Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 83 of 221
Found at i:24838694 original size:45 final size:45
Alignment explanation
Indices: 24838626--24838719 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
24838616 AACAGATACT
* *
24838626 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGATTCAGCACATACCAACCACCTTACTAATCAATGATGTC
*
24838671 CGGTGGATTCAGCACATACCAACCACCTTACTAATCAATGATGTT
1 CGGTGGATTCAGCACATACCAACCACCTTACTAATCAATGATGTC
24838716 CGGT
1 CGGT
24838720 TCACATAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (45 bp):
CGGTGGATTCAGCACATACCAACCACCTTACTAATCAATGATGTC
Found at i:24838784 original size:51 final size:50
Alignment explanation
Indices: 24838716--24838911 Score: 232
Period size: 51 Copynumber: 3.9 Consensus size: 50
24838706 CAATGATGTT
* * *
24838716 CGGTTCACATAGTAGCCTGCACATGGTACTACACATGTGACCATTACCATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * * * *
24838767 TGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACAATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
* * * * *
24838818 CGGTACCCATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
24838868 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
24838912 CACTTTCACT
Statistics
Matches: 118, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
49 2 0.02
50 41 0.35
51 73 0.62
52 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (50 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:24838899 original size:101 final size:101
Alignment explanation
Indices: 24838723--24838907 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
24838713 GTTCGGTTCA
* * * * *
24838723 CATAGTAGCCTGCACATGGTACTACACATGTGACCATTACCATCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TACCATCCGATACACATAGTAGCCTGCA
24838788 CATAGTACTACACACGTGATCGAAACAATCCGGTACC
65 CATAGTACTACACACGTGATCGAAACAATCCGGTACC
* *
24838825 CATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCCGGTACACATAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATACCA-TCCGATACACATAGTAGCCTGCA
24838889 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
24838908 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.52
102 32 0.43
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCCGATACACATAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACAATCCGGTACC
Found at i:24843583 original size:28 final size:28
Alignment explanation
Indices: 24843520--24843757 Score: 379
Period size: 28 Copynumber: 8.5 Consensus size: 28
24843510 ATATTAAGTC
*
24843520 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
24843547 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
24843575 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
24843603 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
24843631 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
24843659 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
24843687 CGTACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
24843715 TGCACACTTAGTGCTATACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
24843744 CGCACACTTAGTGC
1 CGCACACTTAGTGC
24843758 CAATCTCATG
Statistics
Matches: 195, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
27 22 0.11
28 155 0.79
29 18 0.09
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:24846495 original size:40 final size:40
Alignment explanation
Indices: 24846450--24846758 Score: 546
Period size: 40 Copynumber: 7.7 Consensus size: 40
24846440 GCAAACACAT
* *
24846450 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* * *
24846490 TTGCCTTCGGGTCTTAGCCCGGACATATCATCTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* *
24846530 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
24846570 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
24846610 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
24846650 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
24846690 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
*
24846730 TTGCCTTCGGGTCTTAGCCCGGATATATC
1 TTGCCTTCGGGTCATAGCCCGGATATATC
24846759 CCAATGCTCA
Statistics
Matches: 264, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 264 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
Found at i:24855173 original size:40 final size:40
Alignment explanation
Indices: 24855128--24855436 Score: 546
Period size: 40 Copynumber: 7.7 Consensus size: 40
24855118 GCAAACACAT
* *
24855128 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* * *
24855168 TTGCCTTCGGGTCTTAGCCCGGACATATCATCTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* *
24855208 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
24855248 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
24855288 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
24855328 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
24855368 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
*
24855408 TTGCCTTCGGGTCTTAGCCCGGATATATC
1 TTGCCTTCGGGTCATAGCCCGGATATATC
24855437 CCAATGCTCA
Statistics
Matches: 264, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 264 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
Found at i:24858707 original size:18 final size:19
Alignment explanation
Indices: 24858686--24858732 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
24858676 AATTTATTTT
24858686 TTTTAAAAAATTA-TAAAA
1 TTTTAAAAAATTATTAAAA
*
24858704 TTTTGAAAAATTATTAAAA
1 TTTTAAAAAATTATTAAAA
24858723 TTTATAAAAA
1 TTT-TAAAAA
24858733 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.48
19 8 0.32
20 5 0.20
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
TTTTAAAAAATTATTAAAA
Found at i:24858733 original size:19 final size:18
Alignment explanation
Indices: 24858687--24858733 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
24858677 ATTTATTTTT
24858687 TTTA-AAAAATTATAAAA
1 TTTATAAAAATTATAAAA
24858704 TTT-TGAAAAATTATTAAAA
1 TTTAT-AAAAATTA-TAAAA
24858723 TTTATAAAAAT
1 TTTATAAAAAT
24858734 AAAAAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.12
18 8 0.31
19 14 0.54
20 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
TTTATAAAAATTATAAAA
Found at i:24859828 original size:103 final size:99
Alignment explanation
Indices: 24859645--24860288 Score: 705
Period size: 103 Copynumber: 6.3 Consensus size: 99
24859635 AATTGTTGTT
* * * * * *
24859645 TTTTGTGATTTTTTTATTAATGTAAATTAAAAAATAATTATTTTATAATTATTTTGTTAGTAGTT
1 TTTTGTGA-TTTTTTAGTAATGTAATTTTAAAAA-AATAATTTTAT-ATTATTTTATTAGTAATT
*
24859710 TAAGATTAGGT-TATAAATTGTTAGTG-T-TTT-GTG
63 TATGATTAGGTATATAAATTGTTAGTGTTATTTAGTG
* * * *
24859743 TTTTGTTATTTTTTAGTAATGTATTTTCTTTTAAAAAAATGTTATATTTAT-TTATTTTCTTAGT
1 TTTTGTGATTTTTTAGTAATGTA----ATTTTAAAAAAA--TAAT-TTTATATTATTTTATTAGT
*
24859807 AATTTATGGGATTAGGT-TATAAATTGTTAGTGTTTAGTTTAGGG
59 AATTTAT--GATTAGGTATATAAATTGTTAGTG-TTA-TTTAGTG
24859851 TTTTGTGATTTTTTAGTAATGTAATTTTAAAAAAATAATTTTATAGTTATTTTATTAGTAATTTA
1 TTTTGTGATTTTTTAGTAATGTAATTTTAAAAAAATAATTTTATA-TTATTTTATTAGTAATTTA
* *
24859916 TGATTGGGTTATATAAATTGTTAGTGTTTAGTTTAGAG
65 TGATTAGG-TATATAAATTGTTAGTG-TTA-TTTAGTG
*
24859954 TTTTGTGATTTTTTAGTAATGTAATTTTAAAAAAATAATTTTATAGTTATTTTTTTAGTAATTTA
1 TTTTGTGATTTTTTAGTAATGTAATTTTAAAAAAATAATTTTATA-TTATTTTATTAGTAATTTA
24860019 TGATTAGGTTATATAAATTGTTAGTGTTTATTTTAGTG
65 TGATTAGG-TATATAAATTGTTAGTG-TTA-TTTAGTG
* * *
24860057 TTTTATGATTTTTTAGTAATGTAAATTTTTAAAAGAATAATTTTATAGTTATTTTGTTAGTAATT
1 TTTTGTGATTTTTTAGTAATGT-AA-TTTTAAAAAAATAATTTTATA-TTATTTTATTAGTAATT
*
24860122 TATGATTAGATTATATAAATTGTTAGTGTTTAGTTTAGTG
63 TATGATTAG-GTATATAAATTGTTAGTG-TTA-TTTAGTG
* * * *
24860162 TTTTGGGATTTTTTAGTAATGTAA-TTTAAAAAAA-AAATTTATAGTTATTTTGTTAGTAGTTTA
1 TTTTGTGATTTTTTAGTAATGTAATTTTAAAAAAATAATTTTATA-TTATTTTATTAGTAATTTA
*
24860225 TGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTT
65 TGATTAGG-TATATAAATTGTTAGTG-TTA-TTTAGTG
*
24860263 TTTTGTGATTTTTT--TAATGAAATTTT
1 TTTTGTGATTTTTTAGTAATGTAATTTT
24860289 TATATAATGT
Statistics
Matches: 490, Mismatches: 33, Indels: 44
0.86 0.06 0.08
Matches are distributed among these distances:
97 14 0.03
98 7 0.01
99 7 0.01
100 5 0.01
101 110 0.22
102 17 0.03
103 193 0.39
104 15 0.03
105 95 0.19
107 3 0.01
108 24 0.05
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (99 bp):
TTTTGTGATTTTTTAGTAATGTAATTTTAAAAAAATAATTTTATATTATTTTATTAGTAATTTAT
GATTAGGTATATAAATTGTTAGTGTTATTTAGTG
Found at i:24860006 original size:206 final size:206
Alignment explanation
Indices: 24859645--24860288 Score: 841
Period size: 206 Copynumber: 3.1 Consensus size: 206
24859635 AATTGTTGTT
* * * * * *
24859645 TTTTGTGATTTTTTTATTAATGTAAATTAAAAAATAATTATTTTATAATTATTTTGTTAGTAGTT
1 TTTTGTGA-TTTTTTAGTAATGTAATTTTAAAAA-AATAATTTTATAGTTATTTTGTTAGTAATT
* *
24859710 TAAGATTAGG-T-TATAAATTGTTAGTG--T--TTT-GTGTTTTGTTATTTTTTAGTAATGTATT
64 TATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTTTTTAGTAATGTA--
* *
24859768 TTCTTTTAAAAAAATGTTATATTTAT--TTATTTTCTTAGTAATTTATGGGATTAGG-T-TATAA
127 --ATTTTAAAAAAA--TAAT-TTTATAGTTATTTTCTTAGTAATTTAT--GATTAGGTTATATAA
*
24859829 ATTGTTAGTGTTTAGTTTAGGG
185 ATTGTTAGTGTTTAGTTTAGTG
*
24859851 TTTTGTGATTTTTTAGTAATGTAATTTTAAAAAAATAATTTTATAGTTATTTTATTAGTAATTTA
1 TTTTGTGATTTTTTAGTAATGTAATTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAATTTA
* *
24859916 TGATTGGGTTATATAAATTGTTAGTGTTTAGTTTAGAGTTTTGTGATTTTTTAGTAATGTAATTT
66 TGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTTTTTAGTAATGTAATTT
*
24859981 TAAAAAAATAATTTTATAGTTATTTTTTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGT
131 TAAAAAAATAATTTTATAGTTATTTTCTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGT
*
24860046 TTATTTTAGTG
196 TTAGTTTAGTG
* *
24860057 TTTTATGATTTTTTAGTAATGTAAATTTTTAAAAGAATAATTTTATAGTTATTTTGTTAGTAATT
1 TTTTGTGATTTTTTAGTAATGT-AA-TTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAATT
* *
24860122 TATGATTAGATTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGGGATTTTTTAGTAATGTAA-
64 TATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTTTTTAGTAATGTAAT
* * *
24860186 TTTAAAAAAA-AAATTTATAGTTATTTTGTTAGTAGTTTATGATTAGGTTATATAAATTGTTAGT
129 TTTAAAAAAATAATTTTATAGTTATTTTCTTAGTAATTTATGATTAGGTTATATAAATTGTTAGT
*
24860250 GTTTAGTTTAGTT
194 GTTTAGTTTAGTG
*
24860263 TTTTGTGATTTTTT--TAATGAAATTTT
1 TTTTGTGATTTTTTAGTAATGTAATTTT
24860289 TATATAATGT
Statistics
Matches: 395, Mismatches: 30, Indels: 30
0.87 0.07 0.07
Matches are distributed among these distances:
