Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 278 of 378
Found at i:83736368 original size:49 final size:49
Alignment explanation
Indices: 83736308--83736565 Score: 385
Period size: 49 Copynumber: 5.3 Consensus size: 49
83736298 GTATGAGATA
83736308 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
83736357 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
83736406 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
83736455 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * * * * *
83736504 TATATATGTGATAGGGCCGAGTGGCCAAAGTGATGGATGTGGAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
83736551 TATAAATGTGATAAG
1 TATATATGTGATAAG
83736566 TCCCGAAGGG
Statistics
Matches: 192, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 15 0.08
49 177 0.92
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:83748348 original size:24 final size:25
Alignment explanation
Indices: 83748304--83748351 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
83748294 TGAGTATATA
83748304 AACATAAAAAATTAATAATTTAAAC
1 AACATAAAAAATTAATAATTTAAAC
*
83748329 AACAT-AATAATTAACT-ATTTAAA
1 AACATAAAAAATTAA-TAATTTAAA
83748352 ATTAAATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.31
Consensus pattern (25 bp):
AACATAAAAAATTAATAATTTAAAC
Found at i:83748461 original size:15 final size:14
Alignment explanation
Indices: 83748441--83748493 Score: 70
Period size: 15 Copynumber: 3.6 Consensus size: 14
83748431 TTTGCCATTT
*
83748441 AAAAATAATAATGAA
1 AAAAATAA-AATCAA
83748456 AAAAATAAAATCAA
1 AAAAATAAAATCAA
83748470 ACAAAATAAAATTCAA
1 A-AAAATAAAA-TCAA
83748486 AAAAATAA
1 AAAAATAA
83748494 TTAAAAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
14 6 0.17
15 24 0.69
16 5 0.14
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (14 bp):
AAAAATAAAATCAA
Found at i:83748520 original size:14 final size:14
Alignment explanation
Indices: 83748503--83748557 Score: 83
Period size: 14 Copynumber: 3.9 Consensus size: 14
83748493 ATTAAAAAAT
83748503 AATTGAGGATTGAA
1 AATTGAGGATTGAA
*
83748517 AATTGAGGATTGGA
1 AATTGAGGATTGAA
**
83748531 AATTGAAAATTGAA
1 AATTGAGGATTGAA
83748545 AATTGAGGATTGA
1 AATTGAGGATTGA
83748558 GAATATAGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (14 bp):
AATTGAGGATTGAA
Found at i:83748521 original size:7 final size:7
Alignment explanation
Indices: 83748511--83748550 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
83748501 ATAATTGAGG
83748511 ATTGAAA
1 ATTGAAA
**
83748518 ATTGAGG
1 ATTGAAA
*
83748525 ATTGGAA
1 ATTGAAA
83748532 ATTGAAA
1 ATTGAAA
83748539 ATTGAAA
1 ATTGAAA
83748546 ATTGA
1 ATTGA
83748551 GGATTGAGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (7 bp):
ATTGAAA
Found at i:83750877 original size:31 final size:33
Alignment explanation
Indices: 83750819--83750906 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 33
83750809 AATTTAAAAA
* *
83750819 ATATATATTTTTTATACTTTTT-TAAATAATT-TT
1 ATATA-ATTTTTAAT-CTTTTTAAAAATAATTCTT
83750852 A-ATAATTTTTAATCTTTTTAAAAATAATTCTT
1 ATATAATTTTTAATCTTTTTAAAAATAATTCTT
* *
83750884 ATATATTTTTTAA-ATTTTTAAAA
1 ATATAATTTTTAATCTTTTTAAAA
83750907 TTTTAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
30 6 0.12
31 16 0.33
32 15 0.31
33 11 0.23
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (33 bp):
ATATAATTTTTAATCTTTTTAAAAATAATTCTT
Found at i:83750898 original size:22 final size:21
Alignment explanation
Indices: 83750848--83750898 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 21
83750838 TTTTAAATAA
* *
83750848 TTTT-AATAATTTTTAATCTT
1 TTTTAAATAATTCTTAATATT
*
83750868 TTTAAAAATAATTCTTATATATT
1 TTT-TAAATAATTCTTA-ATATT
83750891 TTTTAAAT
1 TTTTAAAT
83750899 TTTTAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 3 0.12
22 14 0.58
23 7 0.29
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTAAATAATTCTTAATATT
Found at i:83750907 original size:31 final size:30
Alignment explanation
Indices: 83750820--83750907 Score: 106
Period size: 30 Copynumber: 2.8 Consensus size: 30
83750810 ATTTAAAAAA
*
83750820 TATATATTTTTTATACTTTTTTAAATAATTT
1 TATATATTTTTTA-ACTTTTTAAAATAATTT
*
83750851 TA-ATAATTTTTAATCTTTTTAAAAATAATTCT
1 TATATATTTTTTAA-CTTTTT-AAAATAATT-T
*
83750883 TATATATTTTTTAAATTTTTAAAAT
1 TATATATTTTTTAACTTTTTAAAAT
83750908 TTTAAAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
29 1 0.02
30 15 0.31
31 15 0.31
32 8 0.16
33 10 0.20
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (30 bp):
TATATATTTTTTAACTTTTTAAAATAATTT
Found at i:83751510 original size:14 final size:14
Alignment explanation
Indices: 83751491--83751529 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
83751481 AGCCACCTTG
83751491 TTATTTTTTTTACA
1 TTATTTTTTTTACA
83751505 TTATTTTTTTT--A
1 TTATTTTTTTTACA
*
83751517 TTACTTTTTTTAC
1 TTATTTTTTTTAC
83751530 TTTTGTCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 11 0.50
14 11 0.50
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTTTTTTACA
Found at i:83751541 original size:29 final size:31
Alignment explanation
Indices: 83751509--83751580 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 31
83751499 TTTACATTAT
83751509 TTTTTTTATTACTTTTTTT-ACTTTTGTC-A
1 TTTTTTTATTACTTTTTTTAACTTTTGTCTA
* *
83751538 TTTTCTT-TTACTTTTTTTAAGTTTTGTCTTTA
1 TTTTTTTATTACTTTTTTTAACTTTTGTC--TA
83751570 TTTTTTTATTA
1 TTTTTTTATTA
83751581 TTAATTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
28 11 0.31
29 14 0.40
32 7 0.20
33 3 0.09
ACGTcount: A:0.14, C:0.08, G:0.04, T:0.74
Consensus pattern (31 bp):
TTTTTTTATTACTTTTTTTAACTTTTGTCTA
Found at i:83751562 original size:21 final size:21
Alignment explanation
Indices: 83751538--83751577 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
83751528 ACTTTTGTCA
83751538 TTTTCT-TTTACTTTTTTTAAG
1 TTTTCTCTTTA-TTTTTTTAAG
*
83751559 TTTTGTCTTTATTTTTTTA
1 TTTTCTCTTTATTTTTTTA
83751578 TTATTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (21 bp):
TTTTCTCTTTATTTTTTTAAG
Found at i:83751610 original size:23 final size:24
Alignment explanation
Indices: 83751584--83751638 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 24
83751574 TTTATTATTA
*
83751584 ATTTTAAAAAATTTGA-AATGTAT
1 ATTTTAAAAAATTTGAGAATATAT
* * *
83751607 A-TTTGAAATATTTTAGAATATAT
1 ATTTTAAAAAATTTGAGAATATAT
83751630 ATTTTAAAA
1 ATTTTAAAA
83751639 TTTTAAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 11 0.44
23 8 0.32
24 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (24 bp):
ATTTTAAAAAATTTGAGAATATAT
Found at i:83751628 original size:21 final size:21
Alignment explanation
Indices: 83751591--83751652 Score: 79
Period size: 23 Copynumber: 2.9 Consensus size: 21
83751581 TTAATTTTAA
* *
83751591 AAAATTTGAAATGTATATTTG
1 AAAATTTTAAATATATATTTG
*
83751612 AAATATTTTAGAATATATATTTT
1 AAA-ATTTTA-AATATATATTTG
83751635 AAAATTTTAAATATATAT
1 AAAATTTTAAATATATAT
83751653 ATTTGAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 12 0.33
22 11 0.31
23 13 0.36
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (21 bp):
AAAATTTTAAATATATATTTG
Found at i:83751650 original size:23 final size:23
Alignment explanation
Indices: 83751599--83751667 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
83751589 AAAAAATTTG
*
83751599 AAATGTATATTTGAAATATTTTA
1 AAATATATATTTGAAATATTTTA
* *
83751622 GAATATATATTTTAAA-ATTTTA
1 AAATATATATTTGAAATATTTTA
83751644 AATATATATATTTGAAATTATTTT
1 AA-ATATATATTTGAAA-TATTTT
83751668 TCTAAATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
22 7 0.18
23 26 0.68
25 5 0.13
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (23 bp):
AAATATATATTTGAAATATTTTA
Found at i:83751702 original size:22 final size:22
Alignment explanation
Indices: 83751660--83751702 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
83751650 TATATTTGAA
* *
83751660 ATTATTTTTCTAAATTTTAAAT
1 ATTATTTTTCTAAAATATAAAT
83751682 ATTATTTTT-TAATAATATAAA
1 ATTATTTTTCTAA-AATATAAA
83751703 ACATTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTATTTTTCTAAAATATAAAT
Found at i:83751899 original size:25 final size:24
Alignment explanation
Indices: 83751861--83751952 Score: 82
Period size: 24 Copynumber: 3.8 Consensus size: 24
83751851 TTTGAATATC
83751861 TTTAAAATTAATTTTAAAATTAATAA
1 TTTAAAA--AATTTTAAAATTAATAA
* *
83751887 TTTATAAAAATTTTATATTTAA-AA
1 TTTA-AAAAATTTTAAAATTAATAA
*
83751911 TTTCAAAAATATTTAAAA-T-ATATA
1 TTTAAAAAAT-TTTAAAATTAATA-A
*
83751935 TTTAAAAAATTATAAAAT
1 TTTAAAAAATTTTAAAAT
83751953 AAATTAAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
22 1 0.02
23 14 0.26
24 20 0.37
25 12 0.22
26 4 0.07
27 3 0.06
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTAAAAAATTTTAAAATTAATAA
Found at i:83751964 original size:21 final size:21
Alignment explanation
Indices: 83751915--83751982 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
83751905 TTAAAATTTC
*
83751915 AAAAATATT-TAAAATATATATT
1 AAAAAAATTATAAAATA-A-ATT
*
83751937 TAAAAAATTATAAAATAAATT
1 AAAAAAATTATAAAATAAATT
