Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 280 of 292
Found at i:80690921 original size:38 final size:39
Alignment explanation
Indices: 80690837--80690929 Score: 102
Period size: 38 Copynumber: 2.4 Consensus size: 39
80690827 TTTTGGTACA
* **
80690837 ATAATTTTTATAATTATTTTTTACGAAATTTATATTTATTT
1 ATAATTTTTATAA-T-TTTCTTACGAAATTTATAAATATTT
80690878 A-AATTTTTATAATTTTCTTACG-AATTTATAAA-ATTTT
1 ATAATTTTTATAATTTTCTTACGAAATTTATAAATA-TTT
*
80690915 ATAATTTTTTTAATT
1 ATAATTTTTATAATT
80690930 CGATATATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
36 1 0.02
37 12 0.26
38 20 0.43
39 1 0.02
40 11 0.24
41 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.59
Consensus pattern (39 bp):
ATAATTTTTATAATTTTCTTACGAAATTTATAAATATTT
Found at i:80692275 original size:17 final size:18
Alignment explanation
Indices: 80692247--80692288 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
80692237 CGTATCATTT
*
80692247 TTTTATAGCCTTTCAAAA-
1 TTTTA-AGCCTTCCAAAAG
80692265 TTTTAAGCCTTCCAAAAG
1 TTTTAAGCCTTCCAAAAG
80692283 TTTTAA
1 TTTTAA
80692289 AAATTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (18 bp):
TTTTAAGCCTTCCAAAAG
Found at i:80693199 original size:15 final size:16
Alignment explanation
Indices: 80693179--80693213 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
80693169 GAAAGTAAAT
80693179 AAAATTATAGAAA-AA
1 AAAATTATAGAAAGAA
*
80693194 AAAATTATTGAAAGAA
1 AAAATTATAGAAAGAA
80693210 AAAA
1 AAAA
80693214 ATATGGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (16 bp):
AAAATTATAGAAAGAA
Found at i:80693373 original size:20 final size:20
Alignment explanation
Indices: 80693335--80693377 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
80693325 TTAAATTCTA
* **
80693335 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
80693355 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
80693375 AAA
1 AAA
80693378 ATTAAATCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:80696650 original size:29 final size:29
Alignment explanation
Indices: 80696618--80696678 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
80696608 ACTTTTTTTC
*
80696618 TTTTTAATAAT-TTTAATG-ATTTTTAAAA
1 TTTTT-ATAATATTTTATGAATTTTTAAAA
* *
80696646 TTTTTATAATATTTTTTGAATTTTTTAAA
1 TTTTTATAATATTTTATGAATTTTTAAAA
80696675 TTTT
1 TTTT
80696679 AAAAAAGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 5 0.18
28 10 0.36
29 13 0.46
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (29 bp):
TTTTTATAATATTTTATGAATTTTTAAAA
Found at i:80696659 original size:20 final size:19
Alignment explanation
Indices: 80696628--80696682 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
80696618 TTTTTAATAA
80696628 TTTTAATGATTTTTAAAATT
1 TTTTAAT-ATTTTTAAAATT
**
80696648 TTTATAATATTTTTTGAATT
1 TTT-TAATATTTTTAAAATT
80696668 TTTTAA-A-TTTTAAAA
1 TTTTAATATTTTTAAAA
80696683 AAGTAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
17 6 0.20
18 1 0.03
19 3 0.10
20 16 0.53
21 4 0.13
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTTAATATTTTTAAAATT
Found at i:80696668 original size:9 final size:9
Alignment explanation
Indices: 80696636--80696678 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
80696626 AATTTTAATG
*
80696636 ATTTTTAAA
1 ATTTTTTAA
80696645 ATTTTTATAA
1 ATTTTT-TAA
*
80696655 TATTTTTTGA
1 -ATTTTTTAA
80696665 ATTTTTTAA
1 ATTTTTTAA
80696674 ATTTT
1 ATTTT
80696679 AAAAAAGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 19 0.66
10 4 0.14
11 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:80697070 original size:4 final size:4
Alignment explanation
Indices: 80697061--80697085 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
80697051 GACTCAAACT
80697061 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
80697086 AAATATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:80698670 original size:15 final size:15
Alignment explanation
Indices: 80698652--80698702 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
80698642 AAAAATTTCA
*
80698652 ATAAATAAAAAATAT
1 ATAAATAATAAATAT
*
80698667 ATAAATTATTAAATAT
1 ATAAA-TAATAAATAT
*
80698683 -TAAATAATATA-AT
1 ATAAATAATAAATAT
80698696 ATAAATA
1 ATAAATA
80698703 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 2 0.07
14 11 0.37
15 9 0.30
16 8 0.27
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAAATAATAAATAT
Found at i:80701552 original size:26 final size:26
Alignment explanation
Indices: 80701502--80701560 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
80701492 ATTTGAAAAT
80701502 ATATTTTTAAAAAGATAAATTATTTCA
1 ATATTTTTAAAAAGATAAATTATTT-A
* *
80701529 A-ATTTTTAATAATA-AAATTAATTTA
1 ATATTTTTAAAAAGATAAATT-ATTTA
80701554 ATATTTT
1 ATATTTT
80701561 ATACATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 7 0.25
26 20 0.71
27 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (26 bp):
ATATTTTTAAAAAGATAAATTATTTA
Found at i:80702091 original size:17 final size:18
Alignment explanation
Indices: 80702055--80702092 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
80702045 TTCTAGAAAC
*
80702055 TATGTATTTAGAACATAA
1 TATGTATTTAGAAAATAA
80702073 TATGTATTTA-AAAATAA
1 TATGTATTTAGAAAATAA
80702090 TAT
1 TAT
80702093 ACAGTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (18 bp):
TATGTATTTAGAAAATAA
Found at i:80706045 original size:20 final size:21
Alignment explanation
Indices: 80706020--80706058 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
80706010 TGCCAAGGTC
80706020 TCTCTTCCCTTTTT-TTTTTT
1 TCTCTTCCCTTTTTATTTTTT
*
80706040 TCTCTTTCCTTTTTATTTT
1 TCTCTTCCCTTTTTATTTT
80706059 ATCATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (21 bp):
TCTCTTCCCTTTTTATTTTTT
Found at i:80726915 original size:20 final size:21
Alignment explanation
Indices: 80726864--80726917 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
80726854 TCTATTGAAT
*
80726864 TTTTTAATATTATTAAATAATA
1 TTTTTAATA-TATCAAATAATA
80726886 TTTATTAATATATCAAATAA-A
1 TTT-TTAATATATCAAATAATA
80726907 TTTTTAATATA
1 TTTTTAATATA
80726918 ACTTTAATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 8 0.27
21 4 0.13
22 12 0.40
23 6 0.20
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTTAATATATCAAATAATA
Found at i:80732201 original size:3 final size:3
Alignment explanation
Indices: 80732193--80732240 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
80732183 ATCTAATACG
80732193 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
80732241 AAAAGAGAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:80733320 original size:23 final size:24
Alignment explanation
Indices: 80733284--80733330 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
80733274 TTTATAATTG
*
80733284 TATAATATTCTACAT-AAATTTTA
1 TATAATATTATACATAAAATTTTA
*
80733307 TATAATTTTATACATAAAATTTTA
1 TATAATATTATACATAAAATTTTA
80733331 ATTTCATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (24 bp):
TATAATATTATACATAAAATTTTA
Found at i:80736883 original size:21 final size:20
Alignment explanation
Indices: 80736859--80736904 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
80736849 ATAACAGCTT
* *
80736859 TTAAAATAATTATCTATTAAC
1 TTAAAAAAATTATCTA-TAAA
80736880 TTAAAAAAATTATCTATAAA
1 TTAAAAAAATTATCTATAAA
80736900 TTAAA
1 TTAAA
80736905 TTCTAATACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (20 bp):
TTAAAAAAATTATCTATAAA
Found at i:80737375 original size:20 final size:19
Alignment explanation
Indices: 80737352--80737389 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
80737342 CCGCTACTTT
80737352 CACTTTCTTTCTTTCTTTCA
1 CACTTTCTTTCTTT-TTTCA
*
80737372 CACTTTTTTTCTTTTTTC
1 CACTTTCTTTCTTTTTTC
80737390 TCTTTTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.08, C:0.26, G:0.00, T:0.66
Consensus pattern (19 bp):
CACTTTCTTTCTTTTTTCA
Found at i:80745244 original size:27 final size:26
Alignment explanation
Indices: 80745213--80745274 Score: 101
