Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 64 of 74
Found at i:12682626 original size:20 final size:20
Alignment explanation
Indices: 12682601--12682638 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
12682591 GATAAAATGA
*
12682601 AATAGTTTTAAATTTTAAGT
1 AATAGTATTAAATTTTAAGT
12682621 AATAGTATTAAATTTTAA
1 AATAGTATTAAATTTTAA
12682639 ACAATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (20 bp):
AATAGTATTAAATTTTAAGT
Found at i:12682651 original size:20 final size:20
Alignment explanation
Indices: 12682601--12682652 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
12682591 GATAAAATGA
**
12682601 AATAGTTTTAAATTTTAAGT
1 AATAGTTTTAAATTTTAAAC
*
12682621 AATAGTATTAAATTTTAAAC
1 AATAGTTTTAAATTTTAAAC
12682641 AATTA-TTTTAAA
1 AA-TAGTTTTAAA
12682653 AATTATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 25 0.93
21 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (20 bp):
AATAGTTTTAAATTTTAAAC
Found at i:12682662 original size:13 final size:13
Alignment explanation
Indices: 12682632--12682661 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
12682622 ATAGTATTAA
12682632 ATTTTAAACAATT
1 ATTTTAAACAATT
12682645 ATTTTAAA-AATT
1 ATTTTAAACAATT
12682657 ATTTT
1 ATTTT
12682662 TTGCTTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTTTAAACAATT
Found at i:12688337 original size:19 final size:20
Alignment explanation
Indices: 12688297--12688340 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
12688287 ATTTTTCATG
*
12688297 TTTTTACCATTCTTTTTCTC
1 TTTTTACCATTCTCTTTCTC
12688317 TTTTTA-CATTCTGCTTT-TC
1 TTTTTACCATTCT-CTTTCTC
12688336 TTTTT
1 TTTTT
12688341 CTAAAAGCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTTACCATTCTCTTTCTC
Found at i:12694183 original size:20 final size:20
Alignment explanation
Indices: 12694147--12694185 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12694137 CAAAATAGCT
**
12694147 TTAAATTTTAAGTAATTATA
1 TTAAATTTTAAACAATTATA
12694167 TTAAATTTTAAACAATTAT
1 TTAAATTTTAAACAATTAT
12694186 TTTTAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
TTAAATTTTAAACAATTATA
Found at i:12695368 original size:92 final size:92
Alignment explanation
Indices: 12695211--12695549 Score: 615
Period size: 92 Copynumber: 3.7 Consensus size: 92
12695201 CGAAATAAAA
*
12695211 TCCGGAAAAGCAACCATTAAAAAAATCCCAGTCTTTTTCTATTTATGTAACTTACTGCAGTAATT
1 TCCGGAAAAGCAACCATTAAAAATATCCCAGTCTTTTTCTATTTATGTAACTTACTGCAGTAATT
12695276 TTAAAATACAGTATTCTATATTTGAAC
66 TTAAAATACAGTATTCTATATTTGAAC
*
12695303 TCCGGAAAAACAACCATTAAAAATATCCCAGTCTTTTTCTATTTATGTAACTTACTGCAGTAATT
1 TCCGGAAAAGCAACCATTAAAAATATCCCAGTCTTTTTCTATTTATGTAACTTACTGCAGTAATT
*
12695368 TTGAAATACAGTATTCTATATTTGAAC
66 TTAAAATACAGTATTCTATATTTGAAC
*
12695395 TCCGGAAAAGCAATCATTAAAAATATCCCAGTCTTTTTCTATTTATGTAACTTACTGCAGTAATT
1 TCCGGAAAAGCAACCATTAAAAATATCCCAGTCTTTTTCTATTTATGTAACTTACTGCAGTAATT
*
12695460 TTGAAATACAGTATTCTATATTTGAAC
66 TTAAAATACAGTATTCTATATTTGAAC
* *
12695487 TCCGGAAAAGCAACCTTTAAAAAAATCCCAGTCTTTTTCTATTTATGTAACTTACTGCAGTAA
1 TCCGGAAAAGCAACCATTAAAAATATCCCAGTCTTTTTCTATTTATGTAACTTACTGCAGTAA
12695550 CTTACTGCAG
Statistics
Matches: 239, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 239 1.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (92 bp):
TCCGGAAAAGCAACCATTAAAAATATCCCAGTCTTTTTCTATTTATGTAACTTACTGCAGTAATT
TTAAAATACAGTATTCTATATTTGAAC
Found at i:12695520 original size:184 final size:189
Alignment explanation
Indices: 12695211--12695685 Score: 762
Period size: 197 Copynumber: 2.5 Consensus size: 189
12695201 CGAAATAAAA
*
12695211 TCCGGAAAAGCAACCATTAAAAAAATCCCAGTCTTTTTCTATTTATGTAACTTACTGCAGTAATT
1 TCCGGAAAAGCAACCATTAAAAATATCCCAGTCTTTTTCTATTTATGTAACTTACTGCAGTAATT
*
12695276 TTAAAATACAGTATTCTATATTTGAACTCCGGAAAAACAACCATTAAAAATATCCCAGTCTTTTT
66 TTAAAATACAGTATTCTATATTTGAACTCCGGAAAAACAACCATTAAAAAAATCCCAGTCTTTTT
* *
12695341 C-TA-T-TTA-T-GTAACTTACTGCAGTAATTTTGAAATACAGTATTCTATATTTGAAC
131 CTTAGTATTACTAGTAACTTACTGCAGTAATTTTAAAATACACTATTCTATATTTGAAC
*
12695395 TCCGGAAAAGCAATCATTAAAAATATCCCAGTCTTTTTCTATTTATGTAACTTACTGCAGTAATT
1 TCCGGAAAAGCAACCATTAAAAATATCCCAGTCTTTTTCTATTTATGTAACTTACTGCAGTAATT
* * *
12695460 TTGAAATACAGTATTCTATATTTGAACTCCGGAAAAGCAACCTTTAAAAAAATCCCAGTCTTTTT
66 TTAAAATACAGTATTCTATATTTGAACTCCGGAAAAACAACCATTAAAAAAATCCCAGTCTTTTT
12695525 CTATTTATGTAACTTACTGCAGTAACTTACTGCAGTAATTTTAAAATACACTATTCTATATTTGA
131 C---TTA-GT-A-TTACT--AGTAACTTACTGCAGTAATTTTAAAATACACTATTCTATATTTGA
12695590 AC
188 AC
12695592 TCCGGAAAAGCAACCATTAAAAATATCCCAGTCTTTTTCTATTTATGTAACTTACTGCAGTAATT
1 TCCGGAAAAGCAACCATTAAAAATATCCCAGTCTTTTTCTATTTATGTAACTTACTGCAGTAATT
*
12695657 TTAAAATACACTATTCTATATTTGAACTC
66 TTAAAATACAGTATTCTATATTTGAACTC
12695686 TGTTGTCTGA
Statistics
Matches: 267, Mismatches: 11, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
184 125 0.47
188 2 0.01
190 1 0.00
193 3 0.01
194 1 0.00
197 135 0.51
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.37
Consensus pattern (189 bp):
TCCGGAAAAGCAACCATTAAAAATATCCCAGTCTTTTTCTATTTATGTAACTTACTGCAGTAATT
TTAAAATACAGTATTCTATATTTGAACTCCGGAAAAACAACCATTAAAAAAATCCCAGTCTTTTT
CTTAGTATTACTAGTAACTTACTGCAGTAATTTTAAAATACACTATTCTATATTTGAAC
Found at i:12695551 original size:13 final size:13
Alignment explanation
Indices: 12695533--12695562 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
12695523 TTCTATTTAT
12695533 GTAACTTACTGCA
1 GTAACTTACTGCA
12695546 GTAACTTACTGCA
1 GTAACTTACTGCA
12695559 GTAA
1 GTAA
12695563 TTTTAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (13 bp):
GTAACTTACTGCA
Found at i:12695623 original size:105 final size:105
Alignment explanation
Indices: 12695441--12695654 Score: 392
Period size: 105 Copynumber: 2.0 Consensus size: 105
12695431 TTCTATTTAT
* * *
12695441 GTAACTTACTGCAGTAATTTTGAAATACAGTATTCTATATTTGAACTCCGGAAAAGCAACCTTTA
1 GTAACTTACTGCAGTAATTTTAAAATACACTATTCTATATTTGAACTCCGGAAAAGCAACCATTA
12695506 AAAAAATCCCAGTCTTTTTCTATTTATGTAACTTACTGCA
66 AAAAAATCCCAGTCTTTTTCTATTTATGTAACTTACTGCA
12695546 GTAACTTACTGCAGTAATTTTAAAATACACTATTCTATATTTGAACTCCGGAAAAGCAACCATTA
1 GTAACTTACTGCAGTAATTTTAAAATACACTATTCTATATTTGAACTCCGGAAAAGCAACCATTA
*
12695611 AAAATATCCCAGTCTTTTTCTATTTATGTAACTTACTGCA
66 AAAAAATCCCAGTCTTTTTCTATTTATGTAACTTACTGCA
12695651 GTAA
1 GTAA
12695655 TTTTAAAATA
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (105 bp):
GTAACTTACTGCAGTAATTTTAAAATACACTATTCTATATTTGAACTCCGGAAAAGCAACCATTA
AAAAAATCCCAGTCTTTTTCTATTTATGTAACTTACTGCA
Found at i:12699206 original size:22 final size:22
Alignment explanation
Indices: 12699178--12699221 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
12699168 CTAAATCTTC
*
12699178 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12699200 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12699222 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:12703133 original size:22 final size:22
Alignment explanation
Indices: 12703105--12703148 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
12703095 CTAAATCTTC
*
12703105 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12703127 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12703149 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:12704486 original size:21 final size:22
Alignment explanation
Indices: 12704462--12704503 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
12704452 TCTTGACTCT
*
12704462 TGTTTTTTCCCTTCT-TTTTCG
1 TGTTATTTCCCTTCTGTTTTCG
12704483 TGTTATTTCCCTTCTGTTTTC
1 TGTTATTTCCCTTCTGTTTTC
12704504 CTGAATGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.02, C:0.24, G:0.10, T:0.64
Consensus pattern (22 bp):
TGTTATTTCCCTTCTGTTTTCG
Found at i:12711561 original size:387 final size:387
Alignment explanation
Indices: 12710847--12711622 Score: 1552
Period size: 387 Copynumber: 2.0 Consensus size: 387
12710837 GGGGGGGGGG
12710847 CAGCTCCAATTATGATTTACCTCTGCTTTAAAGCCCTCCTTTTTTTAGGGTTTTAAGCCGTTATT
1 CAGCTCCAATTATGATTTACCTCTGCTTTAAAGCCCTCCTTTTTTTAGGGTTTTAAGCCGTTATT
12710912 TTTCAGCTTAAGCTGAGATCTTGGTGTGAGATTGTGTTTGGATTAGAGCTGAGTTAACTCAGCTG
66 TTTCAGCTTAAGCTGAGATCTTGGTGTGAGATTGTGTTTGGATTAGAGCTGAGTTAACTCAGCTG
12710977 AGTTGAGCTTGAACAGAATTTATTAAGCTTGGCTTGAGCTTTGATTATTGTTCAAGCTCCTTTAG
131 AGTTGAGCTTGAACAGAATTTATTAAGCTTGGCTTGAGCTTTGATTATTGTTCAAGCTCCTTTAG
12711042 GTCTAGTTAAGCTCAGTGTCACGGACTATGCTTTCTCTCAACAAGCAATAGACCGTGTGGCACTT
196 GTCTAGTTAAGCTCAGTGTCACGGACTATGCTTTCTCTCAACAAGCAATAGACCGTGTGGCACTT
12711107 GAATGGACGCTCCCACCCAAGTCAACCTTCAATAGATCGGTATCTGAACAAATAACCATAAGCCA
261 GAATGGACGCTCCCACCCAAGTCAACCTTCAATAGATCGGTATCTGAACAAATAACCATAAGCCA
12711172 TGGTTAGTCCCAAGCATTCACAATAAGGCACAATATATCGAGATCAATCTCAAGCACACACA
326 TGGTTAGTCCCAAGCATTCACAATAAGGCACAATATATCGAGATCAATCTCAAGCACACACA
12711234 CAGCTCCAATTATGATTTACCTCTGCTTTAAAGCCCTCCTTTTTTTAGGGTTTTAAGCCGTTATT
1 CAGCTCCAATTATGATTTACCTCTGCTTTAAAGCCCTCCTTTTTTTAGGGTTTTAAGCCGTTATT
