Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 20 of 195
Found at i:4626765 original size:20 final size:20
Alignment explanation
Indices: 4626727--4626765 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4626717 AACAAATCTT
* *
4626727 AAATAAATATAAATGAATCA
1 AAATAAACATAAATAAATCA
*
4626747 AAATAAACATTAATAAATC
1 AAATAAACATAAATAAATC
4626766 TTAAAATAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.26
Consensus pattern (20 bp):
AAATAAACATAAATAAATCA
Found at i:4635496 original size:28 final size:30
Alignment explanation
Indices: 4635434--4635501 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 30
4635424 AAATACGAAT
*
4635434 TTATTTGAATATAAATTAAAGAATAAGAGT
1 TTATTTGAATATAAATTAAAGAATAAGAGC
*
4635464 TTATTTGAATAT-AA-TAAA-ATATATGAGC
1 TTATTTGAATATAAATTAAAGA-ATAAGAGC
4635492 TTATTT-AATA
1 TTATTTGAATA
4635502 AAAGTCAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 5 0.14
28 16 0.46
29 2 0.06
30 12 0.34
ACGTcount: A:0.47, C:0.01, G:0.10, T:0.41
Consensus pattern (30 bp):
TTATTTGAATATAAATTAAAGAATAAGAGC
Found at i:4637289 original size:2 final size:2
Alignment explanation
Indices: 4637284--4637317 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
4637274 GGGGTTAAAC
4637284 AG AG AG AG AG AG AG A- AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4637318 AAAAAAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4650566 original size:29 final size:28
Alignment explanation
Indices: 4650536--4650695 Score: 153
Period size: 29 Copynumber: 5.6 Consensus size: 28
4650526 GGGTTTAGGT
4650536 TTTTGATTTTAGGGTTTGAGATTTGGGG
1 TTTTGATTTTAGGGTTTGAGATTTGGGG
**
4650564 TTTTG-TTTTAGGGTTTGAGATTTGAAG
1 TTTTGATTTTAGGGTTTGAGATTTGGGG
**
4650591 TTTTGATTTTAGGGTTTAGAGGATTTACGG
1 TTTTGATTTTAGGGTTT-GA-GATTTGGGG
* * *
4650621 -TTTAATTTTAGGGTTTGAAGGTTTGGAG
1 TTTTGATTTTAGGGTTTG-AGATTTGGGG
* * * * *
4650649 TTTTGATTTTAAAGCTTGGAGGTTTGGGA
1 TTTTGATTTT-AGGGTTTGAGATTTGGGG
*
4650678 TTTTGATTGTAGGGTTTG
1 TTTTGATTTTAGGGTTTG
4650696 GAAGGTGAAG
Statistics
Matches: 106, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
27 25 0.24
28 27 0.25
29 43 0.41
30 11 0.10
ACGTcount: A:0.18, C:0.01, G:0.32, T:0.49
Consensus pattern (28 bp):
TTTTGATTTTAGGGTTTGAGATTTGGGG
Found at i:4650635 original size:13 final size:14
Alignment explanation
Indices: 4650529--4650636 Score: 71
Period size: 14 Copynumber: 7.7 Consensus size: 14
4650519 GATTTTGGGG
* *
4650529 TTTAGGTTTTTGAT
1 TTTAGGGTTTAGAT
4650543 TTTAGGGTTTGAGA-
1 TTTAGGGTTT-AGAT
* *
4650557 TTTGGGGTTTTG-T
1 TTTAGGGTTTAGAT
4650570 TTTAGGGTTTGAGAT
1 TTTAGGGTTT-AGAT
* * *
4650585 TTGA-AGTTTTGAT
1 TTTAGGGTTTAGAT
*
4650598 TTTAGGGTTTAGAGGA
1 TTTAGGGTTTAGA--T
*
4650614 TTTACGGTTTA-AT
1 TTTAGGGTTTAGAT
4650627 TTTAGGGTTT
1 TTTAGGGTTT
4650637 GAAGGTTTGG
Statistics
Matches: 71, Mismatches: 16, Indels: 15
0.70 0.16 0.15
Matches are distributed among these distances:
13 25 0.35
14 29 0.41
15 7 0.10
16 10 0.14
ACGTcount: A:0.18, C:0.01, G:0.30, T:0.52
Consensus pattern (14 bp):
TTTAGGGTTTAGAT
Found at i:4650692 original size:87 final size:85
Alignment explanation
Indices: 4650536--4650732 Score: 204
Period size: 87 Copynumber: 2.3 Consensus size: 85
4650526 GGGTTTAGGT
* * * * * * *
4650536 TTTTGATTTTAGGGTTTG-AGATTTGGGGTTTTGTTTTAGGGTTTGAGATTTGAAGTTTTGATTT
1 TTTTAATTTTAGGGTTTGAAGGTTTGGAGTTTTGTTTTAAGCTTGGAGATTTGAAGTTTTGATTG
* *
4650600 TAGGGTTTAG-AGGATTTACGG
66 TAGGGTTTAGAAGG--TGAAGG
* *
4650621 -TTTAATTTTAGGGTTTGAAGGTTTGGAGTTTTGATTTTAAAGCTTGGAGGTTTG-GGATTTTGA
1 TTTTAATTTTAGGGTTTGAAGGTTTGGAGTTTTG-TTTT-AAGCTTGGAGATTTGAAG-TTTTGA
*
4650684 TTGTAGGGTTTGGAAGGTGAAGG
63 TTGTAGGGTTTAGAAGGTGAAGG
4650707 TTTTAATTTTAGGGTTTGAAAGGTTT
1 TTTTAATTTTAGGGTTTG-AAGGTTT
4650733 AGGGTTTCAT
Statistics
Matches: 93, Mismatches: 12, Indels: 11
0.80 0.10 0.09
Matches are distributed among these distances:
84 16 0.17
85 13 0.14
86 9 0.10
87 45 0.48
88 10 0.11
ACGTcount: A:0.20, C:0.01, G:0.32, T:0.47
Consensus pattern (85 bp):
TTTTAATTTTAGGGTTTGAAGGTTTGGAGTTTTGTTTTAAGCTTGGAGATTTGAAGTTTTGATTG
TAGGGTTTAGAAGGTGAAGG
Found at i:4650696 original size:29 final size:28
Alignment explanation
Indices: 4650522--4650724 Score: 132
Period size: 29 Copynumber: 7.1 Consensus size: 28
4650512 AGTTTCAGAT
*
4650522 TTTGG-GGTTTAGGTTTTTGATTTTAGGG
1 TTTGGAGGTTT-GGATTTTGATTTTAGGG
* *
4650550 TTT-GAGATTTGGGGTTTTG-TTTTAGGG
1 TTTGGAGGTTT-GGATTTTGATTTTAGGG
* *
4650577 TTT-GAGATTTGAAGTTTTGATTTTAGGG
1 TTTGGAGGTTTGGA-TTTTGATTTTAGGG
* *
4650605 TTTAGAGGATTTACGG--TTTAATTTTAGGG
1 TTTGGAGG-TTT--GGATTTTGATTTTAGGG
* **
4650634 TTTGAAGGTTTGGAGTTTTGATTTTAAAG
1 TTTGGAGGTTTGGA-TTTTGATTTTAGGG
* *
4650663 CTTGGAGGTTTGGGATTTTGATTGTAGGG
1 TTTGGAGGTTT-GGATTTTGATTTTAGGG
** *
4650692 TTTGGAAGGTGAAGG-TTTTAATTTTAGGG
1 TTTGG-AGGT-TTGGATTTTGATTTTAGGG
4650721 TTTG
1 TTTG
4650725 AAAGGTTTAG
Statistics
Matches: 139, Mismatches: 23, Indels: 25
0.74 0.12 0.13
Matches are distributed among these distances:
26 3 0.02
27 24 0.17
28 28 0.20
29 71 0.51
30 12 0.09
32 1 0.01
ACGTcount: A:0.18, C:0.01, G:0.33, T:0.48
Consensus pattern (28 bp):
TTTGGAGGTTTGGATTTTGATTTTAGGG
Found at i:4650729 original size:29 final size:29
Alignment explanation
Indices: 4650569--4650872 Score: 110
Period size: 29 Copynumber: 10.5 Consensus size: 29
4650559 TGGGGTTTTG
* * *
4650569 TTTTAGGGTTTGAGA-TTTGAA-GTTTTGA
1 TTTTAGGGTTTGAAAGGTT-AAGGTTTTAA
* *
4650597 TTTTAGGGTTT-AGAGGATTTACGG-TTTAA
1 TTTTAGGGTTTGAAAGG--TTAAGGTTTTAA
** *
4650626 TTTTAGGGTTTG-AAGGTTTGGAGTTTTGA
1 TTTTAGGGTTTGAAAGGTTAAG-GTTTTAA
** * * ** *
4650655 TTTTAAAGCTTG-GAGGTTTGGGATTTTGA
1 TTTTAGGGTTTGAAAGGTTAAGG-TTTTAA
* * *
4650684 TTGTAGGGTTTGGAAGGTGAAGGTTTTAA
1 TTTTAGGGTTTGAAAGGTTAAGGTTTTAA
* * *
4650713 TTTTAGGGTTTGAAAGGTTTAGGGTTTCAT
1 TTTTAGGGTTTGAAAGG-TTAAGGTTTTAA
* * * *
4650743 TTTTAAGGTTAGAATGTTTAAGG-TTTAA
1 TTTTAGGGTTTGAAAGGTTAAGGTTTTAA
* * **
4650771 TTTTAGGGTTTGAGAA-ATTTAGAG-TTTCG
1 TTTTAGGGTTTGA-AAGGTTAAG-GTTTTAA
* * *
4650800 TTTTAGGGTTTG-GA-TTTTAGGATTTTGAA
1 TTTTAGGGTTTGAAAGGTTAAGG-TTTT-AA
* *
4650829 TTTAAGGGTTTGAAAGTTTTAAGG-TTTAA
1 TTTTAGGGTTTGAAAG-GTTAAGGTTTTAA
*
4650858 TTTTAGGATTTGAAA
1 TTTTAGGGTTTGAAA
4650873 ATTTTAGAGT
Statistics
Matches: 209, Mismatches: 49, Indels: 35
0.71 0.17 0.12
Matches are distributed among these distances:
26 1 0.00
27 12 0.06
28 34 0.16
29 122 0.58
30 34 0.16
32 6 0.03
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (29 bp):
TTTTAGGGTTTGAAAGGTTAAGGTTTTAA
Found at i:4650819 original size:14 final size:14
Alignment explanation
Indices: 4650770--4650840 Score: 54
Period size: 15 Copynumber: 4.9 Consensus size: 14
4650760 TTAAGGTTTA
4650770 ATTTTAGGGTTTGAG
1 ATTTTAGGGTTTG-G
* * *
4650785 AAATTTAGAGTTTCG
1 -ATTTTAGGGTTTGG
4650800 -TTTTAGGGTTTGG
1 ATTTTAGGGTTTGG
* *
4650813 ATTTTAGGATTTTGA
1 ATTTTAGG-GTTTGG
*
4650828 ATTTAAGGGTTTG
1 ATTTTAGGGTTTG
4650841 AAAGTTTTAA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
13 10 0.23
14 11 0.26
15 12 0.28
16 10 0.23
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.48
Consensus pattern (14 bp):
ATTTTAGGGTTTGG
Found at i:4650862 original size:58 final size:58
Alignment explanation
Indices: 4650528--4650871 Score: 178
Period size: 58 Copynumber: 6.0 Consensus size: 58
4650518 AGATTTTGGG
* ** **
4650528 GTTT-AGGTTTTTGATTTTAGGGTTTG--AGATTTGGGGTTTTGTTTTAGGGTTTGAGAT
1 GTTTAAGG-TTTTAATTTTAGGGTTTGAAAGATTTAAGGTTTAATTTTAGGGTTTGA-AT
* * * * *
4650585 -TTGAA-GTTTTGATTTTAGGGTTT-AGAGGATTTACGGTTTAATTTTAGGGTTTGAAG
1 GTTTAAGGTTTTAATTTTAGGGTTTGA-AAGATTTAAGGTTTAATTTTAGGGTTTGAAT
* * ** * * * * * *
4650641 GTTT-GGAGTTTTGATTTTAAAGCTTG-GAGGTTT-GGGATTTTGATTGTAGGGTTTGGAA-
1 GTTTAAG-GTTTTAATTTTAGGGTTTGAAAGATTTAAGG--TTTAATTTTAGGGTTT-GAAT
* * * * * * *
4650699 GGTGAAGGTTTTAATTTTAGGGTTTGAAAGGTTTAGGGTTTCATTTTTAAGGTTAGAAT
1 GTTTAAGGTTTTAATTTTAGGGTTTGAAAGATTTAAGGTTT-AATTTTAGGGTTTGAAT
** *
4650758 GTTTAAGG-TTTAATTTTAGGGTTTGAGAA-ATTT-AGAGTTTCGTTTTAGGGTTTGGAT
1 GTTTAAGGTTTTAATTTTAGGGTTTGA-AAGATTTAAG-GTTTAATTTTAGGGTTTGAAT
* * *
4650815 -TTT-AGGATTTTGAATTTAAGGGTTTGAAAGTTTTAAGGTTTAATTTTAGGATTTGAA
1 GTTTAAGG-TTTT-AATTTTAGGGTTTGAAAGATTTAAGGTTTAATTTTAGGGTTTGAA
4650872 AATTTTAGAG
Statistics
Matches: 218, Mismatches: 46, Indels: 45
0.71 0.15 0.15
Matches are distributed among these distances:
55 20 0.09
56 9 0.04
57 48 0.22
58 110 0.50
59 28 0.13
60 3 0.01
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.47
Consensus pattern (58 bp):
GTTTAAGGTTTTAATTTTAGGGTTTGAAAGATTTAAGGTTTAATTTTAGGGTTTGAAT
Found at i:4650877 original size:29 final size:29
Alignment explanation
Indices: 4650703--4650959 Score: 123
Period size: 29 Copynumber: 9.0 Consensus size: 29
4650693 TTGGAAGGTG
**
4650703 AAGGTTTTAATTTTAGGGTTTGAAAGGTTT
1 AAGG-TTTAATTTTAGGGTTTGAAAATTTT
* * * *
4650733 AGGGTTTCATTTTTAAGG-TT-AGAATGTTT
1 AAGGTTT-AATTTTAGGGTTTGAAAAT-TTT
4650762 AAGGTTTAATTTTAGGGTTTGAGAAA-TTT
1 AAGGTTTAATTTTAGGGTTTGA-AAATTTT
** *
4650791 -AGAGTTTCGTTTTAGGGTTTG--GATTTT
1 AAG-GTTTAATTTTAGGGTTTGAAAATTTT
* *
4650818 -AGGATTTTGAATTTAAGGGTTTGAAAGTTTT
1 AAGG--TTT-AATTTTAGGGTTTGAAAATTTT
*
4650849 AAGGTTTAATTTTAGGATTTGAAAATTTT
1 AAGGTTTAATTTTAGGGTTTGAAAATTTT
** * **
4650878 -AGAGTTTCGTTTTTAAGGTTT-AAGGTTTT
1 AAG-GTTT-AATTTTAGGGTTTGAAAATTTT
* *
4650907 --GG----ATTTGAGGGTTTTG-AAGTTTT
1 AAGGTTTAATTTTAGGG-TTTGAAAATTTT
*
4650930 AAGGTTTAATTTTAGGGTTTGAAAAATTT
1 AAGGTTTAATTTTAGGGTTTGAAAATTTT
4650959 A
1 A
4650960 GAGTTTCGTT
Statistics
Matches: 169, Mismatches: 34, Indels: 49
0.67 0.13 0.19
Matches are distributed among these distances:
22 6 0.04
23 9 0.05
25 2 0.01
26 2 0.01
27 6 0.04
28 22 0.13
29 89 0.53
30 24 0.14
31 6 0.04
32 3 0.02
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.47
Consensus pattern (29 bp):
AAGGTTTAATTTTAGGGTTTGAAAATTTT
Found at i:4650951 original size:81 final size:83
Alignment explanation
Indices: 4650759--4650979 Score: 299
Period size: 81 Copynumber: 2.6 Consensus size: 83
4650749 GGTTAGAATG
4650759 TTTAAGGTTTAATTTTAGGGTTTGAGAAATTTAGAGTTTCG-TTTTAGGGTTTGGATTTTAGGAT
1 TTTAAGGTTTAATTTTAGGGTTTGA-AAATTTAGAGTTTCGTTTTTAGGGTTT-GA---TAGGAT
4650823 TTTGAATTTAAGGGTTTGAAAGT
61 TTTGAATTTAAGGGTTTGAAAGT
* *
4650846 TTTAAGGTTTAATTTTAGGATTTGAAAATTTTAGAGTTTCGTTTTTAAGGTTT-A-AGG-TTTTG
1 TTTAAGGTTTAATTTTAGGGTTTGAAAA-TTTAGAGTTTCGTTTTTAGGGTTTGATAGGATTTTG
* *
4650908 GATTTGAGGGTTTTG-AAGT
