTTATCCAGATCATTTTTTATGATTCATAATTTCGTCCTGATCATTT
1 CGA-TCACTTGATCTTGGCTTATCCAGATCATTTCTTATGATTCGTGATTTCATCCTGATCATTT
* ** * *
21750058 ATTTTTGACCTCAACTCAATTTTGGTTACTTTATTTTGACTCGTGGTTTCATCT
65 ATTTTTGACCTCAACTCGATCCTGGTCACTTTATTTTGACTCATGGTTTCATCT
* * * * * * *
21750112 CGATCACTTGATCTTGGCTCAGTCCAAATCATTTATTATGATTTGTGGTTCCATCTTGATCATTT
1 CGATCACTTGATCTTGGCTTA-TCCAGATCATTTCTTATGATTCGTGATTTCATCCTGATCATTT
* * ** * *
21750177 ATTTTTAACATTGACTCGATCCTGATCACTTTATTTTGACTTATGGTTTCATCT
65 ATTTTTGACCTCAACTCGATCCTGGTCACTTTATTTTGACTCATGGTTTCATCT
* * * * *
21750231 CGATTACTTGATCTTGGCTTTGTCCAGATCATTTCTTATAATTCGTGGTTTCATCCTAATCATTT
1 CGATCACTTGATCTTGGC-TTATCCAGATCATTTCTTATGATTCGTGATTTCATCCTGATCATTT
** * * * * * * * **
21750296 ATTTTCAATCTCAACTTGGTCCTGATCGC-TTATTTTTTACTCATGATTTTGTC-
65 ATTTTTGACCTCAACTCGATCCTGGTCACTTTA-TTTTGACTCATGGTTTCATCT
* * *
21750349 CCAGTCACTTGATCTTAGCTTAGTCCAAATCATTTCTTATGATTCGT-AGTTTCAT
1 CGA-TCACTTGATCTTGGCTTA-TCCAGATCATTTCTTATGATTCGTGA-TTTCAT
21750404 TTTGAACACT
Statistics
Matches: 330, Mismatches: 73, Indels: 15
0.79 0.17 0.04
Matches are distributed among these distances:
118 105 0.32
119 224 0.68
120 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.46
Consensus pattern (118 bp):
CGATCACTTGATCTTGGCTTATCCAGATCATTTCTTATGATTCGTGATTTCATCCTGATCATTTA
TTTTTGACCTCAACTCGATCCTGGTCACTTTATTTTGACTCATGGTTTCATCT
Found at i:21750331 original size:237 final size:235
Alignment explanation
Indices: 21749872--21750456 Score: 550
Period size: 238 Copynumber: 2.5 Consensus size: 235
21749862 CATTTATATT
* * * * * * *
21749872 ATCCGATCACTTGATCTTGACTCAATTCAGATTATTTCTTATGATTCGTGATTTCATTCTGGTCA
1 ATCCGATCACTTGATCTTGGCTCAGTCCAAATCATTTCTTATGATTCGTGGTTTCATT-TGATCA
* * * * * * *
21749937 TTAATTTTTGACCTCATCTCGATCCT-AGTCACTTTACTTTGACTCATAGTTTCATCCTAGTCAC
65 TTTATTTTTAACTTGA-CTCGATCCTGA-TCACTTTATTTTGACTTATAGTTTCATCCGAGTCAC
* * * * **
21750001 TTGATCTTGGCTTATCCAGATCATTTTTTATGATTCATAATTTCGTCCTGATCATTTATTTTTGA
128 TTGATCTTGGCTTATCCAGATCATTTCTTATAATTCATAATTTCATCCTAATCATTTATTTTCAA
** * * * *
21750066 CCTCAACTCAATTTTGGTTACTTTA-TTTTGACTCGTGGTTTC
193 CCTCAACTCAATCCTGATCACTTTATTTTTGACTCATGATTTC
* * *
21750108 ATCTCGATCACTTGATCTTGGCTCAGTCCAAATCATTTATTATGATTTGTGGTTCCATCTTGATC
1 ATC-CGATCACTTGATCTTGGCTCAGTCCAAATCATTTCTTATGATTCGTGGTTTCAT-TTGATC
* *
21750173 ATTTATTTTTAACATTGACTCGATCCTGATCACTTTATTTTGACTTATGGTTTCATCTCGA-TTA
64 ATTTATTTTTAAC-TTGACTCGATCCTGATCACTTTATTTTGACTTATAGTTTCATC-CGAGTCA
* * **
21750237 CTTGATCTTGGCTTTGTCCAGATCATTTCTTATAATTCGTGGTTTCATCCTAATCATTTATTTTC
127 CTTGATCTTGGC-TTATCCAGATCATTTCTTATAATTCATAATTTCATCCTAATCATTTATTTTC
* *** * * *
21750302 AATCTCAACTTGGTCCTGATCGC-TTATTTTTTACTCATGATTTT
191 AACCTCAACTCAATCCTGATCACTTTATTTTTGACTCATGATTTC
* * * * * *
21750346 GTCCCAGTCACTTGATCTTAGCTTAGTCCAAATCATTTCTTATGATTCGTAGTTTCATTTTGAAC
1 ATCCGA-TCACTTGATCTTGGCTCAGTCCAAATCATTTCTTATGATTCGTGGTTTCA-TTTGATC
* * * * *
21750411 ACTTATTTTCAACCTTGA-TCCAGTCTTGATCACTTTATCTTGACTT
64 ATTTATTTTTAA-CTTGACTCGA-TCCTGATCACTTTATTTTGACTT
21750457 GTATTTTAGT
Statistics
Matches: 282, Mismatches: 56, Indels: 20
0.79 0.16 0.06
Matches are distributed among these distances:
236 3 0.01
237 116 0.41
238 161 0.57
239 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (235 bp):
ATCCGATCACTTGATCTTGGCTCAGTCCAAATCATTTCTTATGATTCGTGGTTTCATTTGATCAT
TTATTTTTAACTTGACTCGATCCTGATCACTTTATTTTGACTTATAGTTTCATCCGAGTCACTTG
ATCTTGGCTTATCCAGATCATTTCTTATAATTCATAATTTCATCCTAATCATTTATTTTCAACCT
CAACTCAATCCTGATCACTTTATTTTTGACTCATGATTTC
Found at i:21750469 original size:119 final size:119
Alignment explanation
Indices: 21750115--21750475 Score: 324
Period size: 119 Copynumber: 3.0 Consensus size: 119
21750105 TTCATCTCGA
* * * * *
21750115 TCACTTGATCTTGGCTCAGTCCAAATCATTTATTATGATTTGTGGTTCCATCTTGATCATTTATT
1 TCACTTGATCTTGGCTTAGTCCAAATCATTTCTTATGATTCGTGGTTTCATCTTGAACATTTATT
* * * * * * *
21750180 TTTAACATTGACTCGA-TCCTGATCACTTTATTTTGACTTATGGTTTCA-TCTC-G
66 TTCAACCTTGA-TCCAGTCCTGATCACTTTATTTTGACTTGT-ATTTTAGTCCCAG
* * * * *
21750233 ATTACTTGATCTTGGCTTTGTCCAGATCATTTCTTATAATTCGTGGTTTCATCCT-AATCATTTA
1 -TCACTTGATCTTGGCTTAGTCCAAATCATTTCTTATGATTCGTGGTTTCATCTTGAA-CATTTA
* * * ** * *
21750297 TTTTCAATC-TCAACTTGGTCCTGATCGC-TTATTTTTTACTCATG-ATTTT-GTCCCAG
64 TTTTCAACCTTGATC-CAGTCCTGATCACTTTA-TTTTGACT--TGTATTTTAGTCCCAG
* * * *
21750353 TCACTTGATCTTAGCTTAGTCCAAATCATTTCTTATGATTCGTAGTTTCATTTTGAACACTTATT
1 TCACTTGATCTTGGCTTAGTCCAAATCATTTCTTATGATTCGTGGTTTCATCTTGAACATTTATT
* *
21750418 TTCAACCTTGATCCAGTCTTGATCACTTTATCTTGACTTGTATTTTAGTCCCAG
66 TTCAACCTTGATCCAGTCCTGATCACTTTATTTTGACTTGTATTTTAGTCCCAG
21750472 TCAC
1 TCAC
21750476 CCAATCTTGG
Statistics
Matches: 188, Mismatches: 41, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
117 3 0.02
118 11 0.06
119 164 0.87
120 9 0.05
121 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.45
Consensus pattern (119 bp):
TCACTTGATCTTGGCTTAGTCCAAATCATTTCTTATGATTCGTGGTTTCATCTTGAACATTTATT
TTCAACCTTGATCCAGTCCTGATCACTTTATTTTGACTTGTATTTTAGTCCCAG
Found at i:21761304 original size:14 final size:14
Alignment explanation
Indices: 21761285--21761315 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
21761275 AGAGGATGGG
*
21761285 AAAGGAAGGGTGGA
1 AAAGGAAGAGTGGA
21761299 AAAGGAAGAGTGGA
1 AAAGGAAGAGTGGA
21761313 AAA
1 AAA
21761316 TAATTCTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.42, T:0.06
Consensus pattern (14 bp):
AAAGGAAGAGTGGA
Found at i:21763819 original size:35 final size:35
Alignment explanation
Indices: 21763780--21763849 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
21763770 TAATTTACTT
*
21763780 TTTTATACTTTATTTTTTCAAAAT-AAAATTTATAA
1 TTTTATACTTTATTTTTTC-AAATCAAAATTAATAA
**
21763815 TTTTATTTTTTATTTTTTCAAATCAAAATTAATAA
1 TTTTATACTTTATTTTTTCAAATCAAAATTAATAA
21763850 GTATTTCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 4 0.13
35 27 0.87
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (35 bp):
TTTTATACTTTATTTTTTCAAATCAAAATTAATAA
Found at i:21764097 original size:23 final size:24
Alignment explanation
Indices: 21764054--21764098 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
21764044 TAAACTTATT
*
21764054 TATTTAATTTTTGAATATATTACA
1 TATTTAATTTTTAAATATATTACA
21764078 TATTT-ATTTTGTAAAT-TATTA
1 TATTTAATTTT-TAAATATATTA
21764099 ATAATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (24 bp):
TATTTAATTTTTAAATATATTACA
Found at i:21764337 original size:157 final size:157
Alignment explanation
Indices: 21764133--21764446 Score: 425
Period size: 157 Copynumber: 2.0 Consensus size: 157
21764123 TACATGTTTA
* * *
21764133 TAAATATGCTTATACTAAATCAAAAAAAATTTAGAATAATATATCAAAATAACTGATATCGATAT
1 TAAATATACTTATACTAAATC-AAAAAAATTTAAAATAATATATCAAAATAACTAATATCGATAT
* * * *
21764198 ATACAATATTTTTATAAAAAATCGAATGTCATCCGA-TACGATATTAATAATTTTAGGTAAAATT
65 ATACAATATTTTTATAAAAAATCGAACGTCAT-CGATTACGATAATAATAATCTTAGCTAAAATT
*
21764262 TTAAATTTTACTATTTTATTTAGATAAAT
129 TTAAATTTTACTATTTTATTTAAATAAAT
* * * *
21764291 TAAATATATTTATACTAAAATC-AAAAAATTTAAAATAATATGTCAAAATAACTAATTTTGATAT
1 TAAATATACTTATACT-AAATCAAAAAAATTTAAAATAATATATCAAAATAACTAATATCGATAT
* * * * * *
21764355 ATACCATATTTTTATAAAACATTGAACGTTATCTATTATGATAATAATAATCTTAGCTAAAATTT
65 ATACAATATTTTTATAAAAAATCGAACGTCATCGATTACGATAATAATAATCTTAGCTAAAATTT
21764420 TAAATTTTACTATTTTATTTAAATAAA
130 TAAATTTTACTATTTTATTTAAATAAA
21764447 GCATTATGTT
Statistics
Matches: 136, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
156 2 0.01
157 115 0.85
158 14 0.10
159 5 0.04
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.40
Consensus pattern (157 bp):
TAAATATACTTATACTAAATCAAAAAAATTTAAAATAATATATCAAAATAACTAATATCGATATA
TACAATATTTTTATAAAAAATCGAACGTCATCGATTACGATAATAATAATCTTAGCTAAAATTTT