12711299 TTTCAGCTTAAGCTGAGATCTTGGTGTGAGATTGTGTTTGGATTAGAGCTGAGTTAACTCAGCTG
66 TTTCAGCTTAAGCTGAGATCTTGGTGTGAGATTGTGTTTGGATTAGAGCTGAGTTAACTCAGCTG
12711364 AGTTGAGCTTGAACAGAATTTATTAAGCTTGGCTTGAGCTTTGATTATTGTTCAAGCTCCTTTAG
131 AGTTGAGCTTGAACAGAATTTATTAAGCTTGGCTTGAGCTTTGATTATTGTTCAAGCTCCTTTAG
12711429 GTCTAGTTAAGCTCAGTGTCACGGACTATGCTTTCTCTCAACAAGCAATAGACCGTGTGGCACTT
196 GTCTAGTTAAGCTCAGTGTCACGGACTATGCTTTCTCTCAACAAGCAATAGACCGTGTGGCACTT
12711494 GAATGGACGCTCCCACCCAAGTCAACCTTCAATAGATCGGTATCTGAACAAATAACCATAAGCCA
261 GAATGGACGCTCCCACCCAAGTCAACCTTCAATAGATCGGTATCTGAACAAATAACCATAAGCCA
12711559 TGGTTAGTCCCAAGCATTCACAATAAGGCACAATATATCGAGATCAATCTCAAGCACACACA
326 TGGTTAGTCCCAAGCATTCACAATAAGGCACAATATATCGAGATCAATCTCAAGCACACACA
12711621 CA
1 CA
12711623 ACAAGGCACA
Statistics
Matches: 389, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
387 389 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (387 bp):
CAGCTCCAATTATGATTTACCTCTGCTTTAAAGCCCTCCTTTTTTTAGGGTTTTAAGCCGTTATT
TTTCAGCTTAAGCTGAGATCTTGGTGTGAGATTGTGTTTGGATTAGAGCTGAGTTAACTCAGCTG
AGTTGAGCTTGAACAGAATTTATTAAGCTTGGCTTGAGCTTTGATTATTGTTCAAGCTCCTTTAG
GTCTAGTTAAGCTCAGTGTCACGGACTATGCTTTCTCTCAACAAGCAATAGACCGTGTGGCACTT
GAATGGACGCTCCCACCCAAGTCAACCTTCAATAGATCGGTATCTGAACAAATAACCATAAGCCA
TGGTTAGTCCCAAGCATTCACAATAAGGCACAATATATCGAGATCAATCTCAAGCACACACA
Found at i:12719660 original size:1 final size:1
Alignment explanation
Indices: 12719654--12719681 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
12719644 TTTTACCTTC
12719654 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
12719682 GCACCAATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:12721965 original size:31 final size:31
Alignment explanation
Indices: 12721908--12721986 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
12721898 ATTATTATAT
* * *
12721908 TCTATCAATATTAGATTGAATTTTAAATTGAA
1 TCTATCATTATTATA-TGAATATTAAATTGAA
12721940 TCTATCATTATTATATGAATATTAAATTGAA
1 TCTATCATTATTATATGAATATTAAATTGAA
12721971 TCTATCATTATTATAT
1 TCTATCATTATTATAT
12721987 TAAATATGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 31 0.70
32 13 0.30
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (31 bp):
TCTATCATTATTATATGAATATTAAATTGAA
Found at i:12722433 original size:14 final size:14
Alignment explanation
Indices: 12722414--12722440 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12722404 TACTTTTTAA
12722414 TGTTAAATAAATAT
1 TGTTAAATAAATAT
12722428 TGTTAAATAAATA
1 TGTTAAATAAATA
12722441 AACATTTAAA
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:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
TGTTAAATAAATAT
Found at i:12722472 original size:37 final size:38
Alignment explanation
Indices: 12722430--12722517 Score: 151
Period size: 37 Copynumber: 2.3 Consensus size: 38
12722420 ATAAATATTG
*
12722430 TTAAATAAATAAACATTTAAATTGTTTAACATGTCAAA
1 TTAAATAAATAAACATATAAATTGTTTAACATGTCAAA
*
12722468 -TAAATAAATAAACATATAAATTGTTTAACATGTTAAA
1 TTAAATAAATAAACATATAAATTGTTTAACATGTCAAA
12722505 TTAAATAAATAAA
1 TTAAATAAATAAA
12722518 TAATTTATAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
37 35 0.74
38 12 0.26
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.35
Consensus pattern (38 bp):
TTAAATAAATAAACATATAAATTGTTTAACATGTCAAA
Found at i:12722539 original size:28 final size:29
Alignment explanation
Indices: 12722497--12722553 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
12722487 ATTGTTTAAC
12722497 ATGTTAAATTAAATAAATAAATAATTTAT
1 ATGTTAAATTAAATAAATAAATAATTTAT
* *
12722526 ATGTTCAA-TAAATACATAAATAATTTAT
1 ATGTTAAATTAAATAAATAAATAATTTAT
12722554 TTATTTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (29 bp):
ATGTTAAATTAAATAAATAAATAATTTAT
Found at i:12722771 original size:22 final size:21
Alignment explanation
Indices: 12722745--12722788 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
12722735 TTAGTTTAAT
12722745 TTAGTTCATCGATTTTTTAAAA
1 TTAGTT-ATCGATTTTTTAAAA
* *
12722767 TTAGTTTTTGATTTTTTAAAA
1 TTAGTTATCGATTTTTTAAAA
12722788 T
1 T
12722789 AAATTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.57
Consensus pattern (21 bp):
TTAGTTATCGATTTTTTAAAA
Found at i:12723364 original size:19 final size:19
Alignment explanation
Indices: 12723336--12723398 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
12723326 CTTTTTTGTC
12723336 TTTT-ATTTTGGTATTTTT
1 TTTTAATTTTGGTATTTTT
*
12723354 TTTTAATTTT-GTTTTTTCT
1 TTTTAATTTTGGTATTTT-T
* *
12723373 TTTTAGTTTTAGTTATTTTT
1 TTTTAATTTT-GGTATTTTT
12723393 TATTTA
1 T-TTTA
12723399 TTAATTTACT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 10 0.28
19 15 0.42
20 2 0.06
21 9 0.25
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.76
Consensus pattern (19 bp):
TTTTAATTTTGGTATTTTT
Found at i:12723531 original size:11 final size:12
Alignment explanation
Indices: 12723514--12723542 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
12723504 ATACAAATAA
12723514 ATTTATAATTTT
1 ATTTATAATTTT
12723526 -TTTATAATTTT
1 ATTTATAATTTT
12723537 ATTTAT
1 ATTTAT
12723543 TTATTTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTATAATTTT
Found at i:12725022 original size:8 final size:8
Alignment explanation
Indices: 12725003--12725047 Score: 51
Period size: 7 Copynumber: 5.9 Consensus size: 8
12724993 TATTTATTAA
12725003 AAAAAGAT
1 AAAAAGAT
12725011 -AAAAGAT
1 AAAAAGAT
12725018 AAAAA-AT
1 AAAAAGAT
12725025 AAAAATGA-
1 AAAAA-GAT
*
12725033 AAAAAGAA
1 AAAAAGAT
12725041 AAAAAGA
1 AAAAAGA
12725048 AGAAGAATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 16 0.48
8 16 0.48
9 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (8 bp):
AAAAAGAT
Found at i:12725037 original size:23 final size:22
Alignment explanation
Indices: 12725002--12725045 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
12724992 TTATTTATTA
*
12725002 AAAAAAGATAAAAGATAAAAAAT
1 AAAAAAGAAAAAAGA-AAAAAAT
*
12725025 AAAAATGAAAAAAGAAAAAAA
1 AAAAAAGAAAAAAGAAAAAAA
12725046 GAAGAAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (22 bp):
AAAAAAGAAAAAAGAAAAAAAT
Found at i:12725197 original size:19 final size:20
Alignment explanation
Indices: 12725162--12725207 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
12725152 AAAAATAATT
*
12725162 AAAA-AAATTATTATTTTAA
1 AAAATAAATTACTATTTTAA
*
12725181 AAAATAAATTACT-TTTTCA
1 AAAATAAATTACTATTTTAA
12725200 AAAATAAA
1 AAAATAAA
12725208 ATAATAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATAAATTACTATTTTAA
Found at i:12725209 original size:20 final size:21
Alignment explanation
Indices: 12725165--12725209 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
12725155 AATAATTAAA
*
12725165 AAAATTATTATTTTAAAAAAT
1 AAAATTACTATTTTAAAAAAT
*
12725186 -AAATTACT-TTTTCAAAAAT
1 AAAATTACTATTTTAAAAAAT
12725205 AAAAT
1 AAAAT
12725210 AATAGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAATTACTATTTTAAAAAAT
Found at i:12725313 original size:31 final size:32
Alignment explanation
Indices: 12725260--12725319 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
12725250 AATAAAATAT
*
12725260 GAAAAAAAAGAGAAAATAAGGAAAGAGAATGG
1 GAAAAAAAAGAGAAAATAAGGAAAAAGAATGG
*
12725292 GAAAAAAAAGCAG-AAA-GAGGAAAAAGAA
1 GAAAAAAAAG-AGAAAATAAGGAAAAAGAA
12725320 AAAAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 10 0.40
32 13 0.52
33 2 0.08
ACGTcount: A:0.68, C:0.02, G:0.27, T:0.03
Consensus pattern (32 bp):
GAAAAAAAAGAGAAAATAAGGAAAAAGAATGG
Found at i:12725334 original size:24 final size:24
Alignment explanation
Indices: 12725307--12725354 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
12725297 AAAAGCAGAA
*
12725307 AGAGGAAAAAGAA-AAAAATAAAAT
1 AGAGAAAAAAGAATAAAAA-AAAAT
12725331 AGAGAAAAAAGAATAAAAAAAAAT
1 AGAGAAAAAAGAATAAAAAAAAAT
12725355 TTGGGTTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (24 bp):
AGAGAAAAAAGAATAAAAAAAAAT
Found at i:12725753 original size:20 final size:20
Alignment explanation
Indices: 12725728--12725766 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12725718 TCAAAATAAA
* *
12725728 ATATTTATTTATTAAAAATT
1 ATATTTATATATAAAAAATT
12725748 ATATTTATATATAAAAAAT
1 ATATTTATATATAAAAAAT
12725767 ATTAAATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTTATATATAAAAAATT
Found at i:12731670 original size:13 final size:15
Alignment explanation
Indices: 12731652--12731683 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
12731642 ATTTTACTAT
12731652 TTTTTCTG-TTA-TG
1 TTTTTCTGATTATTG
12731665 TTTTTCTGATTATTG
1 TTTTTCTGATTATTG
12731680 TTTT
1 TTTT
12731684 GCTTCAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 3 0.18
15 6 0.35
ACGTcount: A:0.09, C:0.06, G:0.12, T:0.72
Consensus pattern (15 bp):
TTTTTCTGATTATTG
Found at i:12733391 original size:2 final size:2
Alignment explanation
Indices: 12733384--12733416 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
