Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 156 of 320
Found at i:51523226 original size:26 final size:26
Alignment explanation
Indices: 51523197--51523278 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
51523187 TGGTACAAAT
51523197 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
51523223 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51523249 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51523275 TGAT
1 TGAT
51523279 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:51527878 original size:43 final size:44
Alignment explanation
Indices: 51527831--51527946 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 44
51527821 TATTATATAT
* * * *
51527831 CGATGCCATTGTCCCAGACAGGGTCTTACACGAAAT-TGATTAA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAATAA
* * * *
51527874 CGATGCCAATATCCCAAACATAGTCTTACACGTAATCTCAATAA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAATAA
* *
51527918 -AATGCCAATGTCCCTGACATGGTCTTACA
1 CGATGCCAATGTCCCAGACATGGTCTTACA
51527947 TGTAATTACA
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
43 54 0.92
44 5 0.08
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (44 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAATAA
Found at i:51537268 original size:46 final size:46
Alignment explanation
Indices: 51537176--51537268 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
51537166 TGTAACCAGC
* * *
51537176 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGCGAACTCGAACTAAACTCAACGAGCTCAGGCATTAGCAT
* * *
51537222 CCATAAGTGAACTCGGACTAAACTCAACTAGCTC-GGACATTAGCAT
1 CCATAAGCGAACTCGAACTAAACTCAACGAGCTCAGG-CATTAGCAT
51537268 C
1 C
51537269 AGAATATAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
45 2 0.05
46 38 0.95
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGAACTAAACTCAACGAGCTCAGGCATTAGCAT
Found at i:51537420 original size:200 final size:201
Alignment explanation
Indices: 51537076--51537455 Score: 636
Period size: 200 Copynumber: 1.9 Consensus size: 201
51537066 CTTCCATTTC
*
51537076 ACTAGAATTTTACCCGTTGAACACATTGGAATATAACTCAGATACATGGAAAGTTTGCACATAAG
1 ACTAGAATTTTACCCGTTGAACACATCGGAATATAACTCAGATACATGGAAAGTTTGCACATAAG
* * *
51537141 TGCCACATATGTAGCCAAGCTACCATGTAACCAGCCCATAAGCGAACTCGAACTCAACTCAACGA
66 TGCCACATATGTAGCCAAGCTACCATGTAACCAGCCCATAAACAAAATCGAACTCAACTCAACGA
*
51537206 GCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTAAACTCAACTAGCTCGGACATTAGCATCAG
131 GCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTAAACTCAACGAGCTCGGACATTAGCATCAG
51537271 AATATA
196 AATATA
* *
51537277 ACTAGAATTTTACTCGTTGAACACATCGGAATATAACTCGGATACATGGAAAGTTTGCACAT-AG
1 ACTAGAATTTTACCCGTTGAACACATCGGAATATAACTCAGATACATGGAAAGTTTGCACATAAG
* * *
51537341 TGCCACATATGTAGCCAAGCTACCATGTAACCCGCCCATAAACAAAATCGGACTCAACTCAATGA
66 TGCCACATATGTAGCCAAGCTACCATGTAACCAGCCCATAAACAAAATCGAACTCAACTCAACGA
* * *
51537406 GCTCAGGCGTTCGCATCCATAAGTGAACTCGGTCTCAAGTCAACGAGCTC
131 GCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTAAACTCAACGAGCTC
51537456 AGATGCTTAG
Statistics
Matches: 166, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
200 107 0.64
201 59 0.36
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (201 bp):
ACTAGAATTTTACCCGTTGAACACATCGGAATATAACTCAGATACATGGAAAGTTTGCACATAAG
TGCCACATATGTAGCCAAGCTACCATGTAACCAGCCCATAAACAAAATCGAACTCAACTCAACGA
GCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTAAACTCAACGAGCTCGGACATTAGCATCAG
AATATA
Found at i:51537454 original size:46 final size:46
Alignment explanation
Indices: 51537388--51537545 Score: 153
Period size: 46 Copynumber: 3.4 Consensus size: 46
51537378 ATAAACAAAA
*
51537388 TCGGACTCAACTCAATGAGCTCAGGCGTTCGCATCCATAAGTGAAC
1 TCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAAC
* * * * *
51537434 TCGGTCTCAAGTCAACGAGCTCAGATGCTTAGTT-ACAT-C-TCA-CGAAC
1 TCGGACTCAACTCAACGAGCTCAG--GC---GTTCGCATCCATAAGTGAAC
* * *
51537481 TCGGACTCAACTCAAAGAGCTCAGACATTCGCATCCATAAGTGAAC
1 TCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAAC
*
51537527 TCGTACTCAACTCAACGAG
1 TCGGACTCAACTCAACGAG
51537546 TTCGGATGCC
Statistics
Matches: 87, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 3 0.03
46 42 0.48
47 25 0.29
48 4 0.05
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
TCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAAC
Found at i:51548343 original size:27 final size:27
Alignment explanation
Indices: 51548312--51548518 Score: 297
Period size: 27 Copynumber: 7.6 Consensus size: 27
51548302 TAAATTGTGC
* *
51548312 AGCACTAAGTGTGTGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
51548339 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
51548367 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
51548394 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
51548422 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
51548449 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
51548477 AGCATTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
51548504 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
51548519 GACTTAATAT
Statistics
Matches: 165, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
27 89 0.54
28 76 0.46
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:51548376 original size:55 final size:55
Alignment explanation
Indices: 51548312--51548518 Score: 342
Period size: 55 Copynumber: 3.8 Consensus size: 55
51548302 TAAATTGTGC
*
51548312 AGCACTAAGTGTGTGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
51548367 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
51548422 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * * *
51548477 AGCATTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
51548519 GACTTAATAT
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 145 1.00
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:51550535 original size:12 final size:12
Alignment explanation
Indices: 51550518--51550547 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
51550508 ATAGTACACG
*
51550518 GGCGTGCCTATT
1 GGCGTGCCTATA
51550530 GGCGTGCCTATA
1 GGCGTGCCTATA
51550542 GGCGTG
1 GGCGTG
51550548 TCTAGTGCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.23, G:0.40, T:0.27
Consensus pattern (12 bp):
GGCGTGCCTATA
Found at i:51570628 original size:22 final size:20
Alignment explanation
Indices: 51570584--51570623 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
51570574 TATTTTAGAT
* *
51570584 TTAGTTTTTTTTTTGTGTTC
1 TTAGTTTTATTTTTATGTTC
51570604 TTAGTTTTATTTTTATGTTC
1 TTAGTTTTATTTTTATGTTC
51570624 ACTTAATTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.05, G:0.12, T:0.72
Consensus pattern (20 bp):
TTAGTTTTATTTTTATGTTC
Found at i:51572360 original size:40 final size:40
Alignment explanation
Indices: 51572284--51572465 Score: 242
Period size: 40 Copynumber: 4.6 Consensus size: 40
51572274 AACCCAAGTA
* * * *
51572284 CCTTCGGGATTTAG-CTGGATATAG-CAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* * *
51572323 CCTTCGGGTCTTAGCCCGAATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
51572363 CCTTCGGGACTTAGCCCGGATATAGCCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
51572403 CCTTTGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
51572443 CCTTCGGGGCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
51572466 CATTCGAATA
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 12 0.10
40 109 0.88
41 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:51572416 original size:80 final size:80
Alignment explanation
Indices: 51572284--51572465 Score: 267
Period size: 80 Copynumber: 2.3 Consensus size: 80
51572274 AACCCAAGTA
* * * * *
51572284 CCTTCGGGATTTAG-CTGGATATAGCAACTCGTACAAATGCCTTCGGGTCTTAGCCCGAATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAG
51572348 TCAATAGCACAAAAG
66 TCAATAGCACAAAAG
* * *
51572363 CCTTCGGGACTTAGCCCGGATATAGCCACTAGCACAAATGCCTTTGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAG
*
51572428 TCAATAGCACAAATG
66 TCAATAGCACAAAAG
*
51572443 CCTTCGGGGCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
51572466 CATTCGAATA
Statistics
Matches: 92, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 13 0.14
80 79 0.86
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAG
TCAATAGCACAAAAG
Found at i:51576603 original size:18 final size:18
Alignment explanation
Indices: 51576576--51576611 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
51576566 CATGGTACTT
51576576 AACTTACCATTCATTCTA
1 AACTTACCATTCATTCTA
*
51576594 AACTTCCCATTCATTCTA
1 AACTTACCATTCATTCTA
51576612 TTTTGAGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.39
Consensus pattern (18 bp):
AACTTACCATTCATTCTA
Found at i:51583675 original size:27 final size:27
Alignment explanation
Indices: 51583645--51584454 Score: 858
Period size: 27 Copynumber: 30.0 Consensus size: 27
51583635 AAAATACTCC
51583645 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
51583672 CGATTTACAGAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
** * **
51583699 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* *
51583726 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* *
51583753 C-AGTTTACAGAATTATTATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
*
51583780 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
51583807 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
51583834 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
** * **
51583861 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
51583888 CGATTTACAGAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
** * *
51583915 CGATTTTTAAAATTACCG-TTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* *
51583941 CGATTTATAGAATTA-TCATTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
* **
51583968 -TAGTTTACAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
* **
51583995 TGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
51584022 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
*
51584049 CGATTTACAGAATTACGGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* ** *
51584076 CAATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* **
51584103 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* *
51584130 C-ATTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
*
51584157 CGATTTACAGAATTACAGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* ** *
51584184 CAATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* *
51584211 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
**
51584238 C-AGTTTACAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
*
51584265 CGATTTACAAAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
*
51584292 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
51584319 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
** *
51584346 CGATTTGTAAAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
*
51584373 CGATTTATAGAATTACTAG-TTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
* * *