* *
83751958 AAAAAAAGTATAAAACAAATT
1 AAAAAAATTATAAAATAAATT
83751979 AAAA
1 AAAA
83751983 TTTACATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
21 25 0.62
22 8 0.20
23 7 0.17
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (21 bp):
AAAAAAATTATAAAATAAATT
Found at i:83752095 original size:20 final size:21
Alignment explanation
Indices: 83752058--83752111 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
83752048 TGTTTTATAT
*
83752058 TATTAAAAAAT-ATATTT-AA
1 TATTTAAAAATAATATTTAAA
*
83752077 TATTTAAAAATAATTTTTAAAA
1 TATTTAAAAATAATATTT-AAA
*
83752099 TTTTTAAAAATAA
1 TATTTAAAAATAA
83752112 ATTAAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 10 0.34
20 5 0.17
22 14 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TATTTAAAAATAATATTTAAA
Found at i:83752120 original size:22 final size:22
Alignment explanation
Indices: 83752079--83752121 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
83752069 ATATTTAATA
* **
83752079 TTTAAAAATAATTTTTAAAATT
1 TTTAAAAATAAATTAAAAAATT
83752101 TTTAAAAATAAATTAAAAAAT
1 TTTAAAAATAAATTAAAAAAT
83752122 AATTTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTAAAAATAAATTAAAAAATT
Found at i:83752125 original size:34 final size:35
Alignment explanation
Indices: 83752078--83752177 Score: 111
Period size: 34 Copynumber: 3.0 Consensus size: 35
83752068 TATATTTAAT
83752078 ATTT-AAAAATAATTTTTAAAATTTTTAAAAATAA
1 ATTTAAAAAATAATTTTTAAAATTTTTAAAAATAA
**
83752112 A-TTAAAAAATAATTTTTAAAATTTAGAAAAA-AA
1 ATTTAAAAAATAATTTTTAAAATTTTTAAAAATAA
* * *
83752145 ATTTCAAATATATATATTTAAAA--TTTAAAAATA
1 ATTTAAAAAATA-ATTTTTAAAATTTTTAAAAATA
83752178 TATATATTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
33 11 0.20
34 35 0.64
35 9 0.16
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (35 bp):
ATTTAAAAAATAATTTTTAAAATTTTTAAAAATAA
Found at i:83752132 original size:12 final size:12
Alignment explanation
Indices: 83752074--83752133 Score: 61
Period size: 12 Copynumber: 5.1 Consensus size: 12
83752064 AAAATATATT
83752074 TAATATTTAAAAA
1 TAAT-TTTAAAAA
*
83752087 TAATTTTTAAAA
1 TAATTTTAAAAA
83752099 T--TTTTAAAAA
1 TAATTTTAAAAA
* *
83752109 TAAATTAAAAAA
1 TAATTTTAAAAA
*
83752121 TAATTTTTAAAA
1 TAATTTTAAAAA
83752133 T
1 T
83752134 TTAGAAAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
10 9 0.24
12 25 0.66
13 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAATTTTAAAAA
Found at i:83752176 original size:23 final size:23
Alignment explanation
Indices: 83752142--83752192 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
83752132 ATTTAGAAAA
*
83752142 AAAATTTCAAATATATATATT-T
1 AAAATTTAAAATATATATATTAT
83752164 AAAATTTAAAAATATATATATTAT
1 AAAATTT-AAAATATATATATTAT
83752188 AAAAT
1 AAAAT
83752193 ATTTCAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 7 0.27
23 13 0.50
24 6 0.23
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAATTTAAAATATATATATTAT
Found at i:83752180 original size:21 final size:22
Alignment explanation
Indices: 83752142--83752192 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
83752132 ATTTAGAAAA
*
83752142 AAAATTTCAAATATATATATTT
1 AAAATTTCAAAAATATATATTT
*
83752164 AAAATTTAAAAATATATATATTAT
1 AAAATTTCAAAA-ATATATATT-T
83752188 AAAAT
1 AAAAT
83752193 ATTTCAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.40
23 9 0.36
24 6 0.24
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTTCAAAAATATATATTT
Found at i:83752203 original size:23 final size:24
Alignment explanation
Indices: 83752140--83752203 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
83752130 AAATTTAGAA
* *
83752140 AAAAAATTTCAAATATATATATTT
1 AAAATATTTCAAATATATATATAT
**
83752164 AAAAT-TTAAAAATATATATATTAT
1 AAAATATTTCAAATATATATA-TAT
83752188 AAAATATTTCAAATAT
1 AAAATATTTCAAATAT
83752204 TCATTTCAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
23 13 0.41
24 11 0.34
25 8 0.25
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (24 bp):
AAAATATTTCAAATATATATATAT
Found at i:83752771 original size:2 final size:2
Alignment explanation
Indices: 83752764--83752822 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
83752754 TAGCAAACAT
83752764 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
83752806 GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA G
83752823 TCAGACAACT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:83757146 original size:17 final size:16
Alignment explanation
Indices: 83757124--83757179 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
83757114 ATTGAACACT
83757124 TTATATTTTTATAAATA
1 TTATATTTTTATAAA-A
*
83757141 TTATA-TATTATAAAA
1 TTATATTTTTATAAAA
83757156 TTTATATTATTT-TAAAA
1 -TTATATT-TTTATAAAA
83757173 TT-TATTT
1 TTATATTT
83757180 ATGAATTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 1 0.03
15 5 0.15
16 15 0.44
17 11 0.32
18 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATATTTTTATAAAA
Found at i:83757153 original size:16 final size:14
Alignment explanation
Indices: 83757132--83757165 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
83757122 CTTTATATTT
83757132 TTATAAATATTATATA
1 TTATAAA-ATT-TATA
83757148 TTATAAAATTTATA
1 TTATAAAATTTATA
83757162 TTAT
1 TTAT
83757166 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 3 0.17
16 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATAAAATTTATA
Found at i:83757164 original size:21 final size:21
Alignment explanation
Indices: 83757138--83757192 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 21
83757128 ATTTTTATAA
83757138 ATATTATATATTATAAAATTT
1 ATATTATATATTATAAAATTT
83757159 ATA-T-TAT-TT-TAAAATTT
1 ATATTATATATTATAAAATTT
83757176 AT-TTATGA-ATTATAAAA
1 ATATTAT-ATATTATAAAA
83757193 AGGGTTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 11
0.73 0.00 0.28
Matches are distributed among these distances:
17 11 0.38
18 3 0.10
19 6 0.21
20 6 0.21
21 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATTATATATTATAAAATTT
Found at i:83757181 original size:16 final size:16
Alignment explanation
Indices: 83757130--83757181 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
83757120 CACTTTATAT
*
83757130 TTTTATAAATATTATATA
1 TTTTA-AAAT-TTATTTA
*
83757148 TTATAAAATTTATATTA
1 TTTTAAAATTTAT-TTA
83757165 TTTTAAAATTTATTTA
1 TTTTAAAATTTATTTA
83757181 T
1 T
83757182 GAATTATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 8 0.27
17 18 0.60
18 4 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTAAAATTTATTTA
Found at i:83762248 original size:2 final size:2
Alignment explanation
Indices: 83762241--83762265 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
83762231 AAGGGTCAAG
83762241 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
83762266 GTATGGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:83767515 original size:42 final size:42
Alignment explanation
Indices: 83767464--83767580 Score: 137
Period size: 42 Copynumber: 2.8 Consensus size: 42
83767454 ACAGTTATAT
*
83767464 TAAT-TGATATTTGATTTGCATGTTAAACATGCCAACTATGA
1 TAATCTGATATTTGATTTGCATGTTAAGCATGCCAACTATGA
* * * *
83767505 TAATCTGATATGTGATTTCCATGTTAAGCATGTCAACTATGT
1 TAATCTGATATTTGATTTGCATGTTAAGCATGCCAACTATGA
* * * * *
83767547 TGATCTTAGATTTCATTCGCATGTTAAGCATGCC
1 TAATCTGATATTTGATTTGCATGTTAAGCATGCC
83767581 TATTGATAAT
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
41 4 0.06
42 58 0.94
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.39
Consensus pattern (42 bp):
TAATCTGATATTTGATTTGCATGTTAAGCATGCCAACTATGA
Found at i:83767736 original size:24 final size:25
Alignment explanation
Indices: 83767696--83767755 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
83767686 AACAGTATGG
*
83767696 GTGGCTTGTCC-TCAACGCT-AACGA
1 GTGGCTTGACCATCAACG-TAAACGA
*
83767720 GTGGCTTGACCAT-AACGTAAATGA
1 GTGGCTTGACCATCAACGTAAACGA
*
83767744 GTGGTTTGACCA
1 GTGGCTTGACCA
83767756 CACAGTGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 1 0.03
24 29 0.94
25 1 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (25 bp):
GTGGCTTGACCATCAACGTAAACGA
Found at i:83767904 original size:21 final size:22
Alignment explanation
Indices: 83767875--83767915 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
83767865 AAAGTTTTGT
83767875 AAAACTTGCACCGAT-TTCTGA
1 AAAACTTGCACCGATATTCTGA
* *
83767896 AAAAGTTGCATCGATATTCT
1 AAAACTTGCACCGATATTCT
83767916 CATGCATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (22 bp):
AAAACTTGCACCGATATTCTGA
Found at i:83768163 original size:23 final size:25
Alignment explanation
Indices: 83768136--83768182 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
83768126 CTAAACTTTA
83768136 TTATTGGTATT-TTTG-GGACTATT
1 TTATTGGTATTATTTGCGGACTATT
*
83768159 TTATTGTTATTATTTGCGGACTAT
1 TTATTGGTATTATTTGCGGACTAT
83768183 GGTATGGACG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
24 4 0.19
25 7 0.33
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.55
Consensus pattern (25 bp):
TTATTGGTATTATTTGCGGACTATT