12733374 CAATCAAGGG
*
12733384 TC TC TC TC TC TC TC TC TC TC TC TC TC TC CC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
12733417 TCACTGAATG
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:12734788 original size:19 final size:19
Alignment explanation
Indices: 12734764--12734811 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
12734754 ATGGTAAAGA
12734764 TTGGGAAAGAAAATATCTG
1 TTGGGAAAGAAAATATCTG
12734783 TTGGGAAAGAAAATATCTG
1 TTGGGAAAGAAAATATCTG
*
12734802 TTAGGAAAGA
1 TTGGGAAAGA
12734812 TATGCTGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.44, C:0.04, G:0.27, T:0.25
Consensus pattern (19 bp):
TTGGGAAAGAAAATATCTG
Found at i:12741745 original size:14 final size:14
Alignment explanation
Indices: 12741726--12741753 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12741716 GTGAACTTGT
12741726 AGGGATATAGGCCA
1 AGGGATATAGGCCA
12741740 AGGGATATAGGCCA
1 AGGGATATAGGCCA
12741754 GTTTGACTGA
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:0.36, C:0.14, G:0.36, T:0.14
Consensus pattern (14 bp):
AGGGATATAGGCCA
Found at i:12745576 original size:25 final size:25
Alignment explanation
Indices: 12745515--12745576 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
12745505 CAAAATAAAT
*
12745515 TAGGA-AATCA-AGCTGCACTAATG
1 TAGGAGAATCAGATCTGCACTAATG
* **
12745538 TAGAAGAAAAAGATCTGCACTAATG
1 TAGGAGAATCAGATCTGCACTAATG
12745563 TAGGAGAATCAGAT
1 TAGGAGAATCAGAT
12745577 TTTTACAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
23 4 0.13
24 3 0.10
25 23 0.77
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.21
Consensus pattern (25 bp):
TAGGAGAATCAGATCTGCACTAATG
Found at i:12749800 original size:16 final size:16
Alignment explanation
Indices: 12749779--12749813 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
12749769 GTGTGTATTG
12749779 TATTAGTTAATGAATT
1 TATTAGTTAATGAATT
12749795 TATTAGTTAATGAATT
1 TATTAGTTAATGAATT
12749811 TAT
1 TAT
12749814 ATACTAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (16 bp):
TATTAGTTAATGAATT
Found at i:12750434 original size:12 final size:12
Alignment explanation
Indices: 12750417--12750443 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
12750407 TGGTAGCGAA
12750417 ACTTAATAGCGT
1 ACTTAATAGCGT
12750429 ACTTAATAGCGT
1 ACTTAATAGCGT
12750441 ACT
1 ACT
12750444 CCAAGGAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (12 bp):
ACTTAATAGCGT
Found at i:12750914 original size:197 final size:189
Alignment explanation
Indices: 12750549--12750932 Score: 642
Period size: 197 Copynumber: 2.0 Consensus size: 189
12750539 TCACTACAAA
* *
12750549 GGTAAGGACCATGTAGGTATTTTAATGAAACATATATTCTTTTTAATTTAATCTTCGCAACAAAA
1 GGTAAGGACCATATAAGTATTTTAATGAAACATATATTCTTTTTAATTTAATCTTCGCAACAAAA
*
12750614 GTTGTTAACATCCGAATAACGTTTTAATTTTTTTAAAAAAAATGAAATATATTGGTACCAATTAT
66 GTTGTTAACATCCGAATAACGTTTTAATTTTTTTAAAAAAAATGAAATATATTGATACCAATTAT
*
12750679 TTTGATTTACTATTTCAAAATTTTCGGTTTAATACAAATATATTTATAAATATGTATAT
131 TTTGATTTACTATTTCAAAATTTTCGGTTTAATACAAATATATTTATAAACATGTATAT
12750738 GGTAAGGACCATATAAGTATTTTAATGAAACATATATTCTTTTTAATTTAATCTTCGCAACAAAA
1 GGTAAGGACCATATAAGTATTTTAATGAAACATATATTCTTTTTAATTTAATCTTCGCAACAAAA
*
12750803 GTTGTTAACATCATATATCGAATAACGTTTTAATTTTTTTTTTAAAAAAATGAAATATATTGATA
66 GTTGTTAACATC------CGAATAACGTTTTAA--TTTTTTTAAAAAAAATGAAATATATTGATA
*
12750868 CCAATTATTTTGATTTACTATTTCAAAATTTTCGGTTTAGTACAAATATATTTATAAACATGTAT
123 CCAATTATTTTGATTTACTATTTCAAAATTTTCGGTTTAATACAAATATATTTATAAACATGTAT
12750933 GAACTTGTAT
Statistics
Matches: 181, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
189 75 0.41
195 15 0.08
197 91 0.50
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (189 bp):
GGTAAGGACCATATAAGTATTTTAATGAAACATATATTCTTTTTAATTTAATCTTCGCAACAAAA
GTTGTTAACATCCGAATAACGTTTTAATTTTTTTAAAAAAAATGAAATATATTGATACCAATTAT
TTTGATTTACTATTTCAAAATTTTCGGTTTAATACAAATATATTTATAAACATGTATAT
Found at i:12751022 original size:21 final size:21
Alignment explanation
Indices: 12750998--12751045 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
12750988 TAAATTAAAT
**
12750998 AAATAAGTTTTAAAATATAAG
1 AAATAAGTTAAAAAATATAAG
12751019 AAATAAGTTAAAAAATATAAG
1 AAATAAGTTAAAAAATATAAG
12751040 AAATAA
1 AAATAA
12751046 TATCATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (21 bp):
AAATAAGTTAAAAAATATAAG
Found at i:12751266 original size:35 final size:35
Alignment explanation
Indices: 12751222--12751291 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
12751212 AGTGAAATAC
12751222 TTATAAACTTTGATTTGAAAAAATAAAATATAAAA
1 TTATAAACTTTGATTTGAAAAAATAAAATATAAAA
* * *
12751257 TTATAAACTTTGGTTTGAAACAATAAAGTATAAAA
1 TTATAAACTTTGATTTGAAAAAATAAAATATAAAA
12751292 AAAATTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (35 bp):
TTATAAACTTTGATTTGAAAAAATAAAATATAAAA
Found at i:12751823 original size:25 final size:25
Alignment explanation
Indices: 12751795--12751846 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
12751785 TGATAAGATG
12751795 TTCAATTTCTCTTATAAGTTTATGA
1 TTCAATTTCTCTTATAAGTTTATGA
12751820 TTCAATTTCTCTTATAAGTTTATGA
1 TTCAATTTCTCTTATAAGTTTATGA
12751845 TT
1 TT
12751847 GATAACATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.54
Consensus pattern (25 bp):
TTCAATTTCTCTTATAAGTTTATGA
Found at i:12758048 original size:21 final size:21
Alignment explanation
Indices: 12758022--12758064 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
12758012 GAAAAAATAT
*
12758022 AAAAAAAGGAGAACGAAAAAA
1 AAAAAAAGGAAAACGAAAAAA
*
12758043 AAAAAAAGGAAAAGGAAAAAA
1 AAAAAAAGGAAAACGAAAAAA
12758064 A
1 A
12758065 GCTCTTTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (21 bp):
AAAAAAAGGAAAACGAAAAAA
Found at i:12758873 original size:17 final size:19
Alignment explanation
Indices: 12758835--12758881 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
12758825 ATTAAAAAAT
* *
12758835 AAAGGAAGAAACAATTAAA
1 AAAGAAAGAAACAATCAAA
12758854 AAA-AAAGAAA-AATCAAA
1 AAAGAAAGAAACAATCAAA
12758871 AAAGAAAGAAA
1 AAAGAAAGAAA
12758882 GTCGAGTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 9 0.36
18 13 0.52
19 3 0.12
ACGTcount: A:0.77, C:0.04, G:0.13, T:0.06
Consensus pattern (19 bp):
AAAGAAAGAAACAATCAAA
Found at i:12759041 original size:18 final size:18
Alignment explanation
Indices: 12759013--12759047 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12759003 GATCCCACAT
12759013 TAAAAAAAATA-AAATAC
1 TAAAAAAAATATAAATAC
12759030 TAAAAGAAAATATAAATA
1 TAAAA-AAAATATAAATA
12759048 TTTAAAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 6 0.38
19 5 0.31
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (18 bp):
TAAAAAAAATATAAATAC
Found at i:12759053 original size:20 final size:17
Alignment explanation
Indices: 12759011--12759055 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
12759001 TGGATCCCAC
12759011 ATTAAAAAAAATAAAAT
1 ATTAAAAAAAATAAAAT
*
12759028 ACTAAAAGAAAATATAAAT
1 ATTAAAA-AAAATA-AAAT
12759047 ATTTAAAAA
1 A-TTAAAAA
12759056 GGAAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 6 0.26
18 6 0.26
19 6 0.26
20 5 0.22
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (17 bp):
ATTAAAAAAAATAAAAT
Found at i:12759302 original size:19 final size:20
Alignment explanation
Indices: 12759280--12759318 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
12759270 ACAAAAAAGA
*
12759280 ATTTG-AAATCTAAAAAAAT
1 ATTTGTAAATATAAAAAAAT
12759299 ATTTGTTAAATATAAAAAAA
1 ATTTG-TAAATATAAAAAAA
12759319 AGAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
21 12 0.71
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (20 bp):
ATTTGTAAATATAAAAAAAT
Found at i:12759510 original size:18 final size:18
Alignment explanation
Indices: 12759487--12759521 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12759477 AAATATATTC
12759487 ATTAAATATTATA-AAATT
1 ATTAAA-ATTATACAAATT
12759505 ATTAAAATTATACAAAT
1 ATTAAAATTATACAAAT
12759522 AAAAAGGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTAAAATTATACAAATT
Found at i:12759553 original size:17 final size:17
Alignment explanation
Indices: 12759533--12759567 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12759523 AAAAGGTTAT
*
12759533 AAAACAAAAAAAGCAAA
1 AAAAAAAAAAAAGCAAA
*
12759550 AAAAAAAAAAAAGGAAA
1 AAAAAAAAAAAAGCAAA
12759567 A
1 A
12759568 CAAGTAAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.86, C:0.06, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAGCAAA
Found at i:12763867 original size:17 final size:17
Alignment explanation
Indices: 12763842--12763885 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
12763832 TCATTATATT
*
12763842 TATTATTATTTTATTTTG
1 TATT-TTATTTTATTTTC
*
12763860 TATTTTATTTTTTTTTC
1 TATTTTATTTTATTTTC
*
12763877 AATTTTATT
1 TATTTTATT
12763886 ATTTGGGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (17 bp):
