Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 53 of 202
Found at i:15747517 original size:34 final size:36
Alignment explanation
Indices: 15747479--15747565 Score: 133
Period size: 34 Copynumber: 2.4 Consensus size: 36
15747469 ATAATAAATA
15747479 TTTTTATTTTTTTATTTTTAAAATATTTTT-TA-TT
1 TTTTTATTTTTTTATTTTTAAAATATTTTTATACTT
15747513 TTTTTATTTTTTTATTTTTAAAATATTTTTAAAATACTT
1 TTTTTATTTTTTTATTTTTAAAATATTTTT---ATACTT
15747552 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
15747566 AAAATTTTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
34 30 0.62
38 2 0.04
39 16 0.33
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.74
Consensus pattern (36 bp):
TTTTTATTTTTTTATTTTTAAAATATTTTTATACTT
Found at i:15747543 original size:17 final size:17
Alignment explanation
Indices: 15747487--15747543 Score: 71
Period size: 16 Copynumber: 3.4 Consensus size: 17
15747477 TATTTTTATT
15747487 TTTTTATTTTTAAAATA
1 TTTTTATTTTTAAAATA
** *
15747504 TTTTTTATTTTT-TTATT
1 -TTTTTATTTTTAAAATA
15747521 TTTTTATTTTTAAAATA
1 TTTTTATTTTTAAAATA
15747538 TTTTTA
1 TTTTTA
15747544 AAATACTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
16 11 0.34
17 10 0.31
18 11 0.34
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTATTTTTAAAATA
Found at i:15747553 original size:12 final size:11
Alignment explanation
Indices: 15747525--15747554 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
15747515 TTTATTTTTT
15747525 TATTTTTAAAA
1 TATTTTTAAAA
15747536 TATTTTTAAAA
1 TATTTTTAAAA
15747547 TACTTTTT
1 TA-TTTTT
15747555 TTATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:15753628 original size:12 final size:12
Alignment explanation
Indices: 15753611--15753635 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15753601 TAAAATGGTT
15753611 AGTTTATTCCAA
1 AGTTTATTCCAA
15753623 AGTTTATTCCAA
1 AGTTTATTCCAA
15753635 A
1 A
15753636 CATGTTGACA
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:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (12 bp):
AGTTTATTCCAA
Found at i:15760624 original size:27 final size:27
Alignment explanation
Indices: 15760554--15760617 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
15760544 TTTTAAAATA
15760554 TTTTAAAATACTTTTTTTATTTTTTAT
1 TTTTAAAATACTTTTTTTATTTTTTAT
15760581 TTTTAAAATACTTTTTTTATTTTTTAT
1 TTTTAAAATACTTTTTTTATTTTTTAT
15760608 TTTTAAAATA
1 TTTTAAAATA
15760618 AATTTTTGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTAAAATACTTTTTTTATTTTTTAT
Found at i:15760632 original size:26 final size:27
Alignment explanation
Indices: 15760554--15760634 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 27
15760544 TTTTAAAATA
** * *
15760554 TTTTAAAATACTTTTTTTATTTTTTAT
1 TTTTAAAATACAATTTTTAGTGTTTAT
** * *
15760581 TTTTAAAATACTTTTTTTATTTTTTAT
1 TTTTAAAATACAATTTTTAGTGTTTAT
*
15760608 TTTTAAAATA-AATTTTTGGTGTTTAT
1 TTTTAAAATACAATTTTTAGTGTTTAT
15760634 T
1 T
15760635 AAAAAAATGG
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 12 0.24
27 37 0.76
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (27 bp):
TTTTAAAATACAATTTTTAGTGTTTAT
Found at i:15774830 original size:123 final size:124
Alignment explanation
Indices: 15774636--15774860 Score: 398
Period size: 123 Copynumber: 1.8 Consensus size: 124
15774626 TAATTTCGAG
* * *
15774636 TTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAACAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAACAGGATGCTATTTGAGAAAAATTTGTA
*
15774701 AAATCGC-GCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTTT
66 AAATCGCACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTTT
*
15774759 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAAAATTTGTA
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAACAGGATGCTATTTGAGAAAAATTTGTA
15774824 AAATCGCACCCTCGTGGACGCGCTTTTGCTACAGTAG
66 AAATCGCACCCTCGTGGACGCGCTTTTGCTACAGTAG
15774861 CATGTTTGGG
Statistics
Matches: 96, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
123 68 0.71
124 28 0.29
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAACAGGATGCTATTTGAGAAAAATTTGTA
AAATCGCACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTTT
Found at i:15778229 original size:115 final size:116
Alignment explanation
Indices: 15777873--15778229 Score: 637
Period size: 116 Copynumber: 3.1 Consensus size: 116
15777863 AGTTTGTGAT
15777873 ATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTATCAAATTATATAAAATTATTAATT
1 ATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTATCAAATTATATAAAATTATTAATT
15777938 GTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAA
66 GTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAA
15777989 ATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTATCAAATTATATAAAATTATTAATT
1 ATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTATCAAATTATATAAAATTATTAATT
*
15778054 GTTACTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAA
66 GTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAA
* *
15778105 ATTATTAATTGATAAATTGTATTAATGATTAGT-AAATTTATCAAATTATAT-AAATTATTAATT
1 ATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTATCAAATTATATAAAATTATTAATT
** *
15778168 GTTAGTACCAGGAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTAAA
66 GTTAGTACCA-GTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAA
15778220 ATTATTAATT
1 ATTATTAATT
15778230 TAGTTTAGGG
Statistics
Matches: 233, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
114 21 0.09
115 65 0.28
116 147 0.63
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (116 bp):
ATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTATCAAATTATATAAAATTATTAATT
GTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAA
Found at i:15778255 original size:23 final size:22
Alignment explanation
Indices: 15778223--15778748 Score: 513
Period size: 23 Copynumber: 23.1 Consensus size: 22
15778213 AAGTAAAATT
*
15778223 ATTAATTTAGTTTAGGGTTTTTA
1 ATTAA-TTAGGTTAGGGTTTTTA
*
15778246 ATTAAATTAGGTTAGGATTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
* *
15778269 AGT--TTAGGGTTTAGGATTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
*
15778291 ATTAAATTAGGTTAGGATTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
15778314 ATTTAATTAGGTTAGGG-TTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
15778336 AGTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
15778359 AGTTAA-GAGGGTTAGGGTTTTTA
1 A-TTAATTA-GGTTAGGGTTTTTA
* *
15778382 AGT--TTAGGGTTTAAGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
15778404 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
15778427 ATTTAATTAGGTTAGGGGTTTTTA
1 A-TTAATTAGGTTA-GGGTTTTTA
15778451 AGTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
15778474 AGT--TTAGGGTTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
15778496 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
15778519 ATCTAATTAGGTTAGGGTTTTTA
1 AT-TAATTAGGTTAGGGTTTTTA
*
15778542 AGT--TTAGGGTTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
*
15778564 ATTAAATTAAGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
*
15778587 AGT--TTAGGGTTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
15778609 ATTAAGTTAGGTTAGGGTTTTTA
1 ATTAA-TTAGGTTAGGGTTTTTA
15778632 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
15778655 AGTTAATTAGATTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
***
15778678 AGTTAAGGGGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
* *
15778701 AGT--TTAGGGTTTAAGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
15778723 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
15778746 ATT
1 ATT
15778749 TAAGGGTATT
Statistics
Matches: 431, Mismatches: 34, Indels: 76
0.80 0.06 0.14
Matches are distributed among these distances:
20 12 0.03
21 13 0.03
22 108 0.25
23 236 0.55
24 44 0.10
25 18 0.04
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.48
Consensus pattern (22 bp):
ATTAATTAGGTTAGGGTTTTTA
Found at i:15778290 original size:45 final size:43
Alignment explanation
Indices: 15778234--15778748 Score: 426
Period size: 45 Copynumber: 11.3 Consensus size: 43
15778224 TTAATTTAGT
*
15778234 TTAGGGTTTTTAATTAAATTAGGTTAGGATTTTTAAGTTTAGGG
1 TTAGGGTTTTTAATT-AATTAGGTTAGGGTTTTTAAGTTTAGGG
* * *
15778278 TTTAGGATTTTTAATTAAATTAGGTTAGGATTTTTAA-TTTAATTAGG
1 -TTAGGGTTTTTAATT-AATTAGGTTAGGGTTTTTAAGTTT-A--GGG
*
15778325 TTAGGG-TTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGAGGG
1 TTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTTAAGTT--TAGGG
* * *
15778370 TTAGGGTTTTTAAGT--TTAGGGTTTAAGGTTTTTAATTAAATTA-GG
1 TTAGGGTTTTTAATTAATTA-GG-TTAGGGTTTTTAAGT---TTAGGG
15778415 TTAGGGTTTTTAATTTAATTAGGTTAGGGGTTTTTAAGTTAATTA-GG
1 TTAGGGTTTTTAA-TTAATTAGGTTA-GGGTTTTTAAG-T--TTAGGG
* *
15778462 TTAGGGTTTTTAAGT--TTAGGGTTTAGGGTTTTTAATTAAATTA-GG
1 TTAGGGTTTTTAATTAATTA-GG-TTAGGGTTTTTAAGT---TTAGGG
15778507 TTAGGGTTTTTAATCTAATTAGGTTAGGGTTTTTAAGTTTAGGG
1 TTAGGGTTTTTAAT-TAATTAGGTTAGGGTTTTTAAGTTTAGGG
*
15778551 TTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTTTAAGTTTAGGG
1 -TTAGGGTTTTTAATT-AATTAGGTTAGGGTTTTTAAGTTTAGGG
*
15778596 TTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTAA-TTTAATTAGG
1 -TTAGGGTTTTTAATTAA-TTAGGTTAGGGTTTTTAAGTTT-A--GGG
* *
15778643 TTAGGGTTTTTAAGTTAATTAGATTAGGGTTTTTAAGTTAAGGGGG
1 TTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTTAAGTTTA--GGG
* * *
15778689 TTAGGGTTTTTAAGT--TTAGGGTTTAAGGTTTTTAATTAAATTA-GG
1 TTAGGGTTTTTAATTAATTA-GG-TTAGGGTTTTTAAGT---TTAGGG
15778734 TTAGGGTTTTTAATT
1 TTAGGGTTTTTAATT
15778749 TAAGGGTATT
Statistics
Matches: 401, Mismatches: 31, Indels: 76
0.79 0.06 0.15
Matches are distributed among these distances:
43 9 0.02
44 18 0.04
45 235 0.59
46 85 0.21
47 44 0.11
48 10 0.02
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.48
Consensus pattern (43 bp):
TTAGGGTTTTTAATTAATTAGGTTAGGGTTTTTAAGTTTAGGG
Found at i:15778351 original size:68 final size:69
Alignment explanation
Indices: 15778223--15778751 Score: 528
Period size: 68 Copynumber: 7.8 Consensus size: 69
