Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 82 of 203
Found at i:25919139 original size:25 final size:26
Alignment explanation
Indices: 25919088--25919148 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
25919078 AAGAAAATCC
* **
25919088 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
25919114 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
25919139 AAAATGAATG
1 AAAA-GAATG
25919149 CAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:25923915 original size:19 final size:19
Alignment explanation
Indices: 25923891--25923944 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
25923881 AATCATATCT
* *
25923891 TCTAAGATTGCATTTTATA
1 TCTAAGATTGCATATCATA
*
25923910 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
25923929 TCTAAAATTGCATATC
1 TCTAAGATTGCATATC
25923945 CTTGAAGATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:25925869 original size:11 final size:11
Alignment explanation
Indices: 25925809--25925869 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
25925799 GCATATTTGA
25925809 AATTTTTATAT
1 AATTTTTATAT
* * *
25925820 ACTTTTTAGAA
1 AATTTTTATAT
25925831 AATTTTTA-AT
1 AATTTTTATAT
**
25925841 AATTAATAT-T
1 AATTTTTATAT
25925851 ATATTTTTATAT
1 A-ATTTTTATAT
25925863 AATTTTT
1 AATTTTT
25925870 GGAGTTTTTT
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
10 9 0.24
11 27 0.71
12 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (11 bp):
AATTTTTATAT
Found at i:25927602 original size:31 final size:27
Alignment explanation
Indices: 25927541--25927604 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 27
25927531 CATTTTAGTA
*
25927541 AAAAATTATAAATAATTTTAATAAAAT
1 AAAAATTATAAATAATTTGAATAAAAT
*
25927568 AAAAATTATCAAATATATATTAGAATTAAAT
1 AAAAATTAT-AAATA-AT-TT-GAATAAAAT
25927599 AAAAAT
1 AAAAAT
25927605 GATTTCTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 9 0.29
28 5 0.16
29 2 0.06
30 2 0.06
31 13 0.42
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (27 bp):
AAAAATTATAAATAATTTGAATAAAAT
Found at i:25928498 original size:9 final size:9
Alignment explanation
Indices: 25928486--25928568 Score: 61
Period size: 9 Copynumber: 9.8 Consensus size: 9
25928476 TCAAAATAAT
25928486 TTTAAAATA
1 TTTAAAATA
25928495 TTTAAAATA
1 TTTAAAATA
*
25928504 TTTATAAAAA
1 TTTA-AAATA
**
25928514 TTCCAAA-A
1 TTTAAAATA
* * *
25928522 TTTATATTT
1 TTTAAAATA
25928531 TTTAAAAT-
1 TTTAAAATA
25928539 TTTAAAAT-
1 TTTAAAATA
25928547 TTTAAAAT-
1 TTTAAAATA
25928555 TTT--AATA
1 TTTAAAATA
25928562 TTTAAAA
1 TTTAAAA
25928569 AAAATCTAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
6 3 0.05
7 3 0.05
8 23 0.39
9 24 0.41
10 6 0.10
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (9 bp):
TTTAAAATA
Found at i:25928521 original size:20 final size:19
Alignment explanation
Indices: 25928470--25928522 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
25928460 AAAATTTAAA
25928470 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
*
25928489 AAAATATTTAAAAT-ATTTAT
1 AAAA-ATTCAAAATAATTT-T
25928509 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
25928523 TTATATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:25928529 original size:24 final size:24
Alignment explanation
Indices: 25928501--25928548 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
25928491 AATATTTAAA
25928501 ATATTTATAAAAATTCCAAAATTT
1 ATATTTATAAAAATTCCAAAATTT
* * **
25928525 ATATTTTTTAAAATTTTAAAATTT
1 ATATTTATAAAAATTCCAAAATTT
25928549 TAAAATTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (24 bp):
ATATTTATAAAAATTCCAAAATTT
Found at i:25928541 original size:8 final size:8
Alignment explanation
Indices: 25928530--25928568 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
25928520 AATTTATATT
25928530 TTTTAAAA
1 TTTTAAAA
25928538 TTTTAAAA
1 TTTTAAAA
25928546 TTTTAAAA
1 TTTTAAAA
*
25928554 TTTTAATA
1 TTTTAAAA
25928562 -TTTAAAA
1 TTTTAAAA
25928569 AAAATCTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
TTTTAAAA
Found at i:25938477 original size:81 final size:81
Alignment explanation
Indices: 25938338--25938578 Score: 284
Period size: 81 Copynumber: 3.0 Consensus size: 81
25938328 TGATGGAGTT
* * **
25938338 CCAAAAGCCGGTGTCGAGGACGGAGTTCCAAACGCCGGTGTCGAAGACGGAGCCCCAAACGCAGG
1 CCAAAAGCCGGTGTCGAAGAAGGAGTTCCAAACGCCGGTGTCGAAGACGGAGTGCCAAACGCAGG
* *
25938403 TGTCGAAGACGGAGCC
66 TGTGGAAGAAGGAGCC
* * ** * *
25938419 CCAAACGCAGGTGTCGAAGAAGGAGTGACAAACGCCGGTGTCGAAGACGGAGTGCCAAATGCCGG
1 CCAAAAGCCGGTGTCGAAGAAGGAGTTCCAAACGCCGGTGTCGAAGACGGAGTGCCAAACGCAGG
25938484 TGTGGAAGAAGGAGCC
66 TGTGGAAGAAGGAGCC
* * * * * * * * *
25938500 CCAAAAGCCGGAGTGGAAGGAGTAGTTCCAAAGGCCGGGGTGGAAGAAGGAGTGCCAAAGGCAGG
1 CCAAAAGCCGGTGTCGAAGAAGGAGTTCCAAACGCCGGTGTCGAAGACGGAGTGCCAAACGCAGG
*
25938565 GGTGGAAGAAGGAG
66 TGTGGAAGAAGGAG
25938579 TGCCGAAGGC
Statistics
Matches: 133, Mismatches: 27, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 133 1.00
ACGTcount: A:0.30, C:0.21, G:0.39, T:0.10
Consensus pattern (81 bp):
CCAAAAGCCGGTGTCGAAGAAGGAGTTCCAAACGCCGGTGTCGAAGACGGAGTGCCAAACGCAGG
TGTGGAAGAAGGAGCC
Found at i:25938515 original size:27 final size:27
Alignment explanation
Indices: 25938332--25938579 Score: 208
Period size: 27 Copynumber: 9.2 Consensus size: 27
25938322 CGGCGTTGAT
* * * *
25938332 GGAGTTCCAAAAGCCGGTGTCGAGGAC
1 GGAGTCCCAAACGCCGGTGTCGAAGAA
* *
25938359 GGAGTTCCAAACGCCGGTGTCGAAGAC
1 GGAGTCCCAAACGCCGGTGTCGAAGAA
* * *
25938386 GGAGCCCCAAACGCAGGTGTCGAAGAC
1 GGAGTCCCAAACGCCGGTGTCGAAGAA
* *
25938413 GGAGCCCCAAACGCAGGTGTCGAAGAA
1 GGAGTCCCAAACGCCGGTGTCGAAGAA
** *
25938440 GGAGTGACAAACGCCGGTGTCGAAGAC
1 GGAGTCCCAAACGCCGGTGTCGAAGAA
* * *
25938467 GGAGTGCCAAATGCCGGTGTGGAAGAA
1 GGAGTCCCAAACGCCGGTGTCGAAGAA
* * * * *
25938494 GGAGCCCCAAAAGCCGGAGTGGAAGGA
1 GGAGTCCCAAACGCCGGTGTCGAAGAA
* * * * *
25938521 GTAGTTCCAAAGGCCGGGGTGGAAGAA
1 GGAGTCCCAAACGCCGGTGTCGAAGAA
* * * * *
25938548 GGAGTGCCAAAGGCAGGGGTGGAAGAA
1 GGAGTCCCAAACGCCGGTGTCGAAGAA
25938575 GGAGT
1 GGAGT
25938580 GCCGAAGGCA
Statistics
Matches: 192, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 192 1.00
ACGTcount: A:0.30, C:0.21, G:0.39, T:0.11
Consensus pattern (27 bp):
GGAGTCCCAAACGCCGGTGTCGAAGAA
Found at i:25938596 original size:27 final size:27
Alignment explanation
Indices: 25938434--25938599 Score: 107
Period size: 27 Copynumber: 6.1 Consensus size: 27
25938424 CGCAGGTGTC
* * * ** *
25938434 GAAGAAGGAGTGACAAACGCCGGTGTC
1 GAAGAAGGAGTGCCAAAGGCAGAAGTG
* * * **
