Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 369 of 438
Found at i:114943763 original size:40 final size:40
Alignment explanation
Indices: 114943707--114943910 Score: 227
Period size: 40 Copynumber: 5.1 Consensus size: 40
114943697 CGGAATTTAA
* ** *
114943707 CCGGATATAGTTACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
114943747 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
114943787 CGGGATTTAGTAACTCGCACCAATACCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
114943826 CCGGA-ATTAGTAACTCGCACAAATGCTTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
114943866 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
114943906 CCGGA
1 CCGGA
114943911 CATCATTCGA
Statistics
Matches: 136, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
38 2 0.01
39 29 0.21
40 93 0.68
41 12 0.09
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:114943895 original size:79 final size:81
Alignment explanation
Indices: 114943726--114943910 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
114943716 GTTACTCGTT
* *
114943726 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCGG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCGG
* *
114943790 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* *
114943807 CAATA-CCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCTTTC-GGATCTTAGTCC
1 CAA-AGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTA-ACC
*
114943868 -GGATATAGTCACTTAGCA-
63 GGGATATAGTAAC-TAGCAC
114943886 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
114943911 CATCATTCGA
Statistics
Matches: 90, Mismatches: 7, Indels: 15
0.80 0.06 0.13
Matches are distributed among these distances:
78 4 0.04
79 56 0.62
80 26 0.29
81 3 0.03
82 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCGGG
ATATAGTAACTAGCAC
Found at i:114951637 original size:16 final size:16
Alignment explanation
Indices: 114951616--114951646 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
114951606 AATCGAAAGT
114951616 AAAGAAAAAGAAAAAC
1 AAAGAAAAAGAAAAAC
*
114951632 AAAGAAAATGAAAAA
1 AAAGAAAAAGAAAAA
114951647 GAAATAAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.03, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAGAAAAAGAAAAAC
Found at i:114951646 original size:7 final size:6
Alignment explanation
Indices: 114951616--114951676 Score: 54
Period size: 6 Copynumber: 10.0 Consensus size: 6
114951606 AATCGAAAGT
* *
114951616 AAAGAA AAAG-A AAA-AC AAAGAA AATGAA AAAGAA ATAAGAA ACAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA A-AAGAA A-AAGAA
*
114951664 AAATAGA AAAGAA
1 AAAGA-A AAAGAA
114951677 GAAGGAACGT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
5 7 0.16
6 20 0.45
7 17 0.39
ACGTcount: A:0.77, C:0.03, G:0.15, T:0.05
Consensus pattern (6 bp):
AAAGAA
Found at i:114970326 original size:17 final size:17
Alignment explanation
Indices: 114970306--114970414 Score: 103
Period size: 17 Copynumber: 6.4 Consensus size: 17
114970296 AAGTCTACTC
*
114970306 AAGTTCAGAATTTGCTT
1 AAGTTCAAAATTTGCTT
114970323 AAGTTCAAAATTCT-CTT
1 AAGTTCAAAATT-TGCTT
** * *
114970340 AAGCCCAGAATTTGTTT
1 AAGTTCAAAATTTGCTT
* *
114970357 AAGTTCAAAATGTGTTT
1 AAGTTCAAAATTTGCTT
* *
114970374 AAGTTCAAGATTTGATT
1 AAGTTCAAAATTTGCTT
*
114970391 AAATTCAAAATTTGCTT
1 AAGTTCAAAATTTGCTT
*
114970408 GAGTTCA
1 AAGTTCA
114970415 CAGAAAGATA
Statistics
Matches: 73, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
16 1 0.01
17 71 0.97
18 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (17 bp):
AAGTTCAAAATTTGCTT
Found at i:114973369 original size:45 final size:45
Alignment explanation
Indices: 114973308--114973393 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
114973298 GTCAAGAAAG
* *
114973308 GGAGCTCGTGGTCTCAGTTCACACATGCCAAGGGGTGCTCGCAAA
1 GGAGCTCGCGGTCTCAGTTCACACATGCCAAGGGGTACTCGCAAA
** *
114973353 GGAGCTCGCGGTCTCAGTTCGTACATGTCAAGGGGTACTCG
1 GGAGCTCGCGGTCTCAGTTCACACATGCCAAGGGGTACTCG
114973394 TAAGGGGAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.20, C:0.26, G:0.33, T:0.22
Consensus pattern (45 bp):
GGAGCTCGCGGTCTCAGTTCACACATGCCAAGGGGTACTCGCAAA
Found at i:114978092 original size:2 final size:2
Alignment explanation
Indices: 114978080--114978115 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
114978070 TCAATTAGTT
114978080 TA TA T- TA 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 TA TA TA TA T
114978116 GAAGGTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:114979880 original size:131 final size:131
Alignment explanation
Indices: 114979633--114979905 Score: 404
Period size: 131 Copynumber: 2.1 Consensus size: 131
114979623 CTCGATTTAT
114979633 GAAAT-ACAATGCTTTATGTTACCAATTTCTTTTTGTCAAGAGTAAGAAAACATTTTAACAGATT
1 GAAATCACAATGCTTTATGTTACCAATTTCTTTTTGTCAAGAGTAAGAAAACATTTTAACAGATT
* * *
114979697 CTAGTGGCATAATACAGTTATAAACAAAGGCATTCATTGATGCAACTAGTTAGCCATGTGTAATG
66 CTAGTAGCATAATACAATTACAAACAAAGGCATTCATTGATGCAACTAGTTAGCCATGTGTAATG
114979762 C
131 C
* * ** * *
114979763 GAAATCGCAATGCTTTATGTTACCAATTTCTTTTTTTTGAGAGTAATAAAATATTTTAACAGATT
1 GAAATCACAATGCTTTATGTTACCAATTTCTTTTTGTCAAGAGTAAGAAAACATTTTAACAGATT
* * ** *
114979828 CTAGTAGCATAATACAATTACAAGCAAAGGCATTCATTGTTGCGGCTGGTTAGCCATGTGTAATG
66 CTAGTAGCATAATACAATTACAAACAAAGGCATTCATTGATGCAACTAGTTAGCCATGTGTAATG
*
114979893 T
131 C
114979894 GAAATCACAATG
1 GAAATCACAATG
114979906 GGGGATGGAG
Statistics
Matches: 126, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
130 5 0.04
131 121 0.96
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (131 bp):
GAAATCACAATGCTTTATGTTACCAATTTCTTTTTGTCAAGAGTAAGAAAACATTTTAACAGATT
CTAGTAGCATAATACAATTACAAACAAAGGCATTCATTGATGCAACTAGTTAGCCATGTGTAATG
C
Found at i:114985581 original size:30 final size:30
Alignment explanation
Indices: 114985545--114985609 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
114985535 CAACTTAACA
114985545 AACAAATGTCTCTAAAATAATAACAAAATT
1 AACAAATGTCTCTAAAATAATAACAAAATT
*
114985575 AACAAATGTCTTTAAAATAATAACAAAATT
1 AACAAATGTCTCTAAAATAATAACAAAATT
114985605 AACAA
1 AACAA
114985610 TAAAATAAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.26
Consensus pattern (30 bp):
AACAAATGTCTCTAAAATAATAACAAAATT
Found at i:114989572 original size:2 final size:2
Alignment explanation
Indices: 114989565--114989599 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
114989555 ATTGGTATGT
114989565 TA TA TA 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 TA TA TA T
114989600 TAAAATAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:114993319 original size:40 final size:40
Alignment explanation
Indices: 114993263--114993501 Score: 250
Period size: 40 Copynumber: 6.0 Consensus size: 40
114993253 ATAACTGTTC
* *
114993263 AGGGTTACTGAAGTACAAAGAGGGGCACGTATGTGCATTCA
1 AGGG-TACCGAAGTACAAACAGGGGCACGTATGTGCATTCA
* * * *
114993304 AGGGTACCGAAGTACAAACAAGAGCATGTATGTGTATTCA
1 AGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTCA
* * * * *
114993344 GGGGTAACAAAGTACAAACAAGGGCACGTATGTGTATTCA
1 AGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTCA
* * * * *
114993384 GGGGTACCAAAGTACAAACAGGAGCTCATATGTGCATT--
1 AGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTCA
114993422 AGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTC-
1 AGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTCA
* * ***
114993461 AGAGGTATCGAAGTACAAATAGGGGCATAAATGTGCATTCA
1 AG-GGTACCGAAGTACAAACAGGGGCACGTATGTGCATTCA
114993502 TACAATAGTT
Statistics
Matches: 168, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
38 33 0.20
39 2 0.01
40 129 0.77
41 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (40 bp):
AGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTCA
Found at i:114993495 original size:118 final size:119
Alignment explanation
Indices: 114993273--114993501 Score: 289
Period size: 118 Copynumber: 1.9 Consensus size: 119
114993263 AGGGTTACTG
* * * *
114993273 AAGTACAAAGAGGGGCACGTATGTGCATTCAAGGGTACCGAAGTACAAACAAGAGCATGTATGTG
1 AAGTACAAACAGGAGCACATATGTGCATT-AAGGGTACCGAAGTACAAACAAGAGCACGTATGTG
* * ** *
114993338 TATTCAGGGGTAACAAAGTACAAACAAGGGCACGTATGTGTATTCAGGGGTACCA
65 CATTCAGAGGTAACAAAGTACAAACAAGGGCACAAATGTGCATTCAGGGGTACCA
* * *
114993393 AAGTACAAACAGGAGCTCATATGTGCATT-AGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
1 AAGTACAAACAGGAGCACATATGTGCATTAAGGGTACCGAAGTACAAACAAGAGCACGTATGTGC
* * * * *
114993457 ATTCAGAGGTATCGAAGTACAAATAGGGGCATAAATGTGCATTCA
66 ATTCAGAGGTAACAAAGTACAAACAAGGGCACAAATGTGCATTCA
114993502 TACAATAGTT
Statistics
Matches: 92, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
118 67 0.73
120 25 0.27
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.21
Consensus pattern (119 bp):
AAGTACAAACAGGAGCACATATGTGCATTAAGGGTACCGAAGTACAAACAAGAGCACGTATGTGC
ATTCAGAGGTAACAAAGTACAAACAAGGGCACAAATGTGCATTCAGGGGTACCA
Found at i:115000386 original size:72 final size:72
Alignment explanation
Indices: 115000292--115000479 Score: 243
Period size: 72 Copynumber: 2.6 Consensus size: 72
115000282 ATGCCCGCAT
* * * *
115000292 TTGAGCTACTCACGGGTCTATACACAAAGTCAGCACCCGGACCCTAAAGCATTATCATG-TAATA
1 TTGAGCTACTCACGGGTTTATACACAAAGTCAGTACCCGGACCCCAAAGCATTAACATGAT-ATA
115000356 CCCGCTCA
65 CCCGCTCA
* * *
115000364 TTGAGCTACTTACAGGTTTATACACAAAGTCAGTACCCGGACCCCAAAGCATTAACATGATATGC
1 TTGAGCTACTCACGGGTTTATACACAAAGTCAGTACCCGGACCCCAAAGCATTAACATGATATAC
* *
115000429 TCTCTCA
66 CCGCTCA
* * * *
115000436 TCGAGTTACTCACGGGTTTATACAAAAAGTCTGTACCCGGACCC
1 TTGAGCTACTCACGGGTTTATACACAAAGTCAGTACCCGGACCC
115000480 ACATTACATT
Statistics
Matches: 100, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
72 99 0.99
73 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (72 bp):
TTGAGCTACTCACGGGTTTATACACAAAGTCAGTACCCGGACCCCAAAGCATTAACATGATATAC
CCGCTCA
Found at i:115006511 original size:25 final size:25
Alignment explanation
Indices: 115006474--115006535 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
115006464 ACAGATGTGC
* *
115006474 TAATCAGAAAGCACCAATGTGCTAA
1 TAATCAGAGAGCACCAACGTGCTAA
* **
115006499 TAATTAGAGAGCACTGACGTGCTAA
1 TAATCAGAGAGCACCAACGTGCTAA
115006524 TAATCAGAGAGC
1 TAATCAGAGAGC
115006536 GCGCTAAGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (25 bp):
TAATCAGAGAGCACCAACGTGCTAA
Found at i:115007661 original size:2 final size:2
Alignment explanation
Indices: 115007654--115007684 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
115007644 TCTTTTGTTT
115007654 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
115007685 ATAACATACT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:115008479 original size:85 final size:85
Alignment explanation
Indices: 115008336--115008505 Score: 234
Period size: 85 Copynumber: 2.0 Consensus size: 85
115008326 GAACTTCATG
* * *
115008336 TACTTGTGTTGTTGCAGGTACATCATAGGAGCATCTAAAATTGGATTCTAACTTGATCTCTGACA
1 TACTTGTGTTGTTGCAGGTACATCACAAGAGCATCTAAAATTGGATTCTAACATGATCTCTGACA
*
115008401 TTGTCTTACATATGGTGAAA
66 TTATCTTACATATGGTGAAA
* ** * *
115008421 TACTTGTGTTGTTGTAGGTATGTCACAAGATCAT-TCAAAATTGGATTCTGACATGATCTCTGAC
1 TACTTGTGTTGTTGCAGGTACATCACAAGAGCATCT-AAAATTGGATTCTAACATGATCTCTGAC
*
115008485 ATTATCTTACCTATGGTGAAA
65 ATTATCTTACATATGGTGAAA
115008506 GCGAGTTCTA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 1 0.01
85 73 0.99
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.37
Consensus pattern (85 bp):
TACTTGTGTTGTTGCAGGTACATCACAAGAGCATCTAAAATTGGATTCTAACATGATCTCTGACA
TTATCTTACATATGGTGAAA
Found at i:115011516 original size:48 final size:49
Alignment explanation
Indices: 115011413--115011637 Score: 150
Period size: 48 Copynumber: 4.8 Consensus size: 49