AAATTTTACTATTTTATTTAAATAAAT
Found at i:21764514 original size:30 final size:29
Alignment explanation
Indices: 21764478--21764559 Score: 119
Period size: 30 Copynumber: 2.8 Consensus size: 29
21764468 TAAATTGACT
* *
21764478 TTAATTTATATTTAAATAATTTTTTAATTA
1 TTAATTTATATTTAAATAAATTTTT-ACTA
*
21764508 TTAATTTGTATTTAAATAAAATTTTTACTA
1 TTAATTTATATTTAAAT-AAATTTTTACTA
21764538 TTAATTTATATTTAAATAAATT
1 TTAATTTATATTTAAATAAATT
21764560 ATTATAGTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
29 5 0.11
30 35 0.74
31 7 0.15
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (29 bp):
TTAATTTATATTTAAATAAATTTTTACTA
Found at i:21764579 original size:30 final size:30
Alignment explanation
Indices: 21764480--21764580 Score: 91
Period size: 30 Copynumber: 3.4 Consensus size: 30
21764470 AATTGACTTT
* * * *
21764480 AATTTATATTTAAAT-AATTTTTTAATTATT
1 AATTTATATTTAAATAAAATTATT-ACTATA
* * *
21764510 AATTTGTATTTAAATAAAATTTTTACTATT
1 AATTTATATTTAAATAAAATTATTACTATA
21764540 AATTTATATTTAAAT-AAATTATTA-TAGTA
1 AATTTATATTTAAATAAAATTATTACTA-TA
21764569 AATTTAATATTT
1 AATTT-ATATTT
21764581 TATTTAAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
28 2 0.03
29 14 0.23
30 39 0.63
31 7 0.11
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (30 bp):
AATTTATATTTAAATAAAATTATTACTATA
Found at i:21764592 original size:66 final size:60
Alignment explanation
Indices: 21764478--21764598 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 60
21764468 TAAATTGACT
*
21764478 TTAATTTATATTTAAATAATTTTTTAATTATTAATTTGTATTTAAATAAAATTTTTACTA
1 TTAATTTATATTTAAATAATTTTTTAAATATTAATTTGTATTTAAATAAAATTTTTACTA
*
21764538 TTAATTTATATTTAAATAAATTATTATAGTAAAT-TTAATATTTTATTTAAAATAAAATTTT
1 TTAATTTATATTTAAAT-AATT-TT-T--TAAATATTAAT-TTGTATTT-AAATAAAATTTT
21764599 ATTTAAGTAC
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
60 17 0.33
61 4 0.08
62 2 0.04
63 1 0.02
64 5 0.10
65 11 0.21
66 12 0.23
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.55
Consensus pattern (60 bp):
TTAATTTATATTTAAATAATTTTTTAAATATTAATTTGTATTTAAATAAAATTTTTACTA
Found at i:21765831 original size:8 final size:8
Alignment explanation
Indices: 21765818--21765846 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
21765808 GTTTGATAAA
21765818 AATATTTT
1 AATATTTT
21765826 AATATTTT
1 AATATTTT
21765834 AATATTTT
1 AATATTTT
21765842 -ATATT
1 AATATT
21765847 GTTATTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.24
8 16 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
AATATTTT
Found at i:21768952 original size:10 final size:10
Alignment explanation
Indices: 21768933--21768965 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
21768923 TCGAATTAAA
21768933 TTATATATTT
1 TTATATATTT
21768943 TTAT-TAATTT
1 TTATAT-ATTT
21768953 TTATATATTT
1 TTATATATTT
21768963 TTA
1 TTA
21768966 AAAATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 1 0.05
10 19 0.90
11 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTATATATTT
Found at i:21768971 original size:20 final size:20
Alignment explanation
Indices: 21768933--21768973 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
21768923 TCGAATTAAA
**
21768933 TTATATATTTTTATTAATTT
1 TTATATATTTTTAAAAATTT
21768953 TTATATATTTTTAAAAATTT
1 TTATATATTTTTAAAAATTT
21768973 T
1 T
21768974 ATAAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATATATTTTTAAAAATTT
Found at i:21769037 original size:22 final size:23
Alignment explanation
Indices: 21769002--21769048 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
21768992 TTTTAGATCT
*
21769002 AAATATATTTAAAT-ATAT-TAA
1 AAATATATTAAAATAATATATAA
21769023 AAATCATATTAAAATAATATATAA
1 AAAT-ATATTAAAATAATATATAA
21769047 AA
1 AA
21769049 TTTTAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 9 0.41
23 4 0.18
24 5 0.23
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATATATTAAAATAATATATAA
Found at i:21779047 original size:13 final size:13
Alignment explanation
Indices: 21779029--21779053 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21779019 GGTGCCACTT
21779029 TTTTTTTTTTTTG
1 TTTTTTTTTTTTG
21779042 TTTTTTTTTTTT
1 TTTTTTTTTTTT
21779054 TCACTCCTGT
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:0.00, C:0.00, G:0.04, T:0.96
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:21779047 original size:14 final size:14
Alignment explanation
Indices: 21779028--21779054 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21779018 TGGTGCCACT
21779028 TTTTTTTTTTTTTG
1 TTTTTTTTTTTTTG
21779042 TTTTTTTTTTTTT
1 TTTTTTTTTTTTT
21779055 CACTCCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.04, T:0.96
Consensus pattern (14 bp):
TTTTTTTTTTTTTG
Found at i:21781410 original size:9 final size:9
Alignment explanation
Indices: 21781392--21781425 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
21781382 TAAATACACA
21781392 TTTAACATG
1 TTTAACATG
*
21781401 TTTAATATG
1 TTTAACATG
*
21781410 TTTAACATA
1 TTTAACATG
21781419 TTTAACA
1 TTTAACA
21781426 AATTTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (9 bp):
TTTAACATG
Found at i:21781950 original size:29 final size:31
Alignment explanation
Indices: 21781882--21781955 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 31
21781872 ACATATTTCT
* *
21781882 GTTAATCATATCTATTCATATATATCTATGA
1 GTTATTCATATATATTCATATATATCTATGA
* *
21781913 -TAATT-ATATATATTCATGTATAT-T-TGA
1 GTTATTCATATATATTCATATATATCTATGA
*
21781940 GTTATTCATATTTATT
1 GTTATTCATATATATT
21781956 TGTATTATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
27 3 0.09
28 5 0.14
29 24 0.69
30 3 0.09
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (31 bp):
GTTATTCATATATATTCATATATATCTATGA
Found at i:21783247 original size:6 final size:6
Alignment explanation
Indices: 21783236--21783319 Score: 54
Period size: 6 Copynumber: 14.5 Consensus size: 6
21783226 TTATTTTTTA
* * *
21783236 AAATAT AAATAT TATTTT TAAATAT AAATAT AAACT-T AAATAT --ATAT
1 AAATAT AAATAT AAATAT -AAATAT AAATAT AAA-TAT AAATAT AAATAT
* *
21783283 AAA-AT ATATAT AAATAT AAA-AT TAA-AT AAATAAT AAA
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAAT-AT AAA
21783320 AAATTATATA
Statistics
Matches: 60, Mismatches: 10, Indels: 15
0.71 0.12 0.18
Matches are distributed among these distances:
4 4 0.07
5 13 0.22
6 34 0.57
7 9 0.15
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (6 bp):
AAATAT
Found at i:21783258 original size:19 final size:21
Alignment explanation
Indices: 21783218--21783266 Score: 75
Period size: 19 Copynumber: 2.4 Consensus size: 21
21783208 TTCAAAATTA
21783218 ATAAATTATTATTTTTTAAAAT
1 ATAAA-TATTATTTTTTAAAAT
21783240 ATAAATATTA-TTTTT-AAAT
1 ATAAATATTATTTTTTAAAAT
21783259 ATAAATAT
1 ATAAATAT
21783267 AAACTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.44
20 5 0.19
21 5 0.19
22 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAAATATTATTTTTTAAAAT
Found at i:21783289 original size:11 final size:10
Alignment explanation
Indices: 21783257--21783300 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
21783247 TTATTTTTAA
21783257 ATATAAATAT
1 ATATAAATAT
*
21783267 AAACTTAAATAT
1 ATA--TAAATAT
21783279 ATATAAAATAT
1 ATAT-AAATAT
21783290 ATATAAATAT
1 ATATAAATAT
21783300 A
1 A
21783301 AAATTAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
10 10 0.34
11 10 0.34
12 9 0.31
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (10 bp):
ATATAAATAT
Found at i:21783299 original size:33 final size:35
Alignment explanation
Indices: 21783257--21783329 Score: 105
Period size: 33 Copynumber: 2.1 Consensus size: 35
21783247 TTATTTTTAA
* * *
21783257 ATATAAATATAAACTTAAATATAT-ATAAAATA-T
1 ATATAAATATAAAATTAAATAAATAATAAAAAATT
21783290 ATATAAATATAAAATTAAATAAATAATAAAAAATT
1 ATATAAATATAAAATTAAATAAATAATAAAAAATT