25938461 GAAGACGGAGTGCCAAATGCCGGTGTG
1 GAAGAAGGAGTGCCAAAGGCAGAAGTG
** * * *
25938488 GAAGAAGGAGCCCCAAAAGCCGGAGTG
1 GAAGAAGGAGTGCCAAAGGCAGAAGTG
* * * * **
25938515 GAAGGAGTAGTTCCAAAGGCCGGGGTG
1 GAAGAAGGAGTGCCAAAGGCAGAAGTG
**
25938542 GAAGAAGGAGTGCCAAAGGCAGGGGTG
1 GAAGAAGGAGTGCCAAAGGCAGAAGTG
*
25938569 GAAGAAGGAGTGCCGAAGGCAGAAGTG
1 GAAGAAGGAGTGCCAAAGGCAGAAGTG
25938596 GAAG
1 GAAG
25938600 CTTGAGCTCC
Statistics
Matches: 117, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.33, C:0.16, G:0.42, T:0.10
Consensus pattern (27 bp):
GAAGAAGGAGTGCCAAAGGCAGAAGTG
Found at i:25938597 original size:54 final size:54
Alignment explanation
Indices: 25938434--25938599 Score: 161
Period size: 54 Copynumber: 3.1 Consensus size: 54
25938424 CGCAGGTGTC
* * * * * * *
25938434 GAAGAAGGAGTGACAAACGCCGGTGTCGAAGACGGAGTGCCAAATGCCGGTGTG
1 GAAGAAGGAGTGCCAAAAGCCGGAGTGGAAGAAGGAGTGCCAAAGGCCGGAGTG
** * * * *
25938488 GAAGAAGGAGCCCCAAAAGCCGGAGTGGAAGGAGTAGTTCCAAAGGCCGGGGTG
1 GAAGAAGGAGTGCCAAAAGCCGGAGTGGAAGAAGGAGTGCCAAAGGCCGGAGTG
* * * * * *
25938542 GAAGAAGGAGTGCCAAAGGCAGGGGTGGAAGAAGGAGTGCCGAAGGCAGAAGTG
1 GAAGAAGGAGTGCCAAAAGCCGGAGTGGAAGAAGGAGTGCCAAAGGCCGGAGTG
25938596 GAAG
1 GAAG
25938600 CTTGAGCTCC
Statistics
Matches: 88, Mismatches: 24, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 88 1.00
ACGTcount: A:0.33, C:0.16, G:0.42, T:0.10
Consensus pattern (54 bp):
GAAGAAGGAGTGCCAAAAGCCGGAGTGGAAGAAGGAGTGCCAAAGGCCGGAGTG
Found at i:25939150 original size:20 final size:21
Alignment explanation
Indices: 25939112--25939151 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
25939102 AAGCATGTTC
* *
25939112 TAAACATCATTTAAGCATATT
1 TAAACATCATTCAAACATATT
25939133 TAAACA-CATTCAAACATAT
1 TAAACATCATTCAAACATAT
25939152 AGCTATTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (21 bp):
TAAACATCATTCAAACATATT
Found at i:25942360 original size:29 final size:29
Alignment explanation
Indices: 25942327--25942395 Score: 138
Period size: 29 Copynumber: 2.4 Consensus size: 29
25942317 AATTCTTAAT
25942327 GAACAAGTTCTTCATCGCAAACTCTCAAC
1 GAACAAGTTCTTCATCGCAAACTCTCAAC
25942356 GAACAAGTTCTTCATCGCAAACTCTCAAC
1 GAACAAGTTCTTCATCGCAAACTCTCAAC
25942385 GAACAAGTTCT
1 GAACAAGTTCT
25942396 CCACCTCTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.25
Consensus pattern (29 bp):
GAACAAGTTCTTCATCGCAAACTCTCAAC
Found at i:25947214 original size:23 final size:23
Alignment explanation
Indices: 25947135--25947215 Score: 72
Period size: 23 Copynumber: 3.5 Consensus size: 23
25947125 AATTGTATTG
* * * *
25947135 AAGTGCCAATAACAATTAAATCG
1 AAGTGCCAATAACAATCACACCA
* **
25947158 ATGTGCCAATAACAATCACACTG
1 AAGTGCCAATAACAATCACACCA
** *
25947181 AAGTGTTAATAACAATCGCACCA
1 AAGTGCCAATAACAATCACACCA
25947204 AAGTGCCAATAA
1 AAGTGCCAATAA
25947216 GCTCCTACCA
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.21
Consensus pattern (23 bp):
AAGTGCCAATAACAATCACACCA
Found at i:25955505 original size:41 final size:41
Alignment explanation
Indices: 25955439--25955594 Score: 244
Period size: 41 Copynumber: 3.8 Consensus size: 41
25955429 TTTATCGTTA
* * * *
25955439 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
25955480 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
25955521 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
25955562 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
25955595 NNNNNNNNNN
Statistics
Matches: 108, Mismatches: 3, Indels: 8
0.91 0.03 0.07
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 103 0.95
42 2 0.02
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:25957765 original size:41 final size:40
Alignment explanation
Indices: 25957708--25957866 Score: 144
Period size: 41 Copynumber: 3.9 Consensus size: 40
25957698 GAATGTAATA
* *
25957708 CAGACGTTACGTCTAGCAGGCTTAA-TGCCGGTGAAGTATTT
1 CAGACTTTAAGTCTAGCAGGC-TAAGTGCCGGTGAA-TATTT
*
25957749 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGC-TAAGTGCCGGTGA-ATATTT
* * * *
25957790 CAGACTATATGTCTAGCAGGCTAAGTGCCGGTGTACTGA-AT
1 CAGACTTTAAGTCTAGCAGGCTAAGTGCCGGTG-AAT-ATTT
* * * *
25957831 CAGGCTTTAAGCCTAGCAGGCAAATTGCCGGTGAAT
1 CAGACTTTAAGTCTAGCAGGCTAAGTGCCGGTGAAT
25957867 CTGTTTAAAT
Statistics
Matches: 99, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
40 5 0.05
41 91 0.92
42 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (40 bp):
CAGACTTTAAGTCTAGCAGGCTAAGTGCCGGTGAATATTT
Found at i:25961130 original size:20 final size:18
Alignment explanation
Indices: 25961105--25961141 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
25961095 GGTAGGATTT
25961105 TGCTACTGCATAACTGTTAC
1 TGCTACTG-AT-ACTGTTAC
25961125 TGCTACTGATACTGTTA
1 TGCTACTGATACTGTTA
25961142 TGGGCTAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 2 0.12
20 8 0.47
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (18 bp):
TGCTACTGATACTGTTAC
Found at i:25962419 original size:28 final size:28
Alignment explanation
Indices: 25962388--25962450 Score: 126
Period size: 28 Copynumber: 2.2 Consensus size: 28
25962378 TCGTGATCCA
25962388 GCATGCCACATGGAAGGGTACTGATGTG
1 GCATGCCACATGGAAGGGTACTGATGTG
25962416 GCATGCCACATGGAAGGGTACTGATGTG
1 GCATGCCACATGGAAGGGTACTGATGTG
25962444 GCATGCC
1 GCATGCC
25962451 CCATCAGGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.24, C:0.21, G:0.35, T:0.21
Consensus pattern (28 bp):
GCATGCCACATGGAAGGGTACTGATGTG
Found at i:25962655 original size:8 final size:8
Alignment explanation
Indices: 25962584--25962666 Score: 50
Period size: 8 Copynumber: 10.0 Consensus size: 8
25962574 TTAGATAAGC
25962584 TTAAAACTA
1 TTAAAA-TA
25962593 TATAAAAT-
1 T-TAAAATA
25962601 TTAAAAATTA
1 TT-AAAA-TA
25962611 TTAAAA-A
1 TTAAAATA
*
25962618 --AATATA
1 TTAAAATA
25962624 TTAATAATA
1 TTAA-AATA
25962633 TTTAAAA-A
1 -TTAAAATA
25962641 TTATAAAATA
1 -T-TAAAATA
25962651 TTAAAATA
1 TTAAAATA
25962659 TTAAAATA
1 TTAAAATA
25962667 ATTTATTTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 23
0.71 0.02 0.27
Matches are distributed among these distances:
5 3 0.05
6 1 0.02
7 2 0.03
8 25 0.41
9 18 0.30
10 12 0.20
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (8 bp):
TTAAAATA
Found at i:25964537 original size:17 final size:17
Alignment explanation
Indices: 25964515--25964550 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
25964505 GTAAGTTGTA
25964515 TTTCTAGTTATACGAAC
1 TTTCTAGTTATACGAAC
25964532 TTTCTAGTTATACGAAC
1 TTTCTAGTTATACGAAC
25964549 TT
1 TT
25964551 ACTAAGCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (17 bp):
