Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 60 of 160
Found at i:12606440 original size:1 final size:1
Alignment explanation
Indices: 12606434--12606458 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
12606424 TGGAATTCTG
12606434 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
12606459 CCAAGAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:12609317 original size:16 final size:15
Alignment explanation
Indices: 12609298--12609331 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
12609288 TATTTTTTAA
12609298 TTTTTT-AAAATAATC
1 TTTTTTCAAAA-AATC
12609313 TTTTTTCAAAAAATC
1 TTTTTTCAAAAAATC
12609328 TTTT
1 TTTT
12609332 AAAGCCTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTTTTCAAAAAATC
Found at i:12614467 original size:1 final size:1
Alignment explanation
Indices: 12614461--12614497 Score: 74
Period size: 1 Copynumber: 37.0 Consensus size: 1
12614451 ATATAAGCTT
12614461 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
12614498 CTCTCATGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:12615282 original size:14 final size:13
Alignment explanation
Indices: 12615263--12615292 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
12615253 TCTTTTCTTC
12615263 AAAATAAATAAAAT
1 AAAATAAA-AAAAT
12615277 AAAATAAAAAAAT
1 AAAATAAAAAAAT
12615290 AAA
1 AAA
12615293 GACCAATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:12615748 original size:78 final size:78
Alignment explanation
Indices: 12615609--12615830 Score: 236
Period size: 77 Copynumber: 2.8 Consensus size: 78
12615599 AGCTATTTTA
* * * * * *
12615609 ACCAGAAGAAATGAAACTTAAAATTTTGAAAAACTCTTCTAATTAGAAGCAATCTAACTTTAAAA
1 ACCAAAAGTAATGAAACTTAAAATTTTGAAAAACCCTT-TAACTAGAGGCAATATAACTTTAAAA
*
12615674 TTTAACCTCCTCTC
65 TTTAAACTCCTCTC
*
12615688 ACCAAAAGTAATGAAACTT-AAATTTTGAAAAACGCCTTTAACCAGAGGCAATATAACTTTAAAA
1 ACCAAAAGTAATGAAACTTAAAATTTTGAAAAAC-CCTTTAACTAGAGGCAATATAACTTTAAAA
12615752 --TAAACTCCTCTC
65 TTTAAACTCCTCTC
* * * * * * * *
12615764 ACC-ATAGATAATGAAACTTCAAATCTTGAAAAACTCCTCTAACTAAAGACAATGTCACTTTAAA
1 ACCAAAAG-TAATGAAACTTAAAATTTTGAAAAAC-CCTTTAACTAGAGGCAATATAACTTTAAA
12615828 ATT
64 ATT
12615831 CGAAAACCCT
Statistics
Matches: 121, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
75 3 0.02
76 25 0.21
77 37 0.31
78 36 0.30
79 20 0.17
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.28
Consensus pattern (78 bp):
ACCAAAAGTAATGAAACTTAAAATTTTGAAAAACCCTTTAACTAGAGGCAATATAACTTTAAAAT
TTAAACTCCTCTC
Found at i:12621453 original size:14 final size:14
Alignment explanation
Indices: 12621434--12621460 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12621424 GCTTTTTTCT
12621434 TGTTTGTTAATTGA
1 TGTTTGTTAATTGA
12621448 TGTTTGTTAATTG
1 TGTTTGTTAATTG
12621461 CTTTTTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.59
Consensus pattern (14 bp):
TGTTTGTTAATTGA
Found at i:12622138 original size:14 final size:13
Alignment explanation
Indices: 12622119--12622153 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
12622109 GTGAGATTGA
12622119 AAAAAAACATTTGT
1 AAAAAAA-ATTTGT
*
12622133 AAAAAAAATTTTT
1 AAAAAAAATTTGT
12622146 AAAAAAAA
1 AAAAAAAA
12622154 AATTCATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (13 bp):
AAAAAAAATTTGT
Found at i:12622348 original size:27 final size:27
Alignment explanation
Indices: 12622318--12622380 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
12622308 TTTTTTTTAT
12622318 TTTTTTGA-AAAAACTTATTTGAAAAGA
1 TTTTTT-ATAAAAACTTATTTGAAAAGA
* *
12622345 TTTTTTATTACAACTTATTTGAAAAGA
1 TTTTTTATAAAAACTTATTTGAAAAGA
12622372 TTTATTTAT
1 TTT-TTTAT
12622381 TTATTTACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 1 0.03
27 26 0.81
28 5 0.16
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (27 bp):
TTTTTTATAAAAACTTATTTGAAAAGA
Found at i:12622565 original size:18 final size:18
Alignment explanation
Indices: 12622528--12622578 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
12622518 CACAAAAAAT
*
12622528 TGAAAAACAAATAAATAAA
1 TGAAAATCAAA-AAATAAA
12622547 T-AAAATCAAAAAATAAAA
1 TGAAAATCAAAAAAT-AAA
*
12622565 TGAAAATGAAAAAA
1 TGAAAATCAAAAAA
12622579 AGAAAATCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 4 0.14
18 12 0.43
19 12 0.43
ACGTcount: A:0.75, C:0.04, G:0.06, T:0.16
Consensus pattern (18 bp):
TGAAAATCAAAAAATAAA
Found at i:12623584 original size:16 final size:16
Alignment explanation
Indices: 12623551--12623594 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
12623541 TATACTATAG
* *
12623551 TAATAATAACAAACAA
1 TAATAATAATAAAAAA
*
12623567 TAATACTAATAAAAAA
1 TAATAATAATAAAAAA
*
12623583 TAATAGTAATAA
1 TAATAATAATAA
12623595 TAATGATGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (16 bp):
TAATAATAATAAAAAA
Found at i:12623595 original size:19 final size:19
Alignment explanation
Indices: 12623547--12623597 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
12623537 ACACTATACT
*
12623547 ATAGTAATAATAACAAACA
1 ATAGTAATAATAAAAAACA
* * *
12623566 ATAATACTAATAAAAAATA
1 ATAGTAATAATAAAAAACA
12623585 ATAGTAATAATAA
1 ATAGTAATAATAA
12623598 TGATGAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (19 bp):
ATAGTAATAATAAAAAACA
Found at i:12624294 original size:29 final size:29
Alignment explanation
Indices: 12624255--12624355 Score: 116
Period size: 29 Copynumber: 3.4 Consensus size: 29
12624245 GATCGAAGAT
12624255 AAATGACCAGGATAAAATCACAAGTCTAA
1 AAATGACCAGGATAAAATCACAAGTCTAA
* * * *
12624284 AAATGACCAGGACT-GAGTCA-AGGTCAAAAA
1 AAATGACCAGGA-TAAAATCACAAGTC--TAA
12624314 TAAATGACCAGGATAAAATCACAAGTCTAA
1 -AAATGACCAGGATAAAATCACAAGTCTAA
12624344 AAATGACCAGGA
1 AAATGACCAGGA
12624356 CTGAGTCAAG
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
28 4 0.07
29 28 0.48
30 6 0.10
31 16 0.28
32 4 0.07
ACGTcount: A:0.50, C:0.17, G:0.18, T:0.16
Consensus pattern (29 bp):
AAATGACCAGGATAAAATCACAAGTCTAA
Found at i:12624305 original size:27 final size:28
Alignment explanation
Indices: 12624278--12624374 Score: 99
Period size: 29 Copynumber: 3.4 Consensus size: 28
12624268 AAAATCACAA
12624278 GTCTAAAAATGACCAGGACTGAGTCAAG
1 GTCTAAAAATGACCAGGACTGAGTCAAG
* * * *
12624306 GTCAAAAATAAATGACCAGGA-TAAAATCACAA
1 GTC--TAA-AAATGACCAGGACT-GAGTCA-AG
12624338 GTCTAAAAATGACCAGGACTGAGTCAAG
1 GTCTAAAAATGACCAGGACTGAGTCAAG
12624366 GTC-AAAAAT
1 GTCTAAAAAT
12624375 AAATGACCAG
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
27 6 0.11
28 7 0.13
29 16 0.29
30 6 0.11
31 16 0.29
32 4 0.07
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (28 bp):
GTCTAAAAATGACCAGGACTGAGTCAAG
Found at i:12624321 original size:60 final size:60
Alignment explanation
Indices: 12624253--12624387 Score: 270
Period size: 60 Copynumber: 2.2 Consensus size: 60
12624243 GAGATCGAAG
12624253 ATAAATGACCAGGATAAAATCACAAGTCTAAAAATGACCAGGACTGAGTCAAGGTCAAAA
1 ATAAATGACCAGGATAAAATCACAAGTCTAAAAATGACCAGGACTGAGTCAAGGTCAAAA
12624313 ATAAATGACCAGGATAAAATCACAAGTCTAAAAATGACCAGGACTGAGTCAAGGTCAAAA
1 ATAAATGACCAGGATAAAATCACAAGTCTAAAAATGACCAGGACTGAGTCAAGGTCAAAA
12624373 ATAAATGACCAGGAT
1 ATAAATGACCAGGAT
12624388 GAAACCACTA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 75 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (60 bp):
ATAAATGACCAGGATAAAATCACAAGTCTAAAAATGACCAGGACTGAGTCAAGGTCAAAA
Found at i:12624322 original size:31 final size:31
Alignment explanation
Indices: 12624284--12624386 Score: 124
Period size: 31 Copynumber: 3.4 Consensus size: 31
12624274 ACAAGTCTAA
12624284 AAATGACCAGGACTGAGTCAAGGTCAAAAAT
1 AAATGACCAGGACTGAGTCAAGGTCAAAAAT
* * * *
12624315 AAATGACCAGGA-TAAAATCACAAGTC--TAA-
1 AAATGACCAGGACT-GAGTCA-AGGTCAAAAAT
12624344 AAATGACCAGGACTGAGTCAAGGTCAAAAAT
1 AAATGACCAGGACTGAGTCAAGGTCAAAAAT
12624375 AAATGACCAGGA
1 AAATGACCAGGA
12624387 TGAAACCACT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
28 4 0.07
29 16 0.28
30 6 0.10
31 28 0.48
32 4 0.07
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.16
Consensus pattern (31 bp):
AAATGACCAGGACTGAGTCAAGGTCAAAAAT
Found at i:12625690 original size:14 final size:15
Alignment explanation
Indices: 12625662--12625694 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
12625652 CAACAATTTC
12625662 TCTTCATTTTCTTTT
1 TCTTCATTTTCTTTT
*
12625677 TCTTC-TTTTTTTTT
1 TCTTCATTTTCTTTT
12625691 TCTT
1 TCTT
12625695 TTCGTCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (15 bp):
TCTTCATTTTCTTTT
Found at i:12625696 original size:19 final size:21
Alignment explanation
Indices: 12625668--12625707 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
12625658 TTTCTCTTCA
*
12625668 TTTTCTTTTTCTTC-TTTTTT
1 TTTTCTTTTTCGTCATTTTTT
12625688 TTTTC-TTTTCGTCATTTTTT
1 TTTTCTTTTTCGTCATTTTTT
12625708 ACAAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (21 bp):
TTTTCTTTTTCGTCATTTTTT
Found at i:12629952 original size:11 final size:11
Alignment explanation
Indices: 12629936--12629968 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
12629926 CTTGAAAATA
*
12629936 TTTCTTTTGTT
1 TTTCTTTTATT
12629947 TTTCTTTTATT
1 TTTCTTTTATT
12629958 TTT-TTTTATT
1 TTTCTTTTATT
12629968 T
1 T
12629969 GTTTTTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.06, C:0.06, G:0.03, T:0.85
Consensus pattern (11 bp):
TTTCTTTTATT
Found at i:12630002 original size:28 final size:28
Alignment explanation
Indices: 12629970--12630036 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 28