51584400 TGGTTTACAAAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
* *
51584427 CGATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
51584454 C
1 C
51584455 AATTGTGAAA
Statistics
Matches: 665, Mismatches: 91, Indels: 54
0.82 0.11 0.07
Matches are distributed among these distances:
26 32 0.05
27 622 0.94
28 11 0.02
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACTGTTTTACCCT
Found at i:51583686 original size:54 final size:54
Alignment explanation
Indices: 51583648--51584455 Score: 948
Period size: 54 Copynumber: 15.0 Consensus size: 54
51583638 ATACTCCCGA
* * *
51583648 TTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTC-G
1 TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * * *
51583701 ATTTGTAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAG
1 -TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* *
51583756 TTTACAGAATTATTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
1 TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* *
51583810 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTC-G
1 TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * * *
51583863 ATTTGTAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTC-G
1 -TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * ** * * * *
51583917 ATTTTTAAAATTAC-CGTTTACCCTCGATTTATAGAATTATCATTTTACCCTTAG
1 -TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * * *
51583971 TTTACAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTTTACCCTCAG
1 TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * *
51584025 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACGGTTTTACCCTCAA
1 TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * * * * *
51584079 TTTGTAAAATTACTGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAT
1 TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* *
51584133 TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACAGTTTTACCCTCAA
1 TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * * *
51584187 TTTGTAAAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCAG
1 TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * * *
51584241 TTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCAG
1 TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* *
51584295 TTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTC-G
1 TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * * * * **
51584348 ATTTGTAAAATTA-TCGTTTTACCCTCGATTTATAGAATTACTAG-TTTACCCTTGG
1 -TTTATAGAATTACT-ATTTTACCCTCGATTTACAGAATTAC-CGTTTTACCCTCAG
* * * * **
51584403 TTTACAAAATTA-TCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCA
1 TTTATAGAATTACT-ATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCA
51584456 ATTGTGAAAT
Statistics
Matches: 660, Mismatches: 85, Indels: 18
0.87 0.11 0.02
Matches are distributed among these distances:
53 46 0.07
54 611 0.93
55 3 0.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.41
Consensus pattern (54 bp):
TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
Found at i:51584631 original size:27 final size:27
Alignment explanation
Indices: 51584471--51584657 Score: 232
Period size: 27 Copynumber: 7.0 Consensus size: 27
51584461 GAAATTCCTA
51584471 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
51584498 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
51584525 AAATACCCTTATAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
51584552 AAATACCCCCGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
51584579 AAATACCCTTGTAGGGTAGAAATACCT
1 AAATACCCCTGTAGGGTAGAATTACCG
51584606 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
51584633 AGATA-CCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
51584658 ATTTTGCCCC
Statistics
Matches: 138, Mismatches: 22, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
26 17 0.12
27 121 0.88
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:51584892 original size:27 final size:26
Alignment explanation
Indices: 51584854--51584937 Score: 114
Period size: 27 Copynumber: 3.2 Consensus size: 26
51584844 ACGGAGGAAG
51584854 TGTTCTGGTGGCTATGCCACAAATATC
1 TGTTCTGGTGGCTATGCCAC-AATATC
*
51584881 TGTTCTGGTGGCTTTGCCACAATATC
1 TGTTCTGGTGGCTATGCCACAATATC
* * *
51584907 TGTATCTGGTGACTCTGTCACAATATC
1 TGT-TCTGGTGGCTATGCCACAATATC
51584934 TGTT
1 TGTT
51584938 GACCGATCGA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.19
27 42 0.81
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (26 bp):
TGTTCTGGTGGCTATGCCACAATATC
Found at i:51585057 original size:22 final size:22
Alignment explanation
Indices: 51585025--51585083 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
51585015 CCCGTTATTA
*
51585025 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
51585047 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
51585069 ATGGCTTTGTGCCAA
1 ATGGCTTTGTGCCAA
51585084 ACGTATTTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:51585448 original size:6 final size:6
Alignment explanation
Indices: 51585439--51585540 Score: 86
Period size: 6 Copynumber: 16.8 Consensus size: 6
51585429 TTGCATTCAC
* *
51585439 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
51585488 -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG AATCTG ATTTTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
51585536 ATTCT
1 ATTCT
51585541 TATTTTGGTT
Statistics
Matches: 77, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
5 6 0.08
6 65 0.84
7 4 0.05
8 2 0.03
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:51585502 original size:30 final size:29
Alignment explanation
Indices: 51585439--51585540 Score: 141
Period size: 30 Copynumber: 3.4 Consensus size: 29
51585429 TTGCATTCAC
*
51585439 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATT-TG
51585470 ATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAAT-TTG
*
51585500 ATTCTGATTCTGATTCTGTTACTGAATCTG
1 ATTCTGATTCTGATTCTGTTACT-AATTTG
*
51585530 ATTTTGATTCT
1 ATTCTGATTCT
51585541 TATTTTGGTT
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
30 42 0.64
31 24 0.36
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.49
Consensus pattern (29 bp):
ATTCTGATTCTGATTCTGTTACTAATTTG
Found at i:51586905 original size:21 final size:20
Alignment explanation
Indices: 51586881--51586919 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
51586871 GTGTAAATGT
51586881 AGTAACATAATTGTTATTTTA
1 AGTAACATAA-TGTTATTTTA
**
51586902 AGTAATTTAATGTTATTT
1 AGTAACATAATGTTATTT
51586920 ATATGATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (20 bp):
AGTAACATAATGTTATTTTA
Found at i:51595703 original size:22 final size:24
Alignment explanation
Indices: 51595669--51595712 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
51595659 CATCATAATA
*
51595669 TCATCCATTTCAT-ATCACAAAAC
1 TCATCCATATCATCATCACAAAAC
*
51595692 TCAT-CATATCATCATCTCAAA
1 TCATCCATATCATCATCACAAA
51595713 CCAAATCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.39, C:0.30, G:0.00, T:0.32
Consensus pattern (24 bp):
TCATCCATATCATCATCACAAAAC
Found at i:51615754 original size:24 final size:25
Alignment explanation
Indices: 51615726--51615780 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
51615716 ATTTGAAAGA
*
51615726 GTTTAAAAGTT-AAAGGGATTTTAG
1 GTTTAAAAGTTAAAAGGGATTTTAC
*
51615750 GTTT--AAGTTAAAAGGGGTTTTAC
1 GTTTAAAAGTTAAAAGGGATTTTAC
*
51615773 TTTTAAAA
1 GTTTAAAA
51615781 AAGGTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 5 0.20
23 14 0.56
24 4 0.16
25 2 0.08
ACGTcount: A:0.36, C:0.02, G:0.22, T:0.40
Consensus pattern (25 bp):
GTTTAAAAGTTAAAAGGGATTTTAC
Found at i:51623709 original size:27 final size:27
Alignment explanation
Indices: 51623670--51623747 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
51623660 CAGATTGATC
* * *
51623670 AAATGACTGTTTTGCCCTAATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGCA
* *
51623697 AAATAACTATTTTGCCCTTATATGGCA
1 AAATGACTATTTTGCCCTTATGTGGCA
*
51623724 AGATGACTATTTTGCCCTTATGTG
1 AAATGACTATTTTGCCCTTATGTG
51623748 ATGTATGACT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTATGTGGCA
Found at i:51627508 original size:9 final size:9
Alignment explanation
Indices: 51627496--51627520 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
51627486 GGACCCACGG
51627496 GGCCCATTT
1 GGCCCATTT
51627505 GGCCCATTT
1 GGCCCATTT
51627514 GGCCCAT
1 GGCCCAT
51627521 CAAGGCCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.36, G:0.24, T:0.28
Consensus pattern (9 bp):
GGCCCATTT
Found at i:51629872 original size:55 final size:54
Alignment explanation
Indices: 51629777--51629926 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
51629767 CTACTTTGTT
* ** * *
51629777 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
51629831 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
51629886 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
51629927 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:51629889 original size:27 final size:27
Alignment explanation
Indices: 51629749--51629926 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
51629739 TAAATTGTAC
51629749 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
51629776 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
51629802 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
51629830 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
51629858 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
51629885 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
51629912 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
51629927 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:51629890 original size:82 final size:81
Alignment explanation
Indices: 51629750--51629905 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
51629740 AAATTGTACA
* * * *
51629750 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
51629815 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
51629831 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
51629894 TGTGCGAGTTGA
63 TGTGCGAATTGA
51629906 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:51637882 original size:55 final size:54
Alignment explanation
Indices: 51637787--51637936 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
51637777 CTACTTTGTT
* ** * *
51637787 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
51637841 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
51637896 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
51637937 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:51637899 original size:27 final size:27
Alignment explanation
Indices: 51637759--51637936 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
51637749 TAAATTGTAC
51637759 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
51637786 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
51637812 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
51637840 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
51637868 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