TTTCTAGTTATACGAAC
Found at i:25966048 original size:17 final size:17
Alignment explanation
Indices: 25966021--25966053 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
25966011 TGTATTTTTA
25966021 TGAATTGTG-AATAAAG
1 TGAATTGTGAAATAAAG
25966037 TGAATATGTGAAATAAA
1 TGAAT-TGTGAAATAAA
25966054 AATGTAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.30
Consensus pattern (17 bp):
TGAATTGTGAAATAAAG
Found at i:25971448 original size:41 final size:41
Alignment explanation
Indices: 25971402--25971483 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
25971392 TAAGATAACC
25971402 TCATCACATACCAAAACCAAGATTTGTTAGCCATACCAATG
1 TCATCACATACCAAAACCAAGATTTGTTAGCCATACCAATG
25971443 TCATCACATACCAAAACCAAGATTTGTTAGCCATACCAATG
1 TCATCACATACCAAAACCAAGATTTGTTAGCCATACCAATG
25971484 GCTAATTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (41 bp):
TCATCACATACCAAAACCAAGATTTGTTAGCCATACCAATG
Found at i:25975198 original size:2 final size:2
Alignment explanation
Indices: 25975191--25975218 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25975181 GAATCTAAAA
25975191 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25975219 TGAAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25977185 original size:6 final size:6
Alignment explanation
Indices: 25977176--25977207 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
25977166 TTTGTATATA
25977176 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT
25977208 TACATTCTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:25977802 original size:22 final size:21
Alignment explanation
Indices: 25977777--25977827 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
25977767 ATAATAGTAC
*
25977777 ATAAAATATATA-CAATATTAAA
1 ATAAAATATAGATCAA-A-TAAA
*
25977799 ATAAAAAATAGATCAAATAAA
1 ATAAAATATAGATCAAATAAA
25977820 ATAAAATA
1 ATAAAATA
25977828 AAATTTAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 11 0.44
22 11 0.44
23 3 0.12
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (21 bp):
ATAAAATATAGATCAAATAAA
Found at i:25984486 original size:22 final size:20
Alignment explanation
Indices: 25984451--25984509 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 20
25984441 CAAAGAAATA
25984451 TAAAAATA-ATATAAATAATT
1 TAAAAATATA-ATAAATAATT
25984471 TCAAAAAATATAAT-AATAAATT
1 T--AAAAATATAATAAAT-AATT
25984493 TAAAAATATAA-AAATAA
1 TAAAAATATAATAAATAA
25984510 AAAAATATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
19 2 0.06
20 14 0.41
21 3 0.09
22 14 0.41
23 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAAAATATAATAAATAATT
Found at i:25984500 original size:50 final size:48
Alignment explanation
Indices: 25984446--25984596 Score: 146
Period size: 55 Copynumber: 3.0 Consensus size: 48
25984436 AAATTCAAAG
25984446 AAATATAAAAATAATATAAATAATTTCAAAAAATATAATAATAAATTTAA
1 AAATATAAAAATAA-ATAAAT-ATTTCAAAAAATATAATAATAAATTTAA
* * *
25984496 AAATATAAAAATAAAAAAATATTGCTGACAAGAAATAATAATATATAAAATTTTA
1 AAATATAAAAATAAATAAATATT--T--CAAAAAAT-ATAATA-AT-AAATTTAA
** *
25984551 AAATATAAAAATAAAT--AT-TTTCAAAATGTATAATGATAAATTTAA
1 AAATATAAAAATAAATAAATATTTCAAAAAATATAATAATAAATTTAA
25984596 A
1 A
25984597 TTTTATATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
45 8 0.09
46 2 0.02
47 5 0.06
48 8 0.09
49 5 0.06
50 16 0.19
52 9 0.11
53 8 0.09
54 2 0.02
55 22 0.26
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (48 bp):
AAATATAAAAATAAATAAATATTTCAAAAAATATAATAATAAATTTAA
Found at i:25984893 original size:7 final size:7
Alignment explanation
Indices: 25984881--25984911 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
25984871 TTGGTGAGGG
25984881 AGGGATT
1 AGGGATT
25984888 AGGGATT
1 AGGGATT
25984895 AGGGATT
1 AGGGATT
25984902 AGGGATT
1 AGGGATT
25984909 AGG
1 AGG
25984912 AATTGAGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.45, T:0.26
Consensus pattern (7 bp):
AGGGATT
Found at i:25984921 original size:14 final size:13
Alignment explanation
Indices: 25984890--25984936 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 13
25984880 GAGGGATTAG
25984890 GGATTAGGGATT-A
1 GGATTA-GGATTGA
25984903 GGGATTAGGAATTGA
1 -GGATTAGG-ATTGA
25984918 GGATTGAGGATTGA
1 GGATT-AGGATTGA
25984932 GGATT
1 GGATT
25984937 GGGGATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.07
14 24 0.80
15 4 0.13
ACGTcount: A:0.30, C:0.00, G:0.40, T:0.30
Consensus pattern (13 bp):
GGATTAGGATTGA
Found at i:25984921 original size:21 final size:19
Alignment explanation
Indices: 25984881--25984939 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 19
25984871 TTGGTGAGGG
25984881 AGGGATTAGGGATTAGGGATT
1 AGGGATTA-GGATT-GGGATT
25984902 AGGGATTAGGAATTGAGGATT
1 AGGGATTAGG-ATTG-GGATT
25984923 -GAGGATTGAGGATTGGG
1 AG-GGATT-AGGATTGGG
25984940 GATTTTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.18
21 25 0.74
22 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.44, T:0.27
Consensus pattern (19 bp):
AGGGATTAGGATTGGGATT
Found at i:25984923 original size:7 final size:7
Alignment explanation
Indices: 25984904--25984943 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
25984894 TAGGGATTAG
25984904 GGATT-A
1 GGATTGA
25984910 GGAATTGA
1 GG-ATTGA
25984918 GGATTGA
1 GGATTGA
25984925 GGATTGA
1 GGATTGA
*
25984932 GGATTGG
1 GGATTGA
25984939 GGATT
1 GGATT
25984944 TTATTTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
6 2 0.06
7 26 0.84
8 3 0.10
ACGTcount: A:0.28, C:0.00, G:0.42, T:0.30
Consensus pattern (7 bp):
GGATTGA
Found at i:25985064 original size:20 final size:21
Alignment explanation
Indices: 25985022--25985064 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
25985012 GGAAATATTT
* *
25985022 ATTTATTTTTATAATTTCTAA
1 ATTTATTATTATAATTTCAAA
*
25985043 ATTTATTATTAT-ATTTGAAA
1 ATTTATTATTATAATTTCAAA
25985063 AT
1 AT
25985065 ATTTGTGTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTATTATTATAATTTCAAA
Found at i:25985771 original size:20 final size:20
Alignment explanation
Indices: 25985746--25985784 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
25985736 GAAATTTTTT
25985746 TATAATTGAGTAACTATCTG
1 TATAATTGAGTAACTATCTG
25985766 TATAATTGAGTAACTATCT
1 TATAATTGAGTAACTATCT
25985785 CTATGTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (20 bp):
TATAATTGAGTAACTATCTG
Found at i:25986155 original size:15 final size:15
Alignment explanation
Indices: 25986135--25986165 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25986125 TTTCATAGGG
25986135 AAGGTAATAAAAAAT