TATTTTATTTTATTTTC
Found at i:12764811 original size:16 final size:16
Alignment explanation
Indices: 12764792--12764828 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
12764782 ATTTTATTTG
*
12764792 ATTTTCTTGTTTTTCT
1 ATTTTATTGTTTTTCT
*
12764808 ATTTTATTTTTTTTCT
1 ATTTTATTGTTTTTCT
12764824 ATTTT
1 ATTTT
12764829 TTAATTATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.08, G:0.03, T:0.78
Consensus pattern (16 bp):
ATTTTATTGTTTTTCT
Found at i:12765147 original size:14 final size:14
Alignment explanation
Indices: 12765116--12765163 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
12765106 AATTTTATGA
12765116 TTTATTTTGCATGA-T
1 TTTATTTTG-AT-ATT
12765131 TTTATTTTGATATT
1 TTTATTTTGATATT
*
12765145 TTTATTATGATATT
1 TTTATTTTGATATT
12765159 GTTTA
1 -TTTA
12765164 ATGATTCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 1 0.03
14 16 0.53
15 13 0.43
ACGTcount: A:0.23, C:0.02, G:0.10, T:0.65
Consensus pattern (14 bp):
TTTATTTTGATATT
Found at i:12765613 original size:17 final size:18
Alignment explanation
Indices: 12765591--12765629 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
12765581 ATAATTTTAA
*
12765591 AAATGATAAATT-CATTT
1 AAATGATAAATTACATCT
*
12765608 AAATGATCAATTACATCT
1 AAATGATAAATTACATCT
12765626 AAAT
1 AAAT
12765630 AAAAATATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (18 bp):
AAATGATAAATTACATCT
Found at i:12769025 original size:3 final size:3
Alignment explanation
Indices: 12769019--12769059 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
12769009 AAATGAAGAA
* *
12769019 GAT GAT GAT GAT AAT GAT GAT GAT AAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
12769060 AGATAAGGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:12769035 original size:12 final size:12
Alignment explanation
Indices: 12769020--12769059 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
12769010 AATGAAGAAG
12769020 ATGATGATGATA
1 ATGATGATGATA
12769032 ATGATGATGATA
1 ATGATGATGATA
*
12769044 ATGATGATGATG
1 ATGATGATGATA
12769056 ATGA
1 ATGA
12769060 AGATAAGGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.33
Consensus pattern (12 bp):
ATGATGATGATA
Found at i:12772006 original size:59 final size:58
Alignment explanation
Indices: 12771920--12772374 Score: 320
Period size: 59 Copynumber: 7.7 Consensus size: 58
12771910 TATACAAGGG
* *
12771920 AAAATTGATACTTTCAATTTTTTCTCAAAATATATTTTTTTGAAATTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTTGAAA-TTTAATTTCGAGA
* * * * * * **
12771979 AAAATTGATATTTTTAACTTTTCCTCAAAA-AAACCTTTCTTGAGAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAATATA-TTTTTTTGA-AATTTAATTTCGAGA
12772038 AAAATTGATACTTTCAACTTTTCCTCAAAA-ATATTTTTTTAGAAACTTTAATTTCGA-A
1 AAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTT-GAAA-TTTAATTTCGAGA
** * * * ** * *
12772096 AAAATTGATACTTTCAACTTTTTTTAAAAAAAAAAAACTCTTTTTTTTTAATTTATATTT-AAGG
1 AAAATTGATACTTTCAACTTTTCCT-----CAAAATA-TATTTTTTTGAAATTTA-ATTTCGAGA
* * **
12772160 AAAATTGATACTTTCAACTTTTCCTCAAAACTTTTTTTTTTTTGAAAATTT-ATTTTTA-A
1 AAAATTGATACTTTCAACTTTTCCTCAAAA--TATATTTTTTTG-AAATTTAATTTCGAGA
* * *
12772219 AGAAAATAATACTTTCAACTTTT-CTCCAAAA-ATATTTTTTGGAAAACTTTTAATTTCGAGA
1 A-AAATTGATACTTTCAACTTTTCCT-CAAAATATATTTTTTTG-AAA--TTTAATTTCGAGA
* * * * * *
12772280 AAAATTGATACTTTCAACTTTTCCTGAAAACT-TTTTTTTTTAAAATTT-ATTCCTAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAA-TATATTTTTTTGAAATTTAATTTCGAGA
* * *
12772337 GAAAATTGATACTTTTAATTTTTTCTCAAAATA-ATTTT
1 -AAAATTGATACTTTCAACTTTTCCTCAAAATATATTTT
12772375 ATTTAAAAAA
Statistics
Matches: 311, Mismatches: 57, Indels: 58
0.73 0.13 0.14
Matches are distributed among these distances:
57 23 0.07
58 62 0.20
59 97 0.31
60 66 0.21
61 16 0.05
63 9 0.03
64 30 0.10
65 8 0.03
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.46
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTTGAAATTTAATTTCGAGA
Found at i:12772380 original size:58 final size:57
Alignment explanation
Indices: 12771919--12772382 Score: 282
Period size: 60 Copynumber: 7.8 Consensus size: 57
12771909 TTATACAAGG
* * * * *
12771919 GAAAATTGATACTTTCAATTTTTTCTCAAAATATATTTTTTTGAAATTTTAATTTCGAGA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAATA-ATTTTTTT-AAAATTT-ATTTCTAAA
* * * * * * *
12771979 -AAAATTGATATTTTTAACTTTTCCTCAAAAAAACCTTTCTTGAGAATTTATTT-TTAA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAATAA--TTTTTTTAAAATTTATTTCTAAA
*
12772036 GAAAAATTGATACTTTCAACTTTTCCTCAAAA-ATATTTTTTTAGAAACTTTAATTTC-GAA
1 G-AAAATTGATACTTTCAACTTTTCCTCAAAATA-ATTTTTTTA-AAA-TTT-ATTTCTAAA
** * * ** *
12772096 -AAAATTGATACTTTCAACTTTTTTTAAAAAAAAAAAACTCTTTTTTTTTAATTTATATT-TAAG
1 GAAAATTGATACTTTCAACTTTTCCT----CAAAATAA---TTTTTTTAAAATTTAT-TTCTAAA
** *
12772159 GAAAATTGATACTTTCAACTTTTCCTCAAAACTTTTTTTTTTTTGAAAATTTATTTTTAAA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAA---TAATTTTTTT-AAAATTTATTTCTAAA
* * * *
12772220 GAAAA-TAATACTTTCAACTTTT-CTCCAAAA-ATATTTTTTGGAAAACTTTTAATTTCGAGA
1 GAAAATTGATACTTTCAACTTTTCCT-CAAAATA-ATTTTTT-TAAAA--TTT-ATTTCTAAA
* ** *
12772280 -AAAATTGATACTTTCAACTTTTCCTGAAAACTTTTTTTTTTAAAATTTATTCCTAAA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAA-TAATTTTTTTAAAATTTATTTCTAAA
* * *
12772337 GAAAATTGATACTTTTAATTTTTTCTCAAAATAATTTTATTTAAAA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAATAATTTT-TTTAAAA
12772383 AAAATAAAAT
Statistics
Matches: 312, Mismatches: 55, Indels: 76
0.70 0.12 0.17
Matches are distributed among these distances:
57 28 0.09
58 67 0.21
59 73 0.23
60 75 0.24
61 23 0.07
62 7 0.02
63 7 0.02
64 25 0.08
65 7 0.02
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (57 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAATAATTTTTTTAAAATTTATTTCTAAA
Found at i:12772419 original size:29 final size:26
Alignment explanation
Indices: 12772384--12772441 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 26
12772374 TATTTAAAAA
*
12772384 AAATAAAATAATAAAATAAAAATGAAGAT
1 AAATAAAAAAAT-AAATAAAAAT-AA-AT
12772413 AAATAAAAAAATAAATAAAAATAAAT
1 AAATAAAAAAATAAATAAAAATAAAT
12772439 AAA
1 AAA
12772442 ATATTAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 10 0.36
29 11 0.39
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (26 bp):
AAATAAAAAAATAAATAAAAATAAAT
Found at i:12772421 original size:22 final size:22
Alignment explanation
Indices: 12772382--12772442 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 22
12772372 TTTATTTAAA
*
12772382 AAAAATAAAATAATAAAATAAA-
1 AAAAAT-AAATAAAAAAATAAAT
12772404 AATGAAGATAAATAAAAAAATAAAT
1 AA--AA-ATAAATAAAAAAATAAAT
12772429 AAAAATAAATAAAA
1 AAAAATAAATAAAA
12772443 TATTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 12 0.35
23 2 0.06
24 16 0.47
25 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (22 bp):
AAAAATAAATAAAAAAATAAAT
Found at i:12772451 original size:11 final size:10
Alignment explanation
Indices: 12772378--12772442 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
12772368 TAATTTTATT
12772378 TAAAAA-AAA
1 TAAAAATAAA
12772387 T-AAAAT-AA
1 TAAAAATAAA
*
12772395 TAAAATAAAAA
1 TAAAA-ATAAA
* *
12772406 TGAAGATAAA
1 TAAAAATAAA
12772416 TAAAAAAATAAA
1 T--AAAAATAAA
12772428 TAAAAATAAA
1 TAAAAATAAA
12772438 TAAAA
1 TAAAA
12772443 TATTAATAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
8 7 0.16
9 4 0.09
10 20 0.45
11 5 0.11
12 8 0.18
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.18
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:12773380 original size:22 final size:22
Alignment explanation
Indices: 12773327--12773406 Score: 85
Period size: 22 Copynumber: 3.7 Consensus size: 22
12773317 ATATTAATGA
12773327 AAATAATCAGATAAA-TAAAAA-
1 AAATAAT-AGATAAATTAAAAAT
* *
12773348 AATTAACAGATAAATTAAAAAT
1 AAATAATAGATAAATTAAAAAT
*
12773370 AAATAATAGATAAATT-ATAAT
1 AAATAATAGATAAATTAAAAAT
*
12773391 ATATAATTAGATAAAT
1 AAATAA-TAGATAAAT
12773407 ATATATATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
20 7 0.14
21 20 0.40
22 23 0.46
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.29
Consensus pattern (22 bp):
AAATAATAGATAAATTAAAAAT
Found at i:12773414 original size:22 final size:21
Alignment explanation
Indices: 12773329--12773416 Score: 74
Period size: 21 Copynumber: 4.2 Consensus size: 21
12773319 ATTAATGAAA
* * *
12773329 ATAATCAGATAAATAAAAAAAT
1 ATAAT-AGATAAATTATAATAT
* * *
12773351 -TAACAGATAAATTAAAAATAA
1 ATAATAGATAAATT-ATAATAT
12773372 ATAATAGATAAATTATAATAT
1 ATAATAGATAAATTATAATAT
12773393 ATAATTAGATAAA-TAT-ATAT
1 ATAA-TAGATAAATTATAATAT
12773413 ATAA
1 ATAA
12773417 ATATTAACAA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
20 16 0.29
21 20 0.36
22 20 0.36
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (21 bp):
ATAATAGATAAATTATAATAT
Found at i:12773418 original size:12 final size:12
Alignment explanation