202 4 0.01
203 2 0.01
204 51 0.13
205 27 0.07
206 163 0.41
207 23 0.06
208 98 0.25
210 3 0.01
211 24 0.06
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (206 bp):
TTTTGTGATTTTTTAGTAATGTAATTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAATTTA
TGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTTTTTAGTAATGTAATTT
TAAAAAAATAATTTTATAGTTATTTTCTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGT
TTAGTTTAGTG
Found at i:24860240 original size:309 final size:305
Alignment explanation
Indices: 24859645--24860288 Score: 865
Period size: 309 Copynumber: 2.1 Consensus size: 305
24859635 AATTGTTGTT
* * * *
24859645 TTTTGTGATTTTTTTATTAATGTAAATTAAAAAATAATTATTTTATAATTATTTTGTTAGTAGTT
1 TTTTGTGA-TTTTTTA-TAATGTAATTTTAAAAATAATAATTTTATAATTATTTTGTTAGTAATT
* * ** *
24859710 TAAGATTAGGTTATAAATTGTTAGTGTTTTGTGTTTTGTTATTTTTTAGTAATGTATTTTCTTTT
64 TAAGATTAGGTTATAAATTGTTAGTGTTTTGTGTTTTATGATTTTTTAGTAATGTAAATTCTTTA
*
24859775 AAAAAAATGTTATATTTATTTATTTTCTTAGTAATTTATGGGATTAGGTTATAAATTGTTAGTGT
129 AAAAAAATGTTATA-TTAGTTATTTTCTTAGTAATTTAT-GGATTAGGTTATAAATTGTTAGTGT
* *
24859840 TTAGTTTAGGGTTTTGTGATTTTTTAGTAATGTAATTTTAAAAAAATAATTTTATAGTTATTTTA
192 TTAGTTTAGGGTTTTGGGATTTTTTAGTAATGTAATTTTAAAAAAATAAATTTATAGTTATTTTA
*
24859905 TTAGTAATTTATGATTGGGTTATATAAATTGTTAGTGTTTAGTTTAGAG
257 TTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGAG
* *
24859954 TTTTGTGATTTTTTAGTAATGTAATTTTAAAAA-AATAATTTTATAGTTATTTTTTTAGTAATTT
1 TTTTGTGATTTTTTA-TAATGTAATTTTAAAAATAATAATTTTATAATTATTTTGTTAGTAATTT
*
24860018 ATGATTAGGTTATATAAATTGTTAGTGTTTATTTTAGTGTTTTATGATTTTTTAGTAATGTAAAT
65 AAGATTAGG-T-TATAAATTGTTAGTG----TTTT-GTGTTTTATGATTTTTTAGTAATGTAAAT
* *
24860083 T-TTTAAAAGAATAAT-TT-TA-TAGTTATTTTGTTAGTAATTTAT-GATTAGATTATATAAATT
123 TCTTTAAAA-AA-AATGTTATATTAGTTATTTTCTTAGTAATTTATGGATTAG-GT-TATAAATT
*
24860143 GTTAGTGTTTAGTTTAGTGTTTTGGGATTTTTTAGTAATGTAA-TTTAAAAAAA-AAATTTATAG
184 GTTAGTGTTTAGTTTAGGGTTTTGGGATTTTTTAGTAATGTAATTTTAAAAAAATAAATTTATAG
* * **
24860206 TTATTTTGTTAGTAGTTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTT
249 TTATTTTATTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGAG
*
24860263 TTTTGTGATTTTTT-TAATGAAATTTT
1 TTTTGTGATTTTTTATAATGTAATTTT
24860289 TATATAATGT
Statistics
Matches: 299, Mismatches: 25, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
307 46 0.15
308 23 0.08
309 104 0.35
310 11 0.04
311 70 0.23
313 12 0.04
314 30 0.10
315 3 0.01
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (305 bp):
TTTTGTGATTTTTTATAATGTAATTTTAAAAATAATAATTTTATAATTATTTTGTTAGTAATTTA
AGATTAGGTTATAAATTGTTAGTGTTTTGTGTTTTATGATTTTTTAGTAATGTAAATTCTTTAAA
AAAAATGTTATATTAGTTATTTTCTTAGTAATTTATGGATTAGGTTATAAATTGTTAGTGTTTAG
TTTAGGGTTTTGGGATTTTTTAGTAATGTAATTTTAAAAAAATAAATTTATAGTTATTTTATTAG
TAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGAG
Found at i:24861106 original size:31 final size:31
Alignment explanation
Indices: 24861078--24861149 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 31
24861068 ACCAAAAATT
24861078 TATTTTAAAAATTAAAACAAAAATAAAAAAAA
1 TATTTTAAAAATTAAAA-AAAAATAAAAAAAA
** * *
24861110 TATTTT-AAAATT-TTAAAAAATTAAAAAAG
1 TATTTTAAAAATTAAAAAAAAATAAAAAAAA
24861139 TATTTTAAAAA
1 TATTTTAAAAA
24861150 AATTTAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 18 0.51
30 5 0.14
31 6 0.17
32 6 0.17
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (31 bp):
TATTTTAAAAATTAAAAAAAAATAAAAAAAA
Found at i:24861119 original size:10 final size:10
Alignment explanation
Indices: 24861106--24861170 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
24861096 AAAAATAAAA
24861106 AAAATATTTT
1 AAAATATTTT
24861116 -AAA-ATTTT
1 AAAATATTTT
* **
24861124 AAAAAATTAA
1 AAAATATTTT
24861134 AAAAGTATTTT
1 AAAA-TATTTT
* *
24861145 AAAAAAATTTA
1 -AAAATATTTT
24861156 AAAATATTTT
1 AAAATATTTT
24861166 AAAAT
1 AAAAT
24861171 TAAATAAATT
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
8 5 0.12
9 6 0.14
10 20 0.48
11 7 0.17
12 4 0.10
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (10 bp):
AAAATATTTT
Found at i:24861143 original size:21 final size:20
Alignment explanation
Indices: 24861119--24861188 Score: 83
Period size: 22 Copynumber: 3.5 Consensus size: 20
24861109 ATATTTTAAA
24861119 ATTTTAAAAAATTAAAAAAGT
1 ATTTTAAAAAATTAAAAAA-T
*
24861140 ATTTTAAAAAAATTTAAAAAT
1 ATTTT-AAAAAATTAAAAAAT
*
24861161 ATTTT--AAAATTAAATAA-
1 ATTTTAAAAAATTAAAAAAT
24861178 ATTTTAAAAAA
1 ATTTTAAAAAA
24861189 GTATTTTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
17 5 0.12
18 10 0.23
19 4 0.09
21 11 0.26
22 13 0.30
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (20 bp):
ATTTTAAAAAATTAAAAAAT
Found at i:24861149 original size:40 final size:38
Alignment explanation
Indices: 24861104--24861219 Score: 121
Period size: 40 Copynumber: 3.0 Consensus size: 38
24861094 ACAAAAATAA
24861104 AAAAAATATTTTAAAATTTTAAAAAATTAAAAAAGTATTTT
1 AAAAAATATTTTAAAATTTTAAAAAATT-AAAAA--ATTTT
* *
24861145 AAAAAA-ATTTAAAAATATTT-TAAAATTAAATAAATTTT
1 AAAAAATATTTTAAAAT-TTTAAAAAATTAAA-AAATTTT
* *
24861183 AAAAAAGTATTTTAAAA-TTAAAAAAATAAAAAAATTT
1 AAAAAA-TATTTTAAAATTTTAAAAAATTAAAAAATTT
24861220 ATTATATTCG
Statistics
Matches: 64, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
38 19 0.30
39 11 0.17
40 25 0.39
41 9 0.14
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (38 bp):
AAAAAATATTTTAAAATTTTAAAAAATTAAAAAATTTT
Found at i:24861160 original size:30 final size:29
Alignment explanation
Indices: 24861078--24861159 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 29
24861068 ACCAAAAATT
*
24861078 TATTTTAAAAATTAAAACAAAAATAAAAAAAA
1 TATTTTAAAAATT--TA-AAAAATAAAAAAAA
* * *
24861110 TATTTTAAAATTTTAAAAAATTAAAAAAG
1 TATTTTAAAAATTTAAAAAATAAAAAAAA
24861139 TATTTTAAAAAAATTTAAAAA
1 TATTTT--AAAAATTTAAAAA
24861160 TATTTTAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 18 0.42
30 1 0.02
31 12 0.28
32 12 0.28
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (29 bp):
TATTTTAAAAATTTAAAAAATAAAAAAAA
Found at i:24861181 original size:17 final size:18
Alignment explanation
Indices: 24861148--24861186 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
24861138 GTATTTTAAA
24861148 AAAATTTAAAAATATTTT
1 AAAATTTAAAAATATTTT
24861166 AAAA-TTAAATAA-ATTTT
1 AAAATTTAAA-AATATTTT
24861183 AAAA
1 AAAA
24861187 AAGTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATTTAAAAATATTTT
Found at i:24861200 original size:30 final size:27
Alignment explanation
Indices: 24861143--24861207 Score: 94
Period size: 30 Copynumber: 2.3 Consensus size: 27
24861133 AAAAAGTATT
*
24861143 TTAAAAAAATTTAAAAATATTTTAAAA
1 TTAAAAAATTTTAAAAATATTTTAAAA
24861170 TTAAATAAATTTTAAAAAAGTATTTTAAAA
1 TTAAA-AAATTTT-AAAAA-TATTTTAAAA
24861200 TTAAAAAA
1 TTAAAAAA
24861208 ATAAAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
27 5 0.15
28 6 0.18
29 8 0.24
30 15 0.44
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (27 bp):
TTAAAAAATTTTAAAAATATTTTAAAA
Found at i:24861215 original size:29 final size:30
Alignment explanation
Indices: 24861155--24861217 Score: 53
Period size: 30 Copynumber: 2.2 Consensus size: 30
24861145 AAAAAAATTT
* **
24861155 AAAAATATTTTAAAA-TTAAATAAATTTTAA
1 AAAAATATTTTAAAATTTAAACAAA-AATAA
*
24861185 AAAAGTATTTTAAAA-TT-AA-AAAAATAA
1 AAAAATATTTTAAAATTTAAACAAAAATAA
24861212 AAAAAT
1 AAAAAT
24861218 TTATTATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 8 0.28
28 3 0.10
29 2 0.07
30 16 0.55
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
AAAAATATTTTAAAATTTAAACAAAAATAA
Found at i:24867659 original size:127 final size:126
Alignment explanation
Indices: 24867410--24867793 Score: 576
Period size: 127 Copynumber: 3.1 Consensus size: 126
24867400 AAATAGTGGG
** * * * * * * *
24867410 AAATCGCTTCTACTAGGATGCTAT-TTGAGAAGAAATTGTGAAATCGTGGCCTCGTGGATGCGAT
1 AAATCGCTGATACAAGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGAT
** *
24867474 TTCGCTACAG-TGGTCATGTAAGAAATAATTTTTTTTTGATGTTTTCTGAGCAAATAGTATA
66 TTCGCTACAGTTGGTCATGTTGGAAATAA-TTTTTTTTGACGTTTTCTGAGCAAATAGTATA
24867535 AAATCGCTGATACAAGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGAT
1 AAATCGCTGATACAAGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGAT
24867600 TTCGCTACAGTTGGTCATGTTGGAAATAATTATTTTTTGACGTTTTCTGAGCAAATAGTATA
66 TTCGCTACAGTTGGTCATGTTGGAAATAATT-TTTTTTGACGTTTTCTGAGCAAATAGTATA
*
24867662 AAATCGCTGATACAAGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGAC
1 AAATCGCTGATACAAGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGAT
* * * *
24867727 TTCGCTACAGTTGGTCATGTTGGAAATAATTTTTTTTTAC-ATTTCTGAGCAAATAGTGTC
66 TTCGCTACAGTTGGTCATGTTGGAAATAATTTTTTTTGACGTTTTCTGAGCAAATAGTATA
24867787 AAATCGC
1 AAATCGC
24867794 GCCCTCGTGG
Statistics
Matches: 239, Mismatches: 17, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
125 45 0.19
126 54 0.23
127 140 0.59
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (126 bp):
AAATCGCTGATACAAGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGAT
TTCGCTACAGTTGGTCATGTTGGAAATAATTTTTTTTGACGTTTTCTGAGCAAATAGTATA
Found at i:24870975 original size:7 final size:7
Alignment explanation
Indices: 24870959--24871009 Score: 68
Period size: 7 Copynumber: 7.4 Consensus size: 7
24870949 CTGTTGTATG
24870959 TTAGGG-
1 TTAGGGT
24870965 TTAGGGT
1 TTAGGGT
24870972 TTAGGGT
1 TTAGGGT
24870979 TTAGGGT
1 TTAGGGT
**
24870986 CAAGGGT
1 TTAGGGT
*
24870993 TAAGGGT
1 TTAGGGT
24871000 TTAGGGT
1 TTAGGGT
24871007 TTA
1 TTA
24871010 TAATTAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
6 6 0.15
7 34 0.85
ACGTcount: A:0.20, C:0.02, G:0.41, T:0.37
Consensus pattern (7 bp):
TTAGGGT
Found at i:24871112 original size:89 final size:86
Alignment explanation
Indices: 24871000--24871661 Score: 618
Period size: 89 Copynumber: 7.7 Consensus size: 86
24870990 GGTTAAGGGT
24871000 TTAGGGTTTATAATTAAATTAAGTTAGGGTTAGGGTTTATAATTAAATTAGGTTAGGGTTTAGGG
1 TTAGGGTTTATAATTAAATTAAGTTA-GGTTAGGGTTTATAATTAAATTAGGTTAGGGTTTAGGG
24871065 TTTTTAATTAAATTAAGTTAGGG
65 TTTTTAATTAAATTAAGTTA-GG
24871088 TTTAGGGTTTATAATTAAATTAAGTTAGGGTTAGGGTTTATAATTAAATTAGGTTAGGGTTTAGG
1 -TTAGGGTTTATAATTAAATTAAGTTA-GGTTAGGGTTTATAATTAAATTAGGTTAGGGTTTAGG
24871153 GTTTTTAATTAAATTAAGTTAGGG
64 GTTTTTAATTAAATTAAGTTA-GG
* **
24871177 TTTAGGGTTTATAATTAAATTAAGTTAGGGTTAAGGTTTATAATTGTATTAGGTTAGGG-TTAGG
1 -TTAGGGTTTATAATTAAATTAAGTTA-GGTTAGGGTTTATAATTAAATTAGGTTAGGGTTTAGG
*
24871241 GTTTATAATTAAATTAAGTTAGG