12629960 TTTTTATTTG
12629970 TTTTTTTGA-AAAAACTTATTTGAAAAGA
1 TTTTTTT-ATAAAAACTTATTTGAAAAGA
* *
12629998 TTTTTTTATTACAACTTATTTGAAAAGA
1 TTTTTTTATAAAAACTTATTTGAAAAGA
12630026 CTTTTTCTTAT
1 -TTTTT-TTAT
12630037 TTATTTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 1 0.03
28 24 0.71
29 5 0.15
30 4 0.12
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (28 bp):
TTTTTTTATAAAAACTTATTTGAAAAGA
Found at i:12630046 original size:28 final size:27
Alignment explanation
Indices: 12629981--12630037 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 27
12629971 TTTTTTGAAA
12629981 AAACTTATTTGAAAAGATTTTTTTATT
1 AAACTTATTTGAAAAGATTTTTTTATT
12630008 ACAACTTATTTGAAAAGACTTTTTCTTATT
1 A-AACTTATTTGAAAAGA-TTTTT-TTATT
12630038 TATTTATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 1 0.04
28 16 0.59
29 5 0.19
30 5 0.19
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (27 bp):
AAACTTATTTGAAAAGATTTTTTTATT
Found at i:12630223 original size:13 final size:12
Alignment explanation
Indices: 12630166--12630251 Score: 56
Period size: 13 Copynumber: 7.2 Consensus size: 12
12630156 ATAAACCAGT
* *
12630166 AAAATAACACAA
1 AAAATAAAATAA
12630178 AAAACTAAAA-AA
1 AAAA-TAAAATAA
12630190 AAAAT--AATAA
1 AAAATAAAATAA
*
12630200 ATAAATCAAATCAA
1 A-AAATAAAAT-AA
12630214 AAAATAAAAT-A
1 AAAATAAAATAA
*
12630225 AAAATGAAAATGA
1 AAAAT-AAAATAA
*
12630238 AAAA-AAAAGAA
1 AAAATAAAATAA
12630249 AAA
1 AAA
12630252 CTTACAATCA
Statistics
Matches: 62, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
9 2 0.03
10 3 0.05
11 19 0.31
12 15 0.24
13 20 0.32
14 3 0.05
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.13
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:12634135 original size:31 final size:32
Alignment explanation
Indices: 12634097--12634160 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
12634087 TAGTTAACAG
* *
12634097 AGCCTAAAGCGAAGTATCATTCAATAA-TAAA
1 AGCCTAAAACAAAGTATCATTCAATAACTAAA
* *
12634128 AGCCTAAAATAAAGTATGATTCAATAACTAAA
1 AGCCTAAAACAAAGTATCATTCAATAACTAAA
12634160 A
1 A
12634161 TTTTTATAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 23 0.82
32 5 0.18
ACGTcount: A:0.52, C:0.14, G:0.11, T:0.23
Consensus pattern (32 bp):
AGCCTAAAACAAAGTATCATTCAATAACTAAA
Found at i:12635002 original size:22 final size:22
Alignment explanation
Indices: 12634977--12635020 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
12634967 TAAAAGAGTC
12634977 ATCCATTGCTTTAAATTTTTCT
1 ATCCATTGCTTTAAATTTTTCT
12634999 ATCCATTGCTTTAAATTTTTCT
1 ATCCATTGCTTTAAATTTTTCT
12635021 TCAATTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.55
Consensus pattern (22 bp):
ATCCATTGCTTTAAATTTTTCT
Found at i:12636792 original size:23 final size:21
Alignment explanation
Indices: 12636746--12636792 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
12636736 CTTCGGATTT
12636746 ATTAAATAATTTATGAAAAAA
1 ATTAAATAATTTATGAAAAAA
* *
12636767 ATTAATTAAGTTTATCGAAAATA
1 ATTAAATAA-TTTAT-GAAAAAA
12636790 ATT
1 ATT
12636793 GAAGTCTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.36
22 5 0.23
23 9 0.41
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.38
Consensus pattern (21 bp):
ATTAAATAATTTATGAAAAAA
Found at i:12637496 original size:23 final size:24
Alignment explanation
Indices: 12637466--12637515 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
12637456 ATAAATGCAT
* *
12637466 AAATAAA-TCAATAAAAAAGAATA
1 AAATAAATTCAAGAAAAAAGAAAA
*
12637489 AAATAAATTTAAGAAAAAAGAAAA
1 AAATAAATTCAAGAAAAAAGAAAA
12637513 AAA
1 AAA
12637516 AGTTAGACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (24 bp):
AAATAAATTCAAGAAAAAAGAAAA
Found at i:12642535 original size:25 final size:26
Alignment explanation
Indices: 12642476--12642536 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 26
12642466 CTAACAGAGC
12642476 CTAAAACAAAGTATCATTCAATAATAAAA
1 CTAAAACAAAGTATCATTCAATAAT---A
12642505 CCTAAAACAAAGTATCATTCAATAAT-
1 -CTAAAACAAAGTATCATTCAATAATA
12642531 CTAAAA
1 CTAAAA
12642537 TTTTTATAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
25 6 0.19
30 25 0.81
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (26 bp):
CTAAAACAAAGTATCATTCAATAATA
Found at i:12645241 original size:82 final size:82
Alignment explanation
Indices: 12645131--12645281 Score: 205
Period size: 82 Copynumber: 1.8 Consensus size: 82
12645121 TAAGTTTAAT
* *
12645131 TTAGCTGAAAATTTGTCTGGTTAGATAACTTATATTTACGCTGTACAATAATCTCTATTCTATCT
1 TTAGCTGAAAATTTGTCTGGTTAAATAACTTATATTTACGCTATACAATAATCTCTATTCTATCT
12645196 TTCTCATTGATTATATA
66 TTCTCATTGATTATATA
* * * * * * *
12645213 TTAGCT-AAACATTTGTGTGTTTAAATAACTTGTATTTACTCTATACCATAATCTCTATTGTGTC
1 TTAGCTGAAA-ATTTGTCTGGTTAAATAACTTATATTTACGCTATACAATAATCTCTATTCTATC
12645277 TTTCT
65 TTTCT
12645282 TTTTTATTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
81 3 0.05
82 56 0.95
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.46
Consensus pattern (82 bp):
TTAGCTGAAAATTTGTCTGGTTAAATAACTTATATTTACGCTATACAATAATCTCTATTCTATCT
TTCTCATTGATTATATA
Found at i:12648374 original size:26 final size:26
Alignment explanation
Indices: 12648338--12648392 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
12648328 TGCTAAAAAG
12648338 AAACAAATCTGTTTCTCCTTATATAT
1 AAACAAATCTGTTTCTCCTTATATAT
* *
12648364 AAACAACTCTGTTTCTCTTTATATAT
1 AAACAAATCTGTTTCTCCTTATATAT
12648390 AAA
1 AAA
12648393 TAAAATCCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.42
Consensus pattern (26 bp):
AAACAAATCTGTTTCTCCTTATATAT
Found at i:12649662 original size:12 final size:12
Alignment explanation
Indices: 12649628--12649664 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
12649618 AAAATTTTAA
12649628 TTCATATAATTT
1 TTCATATAATTT
*
12649640 TTTATAT-ATTT
1 TTCATATAATTT
12649651 TTCATATAATTT
1 TTCATATAATTT
12649663 TT
1 TT
12649665 ATGTCATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (12 bp):
TTCATATAATTT
Found at i:12651295 original size:20 final size:20
Alignment explanation
Indices: 12651272--12651310 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12651262 TGAATAATAA
12651272 TTTTGAAGTATGAAAAAAAG
1 TTTTGAAGTATGAAAAAAAG
* * *
12651292 TTTTTAAGTGTTAAAAAAA
1 TTTTGAAGTATGAAAAAAA
12651311 ATAAAAGATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (20 bp):
TTTTGAAGTATGAAAAAAAG
Found at i:12651463 original size:2 final size:2
Alignment explanation
Indices: 12651415--12651448 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
12651405 CAAATATTTC
*
12651415 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12651449 CTAACATGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:12654011 original size:188 final size:189
Alignment explanation
Indices: 12653768--12654113 Score: 523
Period size: 188 Copynumber: 1.8 Consensus size: 189
12653758 ACCTTTGTTC
* * ** * * *
12653768 TTATGTTATACTTGATGTTTACTAATGTTCATAGTAAAACTGTGTTGAGCTAAACTCAATTATAT
1 TTATGCTATACTTGATGTTTACTAATATTCATAACAAAACTATATTGAACTAAACTCAATTATAT
* * *
12653833 TTCAAGTAGACAATTTTGTTAAAACT-TTTATTTTAAATATTTATTTTTTATCTTTATAAATGTT
66 TTCAAGTAGACAATTTTATTAAAACTGTTTATTATAAATATTTATTCTTTATCTTTATAAATGTT
* *
12653897 ATGGAACTTAAAAGAAAAATAAAAACTACAACAATATGCGTCTGAAAAAAATTTTTTTG
131 ATCGAACTCAAAAGAAAAATAAAAACTACAACAATATGCGTCTGAAAAAAATTTTTTTG
* * *
12653956 TTATGCTATACTTGTTGTTTATTGATATTCATAACAAAACTATATTGAACTAAACTCAATTATAT
1 TTATGCTATACTTGATGTTTACTAATATTCATAACAAAACTATATTGAACTAAACTCAATTATAT
* * *
12654021 TTCAAGTGGACAATTTTATTAATATTGTTTATTATAAATATTTATTCTTTATCTTTATAAATGTT
66 TTCAAGTAGACAATTTTATTAAAACTGTTTATTATAAATATTTATTCTTTATCTTTATAAATGTT
12654086 ATCGAACTCAAAAGAAAAATAAAAACTA
131 ATCGAACTCAAAAGAAAAATAAAAACTA
12654114 TAGAAACGCA
Statistics
Matches: 139, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
188 77 0.55
189 62 0.45
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (189 bp):
TTATGCTATACTTGATGTTTACTAATATTCATAACAAAACTATATTGAACTAAACTCAATTATAT
TTCAAGTAGACAATTTTATTAAAACTGTTTATTATAAATATTTATTCTTTATCTTTATAAATGTT
ATCGAACTCAAAAGAAAAATAAAAACTACAACAATATGCGTCTGAAAAAAATTTTTTTG
Found at i:12661581 original size:123 final size:123
Alignment explanation
Indices: 12661362--12661593 Score: 455
Period size: 123 Copynumber: 1.9 Consensus size: 123
12661352 GAGTACGTGA
*
12661362 ATGGGTGGCTGTGCCTGCCCAATACAATAGTACCGCACCGGCAGTGACAGTCCGCACTCATTTTC
1 ATGGGTGGCTGTGCCTGCCCAATACAATAGCACCGCACCGGCAGTGACAGTCCGCACTCATTTTC
12661427 GTCGGTGCTAACTCCAACTACATTTTTCTTCTCTCTTGTGCTGTTCACACACACACCT
66 GTCGGTGCTAACTCCAACTACATTTTTCTTCTCTCTTGTGCTGTTCACACACACACCT
12661485 ATGGGTGGCTGTGCCTGCCCAATACAATAGCACCGCACCGGCAGTGACAGTCCGCACTCATTTTC
1 ATGGGTGGCTGTGCCTGCCCAATACAATAGCACCGCACCGGCAGTGACAGTCCGCACTCATTTTC
12661550 GTCGGTGCTAACTCCAACTACATTTTTCTTCTCTCTTGTGCTGT
66 GTCGGTGCTAACTCCAACTACATTTTTCTTCTCTCTTGTGCTGT
12661594 GCTGTGATGC
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 108 1.00
ACGTcount: A:0.19, C:0.31, G:0.20, T:0.30
Consensus pattern (123 bp):
ATGGGTGGCTGTGCCTGCCCAATACAATAGCACCGCACCGGCAGTGACAGTCCGCACTCATTTTC
GTCGGTGCTAACTCCAACTACATTTTTCTTCTCTCTTGTGCTGTTCACACACACACCT
Found at i:12662564 original size:13 final size:13
Alignment explanation
Indices: 12662546--12662580 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
12662536 CATTTATTAT
12662546 AAAATAAGTGTAC
1 AAAATAAGTGTAC
12662559 AAAATAAGTGTAC
1 AAAATAAGTGTAC
12662572 AAAATAAGT
