Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 257 of 295
Found at i:88571365 original size:19 final size:19
Alignment explanation
Indices: 88571341--88571380 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
88571331 TTGCACTACT
88571341 TCTGAAAAGTGACATACGC
1 TCTGAAAAGTGACATACGC
88571360 TCTGAAAAGTGACATACGC
1 TCTGAAAAGTGACATACGC
88571379 TC
1 TC
88571381 ACTTATTGGT
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:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (19 bp):
TCTGAAAAGTGACATACGC
Found at i:88572578 original size:31 final size:30
Alignment explanation
Indices: 88572543--88572660 Score: 86
Period size: 31 Copynumber: 4.0 Consensus size: 30
88572533 TATCAACTTA
88572543 AGAAAAAAAGTCAAGTTTAGGTACCAAATT
1 AGAAAAAAAGTCAAGTTTAGGTACCAAATT
** * * *
88572573 AAGAAAAAGTGTTAAGTTTGGGTACGAAATT
1 -AGAAAAAAAGTCAAGTTTAGGTACCAAATT
*
88572604 GGACAAAAAA---AAGTTT--GTACCAAATT
1 AGA-AAAAAAGTCAAGTTTAGGTACCAAATT
*
88572630 AGAAAAAAAATGTCAA-TTTCAAGTACCAAAT
1 AG-AAAAAAA-GTCAAGTTT-AGGTACCAAAT
88572661 ATTATATTAA
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
26 16 0.24
27 1 0.01
28 6 0.09
29 3 0.04
30 4 0.06
31 29 0.43
32 9 0.13
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.25
Consensus pattern (30 bp):
AGAAAAAAAGTCAAGTTTAGGTACCAAATT
Found at i:88573082 original size:23 final size:22
Alignment explanation
Indices: 88573032--88573080 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
88573022 GTAAAAAAGT
88573032 AAAAATACAATTAAGCTTTAAA
1 AAAAATACAATTAAGCTTTAAA
88573054 AAAAATACAATTAAGCTTTAAA
1 AAAAATACAATTAAGCTTTAAA
88573076 AAAAA
1 AAAAA
88573081 ATTCATCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.24
Consensus pattern (22 bp):
AAAAATACAATTAAGCTTTAAA
Found at i:88573480 original size:6 final size:6
Alignment explanation
Indices: 88573469--88573499 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
88573459 AAATAGGATC
88573469 CTGTGG CTGTGG CTGTGG CTGTGG CTGTGG C
1 CTGTGG CTGTGG CTGTGG CTGTGG CTGTGG C
88573500 GTTTATTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.19, G:0.48, T:0.32
Consensus pattern (6 bp):
CTGTGG
Found at i:88573858 original size:17 final size:17
Alignment explanation
Indices: 88573836--88573876 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
88573826 GATTTTAGTA
88573836 GAGCTTGTTTCTGAGCT
1 GAGCTTGTTTCTGAGCT
88573853 GAGCTTGTTTCTGAGCT
1 GAGCTTGTTTCTGAGCT
88573870 GAGCTTG
1 GAGCTTG
88573877 ATTGTGCAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.12, C:0.17, G:0.32, T:0.39
Consensus pattern (17 bp):
GAGCTTGTTTCTGAGCT
Found at i:88575117 original size:12 final size:13
Alignment explanation
Indices: 88575100--88575128 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
88575090 GCATTTTGTT
88575100 GGGGAAGAGAG-G
1 GGGGAAGAGAGTG
88575112 GGGGAAGAGAGTG
1 GGGGAAGAGAGTG
88575125 GGGG
1 GGGG
88575129 GGGGGGGAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.28, C:0.00, G:0.69, T:0.03
Consensus pattern (13 bp):
GGGGAAGAGAGTG
Found at i:88579801 original size:8 final size:8
Alignment explanation
Indices: 88579788--88579818 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
88579778 TAATTTTTAA
88579788 AAAAATAT
1 AAAAATAT
88579796 AAAAATAT
1 AAAAATAT
88579804 AAAAATAT
1 AAAAATAT
88579812 AAAAATA
1 AAAAATA
88579819 CATAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAAATAT
Found at i:88579825 original size:16 final size:16
Alignment explanation
Indices: 88579788--88579827 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
88579778 TAATTTTTAA
*
88579788 AAAAATATAAAAATAT
1 AAAAATATAAAAATAC
88579804 AAAAATATAAAAATAC
1 AAAAATATAAAAATAC
*
88579820 ATAAATAT
1 AAAAATAT
88579828 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAAATATAAAAATAC
Found at i:88580325 original size:5 final size:5
Alignment explanation
Indices: 88580317--88580341 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
88580307 ACGATGGTGG
88580317 GGGGT GGGGT GGGGT GGGGT GGGGT
1 GGGGT GGGGT GGGGT GGGGT GGGGT
88580342 CGGATGGGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.80, T:0.20
Consensus pattern (5 bp):
GGGGT
Found at i:88580445 original size:16 final size:17
Alignment explanation
Indices: 88580404--88580446 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
88580394 TTTTTATTTT
88580404 ATTTAATATTAATATAAA
1 ATTTAA-ATTAATATAAA
* *
88580422 AATAAAATT-ATATAAA
1 ATTTAAATTAATATAAA
88580438 ATTTAAATT
1 ATTTAAATT
88580447 TATTTCTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 14 0.67
17 3 0.14
18 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAAATTAATATAAA
Found at i:88583305 original size:34 final size:35
Alignment explanation
Indices: 88583267--88583386 Score: 146
Period size: 34 Copynumber: 3.6 Consensus size: 35
88583257 AAAAAATATT
88583267 TAAATTAGGGTT-TATGGTTTTTAAATAGATTAAG
1 TAAATTAGGGTTCTATGGTTTTTAAATAGATTAAG
* *
88583301 TAAATTAGGGTTCTA-GGGTTTTAAAT--A--AAT
1 TAAATTAGGGTTCTATGGTTTTTAAATAGATTAAG
* *
88583331 TAAATTATGGTT-TATGTTTTTTAAATAGATTAAG
1 TAAATTAGGGTTCTATGGTTTTTAAATAGATTAAG
*
88583365 TAAATTAGGGTTCTAGGGTTTT
1 TAAATTAGGGTTCTATGGTTTT
88583387 AGATAAATTA
Statistics
Matches: 70, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
29 2 0.03
30 22 0.31
32 2 0.03
34 35 0.50
35 9 0.13
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (35 bp):
TAAATTAGGGTTCTATGGTTTTTAAATAGATTAAG
Found at i:88583335 original size:30 final size:29
Alignment explanation
Indices: 88583266--88583815 Score: 215
Period size: 30 Copynumber: 17.8 Consensus size: 29
88583256 TAAAAAATAT
*
88583266 TTAAATTAGGGTTTATGGTTTTTAAATAGATTAA
1 TTAAATTAGGGTTTA-GGGTTTTAAAT--A--AA
*
88583300 GTAAATTAGGGTTCTAGGGTTTTAAATAAA
1 TTAAATTAGGGTT-TAGGGTTTTAAATAAA
* **
88583330 TTAAATTATGGTTTATGTTTTTTAAATAGATTAA
1 TTAAATTAGGGTTTA-GGGTTTTAAAT--A--AA
* *
88583364 GTAAATTAGGGTTCTAGGGTTTTAGATAAA
1 TTAAATTAGGGTT-TAGGGTTTTAAATAAA
88583394 TTAAATTAGGGTTTA-------AAATAAA
1 TTAAATTAGGGTTTAGGGTTTTAAATAAA
* *
88583416 TTAAATTATGGTTTATGGTTTTTAAATAGATTAA
1 TTAAATTAGGGTTTA-GGGTTTTAAAT--A--AA
* * *
88583450 GTAAATTAGGGTTCTAGGGTCTTAGATAAA
1 TTAAATTAGGGTT-TAGGGTTTTAAATAAA
* * * *
88583480 TTAAGTTAGTGTTT-CGGTTAAAATTAATTAAA
1 TTAAATTAGGGTTTAGGGTT----TTAAATAAA
*** *
88583512 TTAAGA-TAAATTAAATTAGGGTTTGGGTTAGAATTAA
1 TTAA-ATTAGGGT---TTAGGG-TT---TTA-AATAAA
* * *
88583549 TTAAATTAAGGTTCTAGAGTTTTAGATAAA
1 TTAAATTAGGGTT-TAGGGTTTTAAATAAA
88583579 TTAAATTAGGGTTTAGGGTTTTTAAATAGATTAA
1 TTAAATTAGGGTTTAGGG-TTTTAAAT--A--AA
* * * * *
88583613 GTAAATTAGGGTTCTAGGGGTTTAGATGAT
1 TTAAATTAGGGTT-TAGGGTTTTAAATAAA
* *
88583643 TTAAATTAGGGTTT-GGG-TTAAAATTAA
1 TTAAATTAGGGTTTAGGGTTTTAAATAAA
* * *
88583670 TTAAATTAAGGTTCTAGGGTGTTAGATAAA
1 TTAAATTAGGGTT-TAGGGTTTTAAATAAA
*
88583700 TTAAATTAAGGTTTAGGGTTTTTAAATAGATTAA
1 TTAAATTAGGGTTTAGGG-TTTTAAAT--A--AA
* * * *
88583734 GTAAATTAAGGTTCTAGGGTTTTAGATACA
1 TTAAATTAGGGTT-TAGGGTTTTAAATAAA
* * *
88583764 TTAAATTAGGGTTTTGGG-TTAAAATTAA
1 TTAAATTAGGGTTTAGGGTTTTAAATAAA
* *
88583792 TTAAATTAGGATTCTAGGGGTTTA
1 TTAAATTAGGGTT-TAGGGTTTTA
88583816 TGGTTTTTAA
Statistics
Matches: 392, Mismatches: 74, Indels: 104
0.69 0.13 0.18
Matches are distributed among these distances:
22 20 0.05
27 18 0.05
28 25 0.06
29 26 0.07
30 128 0.33
31 3 0.01
32 22 0.06
34 108 0.28
35 22 0.06
36 6 0.02
37 14 0.04
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.41
Consensus pattern (29 bp):
TTAAATTAGGGTTTAGGGTTTTAAATAAA
Found at i:88583344 original size:64 final size:64
Alignment explanation
Indices: 88583266--88583777 Score: 338
Period size: 64 Copynumber: 8.2 Consensus size: 64
88583256 TAAAAAATAT
*
88583266 TTAAATTAGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTTTAAATAAA
1 TTAAATTAGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAA
* *
88583330 TTAAATTATGGTTTATGTTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAA
1 TTAAATTAGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAA
* * * * * * ** *
88583394 TTAAATTAGGGTTTA--------AAATAAATTAAAT-TA-T-GGTTTATGGTTTTTAAATAGATT
1 TTAAATTAGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTT---TAGATA
88583448 AA
63 AA
* * * * * * * * * *
88583450 GTAAATTAGGGTTCTA-GGGTCTTAGATAAATTAAG----TTAGTGTT-T-CGG-TTAAAATTAA
1 TTAAATTAGGGTT-TATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAA
* * * **** * * *
88583507 TTAAATTAAGATAAATTAAATTAGGGTTTGGGTTAGAATTAATTAAATTAAGGTTCTAGAGTTTT
1 TTAAATTAGGGT---TT--A-T-GGTTTTTAAATAG-ATTAAGTAAATTAGGGTTCTAGGGTTTT
88583572 AGATAAA
58 AGATAAA
* * * *
88583579 TTAAATTAGGGTTTAGGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGGTTTAGATGAT
1 TTAAATTAGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAA
* * * *
88583643 TTAAATTAGGG-TT-TGG--GTT-AA-A-ATTAATTAAATTAAGGTTCTAGGGTGTTAGATAAA
1 TTAAATTAGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAA
* * * *
88583700 TTAAATTAAGGTTTAGGGTTTTTAAATAGATTAAGTAAATTAAGGTTCTAGGGTTTTAGATACA
1 TTAAATTAGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAA
88583764 TTAAATTAGGGTTT
1 TTAAATTAGGGTTT
88583778 TGGGTTAAAA
Statistics
Matches: 344, Mismatches: 68, Indels: 72
0.71 0.14 0.15
Matches are distributed among these distances:
53 9 0.03
54 1 0.00
55 1 0.00
56 30 0.09
57 56 0.16
58 3 0.01
59 5 0.01
60 5 0.01
61 3 0.01
62 6 0.02
63 6 0.02
64 178 0.52
65 13 0.04
67 1 0.00
69 8 0.02
70 1 0.00
71 1 0.00
72 17 0.05
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.41
Consensus pattern (64 bp):
TTAAATTAGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAA
Found at i:88583406 original size:22 final size:22
Alignment explanation
Indices: 88583378--88583430 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
88583368 ATTAGGGTTC
* *
88583378 TAGGGTTTTAGATAAATTAAAT
1 TAGGGTTTAAAATAAATTAAAT
88583400 TAGGGTTTAAAATAAATTAAAT
1 TAGGGTTTAAAATAAATTAAAT
*
88583422 TATGGTTTA
1 TAGGGTTTA
88583431 TGGTTTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (22 bp):
TAGGGTTTAAAATAAATTAAAT