64 GTTTTTAATTAAATTAAGTTAGG
** * * *
24871264 TTAGGGTTTATAATTGTATT-AGTTAGGTTAGGTTTTTTATTATTGGTTTTTATAATTA-ATTA-
1 TTAGGGTTTATAATTAAATTAAGTTAGGTTAGG--GTTTA-TA------ATTA-AATTAGGTTAG
24871326 GGTTAGGGTTAGGGTTTTTAATT-AATT-AGTTAGG
56 GGTT----T-AGGGTTTTTAATTAAATTAAGTTAGG
* * ***
24871360 TTAGGGTTT-TAATTCAATTAGGTTAGGTTAGGGTTT-TAATT-AATTA-GTTA--GTTT-TTTT
1 TTAGGGTTTATAATTAAATTAAGTTAGGTTAGGGTTTATAATTAAATTAGGTTAGGGTTTAGGGT
** *** *
24871418 TTTTTTTTTTTTTCA-TTA-G
66 TTTTAATTAAATTAAGTTAGG
* * *
24871437 TTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGGTTT-TAATTCAATTAGGTTAGGTTTTAGGG
1 TTAGGGTTTATAATTAAATTAAGTTAGGTTA-GGGTTTATAATTAAATTAGGTTAGGGTTTAGGG
* *
24871501 TTTATAATTACATTAAGTTAGG
65 TTTTTAATTAAATTAAGTTAGG
* * * *
24871523 TTAGGGTTTTTAATTCAATTAGGTTAGGTTAGGGTTT-TCAATTCAATTA----A--G-TTAGGG
1 TTAGGGTTTATAATTAAATTAAGTTAGGTTAGGGTTTAT-AATTAAATTAGGTTAGGGTTTAGGG
24871580 TTTTTAATTAAATTAAGTTAGG
65 TTTTTAATTAAATTAAGTTAGG
* * * * *
24871602 TTAGGGGTTT-TAATTCAATTAGGTTAGGTTAGGGTTTTTAATTCAATTAAGTTAGGGTTT
1 TTA-GGGTTTATAATTAAATTAAGTTAGGTTAGGGTTTATAATTAAATTAGGTTAGGGTTT
24871662 TTAATTAAAT
Statistics
Matches: 491, Mismatches: 44, Indels: 79
0.80 0.07 0.13
Matches are distributed among these distances:
77 17 0.03
78 24 0.05
79 79 0.16
80 12 0.02
81 4 0.01
82 1 0.00
83 7 0.01
84 23 0.05
85 16 0.03
86 66 0.13
87 4 0.01
88 25 0.05
89 144 0.29
92 4 0.01
93 6 0.01
94 7 0.01
95 8 0.02
96 27 0.05
97 5 0.01
98 12 0.02
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.47
Consensus pattern (86 bp):
TTAGGGTTTATAATTAAATTAAGTTAGGTTAGGGTTTATAATTAAATTAGGTTAGGGTTTAGGGT
TTTTAATTAAATTAAGTTAGG
Found at i:24871658 original size:79 final size:79
Alignment explanation
Indices: 24871333--24871672 Score: 381
Period size: 79 Copynumber: 4.3 Consensus size: 79
24871323 TTAGGTTAGG
24871333 GTTAGGGTTTTTAATT-AATT-AGTTAGGTTA-GGGTTTTAATTCAATTAGGTTAGGTTAGGG-T
1 GTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGGTTTTAATTCAATTAGGTTAGGTTAGGGTT
24871394 TTTAATT-AATT-A
66 TTTAATTCAATTAA
** ** *** * * * *
24871406 GTTAGTTTTTTTTTTTTTTTTTTTTCA-TTA-GTTAGGGTTTTTAATTAAATTAAGTTAGGTTAG
1 GTTAG----GGTTTTTAATTAAATTAAGTTAGGTTAGGGGTTTTAATTCAATTAGGTTAGGTTAG
*
24871469 GGGTTTTAATTCAATTAGGTTA
62 GGTTTTTAATTCAATTA----A
* * *
24871491 GGTTTTAGGGTTTATAATTACATTAAGTTAGGTTAGGGTTTTTAATTCAATTAGGTTAGGTTAGG
1 -G--TTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGGTTTTAATTCAATTAGGTTAGGTTAGG
*
24871556 GTTTTCAATTCAATTAA
63 GTTTTTAATTCAATTAA
24871573 GTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGGTTTTAATTCAATTAGGTTAGGTTAGGGTT
1 GTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGGTTTTAATTCAATTAGGTTAGGTTAGGGTT
24871638 TTTAATTCAATTAA
66 TTTAATTCAATTAA
24871652 GTTAGGGTTTTTAATTAAATT
1 GTTAGGGTTTTTAATTAAATT
24871673 TAGGGGTTTT
Statistics
Matches: 222, Mismatches: 26, Indels: 32
0.79 0.09 0.11
Matches are distributed among these distances:
73 5 0.02
77 11 0.05
78 32 0.14
79 104 0.47
80 4 0.02
81 1 0.00
82 1 0.00
84 9 0.04
85 4 0.02
86 47 0.21
88 4 0.02
ACGTcount: A:0.27, C:0.03, G:0.21, T:0.49
Consensus pattern (79 bp):
GTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGGTTTTAATTCAATTAGGTTAGGTTAGGGTT
TTTAATTCAATTAA
Found at i:24871672 original size:28 final size:27
Alignment explanation
Indices: 24871332--24871672 Score: 260
Period size: 28 Copynumber: 12.8 Consensus size: 27
24871322 ATTAGGTTAG
*
24871332 GGTTAGGGTTTTTAATT-AATTAGTTA
1 GGTTAGGGTTTTTAATTAAATTAATTA
* *
24871358 GGTTAGGG-TTTTAATTCAATTAGGTTA
1 GGTTAGGGTTTTTAATTAAATTA-ATTA
*
24871385 GGTTAGGG-TTTTAATT-AATTAGTTA
1 GGTTAGGGTTTTTAATTAAATTAATTA
**** ** *** *
24871410 -GTTTTTTTTTTTTTTTTTTTTCATTA
1 GGTTAGGGTTTTTAATTAAATTAATTA
24871436 -GTTAGGGTTTTTAATTAAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTAA-TTA
* * *
24871463 GGTTAGGGGTTTTAATTCAATTAGGTTA
1 GGTTAGGGTTTTTAATTAAATTA-ATTA
* *
24871491 GGTTTTAGGGTTTATAATTACATTAAGTTA
1 GG--TTAGGGTTTTTAATTAAATTAA-TTA
* *
24871521 GGTTAGGGTTTTTAATTCAATTAGGTTA
1 GGTTAGGGTTTTTAATTAAATTA-ATTA
* *
24871549 GGTTAGGGTTTTCAATTCAATT-A--A
1 GGTTAGGGTTTTTAATTAAATTAATTA
24871573 -GTTAGGGTTTTTAATTAAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTAA-TTA
* * *
24871600 GGTTAGGGGTTTTAATTCAATTAGGTTA
1 GGTTAGGGTTTTTAATTAAATTA-ATTA
*
24871628 GGTTAGGGTTTTTAATTCAATT-A--A
1 GGTTAGGGTTTTTAATTAAATTAATTA
24871652 -GTTAGGGTTTTTAATTAAATT
1 GGTTAGGGTTTTTAATTAAATT
24871673 TAGGGGTTTT
Statistics
Matches: 256, Mismatches: 42, Indels: 37
0.76 0.13 0.11
Matches are distributed among these distances:
23 39 0.15
24 6 0.02
25 18 0.07
26 36 0.14
27 24 0.09
28 111 0.43
30 22 0.09
ACGTcount: A:0.27, C:0.03, G:0.21, T:0.49
Consensus pattern (27 bp):
GGTTAGGGTTTTTAATTAAATTAATTA
Found at i:24871677 original size:19 final size:19
Alignment explanation
Indices: 24871630--24871690 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 19
24871620 TTAGGTTAGG
*
24871630 TTAGGGTTTTTAATTCAATTAAG
1 TTAGGGTTTTTAATT--A--AAT
24871653 TTAGGGTTTTTAATTAAAT
1 TTAGGGTTTTTAATTAAAT
* *
24871672 TTAGGGGTTTTAATCAAAT
1 TTAGGGTTTTTAATTAAAT
24871691 AATGTCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 19 0.54
21 1 0.03
23 15 0.43
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.48
Consensus pattern (19 bp):
TTAGGGTTTTTAATTAAAT
Found at i:24873976 original size:10 final size:9
Alignment explanation
Indices: 24873949--24873980 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
24873939 GCCATTGTTG
24873949 AAAATTTTA
1 AAAATTTTA
24873958 AAAATTTTA
1 AAAATTTTA
24873967 AAAATATTTA
1 AAAAT-TTTA
24873977 AAAA
1 AAAA
24873981 AAATAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
AAAATTTTA
Found at i:24874084 original size:22 final size:22
Alignment explanation
Indices: 24874054--24874095 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
24874044 ATTTGGAGAT
*
24874054 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
24874076 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
24874096 TTTGAGATAA
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:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:24874163 original size:21 final size:22
Alignment explanation
Indices: 24874097--24874173 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
24874087 ATTTGAGAGT
* *
24874097 TTGAGATAATTTTGGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
* *
24874119 TTGAGAGAACTTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAGGAAA
24874141 TTGAGAGAATTTTTGAA-GAAA
1 TTGAGAGAATTTTTGAAGGAAA
24874162 TTGAGAGAATTT
1 TTGAGAGAATTT
24874174 GTTTGTGAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
21 15 0.31
22 34 0.69
ACGTcount: A:0.39, C:0.01, G:0.27, T:0.32
Consensus pattern (22 bp):
TTGAGAGAATTTTTGAAGGAAA
Found at i:24874495 original size:29 final size:28
Alignment explanation
Indices: 24874437--24874495 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 28
24874427 GATTTCGCGG
* **
24874437 AAAATGACATATTTCGGTAAATAATTAA
1 AAAATGACATATTTCCGTAAATAAAAAA
* *
24874465 AAAATCGACCTATTTCCGTAATTAAAAAA
1 AAAAT-GACATATTTCCGTAAATAAAAAA
24874494 AA
1 AA
24874496 GGAGCTTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (28 bp):
AAAATGACATATTTCCGTAAATAAAAAA
Found at i:24883406 original size:121 final size:121
Alignment explanation
Indices: 24883192--24883410 Score: 420
Period size: 121 Copynumber: 1.8 Consensus size: 121
24883182 CCATTGAACT
*
24883192 AAAACTTCTGTTATTGCTTGATTACCCCTTTGCCCAAGTGTAAATCAAGAATTTTAAGGGGTTCT
1 AAAACTTCTATTATTGCTTGATTACCCCTTTGCCCAAGTGTAAATCAAGAATTTTAAGGGGTTCT
24883257 TTTACCAATGTACTATAACACCCTTCACCTGTTCTTAATTACCCCTTCACCTGTTC
66 TTTACCAATGTACTATAACACCCTTCACCTGTTCTTAATTACCCCTTCACCTGTTC
*
24883313 AAAACTTCTATTATTGCTTGATTACCCCTTTGTCCAAGTGTAAATCAAGAATTTTAAGGGGTTCT
1 AAAACTTCTATTATTGCTTGATTACCCCTTTGCCCAAGTGTAAATCAAGAATTTTAAGGGGTTCT
24883378 TTTACCAATGTACTATAACACCCTTCACCTGTT
66 TTTACCAATGTACTATAACACCCTTCACCTGTT
24883411 TTGACAACTG
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 96 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (121 bp):
AAAACTTCTATTATTGCTTGATTACCCCTTTGCCCAAGTGTAAATCAAGAATTTTAAGGGGTTCT
TTTACCAATGTACTATAACACCCTTCACCTGTTCTTAATTACCCCTTCACCTGTTC
Found at i:24886790 original size:44 final size:43
Alignment explanation
Indices: 24886644--24886801 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
24886634 AGCTCGTACA
* * **
24886644 ATGCCAGCGTCCCAGACGTGGTCTTACATGT-AATCAAATAACG
1 ATGCCAACGTCCCAGACATGGTCTTACACATAAATCAAAT-ACG
* * *
24886687 ATGCC-ACTGTCCCAGACAGGGTCTTACACGTAAATCATATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACATAAATCAAATACG
* * *
24886730 ATGCCAATGTCCCAGACATGGTCTTATACATAAATCTCAAAT-TG
1 ATGCCAACGTCCCAGACATGGTCTTACACATAAA--TCAAATACG
* *
24886774 ATGCGAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
24886802 TGATATGACA
Statistics
Matches: 95, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
42 1 0.01
43 56 0.59
44 33 0.35
45 5 0.05
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACATAAATCAAATACG
Found at i:24893418 original size:24 final size:24
Alignment explanation
Indices: 24893386--24893437 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
24893376 TTGAACTAGT
24893386 AGCCTCCCAATTGGCTGCCACACC
1 AGCCTCCCAATTGGCTGCCACACC
24893410 AGCCTCCCAATTGGCTGCCACACC
1 AGCCTCCCAATTGGCTGCCACACC
24893434 AGCC
1 AGCC
24893438 AGACACACGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.21, C:0.46, G:0.17, T:0.15
Consensus pattern (24 bp):
AGCCTCCCAATTGGCTGCCACACC
Found at i:24895265 original size:16 final size:16
Alignment explanation
Indices: 24895244--24895300 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
24895234 TTTGGTTGGC
*
24895244 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
24895260 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
24895276 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
24895292 TGTAATGGA
1 TGTAATGGA
24895301 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:24895567 original size:18 final size:17
Alignment explanation
Indices: 24895546--24895580 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24895536 TTATTATTAA
*
24895546 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24895564 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24895581 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:24895717 original size:16 final size:16
Alignment explanation