15778213 AAGTAAAATT
* * * * *
15778223 ATTAATTTAGTTTAGGGTTTTTAATTAAATTAGGTTAGGATTTTTAAG-T--TTAGGGTTTAGGA
1 ATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTA-GG-TTAGGG
15778285 TTTTTA
64 TTTTTA
*
15778291 ATTAAATTAGGTTAGGATTTTTAATTTAATTAGGTTAGGG-TTTTAAGTTAATTAGGTTAGGGTT
1 ATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTT
15778355 TTTA
66 TTTA
* * *
15778359 AGTTAAGA--GGGTTAGGGTTTTTAAGTTT-A--GGGTTTAAGGTTTTTAA-TTAAATTAGGTTA
1 A-TTAA-ATTAGGTTAGGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAAGTT-AATTAGGTTA
15778418 GGGTTTTTA
61 GGGTTTTTA
* *
15778427 ATTTAATTAGGTTAGGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAG-T--TTAGGGTTTAGG
1 ATTAAATTAGGTTA-GGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTA-GG-TTAGG
15778489 GTTTTTA
63 GTTTTTA
*
15778496 ATTAAATTAGGTTAGGGTTTTTAATCTAATTAGGTTAGGGTTTTTAAG-T--TTAGGGTTTAGGG
1 ATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTA-GG-TTAGGG
15778558 TTTTTA
64 TTTTTA
* *
15778564 ATTAAATTAAGTTAGGGTTTTTAAGTTT-A--GGGTTTAGGGTTTTTAA-TTAAGTTAGGTTAGG
1 ATTAAATTAGGTTAGGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAAGTTAA-TTAGGTTAGG
15778625 GTTTTTA
63 GTTTTTA
* * * ***
15778632 ATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGATTAGGGTTTTTAAGTTAAGGGGGTTAGGGTT
1 ATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTT
15778697 TTTA
66 TTTA
* * * *
15778701 AGT---TTAGGGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAA
1 ATTAAATTA-GG-TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA
15778752 GGGTATTAAA
Statistics
Matches: 396, Mismatches: 35, Indels: 60
0.81 0.07 0.12
Matches are distributed among these distances:
66 8 0.02
67 38 0.10
68 245 0.62
69 78 0.20
70 25 0.06
71 2 0.01
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (69 bp):
ATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTT
TTTA
Found at i:15778589 original size:14 final size:15
Alignment explanation
Indices: 15778570--15778598 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15778560 TTTAATTAAA
15778570 TTAAG-TTAGGGTTT
1 TTAAGTTTAGGGTTT
15778584 TTAAGTTTAGGGTTT
1 TTAAGTTTAGGGTTT
15778599 AGGGTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (15 bp):
TTAAGTTTAGGGTTT
Found at i:15778824 original size:25 final size:25
Alignment explanation
Indices: 15778794--15778841 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
15778784 TATCAAAAAT
*
15778794 TTCTATTTTATTAGATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
15778819 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
15778842 TATCAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.46
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:15779297 original size:18 final size:18
Alignment explanation
Indices: 15779274--15779309 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15779264 CGAAAAATGG
*
15779274 TACATATAAGGGTTAGGA
1 TACATATAAGGGCTAGGA
15779292 TACATATAAGGGCTAGGA
1 TACATATAAGGGCTAGGA
15779310 AACGCACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.28, T:0.25
Consensus pattern (18 bp):
TACATATAAGGGCTAGGA
Found at i:15779970 original size:7 final size:7
Alignment explanation
Indices: 15779960--15779984 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15779950 TTATATACAT
15779960 AATACTA
1 AATACTA
15779967 AATACTA
1 AATACTA
15779974 AATACTA
1 AATACTA
15779981 AATA
1 AATA
15779985 TCAATCGACT
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:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:15780192 original size:20 final size:21
Alignment explanation
Indices: 15780150--15780193 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
15780140 ATACTTTTAT
*
15780150 TTTTAAAAATCTACATAATAA
1 TTTTAAAAATCTACATAAAAA
15780171 TTTT-AAAATCTA-ATATAAAA
1 TTTTAAAAATCTACATA-AAAA
15780191 TTT
1 TTT
15780194 AACTCGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 14 0.67
21 4 0.19
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTTAAAAATCTACATAAAAA
Found at i:15781150 original size:11 final size:11
Alignment explanation
Indices: 15781134--15781175 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
15781124 AAAAAGGGAG
15781134 TTAAGAGAAAC
1 TTAAGAGAAAC
*
15781145 TTAAGAGGAAC
1 TTAAGAGAAAC
*
15781156 TTAAGAGTAAC
1 TTAAGAGAAAC
15781167 TTAAGAGAA
1 TTAAGAGAA
15781176 TTTTTGAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (11 bp):
TTAAGAGAAAC
Found at i:15781199 original size:11 final size:11
Alignment explanation
Indices: 15781179--15781218 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
15781169 AAGAGAATTT
15781179 TTGA-AGGAAA
1 TTGAGAGGAAA
15781189 TTGAGAGGAAA
1 TTGAGAGGAAA
*
15781200 TTAAGAGGAAA
1 TTGAGAGGAAA
15781211 TTTGAGAG
1 -TTGAGAG
15781219 AGGATTAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 4 0.15
11 16 0.62
12 6 0.23
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.23
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:15791267 original size:48 final size:48
Alignment explanation
Indices: 15791213--15791308 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
15791203 TGTTCAAAAA
15791213 TCTAAGAACTTTCAAAATTTTAACTTAAATTCAACAAAACTTTGTTCT
1 TCTAAGAACTTTCAAAATTTTAACTTAAATTCAACAAAACTTTGTTCT
15791261 TCTAAGAACTTTCAAAATTTTAACTTAAATTCAACAAAACTTTGTTCT
1 TCTAAGAACTTTCAAAATTTTAACTTAAATTCAACAAAACTTTGTTCT
15791309 AAGACTTCTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.40
Consensus pattern (48 bp):
TCTAAGAACTTTCAAAATTTTAACTTAAATTCAACAAAACTTTGTTCT
Found at i:15791334 original size:45 final size:46
Alignment explanation
Indices: 15791213--15791334 Score: 115
Period size: 48 Copynumber: 2.6 Consensus size: 46
15791203 TGTTCAAAAA
* ** *
15791213 TCTAAGAACTTTCAAAATTTTAACTTAAATTCAACAAAACTTTGTTCT
1 TCTAAGAACTTTCAAAAATCAAAATTAAATTCAACAAAACTTTG-T-T
* ** *
15791261 TCTAAGAACTTTCAAAATTTTAACTTAAATTCAACAAAACTTTG-T
1 TCTAAGAACTTTCAAAAATCAAAATTAAATTCAACAAAACTTTGTT
15791306 TCTAAG-AC-TTCTAAAACATCAAAATTAAA
1 TCTAAGAACTTTC-AAAA-ATCAAAATTAAA
15791335 AGAAAGGACT
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
43 3 0.04
44 6 0.09
45 15 0.22
48 44 0.65
ACGTcount: A:0.43, C:0.16, G:0.04, T:0.36
Consensus pattern (46 bp):
TCTAAGAACTTTCAAAAATCAAAATTAAATTCAACAAAACTTTGTT
Found at i:15793339 original size:16 final size:16
Alignment explanation
Indices: 15793318--15793369 Score: 104
Period size: 16 Copynumber: 3.2 Consensus size: 16
15793308 TTTGGTTCGC
15793318 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15793334 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15793350 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15793366 TGTA
1 TGTA
15793370 ATAGCAAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.37, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:15793701 original size:153 final size:155
Alignment explanation
Indices: 15793492--15793802 Score: 509
Period size: 153 Copynumber: 2.0 Consensus size: 155
15793482 TAGAATACCC
*
15793492 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGT-AA-GATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * * *
15793557 TTATCAATACTAAATATTTTAATCATATTTAAACATAATTATTATTAAACCCATTTTAATTAAAA
64 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTATAATTAAAA
*
15793622 TATATAATTTCATAAAATTCTTAATAA
129 TATATAATTTAATAAAATTCTTAATAA
15793649 TTAGCAGAAATTTGTTTTGGT-A-ATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAAT
1 TTAGCAGAAATTTGTTTTGGTAAGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAAT
* *
15793712 ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATA
66 ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTATAATTAAAATA
15793777 TATAATTTAATAAAATTCTTAATAA
131 TATAATTTAATAAAATTCTTAATAA
15793802 T
1 T
15793803 AATATTCTTA
Statistics
Matches: 145, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
153 124 0.86
155 1 0.01
157 20 0.14
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (155 bp):
TTAGCAGAAATTTGTTTTGGTAAGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAAT
ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTATAATTAAAATA
TATAATTTAATAAAATTCTTAATAA
Found at i:15793775 original size:16 final size:16
Alignment explanation
Indices: 15793738--15793779 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
15793728 TTAATCATAT
*
15793738 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
15793754 TT-AAATATATTATAA
1 TTAAAATATATTATAA
15793769 TTAAAATATAT
1 TTAAAATATAT
15793780 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:15793786 original size:14 final size:15
Alignment explanation
Indices: 15793747--15793788 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15793737 TTTAAACATA
*
15793747 ATTATTATTAAATAT
1 ATTATAATTAAATAT
15793762 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
15793776 A-TATAATTTAATA
1 ATTATAATTAAATA
15793789 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:15793884 original size:15 final size:15
Alignment explanation
Indices: 15793856--15793902 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
15793846 GTAAAATATA
15793856 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
15793871 TATTAAATATATTAT
1 AATTAAATATATTAT
15793886 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
15793899 AATT
1 AATT
15793903 TCATAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 7 0.24
14 6 0.21
15 16 0.55
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:15794025 original size:14 final size:15
Alignment explanation
Indices: 15793976--15794027 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
15793966 GTAAAATATA
15793976 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
15793991 TATTAAATATATTAT
1 AATTAAATATATTAT
15794006 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
15794019 AATTTAATA
1 AATTAAATA
15794028 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:15794163 original size:120 final size:120
Alignment explanation
Indices: 15793741--15794152 Score: 715