Found at i:83771666 original size:27 final size:26
Alignment explanation
Indices: 83771617--83771670 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
83771607 ACAATACAAC
* *
83771617 CCCGTGTTTTTGTCATGATAGACTAT
1 CCCGTGTTTGTGTCATGACAGACTAT
*
83771643 CCCGTGTTTAGTGTCTTGACAGACTAT
1 CCCGTGTTT-GTGTCATGACAGACTAT
83771670 C
1 C
83771671 TATGACGCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (26 bp):
CCCGTGTTTGTGTCATGACAGACTAT
Found at i:83771801 original size:45 final size:45
Alignment explanation
Indices: 83771729--83771826 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 45
83771719 AAATCATCAT
* * ** * *
83771729 ATGATGCCATAACATCTTTTAGCTATGGTCTTACTCATTTTTGTC
1 ATGATGCCACAACATCTTTCAAATATGGTCTTACTCATGTTTGGC
83771774 ATGATGCCACAACATCTTTCAAATATGGTCTTACTCATGTTTGGC
1 ATGATGCCACAACATCTTTCAAATATGGTCTTACTCATGTTTGGC
*
83771819 ATGTTGCC
1 ATGATGCC
83771827 TCCGATTGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.40
Consensus pattern (45 bp):
ATGATGCCACAACATCTTTCAAATATGGTCTTACTCATGTTTGGC
Found at i:83779512 original size:35 final size:35
Alignment explanation
Indices: 83779473--83779543 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
83779463 CATCTTCAAA
*
83779473 GCTTGGTAAATATGGAAAGTGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGTGATCTTCAAAGATAT
*
83779508 GCTTGGCAAATATGGAAGGTGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGTGATCTTCAAAGATAT
83779543 G
1 G
83779544 TGATCCTAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGTGATCTTCAAAGATAT
Found at i:83785899 original size:45 final size:45
Alignment explanation
Indices: 83785773--83785903 Score: 165
Period size: 45 Copynumber: 2.9 Consensus size: 45
83785763 CGTGCTTTCA
* * * *
83785773 CATGATGCCATAGCGTCTTTCAACTATGATCTTACTAATTTCTAT
1 CATGATGCCATAGCGTCTTTCAACTATGGTCTTAATCATTTCAAT
* ** * *
83785818 CATGATGCCATAGCATCTTTCGGCTATTGTCCTAATCATCTT-AAT
1 CATGATGCCATAGCGTCTTTCAACTATGGTCTTAATCAT-TTCAAT
83785863 CATGATGCCATAGCGTCTTTCAACTATGGTCTTAATCATTT
1 CATGATGCCATAGCGTCTTTCAACTATGGTCTTAATCATTT
83785904 TAGGCGTATA
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
44 2 0.03
45 67 0.94
46 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (45 bp):
CATGATGCCATAGCGTCTTTCAACTATGGTCTTAATCATTTCAAT
Found at i:83792030 original size:27 final size:28
Alignment explanation
Indices: 83792000--83792056 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
83791990 ATTTTTGATG
83792000 AAATGAGCTATTTG-GG-CTAATTTGTGA
1 AAATGAGCT-TTTGAGGACTAATTTGTGA
*
83792027 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATGAGCTTTTG-AGGACTAATTTGTGA
83792056 A
1 A
83792057 TTTAACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 2 0.08
29 12 0.46
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
AAATGAGCTTTTGAGGACTAATTTGTGA
Found at i:83792578 original size:42 final size:41
Alignment explanation
Indices: 83792472--83792580 Score: 103
Period size: 43 Copynumber: 2.6 Consensus size: 41
83792462 ATCTAAATTA
** *
83792472 TCGTATAAGACTGTGTCTGGGACACTGGCATCGATTGAAATTT
1 TCGTATAAGACCATGTCTGGGACACTGACATCGATTG--ATTT
* * * *
83792515 ACGTGTAAGACCATGCCTGGGACATTGACATCGTATCTG-TTT
1 TCGTATAAGACCATGTCTGGGACACTGACATCG-AT-TGATTT
*
83792557 TCGTATAAGACCCTGTCTGGGACA
1 TCGTATAAGACCATGTCTGGGACA
83792581 GAGGCATTGA
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
42 23 0.43
43 26 0.49
44 2 0.04
45 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (41 bp):
TCGTATAAGACCATGTCTGGGACACTGACATCGATTGATTT
Found at i:83809104 original size:6 final size:6
Alignment explanation
Indices: 83809093--83809128 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
83809083 TTATAAAAAT
*
83809093 ATATAA ATATAA ATCTAA ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
83809129 TTTTTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:83813120 original size:26 final size:26
Alignment explanation
Indices: 83813084--83813136 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
83813074 CTGATAAGGA
83813084 GTTTGAATATTCATACATCGGAAGAT
1 GTTTGAATATTCATACATCGGAAGAT
* *
83813110 GTTTGAATATTCATGCCTCGGAAGAT
1 GTTTGAATATTCATACATCGGAAGAT
83813136 G
1 G
83813137 AACAACAACG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (26 bp):
GTTTGAATATTCATACATCGGAAGAT
Found at i:83813628 original size:24 final size:24
Alignment explanation
Indices: 83813583--83813628 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
83813573 AAAATTGAAA
* *
83813583 GAAAAAGAAAAGAATGATGAAAGT
1 GAAAAAGAAAAGAATAACGAAAGT
*
83813607 GAAAAAGAAAAGAGTAACGAAA
1 GAAAAAGAAAAGAATAACGAAA
83813629 AGAAAAAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.65, C:0.02, G:0.24, T:0.09
Consensus pattern (24 bp):
GAAAAAGAAAAGAATAACGAAAGT
Found at i:83816886 original size:40 final size:40
Alignment explanation
Indices: 83816841--83817007 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
83816831 CGGAATATAA
83816841 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
83816881 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
83816921 CCGGA-ATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
83816960 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
83817000 CCGGATAT
1 CCGGATAT
83817008 CATTCAATTT
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 32 0.30
40 73 0.70
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:83816963 original size:39 final size:39
Alignment explanation
Indices: 83816857--83816964 Score: 130
Period size: 39 Copynumber: 2.7 Consensus size: 39
83816847 ATAATCACGT
* *
83816857 GCACAAATGCCTTCGGGTCTTAGCCCGG-ATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAATAG-ACAACTA
*
83816897 GCACGAATGCCTTCGGGTCTTAGCCCGGAATAG-CCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAATAGACAACTA
*
83816936 GCACAATTGCCTTCGGGTCTTAACCCGGA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGA
83816965 TATAATTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.03
39 28 0.46
40 27 0.44
41 4 0.07
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGAATAGACAACTA
Found at i:83820461 original size:47 final size:48
Alignment explanation
Indices: 83820378--83820469 Score: 134
Period size: 47 Copynumber: 1.9 Consensus size: 48
83820368 ATGTATTAAT
*
83820378 GCAAAACATTAAATAAAGATGCATTTAAAAAGCAAAACACATAATGAA
1 GCAAAACATTAAATAAAGATCCATTTAAAAAGCAAAACACATAATGAA
* *
83820426 GCAAATCATTAAA-AAAGTTCCATTTAATAAA-CAAAACACATAAT
1 GCAAAACATTAAATAAAGATCCATTTAA-AAAGCAAAACACATAAT
83820470 TAAAAACTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
47 25 0.62
48 15 0.38
ACGTcount: A:0.57, C:0.14, G:0.08, T:0.22
Consensus pattern (48 bp):
GCAAAACATTAAATAAAGATCCATTTAAAAAGCAAAACACATAATGAA
Found at i:83821118 original size:61 final size:61
Alignment explanation
Indices: 83821023--83821147 Score: 232
Period size: 61 Copynumber: 2.0 Consensus size: 61
83821013 ATAAATTCAT
83821023 GGCCATTCAGGGAATCCACCATTCAATCAATTGAGGCTAGCAAGAAGTTATCTTTTGTGTG
1 GGCCATTCAGGGAATCCACCATTCAATCAATTGAGGCTAGCAAGAAGTTATCTTTTGTGTG
* *
83821084 GGCCATTCAGGGAATCCACTATTCAATCAATTGAGGTTAGCAAGAAGTTATCTTTTGTGTG
1 GGCCATTCAGGGAATCCACCATTCAATCAATTGAGGCTAGCAAGAAGTTATCTTTTGTGTG
83821145 GGC
1 GGC
83821148 TTTATTCATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (61 bp):
GGCCATTCAGGGAATCCACCATTCAATCAATTGAGGCTAGCAAGAAGTTATCTTTTGTGTG
Found at i:83823083 original size:46 final size:45
Alignment explanation
Indices: 83823030--83823205 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
83823020 TATTTGGGCA
*
83823030 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA-G
* * * *
83823076 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A-G
* * * *
83823121 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAAC
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAG
* *
83823168 TCCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
83823206 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
43 5 0.05
45 7 0.07
46 58 0.56
47 28 0.27
48 2 0.02
50 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAG
Found at i:83823185 original size:93 final size:93
Alignment explanation
Indices: 83823026--83823198 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
83823016 GGGATATTTG
* * *
83823026 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAATCTCCGAACTCGTTGAG
83823091 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* * *
83823119 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAA-CTCCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAATCTCC-GAACTCGTTGA
83823183 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
83823199 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 3 0.04
93 70 0.96
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAATCTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:83824684 original size:15 final size:15
Alignment explanation
Indices: 83824664--83824694 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
83824654 CACGAGAGCT
83824664 TGTACAATTTTAGGA