65 AATTTAAGGG-TTTGAAAGT
4650927 TTTAAGGTTTAATTTTAGGGTTTGAAAAATTTAGAGTTTCGTTTTTAGGGTTT
1 TTTAAGGTTTAATTTTAGGGTTTG-AAAATTTAGAGTTTCGTTTTTAGGGTTT
4650980 TGATTTTTTA
Statistics
Matches: 124, Mismatches: 6, Indels: 14
0.86 0.04 0.10
Matches are distributed among these distances:
81 63 0.51
82 11 0.09
86 4 0.03
87 36 0.29
88 10 0.08
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (83 bp):
TTTAAGGTTTAATTTTAGGGTTTGAAAATTTAGAGTTTCGTTTTTAGGGTTTGATAGGATTTTGA
ATTTAAGGGTTTGAAAGT
Found at i:4651028 original size:14 final size:14
Alignment explanation
Indices: 4651004--4651106 Score: 80
Period size: 14 Copynumber: 7.1 Consensus size: 14
4650994 TTGAGGTTTG
*
4651004 GGGTTTTGATTTAA
1 GGGTTTGGATTTAA
* *
4651018 AGGTTTGGATTTTAG
1 GGGTTTGGA-TTTAA
**
4651033 GGGTTTTGGATTTTG
1 GGG-TTTGGATTTAA
4651048 GGGTTTGGATTTAA
1 GGGTTTGGATTTAA
* * *
4651062 AGGTTAGGATTTTA
1 GGGTTTGGATTTAA
* *
4651076 GGGTTTTGAATTTTAG
1 GGG-TTTGGA-TTTAA
4651092 GGGTTTGGATTTAA
1 GGGTTTGGATTTAA
4651106 G
1 G
4651107 AATTAGTGTT
Statistics
Matches: 68, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
14 34 0.50
15 22 0.32
16 12 0.18
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (14 bp):
GGGTTTGGATTTAA
Found at i:4651031 original size:15 final size:15
Alignment explanation
Indices: 4651004--4651103 Score: 82
Period size: 15 Copynumber: 6.8 Consensus size: 15
4650994 TTGAGGTTTG
*
4651004 GGGTTTTGA-TTTAA
1 GGGTTTGGATTTTAA
* *
4651018 AGGTTTGGATTTTAG
1 GGGTTTGGATTTTAA
*
4651033 GGGTTTTGGATTTT-G
1 GGG-TTTGGATTTTAA
4651048 GGGTTTGGA-TTTAA
1 GGGTTTGGATTTTAA
* *
4651062 AGGTTAGGATTTT-A
1 GGGTTTGGATTTTAA
* *
4651076 GGGTTTTGAATTTTAG
1 GGG-TTTGGATTTTAA
4651092 GGGTTTGGATTT
1 GGGTTTGGATTT
4651104 AAGAATTAGT
Statistics
Matches: 68, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
13 3 0.04
14 23 0.34
15 29 0.43
16 13 0.19
ACGTcount: A:0.18, C:0.00, G:0.34, T:0.48
Consensus pattern (15 bp):
GGGTTTGGATTTTAA
Found at i:4651048 original size:44 final size:43
Alignment explanation
Indices: 4651000--4651105 Score: 167
Period size: 44 Copynumber: 2.4 Consensus size: 43
4650990 AAATTTGAGG
* * *
4651000 TTTGGGGTTTTGATTTAAAGGTTTGGATTTTAGGGGTTTTGGAT
1 TTTGGGGTTTGGATTTAAAGGTTAGGATTTTA-GGGTTTTGAAT
4651044 TTTGGGGTTTGGATTTAAAGGTTAGGATTTTAGGGTTTTGAAT
1 TTTGGGGTTTGGATTTAAAGGTTAGGATTTTAGGGTTTTGAAT
4651087 TTTAGGGGTTTGGATTTAA
1 TTT-GGGGTTTGGATTTAA
4651106 GAATTAGTGT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
43 13 0.22
44 45 0.78
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (43 bp):
TTTGGGGTTTGGATTTAAAGGTTAGGATTTTAGGGTTTTGAAT
Found at i:4657211 original size:2 final size:2
Alignment explanation
Indices: 4657204--4657231 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4657194 CCTCAAACAG
4657204 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
4657232 AAATATGCAG
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4658964 original size:35 final size:34
Alignment explanation
Indices: 4658919--4658985 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
4658909 TACCAAATAC
*
4658919 ATTTTTTAGAAAACAGAAAATAAAAAATAAAAAAT
1 ATTTTCTAGAAAA-AGAAAATAAAAAATAAAAAAT
* *
4658954 ATTTTCTAGAAAATGAAAATTAAAAATAAAAA
1 ATTTTCTAGAAAAAGAAAATAAAAAATAAAAA
4658986 CAAAAAACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (34 bp):
ATTTTCTAGAAAAAGAAAATAAAAAATAAAAAAT
Found at i:4668372 original size:12 final size:12
Alignment explanation
Indices: 4668355--4668380 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4668345 ATACACCATC
4668355 ATCATCATCATT
1 ATCATCATCATT
4668367 ATCATCATCATT
1 ATCATCATCATT
4668379 AT
1 AT
4668381 TATTTTATTA
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (12 bp):
ATCATCATCATT
Found at i:4677088 original size:21 final size:22
Alignment explanation
Indices: 4677039--4677097 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 22
4677029 TATAATATAA
*
4677039 AATTATATTATTTAATTTAATCTT
1 AATTATAATA-TT-ATTTAATCTT
*
4677063 AATTATAATATTATTTTATC-T
1 AATTATAATATTATTTAATCTT
*
4677084 AATTATAATTTTAT
1 AATTATAATATTAT
4677098 GTACCGAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.44
22 7 0.22
23 2 0.06
24 9 0.28
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (22 bp):
AATTATAATATTATTTAATCTT
Found at i:4680229 original size:3 final size:3
Alignment explanation
Indices: 4680223--4680268 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
4680213 AATAATAATA
4680223 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
4680269 CTTTTAATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4680695 original size:10 final size:10
Alignment explanation
Indices: 4680680--4680734 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
4680670 AGCTAAGTTT
4680680 TTTGAAAAAA
1 TTTGAAAAAA
*
4680690 TTTGAAAAAT
1 TTTGAAAAAA
4680700 TTTGAAAAAAA
1 TTTG-AAAAAA
**
4680711 TCTAAAAAAAA
1 T-TTGAAAAAA
*
4680722 TATGAAAAAA
1 TTTGAAAAAA
4680732 TTT
1 TTT
4680735 TGGGTTTTGT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
10 21 0.60
11 13 0.37
12 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (10 bp):
TTTGAAAAAA
Found at i:4680708 original size:11 final size:11
Alignment explanation
Indices: 4680679--4680736 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
4680669 GAGCTAAGTT
4680679 TTTTGAAAAAA
1 TTTTGAAAAAA
4680690 -TTTG-AAAAA
1 TTTTGAAAAAA
4680699 TTTTGAAAAAA
1 TTTTGAAAAAA
* * *
4680710 ATCTAAAAAAA
1 TTTTGAAAAAA
* *
4680721 ATATGAAAAAA
1 TTTTGAAAAAA
4680732 TTTTG
1 TTTTG
4680737 GGTTTTGTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
9 5 0.13
10 8 0.21
11 25 0.66
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.33
Consensus pattern (11 bp):
TTTTGAAAAAA
Found at i:4681115 original size:21 final size:21
Alignment explanation
Indices: 4681074--4681134 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
4681064 CCATTTACAT
4681074 TTTTATTTATTTTATTTTTCTAAA
1 TTTT-TTTA-TTTA-TTTTCTAAA
*
4681098 TTTTTTTATTTATTTTCTATA
1 TTTTTTTATTTATTTTCTAAA
** *
4681119 TCATTTTATTTGTTTT
1 TTTTTTTATTTATTTT
4681135 ATTTTTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 21 0.64
22 4 0.12
23 4 0.12
24 4 0.12
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTTTTATTTATTTTCTAAA
Found at i:4681740 original size:19 final size:20
Alignment explanation
Indices: 4681694--4681740 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
4681684 TTATTTCTAG
*
4681694 AGAGATAGAGAGAAAAGAAA
1 AGAGAAAGAGAGAAAAGAAA
4681714 AGAGGAAAGAGA-AAAAGAAA
1 AGA-GAAAGAGAGAAAAGAAA
*
4681734 GGAGAAA
1 AGAGAAA
4681741 TCTGAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.17
20 13 0.54
21 7 0.29
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (20 bp):
AGAGAAAGAGAGAAAAGAAA
Found at i:4682115 original size:6 final size:7
Alignment explanation
Indices: 4682089--4682113 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4682079 TTAAGTTTAG
4682089 AAAAATA
1 AAAAATA
4682096 AAAAATA
1 AAAAATA
4682103 AAAAATA
1 AAAAATA
4682110 AAAA
1 AAAA
4682114 TATTTTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:4682179 original size:24 final size:25
Alignment explanation
Indices: 4682143--4682189 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
4682133 TTAATTATCT
4682143 AATGATGAAATTTTTAGAAATTTCA
1 AATGATGAAATTTTTAGAAATTTCA
*
4682168 AATGAT-AAATTTTTATAAATTT
1 AATGATGAAATTTTTAGAAATTT
4682190 TTAGGTAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (25 bp):
AATGATGAAATTTTTAGAAATTTCA
Found at i:4686894 original size:15 final size:16
Alignment explanation
Indices: 4686874--4686906 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4686864 CCTTACACTA
4686874 CCCAT-ATTAGCCTAT
1 CCCATAATTAGCCTAT
*
4686889 CCCATAATTATCCTAT
1 CCCATAATTAGCCTAT
4686905 CC
1 CC
4686907 ACTAACATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.27, C:0.36, G:0.03, T:0.33
Consensus pattern (16 bp):
CCCATAATTAGCCTAT
Found at i:4688437 original size:8 final size:8
Alignment explanation
Indices: 4688433--4688554 Score: 119
Period size: 8 Copynumber: 15.2 Consensus size: 8
4688423 AAAAAAATTA
4688433 AAAAAATG
1 AAAAAATG
4688441 AAAAAATG
1 AAAAAATG
4688449 AAGAAAATG
1 AA-AAAATG
4688458 AAAAAATG
1 AAAAAATG
4688466 AAAAAAATG
1 -AAAAAATG
*
4688475 AAAAAAAG
1 AAAAAATG
*
4688483 GAAAAAT-
1 AAAAAATG
4688490 AAAAAATG
1 AAAAAATG
4688498 AAAAAA--
1 AAAAAATG
*
4688504 AAAAAAGAG
1 AAAAAA-TG
4688513 AAAAAAT-
1 AAAAAATG
4688520 AAAAAATG
1 AAAAAATG
*
4688528 ATAAAATG
1 AAAAAATG
4688536 TAAAAAGA-G
1 -AAAAA-ATG
*
4688545 AGAAAATG
1 AAAAAATG
4688553 AA
1 AA
4688555 GACTTAAATT
Statistics
Matches: 95, Mismatches: 9, Indels: 20
0.77 0.07 0.16
Matches are distributed among these distances:
6 6 0.06
7 14 0.15
8 47 0.49
9 27 0.28
10 1 0.01
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:4688437 original size:9 final size:9
Alignment explanation
Indices: 4688420--4688504 Score: 101
Period size: 9 Copynumber: 10.1 Consensus size: 9
4688410 ATAATAATGG
4688420 ATGAAAAAA
1 ATGAAAAAA
*
4688429 ATTAAAAAA
1 ATGAAAAAA
4688438 ATG-AAAAA
1 ATGAAAAAA
*
4688446 ATGAAGAAA
1 ATGAAAAAA
4688455 ATG-AAAAA
1 ATGAAAAAA
4688463 ATGAAAAAA
1 ATGAAAAAA
4688472 ATGAAAAAA
1 ATGAAAAAA
*
4688481 A-G-GAAAA
1 ATGAAAAAA
4688488 AT--AAAAA
1 ATGAAAAAA
4688495 ATGAAAAAA
1 ATGAAAAAA
4688504 A
1 A
4688505 AAAAAGAGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
7 11 0.17
8 16 0.25
9 38 0.58
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (9 bp):
ATGAAAAAA
Found at i:4688446 original size:17 final size:17
Alignment explanation
Indices: 4688424--4688554 Score: 118
Period size: 17 Copynumber: 8.1 Consensus size: 17
4688414 TAATGGATGA
*
4688424 AAAAAATTAAAAAAATG
1 AAAAAATGAAAAAAATG
*
4688441 AAAAAATGAAGAAAATG
1 AAAAAATGAAAAAAATG
4688458 AAAAAATGAAAAAAATG
1 AAAAAATGAAAAAAATG
* *
4688475 AAAAAAAG-GAAAAAT-
1 AAAAAATGAAAAAAATG
4688490 AAAAAATG-AAAAAA--
1 AAAAAATGAAAAAAATG
4688504 AAAAAA-GAGAAAAAAT-
1 AAAAAATGA-AAAAAATG
*
4688520 AAAAAATG-ATAAAATG
1 AAAAAATGAAAAAAATG
* *
4688536 TAAAAA-GAGAGAAAATG
1 AAAAAATGA-AAAAAATG
4688553 AA
1 AA
4688555 GACTTAAATT
Statistics
Matches: 96, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
13 1 0.01
14 6 0.06
15 25 0.26
16 17 0.18
17 47 0.49
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (17 bp):
AAAAAATGAAAAAAATG
Found at i:4688517 original size:15 final size:14