1 AAAATAAGT
12662581 AAATATTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.57, C:0.06, G:0.14, T:0.23
Consensus pattern (13 bp):
AAAATAAGTGTAC
Found at i:12665068 original size:17 final size:18
Alignment explanation
Indices: 12665034--12665068 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
12665024 TTTATTAAAT
12665034 TTAATATTTTAATCATTTC
1 TTAATATTTT-ATCATTTC
12665053 TTAATATTTT-TCATTT
1 TTAATATTTTATCATTT
12665069 TAAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (18 bp):
TTAATATTTTATCATTTC
Found at i:12665548 original size:15 final size:15
Alignment explanation
Indices: 12665511--12665564 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 15
12665501 TAAATATTAC
*
12665511 TTTTAAAATATAACTAT
1 TTTTAAAA-ATAA-TAA
12665528 TTTTAAAAATAATAA
1 TTTTAAAAATAATAA
*
12665543 TTTTAATAATAAATAA
1 TTTTAAAAAT-AATAA
12665559 TTTTAA
1 TTTTAA
12665565 TATTTTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
15 11 0.32
16 15 0.44
17 8 0.24
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
TTTTAAAAATAATAA
Found at i:12665570 original size:24 final size:24
Alignment explanation
Indices: 12665537--12665599 Score: 90
Period size: 24 Copynumber: 2.5 Consensus size: 24
12665527 TTTTTAAAAA
12665537 TAATAATTTTAATAATAAATAATTT
1 TAAT-ATTTTAATAATAAATAATTT
*
12665562 TAATATTTTAATAATAAATGATTT
1 TAATATTTTAATAATAAATAATTT
*
12665586 TCAATATTTCAATA
1 T-AATATTTTAATA
12665600 GTTAAGTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 20 0.57
25 15 0.43
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (24 bp):
TAATATTTTAATAATAAATAATTT
Found at i:12665664 original size:22 final size:22
Alignment explanation
Indices: 12665639--12665680 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12665629 TTTTTAAAAA
12665639 AATAAAATAACAAAAATATTTT
1 AATAAAATAACAAAAATATTTT
** *
12665661 AATAATTTAATAAAAATATT
1 AATAAAATAACAAAAATATT
12665681 GAAAAGCTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AATAAAATAACAAAAATATTTT
Found at i:12665964 original size:3 final size:3
Alignment explanation
Indices: 12665958--12665997 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
12665948 AATAAGTCTC
12665958 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
12665998 TAAACTATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:12666687 original size:6 final size:7
Alignment explanation
Indices: 12666668--12666694 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
12666658 GATTAAAAGT
12666668 ATAAAAA
1 ATAAAAA
12666675 ATAAAAA
1 ATAAAAA
12666682 ATAAAAA
1 ATAAAAA
12666689 ATAAAA
1 ATAAAA
12666695 TTTATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
ATAAAAA
Found at i:12668810 original size:2 final size:2
Alignment explanation
Indices: 12668803--12668862 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
12668793 AAAACACTAC
12668803 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12668845 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
12668863 CACACACATA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12669334 original size:17 final size:18
Alignment explanation
Indices: 12669312--12669348 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
12669302 TTATGCAGTG
12669312 TAAAATTTTTAAA-AATT
1 TAAAATTTTTAAATAATT
12669329 TAAAATTTTTAAATAATT
1 TAAAATTTTTAAATAATT
12669347 TA
1 TA
12669349 TTTCAGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAAATTTTTAAATAATT
Found at i:12669652 original size:13 final size:14
Alignment explanation
Indices: 12669636--12669669 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
12669626 CTTTTGTTAG
12669636 TATTTTTTATT-TT
1 TATTTTTTATTGTT
*
12669649 TATTTTCTATTGTT
1 TATTTTTTATTGTT
12669663 TATTTTT
1 TATTTTT
12669670 CAAAAAACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (14 bp):
TATTTTTTATTGTT
Found at i:12675410 original size:2 final size:2
Alignment explanation
Indices: 12675403--12675442 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
12675393 CAGAGGCAGC
12675403 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
12675443 ATATATATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:12675447 original size:2 final size:2
Alignment explanation
Indices: 12675442--12675470 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12675432 TCTCTCTCTC
12675442 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12675471 TGTTAATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12678376 original size:23 final size:23
Alignment explanation
Indices: 12678331--12678376 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
12678321 ACATATGACT
**
12678331 AAAATTACTTGAAAAGTAGATTG
1 AAAATTACTTGAAAAACAGATTG
*
12678354 AAAATTACTTGAAAAACATATTG
1 AAAATTACTTGAAAAACAGATTG
12678377 TGAATGCGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (23 bp):
AAAATTACTTGAAAAACAGATTG
Found at i:12684365 original size:22 final size:23
Alignment explanation
Indices: 12684331--12684386 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
12684321 AAAATAATAT
*
12684331 ATTTTAT-TAAATTTAATTTTTA
1 ATTTTATATAATTTTAATTTTTA
* *
12684353 CTTTTATATAATTTTTATTTTTA
1 ATTTTATATAATTTTAATTTTTA
12684376 ATTTATATATA
1 ATTT-TATATA
12684387 TATATATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 6 0.21
23 16 0.57
24 6 0.21
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTTTATATAATTTTAATTTTTA
Found at i:12684639 original size:12 final size:12
Alignment explanation
Indices: 12684619--12684669 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
12684609 ACTATAATTT
*
12684619 AATATATTAATA
1 AATAAATTAATA
*
12684631 AATAAATTAAGA
1 AATAAATTAATA
12684643 AATAATATT-AT-
1 AATAA-ATTAATA
*
12684654 AATATATTAATA
1 AATAAATTAATA
12684666 AATA
1 AATA
12684670 TTATTATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
10 3 0.09
11 6 0.19
12 20 0.62
13 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (12 bp):
AATAAATTAATA
Found at i:12684660 original size:35 final size:39
Alignment explanation
Indices: 12684618--12684696 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 39
12684608 GACTATAATT
12684618 TAATATATTAATAAATA-AATTA-AGA-AAT-AATATTA
1 TAATATATTAATAAATATAATTATAGATAATAAATATTA
* *
12684653 TAATATATTAATAAATATTATTATATATAATAAATATTA
1 TAATATATTAATAAATATAATTATAGATAATAAATATTA
12684692 TAATA
1 TAATA
12684697 ATATATTAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
35 17 0.45
36 4 0.11
37 2 0.05
38 3 0.08
39 12 0.32
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (39 bp):
TAATATATTAATAAATATAATTATAGATAATAAATATTA
Found at i:12684662 original size:23 final size:23
Alignment explanation
Indices: 12684622--12684681 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
12684612 ATAATTTAAT
*
12684622 ATATTAATAAATAAATTAAGAAATA
1 ATATT-AT-AATATATTAAGAAATA
*
12684647 ATATTATAATATATTAATAAATA
1 ATATTATAATATATTAAGAAATA
*
12684670 TTATTAT-ATATA
1 ATATTATAATATA
12684682 ATAAATATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.16
23 20 0.62
24 2 0.06
25 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
ATATTATAATATATTAAGAAATA
Found at i:12684665 original size:19 final size:19
Alignment explanation
Indices: 12684646--12684701 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 19
12684636 ATTAAGAAAT
12684646 AATATTATAATATATTAATA
1 AATATTATAATATA-TAATA
*
12684666 AATATTATTATATATAATA
1 AATATTATAATATATAATA
12684685 AATATTATAATAATATA
1 AATATTATAAT-ATATA
12684702 TTAGTAACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATATTATAATATATAATA
Found at i:12684697 original size:15 final size:14
Alignment explanation
Indices: 12684652--12684726 Score: 66
Period size: 15 Copynumber: 5.3 Consensus size: 14
12684642 AAATAATATT
*
12684652 ATAATATATTAATAA
1 ATAATATATTAGT-A
*
12684667 ATATTATTATATA-TA
1 ATAATA-TAT-TAGTA
12684682 ATAA-ATATTA-TA
1 ATAATATATTAGTA
12684694 ATAATATATTAGTA
1 ATAATATATTAGTA
*
12684708 ACTAATATATTATTA
1 A-TAATATATTAGTA
12684723 ATAA
1 ATAA
12684727 ATAAATAAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
12 8 0.15
13 9 0.17
14 7 0.13
15 22 0.42
16 4 0.08
17 2 0.04
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (14 bp):
ATAATATATTAGTA
Found at i:12684700 original size:42 final size:42
Alignment explanation
Indices: 12684580--12684747 Score: 124
Period size: 42 Copynumber: 4.0 Consensus size: 42
12684570 CACACTATTA
*
12684580 ATAAATAATATATTATTAATAAA-AAATAGACTATAATTTAATATAT
1 ATAACTAATATATTATTAATAAATAAAT--A-TATAA--TAATATAT
* *
12684626 -TAA-TAA-ATA-AATTAAGAAAT-AATAT-T-ATAATATAT
1 ATAACTAATATATTATTAATAAATAAATATATAATAATATAT
12684661 -TAA-TAA-ATATTATTATATATAATAAATATTATAATAATATATT
1 ATAACTAATATATTATTA-ATA-AATAAATA-TATAATAATATA-T
* *
12684704 AGTAACTAATATATTATTAATAAATAAATAAAGAATAATATAT
1 A-TAACTAATATATTATTAATAAATAAATATATAATAATATAT
12684747 A
1 A
12684748 GTTTTATTTT
Statistics
Matches: 103, Mismatches: 6, Indels: 29
0.75 0.04 0.21
Matches are distributed among these distances:
35 17 0.17
36 4 0.04
37 3 0.03
38 4 0.04
39 5 0.05
40 2 0.02
41 1 0.01
42 19 0.18
43 6 0.06
44 13 0.13
45 14 0.14
46 6 0.06
47 9 0.09
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.39
Consensus pattern (42 bp):
ATAACTAATATATTATTAATAAATAAATATATAATAATATAT
Found at i:12684791 original size:19 final size:18
Alignment explanation
Indices: 12684764--12684886 Score: 58
Period size: 19 Copynumber: 6.5 Consensus size: 18
12684754 TTTTAAGTAT