1 AAGGTAATAAAAAAT
25986150 AAGGTAATAAAAAAT
1 AAGGTAATAAAAAAT
25986165 A
1 A
25986166 TTTTACTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (15 bp):
AAGGTAATAAAAAAT
Found at i:25987272 original size:29 final size:28
Alignment explanation
Indices: 25987240--25987297 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 28
25987230 TTTTTAGTGT
25987240 ATTTG-ATGTATTATATATTTTTTTTAAAA
1 ATTTGTATGTA-TATA-ATTTTTTTTAAAA
*
25987269 ATTTGTTTGTATATAATTTTTTTTAAAA
1 ATTTGTATGTATATAATTTTTTTTAAAA
25987297 A
1 A
25987298 AAGTTTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 14 0.52
29 9 0.33
30 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (28 bp):
ATTTGTATGTATATAATTTTTTTTAAAA
Found at i:25987303 original size:27 final size:27
Alignment explanation
Indices: 25987251--25987303 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
25987241 TTTGATGTAT
**
25987251 TATATATTTTTTTTAAAAATTTGTTTG
1 TATATATTTTTTTTAAAAATAAGTTTG
25987278 TATATAATTTTTTTTAAAAA-AAGTTT
1 TATAT-ATTTTTTTTAAAAATAAGTTT
25987304 AATATGGGCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (27 bp):
TATATATTTTTTTTAAAAATAAGTTTG
Found at i:25987470 original size:30 final size:30
Alignment explanation
Indices: 25987434--25987493 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
25987424 TTTTGCATCG
25987434 ACTCGACCCCTAATTAGATCTAGTTATAAC
1 ACTCGACCCCTAATTAGATCTAGTTATAAC
25987464 ACTCGACCCCTAATTAGATCTAGTTATAAC
1 ACTCGACCCCTAATTAGATCTAGTTATAAC
25987494 CTAAAGCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (30 bp):
ACTCGACCCCTAATTAGATCTAGTTATAAC
Found at i:25989617 original size:20 final size:20
Alignment explanation
Indices: 25989594--25989670 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
25989584 TATCCCTAAT
25989594 TGCACATCTGTGCCCTGTTA
1 TGCACATCTGTGCCCTGTTA
25989614 TGCAC-TCTGGTGCCCT-TT-
1 TGCACATCT-GTGCCCTGTTA
* *
25989632 TGCACTTCGGTGCTCCTG-TA
1 TGCACATCTGTGC-CCTGTTA
*
25989652 TGCACATTTGTGCCCTGTT
1 TGCACATCTGTGCCCTGTT
25989671 TAGCATCTCG
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
18 9 0.19
19 15 0.32
20 23 0.49
ACGTcount: A:0.10, C:0.30, G:0.22, T:0.38
Consensus pattern (20 bp):
TGCACATCTGTGCCCTGTTA
Found at i:25989654 original size:38 final size:40
Alignment explanation
Indices: 25989593--25989687 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 40
25989583 GTATCCCTAA
* *
25989593 TTGCACATCTGTGC-CCTGTTATGCAC-TCTGGTGCCCT-T
1 TTGCACTTCGGTGCTCCTGTTATGCACAT-TGGTGCCCTGT
*
25989631 TTGCACTTCGGTGCTCCTG-TATGCACATTTGTGCCCTGT
1 TTGCACTTCGGTGCTCCTGTTATGCACATTGGTGCCCTGT
25989670 TTAGCA-TCTCGGTGCTCC
1 TT-GCACT-TCGGTGCTCC
25989688 ATGATATTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
38 27 0.55
39 9 0.18
40 13 0.27
ACGTcount: A:0.11, C:0.31, G:0.22, T:0.37
Consensus pattern (40 bp):
TTGCACTTCGGTGCTCCTGTTATGCACATTGGTGCCCTGT
Found at i:25992397 original size:26 final size:24
Alignment explanation
Indices: 25992359--25992407 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
25992349 ATTTAATATG
* *
25992359 ACATAATTTTAATATACTATTATTTA
1 ACATAAATATAATATA--ATTATTTA
25992385 ACATAAATATAATATAATTATTT
1 ACATAAATATAATATAATTATTT
25992408 TATAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
26 14 0.67
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (24 bp):
ACATAAATATAATATAATTATTTA
Found at i:25996137 original size:18 final size:18
Alignment explanation
Indices: 25996116--25996152 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
25996106 AGAAGAGATA
25996116 AAGAAAACTTTGTTAGAG
1 AAGAAAACTTTGTTAGAG
25996134 AAGAAAACTTTGTTAGAG
1 AAGAAAACTTTGTTAGAG
25996152 A
1 A
25996153 TGGCTTTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.22, T:0.27
Consensus pattern (18 bp):
AAGAAAACTTTGTTAGAG
Found at i:25999083 original size:37 final size:37
Alignment explanation
Indices: 25999003--25999088 Score: 95
Period size: 37 Copynumber: 2.3 Consensus size: 37
25998993 AATCTCTCTG
* * *
25999003 CCATCTTGATGTTACTAAGGTTCGACCAGACTTCCCA
1 CCATCTTGATGCTACTAAGGTTCGACCAGAATTACCA
* *
25999040 CTATCTTGATGCTACTAAGGGTT-GATCA-AATGTACCA
1 CCATCTTGATGCTACTAA-GGTTCGACCAGAAT-TACCA
25999077 CCATCTTGATGC
1 CCATCTTGATGC
25999089 CATAGAGAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
36 2 0.05
37 35 0.85
38 4 0.10
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (37 bp):
CCATCTTGATGCTACTAAGGTTCGACCAGAATTACCA
Found at i:26003093 original size:41 final size:41
Alignment explanation
Indices: 26002991--26003099 Score: 146
Period size: 41 Copynumber: 2.7 Consensus size: 41
26002981 ACCGGCTTTT
* * * * * *
26002991 AGCCTGCTAGACCTATAGTCCGAAATGTATCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAATTATATCACCGGCATCA
*
26003032 AGCCTGCTAGACGTAAAGTCTGAATTATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAATTATATCACCGGCATCA
*
26003073 AGCCTGCTAGACGTAAAGTCTGTATTA
1 AGCCTGCTAGACGTAAAGTCTGAATTA
26003100 CATTCGATCA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAATTATATCACCGGCATCA
Found at i:26004956 original size:16 final size:16
Alignment explanation
Indices: 26004935--26004965 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26004925 TTGATACTAG
*
26004935 ATTGAAAGTTATTATC
1 ATTGAAAGCTATTATC
26004951 ATTGAAAGCTATTAT
1 ATTGAAAGCTATTAT
26004966 TATAAGCAAA
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:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (16 bp):
ATTGAAAGCTATTATC
Found at i:26010135 original size:4 final size:4
Alignment explanation
Indices: 26010126--26010153 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
26010116 TTCGCACAAA
26010126 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
26010154 TTCCCTGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:26012617 original size:41 final size:41
Alignment explanation
Indices: 26012560--26012661 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 41
26012550 TCGATTTAGT
*
26012560 GATGATGCAGTTACGTGCCAAT-TAATTAC-TTATGTATATCC
1 GATGATGCAGTTACGTGCCAATATAATTACTTTA-GTACAT-C
* * *
26012601 GATGATGCACTTACGTGCCAATATATTTGCTTTAGTACATC
1 GATGATGCAGTTACGTGCCAATATAATTACTTTAGTACATC
*
26012642 GTTGATGCAGTTACGTGCCA
1 GATGATGCAGTTACGTGCCA
26012662 GGATAATTGC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 40 0.75
42 10 0.19
43 3 0.06
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (41 bp):
GATGATGCAGTTACGTGCCAATATAATTACTTTAGTACATC
Found at i:26012672 original size:41 final size:41
Alignment explanation
Indices: 26012560--26012673 Score: 126