Period size: 25 Copynumber: 2.4 Consensus size: 26
80745203 CGCCATTAAT
80745213 GTGTGGTGCCAATTAAACGGGATGAGA
1 GTGTGG-GCCAATTAAACGGGATGAGA
80745240 GTGT-GGCCAATTAAACGGGATGAGA
1 GTGTGGGCCAATTAAACGGGATGAGA
80745265 GTGT-GGCCAA
1 GTGTGGGCCAA
80745275 GGTACTCTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 30 0.86
26 1 0.03
27 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.37, T:0.21
Consensus pattern (26 bp):
GTGTGGGCCAATTAAACGGGATGAGA
Found at i:80745250 original size:25 final size:25
Alignment explanation
Indices: 80745220--80745274 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
80745210 AATGTGTGGT
80745220 GCCAATTAAACGGGATGAGAGTGTG
1 GCCAATTAAACGGGATGAGAGTGTG
80745245 GCCAATTAAACGGGATGAGAGTGTG
1 GCCAATTAAACGGGATGAGAGTGTG
80745270 GCCAA
1 GCCAA
80745275 GGTACTCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.33, C:0.15, G:0.35, T:0.18
Consensus pattern (25 bp):
GCCAATTAAACGGGATGAGAGTGTG
Found at i:80750454 original size:25 final size:25
Alignment explanation
Indices: 80750420--80750469 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
80750410 ACAGCAGGAG
80750420 AAAATCTCTGAACCTATTAGATTAC
1 AAAATCTCTGAACCTATTAGATTAC
80750445 AAAATCTCTGAACCTATTAGATTAC
1 AAAATCTCTGAACCTATTAGATTAC
80750470 CTCAACAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (25 bp):
AAAATCTCTGAACCTATTAGATTAC
Found at i:80755126 original size:9 final size:9
Alignment explanation
Indices: 80755112--80755224 Score: 54
Period size: 9 Copynumber: 12.3 Consensus size: 9
80755102 ACATGTGATA
80755112 AAAAATTAT
1 AAAAATTAT
*
80755121 AAAAA-TAG
1 AAAAATTAT
* *
80755129 AAATCACTA-
1 AAA-AATTAT
80755138 AAA-ATTAT
1 AAAAATTAT
*
80755146 AAAATTTATT
1 AAAAATTA-T
**
80755156 AAATTTTAAT
1 AAAAATT-AT
80755166 AAAAATTAT
1 AAAAATTAT
*
80755175 AAAAATAAT
1 AAAAATTAT
80755184 AAAAAATTAT
1 -AAAAATTAT
80755194 AAAACA-TAT
1 AAAA-ATTAT
** *
80755203 AGTAATATAA
1 AAAAAT-TAT
80755213 AAAAATTAT
1 AAAAATTAT
80755222 AAA
1 AAA
80755225 CTTTTATAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
7 3 0.04
8 9 0.11
9 36 0.46
10 30 0.38
11 1 0.01
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:80755177 original size:19 final size:18
Alignment explanation
Indices: 80755162--80755197 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
80755152 TATTAAATTT
80755162 TAATAAAAATTATAAAAA
1 TAATAAAAATTATAAAAA
80755180 TAATAAAAAATTATAAAA
1 TAAT-AAAAATTATAAAA
80755198 CATATAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
TAATAAAAATTATAAAAA
Found at i:80755195 original size:28 final size:27
Alignment explanation
Indices: 80755112--80755224 Score: 72
Period size: 28 Copynumber: 4.1 Consensus size: 27
80755102 ACATGTGATA
* *
80755112 AAAAATTAT-AAAA-AT-AGAAATCACT
1 AAAAATTATAAAAATATAAAAAATTA-T
* * **
80755137 AAAAATTATAAAATTTATTAAATTTTAAT
1 AAAAATTATAAAA-ATATAAAAAATT-AT
80755166 AAAAATTATAAAAATAATAAAAAATTAT
1 AAAAATTATAAAAAT-ATAAAAAATTAT
**
80755194 AAAACA-TATAGTAATATAAAAAAATTAT
1 AAAA-ATTATAAAAATAT-AAAAAATTAT
80755222 AAA
1 AAA
80755225 CTTTTATAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
25 9 0.13
26 3 0.04
27 2 0.03
28 29 0.42
29 25 0.36
30 1 0.01
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (27 bp):
AAAAATTATAAAAATATAAAAAATTAT
Found at i:80755335 original size:12 final size:11
Alignment explanation
Indices: 80755307--80755332 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
80755297 AAAAGAAGTG
80755307 TTTTATAATAT
1 TTTTATAATAT
80755318 TTTTATAATAT
1 TTTTATAATAT
80755329 TTTT
1 TTTT
80755333 TATTTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTATAATAT
Found at i:80758136 original size:9 final size:9
Alignment explanation
Indices: 80758122--80758170 Score: 59
Period size: 9 Copynumber: 5.8 Consensus size: 9
80758112 CTTGTCTTTG
80758122 TCCTTCTTC
1 TCCTTCTTC
80758131 TCCTTCTTC
1 TCCTTCTTC
*
80758140 TCCTTCTTA
1 TCCTTCTTC
*
80758149 TGCTTCTTC
1 TCCTTCTTC
80758158 T-CTT-TT-
1 TCCTTCTTC
80758164 TCCTTCT
1 TCCTTCT
80758171 CCTGAAAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
6 1 0.03
7 5 0.14
8 4 0.11
9 25 0.71
ACGTcount: A:0.02, C:0.37, G:0.02, T:0.59
Consensus pattern (9 bp):
TCCTTCTTC
Found at i:80760281 original size:95 final size:95
Alignment explanation
Indices: 80760170--80760429 Score: 454
Period size: 95 Copynumber: 2.8 Consensus size: 95
80760160 AGATAATTTC
*
80760170 AAGAAATGCTCTTTTGATCAACAATTCTAGCTCAGAAACTTGGGAAACCTACTGCTTTCTTATGC
1 AAGAAATGCTCTTTTGATCAATAATTCTAGCTCAGAAACTTGGGAAACCTACTGCTTTCTTATGC
80760235 CAAGCTAACAATTCCCCGAATAGGAAGATA
66 CAAGCTAACAATTCCCCGAATAGGAAGATA
80760265 AAGAAATGCTCTTTTGATCAATAATTCTAGCTCAGAAACTTGGGAAACCTACTGCTTTCTTATGC
1 AAGAAATGCTCTTTTGATCAATAATTCTAGCTCAGAAACTTGGGAAACCTACTGCTTTCTTATGC
80760330 CAAGCTAACAATTCCCCGAATAGGAAGATA
66 CAAGCTAACAATTCCCCGAATAGGAAGATA
* * *
80760360 ACG-AAT-CTCTTTTGATCAATAATTCTAGCTCAGAAACTTAGGG-AACCTACTGTTTTCTTATT
1 AAGAAATGCTCTTTTGATCAATAATTCTAGCTCAGAAACTT-GGGAAACCTACTGCTTTCTTATG
80760422 CCAAGCTA
65 CCAAGCTA
80760430 CTTCAACAAT
Statistics
Matches: 160, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
93 58 0.36
94 6 0.04
95 96 0.60
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (95 bp):
AAGAAATGCTCTTTTGATCAATAATTCTAGCTCAGAAACTTGGGAAACCTACTGCTTTCTTATGC
CAAGCTAACAATTCCCCGAATAGGAAGATA
Found at i:80762546 original size:12 final size:12
Alignment explanation
Indices: 80762531--80762556 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
80762521 TTAAATATTT
80762531 TAAAAAATTTTA
1 TAAAAAATTTTA
80762543 TAAAAAATTTTA
1 TAAAAAATTTTA
80762555 TA
1 TA
80762557 TATTATTTTA
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAAAAAATTTTA
Found at i:80763662 original size:27 final size:28
Alignment explanation
Indices: 80763622--80763687 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
80763612 AATTTATCAT
* *
80763622 TAATTTATTT-TATTTACAATTA-AAAA
1 TAATTTTTTTATATTTAAAATTAGAAAA
80763648 TAATTTTTTTATATTTAAAATTATGAAAA
1 TAATTTTTTTATATTTAAAATTA-GAAAA
80763677 -ACATTTTTTTA
1 TA-ATTTTTTTA
80763688 GATACCATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 9 0.26
27 11 0.32
28 1 0.03
29 13 0.38
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (28 bp):
TAATTTTTTTATATTTAAAATTAGAAAA
Found at i:80764860 original size:14 final size:14
Alignment explanation
Indices: 80764834--80764875 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
80764824 AACATAACCC
80764834 ATTA-AATATTATTA
1 ATTATAATA-TATTA
*
80764848 ATTATAATATATTT
1 ATTATAATATATTA
*
80764862 ATGATAATATATTA
1 ATTATAATATATTA
80764876 TACACATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
ATTATAATATATTA
Found at i:80771047 original size:39 final size:39
Alignment explanation
Indices: 80770982--80771092 Score: 159
Period size: 39 Copynumber: 2.8 Consensus size: 39
80770972 AATTTATCTG
* * * * *
80770982 ACGCATTTTGTAATAATTGTTGGATGATAAGTCCACTTC
1 ACGCGTTTCGTAATAATTATTAGATGATAAGTCCACCTC
* *
80771021 ACGCGTTTCGTAATGATTATTAGATGATAAGTTCACCTC
1 ACGCGTTTCGTAATAATTATTAGATGATAAGTCCACCTC
80771060 ACGCGTTTCGTAATAATTATTAGATGATAAGTC
1 ACGCGTTTCGTAATAATTATTAGATGATAAGTC
80771093 TAATATATTA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (39 bp):
ACGCGTTTCGTAATAATTATTAGATGATAAGTCCACCTC
Found at i:80784617 original size:13 final size:13
Alignment explanation
Indices: 80784599--80784647 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
80784589 GTGATTGAGT
80784599 TACTAAATTATAG
1 TACTAAATTATAG
* *
80784612 TACTAAATTAAAA
1 TACTAAATTATAG
*
80784625 T-CTAAAATATAG
1 TACTAAATTATAG
80784637 TACTAAATTAT
1 TACTAAATTAT
80784648 TACACATTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
12 9 0.31
13 20 0.69
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (13 bp):
TACTAAATTATAG
Found at i:80785868 original size:49 final size:49
Alignment explanation
Indices: 80785796--80785893 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