*
12684764 TTTTTATATTAACATAATA
1 TTTTAATATTAA-ATAATA
*
12684783 TTTTAATATTAAATATTA
1 TTTTAATATTAAATAATA
* *
12684801 TTATTAA-AATATAATTAT-
1 TT-TTAATATTA-AATAATA
12684819 TTTTGAATATT-AATAAT-
1 TTTT-AATATTAAATAATA
*
12684836 TTTAATAATAATTAATGTCAATATA
1 TTT--TAAT-ATTAA-AT--A-ATA
*
12684861 TTTTAATAATAAATAAT-
1 TTTTAATATTAAATAATA
12684878 TTTTAATAT
1 TTTTAATAT
12684887 ATTAATAGTT
Statistics
Matches: 80, Mismatches: 11, Indels: 28
0.67 0.09 0.24
Matches are distributed among these distances:
17 18 0.22
18 19 0.24
19 26 0.32
20 1 0.01
21 2 0.03
22 4 0.05
23 5 0.06
24 2 0.03
25 3 0.04
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
TTTTAATATTAAATAATA
Found at i:12684851 original size:16 final size:17
Alignment explanation
Indices: 12684811--12684851 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
12684801 TTATTAAAAT
*
12684811 ATAATTATTTTTGAATA
1 ATAATTAATTTTGAATA
*
12684828 TTAA-TAATTTT-AATA
1 ATAATTAATTTTGAATA
12684843 ATAATTAAT
1 ATAATTAAT
12684852 GTCAATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 7 0.35
16 10 0.50
17 3 0.15
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
ATAATTAATTTTGAATA
Found at i:12685183 original size:31 final size:30
Alignment explanation
Indices: 12685132--12685189 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
12685122 TATTACATTT
*
12685132 AAATAAATTTTAAAATTTTAATTTATATGC
1 AAATAAATTTTAAAATTTTAATATATATGC
*
12685162 AAATAAAATTCTTAATA-TTTAATATATA
1 AAAT-AAATT-TTAAAATTTTAATATATA
12685190 CCTAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.17
31 15 0.62
32 5 0.21
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (30 bp):
AAATAAATTTTAAAATTTTAATATATATGC
Found at i:12690570 original size:25 final size:23
Alignment explanation
Indices: 12690502--12690582 Score: 60
Period size: 25 Copynumber: 3.5 Consensus size: 23
12690492 TTTTGGCTAA
*
12690502 ATAATAGATTTTTATTTAATAAT
1 ATAATATATTTTTATTTAATAAT
* * *
12690525 ATAATTTTTATTTTAAATTAATTAGAT
1 ATAA--TATATTTTTATTTAA-TA-AT
*
12690552 TTAATATATTTTTATTT-A-AAT
1 ATAATATATTTTTATTTAATAAT
12690573 AT-ATATATTT
1 ATAATATATTT
12690583 ATAAAAAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
20 8 0.18
21 3 0.07
22 1 0.02
23 4 0.09
24 1 0.02
25 21 0.47
26 2 0.04
27 5 0.11
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
ATAATATATTTTTATTTAATAAT
Found at i:12690754 original size:18 final size:18
Alignment explanation
Indices: 12690717--12690751 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12690707 GAAATATTCG
*
12690717 TTAATTATGAGTATAAAA
1 TTAAATATGAGTATAAAA
12690735 TTAAATATGA-TATAAAA
1 TTAAATATGAGTATAAAA
12690752 ATTGAGAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (18 bp):
TTAAATATGAGTATAAAA
Found at i:12691701 original size:21 final size:21
Alignment explanation
Indices: 12691677--12691743 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
12691667 TTAAGATAAG
12691677 ACTAAAGGACGGTGAGTCATA
1 ACTAAAGGACGGTGAGTCATA
12691698 ACTAAAGGACGGTGAGTCATA
1 ACTAAAGGACGGTGAGTCATA
* ** *
12691719 ACTAAAGTACAATGACTCATA
1 ACTAAAGGACGGTGAGTCATA
12691740 ACTA
1 ACTA
12691744 TGGTACAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (21 bp):
ACTAAAGGACGGTGAGTCATA
Found at i:12693415 original size:18 final size:20
Alignment explanation
Indices: 12693372--12693415 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
12693362 TTAAATAATT
*
12693372 ATGTAAATATTTAATTCTAA
1 ATGTAAACATTTAATTCTAA
12693392 AT-TAAACATTTAA-TCT-A
1 ATGTAAACATTTAATTCTAA
12693409 ATGTAAA
1 ATGTAAA
12693416 AAGGTTGTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.14
18 7 0.32
19 10 0.45
20 2 0.09
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.41
Consensus pattern (20 bp):
ATGTAAACATTTAATTCTAA
Found at i:12693771 original size:27 final size:28
Alignment explanation
Indices: 12693735--12693794 Score: 97
Period size: 27 Copynumber: 2.2 Consensus size: 28
12693725 CTATTTGTAA
*
12693735 TAAT-AAACTTATATTAAATGTAATTTC
1 TAATAAAACTTATATTAAATGTAATATC
12693762 -AATAAAACTTATATTAAATGTAATATC
1 TAATAAAACTTATATTAAATGTAATATC
12693789 TAATAA
1 TAATAA
12693795 TTTTATTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 3 0.10
27 22 0.73
28 5 0.17
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (28 bp):
TAATAAAACTTATATTAAATGTAATATC
Found at i:12694527 original size:18 final size:19
Alignment explanation
Indices: 12694504--12694552 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
12694494 TCATTATCTT
12694504 ATTAAAAAAAAT-CTAAAA
1 ATTAAAAAAAATCCTAAAA
*
12694522 ATT-AAAAAAGTCCTAAAA
1 ATTAAAAAAAATCCTAAAA
12694540 ATTCAAAAGAAAA
1 ATT-AAAA-AAAA
12694553 ATTAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 7 0.28
18 12 0.48
20 3 0.12
21 3 0.12
ACGTcount: A:0.67, C:0.08, G:0.04, T:0.20
Consensus pattern (19 bp):
ATTAAAAAAAATCCTAAAA
Found at i:12694792 original size:25 final size:24
Alignment explanation
Indices: 12694763--12694840 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 24
12694753 ATTTGTTTTG
12694763 ATATTTTAATTTTTTTAAAAAAATA
1 ATATTTT-ATTTTTTTAAAAAAATA
* *
12694788 ATATTTCT-TTTAGTTTTTAAAAAATC
1 ATATTT-TATTT--TTTTAAAAAAATA
* *
12694814 AGATTTTGATTTTTTTAAAACAATA
1 ATATTTT-ATTTTTTTAAAAAAATA
12694839 AT
1 AT
12694841 TTTCAAATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
24 3 0.07
25 18 0.44
26 17 0.41
27 3 0.07
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (24 bp):
ATATTTTATTTTTTTAAAAAAATA
Found at i:12694842 original size:23 final size:22
Alignment explanation
Indices: 12694765--12694843 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 22
12694755 TTGTTTTGAT
12694765 ATTTTAATTTTTTTAAAAAAATA
1 ATTTTAATTTTTTT-AAAAAATA
**
12694788 ATATTTCTTTTAGTTTTTAAAAAATCA
1 AT-TTT-AATT--TTTTTAAAAAAT-A
*
12694815 GATTTTGATTTTTTTAAAACAATA
1 -ATTTTAATTTTTTTAAAA-AATA
12694839 ATTTT
1 ATTTT
12694844 CAAATTTTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
23 7 0.16
24 13 0.29
25 5 0.11
26 9 0.20
27 9 0.20
28 2 0.04
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (22 bp):
ATTTTAATTTTTTTAAAAAATA
Found at i:12695341 original size:23 final size:22
Alignment explanation
Indices: 12695313--12695366 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
12695303 GAAATATGAC
12695313 TTTTTAAAAAATTCAAGAAATA
1 TTTTTAAAAAATTCAAGAAATA
* **
12695335 TTATTTAAAAAATTGAATTAATA
1 TT-TTTAAAAAATTCAAGAAATA
12695358 TTTTTAAAA
1 TTTTTAAAA
12695367 TTAGGAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 9 0.32
23 19 0.68
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (22 bp):
TTTTTAAAAAATTCAAGAAATA
Found at i:12702187 original size:2 final size:2
Alignment explanation
Indices: 12702180--12702205 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12702170 TGAGCAGTAG
12702180 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
12702206 GCCCATGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12702438 original size:4 final size:4
Alignment explanation
Indices: 12702429--12702484 Score: 67
Period size: 4 Copynumber: 14.0 Consensus size: 4
12702419 AGAAAGCTTT
* * * *
12702429 TATA TATA TATA TATA TATA TATA TATA CATA CATA CATA CATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
*
12702477 CATA TATA
1 TATA TATA
12702485 CAGGTAGTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (4 bp):
TATA
Found at i:12703199 original size:16 final size:17
Alignment explanation
Indices: 12703161--12703199 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
12703151 CATTGCTGCT
12703161 AAAAGTTATTTTTATGTTC
1 AAAAGTTATTTTTA--TTC
12703180 AAAAGTTATTTTTA-TC
1 AAAAGTTATTTTTATTC
12703196 AAAA
1 AAAA
12703200 TGTAACGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
19 14 0.70
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (17 bp):
AAAAGTTATTTTTATTC
Found at i:12707810 original size:22 final size:22
Alignment explanation
Indices: 12707784--12707827 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
12707774 CTAAATCTTC
* *
12707784 CTTAATTCTAGGGATATAAATA
1 CTTAATTCTAGAGATACAAATA
12707806 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12707828 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:12711711 original size:22 final size:22
Alignment explanation
Indices: 12711683--12711726 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
12711673 CTAAATCTTC
* *
12711683 CTTAATTTTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12711705 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12711727 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:12712358 original size:20 final size:21
Alignment explanation
Indices: 12712319--12712358 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
12712309 AACTAATAAC
*
12712319 ATTATAGCAAAATAATATATT
1 ATTATAGCAAAATAACATATT
*
12712340 ATTA-AGCAAAATAGCATAT
1 ATTATAGCAAAATAACATAT
12712359 GTTGTAGACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (21 bp):
ATTATAGCAAAATAACATATT
Found at i:12713153 original size:24 final size:24
Alignment explanation
Indices: 12713085--12713153 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
12713075 TTAGTTTTTA
*
12713085 TTTAAT-TTTTATTAAAAATATAT
1 TTTAATATTTTAATAAAAATATAT
* *
12713108 TTTAAAATATTAGCATAAAAATAT-T
1 TTTAATATTTTA--ATAAAAATATAT
12713133 TTTAATATTTTAATAATAAAT
1 TTTAATATTTTAATAA-AAAT
12713154 TTTGAACAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