Period size: 120 Copynumber: 3.4 Consensus size: 120
15793731 ATCATATTTA
15793741 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA-TAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
15793805 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
15793860 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTCATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
15793925 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
15793980 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
15794045 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAAA-TT
* * * *
15794100 GAA-ATAATTAATATTAAATATATTTTATTTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
15794153 TAAAATAATT
Statistics
Matches: 282, Mismatches: 7, Indels: 7
0.95 0.02 0.02
Matches are distributed among these distances:
119 67 0.24
120 213 0.76
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:15794244 original size:92 final size:92
Alignment explanation
Indices: 15794148--15794376 Score: 227
Period size: 92 Copynumber: 2.5 Consensus size: 92
15794138 TGATTTAATA
* * *
15794148 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
15794210 ATAATTACATATAATTTAATAATTAATATT
64 AT-ATTAAATATAATTTAATAATTAATATT
* * * * *
15794240 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* * *
15794305 ATTAAATATAATTTAA-CAGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
15794330 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
15794377 CTAAAATCAA
Statistics
Matches: 118, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 79 0.67
93 10 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.44
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:15797403 original size:11 final size:11
Alignment explanation
Indices: 15797387--15797413 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
15797377 GATTTTATCA
15797387 ATTGTTGAGAT
1 ATTGTTGAGAT
15797398 ATTGTTGAGAT
1 ATTGTTGAGAT
15797409 ATTGT
1 ATTGT
15797414 CATTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (11 bp):
ATTGTTGAGAT
Found at i:15797616 original size:97 final size:97
Alignment explanation
Indices: 15797505--15797737 Score: 439
Period size: 97 Copynumber: 2.4 Consensus size: 97
15797495 AATAACAATC
*
15797505 ATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAATTAA
1 ATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCAAATTATATTTTAATTAA
15797570 AATATGAAGATTTAATCTTAAATTTGGATATT
66 AATATGAAGATTTAATCTTAAATTTGGATATT
*
15797602 ATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTATCAAATTATATTTTAATTAA
1 ATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCAAATTATATTTTAATTAA
*
15797667 AATATGCAGATTTAATCTTAAATTTGGATATT
66 AATATGAAGATTTAATCTTAAATTTGGATATT
15797699 ATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATA
1 ATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATA
15797738 CATAATTTAA
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 133 1.00
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (97 bp):
ATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCAAATTATATTTTAATTAA
AATATGAAGATTTAATCTTAAATTTGGATATT
Found at i:15798292 original size:17 final size:17
Alignment explanation
Indices: 15798270--15798308 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
15798260 AACAGGTGAA
15798270 AATAAAAATACAATTTC
1 AATAAAAATACAATTTC
15798287 AATAAAAATACAATTTC
1 AATAAAAATACAATTTC
15798304 AATAA
1 AATAA
15798309 TAAAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAAAAATACAATTTC
Found at i:15799519 original size:8 final size:8
Alignment explanation
Indices: 15799506--15799534 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
15799496 AACACTTCAT
15799506 AACCACTC
1 AACCACTC
15799514 AACCACTC
1 AACCACTC
15799522 AACCACTC
1 AACCACTC
15799530 AACCA
1 AACCA
15799535 TTTTGCTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.41, C:0.48, G:0.00, T:0.10
Consensus pattern (8 bp):
AACCACTC
Found at i:15801445 original size:14 final size:14
Alignment explanation
Indices: 15801423--15801457 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
15801413 GTTGCTTTTG
*
15801423 AAAATTGTTATAAA
1 AAAAGTGTTATAAA
15801437 AAAAGTGTTATAAA
1 AAAAGTGTTATAAA
15801451 AAAAGTG
1 AAAAGTG
15801458 CTTTTCAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (14 bp):
AAAAGTGTTATAAA
Found at i:15813346 original size:18 final size:16
Alignment explanation
Indices: 15813319--15813354 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 16
15813309 ATTAAAATAA
15813319 TATTTAATAATAGTTAT
1 TATTTAATAATAG-TAT
15813336 TATTATAATAATAGTAT
1 TATT-TAATAATAGTAT
15813353 TA
1 TA
15813355 ATGTGATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
TATTTAATAATAGTAT
Found at i:15817025 original size:13 final size:13
Alignment explanation
Indices: 15817007--15817032 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15816997 CATATACTTT
15817007 TATTTACTATAAA
1 TATTTACTATAAA
15817020 TATTTACTATAAA
1 TATTTACTATAAA
15817033 AAGATAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TATTTACTATAAA
Found at i:15819189 original size:16 final size:17
Alignment explanation
Indices: 15819161--15819192 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15819151 GACATTATTT
15819161 ATTAAATTAATTTTCTA
1 ATTAAATTAATTTTCTA
15819178 ATTAAA-TAATTTTCT
1 ATTAAATTAATTTTCT
15819193 CAACTCAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTAAATTAATTTTCTA
Found at i:15822290 original size:9 final size:8
Alignment explanation
Indices: 15822270--15822347 Score: 54
Period size: 8 Copynumber: 9.8 Consensus size: 8
15822260 ACATATATTT
15822270 AAAAAATA
1 AAAAAATA
15822278 AAAAAATA
1 AAAAAATA
15822286 CAAAAAATA
1 -AAAAAATA
* *
15822295 TATAAA-A
1 AAAAAATA
*
15822302 AAAGAATA
1 AAAAAATA
15822310 AAAAGAATA
1 AAAA-AATA
*
15822319 ATAAAA-A
1 AAAAAATA
**
15822326 AATTAAT-
1 AAAAAATA
15822333 AAAAAATA
1 AAAAAATA
15822341 AAGAAAA
1 AA-AAAA
15822348 AGGGACCCAT
Statistics
Matches: 52, Mismatches: 12, Indels: 11
0.69 0.16 0.15
Matches are distributed among these distances:
7 13 0.25
8 20 0.38
9 19 0.37
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.15
Consensus pattern (8 bp):
AAAAAATA
Found at i:15822301 original size:11 final size:10
Alignment explanation
Indices: 15822270--15822347 Score: 63
Period size: 10 Copynumber: 7.5 Consensus size: 10
15822260 ACATATATTT
15822270 AAAAA-ATAA
1 AAAAATATAA
*
15822279 AAAAATACAA
1 AAAAATATAA
15822289 AAAATATATAA
1 AAAA-ATATAA
*
15822300 AAAAAGAATAA
1 AAAAA-TATAA
15822311 AAAGAATAATAA
1 AAA-AAT-ATAA
15822323 AAAAAT-TAA
1 AAAAATATAA
15822332 TAAAAA-ATAA
1 -AAAAATATAA
15822342 AGAAAA
1 A-AAAA
15822348 AGGGACCCAT
Statistics
Matches: 57, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
9 9 0.16
10 20 0.35
11 19 0.33
12 9 0.16
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.15
Consensus pattern (10 bp):
AAAAATATAA
Found at i:15822302 original size:12 final size:11
Alignment explanation
Indices: 15822270--15822338 Score: 72
Period size: 12 Copynumber: 6.3 Consensus size: 11
15822260 ACATATATTT
15822270 AAAA-AATAAA
1 AAAATAATAAA
*
15822280 AAAAT-A-CAA
1 AAAATAATAAA
15822289 AAAATATATAAA
1 AAAATA-ATAAA
*
15822301 AAAAGAATAAA
1 AAAATAATAAA
15822312 AAGAATAATAAA
1 AA-AATAATAAA
15822324 AAAATTAATAAA
1 AAAA-TAATAAA
15822336 AAA
1 AAA
15822339 TAAAGAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
9 7 0.14
10 5 0.10
11 10 0.20
12 27 0.55
ACGTcount: A:0.80, C:0.01, G:0.03, T:0.16
Consensus pattern (11 bp):
AAAATAATAAA
Found at i:15822309 original size:24 final size:22
Alignment explanation
Indices: 15822277--15822337 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 22
15822267 TTTAAAAAAT
15822277 AAAAAAATACAAAA-AATATATAA
1 AAAAAAATA-AAAAGAATA-ATAA
15822300 AAAAAGAATAAAAAGAATAATAA
1 AAAAA-AATAAAAAGAATAATAA
15822323 AAAAATTAATAAAAA
1 AAAAA--AATAAAAA
15822338 ATAAAGAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
23 18 0.53
24 16 0.47
ACGTcount: A:0.79, C:0.02, G:0.03, T:0.16
Consensus pattern (22 bp):
AAAAAAATAAAAAGAATAATAA
Found at i:15823920 original size:40 final size:41
Alignment explanation
Indices: 15823876--15823973 Score: 148
Period size: 40 Copynumber: 2.5 Consensus size: 41
15823866 ACCTCACTGT
* *
15823876 AACTTCAGGAGA-ATAAGACTTGCTACGATCTGCTCTCTGC
1 AACTTCAGGAGAGATAAGACTAGATACGATCTGCTCTCTGC
*
15823916 AACTTCAGG-GAGATAAGACTAGATGCGATCTGCTCTCTGC
1 AACTTCAGGAGAGATAAGACTAGATACGATCTGCTCTCTGC
15823956 AACTTCA-GAGAGATAAGA
1 AACTTCAGGAGAGATAAGA
15823974 TCTGTGATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
39 3 0.06
40 50 0.94
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.24
Consensus pattern (41 bp):
AACTTCAGGAGAGATAAGACTAGATACGATCTGCTCTCTGC
Found at i:15832044 original size:24 final size:24
Alignment explanation
Indices: 15832016--15832061 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
15832006 ATCATTTTTT
* *
15832016 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATACATTTCCTTTTGAA
*
15832040 GCTGCTCCTACATTTCCTTTTG
1 GCTGCTCATACATTTCCTTTTG
15832062 GGACTGTTCT
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:0.13, C:0.26, G:0.15, T:0.46
Consensus pattern (24 bp):
GCTGCTCATACATTTCCTTTTGAA
Found at i:15836374 original size:12 final size:11
Alignment explanation
Indices: 15836342--15836397 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 11
15836332 AATAAATACG
15836342 AAAAAT-ATATA
1 AAAAATAATA-A
*
15836353 AAAAAGAATAA
1 AAAAATAATAA
15836364 AAAGAATAATAAAA
1 AAA-AATAAT--AA
15836378 AAAAATTAATAA
1 AAAAA-TAATAA
15836390 AAAAATAA
1 AAAAATAA
15836398 AGAAAAAGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 12 0.32
12 15 0.39
13 2 0.05
14 9 0.24
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAAATAATAA
Found at i:15836396 original size:22 final size:22
Alignment explanation
Indices: 15836345--15836404 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
15836335 AAATACGAAA
*
15836345 AATATATAAAAAAGAATAAAAAG
1 AATA-ATAAAAAAAAATAAAAAG