115011403 AAGAAGGTAA
* * * *
115011413 AATGCCGATGCCATGTCCTAAACATGGTCTTACACT-GGTTCACATGTT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTTCACATCTC
* * * * *
115011461 GAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTT-TCGTCTC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTTCACATCTC
* * * * * *
115011509 AATGCCGATTCTATGTCCCAAACATGATCTTACACTAGCTCTTATAATGT-
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCT-TCA-CATCTC
* * * *
115011559 -A-GCCGATGCCATGTCTCAAATATGGTC-T----T-GC-ACACATATC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTTCACATCTC
* * *
115011599 AATACTGATGCCATGTCCCAGACATGGTCTTACACTAGC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGC
115011638 ACACATATCA
Statistics
Matches: 131, Mismatches: 33, Indels: 26
0.69 0.17 0.14
Matches are distributed among these distances:
39 3 0.02
40 1 0.01
41 1 0.01
42 23 0.18
43 2 0.02
47 2 0.02
48 92 0.70
49 5 0.04
51 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (49 bp):
AATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTTCACATCTC
Found at i:115013672 original size:71 final size:72
Alignment explanation
Indices: 115013499--115013679 Score: 233
Period size: 75 Copynumber: 2.5 Consensus size: 72
115013489 CATTTTTGGG
*
115013499 TAAATTGTAAATAAGTATATTATTTATGTAAAAATACAATATAATACAATACAAAAAATTGTTTC
1 TAAATTGTAAATAAGTATATTATTGATGTAAAAATAC-A-AT-ATACAATACAAAAAATTGTTTC
**
115013564 TATTTTTTTG
63 TATTTTTTCA
* * *
115013574 TAAATTGTAAATAAGTATATTATTGATGTAAAAATAC-AT-TGCAATACAAATAATT-TTTTTCA
1 TAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATATACAATACAAAAAATTGTTTCT-A
115013636 TTTTCTTCA
65 TTTT-TTCA
115013645 TAAATTGTAAATAAGTATATTATTGATGTAGAAAA
1 TAAATTGTAAATAAGTATATTATTGATGTA-AAAA
115013680 ATAAACAAAC
Statistics
Matches: 97, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
69 4 0.04
70 19 0.20
71 32 0.33
72 6 0.06
75 36 0.37
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (72 bp):
TAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATATACAATACAAAAAATTGTTTCTAT
TTTTTCA
Found at i:115015820 original size:13 final size:13
Alignment explanation
Indices: 115015802--115015832 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
115015792 AGAACAACTT
115015802 ATTAATTATATTA
1 ATTAATTATATTA
115015815 ATTAATTATATTA
1 ATTAATTATATTA
115015828 ATTAA
1 ATTAA
115015833 AAGAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTAATTATATTA
Found at i:115019472 original size:16 final size:16
Alignment explanation
Indices: 115019451--115019497 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
115019441 AATAGTATTC
*
115019451 CTTTCCTTCTTTTGTT
1 CTTTCCTTCTTTTCTT
115019467 CTTTCCTTCTTTTCTT
1 CTTTCCTTCTTTTCTT
115019483 C-TT-CTTCTTCTTCTT
1 CTTTCCTTCTT-TTCTT
115019498 TTTTTTTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 6 0.21
15 7 0.24
16 16 0.55
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.68
Consensus pattern (16 bp):
CTTTCCTTCTTTTCTT
Found at i:115025186 original size:28 final size:28
Alignment explanation
Indices: 115025109--115025210 Score: 98
Period size: 28 Copynumber: 3.6 Consensus size: 28
115025099 ATTATGAAAG
*
115025109 ATGTAAAAGTCCGTCAAGACTATCTTAT
1 ATGTGAAAGTCCGTCAAGACTATCTTAT
* * * **
115025137 ATATGGAAGTCCATCGGGACTATCTTAT
1 ATGTGAAAGTCCGTCAAGACTATCTTAT
* *
115025165 ATGTGAAAGTGCGTCAAAACTATCTTAT
1 ATGTGAAAGTCCGTCAAGACTATCTTAT
* *
115025193 AAGTGGAAA-TCCATCAAG
1 ATGT-GAAAGTCCGTCAAG
115025211 GCTAAGTTAC
Statistics
Matches: 56, Mismatches: 17, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
28 52 0.93
29 4 0.07
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (28 bp):
ATGTGAAAGTCCGTCAAGACTATCTTAT
Found at i:115025801 original size:23 final size:23
Alignment explanation
Indices: 115025775--115025867 Score: 57
Period size: 23 Copynumber: 4.0 Consensus size: 23
115025765 AAATTTATTC
115025775 AATTGAAATTATAACAATCATTT
1 AATTGAAATTATAACAATCATTT
* * * *
115025798 AATTTAGAATAATCAGAA-CATTT
1 AATTGA-AATTATAACAATCATTT
* * * *
115025821 AATTTCAAA-TAGAA-AATTTATTC
1 AA-TTGAAATTATAACAA-TCATTT
*
115025844 AATTGAAATTATAACAATAATTT
1 AATTGAAATTATAACAATCATTT
115025867 A
1 A
115025868 CACATTCCAT
Statistics
Matches: 50, Mismatches: 14, Indels: 12
0.66 0.18 0.16
Matches are distributed among these distances:
21 2 0.04
22 7 0.14
23 28 0.56
24 13 0.26
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (23 bp):
AATTGAAATTATAACAATCATTT
Found at i:115025807 original size:69 final size:69
Alignment explanation
Indices: 115025729--115025867 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
115025719 ATTATAGTAC
* *
115025729 AATTTAGAATAATCAGAACATTTGATTTCAAATAGAAAATTTATTCAATTGAAATTATAACAATC
1 AATTTAGAATAATCAGAACATTTAATTTCAAATAGAAAATTTATTCAATTGAAATTATAACAATA
115025794 ATTT
66 ATTT
115025798 AATTTAGAATAATCAGAACATTTAATTTCAAATAGAAAATTTATTCAATTGAAATTATAACAATA
1 AATTTAGAATAATCAGAACATTTAATTTCAAATAGAAAATTTATTCAATTGAAATTATAACAATA
115025863 ATTT
66 ATTT
115025867 A
1 A
115025868 CACATTCCAT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.37
Consensus pattern (69 bp):
AATTTAGAATAATCAGAACATTTAATTTCAAATAGAAAATTTATTCAATTGAAATTATAACAATA
ATTT
Found at i:115027434 original size:15 final size:15
Alignment explanation
Indices: 115027414--115027452 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
115027404 CCTTTTTGAA
* *
115027414 CTTTTCATTGACATC
1 CTTTTCAATAACATC
115027429 CTTTTCGAATAACATC
1 CTTTTC-AATAACATC
115027445 CTTTTCAA
1 CTTTTCAA
115027453 AATTTTCACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.44
Consensus pattern (15 bp):
CTTTTCAATAACATC
Found at i:115027506 original size:40 final size:40
Alignment explanation
Indices: 115027402--115027506 Score: 138
Period size: 41 Copynumber: 2.6 Consensus size: 40
115027392 TTTCATTGTT
** *
115027402 ATCCTTTTTGAACTTTTCATTGACATCCTTTTCGAATAAC
1 ATCCTTTTCAAACTTTTCATTGATATCCTTTTCGAATAAC
* * *
115027442 ATCCTTTTCAAAATTTTCACTTGATATCTTTTTCGGATAAC
1 ATCCTTTTCAAACTTTTCA-TTGATATCCTTTTCGAATAAC
*
115027483 ATCCTTTTCAACCTTTTCATTGAT
1 ATCCTTTTCAAACTTTTCATTGAT
115027507 TAAAAAATAC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 21 0.38
41 35 0.62
ACGTcount: A:0.25, C:0.22, G:0.07, T:0.47
Consensus pattern (40 bp):
ATCCTTTTCAAACTTTTCATTGATATCCTTTTCGAATAAC
Found at i:115037319 original size:10 final size:9
Alignment explanation
Indices: 115037287--115037330 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
115037277 ACAATCAAAA
115037287 TGAGAGAGT
1 TGAGAGAGT
* *
115037296 TAAGAGACT
1 TGAGAGAGT
*
115037305 TGAGAGGGTT
1 TGAGAGAG-T
115037315 TGAGAGAGT
1 TGAGAGAGT
115037324 TGAGAGA
1 TGAGAGA
115037331 AAGACGTGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.34, C:0.02, G:0.41, T:0.23
Consensus pattern (9 bp):
TGAGAGAGT
Found at i:115051019 original size:3 final size:3
Alignment explanation
Indices: 115051013--115051052 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
115051003 AGGAAAAGTA
* *
115051013 AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAG AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
115051053 CGAACAACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:115055787 original size:210 final size:207
Alignment explanation
Indices: 115055553--115056008 Score: 698
Period size: 210 Copynumber: 2.2 Consensus size: 207
115055543 TAGTTAATGC
* * * * *
115055553 GAGCTCAAGTTCTTAACTGAAATCTTAAGGCTTGCAGGTTCAATACCGTAGCCTCTAATACTGTT
1 GAGCTCAAGCTCCTAGCTGAAATCTTAAGGCTTGCAGGTTCAATACCGCAGCCTCTAAAACTGTT
* * * * *
115055618 AGTGTGAGTTTAAGATCCTAGCTTTAATCTTAAGGCTCGTAGATTCAATATCGCAACCTCCAAAA
66 AGTGTGAGTTTAAGATCCCAACTGTAATATTAAGGATCGTAGATTCAATATCGCAACCTCCAAAA
* * * *
115055683 CAGTTAGCGTGAGCTCAAGCTCCAAGCTTGAATCTTAAGGCTTGTAGGTTTAATGTCATAGCCTC
131 CAATTAGCGTGA---CAAGCTCCAAACTTGAATCTTAAGGCTTGTAGGTTCAATGTCACAGCCTC
*
115055748 CAAAACAGTTAGCTT
193 CAAAACAGTTAGCGT
* *
115055763 GAGCTCAAGCTCCTAGCTGAAATCTTAAGG-TTCGTAGGTTCAATATCGCAGCCTCTAAAACTGT
1 GAGCTCAAGCTCCTAGCTGAAATCTTAAGGCTT-GCAGGTTCAATACCGCAGCCTCTAAAACTGT
115055827 TAGTGTGAGTTTAAGATCCCAACTGTAATATTAAGGATCGTAGATTCAATATCGCAACCTCCAAA
65 TAGTGTGAGTTTAAGATCCCAACTGTAATATTAAGGATCGTAGATTCAATATCGCAACCTCCAAA
115055892 ACAATTAGCGTGACAAGCTCCAAACTTGAATCTTAAGGCTTGTAGGTTCAATGTCACAGCCTCCA
130 ACAATTAGCGTGACAAGCTCCAAACTTGAATCTTAAGGCTTGTAGGTTCAATGTCACAGCCTCCA
115055957 AAACAGTTAGCGT
195 AAACAGTTAGCGT
* *
115055970 GAGCTTAAGCTCCCAGCTGAAATCTTAAGGCTTGCAGGT
1 GAGCTCAAGCTCCTAGCTGAAATCTTAAGGCTTGCAGGT
115056009 CCAGTACTAC
Statistics
Matches: 224, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
207 94 0.42
208 2 0.01
209 2 0.01
210 126 0.56
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (207 bp):
GAGCTCAAGCTCCTAGCTGAAATCTTAAGGCTTGCAGGTTCAATACCGCAGCCTCTAAAACTGTT
AGTGTGAGTTTAAGATCCCAACTGTAATATTAAGGATCGTAGATTCAATATCGCAACCTCCAAAA
CAATTAGCGTGACAAGCTCCAAACTTGAATCTTAAGGCTTGTAGGTTCAATGTCACAGCCTCCAA
AACAGTTAGCGT
Found at i:115056089 original size:207 final size:208
Alignment explanation
Indices: 115055629--115056098 Score: 574
Period size: 207 Copynumber: 2.3 Consensus size: 208
115055619 GTGTGAGTTT
* * *
115055629 AAGATCCTAGCTTTAATCTTAAGGCTCGTAGATTCAATATCGCAACCTCCAAAACAGTTAGCGTG
1 AAGATCCTAGCTGTAATATTAAGGCTCGTAGATTCAATATCGCAACCTCCAAAACAATTAGCGTG
* * *
115055694 AGCTCAAGCTCCAAGCTTGAATCTTAAGGCTTGTAGGTTTAATGTCATAGCCTCCAAAACAGTTA
66 A-C-CAAGCTCCAAACTTGAATCTTAAGGCTTGTAGGTTCAATGTCACAGCCTCCAAAACAGTTA
* * * * * *
115055759 GCTTGAGCTCAAGCTCCTAGCTGAAATCTTAAGGTTCGTAGGTTCAATATCGCAGCCTCTAAAAC
129 GCGTGAGCTCAAGCTCCCAGCTGAAATCTTAAGGTTCGCAGGTCCAATATCACAACCTCTAAAAC
* **** * *
115055824 TGTTAGTGTGAGTTT
194 TATTAACACGAGCTC
* * *
115055839 AAGATCCCAACTGTAATATTAAGGATCGTAGATTCAATATCGCAACCTCCAAAACAATTAGCGTG
1 AAGATCCTAGCTGTAATATTAAGGCTCGTAGATTCAATATCGCAACCTCCAAAACAATTAGCGTG
115055904 A-CAAGCTCCAAACTTGAATCTTAAGGCTTGTAGGTTCAATGTCACAGCCTCCAAAACAGTTAGC
66 ACCAAGCTCCAAACTTGAATCTTAAGGCTTGTAGGTTCAATGTCACAGCCTCCAAAACAGTTAGC
* *
115055968 GTGAGCTTAAGCTCCCAGCTGAAATCTTAAGGCTT-GCAGGTCCAGTA-CTACAACCT-TCAAAA
131 GTGAGCTCAAGCTCCCAGCTGAAATCTTAAGG-TTCGCAGGTCCAATATC-ACAACCTCT-AAAA
115056030 -TAATTAACACGAGCTC
193 CT-ATTAACACGAGCTC
* * * * *
115056046 AAGCTCCTAGCTGTAATATTAAGGCTTGCA-AGTTCATTATCGCAGCCTCCAAA
1 AAGATCCTAGCTGTAATATTAAGGCTCGTAGA-TTCAATATCGCAACCTCCAAA
115056099 GCAGTTAACG
Statistics
Matches: 223, Mismatches: 32, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
206 4 0.02
207 157 0.70
208 2 0.01
210 60 0.27
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (208 bp):
AAGATCCTAGCTGTAATATTAAGGCTCGTAGATTCAATATCGCAACCTCCAAAACAATTAGCGTG
ACCAAGCTCCAAACTTGAATCTTAAGGCTTGTAGGTTCAATGTCACAGCCTCCAAAACAGTTAGC
GTGAGCTCAAGCTCCCAGCTGAAATCTTAAGGTTCGCAGGTCCAATATCACAACCTCTAAAACTA
TTAACACGAGCTC
Found at i:115056107 original size:70 final size:70
Alignment explanation
Indices: 115055047--115056105 Score: 627
Period size: 70 Copynumber: 15.2 Consensus size: 70
115055037 ATGATCCCTC
* * * * * * * *
115055047 CCAAAAAAGTTAGCGCGAGTTCAAGCTTCC-CGCTATAATCTTAAGGCTCGTAGATTCAATATAG
1 CCAAAACAGTTAGCGTGAGCTCAAGC-TCCTAGCTGTAATCTTAAGGCTTGTAGGTTCAATATCG
115055111 CAGCCT
65 CAGCCT
* * * ** * ** * * * * *
115055117 TCAAAACAATTAAG-GCGAGCTCAAGCTCCTAGCTAAAATATTAAGGCTTACATGTTTAGTACCA
1 CCAAAACAGTT-AGCGTGAGCTCAAGCTCCTAGCTGTAATCTTAAGGCTTGTAGGTTCAATATCG
115055181 CAGCCT
65 CAGCCT
* ** * * * * *
115055187 CCAAAACAGTTAGCGTGAGCTCAAGCTCCCAGCTAAAATATTAAGGCTCGCAGGCTCAA-AACTG
1 CCAAAACAGTTAGCGTGAGCTCAAGCTCCTAGCTGTAATCTTAAGGCTTGTAGGTTCAATATC-G
115055251 CAGCCT
65 CAGCCT
* * * * **
115055257 CCAAAATAGTTA-AGTCGAGCTCAAGCTCCCAGCTAG-AATCTTAAGGCTTGTAGGTTGAATGCC
1 CCAAAACAGTTAGCGT-GAGCTCAAGCTCCTAGCT-GTAATCTTAAGGCTTGTAGGTTCAATATC