Found at i:88583509 original size:86 final size:86
Alignment explanation
Indices: 88583314--88583493 Score: 315
Period size: 86 Copynumber: 2.1 Consensus size: 86
88583304 ATTAGGGTTC
* *
88583314 TAGGGTTTTAAATAAATTAAATTATGGTTTATGTTTTTTAAATAGATTAAGTAAATTAGGGTTCT
1 TAGGGTTTAAAATAAATTAAATTATGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCT
*
88583379 AGGGTTTTAGATAAATTAAAT
66 AGGGTCTTAGATAAATTAAAT
88583400 TAGGGTTTAAAATAAATTAAATTATGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCT
1 TAGGGTTTAAAATAAATTAAATTATGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCT
*
88583465 AGGGTCTTAGATAAATTAAGT
66 AGGGTCTTAGATAAATTAAAT
*
88583486 TAGTGTTT
1 TAGGGTTT
88583494 CGGTTAAAAT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 89 1.00
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (86 bp):
TAGGGTTTAAAATAAATTAAATTATGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCT
AGGGTCTTAGATAAATTAAAT
Found at i:88583541 original size:42 final size:42
Alignment explanation
Indices: 88583473--88583558 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
88583463 CTAGGGTCTT
* *
88583473 AGATAAATTAAGTTAGTGTTTCGGTTAAAATTAATTAAATTA
1 AGATAAATTAAATTAGGGTTTCGGTTAAAATTAATTAAATTA
* *
88583515 AGATAAATTAAATTAGGGTTTGGGTTAGAATTAATTAAATTA
1 AGATAAATTAAATTAGGGTTTCGGTTAAAATTAATTAAATTA
88583557 AG
1 AG
88583559 GTTCTAGAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.43, C:0.01, G:0.17, T:0.38
Consensus pattern (42 bp):
AGATAAATTAAATTAGGGTTTCGGTTAAAATTAATTAAATTA
Found at i:88583583 original size:57 final size:57
Alignment explanation
Indices: 88583515--88583815 Score: 343
Period size: 64 Copynumber: 5.0 Consensus size: 57
88583505 AATTAAATTA
* *
88583515 AGATAAATTAAATTAGGGTTTGGGTTAGAATTAATTAAATTAAGGTTCTAGAGTTTT
1 AGATAAATTAAATTAGGGTTTGGGTTAAAATTAATTAAATTAAGGTTCTAGGGTTTT
* * *
88583572 AGATAAATTAAATTAGGGTTTAGGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGGTTT
1 AGATAAATTAAATTAGGGTTT-GGG---TT-AA-A-ATTAATTAAATTAAGGTTCTAGGGTTTT
* * *
88583636 AGATGATTTAAATTAGGGTTTGGGTTAAAATTAATTAAATTAAGGTTCTAGGGTGTT
1 AGATAAATTAAATTAGGGTTTGGGTTAAAATTAATTAAATTAAGGTTCTAGGGTTTT
* *
88583693 AGATAAATTAAATTAAGGTTTAGGGTTTTTAAATAGATTAAGTAAATTAAGGTTCTAGGGTTTT
1 AGATAAATTAAATTAGGGTTT-GGG---TT-AA-A-ATTAATTAAATTAAGGTTCTAGGGTTTT
* *
88583757 AGATACATTAAATTAGGGTTTTGGGTTAAAATTAATTAAATT-AGGATTCTAGGGGTTT
1 AGATAAATTAAATTAGGG-TTTGGGTTAAAATTAATTAAATTAAGG-TTCTAGGGTTTT
88583815 A
1 A
88583816 TGGTTTTTAA
Statistics
Matches: 208, Mismatches: 20, Indels: 31
0.80 0.08 0.12
Matches are distributed among these distances:
57 66 0.32
58 30 0.14
59 3 0.01
60 4 0.02
61 6 0.03
62 3 0.01
63 5 0.02
64 88 0.42
65 3 0.01
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.40
Consensus pattern (57 bp):
AGATAAATTAAATTAGGGTTTGGGTTAAAATTAATTAAATTAAGGTTCTAGGGTTTT
Found at i:88583668 original size:121 final size:121
Alignment explanation
Indices: 88583295--88583815 Score: 545
Period size: 121 Copynumber: 4.2 Consensus size: 121
88583285 TTTTAAATAG
* * * * * *
88583295 ATTAAGTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAATTATGGTTTATGTTTTTTAAATAGA
1 ATTAATTAAATTAAGGTTCTAGGGTTTTAGATAAATTAAATTAGGGTTTAGGGTTTTTAAATAGA
88583360 TTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATTAAATTAGGG--T---TTAAA
66 TTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATTAAATTAGGGTTTGGGTTAAA
* * * * * *
88583411 ATAAATTAAATTATGGTT-TATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGG-TCTTA
1 ATTAATTAAATTAAGGTTCTA-GG-GTTT---TAGATAAATTAAATTAGGGTT-TAGGGTTTTTA
* * ** ** ** ***
88583474 GATAAATTAAGTTAGTGTTTCGGTTAAAATTAATTAAATTAAGATAAATTAAATTAGGGTTTGGG
60 AATAGATTAAG-TA-AATTAGGGTT-CTA-GGGTT---TT-AGATAAATTAAATTAGGGTTTGGG
*
88583539 TTAGA
117 TTAAA
*
88583544 ATTAATTAAATTAAGGTTCTAGAGTTTTAGATAAATTAAATTAGGGTTTAGGGTTTTTAAATAGA
1 ATTAATTAAATTAAGGTTCTAGGGTTTTAGATAAATTAAATTAGGGTTTAGGGTTTTTAAATAGA
* * *
88583609 TTAAGTAAATTAGGGTTCTAGGGGTTTAGATGATTTAAATTAGGGTTTGGGTTAAA
66 TTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATTAAATTAGGGTTTGGGTTAAA
* *
88583665 ATTAATTAAATTAAGGTTCTAGGGTGTTAGATAAATTAAATTAAGGTTTAGGGTTTTTAAATAGA
1 ATTAATTAAATTAAGGTTCTAGGGTTTTAGATAAATTAAATTAGGGTTTAGGGTTTTTAAATAGA
* *
88583730 TTAAGTAAATTAAGGTTCTAGGGTTTTAGATACATTAAATTAGGGTTTTGGGTTAAA
66 TTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATTAAATTAGGG-TTTGGGTTAAA
*
88583787 ATTAATTAAATT-AGGATTCTAGGGGTTTA
1 ATTAATTAAATTAAGG-TTCTAGGGTTTTA
88583816 TGGTTTTTAA
Statistics
Matches: 327, Mismatches: 55, Indels: 40
0.77 0.13 0.09
Matches are distributed among these distances:
115 2 0.01
116 17 0.05
117 3 0.01
120 30 0.09
121 136 0.42
122 42 0.13
123 1 0.00
124 2 0.01
125 1 0.00
126 1 0.00
127 8 0.02
128 25 0.08
129 32 0.10
130 1 0.00
132 3 0.01
133 21 0.06
134 2 0.01
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.41
Consensus pattern (121 bp):
ATTAATTAAATTAAGGTTCTAGGGTTTTAGATAAATTAAATTAGGGTTTAGGGTTTTTAAATAGA
TTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATTAAATTAGGGTTTGGGTTAAA
Found at i:88583927 original size:101 final size:98
Alignment explanation
Indices: 88583708--88583909 Score: 269
Period size: 101 Copynumber: 1.9 Consensus size: 98
88583698 AATTAAATTA
* * *
88583708 AGGTTTAGGGTTTTTAAATAGATTAAGTAAATTAAGGTTCTAGGGTTTTAGATACATTAAATTAG
1 AGGTTTA-TGTTTTTAAATAGATTAAGTAAATTAAGGTTCTAAGGTTTTAGATAAATTAAATTAG
88583773 GGTTTTGGGTTAAAATTAATTAAATTAGGATTCT
65 GGTTTTGGGTTAAAATTAATTAAATTAGGATTCT
*
88583807 AGGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAAGGTTTTAGATAAATTAAATT
1 A--GGTTTAT-GTTTTTAAATAGATTAAGTAAATTAAGGTTCTAAGGTTTTAGATAAATTAAATT
88583872 AGGGTCTTGAGTTTTGGGTTAAAATTAATTAAATTAGG
63 A--G----G-GTTTTGGGTTAAAATTAATTAAATTAGG
88583910 GTTTAGTTTT
Statistics
Matches: 89, Mismatches: 4, Indels: 11
0.86 0.04 0.11
Matches are distributed among these distances:
99 1 0.01
101 58 0.65
103 1 0.01
107 1 0.01
108 28 0.31
ACGTcount: A:0.34, C:0.02, G:0.22, T:0.41
Consensus pattern (98 bp):
AGGTTTATGTTTTTAAATAGATTAAGTAAATTAAGGTTCTAAGGTTTTAGATAAATTAAATTAGG
GTTTTGGGTTAAAATTAATTAAATTAGGATTCT
Found at i:88584293 original size:127 final size:127
Alignment explanation
Indices: 88583974--88584466 Score: 636
Period size: 126 Copynumber: 3.9 Consensus size: 127
88583964 CTATTTTTAC
* * * *
88583974 CCTGAAAAGATAATTTTGAGAAGACGTTTTTGAACAAATATTGTCAAAAATGCTTCAAGCAGGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
* * *
88584039 GCACTGTCAGCAAAAATACAGAAAAAAGGCTACCACGTGGATGCTATTTTGCTACAGTAGTT
66 GCAATGTCAGCAAAAATACAGAAAAAAAGCTACCACGTGGACGCTATTTTGCTACAGTAGTT
*
88584101 CCTG-AAAAATAATTTTGAGAAGACGTTTCTGAACAAATTGTGTCAAAAACGCTTCAAGCAGGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
* * * *
88584165 GCATTGTCAGCAAAAATACAGAAAAAAAGCTACCACGTGGACACTTTTTTGCTACAATAGTT
66 GCAATGTCAGCAAAAATACAGAAAAAAAGCTACCACGTGGACGCTATTTTGCTACAGTAGTT
* * * *
88584227 CCCGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGTAAGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
* * * * * * *
88584292 GCAATGTCATCAAAATTTCTG-AAAAAAGCT-CTCACGTGGACGCTCTTTTACTGCAGTAGTT
66 GCAATGTCAGCAAAAATACAGAAAAAAAGCTAC-CACGTGGACGCTATTTTGCTACAGTAGTT
* * * *
88584353 CCTAAAAAAATAATTTTGAAAAGACGTTTCTAAACAAATAGTGTAAAAAACGCTTCAAGCAGGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
* ** * * *
88584418 GCAATGTCATCAAAGTTTA-A-AAAAAAAGCTCCCATGTGGACGCTCTTTT
66 GCAATGTCAGCAAA-AATACAGAAAAAAAGCTACCACGTGGACGCTATTTT
88584467 TCTATAATTG
Statistics
Matches: 323, Mismatches: 38, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
125 1 0.00
126 243 0.75
127 79 0.24
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (127 bp):
CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
GCAATGTCAGCAAAAATACAGAAAAAAAGCTACCACGTGGACGCTATTTTGCTACAGTAGTT
Found at i:88585294 original size:21 final size:22
Alignment explanation
Indices: 88585269--88585309 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
88585259 TTCATTCATA
88585269 ATTCACAAATCAAA-ACATAAC
1 ATTCACAAATCAAAGACATAAC
* *
88585290 ATTCATAAGTCAAAGACATA
1 ATTCACAAATCAAAGACATA
88585310 CCAAAACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.54, C:0.20, G:0.05, T:0.22
Consensus pattern (22 bp):
ATTCACAAATCAAAGACATAAC
Found at i:88597076 original size:42 final size:41
Alignment explanation
Indices: 88597015--88597113 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 41
88597005 CATCCCAGGT
* * * * *
88597015 GTGGTCTTACATGTAATCAATATCTATGCC-ACTGTCCCAGAC
1 GTGGTCTTACACG-AATCAAAAACGATGCCGA-TGTCCCAAAC
88597057 AG-GGTCTTACACGAGATCAAAAACGATGCCGATGTCCCAAAC
1 -GTGGTCTTACACGA-ATCAAAAACGATGCCGATGTCCCAAAC
88597099 GTGGTCTTACACGAA
1 GTGGTCTTACACGAA
88597114 AACACATATC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
41 3 0.06
42 43 0.90
43 2 0.04
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (41 bp):
GTGGTCTTACACGAATCAAAAACGATGCCGATGTCCCAAAC
Found at i:88604105 original size:25 final size:25
Alignment explanation
Indices: 88604075--88604123 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
88604065 TAATCACTTG
88604075 ATCAAATATGATATA-AACTTTCAAC
1 ATCAAATATGATATACAA-TTTCAAC
88604100 ATCAAATATGATATACAATTTCAA
1 ATCAAATATGATATACAATTTCAA
88604124 ACGTACCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (25 bp):
ATCAAATATGATATACAATTTCAAC
Found at i:88606798 original size:29 final size:29
Alignment explanation
Indices: 88606756--88606814 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
88606746 CAATCAATCA
88606756 TAGATAAGCTCATTATGCCATGTACACAT
1 TAGATAAGCTCATTATGCCATGTACACAT
88606785 TAGATAAGCTCATTATGCCATGTACACAT
1 TAGATAAGCTCATTATGCCATGTACACAT
88606814 T
1 T
88606815 CTATTTTATG
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:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (29 bp):
TAGATAAGCTCATTATGCCATGTACACAT
Found at i:88608783 original size:49 final size:49
Alignment explanation
Indices: 88608722--88608987 Score: 200
Period size: 49 Copynumber: 5.6 Consensus size: 49
88608712 ACATCAAAGT