21783325 ATATA
1 ATATA
21783330 TAAACCGAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 22 0.63
34 7 0.20
35 6 0.17
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (35 bp):
ATATAAATATAAAATTAAATAAATAATAAAAAATT
Found at i:21783332 original size:17 final size:17
Alignment explanation
Indices: 21783257--21783332 Score: 68
Period size: 17 Copynumber: 4.5 Consensus size: 17
21783247 TTATTTTTAA
*
21783257 ATATA-AATATAAACTT
1 ATATATAATATAAAATT
*
21783273 AAATAT-ATATAAAA-T
1 ATATATAATATAAAATT
21783288 ATATATAAATATAAAATT
1 ATATAT-AATATAAAATT
* *
21783306 AAATAAATAATAAAAAATT
1 --ATATATAATATAAAATT
21783325 ATATATAA
1 ATATATAA
21783333 ACCGAGTTGG
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
15 6 0.12
16 11 0.23
17 15 0.31
18 1 0.02
19 10 0.21
20 5 0.10
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (17 bp):
ATATATAATATAAAATT
Found at i:21783742 original size:16 final size:17
Alignment explanation
Indices: 21783723--21783758 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
21783713 TCTTCTTAAA
21783723 ATTATAA-TTATTTTAT
1 ATTATAATTTATTTTAT
*
21783739 ATTATAATTTTTTTTAT
1 ATTATAATTTATTTTAT
21783756 ATT
1 ATT
21783759 TTTCAAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTATAATTTATTTTAT
Found at i:21785331 original size:26 final size:26
Alignment explanation
Indices: 21785302--21785357 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 26
21785292 ATTATAAAAT
*
21785302 TTTAAT-AATCAATACAAAAAATTATA
1 TTTAATAAATCAATAAAAAAAATT-TA
* **
21785328 TTTATTAAATTTATAAAAAAAATTTA
1 TTTAATAAATCAATAAAAAAAATTTA
21785354 TTTA
1 TTTA
21785358 TTATTTTATC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (26 bp):
TTTAATAAATCAATAAAAAAAATTTA
Found at i:21786869 original size:17 final size:18
Alignment explanation
Indices: 21786849--21786890 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
21786839 TAATAAAATT
21786849 AATTAATTTATAATA-AA
1 AATTAATTTATAATATAA
* * *
21786866 AATTTATTTATTATATTA
1 AATTAATTTATAATATAA
21786884 AATTAAT
1 AATTAAT
21786891 AAAAGTATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTAATTTATAATATAA
Found at i:21791561 original size:473 final size:475
Alignment explanation
Indices: 21790623--21791573 Score: 1412
Period size: 473 Copynumber: 2.0 Consensus size: 475
21790613 TATAGCTTTT
* * * * *
21790623 GTTCACTAATATTAGGAATGAGAAATTATGCGTATTCCAAAAAGAAATACCATGAGACCAGAAAA
1 GTTCACTAATATCAGGAATAAGAAATTATACGCATTACAAAAAGAAATACCATGAGACCAGAAAA
*
21790688 ATTGCAGCGTGCTATTGCCATTTAATGTAACGTTTAAGCCCATAGCCCCAAATTTAACAGCAGAA
66 ATTGCAGCATGCTATTGCCATTTAATGTAACGTTTAAGCCCATAGCCCCAAATTTAACAGCAGAA
* * * * *
21790753 CAGGCGGGCAATAAATAGCAAATGTTCATGTTGCAGCATTGTATGCTTGGGCAAATAAACTGTTA
131 CAGGCGGCCAATAAATAGCAAATGTTCACGTTGCAACACTGCATGCTTGGGCAAATAAACTGTTA
* * * *
21790818 TACAACATATAGGGGGGTGAAAGGTGCACAAAGTTGTGATTACTGCTCTTGCTAGTCTTTCTAAT
196 TACAACATATAGGGAGGTGAAAGGTGCACAAAGTTGTGATTACTGCTCTTGCCAATCTTTCTAAC
*
21790883 ATAATAGCTAATTAGTTGAACAGCAGATTTATGGTTCTGGACCATGGACATTTATTTTCTATTTG
261 ATAATAGCTAATTAGTTGAACAGCAGATTTATAGTTCTGGACCATGGACATTTATTTTCTATTTG
* * *
21790948 TCAAAAGTGTTCCTCAAATAGTCTGTCCAGTCCGATGGCTGACATCATATTAGGTTCTTTGAATT
326 TCAAAAGTGTTCCTCAAATAGTCTGTCCAGTCCAATGGCTGACATCATATTAGGCTCTTTGAACT
* * *
21791013 TTTAGATTTGGGTCGATGGGAGGTTAATTCACTGGGTTATCTAATTTCTACATTAAATTTAACAT
391 TTTAGAATAGGGTCGATGAGAGGTTAATTCACTGGGTTATCTAATTTCTACATTAAATTTAACAT
*
21791078 GACCTAAGGAGCCTTTCTAG
456 GACCTAAGGAGCCCTTCTAG
* * *
21791098 GTTCACT-ATATCAGGAATAAGAAATTATACGCCTTACAAAAATAAATACCATGAGATCAGAAAA
1 GTTCACTAATATCAGGAATAAGAAATTATACGCATTACAAAAAGAAATACCATGAGACCAGAAAA
* *
21791162 ATTGCAGCATGCTATTGCCATTTAATGTGATGTTTAAGCCCATAGCCCCAAATTT-A-A-CAGAA
66 ATTGCAGCATGCTATTGCCATTTAATGTAACGTTTAAGCCCATAGCCCCAAATTTAACAGCAGAA
* *
21791224 CAGGTGGCCACTAAATAGC-AATAGTTCACGTTGCAACACTGCATGCTTGGGCAAATAAACTGTT
131 CAGGCGGCCAATAAATAGCAAAT-GTTCACGTTGCAACACTGCATGCTTGGGCAAATAAACTGTT
* * *
21791288 ATACAACATGTAGGGAGGTGAAAGGTGCATAAAGTTGTTATTACTGCTCTTGCCAATCTTTCTAA
195 ATACAACATATAGGGAGGTGAAAGGTGCACAAAGTTGTGATTACTGCTCTTGCCAATCTTTCTAA
*
21791353 CATAATAGCTAATTAGTTGAACAGCAGATTTATAATAGTTCTGGACCAT-GACATTTGTTTTCTA
260 CATAATAGCTAATTAGTTGAACAGCAGA-TT-T-ATAGTTCTGGACCATGGACATTTATTTTCTA
** *
21791417 TTTGTCAAGTGTGTTCCTCAAATAGTCTGTCGAGTCCAATGGCTGACATCATATTAGGCTCTTTG
322 TTTGTCAAAAGTGTTCCTCAAATAGTCTGTCCAGTCCAATGGCTGACATCATATTAGGCTCTTTG
* * * ** * *
21791482 ACCTTTTAGAATAGGGTCTATGATAGGTTAATTTGCTGGGTTATCTTATTTCTACATTAAGTTTA
387 AACTTTTAGAATAGGGTCGATGAGAGGTTAATTCACTGGGTTATCTAATTTCTACATTAAATTTA
21791547 ACAT-ACTCTAAGGAGCCCTTCTAG
452 ACATGAC-CTAAGGAGCCCTTCTAG
21791571 GTT
1 GTT
21791574 GATGTGCTTA
Statistics
Matches: 427, Mismatches: 44, Indels: 12
0.88 0.09 0.02
Matches are distributed among these distances:
470 3 0.01
471 144 0.34
472 5 0.01
473 153 0.36
474 115 0.27
475 7 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (475 bp):
GTTCACTAATATCAGGAATAAGAAATTATACGCATTACAAAAAGAAATACCATGAGACCAGAAAA
ATTGCAGCATGCTATTGCCATTTAATGTAACGTTTAAGCCCATAGCCCCAAATTTAACAGCAGAA
CAGGCGGCCAATAAATAGCAAATGTTCACGTTGCAACACTGCATGCTTGGGCAAATAAACTGTTA
TACAACATATAGGGAGGTGAAAGGTGCACAAAGTTGTGATTACTGCTCTTGCCAATCTTTCTAAC
ATAATAGCTAATTAGTTGAACAGCAGATTTATAGTTCTGGACCATGGACATTTATTTTCTATTTG
TCAAAAGTGTTCCTCAAATAGTCTGTCCAGTCCAATGGCTGACATCATATTAGGCTCTTTGAACT
TTTAGAATAGGGTCGATGAGAGGTTAATTCACTGGGTTATCTAATTTCTACATTAAATTTAACAT
GACCTAAGGAGCCCTTCTAG
Found at i:21793548 original size:19 final size:20
Alignment explanation
Indices: 21793507--21793548 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
21793497 ACCATTTGAA
*
21793507 CAAGCTCAACACATCAAAGT
1 CAAGCTCAACACAGCAAAGT
* *
21793527 CAAGC-CAAGACAGCAAATT
1 CAAGCTCAACACAGCAAAGT
21793546 CAA
1 CAA
21793549 AGATGAGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.48, C:0.29, G:0.12, T:0.12
Consensus pattern (20 bp):
CAAGCTCAACACAGCAAAGT
Found at i:21794905 original size:15 final size:15
Alignment explanation
Indices: 21794882--21794917 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
21794872 TGTTGAGTAA
*
21794882 ATTTCAAATATAATT
1 ATTTAAAATATAATT
21794897 ATTTAAAATATAATT
1 ATTTAAAATATAATT
21794912 ATTTAA
1 ATTTAA
21794918 TTTTATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTAAAATATAATT
Found at i:21796678 original size:20 final size:20
Alignment explanation
Indices: 21796653--21796693 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
21796643 GTTTATTTGG
21796653 TCATATATTTAAAACTATCT
1 TCATATATTTAAAACTATCT
*
21796673 TCATATATTTAAAATTATCT
1 TCATATATTTAAAACTATCT
21796693 T
1 T
21796694 ATGTATCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (20 bp):
TCATATATTTAAAACTATCT
Found at i:21797647 original size:19 final size:17
Alignment explanation
Indices: 21797614--21797655 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 17
21797604 TTTTAACTAA
21797614 AATTTAAAATTTAAAAT
1 AATTTAAAATTTAAAAT
21797631 AATTTAATAATTTTAAAAT
1 AATTTAA-AA-TTTAAAAT
21797650 ATATTT
1 A-ATTT
21797656 TTTTATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 9 0.41
20 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTTAAAATTTAAAAT
Found at i:21797965 original size:20 final size:18
Alignment explanation
Indices: 21797942--21798002 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 18
21797932 TTTTTTATAT
*
21797942 ATTTTTAATTTTATATTTAA
1 ATTTTTAATTTCA-A-TTAA
21797962 ATTTTTATATTTCAATTAA
1 ATTTTTA-ATTTCAATTAA
* *
21797981 AATTTTAA-TT-AATTCA
1 ATTTTTAATTTCAATTAA
21797997 ATTTTT
1 ATTTTT
21798003 TATATGAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
16 10 0.28
17 2 0.06
18 1 0.03
19 10 0.28
20 8 0.22
21 5 0.14
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTAATTTCAATTAA
Found at i:21798727 original size:14 final size:14
Alignment explanation
Indices: 21798708--21798734 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21798698 TCATTTTGAC
21798708 TTAGCGTTAGAGTT
1 TTAGCGTTAGAGTT
21798722 TTAGCGTTAGAGT
1 TTAGCGTTAGAGT
21798735 GCAAATGTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.30, T:0.41
Consensus pattern (14 bp):
TTAGCGTTAGAGTT
Found at i:21805812 original size:13 final size:13
Alignment explanation
Indices: 21805777--21805806 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21805767 TCGAATAAAG
*
21805777 AAAAAATAACAAT
1 AAAAAAAAACAAT
21805790 AAAAAAAAACAAT
1 AAAAAAAAACAAT
21805803 AAAA
1 AAAA
21805807 CCAAACTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (13 bp):
AAAAAAAAACAAT
Found at i:21810490 original size:13 final size:13
Alignment explanation
Indices: 21810472--21810508 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
21810462 TTAGAAGCAT
21810472 TGTGCAGTTTCGA
1 TGTGCAGTTTCGA
*
21810485 TGTGCAGTTACGA
1 TGTGCAGTTTCGA
*
21810498 TGTGCAATTTC
1 TGTGCAGTTTC
21810509 TCTGCATATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.38
Consensus pattern (13 bp):
TGTGCAGTTTCGA
Found at i:21814268 original size:22 final size:21
Alignment explanation
Indices: 21814230--21814270 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
21814220 AAGTTTATGT
*
21814230 ATTTTTATTATATTTAAATAA
1 ATTTTTATTATAATTAAATAA
*
21814251 ATTTTTATATTTAATTAAAT
1 ATTTTTAT-TATAATTAAAT
21814271 GTTCAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTTATTATAATTAAATAA
Found at i:21815420 original size:23 final size:24
Alignment explanation
Indices: 21815393--21815440 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
21815383 ATCATGCAAT
**
21815393 AATAACAA-TCATGTAAATATATA
1 AATAACAATTCATACAAATATATA
21815416 AATAACAATTCATACAAATATATA
1 AATAACAATTCATACAAATATATA
21815440 A
1 A
21815441 TCATGAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.29
Consensus pattern (24 bp):
AATAACAATTCATACAAATATATA
Found at i:21815849 original size:55 final size:55
Alignment explanation
Indices: 21815751--21815859 Score: 132
Period size: 55 Copynumber: 2.0 Consensus size: 55
21815741 CACACAAATA
* * * * *
21815751 AATAAATTAATAATTATGCAATTAGACAATCAACTAAATATAT-AATCATGCAAT
1 AATAAATTAATAATCATGCAAATAAACAATCAAATAAAAATATAAATCATGCAAT
*
21815805 AATAATATTAATAATCATGCAAATAAAC-ATGTAAATAAAAATATAAATCATGCAA
1 AATAA-ATTAATAATCATGCAAATAAACAAT-CAAATAAAAATATAAATCATGCAA
21815860 ATAAGCATAC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
54 7 0.15
55 29 0.63
56 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (55 bp):
AATAAATTAATAATCATGCAAATAAACAATCAAATAAAAATATAAATCATGCAAT
Found at i:21815882 original size:33 final size:33
Alignment explanation
Indices: 21815817--21815883 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
21815807 TAATATTAAT
**
21815817 AATCATGCAAATAAACATGTAAATAAAAATATA
1 AATCATGCAAATAAACATACAAATAAAAATATA
* * *
21815850 AATCATGCAAATAAGCATACAATTAAATATATA
1 AATCATGCAAATAAACATACAAATAAAAATATA
21815883 A
1 A
21815884 TAATACGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.58, C:0.10, G:0.06, T:0.25
Consensus pattern (33 bp):
AATCATGCAAATAAACATACAAATAAAAATATA
Found at i:21815974 original size:15 final size:15
Alignment explanation
Indices: 21815954--21815982 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21815944 ATAATAATAC
21815954 ATAAATCATGCAAAT
1 ATAAATCATGCAAAT
21815969 ATAAATCATGCAAA
1 ATAAATCATGCAAA
21815983 AAAAATTATA
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:0.55, C:0.14, G:0.07, T:0.24
Consensus pattern (15 bp):
ATAAATCATGCAAAT
Found at i:21815988 original size:20 final size:22
Alignment explanation
Indices: 21815965--21816024 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 22
21815955 TAAATCATGC
21815965 AAATATAAATCATGCAAA-AA-
1 AAATATAAATCATGCAAATAAT
*
21815985 AAAT-TATAATCATACAAATAAT
1 AAATATA-AATCATGCAAATAAT
*
21816007 AATATACAAATCATGCAA
1 AA-ATATAAATCATGCAA
21816025 TCATGTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 2 0.06
20 14 0.44
21 2 0.06
22 2 0.06
23 11 0.34
24 1 0.03
ACGTcount: A:0.60, C:0.12, G:0.03, T:0.25
Consensus pattern (22 bp):
AAATATAAATCATGCAAATAAT
Found at i:21816015 original size:14 final size:15
Alignment explanation
Indices: 21815985--21816017 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21815975 CATGCAAAAA
*
21815985 AAATTATAATCATAC
1 AAATAATAATCATAC
21816000 AAATAATAAT-ATAC
1 AAATAATAATCATAC
21816014 AAAT
1 AAAT
21816018 CATGCAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATAATAATCATAC
Found at i:21816056 original size:74 final size:74
Alignment explanation
Indices: 21815968--21816131 Score: 283
Period size: 74 Copynumber: 2.2 Consensus size: 74
21815958 ATCATGCAAA
* *
21815968 TATAAATCATGCAAAAAAAATTATAATCATACAAATAATAATATACAAATCATGCAATCATGTAA
1 TATAAATCATGCAAAAAAAAATATAATCATACAAATAATAATATACAAATCATGCAATCATATAA
21816033 ATACTAATC
66 ATACTAATC
* * *
21816042 TATAAATCACGCAAAAAAAAATATAATCATGCAAATAATAATATATAAATCATGCAATCATATAA
1 TATAAATCATGCAAAAAAAAATATAATCATACAAATAATAATATACAAATCATGCAATCATATAA
21816107 ATACTAATC
66 ATACTAATC
21816116 TATAAATCATGCAAAA
1 TATAAATCATGCAAAA
21816132 TATGCAATTA
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 84 1.00
ACGTcount: A:0.55, C:0.13, G:0.04, T:0.27
Consensus pattern (74 bp):
TATAAATCATGCAAAAAAAAATATAATCATACAAATAATAATATACAAATCATGCAATCATATAA
ATACTAATC
Found at i:21816096 original size:23 final size:23
Alignment explanation
Indices: 21816023--21816098 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
21816013 CAAATCATGC
* * *
21816023 AATCATGTAAATACTAATCTATA
1 AATCATGCAAATAATAATATATA
* *
21816046 AATCACGCAAA-AA-AAAATAT-
1 AATCATGCAAATAATAATATATA
21816066 AATCATGCAAATAATAATATATA
1 AATCATGCAAATAATAATATATA
21816089 AATCATGCAA
1 AATCATGCAA
21816099 TCATATAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
20 10 0.23
21 7 0.16
22 7 0.16
23 19 0.44
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.26
Consensus pattern (23 bp):
AATCATGCAAATAATAATATATA
Found at i:21816101 original size:31 final size:31
Alignment explanation
Indices: 21816066--21816129 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
21816056 AAAAAAATAT
*
21816066 AATCATGCAAATAATAATATATAAATCATGC
1 AATCATACAAATAATAATATATAAATCATGC
* * *
21816097 AATCATATAAATACTAATCTATAAATCATGC
1 AATCATACAAATAATAATATATAAATCATGC
21816128 AA
1 AA
21816130 AATATGCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.30
Consensus pattern (31 bp):
AATCATACAAATAATAATATATAAATCATGC
Found at i:21816115 original size:23 final size:21
Alignment explanation
Indices: 21816023--21816115 Score: 64
Period size: 23 Copynumber: 4.2 Consensus size: 21
21816013 CAAATCATGC
* * *
21816023 AATCATGTAAATACTAATCTAT
1 AATCATGCAAATAATAA-ATAT
* *
21816045 AAATCACGCAAA-AAAAAATAT
1 -AATCATGCAAATAATAAATAT
21816066 AATCATGCAAATAATAATATAT
1 AATCATGCAAATAATAA-ATAT
21816088 AAATCATGC-AATCATATAAATACT
1 -AATCATGCAAAT-A-ATAAATA-T
21816112 AATC
1 AATC
21816116 TATAAATCAT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
20 10 0.18
21 7 0.12
22 10 0.18
23 25 0.44
24 5 0.09
ACGTcount: A:0.54, C:0.14, G:0.04, T:0.28
Consensus pattern (21 bp):
AATCATGCAAATAATAAATAT
Found at i:21818487 original size:21 final size:20
Alignment explanation
Indices: 21818461--21818517 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
21818451 GTTTAAGTCT
21818461 TTTTTTTCTTTTTTTTTTTA
1 TTTTTTTCTTTTTTTTTTTA
* *
21818481 CTTTTTTGTTTTTTTTTTTA
1 TTTTTTTCTTTTTTTTTTTA
21818501 TTTTTTTGCCTTTTTTT
1 TTTTTTT--CTTTTTTT
21818518 ACACATCTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 24 0.77
22 7 0.23
ACGTcount: A:0.04, C:0.07, G:0.04, T:0.86