23 9 0.24
24 8 0.22
25 11 0.30
26 9 0.24
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (24 bp):
TTTAATATTTTAATAAAAATATAT
Found at i:12713589 original size:14 final size:14
Alignment explanation
Indices: 12713546--12713593 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
12713536 AAATATTAAA
*
12713546 TAATTTAAAATTTT
1 TAATCTAAAATTTT
*
12713560 TATTACATAAAATTTT
1 TAAT-C-TAAAATTTT
*
12713576 TAATCTAAACTTTT
1 TAATCTAAAATTTT
12713590 TAAT
1 TAAT
12713594 GATTAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 15 0.54
15 1 0.04
16 12 0.43
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATCTAAAATTTT
Found at i:12713994 original size:23 final size:24
Alignment explanation
Indices: 12713952--12713999 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
12713942 ACATAGCTAT
*
12713952 TAAAATATTAAAAATTATTTATTA
1 TAAAATATTAAAAATAATTTATTA
12713976 TAAAATATT-AAAATAATTTATTA
1 TAAAATATTAAAAATAATTTATTA
12713999 T
1 T
12714000 TAACATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TAAAATATTAAAAATAATTTATTA
Found at i:12717491 original size:2 final size:2
Alignment explanation
Indices: 12717484--12717525 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
12717474 GGTGAACCTT
12717484 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12717526 AGACATATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12717658 original size:18 final size:18
Alignment explanation
Indices: 12717635--12717677 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
12717625 TAATTTTTTT
12717635 AAAAAATAATTAAAA-AA-G
1 AAAAAA-AA-TAAAAGAAGG
12717653 AAAAAAAATAAAAGAAGG
1 AAAAAAAATAAAAGAAGG
12717671 AAAAAAA
1 AAAAAAA
12717678 TAGAACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.22
17 4 0.17
18 14 0.61
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (18 bp):
AAAAAAAATAAAAGAAGG
Found at i:12717674 original size:17 final size:16
Alignment explanation
Indices: 12717635--12717679 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
12717625 TAATTTTTTT
12717635 AAAAAATAATTAAAAAAG
1 AAAAAA-AA-TAAAAAAG
12717653 AAAAAAAATAAAAGAAG
1 AAAAAAAATAAAA-AAG
*
12717670 GAAAAAAATA
1 AAAAAAAATA
12717680 GAACATAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 5 0.20
17 14 0.56
18 6 0.24
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (16 bp):
AAAAAAAATAAAAAAG
Found at i:12719258 original size:2 final size:2
Alignment explanation
Indices: 12719251--12719278 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12719241 TTCCGACTGG
12719251 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12719279 GATCAAGCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12729962 original size:6 final size:6
Alignment explanation
Indices: 12729951--12729987 Score: 53
Period size: 5 Copynumber: 6.7 Consensus size: 6
12729941 TCCTTATTTT
12729951 TTTTAA TTTTAA TTTTAA -TTTAA -TTTAA -TTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
12729988 TCTTTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 15 0.50
6 15 0.50
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:12730062 original size:74 final size:72
Alignment explanation
Indices: 12730005--12730146 Score: 180
Period size: 71 Copynumber: 2.0 Consensus size: 72
12729995 AATGATTTTC
12730005 CTAAAATAAAATTTTCAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTT-TTTAAA
1 CTAAAATAAAATTTT-AAAAAA-ATA-TTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTTAAA
12730069 AATAAAATTT
63 AATAAAATTT
* ** * * * *
12730079 CTAAAGTAAAATTTTTTAAAAGTATTTTGAGGGAAAGTTGAAAGTATCAATTTTTC-TTGAAAAT
1 CTAAAATAAAATTTTAAAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTTAAAAAT
12730143 AAAA
66 AAAA
12730147 ATGTTTTTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
71 40 0.67
72 2 0.03
73 4 0.07
74 14 0.23
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (72 bp):
CTAAAATAAAATTTTAAAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTTAAAAAT
AAAATTT
Found at i:12730194 original size:134 final size:137
Alignment explanation
Indices: 12730016--12730332 Score: 355
Period size: 134 Copynumber: 2.4 Consensus size: 137
12730006 TAAAATAAAA
* * *
12730016 TTTTCAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAAATTTCT
1 TTTTCAAAAAATATATTTTTAAGAAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAAATTTCT
* *** ** *
12730081 AAAGT-AAAATT-T-TTTAAAAGTATTTTGAGGGAAAGTTGAAAGTATCAATTTT-TCTTGAAAA
66 AAACTAAAAATTATCAAGAAAAGTATTTTGAGAAAAAGTTGAAAGTATCAGTTTTCT-TTGAAAA
12730142 TAAAAATG
130 TAAAAATG
* * * *
12730150 TTTTTAAAAAATATATTTTT-AGAAAAAAGTTGAAAATATTAATTTTTCTTAAAAATATAATTTT
1 TTTTCAAAAAATATATTTTTAAG-AAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAAATTTC
12730214 TAAACTAAAAATTATCAAGAAAAGTATTTTGAGAAAAAGTTGAAAGTATCAGTTTTCTTTG-AAA
65 TAAACTAAAAATTATCAAGAAAAGTATTTTGAGAAAAAGTTGAAAGTATCAGTTTTCTTTGAAAA
*
12730278 TTAAAAT-
130 TAAAAATG
*** * * *
12730285 TTCAAAAAAAAAATATTTTGAA-AAAAAGTT-ACAAGTATCAATTTTTCT
1 TTTTCAAAAAATATATTTTTAAGAAAAAGTTGA-AAATATCAATTTTTCT
12730333 CGAAGTTAAA
Statistics
Matches: 154, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
133 3 0.02
134 81 0.53
135 21 0.14
136 11 0.07
137 37 0.24
138 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (137 bp):
TTTTCAAAAAATATATTTTTAAGAAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAAATTTCT
AAACTAAAAATTATCAAGAAAAGTATTTTGAGAAAAAGTTGAAAGTATCAGTTTTCTTTGAAAAT
AAAAATG
Found at i:12730302 original size:60 final size:59
Alignment explanation
Indices: 12730233--12730388 Score: 192
Period size: 60 Copynumber: 2.6 Consensus size: 59
12730223 AATTATCAAG
* * *
12730233 AAAAGTATTTTGAGAAAAAGTTGAAAGTATCAGTTTTCT-TTGAAATTAAAATTTCAAAAA
1 AAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTCTCTCGAAATTAAAA-TT-AAAAA
* *
12730293 AAAAATATTTTGAAAAAAAGTT-ACAAGTATCAATTTT-TCTCGAAGTTAAAATTAAAAA
1 AAAAATATTTTGAGAAAAAGTTGA-AAGTATCAATTTTCTCTCGAAATTAAAATTAAAAA
* * *
12730351 AAATATATTTTAAGGAAAAGTTGAAAGTATCAATTTTC
1 AAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTC
12730389 CTTTTATAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
58 36 0.43
59 5 0.06
60 42 0.51
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.35
Consensus pattern (59 bp):
AAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTCTCTCGAAATTAAAATTAAAAA
Found at i:12730496 original size:9 final size:9
Alignment explanation
Indices: 12730479--12730508 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
12730469 TTTAATTTGA
12730479 TTTTATTTC
1 TTTTATTTC
*
12730488 TTTTGTTTC
1 TTTTATTTC
12730497 TTTTATTTC
1 TTTTATTTC
12730506 TTT
1 TTT
12730509 CCTTTTCTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.07, C:0.10, G:0.03, T:0.80
Consensus pattern (9 bp):
TTTTATTTC
Found at i:12735827 original size:46 final size:46
Alignment explanation
Indices: 12735740--12736187 Score: 279
Period size: 46 Copynumber: 9.8 Consensus size: 46
12735730 TTTAAATTTT
* * * *
12735740 AAATGAAAATTTTTGAGTCTT--ATCGAGAAACTTTAAGAAGTCCTA
1 AAATGAGAATCTTTGAGTCTTAAAT-GAGAATCTTTAAGAAGTCCTC
* *
12735785 AAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGAAGTCTTC
1 AAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAGTCCTC
* * * *
12735831 AAATAAGAAGCTTTGAGTCTTAAATCAGAATCTTTAAGAAATCCTC
1 AAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAGTCCTC
* * * *
12735877 AAATGAAAATCTTTAAGAAATCCTCAAATGAGAATCTTT--G-AGT-GTC
1 AAATGAGAATCTTT--G-AGT-CTTAAATGAGAATCTTTAAGAAGTCCTC
* * * * *
12735923 AAATGAGAATTTTTAAATTTTAAATGAGAAGT-TTT--G-AGT-CTT
1 AAATGAGAATCTTTGAGTCTTAAATGAGAA-TCTTTAAGAAGTCCTC
* * * *
12735965 AAATGTGAATCTTTAAGAAATCTTCAAATTAGAATCTTTAAGAAGTCTTC
1 AAATGAGAATCTTT--G-AGTCTT-AAATGAGAATCTTTAAGAAGTCCTC
* * *
12736015 AAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTC
1 AAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAGTCCTC
* * *
12736061 AAATTAGAATCTTTAAGAAGTCTTCAAATGAGAAGCTTT--G-AGT-CTT
1 AAATGAGAATCTTT--G-AGTCTT-AAATGAGAATCTTTAAGAAGTCCTC
* * *
12736107 AAATGAGAATCTTTAAGAAATCTTCAAATAAGAATCTTT--G-AGT-GTC
1 AAATGAGAATCTTT--G-AGTCTT-AAATGAGAATCTTTAAGAAGTCCTC
* *
12736153 AAATGAGAATTTTTGAAT-TTCAAATGAGAATCTTT
1 AAATGAGAATCTTTGAGTCTT-AAATGAGAATCTTT
12736188 GAGGTGTGAA
Statistics
Matches: 332, Mismatches: 51, Indels: 43
0.78 0.12 0.10
Matches are distributed among these distances:
42 46 0.14
43 7 0.02
44 1 0.00
45 24 0.07
46 185 0.56
47 11 0.03
48 6 0.02
49 11 0.03
50 41 0.12
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (46 bp):
AAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAGTCCTC
Found at i:12735895 original size:71 final size:71
Alignment explanation
Indices: 12735806--12735938 Score: 185
Period size: 71 Copynumber: 1.9 Consensus size: 71
12735796 TTTGAGTCTT
* * * *
12735806 AAATGAGAATCTTTAAGAAGTCTTCAAATAAGAAGCTTTGAGTCTTAAATCAGAATCTTTAAGAA
1 AAATGAAAATCTTTAAGAAATCCTCAAATAAGAAGCTTTGAGTCTCAAATCAGAATCTTTAAGAA
12735871 ATCCTC
66 ATCCTC
* * * * *
12735877 AAATGAAAATCTTTAAGAAATCCTCAAATGAGAATCTTTGAGTGTCAAATGAGAATTTTTAA
1 AAATGAAAATCTTTAAGAAATCCTCAAATAAGAAGCTTTGAGTCTCAAATCAGAATCTTTAA
12735939 ATTTTAAATG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 53 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (71 bp):
AAATGAAAATCTTTAAGAAATCCTCAAATAAGAAGCTTTGAGTCTCAAATCAGAATCTTTAAGAA
ATCCTC
Found at i:12735989 original size:159 final size:158
Alignment explanation