Period size: 41 Copynumber: 2.7 Consensus size: 41
26012550 TCGATTTAGT
* *
26012560 GATGATGCAGTTACGTGCCAATTAATTAC-TTATGTATATCC
1 GATGATGCAGTTACGTGCCAA-TAATTGCTTTATGTACATCC
*
26012601 GATGATGCACTTACGTGCCAATATATTTGCTTTA-GTACAT-C
1 GATGATGCAGTTACGTGCCAATA-A-TTGCTTTATGTACATCC
*
26012642 GTTGATGCAGTTACGTGCCAGGATAATTGCTT
1 GATGATGCAGTTACGTGCCA--ATAATTGCTT
26012674 CAATTCGTCT
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
40 2 0.03
41 46 0.73
42 9 0.14
43 6 0.10
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (41 bp):
GATGATGCAGTTACGTGCCAATAATTGCTTTATGTACATCC
Found at i:26015004 original size:43 final size:42
Alignment explanation
Indices: 26014956--26015075 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 42
26014946 CAGTTCGTCT
*
26014956 GATGATGCATCTCGTGTGTTAGTATAATTGCTTCAATTTATTC
1 GATGATGCA-CTCGTGTGTTAGTATAATTGCTTCAATTCATTC
* * * * *
26014999 TATGATGCACT-ATACGTGCTAGTATAATTGCTTCAGTTCGTTC
1 GATGATGCACTCGT--GTGTTAGTATAATTGCTTCAATTCATTC
* *
26015042 GATAATGCACCTCGTGTGTCAGTATAATTGCTTC
1 GATGATGCA-CTCGTGTGTTAGTATAATTGCTTC
26015076 GACTTACCCA
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
41 1 0.02
42 2 0.03
43 56 0.90
44 2 0.03
45 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (42 bp):
GATGATGCACTCGTGTGTTAGTATAATTGCTTCAATTCATTC
Found at i:26015096 original size:86 final size:86
Alignment explanation
Indices: 26014935--26015097 Score: 204
Period size: 86 Copynumber: 1.9 Consensus size: 86
26014925 AGCGTGCCAA
* * * * ** *
26014935 TATAATTGTTGCAGTTCGTCTGATGATGCATCTCGTGTGTTAGTATAATTGCTTCAATTTATTCT
1 TATAATTGTTGCAGTTCGTCTGATAATGCACCTCGTGTGTCAGTATAATTGCTTCAACTTACCCA
*
26015000 ATGATGCACTATACGTGCTAG
66 ATAATGCACTATACGTGCTAG
*
26015021 TATAATTGCTT-CAGTTCGT-TCGATAATGCACCTCGTGTGTCAGTATAATTGCTTCGACTTACC
1 TATAATTG-TTGCAGTTCGTCT-GATAATGCACCTCGTGTGTCAGTATAATTGCTTCAACTTACC
*
26015084 CAATAATTCACTAT
64 CAATAATGCACTAT
26015098 GTGTGCCTGT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 1 0.02
86 62 0.95
87 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (86 bp):
TATAATTGTTGCAGTTCGTCTGATAATGCACCTCGTGTGTCAGTATAATTGCTTCAACTTACCCA
ATAATGCACTATACGTGCTAG
Found at i:26021209 original size:23 final size:24
Alignment explanation
Indices: 26021183--26021227 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
26021173 AAACAAACTA
26021183 AAAACAAAATAAAAAT-AGAAAAC
1 AAAACAAAATAAAAATAAGAAAAC
* *
26021206 AAAACAAATTGAAAATAAGAAA
1 AAAACAAAATAAAAATAAGAAA
26021228 TAAACATGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.11
Consensus pattern (24 bp):
AAAACAAAATAAAAATAAGAAAAC
Found at i:26022958 original size:21 final size:21
Alignment explanation
Indices: 26022932--26022978 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
26022922 TCGGGGCTCC
26022932 TCCTCTTCCT-CATTATCATCA
1 TCCTC-TCCTCCATTATCATCA
* *
26022953 TCCTCTCCTCCATTATCGTCG
1 TCCTCTCCTCCATTATCATCA
26022974 TCCTC
1 TCCTC
26022979 CTCGTCAGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.13, C:0.43, G:0.04, T:0.40
Consensus pattern (21 bp):
TCCTCTCCTCCATTATCATCA
Found at i:26028649 original size:23 final size:24
Alignment explanation
Indices: 26028605--26028650 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
26028595 AATAGGTGTT
*
26028605 AAAAATACATATATTTGAGTATAAG
1 AAAAATACATATATAT-AGTATAAG
*
26028630 AAAAATATATATATAT-GTATA
1 AAAAATACATATATATAGTATA
26028651 TATAAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
25 14 0.74
ACGTcount: A:0.54, C:0.02, G:0.09, T:0.35
Consensus pattern (24 bp):
AAAAATACATATATATAGTATAAG
Found at i:26029717 original size:28 final size:28
Alignment explanation
Indices: 26029668--26029721 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
26029658 ACGAATGAAG
* *
26029668 AAATAAAAAAAGTAGATTAAAATAAAAC
1 AAATAAAAAAAGGAGATAAAAATAAAAC
**
26029696 AAATAAAAAAAGGCTATAAAAATAAA
1 AAATAAAAAAAGGAGATAAAAATAAA
26029722 CCTTTGGACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.17
Consensus pattern (28 bp):
AAATAAAAAAAGGAGATAAAAATAAAAC
Found at i:26030411 original size:44 final size:44
Alignment explanation
Indices: 26030336--26031063 Score: 337
Period size: 44 Copynumber: 16.8 Consensus size: 44
26030326 TTTGATGTGA
**
26030336 TCTGCTCTGCTGCAACTTCAGAGAGATAAGACTTGCTTACTTAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGCTTACTTAG
* * * * * *
26030380 TCTTCTCCACTACAACTTCAGAGAGATAAGACTAG-ATGC-GA-
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGCTTACTTAG
* ** * *
26030421 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTT--TTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGA--CTTGCTTACTTAG
** * * *
26030464 TCCACTCCACTGTAACTTCAGAGAGATAAGATCATCGGC-T--TTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGA-C-T-TGCTTACTTAG
* * * * *
26030508 CCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGC-CATCTTCAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGCTTA-CTT-AG
26030553 TCTGC-CTCACTGCAACTTCAG-GAGGATAAGACTTGCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGAGA-GATAAGACTTGCTTACTTAG
* * * * *
26030597 TCTACTCCACTGCAACTTCA-AGGAGATAAGACTAG-ATGC-GA-
1 TCTGCTCCACTGCAACTTCAGA-GAGATAAGACTTGCTTACTTAG
* ** * *
26030638 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTT--TTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGA--CTTGCTTACTTAG
* * * * *
26030681 TCCGCTCCACTGTAACTTCAGAAAGATAAGATCATCGGC-T--TTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGA-C-T-TGCTTACTTAG
* * *
26030725 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGCTTA-CTT-AG
*
26030770 TCTGC-CTCACTGCATCTTCAG-GAGGATAAGACTTGCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGAGA-GATAAGACTTGCTTACTTAG
* * * * *
26030814 TCTACTCCACTGCAACTTCA-AGGAGATAAGACTAG-ATGC-GA-
1 TCTGCTCCACTGCAACTTCAGA-GAGATAAGACTTGCTTACTTAG
* ** * *
26030855 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTT--TTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGA--CTTGCTTACTTAG
* * * * * * *
26030898 TCCGCTCCACTACAACTTCAGGGAGATAGGA-TT-ATCAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGCTTA-C-TTAG
* * * *
26030942 TCTGCTCCATTGCAACTTCATG-TAGATAAGATTTGC-CATCTTCAG
1 TCTGCTCCACTGCAACTTCA-GAGAGATAAGACTTGCTTA-CTT-AG
26030987 TCTGC-CTCACTGCAACTTCAG-GAGGATAAGACTTGCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGAGA-GATAAGACTTGCTTACTTAG
*
26031031 TTTGCTCCACTGCAACTTCA-AGGAGATAAGACT
1 TCTGCTCCACTGCAACTTCAGA-GAGATAAGACT
26031064 AGATGCGATC
Statistics
Matches: 529, Mismatches: 96, Indels: 118
0.71 0.13 0.16