115055320 GCAGCCT
64 GCAGCCT
* * * ** * ** * * *** *
115055327 CCAAAATATTTAGCTTGAG-TTTAGTCTCCAAATTATAATATTAAGGCTCACAGATTCAATA-CT
1 CCAAAACAGTTAGCGTGAGCTCAAG-CTCCTAGCTGTAATCTTAAGGCTTGTAGGTTCAATATC-
115055390 GCAG-CT
64 GCAGCCT
* * * * * * * * * *
115055396 CCTAAAATAGTTAACGCGAGCTTAAGCTCCCAACTGAAATCTTAAGGCTTGTAGGGTCAATGTCC
1 CC-AAAACAGTTAGCGTGAGCTCAAGCTCCTAGCTGTAATCTTAAGGCTTGTAGGTTCAATATCG
115055461 CAGCCT
65 CAGCCT
* * * * * ** * * *** * * *
115055467 CAAAAAAAGTTAGCATGAGATCAAGTTCCTATTTGAAATATTAAGGCTCACAAGTTCAATACCAC
1 CCAAAACAGTTAGCGTGAGCTCAAGCTCCTAGCTGTAATCTTAAGGCTTGTAGGTTCAATATCGC
*
115055532 AACCT
66 AGCCT
* * ** * * * * * * * *
115055537 TCAAAATAGTTAATGCGAGCTCAAGTTCTTAACTGAAATCTTAAGGCTTGCAGGTTCAATACCGT
1 CCAAAACAGTTAGCGTGAGCTCAAGCTCCTAGCTGTAATCTTAAGGCTTGTAGGTTCAATATCGC
115055602 AGCCT
66 AGCCT
* * * * * * * * * *
115055607 CTAATACTGTTAGTGTGAGTTTAAGATCCTAGCTTTAATCTTAAGGCTCGTAGATTCAATATCGC
1 CCAAAACAGTTAGCGTGAGCTCAAGCTCCTAGCTGTAATCTTAAGGCTTGTAGGTTCAATATCGC
*
115055672 AACCT
66 AGCCT
* * * *
115055677 CCAAAACAGTTAGCGTGAGCTCAAGCTCCAAGCT-TGAATCTTAAGGCTTGTAGGTTTAATGTCA
1 CCAAAACAGTTAGCGTGAGCTCAAGCTCCTAGCTGT-AATCTTAAGGCTTGTAGGTTCAATATCG
*
115055741 TAGCCT
65 CAGCCT
* *
115055747 CCAAAACAGTTAGCTTGAGCTCAAGCTCCTAGCTGAAATCTTAAGG-TTCGTAGGTTCAATATCG
1 CCAAAACAGTTAGCGTGAGCTCAAGCTCCTAGCTGTAATCTTAAGGCTT-GTAGGTTCAATATCG
115055811 CAGCCT
65 CAGCCT
* * * * * * * * * * * *
115055817 CTAAAACTGTTAGTGTGAGTTTAAGATCCCAACTGTAATATTAAGGATCGTAGATTCAATATCGC
1 CCAAAACAGTTAGCGTGAGCTCAAGCTCCTAGCTGTAATCTTAAGGCTTGTAGGTTCAATATCGC
*
115055882 AACCT
66 AGCCT
* * * * *
115055887 CCAAAACAATTAGCGTGA---CAAGCTCCAAACT-TGAATCTTAAGGCTTGTAGGTTCAATGTCA
1 CCAAAACAGTTAGCGTGAGCTCAAGCTCCTAGCTGT-AATCTTAAGGCTTGTAGGTTCAATATCG
115055948 CAGCCT
65 CAGCCT
* * * * * * *
115055954 CCAAAACAGTTAGCGTGAGCTTAAGCTCCCAGCTGAAATCTTAAGGCTTGCAGGTCCAGTA-CTA
1 CCAAAACAGTTAGCGTGAGCTCAAGCTCCTAGCTGTAATCTTAAGGCTTGTAGGTTCAATATC-G
*
115056018 CAACCT
65 CAGCCT
* * * * ** * * * *
115056024 TCAAAATAATTAACACGAGCTCAAGCTCCTAGCTGTAATATTAAGGCTTGCAAGTTCATTATCGC
1 CCAAAACAGTTAGCGTGAGCTCAAGCTCCTAGCTGTAATCTTAAGGCTTGTAGGTTCAATATCGC
115056089 AGCCT
66 AGCCT
*
115056094 CCAAAGCAGTTA
1 CCAAAACAGTTA
115056106 ACGGGAGCCT
Statistics
Matches: 753, Mismatches: 210, Indels: 52
0.74 0.21 0.05
Matches are distributed among these distances:
66 1 0.00
67 54 0.07
69 21 0.03
70 663 0.88
71 14 0.02
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (70 bp):
CCAAAACAGTTAGCGTGAGCTCAAGCTCCTAGCTGTAATCTTAAGGCTTGTAGGTTCAATATCGC
AGCCT
Found at i:115056264 original size:17 final size:17
Alignment explanation
Indices: 115056242--115056277 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
115056232 TTACTTGAGT
* *
115056242 TTGAAAGTTTGCTTAAG
1 TTGAAAATTTGCTAAAG
115056259 TTGAAAATTTGCTAAAG
1 TTGAAAATTTGCTAAAG
115056276 TT
1 TT
115056278 CACAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (17 bp):
TTGAAAATTTGCTAAAG
Found at i:115060810 original size:21 final size:21
Alignment explanation
Indices: 115060780--115060835 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
115060770 TCAGAATATC
* *
115060780 AGTCTTATGAATAGTAAGGTCA
1 AGTC-TATGAATAGTAAAGCCA
*
115060802 AGTCTATGAACAGTAAAGCCA
1 AGTCTATGAATAGTAAAGCCA
*
115060823 AATC-ATGAATAGT
1 AGTCTATGAATAGT
115060836 GATAATATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 8 0.28
21 17 0.59
22 4 0.14
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (21 bp):
AGTCTATGAATAGTAAAGCCA
Found at i:115065957 original size:18 final size:18
Alignment explanation
Indices: 115065926--115065963 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
115065916 AATTCTTTCC
*
115065926 TTGGTATTATTTCACTTA
1 TTGGTATTATTTCAATTA
115065944 TTGGTTATTA-TTCAATTA
1 TTGG-TATTATTTCAATTA
115065962 TT
1 TT
115065964 TTCTTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.24, C:0.08, G:0.11, T:0.58
Consensus pattern (18 bp):
TTGGTATTATTTCAATTA
Found at i:115066270 original size:19 final size:18
Alignment explanation
Indices: 115066242--115066285 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
115066232 AATTTAGTCT
*
115066242 TTTTTATTTTTATTTTAA
1 TTTTTATTTTTAATTTAA
*
115066260 TGTTTTGTTTTTAATTTAA
1 T-TTTTATTTTTAATTTAA
115066279 TTTTTAT
1 TTTTTAT
115066286 ATTCTAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (18 bp):
TTTTTATTTTTAATTTAA
Found at i:115074018 original size:14 final size:14
Alignment explanation
Indices: 115073999--115074026 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
115073989 ATTTTTTTAT
115073999 TTTTAACTTTACTC
1 TTTTAACTTTACTC
115074013 TTTTAACTTTACTC
1 TTTTAACTTTACTC
115074027 ATATTTTTTC
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:0.21, C:0.21, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTAACTTTACTC
Found at i:115074404 original size:23 final size:20
Alignment explanation
Indices: 115074378--115074425 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
115074368 CTTCTTCTTT
*
115074378 TTCTTCTTTACTGCTGCATC
1 TTCTTCTTCACTGCTGCATC
115074398 TTCTTCTTCACTGCTGCATC
1 TTCTTCTTCACTGCTGCATC
115074418 TTCTTCTT
1 TTCTTCTT
115074426 GCAGGTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.08, C:0.31, G:0.08, T:0.52
Consensus pattern (20 bp):
TTCTTCTTCACTGCTGCATC
Found at i:115077839 original size:24 final size:21
Alignment explanation
Indices: 115077797--115077840 Score: 52
Period size: 24 Copynumber: 2.0 Consensus size: 21
115077787 TTATTGTTGT
*
115077797 AATTTTATATTATTTTTTATC
1 AATTTTATATTATTATTTATC
115077818 AATTTTATTATCTAATTATTTAT
1 AATTTTA-TAT-T-ATTATTTAT
115077841 TCTTATTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 1 0.05
24 8 0.42
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (21 bp):
AATTTTATATTATTATTTATC
Found at i:115077892 original size:9 final size:9
Alignment explanation
Indices: 115077874--115077922 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
115077864 TTGCAAGAAT
*
115077874 GATGATGAC
1 GATGAGGAC
*
115077883 GATGAAGAC
1 GATGAGGAC
*
115077892 GATGAGGAT
1 GATGAGGAC
115077901 GATGAGGAC
1 GATGAGGAC
*
115077910 GATGAGGAT
1 GATGAGGAC
115077919 GATG
1 GATG
115077923 TTTCTTCAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.35, C:0.06, G:0.41, T:0.18
Consensus pattern (9 bp):
GATGAGGAC
Found at i:115077904 original size:18 final size:18
Alignment explanation
Indices: 115077883--115077922 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
115077873 TGATGATGAC
115077883 GATGAAGACGATGAGGAT
1 GATGAAGACGATGAGGAT
*
115077901 GATGAGGACGATGAGGAT
1 GATGAAGACGATGAGGAT
115077919 GATG
1 GATG
115077923 TTTCTTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.42, T:0.17
Consensus pattern (18 bp):
GATGAAGACGATGAGGAT
Found at i:115078080 original size:11 final size:11
Alignment explanation
Indices: 115078064--115078088 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
115078054 TATTTTGCAG
115078064 GTTTTGGTGTT
1 GTTTTGGTGTT
115078075 GTTTTGGTGTT
1 GTTTTGGTGTT
115078086 GTT
1 GTT
115078089 GGTGATGCTG
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:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (11 bp):
GTTTTGGTGTT
Found at i:115078146 original size:11 final size:11
Alignment explanation
Indices: 115078126--115078201 Score: 71
Period size: 11 Copynumber: 6.9 Consensus size: 11
115078116 TAGTGCTGTT
*
115078126 TTTTTGTGCTG
1 TTTTGGTGCTG
*
115078137 TTTTGTTGCTG
1 TTTTGGTGCTG
* *
115078148 TTTCGGAGCTG
1 TTTTGGTGCTG
*
115078159 TTTTGGAGCTG
1 TTTTGGTGCTG
* *
115078170 TTTTGATGCTA
1 TTTTGGTGCTG
*
115078181 TTTTGGTGCTA
1 TTTTGGTGCTG
*
115078192 TTTTAGTGCT
1 TTTTGGTGCT
115078202 ACTTTTGTGG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 54 1.00
ACGTcount: A:0.08, C:0.11, G:0.28, T:0.54
Consensus pattern (11 bp):
TTTTGGTGCTG
Found at i:115078184 original size:22 final size:23
Alignment explanation
Indices: 115078159--115078238 Score: 62
Period size: 22 Copynumber: 3.6 Consensus size: 23
115078149 TTCGGAGCTG
*
115078159 TTTTGGAGCTGTTTT-GATGCTA-
1 TTTTGGAGCTATTTTAG-TGCTAC
*
115078181 TTTTGGTGCTATTTTAGTGCTAC
1 TTTTGGAGCTATTTTAGTGCTAC
* *
115078204 TTTTGTG-G-TATTTTATTG-TTC
1 TTTTG-GAGCTATTTTAGTGCTAC
*
115078225 TTTTGCAGCTATTT
1 TTTTGGAGCTATTT
115078239 ATTATGTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
21 8 0.17
22 32 0.67
23 7 0.15
24 1 0.02
ACGTcount: A:0.12, C:0.10, G:0.21, T:0.56
Consensus pattern (23 bp):
TTTTGGAGCTATTTTAGTGCTAC
Found at i:115078202 original size:11 final size:11
Alignment explanation
Indices: 115078176--115078218 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
115078166 GCTGTTTTGA
*
115078176 TGCTATTTTGG
1 TGCTATTTTAG
115078187 TGCTATTTTAG
1 TGCTATTTTAG
115078198 TGCTACTTTT-G
1 TGCTA-TTTTAG
*
115078209 TGGTATTTTA
1 TGCTATTTTA
115078219 TTGTTCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 4 0.14
11 20 0.71
12 4 0.14
ACGTcount: A:0.14, C:0.09, G:0.21, T:0.56
Consensus pattern (11 bp):
TGCTATTTTAG
Found at i:115078925 original size:24 final size:25
Alignment explanation
Indices: 115078898--115078945 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
115078888 CTTATTTCAT
115078898 TAAATAAAAAT-TTTAAAAATATAA
1 TAAATAAAAATATTTAAAAATATAA
* *
115078922 TAAATCAAATTCATTTAAAAATAT
1 TAAATAAAAAT-ATTTAAAAATAT
115078946 TAAAACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
26 11 0.55
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
TAAATAAAAATATTTAAAAATATAA
Found at i:115079668 original size:11 final size:11
Alignment explanation
Indices: 115079646--115079727 Score: 58
Period size: 11 Copynumber: 7.5 Consensus size: 11
115079636 TAAAACACCA
115079646 CAAAAGTAGCAC
1 CAAAA-TAGCAC
*
115079658 TAAAATAGCAC
1 CAAAATAGCAC
*
115079669 CAAAATAGCAT
1 CAAAATAGCAC
* *
115079680 CAAAACAGCTC
1 CAAAATAGCAC
* *
115079691 CAAAACAGCTC
1 CAAAATAGCAC
* * *
115079702 CGAAACAGCAA
1 CAAAATAGCAC
*
115079713 CAAAACAGCA-
1 CAAAATAGCAC
115079723 CAAAA
1 CAAAA
115079728 AAACAGCACT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
10 5 0.08
11 51 0.85
12 4 0.07
ACGTcount: A:0.54, C:0.27, G:0.11, T:0.09
Consensus pattern (11 bp):
CAAAATAGCAC
Found at i:115079677 original size:22 final size:23
Alignment explanation
Indices: 115079637--115079695 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
115079627 AAAGAATAAT
*
115079637 AAAACACCA-CAAAAGTAGCA-C
1 AAAACAGCACCAAAAGTAGCATC
*
115079658 TAAAATAGCACCAAAA-TAGCATC
1 -AAAACAGCACCAAAAGTAGCATC
*
115079681 AAAACAGCTCCAAAA
1 AAAACAGCACCAAAA
115079696 CAGCTCCGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 25 0.81
23 6 0.19
ACGTcount: A:0.56, C:0.25, G:0.08, T:0.10
Consensus pattern (23 bp):
AAAACAGCACCAAAAGTAGCATC
Found at i:115079950 original size:9 final size:9
Alignment explanation
Indices: 115079933--115079981 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
115079923 ATTGAAGAAA
*
115079933 CATCATCCT
1 CATCGTCCT
115079942 CATCGTCCT
1 CATCGTCCT
*
115079951 CATCATCCT
1 CATCGTCCT
*
115079960 CATCGTCTT
1 CATCGTCCT
*
115079969 CATCGTCAT
1 CATCGTCCT
115079978 CATC
1 CATC
115079982 ATTCTTGCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (9 bp):
CATCGTCCT
Found at i:115079956 original size:18 final size:18
Alignment explanation
Indices: 115079933--115079972 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
115079923 ATTGAAGAAA
115079933 CATCATCCTCATCGTCCT
1 CATCATCCTCATCGTCCT
*
115079951 CATCATCCTCATCGTCTT
1 CATCATCCTCATCGTCCT
115079969 CATC
1 CATC
115079973 GTCATCATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.42, G:0.05, T:0.35
Consensus pattern (18 bp):