51637895 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
51637922 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
51637937 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:51637900 original size:82 final size:81
Alignment explanation
Indices: 51637760--51637915 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
51637750 AAATTGTACA
* * * *
51637760 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
51637825 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
51637841 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
51637904 TGTGCGAGTTGA
63 TGTGCGAATTGA
51637916 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:51640704 original size:27 final size:27
Alignment explanation
Indices: 51640674--51640777 Score: 154
Period size: 27 Copynumber: 3.9 Consensus size: 27
51640664 CCCATATTGA
* *
51640674 TAAAATGACTATTTTTCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATATGG
*
51640701 TAAAATGACTATTTTTCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATATGG
51640728 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATATGG
* * *
51640755 TAAGATGATTGTTTTGCCCTTAT
1 TAAAATGACTATTTTGCCCTTAT
51640778 GTGATATATG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.44
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATATGG
Found at i:51642791 original size:34 final size:34
Alignment explanation
Indices: 51642753--51642817 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
51642743 TCTTTTGGAA
*
51642753 AGAATATAAAATTTTAATATTTTCCGTGATTAAG
1 AGAATATAAAATTTTAATATTATCCGTGATTAAG
51642787 AGAATATAAAATTTTAATATTATCCGTGATT
1 AGAATATAAAATTTTAATATTATCCGTGATT
51642818 TTCTCTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.42
Consensus pattern (34 bp):
AGAATATAAAATTTTAATATTATCCGTGATTAAG
Found at i:51644288 original size:31 final size:31
Alignment explanation
Indices: 51644250--51644311 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
51644240 TTAACATTGA
*
51644250 ACATACCATGTCTAACAACGTTCAATTTCTT
1 ACATACCATGTCTAACAACATTCAATTTCTT
*
51644281 ACATACCATGTCTAACAACATTCGATTTCTT
1 ACATACCATGTCTAACAACATTCAATTTCTT
51644312 CTCTCTACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.35
Consensus pattern (31 bp):
ACATACCATGTCTAACAACATTCAATTTCTT
Found at i:51648156 original size:50 final size:48
Alignment explanation
Indices: 51647940--51648217 Score: 304
Period size: 48 Copynumber: 5.7 Consensus size: 48
51647930 GATAAGGTCT
* *
51647940 CATGCAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGACCC
1 CATGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGATCC
* * * * * * * * *
51647988 CGTATAAGACCATATTTGGGATATGGCATCGGCATTGAGACGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGATCC
* * *
51648036 CATATAAGACCATGTCTGGGACATGGCATCGGCACCGATACGAGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGATCC
* *
51648084 AATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATATGAGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATCGGCATCG--ATATGAGATCC
* * *
51648134 CATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATCGGCATCGATA--TGAGATCC
* * * * *
51648184 CATGTGACACCATATCTGGGATATGGCATTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATCGGCA
51648218 CTTACTATGT
Statistics
Matches: 194, Mismatches: 32, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
48 113 0.58
50 81 0.42
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.24
Consensus pattern (48 bp):
CATGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGATCC
Found at i:51653000 original size:20 final size:20
Alignment explanation
Indices: 51652971--51653021 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
51652961 CAGGTTAGGG
*
51652971 ACACGGGCGTGCGCCTACCC
1 ACACGGGCGTGCCCCTACCC
* *
51652991 ACATGGGCGTGCCCCTATCC
1 ACACGGGCGTGCCCCTACCC
51653011 ACACGGGCGTG
1 ACACGGGCGTG
51653022 TGGCCCTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.16, C:0.39, G:0.31, T:0.14
Consensus pattern (20 bp):
ACACGGGCGTGCCCCTACCC
Found at i:51658916 original size:27 final size:27
Alignment explanation
Indices: 51658883--51659006 Score: 194
Period size: 27 Copynumber: 4.6 Consensus size: 27
51658873 TAAATTGTGC
*
51658883 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
51658910 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
51658937 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
51658965 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
51658992 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
51659007 GACTTAATAT
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 66 0.72
28 26 0.28
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:51658975 original size:55 final size:54
Alignment explanation
Indices: 51658883--51659006 Score: 194
Period size: 55 Copynumber: 2.3 Consensus size: 54
51658873 TAAATTGTGC
*
51658883 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATAT
* * *
51658937 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATAT
*
51658992 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
51659007 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
54 16 0.25
55 48 0.75
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATAT
Found at i:51675336 original size:41 final size:41
Alignment explanation
Indices: 51675277--51675476 Score: 235
Period size: 41 Copynumber: 4.9 Consensus size: 41
51675267 GCGATTCGAC
*
51675277 ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGAATGAG
1 ATAGCTTCGCCTATATATGGCACTTAGTGTGCGAGAATGAG
* * *
51675318 ATAGCTTCGCCTACATATGGCACTTAGCGTGCAAGAATGAG
1 ATAGCTTCGCCTATATATGGCACTTAGTGTGCGAGAATGAG
* *
51675359 ATAGCTTCGCCTACATATGGCACTTAGTGTGCGAGAAATGTG
1 ATAGCTTCGCCTATATATGGCACTTAGTGTGCGAG-AATGAG
* * *
51675401 ATAGCTTCAG-CTATGTATGGCACTTAGTGTGC-A-ATTTGAA
1 ATAGCTTC-GCCTATATATGGCACTTAGTGTGCGAGA-ATGAG
* * * *
51675441 ATAGCTTCGGCTATGTACGGTACTTAGTGTGCGAGA
1 ATAGCTTCGCCTATATATGGCACTTAGTGTGCGAGA
51675477 TATCAAGTAT
Statistics
Matches: 139, Mismatches: 14, Indels: 11
0.85 0.09 0.07
Matches are distributed among these distances:
39 2 0.01
40 30 0.22
41 72 0.52
42 34 0.24
43 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (41 bp):
ATAGCTTCGCCTATATATGGCACTTAGTGTGCGAGAATGAG
Found at i:51675445 original size:82 final size:82
Alignment explanation
Indices: 51675258--51675476 Score: 271
Period size: 82 Copynumber: 2.7 Consensus size: 82
51675248 TACTTGTGGA
* * *
51675258 ACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATGGCACTTAGTGTGCGAG-AATGAGATAG
1 ACTTAGTGTGCAATTTGAAATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGAAATGAGATAG
51675322 CTTCGCCTACATATGGC
66 CTTCGCCTACATATGGC
* ** * * * *
51675339 ACTTAGCGTGCAAGAATGAGATAGCTTCGCCTACATATGGCACTTAGTGTGCGAGAAATGTGATA
1 ACTTAGTGTGCAA-TTTGAAATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGAAATGAGATA
**
51675404 GCTTCAG-CTATGTATGGC
65 GCTTC-GCCTACATATGGC
* * *
51675422 ACTTAGTGTGCAATTTGAAATAGCTTCGGCTATGTACGGTACTTAGTGTGCGAGA
1 ACTTAGTGTGCAATTTGAAATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGA
51675477 TATCAAGTAT
Statistics
Matches: 115, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
81 11 0.10
82 69 0.60
83 34 0.30
84 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (82 bp):
ACTTAGTGTGCAATTTGAAATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGAAATGAGATAG
CTTCGCCTACATATGGC
Found at i:51686441 original size:45 final size:45
Alignment explanation
Indices: 51686392--51686558 Score: 244
Period size: 45 Copynumber: 3.7 Consensus size: 45
51686382 TTGATTTGTA
* * * * * *
51686392 ATGCCATAGCATCTTTCAGTTATTGTCTTGCTTGATAGAATCGTG
1 ATGCCATAACGTCTTTCAGTCATGGTCTTGCTCGTTAGAATCGTG
51686437 ATGCCATAACGTCTTTCAGTCATGGTCTTGCTCGTTAGAATCGTG
1 ATGCCATAACGTCTTTCAGTCATGGTCTTGCTCGTTAGAATCGTG
*
51686482 ATGCCATAACGTCTTTCAGTCATGGTCTTACTCGTTAGAATCGTG
1 ATGCCATAACGTCTTTCAGTCATGGTCTTGCTCGTTAGAATCGTG
* * *
51686527 ATGCCATAATGTCTTTTAGTCATGATCTTGCT
1 ATGCCATAACGTCTTTCAGTCATGGTCTTGCT
51686559 AGTTTCTGGT
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 111 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (45 bp):
ATGCCATAACGTCTTTCAGTCATGGTCTTGCTCGTTAGAATCGTG
Found at i:51688892 original size:54 final size:54
Alignment explanation
Indices: 51688834--51688961 Score: 148
Period size: 54 Copynumber: 2.4 Consensus size: 54
51688824 AAAAAGGGCC
* ** *
51688834 ACACGGCTGTGTCGCATGCCATGTACTAAATCGTGTAACAATCTATTTTGGATT
1 ACACGGCTGTGTCGCAGGCCATACACTAAATCGTGTAACAATCCATTTTGGATT
* * * * *
51688888 ACACGGCTTTGTCGTAGGCCATACGCTAAATCGTGTAACAATCCATTTTGGCTC
1 ACACGGCTGTGTCGCAGGCCATACACTAAATCGTGTAACAATCCATTTTGGATT
* * *
51688942 ACATGGCCGTGTCACAGGCC
1 ACACGGCTGTGTCGCAGGCC
51688962 GTGTGGTAGA
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (54 bp):
ACACGGCTGTGTCGCAGGCCATACACTAAATCGTGTAACAATCCATTTTGGATT
Found at i:51691151 original size:23 final size:22
Alignment explanation
Indices: 51691124--51691177 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
51691114 ATCTATTTTT
51691124 TTATTAAAAATTACAAACGAATC
1 TTATTAAAAATTACAAACGAA-C
* * * * *
51691147 TTATTTAAATTTATAACCTAAC
1 TTATTAAAAATTACAAACGAAC
51691169 TTATTAAAA
1 TTATTAAAA
51691178 TCTATCAATC
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (22 bp):
TTATTAAAAATTACAAACGAAC
Found at i:51691396 original size:23 final size:23
Alignment explanation
Indices: 51691275--51691488 Score: 92
Period size: 23 Copynumber: 9.3 Consensus size: 23
51691265 TTAAAAGCCA
*
51691275 AAAATCTAATTTTACTACAACTT
1 AAAATCTAATTTTACTAAAACTT
* *
51691298 AAAATCTAACTTTTATTAAAAATT
1 AAAATCTAA-TTTTACTAAAACTT
* * * * * * *
51691322 ACAACCGAATCTCATTTAAACTT
1 AAAATCTAATTTTACTAAAACTT
* * * *
51691345 ATAATTTAA-TTTGCTAAAACCT
1 AAAATCTAATTTTACTAAAACTT
*
51691367 ATCAATCTAATTTTACTAAAACTT
1 A-AAATCTAATTTTACTAAAACTT
* * *
51691391 AAAATCAAATTGTAATTAAAA-TT
1 AAAATCTAATT-TTACTAAAACTT
** * * * *
51691414 CTAATATATTTTTTTCCAAAA-TT
1 AAAATCTA-ATTTTACTAAAACTT
*** * * *
51691437 AAAATCTAAACCTATTAAAGCTA
1 AAAATCTAATTTTACTAAAACTT
*
51691460 AAAATCTAATTTTACTACAACTT
1 AAAATCTAATTTTACTAAAACTT
51691483 AAAATC
1 AAAATC
51691489 AAACCCTTTT
Statistics
Matches: 129, Mismatches: 56, Indels: 12
0.65 0.28 0.06
Matches are distributed among these distances:
22 12 0.09
23 79 0.61
24 38 0.29
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (23 bp):
AAAATCTAATTTTACTAAAACTT
Found at i:51691482 original size:92 final size:93
Alignment explanation
Indices: 51691184--51691995 Score: 704
Period size: 92 Copynumber: 8.8 Consensus size: 93
51691174 AAAATCTATC
* * * *
51691184 AATCTAATTTGACTAAAACTTAAAATCAAATTCTATTTATAATTATAATATAT-TATTTTCCAAA
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAAATTATAATATATAT-TTTTCCAAA
* *
51691248 ATTAAAATCTAAACCTATTAAAAGCC-AAA
65 ATTATAATCTAAACCTATTAGAA-CCTAAA
* ** * * * * *
51691277 AATCTAATTTTACTACAACTTAAAATCTAACTTTTATTAAAAATTACAACCGA-ATCTCATTT--
1 AATCTAATTTTACTACAACTTAAAATC-AAATCCTATTTAAAATTATAA--TATATAT-TTTTCC
* * ** ** * **
51691339 AAACTTATAAT-TTAATTTGCTAAAACCTATC