Matches are distributed among these distances:
40 65 0.12
41 20 0.04
42 17 0.03
43 25 0.05
44 285 0.54
45 113 0.21
46 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGCTTACTTAG
Found at i:26030481 original size:84 final size:84
Alignment explanation
Indices: 26030329--26030494 Score: 210
Period size: 84 Copynumber: 2.0 Consensus size: 84
26030319 AAATGAATTT
* ** * **
26030329 GATGTGATCTGCTCTGCTGCAACTTCAGAGAGATAAGACTTGCTTACTTAGTCTTCTCCACTACA
1 GATGCGATCTGCTCTGCTGCAACTTCAGAGAGATAAGACAAGCTTA-TTAATCCACTCCACTACA
26030394 ACTTCAGAGAGATAAGACTA
65 ACTTCAGAGAGATAAGACTA
* **
26030414 GATGCGATCTGCTCT-CTGCAACTTCAGAGAGATAAGATCCAAGGTT-TTAATCCACTCCACTGT
1 GATGCGATCTGCTCTGCTGCAACTTCAGAGAGATAAGA--CAAGCTTATTAATCCACTCCACTAC
26030477 AACTTCAGAGAGATAAGA
64 AACTTCAGAGAGATAAGA
26030495 TCATCGGCTT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
84 52 0.74
85 14 0.20
86 4 0.06
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (84 bp):
GATGCGATCTGCTCTGCTGCAACTTCAGAGAGATAAGACAAGCTTATTAATCCACTCCACTACAA
CTTCAGAGAGATAAGACTA
Found at i:26030783 original size:173 final size:173
Alignment explanation
Indices: 26030477--26030802 Score: 393
Period size: 173 Copynumber: 1.9 Consensus size: 173
26030467 ACTCCACTGT
* ** *
26030477 AACTTCAGAGAGATAAGATCATCGGCTTTAACCTGCTCCACTGTAACTTCAGGGAGATAAGATTT
1 AACTTCAGAGAGATAAGATCATAGGCTTTAACCTGCTCCACTGTAACTTCAGAAAGATAAGATTC
* *
26030542 GCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTACTCCAC
66 GCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATACTTAGTCTACTCCAC
26030607 TGCAACTTCAAGGA-GATAAGACTAGATGCGATCTGCTCTCTGC
131 TGCAACTTC-AGGAGGATAAGACTAGATGCGATCTGCTCTCTGC
*
26030650 AACTTCAGAGAGATAAGATCCA-AGGTTTTAATCC-GCTCCACTGTAACTTCAGAAAGATAAGAT
1 AACTTCAGAGAGATAAGAT-CATAGGCTTTAA-CCTGCTCCACTGTAACTTCAGAAAGATAAGAT
* *
26030713 CATCGGC-T-TT-AATCTG-CTCCACTGCAACTTCAGG-GAGATAAGATTTGTCAT-CTTCAGTC
64 --TCGCCATCTTCAATCTGCCT-CACTGCAACTTCAGGAG-GATAAGACTTG-CATACTT-AGTC
* *
26030772 TGC-CTCACTGCATCTTCAGGAGGATAAGACT
123 TACTC-CACTGCAACTTCAGGAGGATAAGACT
26030803 TGCTTACTTA
Statistics
Matches: 132, Mismatches: 11, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
171 3 0.02
172 38 0.29
173 83 0.63
174 5 0.04
175 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (173 bp):
AACTTCAGAGAGATAAGATCATAGGCTTTAACCTGCTCCACTGTAACTTCAGAAAGATAAGATTC
GCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATACTTAGTCTACTCCAC
TGCAACTTCAGGAGGATAAGACTAGATGCGATCTGCTCTCTGC
Found at i:26031000 original size:173 final size:173
Alignment explanation
Indices: 26030694--26031019 Score: 396
Period size: 173 Copynumber: 1.9 Consensus size: 173
26030684 GCTCCACTGT
* * *
26030694 AACTTCAGAAAGATAAGATCATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
1 AACTTCAGAAAGATAAGATCATAGGCTTTAATCCGCTCCACTACAACTTCAGGGAGATAAGATTT
* * * * *
26030759 GTCATCTTCAGTCTGCCTCACTGCATCTTCAGGAGGATAAGACTTGCTTACTTAGTCTACTCCAC
66 ATCAGCTTCAATCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATACTTAGTCTACTCCAC
26030824 TGCAACTTCAAGGA-GATAAGACTAGATGCGATCTGCTCTCTGC
131 TGCAACTTC-AGGAGGATAAGACTAGATGCGATCTGCTCTCTGC
* * *
26030867 AACTTCAGAGAGATAAGATCCA-AGGTTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGA-T
1 AACTTCAGAAAGATAAGAT-CATAGGCTTTAATCCGCTCCACTACAACTTCAGGGAGATAAGATT
* * * * *
26030930 TATCAGCTTTAATCTG-CTCCATTGCAACTTCATGTA-GATAAGATTTGCCAT-CTTCAGTCTGC
65 TATCAGCTTCAATCTGCCT-CACTGCAACTTCA-GGAGGATAAGACTTG-CATACTT-AGTCTAC
26030992 -CTCACTGCAACTTCAGGAGGATAAGACT
126 TC-CACTGCAACTTCAGGAGGATAAGACT
26031020 TGCTTACTTA
Statistics
Matches: 130, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
171 2 0.02
172 42 0.32
173 84 0.65
174 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (173 bp):
AACTTCAGAAAGATAAGATCATAGGCTTTAATCCGCTCCACTACAACTTCAGGGAGATAAGATTT
ATCAGCTTCAATCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATACTTAGTCTACTCCAC
TGCAACTTCAGGAGGATAAGACTAGATGCGATCTGCTCTCTGC
Found at i:26031148 original size:217 final size:217
Alignment explanation
Indices: 26030345--26031142 Score: 1296
Period size: 217 Copynumber: 3.7 Consensus size: 217
26030335 ATCTGCTCTG
* *
26030345 CTGCAACTTCA-GAGAGATAAGACTTGCTTACTTAGTCTTCTCCACTACAACTTC-AGAGAGATA
1 CTGCAACTTCAGGAG-GATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAAG-GAGATA
*
26030408 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCA
64 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCA
* * *
26030473 CTGTAACTTCAGAGAGATAAGATCATCGGCTTTAACCTGCTCCACTGTAACTTCAGGGAGATAAG
129 CTGCAACTTCAGAGAGATAAGATCATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
26030538 ATTTGCCATCTTCAGTCTGCCTCA
194 ATTTGCCATCTTCAGTCTGCCTCA
26030562 CTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAAGGAGATAAG
1 CTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAAGGAGATAAG
26030627 ACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACT
66 ACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACT
* *
26030692 GTAACTTCAGAAAGATAAGATCATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
131 GCAACTTCAGAGAGATAAGATCATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
*
26030757 TTGTCATCTTCAGTCTGCCTCA
196 TTGCCATCTTCAGTCTGCCTCA
*
26030779 CTGCATCTTCAGGAGGATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAAGGAGATAAG
1 CTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAAGGAGATAAG
26030844 ACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACT
66 ACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACT
* * * * * * * *
26030909 ACAACTTCAGGGAGATAGGATTATCAGCTTTAATCTGCTCCATTGCAACTTCATGTAGATAAGAT
131 GCAACTTCAGAGAGATAAGATCATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
26030974 TTGCCATCTTCAGTCTGCCTCA
196 TTGCCATCTTCAGTCTGCCTCA
* *
26030996 CTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTTTGCTCCACTGCAACTTCAAGGAGATAAG
1 CTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAAGGAGATAAG
* * * * *** *
26031061 ACTAGATGCGATCTGCTCCCTGTAACTTCTGAGAGATCAGATCTGTGATTTTAATCCGCTCCACT
66 ACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACT
26031126 GCAACTTCA-AGGAGATA
131 GCAACTTCAGA-GAGATA
26031143 GGATTACTGG
Statistics
Matches: 546, Mismatches: 32, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
217 541 0.99
218 5 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (217 bp):
CTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAAGGAGATAAG
ACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACT
GCAACTTCAGAGAGATAAGATCATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