1 TGTACAATTTTAGGA
*
83824679 TGTACAGTTTTAGGA
1 TGTACAATTTTAGGA
83824694 T
1 T
83824695 TTAAAGAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (15 bp):
TGTACAATTTTAGGA
Found at i:83830312 original size:30 final size:30
Alignment explanation
Indices: 83830257--83830387 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
83830247 ATAGTGAATC
*
83830257 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
83830286 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
83830316 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
83830344 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
83830374 CGCACACTTAGTGC
1 CGCACACTTAGTGC
83830388 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:83830367 original size:58 final size:58
Alignment explanation
Indices: 83830256--83830387 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
83830246 TATAGTGAAT
* * * * *
83830256 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
83830315 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
83830373 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
83830388 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:83838274 original size:30 final size:30
Alignment explanation
Indices: 83838219--83838349 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
83838209 ATAGTGAATC
*
83838219 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
83838248 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
83838278 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
83838306 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
83838336 CGCACACTTAGTGC
1 CGCACACTTAGTGC
83838350 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:83838329 original size:58 final size:58
Alignment explanation
Indices: 83838218--83838349 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
83838208 TATAGTGAAT
* * * * *
83838218 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
83838277 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
83838335 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
83838350 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:83841805 original size:26 final size:24
Alignment explanation
Indices: 83841770--83841875 Score: 88
Period size: 26 Copynumber: 4.2 Consensus size: 24
83841760 TAACTATCCG
83841770 GAGC-TCCTGATTAAAGGCTCTTCAT
1 GAGCTTCCTGATT-AAGGCTCTT-AT
* *
83841795 GAGCTTCCTGATTAAGAGTTCTTTGT
1 GAGCTTCCTGATTAAG-GCTC-TTAT
* * * *
83841821 GAACTTCCTGATTAAAAGTTCTTGT
1 GAGCTTCCTGATT-AAGGCTCTTAT
* *
83841846 GAACTTCCTGATTATGGCTCTTAT
1 GAGCTTCCTGATTAAGGCTCTTAT
83841870 GAGCTT
1 GAGCTT
83841876 TCTGTTATAT
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
24 12 0.18
25 24 0.35
26 28 0.41
27 4 0.06
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.39
Consensus pattern (24 bp):
GAGCTTCCTGATTAAGGCTCTTAT
Found at i:83841851 original size:25 final size:25
Alignment explanation
Indices: 83841774--83841859 Score: 109
Period size: 26 Copynumber: 3.4 Consensus size: 25
83841764 TATCCGGAGC
* * * *
83841774 TCCTGATTAAAGGCTCTTCATGAGCT
1 TCCTGATTAAAAGTTCTT-GTGAACT
*
83841800 TCCTGATTAAGAGTTCTTTGTGAACT
1 TCCTGATTAAAAGTTC-TTGTGAACT
83841826 TCCTGATTAAAAGTTCTTGTGAACT
1 TCCTGATTAAAAGTTCTTGTGAACT
83841851 TCCTGATTA
1 TCCTGATTA
83841860 TGGCTCTTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
25 18 0.34
26 33 0.62
27 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (25 bp):
TCCTGATTAAAAGTTCTTGTGAACT
Found at i:83845684 original size:34 final size:34
Alignment explanation
Indices: 83845646--83845713 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
83845636 TGCAATTGGC
83845646 CTTTTCAGATGGTATCCACAATGTAATCTTTAAG
1 CTTTTCAGATGGTATCCACAATGTAATCTTTAAG
83845680 CTTTTCAGATGGTATCCACAATGTAATCTTTAAG
1 CTTTTCAGATGGTATCCACAATGTAATCTTTAAG
83845714 TTGTACACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (34 bp):
CTTTTCAGATGGTATCCACAATGTAATCTTTAAG
Found at i:83848616 original size:40 final size:40
Alignment explanation
Indices: 83848554--83848688 Score: 173
Period size: 40 Copynumber: 3.4 Consensus size: 40
83848544 ATCGTCAGAT
*
83848554 CAACCG-AACACACTAGACAGAAGCTCATAAGAGCTAATC
1 CAACCGAAACACACCAGACAGAAGCTCATAAGAGCTAATC
* * * * *
83848593 CAACCGATACACACCAGATAGAAGCTCACAAGGGTTAATC
1 CAACCGAAACACACCAGACAGAAGCTCATAAGAGCTAATC
* * * *
83848633 TAATCGAAACACGCTAGACAGAAGCTCATAAGAGCTAATC
1 CAACCGAAACACACCAGACAGAAGCTCATAAGAGCTAATC
83848673 CAACCGAAACACACCA
1 CAACCGAAACACACCA
83848689 AATAGAAAGT
Statistics
Matches: 76, Mismatches: 19, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
39 6 0.08
40 70 0.92
ACGTcount: A:0.43, C:0.28, G:0.16, T:0.13
Consensus pattern (40 bp):
CAACCGAAACACACCAGACAGAAGCTCATAAGAGCTAATC
Found at i:83852123 original size:42 final size:43
Alignment explanation
Indices: 83852013--83852124 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 43
83852003 ATTAAGAAAT
* * ** *
83852013 CCGAGCTCATTGAGAGGTCCGAGTTTGTGATATATGTGAGAAT
1 CCGAGCTCGTTGAGTGGTCCGAGTTCATGATATATGTGAGAAC
* * * *
83852056 CCGAACTTGTTGAGTGGTCCAAGTTCATGATATATGT-AGCAC
1 CCGAGCTCGTTGAGTGGTCCGAGTTCATGATATATGTGAGAAC
83852098 CCGAGCTCGTTGAGTGGTCCGAGTTCA
1 CCGAGCTCGTTGAGTGGTCCGAGTTCA
83852125 AAATGGGTGT
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
42 27 0.47
43 30 0.53
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (43 bp):
CCGAGCTCGTTGAGTGGTCCGAGTTCATGATATATGTGAGAAC
Found at i:83852192 original size:51 final size:51
Alignment explanation
Indices: 83852083--83852194 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 51
83852073 TCCAAGTTCA
* * * **
83852083 TGATATATGTAGCACCCGAGCTCGTTGAGTGGTCCGAGTTCAAAATGGGTG
1 TGATACATGTAACACCCGAGCTCGTTGAGAGGTCCGAGTTCAAAATGCATG
* **
83852134 TGATACATGTAACATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGCATG
1 TGATACATGTAACACCCGAGCTCGTTGAGAGGTCCGAGTTCAAAATGCATG
*
83852185 TGTTACATGT
1 TGATACATGT
83852195 TATAAGGTAG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (51 bp):
TGATACATGTAACACCCGAGCTCGTTGAGAGGTCCGAGTTCAAAATGCATG
Found at i:83862502 original size:15 final size:14
Alignment explanation
Indices: 83862464--83862505 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
83862454 TTATGATATG
83862464 GTATCTTGGATTCT
1 GTATCTTGGATTCT
*
83862478 GTACCTTGGATATCT
1 GTATCTTGGAT-TCT
*
83862493 TTATCTTGGATTC
1 GTATCTTGGATTC
83862506 CTCTGTCATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.48
Consensus pattern (14 bp):
GTATCTTGGATTCT
Found at i:83868131 original size:15 final size:15
Alignment explanation
Indices: 83868101--83868129 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
83868091 ACTATTAGTA
83868101 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
83868116 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
83868130 TACCATAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:83871556 original size:12 final size:12
Alignment explanation
Indices: 83871536--83871569 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
83871526 TTCAATTGTT
*
83871536 TTATTTAAAATA
1 TTATATAAAATA
83871548 TTATATAAAATA
1 TTATATAAAATA
*
83871560 TTAAATAAAA
1 TTATATAAAA
83871570 AAGCCCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TTATATAAAATA
Found at i:83874594 original size:54 final size:54
Alignment explanation
Indices: 83874536--83874722 Score: 207
Period size: 54 Copynumber: 3.5 Consensus size: 54
83874526 TAGTCTTAGC
* * * *
83874536 CTAGGTCTTACACTATGTATTATTCATTTCCCCATATAATGCCATAGCAAACGG
1 CTAGGCCTTACACTATATAGTATTCATTTCCCCATATAATGCCATAGCAAACGA
* * *
83874590 CTAGGCCTTACACTATATGGTCTTCATTTCCCCATATGATGCCATAGCAAACGA
1 CTAGGCCTTACACTATATAGTATTCATTTCCCCATATAATGCCATAGCAAACGA
* * * * * * *
83874644 CTAGGCCTTACATTATATGGTCTTCCTTTCCTCATATAAAT-TCATAGCAAATGA
1 CTAGGCCTTACACTATATAGTATTCATTTCCCCATAT-AATGCCATAGCAAACGA
*
83874698 CTAAGG-CTTACACTATATGGTATTC
1 CT-AGGCCTTACACTATATAGTATTC
83874723 GCTTACCATG
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
54 111 0.96
55 5 0.04
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (54 bp):
CTAGGCCTTACACTATATAGTATTCATTTCCCCATATAATGCCATAGCAAACGA
Found at i:83881249 original size:42 final size:43
Alignment explanation
Indices: 83881188--83881303 Score: 148
Period size: 43 Copynumber: 2.7 Consensus size: 43
83881178 ATATGTATTA
83881188 TCGTGTAAGACCACGTCTGGGACGTTGGCATCG-TACTTGATT
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGATACTTGATT
* *
83881230 TCGTGTAAGACC-CTATCTGGGACAG-TGGCATCGATATTTGATT
1 TCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATACTTGATT
* * *
83881273 ACATGTAAGACCACGTCTGGGGCGTTGGCAT
1 TCGTGTAAGACCACGTCTGGGACGTTGGCAT
83881304 TGTATGAGCT
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
41 1 0.02
42 29 0.46
43 32 0.51
44 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (43 bp):
TCGTGTAAGACCACGTCTGGGACGTTGGCATCGATACTTGATT
Found at i:83893964 original size:26 final size:26
Alignment explanation