62 AAAATTATAATCTAAACCTATTAGAACCTAAA
* ** * * *
51691370 AATCTAATTTTACTAAAACTTAAAATCAAATTGTAATTAAAATTCTAATATATTTTTTTCCAAAA
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAAATTATAATATATATTTTTCCAAAA
* *
51691435 TTAAAATCTAAACCTATTA-AAGCTAAA
66 TTATAATCTAAACCTATTAGAACCTAAA
* ** * *
51691462 AATCTAATTTTACTACAACTTAAAATCAAACCCT-TTTAAACCTATAATCTA-ATTTTACCAAAA
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAAATTATAATATATATTTTTCCAAAA
51691525 TTATAATCTAAA-CTATTAGAACCTAAA
66 TTATAATCTAAACCTATTAGAACCTAAA
* ** * * ** * *
51691552 AATATAATACTATTACAACTTAAAATCAAATCCTTTTTAAACCTATTATCTAT-TTTTTCCAAAA
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAAATTATAATATATATTTTTCCAAAA
* * *
51691616 TTATGATCTAAGCCTATTAAAACCTAAA
66 TTATAATCTAAACCTATTAGAACCTAAA
* ** * * *
51691644 AATATAATTTTACTACAACTTAAAATCAAATCCTATTTAAACCTATAGTCTA-ATTTTACCAAAA
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAAATTATAATATATATTTTTCCAAAA
*
51691708 TTATAATCCAAACCTATTAGAACCTAAA
66 TTATAATCTAAACCTATTAGAACCTAAA
* * ** * *** ** *
51691736 AATATGATACTACTACAACTTAAAACCAAATCCTATTTAATCCTATTGTCTA-ATTTTTCCAAAA
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAAATTATAATATATATTTTTCCAAAA
* *
51691800 TTATGATCTAAGCCTATTAGAACCTAAA
66 TTATAATCTAAACCTATTAGAACCTAAA
* * ** *
51691828 AATCTAATTTTACTAGAACTTAAAATCAGATCCTATTTAAACCTATAA-ACTA-ATTTTACCAAA
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAAATTATAATA-TATATTTTTCCAAA
* *
51691891 ATTACAATATAAACCTATTAGAACCTAAA
65 ATTATAATCTAAACCTATTAGAACCTAAA
* * * *
51691920 AATATAATTTTACTACAACTTGAAATCAAATCCTATTT-AAATCTATAATCTA-ATTTTACCAAA
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAAAT-TATAATATATATTTTTCCAAA
* *
51691983 ATTAAAACCTAAA
65 ATTATAATCTAAA
51691996 AATCTAGTTT
Statistics
Matches: 593, Mismatches: 109, Indels: 35
0.80 0.15 0.05
Matches are distributed among these distances:
89 6 0.01
90 61 0.10
91 53 0.09
92 374 0.63
93 67 0.11
94 25 0.04
95 2 0.00
96 5 0.01
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (93 bp):
AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAAATTATAATATATATTTTTCCAAAA
TTATAATCTAAACCTATTAGAACCTAAA
Found at i:51691795 original size:184 final size:184
Alignment explanation
Indices: 51691424--51691986 Score: 855
Period size: 184 Copynumber: 3.1 Consensus size: 184
51691414 CTAATATATT
** * *
51691424 TTTTTCCAAAATTAAAATCTAAACCTATT-AAAGCTAAAAATCTAATTTTACTACAACTTAAAAT
1 TTTTTCCAAAATTATGATCTAAGCCTATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAAT
*
51691488 CAAACCCT-TTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAA-CTATTAGAACCTAA
66 CAAATCCTATTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACCTATTAGAACCTAA
* * * *
51691551 AAATATAATACTATTACAACTTAAAATCAAATCCTTTTTAAACCTATTATCTAT
131 AAATATAATACTACTACAACTTAAAATCAAATCCTATTTAATCCTATTATCTAA
*
51691605 TTTTTCCAAAATTATGATCTAAGCCTATTAAAACCTAAAAATATAATTTTACTACAACTTAAAAT
1 TTTTTCCAAAATTATGATCTAAGCCTATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAAT
* *
51691670 CAAATCCTATTTAAACCTATAGTCTAATTTTACCAAAATTATAATCCAAACCTATTAGAACCTAA
66 CAAATCCTATTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACCTATTAGAACCTAA
* * *
51691735 AAATATGATACTACTACAACTTAAAACCAAATCCTATTTAATCCTATTGTCTAA
131 AAATATAATACTACTACAACTTAAAATCAAATCCTATTTAATCCTATTATCTAA
* *
51691789 TTTTTCCAAAATTATGATCTAAGCCTATTAGAACCTAAAAATCTAATTTTACTAGAACTTAAAAT
1 TTTTTCCAAAATTATGATCTAAGCCTATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAAT
* * * *
51691854 CAGATCCTATTTAAACCTATAAACTAATTTTACCAAAATTACAATATAAACCTATTAGAACCTAA
66 CAAATCCTATTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACCTATTAGAACCTAA
** * *
51691919 AAATATAATTTTACTACAACTTGAAATCAAATCCTATTTAAAT-CTATAATCTAA
131 AAATATAATACTACTACAACTTAAAATCAAATCCTATTT-AATCCTATTATCTAA
*
51691973 TTTTACCAAAATTA
1 TTTTTCCAAAATTA
51691987 AAACCTAAAA
Statistics
Matches: 346, Mismatches: 32, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
181 26 0.08
182 40 0.12
183 39 0.11
184 238 0.69
185 3 0.01
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.35
Consensus pattern (184 bp):
TTTTTCCAAAATTATGATCTAAGCCTATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAAT
CAAATCCTATTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACCTATTAGAACCTAA
AAATATAATACTACTACAACTTAAAATCAAATCCTATTTAATCCTATTATCTAA
Found at i:51691918 original size:276 final size:273
Alignment explanation
Indices: 51691359--51691989 Score: 803
Period size: 276 Copynumber: 2.3 Consensus size: 273
51691349 TTTAATTTGC
** * * ** * * * * *
51691359 TAAAACCTATCAATCTAATTTTACTAAAACTTAAAATCAAATTGTAATTAAAATTCTAATATATT
1 TAAAACCTAAAAATATAATTTTACTACAACTTAAAATCAAATCCTATTTAAAACTATAATCTA-A
* * * * ** *
51691424 TTTTTCCAAAATTAAAATCTAAACCTATTAAAGCTAAAAATCTAATTTTACTACAACTTAAAATC
65 TTTTACCAAAATTAAAATCCAAACCTATTAAACCTAAAAATATAATACTACTACAACTTAAAACC
51691489 AAACCCTTTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACTATTAGAACCTAAAAA
130 AAACCCTTTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACTATTAGAACCTAAAAA
* * * * * *
51691554 TATAATACTATTACAACTTAAAATCAAATCCTTTTTAAACCTATTATCTATTTTTTCCAAAATTA
195 TATAATACTACTACAACTTAAAATCAAATCCTATTTAAACCTATAAACTAATTTTACCAAAATTA
** * *
51691619 TGATCTAAGCCTAT
260 CAATATAAACCTAT
* *
51691633 TAAAACCTAAAAATATAATTTTACTACAACTTAAAATCAAATCCTATTTAAACCTATAGTCTAAT
1 TAAAACCTAAAAATATAATTTTACTACAACTTAAAATCAAATCCTATTTAAAACTATAATCTAAT
* *
51691698 TTTACCAAAATTATAATCCAAACCTATTAGAACCTAAAAATATGATACTACTACAACTTAAAACC
66 TTTACCAAAATTAAAATCCAAACCTATTA-AACCTAAAAATATAATACTACTACAACTTAAAACC
* * ** * * *
51691763 AAATCCTATTTAATCCTATTGTCTAATTTTTCCAAAATTATGATCTAAGCCTATTAGAACCTAAA
130 AAACCCT-TTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAA-ACTATTAGAACCTAAA
* ** * *
51691828 AATCTAATTTTACTAGAACTTAAAATCAGATCCTATTTAAACCTATAAACTAATTTTACCAAAAT
193 AATATAATACTACTACAACTTAAAATCAAATCCTATTTAAACCTATAAACTAATTTTACCAAAAT
51691893 TACAATATAAACCTAT
258 TACAATATAAACCTAT
* * *
51691909 TAGAACCTAAAAATATAATTTTACTACAACTTGAAATCAAATCCTATTTAAATCTATAATCTAAT
1 TAAAACCTAAAAATATAATTTTACTACAACTTAAAATCAAATCCTATTTAAAACTATAATCTAAT
51691974 TTTACCAAAATTAAAA
66 TTTACCAAAATTAAAA
51691990 CCTAAAAATC
Statistics
Matches: 305, Mismatches: 49, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
273 27 0.09
274 86 0.28
275 35 0.11
276 157 0.51
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.35
Consensus pattern (273 bp):
TAAAACCTAAAAATATAATTTTACTACAACTTAAAATCAAATCCTATTTAAAACTATAATCTAAT
TTTACCAAAATTAAAATCCAAACCTATTAAACCTAAAAATATAATACTACTACAACTTAAAACCA
AACCCTTTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACTATTAGAACCTAAAAAT
ATAATACTACTACAACTTAAAATCAAATCCTATTTAAACCTATAAACTAATTTTACCAAAATTAC
AATATAAACCTAT
Found at i:51695025 original size:19 final size:20
Alignment explanation
Indices: 51695001--51695038 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
51694991 GGTACCACCA
51695001 AAACA-TATATCA-CATCTTT
1 AAACATTAT-TCATCATCTTT
51695020 AAACATTATTCATCATCTT
1 AAACATTATTCATCATCTT
51695039 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (20 bp):
AAACATTATTCATCATCTTT
Found at i:51695038 original size:20 final size:19
Alignment explanation
Indices: 51695001--51695038 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
51694991 GGTACCACCA
51695001 AAACATATATCACATCTTT
1 AAACATATATCACATCTTT
51695020 AAACAT-TATTCATCATCTT
1 AAACATATA-TCA-CATCTT
51695039 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 2 0.12
19 9 0.53
20 6 0.35
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (19 bp):
AAACATATATCACATCTTT
Found at i:51695426 original size:46 final size:46
Alignment explanation
Indices: 51695263--51695435 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
51695253 AACCCGCCCC
* * * * * *
51695263 TAAGTGAACTTGGTCTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
51695309 TAAATGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
51695357 TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
51695402 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
51695436 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 56 0.55
47 27 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:51695454 original size:46 final size:45
Alignment explanation
Indices: 51695313--51695454 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 45
51695303 CATCCATAAA
*
51695313 TGAACTCGGACTCAACTCAATGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * * *
51695360 CGAACTCGAACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
51695406 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
51695452 TGA
1 TGA
51695455 CATGTCACTT
Statistics
Matches: 75, Mismatches: 11, Indels: 19
0.71 0.10 0.18
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 32 0.43
47 29 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:51695892 original size:30 final size:30
Alignment explanation
Indices: 51695858--51695917 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
51695848 ATTTAATACG
51695858 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** * *
51695888 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
51695918 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:51698690 original size:33 final size:33
Alignment explanation
Indices: 51698648--51698710 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
51698638 ACACTGGCTC
51698648 ACACATCTAAGTCGATGCCATGTCCAAGACCTT
1 ACACATCTAAGTCGATGCCATGTCCAAGACCTT
* * *
51698681 ACACATCTAATTTGATGCCATGTCTAAGAC
1 ACACATCTAAGTCGATGCCATGTCCAAGAC
51698711 AAGTCTTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (33 bp):
ACACATCTAAGTCGATGCCATGTCCAAGACCTT
Found at i:51698749 original size:49 final size:48
Alignment explanation
Indices: 51698694--51698869 Score: 187
Period size: 49 Copynumber: 3.6 Consensus size: 48
51698684 CATCTAATTT
**
51698694 GATGCCATGTCTAAGACAAGTCTTACACTGACTTACATATATCGAGGTC
1 GATGCCATGTCCCAGACAAGTCTTACACTGACTT-CATATATCGAGGTC
* *
51698743 AATGCCATGTCCCAGACAAGTCTTACACT-AGCTCTCATCTATCG-GTGTC
1 GATGCCATGTCCCAGACAAGTCTTACACTGA-CT-TCATATATCGAG-GTC
* * * * * *
51698792 GATGCCATGTCCCAGATAGGTCTTACACTGGCTTGTATATCTCGAGGCC
1 GATGCCATGTCCCAGACAAGTCTTACACTGACTT-CATATATCGAGGTC
*
51698841 GATG-CATGTCCCAGACATGTCTTACACTG
1 GATGCCATGTCCCAGACAAGTCTTACACTG
51698870 GCTCTTATAA
Statistics
Matches: 107, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
48 26 0.24
49 79 0.74
50 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACAAGTCTTACACTGACTTCATATATCGAGGTC
Found at i:51698874 original size:97 final size:98
Alignment explanation
Indices: 51698694--51698874 Score: 247
Period size: 98 Copynumber: 1.9 Consensus size: 98
51698684 CATCTAATTT
* *
51698694 GATGCCATGTCTAAGACAAGTCTTACACTGACTTACATATATCGAGGTCAATGCCATGTCCCAGA
1 GATGCCATGTCCAAGACAAGTCTTACACTGACTTACATATATCGAGGCCAATGCCATGTCCCAGA
51698759 CAAGTCTTACACTAGCTCTCATCTATCGGTGTC
66 CAAGTCTTACACTAGCTCTCATCTATCGGTGTC
* * * * ** * *
51698792 GATGCCATGTCCCAGATAGGTCTTACACTGGCTTGTATATCTCGAGGCCGATG-CATGTCCCAGA
1 GATGCCATGTCCAAGACAAGTCTTACACTGACTTACATATATCGAGGCCAATGCCATGTCCCAGA