Alignment explanation
Indices: 4688475--4688525 Score: 66
Period size: 14 Copynumber: 3.5 Consensus size: 14
4688465 GAAAAAAATG
4688475 AAAAAAAGGAAAAA
1 AAAAAAAGGAAAAA
* *
4688489 TAAAAAATGAAAAA
1 AAAAAAAGGAAAAA
4688503 AAAAAAAGAGAAAAA
1 AAAAAAAG-GAAAAA
4688518 ATAAAAAA
1 A-AAAAAA
4688526 TGATAAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 18 0.58
15 7 0.23
16 6 0.19
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (14 bp):
AAAAAAAGGAAAAA
Found at i:4688525 original size:9 final size:9
Alignment explanation
Indices: 4688423--4688525 Score: 52
Period size: 9 Copynumber: 11.6 Consensus size: 9
4688413 ATAATGGATG
*
4688423 AAAAAAATT
1 AAAAAAATA
4688432 AAAAAAAT-
1 AAAAAAATA
* *
4688440 GAAAAAATG
1 AAAAAAATA
*
4688449 AAGAAAAT-
1 AAAAAAATA
* *
4688457 GAAAAAATG
1 AAAAAAATA
4688466 AAAAAAATGA
1 AAAAAAAT-A
**
4688476 AAAAAAGGA
1 AAAAAAATA
4688485 AAAATAAA-A
1 AAAA-AAATA
*
4688494 AATGAAAA-A
1 AA-AAAAATA
*
4688503 AAAAAAAGA
1 AAAAAAATA
*
4688512 GAAAAAATA
1 AAAAAAATA
4688521 AAAAA
1 AAAAA
4688526 TGATAAAATG
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
8 17 0.23
9 47 0.64
10 9 0.12
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.10
Consensus pattern (9 bp):
AAAAAAATA
Found at i:4689774 original size:162 final size:163
Alignment explanation
Indices: 4689550--4689842 Score: 405
Period size: 163 Copynumber: 1.8 Consensus size: 163
4689540 AAATAATATG
* * * * * *
4689550 ACAATTATTTTCTTAAAATTTCATTTAAATTCTTCCTCTATTTGAGACAAATTTAAAGAAATTTC
1 ACAATTATTTTATTAAAATTTCATCTAAATTATTCCACAATTTGAGACAAATCTAAAGAAATTTC
* *
4689615 TCACATAGAGATTTCTTA-AGAATTT-ACAATTTGAAATTCCTAA-GATTCTTATCCTTGGGTAA
66 TCACATAGAGATTTCTTATAAAATTTGAC-ATTTGAAATTCCTAAGGA-TCTCATCCTTGGGTAA
4689677 TTATCAAATATTTTCAACCAAATTTGGAAAAGAAT
129 TTATCAAATATTTTCAACCAAATTTGGAAAAGAAT
* *
4689712 ACAATTACTTTTATTGAAATTTCATCTAAATTATTCCACAATTTG-GACAAATCTAGAGAAATTT
1 ACAATTA-TTTTATTAAAATTTCATCTAAATTATTCCACAATTTGAGACAAATCTAAAGAAATTT
* * * *
4689776 CTCACATATAGATTTCTTATAAAATTTGTCATTTGAAATTTCTAAGGATCTCATTCTTGGGTAAT
65 CTCACATAGAGATTTCTTATAAAATTTGACATTTGAAATTCCTAAGGATCTCATCCTTGGGTAAT
4689841 TA
130 TA
4689843 GTACTTTTCC
Statistics
Matches: 113, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
162 42 0.37
163 68 0.60
164 3 0.03
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.41
Consensus pattern (163 bp):
ACAATTATTTTATTAAAATTTCATCTAAATTATTCCACAATTTGAGACAAATCTAAAGAAATTTC
TCACATAGAGATTTCTTATAAAATTTGACATTTGAAATTCCTAAGGATCTCATCCTTGGGTAATT
ATCAAATATTTTCAACCAAATTTGGAAAAGAAT
Found at i:4692024 original size:44 final size:44
Alignment explanation
Indices: 4691887--4692408 Score: 330
Period size: 44 Copynumber: 12.3 Consensus size: 44
4691877 GATTGTCAAT
* *
4691887 GAGCCTTATTTA-TTTTTCAAAGTTGTTGAGTCTCTATTTAGAG
1 GAGCTTTATTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAG
* * *
4691930 AAGCTTTATTTA-TTTTTCAAAGTTGTTGAGCCT-TGTTTAAAG
1 GAGCTTTATTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAG
* * *
4691972 GAGTTTTATTTATTTTTTTAAAGTTGTTGAGCCTCTGTTTAGAG
1 GAGCTTTATTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAG
* * * * *
4692016 GAACTTTATTTATTTTTTCAAAGTTGTT-ACGCCTTTACTTAAAT
1 GAGCTTTATTTATTTTTTCAAAGTTGTTGA-GCCTCTATTTAGAG
* * * * * * * *
4692060 GAGCTTTATTTATTTTTTTAAA-TTCATTGAACTTTTGTTTAAAT
1 GAGCTTTATTTATTTTTTCAAAGTT-GTTGAGCCTCTATTTAGAG
* * * * *
4692104 GAGC----------CTTCCAAAGTCGTTGAGCCTTTACTTAGAG
1 GAGCTTTATTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAG
* * *
4692138 AAGCTTTATTTA-TTTTTCAAAGTTGTTGAGCATCTGTTTAGAG
1 GAGCTTTATTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAG
* * * * * **
4692181 AAGCCTTATTTATTTTTT-AAAATTGTTGAGCTTTTGCTTAGAG
1 GAGCTTTATTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAG
* * ** ** * **
4692224 GAGTTTTATTTATTTTTTTAAAGTCATCAAACCTCTGCTTAGAG
1 GAGCTTTATTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAG
* * * * *
4692268 GAGCTTTATTTA-TTTTTCAAAATCGTCGAACCTCTATTTAGAA
1 GAGCTTTATTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAG
* * * * * * *
4692311 GAGCCTTATTTATTGTTTT-GAAGTCGTTGAACATTTATTTAAAG
1 GAGCTTTATTTATT-TTTTCAAAGTTGTTGAGCCTCTATTTAGAG
* * *
4692355 GAGCTTTATTTATTCTCTCAAAGTTGTTGAGTCTCTATTTAGAG
1 GAGCTTTATTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAG
4692399 GAG-TTT-TTTA
1 GAGCTTTATTTA
4692409 AGTCTGAGTT
Statistics
Matches: 374, Mismatches: 85, Indels: 41
0.75 0.17 0.08
Matches are distributed among these distances:
34 20 0.05
35 1 0.00
42 21 0.06
43 163 0.44
44 164 0.44
45 5 0.01
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.47
Consensus pattern (44 bp):
GAGCTTTATTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAG
Found at i:4692099 original size:88 final size:86
Alignment explanation
Indices: 4691887--4692385 Score: 305
Period size: 87 Copynumber: 5.9 Consensus size: 86
4691877 GATTGTCAAT
* * * ** *
4691887 GAGCCTTATTTA-TTTTTCAAAGTTGTTGAGTCTCTATTTAGAGAAGCTTTATTTATTTTTCAAA
1 GAGCTTTATTTATTTTTTTAAAGTTATTGAACCTCTGTTTAGAGAAGCTTTATTTATTTTTCAAA
4691951 GTTGTTGAGCCTTGTTTAAAG
66 GTTGTTGAGCCTTGTTTAAAG
* * *
4691972 GAGTTTTATTTATTTTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAA-CTTTATTTATTTTTTCA
1 GAGCTTTATTTATTTTTTTAAAGTTATTGAACCTCTGTTTAGA-GAAGCTTTATTTA-TTTTTCA
*
4692036 AAGTTGTT-ACGCCTT-TACTTAAAT
64 AAGTTGTTGA-GCCTTGT--TTAAAG
* * * * *
4692060 GAGCTTTATTTATTTTTTTAAA-TTCATTGAACTTTTGTTTAAATG-AGC---------CTTCCA
1 GAGCTTTATTTATTTTTTTAAAGTT-ATTGAACCTCTGTTTAGA-GAAGCTTTATTTATTTTTCA
* *
4692114 AAGTCGTTGAGCCTT-TACTTAGAG
64 AAGTTGTTGAGCCTTGT--TTAAAG
* * * * * * *
4692138 AAGCTTTATTTA-TTTTTCAAAGTTGTTGAGCATCTGTTTAGAGAAGCCTTATTTATTTTTTAAA
1 GAGCTTTATTTATTTTTTTAAAGTTATTGAACCTCTGTTTAGAGAAGCTTTATTTATTTTTCAAA
* * * *
4692202 ATTGTTGAGCTTTTGCTTAGAG
66 GTTGTTGAGC-CTTGTTTAAAG
* * ** * *
4692224 GAGTTTTATTTATTTTTTTAAAGTCATCAAACCTCTGCTTAGAGGAGCTTTATTTATTTTTCAAA
1 GAGCTTTATTTATTTTTTTAAAGTTATTGAACCTCTGTTTAGAGAAGCTTTATTTATTTTTCAAA
* * * * *
4692289 ATCGTCGAACCTCTATTTAGAA-
66 GTTGTTGAGCCT-TGTTTA-AAG
* * * ** * * * * * *
4692311 GAGCCTTATTTATTGTTTTGAAGTCGTTGAACATTTATTTAAAGGAGCTTTATTTATTCTCTCAA
1 GAGCTTTATTTATTTTTTTAAAGTTATTGAACCTCTGTTTAGAGAAGCTTTATTTATT-TTTCAA
4692376 AGTTGTTGAG
65 AGTTGTTGAG
4692386 TCTCTATTTA
Statistics
Matches: 319, Mismatches: 69, Indels: 49
0.73 0.16 0.11
Matches are distributed among these distances:
76 1 0.00
77 24 0.08
78 36 0.11
79 1 0.00
85 10 0.03
86 68 0.21
87 126 0.39
88 53 0.17
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.47
Consensus pattern (86 bp):
GAGCTTTATTTATTTTTTTAAAGTTATTGAACCTCTGTTTAGAGAAGCTTTATTTATTTTTCAAA
GTTGTTGAGCCTTGTTTAAAG
Found at i:4692282 original size:208 final size:208
Alignment explanation
Indices: 4691904--4692284 Score: 521
Period size: 208 Copynumber: 1.8 Consensus size: 208
4691894 ATTTATTTTT
* * * *
4691904 CAAAGTTGTTGAGTCTCTATTTAGAGAAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTTGTTTA
1 CAAAGTCGTTGAGCCTCTACTTAGAGAAGCTTTATTTATTTTTCAAAGTTGTTGAGCATTGTTTA
* ** * *
4691969 AAGGAGTTTTATTTATTTTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAACTTTATTTATTTTTT
66 AAGAAGCCTTATTTATTTTTTTAAAATTGTTGAGCCTCTGCTTAGAGGAACTTTATTTATTTTTT
** * ** * *
4692034 CAAAGTTGTTACGCCTTTACTTAAATGAGCTTTATTTATTTTTTTAAATTCATTGAACTTTTGTT
131 CAAAGTCATCAAACCTCTACTTAAAGGAGCTTTATTTATTTTTTTAAATTCATTGAACTTTTGTT
4692099 TAAATGAGCCTTC
196 TAAATGAGCCTTC
*
4692112 CAAAGTCGTTGAGCCTTTACTTAGAGAAGCTTTATTTATTTTTCAAAGTTGTTGAGCATCTGTTT
1 CAAAGTCGTTGAGCCTCTACTTAGAGAAGCTTTATTTATTTTTCAAAGTTGTTGAGCAT-TGTTT
* * * **
4692177 AGAGAAGCCTTATTTA-TTTTTTAAAATTGTTGAGCTTTTGCTTAGAGGAGTTTTATTTATTTTT
65 AAAGAAGCCTTATTTATTTTTTTAAAATTGTTGAGCCTCTGCTTAGAGGAACTTTATTTATTTTT
* * *
4692241 TTAAAGTCATCAAACCTCTGCTTAGAGGAGCTTTATTTATTTTT
130 TCAAAGTCATCAAACCTCTACTTAAAGGAGCTTTATTTATTTTT
4692285 CAAAATCGTC
Statistics
Matches: 147, Mismatches: 25, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
208 130 0.88
209 17 0.12
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.48
Consensus pattern (208 bp):
CAAAGTCGTTGAGCCTCTACTTAGAGAAGCTTTATTTATTTTTCAAAGTTGTTGAGCATTGTTTA
AAGAAGCCTTATTTATTTTTTTAAAATTGTTGAGCCTCTGCTTAGAGGAACTTTATTTATTTTTT
CAAAGTCATCAAACCTCTACTTAAAGGAGCTTTATTTATTTTTTTAAATTCATTGAACTTTTGTT
TAAATGAGCCTTC
Found at i:4692309 original size:87 final size:88
Alignment explanation
Indices: 4692218--4692405 Score: 198
Period size: 87 Copynumber: 2.1 Consensus size: 88
4692208 GAGCTTTTGC
* * * *
4692218 TTAGAGGAGTTTTATTTATTTTTTTAAAGTCATCAAACCTCTGCTTAGAGGAGCTTTATTTATT-
1 TTAGAGGAGTTTTATTTATTGTTTTAAAGTCATCAAACATCTACTTAAAGGAGCTTTATTTATTC
*
4692282 TTTCAAAATCGTCGAACCTCTAT
66 TCTCAAAATCGTCGAACCTCTAT
* ** * * ** * *
4692305 TTAGAAGAGCCTTATTTATTGTTTTGAAGTCGTTGAACATTTATTTAAAGGAGCTTTATTTATTC
1 TTAGAGGAGTTTTATTTATTGTTTTAAAGTCATCAAACATCTACTTAAAGGAGCTTTATTTATTC
* * * **
4692370 TCTCAAAGTTGTTGAGTCTCTAT
66 TCTCAAAATCGTCGAACCTCTAT
4692393 TTAGAGGAGTTTT
1 TTAGAGGAGTTTT
4692406 TTAAGTCTGA
Statistics
Matches: 78, Mismatches: 22, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
87 51 0.65
88 27 0.35
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (88 bp):
TTAGAGGAGTTTTATTTATTGTTTTAAAGTCATCAAACATCTACTTAAAGGAGCTTTATTTATTC
TCTCAAAATCGTCGAACCTCTAT
Found at i:4692439 original size:9 final size:8
Alignment explanation
Indices: 4692424--4692448 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4692414 GAGTTTGCTT
4692424 TAAAAAAA
1 TAAAAAAA
4692432 TAAAAAAA
1 TAAAAAAA
4692440 TAAAAAAA
1 TAAAAAAA
4692448 T
1 T
4692449 TATGTGTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:4692885 original size:24 final size:24
Alignment explanation
Indices: 4692834--4692889 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
4692824 GAAGAGTGTC
*
4692834 AAAA-TTTTTTGGGAAATTTTTAG
1 AAAATTTTTTTGGAAAATTTTTAG
*
4692857 TAAATTTTTTTGGAAAATTTTT-G
1 AAAATTTTTTTGGAAAATTTTTAG
*
4692880 AAAAATTTTT
1 AAAATTTTTT
4692890 AGTTTTCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (24 bp):
AAAATTTTTTTGGAAAATTTTTAG
Found at i:4696860 original size:14 final size:15
Alignment explanation
Indices: 4696829--4696862 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
4696819 CTCCTAATTA
*
4696829 ATAAAATTATTTTAT
1 ATAAAATTATTATAT
4696844 ATAAAATTA-TATAT
1 ATAAAATTATTATAT
4696858 ATAAA
1 ATAAA
4696863 GTCTAATCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAAAATTATTATAT
Found at i:4697402 original size:23 final size:23
Alignment explanation
Indices: 4697372--4697418 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
4697362 TGCTTACTTT
4697372 TGTATGGATGTTAGAAAAAATTA
1 TGTATGGATGTTAGAAAAAATTA
*
4697395 TGTATGGATGTTGGAAAAAATTA
1 TGTATGGATGTTAGAAAAAATTA
4697418 T
1 T
4697419 CTTAATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.36
Consensus pattern (23 bp):
TGTATGGATGTTAGAAAAAATTA
Found at i:4699005 original size:18 final size:21
Alignment explanation
Indices: 4698968--4699012 Score: 60
Period size: 18 Copynumber: 2.3 Consensus size: 21
4698958 CTAAATATAT
4698968 ATTTTATTATTATAATAATTA
1 ATTTTATTATTATAATAATTA
4698989 ATTTTATT-TTA-AA-AATTA
1 ATTTTATTATTATAATAATTA
*
4699007 TTTTTA
1 ATTTTA
4699013 ATTTCATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 10 0.43
19 2 0.09
20 3 0.13
21 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTATTATTATAATAATTA
Found at i:4704937 original size:21 final size:22
Alignment explanation
Indices: 4704911--4704966 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
4704901 TGTTTGGTAT
*
4704911 ATAAGATTATAATA-GGATAGG
1 ATAAGATTATAATATGAATAGG
* *
4704932 ATAAGATGATATTATGAATAGG
1 ATAAGATTATAATATGAATAGG
*
4704954 ATTAGATTA-AATA
1 ATAAGATTATAATA
4704967 ATATAATCCT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (22 bp):
ATAAGATTATAATATGAATAGG
Found at i:4710046 original size:9 final size:9
Alignment explanation
Indices: 4710032--4710074 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
4710022 AACGGTTTTT
4710032 TTTCCTCAA
1 TTTCCTCAA
4710041 TTTCCTCAA
1 TTTCCTCAA
*
4710050 TTTCCCTCAT
1 TTT-CCTCAA
*
4710060 TTTGCCTCCA
1 TTT-CCTCAA
4710070 TTTCC
1 TTTCC
4710075 CTTGACCCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 14 0.48
10 15 0.52
ACGTcount: A:0.14, C:0.37, G:0.02, T:0.47
Consensus pattern (9 bp):
TTTCCTCAA
Found at i:4710072 original size:20 final size:19
Alignment explanation
Indices: 4710035--4710076 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
4710025 GGTTTTTTTT
4710035 CCTCAATTTCCTCAATTTC
1 CCTCAATTTCCTCAATTTC
* *
4710054 CCTCATTTTGCCTCCATTTC
1 CCTCAATTT-CCTCAATTTC
4710074 CCT
1 CCT
4710077 TGACCCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.14, C:0.40, G:0.02, T:0.43
Consensus pattern (19 bp):
CCTCAATTTCCTCAATTTC
Found at i:4711264 original size:12 final size:12
Alignment explanation
Indices: 4711247--4711271 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4711237 TCAGCTTCCA
4711247 CAGTCATGGATG
1 CAGTCATGGATG
4711259 CAGTCATGGATG
1 CAGTCATGGATG
4711271 C
1 C
4711272 TAAAAGGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (12 bp):
CAGTCATGGATG
Found at i:4715339 original size:2 final size:2
Alignment explanation
Indices: 4715334--4715370 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4715324 CACTCACACA
*
4715334 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CA CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
4715371 AATACAGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.03, C:0.51, G:0.00, T:0.46
Consensus pattern (2 bp):
CT
Found at i:4719310 original size:89 final size:89
Alignment explanation
Indices: 4719159--4719336 Score: 311
Period size: 89 Copynumber: 2.0 Consensus size: 89
4719149 TGTACCAGTG
* *
4719159 TTAGTAATTTGAGGGTCTACTTGATGAGCATATTGCCAAAAAAATAATTGATTTTTAGTATTCCA
1 TTAGTAATTTGAGGATCTACTTGATGAGCATATTGCCAAAAAAATAATTGATTTTCAGTATTCCA
4719224 CACTTAAGTCTTTCATTACTTGGA
66 CACTTAAGTCTTTCATTACTTGGA
* * *
4719248 TTAGTAATTTGAGGATCTATTTGATGAGCATATTGGCAAAAAAATCATTGATTTTCAGTATTCCA
1 TTAGTAATTTGAGGATCTACTTGATGAGCATATTGCCAAAAAAATAATTGATTTTCAGTATTCCA
4719313 CACTTAAGTCTTTCATTACTTGGA
66 CACTTAAGTCTTTCATTACTTGGA
4719337 AATTTTGGGA
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 84 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (89 bp):
TTAGTAATTTGAGGATCTACTTGATGAGCATATTGCCAAAAAAATAATTGATTTTCAGTATTCCA
CACTTAAGTCTTTCATTACTTGGA
Found at i:4730442 original size:22 final size:22
Alignment explanation
Indices: 4730416--4730459 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4730406 TTGTGTATTT
*
4730416 ATATTTGTATTTTTAAAATTAA
1 ATATTTGTATCTTTAAAATTAA
4730438 ATATTTGTATCTTTAAAATTAA
1 ATATTTGTATCTTTAAAATTAA
4730460 GATAGACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (22 bp):
ATATTTGTATCTTTAAAATTAA
Found at i:4734292 original size:22 final size:22
Alignment explanation
Indices: 4734267--4734308 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4734257 TGTATATTTA
* *
4734267 TATTTGTATCTCTAAAATTAAG
1 TATTTATATCCCTAAAATTAAG
4734289 TATTTATATCCCTAAAATTA
1 TATTTATATCCCTAAAATTA
4734309 GGATAGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (22 bp):
TATTTATATCCCTAAAATTAAG
Found at i:4734622 original size:21 final size:20
Alignment explanation
Indices: 4734598--4734640 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
4734588 TATACTTCTT
4734598 ATTAT-TGATTTTAATTTTATC
1 ATTATATGA-TTTAA-TTTATC
*
4734619 ATTATATTATTTAATTTATC
1 ATTATATGATTTAATTTATC
4734639 AT
1 AT
4734641 CACAATAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 10 0.50
22 2 0.10
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTATATGATTTAATTTATC
Found at i:4741073 original size:32 final size:32
Alignment explanation
Indices: 4741030--4741095 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
4741020 CCGTAATAAG
* *
4741030 TTTAAATTATTTTTAATTTGAATTAATTTAAA
1 TTTAAAATATTTTTAATTTAAATTAATTTAAA
* *
4741062 TTTAAAATATTTTTGATTTAAATTATTTTAAA
1 TTTAAAATATTTTTAATTTAAATTAATTTAAA
4741094 TT
1 TT
4741096 CAATTTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (32 bp):
TTTAAAATATTTTTAATTTAAATTAATTTAAA
Found at i:4741562 original size:14 final size:15
Alignment explanation
Indices: 4741545--4741573 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4741535 CTTTTCTCCC
4741545 TTTTCTTTT-TTTTT
1 TTTTCTTTTCTTTTT
4741559 TTTTCTTTTCTTTTT
1 TTTTCTTTTCTTTTT
4741574 CTATAGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTCTTTTCTTTTT
Found at i:4743263 original size:23 final size:22
Alignment explanation
Indices: 4743189--4743264 Score: 66
Period size: 24 Copynumber: 3.3 Consensus size: 22
4743179 TCTTTTTTTT
*
4743189 TTTTTTTTCAACTGTTTGAAAATTA
1 TTTTTTTT-AA-TATTT-AAAATTA
*
4743214 -TTTTTTTAATATTTAATATTTTA
1 TTTTTTTTAATATTTAA-A-ATTA
4743237 TTTTTTTT-ATATTTTAAAATTA
1 TTTTTTTTAATA-TTTAAAATTA
4743259 TTTTTT
1 TTTTTT
4743265 AACATTAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
21 2 0.05
22 14 0.32
23 9 0.20
24 19 0.43
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (22 bp):
TTTTTTTTAATATTTAAAATTA
Found at i:4749158 original size:25 final size:25
Alignment explanation
Indices: 4749106--4749163 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
4749096 AAATTTTTAT
* *
4749106 TAAATTTTTTTAATTATAATTAAGA
1 TAAATTTTTTTAATCATAACTAAGA
*
4749131 TAATTTTTTTTAATCATAACTATA-A
1 TAAATTTTTTTAATCATAACTA-AGA
4749156 TAAATTTT
1 TAAATTTT
4749164 ATTATTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 27 0.96
26 1 0.04
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (25 bp):
TAAATTTTTTTAATCATAACTAAGA
Found at i:4750086 original size:30 final size:30
Alignment explanation
Indices: 4750038--4750108 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
4750028 TTATTCTCAA
* ** * *
4750038 ATAAATATTTAATTTTTAACTTGCATTTAT
1 ATAAATTTTTAAAATTTAACTTACATCTAT
* *
4750068 ATAAATTTTTAAAATTTAATTTATATCTAT
1 ATAAATTTTTAAAATTTAACTTACATCTAT
4750098 ATAAATTTTTA
1 ATAAATTTTTA
4750109 TCCTTTAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (30 bp):
ATAAATTTTTAAAATTTAACTTACATCTAT
Found at i:4752330 original size:16 final size:16
Alignment explanation
Indices: 4752309--4752343 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
4752299 CATTGTAGAC
4752309 ATTTAATTTGGTTTAA
1 ATTTAATTTGGTTTAA
4752325 ATTTAATTTGGTTTAA
1 ATTTAATTTGGTTTAA
4752341 ATT
1 ATT
4752344 CAAATCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (16 bp):
ATTTAATTTGGTTTAA
Found at i:4752393 original size:8 final size:8
Alignment explanation
Indices: 4752380--4752454 Score: 55
Period size: 8 Copynumber: 9.1 Consensus size: 8
4752370 ATAGGTTCAC
4752380 TTTATTTT
1 TTTATTTT
4752388 TTTATTATT
1 TTTATT-TT
4752397 TTGTA-TTT
1 TT-TATTTT
*
4752405 TGTA-TTT
1 TTTATTTT
*
4752412 TATATTTT
1 TTTATTTT
*
4752420 ATTATTTT
1 TTTATTTT
*
4752428 ATTATTTT
1 TTTATTTT
*
4752436 TATTTTTATT
1 T-TTATT-TT
4752446 TTTATTTT
1 TTTATTTT
4752454 T
1 T
4752455 ATTCTTTTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
7 8 0.15
8 29 0.53
9 13 0.24
10 5 0.09
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.79
Consensus pattern (8 bp):
TTTATTTT
Found at i:4752423 original size:29 final size:28
Alignment explanation
Indices: 4752387--4752447 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 28
4752377 CACTTTATTT
4752387 TTTTATTATTTT-GTATTTTGTATTTTATA
1 TTTTATTATTTTAGTATTTT-TATTTT-TA
*
4752416 TTTTATTATTTTATTATTTTTATTTTTA
1 TTTTATTATTTTAGTATTTTTATTTTTA
4752444 TTTT
1 TTTT
4752448 TATTTTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 6 0.20
29 18 0.60
30 6 0.20
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (28 bp):
TTTTATTATTTTAGTATTTTTATTTTTA
Found at i:4752430 original size:37 final size:36
Alignment explanation
Indices: 4752380--4752504 Score: 134
Period size: 37 Copynumber: 3.4 Consensus size: 36
4752370 ATAGGTTCAC
*
4752380 TTTATTTTTTTATTATTTTGTATTTTGTATTTTATAT
1 TTTATTATTTTATTATTTTGTATTTT-TATTTTATAT
4752417 TTTATTATTTTATTATTTT-TATTTTTATTTT-TATT
1 TTTATTATTTTATTATTTTGTATTTTTATTTTATA-T
*
4752452 TTTATTCTTTTA-TATCTTATGTATTTTTA-TTTAT-T
1 TTTATTATTTTATTAT-TT-TGTATTTTTATTTTATAT
4752487 TATTATTACTATTTATTA
1 T-TTATTA-T-TTTATTA
4752505 ATATATATTT
Statistics
Matches: 76, Mismatches: 3, Indels: 16
0.80 0.03 0.17
Matches are distributed among these distances:
34 5 0.07
35 22 0.29
36 15 0.20
37 28 0.37
38 4 0.05
39 2 0.03
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (36 bp):
TTTATTATTTTATTATTTTGTATTTTTATTTTATAT
Found at i:4752440 original size:6 final size:6
Alignment explanation
Indices: 4752380--4752457 Score: 81
Period size: 6 Copynumber: 13.0 Consensus size: 6
4752370 ATAGGTTCAC
* *
4752380 TTTATT TTT-TT ATTATT TTGTATT TTGTA-T TTTATAT TTTATT ATT-TT
1 TTTATT TTTATT TTTATT TT-TATT TT-TATT TTTAT-T TTTATT TTTATT