Indices: 12735785--12736074 Score: 406
Period size: 159 Copynumber: 1.8 Consensus size: 158
12735775 AGAAGTCCTA
*
12735785 AAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGAAGTCTTCAAATAAGAAGCTTT-G-AG
1 AAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTCAAATAAGAAGCTTTAGAAG
*
12735848 TCTT-AAATCAGAATCTTTAAGAAATCCTCAAATGAAAATCTTTAAGAAATCCTCAAATGAGAAT
66 TCTTCAAATCAGAAGCTTT--G-AAT-CTCAAATGAAAATCTTTAAGAAATCCTCAAATGAGAAT
12735912 CTTTGAGTGTCAAATGAGAATTTTTAAATTTT
127 CTTTGAGTGTCAAATGAGAATTTTTAAATTTT
* * * *
12735944 AAATGAGAAGTTTTGAGTCTTAAATGTGAATCTTTAAGAAATCTTCAAATTAGAATCTTTAAGAA
1 AAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTCAAATAAGAAGCTTT-AGAA
* * * * * *
12736009 GTCTTCAAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTCAAATTAGAATCTT
65 GTCTTCAAATCAGAAGCTTTGAATCTCAAATGAAAATCTTTAAGAAATCCTCAAATGAGAATCTT
12736074 T
130 T
12736075 AAGAAGTCTT
Statistics
Matches: 115, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
159 93 0.81
160 2 0.02
161 2 0.02
162 6 0.05
163 12 0.10
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (158 bp):
AAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTCAAATAAGAAGCTTTAGAAG
TCTTCAAATCAGAAGCTTTGAATCTCAAATGAAAATCTTTAAGAAATCCTCAAATGAGAATCTTT
GAGTGTCAAATGAGAATTTTTAAATTTT
Found at i:12736033 original size:71 final size:71
Alignment explanation
Indices: 12735944--12736187 Score: 381
Period size: 71 Copynumber: 3.5 Consensus size: 71
12735934 TTTAAATTTT
* *
12735944 AAATGAGAAGTTTTGAGTCTTAAATGTGAATCTTTAAGAAATCTTCAAATTAGAATCTTTAAGAA
1 AAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTCAAATTAGAATCTTTAAGAA
12736009 GTCTTC
66 GTCTTC
12736015 AAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTCAAATTAGAATCTTTAAGAA
1 AAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTCAAATTAGAATCTTTAAGAA
12736080 GTCTTC
66 GTCTTC
*
12736086 AAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTCAAATAAGAATCTTT--G-A
1 AAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTCAAATTAGAATCTTTAAGAA
*
12736148 GT-GTC
66 GTCTTC
** *
12736153 AAATGAGAATTTTTGAAT-TTCAAATGAGAATCTTT
1 AAATGAGAAGCTTTGAGTCTT-AAATGAGAATCTTT
12736188 GAGGTGTGAA
Statistics
Matches: 165, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
66 2 0.01
67 31 0.19
68 3 0.02
69 1 0.01
71 128 0.78
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (71 bp):
AAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTCAAATTAGAATCTTTAAGAA
GTCTTC
Found at i:12736177 original size:184 final size:184
Alignment explanation
Indices: 12735802--12736187 Score: 523
Period size: 184 Copynumber: 2.1 Consensus size: 184
12735792 AAGCTTTGAG
12735802 TCTT-AAATGAGAATCTTTAAGAAGTCTTCAAATAAGAAGCTTTGAGTCTTAAATCAGAATCTTT
1 TCTTCAAATGAGAATCTTTAAGAAGTCTTCAAATAAGAAGCTTTGAGTCTTAAATCAGAATCTTT
* *
12735866 AAGAAATCCTCAAATGAAAATCTTTAAGAAATCCTCAAATGAGAATCTTTGAGTGTCAAATGAGA
66 AAGAAATCCTCAAATGAAAATCTTTAAGAAATCCTCAAATGAGAAGCTTTGAGTCTCAAATGAGA
* * * * *
12735931 ATTTTTAAATTTTAAATGAGAAGTTTTGAGTCTTAAATGTGAATCTTTAAGAAA
131 ATTTTGAAATTTCAAATAAGAAGTTTTGAGTCTCAAATGAGAATCTTTAAGAAA
* * *
12735985 TCTTCAAATTAGAATCTTTAAGAAGTCTTCAAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTT
1 TCTTCAAATGAGAATCTTTAAGAAGTCTTCAAATAAGAAGCTTTGAGTCTTAAATCAGAATCTTT
* * * * * *
12736050 AAGAAATCTTCAAATTAGAATCTTTAAGAAGTCTTCAAATGAGAAGCTTTGAGTCTTAAATGAGA
66 AAGAAATCCTCAAATGAAAATCTTTAAGAAATCCTCAAATGAGAAGCTTTGAGTCTCAAATGAGA
* *
12736115 ATCTTTAAGAAATCTTCAAATAAGAA-TCTTTGAGTGTCAAATGAGAAT-TTT-TG-AA
131 AT-TTT--GAAAT-TTCAAATAAGAAGT-TTTGAGTCTCAAATGAGAATCTTTAAGAAA
12736170 T-TTCAAATGAGAATCTTT
1 TCTTCAAATGAGAATCTTT
12736188 GAGGTGTGAA
Statistics
Matches: 178, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
183 4 0.02
184 132 0.74
185 6 0.03
186 1 0.01
187 8 0.04
188 27 0.15
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (184 bp):
TCTTCAAATGAGAATCTTTAAGAAGTCTTCAAATAAGAAGCTTTGAGTCTTAAATCAGAATCTTT
AAGAAATCCTCAAATGAAAATCTTTAAGAAATCCTCAAATGAGAAGCTTTGAGTCTCAAATGAGA
ATTTTGAAATTTCAAATAAGAAGTTTTGAGTCTCAAATGAGAATCTTTAAGAAA
Found at i:12736180 original size:230 final size:229
Alignment explanation
Indices: 12735765--12736190 Score: 635
Period size: 230 Copynumber: 1.9 Consensus size: 229
12735755 AGTCTTATCG
*
12735765 AGAAACTTTAAGAAGTCCTAAAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGAAGTCTT
1 AGAAACTTTAAGAAGTCCTAAAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTT
*
12735830 CAAATAAGAAGCTTTGAGTCTTAAATCAGAATCTTTAAGAAATCCTCAAATGAAAATCTTTAAGA
66 CAAATAAGAAGCTTTGAGTCTTAAATCAGAAGCTTT-AGAAATCCTCAAATGAAAATCTTTAAGA
* *
12735895 AATCCTCAAATGAGAATCTTTGAGTGTCAAATGAGAATTTTTAAATTTTAAATGAGAAGT-TTTG
130 AATCCTCAAATAAGAATCTTTGAGTGTCAAATGAGAATTTTTAAATTTCAAATGAGAA-TCTTTG
12735959 AGTCTTAAATGTGAATCTTTAAGAAATCTTCAAATT
194 AGTCTTAAATGTGAATCTTTAAGAAATCTTCAAATT
* * *
12735995 AGAATCTTTAAGAAGTCTTCAAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTT
1 AGAAACTTTAAGAAGTCCTAAAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTT
* * * * * *
12736060 CAAATTAGAATCTTTAAGAAGTCTTCAAATGAGAAGCTTT-G-AGT-CTTAAATGAGAATCTTTA
66 CAAATAAGAAGCTTT--G-AGTCTT-AAATCAGAAGCTTTAGAAATCCTCAAATGAAAATCTTTA
* *
12736122 AGAAATCTTCAAATAAGAATCTTTGAGTGTCAAATGAGAATTTTTGAATTTCAAATGAGAATCTT
127 AGAAATCCTCAAATAAGAATCTTTGAGTGTCAAATGAGAATTTTTAAATTTCAAATGAGAATCTT
12736187 TGAG
192 TGAG
12736191 GTGTGAAACC
Statistics
Matches: 176, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
229 1 0.01
230 153 0.87
231 2 0.01
232 2 0.01
233 6 0.03
234 12 0.07
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.34
Consensus pattern (229 bp):
AGAAACTTTAAGAAGTCCTAAAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTT
CAAATAAGAAGCTTTGAGTCTTAAATCAGAAGCTTTAGAAATCCTCAAATGAAAATCTTTAAGAA
ATCCTCAAATAAGAATCTTTGAGTGTCAAATGAGAATTTTTAAATTTCAAATGAGAATCTTTGAG
TCTTAAATGTGAATCTTTAAGAAATCTTCAAATT
Found at i:12736280 original size:21 final size:21
Alignment explanation
Indices: 12736232--12736432 Score: 154
Period size: 21 Copynumber: 9.8 Consensus size: 21
12736222 CTTCAAACTT
12736232 AAATGAGAATCTTTGAATCTTC
1 AAATGAGAATCTTTGAAT-TTC
*
12736254 AAATGAGAATCTTTGAGTGTT-
1 AAATGAGAATCTTTGAAT-TTC
12736275 AAATGAGAATCTTTGAATTTC
1 AAATGAGAATCTTTGAATTTC
* * *
12736296 AAATGAGAAT-TTTGAGGTGTG
1 AAATGAGAATCTTTGA-ATTTC
** *
12736317 AAACCCA-AA-ATTTG----TC
1 AAA-TGAGAATCTTTGAATTTC
* *
12736333 GAATGTA-AATCTTTGAA-CTC
1 AAATG-AGAATCTTTGAATTTC
*
12736353 AAATTAGAATCTTTGAATCCTT-
1 AAATGAGAATCTTTGAAT--TTC
*
12736375 AAATGAGAATCTTTGAATTTT
1 AAATGAGAATCTTTGAATTTC
*
12736396 AAATGAGAATTTTTGAATTTC
1 AAATGAGAATCTTTGAATTTC
12736417 AAATGAGAATCTTTGA
1 AAATGAGAATCTTTGA
12736433 GGTATGAAAC
Statistics
Matches: 145, Mismatches: 20, Indels: 29
0.75 0.10 0.15
Matches are distributed among these distances:
16 6 0.04
17 4 0.03
19 1 0.01
20 24 0.17
21 72 0.50
22 37 0.26
23 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (21 bp):
AAATGAGAATCTTTGAATTTC
Found at i:12736379 original size:121 final size:122
Alignment explanation
Indices: 12736107--12736512 Score: 602
Period size: 121 Copynumber: 3.3 Consensus size: 122
12736097 TTTGAGTCTT
* *
12736107 AAATGAGAATCTTTAAGAAATCTTCAAATAAGAATCTTTGAGTGTCAAATGAGAATTTTTGAATT
1 AAATGAGAATCTTT--G-AATCTTCAAATGAGAATCTTTGAGTGTTAAATGAGAATTTTTGAATT
* *
12736172 TCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTCGAATGTGATTCTTCAAACTT
63 TCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTCGAATGTGAATCTTCAAACTC
*
12736232 AAATGAGAATCTTTGAATCTTCAAATGAGAATCTTTGAGTGTTAAATGAGAATCTTTGAATTTCA
1 AAATGAGAATCTTTGAATCTTCAAATGAGAATCTTTGAGTGTTAAATGAGAATTTTTGAATTTCA
* **
12736297 AATGAGAAT-TTTGAGGTGTGAAACCCAAAATTTGTCGAATGTAAATCTTTGAACTC
66 AATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTCGAATGTGAATCTTCAAACTC
* * *
12736353 AAATTAGAATCTTTGAATCCTT-AAATGAGAATCTTTGAATTTTAAATGAGAATTTTTGAATTTC
1 AAATGAGAATCTTTGAAT-CTTCAAATGAGAATCTTTGAGTGTTAAATGAGAATTTTTGAATTTC
* * * *
12736417 AAATGAGAATCTTTGAGGTATGAAACCAAAAATTTGTCCAATGTGAATCTTCAAATTC
65 AAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTCGAATGTGAATCTTCAAACTC
* *
12736475 AAATGAGAATCTTTGAGT-TTCAAATGAGAATATTTGAG
1 AAATGAGAATCTTTGAATCTTCAAATGAGAATCTTTGAG
12736513 ATGCAAAACC
Statistics
Matches: 255, Mismatches: 23, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
120 2 0.01
121 123 0.48
122 115 0.45
123 1 0.00
125 14 0.05
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (122 bp):
AAATGAGAATCTTTGAATCTTCAAATGAGAATCTTTGAGTGTTAAATGAGAATTTTTGAATTTCA
AATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTCGAATGTGAATCTTCAAACTC
Found at i:12736498 original size:21 final size:21
Alignment explanation
Indices: 12736472--12736512 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
12736462 AATCTTCAAA
*
12736472 TTCAAATGAGAATCTTTGAGT
1 TTCAAATGAGAATATTTGAGT
12736493 TTCAAATGAGAATATTTGAG
1 TTCAAATGAGAATATTTGAG
12736513 ATGCAAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (21 bp):
TTCAAATGAGAATATTTGAGT
Found at i:12736519 original size:21 final size:21
Alignment explanation
Indices: 12736474--12736519 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
12736464 TCTTCAAATT
* * *
12736474 CAAATGAGAATCTTTGAGTTT
1 CAAATGAGAATATTTGAGATG
12736495 CAAATGAGAATATTTGAGATG
1 CAAATGAGAATATTTGAGATG
12736516 CAAA
1 CAAA
12736520 ACCCTAAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (21 bp):
CAAATGAGAATATTTGAGATG