Consensus pattern (20 bp):
TTTTTTTCTTTTTTTTTTTA
Found at i:21818517 original size:1 final size:1
Alignment explanation
Indices: 21818460--21818507 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
21818450 AGTTTAAGTC
* ** * *
21818460 TTTTTTTTCTTTTTTTTTTTACTTTTTTGTTTTTTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
21818508 GCCTTTTTTT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.04, C:0.04, G:0.02, T:0.90
Consensus pattern (1 bp):
T
Found at i:21819786 original size:11 final size:12
Alignment explanation
Indices: 21819770--21819826 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
21819760 TTATATAAAA
21819770 AATTATTT-TTT
1 AATTATTTATTT
21819781 AATTATTTATTT
1 AATTATTTATTT
* *
21819793 ATGTATATTTATAT
1 A-AT-TATTTATTT
*
21819807 AATTATATATTT
1 AATTATTTATTT
*
21819819 AAATATTT
1 AATTATTT
21819827 TATATTTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
11 8 0.22
12 17 0.47
13 2 0.06
14 9 0.25
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (12 bp):
AATTATTTATTT
Found at i:21819818 original size:30 final size:30
Alignment explanation
Indices: 21819784--21819851 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
21819774 ATTTTTTAAT
* *
21819784 TATTTATTTA-TGTATATTTATATAATTATA
1 TATTTATATATTGTATATTTA-AAAATTATA
* *
21819814 TATTTAAATATTTTATATTTAAAAATTATA
1 TATTTATATATTGTATATTTAAAAATTATA
21819844 T-TTTATAT
1 TATTTATAT
21819852 TTTTAAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 6 0.19
30 17 0.53
31 9 0.28
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (30 bp):
TATTTATATATTGTATATTTAAAAATTATA
Found at i:21819824 original size:8 final size:8
Alignment explanation
Indices: 21819796--21819856 Score: 56
Period size: 8 Copynumber: 8.0 Consensus size: 8
21819786 TTTATTTATG
21819796 TATATTTA
1 TATATTTA
*
21819804 TATAATTA
1 TATATTTA
21819812 TATATTTA
1 TATATTTA
*
21819820 AATATTT-
1 TATATTTA
21819827 TATATTTA
1 TATATTTA
* *
21819835 -AAAATTA
1 TATATTTA
21819842 TAT-TTTA
1 TATATTTA
*
21819849 TATTTTTA
1 TATATTTA
21819857 AAAATAATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
7 17 0.40
8 25 0.60
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATATTTA
Found at i:21819832 original size:15 final size:16
Alignment explanation
Indices: 21819796--21819848 Score: 67
Period size: 15 Copynumber: 3.5 Consensus size: 16
21819786 TTTATTTATG
*
21819796 TATATTTATATAATTA
1 TATATTTAAATAATTA
*
21819812 TATATTTAAAT-ATTT
1 TATATTTAAATAATTA
21819827 TATATTTAAA-AATTA
1 TATATTTAAATAATTA
21819842 TAT-TTTA
1 TATATTTA
21819849 TATTTTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 4 0.12
15 19 0.58
16 10 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATTTAAATAATTA
Found at i:21819846 original size:20 final size:21
Alignment explanation
Indices: 21819820--21819871 Score: 79
Period size: 22 Copynumber: 2.5 Consensus size: 21
21819810 TATATATTTA
21819820 AATATTTTATA-TTTAAAAAT
1 AATATTTTATATTTTAAAAAT
*
21819840 TATATTTTATATTTTTAAAAAT
1 AATATTTTATA-TTTTAAAAAT
21819862 AATATTTTAT
1 AATATTTTAT
21819872 TAATTTCGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 10 0.36
22 18 0.64
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AATATTTTATATTTTAAAAAT
Found at i:21822421 original size:23 final size:21
Alignment explanation
Indices: 21822361--21822429 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 21
21822351 AACATAATAT
21822361 AATATATACAAGGAATAACAA
1 AATATATACAAGGAATAACAA
*
21822382 AATATA-A-AAGGTTAATATGCAAA
1 AATATATACAAGG--AATA-AC-AA
21822405 AATATATACAAGGAATAACATA
1 AATATATACAAGGAATAACA-A
21822427 AAT
1 AAT
21822430 TGACAAGAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
19 4 0.10
20 1 0.03
21 11 0.28
22 6 0.15
23 12 0.31
24 1 0.03
25 4 0.10
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.23
Consensus pattern (21 bp):
AATATATACAAGGAATAACAA
Found at i:21823812 original size:34 final size:32
Alignment explanation
Indices: 21823774--21823883 Score: 103
Period size: 34 Copynumber: 3.2 Consensus size: 32
21823764 AAAAATGTCA
*
21823774 CTATATTAACGACATTTGTATCTGAAAAACACTG
1 CTATATTAA-GACGTTTGTATCT-AAAAACACTG
* * *
21823808 CTATATTAATGACGCTTGTATCAAAAAAACACTA
1 CTATATTAA-GACGTTTGTATC-TAAAAACACTG
* **
21823842 TTATATTAGAGGTGTTTGTATCTAGAAAACACTG
1 CTATATTA-AGACGTTTGTATCTA-AAAACACTG
21823876 CTATATTA
1 CTATATTA
21823884 GCGGCGTGTG
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
33 1 0.02
34 59 0.97
35 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (32 bp):
CTATATTAAGACGTTTGTATCTAAAAACACTG
Found at i:21823884 original size:34 final size:34
Alignment explanation
Indices: 21823788--21823898 Score: 109
Period size: 34 Copynumber: 3.3 Consensus size: 34
21823778 ATTAACGACA
*
21823788 TTTGTATCT-GAAAAACACTGCTATATTA-ATGACG
1 TTTGTATCTAG-AAAACACTGCTATATTAGA-GGCG
* * * ** *
21823822 CTTGTATCAAAAAAACACTATTATATTAGAGGTG
1 TTTGTATCTAGAAAACACTGCTATATTAGAGGCG
*
21823856 TTTGTATCTAGAAAACACTGCTATATTAGCGGCG
1 TTTGTATCTAGAAAACACTGCTATATTAGAGGCG
*
21823890 TGTGTATCT
1 TTTGTATCT
21823899 TTGACATGCC
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
34 59 0.98
35 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (34 bp):
TTTGTATCTAGAAAACACTGCTATATTAGAGGCG
Found at i:21832151 original size:186 final size:186
Alignment explanation
Indices: 21831826--21832979 Score: 1290
Period size: 186 Copynumber: 6.2 Consensus size: 186
21831816 GGACAGTTAG
* * * * * * ***
21831826 TGAAGGCATTTTTTGACAACAAATGCGTTCAATAATTTTTTAAAAAAATTTTTGAGATTATTAAA
1 TGAAGGTATTTTTTTAGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAA
* * * ** *
21831891 GGCATCTTCCAGTAAAAAAACACCTTCAATATTCTACAACTCAAATTTTAAGATAGTTAGTGAAG
66 GGCATCTTTCAGT-GAAAAACACCTTCAATATTTTACAACTCAAATTTTAAGACGGTTAGTGAAA
** ** * * * *
21831956 GTATTTATTCTAGAAAAATGTGTTTACTAATTTTTTTTAATTTATGTACATAATTAT
130 GCGTTTATTCTAGAAAAATGCCTTCACTAATTCTTTCTAATTTACGTACATAATTAT
* * *
21832013 TGAAGGTATTTTTTTAGAACAAACGCCTTGAATAATTTTTTCTTAAAATTTTTAAGATTATTAAA
1 TGAAGGTATTTTTTTAGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAA
** * * *
21832078 GGCGCCTTTCAGTGAAAAACACTTTCAATATTTTAAAACTCAAATTTTAATACGGTTAGTGAAAG
66 GGCATCTTTCAGTGAAAAACACCTTCAATATTTTACAACTCAAATTTTAAGACGGTTAGTGAAAG
* *
21832143 CGTTTATTCTAGAAAAATGCCTTCATTAATTCCTTCTAATTTACGTACATAATTAT
131 CGTTTATTCTAGAAAAATGCCTTCACTAATTCTTTCTAATTTACGTACATAATTAT
*
21832199 TGAAGGCT-TTTTTTTAGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAA
1 TGAAGG-TATTTTTTTAGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAA
* * * * * *
21832263 AGGCATCTTTCAGTGAAAAACACATTCAAT-TTTTCATAACTCAAAATTTAAGATGTTTAATGAA
65 AGGCATCTTTCAGTGAAAAACACCTTCAATATTTT-ACAACTCAAATTTTAAGACGGTTAGTGAA
* *
21832327 AGCGTTTATTCTAGAAAAATGCCTTCACCAATT-TCTTCTAATTTACATACATAATTAT
129 AGCGTTTATTCTAGAAAAATGCCTTCACTAATTCT-TTCTAATTTACGTACATAATTAT
* * ** * **
21832385 TGAAGGCATTTTTTTAGAATAAATACCTTCAATAATTTT-TTTTAAAAATTTTTGTTATTATTAA
1 TGAAGGTATTTTTTTAGAACAAACGCCTTCAATAATTTTCTCTT-AAAATTTTTGAGATTATTAA
* ** * * *
21832449 AGGCATCTTTCAATGAAAAATGCCTTCAAT-TTTTCACAACTCAAATTTTAAAATGTTTAGT-AA
65 AGGCATCTTTCAGTGAAAAACACCTTCAATATTTT-ACAACTCAAATTTTAAGACGGTTAGTGAA
* * * *
21832512 AGGCATTTATTCTAGAAAAATACCTTCACTAATTCTTTCTAATTTACATACATAGTTAT
129 A-GCGTTTATTCTAGAAAAATGCCTTCACTAATTCTTTCTAATTTACGTACATAATTAT
* * *
21832571 GGAAGGTATTTTTTTAGAATAAACGCATTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAA
1 TGAAGGTATTTTTTTAGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAA
** * ** * * *
21832636 GGTGTCTTCCAGTGAAAAACGTCTTCAATTTTTTACAACTCAAATTTTAAGACGTTTAGTGAAGG
66 GGCATCTTTCAGTGAAAAACACCTTCAATATTTTACAACTCAAATTTTAAGACGGTTAGTGAAAG
* * **
21832701 CTTTTATTCTAGAAAAATACCTTCACTAATTCTTTCTAATTTGTGTACATAATTAT
131 CGTTTATTCTAGAAAAATGCCTTCACTAATTCTTTCTAATTTACGTACATAATTAT