80785786 CTCGAATTAA
80785796 CATGTCATTTCACTTATAAAACACCTTCGAGGAATTAGTTTAATACAAT
1 CATGTCATTTCACTTATAAAACACCTTCGAGGAATTAGTTTAATACAAT
80785845 CATGTCATTTCACTTATAAAACACCTTCGAGGAATTAGTTTAATACAAT
1 CATGTCATTTCACTTATAAAACACCTTCGAGGAATTAGTTTAATACAAT
80785894 TGAAGTTCGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (49 bp):
CATGTCATTTCACTTATAAAACACCTTCGAGGAATTAGTTTAATACAAT
Found at i:80786514 original size:13 final size:13
Alignment explanation
Indices: 80786496--80786536 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
80786486 AAATGACTTA
80786496 TTTTTCTTTTAAT
1 TTTTTCTTTTAAT
*
80786509 TTTTTCTTAT-AT
1 TTTTTCTTTTAAT
*
80786521 TTTTT-GTTTAAT
1 TTTTTCTTTTAAT
80786533 TTTT
1 TTTT
80786537 AATTAATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
11 2 0.08
12 13 0.54
13 9 0.38
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTTCTTTTAAT
Found at i:80786999 original size:12 final size:11
Alignment explanation
Indices: 80786980--80787014 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
80786970 TTTTTATGTT
80786980 TATATATATTA
1 TATATATATTA
80786991 TATTATATATT-
1 TA-TATATATTA
80787002 TATATATATTA
1 TATATATATTA
80787013 TA
1 TA
80787015 ATTTATAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 8 0.36
11 6 0.27
12 8 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TATATATATTA
Found at i:80787021 original size:22 final size:21
Alignment explanation
Indices: 80786972--80787021 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
80786962 TGATCCATTT
*
80786972 TTTATGTTTATATATATTATA
1 TTTATATTTATATATATTATA
80786993 TTATATATTTATATATATTATAA
1 TT-TATATTTATATATATTAT-A
80787016 TTTATA
1 TTTATA
80787022 ACACATAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 2 0.08
22 21 0.81
23 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTATATTTATATATATTATA
Found at i:80791552 original size:17 final size:17
Alignment explanation
Indices: 80791530--80791564 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
80791520 TTCAATATTG
80791530 TTATTAAGAGACGAAGA
1 TTATTAAGAGACGAAGA
*
80791547 TTATTAAGAGATGAAGA
1 TTATTAAGAGACGAAGA
80791564 T
1 T
80791565 GGAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.23, T:0.29
Consensus pattern (17 bp):
TTATTAAGAGACGAAGA
Found at i:80793042 original size:3 final size:3
Alignment explanation
Indices: 80793034--80793061 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
80793024 ATTTAAAAAT
80793034 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
80793062 CAAATTTTCA
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:80797121 original size:17 final size:18
Alignment explanation
Indices: 80797099--80797136 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
80797089 TTTAATTTTT
80797099 TTTTTGTAATTTTTC-AA
1 TTTTTGTAATTTTTCGAA
*
80797116 TTTTTGTGATTTTTCGAA
1 TTTTTGTAATTTTTCGAA
80797134 TTT
1 TTT
80797137 CCCTTTCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (18 bp):
TTTTTGTAATTTTTCGAA
Found at i:80798226 original size:2 final size:2
Alignment explanation
Indices: 80798219--80798267 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
80798209 GTAAACAATA
* *
80798219 AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
80798261 GT AT AT A
1 AT AT AT A
80798268 ATAGAAATAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:80798635 original size:3 final size:3
Alignment explanation
Indices: 80798622--80798707 Score: 63
Period size: 3 Copynumber: 28.3 Consensus size: 3
80798612 GAGGGCATAT
**
80798622 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GGA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A ATA ATA ATA
* *
80798669 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
80798708 AACAAAGCTC
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
2 8 0.12
3 48 0.73
4 9 0.14
5 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:80798646 original size:12 final size:12
Alignment explanation
Indices: 80798622--80798704 Score: 71
Period size: 12 Copynumber: 6.8 Consensus size: 12
80798612 GAGGGCATAT
80798622 ATAATAT-AATA
1 ATAATATAAATA
80798633 ATAATATAAATA
1 ATAATATAAATA
80798645 ATAATATATACATGA
1 ATAATATA-A-AT-A
**
80798660 GGAATA-ATAATA
1 ATAATATA-AATA
80798672 ATAATATAAATA
1 ATAATATAAATA
* *
80798684 ATAGTAAAAATA
1 ATAATATAAATA
*
80798696 ATAAAATAA
1 ATAATATAA
80798705 TAAAACAAAG
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
11 7 0.12
12 37 0.64
13 4 0.07
14 5 0.09
15 5 0.09
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:80798695 original size:27 final size:27
Alignment explanation
Indices: 80798622--80798708 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 27
80798612 GAGGGCATAT
* *
80798622 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* * * *
80798648 AT-ATATACAT--GAGGAATAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
80798672 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
80798699 A-AATAATAAA
1 ATAAT-ATAAA
80798709 ACAAAGCTCT
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
24 11 0.24
25 11 0.24
26 7 0.15
27 17 0.37
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:80799055 original size:25 final size:25
Alignment explanation
Indices: 80799009--80799056 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
80798999 AAAACTAGCC
*
80799009 TTTCCAAGAAACAAAAATAACCTTA
1 TTTCCAAAAAACAAAAATAACCTTA
80799034 TTTCCAAAAAAACAAAAA-AACCT
1 TTTCC-AAAAAACAAAAATAACCT
80799057 CCTCCAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.56, C:0.21, G:0.02, T:0.21
Consensus pattern (25 bp):
TTTCCAAAAAACAAAAATAACCTTA
Found at i:80799067 original size:20 final size:23
Alignment explanation
Indices: 80799042--80799088 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
80799032 TATTTCCAAA
80799042 AAAACAAA-AA-AA-CCTCCTCC
1 AAAACAAAGAACAATCCTCCTCC
*
80799062 AAAACAAAGAACAATCCTTCTCC
1 AAAACAAAGAACAATCCTCCTCC
80799085 AAAA
1 AAAA
80799089 AACCAAAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 2 0.09
22 2 0.09
23 11 0.48
ACGTcount: A:0.55, C:0.30, G:0.02, T:0.13
Consensus pattern (23 bp):
AAAACAAAGAACAATCCTCCTCC
Found at i:80808517 original size:29 final size:30
Alignment explanation
Indices: 80808485--80808541 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
80808475 ATTTTTTAAT
80808485 AATTTTAATGATTTTT-AATTTTTAAAAAG
1 AATTTTAATGATTTTTGAATTTTTAAAAAG
* **
80808514 AATTTTTATTTTTTTTGAATTTTTAAAA
1 AATTTTAATGATTTTTGAATTTTTAAAA
80808542 TTTTAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (30 bp):
AATTTTAATGATTTTTGAATTTTTAAAAAG
Found at i:80808962 original size:2 final size:2
Alignment explanation
Indices: 80808955--80808987 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
80808945 ATTTTTATTA
80808955 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
80808988 ATACACTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:80809121 original size:40 final size:39
Alignment explanation
Indices: 80809058--80809147 Score: 126
Period size: 40 Copynumber: 2.3 Consensus size: 39
80809048 TAAAAAATAT
*
80809058 TTATATTAAAAAAAATACCATAAATATAATAAATGTTTTTA
1 TTATATT-AAAAAAATACCATAAATATAATAAAT-ATTTTA
* *
80809099 TTATATTAAAAAACTACTATAAATATAATAAATATTTTA
1 TTATATTAAAAAAATACCATAAATATAATAAATATTTTA
*
80809138 TTTTATTAAA
1 TTATATTAAA
80809148 TGTGAACTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 14 0.31
40 24 0.53
41 7 0.16
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (39 bp):
TTATATTAAAAAAATACCATAAATATAATAAATATTTTA
Found at i:80809715 original size:14 final size:14
Alignment explanation
Indices: 80809696--80809723 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
80809686 ACTTAACAAT
80809696 AAAACAACAAAATA
1 AAAACAACAAAATA
80809710 AAAACAACAAAATA
1 AAAACAACAAAATA
80809724 GTAGTAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.14, G:0.00, T:0.07
Consensus pattern (14 bp):
AAAACAACAAAATA