Indices: 24895680--24895721 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
24895670 TTAATCATAT
*
24895680 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
24895696 TT-AAATATATTATAA
1 TTAAAATATATTATAA
24895711 TTAAAATATAT
1 TTAAAATATAT
24895722 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:24895719 original size:154 final size:156
Alignment explanation
Indices: 24895433--24895746 Score: 569
Period size: 154 Copynumber: 2.0 Consensus size: 156
24895423 TAGAATACCC
24895433 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
24895498 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
*
24895563 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAAAAA
* *
24895590 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
24895653 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
24895718 ATATAATTTAATAAAATTCTTAAAAA
131 ATATAATTTAATAAAATTCTTAAAAA
24895744 TTA
1 TTA
24895747 ATATTCTTAT
Statistics
Matches: 153, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
154 92 0.60
155 1 0.01
157 60 0.39
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAAAAA
Found at i:24895728 original size:14 final size:15
Alignment explanation
Indices: 24895689--24895730 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
24895679 TTTAAACATA
*
24895689 ATTATTATTAAATAT
1 ATTATAATTAAATAT
24895704 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
24895718 A-TATAATTTAATA
1 ATTATAATTAAATA
24895731 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:24895817 original size:120 final size:121
Alignment explanation
Indices: 24895678--24895974 Score: 462
Period size: 120 Copynumber: 2.5 Consensus size: 121
24895668 ATTTAATCAT
*
24895678 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA-A
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
24895742 AATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 AA-TAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
24895800 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
24895863 AATAAAATTCTTCTATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 AATAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
24895919 ATTTCAA-ATAATTAATATTAAATATGATT-TAATT-AAATATATGATTTAATAAAATT
1 ATTTCAACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATT
24895975 TAAAATTATT
Statistics
Matches: 165, Mismatches: 6, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
119 24 0.15
120 130 0.79
121 10 0.06
122 1 0.01
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (121 bp):
ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
AATAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:24895848 original size:14 final size:15
Alignment explanation
Indices: 24895799--24895850 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
24895789 GTAAAATATA
24895799 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
24895814 TATTAAATATATTAT
1 AATTAAATATATTAT
24895829 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
24895842 AATTTAATA
1 AATTAAATA
24895851 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:24895865 original size:44 final size:43
Alignment explanation
Indices: 24895776--24895866 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
24895766 CTCAAATCAT
* * *
24895776 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
24895819 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
24895863 AATA
1 AATA
24895867 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:24895901 original size:59 final size:59
Alignment explanation
Indices: 24895718--24895901 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
24895708 TAATTAAAAT
24895718 ATATAATTTAATAAAATTCTTAA-AAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAA-TAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * * *
24895777 ATAT-ATGATACTGTAAAA-TATAAATTAACATAATTATTATTAAAT-ATATTATAATTAAA--A
1 ATATAAT-TTA--ATAAAATTCTTAA-TAA-ATAA-TATTCTTATATGA-ATT-TACTCAAATCA
24895837 T-
58 TA
* *
24895838 ATATAATTTAATAAAATTCTTAATAAATAAAATTCTTCTATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
24895897 ATATA
1 ATATA
24895902 TGATACTATA
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
56 6 0.07
57 10 0.11
58 9 0.10
59 19 0.21
60 8 0.09
61 11 0.12
62 10 0.11
63 13 0.14
64 6 0.07
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
Found at i:24895955 original size:15 final size:15
Alignment explanation
Indices: 24895935--24895973 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
24895925 AATAATTAAT
24895935 ATTAAATATGATTTA
1 ATTAAATATGATTTA
24895950 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
24895967 ATAAAAT
1 ATTAAAT
24895974 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:24895960 original size:17 final size:17
Alignment explanation
Indices: 24895940--24895973 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24895930 TTAATATTAA
*
24895940 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
24895957 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
24895974 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:24896116 original size:93 final size:92
Alignment explanation
Indices: 24896006--24896200 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
24895996 GATTATAGTT
* * *
24896006 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
24896069 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
24896099 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
24896164 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
24896191 TATGAATTTA
1 TATGAATTTA
24896201 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:24898627 original size:12 final size:12
Alignment explanation
Indices: 24898610--24898637 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
24898600 CATACAAAAA
24898610 ACAGAAGCTGCT
1 ACAGAAGCTGCT
24898622 ACAGAAGCTGCT
1 ACAGAAGCTGCT
24898634 ACAG
1 ACAG
24898638 CAATAACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.14
Consensus pattern (12 bp):
ACAGAAGCTGCT
Found at i:24900113 original size:24 final size:24
Alignment explanation
Indices: 24900086--24900136 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
24900076 TGGGAAAAAC
24900086 ATTGGCAGATTAATTTAGGTCAGA
1 ATTGGCAGATTAATTTAGGTCAGA
24900110 ATTGGCAGATTAATTTAGGTCAGA
1 ATTGGCAGATTAATTTAGGTCAGA
24900134 ATT
1 ATT
24900137 TAAAACTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (24 bp):
ATTGGCAGATTAATTTAGGTCAGA
Found at i:24903299 original size:44 final size:44
Alignment explanation
Indices: 24903240--24903323 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
24903230 TGTTATAATT
* * *
24903240 ATTGAAATTTTAATTTACGATCGAATATTATTATAATTATTGTA
1 ATTGAAATTGTAATTTACGATCAAACATTATTATAATTATTGTA
* ** *
24903284 ATTGTAATTGTAATTTTTGGTCAAACATTATTATAATTAT
1 ATTGAAATTGTAATTTACGATCAAACATTATTATAATTAT
24903324 GATTATTATA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.49
Consensus pattern (44 bp):
ATTGAAATTGTAATTTACGATCAAACATTATTATAATTATTGTA
Found at i:24903330 original size:15 final size:15
Alignment explanation
Indices: 24903310--24903338 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24903300 TTGGTCAAAC
24903310 ATTATTATAATTATG
1 ATTATTATAATTATG
24903325 ATTATTATAATTAT
1 ATTATTATAATTAT
24903339 TATATTCGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
ATTATTATAATTATG
Found at i:24915684 original size:27 final size:25
Alignment explanation
Indices: 24915654--24915722 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
24915644 TGTTCCGACC
* *
24915654 CACAGCTCGTGTGAGCAGGCCCATTTT
1 CACAGCTCGTGTGAGCA-GACCA-ATT
* *
24915681 CACAGCTCGTGTAAGCATACCAATT
1 CACAGCTCGTGTGAGCAGACCAATT
*
24915706 CATAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
24915723 TACATGTACA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
25 17 0.47
26 3 0.08
27 16 0.44
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (25 bp):
CACAGCTCGTGTGAGCAGACCAATT
Found at i:24923895 original size:50 final size:50
Alignment explanation
Indices: 24923783--24924030 Score: 245
Period size: 50 Copynumber: 4.9 Consensus size: 50
24923773 ATTTGGGTAA
*
24923783 AGAGATCCCATGTAAGACCATGTCTGGGACATGGTATTGGCATCATTGAAGTTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC---G-AG--ATG
* *
24923839 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
* * * * * *
24923889 AGAGGTCTCC-TTTAAGACCATGTCTGGGACATGACATAGGCACCGATATG
1 AGAGATC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
* *
24923939 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTAC-A-A-G
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-T-CGAGATG
* * *
24923988 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
24924031 GTTATTATCA
Statistics
Matches: 166, Mismatches: 20, Indels: 20
0.81 0.10 0.10
Matches are distributed among these distances:
48 1 0.01
49 39 0.23
50 79 0.48
51 2 0.01
52 3 0.02
53 1 0.01
56 41 0.25
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.25
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
Found at i:24941396 original size:12 final size:12
Alignment explanation
Indices: 24941379--24941404 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24941369 AAACGACCGG
24941379 AAAAAAAAACAA
1 AAAAAAAAACAA
24941391 AAAAAAAAACAA
1 AAAAAAAAACAA
24941403 AA
1 AA
24941405 TCTAAAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAACAA
Found at i:24954765 original size:128 final size:128
Alignment explanation
Indices: 24954524--24955624 Score: 1610
Period size: 128 Copynumber: 8.6 Consensus size: 128
24954514 TAACGTCGAA
* * * * * *
24954524 GAGATA-GATTTGTGGCTTCAATCTACTTCCCTACTCCTGAAGATAAGATTCGCCGTGTTCGATA
1 GAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGATC
* * * *
24954588 TGCTGCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTACTGACCAGG
66 TGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGG
* * * *
24954651 GAGATAGGACTAGCGGCTTAAATCTGCTTCCCTACTCCTGAAGATAAGATTCGCCGTCTTCAATC
1 GAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGATC
* * * *
24954716 TGCTCCGCTACTACTTAGGGAGATAAGATCTATAATTTCCAACCTATTCCACTGCTGACCAAG
66 TGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGG
* * **
24954779 GAGATAGGACTTGTGGCTTAAATCTGCTTCTCTACTCTTGAAAATAAGATTTACCGTCTTCGATC
1 GAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGATC
* * * * * *
24954844 TGCTCCACTACTACTTAGGGAGACAAGATCTATAATTTCCAATCTATTCCACTGTTGACCAGA