15836368 AATAATAAAAAAAAATTAATAAA-
1 AATAATAAAAAAAAA-TAA-AAAG
*
15836391 AA-AATAAAGAAAAA
1 AATAATAAAAAAAAA
15836405 GGGACCCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 21 0.64
23 9 0.27
24 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (22 bp):
AATAATAAAAAAAAATAAAAAG
Found at i:15838494 original size:18 final size:16
Alignment explanation
Indices: 15838471--15838504 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
15838461 ACTGAAATTT
15838471 TTTAAAATGTAGATAAAA
1 TTTAAAA-GTA-ATAAAA
15838489 TTTAAAAGTAATAAAA
1 TTTAAAAGTAATAAAA
15838505 AATTTTAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 3 0.19
18 7 0.44
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (16 bp):
TTTAAAAGTAATAAAA
Found at i:15840958 original size:24 final size:23
Alignment explanation
Indices: 15840931--15840986 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
15840921 AAATATTATC
* *
15840931 AAATATAATAGTAATAAGGATAAT
1 AAATATAATA-TAAAAAGAATAAT
*
15840955 AAATAGTAATATAAAAATAATAAT
1 AAATA-TAATATAAAAAGAATAAT
15840979 AAAT-TAAT
1 AAATATAAT
15840987 TAATAGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 4 0.14
24 19 0.68
25 5 0.18
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (23 bp):
AAATATAATATAAAAAGAATAAT
Found at i:15844271 original size:24 final size:24
Alignment explanation
Indices: 15844234--15844290 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
15844224 CTGTTGTTGA
15844234 AGTTTTCAATTGAAAATGGTTTCTGT
1 AGTTTTC--TTGAAAATGGTTTCTGT
*
15844260 ATTTTTCTTGAAAATGGTTTCTGT
1 AGTTTTCTTGAAAATGGTTTCTGT
15844284 AGTTTTC
1 AGTTTTC
15844291 AATTTGTGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 23 0.79
26 6 0.21
ACGTcount: A:0.23, C:0.09, G:0.18, T:0.51
Consensus pattern (24 bp):
AGTTTTCTTGAAAATGGTTTCTGT
Found at i:15845332 original size:24 final size:24
Alignment explanation
Indices: 15845300--15845349 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
15845290 GTATAATTTG
*
15845300 AACCTAAATCACATTTGAGGTGAT
1 AACCCAAATCACATTTGAGGTGAT
15845324 AACCCAAATCACATTTGAGGTGAT
1 AACCCAAATCACATTTGAGGTGAT
15845348 AA
1 AA
15845350 ATACTTTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (24 bp):
AACCCAAATCACATTTGAGGTGAT
Found at i:15845980 original size:45 final size:44
Alignment explanation
Indices: 15845899--15845986 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 44
15845889 CAACATCATT
*
15845899 CCATTCAACCAAACACAAAAATACTATTATGCCTCTATTCCATC
1 CCATTCAACCAAACACAAAAATACTATTACGCCTCTATTCCATC
* *
15845943 CCATTCAACCAAACA-ATTGAATTACTATTACGCCTCTATTCCAT
1 CCATTCAACCAAACACA--AAAATACTATTACGCCTCTATTCCAT
15845987 TACAGCTCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
43 1 0.03
44 15 0.38
45 23 0.59
ACGTcount: A:0.36, C:0.31, G:0.03, T:0.30
Consensus pattern (44 bp):
CCATTCAACCAAACACAAAAATACTATTACGCCTCTATTCCATC
Found at i:15845995 original size:16 final size:16
Alignment explanation
Indices: 15845976--15846051 Score: 109
Period size: 16 Copynumber: 4.8 Consensus size: 16
15845966 ACTATTACGC
15845976 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
*
15845992 CTCTATTCCATTGCAG
1 CTCTATTCCATTACAG
* *
15846008 CTCTATTCCATTGCAC
1 CTCTATTCCATTACAG
15846024 CTCTATTCCATTAC-G
1 CTCTATTCCATTACAG
15846039 CCTCTATTCCATT
1 -CTCTATTCCATT
15846052 CCATTCGACC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
16 55 1.00
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:15846017 original size:32 final size:32
Alignment explanation
Indices: 15845969--15846051 Score: 123
Period size: 32 Copynumber: 2.6 Consensus size: 32
15845959 TTGAATTACT
*
15845969 ATTACGCCTCTATTCCATTACAGCTCTATTCC
1 ATTACGCCTCTATTCCATTACACCTCTATTCC
* *
15846001 ATTGCAG-CTCTATTCCATTGCACCTCTATTCC
1 ATTAC-GCCTCTATTCCATTACACCTCTATTCC
15846033 ATTACGCCTCTATTCCATT
1 ATTACGCCTCTATTCCATT
15846052 CCATTCGACC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
31 1 0.02
32 43 0.96
33 1 0.02
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (32 bp):
ATTACGCCTCTATTCCATTACACCTCTATTCC
Found at i:15846115 original size:16 final size:16
Alignment explanation
Indices: 15846094--15846140 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
15846084 TTTGGTTCGC
15846094 TGTAATGGAATAGAGA
1 TGTAATGGAATAGAGA
*
15846110 TGTAATGGAATAGAGC
1 TGTAATGGAATAGAGA
15846126 TGTAATGGAATAGAG
1 TGTAATGGAATAGAG
15846141 GCGTAATAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.40, C:0.02, G:0.32, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGA
Found at i:15846146 original size:16 final size:16
Alignment explanation
Indices: 15846095--15846147 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
15846085 TTGGTTCGCT
**
15846095 GTAATGGAATAGAGAT
1 GTAATGGAATAGAGGC
15846111 GTAATGGAATAGA-GC
1 GTAATGGAATAGAGGC
15846126 TGTAATGGAATAGAGGC
1 -GTAATGGAATAGAGGC
15846143 GTAAT
1 GTAAT
15846148 AGCAATTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 31 0.94
17 2 0.06
ACGTcount: A:0.40, C:0.04, G:0.32, T:0.25
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:15846180 original size:45 final size:44
Alignment explanation
Indices: 15846129--15846221 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
15846119 ATAGAGCTGT
15846129 AATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAATGG
* *
15846174 AATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAATGG
15846218 AATG
1 AATG
15846222 ATAAAACTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.33
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAATGG
Found at i:15846309 original size:22 final size:22
Alignment explanation
Indices: 15846281--15846433 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
15846271 TTTATTGTTC
*
15846281 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
15846303 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
15846325 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
15846347 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
15846369 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
*
15846391 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
15846413 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
15846434 ACTATCAACA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:15846499 original size:13 final size:12
Alignment explanation
Indices: 15846475--15846515 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
15846465 TATAATAGTA
15846475 TAAAATATAATT
1 TAAAATATAATT
15846487 TAAAATAATAATT
1 TAAAAT-ATAATT
*
15846500 ATTAAATATAATT
1 -TAAAATATAATT
15846513 TAA
1 TAA
15846516 TAAAATTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:15846508 original size:26 final size:28
Alignment explanation
Indices: 15846459--15846515 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 28
15846449 AACTAAAATC
15846459 AAAATATATAATAGTATAAAATATAATTT
1 AAAATATATAATA-TATAAAATATAATTT
*
15846488 AAAATA-ATAAT-TATTAAATATAATTT
1 AAAATATATAATATATAAAATATAATTT
15846514 AA
1 AA
15846516 TAAAATTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 16 0.59
28 5 0.19
29 6 0.22
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (28 bp):
AAAATATATAATATATAAAATATAATTT
Found at i:15846644 original size:120 final size:120
Alignment explanation
Indices: 15846505--15846945 Score: 832
Period size: 120 Copynumber: 3.7 Consensus size: 120
15846495 TAATTATTAA
*
15846505 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATAATAATATAT
15846570 AATACTATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAATAAAAAT
66 AATACTATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAATAAAAAT
*
15846625 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATAATAATATAT
15846690 AATACTATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAATAAAAAT
66 AATACTATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAATAAAAAT
15846745 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATAATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATAATAATATAT
15846810 AATACTATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAATAAAAAT
66 AATACTATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAATAAAAAT
* *
15846865 ATATAATTTAATAAAATTCTTAATA-TAATTATTCTTATATGAATTTACTAAAATAATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATAATAATATAT
15846929 AATACTATAAAA-ATAAT
66 AATACTATAAAATATAAT
15846946 ATATAATCTA
Statistics
Matches: 318, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
118 5 0.02
119 49 0.15
120 264 0.83
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (120 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATAATAATATAT
AATACTATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAATAAAAAT
Found at i:15846935 original size:21 final size:21
Alignment explanation
Indices: 15846910--15846952 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
15846900 TATATGAATT
15846910 TACTA-AAATAATAATATATAA
1 TACTATAAA-AATAATATATAA
15846931 TACTATAAAAATAATATATAA
1 TACTATAAAAATAATATATAA
15846952 T
1 T
15846953 CTACTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TACTATAAAAATAATATATAA
Found at i:15846957 original size:23 final size:22
Alignment explanation
Indices: 15846900--15846957 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 22
15846890 TAATTATTCT
15846900 TATATGAATTTACTAAAATAATAA
1 TATAT-AA-TTACTAAAATAATAA
15846924 TATATAA-TACTATAAA-AATAA
1 TATATAATTACTA-AAATAATAA
15846945 TATATAATCTACT
1 TATATAAT-TACT
15846958 TTATAATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 17 0.55
22 3 0.10
23 6 0.19
24 5 0.16
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (22 bp):
TATATAATTACTAAAATAATAA
Found at i:15850291 original size:29 final size:29
Alignment explanation
Indices: 15850249--15850307 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
15850239 AAAATTACCG
15850249 GAAATATCTATGTCTCCTCTGCAATCAAT
1 GAAATATCTATGTCTCCTCTGCAATCAAT
15850278 GAAATATCTATGTCTCCTCTGCAATCAAT
1 GAAATATCTATGTCTCCTCTGCAATCAAT
15850307 G
1 G