Found at i:80813971 original size:24 final size:21
Alignment explanation
Indices: 80813896--80813964 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 21
80813886 TTTTTATTTT
80813896 ATTTTAAATTTATTATGGTTTG
1 ATTTTAAATTTATTATGG-TTG
*
80813918 ATGTATT-AATTCTATT-TGTGTTT
1 AT-T-TTAAATT-TATTATG-GTTG
80813941 ATTTTAAATTTATTATGGTATG
1 ATTTTAAATTTATTATGGT-TG
80813963 AT
1 AT
80813965 CTCTTAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
21 8 0.21
22 12 0.32
23 11 0.29
24 7 0.18
ACGTcount: A:0.28, C:0.01, G:0.13, T:0.58
Consensus pattern (21 bp):
ATTTTAAATTTATTATGGTTG
Found at i:80816787 original size:24 final size:25
Alignment explanation
Indices: 80816760--80816808 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
80816750 TTAAAAATAA
* *
80816760 AAATGA-ACATGTGAATTTAGTGTT
1 AAATGATACATGTAAATTAAGTGTT
*
80816784 AAATGATATATGTAAATTAAGTGTT
1 AAATGATACATGTAAATTAAGTGTT
80816809 TATGTTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (25 bp):
AAATGATACATGTAAATTAAGTGTT
Found at i:80817587 original size:20 final size:21
Alignment explanation
Indices: 80817553--80817606 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
80817543 TGATGATATT
*
80817553 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
80817574 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
80817594 TTTTATTATTTTA
1 TTATATTATTTTA
80817607 TTATTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:80817605 original size:8 final size:8
Alignment explanation
Indices: 80817592--80817644 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
80817582 TTTAATGAGA
80817592 TATTTTAT
1 TATTTTAT
80817600 TATTTTAT
1 TATTTTAT
80817608 TATTATT-T
1 TATT-TTAT
80817616 TATTATTAT
1 TATT-TTAT
*
80817625 T-TCATTAT
1 TAT-TTTAT
80817633 TATTTTAT
1 TATTTTAT
80817641 TATT
1 TATT
80817645 AATTATTTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 34 0.87
9 5 0.13
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (8 bp):
TATTTTAT
Found at i:80817612 original size:11 final size:11
Alignment explanation
Indices: 80817596--80817645 Score: 91
Period size: 11 Copynumber: 4.5 Consensus size: 11
80817586 ATGAGATATT
80817596 TTATTATTTTA
1 TTATTATTTTA
80817607 TTATTATTTTA
1 TTATTATTTTA
*
80817618 TTATTATTTCA
1 TTATTATTTTA
80817629 TTATTATTTTA
1 TTATTATTTTA
80817640 TTATTA
1 TTATTA
80817646 ATTATTTAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 37 1.00
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:80819831 original size:46 final size:46
Alignment explanation
Indices: 80819777--80820309 Score: 831
Period size: 46 Copynumber: 11.6 Consensus size: 46
80819767 GCTATCTGAA
*
80819777 ATGAAATGTGTAAGGCCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
80819823 -TAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 AT-GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
80819869 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
80819915 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
80819961 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
80820006 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
80820052 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
**
80820098 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * * *
80820143 ATGAAATGTCCAAGACCATGCTTAAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
80820189 ATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
80820235 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
80820281 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGA
80820310 CACTATGACA
Statistics
Matches: 448, Mismatches: 34, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
45 84 0.19
46 363 0.81
47 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:80820024 original size:137 final size:138
Alignment explanation
Indices: 80819777--80820309 Score: 840
Period size: 137 Copynumber: 3.9 Consensus size: 138
80819767 GCTATCTGAA
* * * **
80819777 ATGAAATGTGTAAGGCCATGGTTGAAAGATACCATGGCAACATGA-TTAGAAATGTGTAAGACCA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACAT-GAAATGAATAAGACCA
*
80819841 TGGTTGAAAGATACCATGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGG
65 TGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGG
80819906 CAACATGAT
130 CAACATGAT
80819915 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA-GAATAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCAT
*
80819979 GGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
66 GGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
80820044 AACATGAT
131 AACATGAT
80820052 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA-GAATAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCAT
** * *
80820116 GGTTGAAAGATACCATGGCAACATGATATGAAATGTCCAAGACCATGCTTAAAAGATACCATGGC
66 GGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
*
80820181 AACCTGAT
131 AACATGAT
* * * **
80820189 ATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAACCTGATATGAAATGTGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCAT
* * *
80820254 GGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
66 GGTTGAAAGATACCATGGCAACATGATATG-AAATGTGTAAGACCATGGTTGAAAGA
80820310 CACTATGACA
Statistics
Matches: 367, Mismatches: 25, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
137 262 0.71
138 104 0.28
139 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (138 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCAT
GGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
AACATGAT
Found at i:80820160 original size:183 final size:184
Alignment explanation
Indices: 80819777--80820309 Score: 858
Period size: 183 Copynumber: 2.9 Consensus size: 184
80819767 GCTATCTGAA
* * *
80819777 ATGAAATGTGTAAGGCCATGGTTGAAAGATACCATGGCAACATGAT-TAGAAATGTGTAAGACCA
1 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT-GAAATGTGTAAGACCA
*
80819841 TGGTTGAAAGATACCATGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGG
65 TGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGG
* * *
80819906 CAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
130 CAACATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
80819961 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
1 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
80820025 GGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
66 GGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
* * *
80820090 AACGTGACATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
131 AACATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
80820143 ATGAAATGTCCAAGACCATGCTTAAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
1 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
* *
80820208 GGTTGAAAGATATCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
66 GGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
*
80820273 AACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
131 AACATGACATG-AAATGAGTAAGACCATGGTTGAAAGA
80820310 CACTATGACA
Statistics
Matches: 324, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
182 42 0.13
183 255 0.79
184 27 0.08
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (184 bp):
ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
GGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
AACATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:80820426 original size:13 final size:13
Alignment explanation
Indices: 80820408--80820437 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
80820398 TCAGATGACG
80820408 AATGATTATATGA
1 AATGATTATATGA
*
80820421 AATGATTATGTGA
1 AATGATTATATGA
80820434 AATG
1 AATG
80820438 TTTACAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (13 bp):
AATGATTATATGA
Found at i:80821679 original size:5 final size:5
Alignment explanation
Indices: 80821669--80821697 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
80821659 GATAATATGA