66 TGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGG
24954907 GAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGATC
1 GAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGATC
*
24954972 TGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCAATTCCACTGCTGACCAGG
66 TGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGG
* * * *
24955035 GAGATAAGACTTGTGGCTTAAATCTGTTTCCTTACTCTTGAAGATAAGATTCACCGTCTTCGATC
1 GAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGATC
* * * * * *
24955100 TGCTCTGCTACTGCTTAGGGAGCCAAGATCTTTAATTTCTAACGTATTCCACTACTGACCAGG
66 TGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGG
* * * * *
24955163 AAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCACCATATTCGATC
1 GAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGATC
* * * *
24955228 TGCTCCGTTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCTACTACTGACCAGA
66 TGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGG
* *
24955291 GAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCACCGTCTTCAATC
1 GAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGATC
* * *
24955356 TACTCGGCTACTACTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGG
66 TGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGG
* * * *
24955419 GAGATAGGACTTGTGGCTTAAATATGCTTCCTTACTCTTGAAGATAAGATTTGCCATCTTCGATC
1 GAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGATC
* * *
24955484 TGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGTTGACCCGA
66 TGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGG
* * * *
24955547 GAGATAGGACTAGCGGCTTAAATCTGCTTCCCTACTCCTGAAGATAAGATTCGTCGTCTTCGATC
1 GAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGATC
*
24955612 TGCTCTGCTACTG
66 TGCTCCGCTACTG
24955625 ACTTTTCTAA
Statistics
Matches: 877, Mismatches: 96, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
127 6 0.01
128 871 0.99
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (128 bp):
GAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGATC
TGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGG
Found at i:24956681 original size:13 final size:14
Alignment explanation
Indices: 24956651--24956683 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
24956641 CCTTTTCCAT
24956651 TTTTTCATTTTTCA
1 TTTTTCATTTTTCA
24956665 -TTTTCATTTTT-A
1 TTTTTCATTTTTCA
24956677 TTTTTCA
1 TTTTTCA
24956684 CATTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.06
13 17 0.94
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTCATTTTTCA
Found at i:24956698 original size:6 final size:7
Alignment explanation
Indices: 24956651--24956683 Score: 52
Period size: 6 Copynumber: 5.0 Consensus size: 7
24956641 CCTTTTCCAT
24956651 TTTTTCA
1 TTTTTCA
24956658 TTTTTCA
1 TTTTTCA
24956665 -TTTTCA
1 TTTTTCA
24956671 TTTTT-A
1 TTTTTCA
24956677 TTTTTCA
1 TTTTTCA
24956684 CATTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:24957628 original size:6 final size:6
Alignment explanation
Indices: 24957610--24957667 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
24957600 CATTTTCATT
* ** * *
24957610 TTTTGA CTTTGA TTTTGA TTTTCT TTTTGCT TTTTG- TTTCGA TTTTGA
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTG-A TTTTGA TTTTGA TTTTGA
24957658 TTTTGA TTTT
1 TTTTGA TTTT
24957668 TCTTCCCTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
5 4 0.09
6 33 0.77
7 6 0.14
ACGTcount: A:0.10, C:0.07, G:0.14, T:0.69
Consensus pattern (6 bp):
TTTTGA
Found at i:24961002 original size:31 final size:31
Alignment explanation
Indices: 24960964--24961025 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
24960954 ACGCAAATTA
24960964 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
24960995 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
24961026 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:24971877 original size:23 final size:22
Alignment explanation
Indices: 24971845--24971887 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
24971835 TTAATAAATT
24971845 TTAACATTTTTTATAAAATTTAA
1 TTAACATTTTTT-TAAAATTTAA
* *
24971868 TTAACTTTTTTTTACAATTT
1 TTAACATTTTTTTAAAATTT
24971888 TAATGATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAACATTTTTTTAAAATTTAA
Found at i:24971891 original size:23 final size:23
Alignment explanation
Indices: 24971845--24971887 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
24971835 TTAATAAATT
24971845 TTAACATTTTTTATAAAATTTAA
1 TTAACATTTTTTATAAAATTTAA
* *
24971868 TTAAC-TTTTTTTTACAATTT
1 TTAACATTTTTTATAAAATTT
24971888 TAATGATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (23 bp):
TTAACATTTTTTATAAAATTTAA
Found at i:24972037 original size:10 final size:10
Alignment explanation
Indices: 24972008--24972063 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
24971998 AATTTTACTC
*
24972008 TTTTTATTAA
1 TTTTTAATAA
24972018 TTTCTTAATAA
1 TTT-TTAATAA
24972029 TTTTTAATAA
1 TTTTTAATAA
*
24972039 TTATTT-CTCAA
1 TT-TTTAAT-AA
*
24972050 TTTTTAATAC
1 TTTTTAATAA
24972060 TTTT
1 TTTT
24972064 ATGATTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 21 0.55
11 17 0.45
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:24974293 original size:3 final size:3
Alignment explanation
Indices: 24974285--24974312 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
24974275 CAAACTCTAT
24974285 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
24974313 AGTCGACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24975784 original size:17 final size:18
Alignment explanation
Indices: 24975764--24975798 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24975754 TGTTTTATGT
24975764 TCATATT-AGTTTATTTC
1 TCATATTAAGTTTATTTC
*
24975781 TCATATTAATTTTATTTC
1 TCATATTAAGTTTATTTC
24975799 ATATTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.11, G:0.03, T:0.60
Consensus pattern (18 bp):
TCATATTAAGTTTATTTC
Found at i:24975802 original size:16 final size:16
Alignment explanation
Indices: 24975756--24975810 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 16
24975746 TTTAGACATG
24975756 TTTTATGTTCATATT-A
1 TTTTAT-TTCATATTAA
*
24975772 GTTTATTTCTCATATTAA
1 TTTTA-TT-TCATATTAA
24975790 TTTTATTTCATATTATA
1 TTTTATTTCATATTA-A
24975807 TTTT
1 TTTT
24975811 GCATTATGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
16 13 0.39
17 15 0.45
18 5 0.15
ACGTcount: A:0.25, C:0.07, G:0.04, T:0.64
Consensus pattern (16 bp):
TTTTATTTCATATTAA
Found at i:24981755 original size:50 final size:50
Alignment explanation
Indices: 24981688--24981930 Score: 274
Period size: 50 Copynumber: 4.8 Consensus size: 50
24981678 TTTCTTGTAC
* * * ** *
24981688 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGG
* * * ** *
24981738 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCA-G
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCT-AGG
* *
24981788 TGCCAACGCCATGTCCCGGACATGGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACAT-GGTCTTACATGAGACCTCTCATCTAGG
* * *
24981839 TGCCAACGCCATGTCCCATACATGGTCTTACATG-GTACTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAG-ACCTCTCATCTAGG
* *
24981889 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
24981931 TTACCCAAAT
Statistics
Matches: 164, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 118 0.72
51 45 0.27
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGG
Found at i:24981833 original size:101 final size:100
Alignment explanation
Indices: 24981688--24981930 Score: 315
Period size: 101 Copynumber: 2.4 Consensus size: 100
24981678 TTTCTTGTAC
* * * ** * *
24981688 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTC
*
24981753 CCAAACATGGTCTTACGGGGGACCTCTCATCTCAG
66 CCAAACATGGTCTTACAGGGGACCTCTCATCTCAG
* * *
24981788 TGCCAACGCCATGTCCCGGACATGGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGT
1 TGCCAACGCCATGTCCCAGACAT-GGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGT
* * * * *
24981853 CCCATACATGGTCTTACATGGTACTTCTCATCTCGG
65 CCCAAACATGGTCTTACAGGGGACCTCTCATCTCAG
* *
24981889 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
24981931 TTACCCAAAT
Statistics
Matches: 123, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
100 37 0.30
101 86 0.70
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (100 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTC
CCAAACATGGTCTTACAGGGGACCTCTCATCTCAG
Found at i:24984811 original size:42 final size:42
Alignment explanation
Indices: 24984737--24984817 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
24984727 TGTAATTCAT
* * *
24984737 TGAGCTGCCCCACACGCCCGTGTGCTAGGCCGTTTAACTTTC
1 TGAGCTGCCACACACGCCCGTGTGCTAAGCCGTGTAACTTTC
*
24984779 TGAGTTGCCACACACGCCCGTGTG-TCAAGCCGTGTAACT
1 TGAGCTGCCACACACGCCCGTGTGCT-AAGCCGTGTAACT
24984818 CACTGACTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.03
42 33 0.97
ACGTcount: A:0.17, C:0.33, G:0.25, T:0.25
Consensus pattern (42 bp):
TGAGCTGCCACACACGCCCGTGTGCTAAGCCGTGTAACTTTC
Found at i:24984834 original size:42 final size:42
Alignment explanation
Indices: 24984747--24984834 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
24984737 TGAGCTGCCC
* * ** * **
24984747 CACACGCCCGTGTGCTAGGCCGTTTAACTTTCTGAGTTGCCA
1 CACACGCCCGTGTGCTAAGCCGTGTAACTCACTGACTTGAAA
24984789 CACACGCCCGTGTG-TCAAGCCGTGTAACTCACTGACTTGAAA
1 CACACGCCCGTGTGCT-AAGCCGTGTAACTCACTGACTTGAAA
24984831 CACA
1 CACA
24984835 AAGAAACTCT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.03
42 37 0.97
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.24
Consensus pattern (42 bp):
CACACGCCCGTGTGCTAAGCCGTGTAACTCACTGACTTGAAA
Found at i:24985528 original size:40 final size:40
Alignment explanation
Indices: 24985488--24985687 Score: 240
Period size: 40 Copynumber: 5.0 Consensus size: 40
24985478 TATTTGATTT
* * * *
24985488 AGGGTTACCAAAGAACAAACAAGGGCATGTATGTGCATTT
1 AGGGGTACCGAAGTACAAACAAGGGCATGTATGTGCATTC
* * * * *
24985528 AGTGGTATCAAAGTACAAATAAGGGCACGTATGTGCATTC
1 AGGGGTACCGAAGTACAAACAAGGGCATGTATGTGCATTC
* * * *
24985568 AGGGGTACTGAAGTACAAACAGGGGCGTGTATGTGTATTC
1 AGGGGTACCGAAGTACAAACAAGGGCATGTATGTGCATTC
**
24985608 AGGGGTACCGAAGTACAAAC-AGGGGGTGTATGTGCATTC
1 AGGGGTACCGAAGTACAAACAAGGGCATGTATGTGCATTC
* *
24985647 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTC
1 AGGGGTACCGAAGTACAAACAAGGGCATGTATGTGCATTC
24985687 A
1 A
24985688 ATAATATTCA
Statistics
Matches: 135, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 36 0.27
40 99 0.73