15850308 GCAAAAAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.34
Consensus pattern (29 bp):
GAAATATCTATGTCTCCTCTGCAATCAAT
Found at i:15850784 original size:18 final size:17
Alignment explanation
Indices: 15850763--15850797 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15850753 TTATTATTAA
*
15850763 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15850781 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15850798 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:15850851 original size:157 final size:152
Alignment explanation
Indices: 15850650--15850961 Score: 507
Period size: 157 Copynumber: 2.0 Consensus size: 152
15850640 TAGAATACCC
* * *
15850650 TTAGCATAAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTATTTTGGCAAATGATTATTATTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
15850715 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA-ATTATAATT-AAA
15850780 TATATAATTTAATAAAATTCTTAATAA
129 -ATAT-A-TTAATAAAATTCTTAATAA
* *
15850807 TTAGCAGAAATTTGTTTTGGCAAATTATTATTATTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTATTTTGGCAAATGATTATTATTATTGTTATTTAAATTTTAATAAGATTATTA
15850872 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATAATTATAATTAAAAT
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATAATTATAATTAAAAT
15850937 ATATTAATAAAATTCTTAATAA
131 ATATTAATAAAATTCTTAATAA
15850959 TTA
1 TTA
15850962 ATATTCTTAT
Statistics
Matches: 147, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
152 22 0.15
153 1 0.01
154 4 0.03
155 3 0.02
156 8 0.05
157 109 0.74
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (152 bp):
TTAGCAGAAATTTATTTTGGCAAATGATTATTATTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATAATTATAATTAAAAT
ATATTAATAAAATTCTTAATAA
Found at i:15851038 original size:157 final size:158
Alignment explanation
Indices: 15850708--15851039 Score: 331
Period size: 157 Copynumber: 2.1 Consensus size: 158
15850698 TTTTAATAAG
* *
15850708 ATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTA
1 ATTATTATTA--AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATA
* * * ** * *
15850773 ATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGCAAATTATTAT
64 ATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGTTTACGCAAATCATTAA
* * * * * *
15850838 TATTATTGTTATTTAAATTTTAATAAGATT
129 TATTATTGATATTAAAATATAAATAACATA
* *
15850868 ATTAATA-TCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA-ATTATAAT
1 ATTATTATTAAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAAT
* ** *
15850931 T-AAA-ATAT-A-TTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCA-T
66 TAAAATATATAATTTAATAAAATTCTTAATAATTAACA--CAAATATG--TTTACGCAAATCATT
15850991 AATA-TA-TGATACTGTAAAATATAAATTAACATA
127 AATATTATTGATA-T-TAAAATATAAA-TAACATA
15851024 ATTATTATTAAATAAT
1 ATTATTATTAAATAAT
15851040 TTGTTCCACT
Statistics
Matches: 141, Mismatches: 23, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
152 23 0.16
153 5 0.04
154 11 0.08
155 15 0.11
156 28 0.20
157 52 0.37
159 1 0.01
160 6 0.04
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (158 bp):
ATTATTATTAAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAAT
TAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGTTTACGCAAATCATTAATA
TTATTGATATTAAAATATAAATAACATA
Found at i:15856056 original size:22 final size:22
Alignment explanation
Indices: 15856014--15856056 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
15856004 TCCTTGGATT
* *
15856014 TTAAAATATTGTAATTGAATTC
1 TTAAAATATTATAATTCAATTC
15856036 TTAAAATATTAATAA-TCAATT
1 TTAAAATATT-ATAATTCAATT
15856057 TAGTCTGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (22 bp):
TTAAAATATTATAATTCAATTC
Found at i:15857618 original size:21 final size:21
Alignment explanation
Indices: 15857580--15857619 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15857570 GCTGGGCTTT
*
15857580 TTTGATTTTTAATTAATTTAC
1 TTTGATTTTTAATGAATTTAC
15857601 TTTGA-TTTTAATCGAATTT
1 TTTGATTTTTAAT-GAATTT
15857620 TGATTTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTGATTTTTAATGAATTTAC
Found at i:15857664 original size:25 final size:25
Alignment explanation
Indices: 15857617--15857666 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
15857607 TTTAATCGAA
**
15857617 TTTTGATTTTGATTTTGGGTTTTTT
1 TTTTGATTTTGATTTTAAGTTTTTT
*
15857642 TTTTGTTTTTGATTTTAA-TTTTTT
1 TTTTGATTTTGATTTTAAGTTTTTT
15857666 T
1 T
15857667 GTCAAAGGCG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.10, C:0.00, G:0.14, T:0.76
Consensus pattern (25 bp):
TTTTGATTTTGATTTTAAGTTTTTT
Found at i:15862615 original size:66 final size:66
Alignment explanation
Indices: 15862509--15862640 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
15862499 CCTTAAAGCA
15862509 TAACTTAAAGATAGTTTGCAATTTCTGATCCTTGAAGTATTTCAAATGACATATGAATGCTTTCC
1 TAACTTAAAGATAGTTTGCAATTTCTGATCCTTGAAGTATTTCAAATGACATATGAATGCTTTCC
15862574 C
66 C
15862575 TAACTTAAAGATAGTTTGCAATTTCTGATCCTTGAAGTATTTCAAATGACATATGAATGCTTTCC
1 TAACTTAAAGATAGTTTGCAATTTCTGATCCTTGAAGTATTTCAAATGACATATGAATGCTTTCC
15862640 C
66 C
15862641 CTTGCAATGC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (66 bp):
TAACTTAAAGATAGTTTGCAATTTCTGATCCTTGAAGTATTTCAAATGACATATGAATGCTTTCC
C
Found at i:15863915 original size:23 final size:20
Alignment explanation
Indices: 15863888--15863932 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
15863878 ATATCATTGA
15863888 ATGATTGATTTAATTCGTCTT
1 ATGA-TGATTTAATTCGTCTT
15863909 -TGATGATTTAATTCGTCTT
1 ATGATGATTTAATTCGTCTT
15863928 -TGATG
1 ATGATG
15863933 TTCCTTGGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 21 0.88
20 3 0.12
ACGTcount: A:0.22, C:0.09, G:0.18, T:0.51
Consensus pattern (20 bp):
ATGATGATTTAATTCGTCTT
Found at i:15863917 original size:19 final size:19
Alignment explanation
Indices: 15863893--15863932 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
15863883 ATTGAATGAT
15863893 TGATTTAATTCGTCTTTGA
1 TGATTTAATTCGTCTTTGA
15863912 TGATTTAATTCGTCTTTGA
1 TGATTTAATTCGTCTTTGA
15863931 TG
1 TG
15863933 TTCCTTGGAC
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:0.20, C:0.10, G:0.17, T:0.53
Consensus pattern (19 bp):
TGATTTAATTCGTCTTTGA
Found at i:15875724 original size:107 final size:107
Alignment explanation
Indices: 15875508--15875747 Score: 302
Period size: 107 Copynumber: 2.2 Consensus size: 107
15875498 CATGATGGCC
* *
15875508 GAGATCCTACATATGTCT-CGGATTCTCGACAGCTTGTATGAGCAGCATCGTGAATTGGTGAATT
1 GAGATCCTACATATGT-TGCGGATTCTCAACAGCTTGTATGAGCAGCATCGTGAATTGGTGAAAT
** * * * * * *
15875572 GAATGGCTACTCTATTCTGATGACATAGATCGTTCCGATGGCT
65 GAATGAATACTCTATACTGATGAAATAGATCATTACAATGACT
* * *
15875615 GAGATCCTACACATGTTGCAGATTCTCAACAGCTTGTGTGAGCAGCATCGTGAATTGGTGAAATG
1 GAGATCCTACATATGTTGCGGATTCTCAACAGCTTGTATGAGCAGCATCGTGAATTGGTGAAATG
* * *
15875680 AATGAATACTCTGTACTGATGAAATCGATCATTATAATGACT
66 AATGAATACTCTATACTGATGAAATAGATCATTACAATGACT
* *
15875722 GAGATCCTGCATACGTTGCGGATTCT
1 GAGATCCTACATATGTTGCGGATTCT
15875748 TGTTAGCTTT
Statistics
Matches: 112, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
106 1 0.01
107 111 0.99
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (107 bp):
GAGATCCTACATATGTTGCGGATTCTCAACAGCTTGTATGAGCAGCATCGTGAATTGGTGAAATG
AATGAATACTCTATACTGATGAAATAGATCATTACAATGACT
Found at i:15888397 original size:9 final size:9
Alignment explanation
Indices: 15888380--15888416 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
15888370 TGAGTTTTTG
15888380 AATTCGAAT
1 AATTCGAAT
*
15888389 AACTCGAAT
1 AATTCGAAT
*
15888398 CATTCGAAT
1 AATTCGAAT
15888407 AATTCGAAT
1 AATTCGAAT
15888416 A
1 A
15888417 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:15888826 original size:20 final size:20
Alignment explanation
Indices: 15888780--15888826 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
15888770 TTACTTTTAT
* *
15888780 TCACCCAAAACTTTTTATTT
1 TCACCCTAAACTTTTTATTC
*
15888800 TCCCCCTAAAC-TTTTACTTC
1 TCACCCTAAACTTTTTA-TTC
15888820 TCACCCT
1 TCACCCT
15888827 TTACTCTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.23, C:0.36, G:0.00, T:0.40
Consensus pattern (20 bp):
TCACCCTAAACTTTTTATTC
Found at i:15895396 original size:19 final size:20
Alignment explanation
Indices: 15895368--15895423 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
15895358 AGCTAACATC
* *
15895368 TAAATATAAATAT-TATAAA
1 TAAATTTAAATATAAATAAA
15895387 TAAATTTAAA-ATAAATAAA
1 TAAATTTAAATATAAATAAA
15895406 TAATATTTAAATAATAAA
1 TAA-ATTTAAAT-ATAAA
15895424 AAACTTTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 2 0.06
19 17 0.55
20 7 0.23
22 5 0.16
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAATTTAAATATAAATAAA
Found at i:15897150 original size:12 final size:13
Alignment explanation
Indices: 15897135--15897163 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15897125 TTTATTTCCA
15897135 AAATAAATAAAT-
1 AAATAAATAAATC
15897147 AAATAAATAAATC
1 AAATAAATAAATC
15897160 AAAT
1 AAAT
15897164 TAACTTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAATAAATC
Found at i:15898722 original size:34 final size:34
Alignment explanation
Indices: 15898659--15898724 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
15898649 TAATTAGTAG
** *
15898659 GGCCTTTGCCCAATTTCAGTAATAGTATCAGTGA
1 GGCCTTTGCCCAATAACAGTAACAGTATCAGTGA
15898693 GGCCTTTGCCC-ATAACAGTAACAGATATCAGT
1 GGCCTTTGCCCAATAACAGTAACAG-TATCAGT
15898725 CATGCAGTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 10 0.36
34 18 0.64
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (34 bp):
GGCCTTTGCCCAATAACAGTAACAGTATCAGTGA
Found at i:15899520 original size:27 final size:27
Alignment explanation
Indices: 15899186--15899519 Score: 400
Period size: 27 Copynumber: 12.4 Consensus size: 27
15899176 GGGTATAACA
* *
15899186 GTCATTTTACCTTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
* *
15899213 ATCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
* * **
15899240 GTCATTTTATCTTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTTG
* * **
15899267 GTTATTTTACCCTATGGGGATATTTCA
1 GTCATTTTACCCTATGGGGGTATTTTG
* * *
15899294 ATCATGTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
* * *
15899321 GTCATTCTACCCTATGAGGGTA-TTTC
1 GTCATTTTACCCTATGGGGGTATTTTG
* **
15899347 GTTATTTTACCCTACCGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
15899374 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
**
15899401 GTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTTG
* *
15899428 GTCATTTTATCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTTG
* *
15899455 GTTATTTTACCCTATGGGGTTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
*
15899482 GTCATTTTACCTTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
*
15899509 GTTATTTTACC
1 GTCATTTTACC
15899520 TATTTTGGGG
Statistics
Matches: 260, Mismatches: 46, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 20 0.08
27 240 0.92
ACGTcount: A:0.18, C:0.15, G:0.22, T:0.46
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTTG
Found at i:15902237 original size:18 final size:17
Alignment explanation
Indices: 15902203--15902309 Score: 79
Period size: 17 Copynumber: 6.2 Consensus size: 17
15902193 TTATCACAAC
15902203 TCACACAAAATAACAGT
1 TCACACAAAATAACAGT
*
15902220 TCACACAAATTAAACAGT
1 TCACACAAAAT-AACAGT
* * *
15902238 TCACATAGAATAGACAAT
1 TCACACAAAATA-ACAGT
* *
15902256 TCGCATAAAATAACAGT
1 TCACACAAAATAACAGT
** * *
15902273 TCATGCATAATAATAGT
1 TCACACAAAATAACAGT
* * *
15902290 TCATACAATATAATAGT
1 TCACACAAAATAACAGT
15902307 TCA
1 TCA
15902310 TCTATACCAT
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
17 43 0.61
18 28 0.39
ACGTcount: A:0.48, C:0.18, G:0.08, T:0.26
Consensus pattern (17 bp):
TCACACAAAATAACAGT
Found at i:15902899 original size:33 final size:34
Alignment explanation
Indices: 15902825--15902908 Score: 98
Period size: 35 Copynumber: 2.5 Consensus size: 34
15902815 TCATCCACAC
* ** *
15902825 ATATATATGTTATATATATAACAAGATCCTTTTAC
1 ATATATATATTATATATATAACAAGA-CCTCATAA
*
15902860 ACATATATATTATATATATAACAAGA-CTCATAA
1 ATATATATATTATATATATAACAAGACCTCATAA
*
15902893 ATATATATTTTATATA
1 ATATATATATTATATA
15902909 CATATCTATT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 18 0.43
35 24 0.57
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.42
Consensus pattern (34 bp):
ATATATATATTATATATATAACAAGACCTCATAA
Found at i:15903099 original size:29 final size:28
Alignment explanation
Indices: 15903059--15903120 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 28
15903049 CTACACGCAT
* *
15903059 ATATATTGTATATATAACAAAATCCACGC
1 ATATATT-TATATATAACAAAACCCACAC
15903088 ATATA-TTATATATAACAAAACCCACAC
1 ATATATTTATATATAACAAAACCCACAC
15903115 ATATAT
1 ATATAT
15903121 AGGTTTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 24 0.80
28 1 0.03
29 5 0.17
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (28 bp):
ATATATTTATATATAACAAAACCCACAC
Found at i:15904637 original size:31 final size:32
Alignment explanation
Indices: 15904601--15904667 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
15904591 ACCTAAAATT
* *
15904601 ATTAATT-CTAATTATTTTAA-TATTTTATTTA
1 ATTAATTCCTAATTA-TTTAATTATTTAATCTA
15904632 ATTAATTCCTAATTATTTAATTATTTAATCTA
1 ATTAATTCCTAATTATTTAATTATTTAATCTA
15904664 ATTA
1 ATTA
15904668 CGGTTTCTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 12 0.38
32 20 0.62
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (32 bp):
ATTAATTCCTAATTATTTAATTATTTAATCTA
Found at i:15906895 original size:40 final size:41
Alignment explanation
Indices: 15906829--15906940 Score: 133
Period size: 40 Copynumber: 2.8 Consensus size: 41
15906819 TTTTTTAAAT
*
15906829 TTTTAAATTTTAAAATATTTTT-AAAATACTTTTTTTATTATA
1 TTTTAAATTTT-AAAT-TTTTTAAAAATACTTTTTTAATTATA
* *
15906871 TTTT-AATTTTAAATTTTTTAAAAATAC-TTTTTAATTTTT
1 TTTTAAATTTTAAATTTTTTAAAAATACTTTTTTAATTATA
* *
15906910 TTTTAAATTTAAAATATTTTAAAAATA-TTTT
1 TTTTAAATTTTAAATTTTTTAAAAATACTTTT
15906941 AAAAATACTT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
39 18 0.29
40 34 0.55
41 6 0.10
42 4 0.06
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (41 bp):
TTTTAAATTTTAAATTTTTTAAAAATACTTTTTTAATTATA
Found at i:15906952 original size:12 final size:11
Alignment explanation
Indices: 15906920--15906952 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
15906910 TTTTAAATTT
15906920 AAAATATTTTA
1 AAAATATTTTA
15906931 AAAATATTTTA
1 AAAATATTTTA
15906942 AAAATACTTTT
1 AAAATA-TTTT
15906953 TTTAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (11 bp):
AAAATATTTTA
Found at i:15906974 original size:21 final size:21
Alignment explanation
Indices: 15906936--15906975 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15906926 TTTTAAAAAT
**
15906936 ATTTTAAAAATACTTTTTTTA
1 ATTTTAAAAATAAATTTTTTA
*
15906957 ATTTTTAAAATAAATTTTT
1 ATTTTAAAAATAAATTTTT
15906976 GGTATTTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTAAAAATAAATTTTTTA
Found at i:15907416 original size:55 final size:55
Alignment explanation
Indices: 15907332--15907441 Score: 184
Period size: 55 Copynumber: 2.0 Consensus size: 55
15907322 TGCATTTAAA
15907332 ATTTGATTCATGAATTTTGAATATGTTTTATATCATACTCAATGTAACATTCAAT
1 ATTTGATTCATGAATTTTGAATATGTTTTATATCATACTCAATGTAACATTCAAT
* * * *
15907387 ATTTGATTCATGCATTTTGAATATGTTTTATATTATATTCAATGTAGCATTCAAT
1 ATTTGATTCATGAATTTTGAATATGTTTTATATCATACTCAATGTAACATTCAAT
15907442 GTTTCTGCTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (55 bp):
ATTTGATTCATGAATTTTGAATATGTTTTATATCATACTCAATGTAACATTCAAT
Found at i:15907855 original size:18 final size:18
Alignment explanation
Indices: 15907820--15907855 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15907810 AAAAAAGTAT
* *
15907820 TTTAAAAATATTTTAAAA
1 TTTAAAAAAATTTAAAAA
15907838 TTTAAAAAAATTTAAAAA
1 TTTAAAAAAATTTAAAAA
15907856 ATATTTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TTTAAAAAAATTTAAAAA
Found at i:15907862 original size:11 final size:11
Alignment explanation
Indices: 15907810--15907862 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 11
15907800 TTAAAAATAA
15907810 AAAAAAGTATTT
1 AAAAAA-TATTT
*
15907822 TAAAAATATTT
1 AAAAAATATTT
*
15907833 --TAAA-ATTT
1 AAAAAATATTT
15907841 AAAAAA-ATTT
1 AAAAAATATTT
15907851 AAAAAATATTT
1 AAAAAATATTT
15907862 A
1 A
15907863 TTATATCGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
8 4 0.11
9 3 0.09
10 13 0.37
11 10 0.29
12 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
AAAAAATATTT
Found at i:15911122 original size:25 final size:26
Alignment explanation
Indices: 15911087--15911136 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
15911077 AAAAGTTTTT
*
15911087 TATTCTAATTT-GATATTTGAATTTAA
1 TATTCTAATTTAG-TACTTGAATTTAA
15911113 TATT-TAATTTAGTACTTGAATTTA
1 TATTCTAATTTAGTACTTGAATTTA
15911137 TTTTCAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (26 bp):
TATTCTAATTTAGTACTTGAATTTAA
Found at i:15911735 original size:66 final size:66
Alignment explanation
Indices: 15911629--15911762 Score: 268
Period size: 66 Copynumber: 2.0 Consensus size: 66
15911619 TCGCCTCTAC
15911629 CAAGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGG
1 CAAGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGG
15911694 T
66 T
15911695 CAAGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGG
1 CAAGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGG
15911760 T
66 T
15911761 CA
1 CA
15911763 TGTAAGAAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (66 bp):
CAAGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGG
T
Found at i:15911981 original size:123 final size:125
Alignment explanation
Indices: 15911698--15912006 Score: 568
Period size: 123 Copynumber: 2.5 Consensus size: 125
15911688 AGTAGGTCAA
15911698 GATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCA
1 GATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCA
15911763 TGTAAGAAATAAATTTTTTTTGACATTTCTGAGCAAATAGTATAAAATCGCCTCTACCAG
66 TGTAAGAAATAAATTTTTTTTGACATTTCTGAGCAAATAGTATAAAATCGCCTCTACCAG
*
15911823 GATGCTATTTGAGAAGAAATTGTGAAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCA
1 GATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCA
*
15911888 TGTAAGAAAT-AA-TTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAG
66 TGTAAGAAATAAATTTTTTTTGACATTTCTGAGCAAATAGTATAAAATCGCCTCTACCAG
* *
15911946 GATGCTATTTGGGAAGAAATTGTGAAATCGCGCCCTCGTGAACGCGATTTTGCTACAGTAG
1 GATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
15912007 CAAGTTTGGG
Statistics
Matches: 179, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
123 103 0.58
124 2 0.01
125 74 0.41
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (125 bp):
GATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCA
TGTAAGAAATAAATTTTTTTTGACATTTCTGAGCAAATAGTATAAAATCGCCTCTACCAG
Found at i:15912428 original size:18 final size:18
Alignment explanation
Indices: 15912405--15912706 Score: 164
Period size: 18 Copynumber: 18.7 Consensus size: 18
15912395 TAGGGTTAGG
15912405 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
15912423 GTTAGGG--TTT--TT--
1 GTTAGGGTTTTTAATTAA
15912435 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
15912453 GTTAGGGTTTTTAATTAG
1 GTTAGGGTTTTTAATTAA
**
15912471 GTTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
15912482 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
15912500 GTTA-GG---TT-AGT--
1 GTTAGGGTTTTTAATTAA
15912511 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
15912529 GTTAGGGTTTTTAATTAG
1 GTTAGGGTTTTTAATTAA
**
15912547 GTTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
15912558 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
15912576 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
**
15912594 GTTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
15912605 GTTAGGGTTTTTAATTAAGTTA
1 GTTAGGGTTTTTAATT-A---A
15912627 GGGTTAGGGTTTTTAATTAA
1 --GTTAGGGTTTTTAATTAA
15912647 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