* *
21832757 TGAAGGTATTTTTTTGAAAACAAACG-CTTTAATAATTTTCTCTTAAAATTTTTGAGATTATTAA
1 TGAAGGTATTTTTTT-AGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAA
* * ** * * *
21832821 AGGCGT-TTTCCAATGAAAAATGCCTTCAATATTTCACTACTCAAATTTTAAAACGGTTAGTGAA
65 AGGCATCTTT-CAGTGAAAAACACCTTCAATATTTTACAACTCAAATTTTAAGACGGTTAGTGAA
* * * **
21832885 GGTGTTTATTCTAG--AAACGCCTTCACTAATTCTTT-TAAATTTTTGTACATAATTAT
129 AGCGTTTATTCTAGAAAAATGCCTTCACTAATTCTTTCT-AATTTACGTACATAATTAT
* * *
21832941 TGAAGGTAATTTTCTACTG-A-AAATGCCTTCAATAATTTT
1 TGAAGGTATTTTTTTA--GAACAAACGCCTTCAATAATTTT
21832980 TGTTTAGAAT
Statistics
Matches: 838, Mismatches: 113, Indels: 35
0.85 0.11 0.04
Matches are distributed among these distances:
183 6 0.01
184 63 0.08
185 12 0.01
186 673 0.80
187 84 0.10
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.41
Consensus pattern (186 bp):
TGAAGGTATTTTTTTAGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAA
GGCATCTTTCAGTGAAAAACACCTTCAATATTTTACAACTCAAATTTTAAGACGGTTAGTGAAAG
CGTTTATTCTAGAAAAATGCCTTCACTAATTCTTTCTAATTTACGTACATAATTAT
Found at i:21832607 original size:558 final size:556
Alignment explanation
Indices: 21831826--21832985 Score: 1467
Period size: 558 Copynumber: 2.1 Consensus size: 556
21831816 GGACAGTTAG
* * * **
21831826 TGAAGGCATTTTTTGACAACAAATGCGTTCAATAATTTTTTAAAAAAATTTTTGAGATTATTAAA
1 TGAAGGCATTTTTTTAGAA-AAATGCCTTCAATAATTTTTTTTAAAAATTTTTGAGATTATTAAA
* * *
21831891 GGCATCTTCCAGTAAAAAAACACCTTCAATATTCTACAACTCAAATTTTAAGATAGTTAGTGAAG
65 GGCATCTTCCAATAAAAAAACACCTTCAATATTCTACAACTCAAATTTTAAAATAGTTAGTAAAG
* *** * * * ** *
21831956 GTATTTATTCTAGAAAAATGTGTTTACTAATTTTTTTTAATTTATGTACATAATTATTGAAGGTA
130 GCATTTATTCTAGAAAAATACCTTCACTAATTCTTTCTAATTTACATACATAATTATGGAAGGTA
* * *
21832021 TTTTTTTAGAACAAACGCCTTGAATAATTTTTTCTTAAAATTTTTAAGATTATTAAAGGCGCCTT
195 TTTTTTTAGAACAAACGCATTCAATAATTTTCTCTTAAAATTTTTAAGATTATTAAAGGCGCCTT
* *
21832086 TCAGTGAAAAACACT-TTCAATATTTTAAAACTCAAATTTTAATACGGTTAGTGAAAGCGTTTAT
260 CCAGTGAAAAAC-CTCTTCAATATTTTAAAACTCAAATTTTAAGACGGTTAGTGAAAGCGTTTAT
* *
21832150 TCTAGAAAAATGCCTTCATTAATTCCTTCTAATTTACGTACATAATTATTGAAGGCT-TTTTTTT
324 TCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGG-TATTTTTTT
* *
21832214 -AGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCATCTTT-CAGT
388 GAAAACAAAC-CCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCAT-TTTCCAAT
* * * *
21832277 GAAAAACACATTCAATTTTTCA-TAACTCAAAATTTAAGATGTTTAATGAAAGCGTTTATTCTAG
451 GAAAAACACATTCAATATTTCACT-ACTCAAAATTTAAAACGGTTAATGAAAGCGTTTATTCTAG
*
21832341 AAAAATGCCTTCACCAATTTCTTCT-AATTTACATACATAATTAT
515 --AAACGCCTTCACCAA-TTCTTCTAAATTTACATACATAATTAT
* **
21832385 TGAAGGCATTTTTTTAGAATAAATACCTTCAATAATTTTTTTTAAAAATTTTTGTTATTATTAAA
1 TGAAGGCATTTTTTTAGAA-AAATGCCTTCAATAATTTTTTTTAAAAATTTTTGAGATTATTAAA
* * ** *
21832450 GGCATCTTTCAAT-GAAAAATGCCTTCAAT-TTTTCACAACTCAAATTTTAAAAT-GTTTAGTAA
65 GGCATCTTCCAATAAAAAAACACCTTCAATATTCT-ACAACTCAAATTTTAAAATAG-TTAGTAA
*
21832512 AGGCATTTATTCTAGAAAAATACCTTCACTAATTCTTTCTAATTTACATACATAGTTATGGAAGG
128 AGGCATTTATTCTAGAAAAATACCTTCACTAATTCTTTCTAATTTACATACATAATTATGGAAGG
* * * *
21832577 TATTTTTTTAGAATAAACGCATTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGTGTC
193 TATTTTTTTAGAACAAACGCATTCAATAATTTTCTCTTAAAATTTTTAAGATTATTAAAGGCGCC
* * * * * *
21832642 TTCCAGTGAAAAACGTCTTCAATTTTTTACAACTCAAATTTTAAGACGTTTAGTGAAGGCTTTTA
258 TTCCAGTGAAAAACCTCTTCAATATTTTAAAACTCAAATTTTAAGACGGTTAGTGAAAGCGTTTA
* **
21832707 TTCTAGAAAAATACCTTCACTAATTCTTTCTAATTTGTGTACATAATTATTGAAGGTATTTTTTT
323 TTCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGTATTTTTTT
* * *
21832772 GAAAACAAACGCTTTAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCGTTTTCCAATGA
388 GAAAACAAACCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCATTTTCCAATGA
** * * * * *
21832837 AAAATGCCTTCAATATTTCACTACTCAAATTTTAAAACGGTTAGTGAAGGTGTTTATTCTAGAAA
453 AAAACACATTCAATATTTCACTACTCAAAATTTAAAACGGTTAATGAAAGCGTTTATTCTAGAAA
* * ***
21832902 CGCCTTCACTAATTCTTTTAAATTTTTGTACATAATTAT
518 CGCCTTCACCAATTCTTCTAAATTTACATACATAATTAT
* * *
21832941 TGAAGGTAATTTTCTACTG-AAAATGCCTTCAATAATTTTTGTTTA
1 TGAAGGCATTTTTTTA--GAAAAATGCCTTCAATAATTTTT-TTTA
21832986 GAATTATCAA
Statistics
Matches: 516, Mismatches: 74, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
555 6 0.01
556 61 0.12
557 14 0.03
558 359 0.70
559 76 0.15
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (556 bp):
TGAAGGCATTTTTTTAGAAAAATGCCTTCAATAATTTTTTTTAAAAATTTTTGAGATTATTAAAG
GCATCTTCCAATAAAAAAACACCTTCAATATTCTACAACTCAAATTTTAAAATAGTTAGTAAAGG
CATTTATTCTAGAAAAATACCTTCACTAATTCTTTCTAATTTACATACATAATTATGGAAGGTAT
TTTTTTAGAACAAACGCATTCAATAATTTTCTCTTAAAATTTTTAAGATTATTAAAGGCGCCTTC
CAGTGAAAAACCTCTTCAATATTTTAAAACTCAAATTTTAAGACGGTTAGTGAAAGCGTTTATTC
TAGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGTATTTTTTTGAA
AACAAACCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCATTTTCCAATGAAAA
ACACATTCAATATTTCACTACTCAAAATTTAAAACGGTTAATGAAAGCGTTTATTCTAGAAACGC
CTTCACCAATTCTTCTAAATTTACATACATAATTAT
Found at i:21833621 original size:13 final size:13
Alignment explanation
Indices: 21833588--21833612 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21833578 AATCATATGT
21833588 TGAATGGTGTTTC
1 TGAATGGTGTTTC
21833601 TGAATGGTGTTT
1 TGAATGGTGTTT
21833613 TTAAGTGGTT
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:0.16, C:0.04, G:0.32, T:0.48
Consensus pattern (13 bp):
TGAATGGTGTTTC
Found at i:21836858 original size:16 final size:17
Alignment explanation
Indices: 21836825--21836860 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
21836815 TATATAAACC
21836825 AAATATTTTCTGGGCAT
1 AAATATTTTCTGGGCAT
21836842 AAATATTTTCT-GGCAT
1 AAATATTTTCTGGGCAT
21836858 AAA
1 AAA
21836861 CCTATAACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (17 bp):
AAATATTTTCTGGGCAT
Found at i:21838528 original size:24 final size:23
Alignment explanation
Indices: 21838501--21838578 Score: 74
Period size: 19 Copynumber: 3.5 Consensus size: 23
21838491 TCATTCAAAT
21838501 ATAATATTAATCATGCAATAATA
1 ATAATATTAATCATGCAATAATA
* *
21838524 TATAACATCATATCATGCAA-AA-A
1 -ATAATATTA-ATCATGCAATAATA
*
21838547 AT-ATA-AAATCATGCAATAATA
1 ATAATATTAATCATGCAATAATA
*
21838568 ATAATAATAAT
1 ATAATATTAAT
21838579 AATAATAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
19 9 0.20
20 3 0.07
21 5 0.11
22 5 0.11
23 4 0.09
24 9 0.20
25 9 0.20
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (23 bp):
ATAATATTAATCATGCAATAATA
Found at i:21838540 original size:25 final size:24
Alignment explanation
Indices: 21838497--21838558 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
21838487 AATATCATTC
* *
21838497 AAATATAATATTA-ATCATGCAATA
1 AAATATAAAATCATATCATGCAA-A
* *
21838521 ATATATAACATCATATCATGCAAA
1 AAATATAAAATCATATCATGCAAA
21838545 AAATATAAAATCAT
1 AAATATAAAATCAT
21838559 GCAATAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 23 0.72
25 9 0.28
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (24 bp):
AAATATAAAATCATATCATGCAAA
Found at i:21838569 original size:3 final size:3
Alignment explanation
Indices: 21838561--21838589 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
21838551 AAAATCATGC
21838561 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
21838590 ATAACTATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:21838711 original size:32 final size:32
Alignment explanation
Indices: 21838645--21838791 Score: 134
Period size: 32 Copynumber: 4.8 Consensus size: 32
21838635 TAAATACATT
*
21838645 AATAATCATGCAATT-AATAATGTATATCATGCA
1 AATAAACATGCAATTAAAT-ATGTA-ATCATGCA
*
21838678 AATAAACATGCAATTAAATGTGTAATCATGCA
1 AATAAACATGCAATTAAATATGTAATCATGCA
21838710 AATAATA-A--C-ATT--A-A--TAATCATGCA