CATCATCCTCATCGTCCT
Found at i:115083457 original size:20 final size:20
Alignment explanation
Indices: 115083432--115083501 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
115083422 AAAAACCTGC
115083432 AAGAAGAAGATGCAGCAGTG
1 AAGAAGAAGATGCAGCAGTG
115083452 AAGAAGAAGATGCAGCAGTG
1 AAGAAGAAGATGCAGCAGTG
*
115083472 AAGAAGAAGATGCAGCAGTA
1 AAGAAGAAGATGCAGCAGTG
115083492 AAGAAGAAGA
1 AAGAAGAAGA
115083502 AGAAGAAGAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.50, C:0.09, G:0.33, T:0.09
Consensus pattern (20 bp):
AAGAAGAAGATGCAGCAGTG
Found at i:115083477 original size:3 final size:3
Alignment explanation
Indices: 115083471--115083524 Score: 63
Period size: 3 Copynumber: 17.3 Consensus size: 3
115083461 ATGCAGCAGT
* * *
115083471 GAA GAA GAA GAT GCA GCA GTAA AGAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA G-AA -GAA GAA GAA GAA GAA GAA GAA GAA
115083518 GAA GAA G
1 GAA GAA G
115083525 CTTACCGTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
3 41 0.91
4 3 0.07
5 1 0.02
ACGTcount: A:0.59, C:0.04, G:0.33, T:0.04
Consensus pattern (3 bp):
GAA
Found at i:115083539 original size:3 final size:3
Alignment explanation
Indices: 115083492--115083524 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
115083482 TGCAGCAGTA
115083492 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
115083525 CTTACCGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:115083882 original size:14 final size:14
Alignment explanation
Indices: 115083863--115083890 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
115083853 GAAAAAATAT
115083863 GAGTAAAGTTAAAA
1 GAGTAAAGTTAAAA
115083877 GAGTAAAGTTAAAA
1 GAGTAAAGTTAAAA
115083891 ATAAAAAAAT
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:0.57, C:0.00, G:0.21, T:0.21
Consensus pattern (14 bp):
GAGTAAAGTTAAAA
Found at i:115084588 original size:17 final size:18
Alignment explanation
Indices: 115084566--115084601 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
115084556 AAGAATACTA
115084566 TTTTATATTAAAAG-TTT
1 TTTTATATTAAAAGATTT
*
115084583 TTTTATATTTAAAGATTT
1 TTTTATATTAAAAGATTT
115084601 T
1 T
115084602 ATTTTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (18 bp):
TTTTATATTAAAAGATTT
Found at i:115089516 original size:26 final size:26
Alignment explanation
Indices: 115089486--115089550 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
115089476 GCAACTCTTA
* *
115089486 TGAGCATCCCG-TTATATGGCTCTTCG
1 TGAGCTTCCCGATTA-AAGGCTCTTCG
115089512 TGAGCTTCCCGATTAAAGGCTCTTCG
1 TGAGCTTCCCGATTAAAGGCTCTTCG
115089538 TGAGCTTCCCGAT
1 TGAGCTTCCCGAT
115089551 ATGACTCGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 33 0.92
27 3 0.08
ACGTcount: A:0.17, C:0.28, G:0.23, T:0.32
Consensus pattern (26 bp):
TGAGCTTCCCGATTAAAGGCTCTTCG
Found at i:115092989 original size:46 final size:45
Alignment explanation
Indices: 115092857--115093026 Score: 150
Period size: 46 Copynumber: 3.7 Consensus size: 45
115092847 ACTTGTGTGA
* *
115092857 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGA-A-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-T-TGA-GAGAGT
* * * * *
115092903 GCTGGT-TAAGACCATCTCTAGGACATGGCATCAGCATTGAGACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGA-GAGT
*
115092950 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGAG-GT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGAGAGT
* *
115092994 AAACTAGTGTAAAACATGTCTGGGACATGCATC
1 --GCTAGTGTAAGACATGTCTGGGACATGCATC
115093027 AACTACGAGA
Statistics
Matches: 100, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
44 4 0.04
45 8 0.08
46 60 0.60
47 23 0.23
48 5 0.05
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGAGAGT
Found at i:115093020 original size:93 final size:92
Alignment explanation
Indices: 115092857--115093027 Score: 213
Period size: 93 Copynumber: 1.8 Consensus size: 92
115092847 ACTTGTGTGA
* * * *
115092857 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAAAGCTGGTTAAGACCATCTCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATGAGGAAAGCTAGTTAAGAACATCTCT
115092922 AGGACATGGCATCAGCATTGAGACGAGT
66 AGGACAT-GCATCAGCATTGAGACGAGT
* * *
115092950 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGA-GAGGTAAA-CTAGTGTAA-AACATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAT-ATGAGG-AAAGCTAGT-TAAGAACATC
*
115093012 TCTGGGACATGCATCA
63 TCTAGGACATGCATCA
115093028 ACTACGAGAT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
92 6 0.09
93 54 0.81
94 7 0.10
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATGAGGAAAGCTAGTTAAGAACATCTCT
AGGACATGCATCAGCATTGAGACGAGT
Found at i:115097729 original size:21 final size:22
Alignment explanation
Indices: 115097686--115097731 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
115097676 TAACTCATGT
*
115097686 GTTTTTTCTAAAAATAAGCTAA
1 GTTTTTTCTAAAAATAAGATAA
115097708 GTTTTGTTCT-AAAATAA-ATAA
1 GTTTT-TTCTAAAAATAAGATAA
115097729 GTT
1 GTT
115097732 GACTGTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 12 0.55
23 4 0.18
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (22 bp):
GTTTTTTCTAAAAATAAGATAA
Found at i:115098883 original size:106 final size:95
Alignment explanation
Indices: 115098782--115098971 Score: 247
Period size: 95 Copynumber: 1.9 Consensus size: 95
115098772 TAACATAATG
* *
115098782 ATAATGATGAATATTAAAAGTATATAATTCCATTATATAGTTACATATTTATTAATTTATTTATA
1 ATAATGATGTATA-TAAAA-TATAT--TT-CATTATATAATTACATATTTATTAATTTATTTATA
115098847 TAAATAA-ATGAATTATTAATTAAAATATTTTTAAC
61 TAAATAATAT-AATTATTAATTAAAATATTTTTAAC
* * * *
115098882 ATAATGCTGTATATCAAATATATTTTATTATATAATTACATATTTATTATTTTATTTATATAAAT
1 ATAATGATGTATATAAAATATATTTCATTATATAATTACATATTTATTAATTTATTTATATAAAT
* *
115098947 AATATATTTATTAATTAAAAAATTT
66 AATATAATTATTAATTAAAATATTT
115098972 AAAACAATAT
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
95 57 0.70
96 4 0.05
98 5 0.06
99 4 0.05
100 11 0.14
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (95 bp):
ATAATGATGTATATAAAATATATTTCATTATATAATTACATATTTATTAATTTATTTATATAAAT
AATATAATTATTAATTAAAATATTTTTAAC
Found at i:115102001 original size:22 final size:21
Alignment explanation
Indices: 115101964--115102010 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
115101954 TCAGGAATAT
*
115101964 TTTATGTATATCTTTTCCTT-A
1 TTTATGTATATATTTT-CTTGA
115101985 TTTATGTATATTATTTTCTTGA
1 TTTATGTATA-TATTTTCTTGA
115102007 TTTA
1 TTTA
115102011 CGAGCTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.64
Consensus pattern (21 bp):
TTTATGTATATATTTTCTTGA
Found at i:115118628 original size:21 final size:21
Alignment explanation
Indices: 115118602--115118642 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
115118592 TGGCCCGTGT
115118602 CCTTCACACGACCATGACACG
1 CCTTCACACGACCATGACACG
* *
115118623 CCTTCATACGGCCATGACAC
1 CCTTCACACGACCATGACAC
115118643 ACCTGTGTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.41, G:0.15, T:0.17
Consensus pattern (21 bp):
CCTTCACACGACCATGACACG
Found at i:115119790 original size:46 final size:46
Alignment explanation
Indices: 115119681--115119889 Score: 162
Period size: 46 Copynumber: 4.5 Consensus size: 46
115119671 CGATGACATA
* * *
115119681 TCCCAGACATGGTCTTACACT-GAC--ACGTCTCGAAGCCGATGTATG
1 TCCCAGACAT-GTCTTACACTAG-CTTACGTCTCGAGGCCAATGCATG
** * * *
115119726 TTTCATACATTTCTTACACTAGCTTACGTCTCGAGGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCTTACGTCTCGAGGCCAATGCATG
* * * *
115119772 TCCCAGACATGT-TATACACTAGCACT-CATCTCAATGCCAATGCCATG
1 TCCCAGACATGTCT-TACACTAGC-TTACGTCTCGAGGCCAATG-CATG
* * *
115119819 TCCCAGACATGGTCTTACACTGGCTTTCGTAAT--ATGGCCAATGCATG
1 TCCCAGACAT-GTCTTACACTAGCTTACGT-CTCGA-GGCCAATGCATG
115119866 TCCCAGACATGTCTTACACTAGCT
1 TCCCAGACATGTCTTACACTAGCT
115119890 CACACAAGTG
Statistics
Matches: 132, Mismatches: 21, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
44 10 0.08
45 9 0.07
46 61 0.46
47 31 0.23
48 19 0.14
49 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTAGCTTACGTCTCGAGGCCAATGCATG
Found at i:115125505 original size:46 final size:46
Alignment explanation
Indices: 115125410--115125629 Score: 191
Period size: 46 Copynumber: 4.8 Consensus size: 46
115125400 GTATATCTGT
*
115125410 GCCGATGCCATGTCCCAAACATGGTCTTACACT-GC--ACGTCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACGTCTCG-AG
* *
115125455 GCCGATGCATGTTCCAGACATGTCTTACACTAGCTTACGTCTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGAG
* * * *
115125501 GCCGATGCATGTCCCAGACATGTTTTACACTAGCACT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TTACGTCTCGAG
* * * * * * *
115125547 GCTGATGCCATGTCCCAGACATGGTTTTACACTGGCTTTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACGT-CTCGAG
* *
115125595 GCCAATGCATGTCCCAGACATGTCTTGCACTAGCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
115125630 CACACAAGCG
Statistics
Matches: 144, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
43 10 0.07
44 14 0.10
45 8 0.06
46 62 0.43
47 30 0.21
48 19 0.13
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGAG
Found at i:115127087 original size:40 final size:40
Alignment explanation
Indices: 115127043--115127118 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
115127033 TAGTGCCACA
115127043 TATAGCCGAAGCTAT-TCCAATTCGCACACTAAGTGCTTTC
1 TATAGCCGAAGCTATCTCCAA-TCGCACACTAAGTGCTTTC
* * *
115127083 TATAGCCGAAGTTATCTCGAATCGCGCACTAAGTGC
1 TATAGCCGAAGCTATCTCCAATCGCACACTAAGTGC
115127119 CAAACATAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 28 0.88
41 4 0.12
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (40 bp):
TATAGCCGAAGCTATCTCCAATCGCACACTAAGTGCTTTC
Found at i:115132058 original size:18 final size:18
Alignment explanation
Indices: 115132035--115132101 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
115132025 TAAATAAAGG
115132035 TACTGAATGACTGACTGT
1 TACTGAATGACTGACTGT
* *
115132053 TACTGAATGATATTA-TAAAGGT
1 TACTGAATGA-CTGACT----GT
115132075 T-CTGAATGACTGACTGT
1 TACTGAATGACTGACTGT
115132092 TACTGAATGA
1 TACTGAATGA
115132102 TATTGATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
17 3 0.08
18 19 0.50
19 2 0.05
20 2 0.05
21 9 0.24
22 3 0.08
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (18 bp):
TACTGAATGACTGACTGT
Found at i:115132071 original size:39 final size:40
Alignment explanation
Indices: 115132028--115132111 Score: 152
Period size: 39 Copynumber: 2.1 Consensus size: 40
115132018 ATAGGGGTAA
115132028 ATAAAGGTACTGAATGACTGACTGTTACTGAATGATATT-
1 ATAAAGGTACTGAATGACTGACTGTTACTGAATGATATTG
*
115132067 ATAAAGGTTCTGAATGACTGACTGTTACTGAATGATATTG
1 ATAAAGGTACTGAATGACTGACTGTTACTGAATGATATTG
115132107 ATAAA
1 ATAAA
115132112 TTGATTGATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 38 0.88
40 5 0.12
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (40 bp):
ATAAAGGTACTGAATGACTGACTGTTACTGAATGATATTG
Found at i:115134279 original size:21 final size:21
Alignment explanation
Indices: 115134240--115134350 Score: 91
Period size: 21 Copynumber: 5.3 Consensus size: 21
115134230 ACATCATTTT
*
115134240 CAGAAGCCC-GAA-GGCTAAA
1 CAGAAGCCCATAAGGGCTAAA
* *
115134259 CAGAAGCACATAAGTGCTAAA
1 CAGAAGCCCATAAGGGCTAAA
* * *
115134280 CAGAAACCCCATAAGGGTTGAA
1 CAG-AAGCCCATAAGGGCTAAA
* * *
115134302 CAGAAGCTCATAAGAGCTGAA
1 CAGAAGCCCATAAGGGCTAAA
* * *
115134323 CGGAAACCCATAAGGGTTAAA
1 CAGAAGCCCATAAGGGCTAAA
115134344 CAGAAGC
1 CAGAAGC
115134351 TCAAAAGAGC
Statistics
Matches: 69, Mismatches: 20, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
19 8 0.12
20 2 0.03
21 43 0.62
22 16 0.23
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (21 bp):
CAGAAGCCCATAAGGGCTAAA
Found at i:115134409 original size:42 final size:42