*
88608722 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAG-GC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATC-AGTGC
* * * * *
88608771 CGATGCCGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGC
* * *
88608820 CGATGCCATGTCCCAGACAGGTCTTACACTGA--CACA-AAAT-A-AGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGC
* * * * * * *
88608864 TGACGCCATGTGCCAAACAGGTTTTACACT-AGCT-TGTATATCTCGAG-GC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGA-CTCT-CATATATC-AGTGC
* * *
88608913 CGATG-CATGTCCCATACATGTCTTACACTGGCTCTCATA-AT--GTGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGT-GC
* *
88608959 CGATG-CATGTCCTAGACATGTCTTACACT
1 CGATGCCATGTCCCAGACAGGTCTTACACT
88608988 AGTACACATA
Statistics
Matches: 170, Mismatches: 34, Indels: 29
0.73 0.15 0.12
Matches are distributed among these distances:
43 1 0.01
44 27 0.16
46 32 0.19
47 6 0.04
48 26 0.15
49 78 0.46
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGC
Found at i:88612336 original size:50 final size:47
Alignment explanation
Indices: 88612223--88612487 Score: 259
Period size: 50 Copynumber: 5.6 Consensus size: 47
88612213 TAAGGTGCCA
* * * *
88612223 ATGCCATGTCCCGGACATGGTCTTACATTGGCTCACACATCAAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACATTGACTCACATATC-AAGCCG
* *
88612271 ACGCCATGTCCCAGACATGGTCTTACATTGACTCTCGTATATCAAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATTGACTCAC--ATATCAA-GCCG
* *
88612321 ATGCCATGTCTCAGACATGGTCTTACACTGA--CACATATCAAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATTGACTCACATATCAAGCCG
** * * * **
88612366 ACCCCATGTCCCAGACATGGTCTTACACTAACTCTCATCTATCGGCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATTGACTCACA--TATC-AAGCCG
** * **
88612416 ATGCTGTGTCCCAGTCATGGTCTTACATTGA--CACATATCAAGTTG
1 ATGCCATGTCCCAGACATGGTCTTACATTGACTCACATATCAAGCCG
88612461 ATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
88612488 CTAGCTCTCA
Statistics
Matches: 177, Mismatches: 32, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
45 57 0.32
46 11 0.06
47 3 0.02
48 37 0.21
49 6 0.03
50 63 0.36
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACATTGACTCACATATCAAGCCG
Found at i:88612392 original size:95 final size:95
Alignment explanation
Indices: 88612223--88612500 Score: 351
Period size: 95 Copynumber: 2.9 Consensus size: 95
88612213 TAAGGTGCCA
* * *
88612223 ATGCCATGTCCCGGACATGGTCTTACATTGGCTCACACATCAAAGTCGACGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACATT-G-ACACATATC-AAGTCGACGCCATGTCCCAGACA
* * *
88612288 TGGTCTTACATTGACTCTCGTATATCAAG-GCCG
63 TGGTCTTACACTAACTCTCATATATC-AGCGCCG
* * * *
88612321 ATGCCATGTCTCAGACATGGTCTTACACTGACACATATCAAGCCGACCCCATGTCCCAGACATGG
1 ATGCCATGTCCCAGACATGGTCTTACATTGACACATATCAAGTCGACGCCATGTCCCAGACATGG
* *
88612386 TCTTACACTAACTCTCATCTATCGGCGCCG
66 TCTTACACTAACTCTCATATATCAGCGCCG
** * * *
88612416 ATGCTGTGTCCCAGTCATGGTCTTACATTGACACATATCAAGTTGATGCCATGTCCCAGACATGG
1 ATGCCATGTCCCAGACATGGTCTTACATTGACACATATCAAGTCGACGCCATGTCCCAGACATGG
*
88612481 TCTTACACTAGCTCTCATAT
66 TCTTACACTAACTCTCATAT
88612501 CTCCCTAGCA
Statistics
Matches: 156, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
94 1 0.01
95 121 0.78
96 7 0.04
97 1 0.01
98 26 0.17
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (95 bp):
ATGCCATGTCCCAGACATGGTCTTACATTGACACATATCAAGTCGACGCCATGTCCCAGACATGG
TCTTACACTAACTCTCATATATCAGCGCCG
Found at i:88617234 original size:26 final size:26
Alignment explanation
Indices: 88617205--88617256 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
88617195 GATAAGCATG
88617205 TTGATAATAATTTGAGTTTAATTAAA
1 TTGATAATAATTTGAGTTTAATTAAA
88617231 TTGATAATAATTTGAGTTTAATTAAA
1 TTGATAATAATTTGAGTTTAATTAAA
88617257 GTAATTGTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (26 bp):
TTGATAATAATTTGAGTTTAATTAAA
Found at i:88632364 original size:55 final size:55
Alignment explanation
Indices: 88632280--88632386 Score: 205
Period size: 55 Copynumber: 1.9 Consensus size: 55
88632270 TGGTTGCTCC
*
88632280 GGCTGGGGTTGTGGTTGCTCCGGTTGTGGGTGTTGAGAGGATGACCTACCTTACA
1 GGCTGGGGTTGTGGTTGCTCCGGTTGTGGGTGTTGAGAGGATAACCTACCTTACA
88632335 GGCTGGGGTTGTGGTTGCTCCGGTTGTGGGTGTTGAGAGGATAACCTACCTT
1 GGCTGGGGTTGTGGTTGCTCCGGTTGTGGGTGTTGAGAGGATAACCTACCTT
88632387 GGTAGAACAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.12, C:0.16, G:0.40, T:0.32
Consensus pattern (55 bp):
GGCTGGGGTTGTGGTTGCTCCGGTTGTGGGTGTTGAGAGGATAACCTACCTTACA
Found at i:88632731 original size:30 final size:30
Alignment explanation
Indices: 88632705--88632762 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
88632695 ATTGGGCTCG
88632705 GTGATTATGTGGGCACTGTCGATGGGCCAA
1 GTGATTATGTGGGCACTGTCGATGGGCCAA
* * *
88632735 GTGATTGTTTGGGCACTGTTGATGGGCC
1 GTGATTATGTGGGCACTGTCGATGGGCC
88632763 CGTACCATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.38, T:0.31
Consensus pattern (30 bp):
GTGATTATGTGGGCACTGTCGATGGGCCAA
Found at i:88633270 original size:7 final size:7
Alignment explanation
Indices: 88633260--88633291 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
88633250 TTATATACAT
88633260 AATACTA
1 AATACTA
88633267 AATACTA
1 AATACTA
88633274 AATACTA
1 AATACTA
88633281 AATACTA
1 AATACTA
88633288 AATA
1 AATA
88633292 TGAAACGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:88634392 original size:13 final size:13
Alignment explanation
Indices: 88634376--88634415 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
88634366 ACATGACCGA
*
88634376 GACACACGATCGT
1 GACACACGGTCGT
* *
88634389 GACACACGGTTGA
1 GACACACGGTCGT
88634402 GACACACGGTCGT
1 GACACACGGTCGT
88634415 G
1 G
88634416 TCTCTACCCG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.30, T:0.15
Consensus pattern (13 bp):
GACACACGGTCGT
Found at i:88638198 original size:28 final size:28
Alignment explanation
Indices: 88638165--88638263 Score: 162
Period size: 28 Copynumber: 3.5 Consensus size: 28
88638155 ATATTAAGTC
* *
88638165 CGCACACTCAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
88638193 CGCACACTTAGTGCTACCTAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
88638221 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
88638249 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88638264 GTACAATTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:88641587 original size:42 final size:47
Alignment explanation
Indices: 88641516--88641622 Score: 111
Period size: 48 Copynumber: 2.4 Consensus size: 47
88641506 CGACGCTATG
* * *
88641516 TCCCAGATGTGGTCGTACACTAAATCTC-A-T-AT-CA-ATGTCATA
1 TCCCAGATATGGTCTTACACTAAATCTCAACTGATGCAGATGCCATA
88641558 TCCCAGATATGGTCTTACA-TGATAA-CTCATACTGATGCAGATGCCATA
1 TCCCAGATATGGTCTTACACT-A-AATCTCA-ACTGATGCAGATGCCATA
88641606 TCCCAGATATGGTCTTA
1 TCCCAGATATGGTCTTA
88641623 TACGGGATCT
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
41 1 0.02
42 21 0.39
43 2 0.04
44 1 0.02
45 1 0.02
46 2 0.04
47 2 0.04
48 24 0.44
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (47 bp):
TCCCAGATATGGTCTTACACTAAATCTCAACTGATGCAGATGCCATA
Found at i:88653645 original size:23 final size:23
Alignment explanation
Indices: 88653594--88653648 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
88653584 TATATCCCAC
* *
88653594 ATGGTATGTTGGGAAGGTTGGAG
1 ATGGTGTGTTGGGAAGGATGGAG
*
88653617 ATGGTGTGTTGGGATGGATGGAG
1 ATGGTGTGTTGGGAAGGATGGAG
88653640 ATGGTGTGT
1 ATGGTGTGT
88653649 AGCAGATGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.18, C:0.00, G:0.49, T:0.33
Consensus pattern (23 bp):
ATGGTGTGTTGGGAAGGATGGAG
Found at i:88662336 original size:31 final size:31
Alignment explanation
Indices: 88662301--88662364 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
88662291 AGACCTTCAA
*
88662301 CTTAGTACTGTATTTTGTGACAGTCAAAGTG
1 CTTAGTACAGTATTTTGTGACAGTCAAAGTG
88662332 CTTAGTACAGTATTTTGTGACAGTCAAAGTG
1 CTTAGTACAGTATTTTGTGACAGTCAAAGTG
88662363 CT
1 CT
88662365 ATCTTCCTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (31 bp):
CTTAGTACAGTATTTTGTGACAGTCAAAGTG
Found at i:88669085 original size:48 final size:48
Alignment explanation
Indices: 88668940--88669170 Score: 215
Period size: 48 Copynumber: 4.9 Consensus size: 48
88668930 CACGTTGTAA
* *
88668940 GATGCCAATGCCATATACCAGATATGGTCTTACATGGGATCACAGATT
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATT
* * * * * ** *
88668988 GAAG-C--TG--ATAGCCCA-ACTATGATCTTACACGATG-TCTTATATA
1 GATGCCAATGCCATATCCCAGA-TATGGTCTTACATG-GGATCACATATT
* *
88669031 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCAAATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATT
* **
88669079 GATGCCAATGCCATGTCCCAGACGTGGTCTTACATGGGATCACATATT
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATT
* * * * *
88669127 GATGCCAATGCCATGTCCTAGACATAGTTTTACATGGGATCACA
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACA
88669171 CATAACCCTA
Statistics
Matches: 147, Mismatches: 27, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
42 1 0.01
43 26 0.18
44 2 0.01
45 2 0.01
46 2 0.01
47 2 0.01
48 111 0.76
49 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATT
Found at i:88672173 original size:42 final size:42
Alignment explanation
Indices: 88672061--88672177 Score: 117
Period size: 43 Copynumber: 2.8 Consensus size: 42
88672051 ACATAAGCTC
* ** *
88672061 TACAATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAA
** * * * * *
88672103 TATTGATGCCACTGTCCTACACAGGGTCTTACATGAAATCATA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAA
*
88672146 TACAATGCCAGTGTCCCAGACATGGTCTTACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACA
88672178 AGTAAGTCAC
Statistics
Matches: 57, Mismatches: 17, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
42 26 0.46
43 31 0.54
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAA
Found at i:88676763 original size:28 final size:26
Alignment explanation
Indices: 88676730--88676826 Score: 113
Period size: 28 Copynumber: 3.5 Consensus size: 26
88676720 ATATTGAGTC
*