Indices: 83893935--83894042 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
83893925 TGGTACAAAT
83893935 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
83893961 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
83893987 TGATAATTGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
83894013 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83894039 TGAT
1 TGAT
83894043 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:83900730 original size:25 final size:25
Alignment explanation
Indices: 83900670--83900732 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
83900660 AAAATTTAAT
*
83900670 TAAA-TAAAAATTATTAATGATCCAA
1 TAAATTAAAAATTA-TAATAATCCAA
* *
83900695 TAAATTGAAAATTA-AATAATTCAA
1 TAAATTAAAAATTATAATAATCCAA
83900719 TAAAATTAAAAATT
1 T-AAATTAAAAATT
83900733 TAGGAGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 9 0.28
25 15 0.47
26 8 0.25
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (25 bp):
TAAATTAAAAATTATAATAATCCAA
Found at i:83909130 original size:40 final size:40
Alignment explanation
Indices: 83909075--83909162 Score: 167
Period size: 40 Copynumber: 2.2 Consensus size: 40
83909065 TGCTTCTCGA
*
83909075 TTTTGTGCTTCTGGTAGTGTTTGTCGAGCCATTTTTCGTC
1 TTTTGTGCTTCTGGTAGTGTTTGTCGAGCCATTTTTCGCC
83909115 TTTTGTGCTTCTGGTAGTGTTTGTCGAGCCATTTTTCGCC
1 TTTTGTGCTTCTGGTAGTGTTTGTCGAGCCATTTTTCGCC
83909155 TTTTGTGC
1 TTTTGTGC
83909163 AAATCTGTCG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.07, C:0.18, G:0.25, T:0.50
Consensus pattern (40 bp):
TTTTGTGCTTCTGGTAGTGTTTGTCGAGCCATTTTTCGCC
Found at i:83912254 original size:44 final size:46
Alignment explanation
Indices: 83912194--83912312 Score: 138
Period size: 44 Copynumber: 2.6 Consensus size: 46
83912184 TATACGTGCT
*
83912194 GATGAATGTCCCAGACATGTCTTACACTAGC-ACGAAACT-T-A-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTA--AAACTATCAGGCC
* * *
83912238 GATGCATGTCCCAGACACGTCTTACACTGGCTAACACTATCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTAAAACTATC-AGGCC
*
83912285 GATTCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
83912313 GGCATTCACC
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
43 4 0.06
44 29 0.45
45 1 0.02
46 1 0.02
47 29 0.45
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTAAAACTATCAGGCC
Found at i:83912342 original size:47 final size:45
Alignment explanation
Indices: 83912194--83912359 Score: 149
Period size: 47 Copynumber: 3.6 Consensus size: 45
83912184 TATACGTGCT
* * * *
83912194 GATGAATGTCCCAGACATGTCTTACACTAGCACGA-AACT-TAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCA-TACACCTCTAGCC
* * *
83912238 GATGCATGTCCCAGACACGTCTTACACTGGC-TAACACTATCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAT-ACAC-CTCTA-GCC
* *
83912285 GATTCATGTCCCAGACATGTCTTACACTGGCATTCACCTCTACGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCATACACCTCTA-GCC
* *
83912331 GATGCTGTGTCCCAGACGTGGTCTTACAC
1 GATGC-ATGTCCCAGACAT-GTCTTACAC
83912360 GGGCTATCAT
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 29 0.30
45 1 0.01
46 11 0.11
47 46 0.47
48 10 0.10
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.25
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCATACACCTCTAGCC
Found at i:83917122 original size:2 final size:2
Alignment explanation
Indices: 83917111--83917149 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
83917101 CCATTTAGCA
83917111 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83917150 TCGATTCTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:83919244 original size:24 final size:22
Alignment explanation
Indices: 83919208--83919252 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
83919198 AATTATTTTG
83919208 TTTTGATTTCTTC-TTGTTATTC
1 TTTTGATTTCTTCATT-TTATTC
83919230 TTTTGAATTTCCTTCATTTTATT
1 TTTTG-ATTT-CTTCATTTTATT
83919253 TCAATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.25
23 4 0.20
24 9 0.45
25 2 0.10
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (22 bp):
TTTTGATTTCTTCATTTTATTC
Found at i:83921628 original size:11 final size:11
Alignment explanation
Indices: 83921612--83921637 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
83921602 ACTTCTCTCA
83921612 ACAATATTATT
1 ACAATATTATT
83921623 ACAATATTATT
1 ACAATATTATT
83921634 ACAA
1 ACAA
83921638 AATTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (11 bp):
ACAATATTATT
Found at i:83927052 original size:16 final size:16
Alignment explanation
Indices: 83927031--83927065 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
83927021 TTGTAACTTA
*
83927031 TATCCAAATAAGCCCT
1 TATCCAAATAAGCCAT
*
83927047 TATCCAATTAAGCCAT
1 TATCCAAATAAGCCAT
83927063 TAT
1 TAT
83927066 TATATAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (16 bp):
TATCCAAATAAGCCAT
Found at i:83931389 original size:18 final size:18
Alignment explanation
Indices: 83931352--83931390 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
83931342 TTGGAAATCA
*
83931352 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
83931370 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
83931388 AAA
1 AAA
83931391 AATCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:83933649 original size:35 final size:35
Alignment explanation
Indices: 83933610--83933680 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
83933600 AAATTGCTTG
83933610 AATTCAATGCTTGGATTGGTTGGTAATTGGATGTA
1 AATTCAATGCTTGGATTGGTTGGTAATTGGATGTA
83933645 AATTCAATGCTTGGATTGGTTGGTAATTGGATGTA
1 AATTCAATGCTTGGATTGGTTGGTAATTGGATGTA
83933680 A
1 A
83933681 GTTGGTGCAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.06, G:0.28, T:0.39
Consensus pattern (35 bp):
AATTCAATGCTTGGATTGGTTGGTAATTGGATGTA
Found at i:83944535 original size:21 final size:21
Alignment explanation
Indices: 83944509--83944549 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
83944499 AAAAGGCGGA
83944509 AATTGTTAGCTCTAGTTTTTC
1 AATTGTTAGCTCTAGTTTTTC
83944530 AATTGTTAGCTCTAGTTTTT
1 AATTGTTAGCTCTAGTTTTT
83944550 GAAGTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.12, G:0.15, T:0.54
Consensus pattern (21 bp):
AATTGTTAGCTCTAGTTTTTC
Found at i:83947014 original size:3 final size:3
Alignment explanation
Indices: 83947001--83947031 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
83946991 TATAAACATG
83947001 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
83947032 TTGTAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:83948748 original size:20 final size:20
Alignment explanation
Indices: 83948719--83948761 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
83948709 TTTCTATATA
*
83948719 ATTATACAATTTTATAAAAT
1 ATTATACAATTATATAAAAT
* *
83948739 ATTATTCAATTATATAAATT
1 ATTATACAATTATATAAAAT
83948759 ATT
1 ATT
83948762 GTAACATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTATACAATTATATAAAAT
Found at i:83955025 original size:20 final size:19
Alignment explanation
Indices: 83954988--83955039 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
83954978 CTTAAAAATA
* *
83954988 ATAAAAATTTGGAATTTTT
1 ATAAATATTTTGAATTTTT
83955007 ATAAATATTTTGAATTTTT
1 ATAAATATTTTGAATTTTT
*
83955026 AAAAATTATTTTGA
1 ATAAA-TATTTTGA
83955040 TTATTTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 21 0.72
20 8 0.28
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (19 bp):
ATAAATATTTTGAATTTTT
Found at i:83961529 original size:47 final size:47
Alignment explanation
Indices: 83961460--83961571 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
83961450 AGCAGCTAAG
* * *
83961460 AGCTTACTGTTTTCAGCTCGTTAGAGTTTACTATTTTAGCTTATAAA
1 AGCTTACTGTTTTCAGCTCGTTAGAGCTTACTATTTCAGCTCATAAA
* * * *
83961507 AGCTTACTGTTTTCAGCTCGTTAGAGCTTACTGTTTCAGCTCGTTAG
1 AGCTTACTGTTTTCAGCTCGTTAGAGCTTACTATTTCAGCTCATAAA
83961554 AGCTTACTG-TTTCAGCTC
1 AGCTTACTGTTTTCAGCTC
83961572 AATCTAGCTT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
46 9 0.16
47 49 0.84
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.42
Consensus pattern (47 bp):
AGCTTACTGTTTTCAGCTCGTTAGAGCTTACTATTTCAGCTCATAAA
Found at i:83961586 original size:23 final size:23
Alignment explanation
Indices: 83961458--83961571 Score: 147
Period size: 23 Copynumber: 4.9 Consensus size: 23
83961448 ACAGCAGCTA
83961458 AGAGCTTACTGTTTTCAGCTCGTT
1 AGAGCTTACTG-TTTCAGCTCGTT
* * * ** *
83961482 AGAGTTTACTATTTTAGCTTATA
1 AGAGCTTACTGTTTCAGCTCGTT
*
83961505 AAAGCTTACTGTTTTCAGCTCGTT
1 AGAGCTTACTG-TTTCAGCTCGTT
83961529 AGAGCTTACTGTTTCAGCTCGTT
1 AGAGCTTACTGTTTCAGCTCGTT
83961552 AGAGCTTACTGTTTCAGCTC
1 AGAGCTTACTGTTTCAGCTC
83961572 AATCTAGCTT
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
23 48 0.64
24 27 0.36
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.41
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCGTT
Found at i:83966702 original size:41 final size:41
Alignment explanation
Indices: 83966649--83966818 Score: 147
Period size: 41 Copynumber: 4.1 Consensus size: 41
83966639 AGTCCGACTC
*