* *
51698856 CATGTCTTACACTGGCTCT
66 CAAGTCTTACACTAGCTCT
51698875 TATAATGTGG
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
97 28 0.39
98 43 0.61
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (98 bp):
GATGCCATGTCCAAGACAAGTCTTACACTGACTTACATATATCGAGGCCAATGCCATGTCCCAGA
CAAGTCTTACACTAGCTCTCATCTATCGGTGTC
Found at i:51699604 original size:20 final size:20
Alignment explanation
Indices: 51699579--51699617 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
51699569 AAAATTTCAA
51699579 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
51699599 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
51699618 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:51702935 original size:17 final size:17
Alignment explanation
Indices: 51702913--51702951 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
51702903 GCTACAGGGG
*
51702913 ACACATGGCCGTGTGTC
1 ACACATGGCCGTGTGCC
51702930 ACACATGGCCGTGTGCC
1 ACACATGGCCGTGTGCC
51702947 ACACA
1 ACACA
51702952 CGGCTGAGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.18
Consensus pattern (17 bp):
ACACATGGCCGTGTGCC
Found at i:51707701 original size:11 final size:11
Alignment explanation
Indices: 51707685--51707709 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
51707675 TTATATATAC
51707685 TAATAAAATAA
1 TAATAAAATAA
51707696 TAATAAAATAA
1 TAATAAAATAA
51707707 TAA
1 TAA
51707710 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:51708292 original size:47 final size:46
Alignment explanation
Indices: 51708239--51708507 Score: 251
Period size: 47 Copynumber: 5.7 Consensus size: 46
51708229 GTAAGGTGCT
*
51708239 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAAGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTCAAGCC
* *
51708286 GATGCCATGTCCTAGACATGGTCTTACACTGACT-ATCATCTCATAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTCA-AGCC
* * * * * * *
51708334 AATGCATGTCCTAAACATGTCTTACACTGGCTTA-CGTCCCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCATCATCTC-AAGCC
* *
51708380 GATGCATGTCCCAGACATGTCTTACACTAGCTC-TCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAA-GCC
* * ***
51708426 GATACCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGGCC
1 GAT-GCATGTCCCAGACAT-GTCTTACACTGGCTCATCAT-CTCAAGCC
*
51708474 GATGCATGTCCCAGACATGTCTTACACTAGCTCA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCA
51708508 CAAACAAATG
Statistics
Matches: 187, Mismatches: 25, Indels: 20
0.81 0.11 0.09
Matches are distributed among these distances:
45 1 0.01
46 75 0.40
47 81 0.43
48 29 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAAGCC
Found at i:51708496 original size:140 final size:141
Alignment explanation
Indices: 51708239--51708501 Score: 354
Period size: 140 Copynumber: 1.9 Consensus size: 141
51708229 GTAAGGTGCT
* * * *
51708239 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCTAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCGATACCATGTCCCAGACA
* *
51708304 TGGTCTTACACTGACTATCATCTCATAGCCAATGCATGTCCTAAACATGTCTTACACTGGCTTAC
66 TGGTCTTACACTGACTATCATATCATAGCCAATGCATGTCCCAAACATGTCTTACACTGGCTTAC
51708369 GTCCCGAGGCC
131 GTCCCGAGGCC
*
51708380 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGCCGATACCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAA-GCCGATACCATGTCCCAGA
* * * * * *
51708442 CATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACACT
64 CATGGTCTTACACTGACTATCAT-ATCATAGCCAATGCATGTCCCAAACATGTCTTACACT
51708502 AGCTCACAAA
Statistics
Matches: 106, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
138 1 0.01
139 20 0.19
140 80 0.75
141 5 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (141 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCGATACCATGTCCCAGACA
TGGTCTTACACTGACTATCATATCATAGCCAATGCATGTCCCAAACATGTCTTACACTGGCTTAC
GTCCCGAGGCC
Found at i:51712573 original size:24 final size:24
Alignment explanation
Indices: 51712540--51712635 Score: 95
Period size: 24 Copynumber: 4.0 Consensus size: 24
51712530 GATTCGGTAT
*
51712540 GCTCTAACGAGCTGCAATCAGTAA
1 GCTCTCACGAGCTGCAATCAGTAA
* *
51712564 GCTC-CTACGAGCTGAGAATTAGTAA
1 GCTCTC-ACGAGCTG-CAATCAGTAA
* * **
51712589 GCTCTCAAGAGCTACAATTGGTAA
1 GCTCTCACGAGCTGCAATCAGTAA
*
51712613 GCTTTCACGAGCTGCAATCAGTA
1 GCTCTCACGAGCTGCAATCAGTA
51712636 CTCCTTAATG
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
24 38 0.67
25 18 0.32
26 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (24 bp):
GCTCTCACGAGCTGCAATCAGTAA
Found at i:51715126 original size:79 final size:81
Alignment explanation
Indices: 51715017--51715199 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
51715007 TACTCGTTCA
* * *
51715017 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCACAAATGCCTTCAGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTT-AGGATCTTAACCCGG
* *
51715080 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
51715097 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTAGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTAGGATCTTAACCCGGA
* *
51715160 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
51715176 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
51715200 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 4 0.04
79 57 0.64
80 28 0.31
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTAGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:51715199 original size:40 final size:40
Alignment explanation
Indices: 51714996--51715199 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
51714986 CGGAATTTAA
** *
51714996 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
51715036 CCGGTTATAGTAACTTGCACAAATGCCTTCAGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
51715076 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
51715115 CCGGA-ATTAGTAACTCGCACAAATGCCTT-AGGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
51715155 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
51715195 CCGGA
1 CCGGA
51715200 CATCATTCGA
Statistics
Matches: 135, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.24
40 89 0.66
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:51721935 original size:80 final size:79
Alignment explanation
Indices: 51721839--51722008 Score: 207
Period size: 79 Copynumber: 2.1 Consensus size: 79
51721829 GGACTAAGAT
* * *
51721839 CCGAAGGCATTTGTGCGAGATA-CAAATTCCTGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTCGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
51721903 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
51721919 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
51721984 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
51721998 CCGAAGGCATT
1 CCGAAGGCATT
51722009 TGAACGAGGA
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 37 0.48
80 37 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:51721990 original size:39 final size:39
Alignment explanation
Indices: 51721839--51722008 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 39
51721829 GGACTAAGAT
* * * *
51721839 CCGAAGGCATTTGTGCGAGATAC-AAATTCCTGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGTTACTAAA-TCCGGGTTATGTC
* * *
51721879 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
*
51721919 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
51721959 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
51721998 CCGAAGGCATT
1 CCGAAGGCATT
51722009 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 38 0.33
40 74 0.64
41 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:51722028 original size:79 final size:79
Alignment explanation
Indices: 51721878--51722043 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
51721868 CTGGTTAAGC
* * * ** * *
51721878 CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATT
1 CCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACT
**
51721943 AAATCCGGGTTATGT
66 AAATCC-GGTTAAAT
* * * *
51721958 CCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-C
*
51722021 TATATCCGGTTAAAT
65 TAAATCCGGTTAAAT
51722036 CCCGAAGG
1 CCCGAAGG
51722044 TACGTGATTT
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.21
79 48 0.68
80 8 0.11
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACT
AAATCCGGTTAAAT
Found at i:51724934 original size:28 final size:27
Alignment explanation
Indices: 51724877--51725028 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
51724867 TAAATTGTGC
*
51724877 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
51724904 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
51724932 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
51724959 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
51724987 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
51725014 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
51725029 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:51724941 original size:55 final size:55
Alignment explanation
Indices: 51724877--51725028 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
51724867 TAAATTGTGC
*
51724877 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
51724932 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
51724987 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
51725029 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:51729587 original size:40 final size:40
Alignment explanation
Indices: 51729538--51729741 Score: 227
Period size: 40 Copynumber: 5.1 Consensus size: 40
51729528 CAAAATTTAA
** *
51729538 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
51729578 CCGGTTATAGTAACTCGCACAAATACCTTCAGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
51729618 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
51729657 CCGGAAATAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
51729697 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
51729737 CCGGA
1 CCGGA
51729742 CATCATTCGA
Statistics
Matches: 137, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 91 0.66
41 11 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:51729667 original size:79 final size:80
Alignment explanation
Indices: 51729559--51729741 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 80
51729549 TACTCGTTCA
* **
51729559 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATACCTTCAGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATACCTTC-GGATCTTAACCCGGA
* *
51729623 TTTAGTAAC-TCGCACC
65 TATAGTAACTTAGCA-C
* **
51729639 AATGCCTTCGGG-CTTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATACCTTCGGATCTTAACCCGGAT
* *
51729703 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
51729718 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
51729742 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 27 0.30
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATACCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:51731768 original size:47 final size:48
Alignment explanation
Indices: 51731653--51731822 Score: 179
Period size: 48 Copynumber: 3.6 Consensus size: 48