88676730 CGCACACTCAGTGCTATATTAATCAACT
1 CGCACACTTAGTGCTA-A-TAATCAACT
* *
88676758 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTA-ATAATCAACT
*
88676785 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTA-ATAATC-AACT
88676813 CGCACACTTAGTGC
1 CGCACACTTAGTGC
88676827 CTGGTCAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 29 0.48
28 32 0.52
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (26 bp):
CGCACACTTAGTGCTAATAATCAACT
Found at i:88676787 original size:27 final size:27
Alignment explanation
Indices: 88676730--88676902 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
88676720 ATATTGAGTC
* * *
88676730 CGCACACTCAGTGCTATATTAATCAACT
1 CGCACACTTAGTGCTACA-TAATCAAAT
*
88676758 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
88676785 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
** *
88676813 CGCACACTTAGTGC--C-TGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
88676837 CGC-CAGCTTAGTAG-TGCAT--TCATTT
1 CGCACA-CTTAGT-GCTACATAATCAAAT
* *
88676862 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
88676889 CGCACACTTA-TGCT
1 CGCACACTTAGTGCT
88676903 GTATAATTTA
Statistics
Matches: 121, Mismatches: 14, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
23 2 0.02
24 11 0.09
25 24 0.20
26 7 0.06
27 47 0.39
28 30 0.25
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:88681208 original size:10 final size:10
Alignment explanation
Indices: 88681173--88681215 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 10
88681163 TGGACTCAAA
88681173 CATAAACATT
1 CATAAACATT
88681183 CATACAAAACCATT
1 CAT---AAA-CATT
88681197 CATAAACATT
1 CATAAACATT
88681207 CATAAACAT
1 CATAAACAT
88681216 GGATCACACA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 16 0.55
11 3 0.10
13 3 0.10
14 7 0.24
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (10 bp):
CATAAACATT
Found at i:88683961 original size:22 final size:22
Alignment explanation
Indices: 88683931--88683972 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
88683921 TATATTAGAA
88683931 TTTACCAAACAACACTCAAATT
1 TTTACCAAACAACACTCAAATT
* *
88683953 TTTAGCAAACAACGCTCAAA
1 TTTACCAAACAACACTCAAA
88683973 AATTTTTGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.26, G:0.05, T:0.24
Consensus pattern (22 bp):
TTTACCAAACAACACTCAAATT
Found at i:88695632 original size:77 final size:81
Alignment explanation
Indices: 88695504--88695686 Score: 243
Period size: 77 Copynumber: 2.3 Consensus size: 81
88695494 GCTACTCGTT
* *
88695504 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
88695568 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
**
88695584 CAAATGCCTTC-GG-CTTAGCCCGGAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
88695646 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
88695662 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
88695687 CATCATTCAA
Statistics
Matches: 91, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
76 3 0.03
77 44 0.48
78 20 0.22
79 13 0.14
80 11 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:88695686 original size:40 final size:40
Alignment explanation
Indices: 88695485--88695686 Score: 245
Period size: 40 Copynumber: 5.1 Consensus size: 40
88695475 CGGAATTTAA
** *
88695485 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
88695525 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
88695565 CCGGATTTAGTAACTCGCACAAATGCCTTC-GG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
88695603 CCGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
88695642 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
88695682 CCGGA
1 CCGGA
88695687 CATCATTCAA
Statistics
Matches: 143, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
37 25 0.17
38 11 0.08
39 14 0.10
40 82 0.57
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:88699574 original size:13 final size:13
Alignment explanation
Indices: 88699556--88699580 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88699546 GAATTGATAT
88699556 GTGTGAAAATTTC
1 GTGTGAAAATTTC
88699569 GTGTGAAAATTT
1 GTGTGAAAATTT
88699581 TATTGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:88702701 original size:26 final size:26
Alignment explanation
Indices: 88702665--88702719 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
88702655 TTCAAATAGG
88702665 TACCTGTACCACTTAAAACATTATTA
1 TACCTGTACCACTTAAAACATTATTA
*
88702691 TACCTGTACCACTTAAAACATTGTTA
1 TACCTGTACCACTTAAAACATTATTA
88702717 TAC
1 TAC
88702720 TTTTCTCGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TACCTGTACCACTTAAAACATTATTA
Found at i:88703042 original size:46 final size:46
Alignment explanation
Indices: 88702812--88703174 Score: 149
Period size: 46 Copynumber: 7.7 Consensus size: 46
88702802 GTTATAATGT
* ** *
88702812 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCCATCAAGT
1 CGATGCCATATCCCAGACAT-GTCTTACACTGGCTTACAT-C-TCGTGC
* * ** ** *
88702859 TGATGCCATGTCCCAGACATGGTCTTACACTAAC-TACCAAAATCGAGGC
1 CGATGCCATATCCCAGACAT-GTCTTACACTGGCTTA-C-ATCTCG-TGC
* * * * *
88702908 TGATGTCATGTCCCAGACAATGTCTTACACTAGCTCTCACATATCCGTGC
1 CGATGCCATATCCCAGAC-ATGTCTTACACTGGCT-T-ACATCT-CGTGC
* * *
88702958 CGATGCCATGTCCCAGACATGGTCTTACATTGAC--ACATCTCGTAGC
1 CGATGCCATATCCCAGACAT-GTCTTACACTGGCTTACATCTCGT-GC
* * * *
88703004 CGATG-CGTATCCCAGACATATCTTACACTGGCTTACATCTCGAGGT
1 CGATGCCATATCCCAGACATGTCTTACACTGGCTTACATCTCG-TGC
* * ** *
88703050 CGATG-CATGTCCCA-AGCATGTCTTACACTAGCTCT-TGTCTCAATGC
1 CGATGCCATATCCCAGA-CATGTCTTACACTGGCT-TACATCTC-GTGC
* * * *
88703096 CGATGCCATGTCCCAAACATGATCTTACACTGGCTCTA-ATAAT-GTGGT
1 CGATGCCATATCCCAGACATG-TCTTACACTGGCT-TACAT-CTCGT-GC
*
88703144 CGAT--CATGTCCCAGACATGTCTTACACTGGC
1 CGATGCCATATCCCAGACATGTCTTACACTGGC
88703175 GCATAAATAA
Statistics
Matches: 253, Mismatches: 40, Indels: 48
0.74 0.12 0.14
Matches are distributed among these distances:
44 10 0.04
45 28 0.11
46 72 0.28
47 47 0.19
48 23 0.09
49 34 0.13
50 34 0.13
51 4 0.02
52 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGACATGTCTTACACTGGCTTACATCTCGTGC
Found at i:88707345 original size:21 final size:21
Alignment explanation
Indices: 88707319--88707373 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
88707309 GAAACAGGGC
88707319 ACACGCCTGTGTGAAACGG-CA
1 ACACGCCTGTGTGAAA-GGACA
88707340 ACACG-CTCGTGTGAAAGGACA
1 ACACGCCT-GTGTGAAAGGACA
* *
88707361 ACACTCTTGTGTG
1 ACACGCCTGTGTG
88707374 GTCATTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 4 0.14
21 24 0.83
22 1 0.03
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.20
Consensus pattern (21 bp):
ACACGCCTGTGTGAAAGGACA
Found at i:88708672 original size:15 final size:15
Alignment explanation
Indices: 88708640--88708668 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
88708630 ATTTTCTATG
88708640 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
88708655 TTTATT-TGTGTGAA
1 TTTATTATGTGTGAA
88708669 ATTTTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:88710056 original size:27 final size:26
Alignment explanation
Indices: 88710008--88710067 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
88709998 GCGAGGCTAC
*
88710008 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
88710035 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
88710061 CAGATAT
1 CAGATAT
88710068 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:88712160 original size:45 final size:45
Alignment explanation
Indices: 88712096--88712262 Score: 244
Period size: 45 Copynumber: 3.7 Consensus size: 45
88712086 AGGACTATGC
* * *
88712096 TATGTGTTTTCGTGTAAGACCACATTTGGGACGTTGGCGTCGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATA
88712141 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATA
* * *
88712186 TATGTGTATTCGTGTAAGACCACGTCTGGGATGTTGGCATTGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATA
* * * *
88712231 TATGTGGTTACGAGTAAGACCATGTCTGGGAC
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGAC
88712263 ATCGGCATTG
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 110 1.00
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.34
Consensus pattern (45 bp):
TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATA
Found at i:88713791 original size:49 final size:50
Alignment explanation
Indices: 88713719--88713847 Score: 165
Period size: 50 Copynumber: 2.6 Consensus size: 50
88713709 TCAAGTCGAT
88713719 GCCATGTCCCAGACATGGTCTTACACTGACTATCA-AAAT-CGTGGCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTATCACAAATCCGT-GCCGAC
* * * * *
88713768 GCCATGTCCCATACATGGTCTTACACT-AGCTCTCACATATCCGTTCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTATCACAAATCCGTGCCGAC
*
88713818 GCCATGTCCCAGACATGGTCTTACCCTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGAC
88713848 ACATCTCGTA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
48 1 0.01
49 31 0.45
50 33 0.48
51 4 0.06
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTATCACAAATCCGTGCCGAC
Found at i:88713834 original size:50 final size:49
Alignment explanation
Indices: 88713715--88714028 Score: 173
Period size: 46 Copynumber: 6.6 Consensus size: 49
88713705 TCCATCAAGT
88713715 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGTGGC
* * * * *
88713764 CGACGCCATGTCCCATACATGGTCTTACACT-AGCTCTCACATATCCGT-TC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCA-AAAT-CGTGGC
* ** *
88713814 CGATGCCATGTCCCAGACATGGTCTTACCCTGAC-A-C-ATCTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGTGGC
** ** * ** * *
88713860 ATATG-CATGTCTTAGACAT-GTCTTACACTGGCT-T-ACATCTCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCA-AAATCGTGGC
* * **
88713906 CGATG-CATGTTCCAGACAT-GTCTTACACTAGCTCTCATCTCAAT-GT---
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACT-ATCAAAATCGTGGC
* *
88713952 CAATGCCATGTCCCAGACATGGTCTTACACTGGATCTA--ATAAT-GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GA-CTATCAAAATCGTGGC
* *
88714000 TGATG-CATGTCCCTGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
88714029 AGCGCACAAA