Alignment explanation
Indices: 115134255--115134412 Score: 190
Period size: 42 Copynumber: 3.7 Consensus size: 42
115134245 GCCCGAAGGC
* * *
115134255 TAAACAGAAGCACATAAGTGCTAAACAGAAACCCCATAAGGGT
1 TAAACAGAAGCTCATAAGAGCTAAAC-GAAAACCCATAAGGGT
* * *
115134298 TGAACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGT
1 TAAACAGAAGCTCATAAGAGCTAAACGAAAACCCATAAGGGT
* * * * *
115134340 TAAACAGAAGCTCAAAAGAGCTGAACGAAAACTCATATGAGT
1 TAAACAGAAGCTCATAAGAGCTAAACGAAAACCCATAAGGGT
* *
115134382 TAAACAGAAGCTCGTGAGAGCTAAACGAAAA
1 TAAACAGAAGCTCATAAGAGCTAAACGAAAA
115134413 GTAAACACGA
Statistics
Matches: 99, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 77 0.78
43 22 0.22
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (42 bp):
TAAACAGAAGCTCATAAGAGCTAAACGAAAACCCATAAGGGT
Found at i:115136347 original size:69 final size:69
Alignment explanation
Indices: 115136259--115136522 Score: 296
Period size: 69 Copynumber: 3.8 Consensus size: 69
115136249 GGCGAAAAGC
* ** *
115136259 CGCGACCTCCAAAATAGTTAGCGAGAGCAAAGCTCTTAGTTGTAAAATCAAGGTTCGCAAGTGAA
1 CGCGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGATGTAAAATCAAGGTTCGCAAGTGAA
115136324 GAGT
66 GAGT
* * * * * * * *
115136328 CGTGAACTCCAAAAAAGTTAGCTAGAGCAAAGCTCCCAAATGTAAAATTAAGGTTCGTAGGTGAA
1 CGCGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGATGTAAAATCAAGGTTCGCAAGTGAA
115136393 GAGT
66 GAGT
* * * **
115136397 CGCGACCTTCAAAACAGTTAGCGAGAGCAAAGCTCCCAGCA-GTAAAACCAAGGATCGCAAGCAA
1 CGCGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAG-ATGTAAAATCAAGGTTCGCAAGTGA
115136461 AGAGT
65 AGAGT
* ** * * * *
115136466 TGCGACCTCCAAAACAGTTAGTAAGAGCAAAGCTCCCAGCTGCACAATGAAGGTTCG
1 CGCGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGATGTAAAATCAAGGTTCG
115136523 TAGACAAAAA
Statistics
Matches: 159, Mismatches: 34, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
69 158 0.99
70 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (69 bp):
CGCGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGATGTAAAATCAAGGTTCGCAAGTGAA
GAGT
Found at i:115136485 original size:138 final size:138
Alignment explanation
Indices: 115136240--115136503 Score: 359
Period size: 138 Copynumber: 1.9 Consensus size: 138
115136230 GACAAAATCG
* ** **
115136240 AGGTTCGTAGGCGAAAAGCCGCGACCTCCAAAATAGTTAGCGAGAGCAAAGCTCTTAGTTGTAAA
1 AGGTTCGTAGGCGAAAAGCCGCGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGCAGTAAA
* * ** *
115136305 ATCAAGGTTCGCAAGTGAAGAGTCGTGAACTCCAAAAAAGTTAGCT-AGAGCAAAGCTCCCAAAT
66 ACCAAGGATCGCAAGCAAAGAGTCGCGAACTCCAAAAAAGTTAG-TAAGAGCAAAGCTCCCAAAT
115136369 GTAAAATTA
130 GTAAAATTA
* * * *
115136378 AGGTTCGTAGGTGAAGAGTCGCGACCTTCAAAACAGTTAGCGAGAGCAAAGCTCCCAGCAGTAAA
1 AGGTTCGTAGGCGAAAAGCCGCGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGCAGTAAA
* * *
115136443 ACCAAGGATCGCAAGCAAAGAGTTGCGACCTCCAAAACAGTTAGTAAGAGCAAAGCTCCCA
66 ACCAAGGATCGCAAGCAAAGAGTCGCGAACTCCAAAAAAGTTAGTAAGAGCAAAGCTCCCA
115136504 GCTGCACAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
137 1 0.01
138 107 0.99
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (138 bp):
AGGTTCGTAGGCGAAAAGCCGCGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGCAGTAAA
ACCAAGGATCGCAAGCAAAGAGTCGCGAACTCCAAAAAAGTTAGTAAGAGCAAAGCTCCCAAATG
TAAAATTA
Found at i:115136519 original size:138 final size:138
Alignment explanation
Indices: 115136232--115136525 Score: 358
Period size: 138 Copynumber: 2.1 Consensus size: 138
115136222 TTATTGTCGA
* **
115136232 CAAAATCG-AGGTTCGTAGGCGAAAAGCCGCGACCTCCAAAATAGTTAGCGAGAGCAAAGCTCTT
1 CAAAAT-GAAGGTTCGTAGGCGAAAAGCCGCGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCC
** * * ** *
115136296 AGTTGTAAAATCAAGGTTCGCAAGTGAAGAGTCGTGAACTCCAAAAAAGTTAGCTAGAGCAAAGC
65 AGCAGTAAAACCAAGGATCGCAAGCAAAGAGTCGCGAACTCCAAAAAAGTTAGCTAGAGCAAAGC
115136361 TCCCAAATG
130 TCCCAAATG
* * * * * *
115136370 TAAAATTAAGGTTCGTAGGTGAAGAGTCGCGACCTTCAAAACAGTTAGCGAGAGCAAAGCTCCCA
1 CAAAATGAAGGTTCGTAGGCGAAAAGCCGCGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCA
* * *
115136435 GCAGTAAAACCAAGGATCGCAAGCAAAGAGTTGCGACCTCCAAAACAGTTAG-TAAGAGCAAAGC
66 GCAGTAAAACCAAGGATCGCAAGCAAAGAGTCGCGAACTCCAAAAAAGTTAGCT-AGAGCAAAGC
**
115136499 TCCCAGCTG
130 TCCCAAATG
*
115136508 CACAATGAAGGTTCGTAG
1 CAAAATGAAGGTTCGTAG
115136526 ACAAAAATTC
Statistics
Matches: 130, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
137 1 0.01
138 129 0.99
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (138 bp):
CAAAATGAAGGTTCGTAGGCGAAAAGCCGCGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCA
GCAGTAAAACCAAGGATCGCAAGCAAAGAGTCGCGAACTCCAAAAAAGTTAGCTAGAGCAAAGCT
CCCAAATG
Found at i:115138256 original size:40 final size:40
Alignment explanation
Indices: 115138148--115138397 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
115138138 CGGGATTTAA
* * * * *
115138148 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
115138188 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115138228 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115138268 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115138308 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115138348 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115138388 CCGGATATAT
1 CCGGATATAT
115138398 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:115146428 original size:40 final size:40
Alignment explanation
Indices: 115146320--115146566 Score: 358
Period size: 40 Copynumber: 6.2 Consensus size: 40
115146310 CGGGATTTAA
* * * * *
115146320 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
115146360 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115146400 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115146440 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115146480 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115146520 CCGGATATATCAACTCGCACGAATG---TCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115146557 CCGGATATAT
1 CCGGATATAT
115146567 TTCAATGTTC
Statistics
Matches: 190, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
37 22 0.12
39 1 0.01
40 167 0.88
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:115154603 original size:40 final size:40
Alignment explanation
Indices: 115154487--115154697 Score: 298
Period size: 40 Copynumber: 5.2 Consensus size: 40
115154477 CGGGATTTAA
* * * * *
115154487 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
115154527 CCGGATTTGGT-GACTTGCACAAAGGCCTGTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCT-TCGGGTCTTAGC
115154568 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115154608 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115154648 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115154688 CCGGATATAT
1 CCGGATATAT
115154698 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 123 0.80
41 30 0.20
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:115162723 original size:40 final size:40
Alignment explanation
Indices: 115162613--115162860 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
115162603 CGGGATTTAA
* * * * *
115162613 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * *
115162653 CCGGATTTGGT-GACTTGCAC-AA-GCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115162691 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115162731 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115162771 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115162811 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
115162851 CCGGATATAT
1 CCGGATATAT
115162861 TTCAATGTTC
Statistics
Matches: 193, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
37 1 0.01
38 28 0.15
39 3 0.02
40 161 0.83
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:115170829 original size:16 final size:16
Alignment explanation
Indices: 115170808--115170890 Score: 56
Period size: 14 Copynumber: 5.7 Consensus size: 16
115170798 CCATTAAGCC
115170808 CCCAAAAAAAACCTAA
1 CCCAAAAAAAACCTAA
*
115170824 CCCAAAAAAAAAC-AA
1 CCCAAAAAAAACCTAA
** **
115170839 -AGAAAAAAAA-AGAA
1 CCCAAAAAAAACCTAA
*
115170853 ---AAAGAAAACCT-A
1 CCCAAAAAAAACCTAA
115170865 CCC-AAAAAAACCTAA
1 CCCAAAAAAAACCTAA
115170880 CCCAAAAAAAA
1 CCCAAAAAAAA
115170891 AGAAGAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
12 8 0.15
14 19 0.37
15 6 0.12
16 19 0.37
ACGTcount: A:0.70, C:0.23, G:0.04, T:0.04
Consensus pattern (16 bp):
CCCAAAAAAAACCTAA
Found at i:115170874 original size:14 final size:15
Alignment explanation
Indices: 115170857--115170889 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
115170847 AAAGAAAAAG
115170857 AAAACCT-ACCCAAA
1 AAAACCTAACCCAAA
115170871 AAAACCTAACCCAAA
1 AAAACCTAACCCAAA
115170886 AAAA
1 AAAA
115170890 AAGAAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.64, C:0.30, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAACCTAACCCAAA
Found at i:115170929 original size:42 final size:40
Alignment explanation
Indices: 115170814--115170930 Score: 92
Period size: 46 Copynumber: 2.7 Consensus size: 40
115170804 AGCCCCCAAA
*
115170814 AAAAACCTAACCCAAAAAAAAACAAAGAAAAAAAAAGAAAAAG
1 AAAAACCTAA--CAAAAAAAAATAAA-AAAAAAAAAGAAAAAG
* * *
115170857 -AAAACCTACCCAAAAAAACCTAACCCAAAAAAAAAGAAGAAAAAAG
1 AAAAACCTA-ACAAAAAAA---AA--TAAAAAAAAAAAAG-AAAAAG
*
115170903 AAAAACCTAACAAAAAAAGATAAAAAAA
1 AAAAACCTAACAAAAAAAAATAAAAAAA
115170931 CCTAGCCACC
Statistics
Matches: 61, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
41 15 0.25
42 8 0.13
43 1 0.02
44 2 0.03
45 9 0.15
46 18 0.30
47 8 0.13
ACGTcount: A:0.74, C:0.16, G:0.06, T:0.04
Consensus pattern (40 bp):
AAAAACCTAACAAAAAAAAATAAAAAAAAAAAAGAAAAAG
Found at i:115171476 original size:39 final size:39
Alignment explanation
Indices: 115171404--115171478 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
115171394 TTTATATATA
* * *
115171404 TTATGTATATATTTTTTAATGCCATTAGTTATATATTTC
1 TTATGTATATATTCTTAAATACCATTAGTTATATATTTC
*
115171443 TTATGTATATATTCTTAAATACTATTA-TATATATAT
1 TTATGTATATATTCTTAAATACCATTAGT-TATATAT
115171479 ATATATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.03
39 30 0.97
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (39 bp):
TTATGTATATATTCTTAAATACCATTAGTTATATATTTC
Found at i:115171628 original size:16 final size:16
Alignment explanation
Indices: 115171578--115171620 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
115171568 GTATATTTTA
*
115171578 TGTACATATGTATATATA
1 TGTACATA--TATATATT
*
115171596 TATACATATATATATT
1 TGTACATATATATATT
115171612 TGTACATAT
1 TGTACATAT
115171621 CATTATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 15 0.68
18 7 0.32
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (16 bp):
TGTACATATATATATT
Found at i:115171714 original size:37 final size:37
Alignment explanation
Indices: 115171673--115171774 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 37
115171663 CTAATATTTT
115171673 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATGTACATA
*
115171710 CTTTTATTATATGCATATATATATATGTATTTTTATGTACATA
1 CTTTTATT-TA-G-ATAT-TAT-TAT-TATTATTATGTACATA
*
115171753 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
115171775 CCAAATATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 8 0.15
40 3 0.05
41 3 0.05
42 11 0.20
43 11 0.20
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATGTACATA
Found at i:115173478 original size:12 final size:12
Alignment explanation
Indices: 115173458--115173493 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
115173448 AGTCATTTGA
115173458 CATTCATGCATT
1 CATTCATGCATT
*
115173470 CATTTATGCATT
1 CATTCATGCATT
*