Found at i:12736838 original size:14 final size:15
Alignment explanation
Indices: 12736790--12736840 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
12736780 TGCACATCTA
12736790 AAATTTT-ACAAATC
1 AAATTTTGACAAATC
* *
12736804 AAATTCTTGAGAAATTG
1 AAATT-TTGACAAA-TC
12736821 AAATTTTGA-AAATC
1 AAATTTTGACAAATC
12736835 AAATTT
1 AAATTT
12736841 CAGTGAATCC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 12 0.39
15 5 0.16
16 8 0.26
17 6 0.19
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (15 bp):
AAATTTTGACAAATC
Found at i:12737181 original size:42 final size:42
Alignment explanation
Indices: 12737029--12737215 Score: 184
Period size: 42 Copynumber: 4.5 Consensus size: 42
12737019 TATGAGCTTT
* *
12737029 ATTTATTTTTTCAAAGTTGTAAAGCCTATGTTTAGAGGAGCA
1 ATTTATTTTTTCAAAGTTGTGAAGCCTCTGTTTAGAGGAGCA
* * * * * *
12737071 ATTTACTTTCT-AAAGTCGTTG-AGCCTCTGATTAGAAGAG-T
1 ATTTATTTTTTCAAAGTTG-TGAAGCCTCTGTTTAGAGGAGCA
* * *
12737111 TTTGTTTATTTTTGAAAGTTGTGAAGCCTCTGTTTAGAGGAGCA
1 ATT-TAT-TTTTTCAAAGTTGTGAAGCCTCTGTTTAGAGGAGCA
* * *
12737155 ATTTATTTTTTCAAAGTTATGGAGCCTCTGTTTAAAGGAGCA
1 ATTTATTTTTTCAAAGTTGTGAAGCCTCTGTTTAGAGGAGCA
*
12737197 TTTTA-TTTTTCAAAGTTGT
1 ATTTATTTTTTCAAAGTTGT
12737216 TGTGCCTCTT
Statistics
Matches: 115, Mismatches: 24, Indels: 13
0.76 0.16 0.09
Matches are distributed among these distances:
40 2 0.02
41 35 0.30
42 52 0.45
43 24 0.21
44 2 0.02
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.43
Consensus pattern (42 bp):
ATTTATTTTTTCAAAGTTGTGAAGCCTCTGTTTAGAGGAGCA
Found at i:12737266 original size:85 final size:85
Alignment explanation
Indices: 12737030--12737274 Score: 234
Period size: 85 Copynumber: 2.9 Consensus size: 85
12737020 ATGAGCTTTA
* * * *
12737030 TTTATTTTTTCAAAGTTGTAAAGCCTATGTTTAGAGGAGCAATTTA-CTTTCTAAAGTCGTTGAG
1 TTTA-TTTTTCAAAGTTGTGAAGCCTCTGTTTAGAAGAGCAATTTATTTTTCTAAAGTCGTTGAG
* **
12737094 CCTCTGATTAGAAGAGTTTTG
65 CCTCTGTTTAGAAGAGTCATG
* * ** *
12737115 TTTATTTTTGAAAGTTGTGAAGCCTCTGTTTAGAGGAGCAATTTATTTTT-TCAAAGTTATGGAG
1 TTTATTTTTCAAAGTTGTGAAGCCTCTGTTTAGAAGAGCAATTTATTTTTCT-AAAGTCGTTGAG
12737179 CCTCTGTTTA-AAGGAG-CAT-
65 CCTCTGTTTAGAA-GAGTCATG
* **
12737198 TTTATTTTTCAAAGTTGTTG-TGCCTCT-TATTAGAAGAGCTTTGCTTATTTTTCTAAAGTCGTT
1 TTTATTTTTCAAAGTTG-TGAAGCCTCTGT-TTAGAAGAGCAAT--TTATTTTTCTAAAGTCGTT
*
12737261 GAGCCTCTATTTAG
62 GAGCCTCTGTTTAG
12737275 TGAAGTTTTG
Statistics
Matches: 132, Mismatches: 19, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
82 1 0.01
83 32 0.24
84 44 0.33
85 54 0.41
86 1 0.01
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (85 bp):
TTTATTTTTCAAAGTTGTGAAGCCTCTGTTTAGAAGAGCAATTTATTTTTCTAAAGTCGTTGAGC
CTCTGTTTAGAAGAGTCATG
Found at i:12738562 original size:62 final size:60
Alignment explanation
Indices: 12738472--12738696 Score: 224
Period size: 62 Copynumber: 3.5 Consensus size: 60
12738462 TTTTTAATGA
* * *
12738472 TTTTCCTAAAATAAAATTTC-CAAAAAAAATATTTTTAGGGAAAATTTGAAAGTATCAAT
1 TTTTCTTAAAATAAAATTTCTAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAAT
12738531 TTTTCTTAAAAGTAAAATTTCTAAAATAAAAATTTCTAAAAGTATTTTAGGGAAAAGTTGAAAGT
1 TTTTCTTAAAA-TAAAATTTCTAAAA-AAAAA----T---A-T-TTTTAGGGAAAAGTTGAAAGT
12738596 ATCAA-
55 ATCAAT
12738601 TTTTCTTTGAAAATAAAAAGGTTT-T-AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAAT
1 TTTTC-TT-AAAAT-AAAA--TTTCTAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAAT
*
12738664 TTTTCTTGAAAATAAAATTTTTAAAATAAAAAT
1 TTTTCTT-AAAATAAAATTTCTAAAA-AAAAAT
12738697 TATCAAGAAA
Statistics
Matches: 142, Mismatches: 3, Indels: 39
0.77 0.02 0.21
Matches are distributed among these distances:
59 13 0.09
60 10 0.07
61 10 0.07
62 45 0.32
63 6 0.04
64 1 0.01
66 1 0.01
67 1 0.01
69 1 0.01
70 6 0.04
71 33 0.23
72 11 0.08
73 1 0.01
74 3 0.02
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (60 bp):
TTTTCTTAAAATAAAATTTCTAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAAT
Found at i:12738781 original size:62 final size:61
Alignment explanation
Indices: 12738711--12738867 Score: 242
Period size: 62 Copynumber: 2.6 Consensus size: 61
12738701 AAGAAAAGTA
* *
12738711 TTTGAGGAAAAGTTGAAAGTGTCAATTTTTCTTGAAATTAAAATTTCAAGAAAAAAAAATAT
1 TTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTCAA-AAAAAAAAACAT
* * *
12738773 TTTGAGGAAAAGTTGAAAGTATTAATTTTCCTCGAAATTAAAATTTCAAAAAAAAAAACAT
1 TTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTCAAAAAAAAAAACAT
* *
12738834 TTTAAGGGAAAGTTGAAAGTATCAATTTTTCTTG
1 TTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
12738868 TATAAAGGCA
Statistics
Matches: 85, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
61 40 0.47
62 45 0.53
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (61 bp):
TTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTCAAAAAAAAAAACAT
Found at i:12738783 original size:135 final size:132
Alignment explanation
Indices: 12738493--12738830 Score: 418
Period size: 135 Copynumber: 2.5 Consensus size: 132
12738483 TAAAATTTCC
*
12738493 AAAAAAAATATTTTTAGGGAAAATTTGAAAGTATCAATTTTTCTT-AAAAGTAAAATTTCTAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAA-TAAAATTTCTAAAA
* *
12738557 TAAAAATTTCTAAAAGTATTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAAAGG
65 TAAAAATTTCGAAAAGTATTTGAGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAAA-G
*
12738622 TTTT
129 TTTA
*
12738626 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTTAAAAT
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTCTAAAAT
* *
12738691 AAAAATTATCAAGAAAAGTATTTGA-GGAAAAGTTGAAAGTGTCAATTTT-TCTTG-AAATTAAA
66 AAAAATT-TC--GAAAAGTATTTGAGGGAAAAGTTGAAAGTATCAATTTTCT-TTGAAAATAAAA
12738753 A-TTTCA
127 AGTTT-A
* * * * * *
12738759 AGAAAAAAAAATATTTT-GAGGAAAAGTTGAAAGTATTAATTTTCCTCGAAATTAAAATTTCAAA
1 A-AAAAAAATAT-TTTTAG-GGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTCTAA
*
12738823 AAAAAAAA
63 AATAAAAA
12738831 CATTTTAAGG
Statistics
Matches: 181, Mismatches: 15, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
132 3 0.02
133 66 0.36
134 25 0.14
135 76 0.42
136 11 0.06
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.34
Consensus pattern (132 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTCTAAAAT
AAAAATTTCGAAAAGTATTTGAGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAAAGTT
TA
Found at i:12744572 original size:80 final size:82
Alignment explanation
Indices: 12744434--12744585 Score: 182
Period size: 80 Copynumber: 1.9 Consensus size: 82
12744424 AAATAGAATA
* * * * *
12744434 TTTGTTTAAAAATATTATAAAAAAATTATTTTTTAGAATTTAACAAAAACGACATTTTTAAGATA
1 TTTGTTTAAAAATATGATAAAAAAATTATATTTCAGAATTCAACAAAAACGACATTTTTAAAATA
12744499 AAAAAAAAAGTGCAAAT
66 AAAAAAAAAGTGCAAAT
* * * * ** *
12744516 TTTG-TTAAAAATATGA-AAAAAATTTATATTTCAGAATTCAATAAACATGATGTTTTTAAAATG
1 TTTGTTTAAAAATATGATAAAAAAATTATATTTCAGAATTCAACAAAAACGACATTTTTAAAATA
12744579 AAAAAAA
66 AAAAAAA
12744586 TCTATTTTTG
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
80 43 0.74
81 11 0.19
82 4 0.07
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.36
Consensus pattern (82 bp):
TTTGTTTAAAAATATGATAAAAAAATTATATTTCAGAATTCAACAAAAACGACATTTTTAAAATA
AAAAAAAAAGTGCAAAT
Found at i:12745988 original size:68 final size:73
Alignment explanation
Indices: 12745907--12746046 Score: 182
Period size: 75 Copynumber: 2.0 Consensus size: 73
12745897 CCTAATTATC
* * *
12745907 TTATGATTCTAAATAA-T-AA-AT-A-TATATTATATTTTTGAACAATTACTTCATTTGAATATT
1 TTATGATTCTAAATAATTAAATATAACTATATTAAATTTTTGAACAATTACGTAATTTGAATATT
12745967 AATTCAAA
66 AATTCAAA
* *
12745975 TTATGATTCTAAATAATTAAAATATACACTATATTAAATTTTTTAATAATTACGTAATTTGAATA
1 TTATGATTCTAAATAATT-AAATATA-ACTATATTAAATTTTTGAACAATTACGTAATTTGAATA
12746040 TTAATTC
64 TTAATTC
12746047 TAATGACATT
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
68 16 0.27
69 1 0.02
71 2 0.03
72 2 0.03
74 1 0.02
75 38 0.63
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (73 bp):
TTATGATTCTAAATAATTAAATATAACTATATTAAATTTTTGAACAATTACGTAATTTGAATATT
AATTCAAA
Found at i:12748227 original size:2 final size:2
Alignment explanation
Indices: 12748220--12748252 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
12748210 AATGATATTC
*
12748220 AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12748253 AATTAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:12752770 original size:2 final size:2
Alignment explanation
Indices: 12752763--12752787 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12752753 CAATTAATAC
12752763 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
12752788 TATCTATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12756550 original size:2 final size:2
Alignment explanation
Indices: 12756545--12756581 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
12756535 GTGCGTGTGT
12756545 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
12756582 CAACCTGAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:12764447 original size:37 final size:37
Alignment explanation
Indices: 12764403--12764476 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
12764393 CTTAATAAGA
* *
12764403 AAAATATTTAAA-ATATTTATTAATTTTTTAATTTTTT
1 AAAATA-TTAAATATATTTATTAATATTTTAATATTTT
* *
12764440 AAAATATTAAATTTATTTTTTAATATTTTAATATTTT
1 AAAATATTAAATATATTTATTAATATTTTAATATTTT
12764477 GGTTTCATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 5 0.16
37 27 0.84