51731643 TATGTGTGCT
* * * * * *
51731653 AGTGTAAGACATGTCTGGGACAAGCATCAGCCACAGC-AT-GA-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTC-GCAATATACAAGCC
* **
51731699 AGTGTAAGACATGTCTGGGACATGCATTGG-CTCG-AGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGCA-ATATACAAGCC
*
51731746 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGCAATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGCAATATACAAGCC
*
51731794 AGTGTAAGACCTGTCTGGGACATGGCATC
1 AGTGTAAGACATGTCTGGGACAT-GCATC
51731823 AGCTTGTTGT
Statistics
Matches: 104, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
44 1 0.01
45 4 0.04
46 27 0.26
47 32 0.31
48 34 0.33
49 6 0.06
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGCAATATACAAGCC
Found at i:51731895 original size:49 final size:49
Alignment explanation
Indices: 51731837--51731966 Score: 131
Period size: 49 Copynumber: 2.6 Consensus size: 49
51731827 TGTTGTGTGA
* *
51731837 CAGTGTAAGACCTGTCTGAGACATGACATTGAC-GC-CGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGAGACATGACATCGACAGCACGATA-A-GAAAGC
* * * * *
51731886 TAGTGTAAGACCTTTCT-AGGACATGGCATCGACATCACTATAAGAAAGC
1 CAGTGTAAGACCTGTCTGA-GACATGACATCGACAGCACGATAAGAAAGC
*
51731935 CAGTGTAAGACCATGTCTGGGACATGACATCG
1 CAGTGTAAGACC-TGTCTGAGACATGACATCG
51731967 GCATCTTAAC
Statistics
Matches: 65, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
48 1 0.02
49 43 0.66
50 17 0.26
51 4 0.06
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGAGACATGACATCGACAGCACGATAAGAAAGC
Found at i:51733547 original size:16 final size:16
Alignment explanation
Indices: 51733526--51733582 Score: 89
Period size: 16 Copynumber: 3.5 Consensus size: 16
51733516 TGCAAGAAAT
51733526 AAATAAAATAAAATAA
1 AAATAAAATAAAATAA
51733542 AAATAAAATAAAAT-A
1 AAATAAAATAAAATAA
51733557 AAATAAAAATAAAAATAA
1 AAAT-AAAAT-AAAATAA
51733575 AAATAAAA
1 AAATAAAA
51733583 ATTAAATTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.13
16 19 0.50
17 9 0.24
18 5 0.13
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
AAATAAAATAAAATAA
Found at i:51733549 original size:44 final size:39
Alignment explanation
Indices: 51733499--51733590 Score: 94
Period size: 39 Copynumber: 2.2 Consensus size: 39
51733489 AAGAAGAGAG
* *
51733499 AATAAAATTAATTAACATGCAAGAAATAAATAAAATAAAATAAA
1 AATAAAATTAAATAAAAT--AA-AAATAAA-AAAA-AAAATAAA
* *
51733543 AATAAAATAAAATAAAATAAAAATAAAAATAAAAATAAA
1 AATAAAATTAAATAAAATAAAAATAAAAAAAAAAATAAA
*
51733582 AATTAAATT
1 AATAAAATT
51733591 GGGTTGTCTC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
39 15 0.36
40 3 0.07
41 7 0.17
42 2 0.05
44 15 0.36
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (39 bp):
AATAAAATTAAATAAAATAAAAATAAAAAAAAAAATAAA
Found at i:51733552 original size:21 final size:21
Alignment explanation
Indices: 51733522--51733582 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
51733512 AACATGCAAG
51733522 AAAT-AAATAAAATAAAATAA
1 AAATAAAATAAAATAAAATAA
51733542 AAATAAAATAAAATAAAATAA
1 AAATAAAATAAAATAAAATAA
51733563 AAATAAAAATAAAAATAAAA
1 AAAT-AAAAT-AAAATAAAA
51733583 ATTAAATTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
20 4 0.11
21 20 0.53
22 5 0.13
23 9 0.24
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (21 bp):
AAATAAAATAAAATAAAATAA
Found at i:51733584 original size:6 final size:5
Alignment explanation
Indices: 51733522--51733582 Score: 79
Period size: 5 Copynumber: 11.6 Consensus size: 5
51733512 AACATGCAAG
51733522 AAAT- AAATA AAATA AAATAA AAATA AAATA AAATA AAATAA AAATAA
1 AAATA AAATA AAATA AAAT-A AAATA AAATA AAATA AAAT-A AAAT-A
51733569 AAATAA AAATA AAA
1 AAAT-A AAATA AAA
51733583 ATTAAATTGG
Statistics
Matches: 54, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.07
5 28 0.52
6 22 0.41
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:51733589 original size:11 final size:11
Alignment explanation
Indices: 51733522--51733582 Score: 92
Period size: 11 Copynumber: 5.7 Consensus size: 11
51733512 AACATGCAAG
51733522 AAAT-AAAT-A
1 AAATAAAATAA
51733531 AAATAAAATAA
1 AAATAAAATAA
51733542 AAATAAAAT-A
1 AAATAAAATAA
51733552 AAATAAAATAA
1 AAATAAAATAA
51733563 AAATAAAAATAA
1 AAAT-AAAATAA
51733575 AAATAAAA
1 AAATAAAA
51733583 ATTAAATTGG
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
9 4 0.08
10 14 0.29
11 19 0.40
12 11 0.23
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:51738736 original size:38 final size:38
Alignment explanation
Indices: 51738693--51738804 Score: 118
Period size: 39 Copynumber: 2.9 Consensus size: 38
51738683 AAAATTTATG
51738693 TGGTATTATATCCGGGTTAAATCCCGCAGGCTTAATAC
1 TGGTATTATATCCGGGTTAAATCCCGCAGGCTTAATAC
* * * * *
51738731 TGGTATTATATCCGGACTTATAGT-CCGCAGGCCTAGTGC
1 TGGTATTATATCCGG-GTTA-AATCCCGCAGGCTTAATAC
* *
51738770 TGGTAATAGATATCCGGGTTAAATCCTGCAGGCTT
1 TGGT-AT-TATATCCGGGTTAAATCCCGCAGGCTT
51738805 TGTGCTAGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
38 15 0.25
39 21 0.36
40 15 0.25
41 8 0.14
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (38 bp):
TGGTATTATATCCGGGTTAAATCCCGCAGGCTTAATAC
Found at i:51742559 original size:49 final size:48
Alignment explanation
Indices: 51742387--51742559 Score: 170
Period size: 49 Copynumber: 3.6 Consensus size: 48
51742377 AAATGCTAAC
* * * *
51742387 GCCATGTTCCAGACATGGTCTTACACTGGCTAGCA-C-ATTGAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTATCATCTATCG-GGTCGAT
* * ** * * * *
51742435 GCCGTGTCCTAGACAGGTCTTACACTAACTTTCATATATCGAGGCCAAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATCG-GGTCGAT
* *
51742484 GCCATGTCCCAGACAGGTCTCACACTGGCTCTCATCTATCGGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATCGG-GTCGAT
51742533 GCCATGTCCCAGACAGGTCTTACACTG
1 GCCATGTCCCAGACAGGTCTTACACTG
51742560 ACACACAAAA
Statistics
Matches: 100, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
47 15 0.15
48 13 0.13
49 72 0.72
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (48 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATCGGGTCGAT
Found at i:51742636 original size:48 final size:46
Alignment explanation
Indices: 51742582--51742747 Score: 152
Period size: 46 Copynumber: 3.6 Consensus size: 46
51742572 CTGATGCCAC
* * * *
51742582 GTCCCAGACAAGTTTTACACTAGCTTGTATATCCCGAGGCCGATGCAT
1 GTCCCAGACATGTCTTACACTAGC-TCTA-ATCCCAAGGCCGATGCAT
* * * *
51742630 GTCCCAGATATGTCTTACACTAGCTCTAATCTCAATGTCGATGCAT
1 GTCCCAGACATGTCTTACACTAGCTCTAATCCCAAGGCCGATGCAT
* * * ***** *
51742676 GTCCCAGACATGTCTTACACTGGCACTCATGATGTGGCCAATGCAT
1 GTCCCAGACATGTCTTACACTAGCTCTAATCCCAAGGCCGATGCAT
*
51742722 GTCCCAGACATGTCTTACACTGGCTC
1 GTCCCAGACATGTCTTACACTAGCTC
51742748 ACATACCACC
Statistics
Matches: 97, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
46 73 0.75
47 3 0.03
48 21 0.22
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
GTCCCAGACATGTCTTACACTAGCTCTAATCCCAAGGCCGATGCAT
Found at i:51747324 original size:39 final size:40
Alignment explanation
Indices: 51747274--51747379 Score: 162
Period size: 40 Copynumber: 2.7 Consensus size: 40
51747264 CTACTTGCTC
*
51747274 AATGCCTTCGGGACTTAG-CCGGTTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCACA
* *
51747313 AATGCCTTCGGGACTTAGCCCGG-AATTAGTCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTAGCACA
51747353 AATGCCTTCGGGACTTAGCCCGGTTAT
1 AATGCCTTCGGGACTTAGCCCGGTTAT
51747380 CATCCGAATA
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
39 19 0.32
40 40 0.67
41 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCACA
Found at i:51754996 original size:37 final size:35
Alignment explanation
Indices: 51754918--51755041 Score: 111
Period size: 34 Copynumber: 3.7 Consensus size: 35
51754908 AACACTTGCT
* *
51754918 CAAA-GCCTT-GGA-TTAGCCCGTATAGAACT-GCA
1 CAAATGCCTTCGGACTTAGCCCGGATATAACTCG-A
* *
51754950 CAAA-GCCTTCGGACTTAGCCTGGAATAGTAATTCGA
1 CAAATGCCTTCGGACTTAGCCCGG-ATA-TAACTCGA
51754986 CAAATGCCTTCGGACTTA-CCCGGATATAACTCG-
1 CAAATGCCTTCGGACTTAGCCCGGATATAACTCGA
*
51755019 CACCATGCC-TCGGACTTAGCCCG
1 CA-AATGCCTTCGGACTTAGCCCG
51755042 AATTAGTCAC
Statistics
Matches: 77, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
32 9 0.12
33 14 0.18
34 22 0.29
35 6 0.08
36 12 0.16
37 14 0.18
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (35 bp):
CAAATGCCTTCGGACTTAGCCCGGATATAACTCGA
Found at i:51768856 original size:40 final size:40
Alignment explanation
Indices: 51768812--51769039 Score: 343
Period size: 40 Copynumber: 5.7 Consensus size: 40
51768802 GCTACTTGCT
51768812 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
51768852 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
51768892 CAAATGCCTTCGGGACTTTGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
51768932 CAAATGCCGTCGGGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
51768972 CAAATGCCTTCGAG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
51769011 CAAATGCCTTTGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
51769040 CATCCGAATG
Statistics
Matches: 169, Mismatches: 16, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
38 1 0.01
39 31 0.18
40 136 0.80
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:51774504 original size:57 final size:58
Alignment explanation
Indices: 51774374--51774516 Score: 173
Period size: 57 Copynumber: 2.5 Consensus size: 58
51774364 CTCATTTATG
* * * * **
51774374 AAAGGATTTAGCCTGGACGGGTAATCCTAATATAAGCCCTTTCGAGCATATGTTATGG
1 AAAGGATTTAGCCTGGACTGGTAATCCTAATACAAGCCCTTTAGAGCATATGTCATAA
** * *
51774432 ATTGTATTTAGCCTGGACTGGTAATCC-AGAT-CAAGCTCTTTAGAGCATATGTCATAA
1 AAAGGATTTAGCCTGGACTGGTAATCCTA-ATACAAGCCCTTTAGAGCATATGTCATAA
51774489 AAAGGATTTAGCCTGGACTGGTAATCCT
1 AAAGGATTTAGCCTGGACTGGTAATCCT
51774517 GTTGTCTATA
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
57 45 0.64
58 25 0.36
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (58 bp):
AAAGGATTTAGCCTGGACTGGTAATCCTAATACAAGCCCTTTAGAGCATATGTCATAA
Found at i:51785902 original size:40 final size:39
Alignment explanation
Indices: 51785818--51786002 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
51785808 TCGAATGATG
* * * *
51785818 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
51785858 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
51785898 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
51785937 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
51785978 -CCGGGCTATGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTC-CGAAGGCATTTG
51786003 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 36 0.29
40 79 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:51785954 original size:79 final size:81
Alignment explanation
Indices: 51785818--51786000 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
51785808 TCGAATGATG
* *
51785818 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
51785882 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
51785897 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
51785959 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* * *
51785977 ACCGGGCTATGTCTCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