Statistics
Matches: 205, Mismatches: 40, Indels: 43
0.71 0.14 0.15
Matches are distributed among these distances:
44 11 0.05
45 20 0.10
46 52 0.25
47 28 0.14
48 20 0.10
49 35 0.17
50 35 0.17
51 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGTGGC
Found at i:88729612 original size:41 final size:42
Alignment explanation
Indices: 88729567--88729645 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
88729557 ATAAGAAAAA
* *
88729567 TAATAGATATAATATAAAGT-AACATATAA-AATATATATAAT
1 TAATAAATATAATAT-AAGTGAAAATATAATAATATATATAAT
*
88729608 TAATAAATATAATATATGTGAAAATATAATAATATATA
1 TAATAAATATAATATAAGTGAAAATATAATAATATATA
88729646 AAAGAGATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 3 0.09
41 22 0.67
42 8 0.24
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.35
Consensus pattern (42 bp):
TAATAAATATAATATAAGTGAAAATATAATAATATATATAAT
Found at i:88729648 original size:17 final size:17
Alignment explanation
Indices: 88729565--88729648 Score: 66
Period size: 17 Copynumber: 4.8 Consensus size: 17
88729555 ATATAAGAAA
* *
88729565 AATAATAGATATAATAT
1 AATAATATATAAAATAT
*
88729582 AAAGTAACATATAAAATAT
1 -AA-TAATATATAAAATAT
88729601 ATATAAT-TA-ATAAATAT
1 A-ATAATATATA-AAATAT
*
88729618 AAT-ATATGTGAAAATAT
1 AATAATATAT-AAAATAT
88729635 AATAATATATAAAA
1 AATAATATATAAAA
88729649 GAGATGTAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
15 2 0.04
16 4 0.08
17 22 0.42
18 12 0.23
19 13 0.25
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (17 bp):
AATAATATATAAAATAT
Found at i:88729715 original size:16 final size:16
Alignment explanation
Indices: 88729694--88729732 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
88729684 GATAAGTAGT
88729694 AATAATA-TATAATTAA
1 AATAATACTATAA-TAA
88729710 AATAATACTTATAATAA
1 AATAATAC-TATAATAA
88729727 AATAAT
1 AATAAT
88729733 TTTATAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 9 0.43
18 5 0.24
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
AATAATACTATAATAA
Found at i:88729739 original size:16 final size:17
Alignment explanation
Indices: 88729655--88729741 Score: 58
Period size: 16 Copynumber: 5.1 Consensus size: 17
88729645 AAAAGAGATG
88729655 TAAAATAATA-TT-TAA
1 TAAAATAATACTTATAA
* *
88729670 GAAAAATAATACATGATAA
1 -TAAAATAATAC-TTATAA
*
88729689 GTAGTAATAATA--TATAA
1 -TA-AAATAATACTTATAA
88729706 TTAAAATAATACTTATAA
1 -TAAAATAATACTTATAA
*
88729724 TAAAATAAT-TTTATAA
1 TAAAATAATACTTATAA
88729740 TA
1 TA
88729742 TATTATATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
16 24 0.42
17 15 0.26
18 6 0.11
19 5 0.09
20 7 0.12
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (17 bp):
TAAAATAATACTTATAA
Found at i:88729767 original size:26 final size:27
Alignment explanation
Indices: 88729693--88729767 Score: 73
Period size: 28 Copynumber: 2.8 Consensus size: 27
88729683 TGATAAGTAG
* *
88729693 TAATAATATATAATTAAAATAATACTTA
1 TAATAAAATAAAATTAAAAT-ATACTTA
** *
88729721 TAATAAAATAATTTTATAATATA-TTA
1 TAATAAAATAAAATTAAAATATACTTA
88729747 T-ATAAAAGTAAAATTAAAATA
1 TAATAAAA-TAAAATTAAAATA
88729768 AAACAAATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 6 0.16
26 14 0.37
27 3 0.08
28 15 0.39
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (27 bp):
TAATAAAATAAAATTAAAATATACTTA
Found at i:88729781 original size:41 final size:42
Alignment explanation
Indices: 88729693--88729799 Score: 114
Period size: 41 Copynumber: 2.6 Consensus size: 42
88729683 TGATAAGTAG
* * * * *
88729693 TAATAATATATAAT-TAAAATAATACTTATAATAAAATAATT
1 TAATAATATATTATATAAAATAATAATTAAAATAAAACAATA
*
88729734 TTATAATATATTATATAAAAGTAA-AATTAAAATAAAACAA-A
1 TAATAATATATTATATAAAA-TAATAATTAAAATAAAACAATA
*
88729775 TAATAATATA-TATATAGAATAATAA
1 TAATAATATATTATATAAAATAATAA
88729800 ATATAGGACT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 3 0.05
40 10 0.18
41 21 0.38
42 18 0.33
43 3 0.05
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (42 bp):
TAATAATATATTATATAAAATAATAATTAAAATAAAACAATA
Found at i:88732410 original size:4 final size:4
Alignment explanation
Indices: 88732401--88732434 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
88732391 CCTCTCCATT
88732401 TTTA TTTA TTTA TTTA TTTA -TTA TTTA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
88732435 AAATTCAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 6 0.21
4 22 0.79
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:88743506 original size:15 final size:15
Alignment explanation
Indices: 88743486--88743516 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
88743476 TTTTTAAAAT
*
88743486 AATATATATAATATA
1 AATATAAATAATATA
88743501 AATATAAATAATATA
1 AATATAAATAATATA
88743516 A
1 A
88743517 TTTGCGATAC
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATATAAATAATATA
Found at i:88743577 original size:18 final size:19
Alignment explanation
Indices: 88743532--88743579 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
88743522 GATACATGAT
88743532 ATACATATATATAAAAAACA
1 ATACATA-ATATAAAAAACA
*
88743552 ATAAATAATATAAAAATA-A
1 ATACATAATATAAAAA-ACA
88743571 A-ACATAATA
1 ATACATAATA
88743580 AAGATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 7 0.28
19 11 0.44
20 7 0.28
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (19 bp):
ATACATAATATAAAAAACA
Found at i:88743691 original size:44 final size:42
Alignment explanation
Indices: 88743620--88743701 Score: 103
Period size: 44 Copynumber: 1.9 Consensus size: 42
88743610 TATAAGAAAA
* *
88743620 TAATAGATATAATATAAAGTAACATATAAAATAATATATATAAT
1 TAATAAATATAATATAAAGTAA-A-ATATAATAATATATATAAT
*
88743664 TAATAAATATAATAT-ATGTGAAAATATAATAATATATA
1 TAATAAATATAATATAAAGT-AAAATATAATAATATATA
88743702 AAAGAGATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 14 0.41
43 4 0.12
44 16 0.47
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (42 bp):
TAATAAATATAATATAAAGTAAAATATAATAATATATATAAT
Found at i:88743694 original size:22 final size:22
Alignment explanation
Indices: 88743585--88743701 Score: 73
Period size: 23 Copynumber: 5.3 Consensus size: 22
88743575 TAATAAAGAT
* *
88743585 TATATAAGAAAATGTAATATAAA
1 TATATATGAAAATATAATAT-AA
* *
88743608 CATATAAGAAAATAATAGATATAA
1 TATATATGAAAAT-ATA-ATATAA
* * *
88743632 TATA-AAGTAACATATAAAATAA
1 TATATATG-AAAATATAATATAA
88743654 TATATAT-AATTAATA-AATATAA
1 TATATATGAA--AATATAATATAA
*
88743676 TATATGTGAAAATAT-A-ATAA
1 TATATATGAAAATATAATATAA
88743696 TATATA
1 TATATA
88743702 AAAGAGATGT
Statistics
Matches: 76, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
20 9 0.12
21 7 0.09
22 21 0.28
23 24 0.32
24 11 0.14
25 4 0.05
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (22 bp):
TATATATGAAAATATAATATAA
Found at i:88743771 original size:16 final size:16
Alignment explanation
Indices: 88743750--88743788 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
88743740 GATAAGTAGT
88743750 AATAATA-TATAATTAA
1 AATAATACTATAA-TAA
88743766 AATAATACTTATAATAA
1 AATAATAC-TATAATAA
88743783 AATAAT
1 AATAAT
88743789 TTTATAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 9 0.43
18 5 0.24
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
AATAATACTATAATAA
Found at i:88743795 original size:16 final size:17
Alignment explanation
Indices: 88743711--88743797 Score: 58
Period size: 16 Copynumber: 5.1 Consensus size: 17
88743701 AAAAGAGATG
88743711 TAAAATAATA-TT-TAA
1 TAAAATAATACTTATAA
* *
88743726 GAAAAATAATACATGATAA
1 -TAAAATAATAC-TTATAA
*
88743745 GTAGTAATAATA--TATAA
1 -TA-AAATAATACTTATAA
88743762 TTAAAATAATACTTATAA
1 -TAAAATAATACTTATAA
*
88743780 TAAAATAAT-TTTATAA
1 TAAAATAATACTTATAA
88743796 TA
1 TA
88743798 TATTATATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
16 24 0.42
17 15 0.26
18 6 0.11
19 5 0.09
20 7 0.12
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (17 bp):
TAAAATAATACTTATAA
Found at i:88743823 original size:26 final size:27
Alignment explanation
Indices: 88743749--88743823 Score: 73
Period size: 28 Copynumber: 2.8 Consensus size: 27
88743739 TGATAAGTAG
* *
88743749 TAATAATATATAATTAAAATAATACTTA
1 TAATAAAATAAAATTAAAAT-ATACTTA
** *
88743777 TAATAAAATAATTTTATAATATA-TTA
1 TAATAAAATAAAATTAAAATATACTTA
88743803 T-ATAAAAGTAAAATTAAAATA
1 TAATAAAA-TAAAATTAAAATA
88743824 AAACAAATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 6 0.16
26 14 0.37
27 3 0.08
28 15 0.39
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (27 bp):
TAATAAAATAAAATTAAAATATACTTA
Found at i:88743837 original size:41 final size:42
Alignment explanation
Indices: 88743749--88743855 Score: 114
Period size: 41 Copynumber: 2.6 Consensus size: 42
88743739 TGATAAGTAG
* * * * *
88743749 TAATAATATATAAT-TAAAATAATACTTATAATAAAATAATT
1 TAATAATATATTATATAAAATAATAATTAAAATAAAACAATA
*
88743790 TTATAATATATTATATAAAAGTAA-AATTAAAATAAAACAA-A
1 TAATAATATATTATATAAAA-TAATAATTAAAATAAAACAATA
*
88743831 TAATAATATA-TATATAGAATAATAA
1 TAATAATATATTATATAAAATAATAA
88743856 ATATAGGACT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 3 0.05
40 10 0.18
41 21 0.38
42 18 0.33
43 3 0.05
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (42 bp):
TAATAATATATTATATAAAATAATAATTAAAATAAAACAATA
Found at i:88748709 original size:37 final size:37
Alignment explanation
Indices: 88748667--88748740 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
88748657 AAAGATTGGG
*
88748667 TAGTTGATGTCCATGAAACCAATTAAAAATCCGACTA
1 TAGTTGATGTCCATGAAACCAATTAAAAATCCAACTA
88748704 TAGTTGATGTCCATGAAACCAATTAAAAATCCAACTA
1 TAGTTGATGTCCATGAAACCAATTAAAAATCCAACTA
88748741 AGGCAAGTGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (37 bp):
TAGTTGATGTCCATGAAACCAATTAAAAATCCAACTA
Found at i:88751045 original size:29 final size:28
Alignment explanation
Indices: 88751006--88751061 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
88750996 CTATAATCCG
88751006 AACACTTAATAAAATAAAAAT-ATAACA
1 AACACTTAATAAAATAAAAATCATAACA
88751033 AACACTTAA-AATAATATAACAATCATAAC
1 AACACTTAATAA-AATA-AA-AATCATAAC