Indices: 12773355--12773420 Score: 52
Period size: 11 Copynumber: 5.8 Consensus size: 12
12773345 AAAAATTAAC
*
12773355 AGATAAAT-TAA
1 AGATAAATATAT
*
12773366 AAATAAATA-AT
1 AGATAAATATAT
12773377 AGATAAAT-TAT
1 AGATAAATATAT
*
12773388 A-ATATATA-ATT
1 AGATAAATATA-T
12773399 AGATAAATATAT
1 AGATAAATATAT
*
12773411 ATATAAATAT
1 AGATAAATAT
12773421 TAACAAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
10 6 0.14
11 20 0.47
12 16 0.37
13 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AGATAAATATAT
Found at i:12773489 original size:8 final size:7
Alignment explanation
Indices: 12773363--12773514 Score: 59
Period size: 6 Copynumber: 21.0 Consensus size: 7
12773353 ACAGATAAAT
12773363 TAAA-AA
1 TAAATAA
12773369 TAAATAA
1 TAAATAA
*
12773376 TAGATAAA
1 TAAAT-AA
12773384 TTATAATATA
1 -TA-AATA-A
*
12773394 TAATTAGA
1 TAAATA-A
12773402 TAAAT-A
1 TAAATAA
*
12773408 TATAT-A
1 TAAATAA
*
12773414 TAAATAT
1 TAAATAA
12773421 TAACA-AA
1 TAA-ATAA
* *
12773428 AAAATAG
1 TAAATAA
12773435 T-AATAA
1 TAAATAA
12773441 T-AATAA
1 TAAATAA
12773447 TAAGGATATA
1 TAA--ATA-A
*
12773457 TATATTAA
1 TA-AATAA
*
12773465 TAAATAG
1 TAAATAA
12773472 T-AATAA
1 TAAATAA
12773478 TAAATGAA
1 TAAAT-AA
12773486 TAAATAA
1 TAAATAA
12773493 TAAATACA
1 TAAATA-A
12773501 TAAGATAA
1 TAA-ATAA
12773509 -AAATAA
1 TAAATAA
12773515 AAGGAAAAAT
Statistics
Matches: 112, Mismatches: 17, Indels: 34
0.69 0.10 0.21
Matches are distributed among these distances:
6 35 0.31
7 31 0.28
8 26 0.23
9 13 0.12
10 6 0.05
11 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.31
Consensus pattern (7 bp):
TAAATAA
Found at i:12773503 original size:15 final size:14
Alignment explanation
Indices: 12773363--12773514 Score: 59
Period size: 15 Copynumber: 10.5 Consensus size: 14
12773353 ACAGATAAAT
12773363 TAAA-AATAAATAA
1 TAAATAATAAATAA
*
12773376 TAGATAAATTATAATATA
1 TAAAT-AA-TA-AATA-A
*
12773394 TAATTAGATAAAT-A
1 TAAATA-ATAAATAA
* *
12773408 TATAT-ATAAATAT
1 TAAATAATAAATAA
* *
12773421 TAACA-AAAAAATAG
1 TAA-ATAATAAATAA
12773435 T-AATAAT-AATAA
1 TAAATAATAAATAA
*
12773447 TAAGGATATATATATTAA
1 TAA--ATA-ATA-AATAA
*
12773465 TAAATAGT-AATAA
1 TAAATAATAAATAA
12773478 TAAATGAATAAATAA
1 TAAAT-AATAAATAA
12773493 TAAATACATAAGATAA
1 TAAATA-ATAA-ATAA
12773509 -AAATAA
1 TAAATAA
12773515 AAGGAAAAAT
Statistics
Matches: 104, Mismatches: 15, Indels: 39
0.66 0.09 0.25
Matches are distributed among these distances:
12 12 0.12
13 18 0.17
14 16 0.15
15 25 0.24
16 14 0.13
17 7 0.07
18 12 0.12
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.31
Consensus pattern (14 bp):
TAAATAATAAATAA
Found at i:12773542 original size:7 final size:7
Alignment explanation
Indices: 12773532--12773595 Score: 74
Period size: 7 Copynumber: 8.9 Consensus size: 7
12773522 AATATATATA
12773532 AAAAAAT
1 AAAAAAT
12773539 AAAAAAT
1 AAAAAAT
12773546 ATAAAAAT
1 A-AAAAAT
*
12773554 ATAAAAT
1 AAAAAAT
*
12773561 ATAAAAT
1 AAAAAAT
*
12773568 AGAAAAT
1 AAAAAAT
12773575 ACAAAAAT
1 A-AAAAAT
*
12773583 AAAAATT
1 AAAAAAT
12773590 AAAAAA
1 AAAAAA
12773596 AGAAAATGAG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
7 37 0.74
8 13 0.26
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (7 bp):
AAAAAAT
Found at i:12773542 original size:8 final size:8
Alignment explanation
Indices: 12773529--12773601 Score: 51
Period size: 8 Copynumber: 8.8 Consensus size: 8
12773519 AAAAATATAT
12773529 ATAAAAAA
1 ATAAAAAA
12773537 ATAAAAAA
1 ATAAAAAA
*
12773545 TATAAAAAT
1 -ATAAAAAA
12773554 ATAAAATATA
1 ATAAAA-A-A
12773564 A-AATAGAAA
1 ATAA-A-AAA
*
12773573 ATACAAAA
1 ATAAAAAA
12773581 AT-AAAAA
1 ATAAAAAA
*
12773588 TTAAAAAA
1 ATAAAAAA
*
12773596 AGAAAA
1 ATAAAA
12773602 TGAGCTTACC
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
7 5 0.10
8 28 0.55
9 13 0.25
10 4 0.08
11 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.18
Consensus pattern (8 bp):
ATAAAAAA
Found at i:12773551 original size:15 final size:15
Alignment explanation
Indices: 12773533--12773601 Score: 77
Period size: 15 Copynumber: 4.7 Consensus size: 15
12773523 ATATATATAA
12773533 AAAAATAAAAAATAT
1 AAAAATAAAAAATAT
*
12773548 AAAAATATAAAATAT
1 AAAAATAAAAAATAT
* *
12773563 -AAAATAGAAAATAC
1 AAAAATAAAAAATAT
* *
12773577 AAAAATAAAAATTAA
1 AAAAATAAAAAATAT
*
12773592 AAAAAGAAAA
1 AAAAATAAAA
12773602 TGAGCTTACC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
14 12 0.26
15 34 0.74
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.17
Consensus pattern (15 bp):
AAAAATAAAAAATAT
Found at i:12773552 original size:29 final size:28
Alignment explanation
Indices: 12773519--12773601 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 28
12773509 AAATAAAAGG
*
12773519 AAAAATATATATAAAAAAATAAAAAATAT
1 AAAAATATA-ATAAAAAAATAAAAAATAC
*
12773548 AAAAATATAA-AATATAAAATAGAAAATAC
1 AAAAATATAATAA-A-AAAATAAAAAATAC
* *
12773577 AAAAATAAAAATTAAAAAAAGAAAA
1 AAAAAT-ATAA-TAAAAAAATAAAA
12773602 TGAGCTTACC
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
27 2 0.05
28 2 0.05
29 27 0.61
30 10 0.23
31 1 0.02
32 2 0.05
ACGTcount: A:0.77, C:0.01, G:0.02, T:0.19
Consensus pattern (28 bp):
AAAAATATAATAAAAAAATAAAAAATAC
Found at i:12773880 original size:42 final size:44
Alignment explanation
Indices: 12773788--12773891 Score: 140
Period size: 42 Copynumber: 2.4 Consensus size: 44
12773778 TTCTCTAAGA
* *
12773788 AGAGGCTTAACGACTTTGAAAAACATAAACAATGCTCCTCTAATC
1 AGAGGCTCAACGACTTTG-AAAACATAAACAAAGCTCCTCTAATC
* *
12773833 AGAGGCTCAACGACTTTG-AAA-ATGAATAAAGCTCCTCTAATC
1 AGAGGCTCAACGACTTTGAAAACATAAACAAAGCTCCTCTAATC
*
12773875 AGAGGCTCAATGACTTT
1 AGAGGCTCAACGACTTT
12773892 TGAAGAGTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
42 34 0.63
43 3 0.06
45 17 0.31
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (44 bp):
AGAGGCTCAACGACTTTGAAAACATAAACAAAGCTCCTCTAATC
Found at i:12773913 original size:42 final size:41
Alignment explanation
Indices: 12773821--12773921 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 41
12773811 CATAAACAAT
12773821 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTG-AAATGAATAAA
* *
12773863 GCTCCTCTAATCAGAGGCTCAATGACTTTTG-AA-GAGTAAA
1 GCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAATGAATAAA
*
12773903 TGGCTTCTCTAATCAGAGG
1 --GCTCCTCTAATCAGAGG
12773922 TAATTTTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
40 6 0.11
41 2 0.04
42 41 0.77
43 4 0.08
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (41 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTGAAATGAATAAA
Found at i:12774100 original size:44 final size:44
Alignment explanation
Indices: 12774037--12774125 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
12774027 TTTTTTTTTT
*
12774037 AAATAAAATGGCTCTTCTAATCAAAGGCTTAACGACTTTTAGAAA
1 AAATAAAATGGCTCATCTAATCAAAGGCTTAACGACTTTTA-AAA
*
12774082 AAAT-AAATGGCTCATCTAATCAGAGGCTTAACGACTTTTAAAA
1 AAATAAAATGGCTCATCTAATCAAAGGCTTAACGACTTTTAAAA
12774125 A
1 A
12774126 GTACATGCTC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 4 0.10
44 34 0.81
45 4 0.10
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (44 bp):
AAATAAAATGGCTCATCTAATCAAAGGCTTAACGACTTTTAAAA
Found at i:12775158 original size:29 final size:28
Alignment explanation
Indices: 12775102--12775158 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
12775092 CCTTGAGTCC
*
12775102 TCATTTTTCATTCATTTTTTTTCATTTTT
1 TCATTTTTCATTCATTTCTTTT-ATTTTT
12775131 TCATTTTTCATTTTCATTTCTTTT-TTTT
1 TCATTTTTCA--TTCATTTCTTTTATTTT
12775159 AAGCATAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 14 0.56
31 11 0.44
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (28 bp):
TCATTTTTCATTCATTTCTTTTATTTTT
Found at i:12785797 original size:59 final size:59
Alignment explanation
Indices: 12785671--12785948 Score: 303
Period size: 60 Copynumber: 4.6 Consensus size: 59
12785661 TGTACAAGAA
* * *
12785671 AAAATTGATACCTTCAACTTTTCCCCAAAATATTTTTTTTTTG-AAA-TTTTAATTTCG-AG
1 AAAATTGATACTTTCAACTTTTCCTCAAAA-A--TATTTTTTGAAAACTTTTAATTTCGAAG
* *
12785730 AAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTAATTTCGAAG
1 -AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACTTTTAATTTCGAAG
* * * ** **
12785790 AAAATTGATATTTTCAACTTTTCCTCAAAATAAATTTTTTTTAAAAAATTT-ATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAA-ATA-TTTTTTGAAAACTTTTAATTTCGAA-G
* ** *
12785851 AAAATTGATACTTTTAACTTTTTTTCAAAAATATTTTTTGAAAAACTTTTAATTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTG-AAAACTTTTAATTTCGAAG
*
12785911 AAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT
12785949 ATTTAAAAAA
Statistics
Matches: 185, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
57 8 0.04
58 3 0.02
59 46 0.25
60 83 0.45
61 45 0.24
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACTTTTAATTTCGAAG
Found at i:12785904 original size:121 final size:120
Alignment explanation