*
4752428 ATTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT
4752458 CTTTTATATC
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
5 11 0.17
6 37 0.59
7 15 0.24
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:4752456 original size:42 final size:44
Alignment explanation
Indices: 4752392--4752483 Score: 120
Period size: 43 Copynumber: 2.1 Consensus size: 44
4752382 TATTTTTTTA
*
4752392 TTATTTTGTATTTTGTATTTTA-TATTTTATTATTTTAT-TATTT
1 TTATTTTGTATTTTGTATTTTATTATTTTA-TATCTTATGTATTT
*
4752435 TTATTTT-TATTTT-TATTTTTATTCTTTTATATCTTATGTATTT
1 TTATTTTGTATTTTGTA-TTTTATTATTTTATATCTTATGTATTT
4752478 TTATTT
1 TTATTT
4752484 ATTTATTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
41 2 0.05
42 18 0.41
43 24 0.55
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.75
Consensus pattern (44 bp):
TTATTTTGTATTTTGTATTTTATTATTTTATATCTTATGTATTT
Found at i:4752486 original size:4 final size:4
Alignment explanation
Indices: 4752477--4752589 Score: 54
Period size: 4 Copynumber: 27.5 Consensus size: 4
4752467 CTTATGTATT
* *
4752477 TTTA TTTA TTTA -TTA TTACTA TTTA TTAATA TATA TTTA TTTTT TTTA
1 TTTA TTTA TTTA TTTA TT--TA TTTA TT--TA TTTA TTTA -TTTA TTTA
* * * * *
4752525 TGTTAA TATA TATA TTT- TTTA TTTA TCTA GTTA TATA TTTA -TTA -TTA
1 T-TT-A TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
4752572 TTTA TCTA TTTA TATA TT
1 TTTA TTTA TTTA TTTA TT
4752590 ATAACTTATC
Statistics
Matches: 83, Mismatches: 16, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
3 12 0.14
4 56 0.67
5 6 0.07
6 9 0.11
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (4 bp):
TTTA
Found at i:4752492 original size:21 final size:20
Alignment explanation
Indices: 4752389--4752676 Score: 95
Period size: 21 Copynumber: 14.1 Consensus size: 20
4752379 CTTTATTTTT
*
4752389 TTATTATTTTGTATTT-TGTA
1 TTATTATTTT-TATTTATTTA
4752409 TT-TTATATTTTA-TTA-TT-
1 TTATTAT-TTTTATTTATTTA
4752426 TTATTATTTTTA-TT-TTTA
1 TTATTATTTTTATTTATTTA
* *
4752444 TTTTTATTTTTATTCTTTTATA
1 TTATTATTTTTATT-TATT-TA
4752466 TCTTATGTATTTTTATTTATTTA
1 --TTAT-TATTTTTATTTATTTA
* * *
4752489 TTATTACTATTTATTAATATA
1 TTATTA-TTTTTATTTATTTA
4752510 -TATTTATTTTT-TTTATGTTAA
1 TTA-TTATTTTTATTTAT-TT-A
*
4752531 TATATATATTTTTTATTTATCTA
1 T-TAT-TA-TTTTTATTTATTTA
4752554 GTTATATATTTATTA-TTATTTA
1 -TTAT-TATTT-TTATTTATTTA
* * *
4752576 TCTATTTATATATTA-TAACTTA
1 T-TA-TTAT-TTTTATTTATTTA
* * *
4752598 TCTATTATTATT-TTTATCTG
1 T-TATTATTTTTATTTATTTA
* *
4752618 TTAATATTTTGATTTA-TT-
1 TTATTATTTTTATTTATTTA
* * *
4752636 TGATT-TTTTTAATTATCTA
1 TTATTATTTTTATTTATTTA
*
4752655 TTAATATTTTTTATTT-TTTA
1 TTATTA-TTTTTATTTATTTA
4752675 TT
1 TT
4752677 TTTTTTCTTG
Statistics
Matches: 204, Mismatches: 32, Indels: 64
0.68 0.11 0.21
Matches are distributed among these distances:
17 19 0.09
18 22 0.11
19 22 0.11
20 32 0.16
21 34 0.17
22 29 0.14
23 18 0.09
24 13 0.06
25 15 0.07
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (20 bp):
TTATTATTTTTATTTATTTA
Found at i:4752513 original size:27 final size:25
Alignment explanation
Indices: 4752483--4752572 Score: 76
Period size: 27 Copynumber: 3.5 Consensus size: 25
4752473 TATTTTTATT
*
4752483 TATTTATTATTACTATTTATTAATATA
1 TATTTATTATTA-TATTTAAT-ATATA
* *
4752510 TATTTATTTTTTTTATGTTAATATATA
1 TATTTA-TTATTATAT-TTAATATATA
* * *
4752537 TATTTTTTATT-TATCTAGT-TATA
1 TATTTATTATTATATTTAATATATA
4752560 TATTTATTATTAT
1 TATTTATTATTAT
4752573 TTATCTATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
23 14 0.27
24 4 0.08
25 3 0.06
26 4 0.08
27 19 0.37
28 8 0.15
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (25 bp):
TATTTATTATTATATTTAATATATA
Found at i:4752534 original size:25 final size:24
Alignment explanation
Indices: 4752496--4752576 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 24
4752486 TTATTATTAC
4752496 TATTTA-TTAATATATATTTATTT
1 TATTTATTTAATATATATTTATTT
*
4752519 TTTTTATGTTAATATATATATT-TTT
1 TATTTAT-TTAATATATAT-TTATTT
* *
4752544 TATTTATCTAGTTATATATTTATTAT
1 TATTTATTTA-ATATATATTTATT-T
4752570 TATTTAT
1 TATTTAT
4752577 CTATTTATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
23 5 0.10
24 4 0.08
25 29 0.60
26 10 0.21
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.65
Consensus pattern (24 bp):
TATTTATTTAATATATATTTATTT
Found at i:4752565 original size:16 final size:15
Alignment explanation
Indices: 4752544--4752626 Score: 55
Period size: 14 Copynumber: 5.3 Consensus size: 15
4752534 ATATATTTTT
4752544 TATTTATCTAGTTATA
1 TATTTATCTA-TTATA
4752560 TATTTAT-TATTATTTA
1 TATTTATCTATTA--TA
*
4752576 TCTATTTATATATTATA
1 --TATTTATCTATTATA
*
4752593 -ACTTATCTATTATTA
1 TATTTATCTATTA-TA
* *
4752608 TTTTTATCTGTTA-A
1 TATTTATCTATTATA
4752622 TATTT
1 TATTT
4752627 TGATTTATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
14 18 0.33
15 4 0.07
16 18 0.33
17 2 0.04
18 7 0.13
19 5 0.09
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.61
Consensus pattern (15 bp):
TATTTATCTATTATA
Found at i:4752576 original size:7 final size:7
Alignment explanation
Indices: 4752388--4752614 Score: 85
Period size: 7 Copynumber: 33.1 Consensus size: 7
4752378 ACTTTATTTT
4752388 TTTATTA
1 TTTATTA
4752395 TTT-TGTA
1 TTTAT-TA
4752402 TTT-TGTA
1 TTTAT-TA
4752409 TTT-TATA
1 TTTAT-TA
4752416 TTTTATTA
1 -TTTATTA
4752424 TTTTATTA
1 -TTTATTA
4752432 TTT-TTA
1 TTTATTA
4752438 TTT-TTA
1 TTTATTA
4752444 TTT-TTA
1 TTTATTA
4752450 TTT-TTA
1 TTTATTA
*
4752456 TTCTTTTA
1 TT-TATTA
* *
4752464 TATCTTA
1 TTTATTA
*
4752471 TGTATT-
1 TTTATTA
4752477 TTTATTTA
1 TTTA-TTA
4752485 TTTATTA
1 TTTATTA
*
4752492 -TTACTA
1 TTTATTA
4752498 TTTATTA
1 TTTATTA
*
4752505 -ATATATA
1 TTTAT-TA
4752512 TTTATT-
1 TTTATTA
*
4752518 TTTTTTA
1 TTTATTA
*
4752525 TGTTAATA
1 T-TTATTA
*
4752533 TATA-TA
1 TTTATTA
*
4752539 TTTTTTA
1 TTTATTA
4752546 TTTATCTA
1 TTTAT-TA
*
4752554 GTTA-TA
1 TTTATTA
*
4752560 TAT-TTA
1 TTTATTA
4752566 -TTATTA
1 TTTATTA
4752572 TTTATCTA
1 TTTAT-TA
4752580 TTTA-TA
1 TTTATTA
*
4752586 TATTATAA
1 T-TTATTA
*
4752594 CTTATCTA
1 TTTAT-TA
4752602 -TTATTA
1 TTTATTA
4752608 TTT-TTA
1 TTTATTA
4752614 T
1 T
4752615 CTGTTAATAT
Statistics
Matches: 174, Mismatches: 24, Indels: 45
0.72 0.10 0.19
Matches are distributed among these distances:
5 1 0.01
6 61 0.35
7 69 0.40
8 42 0.24
9 1 0.01
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.68
Consensus pattern (7 bp):
TTTATTA
Found at i:4752589 original size:22 final size:23
Alignment explanation
Indices: 4752447--4752605 Score: 80
Period size: 25 Copynumber: 6.8 Consensus size: 23
4752437 ATTTTTATTT
* *
4752447 TTATT-TTTATTCTTTTATATCTTA
1 TTATTATTTA-TCTATTATAT-ATA
*
4752471 TGTATT-TTTATTTATT-TAT-TA
1 T-TATTATTTATCTATTATATATA
* *
4752492 TTACTATTTAT-TAATATATAT-
1 TTATTATTTATCTATTATATATA
* * *
4752513 TTATTTTTTTTATGTTAATATATATA
1 TTA--TTATTTAT-CTATTATATATA
*
4752539 TTTTTTATTTATCTAGTTATATATTTA
1 -TTATTATTTATCTA-TTATATA--TA
4752566 TTATTATTTATCTATT-TATATA
1 TTATTATTTATCTATTATATATA
* *
4752588 TTATAACTTATCTATTAT
1 TTATTATTTATCTATTAT
4752606 TATTTTTATC
Statistics
Matches: 108, Mismatches: 13, Indels: 29
0.72 0.09 0.19
Matches are distributed among these distances:
20 6 0.06
21 14 0.13
22 17 0.16
23 10 0.09
24 11 0.10
25 33 0.31
26 13 0.12
27 4 0.04
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (23 bp):
TTATTATTTATCTATTATATATA
Found at i:4752598 original size:26 final size:26
Alignment explanation
Indices: 4752543--4752606 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
4752533 TATATATTTT
* *
4752543 TTATTTATCTAGTTATATATTTATTA
1 TTATTTATCTATTTATATATTTATAA
4752569 TTATTTATCTATTTATATA-TTATAA
1 TTATTTATCTATTTATATATTTATAA
*
4752594 CTTATCTAT-TATT
1 -TTATTTATCTATT
4752607 ATTTTTATCT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 9 0.26
26 25 0.74
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (26 bp):
TTATTTATCTATTTATATATTTATAA
Found at i:4752682 original size:37 final size:37
Alignment explanation
Indices: 4752611--4752681 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
4752601 ATTATTATTT
*
4752611 TTATCTGTTAATATTTTGATTTATTTGATTTTTTTAA
1 TTATCTATTAATATTTTGATTTATTTGATTTTTTTAA
*
4752648 TTATCTATTAATATTTTTTATTT-TTT-ATTTTTTT
1 TTATCTATTAATA-TTTTGATTTATTTGATTTTTTT
4752682 TCTTGATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 8 0.26
37 15 0.48
38 8 0.26
ACGTcount: A:0.23, C:0.03, G:0.04, T:0.70
Consensus pattern (37 bp):
TTATCTATTAATATTTTGATTTATTTGATTTTTTTAA
Found at i:4753550 original size:20 final size:20
Alignment explanation
Indices: 4753523--4753628 Score: 73
Period size: 20 Copynumber: 5.5 Consensus size: 20
4753513 TTTTTTTTTC
4753523 ATTT-TTTAATATT-TTATTT
1 ATTTATTTAATATTATTA-TT
*
4753542 ATTTATTTATTATTATTATT
1 ATTTATTTAATATTATTATT
* * *
4753562 ATTTATTGATTA-CATTA-T
1 ATTTATTTAATATTATTATT
* *
4753580 ATTTGTTTAATACTTTTTATT
1 ATTTATTTAATA-TTATTATT
*
4753601 -TTTATTT-TTATTATT-TT
1 ATTTATTTAATATTATTATT
4753618 ATTTTATTTAA
1 A-TTTATTTAA
4753629 ATAAAATTCA
Statistics
Matches: 67, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
17 2 0.03
18 14 0.21
19 17 0.25
20 30 0.45
21 4 0.06
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
ATTTATTTAATATTATTATT
Found at i:4753582 original size:24 final size:22
Alignment explanation
Indices: 4753531--4753583 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 22
4753521 TCATTTTTTA
* *
4753531 ATATTTTATTTATTTATTTATT
1 ATATTTTATTTATTGATTCATT
4753553 ATTATTATTATTTATTGATTACATT
1 A-TATT-TTATTTATTGATT-CATT
4753578 ATATTT
1 ATATTT
4753584 GTTTAATACT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 1 0.04
23 5 0.19
24 16 0.62
25 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (22 bp):
ATATTTTATTTATTGATTCATT
Found at i:4753768 original size:64 final size:62
Alignment explanation
Indices: 4753638--4753939 Score: 211
Period size: 57 Copynumber: 5.0 Consensus size: 62
4753628 AATAAAATTC
* * * * *
4753638 AAAAAAAAAAATTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAAATAAGCTTTCTAA
1 AAAAAAAAAAATTTTGAGGAAAAGTTAAAAATATCAATTTTCCTTAAAAATAAGCTTTCTAA
4753700 AAAAAAAAAAACCCTTTTGAGGAAAAGTTAAAAATATCAATTTTCCTTAAAAATAAG-TTT-T--
1 AAAAAAAAAAA---TTTTGAGGAAAAGTTAAAAATATCAATTTTCCTTAAAAATAAGCTTTCTAA
* * * * * ** *
4753761 -CAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGCTTTCT--
1 AAAAAAAAAAATTTTGAGGAAAAGTTAAAAATATCAATTTTCCTTAAAAAT-AAGCTTTCTAA