80821669 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
80821698 AGTAGGCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:80827688 original size:21 final size:21
Alignment explanation
Indices: 80827664--80827709 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
80827654 TTCCATCACT
*
80827664 AGAACTTGAATTTCCTCCACC
1 AGAACTTGAAGTTCCTCCACC
*
80827685 AGAACTTGAAGTTCCTCCACT
1 AGAACTTGAAGTTCCTCCACC
80827706 AGAA
1 AGAA
80827710 ACACTAGGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (21 bp):
AGAACTTGAAGTTCCTCCACC
Found at i:80830820 original size:73 final size:73
Alignment explanation
Indices: 80830733--80830878 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
80830723 GATTTGCTCT
80830733 CAAAGTATTTTACTTATAATATTTGATATTTAATATTAATTTACAACAATTTTTTAATTAAAATA
1 CAAAGTATTTTACTTATAATATTTGATATTTAATATTAATTTACAACAATTTTTTAATTAAAATA
80830798 ATTGAAAA
66 ATTGAAAA
80830806 CAAAGTATTTTACTTATAATATTTGATATTTAATATTAATTTACAACAATTTTTTAATTAAAATA
1 CAAAGTATTTTACTTATAATATTTGATATTTAATATTAATTTACAACAATTTTTTAATTAAAATA
80830871 ATTGAAAA
66 ATTGAAAA
80830879 TAGTATAGTT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.45
Consensus pattern (73 bp):
CAAAGTATTTTACTTATAATATTTGATATTTAATATTAATTTACAACAATTTTTTAATTAAAATA
ATTGAAAA
Found at i:80837411 original size:22 final size:22
Alignment explanation
Indices: 80837387--80837429 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
80837377 AAAAACTTTA
* *
80837387 AAAACT-TGCCAATATGCAGAC
1 AAAACTGTGCCAACAGGCAGAC
80837408 AAAACTGTGCCAACAGGCAGAC
1 AAAACTGTGCCAACAGGCAGAC
80837430 TTATATGAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.42, C:0.26, G:0.19, T:0.14
Consensus pattern (22 bp):
AAAACTGTGCCAACAGGCAGAC
Found at i:80841419 original size:37 final size:37
Alignment explanation
Indices: 80841373--80841452 Score: 151
Period size: 37 Copynumber: 2.2 Consensus size: 37
80841363 AATGATGTTA
*
80841373 ATGCCTAAGTTAATCTAAAGTAAGTTTATAAACACAT
1 ATGCATAAGTTAATCTAAAGTAAGTTTATAAACACAT
80841410 ATGCATAAGTTAATCTAAAGTAAGTTTATAAACACAT
1 ATGCATAAGTTAATCTAAAGTAAGTTTATAAACACAT
80841447 ATGCAT
1 ATGCAT
80841453 GTAATGGTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (37 bp):
ATGCATAAGTTAATCTAAAGTAAGTTTATAAACACAT
Found at i:80844369 original size:27 final size:27
Alignment explanation
Indices: 80844339--80844402 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
80844329 ATTTTTCATA
80844339 TTAATA-TATA-TATATATATATATGTTT
1 TTAATATTATATTAT-TATATATATG-TT
*
80844366 TTAATATTATATTATTATGTATATGTT
1 TTAATATTATATTATTATATATATGTT
80844393 TTAATATTAT
1 TTAATATTAT
80844403 TAGCTATCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
27 18 0.53
28 13 0.38
29 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (27 bp):
TTAATATTATATTATTATATATATGTT
Found at i:80844704 original size:11 final size:11
Alignment explanation
Indices: 80844688--80844766 Score: 54
Period size: 11 Copynumber: 7.1 Consensus size: 11
80844678 TTATTTCCAA
80844688 TATGTATATAT
1 TATGTATATAT
*
80844699 TATGTAAATATTT
1 TATGT--ATATAT
80844712 TGATGT-TATAT
1 T-ATGTATATAT
* **
80844723 TATATATGCAT
1 TATGTATATAT
* *
80844734 TTTTTATATAT
1 TATGTATATAT
80844745 TATGTATATA-
1 TATGTATATAT
*
80844755 TATATATATAT
1 TATGTATATAT
80844766 T
1 T
80844767 TAATATTTTA
Statistics
Matches: 51, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
10 12 0.24
11 29 0.57
13 6 0.12
14 4 0.08
ACGTcount: A:0.35, C:0.01, G:0.08, T:0.56
Consensus pattern (11 bp):
TATGTATATAT
Found at i:80844831 original size:20 final size:19
Alignment explanation
Indices: 80844794--80844835 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
80844784 ATATCATGCA
80844794 TATATTTTGAATACTATAT
1 TATATTTTGAATACTATAT
* *
80844813 TATATTTTTACATATTATAT
1 TATATTTTGA-ATACTATAT
80844833 TAT
1 TAT
80844836 GTATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (19 bp):
TATATTTTGAATACTATAT
Found at i:80844841 original size:54 final size:54
Alignment explanation
Indices: 80844739--80844843 Score: 122
Period size: 54 Copynumber: 1.9 Consensus size: 54
80844729 TGCATTTTTT
* * *
80844739 ATATATTATGTATATATATATATATATTTAATATTTTATTTTTATATATCATGC
1 ATATATTATGAATATATATATATATATTTAATATTATATTTATATATATCATGC
* * *
80844793 ATATATTTTGAATACTATAT-TATATTTTTACATATTATATTATGTATATAT
1 ATATATTATGAATA-TATATATATATATTTA-ATATTATATT-TATATATAT
80844844 ATTTTCAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
54 21 0.49
55 14 0.33
56 8 0.19
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (54 bp):
ATATATTATGAATATATATATATATATTTAATATTATATTTATATATATCATGC
Found at i:80848810 original size:21 final size:21
Alignment explanation
Indices: 80848786--80848854 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
80848776 TATTATGATT
80848786 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
80848807 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
80848827 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
80848847 ATTATTAT
1 ATTATTAT
80848855 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:80849267 original size:12 final size:12
Alignment explanation
Indices: 80849250--80849280 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
80849240 GAAGCAGGGG
80849250 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
80849262 AGAAAAAGGGAA
1 AGAAAAAGAGAA
80849274 AGAAAAA
1 AGAAAAA
80849281 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:80851898 original size:15 final size:15
Alignment explanation
Indices: 80851880--80851938 Score: 84
Period size: 15 Copynumber: 3.9 Consensus size: 15
80851870 GAAGCCCAGA
*
80851880 ATAAAGAAATCCAAG
1 ATAAGGAAATCCAAG
80851895 ATAAGGAAATCCATA-
1 ATAAGGAAATCCA-AG
*
80851910 ATAAGGAAATCCATG
1 ATAAGGAAATCCAAG
80851925 ATAAGGAAATCCAA
1 ATAAGGAAATCCAA
80851939 TTTACAGCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
15 38 0.97
16 1 0.03
ACGTcount: A:0.54, C:0.14, G:0.15, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:80851913 original size:30 final size:30
Alignment explanation
Indices: 80851879--80851937 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
80851869 AGAAGCCCAG
80851879 AATAAAGAAATCCAAGATAAGGAAATCCAT
1 AATAAAGAAATCCAAGATAAGGAAATCCAT
* *
80851909 AATAAGGAAATCCATGATAAGGAAATCCA
1 AATAAAGAAATCCAAGATAAGGAAATCCA
80851938 ATTTACAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.54, C:0.14, G:0.15, T:0.17
Consensus pattern (30 bp):
AATAAAGAAATCCAAGATAAGGAAATCCAT
Found at i:80852086 original size:2 final size:2
Alignment explanation
Indices: 80852079--80852103 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
80852069 TATGCTTCTC
80852079 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
80852104 AAATCATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:80855274 original size:53 final size:53
Alignment explanation
Indices: 80855153--80855298 Score: 204
Period size: 53 Copynumber: 2.7 Consensus size: 53
80855143 TGCGCCCATT
* **
80855153 TAAGACCATAGCTGAGCTATGGCATCGGTGCAATGTGATAATGTGACTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
*
80855206 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
* *
80855259 TAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 TAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
80855299 ACCGTGTAAG
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 76 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (53 bp):
TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
Found at i:80860133 original size:14 final size:14
Alignment explanation
Indices: 80860114--80860140 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
80860104 TCACAACCAC
80860114 CTCCTCATTGTTGT
1 CTCCTCATTGTTGT
80860128 CTCCTCATTGTTG
1 CTCCTCATTGTTG
80860141 ATTCATTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.30, G:0.15, T:0.48
Consensus pattern (14 bp):
CTCCTCATTGTTGT
Found at i:80865174 original size:47 final size:47
Alignment explanation