Indices: 12785671--12785958 Score: 382
Period size: 121 Copynumber: 2.4 Consensus size: 120
12785661 TGTACAAGAA
* * * ** * *
12785671 AAAATTGATACCTTCAACTTTTCCCCAAAAT-ATTTTTTTTTTGAAATTTTAATTTCGAGAAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAATAAATTTTTTTTAAAAAATTTAATTTCAAGAAAAA
* *
12785735 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTAATTTCGAAG
66 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTTAATTTCAAAG
* * * *
12785790 AAAATTGATATTTTCAACTTTTCCTCAAAATAAATTTTTTTTAAAAAATTTATTTTTAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAATAAATTTTTTTTAAAAAATTTAATTTCAAGAAAAA
* ***
12785855 TTGATACTTTTAACTTTTTTTCAAAAATATTTTTTGAAAAACTTTTAATTTCAAAG
66 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTG-AAAACTTTTAATTTCAAAG
*
12785911 AAAATTGATACTTTCAACTTTTCCTCAAAA-ATAATTTTATTTAAAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAATA-AATTTTTTTTAAAAAA
12785959 AATAAAATAA
Statistics
Matches: 147, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
119 28 0.19
120 58 0.39
121 61 0.41
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.44
Consensus pattern (120 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAATAAATTTTTTTTAAAAAATTTAATTTCAAGAAAAA
TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTTAATTTCAAAG
Found at i:12785974 original size:17 final size:17
Alignment explanation
Indices: 12785954--12786013 Score: 50
Period size: 17 Copynumber: 3.3 Consensus size: 17
12785944 ATTTTATTTA
12785954 AAAAAAATAAAATAAAT
1 AAAAAAATAAAATAAAT
*
12785971 AAAATAAAAATGAAGATAAAT
1 --AA-AAAAAT-AAAATAAAT
*
12785992 -AAAAAATAAATAAAAAT
1 AAAAAAATAAA-ATAAAT
12786009 AAAAA
1 AAAAA
12786014 TATTAAACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
16 2 0.06
17 11 0.32
18 5 0.15
19 2 0.06
20 6 0.18
21 8 0.24
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAAAAATAAAATAAAT
Found at i:12785989 original size:21 final size:20
Alignment explanation
Indices: 12785956--12786011 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 20
12785946 TTTATTTAAA
12785956 AAAAATAAAATAAATAAAAT
1 AAAAATAAAATAAATAAAAT
*
12785976 AAAAATGAAGATAAATAAAA-
1 AAAAAT-AAAATAAATAAAAT
12785996 AATAAATAAAAATAAA
1 AA-AAAT-AAAATAAA
12786012 AATATTAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.26
21 23 0.74
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (20 bp):
AAAAATAAAATAAATAAAAT
Found at i:12786055 original size:21 final size:20
Alignment explanation
Indices: 12785955--12786064 Score: 59
Period size: 21 Copynumber: 5.3 Consensus size: 20
12785945 TTTTATTTAA
12785955 AAAAAATAAAATAAATAAAAT
1 AAAAAAT-AAATAAATAAAAT
12785976 -AAAAATGAAGATAAATAAAA-
1 AAAAAAT-AA-ATAAATAAAAT
*
12785996 AATAAAT-AA-AAATAAAAAT
1 AAAAAATAAATAAAT-AAAAT
** *
12786015 ATTAAACAAT-TTTGATATAATAAT
1 A--AAA-AATAAAT-AAATAA-AAT
*
12786039 AAAAAATAAATAAATAAAAC
1 AAAAAATAAATAAATAAAAT
12786059 AAAAAA
1 AAAAAA
12786065 AACCTAAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 23
0.67 0.10 0.23
Matches are distributed among these distances:
17 4 0.06
18 5 0.07
19 2 0.03
20 16 0.24
21 25 0.37
22 7 0.10
23 2 0.03
24 7 0.10
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.22
Consensus pattern (20 bp):
AAAAAATAAATAAATAAAAT
Found at i:12786350 original size:28 final size:26
Alignment explanation
Indices: 12786318--12786370 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
12786308 TCAGCAGAAC
12786318 CCTTCTTTCCTCTCTCTCTCTCTCTCTT
1 CCTTC-TTCCTCTCT-TCTCTCTCTCTT
* *
12786346 CCTTCTTCTTCTCTTCTTTCTCTCT
1 CCTTCTTCCTCTCTTCTCTCTCTCT
12786371 AAAAACCCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 10 0.43
27 8 0.35
28 5 0.22
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (26 bp):
CCTTCTTCCTCTCTTCTCTCTCTCTT
Found at i:12787017 original size:22 final size:22
Alignment explanation
Indices: 12786944--12787026 Score: 75
Period size: 22 Copynumber: 3.8 Consensus size: 22
12786934 ATTAATGAAA
** *
12786944 ATAATCAGATAAACCAAAAAAT
1 ATAATCAGATAAATTATAAAAT
12786966 -TAA-CAGATAAATTA-AAAAT
1 ATAATCAGATAAATTATAAAAT
*
12786985 AAATAAT-AGATAAATTATAACAT
1 --ATAATCAGATAAATTATAAAAT
12787008 ATAATCAGATAAATATATA
1 ATAATCAGATAAAT-TATA
12787027 TATATAAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
19 5 0.10
20 9 0.18
21 8 0.16
22 21 0.41
23 8 0.16
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (22 bp):
ATAATCAGATAAATTATAAAAT
Found at i:12787031 original size:22 final size:22
Alignment explanation
Indices: 12786969--12787033 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
12786959 AAAAAATTAA
* * *
12786969 CAGATAAATTAAAAATAAATAAT
1 CAGATAAA-TATATATATATAAT
*
12786992 -AGATAAAT-TATAACATATAAT
1 CAGATAAATATAT-ATATATAAT
12787013 CAGATAAATATATATATATAA
1 CAGATAAATATATATATATAA
12787034 ATATTAACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
20 1 0.03
21 8 0.24
22 22 0.65
23 3 0.09
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (22 bp):
CAGATAAATATATATATATAAT
Found at i:12787104 original size:8 final size:7
Alignment explanation
Indices: 12787077--12787159 Score: 61
Period size: 6 Copynumber: 12.0 Consensus size: 7
12787067 ATATATATAT
12787077 TAATAAA
1 TAATAAA
*
12787084 TAGT-AA
1 TAATAAA
12787090 TAATAAA
1 TAATAAA
12787097 TGAATAAA
1 T-AATAAA
12787105 TAATAAA
1 TAATAAA
12787112 TACATAAAA
1 TA-AT-AAA
12787121 TAA-AAA
1 TAATAAA
12787127 TAA-AAGA
1 TAATAA-A
*
12787134 -AATATA
1 TAATAAA
12787140 T-ATATAA
1 TAATA-AA
12787147 TAATAAA
1 TAATAAA
12787154 -AATAAA
1 TAATAAA
12787160 ATACAAATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
6 25 0.40
7 20 0.32
8 13 0.21
9 5 0.08
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.27
Consensus pattern (7 bp):
TAATAAA
Found at i:12787118 original size:15 final size:15
Alignment explanation
Indices: 12787088--12787162 Score: 63
Period size: 15 Copynumber: 5.3 Consensus size: 15
12787078 AATAAATAGT
12787088 AATAATAAATGAAT-A
1 AATAATAAAT-AATAA
12787103 AATAATAAATACATAA
1 AATAATAAATA-ATAA
12787119 AATAA-AAATAA-AA
1 AATAATAAATAATAA
* * *
12787132 GA-AATATAT-ATAT
1 AATAATAAATAATAA
12787145 AATAATAAA-AATAA
1 AATAATAAATAATAA
12787159 AATA
1 AATA
12787163 CAAATTTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
12 3 0.06
13 8 0.17
14 14 0.29
15 17 0.35
16 6 0.12
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (15 bp):
AATAATAAATAATAA
Found at i:12787137 original size:28 final size:29
Alignment explanation
Indices: 12787106--12787160 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
12787096 ATGAATAAAT
12787106 AATAAATACATAA-AATAAAAATAAAAGA
1 AATAAATACATAATAATAAAAATAAAAGA
* *
12787134 AATATATATATAATAATAAAAATAAAA
1 AATAAATACATAATAATAAAAATAAAA
12787161 TACAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (29 bp):
AATAAATACATAATAATAAAAATAAAAGA
Found at i:12789239 original size:3 final size:3
Alignment explanation
Indices: 12789231--12789257 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
12789221 ATTCGTTAAC
12789231 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
12789258 TTATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12789262 original size:3 final size:3
Alignment explanation
Indices: 12789256--12789307 Score: 95
Period size: 3 Copynumber: 17.0 Consensus size: 3
12789246 ATAATAATAA
12789256 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
12789305 TAT
1 TAT
12789308 ATAGAGGGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:12789736 original size:25 final size:22
Alignment explanation
Indices: 12789708--12789757 Score: 55
Period size: 25 Copynumber: 2.1 Consensus size: 22
12789698 TAAATTTTAA
*
12789708 TAATTGTAAACCATTCTTTTGTTAT
1 TAATTATAAACC--TCTTTTG-TAT
*
12789733 TAATTATAGACCTCTTTTGTAT
1 TAATTATAAACCTCTTTTGTAT
12789755 TAA
1 TAA
12789758 AAATAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 6 0.26
23 7 0.30
25 10 0.43
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (22 bp):
TAATTATAAACCTCTTTTGTAT
Found at i:12797396 original size:9 final size:10
Alignment explanation
Indices: 12797382--12797415 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 10
12797372 ATATATAATT
12797382 TTAA-TTTTA
1 TTAATTTTTA
12797391 TTAATTTTTA
1 TTAATTTTTA
12797401 TATAATTTTTA
1 T-TAATTTTTA
12797412 TTAA
1 TTAA
12797416 AATTTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.17
10 9 0.39
11 10 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTAATTTTTA
Found at i:12804783 original size:2 final size:2
Alignment explanation
Indices: 12804778--12804802 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12804768 ATTATTTTAC
12804778 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
12804803 GAGCTTGAGC
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:12806186 original size:12 final size:11
Alignment explanation
Indices: 12806158--12806243 Score: 68