1 AATAA-ACATGCAATTAAATATGTAATCATGCA
* * *
21838734 AATAAACATTCAATTAAATATATAATAATGCA
1 AATAAACATGCAATTAAATATGTAATCATGCA
* *
21838766 AATAAACATACAATTAAATATATAAT
1 AATAAACATGCAATTAAATATGTAAT
21838792 AAGACAAATA
Statistics
Matches: 98, Mismatches: 5, Indels: 23
0.78 0.04 0.18
Matches are distributed among these distances:
23 1 0.01
24 16 0.16
26 1 0.01
27 4 0.04
29 4 0.04
30 2 0.02
32 48 0.49
33 19 0.19
34 3 0.03
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.31
Consensus pattern (32 bp):
AATAAACATGCAATTAAATATGTAATCATGCA
Found at i:21838742 original size:56 final size:53
Alignment explanation
Indices: 21838646--21838770 Score: 162
Period size: 56 Copynumber: 2.3 Consensus size: 53
21838636 AAATACATTA
* *
21838646 ATAATCATGCAATTAATAATGTATATCATGCAAATAAACATGCAATTAAATGT
1 ATAATCATGCAAATAATAATGTATATCATGCAAATAAACATGCAATTAAATAT
* *
21838699 GTAATCATGCAAATAATAACAT-TAATAATCATGCAAATAAACATTCAATTAAATAT
1 ATAATCATGCAAATAAT-A-ATGT-AT-ATCATGCAAATAAACATGCAATTAAATAT
*
21838755 ATAATAATGCAAATAA
1 ATAATCATGCAAATAA
21838771 ACATACAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
53 15 0.24
54 2 0.03
55 4 0.06
56 41 0.66
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.30
Consensus pattern (53 bp):
ATAATCATGCAAATAATAATGTATATCATGCAAATAAACATGCAATTAAATAT
Found at i:21838792 original size:32 final size:32
Alignment explanation
Indices: 21838723--21838802 Score: 126
Period size: 32 Copynumber: 2.5 Consensus size: 32
21838713 AATAACATTA
* *
21838723 ATAATCATGCAAATAAACATTCAATTAAATAT
1 ATAATAATGCAAATAAACATACAATTAAATAT
21838755 ATAATAATGCAAATAAACATACAATTAAATAT
1 ATAATAATGCAAATAAACATACAATTAAATAT
21838787 ATAATAA-GACAAATAA
1 ATAATAATG-CAAATAA
21838803 TAATATAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 1 0.02
32 44 0.98
ACGTcount: A:0.59, C:0.10, G:0.04, T:0.28
Consensus pattern (32 bp):
ATAATAATGCAAATAAACATACAATTAAATAT
Found at i:21838819 original size:53 final size:53
Alignment explanation
Indices: 21838750--21838875 Score: 166
Period size: 53 Copynumber: 2.3 Consensus size: 53
21838740 CATTCAATTA
*
21838750 AATATATAATAATGCAAATAAACATACAATTAAATAT-ATAAT-AAGACAAATAAT
1 AATATA-AATCATGCAAATAAACATACAATTAAATATAAT-ATCAAG-CAAATAAT
* *
21838804 AATATAAATCATGCAAATAAACATTCAATTAAATATAATATCATGCAAATAAT
1 AATATAAATCATGCAAATAAACATACAATTAAATATAATATCAAGCAAATAAT
21838857 AATACATAAATCATGCAAA
1 AAT--ATAAATCATGCAAA
21838876 AAATATATAA
Statistics
Matches: 65, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
53 41 0.63
54 10 0.15
55 14 0.22
ACGTcount: A:0.58, C:0.10, G:0.04, T:0.28
Consensus pattern (53 bp):
AATATAAATCATGCAAATAAACATACAATTAAATATAATATCAAGCAAATAAT
Found at i:21838862 original size:85 final size:87
Alignment explanation
Indices: 21838667--21838855 Score: 269
Period size: 85 Copynumber: 2.2 Consensus size: 87
21838657 ATTAATAATG
* * * *
21838667 TATATCATGCAAATAAACATGCAATTAAATGTGTAATCATGCAAATAATAACATTAATAATCATG
1 TATATCATGCAAATAAACATACAATTAAATATATAATCAAGCAAATAATAACATTAATAATCATG
21838732 CAAATAAACATTCAATTAAATA
66 CAAATAAACATTCAATTAAATA
* *
21838754 TATAATAATGCAAATAAACATACAATTAAATATATAAT-AAGACAAATAATAATA-T-A-AATCA
1 TAT-ATCATGCAAATAAACATACAATTAAATATATAATCAAG-CAAATAATAACATTAATAATCA
21838815 TGCAAATAAACATTCAATTAAATA
64 TGCAAATAAACATTCAATTAAATA
21838839 TAATATCATGCAAATAA
1 T-ATATCATGCAAATAA
21838856 TAATACATAA
Statistics
Matches: 92, Mismatches: 7, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
85 42 0.46
86 3 0.03
87 6 0.07
88 41 0.45
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.29
Consensus pattern (87 bp):
TATATCATGCAAATAAACATACAATTAAATATATAATCAAGCAAATAATAACATTAATAATCATG
CAAATAAACATTCAATTAAATA
Found at i:21838880 original size:42 final size:42
Alignment explanation
Indices: 21838834--21838916 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
21838824 ACATTCAATT
21838834 AAATATA-ATATCATGCAAATAATAATACATAAATCATGCAAA
1 AAATATATA-ATCATGCAAATAATAATACATAAATCATGCAAA
*
21838876 AAATATATAATCATGCAAATAATAATATATAAATCATGCAA
1 AAATATATAATCATGCAAATAATAATACATAAATCATGCAA
21838917 TCATGTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.28
Consensus pattern (42 bp):
AAATATATAATCATGCAAATAATAATACATAAATCATGCAAA
Found at i:21838889 original size:19 final size:23
Alignment explanation
Indices: 21838836--21838916 Score: 116
Period size: 23 Copynumber: 3.7 Consensus size: 23
21838826 ATTCAATTAA
21838836 ATATAATATCATGCAAATAATAAT
1 ATATAA-ATCATGCAAATAATAAT
*
21838860 ACATAAATCATGC-AA-AA-AAT
1 ATATAAATCATGCAAATAATAAT
21838880 ATAT-AATCATGCAAATAATAAT
1 ATATAAATCATGCAAATAATAAT
21838902 ATATAAATCATGCAA
1 ATATAAATCATGCAA
21838917 TCATGTAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.16
20 8 0.16
21 4 0.08
22 9 0.18
23 17 0.33
24 5 0.10
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.28
Consensus pattern (23 bp):
ATATAAATCATGCAAATAATAAT
Found at i:21838946 original size:31 final size:31
Alignment explanation
Indices: 21838884--21838947 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
21838874 AAAAATATAT
*
21838884 AATCATGCAAATAATAATATATAAATCATGC
1 AATCATGCAAATAATAATATACAAATCATGC
*
21838915 AATCATGTAAAT-ATCAATATACAAA-CAATGC
1 AATCATGCAAATAAT-AATATACAAATC-ATGC
21838946 AA
1 AA
21838948 AATATGCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (31 bp):
AATCATGCAAATAATAATATACAAATCATGC
Found at i:21839541 original size:12 final size:12
Alignment explanation
Indices: 21839524--21839553 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21839514 GATTAAAAAA
21839524 CAAAAATTAAAC
1 CAAAAATTAAAC
21839536 CAAAAATTAAAC
1 CAAAAATTAAAC
*
21839548 TAAAAA
1 CAAAAA
21839554 AATTCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (12 bp):
CAAAAATTAAAC
Found at i:21840372 original size:18 final size:18
Alignment explanation
Indices: 21840326--21840375 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
21840316 ATTTTTATGT
**
21840326 TAAATAA-TAATTTTTAA
1 TAAATAATTAATAATTAA
21840343 TAAATAATTAATAATTAA
1 TAAATAATTAATAATTAA
21840361 TAAA-AATATAATAAT
1 TAAATAAT-TAATAAT
21840376 ATATCAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 10 0.34
18 19 0.66
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATAATTAATAATTAA
Found at i:21841674 original size:11 final size:10
Alignment explanation
Indices: 21841650--21841692 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
21841640 ACGTAGATGT
21841650 AAATAATAAA
1 AAATAATAAA
21841660 AAATAATACAA
1 AAATAATA-AA
21841671 AAATAA-AAA
1 AAATAATAAA
*
21841680 AAGTAGATAAA
1 AAATA-ATAAA
21841691 AA
1 AA
21841693 GATTATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 6 0.21
10 10 0.34
11 13 0.45
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (10 bp):
AAATAATAAA
Found at i:21842810 original size:27 final size:27
Alignment explanation
Indices: 21842774--21842826 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
21842764 AACACAAGAT
*
21842774 AAATTTTCAACTTCATTGTTGAGTTTA
1 AAATTTTCAACTTCATTGTAGAGTTTA
21842801 AAATTTTCAACTTCATTGTAGAGTTT
1 AAATTTTCAACTTCATTGTAGAGTTT
21842827 TTTAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.47
Consensus pattern (27 bp):
AAATTTTCAACTTCATTGTAGAGTTTA
Found at i:21850061 original size:18 final size:18
Alignment explanation
Indices: 21850038--21850073 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
21850028 AAAATATTTT
21850038 TTTATTATTTTTATTAAA
1 TTTATTATTTTTATTAAA
*
21850056 TTTATTTTTTTTATTAAA
1 TTTATTATTTTTATTAAA
21850074 ATTTTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTATTATTTTTATTAAA
Found at i:21850266 original size:21 final size:22
Alignment explanation
Indices: 21850242--21850293 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
21850232 GATACGAGGC
21850242 ATAAAATTATAATAAG-ATAAA