Indices: 80865100--80865230 Score: 156
Period size: 47 Copynumber: 2.8 Consensus size: 47
80865090 CACGTCTTTA
* * * * *
80865100 CACAATGATGCCATAGCCCAGCTATGGTCTTACAC-GTAATCACCTAT
1 CACACTGATGCCATATCCCAGATATGGTCTTACACAGT-AGCACATAT
* * * *
80865147 CTCACTGATGTCATATCCCAGATATGGTCTTATACAGTAGCATATAT
1 CACACTGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATAT
*
80865194 CACACTGATGCCATATCCCAGATATGGTCTTATACAG
1 CACACTGATGCCATATCCCAGATATGGTCTTACACAG
80865231 AAATCACTTG
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 70 0.97
48 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (47 bp):
CACACTGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATAT
Found at i:80865246 original size:7 final size:7
Alignment explanation
Indices: 80865234--80865269 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
80865224 TATACAGAAA
80865234 TCACTTG
1 TCACTTG
80865241 TCACTTG
1 TCACTTG
80865248 TCACTTG
1 TCACTTG
80865255 TCACTTG
1 TCACTTG
80865262 TCACTTG
1 TCACTTG
80865269 T
1 T
80865270 AACCAAAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.44
Consensus pattern (7 bp):
TCACTTG
Found at i:80865332 original size:31 final size:31
Alignment explanation
Indices: 80865275--80865476 Score: 260
Period size: 31 Copynumber: 6.5 Consensus size: 31
80865265 CTTGTAACCA
* * *
80865275 AAGCTACCACTATTCATTGATTAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
** * *
80865306 GTGCTACCATTTTTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
* * *
80865337 GAGCTACCACTTTTCACTGATCAAGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
* * *
80865368 GAGCTACCACTTTTCACTGATTAGGTAGCAG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
*
80865399 AAACTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
*
80865430 AAACTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
*
80865461 AAGCTACCATTTTTCA
1 AAGCTACCACTTTTCA
80865477 GTTGTCATTT
Statistics
Matches: 152, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 152 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (31 bp):
AAGCTACCACTTTTCACTGATCAGGTAGCTG
Found at i:80865553 original size:50 final size:50
Alignment explanation
Indices: 80865494--80865630 Score: 220
Period size: 50 Copynumber: 2.7 Consensus size: 50
80865484 TTTGCCATTG
*
80865494 ATCAGATAAGTGTAGCCGAAACTATCACTTATCACTTTCACTTGTCCTTA
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
* ** * *
80865544 ATCAGATAAGTGTAGCCGAAGTTATTGCTTATCACTTTCATTTGTCCTTG
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
80865594 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
80865631 GTTTCCATGG
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 78 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (50 bp):
ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
Found at i:80868582 original size:9 final size:9
Alignment explanation
Indices: 80868551--80868588 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
80868541 TATTATAGGT
80868551 TTTTATATA
1 TTTTATATA
80868560 TTTT-TA-A
1 TTTTATATA
*
80868567 TTGTATATA
1 TTTTATATA
80868576 TTTTATATA
1 TTTTATATA
80868585 TTTT
1 TTTT
80868589 TAAAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
7 4 0.16
8 4 0.16
9 17 0.68
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (9 bp):
TTTTATATA
Found at i:80872034 original size:20 final size:20
Alignment explanation
Indices: 80872011--80872048 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
80872001 GGTCTTTAGT
* *
80872011 GGCCTTTGTCTATACTTGAG
1 GGCCTTTGCCTAGACTTGAG
80872031 GGCCTTTGCCTAGACTTG
1 GGCCTTTGCCTAGACTTG
80872049 GGTGGTCTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.24, G:0.26, T:0.37
Consensus pattern (20 bp):
GGCCTTTGCCTAGACTTGAG
Found at i:80872977 original size:22 final size:22
Alignment explanation
Indices: 80872938--80872996 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
80872928 GTTTTAAGAA
*
80872938 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
80872959 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
80872981 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
80872997 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:80873013 original size:26 final size:24
Alignment explanation
Indices: 80872967--80873026 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
80872957 ATTTGTTTTA
*
80872967 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
80872991 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
80873017 TTTTTTATTT
1 ATATTTATTT
80873027 AATAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:80881339 original size:10 final size:9
Alignment explanation
Indices: 80881304--80881355 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
80881294 ATTTTTAAAA
80881304 TTTAAATTT
1 TTTAAATTT
*
80881313 TTTATATATT
1 TTTAAAT-TT
*
80881323 CTT-AATTAT
1 TTTAAATT-T
80881332 TTTAAATTT
1 TTTAAATTT
*
80881341 TTTAAAATT
1 TTTAAATTT
80881350 TTTAAA
1 TTTAAA
80881356 ATTAATTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
8 1 0.03
9 26 0.74
10 8 0.23
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTAAATTT
Found at i:80881453 original size:16 final size:16
Alignment explanation
Indices: 80881429--80881462 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
80881419 TGAGTAATTT
*
80881429 AAAAGTTAAAAAAATG
1 AAAAATTAAAAAAATG
*
80881445 AAAAATTAAATAAATG
1 AAAAATTAAAAAAATG
80881461 AA
1 AA
80881463 TAAAATAATT
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:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (16 bp):
AAAAATTAAAAAAATG
Found at i:80887913 original size:21 final size:21
Alignment explanation
Indices: 80887880--80887921 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
80887870 CCCTAAATTA
*
80887880 TAAACCTTGAACTCAAAACCC
1 TAAACCTTAAACTCAAAACCC
* *
80887901 TAAATCTTAAACTCCAAACCC
1 TAAACCTTAAACTCAAAACCC
80887922 AGAACATGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.33, G:0.02, T:0.21
Consensus pattern (21 bp):
TAAACCTTAAACTCAAAACCC
Found at i:80888350 original size:2 final size:2
Alignment explanation
Indices: 80888343--80888378 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
80888333 GCAAGCAAAT
80888343 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
80888379 AACCATTCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:80889213 original size:29 final size:29
Alignment explanation
Indices: 80889165--80889245 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
80889155 TGGGAGGTTC
* *
80889165 TGTATTATAGAAATTAAATTAAATTAATCTT
1 TGTATTAT-TAAA-TAAATTAAATTAATCAT
* *
80889196 TTTATTATTAAATAAATTAATTTAATCAT
1 TGTATTATTAAATAAATTAAATTAATCAT
80889225 TGTATTATTAAA-AAATTAAAT
1 TGTATTATTAAATAAATTAAAT
80889246 AAGTTGAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 8 0.18
29 26 0.59
30 3 0.07
31 7 0.16
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (29 bp):
TGTATTATTAAATAAATTAAATTAATCAT
Found at i:80912358 original size:21 final size:21
Alignment explanation
Indices: 80912324--80912367 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
80912314 TTATATATGT
**
80912324 TTAATTAAGCTTTAGTTAATA
1 TTAATTAAGCTTTAACTAATA
80912345 TTAATTAA-CTTTTAACTAATA
1 TTAATTAAGC-TTTAACTAATA
80912366 TT
1 TT
80912368 TTCTTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.50
Consensus pattern (21 bp):
TTAATTAAGCTTTAACTAATA
Found at i:80915915 original size:30 final size:30
Alignment explanation
Indices: 80915879--80915935 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
80915869 CCGAGCCTAG
80915879 GGGCAAAA-GTGTAATTATGCAAAAGTTTAA
1 GGGCAAAATG-GTAATTATGCAAAAGTTTAA
* *
80915909 GGGCAAAATGGTAATTTTGCCAAAGTT
1 GGGCAAAATGGTAATTATGCAAAAGTT
80915936 CGTATTAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.28
Consensus pattern (30 bp):
GGGCAAAATGGTAATTATGCAAAAGTTTAA
Found at i:80920595 original size:35 final size:35
Alignment explanation
Indices: 80920556--80920675 Score: 177