88751062 TATTCAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 2 0.08
27 13 0.52
28 2 0.08
29 3 0.12
30 5 0.20
ACGTcount: A:0.62, C:0.14, G:0.00, T:0.23
Consensus pattern (28 bp):
AACACTTAATAAAATAAAAATCATAACA
Found at i:88752919 original size:29 final size:28
Alignment explanation
Indices: 88752873--88752951 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
88752863 ATTTATCATC
*
88752873 TAAATATCT-TATA-ATATAATTA-TAA
1 TAAATATTTATATATATATAATTACTAA
88752898 TAAATTAATTTA-ATATCATAT-ATTACTAA
1 TAAA-T-ATTTATATAT-ATATAATTACTAA
88752927 TAAATATTTATATATATTATAATTA
1 TAAATATTTATATATA-TATAATTA
88752952 AAATCTAAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
25 4 0.09
26 1 0.02
27 12 0.27
28 12 0.27
29 15 0.34
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (28 bp):
TAAATATTTATATATATATAATTACTAA
Found at i:88757426 original size:6 final size:6
Alignment explanation
Indices: 88757417--88757445 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
88757407 AGAATAAGAA
88757417 CAAAAG CAAAAG CAAAAG CAAAAG CAAAA
1 CAAAAG CAAAAG CAAAAG CAAAAG CAAAA
88757446 TAAAACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.17, G:0.14, T:0.00
Consensus pattern (6 bp):
CAAAAG
Found at i:88757917 original size:11 final size:11
Alignment explanation
Indices: 88757901--88757966 Score: 62
Period size: 11 Copynumber: 5.6 Consensus size: 11
88757891 GTAGACCACT
88757901 TTTTTTTTCAA
1 TTTTTTTTCAA
*
88757912 -TTTTTTTGAA
1 TTTTTTTTCAA
88757922 TTTTTTTTCAAAA
1 TTTTTTTTC--AA
*
88757935 GTTGTTTTTTAAA
1 -TT-TTTTTTCAA
88757948 TTTTTTTTCAAA
1 TTTTTTTTC-AA
88757960 TTTTTTT
1 TTTTTTT
88757967 AAGGTAACAA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
10 9 0.20
11 13 0.29
12 11 0.24
13 4 0.09
14 2 0.04
15 6 0.13
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:88760876 original size:20 final size:20
Alignment explanation
Indices: 88760851--88760892 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
88760841 ATTAGAATAT
*
88760851 AAATATTAAATTAAAAACAA
1 AAATATTAAAATAAAAACAA
*
88760871 AAATATTAAAATAAAAATAA
1 AAATATTAAAATAAAAACAA
88760891 AA
1 AA
88760893 GATTGCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATATTAAAATAAAAACAA
Found at i:88767581 original size:40 final size:40
Alignment explanation
Indices: 88767526--88767743 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
88767516 TGGATGATAA
* *
88767526 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
88767566 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
88767606 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
88767646 CTGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
88767686 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
88767726 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
88767744 TACTTGGTTG
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 17 0.10
40 147 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:88774420 original size:40 final size:40
Alignment explanation
Indices: 88774375--88774567 Score: 248
Period size: 40 Copynumber: 4.8 Consensus size: 40
88774365 CTAAGATCCG
*
88774375 AAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTCCCA
1 AAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCA
* *
88774415 AAGGCATTTATGCTAGTGACTATATTCGGGCTAAGTCCCA
1 AAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCA
* * * *
88774455 AAGGCATTTGTGCTAGCGACCATATCTGGGCTAAGTCCCG
1 AAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCA
* * *
88774495 AAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCG
1 AAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCA
*
88774535 AAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAA
1 AAGGCATTTGTGCTAG-TGACTATATCCGGGCTAA
88774568 ATCTCGAAGA
Statistics
Matches: 135, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 8 0.06
40 125 0.93
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
AAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCA
Found at i:88774560 original size:80 final size:80
Alignment explanation
Indices: 88774360--88774567 Score: 303
Period size: 80 Copynumber: 2.6 Consensus size: 80
88774350 CGGATGATAA
* *
88774360 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCAAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCAAAGGCATTTA
88774425 TGCTAGTGACTATAT
66 TGCTAGTGACTATAT
* * * * * * * *
88774440 TCGGGCTAAGTCCCAAAGGCATTTGTGCTAG-CGACCATATCTGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTCCCAAAGGCATTT
88774504 ATGCTAGTGACTATAT
65 ATGCTAGTGACTATAT
88774520 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAA
88774568 ATCTCGAAGA
Statistics
Matches: 109, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 7 0.06
80 101 0.93
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCAAAGGCATTTA
TGCTAGTGACTATAT
Found at i:88777456 original size:18 final size:18
Alignment explanation
Indices: 88777433--88777476 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
88777423 TATATATGTG
88777433 AGACTTTAGCATCCAGTA
1 AGACTTTAGCATCCAGTA
88777451 AGACTTTAGCATCCAGTA
1 AGACTTTAGCATCCAGTA
88777469 AGACTTTA
1 AGACTTTA
88777477 CCTGTTGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (18 bp):
AGACTTTAGCATCCAGTA
Found at i:88784671 original size:28 final size:28
Alignment explanation
Indices: 88784633--88784721 Score: 151
Period size: 28 Copynumber: 3.2 Consensus size: 28
88784623 TACTAGAATA
88784633 CCCTATGTATGCAAAATTACCATTATAC
1 CCCTATGTATGCAAAATTACCATTATAC
88784661 CCCTATGTATGCAAAATTACCATTATAC
1 CCCTATGTATGCAAAATTACCATTATAC
* * *
88784689 CCCTATGTATGCAAAATGAGCTTTATAC
1 CCCTATGTATGCAAAATTACCATTATAC
88784717 CCCTA
1 CCCTA
88784722 GGGTTAATTC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (28 bp):
CCCTATGTATGCAAAATTACCATTATAC
Found at i:88784885 original size:27 final size:27
Alignment explanation
Indices: 88784827--88784916 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
88784817 AGGAAGCGTC
88784827 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
88784855 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
88784882 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
88784911 CTGGTG
1 CTGGTG
88784917 AATCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:88784927 original size:29 final size:28
Alignment explanation
Indices: 88784837--88784916 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 28
88784827 CTGGTGGCTA
* **
88784837 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGGAAC
* *
88784865 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGGAAC
88784892 TGCCACAAAATATCTGTATCTGGTG
1 TGCCACAAAATATCTGT-TCTGGTG
88784917 AATCTGTCAC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
27 24 0.52
28 15 0.33
29 7 0.15
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGGAAC
Found at i:88784935 original size:55 final size:56
Alignment explanation
Indices: 88784827--88784941 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
88784817 AGGAAGCGTC
* **
88784827 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGAACCTGCCACATATATCTGTAT
* * *
88784882 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGAATCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGAACCTGCCACATATATCTGTAT
88784938 CTGG
1 CTGG
88784942 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGAACCTGCCACATATATCTGTAT
Found at i:88785403 original size:19 final size:19
Alignment explanation
Indices: 88785379--88785417 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
88785369 TTTTAATTAT
* *
88785379 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
88785398 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
88785417 T
1 T
88785418 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:88786030 original size:11 final size:10
Alignment explanation
Indices: 88786002--88786035 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
88785992 AGCCTGTAAG
88786002 TATTCTGAAT
1 TATTCTGAAT
*
88786012 TTTTCTGAAT
1 TATTCTGAAT
88786022 ATATTCTGAAT
1 -TATTCTGAAT
88786033 TAT
1 TAT
88786036 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:88792558 original size:28 final size:28
Alignment explanation
Indices: 88792518--88792610 Score: 141
Period size: 28 Copynumber: 3.3 Consensus size: 28
88792508 ATGTACTAGA
88792518 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* *
88792546 ATACCCCTGTGTATGTAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* * *
88792574 ATACCCCTATGTATGCAAAATGAGCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
88792602 ATACCCCTA
1 ATACCCCTA
88792611 GGGTTAATTC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:88792758 original size:27 final size:29
Alignment explanation
Indices: 88792716--88792777 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 29
88792706 AGGAAGCGTC
* *
88792716 CTGGTGGCCCTACCAC-ATATATCTGT-T
1 CTGGTGGCACTACCACAAAATATCTGTAT
*
88792743 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTACCACAAAATATCTGTAT
88792772 CTGGTG
1 CTGGTG
88792778 ACTCTGTCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 14 0.47
28 9 0.30
29 7 0.23
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.31
Consensus pattern (29 bp):
CTGGTGGCACTACCACAAAATATCTGTAT
Found at i:88792788 original size:29 final size:28
Alignment explanation
Indices: 88792734--88792788 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
88792724 CCTACCACAT
*
88792734 ATATCTGTTCTGGTGGCACTGCCACAAA
1 ATATCTGTTCTGGTGACACTGCCACAAA
* *
88792762 ATATCTGTATCTGGTGACTCTGTCACA
1 ATATCTGT-TCTGGTGACACTGCCACA
88792789 TTTTCTGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (28 bp):
ATATCTGTTCTGGTGACACTGCCACAAA
Found at i:88793265 original size:19 final size:19
Alignment explanation
Indices: 88793241--88793279 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
88793231 TTTTAATTAT
* *
88793241 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
88793260 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
88793279 T
1 T