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.22
Consensus pattern (40 bp):
AGGGGTACCGAAGTACAAACAAGGGCATGTATGTGCATTC
Found at i:24985630 original size:20 final size:20
Alignment explanation
Indices: 24985607--24985671 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
24985597 TATGTGTATT
24985607 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * **
24985627 CAGGGGGT---GTATGTGCATT
1 CA-GGGGTACCG-AAGTACAAA
24985646 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
24985666 CAGGGG
1 CAGGGG
24985672 CACGTATGTG
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
18 6 0.19
19 7 0.22
20 13 0.41
21 6 0.19
ACGTcount: A:0.31, C:0.17, G:0.37, T:0.15
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:24985660 original size:79 final size:80
Alignment explanation
Indices: 24985488--24985687 Score: 249
Period size: 79 Copynumber: 2.5 Consensus size: 80
24985478 TATTTGATTT
* * * * * * *
24985488 AGGGTTACCAAAGAACAAACAAGGGCATGTATGTGCATTTAGTGGTATCAAAGTACAAATAAGGG
1 AGGGGTACCGAAGTACAAACAGGGGCATGTATGTGCATTCAGGGGTACCAAAGTACAAATAAGGG
24985553 CACGTATGTGCATTC
66 CACGTATGTGCATTC
* * * * *
24985568 AGGGGTACTGAAGTACAAACAGGGGCGTGTATGTGTATTCAGGGGTACCGAAGTACAAA-CAGGG
1 AGGGGTACCGAAGTACAAACAGGGGCATGTATGTGCATTCAGGGGTACCAAAGTACAAATAAGGG
***
24985632 GGTGTATGTGCATTC
66 CACGTATGTGCATTC
*
24985647 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTCA
1 AGGGGTACCGAAGTACAAACAGGGGCATGTATGTGCATTCA
24985688 ATAATATTCA
Statistics
Matches: 101, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
79 53 0.52
80 48 0.48
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.22
Consensus pattern (80 bp):
AGGGGTACCGAAGTACAAACAGGGGCATGTATGTGCATTCAGGGGTACCAAAGTACAAATAAGGG
CACGTATGTGCATTC
Found at i:24989430 original size:13 final size:14
Alignment explanation
Indices: 24989397--24989435 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
24989387 TTTGATTCTC
*
24989397 TTAAATAAATCAACT
1 TTAAAT-AATCAACG
24989412 TTAAATAAT-AACG
1 TTAAATAATCAACG
24989425 TTAAATAATCA
1 TTAAATAATCA
24989436 CTTACAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 12 0.55
14 4 0.18
15 6 0.27
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (14 bp):
TTAAATAATCAACG
Found at i:24990351 original size:21 final size:21
Alignment explanation
Indices: 24990311--24990357 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
24990301 CATATTAAAC
*
24990311 TAAACATAAACAACTAATATT
1 TAAACATAAACAACTAATATA
24990332 TAAACAT-AACATA-TATATATA
1 TAAACATAAACA-ACTA-ATATA
24990353 TAAAC
1 TAAAC
24990358 TTTCCATCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAACATAAACAACTAATATA
Found at i:24991309 original size:41 final size:41
Alignment explanation
Indices: 24991264--24991420 Score: 163
Period size: 41 Copynumber: 3.8 Consensus size: 41
24991254 GCTTATTAAA
* * *
24991264 ATACACCGACATAAAGCCTTCTAGGCACAAAGCCAGCTATG
1 ATACACCGGCATAAAGCCTGCTAGGCACAAAGCCTGCTATG
* ** * *
24991305 ATACACTGGCACGAAGCCTGCTAGGCATAAAGCCTGATATTG
1 ATACACCGGCATAAAGCCTGCTAGGCACAAAGCCTGCTA-TG
* * * **
24991347 -TACACCGGCATGAAGCCTGCTAGGCATAAAGTCTGCTACA
1 ATACACCGGCATAAAGCCTGCTAGGCACAAAGCCTGCTATG
* *
24991387 ATTCACCGGCATAAAGCCTGCTAGGCACAGAGCC
1 ATACACCGGCATAAAGCCTGCTAGGCACAAAGCC
24991421 CGAATATCAT
Statistics
Matches: 95, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
41 93 0.98
42 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.22, T:0.18
Consensus pattern (41 bp):
ATACACCGGCATAAAGCCTGCTAGGCACAAAGCCTGCTATG
Found at i:24994620 original size:50 final size:50
Alignment explanation
Indices: 24994440--24994634 Score: 171
Period size: 50 Copynumber: 3.9 Consensus size: 50
24994430 GAGAATAACA
* * * ** * *
24994440 TGCCAAAGCCATGTCCCAGACATGGTCTTACATAGGATGTTTCCTATAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAT-CGG
* * * * * * **
24994489 TGCAAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGG
* * * *
24994539 TGCCCATGCCATGTCCTAGACATGGTCTTACG-GGGAACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGG-ACCTCTCATATCGG
*
24994589 TGCCAACGCCATGTCCCAGACATGGTGTTACGTGGGACCTCTCATA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATA
24994635 ATCTCAATAA
Statistics
Matches: 117, Mismatches: 25, Indels: 7
0.79 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 39 0.33
50 74 0.63
51 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGG
Found at i:25001879 original size:20 final size:19
Alignment explanation
Indices: 25001834--25001882 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
25001824 ATCATAGTCT
25001834 TTGCTT-CTTCTTTACTTA
1 TTGCTTACTTCTTTACTTA
* *
25001852 TTCTCTTACTTGTTTACTTA
1 TT-GCTTACTTCTTTACTTA
25001872 CTTGCTTACTT
1 -TTGCTTACTT
25001883 AAATAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 2 0.08
19 3 0.12
20 18 0.72
21 2 0.08
ACGTcount: A:0.12, C:0.22, G:0.06, T:0.59
Consensus pattern (19 bp):
TTGCTTACTTCTTTACTTA
Found at i:25015548 original size:12 final size:13
Alignment explanation
Indices: 25015524--25015552 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
25015514 GAGCTATAAC
25015524 TATTGCATTTATT
1 TATTGCATTTATT
25015537 TATTGC-TTTATT
1 TATTGCATTTATT
25015549 TATT
1 TATT
25015553 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:25034448 original size:41 final size:41
Alignment explanation
Indices: 25034403--25034505 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 41
25034393 CATGGGCACG
* ** *
25034403 AAGCCTGCTAGGCTTAAAGCCTGATATGGTACACCGGCATT
1 AAGCCTGCTAGGCTTAAAGCCTGAAATAATACACCGGCATA
* * **
25034444 AAGCCTGCTAGGCGTAAAGCTTGAAATAATTTACCGGCATA
1 AAGCCTGCTAGGCTTAAAGCCTGAAATAATACACCGGCATA
* *
25034485 AAGCCTGCTAAGCTGAAAGCC
1 AAGCCTGCTAGGCTTAAAGCC
25034506 CGATTATCAC
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.22
Consensus pattern (41 bp):
AAGCCTGCTAGGCTTAAAGCCTGAAATAATACACCGGCATA
Found at i:25036891 original size:20 final size:21
Alignment explanation
Indices: 25036866--25036918 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
25036856 TCCATTCTAG
*
25036866 GCTTTTATCATACTCA-CAAT
1 GCTTTTATCACACTCACCAAT
*
25036886 GCTTTTA--ACCCTCACCAAT
1 GCTTTTATCACACTCACCAAT
25036905 GCTTTTATCCACAC
1 GCTTTTAT-CACAC
25036919 ATTCATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 5 0.19
19 11 0.42
20 7 0.27
22 3 0.12
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.36
Consensus pattern (21 bp):
GCTTTTATCACACTCACCAAT
Found at i:25050051 original size:26 final size:26
Alignment explanation
Indices: 25050022--25050120 Score: 74
Period size: 26 Copynumber: 3.8 Consensus size: 26
25050012 ATTTAGCAAG
*
25050022 CCTTGAGCCGGTGATTATTTACCAGA
1 CCTTGAGCCGGTGATTATTTAACAGA
* * * *
25050048 CCTTGAGCCGATGTTTAGTTAGCA-A
1 CCTTGAGCCGGTGATTATTTAACAGA
* * * * *
25050073 GCTTTAGGCTGGTGATTTTTTAACAGG
1 CCTTGA-GCCGGTGATTATTTAACAGA
* *
25050100 CTTTGAGCTGGTGATTATTTA
1 CCTTGAGCCGGTGATTATTTA
25050121 GCAAGTACTA
Statistics
Matches: 54, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
25 5 0.09
26 46 0.85
27 3 0.06
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.37
Consensus pattern (26 bp):
CCTTGAGCCGGTGATTATTTAACAGA
Found at i:25050106 original size:52 final size:52
Alignment explanation
Indices: 25050009--25050125 Score: 128
Period size: 52 Copynumber: 2.2 Consensus size: 52
25049999 CGGGATGTAC
*
25050009 TTTATTTAGCAAGCCTTGAGCCGGTGATTATTTACCAGACCTTGAGCCGATG
1 TTTATTTAGCAAGCCTTGAGCCGGTGATTATTTAACAGACCTTGAGCCGATG
* * * * * * * *
25050061 TTTAGTTAGCAAG-CTTTAGGCTGGTGATTTTTTAACAGGCTTTGAGCTGGTG
1 TTTATTTAGCAAGCCTTGA-GCCGGTGATTATTTAACAGACCTTGAGCCGATG
*
25050113 ATTATTTAGCAAG
1 TTTATTTAGCAAG
25050126 TACTATGTAC
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
51 4 0.08
52 49 0.92
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (52 bp):
TTTATTTAGCAAGCCTTGAGCCGGTGATTATTTAACAGACCTTGAGCCGATG
Found at i:25064021 original size:19 final size:18
Alignment explanation
Indices: 25063994--25064044 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
25063984 TGTATTTCAG
*
25063994 TCACAATGCTTTTAACCTC
1 TCACTATGCTTTTAA-CTC
*
25064013 TCACTATGCTCTTAACTC
1 TCACTATGCTTTTAACTC
* *
25064031 TCAATTTGCTTTTA
1 TCACTATGCTTTTA
25064045 TTCACTCATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.43
Consensus pattern (18 bp):
TCACTATGCTTTTAACTC
Found at i:25064033 original size:18 final size:19
Alignment explanation
Indices: 25063994--25064033 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
25063984 TGTATTTCAG
*
25063994 TCACAATGCTTTTAACCTC
1 TCACAATGCTCTTAACCTC
*
25064013 TCACTATGCTCTTAA-CTC
1 TCACAATGCTCTTAACCTC
25064031 TCA
1 TCA
25064034 ATTTGCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.25, C:0.33, G:0.05, T:0.38
Consensus pattern (19 bp):
TCACAATGCTCTTAACCTC
Found at i:25071000 original size:27 final size:29
Alignment explanation
Indices: 25070943--25071002 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
25070933 AACTAAAACG
* *
25070943 CATTTAGCTATATATATAATTGCATATTT
1 CATTTAGCTATATATATAATTGAACATTT
25070972 CATTTCAGC-ATATATATAATT-AACA-TT
1 CATTT-AGCTATATATATAATTGAACATTT
25070999 CATT
1 CATT
25071003 CAGAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 6 0.21
28 2 0.07
29 17 0.61
30 3 0.11
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (29 bp):
CATTTAGCTATATATATAATTGAACATTT
Found at i:25076554 original size:40 final size:40
Alignment explanation
Indices: 25076503--25076819 Score: 526
Period size: 40 Copynumber: 7.9 Consensus size: 40
25076493 ATAACCGCAA
* * * *
25076503 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
25076543 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
25076583 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
25076623 GCACAAATGCCTTCGGGTTTTAGCTCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
25076663 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
25076703 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
25076743 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
25076783 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
25076820 ATGCTCATGC
Statistics
Matches: 258, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 258 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:25079754 original size:41 final size:43
Alignment explanation
Indices: 25079707--25079812 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 43
25079697 GGTGCCACTA
* * *