Period size: 35 Copynumber: 3.4 Consensus size: 35
80920546 CATGGAAAAT
* *
80920556 TTGTGAAACGTAGGTATGGTGTCATCCATACTGAG
1 TTGTGAAACGTAGGTATGGTATTATCCATACTGAG
* *
80920591 TTGTGAAACGTAAGTATGGTATTAACCATACTGAG
1 TTGTGAAACGTAGGTATGGTATTATCCATACTGAG
*
80920626 TTGTGAAACGGAGGTATGGTATTATCCATACTGAG
1 TTGTGAAACGTAGGTATGGTATTATCCATACTGAG
**
80920661 TTAAGAAACGTAGGT
1 TTGTGAAACGTAGGT
80920676 TTGACATTTC
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 75 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (35 bp):
TTGTGAAACGTAGGTATGGTATTATCCATACTGAG
Found at i:80920698 original size:70 final size:70
Alignment explanation
Indices: 80920556--80920718 Score: 175
Period size: 70 Copynumber: 2.3 Consensus size: 70
80920546 CATGGAAAAT
* * ** **
80920556 TTGTGAAACGTAGGTATGGTGTCATCCATACTGAGTTGTGAAACGTAAGTATGGTATTAACCATA
1 TTGTGAAACGTAGGTATGGTATTATCCATACTGAGTTAAGAAACGTAAGTATGACATTAACCATA
**
80920621 CTGAG
66 CCAAG
* * * * *
80920626 TTGTGAAACGGAGGTATGGTATTATCCATACTGAGTTAAGAAACGTAGGTTTGACATT-TCTCGT
1 TTGTGAAACGTAGGTATGGTATTATCCATACTGAGTTAAGAAACGTAAGTATGACATTAAC-CAT
80920690 ACCAAG
65 ACCAAG
* *
80920696 TTGTAAAATGTAGGTATGGTATT
1 TTGTGAAACGTAGGTATGGTATT
80920719 TCAATGAGGA
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
69 1 0.01
70 75 0.99
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (70 bp):
TTGTGAAACGTAGGTATGGTATTATCCATACTGAGTTAAGAAACGTAAGTATGACATTAACCATA
CCAAG
Found at i:80922816 original size:47 final size:47
Alignment explanation
Indices: 80922747--80922900 Score: 170
Period size: 47 Copynumber: 3.3 Consensus size: 47
80922737 CTTCGGACAA
* *
80922747 ATGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCG
1 ATGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCG
* * *
80922794 ATGTGATATGTGCTACTGTATAAGACCATATTTGGGATATGACATC-
1 ATGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCG
* * * *
80922840 AGTGTGATATGTGAT-CCGTGTAAGACCATGA-CTGGGTTATGGCCTCGG
1 A-TGTGATATGTGCTACCGTATAAGACCAT-ATCTGGGATATGGCATC-G
80922888 TATGTGATATGTG
1 -ATGTGATATGTG
80922901 ACTATGTGCA
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
46 24 0.27
47 54 0.60
48 11 0.12
49 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.32
Consensus pattern (47 bp):
ATGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCG
Found at i:80925604 original size:35 final size:35
Alignment explanation
Indices: 80925580--80925648 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
80925570 ATATTTCACA
80925580 ACTCAGTATGGGAAATGCCATACCTACATTCCATC
1 ACTCAGTATGGGAAATGCCATACCTACATTCCATC
* * *
80925615 ACTCGGTATGGGAAATGTCATACCTACGTTCCAT
1 ACTCAGTATGGGAAATGCCATACCTACATTCCAT
80925649 TCATACCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (35 bp):
ACTCAGTATGGGAAATGCCATACCTACATTCCATC
Found at i:80927670 original size:21 final size:21
Alignment explanation
Indices: 80927646--80927689 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
80927636 TTATATATGA
*
80927646 TTAATTAAGC-TTTAGTTAATC
1 TTAATTAA-CTTTTAATTAATC
80927667 TTAATTAACTTTTAATTAATC
1 TTAATTAACTTTTAATTAATC
80927688 TT
1 TT
80927690 TTCTTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (21 bp):
TTAATTAACTTTTAATTAATC
Found at i:80929587 original size:4 final size:4
Alignment explanation
Indices: 80929580--80929656 Score: 64
Period size: 4 Copynumber: 18.8 Consensus size: 4
80929570 AAGTTAAAAA
* *** * * * *
80929580 AAAG AAAG AAAG AAAG AAAG ATAG AAAG AGTT ACAG AGAG CAAAC ATGAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG -AAAG A-AAG
80929630 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
80929657 TAGAAAAGGG
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
4 53 0.93
5 4 0.07
ACGTcount: A:0.66, C:0.04, G:0.25, T:0.05
Consensus pattern (4 bp):
AAAG
Found at i:80930483 original size:47 final size:47
Alignment explanation
Indices: 80930419--80930529 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
80930409 GACATTGAGT
*
80930419 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
80930466 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
80930513 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
80930530 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:80931986 original size:25 final size:25
Alignment explanation
Indices: 80931947--80931996 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
80931937 TATGACCTGT
80931947 TAGGCCAATACGAGCCTAAAGAGGA
1 TAGGCCAATACGAGCCTAAAGAGGA
80931972 TAGGCCAAT-CTGAGCCTAAAGAGGA
1 TAGGCCAATAC-GAGCCTAAAGAGGA
80931997 ACTAACGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.38, C:0.20, G:0.28, T:0.14
Consensus pattern (25 bp):
TAGGCCAATACGAGCCTAAAGAGGA
Found at i:80940976 original size:20 final size:21
Alignment explanation
Indices: 80940947--80940991 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
80940937 TGACTTTAAT
80940947 ATAATTATATTTAAAAAAAATTA
1 ATAA-TATA-TTAAAAAAAATTA
*
80940970 ATAATATCATTAAAAAACATTA
1 ATAATAT-ATTAAAAAAAATTA
80940992 TTTATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAATATATTAAAAAAAATTA
Found at i:80942482 original size:16 final size:16
Alignment explanation
Indices: 80942431--80942496 Score: 54
Period size: 15 Copynumber: 4.4 Consensus size: 16
80942421 TAAGATGGCT
*
80942431 ATATAAAAA-AATTTA
1 ATATAAAAATAATATA
80942446 ATA-AATAAA-AAT-T-
1 ATATAA-AAATAATATA
* *
80942459 ATATAAAATTACTA-A
1 ATATAAAAATAATATA
80942474 ATATAAAAATAATATA
1 ATATAAAAATAATATA
80942490 ATATAAA
1 ATATAAA
80942497 TATTTTTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
13 5 0.12
14 7 0.17
15 21 0.51
16 8 0.20
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
ATATAAAAATAATATA
Found at i:80947608 original size:26 final size:27
Alignment explanation
Indices: 80947579--80947632 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
80947569 TACACTTTAA
*
80947579 TTCCTTCAATT-AAAAAATTATAAATT
1 TTCCTCCAATTCAAAAAATTATAAATT
80947605 TTCCTCCAATTCAAAAAATTATAAATT
1 TTCCTCCAATTCAAAAAATTATAAATT
80947632 T
1 T
80947633 CTAACAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (27 bp):
TTCCTCCAATTCAAAAAATTATAAATT
Found at i:80947734 original size:31 final size:31
Alignment explanation
Indices: 80947660--80947741 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
80947650 TGAGGATGAG
* * * *
80947660 TAAATTTACAATTTAATCATTTAATTATTAA
1 TAAAATTATAATTTGATCACTTAATTATTAA
**
80947691 TAATTTTATAATTTGATCACTTAATTATTAA
1 TAAAATTATAATTTGATCACTTAATTATTAA
*
80947722 TAAAATTGTAATTTGATCAC
1 TAAAATTATAATTTGATCAC
80947742 GCTTAGCAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (31 bp):
TAAAATTATAATTTGATCACTTAATTATTAA
Found at i:80947872 original size:18 final size:18
Alignment explanation
Indices: 80947846--80947880 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
80947836 GTATTTGGTA
80947846 TATTTATAA-TATTTTTT
1 TATTTATAAGTATTTTTT
80947863 TATTTCATAAGTATTTTT
1 TATTT-ATAAGTATTTTT
80947881 ATAAAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (18 bp):
TATTTATAAGTATTTTTT
Found at i:80950431 original size:18 final size:18
Alignment explanation
Indices: 80950408--80950444 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
80950398 ATATATATTG
*
80950408 ACCCAAGTACCCAGCCCA
1 ACCCAAGTACCCAACCCA
*
80950426 ACCCAATTACCCAACCCA
1 ACCCAAGTACCCAACCCA
80950444 A
1 A
80950445 TAATAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.49, G:0.05, T:0.08
Consensus pattern (18 bp):
ACCCAAGTACCCAACCCA
Found at i:80950516 original size:7 final size:6
Alignment explanation
Indices: 80950470--80950515 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
80950460 ATAATTTAAT
*
80950470 AAATAA AAATAA AAATAA AAATCTAA AACT-A AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
80950516 ACATATAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 4 0.11
6 26 0.74
8 5 0.14
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:80950516 original size:19 final size:19