88793280 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:88797821 original size:21 final size:21
Alignment explanation
Indices: 88797775--88797821 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
88797765 CAATTTATAA
88797775 ATTAAAATCTAAACTAAACAC
1 ATTAAAATCTAAACTAAACAC
88797796 A-TAAAAGGTCTAAA-TAAA-AC
1 ATTAAAA--TCTAAACTAAACAC
88797816 ATTAAA
1 ATTAAA
88797822 TAAGAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 8 0.35
21 9 0.39
22 6 0.26
ACGTcount: A:0.60, C:0.13, G:0.04, T:0.23
Consensus pattern (21 bp):
ATTAAAATCTAAACTAAACAC
Found at i:88798036 original size:22 final size:22
Alignment explanation
Indices: 88798011--88798052 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
88798001 AAAACAGAGA
* *
88798011 ATATCAGATATAGATGCAGAAC
1 ATATCAGATACAGATACAGAAC
88798033 ATATCAGATACAGATACAGA
1 ATATCAGATACAGATACAGA
88798053 TTTCTACCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (22 bp):
ATATCAGATACAGATACAGAAC
Found at i:88808959 original size:16 final size:15
Alignment explanation
Indices: 88808935--88808977 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
88808925 TAAAAGTCCT
88808935 TTTCATCCTCTATTTA
1 TTTCATCCTCT-TTTA
*
88808951 TTTCTTCCTCTTTTA
1 TTTCATCCTCTTTTA
88808966 TTT--TCCTCTTTT
1 TTTCATCCTCTTTT
88808978 CTCTCTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 9 0.35
15 7 0.27
16 10 0.38
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTCATCCTCTTTTA
Found at i:88808973 original size:13 final size:15
Alignment explanation
Indices: 88808935--88808977 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 15
88808925 TAAAAGTCCT
*
88808935 TTTCATCCTCTATTTA
1 TTTCTTCCTCT-TTTA
88808951 TTTCTTCCTCTTTTA
1 TTTCTTCCTCTTTTA
88808966 -TT-TTCCTCTTTT
1 TTTCTTCCTCTTTT
88808978 CTCTCTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 10 0.38
14 2 0.08
15 4 0.15
16 10 0.38
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTCTTCCTCTTTTA
Found at i:88810414 original size:27 final size:27
Alignment explanation
Indices: 88810376--88810506 Score: 178
Period size: 27 Copynumber: 4.9 Consensus size: 27
88810366 CACTAGATAT
*
88810376 AGATAT-TGTGGCAAAGCCACCAGAAC
1 AGATATATGTGGCAGAGCCACCAGAAC
*
88810402 AGATATATGTGGCAGAGCCACCAGATC
1 AGATATATGTGGCAGAGCCACCAGAAC
*
88810429 AGATA-ATCGTGGCATAGCCACCAGAAC
1 AGATATAT-GTGGCAGAGCCACCAGAAC
*
88810456 AGATATATGTGGCAGAGCCACCAGATC
1 AGATATATGTGGCAGAGCCACCAGAAC
*
88810483 AGATA-ATTGTGGCATAGCCACCAG
1 AGATATA-TGTGGCAGAGCCACCAG
88810507 GACGCTTCCT
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
26 9 0.10
27 83 0.88
28 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
AGATATATGTGGCAGAGCCACCAGAAC
Found at i:88810449 original size:54 final size:54
Alignment explanation
Indices: 88810383--88810506 Score: 230
Period size: 54 Copynumber: 2.3 Consensus size: 54
88810373 TATAGATATT
*
88810383 GTGGCAAAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATC
1 GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATC
*
88810437 GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATT
1 GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATC
88810491 GTGGCATAGCCACCAG
1 GTGGCATAGCCACCAG
88810507 GACGCTTCCT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.35, C:0.24, G:0.25, T:0.16
Consensus pattern (54 bp):
GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATC
Found at i:88812152 original size:26 final size:26
Alignment explanation
Indices: 88812121--88812228 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
88812111 TGAAATGCCC
*
88812121 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
88812147 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
88812173 ATCATGGAATATTTACTTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
88812199 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
88812225 ATCA
1 ATCA
88812229 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:88813169 original size:47 final size:48
Alignment explanation
Indices: 88813073--88813181 Score: 157
Period size: 47 Copynumber: 2.3 Consensus size: 48
88813063 TTGGCAGTTT
* *
88813073 ATCCACAACGTATTTTAGTCAGCAGTTTATCTACTCGACTAGTGGTTC
1 ATCCACAACGTATTTTAGTCAACAGTTCATCTACTCGACTAGTGGTTC
* * *
88813121 ATCTACAACGTATTTTAGTCAATAG-TCATCTGCTCGACTAGTGGTTC
1 ATCCACAACGTATTTTAGTCAACAGTTCATCTACTCGACTAGTGGTTC
*
88813168 ATCCACAATGTATT
1 ATCCACAACGTATT
88813182 AAGCAACTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 32 0.59
48 22 0.41
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (48 bp):
ATCCACAACGTATTTTAGTCAACAGTTCATCTACTCGACTAGTGGTTC
Found at i:88813303 original size:93 final size:94
Alignment explanation
Indices: 88813148--88813319 Score: 224
Period size: 93 Copynumber: 1.8 Consensus size: 94
88813138 GTCAATAGTC
* * * **
88813148 ATCTGCTCGACTAGTGGTTCATCCACAATGTATTAAGCAACTTTTATCTGCACCCATGGATGGT-
1 ATCTGCTCGACTAGTGGTTCATCCACAACGTATTAAGCAACTTTTATCTGAACACACAGATGGTC
*
88813212 TCATCCAGCAATATTTTTAGTCGTCAGTTT
66 T-ATCCACCAATATTTTTAGTCGTCAGTTT
* * *
88813242 ATCTGCAT-GACTAGTGGTTCATCCACAACGTATT-AGCAACTTTTATCTTAATAGACAGATGGT
1 ATCTGC-TCGACTAGTGGTTCATCCACAACGTATTAAGCAACTTTTATCTGAACACACAGATGGT
88813305 CTATCCACCAATATT
65 CTATCCACCAATATT
88813320 ATTATCTTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
93 34 0.51
94 32 0.48
95 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (94 bp):
ATCTGCTCGACTAGTGGTTCATCCACAACGTATTAAGCAACTTTTATCTGAACACACAGATGGTC
TATCCACCAATATTTTTAGTCGTCAGTTT
Found at i:88817417 original size:20 final size:19
Alignment explanation
Indices: 88817390--88817427 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
88817380 TATACATTTT
88817390 TAAAAT-AATATATATAATA
1 TAAAATAAATA-ATATAATA
88817409 TAAACATAAATAATATAAT
1 TAAA-ATAAATAATATAAT
88817428 TTGCGATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAAATAAATAATATAATA
Found at i:88817646 original size:3 final size:3
Alignment explanation
Indices: 88817640--88817705 Score: 55
Period size: 3 Copynumber: 21.0 Consensus size: 3
88817630 ATTTAAGAAA
88817640 AAT AAT ACAT AAT ACAT AAT AAGT AAT AAT AAT ATAT AATT AA- AAT
1 AAT AAT A-AT AAT A-AT AAT AA-T AAT AAT AAT A-AT AA-T AAT AAT
* *
88817686 AAT ACT TAT AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT
88817706 TTTATAATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
2 4 0.08
3 33 0.63
4 15 0.29
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:88817653 original size:7 final size:6
Alignment explanation
Indices: 88817640--88817705 Score: 55
Period size: 7 Copynumber: 10.5 Consensus size: 6
88817630 ATTTAAGAAA
*
88817640 AATAAT ACATAAT ACATAAT AAGTAAT AATAAT ATATAATT AA-AAT AATACT
1 AATAAT A-ATAAT A-ATAAT AA-TAAT AATAAT A-ATAA-T AATAAT AATAAT
*
88817692 TATAAT AA-AAT AAT
1 AATAAT AATAAT AAT
88817706 TTTATAATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
5 8 0.16
6 16 0.32
7 24 0.48
8 2 0.04
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.33
Consensus pattern (6 bp):
AATAAT
Found at i:88817688 original size:16 final size:16
Alignment explanation
Indices: 88817648--88817705 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 16
88817638 AAAATAATAC
88817648 ATAATACATAATAAGTAATA
1 ATAATAC-T-ATAA-TAA-A
88817668 ATAATA-TATAATTAAA
1 ATAATACTATAA-TAAA
88817684 ATAATACTTATAATAAA
1 ATAATAC-TATAATAAA
88817701 ATAAT
1 ATAAT
88817706 TTTATAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
16 7 0.20
17 16 0.46
18 6 0.17
20 6 0.17
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.34
Consensus pattern (16 bp):
ATAATACTATAATAAA
Found at i:88817704 original size:43 final size:43
Alignment explanation
Indices: 88817620--88817763 Score: 111
Period size: 43 Copynumber: 3.4 Consensus size: 43
88817610 TAAAAGAGAT
* **
88817620 GTAA-AATAATATTTAAGAAAAATAATAC--ATAATACATAATAA
1 GTAATAATAATATATAATTAAAATAATACTTATAATA-A-AATAA
88817662 GTAATAATAATATATAATTAAAATAATACTTATAATAAAATAA
1 GTAATAATAATATATAATTAAAATAATACTTATAATAAAATAA
* * * * **
88817705 -T-TTTATAATATATAATATAAAAGTAA-AATTAAAATAAAGCAA
1 GTAATAATAATATATAAT-TAAAA-TAATACTTATAATAAAATAA
*
88817747 ATAATAATATATATATA
1 GTAATAATA-ATATATA
88817764 TAGAATAATA
Statistics
Matches: 83, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
41 13 0.16
42 22 0.27
43 30 0.36
44 5 0.06
45 13 0.16
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (43 bp):
GTAATAATAATATATAATTAAAATAATACTTATAATAAAATAA
Found at i:88817712 original size:16 final size:17
Alignment explanation
Indices: 88817664--88817714 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
88817654 CATAATAAGT
*
88817664 AATAATAATATATAATTAA
1 AATAATACT-TATAA-TAA
88817683 AATAATACTTATAATAA
1 AATAATACTTATAATAA
*
88817700 AATAAT-TTTATAATA
1 AATAATACTTATAATA
88817715 TATAATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 8 0.27
17 9 0.30
18 5 0.17
19 8 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
AATAATACTTATAATAA
Found at i:88817720 original size:7 final size:7
Alignment explanation
Indices: 88817641--88817723 Score: 50
Period size: 7 Copynumber: 12.1 Consensus size: 7
88817631 TTTAAGAAAA
*
88817641 ATAATAC
1 ATAATAT
*
88817648 ATAATAC
1 ATAATAT
88817655 ATAATA-
1 ATAATAT
88817661 AGTAATA-
1 A-TAATAT
88817668 ATAATAT
1 ATAATAT
88817675 ATAAT-T
1 ATAATAT
*
88817681 AAAATA-
1 ATAATAT
*
88817687 ATACT-T
1 ATAATAT
*
88817693 ATAATAAA
1 ATAAT-AT
*
88817701 ATAATTTT
1 ATAA-TAT
88817709 ATAATAT
1 ATAATAT
88817716 ATAATAT
1 ATAATAT
88817723 A
1 A
88817724 AAAGTAAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
6 18 0.30
7 34 0.56
8 8 0.13
9 1 0.02
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (7 bp):
ATAATAT
Found at i:88817754 original size:41 final size:41
Alignment explanation
Indices: 88817664--88817774 Score: 118
Period size: 41 Copynumber: 2.7 Consensus size: 41
88817654 CATAATAAGT
* * *
88817664 AATAATAATATATAAT-TAAAATAATACTTATAATAAAATA
1 AATAATAATATATAATATAAAATAATAATTAAAATAAAACA
* * *
88817704 ATTTTATAATATATAATATAAAAGTAA-AATTAAAATAAAGCA