83966649 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA-
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGAG
* * * *
83966688 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TC-CAG
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCTCGGAG
* * *
83966728 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA-
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--AG
*
83966773 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGAT
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGAG
83966813 TTAGAC
1 TTAGAC
83966819 CTCGATTAGC
Statistics
Matches: 105, Mismatches: 12, Indels: 26
0.73 0.08 0.18
Matches are distributed among these distances:
39 6 0.06
40 19 0.18
41 48 0.46
42 16 0.15
43 11 0.10
44 1 0.01
45 3 0.03
46 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (41 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGAG
Found at i:83983106 original size:28 final size:28
Alignment explanation
Indices: 83983066--83983144 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
83983056 GCAATCAAAT
* * *
83983066 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
83983094 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
83983122 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
83983145 CAAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:83983357 original size:43 final size:43
Alignment explanation
Indices: 83983256--83983384 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 43
83983246 TTTATAATGG
* * * *
83983256 TGATATTCGGGCTTTGAGCCTAGCAAGCTTTAA-GCTGGTGAATAA
1 TGATA-TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTG-A-AA
*
83983301 T-ATTATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
83983344 TGATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
83983385 TGAGTTCAGA
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
42 12 0.16
43 26 0.36
44 26 0.36
45 9 0.12
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (43 bp):
TGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:83983407 original size:41 final size:40
Alignment explanation
Indices: 83983317--83983464 Score: 154
Period size: 41 Copynumber: 3.6 Consensus size: 40
83983307 CGGGCTTCGG
*
83983317 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAT-TCGGGCTTAAA
* * *
83983360 GCCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGA-TTCGGGCTTAAA
* *** *
83983401 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATG-ATTCGGGCTTAAA
*
83983441 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
83983465 TTTGATAAAA
Statistics
Matches: 85, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
40 30 0.35
41 32 0.38
42 11 0.13
43 12 0.14
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (40 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGATTCGGGCTTAAA
Found at i:83983465 original size:40 final size:41
Alignment explanation
Indices: 83983317--83983464 Score: 156
Period size: 40 Copynumber: 3.6 Consensus size: 41
83983307 CGGGCTTCGG
*
83983317 GCCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGCTTAAA
* * * *
83983360 GCCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
* *** *
83983401 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
*
83983441 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
83983465 TTTGATAAAA
Statistics
Matches: 84, Mismatches: 19, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
40 31 0.37
41 30 0.36
42 11 0.13
43 12 0.14
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
Found at i:83989886 original size:28 final size:26
Alignment explanation
Indices: 83989827--83989886 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
83989817 TCAGTGTACG
**
83989827 AAATATTGAGAATGACTTAATGTGCG
1 AAATATTGAGAATGACTTAATGTGAA
* *
83989853 AGATATTGAGAATGACACTTAGTGTGAA
1 AAATATTGAGAATG--ACTTAATGTGAA
83989881 AAATAT
1 AAATAT
83989887 CAAATGATTC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 13 0.48
28 14 0.52
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.30
Consensus pattern (26 bp):
AAATATTGAGAATGACTTAATGTGAA
Found at i:83990205 original size:40 final size:40
Alignment explanation
Indices: 83990102--83990206 Score: 95
Period size: 40 Copynumber: 2.6 Consensus size: 40
83990092 AGGCTTCAAG
* * * *
83990102 CCTAGCAGGCGAAATGCCGGTGAATGAGTTTAGACTTAAAG
1 CCTAGCAGGCTAAATGCCGGTG-ATGAATTGAGACTTAAAA
* *** * *
83990143 TCTAGCAGGCTTCGTGCTGGTGATGAATTCGAG-TTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGATGAATT-GAGACTTAAAA
83990183 CCTAGCAGGCTAAATGCCGGTGAT
1 CCTAGCAGGCTAAATGCCGGTGAT
83990207 TTGATAAAAG
Statistics
Matches: 48, Mismatches: 15, Indels: 3
0.73 0.23 0.05
Matches are distributed among these distances:
40 30 0.62
41 18 0.38
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGATGAATTGAGACTTAAAA
Found at i:83993561 original size:55 final size:53
Alignment explanation
Indices: 83993440--83993632 Score: 183
Period size: 55 Copynumber: 3.6 Consensus size: 53
83993430 ATTAGGGTTT
* * * * * *
83993440 AAGGATACCATGTAAGACCAAGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACAT-GACATTGATAA-G-TTCATAAGAC
*
83993495 AAGGAAACCATGTAAGACCATGTCAAGACATGACATTGATAAGTTACTATAAGAC
1 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTT-C-ATAAGAC
* * * * * * *
83993550 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTTAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTTCATAAGAC
*
83993603 AAGGATACCATGTAAGACCATGTCGAGACA
1 AAGGATACCATGTAAGACCATGTCAAGACA
83993633 CGTAAGACCA
Statistics
Matches: 114, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
52 6 0.05
53 29 0.25
54 10 0.09
55 65 0.57
56 4 0.04
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTTCATAAGAC
Found at i:83993760 original size:23 final size:24
Alignment explanation
Indices: 83993734--83993778 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
83993724 AAGGTAAGGT
*
83993734 AAGGTAAGACGAGTT-ATACTAAA
1 AAGGTAAGACAAGTTCATACTAAA
83993757 AAGGTAAGACAAGTTCATACTA
1 AAGGTAAGACAAGTTCATACTA
83993779 GAAGAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATACTAAA
Found at i:83993846 original size:18 final size:19
Alignment explanation
Indices: 83993811--83993850 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
83993801 ATATTTATGT
83993811 GTTTTTGATAAGGAAAAAG
1 GTTTTTGATAAGGAAAAAG
83993830 GTTTTTGATAAGGAAAAAG
1 GTTTTTGATAAGGAAAAAG
83993849 GT
1 GT
83993851 AAGTAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.33
Consensus pattern (19 bp):
GTTTTTGATAAGGAAAAAG
Found at i:84000153 original size:43 final size:43
Alignment explanation
Indices: 83999946--84000136 Score: 321
Period size: 43 Copynumber: 4.4 Consensus size: 43
83999936 AAAAATTTGT
* *
83999946 GGCTTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTAAA
1 GGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAA
*
83999989 TGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAA
1 GGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAA
84000032 GGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAA-GTCAA
1 GGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAA
* *
84000074 GGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAACGTCAA
1 GGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAA
84000117 GGCTTTTAGCGGCGCTTTGT
1 GGCTTTTAGCGGCG-TTTGT
84000137 TTACAAACGC
Statistics
Matches: 141, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
42 41 0.29
43 95 0.67
44 5 0.04
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.26
Consensus pattern (43 bp):
GGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAA
Found at i:84000153 original size:85 final size:86
Alignment explanation
Indices: 83999946--84000136 Score: 321
Period size: 85 Copynumber: 2.2 Consensus size: 86
83999936 AAAAATTTGT
* *
83999946 GGCTTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTAAATGCTTTTAGCGGCGTTTGTGGG
1 GGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTAAAGGCTTTTAGCGGCGTTTGTGGG
*
84000011 AAAAGCGCCGCTAAAGGTCAA
66 AAAAGCGCCGCTAAACGTCAA
*
84000032 GGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAA-GTCAAGGCTTTTAGCGGCGTTTGTGGG
1 GGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTAAAGGCTTTTAGCGGCGTTTGTGGG
*
84000096 AGAAGCGCCGCTAAACGTCAA
66 AAAAGCGCCGCTAAACGTCAA
84000117 GGCTTTTAGCGGCGCTTTGT
1 GGCTTTTAGCGGCG-TTTGT
84000137 TTACAAACGC
Statistics
Matches: 99, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
85 58 0.59
86 41 0.41
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.26
Consensus pattern (86 bp):
GGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTAAAGGCTTTTAGCGGCGTTTGTGGG
AAAAGCGCCGCTAAACGTCAA
Found at i:84000240 original size:31 final size:31
Alignment explanation
Indices: 84000205--84000285 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
84000195 CTTCCTGCAT
* *
84000205 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
84000236 TAAAATGCATCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