115173482 CATTCATTCATT
1 CATTCATGCATT
115173494 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:115180515 original size:70 final size:69
Alignment explanation
Indices: 115180396--115180818 Score: 403
Period size: 71 Copynumber: 6.2 Consensus size: 69
115180386 GAGTTAAGCC
*
115180396 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
115180460 TGAGGTA
63 TGAGGTA
* * ** * *
115180467 TTTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTCAATTTTTGT-TTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG
115180532 AGGTA
65 AGGTA
* *
115180537 TTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTCAATTTTTGTTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
115180602 GAGGTA
64 GAGGTA
* * * ** * * *
115180608 TTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
115180664 ---A
66 GGTA
*** ** *
115180665 TTTTTGTTTTTCA----AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
115180726 GGTA
66 GGTA
* * *
115180730 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAA-TTTT-TGTTTTAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
115180795 TGAGGTA
63 TGAGGTA
*
115180802 TTTTCAATTTCTGTTTT
1 TTTTCAATTTTTGTTTT
115180819 CAATTTACGT
Statistics
Matches: 285, Mismatches: 44, Indels: 47
0.76 0.12 0.12
Matches are distributed among these distances:
53 31 0.11
57 9 0.03
60 2 0.01
62 2 0.01
65 5 0.02
66 4 0.01
69 34 0.12
70 64 0.22
71 70 0.25
72 64 0.22
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (69 bp):
TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
GGTA
Found at i:115180704 original size:122 final size:124
Alignment explanation
Indices: 115180538--115180784 Score: 392
Period size: 122 Copynumber: 2.0 Consensus size: 124
115180528 GTTGAGGTAT
115180538 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
* *
115180603 AGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* *
115180659 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * * *
115180724 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
115180784 T
1 T
115180785 CAGGTCACGC
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
121 12 0.11
122 60 0.53
123 1 0.01
124 13 0.11
125 28 0.25
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (124 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:115180748 original size:263 final size:257
Alignment explanation
Indices: 115180229--115180821 Score: 1033
Period size: 263 Copynumber: 2.3 Consensus size: 257
115180219 TTTCAAGGAA
*
115180229 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
115180294 TTTCAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
115180359 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
131 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
115180424 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
196 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
115180486 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
* *
115180551 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTA---TT--T
115180616 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
126 TTA-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
115180681 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
190 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
115180746 TTT
255 TTT
* * * * * *
115180749 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
115180814 GTTTTCAA
64 GTTTTCAA
115180822 TTTACGTTGT
Statistics
Matches: 319, Mismatches: 9, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
257 119 0.37
260 2 0.01
262 4 0.01
263 131 0.41
265 63 0.20
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (257 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
TTTCAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
Found at i:115180780 original size:72 final size:71
Alignment explanation
Indices: 115180659--115180824 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
115180649 GAGTTAAGCC
** * *
115180659 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
115180723 TGAGGTA
65 TGAGGTA
*
115180730 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
115180795 TGAGGTA
65 TGAGGTA
* *
115180802 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
115180825 ACGTTGTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:115181155 original size:74 final size:76
Alignment explanation
Indices: 115181049--115181193 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 76
115181039 TTTTTGCCTT
*
115181049 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACG-CTGAGGTAATTT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GAGGTAATTT
115181111 CAATTTCTATTG
65 CAATTTCTATTG
* * *
115181123 TCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
115181188 AATTTC
66 AATTTC
115181194 CATTTTTCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 42 0.66
76 21 0.33
77 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (76 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
AATTTCTATTG
Found at i:115181161 original size:165 final size:166
Alignment explanation
Indices: 115180889--115181369 Score: 684
Period size: 165 Copynumber: 2.9 Consensus size: 166
115180879 CTACTTTTTC
115180889 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * *
115180954 GTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
* *
115181019 TTTCAATTTCCGTTTTTCAATTTTTGCCTTTC-AAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCATTTCAAAA
115181054 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * *
115181119 ATTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
115181184 TTTCAATTTCCATTTTTCAATTTCTGCATTTCAAAAAAAAAAAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCATTTC--------AAAA
*
115181228 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * * ** * *
115181293 GTTTTC--AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
115181354 TTTCAATTTCTGTTTT
131 TTTCAATTTCCGTTTT
115181370 CAAAAAATCA
Statistics
Matches: 285, Mismatches: 22, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
165 153 0.54
170 27 0.09
172 34 0.12
174 71 0.25
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (166 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
TTTCAATTTCCGTTTTTCAATTTCTGCATTTCAAAA
Found at i:115181313 original size:72 final size:73
Alignment explanation
Indices: 115181226--115181590 Score: 383
Period size: 72 Copynumber: 4.8 Consensus size: 73
115181216 AAAAAAAAAA
*
115181226 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
115181291 CTGTTTTC
66 CTGTTTTC
* * ** ** *
115181299 -AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
115181363 CTGTTTTC
66 CTGTTTTC
* * * ** *
115181371 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
*
115181436 TTCTATCTTTC
64 TTCTGT-TTTC
* ** *
115181447 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
* *
115181512 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * *
115181526 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCA
115181590 A
62 A
115181591 AAATCAACTC
Statistics
Matches: 240, Mismatches: 39, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
72 64 0.27
73 33 0.14
75 21 0.09
76 4 0.02
77 50 0.21
78 3 0.01
79 64 0.27
80 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:115181647 original size:61 final size:61
Alignment explanation
Indices: 115181528--115181651 Score: 169
Period size: 61 Copynumber: 2.0 Consensus size: 61
115181518 TATTTTTCAA
* * * *
115181528 AAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTTC
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTC
* * *
115181589 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTG-CTGAGCTATTTTC
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTC-GAGCTATTTTC
115181650 AA
1 AA
115181652 TTTCTGTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 1 0.02
61 54 0.98
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (61 bp):
AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTC
Found at i:115181723 original size:30 final size:30
Alignment explanation
Indices: 115181687--115181748 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
115181677 CAACTCATAT
115181687 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
115181717 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
115181747 TG
1 TG
115181749 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:115182580 original size:16 final size:16
Alignment explanation
Indices: 115182561--115182595 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
115182551 AACCTAACCC
*
115182561 AAAAAAAA-ACAAAGA
1 AAAAAAAAGAAAAAGA
115182576 AAAAAAAAGAAAAAGA
1 AAAAAAAAGAAAAAGA
115182592 AAAA
1 AAAA
115182596 CCTACCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAGA
Found at i:115182610 original size:16 final size:16
Alignment explanation
Indices: 115182591--115182626 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
115182581 AAAGAAAAAG
115182591 AAAAACCT-ACCCCAA
1 AAAAACCTAACCCCAA
115182606 AAAAACCTAACCCCAA
1 AAAAACCTAACCCCAA
115182622 AAAAA
1 AAAAA
115182627 AAAGAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.61, C:0.33, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAACCTAACCCCAA
Found at i:115183188 original size:39 final size:38
Alignment explanation
Indices: 115183134--115183235 Score: 118
Period size: 39 Copynumber: 2.7 Consensus size: 38
115183124 TTAGGTATTT
115183134 TATATATA-TTATGTATATATTTTTTAATACCATTAGT-
1 TATATATATTTATGTATATATTTTTTAATACCATTA-TA
* * * *
115183171 TATATATTTCTTATGTATATATTCTTAAATACTATTATA
1 TATATATAT-TTATGTATATATTTTTTAATACCATTATA
* *
115183210 TATATATATATATATATATATTTTTT
1 TATATATATTTATGTATATATTTTTT
115183236 TTTAAATACC
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
37 7 0.13
38 14 0.26
39 32 0.60
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (38 bp):
TATATATATTTATGTATATATTTTTTAATACCATTATA
Found at i:115183211 original size:2 final size:2
Alignment explanation
Indices: 115183206--115183230 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
115183196 TAAATACTAT
115183206 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
115183231 TTTTTTTTAA
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:115183376 original size:16 final size:16
Alignment explanation
Indices: 115183326--115183368 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
115183316 GTATATTTTA
*
115183326 TGTACATATGTATATATA
1 TGTACATA--TATATATT
*
115183344 TATACATATATATATT
1 TGTACATATATATATT
115183360 TGTACATAT
1 TGTACATAT
115183369 CATTATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 15 0.68
18 7 0.32
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (16 bp):
TGTACATATATATATT
Found at i:115183409 original size:14 final size:15
Alignment explanation
Indices: 115183390--115183418 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
115183380 ATTATTGTTG
115183390 TATA-TTTTTATGTA
1 TATATTTTTTATGTA
115183404 TATATTTTTTATGTA
1 TATATTTTTTATGTA
115183419 CGTTTCCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (15 bp):
TATATTTTTTATGTA
Found at i:115189319 original size:78 final size:79
Alignment explanation
Indices: 115189091--115189412 Score: 481
Period size: 78 Copynumber: 4.1 Consensus size: 79
115189081 TTGGCTACAT
* * * * *
115189091 TTTATGATTCCATTGAAAGCATCACATCCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
1 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
*
115189156 AAAATAAATTAAT-AA
66 AACA-AAA-TAATAAA
*
115189171 -CTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAAATAT
1 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAG-AAAAAAATAT
115189235 AAACAAAATAATAAA
65 AAACAAAATAATAAA