**
15912665 GTTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
15912676 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
15912694 GTTAGGGTTTTTA
1 GTTAGGGTTTTTA
15912707 TTACATCAAA
Statistics
Matches: 219, Mismatches: 18, Indels: 94
0.66 0.05 0.28
Matches are distributed among these distances:
11 22 0.10
12 17 0.08
13 6 0.03
14 15 0.07
15 10 0.05
16 11 0.05
17 10 0.05
18 110 0.50
20 1 0.00
23 1 0.00
24 16 0.07
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:15912462 original size:30 final size:30
Alignment explanation
Indices: 15912375--15912464 Score: 153
Period size: 30 Copynumber: 3.0 Consensus size: 30
15912365 TAAGGCAATG
***
15912375 GTTAGGGTTTTTAATTAAGTTAGGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGGTTTTT
15912405 GTTAGGGTTTTTAATTAAGTTAGGGTTTTT
1 GTTAGGGTTTTTAATTAAGTTAGGGTTTTT
15912435 GTTAGGGTTTTTAATTAAGTTAGGGTTTTT
1 GTTAGGGTTTTTAATTAAGTTAGGGTTTTT
15912465 AATTAGGTTA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (30 bp):
GTTAGGGTTTTTAATTAAGTTAGGGTTTTT
Found at i:15912486 original size:29 final size:29
Alignment explanation
Indices: 15912453--15912534 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
15912443 TTTTAATTAA
*
15912453 GTTAGGGTTTTTAATTAGGTTAGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
*
15912482 GTTAGGGTTTTTAATTAAGTTAGGTTAGT
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
15912511 GTTAGGGTTTTTAATTAAGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGG
15912535 GTTTTTAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.46
Consensus pattern (29 bp):
GTTAGGGTTTTTAATTAAGTTAGGTTAGG
Found at i:15912504 original size:47 final size:47
Alignment explanation
Indices: 15912405--15912706 Score: 194
Period size: 47 Copynumber: 6.3 Consensus size: 47
15912395 TAGGGTTAGG
* ***
15912405 GTTAGGGTTTTTAATTAAGTTAGGGTTTTTGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAGGTTA-GGTTAGGGTTAGGGTTTTTAATTAA
15912453 GTTAGGGTTTTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAA
** * * * *
15912500 GTTA-GGTTAGT-GTTAGGGTTTTTA-ATTA-AGTTAGGGTTTTTAATTAG
1 GTTAGGGTTTTTAATTA-GG---TTAGGTTAGGGTTAGGGTTTTTAATTAA
**** * *
15912547 GTTA-GG-TTAGGGTTAGGGTTTTTA-ATTA-AGTTAGGGTTTTTAATTAAGTTA
1 GTTAGGGTTTTTAATTA-GG---TTAGGTTAGGGTTAGGGTTTTTAATT-A---A
* *
15912598 GGTTAGGGTTAGGGTTT--TTA-ATTAAGTTAGGGTTAGGGTTTTTAATTAA
1 -GTTAGGGTT----TTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAA
*
15912647 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAA
15912694 GTTAGGGTTTTTA
1 GTTAGGGTTTTTA
15912707 TTACATCAAA
Statistics
Matches: 212, Mismatches: 21, Indels: 43
0.77 0.08 0.16
Matches are distributed among these distances:
44 3 0.01
45 3 0.01
46 11 0.05
47 123 0.58
48 34 0.16
49 4 0.02
51 3 0.01
52 8 0.04
53 18 0.08
54 1 0.00
56 3 0.01
58 1 0.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (47 bp):
GTTAGGGTTTTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:15912540 original size:76 final size:76
Alignment explanation
Indices: 15912375--15912581 Score: 369
Period size: 76 Copynumber: 2.7 Consensus size: 76
15912365 TAAGGCAATG
* **
15912375 GTTAGGGTTTTTAATTAAGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTGTTAG
1 GTTAGGGTTTTTAATTAGGTTA-GGTTAGGGTTAGGGTTTTTAATTAAGTTA-GGTTAGTGTTAG
15912440 GGTTTTTAATTAA
64 GGTTTTTAATTAA
15912453 GTTAGGGTTTTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGTGTTAGGG
1 GTTAGGGTTTTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGTGTTAGGG
15912518 TTTTTAATTAA
66 TTTTTAATTAA
15912529 GTTAGGGTTTTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGG
1 GTTAGGGTTTTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGG
15912582 GTTTTTAATT
Statistics
Matches: 126, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
76 76 0.60
77 29 0.23
78 21 0.17
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.47
Consensus pattern (76 bp):
GTTAGGGTTTTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGTGTTAGGG
TTTTTAATTAA
Found at i:15912608 original size:29 final size:29
Alignment explanation
Indices: 15912576--15912652 Score: 119
Period size: 24 Copynumber: 2.8 Consensus size: 29
15912566 TTTTAATTAA
15912576 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
15912605 GTTAGGGTTTTTAATT-A---A-GTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
15912629 GTTAGGGTTTTTAATTAAGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGG
15912653 GTTTTTAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
24 22 0.51
25 2 0.05
28 2 0.05
29 17 0.40
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (29 bp):
GTTAGGGTTTTTAATTAAGTTAGGTTAGG
Found at i:15912770 original size:25 final size:25
Alignment explanation
Indices: 15912702--15912770 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
15912692 AAGTTAGGGT
* *
15912702 TTTTATTACATCAAATTGAACTTCTA
1 TTTTATTACATCAAA-TAAAATTCTA
* *
15912728 TTTTATTATATTAAATAAAATTCTA
1 TTTTATTACATCAAATAAAATTCTA
*
15912753 TTTTATTACATCAGATAA
1 TTTTATTACATCAAATAA
15912771 TAAATTTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 23 0.64
26 13 0.36
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (25 bp):
TTTTATTACATCAAATAAAATTCTA
Found at i:15913870 original size:7 final size:7
Alignment explanation
Indices: 15913860--15913884 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15913850 TTATATACAT
15913860 AATACTA
1 AATACTA
15913867 AATACTA
1 AATACTA
15913874 AATACTA
1 AATACTA
15913881 AATA
1 AATA
15913885 TCAATCGACT
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:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:15915052 original size:11 final size:10
Alignment explanation
Indices: 15915022--15915087 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
15915012 GCCATTGATG
*
15915022 AAAATATAAA
1 AAAATTTAAA
15915032 AAAATTTAAA
1 AAAATTTAAA
* *
15915042 ATTATTTTAAA
1 A-AAATTTAAA
*
15915053 AAAATATAAA
1 AAAATTTAAA
15915063 AAAATTTAAA
1 AAAATTTAAA
** *
15915073 ATTATTTTAA
1 AAAATTTAAA
15915083 AAAAT
1 AAAAT
15915088 GAAATTGAGG
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
10 35 0.81
11 8 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:15915057 original size:31 final size:31
Alignment explanation
Indices: 15915022--15915086 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
15915012 GCCATTGATG
15915022 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
15915053 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
15915084 AAA
1 AAA
15915087 TGAAATTGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAATATAAAAAAATTTAAAATTATTTTAAA
Found at i:15915069 original size:21 final size:20
Alignment explanation
Indices: 15915022--15915073 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
15915012 GCCATTGATG
* *
15915022 AAAATATAAAAAAATTTAAA
1 AAAATTTAAAAAAATATAAA
* *
15915042 ATTATTTTAAAAAAATATAAA
1 A-AAATTTAAAAAAATATAAA
15915063 AAAATTTAAAA
1 AAAATTTAAAA
15915074 TTATTTTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATTTAAAAAAATATAAA
Found at i:15915143 original size:29 final size:29
Alignment explanation
Indices: 15915111--15915194 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 29
15915101 AATTGAAATT
15915111 AAATATGGATTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
* * **
15915140 AAAT-T-GA---GAG-GAA-ATTGAAATT
1 AAATATGGATTTGAGAGAATTTTGGAAGG
*
15915162 AAATATGGGTTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
15915191 AAAT
1 AAAT
15915195 TGAGAGAATT
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
22 9 0.23
23 4 0.10
24 4 0.10
27 5 0.13
28 4 0.10
29 13 0.33
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.30
Consensus pattern (29 bp):
AAATATGGATTTGAGAGAATTTTGGAAGG
Found at i:15915143 original size:51 final size:51
Alignment explanation
Indices: 15915088--15915200 Score: 208
Period size: 51 Copynumber: 2.2 Consensus size: 51
15915078 TTTAAAAAAT
*
15915088 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
*
15915139 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
15915190 GAAATTGAGAG
1 GAAATTGAGAG
15915201 AATTTTGGAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
Found at i:15915197 original size:22 final size:22
Alignment explanation
Indices: 15915172--15915222 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
15915162 AAATATGGGT
15915172 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
15915194 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
15915216 TTGAGAG
1 TTGAGAG
15915223 GATTAGAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:15916279 original size:20 final size:20
Alignment explanation
Indices: 15916255--15916300 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
15916245 ATTATAAATT
15916255 ATAAAGTT-ACTTTTTAAAA
1 ATAAAGTTAACTTTTTAAAA
* *
15916274 ATTAAAATTAATTTTTTAAAA
1 A-TAAAGTTAACTTTTTAAAA
15916295 ATAAAG
1 ATAAAG
15916301 ATTTTGAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 10 0.45
21 11 0.50
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.41
Consensus pattern (20 bp):
ATAAAGTTAACTTTTTAAAA
Found at i:15917711 original size:19 final size:19
Alignment explanation
Indices: 15917668--15917712 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
15917658 TTTAATAAGC
*
15917668 TAACATTAGTAACAAATTGA
1 TAACATTAGTAAC-AATTCA
15917688 TAACATTAGTAATC-ATTCA
1 TAACATTAGTAA-CAATTCA
15917707 TAACAT
1 TAACAT
15917713 ATTGAAGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 10 0.43
20 12 0.52
21 1 0.04
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (19 bp):
TAACATTAGTAACAATTCA
Found at i:15919756 original size:50 final size:50
Alignment explanation
Indices: 15919688--15919782 Score: 172
Period size: 50 Copynumber: 1.9 Consensus size: 50
15919678 TTAATTTAAG
*
15919688 AAAAAAGACTAAACTGCAATAATGTAGAAAATCATGTCATAATTGAAGAA
1 AAAAAAGACTAAACTGCAATAAGGTAGAAAATCATGTCATAATTGAAGAA
*
15919738 AAAAAAGACTAAATTGCAATAAGGTAGAAAATCATGTCATAATTG
1 AAAAAAGACTAAACTGCAATAAGGTAGAAAATCATGTCATAATTG