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (37 bp):
AAAATATTAAATATATTTATTAATATTTTAATATTTT
Found at i:12764468 original size:29 final size:28
Alignment explanation
Indices: 12764405--12764470 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 28
12764395 TAATAAGAAA
*
12764405 AATA-TTTAAAATATTTATTAATTTTTT
1 AATATTTTAAAATATTAATTAATTTTTT
* *
12764432 AATTTTTTAAAATATTAAATTTATTTTTT
1 AATATTTTAAAATATT-AATTAATTTTTT
12764461 AATATTTTAA
1 AATATTTTAA
12764471 TATTTTGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 3 0.09
28 11 0.33
29 19 0.58
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
AATATTTTAAAATATTAATTAATTTTTT
Found at i:12764470 original size:21 final size:22
Alignment explanation
Indices: 12764433--12764475 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
12764423 TAATTTTTTA
12764433 ATTTTTTAAAATATTAA-ATTT
1 ATTTTTTAAAATATTAATATTT
* *
12764454 ATTTTTTAATATTTTAATATTT
1 ATTTTTTAAAATATTAATATTT
12764476 TGGTTTCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTTTTTAAAATATTAATATTT
Found at i:12765922 original size:27 final size:27
Alignment explanation
Indices: 12765892--12765946 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
12765882 AAAGCCATTG
*
12765892 ACACATCATTTTAGTTAAAAAAAGTTT
1 ACACATCATTGTAGTTAAAAAAAGTTT
*
12765919 ACACCTCATTGTAGTTAAAAAAAGTTT
1 ACACATCATTGTAGTTAAAAAAAGTTT
12765946 A
1 A
12765947 ATATGTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.35
Consensus pattern (27 bp):
ACACATCATTGTAGTTAAAAAAAGTTT
Found at i:12767604 original size:24 final size:24
Alignment explanation
Indices: 12767577--12767624 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
12767567 TTTAATCGTA
12767577 GATTTTTTATTATTATTTT-ATTTT
1 GATTTTTTATT-TTATTTTGATTTT
12767601 GATTTTTTATTTTATTTTGATTTT
1 GATTTTTTATTTTATTTTGATTTT
12767625 TATTCATCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (24 bp):
GATTTTTTATTTTATTTTGATTTT
Found at i:12767608 original size:13 final size:12
Alignment explanation
Indices: 12767578--12767618 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
12767568 TTAATCGTAG
12767578 ATTTTTTA--TT
1 ATTTTTTATTTT
12767588 ATTATTTTATTTT
1 ATT-TTTTATTTT
12767601 GATTTTTTATTTT
1 -ATTTTTTATTTT
12767614 ATTTT
1 ATTTT
12767619 GATTTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 3 0.11
11 5 0.19
12 5 0.19
13 11 0.41
14 3 0.11
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (12 bp):
ATTTTTTATTTT
Found at i:12767610 original size:18 final size:18
Alignment explanation
Indices: 12767589--12767625 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
12767579 TTTTTTATTA
12767589 TTATTTTATTTTGATTTT
1 TTATTTTATTTTGATTTT
12767607 TTATTTTATTTTGATTTT
1 TTATTTTATTTTGATTTT
12767625 T
1 T
12767626 ATTCATCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.78
Consensus pattern (18 bp):
TTATTTTATTTTGATTTT
Found at i:12767618 original size:11 final size:11
Alignment explanation
Indices: 12767581--12767628 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
12767571 ATCGTAGATT
*
12767581 TTTTATTATTA
1 TTTTATTTTTA
*
12767592 TTTTATTTTGA
1 TTTTATTTTTA
*
12767603 TTTTTTATTTTA
1 TTTTAT-TTTTA
12767615 TTTTGATTTTTA
1 TTTT-ATTTTTA
12767627 TT
1 TT
12767629 CATCTACTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
11 14 0.47
12 15 0.50
13 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:12767731 original size:12 final size:12
Alignment explanation
Indices: 12767716--12767830 Score: 51
Period size: 12 Copynumber: 9.2 Consensus size: 12
12767706 TTATAGTTGA
12767716 TTTTTGTATGA-
1 TTTTTGTATGAT
12767727 -TTTT-TATGAT
1 TTTTTGTATGAT
*
12767737 ATTTTTGCATGAT
1 -TTTTTGTATGAT
* *
12767750 TATTTGCATGAT
1 TTTTTGTATGAT
*
12767762 TTATAT-TATGACAT
1 TT-TTTGTATG--AT
12767776 TTATTTGTATGAT
1 TT-TTTGTATGAT
*
12767789 TTTTTATGAT-AT
1 TTTTTGT-ATGAT
*
12767801 TTATTTGCATGAT
1 TT-TTTGTATGAT
*
12767814 ATTTTTGCATAGAT
1 -TTTTTGTAT-GAT
12767828 TTT
1 TTT
12767831 GTTTATTTGC
Statistics
Matches: 82, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
9 5 0.06
10 4 0.05
12 29 0.35
13 28 0.34
14 12 0.15
15 4 0.05
ACGTcount: A:0.24, C:0.04, G:0.13, T:0.58
Consensus pattern (12 bp):
TTTTTGTATGAT
Found at i:12767760 original size:25 final size:25
Alignment explanation
Indices: 12767715--12767828 Score: 80
Period size: 25 Copynumber: 4.6 Consensus size: 25
12767705 TTTATAGTTG
*
12767715 ATTTTTGTATGATT-TTT--ATGAT
1 ATTTTTGCATGATTATTTGCATGAT
12767737 ATTTTTGCATGATTATTTGCATGATTT
1 ATTTTTGCATGATTATTTGCATGA--T
* *
12767764 ATATTATGACAT--TTATTTGTATGAT
1 AT-TTTTG-CATGATTATTTGCATGAT
*
12767789 TTTTTATG-AT-ATTTATTTGCATGAT
1 ATTTT-TGCATGA-TTATTTGCATGAT
12767814 ATTTTTGCATAGATT
1 ATTTTTGCAT-GATT
12767829 TTGTTTATTT
Statistics
Matches: 72, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
22 13 0.18
23 5 0.07
24 4 0.06
25 26 0.36
26 2 0.03
27 15 0.21
28 4 0.06
29 3 0.04
ACGTcount: A:0.25, C:0.04, G:0.13, T:0.57
Consensus pattern (25 bp):
ATTTTTGCATGATTATTTGCATGAT
Found at i:12767814 original size:15 final size:15
Alignment explanation
Indices: 12767794--12767849 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
12767784 ATGATTTTTT
12767794 ATGATATTTATTTGC
1 ATGATATTTATTTGC
12767809 ATGATA-TT-TTTGC
1 ATGATATTTATTTGC
*
12767822 ATAGATTTTGTTTATTTGC
1 AT-GA---TATTTATTTGC
12767841 ATGATATTT
1 ATGATATTT
12767850 TGCATGGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
13 7 0.21
14 4 0.12
15 10 0.30
17 1 0.03
18 4 0.12
19 7 0.21
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.55
Consensus pattern (15 bp):
ATGATATTTATTTGC
Found at i:12767854 original size:31 final size:32
Alignment explanation
Indices: 12767800--12767865 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 32
12767790 TTTTATGATA
*
12767800 TTTATTTGCATGATATTTTTGCATAGATTTTG
1 TTTATTTGCATGATATTTTTGCATAGATTTCG
*
12767832 TTTATTTGCATGATA-TTTTGCATGGATTTCG
1 TTTATTTGCATGATATTTTTGCATAGATTTCG
12767863 TTT
1 TTT
12767866 GTGTGATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 17 0.53
32 15 0.47
ACGTcount: A:0.20, C:0.08, G:0.17, T:0.56
Consensus pattern (32 bp):
TTTATTTGCATGATATTTTTGCATAGATTTCG
Found at i:12767964 original size:13 final size:11
Alignment explanation
Indices: 12767926--12767977 Score: 50
Period size: 12 Copynumber: 4.4 Consensus size: 11
12767916 GCATGATATC
12767926 TTTACATGATT
1 TTTACATGATT
*
12767937 TTTGGCATGATT
1 TTT-ACATGATT
12767949 TTTACTATGATAT
1 TTTAC-ATGAT-T
*
12767962 TTTGCATGAATT
1 TTTACATG-ATT
12767974 TTTA
1 TTTA
12767978 TTTTGCATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
11 4 0.12
12 22 0.67
13 7 0.21
ACGTcount: A:0.25, C:0.08, G:0.13, T:0.54
Consensus pattern (11 bp):
TTTACATGATT
Found at i:12767968 original size:24 final size:23
Alignment explanation
Indices: 12767916--12767977 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 23
12767906 TTTTATTCTA
12767916 GCATGATATCTTTACATGATTTTTG
1 GCATGAT-T-TTTACATGATTTTTG
12767941 GCATGATTTTTACTATGATATTTT-
1 GCATGATTTTTAC-ATGAT-TTTTG
12767965 GCATGAATTTTTA
1 GCATG-ATTTTTA
12767978 TTTTGCATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 5 0.15
24 11 0.32
25 18 0.53
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.50
Consensus pattern (23 bp):
GCATGATTTTTACATGATTTTTG
Found at i:12767986 original size:41 final size:43
Alignment explanation
Indices: 12767936--12768018 Score: 109
Period size: 40 Copynumber: 2.0 Consensus size: 43
12767926 TTTACATGAT
*
12767936 TTTTGGCATGATTTTTACTATGATATT-TTGCATGA-ATTTTTA
1 TTTTGGCATG-TTTTAACTATGATATTATTGCATGATATTTTTA
* *
12767978 TTTT-GCATGTTTTAATTATGGTATTATTGCATGATATTTTT
1 TTTTGGCATGTTTTAACTATGATATTATTGCATGATATTTTT
12768019 TTATGATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 13 0.36
41 13 0.36
42 10 0.28
ACGTcount: A:0.23, C:0.06, G:0.14, T:0.57
Consensus pattern (43 bp):
TTTTGGCATGTTTTAACTATGATATTATTGCATGATATTTTTA
Found at i:12769837 original size:170 final size:167
Alignment explanation
Indices: 12769525--12769884 Score: 465
Period size: 170 Copynumber: 2.1 Consensus size: 167
12769515 TTTCTAATAG
* * *
12769525 ATTTTAGGTGACGTTATTAATTTTTATCACAACTTGAATACTTTAGTTAACTATTATGACATTGC
1 ATTTTAGGTGACATTATTAATTTTTATCACAACTTGAATACTTTAGTTAACTATTATAACATAGC
* *
12769590 AATTTCATCACGTCAATGTATGGTGTTATATAACGATAACATAAATGTCACAAATTTTTACCACC
66 AATTTCATCACGTCAATGTATGGTGTTATATAACGATAACATAAATATCACAAACTTTTACCACC
** *
12769655 AAATTCATTTGGTG-GGAAATTTCTTTGTGATGTTTTATT
131 AAATTCATTTGGTGAAAAAATTT-TTTGTCATG-TTT-TT
* * * *
12769694 ATTTTATGTGACATTATTAATTTTTATCATAATTTGAATATTTTAGTTAACTATTAATAACATAG
1 ATTTTAGGTGACATTATTAATTTTTATCACAACTTGAATACTTTAGTTAACTATT-ATAACATAG
* * * * ***
12769759 TAATTTCGTCACGTCAGT-TAATGGTGTTATATGACGATAACATAAATATCACAAACTTTTATTG
65 CAATTTCATCACGTCAATGT-ATGGTGTTATATAACGATAACATAAATATCACAAACTTTTACCA
* *
12769823 CTAAATTTATTTGGTGAAAAAATTTTTTGTCATGTTTTT
129 CCAAATTCATTTGGTGAAAAAATTTTTTGTCATGTTTTT
12769862 ATTTTAGGTGACATTA-TAATTTT
1 ATTTTAGGTGACATTATTAATTTT
12769885 GTTACCAATT
Statistics
Matches: 166, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
167 7 0.04
168 17 0.10
169 54 0.33
170 82 0.49
171 6 0.04
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (167 bp):
ATTTTAGGTGACATTATTAATTTTTATCACAACTTGAATACTTTAGTTAACTATTATAACATAGC
AATTTCATCACGTCAATGTATGGTGTTATATAACGATAACATAAATATCACAAACTTTTACCACC
AAATTCATTTGGTGAAAAAATTTTTTGTCATGTTTTT
Done.