115189250 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACA-AAATTTCACCAGAAAAAAATATA
1 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
115189314 AACAAAATAATAAA
66 AACAAAATAATAAA
115189328 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACA-AAATTTCACCAGAAAAAAATAAA
1 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAAT--A
* * *
115189392 AAAATAAAATGATAAA
64 TAAACAAAATAATAAA
115189408 TTTAT
1 TTTAT
115189413 TTATTAGACG
Statistics
Matches: 226, Mismatches: 11, Indels: 10
0.91 0.04 0.04
Matches are distributed among these distances:
78 90 0.40
79 64 0.28
80 72 0.32
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (79 bp):
TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
AACAAAATAATAAA
Found at i:115189386 original size:158 final size:159
Alignment explanation
Indices: 115189091--115189412 Score: 483
Period size: 158 Copynumber: 2.0 Consensus size: 159
115189081 TTGGCTACAT
*
115189091 TTTATGATTCCATTGAAAGCATCACATCCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
1 TTTATAATTCCATTGAAAGCATCACATCCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
115189156 AAAATAAATTAATAACTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCAC
66 AAAATAAATTAATAACTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCAC
*
115189221 CAGAAAAAA-AATATAAACAAAATAATAAA
131 CAGAAAAAATAA-AAAAACAAAATAATAAA
* * * *
115189250 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACA-AAATTTCACCAGAAAAAAATATA
1 TTTATAATTCCATTGAAAGCATCACATCCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
* *
115189314 AACA-AAA-TAATAAATTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACA-AAATTTC
66 AAAATAAATTAAT-AA-CTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTC
* *
115189376 ACCAGAAAAAAATAAAAAAATAAAATGATAAA
129 ACCAG-AAAAAATAAAAAAACAAAATAATAAA
115189408 TTTAT
1 TTTAT
115189413 TTATTAGACG
Statistics
Matches: 149, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
156 4 0.03
157 17 0.11
158 90 0.60
159 38 0.26
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (159 bp):
TTTATAATTCCATTGAAAGCATCACATCCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
AAAATAAATTAATAACTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCAC
CAGAAAAAATAAAAAAACAAAATAATAAA
Found at i:115193609 original size:5 final size:5
Alignment explanation
Indices: 115193563--115193606 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
115193553 ATCTTAAAAA
*
115193563 TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG TAAAT TAAA
1 TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG TAAA
115193607 TTATTATTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (5 bp):
TAAAG
Found at i:115193614 original size:3 final size:3
Alignment explanation
Indices: 115193606--115193633 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
115193596 AGTAAATTAA
115193606 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
115193634 AAACACCGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:115193761 original size:16 final size:16
Alignment explanation
Indices: 115193719--115193770 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
115193709 TATACTCCTC
115193719 TCATATTTTTAATCTTTT
1 TCATATTTTT-A-CTTTT
** *
115193737 TTTTTTTTTTACTTTT
1 TCATATTTTTACTTTT
115193753 TCATATTTTTACATTTT
1 TCATATTTTTAC-TTTT
115193770 T
1 T
115193771 TACTACCCAG
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
16 14 0.52
17 6 0.22
18 7 0.26
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (16 bp):
TCATATTTTTACTTTT
Found at i:115197713 original size:36 final size:36
Alignment explanation
Indices: 115197632--115197702 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
115197622 TTTATAAAAT
* *
115197632 AAATATTTATTATATTTATTTGTTTTTAATATAATA
1 AAATATTTATTATATTTATGTATTTTTAATATAATA
*
115197668 AAATATTTATTATATTTATGGTATTTTTTATATAA
1 AAATATTTATTATATTTAT-GTATTTTTAATATAA
115197703 ATATTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 19 0.61
37 12 0.39
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (36 bp):
AAATATTTATTATATTTATGTATTTTTAATATAATA
Found at i:115197789 original size:17 final size:17
Alignment explanation
Indices: 115197769--115197819 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
115197759 TATTTAATGT
115197769 ATTATATTTTTTAAAAA
1 ATTATATTTTTTAAAAA
**
115197786 ATTAT-TTTTAAATAAAA
1 ATTATATTTTTTA-AAAA
115197803 ATTA-A-TTTTTAAAAA
1 ATTATATTTTTTAAAAA
115197818 AT
1 AT
115197820 AAATTATTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 6 0.21
16 9 0.32
17 13 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTATATTTTTTAAAAA
Found at i:115197803 original size:18 final size:18
Alignment explanation
Indices: 115197780--115197827 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
115197770 TTATATTTTT
115197780 TAAAAAATTATTTTTAAA
1 TAAAAAATTATTTTTAAA
115197798 T-AAAAATTAATTTTTAAA
1 TAAAAAATT-ATTTTTAAA
115197816 -AAATAAATTATT
1 TAAA-AAATTATT
115197828 GACGAATCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 7 0.26
18 15 0.56
19 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAAAATTATTTTTAAA
Found at i:115201470 original size:444 final size:431
Alignment explanation
Indices: 115200349--115202059 Score: 1790
Period size: 435 Copynumber: 3.9 Consensus size: 431
115200339 ACTAGCCTAA
*
115200349 GGCTAAATGGAGTTTA-TTCGAGCATGAAATTAAGCATACTCGATTGGGATTTAAAAATGGATTT
1 GGCTAAATGG-GTTTAGTT-GAGCATGAAATTAATCATACTCGATTGGG-TTT-AAAATGGATTT
* * * * * *
115200413 GAACGTAATGGTAATGAGTGAAAATGAG-GAAGGACTTAAAAAACAATTGAACCAAAAATAAGAA
62 GAACATAATGGTGATAAGTGAAAAGGAGAGAAAGACTTAAAAAGCAATTGAACCAAAAATAAGAA
* * * *
115200477 AATCGAAAAAAAAAATGGA-AGTAAACTTGAATAGTTACTAATG-AGTGAAAAAGAAAAGAATTG
127 AAT-GAGAAAAAAAAT-GACAGTAAACTTGAATAGCTACTGATGCA-TGAAAGAGAAAAGAATTG
* * * *
115200540 TTGTTAATTCTATTAAAGTGTGTTTTTTCCAAGCTACCATTACAAGGTATTTATATATTTTTCAT
189 TTTTTAATTCTATTAAAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTACACATTTTTCAT
* * *
115200605 ATGAAAAATTTAGCATGATTCCTT-CTAAGATTATGCCTAACAACCAACTAAAGTCAATTTTTTT
254 ATGCAAAATTTAGCATGATTCCTTCCTAAGATTATGCCTAACAACCAACTAAAAT-AA-ATTTTT
* * * * **
115200669 TTTATATTCCTAGATTTTGACAAATTCACAATCTGATTTTT-AGCAGCCACTAATTCAACAACTT
317 TTTATATTCATAGAGTTTGACAAAATCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTT
** * * *
115200733 TTCAATTTGGCCCCTTTTATTGCTTATCGTTCCAATTTATAGCCCAATTTGCTA
382 TTCAATTT-GCCAATTTTATTGCTT-CCTTTCCAA-TT-TAGCCCAATTTGCTT
* * * * *
115200787 GGCTAAATAGGGTTTAGTTGAGCATAAAATTAATCATACTCAATTTTGGTTTAAAATGAATTTCA
1 GGCTAAAT-GGGTTTAGTTGAGCATGAAATTAATCATACTCGA-TTGGGTTTAAAATGGATTTGA
* * * * * * * *
115200852 GCACAAAGATGAT-AGTTGAAAAGGAGA-AAAGACTTGAAAAGAAATTGAACTAAAAATAAGGAA
64 ACATAATGGTGATAAG-TGAAAAGGAGAGAAAGACTTAAAAAGCAATTGAACCAAAAATAAGAAA
*
115200915 ATGAG-AAAAAAATGACAGTAAACTTCAATAGCTACTGATGCATGAAAGAGAAAAGAATTGTTTT
128 ATGAGAAAAAAAATGACAGTAAACTTGAATAGCTACTGATGCATGAAAGAGAAAAGAATTGTTTT
* * *
115200979 TAATTCTATTTAAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTACACACTTTTCATTTGC
193 TAATTCTATTAAAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTACACATTTTTCATATGC
* * * * *
115201044 CAAGTTTAGCATGATTAC-TCATACGATTATGCCTAACAACCAACTAAAATAAGATTTTTTTTTT
258 AAAATTTAGCATGATTCCTTCCTAAGATTATGCCTAACAACCAACTAAAATAA-A--TTTTTTTT
* * * * * *
115201108 ATATTCATAGAGCTTGACAAAACCATATTATGATTTTTTATCAGCCACTAATTCTGCAACTTTTC
320 ATATTCATAGAGTTTGACAAAATCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTTC
* *
115201173 AATTTGACCAATTTTATTGTTTCCCTTTCCAACTTAGCCCAATTTGCTT
385 AATTTG-CCAATTTTATTGCTT-CCTTTCCAATTTAGCCCAATTTGCTT
*
115201222 GGCTAAATGGGTTTTAGTTGAGCATGAAATTGATCATACTCGATTGAGGTTTAAAATTGGATTTG
1 GGCTAAATGGG-TTTAGTTGAGCATGAAATTAATCATACTCGATTG-GGTTTAAAA-TGGATTTG
***
115201287 ATTGTAATGGTGATAAGTGAAAAGGAGAAAAGGCGAATAGACTTAAAAAGCAATTGAACCAAAAA
63 AACATAATGGTGATAAGTGAAAAGGAG---A---GAA-AGACTTAAAAAGCAATTGAACCAAAAA
* * *
115201352 TAAGGAAATG-GAAAAAAATTG-CTAGCAAACTTGAATAGCTACTGATGCATGAAAGAGAAAAGA
121 TAAGAAAATGAGAAAAAAAATGAC-AGTAAACTTGAATAGCTACTGATGCATGAAAGAGAAAAGA
* ** * * * * *
115201415 ATTATTTTTAATTCTATTCCAGTTTGTTTTTTCCAAGTCACCATTACAGGGTATTTATATATTTT
185 ATTGTTTTTAATTCTATTAAAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTACACATTTT
* * * *
115201480 TCATCTGCCAAATTTAGCATGATT-CTTCCTAAGATTATGTCTAACAATCAACTAAAATCAAATT
250 TCATATGCAAAATTTAGCATGATTCCTTCCTAAGATTATGCCTAACAACCAACTAAAAT-AAATT
* * * * * * *
115201544 TTCTTTCTATTCATA-AGGTTTGACAAATTCACAATCTGGTTTTTAATTAGCCACTAGTTCTCCA
314 TTTTTTATATTCATAGA-GTTTGACAAAATCACAATCTGATTTTTAATCAGCCACTAATTCTGCA
* * *
115201608 AC-TTTCAATTTCGCCTATTTTATTACTTCTTGTTCCAATTTAGCCCAATTTGCTT
378 ACTTTTCAATTT-GCCAATTTTATTGCTTCCT-TTCCAATTTAGCCCAATTTGCTT
* * * * * *
115201663 GGCCAAATTGGGTTTAGTTGAGCATGAAACTAATCATACTCTATTGGGGTTGGAAAGTGGATTTA
1 GGCTAAA-TGGGTTTAGTTGAGCATGAAATTAATCATACTCGATT-GGGTT-TAAAATGGATTTG
* *
115201728 AAAATAATGGTGATAGGTG-AAAGG-GAGAAAGGACTTAAAAAGCAATTGAACCAAAAATAAGAA
63 AACATAATGGTGATAAGTGAAAAGGAGAGAAA-GACTTAAAAAGCAATTGAACCAAAAATAAG-A
* * * **
115201791 AAATGGAAAAAAAAAATGACAGTACACTTGAATACCTACTGATATATGAAAGAGAAAAGAATTGT
126 AAAT-GAGAAAAAAAATGACAGTAAACTTGAATAGCTACTGATGCATGAAAGAGAAAAGAATTGT
** * * * *
115201856 TTTTAATTCT-TTAACAACGTGCTTTTTT-GAAGCCACCCTTACAAGGTATTTATCTCTTTTTTT
190 TTTTAATTCTATTAA-AGTGTG-TTTTTTCCAAGCCACCATTACAAGGTATTTA-CAC---ATTT
* * *
115201919 TTCATATGCAAAAATTAGTATGATTCC-TCCTAAGATTATGCCTAACAACCAACTAAAATTAGAT
249 TTCATATGCAAAATTTAGCATGATTCCTTCCTAAGATTATGCCTAACAACCAACTAAAA-TAAAT
* * * * *
115201983 TTTTTTTCTATTAATAGAGTTTGA-AAAATTCACAATCTGGTTCTTAATCAGTCACTAATTCTGC
313 TTTTTTTATATTCATAGAGTTTGACAAAA-TCACAATCTGATTTTTAATCAGCCACTAATTCTGC
115202047 AACTTTTCAATTT
377 AACTTTTCAATTT
115202060 TGCCTTGTAA
Statistics
Matches: 1065, Mismatches: 158, Indels: 97
0.81 0.12 0.07
Matches are distributed among these distances:
432 1 0.00
433 33 0.03
434 14 0.01
435 211 0.20
436 151 0.14
437 115 0.11
438 37 0.03
439 13 0.01
440 116 0.11
441 118 0.11
442 62 0.06
443 5 0.00
444 187 0.18
445 2 0.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (431 bp):
GGCTAAATGGGTTTAGTTGAGCATGAAATTAATCATACTCGATTGGGTTTAAAATGGATTTGAAC
ATAATGGTGATAAGTGAAAAGGAGAGAAAGACTTAAAAAGCAATTGAACCAAAAATAAGAAAATG
AGAAAAAAAATGACAGTAAACTTGAATAGCTACTGATGCATGAAAGAGAAAAGAATTGTTTTTAA
TTCTATTAAAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTACACATTTTTCATATGCAAA
ATTTAGCATGATTCCTTCCTAAGATTATGCCTAACAACCAACTAAAATAAATTTTTTTTATATTC
ATAGAGTTTGACAAAATCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTTCAATTTG
CCAATTTTATTGCTTCCTTTCCAATTTAGCCCAATTTGCTT
Found at i:115203559 original size:21 final size:20
Alignment explanation
Indices: 115203529--115203567 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
115203519 ATAGAGTACA
*
115203529 GGTCTGACACAGCCGTGTGAG
1 GGTCTCACAC-GCCGTGTGAG
*
115203550 GGTCTCACACGCTGTGTG
1 GGTCTCACACGCCGTGTG
115203568 CCCACCAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.15, C:0.26, G:0.36, T:0.23
Consensus pattern (20 bp):
GGTCTCACACGCCGTGTGAG
Found at i:115210348 original size:26 final size:29
Alignment explanation
Indices: 115210293--115210351 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
115210283 TCCGCCTTTA
115210293 ATTTATATTTTTTATTATTTTTATACTTTC
1 ATTTATATTTTTTATTATTTTTATA-TTTC
115210323 ATTT-TATTTTTTATT-TTTTTAT-TTTC
1 ATTTATATTTTTTATTATTTTTATATTTC
115210349 ATT
1 ATT
115210352 AAATACAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 7 0.24
28 7 0.24
29 11 0.38
30 4 0.14
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (29 bp):
ATTTATATTTTTTATTATTTTTATATTTC
Found at i:115213351 original size:94 final size:94
Alignment explanation