Period size: 12 Copynumber: 7.6 Consensus size: 11
12806148 AAGCTAAAAA
12806158 AATTTTAATTT
1 AATTTTAATTT
12806169 AATTTTAATTT
1 AATTTTAATTT
12806180 CAATTTTAATTT
1 -AATTTTAATTT
***
12806192 AGGCTTAGATTT
1 AATTTTA-ATTT
*
12806204 -TTTTTAATTT
1 AATTTTAATTT
* *
12806214 AGTTTTGATTTT
1 AATTTT-AATTT
12806226 AATTTGTAATTT
1 AATTT-TAATTT
12806238 -ATTTTA
1 AATTTTA
12806244 GTTAAAGAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
10 6 0.10
11 26 0.43
12 27 0.45
13 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (11 bp):
AATTTTAATTT
Found at i:12806237 original size:7 final size:6
Alignment explanation
Indices: 12806158--12806237 Score: 53
Period size: 6 Copynumber: 13.8 Consensus size: 6
12806148 AAGCTAAAAA
* ***
12806158 AATTTT AA-TTT AATTTT AATTTC AATTTT AA-TTT AGGCTT AGATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT A-ATTTT
* *
12806205 --TTTT AA-TTT AGTTTT GATTTT AATTTGT AATTT
1 AATTTT AATTTT AATTTT AATTTT AATTT-T AATTT
12806238 ATTTTAGTTA
Statistics
Matches: 56, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
4 4 0.07
5 13 0.23
6 31 0.55
7 8 0.14
ACGTcount: A:0.29, C:0.03, G:0.07, T:0.61
Consensus pattern (6 bp):
AATTTT
Found at i:12806353 original size:35 final size:37
Alignment explanation
Indices: 12806276--12806354 Score: 99
Period size: 35 Copynumber: 2.2 Consensus size: 37
12806266 GTAAAGAGTA
** *
12806276 AAAAAAAAACAAAAACAAAAGGAAAAGGAAAATTAGG
1 AAAAAAAAACAAAAACAAAAGGAAAAGGAAAAGAAAG
*
12806313 AAAAAAAAAC-AAGA-AAAAGGAAAAGGAAAAGGAAAG
1 AAAAAAAAACAAAAACAAAAGGAAAAGGAAAA-GAAAG
12806349 AAAAAA
1 AAAAAA
12806355 CGTGAAATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 16 0.43
36 11 0.30
37 10 0.27
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.03
Consensus pattern (37 bp):
AAAAAAAAACAAAAACAAAAGGAAAAGGAAAAGAAAG
Found at i:12807280 original size:14 final size:13
Alignment explanation
Indices: 12807259--12807308 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
12807249 TTTCTTTTTC
12807259 TTTTTATTTTATT
1 TTTTTATTTTATT
12807272 TTATTTATTTTAATT
1 TT-TTTATTTT-ATT
*
12807287 TTTTAATTTT-TT
1 TTTTTATTTTATT
*
12807299 GTTTTATTTT
1 TTTTTATTTT
12807309 TTAATTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 10 0.31
13 2 0.06
14 15 0.47
15 5 0.16
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:12807296 original size:28 final size:27
Alignment explanation
Indices: 12807259--12807318 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
12807249 TTTCTTTTTC
12807259 TTTTTATTTTATT-TTATT-TATTTTAAT
1 TTTTTATTTT-TTGTT-TTATATTTTAAT
*
12807286 TTTTTAATTTTTTGTTTTATTTTTTAAT
1 TTTTT-ATTTTTTGTTTTATATTTTAAT
12807314 TTTTT
1 TTTTT
12807319 GCTTATTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 9 0.31
28 20 0.69
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (27 bp):
TTTTTATTTTTTGTTTTATATTTTAAT
Found at i:12807307 original size:20 final size:21
Alignment explanation
Indices: 12807265--12807319 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
12807255 TTTCTTTTTA
* *
12807265 TTTTATTTTATTTATTTTAATT
1 TTTTAATTT-TTTGTTTTAATT
12807287 TTTTAATTTTTTGTTTT-ATT
1 TTTTAATTTTTTGTTTTAATT
12807307 TTTTAATTTTTTG
1 TTTTAATTTTTTG
12807320 CTTATTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 16 0.52
21 7 0.23
22 8 0.26
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (21 bp):
TTTTAATTTTTTGTTTTAATT
Found at i:12807431 original size:24 final size:24
Alignment explanation
Indices: 12807404--12807457 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
12807394 ATATATTTGC
*
12807404 ATGATTTTATA-TTATTTGCATGAT
1 ATGATTTTATATTTA-TTACATGAT
12807428 ATGATTTTATATTTATTACATGAT
1 ATGATTTTATATTTATTACATGAT
12807452 ATGATT
1 ATGATT
12807458 ATAATTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 25 0.89
25 3 0.11
ACGTcount: A:0.31, C:0.04, G:0.11, T:0.54
Consensus pattern (24 bp):
ATGATTTTATATTTATTACATGAT
Found at i:12807437 original size:19 final size:19
Alignment explanation
Indices: 12807392--12807437 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
12807382 TAACTATAAT
* *
12807392 ATATATATTTGCATGATTTT
1 ATAT-TATTTGCATGATATG
12807412 ATATTATTTGCATGATATG
1 ATATTATTTGCATGATATG
*
12807431 ATTTTAT
1 ATATTAT
12807438 ATTTATTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.54
Consensus pattern (19 bp):
ATATTATTTGCATGATATG
Found at i:12807492 original size:24 final size:25
Alignment explanation
Indices: 12807465--12807518 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
12807455 ATTATAATTA
12807465 ATTTGACTACATGATCATTA-ATAT
1 ATTTGACTACATGATCATTATATAT
* * * *
12807489 ATTTAATTACATGATTATTATATTT
1 ATTTGACTACATGATCATTATATAT
12807514 ATTTG
1 ATTTG
12807519 TGTGATTATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.50
Consensus pattern (25 bp):
ATTTGACTACATGATCATTATATAT
Found at i:12807674 original size:19 final size:19
Alignment explanation
Indices: 12807638--12807688 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
12807628 GCATGATTTG
12807638 TTGCATGATATATTATATTA
1 TTGCATGATAT-TTATATTA
12807658 TTGCATGATATTTATATTA
1 TTGCATGATATTTATATTA
* *
12807677 ATGCTTGATATT
1 TTGCATGATATT
12807689 ATTTGCATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (19 bp):
TTGCATGATATTTATATTA
Found at i:12812528 original size:11 final size:11
Alignment explanation
Indices: 12812512--12812536 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12812502 AGAGATGTGC
12812512 AAAAAAAATGA
1 AAAAAAAATGA
12812523 AAAAAAAATGA
1 AAAAAAAATGA
12812534 AAA
1 AAA
12812537 CTTAAATTAA
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:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAAAATGA
Found at i:12813621 original size:16 final size:16
Alignment explanation
Indices: 12813600--12813631 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
12813590 TTTTCAAATG
12813600 AGAATCTTTAAAATTT
1 AGAATCTTTAAAATTT
12813616 AGAATCTTTAAAATTT
1 AGAATCTTTAAAATTT
12813632 TGAGTGTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (16 bp):
AGAATCTTTAAAATTT
Found at i:12814124 original size:17 final size:18
Alignment explanation
Indices: 12814104--12814143 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
12814094 CTTACAAATT
*
12814104 TGAAAATC-TTGTGAATC
1 TGAAAATCTTTATGAATC
12814121 TGAAAATCTTTATGAATC
1 TGAAAATCTTTATGAATC
12814139 TGAAA
1 TGAAA
12814144 CCTTTGCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (18 bp):
TGAAAATCTTTATGAATC
Found at i:12814148 original size:17 final size:18
Alignment explanation
Indices: 12814115--12814148 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12814105 GAAAATCTTG
*
12814115 TGAATCTGAAAATCTTTA
1 TGAATCTGAAAACCTTTA
12814133 TGAATCTG-AAACCTTT
1 TGAATCTGAAAACCTTT
12814149 GCGAATTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (18 bp):
TGAATCTGAAAACCTTTA
Found at i:12814154 original size:17 final size:17
Alignment explanation
Indices: 12814134--12814167 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12814124 AAATCTTTAT
12814134 GAATCTGAAACCTTTGC
1 GAATCTGAAACCTTTGC
* *
12814151 GAATTTGGAACCTTTGC
1 GAATCTGAAACCTTTGC
12814168 AAAACTTGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (17 bp):
GAATCTGAAACCTTTGC
Found at i:12814186 original size:18 final size:19
Alignment explanation
Indices: 12814163--12814237 Score: 75
Period size: 18 Copynumber: 4.1 Consensus size: 19
12814153 ATTTGGAACC
12814163 TTTGCAAAACTTGAAA-CT
1 TTTGCAAAACTTGAAATCT
12814181 TTTGCAAAACTTGAAATCT
1 TTTGCAAAACTTGAAATCT
* * * *
12814200 TTTAC-GAATTTGGAATC-
1 TTTGCAAAACTTGAAATCT
* *
12814217 TTTACGAAACTTGAAATCT
1 TTTGCAAAACTTGAAATCT
12814236 TT
1 TT
12814238 GTGAATCTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
17 5 0.11
18 34 0.72
19 8 0.17
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.39
Consensus pattern (19 bp):
TTTGCAAAACTTGAAATCT
Found at i:12814323 original size:28 final size:28
Alignment explanation
Indices: 12814268--12814320 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
12814258 AATCTTGCAA
*
12814268 TTTTTATGAATCTTGAAATCTTTCAATT
1 TTTTTATGAACCTTGAAATCTTTCAATT
12814296 TTTTTATGGAACCTTG-AAT-TTTCAA
1 TTTTTAT-GAACCTTGAAATCTTTCAA
12814321 ATTGTGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 6 0.26
28 10 0.43
29 7 0.30
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.51
Consensus pattern (28 bp):
TTTTTATGAACCTTGAAATCTTTCAATT
Found at i:12814772 original size:17 final size:17
Alignment explanation
Indices: 12814730--12814789 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
12814720 AAGCTCAAAT
12814730 TTTTAATTT-GATTTTA
1 TTTTAATTTAGATTTTA
* *
12814746 ATTTAGATTTAGATTTTT
1 TTTTA-ATTTAGATTTTA
12814764 TTTTAATTTAG-TTTTGA
1 TTTTAATTTAGATTTT-A
12814781 TTTTAATTT
1 TTTTAATTT
12814790 TGGTAATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 8 0.22
17 19 0.51
18 10 0.27