25079707 TCCCAGACAGGGTCTTATACGA-CTCATA-TACGATGTCAATG
1 TCCCAGACATGGTCTTACACGATCTCATACTACGATGCCAATG
* *
25079748 TCCCAGACATGGTCTTACACGATCTCTTACTTCGATGCCAATG
1 TCCCAGACATGGTCTTACACGATCTCATACTACGATGCCAATG
*
25079791 TCCCATACATGGTCTTACACGA
1 TCCCAGACATGGTCTTACACGA
25079813 AATCACATCT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 20 0.35
42 5 0.09
43 32 0.56
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGATCTCATACTACGATGCCAATG
Found at i:25083251 original size:9 final size:9
Alignment explanation
Indices: 25083237--25083262 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
25083227 TAAATCGGTA
25083237 GATTTTGAT
1 GATTTTGAT
25083246 GATTTTGAT
1 GATTTTGAT
25083255 GATTTTGA
1 GATTTTGA
25083263 GTCATGGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (9 bp):
GATTTTGAT
Found at i:25083469 original size:18 final size:18
Alignment explanation
Indices: 25083446--25083485 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
25083436 TGTTGATGGA
25083446 AATGGTATGGTA-AGAATG
1 AATGGT-TGGTATAGAATG
*
25083464 AATGGTTGGTATGGAATG
1 AATGGTTGGTATAGAATG
25083482 AATG
1 AATG
25083486 TAGCATAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.30
Consensus pattern (18 bp):
AATGGTTGGTATAGAATG
Found at i:25088039 original size:11 final size:11
Alignment explanation
Indices: 25088025--25088055 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
25088015 AAAAAATAAA
25088025 AAAAATATTTT
1 AAAAATATTTT
25088036 AAAAATATTTT
1 AAAAATATTTT
*
25088047 GAAAATATT
1 AAAAATATT
25088056 AAAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:25093445 original size:44 final size:44
Alignment explanation
Indices: 25093387--25093489 Score: 129
Period size: 44 Copynumber: 2.4 Consensus size: 44
25093377 AAATATATTT
* * *
25093387 ATTTATA-A-TAACTATTTACAATGCATTTAAAATTTTAGATTA
1 ATTTATATATTAACTATTTAAAATACATTTAAAATTTTAGATCA
* *
25093429 ATTTATATATTAACTATTTAAAATATATTTAAAATTTTATATCA
1 ATTTATATATTAACTATTTAAAATACATTTAAAATTTTAGATCA
* *
25093473 ATTTATATTTTATCTAT
1 ATTTATATATTAACTAT
25093490 GGTTATATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
42 7 0.13
43 1 0.02
44 44 0.85
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (44 bp):
ATTTATATATTAACTATTTAAAATACATTTAAAATTTTAGATCA
Found at i:25093527 original size:7 final size:7
Alignment explanation
Indices: 25093515--25093539 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25093505 TTTAAATATT
25093515 TCATGTA
1 TCATGTA
25093522 TCATGTA
1 TCATGTA
25093529 TCATGTA
1 TCATGTA
25093536 TCAT
1 TCAT
25093540 TATATAAATT
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:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (7 bp):
TCATGTA
Found at i:25101999 original size:30 final size:30
Alignment explanation
Indices: 25101942--25101999 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
25101932 GCTTTTGGAA
* *
25101942 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
25101972 AATATTTACAAAAAGA-GCAACCAAATTT
1 AATATTTACAAAAAGAGGC-ACCAAATTT
25102000 AAACACAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:25104556 original size:30 final size:30
Alignment explanation
Indices: 25104499--25104556 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
25104489 GCTTTTGGAA
* *
25104499 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
25104529 AATATTTACAAAAAGA-GCAACCAAATTT
1 AATATTTACAAAAAGAGGC-ACCAAATTT
25104557 AAACACAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:25107109 original size:29 final size:30
Alignment explanation
Indices: 25107054--25107110 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
25107044 GCTTTTGGAA
* *
25107054 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
25107084 AATATTTAC-AAAAGA-GCAACCAAATTT
1 AATATTTACAAAAAGAGGC-ACCAAATTT
25107111 AAACACAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 13 0.54
30 9 0.38
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:25112807 original size:16 final size:16
Alignment explanation
Indices: 25112786--25112837 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
25112776 TAACATGATC
25112786 TTTACTTTCTTCTTTA
1 TTTACTTTCTTCTTTA
* * *
25112802 TTTACTCTCTTATTTG
1 TTTACTTTCTTCTTTA
*
25112818 TTTACTTACTTGC-TTA
1 TTTACTTTCTT-CTTTA
25112834 TTTA
1 TTTA
25112838 AATAACTCAT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.15, C:0.17, G:0.04, T:0.63
Consensus pattern (16 bp):
TTTACTTTCTTCTTTA
Found at i:25113181 original size:50 final size:50
Alignment explanation
Indices: 25113127--25113233 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
25113117 ACATGAGAGT
* * * * * * *
25113127 TCTCATATCGGTGCCCATGCCATGTCCTAGACGTGGTCTTACGGGGGACC
1 TCTCATATCGGTACCAACGCAATGTCCCAAACATGGTCTTACGGGGGACC
* * *
25113177 TCTCATCTCGGTACCAACGCAATGTCCCAAACATGGTCTTATGTGGGACC
1 TCTCATATCGGTACCAACGCAATGTCCCAAACATGGTCTTACGGGGGACC
25113227 TCTCATA
1 TCTCATA
25113234 ACCTCAATAA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
TCTCATATCGGTACCAACGCAATGTCCCAAACATGGTCTTACGGGGGACC
Found at i:25128888 original size:40 final size:40
Alignment explanation
Indices: 25128828--25129136 Score: 546
Period size: 40 Copynumber: 7.7 Consensus size: 40
25128818 TGAGCATTGG
25128828 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
25128868 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
25128908 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
25128948 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
25128988 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
25129028 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
25129068 GATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
25129108 GATATGTCCGGGCTAAGACCCGAAGGCAA
1 GATATATCCGGGCTAAGACCCGAAGGCAA
25129137 ATGTGTTTGC
Statistics
Matches: 264, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 264 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:25137143 original size:40 final size:40
Alignment explanation
Indices: 25137083--25137391 Score: 546
Period size: 40 Copynumber: 7.7 Consensus size: 40
25137073 TGAGCATTGG
25137083 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
25137123 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
25137163 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
25137203 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
25137243 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
25137283 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
25137323 GATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
25137363 GATATGTCCGGGCTAAGACCCGAAGGCAA
1 GATATATCCGGGCTAAGACCCGAAGGCAA
25137392 ATGTGTTTGC
Statistics
Matches: 264, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 264 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:25143520 original size:25 final size:25
Alignment explanation
Indices: 25143492--25143539 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
25143482 TGTAGCTACG
*
25143492 TTCTGAC-CTACAACTCGTGTGAGCA
1 TTCTGACTC-ACAACTCATGTGAGCA
*
25143517 TTCTGATTCACAACTCATGTGAG
1 TTCTGACTCACAACTCATGTGAG
25143540 TATTTCGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (25 bp):
TTCTGACTCACAACTCATGTGAGCA
Found at i:25143549 original size:25 final size:25
Alignment explanation
Indices: 25143501--25143565 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
25143491 GTTCTGACCT
*
25143501 ACAACTCGTGTGAGCATTCTGATTC
1 ACAACTCATGTGAGCATTCTGATTC
*
25143526 ACAACTCATGTGAGTATT-TCGATTC
1 ACAACTCATGTGAGCATTCT-GATTC
*
25143551 ACAGCT--TGTGAGCAT
1 ACAACTCATGTGAGCAT
25143566 ACATATATAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 8 0.23
24 1 0.03
25 26 0.74
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (25 bp):
ACAACTCATGTGAGCATTCTGATTC
Found at i:25148827 original size:27 final size:27
Alignment explanation
Indices: 25148796--25148973 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25148786 TAAATTGTAC
25148796 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
25148823 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25148849 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
25148877 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
25148905 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25148932 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
25148959 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25148974 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:25148910 original size:82 final size:81
Alignment explanation
Indices: 25148797--25148952 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25148787 AAATTGTACA
* *
25148797 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
25148861 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
25148878 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
25148943 TGCGAGTTGA
65 TGCGAATTGA
25148953 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:25148964 original size:82 final size:81
Alignment explanation
Indices: 25148793--25148973 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
25148783 GATTAAATTG
* *
25148793 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
25148858 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
25148874 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
25148938 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
25148956 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
25148974 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:25153067 original size:6 final size:6
Alignment explanation
Indices: 25153056--25153082 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
25153046 TCGATGTTTA
25153056 TTTTTG TTTTTG TTTTTG TTTTTG TTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTT
25153083 GTTTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:25197115 original size:32 final size:32
Alignment explanation
Indices: 25197074--25197137 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
25197064 TAAAAAATTC
25197074 AACATTAACAATTTAATTGTTTAAGCCAGATA
1 AACATTAACAATTTAATTGTTTAAGCCAGATA
25197106 AACATTAACAATTTAATTGTTTAAGCCAGATA
1 AACATTAACAATTTAATTGTTTAAGCCAGATA
25197138 TCATGCTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (32 bp):
AACATTAACAATTTAATTGTTTAAGCCAGATA
Found at i:25208799 original size:40 final size:40
Alignment explanation
Indices: 25208701--25209003 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
25208691 TCCTCGTTCA