1 A-ATAATAATATATAATATAAAA-TAATAATTAAAATAAAACA
*
88817746 AATAATAATATATATATATAGAATAATAA
1 AATAATAATATATA-ATATAAAATAATAA
88817775 ATATAGGACT
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
40 1 0.02
41 27 0.47
42 26 0.46
43 3 0.05
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (41 bp):
AATAATAATATATAATATAAAATAATAATTAAAATAAAACA
Found at i:88819991 original size:119 final size:119
Alignment explanation
Indices: 88819406--88819983 Score: 944
Period size: 119 Copynumber: 4.9 Consensus size: 119
88819396 TAAGAACATT
* * * *
88819406 TGAGAGTCATAA-CTGCAATATCCTCGATTTGTTCCTTATAAACACAAGAATACCAAATCATCTT
1 TGAGAGTCA-AATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTT
* * * *
88819470 GGATCTGTTTCAGTATAAAAATCTGAAGGTTAGATCTGTTGTATTTGAGAACGTC
65 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGTC
* *
88819525 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAATACAAGAATACCAAATCATCTTG
1 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTG
*
88819590 GATCTGCTACAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGTC
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGTC
88819644 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTG
1 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTG
88819709 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGTC
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGTC
88819763 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTG
1 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTG
* *
88819828 GATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTATCTTTGAGAACGTC
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGTC
* * *
88819882 TGAGAGTCAAATCTGTTATGTCATCGACTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTG
1 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTG
** **
88819947 GATCTGCTTCAACATAAATGTCTGAA-GTCTAGATCTG
66 GATCTGCTTCAGTATAAACATCTGAAGGT-TAGATCTG
88819984 TTGTCTTTAA
Statistics
Matches: 435, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
118 4 0.01
119 431 0.99
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (119 bp):
TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTG
GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGTC
Found at i:88831848 original size:20 final size:19
Alignment explanation
Indices: 88831821--88831858 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
88831811 TATACATTTT
88831821 TAAAAT-AATATATATAATA
1 TAAAATAAATA-ATATAATA
88831840 TAAACATAAATAATATAAT
1 TAAA-ATAAATAATATAAT
88831859 TTGCGATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAAATAAATAATATAATA
Found at i:88832109 original size:33 final size:34
Alignment explanation
Indices: 88832053--88832118 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 34
88832043 AGAGATGTAA
*
88832053 AATAATATTTAAGAAAAACAATAC-ATAATAAGT
1 AATAATATATAAGAAAAACAATACTATAATAAGT
** *
88832086 AATAATATATAATTAAAATAATACTTATAATAA
1 AATAATATATAAGAAAAACAATAC-TATAATAA
88832119 AATAATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 20 0.74
35 7 0.26
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (34 bp):
AATAATATATAAGAAAAACAATACTATAATAAGT
Found at i:88832123 original size:33 final size:31
Alignment explanation
Indices: 88832050--88832124 Score: 78
Period size: 33 Copynumber: 2.3 Consensus size: 31
88832040 AAAAGAGATG
*
88832050 TAAAATAATATTTAAGAAAAACAATACATAA
1 TAAAATAATATATAAGAAAAACAATACATAA
** *
88832081 TAAGTAATAATATATAATTAAAATAATACTTATAA
1 TAA--AATAATATATAAGAAAAACAATAC--ATAA
88832116 TAAAATAAT
1 TAAAATAAT
88832125 TTTATAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
31 3 0.08
33 26 0.72
35 7 0.19
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (31 bp):
TAAAATAATATATAAGAAAAACAATACATAA
Found at i:88832131 original size:16 final size:17
Alignment explanation
Indices: 88832093--88832133 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
88832083 AGTAATAATA
88832093 TATAATTAAAATAATACT
1 TATAA-TAAAATAATACT
*
88832111 TATAATAAAATAAT-TT
1 TATAATAAAATAATACT
88832127 TATAATA
1 TATAATA
88832134 TATAATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 9 0.41
18 5 0.23
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TATAATAAAATAATACT
Found at i:88832688 original size:8 final size:8
Alignment explanation
Indices: 88832675--88832699 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
88832665 ACACGCCGGT
88832675 CCACGCGC
1 CCACGCGC
88832683 CCACGCGC
1 CCACGCGC
88832691 CCACGCGC
1 CCACGCGC
88832699 C
1 C
88832700 GCCCTAAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.64, G:0.24, T:0.00
Consensus pattern (8 bp):
CCACGCGC
Found at i:88836810 original size:12 final size:12
Alignment explanation
Indices: 88836793--88836821 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
88836783 ATACACGGCT
88836793 GTGTGGTAGGCC
1 GTGTGGTAGGCC
88836805 GTGTGGTAGGCC
1 GTGTGGTAGGCC
88836817 GTGTG
1 GTGTG
88836822 TGATTTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.14, G:0.52, T:0.28
Consensus pattern (12 bp):
GTGTGGTAGGCC
Found at i:88836822 original size:14 final size:13
Alignment explanation
Indices: 88836791--88836823 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
88836781 TAATACACGG
88836791 CTGTGTGGTAGGC
1 CTGTGTGGTAGGC
88836804 C-GTGTGGTAGGC
1 CTGTGTGGTAGGC
88836816 CGTGTGTG
1 C-TGTGTG
88836824 ATTTTGTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.67
13 1 0.06
14 5 0.28
ACGTcount: A:0.06, C:0.15, G:0.48, T:0.30
Consensus pattern (13 bp):
CTGTGTGGTAGGC
Found at i:88837486 original size:5 final size:5
Alignment explanation
Indices: 88837480--88837678 Score: 326
Period size: 5 Copynumber: 39.8 Consensus size: 5
88837470 TAGGACATGT
* *
88837480 TATGT TATGT TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
88837530 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
88837580 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
* * * * * *
88837630 TATAA TATGA TATGT TATGA TATGA TACGT TGTGA TATGA TAAGA TATG
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATG
88837679 TTCTAGTATG
Statistics
Matches: 181, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 181 1.00
ACGTcount: A:0.38, C:0.01, G:0.20, T:0.41
Consensus pattern (5 bp):
TATGA
Found at i:88846374 original size:42 final size:42
Alignment explanation
Indices: 88846327--88846410 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
88846317 ACAATAAAAA
* *
88846327 GATAGTAATTACTCGTACTTTTAGTCCTTATGGATACGATAT
1 GATAGTAATTACTAGTACTTTTAGTCCTCATGGATACGATAT
*
88846369 GATAGTAATTACTAGTACTTTTAGTCCTCGTGGATACGATAT
1 GATAGTAATTACTAGTACTTTTAGTCCTCATGGATACGATAT
88846411 TTTCGGTCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (42 bp):
GATAGTAATTACTAGTACTTTTAGTCCTCATGGATACGATAT
Found at i:88849720 original size:47 final size:47
Alignment explanation
Indices: 88849662--88849900 Score: 379
Period size: 47 Copynumber: 5.1 Consensus size: 47
88849652 TTAGGATTTT
* *
88849662 AATGCGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
88849709 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
88849756 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
* * *
88849803 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
** * * * *
88849850 AATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
88849897 AATG
1 AATG
88849901 CGAAATGTGT
Statistics
Matches: 183, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 183 1.00
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.25
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
Found at i:88849784 original size:23 final size:23
Alignment explanation
Indices: 88849710--88849784 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
88849700 CGAATGGCCA
88849710 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
88849733 ATGTGCGAT-AAGGCCG-A-ATGGCCA
1 ATGT--GATGAATG-TGAACAT-GCGT
88849757 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
88849780 ATGTG
1 ATGTG
88849785 CGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 17 0.46
24 12 0.32
25 4 0.11
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.27
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:88849978 original size:46 final size:46
Alignment explanation
Indices: 88849874--88849992 Score: 148
Period size: 46 Copynumber: 2.6 Consensus size: 46
88849864 GAACATGTAT
* * *
88849874 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGTTAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATAG
* * * * *
88849920 ATATGAGATAAAGCCGAATCGCTAATGCGAAACGTGTTTGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATAG
* *
88849966 ATATGTGGTAAAGACAAATGGCTAATG
1 ATATGTGGTAAAGCCGAATGGCTAATG
88849993 TAAGATATGT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATAG
Found at i:88860110 original size:30 final size:30
Alignment explanation
Indices: 88860076--88860133 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
88860066 AATTTCTAGC
* *
88860076 TTAGGGGTAAAATGGTCAATTTGCCAAAAT
1 TTAGGGGAAAAATGGTCAATTTACCAAAAT
*
88860106 TTAGGGGAAAAATGGTCATTTTACCAAA
1 TTAGGGGAAAAATGGTCAATTTACCAAA
88860134 GATGTGAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.29
Consensus pattern (30 bp):
TTAGGGGAAAAATGGTCAATTTACCAAAAT
Found at i:88860589 original size:48 final size:46
Alignment explanation
Indices: 88860478--88860603 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 46
88860468 CTTGTGTGTT
*
88860478 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGAGAGCC
* * *
88860524 AGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAGAGA-ATGAGCGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACA-ATATGAGAGCC
* * *
88860573 AGTGTAAGACGTGTCTGGGAAACGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
88860604 TAAGAGTTGT
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
46 9 0.13
47 22 0.32
48 19 0.28
49 18 0.26
50 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.32, T:0.20
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGAGAGCC
Done.