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (17 bp):
TTTTAATTTAGATTTTA
Found at i:12814790 original size:23 final size:23
Alignment explanation
Indices: 12814731--12814790 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
12814721 AGCTCAAATT
*
12814731 TTTA-ATTTGATTTTAATTTAGA
1 TTTAGATTTTATTTTAATTTAGA
*
12814753 TTTAGATTTTTTTTTAATTTAG-
1 TTTAGATTTTATTTTAATTTAGA
*
12814775 TTTTGATTTTAATTTT
1 TTTAGATTTT-ATTTT
12814791 GGTAATTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (23 bp):
TTTAGATTTTATTTTAATTTAGA
Found at i:12814871 original size:22 final size:23
Alignment explanation
Indices: 12814821--12814871 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
12814811 AAAAGAGAAG
*
12814821 AAAAAAGTTAAAAGTCAAAAGTAA
1 AAAAAAGTCAAAAGTC-AAAGTAA
12814845 AAAAAAGTCAAAAGTC-AAGTAA
1 AAAAAAGTCAAAAGTCAAAGTAA
12814867 AAAAA
1 AAAAA
12814872 GTGAAAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 11 0.42
24 15 0.58
ACGTcount: A:0.69, C:0.06, G:0.12, T:0.14
Consensus pattern (23 bp):
AAAAAAGTCAAAAGTCAAAGTAA
Found at i:12814889 original size:21 final size:21
Alignment explanation
Indices: 12814843--12814889 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
12814833 AGTCAAAAGT
*
12814843 AAAAAAAAGTCAAAAGTCAAG
1 AAAAAAAAGTCAAAAGTCAAC
* *
12814864 TAAAAAAAGTGAAAA-TCATAC
1 AAAAAAAAGTCAAAAGTCA-AC
12814885 AAAAA
1 AAAAA
12814890 TGAAATAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.68, C:0.09, G:0.11, T:0.13
Consensus pattern (21 bp):
AAAAAAAAGTCAAAAGTCAAC
Found at i:12816055 original size:24 final size:24
Alignment explanation
Indices: 12815942--12816071 Score: 78
Period size: 24 Copynumber: 5.5 Consensus size: 24
12815932 AACTATAATA
*
12815942 TATATATATATATTGCATG-T--T
1 TATATATATTTATTGCATGATCAT
12815963 T-T-TATA-TTATTTGCATGAT-AT
1 TATATATATTTA-TTGCATGATCAT
* *
12815984 GATTTTATATTTATTGCATGATTCTAT
1 TA-TATATATTTATTGCATGA-TC-AT
* *
12816011 TATATTTAATTTGATTACATGATCAT
1 TATATAT-ATTT-ATTGCATGATCAT
*
12816037 TA-ATATATTTAATTGCATGATTAT
1 TATATATATTT-ATTGCATGATCAT
*
12816061 TATATTTATTT
1 TATATATATTT
12816072 GTGTAATTAT
Statistics
Matches: 85, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
18 2 0.02
19 11 0.13
20 2 0.02
21 2 0.02
23 1 0.01
24 29 0.34
25 14 0.16
26 7 0.08
27 9 0.11
28 8 0.09
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (24 bp):
TATATATATTTATTGCATGATCAT
Found at i:12816064 original size:21 final size:21
Alignment explanation
Indices: 12816035--12816104 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
12816025 TTACATGATC
*
12816035 ATTAATATATTTAATTGCATG
1 ATTATTATATTTAATTGCATG
*
12816056 ATTATTATATTTATTTG--TG
1 ATTATTATATTTAATTGCATG
* *
12816075 -TAATTATATTTGATTGCATG
1 ATTATTATATTTAATTGCATG
*
12816095 GTTA-TATATT
1 ATTATTATATT
12816105 ATTTTGTTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
18 13 0.32
19 2 0.05
20 8 0.20
21 17 0.43
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.54
Consensus pattern (21 bp):
ATTATTATATTTAATTGCATG
Found at i:12816259 original size:19 final size:19
Alignment explanation
Indices: 12816219--12816273 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
12816209 TTACTACATG
* *
12816219 ATTATTGTAAGATATATTAT
1 ATTATTGCATGATAT-TTAT
12816239 ATTATTGCATGATATTTAT
1 ATTATTGCATGATATTTAT
*
12816258 ATTAATGCATGATATT
1 ATTATTGCATGATATT
12816274 ATTTGCATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (19 bp):
ATTATTGCATGATATTTAT
Found at i:12816738 original size:20 final size:19
Alignment explanation
Indices: 12816702--12816753 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
12816692 TAGAATAATT
*
12816702 TTAAGATTAATTTTAAATAA
1 TTAA-ATTATTTTTAAATAA
*
12816722 TTAAATTATTTTGTAAATTA
1 TTAAATTATTTT-TAAATAA
* *
12816742 TAAAAATATTTT
1 TTAAATTATTTT
12816754 AAGACTTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (19 bp):
TTAAATTATTTTTAAATAA
Found at i:12831412 original size:63 final size:61
Alignment explanation
Indices: 12831336--12831475 Score: 137
Period size: 61 Copynumber: 2.3 Consensus size: 61
12831326 TAAAAATTAT
* * *
12831336 ATATTA-AATTTATTTTTAACATATTAAATATAAAAT-ATATTTTTTAATTTTTGTCA-AATTTT
1 ATATTATAA-TTATTATTAAAAT-TTAAA-ATAAAATCA-ATTTTTTAATTTTTAT-ATAATTTT
12831398 C
61 C
* * * *
12831399 ATATTATAATTATTATTAAAATTTGAAATCATATCAATTTTTTATTTTTTATATAATTTTC
1 ATATTATAATTATTATTAAAATTTAAAATAAAATCAATTTTTTAATTTTTATATAATTTTC
12831460 ATATTAT-ATTA-TATTA
1 ATATTATAATTATTATTA
12831476 TATTGTGATG
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
59 5 0.07
60 5 0.07
61 33 0.49
62 5 0.07
63 17 0.25
64 2 0.03
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (61 bp):
ATATTATAATTATTATTAAAATTTAAAATAAAATCAATTTTTTAATTTTTATATAATTTTC
Found at i:12841590 original size:21 final size:22
Alignment explanation
Indices: 12841566--12841606 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12841556 AAATTTAATT
*
12841566 ATAAAAA-AAAAAATTTTAAAA
1 ATAAAAATAAAAAATGTTAAAA
12841587 ATAAAAATAAAAAATGTTAA
1 ATAAAAATAAAAAATGTTAA
12841607 TTGGATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (22 bp):
ATAAAAATAAAAAATGTTAAAA
Found at i:12842632 original size:2 final size:2
Alignment explanation
Indices: 12842625--12842649 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12842615 ATATCATTCA
12842625 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
12842650 ATCTAATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12843960 original size:23 final size:23
Alignment explanation
Indices: 12843930--12844008 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 23
12843920 TTTTTTTCGT
12843930 TTTATTTTCTATTTACATTTTTA
1 TTTATTTTCTATTTACATTTTTA
* * *
12843953 TTTATTTTATTTCTCTAGATTTTCTTA
1 TTTATTTTCTAT-T-TACA-TTT-TTA
12843980 TTTATTTTCTATTT-CA-TTTTA
1 TTTATTTTCTATTTACATTTTTA
*
12844001 TTTGTTTT
1 TTTATTTT
12844009 ATTTTTGTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
21 10 0.22
22 2 0.04
23 10 0.22
24 2 0.04
25 4 0.09
26 4 0.09
27 13 0.29
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (23 bp):
TTTATTTTCTATTTACATTTTTA
Found at i:12843993 original size:19 final size:18
Alignment explanation
Indices: 12843929--12844032 Score: 50
Period size: 19 Copynumber: 5.5 Consensus size: 18
12843919 TTTTTTTTCG
12843929 TTTTATTTTC-TATTTACAT
1 TTTTATTTTCTTATTT--AT
* *
12843948 TTTTATTTATTTTATTTCT
1 TTTTATTT-TCTTATTTAT
* **
12843967 CTAGATTTTCTTATTTAT
1 TTTTATTTTCTTATTTAT
* *
12843985 TTTCTATTTCATTTTATTT-G
1 TTT-TATTT--TCTTATTTAT
* *
12844005 TTTTATTTTTGTTTTTTAT
1 TTTTA-TTTTCTTATTTAT
12844024 TTTTATTTT
1 TTTTATTTT
12844033 TTTTAGATTC
Statistics
Matches: 63, Mismatches: 15, Indels: 15
0.68 0.16 0.16
Matches are distributed among these distances:
18 19 0.30
19 25 0.40
20 7 0.11
21 12 0.19
ACGTcount: A:0.16, C:0.07, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTATTTTCTTATTTAT
Found at i:12844013 original size:38 final size:36
Alignment explanation
Indices: 12843915--12844037 Score: 106
Period size: 39 Copynumber: 3.3 Consensus size: 36
12843905 TCGATCATAG
*
12843915 ATTT-TTTTTTTTCGTTTTATTTTC-TATTTACATTTTT
1 ATTTATTTTATTT-GTTTTATTTTCTTATTT--ATTTTT
* **
12843952 ATTTATTTTATTTCTCTAGATTTTCTTATTTATTTTCT
1 ATTTATTTTATTTGT-TTTATTTTCTTATTTATTTT-T
* *
12843990 ATTTCATTTTATTTGTTTTATTTTTGTTTTTTATTTTT
1 ATTT-ATTTTATTTGTTTTA-TTTTCTTATTTATTTTT
*
12844028 ATTTTTTTTA
1 ATTTATTTTA
12844038 GATTCTTTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
37 15 0.21
38 26 0.37
39 29 0.41
ACGTcount: A:0.15, C:0.07, G:0.03, T:0.75
Consensus pattern (36 bp):
ATTTATTTTATTTGTTTTATTTTCTTATTTATTTTT
Found at i:12844023 original size:13 final size:13
Alignment explanation
Indices: 12844005--12844034 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
12843995 ATTTTATTTG
*
12844005 TTTTATTTTTGTT
1 TTTTATTTTTATT
12844018 TTTTATTTTTATT
1 TTTTATTTTTATT
12844031 TTTT
1 TTTT
12844035 TTAGATTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:12844986 original size:18 final size:18
Alignment explanation
Indices: 12844963--12844997 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12844953 AAATTTGAGA
12844963 TTTTTT-TTCCTTTATTTC
1 TTTTTTCTT-CTTTATTTC
12844981 TTTTTTCTTCTTTATTT
1 TTTTTTCTTCTTTATTT
12844998 TATTTAGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTCTTCTTTATTTC
Found at i:12847580 original size:21 final size:21
Alignment explanation
Indices: 12847552--12847599 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
12847542 AATCAAAATG
12847552 GAAAAAAAAT-AAAA-AATAAA
1 GAAAAAAAATCAAAAGAA-AAA
12847572 GATAAAAAAATCAAAAGAAAAA
1 GA-AAAAAAATCAAAAGAAAAA
12847594 GAAAAA
1 GAAAAA
12847600 GGACACATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 2 0.08
21 12 0.48
22 9 0.36
23 2 0.08
ACGTcount: A:0.81, C:0.02, G:0.08, T:0.08
Consensus pattern (21 bp):
GAAAAAAAATCAAAAGAAAAA
Done.