TTGCCATCTTCAGTCTGCCTCA
Found at i:26051461 original size:28 final size:28
Alignment explanation
Indices: 26051429--26051535 Score: 79
Period size: 28 Copynumber: 3.6 Consensus size: 28
26051419 ATTAGGTGCC
* *
26051429 AAGTTCAGGTACCAAATTGGGCCCAAAA
1 AAGTTCAAGTACCAAATTGGGCCAAAAA
* * ** **
26051457 AAGTTTAGGTATTAAATTAGGGAAAAAAA
1 AAGTTCAAGTACCAAATT-GGGCCAAAAA
*
26051486 TGTCAAGTTCAAGTACCAAATTGAGCCAAAAA
1 ----AAGTTCAAGTACCAAATTGGGCCAAAAA
*
26051518 AAGTTTAAGTACCAAATT
1 AAGTTCAAGTACCAAATT
26051536 AGGAAAAGTG
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
28 32 0.53
29 7 0.12
32 7 0.12
33 14 0.23
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (28 bp):
AAGTTCAAGTACCAAATTGGGCCAAAAA
Found at i:26051518 original size:61 final size:60
Alignment explanation
Indices: 26051428--26051542 Score: 167
Period size: 61 Copynumber: 1.9 Consensus size: 60
26051418 AATTAGGTGC
* * * * **
26051428 CAAGTTCAGGTACCAAATTGGGCCCAAAAAAGTTTAGGTATTAAATTAGGGAAAAAAATGT
1 CAAGTTCAAGTACCAAATTGAGCCAAAAAAAGTTTAAGTACCAAATTA-GGAAAAAAATGT
26051489 CAAGTTCAAGTACCAAATTGAGCCAAAAAAAGTTTAAGTACCAAATTAGGAAAA
1 CAAGTTCAAGTACCAAATTGAGCCAAAAAAAGTTTAAGTACCAAATTAGGAAAA
26051543 GTGTTAAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
60 6 0.12
61 42 0.88
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.23
Consensus pattern (60 bp):
CAAGTTCAAGTACCAAATTGAGCCAAAAAAAGTTTAAGTACCAAATTAGGAAAAAAATGT
Found at i:26053815 original size:16 final size:17
Alignment explanation
Indices: 26053786--26053819 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
26053776 CCTCCTCTTC
26053786 TTTTTCTTCCTTTATTT
1 TTTTTCTTCCTTTATTT
*
26053803 TTTTTCTT-GTTTATTT
1 TTTTTCTTCCTTTATTT
26053819 T
1 T
26053820 ACAACATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.06, C:0.12, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTCTTCCTTTATTT
Found at i:26062880 original size:30 final size:31
Alignment explanation
Indices: 26062846--26062904 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
26062836 TTATGATATA
* *
26062846 AATGATACATGATATGTGATATGA-ATATGG
1 AATGAAACATGATATGTGACATGAGATATGG
*
26062876 AATGAAACATGCTATGTGACATGAGATAT
1 AATGAAACATGATATGTGACATGAGATAT
26062905 ATATGAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.31
Consensus pattern (31 bp):
AATGAAACATGATATGTGACATGAGATATGG
Found at i:26062911 original size:30 final size:29
Alignment explanation
Indices: 26062840--26062911 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
26062830 AAAATATTAT
* *
26062840 GATATAAATGATACATGATATGTGATATGA
1 GATAT-AATGAAACATGATATGTGACATGA
*
26062870 -ATATGGAATGAAACATGCTATGTGACATGA
1 GATAT--AATGAAACATGATATGTGACATGA
26062900 GATATATATGAA
1 GATATA-ATGAA
26062912 TTGATAATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 5 0.14
30 26 0.74
31 4 0.11
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.31
Consensus pattern (29 bp):
GATATAATGAAACATGATATGTGACATGA
Found at i:26071122 original size:34 final size:35
Alignment explanation
Indices: 26071056--26071122 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
26071046 CAAACACCAG
* *
26071056 AAAATATTTTCCAGTAAATTATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
26071091 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
26071123 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:26072794 original size:208 final size:208
Alignment explanation
Indices: 26072436--26072855 Score: 831
Period size: 208 Copynumber: 2.0 Consensus size: 208
26072426 ATTTTCTGCC
26072436 ATAATGTTTTGTCTTTCTATTATTATTGAGTGTCAAATTCTCAATTTAAAAGAGAAAAAAAAACA
1 ATAATGTTTTGTCTTTCTATTATTATTGAGTGTCAAATTCTCAATTTAAAAGAGAAAAAAAAACA
26072501 GAGAGTGAGATTGAAGCTCGTTGGAGAAAAAGAGAGAATAGAAAAAAAATCAGTTTTTCAAGCTT
66 GAGAGTGAGATTGAAGCTCGTTGGAGAAAAAGAGAGAATAGAAAAAAAATCAGTTTTTCAAGCTT
26072566 GGTGCAGCAGTGATCAACTCCTCGATCGAAGGTCCATCCGTGGTTCGATTGAGCTGATTTTTGAA
131 GGTGCAGCAGTGATCAACTCCTCGATCGAAGGTCCATCCGTGGTTCGATTGAGCTGATTTTTGAA
26072631 CAGCAGCTAGGTG
196 CAGCAGCTAGGTG
26072644 ATAATGTTTTGTCTTTCTATTATTATTGAGTGTCAAATTCTCAATTTAAAAGAGAAAAAAAAACA
1 ATAATGTTTTGTCTTTCTATTATTATTGAGTGTCAAATTCTCAATTTAAAAGAGAAAAAAAAACA
26072709 GAGAGTGAGATTGAAGCTCGTTGGAGAAAAAGAGAGAATAGAAAAAAAATCAGTTTTTCAAGCTT
66 GAGAGTGAGATTGAAGCTCGTTGGAGAAAAAGAGAGAATAGAAAAAAAATCAGTTTTTCAAGCTT
*
26072774 GGTGCAGCAGTGATCAACTCCTCGATCGAAGGTCCATCCGTGGTTCGATTGAGCTGATTTTTGGA
131 GGTGCAGCAGTGATCAACTCCTCGATCGAAGGTCCATCCGTGGTTCGATTGAGCTGATTTTTGAA
26072839 CAGCAGCTAGGTG
196 CAGCAGCTAGGTG
26072852 ATAA
1 ATAA
26072856 GGTGTTCTTG
Statistics
Matches: 211, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
208 211 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (208 bp):
ATAATGTTTTGTCTTTCTATTATTATTGAGTGTCAAATTCTCAATTTAAAAGAGAAAAAAAAACA
GAGAGTGAGATTGAAGCTCGTTGGAGAAAAAGAGAGAATAGAAAAAAAATCAGTTTTTCAAGCTT
GGTGCAGCAGTGATCAACTCCTCGATCGAAGGTCCATCCGTGGTTCGATTGAGCTGATTTTTGAA
CAGCAGCTAGGTG
Found at i:26082157 original size:29 final size:29
Alignment explanation
Indices: 26082120--26082178 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
26082110 CACATGAAAA
26082120 TTTGATTTGATTTAATTCTTAATAATCAT
1 TTTGATTTGATTTAATTCTTAATAATCAT
26082149 TTTGATTTGATTTAATTCTTAATAATCAT
1 TTTGATTTGATTTAATTCTTAATAATCAT
26082178 T
1 T
26082179 AACATTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (29 bp):
TTTGATTTGATTTAATTCTTAATAATCAT
Found at i:26088239 original size:12 final size:12
Alignment explanation
Indices: 26088222--26088263 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
26088212 CACCTTGTTT
26088222 ATTAATTAAAAA
1 ATTAATTAAAAA
26088234 ATTAATT-AAAA
1 ATTAATTAAAAA
*
26088245 ATAAAATTAAAAAA
1 AT-TAATT-AAAAA
26088259 ATTAA
1 ATTAA
26088264 AACAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 6 0.24
12 11 0.44
13 2 0.08
14 6 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
ATTAATTAAAAA
Found at i:26088270 original size:26 final size:25
Alignment explanation
Indices: 26088225--26088309 Score: 73
Period size: 26 Copynumber: 3.3 Consensus size: 25
26088215 CTTGTTTATT
** *
26088225 AATT-AAAAAATTAATTAAAAATAA
1 AATTAAAAAAATTAAAAAAAAAAAA
26088249 AATTAAAAAAATTAAAACAAAAAAAA
1 AATTAAAAAAATTAAAA-AAAAAAAA
* * *
26088275 AATTGAAACAATATAAATAAAAAAGAA
1 AATTAAAAAAAT-TAAA-AAAAAAAAA
*
26088302 AATCAAAA
1 AATTAAAA
26088310 GTGAAATCAG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
24 4 0.08
25 10 0.20
26 17 0.35
27 17 0.35
28 1 0.02
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (25 bp):