51786001 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 29 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:51786024 original size:79 final size:79
Alignment explanation
Indices: 51785871--51786035 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
51785861 GGACTAAGAT
* **
51785871 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
51785936 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
51785950 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCTCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* * *
51786013 TATAT-CTGGTTAAATT
63 TAAATCCGGGTTAAATC
51786029 CCGAAGG
1 CCGAAGG
51786036 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 50 0.68
80 21 0.29
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:51787958 original size:27 final size:26
Alignment explanation
Indices: 51787914--51787965 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
51787904 CTTGCTGCAA
*
51787914 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
51787941 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
51787966 GCAGCCTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:51795429 original size:27 final size:26
Alignment explanation
Indices: 51795385--51795436 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
51795375 CTCGCTGCAA
*
51795385 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
51795412 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
51795437 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:51795577 original size:71 final size:70
Alignment explanation
Indices: 51795368--51795560 Score: 293
Period size: 71 Copynumber: 2.8 Consensus size: 70
51795358 GGAAGCGTTT
* *
51795368 TGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCAC---ATATATCTGTTCTGGTGACTTCGTCACA
1 TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACTATATATATATGTTCTGGTGACTTCGTCACA
51795430 ATATC
66 ATATC
* *
51795435 TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACTTATATATATATGTTTTGGTGACTTCGTCAT
1 TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCAC-TATATATATATGTTCTGGTGACTTCGTCAC
51795500 AATATC
65 AATATC
* *
51795506 TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATATTTATTCTGGTG
1 TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCAC-TATATATATATGTTCTGGTG
51795561 GCCTAGCCAC
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
67 33 0.29
71 81 0.71
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (70 bp):
TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACTATATATATATGTTCTGGTGACTTCGTCACA
ATATC
Found at i:51796971 original size:41 final size:43
Alignment explanation
Indices: 51796894--51797051 Score: 189
Period size: 44 Copynumber: 3.7 Consensus size: 43
51796884 AGCTTGTACA
* * * *
51796894 ATGCCAACGTCCCAGACGTAGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
*
51796937 ATGCCATTGTCCCAGA-G-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
* *
51796977 ATGCCAATGTCCTAGACGTGGTCTTACACGTAAATCATAA-GTCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AAATCA-AATATCG
* *
51797021 ATGCCAACGTCCCAGATGTGGTCTTACACGA
1 ATGCCAATGTCCCAGACGTGGTCTTACACGA
51797052 TAACACATAT
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
40 15 0.15
41 20 0.20
42 12 0.12
43 22 0.22
44 30 0.30
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:51805307 original size:33 final size:32
Alignment explanation
Indices: 51805277--51805350 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
51805267 ATGGTACAAC
51805277 ATGAAAAGGTTAT-GTACACTTTGTGTGTACAT
1 ATGAAAAGGTT-TGGTACACTTTGTGTGTACAT
* * * *
51805309 TTGGAAAGGTTTGGTATACTTTGTGTATACCAT
1 ATGAAAAGGTTTGGTACACTTTGTGTGTA-CAT
51805342 ATGAAAAGG
1 ATGAAAAGG
51805351 AAAGGTTTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
31 1 0.03
32 23 0.68
33 10 0.29
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.36
Consensus pattern (32 bp):
ATGAAAAGGTTTGGTACACTTTGTGTGTACAT
Found at i:51809185 original size:23 final size:23
Alignment explanation
Indices: 51809159--51809211 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
51809149 CTGCCTTTTG
*
51809159 ATGGATTCGGTGTGATATTGGGA
1 ATGGATTCGATGTGATATTGGGA
*
51809182 ATGGATTCGATTTGATATTGGGA
1 ATGGATTCGATGTGATATTGGGA
51809205 ATGGATT
1 ATGGATT
51809212 GGTTAACCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.25, C:0.04, G:0.34, T:0.38
Consensus pattern (23 bp):
ATGGATTCGATGTGATATTGGGA
Found at i:51811182 original size:101 final size:101
Alignment explanation
Indices: 51811007--51811214 Score: 398
Period size: 101 Copynumber: 2.1 Consensus size: 101
51810997 TAACTGGTAC
51811007 AAAAGATTTTGTATGAAGCTCATAACAGTGCAATGTCAGTTCATCCAGGTAGTAATAAAATGTAT
1 AAAAGATTTTGTATGAAGCTCATAACAGTGCAATGTCAGTTCATCCAGGTAGTAATAAAATGTAT
*
51811072 AATGATTTGAAAAAGATGTATTGGTGGCTGGGAATG
66 AATGATTTGAAAAAGATGTATTGGTGGCCGGGAATG
*
51811108 AAAAGATTTTGTATGAAGCTCATAACGGTGCAATGTCAGTTCATCCAGGTAGTAATAAAATGTAT
1 AAAAGATTTTGTATGAAGCTCATAACAGTGCAATGTCAGTTCATCCAGGTAGTAATAAAATGTAT
51811173 AATGATTTGAAAAAGATGTATTGGTGGCCGGGAATG
66 AATGATTTGAAAAAGATGTATTGGTGGCCGGGAATG
51811209 AAAAGA
1 AAAAGA
51811215 GATATTTTTG
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 105 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (101 bp):
AAAAGATTTTGTATGAAGCTCATAACAGTGCAATGTCAGTTCATCCAGGTAGTAATAAAATGTAT
AATGATTTGAAAAAGATGTATTGGTGGCCGGGAATG
Found at i:51812801 original size:40 final size:40
Alignment explanation
Indices: 51812723--51812946 Score: 283
Period size: 40 Copynumber: 5.5 Consensus size: 40
51812713 ACCCAAGTAT
* * *
51812723 CTTCGGGATTTAG-CCGGATATAG-CAACTCGTACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * **
51812762 CTTCGGGTCTTAGCTCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
51812802 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
51812842 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
51812885 CTTCGGGACTTAGCCCGGACATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
51812925 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
51812947 CATCCGAATA
Statistics
Matches: 161, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 12 0.07
40 113 0.70
41 1 0.01
43 35 0.22
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:51812909 original size:83 final size:80
Alignment explanation
Indices: 51812723--51812946 Score: 283
Period size: 83 Copynumber: 2.8 Consensus size: 80
51812713 ACCCAAGTAT
* * * * *
51812723 CTTCGGGATTTAG-CCGGATATAG-CAACTCGTACAAATGCCTTCGGGTCTTAGCTCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
51812786 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
*
51812802 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
51812866 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* * *
51812885 CTTCGGGACTTAGCCCGGACATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
51812947 CATCCGAATA
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
79 13 0.10
80 47 0.37
81 1 0.01
83 66 0.52
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:51820039 original size:33 final size:32
Alignment explanation
Indices: 51820009--51820082 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
51819999 ATGGTACAAC
51820009 ATGAAAAGGTTAT-GTACACTTTGTGTGTACAT
1 ATGAAAAGGTT-TGGTACACTTTGTGTGTACAT
* * * *
51820041 TTGGAAAGGTTTGGTATACTTTGTGTATACCAT
1 ATGAAAAGGTTTGGTACACTTTGTGTGTA-CAT
51820074 ATGAAAAGG
1 ATGAAAAGG
51820083 AAAGGTTTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
31 1 0.03
32 23 0.68
33 10 0.29
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.36
Consensus pattern (32 bp):
ATGAAAAGGTTTGGTACACTTTGTGTGTACAT
Found at i:51821119 original size:13 final size:13
Alignment explanation
Indices: 51821069--51821131 Score: 63
Period size: 13 Copynumber: 4.5 Consensus size: 13
51821059 AGAATTGCCT
51821069 ACGGGCTGGCCAC
1 ACGGGCTGGCCAC
*
51821082 ACGGCCATGGGAGCCAC
1 ACGGGC-T--G-GCCAC
*
51821099 ACGGGCTGGCTAC
1 ACGGGCTGGCCAC
*
51821112 ATGGGCTGGCCAC
1 ACGGGCTGGCCAC
51821125 ACGGGCT
1 ACGGGCT
51821132 TGTGCCCCTA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
13 26 0.65
14 2 0.05
16 2 0.05
17 10 0.25
ACGTcount: A:0.17, C:0.33, G:0.38, T:0.11
Consensus pattern (13 bp):
ACGGGCTGGCCAC
Found at i:51827775 original size:30 final size:30
Alignment explanation
Indices: 51827741--51827801 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
51827731 TCCTTAACTC
51827741 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
51827771 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
51827801 A
1 A
51827802 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:51842039 original size:42 final size:42
Alignment explanation
Indices: 51841938--51842095 Score: 183
Period size: 43 Copynumber: 3.7 Consensus size: 42
51841928 ATCTCGTACA
** * *
51841938 ATGCCAAAATCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATAT-G
*
51841981 ATGCCACTGTCCCAGACAG-GGTCTTACACGAAATCAAATATG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATCAAATATG
* *
51842023 ATGCCAATGTCCCAGACGTGGTATTACACGTAAATCATAATTTG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AAATCA-AATATG
* * *
51842067 ATGCCAACGTCCCCGACGTAGTCTTACAC
1 ATGCCAATGTCCCAGACGTGGTCTTACAC
51842096 AATAACACAT
Statistics
Matches: 99, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.01
42 27 0.27
43 40 0.40
44 31 0.31
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATG
Found at i:51854136 original size:103 final size:104
Alignment explanation
Indices: 51853909--51854174 Score: 410
Period size: 103 Copynumber: 2.6 Consensus size: 104
51853899 TGTATATAAA
** * * *
51853909 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
*
51853973 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
51854013 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATTTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
51854078 TGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* * *
51854116 AGGGGTTGCTAAGTGATGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
51854175 ATAACGGTTA
Statistics
Matches: 149, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
103 85 0.57
104 63 0.42
105 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:51867231 original size:52 final size:52
Alignment explanation
Indices: 51867169--51867273 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
51867159 AACCCAAAAC
* *
51867169 AACAGTTGATGGGGATTACCGAAGCGAGCTAATCACCCATAATTGAGATTTG
1 AACAGTTGATGGGGATTACCGAAGCAAGCTAATCACCCATAATCGAGATTTG
*
51867221 AACAGTTGATGGGGATTACTGAAGCAAGCTAATCACCCATAATCGAGATTTG
1 AACAGTTGATGGGGATTACCGAAGCAAGCTAATCACCCATAATCGAGATTTG
51867273 A
1 A
51867274 TTTATTATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (52 bp):
AACAGTTGATGGGGATTACCGAAGCAAGCTAATCACCCATAATCGAGATTTG
Found at i:51868649 original size:14 final size:16
Alignment explanation
Indices: 51868618--51868651 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
51868608 AAATTATGAC
51868618 ATAATTAAAACTTAAA
1 ATAATTAAAACTTAAA