* ** * * *
4753821 -AAAAAATATTTTTTGA-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAG-TTTGC---
1 AAAAAAAAAAATTTTGAGGAAAAGTTAAAAATATCAATTTTCCTTAAAAATAAGCTTT-CTAA
** * * * * * *
4753878 -AAAAATGAATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTC-AA
1 AAAAAAAAAAATTTTGAGGAAAAGTTAAAAATATCAATTTTCCTTAAAAATAAGCTTTCTAA
4753938 AA
1 AA
4753940 GTGAATTTTT
Statistics
Matches: 205, Mismatches: 23, Indels: 25
0.81 0.09 0.10
Matches are distributed among these distances:
57 50 0.24
58 43 0.21
59 36 0.18
60 22 0.11
61 1 0.00
62 11 0.05
63 1 0.00
64 3 0.01
65 38 0.19
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.35
Consensus pattern (62 bp):
AAAAAAAAAAATTTTGAGGAAAAGTTAAAAATATCAATTTTCCTTAAAAATAAGCTTTCTAA
Found at i:4753776 original size:57 final size:57
Alignment explanation
Indices: 4753640--4754033 Score: 409
Period size: 58 Copynumber: 6.7 Consensus size: 57
4753630 TAAAATTCAA
* * * *
4753640 AAAAAAAAATTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAAATAAGCTTTCTAAAAA
1 AAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAG-TTT-T----C
* * * *
4753703 AAAAAAAACCCTTTTGAGGAAAAGTTAAAAATATCAATTTTCCTTAAAAATAAGTTTTC
1 AAAAAAAA--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTC
** * *
4753762 AAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGCTTTC
1 AAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAGTTTTC
* *
4753820 TAAAAAATATTTTTTGA-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTGC
1 -AAAAAA-AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTC
* *
4753878 AAAAATGAATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTC
1 AAAAA-AAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTC
** * *
4753936 AAAAGTGAATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTCT-AAATTAAAG-TTTC
1 AAAA-AAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT-TAAAAAT-AAGTTTTC
* **
4753994 -TAAAAAATATTTTGAAAAAAAGTTGAAAGTATCAATTTTT
1 AAAAAAAAT-TTTTGAGGAAAAGTTGAAAGTATCAATTTTT
4754034 TCTGCACAAA
Statistics
Matches: 285, Mismatches: 35, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
56 3 0.01
57 77 0.27
58 99 0.35
59 48 0.17
60 8 0.03
63 9 0.03
64 3 0.01
65 38 0.13
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (57 bp):
AAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTC
Found at i:4753858 original size:27 final size:27
Alignment explanation
Indices: 4753828--4753918 Score: 69
Period size: 28 Copynumber: 3.2 Consensus size: 27
4753818 TCTAAAAAAT
4753828 ATTTTTTGAGAAAAGTTGAAAGTATCA
1 ATTTTTTGAGAAAAGTTGAAAGTATCA
* * * *
4753855 ATTTTTCTTAAAAATAAGTTTGCAAA-AATGA
1 A-TTTT-TTGAGAA-AAG-TTG-AAAGTATCA
*
4753886 A-TTTTTGAGGAAAAATTGAAAGTATCA
1 ATTTTTTGA-GAAAAGTTGAAAGTATCA
4753913 ATTTTT
1 ATTTTT
4753919 CTTAAAAATA
Statistics
Matches: 47, Mismatches: 9, Indels: 15
0.66 0.13 0.21
Matches are distributed among these distances:
26 3 0.06
27 8 0.17
28 13 0.28
29 10 0.21
30 3 0.06
31 7 0.15
32 3 0.06
ACGTcount: A:0.42, C:0.04, G:0.14, T:0.40
Consensus pattern (27 bp):
ATTTTTTGAGAAAAGTTGAAAGTATCA
Found at i:4753889 original size:31 final size:31
Alignment explanation
Indices: 4753854--4753949 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 31
4753844 TGAAAGTATC
4753854 AATTTTTCTTAAAAATAAGTTTGCAAAAATG
1 AATTTTTCTTAAAAATAAGTTTGCAAAAATG
* * * *
4753885 AA-TTTT-TGAGGAAA-AA--TTG-AAAGTATC
1 AATTTTTCTTA-AAAATAAGTTTGCAAA-AATG
* *
4753912 AATTTTTCTTAAAAATAAGTTTTCAAAAGTG
1 AATTTTTCTTAAAAATAAGTTTGCAAAAATG
4753943 AATTTTT
1 AATTTTT
4753950 AAGGAAAAGT
Statistics
Matches: 47, Mismatches: 10, Indels: 16
0.64 0.14 0.22
Matches are distributed among these distances:
26 3 0.06
27 7 0.15
28 7 0.15
29 8 0.17
30 7 0.15
31 12 0.26
32 3 0.06
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (31 bp):
AATTTTTCTTAAAAATAAGTTTGCAAAAATG
Found at i:4753926 original size:27 final size:27
Alignment explanation
Indices: 4753838--4753926 Score: 63
Period size: 27 Copynumber: 3.1 Consensus size: 27
4753828 ATTTTTTGAG
*
4753838 AAAAGTTGAAAGTATCAATTTTTCTTAA
1 AAAAATTGAAAGTATCAATTTTTCTT-A
* * ****
4753866 AAATAAGTTTGCAAA-AATGAATTTTTGAGG
1 AAA-AA--TTG-AAAGTATCAATTTTTCTTA
4753896 AAAAATTGAAAGTATCAATTTTTCTTA
1 AAAAATTGAAAGTATCAATTTTTCTTA
4753923 AAAA
1 AAAA
4753927 TAAGTTTTCA
Statistics
Matches: 43, Mismatches: 13, Indels: 11
0.64 0.19 0.16
Matches are distributed among these distances:
26 3 0.07
27 16 0.37
28 3 0.07
29 3 0.07
30 3 0.07
31 12 0.28
32 3 0.07
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (27 bp):
AAAAATTGAAAGTATCAATTTTTCTTA
Found at i:4757595 original size:9 final size:9
Alignment explanation
Indices: 4757581--4757606 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
4757571 CAACACTTCG
4757581 CATATCCTA
1 CATATCCTA
4757590 CATATCCTA
1 CATATCCTA
4757599 CATATCCT
1 CATATCCT
4757607 GGAATGCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (9 bp):
CATATCCTA
Found at i:4764474 original size:15 final size:13
Alignment explanation
Indices: 4764456--4764505 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
4764446 CTTAAAATAA
4764456 AAAAATAAAAAAATG
1 AAAAA-AAAAAAA-G
**
4764471 AAAATGAAAAAAG
1 AAAAAAAAAAAAG
*
4764484 AAAAAAAGAAAAG
1 AAAAAAAAAAAAG
4764497 AAAAAAAAA
1 AAAAAAAAA
4764506 GTGAATGAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
13 19 0.66
14 6 0.21
15 4 0.14
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:4764474 original size:22 final size:21
Alignment explanation
Indices: 4764449--4764503 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 21
4764439 TACTATGCTT
*
4764449 AAAATAAAAAAATAAAAAAATG
1 AAAATAAAAAAAGAAAAAAA-G
*
4764471 AAAATGAAAAAAGAAAAAAAG
1 AAAATAAAAAAAGAAAAAAAG
*
4764492 AAAAGAAAAAAA
1 AAAATAAAAAAA
4764504 AAGTGAATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (21 bp):
AAAATAAAAAAAGAAAAAAAG
Found at i:4765521 original size:41 final size:41
Alignment explanation
Indices: 4765476--4765943 Score: 546
Period size: 41 Copynumber: 11.2 Consensus size: 41
4765466 ATGACTGTCA
* * *
4765476 AGGAGCCATTTATTTTTCAAAATTGTTGAGTCTCTTATTAG
1 AGGAGCCATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAG
* *
4765517 AGGAGCAATTTATTTTTCAAAGTTG-TGAGCCTCTTATTAG
1 AGGAGCCATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAG
* *
4765557 AGGAGCAATTTATTTTTCAAAGTATTTTTCAAAGTTGTGAGCCTCTTATTAG
1 AGGAGCCATTTATTTTTCAAAG-----TT----G-T-TGAGCCTCTGATTAG
*
4765609 AGGAGCAATTTATTTTTCAAAGTTG-TGAGCCTCTGATTAG
1 AGGAGCCATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAG
**
4765649 AGGAGCCATTTATTTTTCAAAGTCATTGAGCCTCTGATTAG
1 AGGAGCCATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAG
* * *
4765690 AGGAGCCGTTTATTTTTCAAAGTTGTTAAGCCTTTGATTAG
1 AGGAGCCATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAG
* *
4765731 AGGAGCAATTTATTTTTTAAAGTTG-TGAGCCTCTGATTAG
1 AGGAGCCATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAG
** *
4765771 AGGAGCCATTTATTTTTCAAAAGTCATTAAGCCTCTGATTAG
1 AGGAGCCATTTATTTTTC-AAAGTTGTTGAGCCTCTGATTAG
* * *
4765813 AGAAGCCATTTATTTTTTAAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCCATTTA-TTTTTCAAAGTTGTTGAGCCTCTGATTAG
* *
4765855 AGGAGCCATTTATTTTTCAAAGTCGTTGAGCGTCTGATTAG
1 AGGAGCCATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAG
* * * * *
4765896 AAGAGCCGTTTATTTTTCAAAGTCGTTGAGCTTCTGCTTAG
1 AGGAGCCATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAG
4765937 AGGAGCC
1 AGGAGCC
4765944 TTGATCAAAT
Statistics
Matches: 377, Mismatches: 34, Indels: 32
0.85 0.08 0.07
Matches are distributed among these distances:
40 101 0.27
41 171 0.45
42 57 0.15
43 6 0.02
45 2 0.01
47 2 0.01
49 1 0.00
52 37 0.10
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.39
Consensus pattern (41 bp):
AGGAGCCATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAG
Found at i:4765584 original size:12 final size:12
Alignment explanation
Indices: 4765567--4765591 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4765557 AGGAGCAATT
4765567 TATTTTTCAAAG
1 TATTTTTCAAAG
4765579 TATTTTTCAAAG
1 TATTTTTCAAAG
4765591 T
1 T
4765592 TGTGAGCCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (12 bp):
TATTTTTCAAAG
Found at i:4765592 original size:52 final size:52
Alignment explanation
Indices: 4765527--4765631 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
4765517 AGGAGCAATT
4765527 TATTTTTCAAAGTTGTGAGCCTCTTATTAGAGGAGCAATTTATTTTTCAAAG
1 TATTTTTCAAAGTTGTGAGCCTCTTATTAGAGGAGCAATTTATTTTTCAAAG
4765579 TATTTTTCAAAGTTGTGAGCCTCTTATTAGAGGAGCAATTTATTTTTCAAAG
1 TATTTTTCAAAGTTGTGAGCCTCTTATTAGAGGAGCAATTTATTTTTCAAAG
4765631 T
1 T
4765632 TGTGAGCCTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (52 bp):
TATTTTTCAAAGTTGTGAGCCTCTTATTAGAGGAGCAATTTATTTTTCAAAG
Found at i:4766140 original size:7 final size:7
Alignment explanation
Indices: 4766121--4766174 Score: 76
Period size: 7 Copynumber: 7.7 Consensus size: 7
4766111 TGGTAAATCC
4766121 ATTTTATT
1 ATTTTA-T
4766129 ATTTTAT
1 ATTTTAT
4766136 ATTTTAT
1 ATTTTAT
4766143 ATTTTAT
1 ATTTTAT
4766150 ATTTTATT
1 ATTTTA-T
4766158 ATTTT-T
1 ATTTTAT
4766164 ATTTT-T
1 ATTTTAT
4766170 ATTTT
1 ATTTT
4766175 TTCCTTTATA
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.27
7 21 0.47
8 12 0.27
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
ATTTTAT
Found at i:4766176 original size:14 final size:14
Alignment explanation
Indices: 4766122--4766213 Score: 60
Period size: 15 Copynumber: 6.3 Consensus size: 14
4766112 GGTAAATCCA
*
4766122 TTTTATTATTTTAT
1 TTTTATTTTTTTAT
*
4766136 ATTTTA-TATTTTAT
1 -TTTTATTTTTTTAT
4766150 ATTTTATTATTTTTAT
1 -TTTTATT-TTTTTAT
**
4766166 TTTTATTTTTTCCT
1 TTTTATTTTTTTAT
* * *
4766180 TTATATCTTATGTAT
1 TTTTAT-TTTTTTAT
*
4766195 TTATTATTTATTTAT
1 TT-TTATTTTTTTAT
4766210 TTTT
1 TTTT
4766214 TATTACTATT
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
14 26 0.41
15 28 0.44
16 9 0.14
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (14 bp):
TTTTATTTTTTTAT
Found at i:4766176 original size:29 final size:29
Alignment explanation
Indices: 4766121--4766174 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
4766111 TGGTAAATCC
4766121 ATTTTATTATTTTATATTTTATATTTTAT
1 ATTTTATTATTTTATATTTTATATTTTAT
4766150 ATTTTATTATTTT-TATTTT-TATTTT
1 ATTTTATTATTTTATATTTTATATTTT
4766175 TTCCTTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 6 0.24
28 6 0.24
29 13 0.52