84000267 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
84000286 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.02, T:0.17
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:84000555 original size:21 final size:21
Alignment explanation
Indices: 84000531--84000576 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
84000521 GCTCGTGCCT
*
84000531 CTGCCTCTCTCGCTGCAGCCA
1 CTGCCTCCCTCGCTGCAGCCA
* * *
84000552 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCA
84000573 CTGC
1 CTGC
84000577 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.04, C:0.50, G:0.17, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCA
Found at i:84006228 original size:9 final size:9
Alignment explanation
Indices: 84006214--84006457 Score: 161
Period size: 9 Copynumber: 26.6 Consensus size: 9
84006204 TATTTAAGTA
84006214 TTATGTAAG
1 TTATGTAAG
*
84006223 TTATGTAAT
1 TTATGTAAG
*
84006232 TTATGATATG
1 TTATG-TAAG
* * *
84006242 ATATAT-AT
1 TTATGTAAG
*
84006250 TTATGTAAA
1 TTATGTAAG
* *
84006259 TTATAT-AT
1 TTATGTAAG
*
84006267 TTATCTAAG
1 TTATGTAAG
*
84006276 TTATATAAG
1 TTATGTAAG
84006285 TTATGTAAG
1 TTATGTAAG
*
84006294 TTATGTAAA
1 TTATGTAAG
*
84006303 TTATGATATAAAA
1 TTATG---T-AAG
*
84006316 TATATTTAAG
1 T-TATGTAAG
84006326 TATTATGTAAG
1 --TTATGTAAG
84006337 TTATGTAAG
1 TTATGTAAG
* *
84006346 TTATAT-AT
1 TTATGTAAG
*
84006354 TTATCTAAG
1 TTATGTAAG
*
84006363 TTATATAAG
1 TTATGTAAG
*
84006372 TTATATAAG
1 TTATGTAAG
*
84006381 TTATGTATG
1 TTATGTAAG
*
84006390 TTATATAAG
1 TTATGTAAG
*
84006399 TTATGTATG
1 TTATGTAAG
*
84006408 TTATATAAG
1 TTATGTAAG
84006417 TTATGTAAG
1 TTATGTAAG
* *
84006426 TTATATATG
1 TTATGTAAG
*
84006435 TTATATAAG
1 TTATGTAAG
*
84006444 TTATGTAAA
1 TTATGTAAG
84006453 TTATG
1 TTATG
84006458 ATATCAAATA
Statistics
Matches: 185, Mismatches: 39, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
8 16 0.09
9 145 0.78
10 7 0.04
11 8 0.04
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:84006293 original size:18 final size:18
Alignment explanation
Indices: 84006214--84006457 Score: 188
Period size: 18 Copynumber: 13.3 Consensus size: 18
84006204 TATTTAAGTA
* *
84006214 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
84006232 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
84006250 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
84006267 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
84006285 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
84006303 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
84006326 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
84006346 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
84006363 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
84006381 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
84006399 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
84006417 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* * *
84006435 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
84006453 TTATG
1 TTATG
84006458 ATATCAAATA
Statistics
Matches: 185, Mismatches: 31, Indels: 20
0.78 0.13 0.08
Matches are distributed among these distances:
17 37 0.20
18 115 0.62
19 7 0.04
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.03
25 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:84006811 original size:24 final size:24
Alignment explanation
Indices: 84006779--84006846 Score: 111
Period size: 24 Copynumber: 2.8 Consensus size: 24
84006769 ACTTAAACGG
84006779 TAAAACGGACGATAATATTTGTGA
1 TAAAACGGACGATAATATTTGTGA
84006803 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTGA
*
84006827 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
84006847 CAATAATAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
23 1 0.02
24 39 0.95
25 1 0.02
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTGA
Found at i:84007920 original size:363 final size:357
Alignment explanation
Indices: 84007239--84007964 Score: 1215
Period size: 363 Copynumber: 2.0 Consensus size: 357
84007229 AATTAATACT
*
84007239 ATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAATTTAAAAATATTAAATATTAAAATCAAACA
1 ATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAATTTAAAAATATTAAATATTAAAATAAAACA
*
84007304 TTAGTAATGCAAAAAAATAATAATTTGAATATAATAATATAAAAAAAGAATCGTAGTTTAATTTT
66 TTAGTAATACAAAAAAATAATAATTTGAATATAATAATATAAAAAAAGAATCGTAGTTTAATTTT
* *
84007369 TATAGGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTT
131 TATAAGTAAATTGGAAATAAATATTCAATAATAAATGAGC-CGATAGAACTTTTTTCAAGTCTTT
84007434 TTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGC
195 TTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGC
*
84007499 AGCTCGATATAAGGCAACCCGTCAGGTTTCTAGCCTATATACTTTGAATCTTTAAAATATTTAAA
260 AGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAA
*
84007564 ATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTA
325 ATAAGGTTGGAGAGAAGGTCAGCCATTGTTGTA
84007597 ATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAATTTAAAAATATTAAATATTAAAATAAAACA
1 ATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAATTTAAAAATATTAAATATTAAAATAAAACA
* * * *
84007662 TTATTAATATAAAAAAATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAGTTTAATTTT
66 TTAGTAATACAAAAAAATAATAATTTGAATATAATAATATAAAAAAAGAATCGTAGTTTAATTTT
84007727 TATAAGTAAATTGGAAATAAATTAAGGTT-ATATAAATATTCAAT-AG-CGATAGAACTTTTTTC
131 TATAAGTAAATTGGAAATAAA-T-A--TTCA-AT-AATA---AATGAGCCGATAGAACTTTTTTC
* *
84007789 AATTCTTTTTGAATTTTTTAAGATTTATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
187 AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
*
84007854 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCTTATATACTTTGAATCTTTAAAA
252 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
*
84007919 TATTTAAAATAAGGTTGGAGAGAAGGTCATCCATTGTTGTA
317 TATTTAAAATAAGGTTGGAGAGAAGGTCAGCCATTGTTGTA
84007960 ATTTT
1 ATTTT
84007965 AATGGACAAG
Statistics
Matches: 345, Mismatches: 14, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
358 144 0.42
359 1 0.00
360 1 0.00
361 1 0.00
362 4 0.01
363 189 0.55
365 2 0.01
366 3 0.01
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (357 bp):
ATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAATTTAAAAATATTAAATATTAAAATAAAACA
TTAGTAATACAAAAAAATAATAATTTGAATATAATAATATAAAAAAAGAATCGTAGTTTAATTTT
TATAAGTAAATTGGAAATAAATATTCAATAATAAATGAGCCGATAGAACTTTTTTCAAGTCTTTT
TGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCA
GCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAA
TAAGGTTGGAGAGAAGGTCAGCCATTGTTGTA
Found at i:84008209 original size:15 final size:15
Alignment explanation
Indices: 84008189--84008217 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
84008179 AGAATTTTGA
84008189 AATAAAACGTACCTT
1 AATAAAACGTACCTT
84008204 AATAAAACGTACCT
1 AATAAAACGTACCT
84008218 GGTCTACTCC
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:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:84008728 original size:183 final size:183
Alignment explanation
Indices: 84008418--84008786 Score: 675
Period size: 183 Copynumber: 2.0 Consensus size: 183
84008408 CCTAGAACAG
84008418 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
84008483 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
*
84008548 ACCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 ACCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
*
84008601 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATGAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
* *
84008666 ATCAGTACCAAATATTAATTCGAAGATTAAGTGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
* * *
84008731 AGCAGGAAGCAGTAACTGAAACATATACAACATTAATTCACTAATATAGACAC
131 ACCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
84008784 ATG
1 ATG
84008787 GAACTATATC
Statistics
Matches: 179, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 179 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
ACCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
Found at i:84008876 original size:14 final size:13
Alignment explanation
Indices: 84008857--84008886 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
84008847 CAATATAATT
84008857 TTACTTCATATATA
1 TTACTTCATATA-A
84008871 TTACTTCATATAA
1 TTACTTCATATAA
84008884 TTA
1 TTA
84008887 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:84011738 original size:15 final size:15
Alignment explanation
Indices: 84011718--84011766 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
84011708 GGTAAAAATT
84011718 TTGGGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
*
84011733 TT-GGGG-G-A-AAT
1 TTGGGGGAGAAGAAG
*
84011744 TTAGGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
84011759 TTGGGGGA
1 TTGGGGGA
84011767 AATTTGGGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 2 0.07
14 5 0.19
15 11 0.41
ACGTcount: A:0.31, C:0.00, G:0.51, T:0.18
Consensus pattern (15 bp):
TTGGGGGAGAAGAAG
Found at i:84011743 original size:27 final size:26