Indices: 115213220--115213887 Score: 691
Period size: 94 Copynumber: 7.1 Consensus size: 94
115213210 AGTCCACCTG
* * * * *
115213220 AAGTTGTAGTGGGTTGGAATAAAGCTACAATGGCGAATCTTATCTCCCTGAAGTTGCAGTAAAAC
1 AAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAGTAGAGC
* *
115213285 AAGGTGAAGCTATAAATCCTATACCCCTA
66 AAGATGAAGCTACAAATCCTATACCCCTA
* * * *
115213314 AAGTTACAGTGGGTTGGAATGAAGTTATC-ATAACGAATCTTATCAT-CCTGAAGTTGCAGTGGA
1 AAGTTGCAGTGGGTTGGAATGAAGCTA-CAATAGCGAATCTTATC-TCCCTGAAGTTGCAGTAGA
* * *
115213377 GCAAGATGAAGCTACAAAT-CTAATACTCTTG
64 GCAAGATGAAGCTACAAATCCT-ATACCCCTA
* * * * **
115213408 AAGTTGCAGTGGGTTGGAATGAAACTACTATAGCGACTCTTATCTCACTGAAGTTATAGTAGAGC
1 AAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAGTAGAGC
* *
115213473 AAGATGAAGCTACAAATCCTATACCCTTG
66 AAGATGAAGCTACAAATCCTATACCCCTA
* * * * * * * *
115213502 AAGTTACAATGGATTGGAATGAAGCTACCATAGCAAATCTTATCTTCTTGAAGTTGCAAT-GAAG
1 AAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAGTAG-AG
* *
115213566 TAAGATGAAGCTACAAATCCTATACCCCTG
65 CAAGATGAAGCTACAAATCCTATACCCCTA
* * * * * *
115213596 AAGTTGCAATGGGTTGGAATAAAGCTACAATAGCAAATCTTATCTCGCTAAAGTTGTAGTAGAGC
1 AAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAGTAGAGC
* * *
115213661 AAGATAAAGCTACAAATCCTACAACCCTA
66 AAGATGAAGCTACAAATCCTATACCCCTA
* * ** * *
115213690 AAGTTGTAGTGGGTTGGAATGAAGCTACAATAGC-ACATTTTATGACCTTGAAGTTGCAGTGGAG
1 AAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGA-ATCTTATCTCCCTGAAGTTGCAGTAGAG
* * **
115213754 CAAGATAAAGCAACAAATCCTATACATCTA
65 CAAGATGAAGCTACAAATCCTATACCCCTA
* * * * **
115213784 AAGTTGCAGTAGGTTGGAATGAAGCTACAATAGCGAATCTTATCTTCCTAAAGTTGTAGTAGAAA
1 AAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAGTAGAGC
* * * *
115213849 AACATGAAACTTCAAATCGTAT-CCCTCTA
66 AAGATGAAGCTACAAATCCTATACCC-CTA
115213878 AAGTTGCAGT
1 AAGTTGCAGT
115213888 TGTAACACCC
Statistics
Matches: 473, Mismatches: 90, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
93 7 0.01
94 460 0.97
95 6 0.01
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (94 bp):
AAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAGTAGAGC
AAGATGAAGCTACAAATCCTATACCCCTA
Found at i:115213422 original size:188 final size:185
Alignment explanation
Indices: 115213217--115213887 Score: 765
Period size: 188 Copynumber: 3.6 Consensus size: 185
115213207 TCTAGTCCAC
* * * * *
115213217 CTGAAGTTGTAGTGGGTTGGAATAAAGCTACAATGGCGAATCTTATCTCCCTGAAGTTGCAGTAA
1 CTGAAGTTGCAGTGGGTTGGAATAAAGCTACAATAGCGAATCTTATCTCCCTAAAGTTGTAGTAG
* * * * *
115213282 AACAAGGTGAAGCTATAAATCCTATACCCCTAAAGTTACAGTGGGTTGGAATGAAGTTATCATAA
66 AGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTACAGTGGGTTGGAATGAAGCTA-CATAG
115213347 CGAATCTTATCATCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAAT-CTAATACT
130 C-AATCTTATCATCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCT-ATACT
* * * * *
115213404 CTTGAAGTTGCAGTGGGTTGGAATGAAA-CTACTATAGCGACTCTTATCTCACTGAAGTTATAGT
1 C-TGAAGTTGCAGTGGGTTGGAAT-AAAGCTACAATAGCGAATCTTATCTCCCTAAAGTTGTAGT
* * * *
115213468 AGAGCAAGATGAAGCTACAAATCCTATACCCTTGAAGTTACAATGGATTGGAATGAAGCTACCAT
64 AGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTACAGTGGGTTGGAATGAAGCTA-CAT
* * * * * *
115213533 AGCAAATCTTATCTTCTTGAAGTTGCAATGAAGTAAGATGAAGCTACAAATCCTATACCC
128 AGC-AATCTTATCATCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA-CT
* * *
115213593 CTGAAGTTGCAATGGGTTGGAATAAAGCTACAATAGCAAATCTTATCTCGCTAAAGTTGTAGTAG
1 CTGAAGTTGCAGTGGGTTGGAATAAAGCTACAATAGCGAATCTTATCTCCCTAAAGTTGTAGTAG
* * * **
115213658 AGCAAGATAAAGCTACAAATCCTACAACCCTAAAGTTGTAGTGGGTTGGAATGAAGCTACAATAG
66 AGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTACAGTGGGTTGGAATGAAGCTAC-ATAG
* * * *
115213723 CACATTTTATGA-CCTTGAAGTTGCAGTGGAGCAAGATAAAGCAACAAATCCTATACAT
130 CA-ATCTTATCATCC-TGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATAC-T
* * * *
115213781 CTAAAGTTGCAGTAGGTTGGAATGAAGCTACAATAGCGAATCTTATCTTCCTAAAGTTGTAGTAG
1 CTGAAGTTGCAGTGGGTTGGAATAAAGCTACAATAGCGAATCTTATCTCCCTAAAGTTGTAGTAG
** * * * * *
115213846 AAAAACATGAAACTTCAAATCGTAT-CCCTCTAAAGTTGCAGT
66 AGCAAGATGAAGCTACAAATCCTATACCC-CTAAAGTTACAGT
115213888 TGTAACACCC
Statistics
Matches: 406, Mismatches: 68, Indels: 19
0.82 0.14 0.04
Matches are distributed among these distances:
187 10 0.02
188 389 0.96
189 7 0.02
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (185 bp):
CTGAAGTTGCAGTGGGTTGGAATAAAGCTACAATAGCGAATCTTATCTCCCTAAAGTTGTAGTAG
AGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTACAGTGGGTTGGAATGAAGCTACATAGC
AATCTTATCATCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACT
Found at i:115213524 original size:44 final size:44
Alignment explanation
Indices: 115213476--115213625 Score: 133
Period size: 44 Copynumber: 3.3 Consensus size: 44
115213466 GTAGAGCAAG
*
115213476 ATGAAGCTACAAATCCTATACCCTTGAAGTTACAATGGATTGGA
1 ATGAAGCTACAAATCCTATACCCTTGAAGTTGCAATGGATTGGA
* * * * *
115213520 ATGAAGCTACCATAGCAAATCTTAT-CTTCTTGAAGTTGCAATGAAGT-AA
1 ATGAAG----C-TA-CAAATCCTATAC-CCTTGAAGTTGCAATGGATTGGA
* *
115213569 GATGAAGCTACAAATCCTATACCCCTGAAGTTGCAATGGGTTGGA
1 -ATGAAGCTACAAATCCTATACCCTTGAAGTTGCAATGGATTGGA
*
115213614 ATAAAGCTACAA
1 ATGAAGCTACAA
115213626 TAGCAAATCT
Statistics
Matches: 82, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
44 41 0.50
45 4 0.05
46 1 0.01
48 1 0.01
49 4 0.05
50 31 0.38
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (44 bp):
ATGAAGCTACAAATCCTATACCCTTGAAGTTGCAATGGATTGGA
Found at i:115213562 original size:50 final size:50
Alignment explanation
Indices: 115213497--115213641 Score: 126
Period size: 50 Copynumber: 3.0 Consensus size: 50
115213487 AATCCTATAC
*
115213497 CCTTGAAGTTACAATGGATTGGAATGAAGCTACCATAGCAAATCTTATCT
1 CCTTGAAGTTGCAATGGATTGGAATGAAGCTACCATAGCAAATCTTATCT
* * * * *
115213547 TCTTGAAGTTGCAATGAAGT-AAGATGAAG----C-TA-CAAATCCTATAC-
1 CCTTGAAGTTGCAATGGATTGGA-ATGAAGCTACCATAGCAAATCTTAT-CT
* * * *
115213591 CCCTGAAGTTGCAATGGGTTGGAATAAAGCTACAATAGCAAATCTTATCT
1 CCTTGAAGTTGCAATGGATTGGAATGAAGCTACCATAGCAAATCTTATCT
115213641 C
1 C
115213642 GCTAAAGTTG
Statistics
Matches: 70, Mismatches: 15, Indels: 20
0.67 0.14 0.19
Matches are distributed among these distances:
44 29 0.41
45 4 0.06
46 1 0.01
49 4 0.06
50 32 0.46
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (50 bp):
CCTTGAAGTTGCAATGGATTGGAATGAAGCTACCATAGCAAATCTTATCT
Found at i:115215023 original size:18 final size:17
Alignment explanation
Indices: 115214996--115215031 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
115214986 ACCCATGTGG
115214996 CCTGCCCGTGTGGACCCA
1 CCTGCCCGTGTGG-CCCA
*
115215014 CCTGCTCGTGTGGCCCA
1 CCTGCCCGTGTGGCCCA
115215031 C
1 C
115215032 ATGGCCCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.08, C:0.44, G:0.28, T:0.19
Consensus pattern (17 bp):
CCTGCCCGTGTGGCCCA
Found at i:115220809 original size:15 final size:15
Alignment explanation
Indices: 115220789--115220818 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
115220779 CATTTTATTT
*
115220789 ATATTAGGATAATTA
1 ATATTAAGATAATTA
115220804 ATATTAAGATAATTA
1 ATATTAAGATAATTA
115220819 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:115222381 original size:13 final size:13
Alignment explanation
Indices: 115222365--115222389 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
115222355 CATAAATAAT
115222365 TTCTTTAAAACCA
1 TTCTTTAAAACCA
115222378 TTCTTTAAAACC
1 TTCTTTAAAACC
115222390 CAAATCCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (13 bp):
TTCTTTAAAACCA
Found at i:115223831 original size:23 final size:23
Alignment explanation
Indices: 115223801--115223845 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
115223791 GTCCGAGTAG
115223801 TGTAGGTCTATTTAACATATTTA
1 TGTAGGTCTATTTAACATATTTA
115223824 TGTAGGTCTATTTAACATATTT
1 TGTAGGTCTATTTAACATATTT
115223846 GTCCAACACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.49
Consensus pattern (23 bp):
TGTAGGTCTATTTAACATATTTA
Found at i:115228810 original size:16 final size:16
Alignment explanation
Indices: 115228789--115228843 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
115228779 TGAATTATTT
115228789 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
115228805 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
115228821 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
115228837 ATTACAG
1 ATTACAG
115228844 TGAACCAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:115232409 original size:40 final size:41
Alignment explanation
Indices: 115232264--115232442 Score: 129
Period size: 41 Copynumber: 4.4 Consensus size: 41
115232254 TACTCGATAT
** * * *
115232264 CTCGCACACTAAGTGCTAAAGCATAGCCGAAGCTAT-TATAAT
1 CTCGCACACTAAGTGCTCTA-TATAGCCGAAGCTATCT-CAAC
* *
115232306 CTCGCACACTAAGTGCT-TTTCATAGCTGAAGCTATCTCAAC
1 CTCGCACACTAAGTGCTCTAT-ATAGCCGAAGCTATCTCAAC
* ** * *
115232347 CTCACACACTAAGCAC-CGTATATAACCGAAGCTAT-TCTGA-
1 CTCGCACACTAAGTGCTC-TATATAGCCGAAGCTATCTC-AAC
*
115232387 CTCGCACACTAAGTGCTCTATATAGCCAAAGCTATCTCGAA-
1 CTCGCACACTAAGTGCTCTATATAGCCGAAGCTATCTC-AAC
*
115232428 -ACGCACACTAAGTGC
1 CTCGCACACTAAGTGC
115232443 CAATCTTAGT
Statistics
Matches: 109, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
40 44 0.40
41 45 0.41
42 20 0.18
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.24
Consensus pattern (41 bp):
CTCGCACACTAAGTGCTCTATATAGCCGAAGCTATCTCAAC
Found at i:115233798 original size:94 final size:94
Alignment explanation
Indices: 115233561--115233819 Score: 277
Period size: 94 Copynumber: 2.8 Consensus size: 94
115233551 GGCTGTTACA
* * *
115233561 GCAGTGGGTTGGAATGAAGCTACAATACCAAATCTTTTCTCCCTAAAGTTGCAGTGGAGCAAGAT
1 GCAGTGGGTTGGAATGAAACTACAATAACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGAT
* *
115233626 GAAGCTACAAGTCATATGCCCTTAAAGTT
66 GAAGCTACAAATCATATACCCTTAAAGTT
* ** * *** * * *
115233655 GCAGTAGGTTGGAACAAAACTATAATAGTGAATCTTATTTCCCTGAAGTTGTAGTGGAGCAAGAT
1 GCAGTGGGTTGGAATGAAACTACAATAACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGAT
* * *
115233720 AAAGCTACAAATCCTATACCAC-TGAAGTT
66 GAAGCTACAAATCATATACC-CTTAAAGTT
* * * * * * *
115233749 TCAGTGGGTTGGAATGAAATTACAACAACAAATCGTATCTCCTTAAAGTTGCAATTGAGCAAGAT
1 GCAGTGGGTTGGAATGAAACTACAATAACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGAT
115233814 GAAGCT
66 GAAGCT
115233820 GTGATACTAA
Statistics
Matches: 129, Mismatches: 35, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
94 128 0.99
95 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (94 bp):
GCAGTGGGTTGGAATGAAACTACAATAACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGAT
GAAGCTACAAATCATATACCCTTAAAGTT
Found at i:115235982 original size:26 final size:26
Alignment explanation
Indices: 115235953--115236086 Score: 223
Period size: 26 Copynumber: 5.2 Consensus size: 26
115235943 TGGTACAAAT
115235953 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
115235979 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
115236005 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
115236031 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
**
115236057 TGATAATGATTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
115236083 TGAT
1 TGAT
115236087 GGGCATTTCA
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:115237277 original size:8 final size:8
Alignment explanation
Indices: 115237264--115237293 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
115237254 AGATCGGCAC
115237264 AAGCCGAA
1 AAGCCGAA
115237272 AAGCCGAA
1 AAGCCGAA
*
115237280 ATGCCGAA
1 AAGCCGAA
115237288 AAGCCG
1 AAGCCG
115237294 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Done.