1 ATAAAATTATAATAAGAATAAA
* * *
21850263 ATAAAATAATATTATGAATAAA
1 ATAAAATTATAATAAGAATAAA
*
21850285 ATTAAATTA
1 ATAAAATTA
21850294 AATTATTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
ATAAAATTATAATAAGAATAAA
Found at i:21850286 original size:22 final size:22
Alignment explanation
Indices: 21850258--21850299 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
21850248 TTATAATAAG
21850258 ATAAAA-TAAAATAATATTATGA
1 ATAAAATTAAAATAA-ATTATGA
*
21850280 ATAAAATTAAATTAAATTAT
1 ATAAAATTAAAATAAATTAT
21850300 TTTATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
ATAAAATTAAAATAAATTATGA
Found at i:21850327 original size:6 final size:5
Alignment explanation
Indices: 21850296--21850325 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
21850286 TTAAATTAAA
21850296 TTATT TTATT TTATT TTATT TTATAT TTAT
1 TTATT TTATT TTATT TTATT TTAT-T TTAT
21850326 ATGTATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:21852391 original size:36 final size:36
Alignment explanation
Indices: 21852344--21852418 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
21852334 CATATTCGAT
*
21852344 GATAACCAACTTAACATCTTTAACTGACAATCATTA
1 GATAACCAACTTAACATCTTTAACTGACAATCACTA
*
21852380 GATAACCAACTTAACATCTTTCACTGACAATCACTA
1 GATAACCAACTTAACATCTTTAACTGACAATCACTA
21852416 GAT
1 GAT
21852419 TCATTGTAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (36 bp):
GATAACCAACTTAACATCTTTAACTGACAATCACTA
Found at i:21853221 original size:2 final size:2
Alignment explanation
Indices: 21853208--21853237 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
21853198 TCTAGAAAAA
*
21853208 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
21853238 ACACACACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:21857037 original size:34 final size:34
Alignment explanation
Indices: 21856990--21857055 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
21856980 TTGAAAAAGT
*
21856990 AAAAAAATAAAAAA-CAAGAAAATCTTAAAAATGA
1 AAAAAAATAAAAAAGCAA-AAAATCTAAAAAATGA
*
21857024 AAAAAAATGAAAAAGCAAAAAATCTAAAAAAT
1 AAAAAAATAAAAAAGCAAAAAATCTAAAAAAT
21857056 AGGAAAATCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 26 0.90
35 3 0.10
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.14
Consensus pattern (34 bp):
AAAAAAATAAAAAAGCAAAAAATCTAAAAAATGA
Found at i:21860266 original size:30 final size:30
Alignment explanation
Indices: 21860209--21860266 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
21860199 ATATTTTAGA
*
21860209 TTTAAAAAGATATATTAGGATTTTTAAATT
1 TTTAAAAAGATATATTAGGATTGTTAAATT
*
21860239 TTTAAAAATATATATTTA-GATTGTTAAA
1 TTTAAAAAGATATA-TTAGGATTGTTAAA
21860267 AAATCCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.47
Consensus pattern (30 bp):
TTTAAAAAGATATATTAGGATTGTTAAATT
Found at i:21862325 original size:22 final size:22
Alignment explanation
Indices: 21862283--21862325 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
21862273 AATTTCATCA
* *
21862283 AAATCAATTTTATTACTAAATC
1 AAATAAATTTTAGTACTAAATC
21862305 AAATAAATTTTAAGTAC-AAAT
1 AAATAAATTTT-AGTACTAAAT
21862326 AATAATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.37
Consensus pattern (22 bp):
AAATAAATTTTAGTACTAAATC
Found at i:21862976 original size:31 final size:32
Alignment explanation
Indices: 21862917--21862982 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
21862907 GATACTCATT
* *
21862917 ATTTCGATTACCTTCACGTTTTCTTTTGGTGA
1 ATTTCGATTACCTTCACGTTTTCGTTTGGTAA
21862949 ATTTCGATTACCTTCAC-TTTTCGTTTGGTAA
1 ATTTCGATTACCTTCACGTTTTCGTTTGGTAA
21862980 ATT
1 ATT
21862983 GATTTATATC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 15 0.47
32 17 0.53
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (32 bp):
ATTTCGATTACCTTCACGTTTTCGTTTGGTAA
Found at i:21864205 original size:41 final size:40
Alignment explanation
Indices: 21864092--21864207 Score: 117
Period size: 41 Copynumber: 2.9 Consensus size: 40
21864082 GATATAAAGA
* *
21864092 AAACGCCTTAATTGATGATCAATTAAAATGT-TTATGTACAT
1 AAACGCCTTAATTGATCATCAA-TAAAA-GTATTTTGTACAT
* * ** **
21864133 AAACACCTTAATTGATCATCAATTATGGTATTTTGTTTAT
1 AAACGCCTTAATTGATCATCAATAAAAGTATTTTGTACAT
*
21864173 CAAACGCCTTCATTGATCATCAATAAAAGTATTTT
1 -AAACGCCTTAATTGATCATCAATAAAAGTATTTT
21864208 TTCATTGAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
39 2 0.03
40 9 0.15
41 49 0.82
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (40 bp):
AAACGCCTTAATTGATCATCAATAAAAGTATTTTGTACAT
Found at i:21867852 original size:26 final size:23
Alignment explanation
Indices: 21867802--21867853 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 23
21867792 AATTAAATAA
**
21867802 ATATTTGTATTACTACAAATTTC
1 ATATTTGTATTACTACAAAAATC
21867825 ATATTTGTATTTACTGAACAAAAATC
1 ATATTTGTA-TTACT--ACAAAAATC
21867851 ATA
1 ATA
21867854 ATTATTCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.38
24 5 0.21
26 10 0.42
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (23 bp):
ATATTTGTATTACTACAAAAATC
Found at i:21868161 original size:16 final size:17
Alignment explanation
Indices: 21868142--21868174 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
21868132 CTTTGTGGAC
21868142 TTCATCAAG-TTCATTT
1 TTCATCAAGCTTCATTT
*
21868158 TTCATGAAGCTTCATTT
1 TTCATCAAGCTTCATTT
21868175 GGTCTCCCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.48
Consensus pattern (17 bp):
TTCATCAAGCTTCATTT
Found at i:21872675 original size:22 final size:22
Alignment explanation
Indices: 21872650--21872717 Score: 52
Period size: 26 Copynumber: 3.0 Consensus size: 22
21872640 TTAATATTAA
21872650 AAAAATATAATTTATATAATTT
1 AAAAATATAATTTATATAATTT
*
21872672 -AAAAT-TAA-TAATATAAATTT
1 AAAAATATAATTTATAT-AATTT
*
21872692 ATAAAATTAAAAATTTATATTAATTT
1 A-AAAA-T-ATAATTTATA-TAATTT
21872718 TTATATATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
19 5 0.14
20 8 0.23
21 5 0.14
22 4 0.11
23 1 0.03
25 2 0.06
26 9 0.26
27 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAAATATAATTTATATAATTT
Found at i:21872677 original size:16 final size:16
Alignment explanation
Indices: 21872658--21872717 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
21872648 AAAAAAATAT
21872658 AATTTATATAATTTAA
1 AATTTATATAATTTAA
*
21872674 AA-TTA-ATAATAT-A
1 AATTTATATAATTTAA
* *
21872687 AATTTATAAAATTAAA
1 AATTTATATAATTTAA
21872703 AATTTATATTAATTT
1 AATTTATA-TAATTT
21872718 TTATATATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
13 3 0.09
14 9 0.26
15 7 0.21
16 11 0.32
17 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTTATATAATTTAA
Found at i:21875437 original size:3 final size:3
Alignment explanation
Indices: 21875429--21875472 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
21875419 AGCCACCCGC
* * * *
21875429 CAT CAT CAT CAT CAT CAA CAC CAT CAT CAT CAA CAC CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
21875473 CCACTGTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.23
Consensus pattern (3 bp):
CAT
Found at i:21875455 original size:15 final size:15
Alignment explanation
Indices: 21875435--21875472 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
21875425 CCGCCATCAT
21875435 CATCATCATCAACAC
1 CATCATCATCAACAC
21875450 CATCATCATCAACAC
1 CATCATCATCAACAC
21875465 CATCATCA
1 CATCATCA
21875473 CCACTGTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.21
Consensus pattern (15 bp):
CATCATCATCAACAC
Found at i:21876535 original size:14 final size:14
Alignment explanation
Indices: 21876502--21876535 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
21876492 TTCTTTTTTT
*
21876502 TTTTTTATTTTATC
1 TTTTTAATTTTATC
*
21876516 TTTTTAATTTTATG
1 TTTTTAATTTTATC
21876530 TTTTTA
1 TTTTTA
21876536 TTAGATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTTAATTTTATC
Done.