15919783 CAATAAGGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.53, C:0.09, G:0.15, T:0.23
Consensus pattern (50 bp):
AAAAAAGACTAAACTGCAATAAGGTAGAAAATCATGTCATAATTGAAGAA
Found at i:15919781 original size:29 final size:29
Alignment explanation
Indices: 15919749--15919808 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
15919739 AAAAAGACTA
15919749 AATTGCAATAAGGTAGAAAATCATGTCAT
1 AATTGCAATAAGGTAGAAAATCATGTCAT
15919778 AATTGCAATAAGGTAGAAAATCATGTCAT
1 AATTGCAATAAGGTAGAAAATCATGTCAT
15919807 AA
1 AA
15919809 ATTAAGTGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.27
Consensus pattern (29 bp):
AATTGCAATAAGGTAGAAAATCATGTCAT
Found at i:15921027 original size:20 final size:20
Alignment explanation
Indices: 15921004--15921061 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
15920994 ATGTCTTTGT
15921004 TTGCACTTTGGTGCCTCTAA
1 TTGCACTTTGGTGCCTCTAA
**
15921024 TTGCACATTT-GTGCCT-TTG
1 TTGCAC-TTTGGTGCCTCTAA
15921043 TCTGCACTTTGGTGCCTCT
1 T-TGCACTTTGGTGCCTCT
15921062 GGTGTGGAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
19 5 0.16
20 23 0.72
21 4 0.12
ACGTcount: A:0.10, C:0.26, G:0.21, T:0.43
Consensus pattern (20 bp):
TTGCACTTTGGTGCCTCTAA
Found at i:15923514 original size:17 final size:18
Alignment explanation
Indices: 15923483--15923516 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
15923473 AGAACCTAAG
15923483 CCTAAGAACTTAAAATAT
1 CCTAAGAACTTAAAATAT
15923501 CCTAAGAA-TTAAAATA
1 CCTAAGAACTTAAAATA
15923517 AAGTAAAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (18 bp):
CCTAAGAACTTAAAATAT
Found at i:15945143 original size:28 final size:28
Alignment explanation
Indices: 15944997--15945144 Score: 124
Period size: 28 Copynumber: 5.4 Consensus size: 28
15944987 GATAACATTG
*
15944997 TAAAATTTGAAAAATAGGGGCAAAAATA
1 TAAAATTTGAAAAATAAGGGCAAAAATA
* * * *
15945025 TAAAATTTTAAAAATAAGAGAAAAAATT
1 TAAAATTTGAAAAATAAGGGCAAAAATA
* * ***
15945053 TAAAATCT-AAAAAT-AGGGTAAACACGG
1 TAAAATTTGAAAAATAAGGGCAAA-AATA
15945080 TAAAATTTGAAAAATAAGGGC--AAATGA
1 TAAAATTTGAAAAATAAGGGCAAAAAT-A
* * *
15945107 TAAATTTTGAAAAATAGGGGCAAAACTA
1 TAAAATTTGAAAAATAAGGGCAAAAATA
*
15945135 TAAATTTTGA
1 TAAAATTTGA
15945145 GTTACAAGGG
Statistics
Matches: 95, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
26 7 0.07
27 34 0.36
28 47 0.49
29 7 0.07
ACGTcount: A:0.55, C:0.05, G:0.16, T:0.25
Consensus pattern (28 bp):
TAAAATTTGAAAAATAAGGGCAAAAATA
Found at i:15945144 original size:55 final size:56
Alignment explanation
Indices: 15944997--15945144 Score: 144
Period size: 55 Copynumber: 2.7 Consensus size: 56
15944987 GATAACATTG
* *
15944997 TAAAATTTGAAAAATAGGGGCAAAAATATAAAATTTT-AAAAATAAGAGAAAAAATT
1 TAAAATTTGAAAAATAGGGGCAAAACTAT-AAATTTTGAAAAATAAGAGAAAAAATA
* * ** * **
15945053 TAAAATCT-AAAAATA-GGGTAAACACGGTAAAATTTGAAAAATAAG-G-GCAAATGA
1 TAAAATTTGAAAAATAGGGGCAAA-ACTATAAATTTTGAAAAATAAGAGAAAAAAT-A
*
15945107 TAAATTTTGAAAAATAGGGGCAAAACTATAAATTTTGA
1 TAAAATTTGAAAAATAGGGGCAAAACTATAAATTTTGA
15945145 GTTACAAGGG
Statistics
Matches: 72, Mismatches: 15, Indels: 11
0.73 0.15 0.11
Matches are distributed among these distances:
53 4 0.06
54 19 0.26
55 36 0.50
56 13 0.18
ACGTcount: A:0.55, C:0.05, G:0.16, T:0.25
Consensus pattern (56 bp):
TAAAATTTGAAAAATAGGGGCAAAACTATAAATTTTGAAAAATAAGAGAAAAAATA
Found at i:15947038 original size:25 final size:25
Alignment explanation
Indices: 15947004--15947069 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
15946994 TTGATTTCAT
15947004 TTTTTTGAAAAAAATTTAAATTTTA
1 TTTTTTGAAAAAAATTTAAATTTTA
*** *
15947029 TTTTTTGAAAATTTTTTATATTTTA
1 TTTTTTGAAAAAAATTTAAATTTTA
15947054 TTTTTTGAAAAAAATT
1 TTTTTTGAAAAAAATT
15947070 GTCAAAATAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (25 bp):
TTTTTTGAAAAAAATTTAAATTTTA
Found at i:15952279 original size:28 final size:27
Alignment explanation
Indices: 15952187--15952388 Score: 145
Period size: 28 Copynumber: 7.2 Consensus size: 27
15952177 GGTCAAAACA
* *
15952187 GTAAAATTTGTAAAATAGGGGATAAAATT
1 GTAAAATTT-AAAAATAGGGG-CAAAATT
* *
15952216 GTAAAATTTGAAAAATAGCGGCAAAACT
1 GTAAAATTT-AAAAATAGGGGCAAAATT
* * *
15952244 ATATAATCTTAAAAGTAGGGGCAAAATT
1 GTAAAAT-TTAAAAATAGGGGCAAAATT
* ** *
15952272 GTAAAATCTAGAAAATAGGTTC-AAATCA
1 GTAAAATTTA-AAAATAGGGGCAAAAT-T
** * **
15952300 GTAAAATTTGAAAAATAATGGAAAAAGG
1 GTAAAATTT-AAAAATAGGGGCAAAATT
*
15952328 GTAAAATTTGAAAAATAGGGGTAAAATT
1 GTAAAATTT-AAAAATAGGGGCAAAATT
* *
15952356 GTAAAATCTAAAAAATAGGGGAAAAATT
1 GTAAAAT-TTAAAAATAGGGGCAAAATT
15952384 GTAAA
1 GTAAA
15952389 TTCTGAGTTA
Statistics
Matches: 136, Mismatches: 31, Indels: 13
0.76 0.17 0.07
Matches are distributed among these distances:
27 6 0.04
28 104 0.76
29 26 0.19
ACGTcount: A:0.51, C:0.04, G:0.19, T:0.25
Consensus pattern (27 bp):
GTAAAATTTAAAAATAGGGGCAAAATT
Found at i:15952388 original size:56 final size:56
Alignment explanation
Indices: 15952198--15952388 Score: 179
Period size: 56 Copynumber: 3.4 Consensus size: 56
15952188 TAAAATTTGT
* * * * * *
15952198 AAAATAGGGGATAAAATTGTAAAATTTGAAAAATAGCGGCAAAACTATATAATCTTA
1 AAAATAGGGGA-AAAATTGTAAAATTTGAAAAATAGGGGTAAAATTGTAAAATCTAA
* * * * * * * *
15952255 AAAGTAGGGGCAAAATTGTAAAATCT-AGAAAATA-GGTTCAAATCAGTAAAATTTGA
1 AAAATAGGGGAAAAATTGTAAAATTTGA-AAAATAGGGGTAAAAT-TGTAAAATCTAA
** **
15952311 AAAATAATGGAAAAAGGGTAAAATTTGAAAAATAGGGGTAAAATTGTAAAATCTAA
1 AAAATAGGGGAAAAATTGTAAAATTTGAAAAATAGGGGTAAAATTGTAAAATCTAA
15952367 AAAATAGGGGAAAAATTGTAAA
1 AAAATAGGGGAAAAATTGTAAA
15952389 TTCTGAGTTA
Statistics
Matches: 101, Mismatches: 29, Indels: 9
0.73 0.21 0.06
Matches are distributed among these distances:
55 5 0.05
56 79 0.78
57 17 0.17
ACGTcount: A:0.52, C:0.05, G:0.19, T:0.24
Consensus pattern (56 bp):
AAAATAGGGGAAAAATTGTAAAATTTGAAAAATAGGGGTAAAATTGTAAAATCTAA
Found at i:15952388 original size:84 final size:84
Alignment explanation
Indices: 15952198--15952388 Score: 215
Period size: 84 Copynumber: 2.3 Consensus size: 84
15952188 TAAAATTTGT
* * * * *
15952198 AAAATAGGGGATAAAATTGTAAAATTTGAAAAATAGCGGCAAAACTATATAATCTTAAAAGTAGG
1 AAAATAGGGGA-AAAATTGTAAAATTTGAAAAATAACGGAAAAACGATAAAATCTTAAAAATAGG
*
15952263 GGCAAAATTGTAAAATCTAG
65 GGCAAAATTGTAAAATCTAA
*** * * * *
15952283 AAAATA-GGTTCAAATCAGTAAAATTTGAAAAATAATGGAAAAAGGGTAAAAT-TTGAAAAATAG
1 AAAATAGGGGAAAAAT-TGTAAAATTTGAAAAATAACGGAAAAACGATAAAATCTT-AAAAATAG
*
15952346 GGGTAAAATTGTAAAATCTAA
64 GGGCAAAATTGTAAAATCTAA
15952367 AAAATAGGGGAAAAATTGTAAA
1 AAAATAGGGGAAAAATTGTAAA
15952389 TTCTGAGTTA
Statistics
Matches: 85, Mismatches: 18, Indels: 7
0.77 0.16 0.06
Matches are distributed among these distances:
83 6 0.07
84 67 0.79
85 12 0.14
ACGTcount: A:0.52, C:0.05, G:0.19, T:0.24
Consensus pattern (84 bp):
AAAATAGGGGAAAAATTGTAAAATTTGAAAAATAACGGAAAAACGATAAAATCTTAAAAATAGGG
GCAAAATTGTAAAATCTAA
Found at i:15967182 original size:50 final size:50
Alignment explanation
Indices: 15967083--15967258 Score: 192
Period size: 50 Copynumber: 3.4 Consensus size: 50
15967073 AAAGAGATCT
* *
15967083 CATGTAAGACCATGTCTGGGACATAGACAT-GGCATCATTGAGGTTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACAT-GGCATGGGCA-C--CGA-G--ATGAGAGGTCC
* *
15967139 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGTCC
** * **
15967189 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGTCC
*
15967239 CATGTAAGACCATATCTGGG
1 CATGTAAGACCATGTCTGGG
15967259 GTATGTCATT
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
50 71 0.67
52 1 0.01
53 2 0.02
55 4 0.04
56 28 0.26
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGTCC
Found at i:15975122 original size:22 final size:19
Alignment explanation
Indices: 15975095--15975138 Score: 52
Period size: 22 Copynumber: 2.2 Consensus size: 19
15975085 ATAGTAACAA
15975095 CAAAATAGTAGCAATATAATAG
1 CAAAATAGTAG-AA-A-AATAG
*
15975117 CAAAATGGTAGAAAAATAG
1 CAAAATAGTAGAAAAATAG
15975136 CAA
1 CAA
15975139 CAAAACAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 8 0.38
20 1 0.05
21 2 0.10
22 10 0.48
ACGTcount: A:0.57, C:0.09, G:0.16, T:0.18
Consensus pattern (19 bp):
CAAAATAGTAGAAAAATAG
Found at i:15976668 original size:27 final size:26
Alignment explanation
Indices: 15976631--15976728 Score: 88
Period size: 26 Copynumber: 3.7 Consensus size: 26
15976621 ATTTTGGGTC
*
15976631 AAAATAGTAAAATTTTAAAAATAAGGG
1 AAAATTGTAAAATTTTAAAAAT-AGGG
* ** *
15976658 AAAATTATAAAACCTGAAAAATAGGG
1 AAAATTGTAAAATTTTAAAAATAGGG
* * *
15976684 GAAATTGTAAAATGTAAAAAATAGGG
1 AAAATTGTAAAATTTTAAAAATAGGG
*
15976710 ACAAAATTGTAAATTTTTA
1 --AAAATTGTAAAATTTTA
15976729 GTTACTATCA
Statistics
Matches: 55, Mismatches: 14, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
26 25 0.45
27 17 0.31
28 13 0.24
ACGTcount: A:0.55, C:0.03, G:0.15, T:0.27
Consensus pattern (26 bp):
AAAATTGTAAAATTTTAAAAATAGGG
Found at i:15979728 original size:44 final size:44
Alignment explanation
Indices: 15979665--15979919 Score: 334
Period size: 44 Copynumber: 5.8 Consensus size: 44
15979655 CCGGTGAAAC
*
15979665 TATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGAT
1 TATAAATCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGAT
* *
15979709 TATAAATCCTAGCTCCCTGACCAGCATTGGAATAGGTGGAAGACT
1 TATAAATCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGA-T
* * *
15979754 GA-AAGTCCTAGCTCCCTGAA-AGCAGTGGAATAGGCGGAAGAT
1 TATAAATCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGAT
* * * *
15979796 TGTAAATCCTAGCTTCCTGACCAGCAGTGGAATAGGTGGAAGAC
1 TATAAATCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGAT
* * * * *
15979840 TATAAGTCCTAGCTCCCTGAATAGCAGTGCAATAGGAGGAAGAA
1 TATAAATCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGAT
* *
15979884 TGTAAATCCTAGCTCCCTGACCAGCAGTGGAATAGG
1 TATAAATCCTAGCTCCCTGAACAGCAGTGGAATAGG
15979920 CAAAGACTGT
Statistics
Matches: 180, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
42 1 0.01
43 34 0.19
44 143 0.79
45 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (44 bp):
TATAAATCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGAT
Done.