Alignment explanation
Indices: 80950481--80950517 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
80950471 AATAAAAATA
**
80950481 AAAATAAAAATCTAAAACT
1 AAAATAAAAATAAAAAACT
80950500 AAAATAAAAATAAAAAAC
1 AAAATAAAAATAAAAAAC
80950518 ATATAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (19 bp):
AAAATAAAAATAAAAAACT
Found at i:80950583 original size:27 final size:27
Alignment explanation
Indices: 80950544--80950598 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
80950534 ATAATTCGGG
* **
80950544 TAATTCGGGTAATTTTGTTAATTCTAT
1 TAATTCGAGTAATTCGGTTAATTCTAT
* *
80950571 TAATTCGATTAATTCGGTTAATTTTAT
1 TAATTCGAGTAATTCGGTTAATTCTAT
80950598 T
1 T
80950599 CTTATTTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (27 bp):
TAATTCGAGTAATTCGGTTAATTCTAT
Found at i:80954191 original size:21 final size:19
Alignment explanation
Indices: 80954152--80954191 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
80954142 ATTAAAATTT
*
80954152 TAAAATTATTAATATAATA
1 TAAAATTATTAAAATAATA
80954171 TAAAATTATTCAAAAATAATA
1 TAAAATTATT--AAAATAATA
80954192 ATATCTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAATTATTAAAATAATA
Found at i:80961258 original size:11 final size:9
Alignment explanation
Indices: 80961230--80961273 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
80961220 TTTAAAAATA
80961230 TATAAATTT
1 TATAAATTT
80961239 TATAAATTT
1 TATAAATTT
80961248 TATAAATATT
1 TATAAAT-TT
*
80961258 T-TGAATTT
1 TATAAATTT
*
80961266 TAAAAATT
1 TATAAATT
80961274 ATTTTGAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 3 0.10
9 24 0.80
10 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (9 bp):
TATAAATTT
Found at i:80961301 original size:20 final size:19
Alignment explanation
Indices: 80961243--80961285 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
80961233 AAATTTTATA
*
80961243 AATTTTATAAA-TATTTTG
1 AATTTTAAAAATTATTTTG
80961261 AATTTTAAAAATTATTTTG
1 AATTTTAAAAATTATTTTG
80961280 AATTTT
1 AATTTT
80961286 CTAAGTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
AATTTTAAAAATTATTTTG
Found at i:80965904 original size:60 final size:62
Alignment explanation
Indices: 80965778--80965925 Score: 165
Period size: 60 Copynumber: 2.4 Consensus size: 62
80965768 CTTTAAGGTT
* * * ** * *
80965778 TTTAAGGATTAACTTGGACAAAAAAGAGAGGTTAAAGTCCTAATGTGAGAACAGTTGCTAAG
1 TTTAAGGCTTAACTTGAACAAAAAAGAGAGGTTAAAGTCCCAATGTGAGAACAACTGCCAAA
* * * *
80965840 TTTAAGGCCTAACTTGAATAAAAAA-A-AGGTTTAGGTCCCAATGTGAGAACAACTGCCAAA
1 TTTAAGGCTTAACTTGAACAAAAAAGAGAGGTTAAAGTCCCAATGTGAGAACAACTGCCAAA
80965900 TTTAAGGCTTAACTTAGACACAAAAA
1 TTTAAGGCTTAACTT-GA-ACAAAAA
80965926 TTTAACTCCC
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
60 41 0.58
61 3 0.04
62 27 0.38
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.25
Consensus pattern (62 bp):
TTTAAGGCTTAACTTGAACAAAAAAGAGAGGTTAAAGTCCCAATGTGAGAACAACTGCCAAA
Found at i:80972029 original size:20 final size:19
Alignment explanation
Indices: 80972006--80972059 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
80971996 AATAATATTT
80972006 AATTATAAAAAATATATGTA
1 AATTATAAAAAATATA-GTA
* * *
80972026 AATTTTAAGAAATTTAGTA
1 AATTATAAAAAATATAGTA
*
80972045 AAATACTAAAAAATA
1 AATTA-TAAAAAATA
80972060 AAAATTCAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (19 bp):
AATTATAAAAAATATAGTA
Found at i:80974728 original size:2 final size:2
Alignment explanation
Indices: 80974723--80974755 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
80974713 ATATATATAC
80974723 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
80974756 TGTACCTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:80975876 original size:14 final size:13
Alignment explanation
Indices: 80975865--80975894 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
80975855 AATTATATTT
80975865 AATTTTTTATATA
1 AATTTTTTATATA
80975878 AATTTTTTA-ATA
1 AATTTTTTATATA
80975890 AATTT
1 AATTT
80975895 GTTACATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
AATTTTTTATATA
Found at i:80986837 original size:31 final size:32
Alignment explanation
Indices: 80986779--80986840 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
80986769 TCACTTCGAC
* *
80986779 TATTTGTTAAAAAGTTAATAGATAAATTTAAT
1 TATTTGTTAAAAAATTAATAGAGAAATTTAAT
80986811 TATTT-TTAAAAAATTAAT-GACGAAATTTAA
1 TATTTGTTAAAAAATTAATAGA-GAAATTTAA
80986841 CTCGAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 2 0.07
31 20 0.74
32 5 0.19
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (32 bp):
TATTTGTTAAAAAATTAATAGAGAAATTTAAT
Found at i:81000688 original size:21 final size:23
Alignment explanation
Indices: 81000663--81000709 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
81000653 ATTTTATTTT
81000663 TATA-TAAAAA-A-TAAAATATAA
1 TATATTAAAAATATTAAAATA-AA
81000684 TATATTAAAAATATTAAAATAAA
1 TATATTAAAAATATTAAAATAAA
81000707 TAT
1 TAT
81000710 TTCTTAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 6 0.26
23 6 0.26
24 7 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
TATATTAAAAATATTAAAATAAA
Found at i:81005159 original size:17 final size:17
Alignment explanation
Indices: 81005139--81005171 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
81005129 TCATACTCAT
*
81005139 ATTTGACACTTAACTCG
1 ATTTGAAACTTAACTCG
81005156 ATTTGAAACTTAACTC
1 ATTTGAAACTTAACTC
81005172 AAAACCGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.36
Consensus pattern (17 bp):
ATTTGAAACTTAACTCG
Found at i:81005545 original size:16 final size:17
Alignment explanation
Indices: 81005510--81005548 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
81005500 AGAAATAAAG
81005510 AAAATAAGTAATTTATA
1 AAAATAAGTAATTTATA
81005527 AAAATAATGT-ATTTA-A
1 AAAATAA-GTAATTTATA
81005543 AAAATA
1 AAAATA
81005549 TTTAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 12 0.57
18 2 0.10
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (17 bp):
AAAATAAGTAATTTATA
Found at i:81006604 original size:49 final size:46
Alignment explanation
Indices: 81006500--81006629 Score: 129
Period size: 48 Copynumber: 2.7 Consensus size: 46
81006490 AGTGATAATT
* * *
81006500 TTAAATTTTCAATACTATTCGATATTTTTTTTAATTTATACAAATTTAA
1 TTAAA-TTTCAATACTATTTGATA--TTTTTTCATTAATACAAATTTAA
*
81006549 TTAAATTTGCAATACTATTTGATATTTTATTCATTAATGC-AATTATAA
1 TTAAATTT-CAATACTATTTGATATTTT-TTCATTAATACAAATT-TAA
**
81006597 TTAAAATTTCAATACTGCTTGAT-TTTTTTCATT
1 TT-AAATTTCAATACTATTTGATATTTTTTCATT
81006630 TATGATGTTT
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
46 6 0.08
47 12 0.17
48 28 0.39
49 25 0.35
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.52
Consensus pattern (46 bp):
TTAAATTTCAATACTATTTGATATTTTTTCATTAATACAAATTTAA
Found at i:81007610 original size:7 final size:7
Alignment explanation
Indices: 81007598--81007623 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
81007588 TAGTCTTTTC
81007598 GTATTTA
1 GTATTTA
81007605 GTATTTA
1 GTATTTA
81007612 GTATTTA
1 GTATTTA
81007619 GTATT
1 GTATT
81007624 ATGTATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:81008240 original size:18 final size:18
Alignment explanation
Indices: 81008217--81008255 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
81008207 ATGCTAGGTG
*
81008217 TGTATCATATCCCTTATA
1 TGTATCATAACCCTTATA
*
81008235 TGTATCCTAACCCTTATA
1 TGTATCATAACCCTTATA
81008253 TGT
1 TGT
81008256 TTCTTTTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.44
Consensus pattern (18 bp):
TGTATCATAACCCTTATA
Found at i:81011486 original size:20 final size:18
Alignment explanation
Indices: 81011461--81011497 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
81011451 ATTGCTAAGT
81011461 TGTAAAATAAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
81011481 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
81011498 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Done.