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (29 bp):
ATTTTATTATTTTATATTTTATATTTTAT
Found at i:4766183 original size:34 final size:36
Alignment explanation
Indices: 4766123--4766215 Score: 109
Period size: 34 Copynumber: 2.6 Consensus size: 36
4766113 GTAAATCCAT
* * *
4766123 TTTATTATTTTATATTTTATATTTTATATTTTAT-TA
1 TTTATTATTTT-TATTTTTTACTTTATATCTTATGTA
*
4766159 TTT-TTATTTTTATTTTTTCCTTTATATCTTATGTA
1 TTTATTATTTTTATTTTTTACTTTATATCTTATGTA
4766194 TTTATTATTTATTTATTTTTTA
1 TTTATTA-TT-TTTATTTTTTA
4766216 TTACTATTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
34 18 0.38
35 12 0.25
36 6 0.12
37 2 0.04
38 10 0.21
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (36 bp):
TTTATTATTTTTATTTTTTACTTTATATCTTATGTA
Found at i:4766205 original size:4 final size:4
Alignment explanation
Indices: 4766187--4766324 Score: 61
Period size: 4 Copynumber: 33.2 Consensus size: 4
4766177 CCTTTATATC
*
4766187 TTAT GTAT TTA- TTAT TTAT TTAT TT-T TTAT TACTAT TTAT TAATAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T--TAT TTAT T--TAT
* * * * *
4766233 ATAT TTAGT TT-T TTAT GTTAAT ATAT ATATT TTAT TTAT CTAG TTAT
1 TTAT TTA-T TTAT TTAT -TT-AT TTAT TTA-T TTAT TTAT TTAT TTAT
* * * *
4766280 ATAT TTA- TTA- TTAT TTAT CTAT TTAT ATAT TATAAT TTAT CTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T-T-AT TTAT TTAT T
4766325 ATTATTTTTA
Statistics
Matches: 102, Mismatches: 18, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
3 15 0.15
4 64 0.63
5 11 0.11
6 12 0.12
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (4 bp):
TTAT
Found at i:4766216 original size:26 final size:26
Alignment explanation
Indices: 4766123--4766327 Score: 103
Period size: 26 Copynumber: 7.3 Consensus size: 26
4766113 GTAAATCCAT
*
4766123 TTTATTATTT-TATATTTTATATTTTATA
1 TTTATTATTTATATA-TTTAT-TATT-TA
* * * *
4766151 TTTTATTATTTTTATTTTTATTTTTTCC
1 -TTTATTATTTATATATTTATTATTT-A
*
4766179 TTTA-TATCTTATGTATTTATTATTTA
1 TTTATTAT-TTATATATTTATTATTTA
*
4766205 TTTATTTTTTATTACTATTTATTAATATATA
1 TTTATTATTTA-TA-TATTTATT-AT-T-TA
* * *
4766236 TTTAGTTTTTTATGTTAATATATATATTTTA
1 TTTA-TTATTTAT-AT-ATTTAT-TA-TTTA
*
4766267 TTTATCTAGTTATATATTTATTA-TTA
1 TTTAT-TATTTATATATTTATTATTTA
*
4766293 TTTATCTATTTATATA-TTATAATTTA
1 TTTAT-TATTTATATATTTATTATTTA
*
4766319 TCTATTATT
1 TTTATTATT
4766328 ATTTTTATCT
Statistics
Matches: 142, Mismatches: 18, Indels: 36
0.72 0.09 0.18
Matches are distributed among these distances:
25 9 0.06
26 35 0.25
27 21 0.15
28 14 0.10
29 22 0.15
30 6 0.04
31 19 0.13
32 14 0.10
33 2 0.01
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTATTATTTATATATTTATTATTTA
Found at i:4766297 original size:7 final size:7
Alignment explanation
Indices: 4766123--4766335 Score: 69
Period size: 7 Copynumber: 30.1 Consensus size: 7
4766113 GTAAATCCAT
4766123 TTTATTA
1 TTTATTA
4766130 TTT-TATA
1 TTTAT-TA
4766137 TTT-TATA
1 TTTAT-TA
4766144 TTT-TATA
1 TTTAT-TA
4766151 TTTTATTA
1 -TTTATTA
4766159 TTT-TTA
1 TTTATTA
4766165 TTT-TTA
1 TTTATTA
* *
4766171 TTTTTTCC
1 TTTATT-A
4766179 TTTA-TA
1 TTTATTA
4766185 TCTTATGTA
1 T-TTAT-TA
4766194 TTTATTA
1 TTTATTA
4766201 TTTATTTA
1 TTTA-TTA
*
4766209 TTTTTTA
1 TTTATTA
*
4766216 -TTACTA
1 TTTATTA
4766222 TTTATTA
1 TTTATTA
*
4766229 -ATATATA
1 TTTAT-TA
*
4766236 TTTAGT-
1 TTTATTA
4766242 TTT-TTA
1 TTTATTA
*
4766248 TGTTAATA
1 T-TTATTA
*
4766256 TATA-TA
1 TTTATTA
4766262 TTTTATTTA
1 -TTTA-TTA
*
4766271 TCTAGTTA
1 TTTA-TTA
*
4766279 TATATT-
1 TTTATTA
4766285 TATTATTA
1 T-TTATTA
4766293 TTTATCTA
1 TTTAT-TA
4766301 TTTA-TA
1 TTTATTA
*
4766307 TATTATAA
1 T-TTATTA
4766315 TTTATCTA
1 TTTAT-TA
4766323 -TTATTA
1 TTTATTA
4766329 TTT-TTA
1 TTTATTA
4766335 T
1 T
4766336 CTGTTAATAT
Statistics
Matches: 161, Mismatches: 20, Indels: 51
0.69 0.09 0.22
Matches are distributed among these distances:
5 1 0.01
6 37 0.23
7 75 0.47
8 42 0.26
9 6 0.04
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:4766310 original size:22 final size:22
Alignment explanation
Indices: 4766195--4766324 Score: 88
Period size: 22 Copynumber: 5.7 Consensus size: 22
4766185 TCTTATGTAT
* *
4766195 TTATTATTTATTTATTT-TTTA
1 TTATTATTTATCTATTTATATA
* *
4766216 TTACTATTTAT-TA-ATATATA
1 TTATTATTTATCTATTTATATA
* * *
4766236 TTTAGTTTTTTATGTTAATATATATA
1 -TTA-TTATTTAT-CT-ATTTATATA
4766262 TT-TTATTTATCTAGTTATATATTTA
1 TTATTATTTATCTA-TT-TATA--TA
4766287 TTATTATTTATCTATTTATATA
1 TTATTATTTATCTATTTATATA
*
4766309 TTATAATTTATCTATT
1 TTATTATTTATCTATT
4766325 ATTATTTTTA
Statistics
Matches: 88, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
19 1 0.01
20 5 0.06
21 14 0.16
22 25 0.28
23 11 0.12
24 5 0.06
25 9 0.10
26 18 0.20
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (22 bp):
TTATTATTTATCTATTTATATA
Found at i:4766346 original size:36 final size:39
Alignment explanation
Indices: 4766284--4766355 Score: 96
Period size: 36 Copynumber: 1.9 Consensus size: 39
4766274 AGTTATATAT
*
4766284 TTATTATTATTTATCTATTTATATATTATAATTTATCTA
1 TTATTATTATTTATCTAGTTATATATTATAATTTATCTA
* *
4766323 TTATTATT-TTTATCT-GTTA-ATATTTTGATTTAT
1 TTATTATTATTTATCTAGTTATATATTATAATTTAT
4766356 ATGATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 12 0.40
37 3 0.10
38 7 0.23
39 8 0.27
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (39 bp):
TTATTATTATTTATCTAGTTATATATTATAATTTATCTA
Found at i:4766348 original size:16 final size:16
Alignment explanation
Indices: 4766267--4766348 Score: 53
Period size: 16 Copynumber: 5.1 Consensus size: 16
4766257 ATATATTTTA
4766267 TTTATCTAGTTATATATT
1 TTTATCTA-TTA-ATATT
* * *
4766285 TATTAT-TATTTATCTA
1 T-TTATCTATTAATATT
* *
4766301 TTTATATATT-ATA-A
1 TTTATCTATTAATATT
*
4766315 TTTATCTATTATTATT
1 TTTATCTATTAATATT
*
4766331 TTTATCTGTTAATATT
1 TTTATCTATTAATATT
4766347 TT
1 TT
4766349 GATTTATATG
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
14 10 0.20
15 8 0.16
16 24 0.47
17 2 0.04
18 3 0.06
19 4 0.08
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (16 bp):
TTTATCTATTAATATT
Found at i:4767251 original size:15 final size:15
Alignment explanation
Indices: 4767231--4767292 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
4767221 CGTTTCCAGG
*
4767231 TTTTTTTC-TTTTCT
1 TTTTTTTCATTTTAT
4767245 TTTTTTTCATTTTAT
1 TTTTTTTCATTTTAT
4767260 TTTTTTAT-ATTTTTAT
1 TTTTTT-TCA-TTTTAT
*
4767276 ATTTTTT-ATTATTAT
1 TTTTTTTCATT-TTAT
4767291 TT
1 TT
4767293 ATTGATTAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
14 10 0.24
15 19 0.46
16 12 0.29
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTTTCATTTTAT
Found at i:4767288 original size:18 final size:16
Alignment explanation
Indices: 4767254--4767295 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 16
4767244 TTTTTTTTCA
4767254 TTTTATTTTTTTATAT
1 TTTTATTTTTTTATAT
4767270 TTTTATATTTTTTATTAT
1 TTTTAT-TTTTTTA-TAT
4767288 TATTTATT
1 T-TTTATT
4767296 GATTAGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.26
17 7 0.30
18 5 0.22
19 5 0.22
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTATTTTTTTATAT
Found at i:4767356 original size:10 final size:10
Alignment explanation
Indices: 4767259--4767349 Score: 53
Period size: 10 Copynumber: 8.8 Consensus size: 10
4767249 TTTCATTTTA
4767259 TTTTT-TTAT
1 TTTTTATTAT
4767268 ATTTTTA-TAT
1 -TTTTTATTAT
4767278 TTTTTATTAT
1 TTTTTATTAT
*
4767288 TATTTATTGAT
1 TTTTTATT-AT
**
4767299 TAGATTA-TAT
1 T-TTTTATTAT
* *
4767309 TTGTTTAATAC
1 TT-TTTATTAT
*
4767320 TTTTTATTTTT
1 TTTTTA-TTAT
4767331 ATTTTTATTAT
1 -TTTTTATTAT
4767342 TTTTTATT
1 TTTTTATT
4767350 TTCTTTTCTT
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
9 6 0.10
10 36 0.57
11 12 0.19
12 9 0.14
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.73
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:4767416 original size:61 final size:63
Alignment explanation
Indices: 4767347--4767477 Score: 164
Period size: 61 Copynumber: 2.1 Consensus size: 63
4767337 ATTATTTTTT
**
4767347 ATTTTCTTTTCTTTAAATAA-AATTC-AAAAAAAAA-AATTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCTTTT-TGAAAATAAGAATTCTAAAAAAAAACAATTTTGAGGAAAAGTTGAAAGTATCA
** *
4767408 ATTTTC--TTTGAAAATAAGCTTTCTAAAAAAAAACATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCTTTTTGAAAATAAGAATTCTAAAAAAAAACAATTTTGAGGAAAAGTTGAAAGTATCA
4767469 ATTTATCTT
1 ATTT-TCTT
4767478 AAAAATAAGT
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
58 7 0.12
59 5 0.08
60 9 0.15
61 36 0.61
62 2 0.03
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (63 bp):
ATTTTCTTTTTGAAAATAAGAATTCTAAAAAAAAACAATTTTGAGGAAAAGTTGAAAGTATCA
Found at i:4767483 original size:61 final size:59
Alignment explanation
Indices: 4767369--4767495 Score: 193
Period size: 61 Copynumber: 2.1 Consensus size: 59
4767359 TTAAATAAAA
*
4767369 TTCAAAAAAAAAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGCT
1 TTCAAAAAAAAAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAGCT
* *
4767428 TTCTAAAAAAAAACATTTTTGAGGAAAAGTTGAAAGTATCAATTTATC-TTAAAAATAAGTT
1 TTC-AAAAAAAAA-AATTTTGAGGAAAAGTTGAAAGTATCAATTT-TCTTTAAAAATAAGCT
4767489 TTCAAAA
1 TTCAAAA
4767496 GTGGATTTTG
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
59 3 0.05
60 13 0.21
61 44 0.71
62 2 0.03
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (59 bp):
TTCAAAAAAAAAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAGCT
Found at i:4767579 original size:58 final size:58
Alignment explanation
Indices: 4767517--4767683 Score: 194
Period size: 58 Copynumber: 2.9 Consensus size: 58
4767507 ATCAAAATTA
4767517 AAGCTTTCTAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
1 AAGCTTTCTAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
* * ** * * ** *
4767575 AAGCTTTC-AAAAGTAGATTTTTAAGGAAAAGTTGATACTATCAATTTTTCTCGAAATT
1 AAGCTTTCTAAAA-AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
** * *
4767633 AAAATTTTTAAAAAATA-TTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTT
1 AAGCTTTCTAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTT
4767684 GCACAAAAGC
Statistics
Matches: 87, Mismatches: 20, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
57 32 0.37
58 51 0.59
59 4 0.05
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (58 bp):
AAGCTTTCTAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
Found at i:4768668 original size:12 final size:12
Alignment explanation