Alignment explanation
Indices: 84011717--84011777 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
84011707 GGGTAAAAAT
84011717 TTTGGGGGAGAAGAAGTTGGGGGAAA
1 TTTGGGGGAGAAGAAGTTGGGGGAAA
*
84011743 TTTAGGGGAGAAGAAGTTGGGGGAAA
1 TTTGGGGGAGAAGAAGTTGGGGGAAA
84011769 TTTGGGGGA
1 TTTGGGGGA
84011778 AATCGGGGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.30, C:0.00, G:0.49, T:0.21
Consensus pattern (26 bp):
TTTGGGGGAGAAGAAGTTGGGGGAAA
Found at i:84011775 original size:11 final size:11
Alignment explanation
Indices: 84011733--84011780 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 11
84011723 GGAGAAGAAG
84011733 TTGGGGGAAAT
1 TTGGGGGAAAT
*
84011744 TTAGGGGAGAAGAAG
1 TT-GGGG-G-A-AAT
84011759 TTGGGGGAAAT
1 TTGGGGGAAAT
84011770 TTGGGGGAAAT
1 TTGGGGGAAAT
84011781 CGGGGAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
11 15 0.48
12 5 0.16
13 2 0.06
14 5 0.16
15 4 0.13
ACGTcount: A:0.31, C:0.00, G:0.46, T:0.23
Consensus pattern (11 bp):
TTGGGGGAAAT
Found at i:84012089 original size:28 final size:28
Alignment explanation
Indices: 84012057--84012114 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
84012047 AATCAAAACT
*
84012057 CTAT-ACCTTAAACCATTAAACTATATCC
1 CTATAACCTTAAACC-CTAAACTATATCC
* *
84012085 CTATAACCTTAATCCCTAAAGTATATCC
1 CTATAACCTTAAACCCTAAACTATATCC
84012113 CT
1 CT
84012115 TAAACCCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (28 bp):
CTATAACCTTAAACCCTAAACTATATCC
Found at i:84012115 original size:21 final size:21
Alignment explanation
Indices: 84012091--84012134 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
84012081 ATCCCTATAA
* *
84012091 CCTTAATCCCTAAAGTATATC
1 CCTTAAACCCTAAACTATATC
84012112 CCTTAAACCCTAAACTATATC
1 CCTTAAACCCTAAACTATATC
84012133 CC
1 CC
84012135 CTAACCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (21 bp):
CCTTAAACCCTAAACTATATC
Found at i:84012368 original size:7 final size:7
Alignment explanation
Indices: 84012356--84012389 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
84012346 CCCTAAGTAT
84012356 TAACCCC
1 TAACCCC
84012363 TAACCCC
1 TAACCCC
84012370 TAACCCC
1 TAACCCC
84012377 TAACCCC
1 TAACCCC
84012384 TAACCC
1 TAACCC
84012390 TTAAATCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.56, G:0.00, T:0.15
Consensus pattern (7 bp):
TAACCCC
Found at i:84012405 original size:21 final size:21
Alignment explanation
Indices: 84012360--84012421 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
84012350 AAGTATTAAC
* * * *
84012360 CCCTAACCCCTAACCCCTAAC
1 CCCTAACCCTTAAACCATAAA
*
84012381 CCCTAACCCTTAAATCATAAA
1 CCCTAACCCTTAAACCATAAA
84012402 CCCTAACCCTTAAACCATAA
1 CCCTAACCCTTAAACCATAA
84012422 TACATAAACC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.19
Consensus pattern (21 bp):
CCCTAACCCTTAAACCATAAA
Found at i:84012417 original size:14 final size:14
Alignment explanation
Indices: 84012360--84012417 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
84012350 AAGTATTAAC
*
84012360 CCCTAACCCCTAAC
1 CCCTAACCCCTAAA
84012374 CCCTAACCCCT-AA
1 CCCTAACCCCTAAA
** *
84012387 CCCTTAAATCATAAA
1 CCC-TAACCCCTAAA
*
84012402 CCCTAACCCTTAAA
1 CCCTAACCCCTAAA
84012416 CC
1 CC
84012418 ATAATACATA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
13 4 0.11
14 26 0.74
15 5 0.14
ACGTcount: A:0.34, C:0.47, G:0.00, T:0.19
Consensus pattern (14 bp):
CCCTAACCCCTAAA
Found at i:84012427 original size:28 final size:28
Alignment explanation
Indices: 84012374--84012431 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
84012364 AACCCCTAAC
* *
84012374 CCCTAACCCCTAACCCTTAAATCATAAA
1 CCCTAACCCCTAAACCATAAATCATAAA
*
84012402 CCCTAACCCTTAAACCAT-AATACATAAA
1 CCCTAACCCCTAAACCATAAAT-CATAAA
84012430 CC
1 CC
84012432 TTAAAATAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 3 0.12
28 23 0.88
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (28 bp):
CCCTAACCCCTAAACCATAAATCATAAA
Found at i:84012491 original size:14 final size:14
Alignment explanation
Indices: 84012455--84012493 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
84012445 TCATAAACTT
84012455 TAAACCCTAAATCA
1 TAAACCCTAAATCA
*
84012469 TACAA-CCTAAATCG
1 TA-AACCCTAAATCA
84012483 TAAACCCTAAA
1 TAAACCCTAAA
84012494 CTTTTTAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 2 0.09
14 18 0.82
15 2 0.09
ACGTcount: A:0.49, C:0.28, G:0.03, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:84012552 original size:41 final size:41
Alignment explanation
Indices: 84012495--84012827 Score: 517
Period size: 41 Copynumber: 8.1 Consensus size: 41
84012485 AACCCTAAAC
*
84012495 TTTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
*
84012536 TTTTTAGCGGCGTTTTACCAAAAGCGCAGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* * * *
84012577 TTTTTAGCGGCATTTTACCAAAAGTGCTGCTAATTCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* *
84012618 TTTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATTCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
*
84012659 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATTCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* *
84012700 TTTTTAGCGGCATTTTACCAAAAGCGCCGCTAATTCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* *
84012741 TTTTTAGTGGCGTTTTACCAAAAGCGCCGCTATTGCT-TTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
*
84012781 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTC-TA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
84012821 TGTTTTA
1 T-TTTTA
84012828 CAATTTTTTT
Statistics
Matches: 273, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
40 42 0.15
41 231 0.85
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
Found at i:84012866 original size:12 final size:12
Alignment explanation
Indices: 84012851--84012876 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84012841 GTTTTTTGAT
84012851 AAAACGCCGCTA
1 AAAACGCCGCTA
84012863 AAAACGCCGCTA
1 AAAACGCCGCTA
84012875 AA
1 AA
84012877 GACCTGTTTT
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:84017956 original size:9 final size:9
Alignment explanation
Indices: 84017942--84017968 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
84017932 AGTTGGCTTA
84017942 ATTTGGTTG
1 ATTTGGTTG
84017951 ATTTGGTTG
1 ATTTGGTTG
84017960 ATTTGGTTG
1 ATTTGGTTG
84017969 TGTATATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.33, T:0.56
Consensus pattern (9 bp):
ATTTGGTTG
Found at i:84030436 original size:42 final size:42
Alignment explanation
Indices: 84030377--84030471 Score: 136
Period size: 42 Copynumber: 2.3 Consensus size: 42
84030367 CGGTCAAGAT
* * *
84030377 ACACGCCCTTGTGCCAGGCCATGTAACCCTTGAAATAGCCTC
1 ACACGCCCGTGCGCCAGGCCATGTAACCCTCGAAATAGCCTC
* * *
84030419 ACACGCCCGTGCGCCAGGCCGTGTAACCCTCGAAATGGCCTT
1 ACACGCCCGTGCGCCAGGCCATGTAACCCTCGAAATAGCCTC
84030461 ACACGCCCGTG
1 ACACGCCCGTG
84030472 TGTCTGGCCA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.21, C:0.38, G:0.23, T:0.18
Consensus pattern (42 bp):
ACACGCCCGTGCGCCAGGCCATGTAACCCTCGAAATAGCCTC
Found at i:84033066 original size:39 final size:39
Alignment explanation
Indices: 84032899--84033080 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
84032889 TCGTTCAAAC
* * ** * **
84032899 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
84032939 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
84032979 GCCTTCGGGCTTAGCCCGGATATCATAACTC-CCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
84033017 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
84033056 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
84033081 CTCGAACATT
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
38 37 0.30
39 49 0.40
40 38 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:84040443 original size:36 final size:35
Alignment explanation
Indices: 84040360--84040458 Score: 126
Period size: 37 Copynumber: 2.7 Consensus size: 35
84040350 CCGCACAAAG
* * *
84040360 GCCTTCGGGACTTAACCCGGATATCACAATTTGCAAT
1 GCCTTCGGG-CTT-AGCCGGATATCACAACTCGCAAT
*
84040397 GCCTTCGGGCTTAGCCGGATATCATAACTCGCAATT
1 GCCTTCGGGCTTAGCCGGATATCACAACTCGCAA-T
84040433 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAG-CCGGATATCAC
84040459 TCGAACTTCA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 18 0.33
36 18 0.33
37 19 0.35
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (35 bp):
GCCTTCGGGCTTAGCCGGATATCACAACTCGCAAT
Found at i:84045088 original size:27 final size:29
Alignment explanation
Indices: 84045034--84045088 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
84045024 AGGGGATGAT
*
84045034 GATTTTATCACATTATATGTTATTTGGTA
1 GATTTTATCACATTATATGTTATATGGTA
*
84045063 GATTTTCT-ACATT-TATGTTATATGGT
1 GATTTTATCACATTATATGTTATATGGT
84045089 GGTTTATACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 12 0.50
28 5 0.21
29 7 0.29
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.53
Consensus pattern (29 bp):
GATTTTATCACATTATATGTTATATGGTA
Done.