51868634 ATAATT-AAAC-TAAA
1 ATAATTAAAACTTAAA
51868648 ATAA
1 ATAA
51868652 CTATAACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 4 0.22
16 6 0.33
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAATTAAAACTTAAA
Found at i:51872085 original size:40 final size:40
Alignment explanation
Indices: 51872030--51872219 Score: 281
Period size: 40 Copynumber: 4.8 Consensus size: 40
51872020 TAATTATTGA
* *
51872030 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
*
51872070 TGATTGCACATACGTGCCCCTGTTTGTACTTAGATACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
* *
51872110 TGATTGCACATACGTGCCCCTGTTTATACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
* *
51872150 TGATTACACATACATGCCCCTGTTTGTACTTCGATACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
* * * *
51872190 TGAATGCACTTACATGCCCCTGTTTATACT
1 TGATTGCACATACGTGCCCCTGTTTGTACT
51872220 CTAGTATCCC
Statistics
Matches: 136, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.20, C:0.31, G:0.16, T:0.33
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
Found at i:51872089 original size:20 final size:20
Alignment explanation
Indices: 51872030--51872211 Score: 95
Period size: 20 Copynumber: 9.1 Consensus size: 20
51872020 TAATTATTGA
51872030 TGATTGCACATACGTGCCCC
1 TGATTGCACATACGTGCCCC
* * *
51872050 T-ATTTGTAC-TTCGGTACCCC
1 TGA-TTGCACATAC-GTGCCCC
51872070 TGATTGCACATACGTGCCCC
1 TGATTGCACATACGTGCCCC
* * * *
51872090 TGTTTGTACTTA-GATACCCC
1 TGATTGCACATACG-TGCCCC
51872110 TGATTGCACATACGTGCCCC
1 TGATTGCACATACGTGCCCC
* ** * *
51872130 TGTTTATAC-TTCGGTACCCC
1 TGATTGCACATAC-GTGCCCC
* *
51872150 TGATTACACATACATGCCCC
1 TGATTGCACATACGTGCCCC
* * * *
51872170 TGTTTGTAC-TTCGATACCCC
1 TGATTGCACATACG-TGCCCC
* * *
51872190 TGAATGCACTTACATGCCCC
1 TGATTGCACATACGTGCCCC
51872210 TG
1 TG
51872212 TTTATACTCT
Statistics
Matches: 116, Mismatches: 36, Indels: 20
0.67 0.21 0.12
Matches are distributed among these distances:
19 8 0.07
20 100 0.86
21 8 0.07
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (20 bp):
TGATTGCACATACGTGCCCC
Found at i:51874211 original size:18 final size:17
Alignment explanation
Indices: 51874184--51874217 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
51874174 GAATTGAGTT
*
51874184 GAAAAAATTATTTAATG
1 GAAAAAATTAATTAATG
51874201 GAAATAAATTAATTAAT
1 GAAA-AAATTAATTAAT
51874218 TTAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (17 bp):
GAAAAAATTAATTAATG
Found at i:51876163 original size:243 final size:243
Alignment explanation
Indices: 51875735--51876225 Score: 964
Period size: 243 Copynumber: 2.0 Consensus size: 243
51875725 AAAACACCAT
51875735 TGATTTTGCCATTGCACAACTTGTGGGTTTTCTGGATTTTCAACCAAATGTTTGTTTTTCTCCTA
1 TGATTTTGCCATTGCACAACTTGTGGGTTTTCTGGATTTTCAACCAAATGTTTGTTTTTCTCCTA
*
51875800 TCAAAGGGAATGGTTCAATTTCCTATTAGTTTTTTTATGATATTTAGTCTTTTAAATATATTTTT
66 TCAAACGGAATGGTTCAATTTCCTATTAGTTTTTTTATGATATTTAGTCTTTTAAATATATTTTT
*
51875865 TACCTATTGAATTGACAGTTTTGAATAAATCCTAAAAATTAGGTCGTTAATGGTGGATTTTGGGA
131 TACCTATTGAATCGACAGTTTTGAATAAATCCTAAAAATTAGGTCGTTAATGGTGGATTTTGGGA
51875930 TTTTGAAGGAAAACGATGTTCTAAATTGTTTTTCAACTTGTTTTAAAC
196 TTTTGAAGGAAAACGATGTTCTAAATTGTTTTTCAACTTGTTTTAAAC
51875978 TGATTTTGCCATTGCACAACTTGTGGGTTTTCTGGATTTTCAACCAAATGTTTGTTTTTCTCCTA
1 TGATTTTGCCATTGCACAACTTGTGGGTTTTCTGGATTTTCAACCAAATGTTTGTTTTTCTCCTA
51876043 TCAAACGGAATGGTTCAATTTCCTATTAGTTTTTTTATGATATTTAGTCTTTTAAATATATTTTT
66 TCAAACGGAATGGTTCAATTTCCTATTAGTTTTTTTATGATATTTAGTCTTTTAAATATATTTTT
51876108 TACCTATTGAATCGACAGTTTTGAATAAATCCTAAAAATTAGGTCGTTAATGGTGGATTTTGGGA
131 TACCTATTGAATCGACAGTTTTGAATAAATCCTAAAAATTAGGTCGTTAATGGTGGATTTTGGGA
51876173 TTTTGAAGGAAAACGATGTTCTAAATTGTTTTTCAACTTGTTTTAAAC
196 TTTTGAAGGAAAACGATGTTCTAAATTGTTTTTCAACTTGTTTTAAAC
51876221 TGATT
1 TGATT
51876226 AGAAGGTTTC
Statistics
Matches: 246, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
243 246 1.00
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (243 bp):
TGATTTTGCCATTGCACAACTTGTGGGTTTTCTGGATTTTCAACCAAATGTTTGTTTTTCTCCTA
TCAAACGGAATGGTTCAATTTCCTATTAGTTTTTTTATGATATTTAGTCTTTTAAATATATTTTT
TACCTATTGAATCGACAGTTTTGAATAAATCCTAAAAATTAGGTCGTTAATGGTGGATTTTGGGA
TTTTGAAGGAAAACGATGTTCTAAATTGTTTTTCAACTTGTTTTAAAC
Found at i:51877197 original size:28 final size:28
Alignment explanation
Indices: 51877165--51877247 Score: 157
Period size: 28 Copynumber: 3.0 Consensus size: 28
51877155 TTTTAAAAGG
*
51877165 AAGATTATGGGCGAGCAATACATGGAGT
1 AAGATTATGGGTGAGCAATACATGGAGT
51877193 AAGATTATGGGTGAGCAATACATGGAGT
1 AAGATTATGGGTGAGCAATACATGGAGT
51877221 AAGATTATGGGTGAGCAATACATGGAG
1 AAGATTATGGGTGAGCAATACATGGAG
51877248 CCAATATACT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.36, C:0.08, G:0.33, T:0.23
Consensus pattern (28 bp):
AAGATTATGGGTGAGCAATACATGGAGT
Found at i:51881850 original size:27 final size:27
Alignment explanation
Indices: 51881820--51881875 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
51881810 GTGGATTTCG
*
51881820 AGATTTTGAAGGAAAATAATGTTTCAA
1 AGATTTTGAAGGAAAACAATGTTTCAA
51881847 AGATTTTGAAGGAAAACAATGTTTCAA
1 AGATTTTGAAGGAAAACAATGTTTCAA
51881874 AG
1 AG
51881876 TGTTTTCAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (27 bp):
AGATTTTGAAGGAAAACAATGTTTCAA
Found at i:51885297 original size:26 final size:26
Alignment explanation
Indices: 51885254--51885304 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
51885244 CTCTATTCTG
*
51885254 ACTGTGCACTTCGGTGCAATACTGTA
1 ACTGTGCACTTCGATGCAATACTGTA
* *
51885280 ACTGTGCATTTTGATGCAATACTGT
1 ACTGTGCACTTCGATGCAATACTGT
51885305 GAAAGTTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (26 bp):
ACTGTGCACTTCGATGCAATACTGTA
Found at i:51885323 original size:27 final size:26
Alignment explanation
Indices: 51885268--51885329 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
51885258 TGCACTTCGG
*
51885268 TGCAATACTGTAACTGTGCATTTTGA
1 TGCAATACTGTAACTGTGCATTTTCA
*
51885294 TGCAATACTGTGAA-AGTTGCATTTTCA
1 TGCAATACTGT-AACTG-TGCATTTTCA
*
51885321 TGCATTACT
1 TGCAATACT
51885330 ATAATGTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 12 0.39
27 19 0.61
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (26 bp):
TGCAATACTGTAACTGTGCATTTTCA
Found at i:51886958 original size:32 final size:32
Alignment explanation
Indices: 51886913--51886980 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
51886903 AAAAATTATG
* *
51886913 TTTTCTATTCTTCTAACTTT-TTATCCCTTCAA
1 TTTTCCATCCTTCT-ACTTTGTTATCCCTTCAA
* *
51886945 TTTTCCATCCTTCTAGTTTGTTATCCCTTCAT
1 TTTTCCATCCTTCTACTTTGTTATCCCTTCAA
51886977 TTTT
1 TTTT
51886981 TTTTCATCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 4 0.13
32 27 0.87
ACGTcount: A:0.15, C:0.25, G:0.03, T:0.57
Consensus pattern (32 bp):
TTTTCCATCCTTCTACTTTGTTATCCCTTCAA
Found at i:51888428 original size:43 final size:43
Alignment explanation
Indices: 51888381--51888548 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
51888371 ATCAAGATGT
* *
51888381 GATTACATGTAAGACCATGTCTGGGACATTGACATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
** * * *
51888424 GATTATGTGTAAGACCATGTCTGGGACATTGGCATCATACAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTA-TTGA
* * * * *
51888467 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGA
* * * *
51888510 GATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
51888549 GAGCTTATGT
Statistics
Matches: 100, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
42 9 0.09
43 90 0.90
44 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:51894362 original size:18 final size:18
Alignment explanation
Indices: 51894302--51894362 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
51894292 AAAGGGTAAG
*
51894302 AAGTAAAAGTTTAAGGGGA
1 AAGTAAAAGTTTTA-GGGA
* *
51894321 AAATAAAAAATTTT-GGG-
1 AAGT-AAAAGTTTTAGGGA
*
51894338 GAGTAAAAGTTTTAGGGA
1 AAGTAAAAGTTTTAGGGA
51894356 AAGTAAA
1 AAGTAAA
51894363 TAGGGGAGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
16 8 0.25
17 5 0.16
18 9 0.28
19 3 0.09
20 7 0.22
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.25
Consensus pattern (18 bp):
AAGTAAAAGTTTTAGGGA
Found at i:51894721 original size:18 final size:18
Alignment explanation
Indices: 51894698--51894734 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
51894688 TATAGTTTGA
* *
51894698 TATTCGATTTATTTGAAT
1 TATTCGAGTTATTCGAAT
51894716 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
51894734 T
1 T
51894735 CGAAAACTCA
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:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:51899719 original size:19 final size:21
Alignment explanation
Indices: 51899695--51899734 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
51899685 TACATCATTT
51899695 TAATATATTA-AATT-TTAAA
1 TAATATATTAGAATTATTAAA
51899714 TAATATATTAGAATTATTAAA
1 TAATATATTAGAATTATTAAA
51899735 AAACATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 4 0.21
21 5 0.26
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
TAATATATTAGAATTATTAAA
Found at i:51901071 original size:14 final size:14
Alignment explanation
Indices: 51901052--51901090 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
51901042 CATTAATTAA
51901052 TTAAAAAATTATTT
1 TTAAAAAATTATTT
*
51901066 TTAAAAAAAATATTT
1 TT-AAAAAATTATTT
51901081 TTAAAAAATT
1 TTAAAAAATT
51901091 TAAAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAAAAAATTATTT
Found at i:51901074 original size:15 final size:15
Alignment explanation
Indices: 51901054--51901088 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
51901044 TTAATTAATT
*
51901054 AAAAAATTATTTTTA
1 AAAAAAATATTTTTA
51901069 AAAAAAATATTTTTA
1 AAAAAAATATTTTTA
51901084 AAAAA
1 AAAAA
51901089 TTTAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAAAAATATTTTTA
Found at i:51907616 original size:20 final size:20
Alignment explanation
Indices: 51907588--51907626 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
51907578 ATTAACAATT
51907588 TATAATTTT-TTAGATTTTTA
1 TATAATTTTATTA-ATTTTTA
*
51907608 TATACTTTTATTAATTTTT
1 TATAATTTTATTAATTTTT
51907627 GACTGATGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (20 bp):
TATAATTTTATTAATTTTTA
Found at i:51912203 original size:18 final size:18
Alignment explanation
Indices: 51912180--51912216 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
51912170 GATAGTATAT
51912180 ACTGAAAACAGTAGCAAA
1 ACTGAAAACAGTAGCAAA
* *
51912198 ACTGAAAACTGTAGTAAA
1 ACTGAAAACAGTAGCAAA
51912216 A
1 A
51912217 TTGCGATTTG
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:0.54, C:0.14, G:0.16, T:0.16
Consensus pattern (18 bp):
ACTGAAAACAGTAGCAAA
Found at i:51917239 original size:14 final size:14
Alignment explanation
Indices: 51917213--51917240 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51917203 ACACGGGTAA
51917213 AACCACACGGGCGT
1 AACCACACGGGCGT
51917227 AACCACACGGGCGT
1 AACCACACGGGCGT
51917241 GTTGGATTCT
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:0.29, C:0.36, G:0.29, T:0.07
Consensus pattern (14 bp):
AACCACACGGGCGT
Done.