Indices: 4768644--4768678 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
4768634 CATGGTAAAC
4768644 ACAAAACACAAAG
1 ACAAAA-ACAAAG
*
4768657 ACAAAGACAAAG
1 ACAAAAACAAAG
4768669 ACAAAAACAA
1 ACAAAAACAA
4768679 CCAAACCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.71, C:0.20, G:0.09, T:0.00
Consensus pattern (12 bp):
ACAAAAACAAAG
Found at i:4775284 original size:30 final size:30
Alignment explanation
Indices: 4775250--4775315 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
4775240 TGGCACTTAT
*
4775250 ATAAGCATTTAACTTTTAATTGGCAATCAA
1 ATAAGCATTTAACCTTTAATTGGCAATCAA
** * * *
4775280 ATAAGTTTTTAACCTTTAATTTGTATTCAA
1 ATAAGCATTTAACCTTTAATTGGCAATCAA
4775310 ATAAGC
1 ATAAGC
4775316 TCCTAATTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (30 bp):
ATAAGCATTTAACCTTTAATTGGCAATCAA
Found at i:4775328 original size:30 final size:29
Alignment explanation
Indices: 4775289--4775405 Score: 101
Period size: 30 Copynumber: 3.9 Consensus size: 29
4775279 AATAAGTTTT
* *
4775289 TAACCTTTAATTTGTATTCAAATAAGCTCC
1 TAACTTTTAATTTGTATCCAAATAAGCT-C
* * *
4775319 TAATTTTTAATATATATCCAAATAAGCATC
1 TAACTTTTAATTTGTATCCAAATAAGC-TC
* *
4775349 TAACCTTTAATTTTTATCCAAAT-AGACTTC
1 TAACTTTTAATTTGTATCCAAATAAG-C-TC
* * *
4775379 TAAGTTTTAATTTGTAACTAAATAAGC
1 TAACTTTTAATTTGTATCCAAATAAGC
4775406 CTTTATCATA
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
29 2 0.03
30 64 0.93
31 3 0.04
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (29 bp):
TAACTTTTAATTTGTATCCAAATAAGCTC
Found at i:4775402 original size:60 final size:60
Alignment explanation
Indices: 4775289--4775405 Score: 146
Period size: 60 Copynumber: 1.9 Consensus size: 60
4775279 AATAAGTTTT
* * *
4775289 TAACCTTTAATTTGTATTCAAATAAGCTCCTAATTTTTAATATATATCCAAATAAGCATC
1 TAACCTTTAATTTGTATCCAAATAAGCTCCTAAGTTTTAATATATAACCAAATAAGCATC
* * * * *
4775349 TAACCTTTAATTTTTATCCAAAT-AGACTTCTAAGTTTTAATTTGTAACTAAATAAGC
1 TAACCTTTAATTTGTATCCAAATAAG-CTCCTAAGTTTTAATATATAACCAAATAAGC
4775406 CTTTATCATA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 2 0.04
60 46 0.96
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (60 bp):
TAACCTTTAATTTGTATCCAAATAAGCTCCTAAGTTTTAATATATAACCAAATAAGCATC
Found at i:4778928 original size:15 final size:16
Alignment explanation
Indices: 4778902--4778931 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4778892 ATGATATCAA
4778902 TCTACATTGGGCCAAC
1 TCTACATTGGGCCAAC
4778918 TCTAC-TTGGGCCAA
1 TCTACATTGGGCCAA
4778932 GAAAAGAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (16 bp):
TCTACATTGGGCCAAC
Found at i:4779059 original size:16 final size:17
Alignment explanation
Indices: 4779034--4779066 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4779024 TTATTTTTCT
*
4779034 TTTTTTTTAAAA-AAAA
1 TTTTTGTTAAAAGAAAA
4779050 TTTTTGTTAAAAGAAAA
1 TTTTTGTTAAAAGAAAA
4779067 GCAAAATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (17 bp):
TTTTTGTTAAAAGAAAA
Found at i:4781590 original size:21 final size:23
Alignment explanation
Indices: 4781566--4781617 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
4781556 TATATAAAAA
4781566 TTAATTTTTTTAATTAT-T-TAT
1 TTAATTTTTTTAATTATATATAT
*
4781587 TTAATTTTTTTATTTATATATAT
1 TTAATTTTTTTAATTATATATAT
4781610 TTATATTT
1 TTA-ATTT
4781618 AAAAAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 16 0.59
22 1 0.04
23 6 0.22
24 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (23 bp):
TTAATTTTTTTAATTATATATAT
Found at i:4792293 original size:27 final size:27
Alignment explanation
Indices: 4792193--4792293 Score: 64
Period size: 27 Copynumber: 3.6 Consensus size: 27
4792183 TTTATATATA
*
4792193 TTATATTAAAAAATT-ATTATG-TAATAT
1 TTATATT-AAAAATTAATTAAGATAA-AT
* * *
4792220 TTATGTTAAAATATTAACTTAATAAAAAT
1 TTATATTAAAA-ATTAA-TTAAGATAAAT
* * *
4792249 AATATATT-TACATATAATTAAGATAAAT
1 -TTATATTAAAAAT-TAATTAAGATAAAT
4792277 TTATATTAAAAATTAAT
1 TTATATTAAAAATTAAT
4792294 ATTTTATAAA
Statistics
Matches: 54, Mismatches: 13, Indels: 14
0.67 0.16 0.17
Matches are distributed among these distances:
26 4 0.07
27 19 0.35
28 15 0.28
29 9 0.17
30 7 0.13
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (27 bp):
TTATATTAAAAATTAATTAAGATAAAT
Found at i:4793798 original size:15 final size:15
Alignment explanation
Indices: 4793778--4793807 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4793768 AGCCGGCGGC
*
4793778 GGAGGAGGAGGTGGA
1 GGAGGAGCAGGTGGA
4793793 GGAGGAGCAGGTGGA
1 GGAGGAGCAGGTGGA
4793808 AGAAGAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.03, G:0.63, T:0.07
Consensus pattern (15 bp):
GGAGGAGCAGGTGGA
Found at i:4804949 original size:21 final size:20
Alignment explanation
Indices: 4804925--4804977 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
4804915 CATATTTTAT
4804925 AATATATATAATTTCAGATAC
1 AATATATATAATTTCA-ATAC
* * * *
4804946 AATATAAATGATTTTAATAT
1 AATATATATAATTTCAATAC
4804966 AATATAATATAA
1 AATAT-ATATAA
4804978 ATATTTAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (20 bp):
AATATATATAATTTCAATAC
Found at i:4804975 original size:25 final size:22
Alignment explanation
Indices: 4804946--4804991 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 22
4804936 TTTCAGATAC
4804946 AATATAAATGATTTTAATATAATAT
1 AATATAAAT-A-TTTAA-ATAATAT
4804971 AATATAAATATTTAAATAATA
1 AATATAAATATTTAAATAATA
4804992 CAAATCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.29
23 5 0.24
24 1 0.05
25 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
AATATAAATATTTAAATAATAT
Found at i:4804991 original size:17 final size:18
Alignment explanation
Indices: 4804969--4805006 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
4804959 TTAATATAAT
*
4804969 ATAATATAAAT-ATTTAA
1 ATAATACAAATCATTTAA
4804986 ATAATACAAATCATTTAA
1 ATAATACAAATCATTTAA
4805004 ATA
1 ATA
4805007 TTAATATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAATACAAATCATTTAA
Found at i:4805115 original size:19 final size:19
Alignment explanation
Indices: 4805040--4805116 Score: 56
Period size: 19 Copynumber: 4.2 Consensus size: 19
4805030 ATATTACACG
*
4805040 TGATATAATATGATTAATA
1 TGATAAAATATGATTAATA
* *
4805059 T-ATTTAAAAT-TAATTTATA
1 TGA--TAAAATATGATTAATA
* *
4805078 T-AT-AAATATCA-TGATA
1 TGATAAAATATGATTAATA
4805094 TGATAAAATATGATTAATA
1 TGATAAAATATGATTAATA
4805113 TGAT
1 TGAT
4805117 TATATACAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
16 9 0.20
17 5 0.11
18 8 0.18
19 18 0.40
20 5 0.11
ACGTcount: A:0.48, C:0.01, G:0.08, T:0.43
Consensus pattern (19 bp):
TGATAAAATATGATTAATA
Found at i:4810123 original size:148 final size:148
Alignment explanation
Indices: 4809848--4810123 Score: 337
Period size: 147 Copynumber: 1.9 Consensus size: 148
4809838 ACCCACTTAA
* * * ** *
4809848 TTTCTTATATACACATAATATTAATTTCTTTTCTAGTCATTGTATCTTCTATCTCTATAAAACTT
1 TTTCTTATAGACACATAATATTAATTTCATCTCTAGTCATTACATCTTCTATATCTATAAAACTT
* * * * * * * *
4809913 ACTAGTTAATGATTCTATATTTCAAGTAGTTAAGTATAGCTTATCCCTATGGAGTAGCTTTTTTT
66 ACGAGTTAATGATACTATATTCCAAGTAGCTAAGTATAACTTATCCCTATAGACTAACTTTTTTT
4809978 ATTTGTCTACCCTTTTAG
131 ATTTGTCTACCCTTTTAG
4809996 TTTCTTATAGACACATAATATTAATTT-ATCTCATAGTCATTACATC-TCTTATATCTAT-AAAC
1 TTTCTTATAGACACATAATATTAATTTCATCTC-TAGTCATTACATCTTC-TATATCTATAAAAC
* *
4810058 TTACCGA-TTAATGATACTATATTCCAAGTAGCTACGTATAATTTAT-CCTAATAGACTAACTTT
64 TTA-CGAGTTAATGATACTATATTCCAAGTAGCTAAGTATAACTTATCCCT-ATAGACTAACTTT
4810121 TTT
127 TTT
4810124 ATTCGTGCTC
Statistics
Matches: 108, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
146 3 0.03
147 58 0.54
148 47 0.44
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.45
Consensus pattern (148 bp):
TTTCTTATAGACACATAATATTAATTTCATCTCTAGTCATTACATCTTCTATATCTATAAAACTT
ACGAGTTAATGATACTATATTCCAAGTAGCTAAGTATAACTTATCCCTATAGACTAACTTTTTTT
ATTTGTCTACCCTTTTAG
Found at i:4810435 original size:30 final size:30
Alignment explanation
Indices: 4810399--4810460 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
4810389 ATGATATCAC
4810399 ATAAGTGAATTTTACTCAGGCTAAAGAAAA
1 ATAAGTGAATTTTACTCAGGCTAAAGAAAA
4810429 ATAAGTGAATTTTACTCAGGCTAAAGAAAA
1 ATAAGTGAATTTTACTCAGGCTAAAGAAAA
4810459 AT
1 AT
4810461 GTAAAATGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.47, C:0.10, G:0.16, T:0.27
Consensus pattern (30 bp):
ATAAGTGAATTTTACTCAGGCTAAAGAAAA
Found at i:4814279 original size:17 final size:17
Alignment explanation
Indices: 4814259--4814291 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4814249 ATGAGATAAA
4814259 AAATAATTATAATAGAT
1 AAATAATTATAATAGAT
*
4814276 AAATAATTATATTAGA
1 AAATAATTATAATAGA
4814292 GATAGAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
AAATAATTATAATAGAT
Found at i:4815173 original size:21 final size:19
Alignment explanation
Indices: 4815122--4815179 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
4815112 ATAAATATAT
4815122 AAAAAT-TTAATTT-TTTA
1 AAAAATATTAATTTATTTA
*
4815139 AAAAATATTTATTTATTTA
1 AAAAATATTAATTTATTTA
*
4815158 TAAAATAATATAATTTAATTTA
1 AAAAAT-AT-TAATTT-ATTTA
4815180 CCCCATAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
17 6 0.18
18 6 0.18
19 9 0.27
20 2 0.06
21 5 0.15
22 5 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAAAATATTAATTTATTTA
Found at i:4815178 original size:22 final size:22
Alignment explanation
Indices: 4815125--4815179 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
4815115 AATATATAAA
*
4815125 AATTTAATTTTTTAAAAAATATT
1 AATTTAA-TTTATAAAAAATATT
*
4815148 TATTT-ATTTATAAAATAATA-T
1 AATTTAATTTATAAAA-AATATT
4815169 AATTTAATTTA
1 AATTTAATTTA
4815180 CCCCATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 13 0.48
22 10 0.37
23 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTTAATTTATAAAAAATATT
Found at i:4815554 original size:2 final size:2
Alignment explanation
Indices: 4815549--4815573 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4815539 GCGCGCGCAC
4815549 CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA C
4815574 TCTCTCTCTC
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:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4815578 original size:2 final size:2
Alignment explanation
Indices: 4815573--4815598 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4815563 CACACACACA
4815573 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
4815599 TGAAAGTCAG
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Done.