* * * * *
25208701 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
25208740 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
25208780 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
25208820 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
25208860 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
25208900 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
25208940 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
25208980 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25209004 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:25216793 original size:40 final size:40
Alignment explanation
Indices: 25216695--25216997 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
25216685 TCCTCGTTCA
* * * * *
25216695 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
25216734 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
25216774 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
25216814 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
25216854 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
25216894 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
25216934 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
25216974 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25216998 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:25224479 original size:13 final size:13
Alignment explanation
Indices: 25224461--25224485 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25224451 GTCAATTTAT
25224461 GTGTGAAAATTTC
1 GTGTGAAAATTTC
25224474 GTGTGAAAATTT
1 GTGTGAAAATTT
25224486 TATCATTTGT
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:25238323 original size:16 final size:16
Alignment explanation
Indices: 25238284--25238317 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25238274 ACACTTGTCT
**
25238284 ACTATCTATTGTTTTC
1 ACTATCTAAAGTTTTC
25238300 ACTATCTAAAGTTTTC
1 ACTATCTAAAGTTTTC
25238316 AC
1 AC
25238318 AGTCTATAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (16 bp):
ACTATCTAAAGTTTTC
Found at i:25238328 original size:16 final size:16
Alignment explanation
Indices: 25238288--25238361 Score: 60
Period size: 16 Copynumber: 4.6 Consensus size: 16
25238278 TTGTCTACTA
*
25238288 TCTATTGTTTTCACTA-
1 TCTATAGTTTTCAC-AG
*
25238304 TCTAAAGTTTTCACAG
1 TCTATAGTTTTCACAG
* * *
25238320 TCTATAGTTCTCTCAA
1 TCTATAGTTTTCACAG
* *
25238336 CCTATAGTTTTTCACGG
1 TCTATAG-TTTTCACAG
25238353 TCTATAGTT
1 TCTATAGTT
25238362 GTCTTAGTAT
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
15 1 0.02
16 32 0.73
17 11 0.25
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.46
Consensus pattern (16 bp):
TCTATAGTTTTCACAG
Found at i:25239306 original size:29 final size:29
Alignment explanation
Indices: 25239274--25239335 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
25239264 CGTAATTTAA
*
25239274 CATAAAAAGTCACAAAT-AGCAAT-AAAGTC
1 CATAAAAA-TC-CAAATCAGAAATAAAAGTC
*
25239303 CATAAAAATCCAAATCATAAATAAAAGTC
1 CATAAAAATCCAAATCAGAAATAAAAGTC
25239332 CATA
1 CATA
25239336 TTTATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 5 0.17
28 6 0.21
29 18 0.62
ACGTcount: A:0.56, C:0.18, G:0.06, T:0.19
Consensus pattern (29 bp):
CATAAAAATCCAAATCAGAAATAAAAGTC
Found at i:25245442 original size:21 final size:21
Alignment explanation
Indices: 25245416--25245473 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
25245406 CAAAAAGAGG
25245416 CACACGCCCGTGTGACGATGA
1 CACACGCCCGTGTGACGATGA
25245437 CACACGCCCGTGTGACGATGA
1 CACACGCCCGTGTGACGATGA
25245458 CACACGCCCGTGTGAC
1 CACACGCCCGTGTGAC
25245474 CCAGGAACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.22, C:0.36, G:0.28, T:0.14
Consensus pattern (21 bp):
CACACGCCCGTGTGACGATGA
Found at i:25250007 original size:25 final size:25
Alignment explanation
Indices: 25249944--25250019 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 25
25249934 CTTACGAGCT
* *
25249944 ATAATGATAAGCTCCTCTGAACTGA
1 ATAACGATAAGCTCCTCCGAACTGA
* * * *
25249969 ATAGCGGTAGGCTCCTCCGATCTGA
1 ATAACGATAAGCTCCTCCGAACTGA
* *
25249994 ATAACGATAAGCTCATACGAACTGA
1 ATAACGATAAGCTCCTCCGAACTGA
25250019 A
1 A
25250020 ATTAATAACC
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (25 bp):
ATAACGATAAGCTCCTCCGAACTGA
Found at i:25253768 original size:40 final size:40
Alignment explanation
Indices: 25253724--25253985 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
25253714 GCTCCTCGTT
* *
25253724 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
25253764 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
25253804 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
25253843 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
25253882 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
25253921 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
25253962 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25253986 CAGCATTCAA
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 126 0.62
40 64 0.32
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:25260992 original size:27 final size:27
Alignment explanation
Indices: 25260962--25261139 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
25260952 ATATTGAGCC
* *
25260962 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
25260989 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
25261016 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* ** ** *
25261044 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
25261071 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
25261098 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
25261125 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
25261140 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 101 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:25261101 original size:82 final size:81
Alignment explanation
Indices: 25260983--25261138 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
25260973 TGCTATATAA
* * *
25260983 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
*
25261048 CTCTTAGTGCCGCATGG
65 CCCTTAGTGCCGCATGG
* * **
25261065 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25261129 CCCTTAGTGC
65 CCCTTAGTGC
25261139 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
CCTTAGTGCCGCATGG
Found at i:25280177 original size:50 final size:49
Alignment explanation
Indices: 25280059--25280228 Score: 171
Period size: 50 Copynumber: 3.4 Consensus size: 49
25280049 TGCCAAAGAT
* * * * *
25280059 ATGTCCCAGACATAGTCTTACATGGGATGTT-TCTTGTACTGCCAATTCC
1 ATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATAGTGCCAATGCC
* * * *
25280108 ATATCCCAGATATTGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATA-GTGCCAATGCC
** ** * *
25280158 ATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATAT-AGTGCCAATGCC
25280208 ATGTCCCAGACATGGTCTTAC
1 ATGTCCCAGACATGGTCTTAC
25280229 TTGAAACCTC
Statistics
Matches: 100, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
48 3 0.03
49 29 0.29
50 67 0.67
51 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (49 bp):
ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGTGCCAATGCC
Found at i:25280238 original size:50 final size:54
Alignment explanation
Indices: 25280155--25280283 Score: 158
Period size: 50 Copynumber: 2.4 Consensus size: 54
25280145 AGGTGCCCAT
**
25280155 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTC-ATCTC-A-G-TGCCAAC
1 GCCATGTCCCAGACATGGTCTTACGGGAAACCTCTCAATCTCAATGATGCCAAC
** *
25280205 GCCATGTCCCAGACATGGTCTTACTTGAAACCTCTCATAATCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACGGGAAACCTCTC--AATCTCAATGATGCCAAC
*
25280261 GCCATGTGCCAGACATGGTCTTA
1 GCCATGTCCCAGACATGGTCTTA
25280284 TTTGGGATCT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
50 32 0.48
53 5 0.07
54 1 0.01
55 1 0.01
56 28 0.42
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (54 bp):
GCCATGTCCCAGACATGGTCTTACGGGAAACCTCTCAATCTCAATGATGCCAAC
Found at i:25286367 original size:28 final size:27
Alignment explanation
Indices: 25286310--25286461 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
25286300 TAAATTGTGC
* *
25286310 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
25286337 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
25286365 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
25286392 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
25286420 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
25286447 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25286462 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:25286375 original size:55 final size:55
Alignment explanation
Indices: 25286310--25286461 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
25286300 TAAATTGTGC
* *
25286310 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
25286365 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
25286420 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
25286462 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:25301966 original size:25 final size:25
Alignment explanation
Indices: 25301904--25302015 Score: 86
Period size: 25 Copynumber: 4.5 Consensus size: 25
25301894 ACACACCACG
**
25301904 GCTCGTATGAGCTTACCGATTTGTA
1 GCTCGTATGAGCTTACCGATTTACA
* *
25301929 ACTCGTGA-AAGCTTACCGATTCT-CA
1 GCTCGT-ATGAGCTTACCGATT-TACA
*
25301954 GCTCGTATGAGCTTACTGATTTACA
1 GCTCGTATGAGCTTACCGATTTACA
* * * * *
25301979 ACTCGTGA-GAGCATACTGATTCATA
1 GCTCGT-ATGAGCTTACCGATTTACA
25302004 GCTCGTATGAGC
1 GCTCGTATGAGC
25302016 ATACATGTAC
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
24 3 0.04
25 64 0.91
26 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (25 bp):
GCTCGTATGAGCTTACCGATTTACA
Found at i:25301982 original size:50 final size:50
Alignment explanation
Indices: 25301904--25302015 Score: 154
Period size: 50 Copynumber: 2.2 Consensus size: 50
25301894 ACACACCACG
** *
25301904 GCTCGTATGAGCTTACCGATTTGTAACTCGTGAAAGCTTACCGATTC-TCA
1 GCTCGTATGAGCTTACCGATTTACAACTCGTGAAAGCATACCGATTCAT-A
* * *
25301954 GCTCGTATGAGCTTACTGATTTACAACTCGTGAGAGCATACTGATTCATA
1 GCTCGTATGAGCTTACCGATTTACAACTCGTGAAAGCATACCGATTCATA
25302004 GCTCGTATGAGC
1 GCTCGTATGAGC
25302016 ATACATGTAC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 54 0.98
51 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (50 bp):
GCTCGTATGAGCTTACCGATTTACAACTCGTGAAAGCATACCGATTCATA
Done.