AATTAAAAAAATTAAAAAAAAAAAA
Found at i:26088275 original size:17 final size:17
Alignment explanation
Indices: 26088253--26088285 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26088243 AAATAAAATT
26088253 AAAAAAATTAAAACAAA
1 AAAAAAATTAAAACAAA
*
26088270 AAAAAAATTGAAACAA
1 AAAAAAATTAAAACAA
26088286 TATAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (17 bp):
AAAAAAATTAAAACAAA
Found at i:26088407 original size:13 final size:13
Alignment explanation
Indices: 26088367--26088414 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
26088357 AGTTCTTCAT
26088367 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* *
26088380 TACTTTTAAGAAG
1 TGCTTTTGAGAAG
26088393 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
26088406 TGTTTTTGA
1 TGCTTTTGA
26088415 AAAATTTGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.25, C:0.06, G:0.25, T:0.44
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:26091698 original size:5 final size:5
Alignment explanation
Indices: 26091645--26091698 Score: 51
Period size: 5 Copynumber: 11.2 Consensus size: 5
26091635 TAGAAAAACA
* * *
26091645 AAAGC AAAGC AGAGC AAAGC AAAGC -AA-C AGAAG- AAAAC AAAGC AGAGC
1 AAAGC AAAGC AAAGC AAAGC AAAGC AAAGC A-AAGC AAAGC AAAGC AAAGC
26091693 AAAGC A
1 AAAGC A
26091699 GTAAAGCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
3 1 0.03
4 4 0.10
5 34 0.87
ACGTcount: A:0.59, C:0.19, G:0.22, T:0.00
Consensus pattern (5 bp):
AAAGC
Found at i:26091708 original size:23 final size:23
Alignment explanation
Indices: 26091657--26091708 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
26091647 AGCAAAGCAG
26091657 AGCAAAGCAAAGCAACAGAAGAA
1 AGCAAAGCAAAGCAACAGAAGAA
* * *
26091680 AACAAAGCAGAGCAA-AGCAGTAA
1 AGCAAAGCAAAGCAACAGAAG-AA
26091703 AGCAAA
1 AGCAAA
26091709 AGAGGCACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.60, C:0.17, G:0.21, T:0.02
Consensus pattern (23 bp):
AGCAAAGCAAAGCAACAGAAGAA
Found at i:26096882 original size:37 final size:37
Alignment explanation
Indices: 26096825--26096929 Score: 160
Period size: 37 Copynumber: 2.9 Consensus size: 37
26096815 TATGATCACT
* *
26096825 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCAGG
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACG
* *
26096860 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACG
26096897 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
26096930 TAAAGCTATC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 6 0.10
36 4 0.06
37 53 0.84
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACG
Found at i:26096972 original size:52 final size:52
Alignment explanation
Indices: 26096893--26097109 Score: 284
Period size: 52 Copynumber: 4.2 Consensus size: 52
26096883 TAAGTGTAGC
* * *
26096893 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
*
26096946 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
26096998 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
26097044 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
26097096 CACTTTGTCACTTG
1 CACTTT-TCACTTG
26097110 ATCAGAAGTA
Statistics
Matches: 144, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 85 0.59
53 15 0.10
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
Found at i:26097015 original size:46 final size:46
Alignment explanation
Indices: 26096943--26097115 Score: 231
Period size: 46 Copynumber: 3.7 Consensus size: 46
26096933 AGCTATCACT
*
26096943 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
26096988 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
26097034 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
26097086 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
26097116 AGTACTCAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
45 12 0.11
46 59 0.52
48 1 0.01
50 1 0.01
52 40 0.35
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:26097059 original size:98 final size:98
Alignment explanation
Indices: 26096892--26097115 Score: 367
Period size: 98 Copynumber: 2.3 Consensus size: 98
26096882 ATAAGTGTAG
* * * *
26096892 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
*
26096957 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* * *
26096990 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
*
26097055 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
26097088 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
26097116 AGTACTCAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 116 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:26099895 original size:17 final size:17
Alignment explanation
Indices: 26099849--26099948 Score: 65
Period size: 17 Copynumber: 5.9 Consensus size: 17
26099839 GTTCATATAT
* *
26099849 AATAACAGTTCATACCA
1 AATAACAATTCATACAA
* * *
26099866 AATGACAACTCATGCAA
1 AATAACAATTCATACAA
* * **
26099883 AATAATAGTTCATATGA
1 AATAACAATTCATACAA
**
26099900 AATAACAATTCATACCG
1 AATAACAATTCATACAA
* *
26099917 AATAACAATCCATGCAA
1 AATAACAATTCATACAA
* *
26099934 AATAATAGTTCATAC
1 AATAACAATTCATAC
26099949 TCCATTATAA
Statistics
Matches: 58, Mismatches: 25, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
17 58 1.00
ACGTcount: A:0.48, C:0.19, G:0.08, T:0.25
Consensus pattern (17 bp):
AATAACAATTCATACAA
Found at i:26099915 original size:51 final size:51
Alignment explanation
Indices: 26099839--26099947 Score: 159
Period size: 51 Copynumber: 2.1 Consensus size: 51
26099829 TAAAACATAT
* *
26099839 GTTCATATATAATAACAGTTCATACCAAATGACAA-CTCATGCAAAATAATA
1 GTTCATATATAATAACAATTCATACCAAATAACAATC-CATGCAAAATAATA
*
26099890 GTTCATATGA-AATAACAATTCATACCGAATAACAATCCATGCAAAATAATA
1 GTTCATAT-ATAATAACAATTCATACCAAATAACAATCCATGCAAAATAATA
26099941 GTTCATA
1 GTTCATA
26099948 CTCCATTATA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
51 51 0.96
52 2 0.04
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (51 bp):
GTTCATATATAATAACAATTCATACCAAATAACAATCCATGCAAAATAATA
Found at i:26100551 original size:18 final size:18
Alignment explanation
Indices: 26100525--26100568 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
26100515 CATAGTCTGG
**
26100525 CAAATTAATACAGTTCAC
1 CAAATTAATACAAATCAC
*
26100543 CATATTAATACAAATCAC
1 CAAATTAATACAAATCAC
26100561 CAAATTAA
1 CAAATTAA
26100569 CATAGTTGCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.20, G:0.02, T:0.27
Consensus pattern (18 bp):
CAAATTAATACAAATCAC
Found at i:26100566 original size:36 final size:36
Alignment explanation
Indices: 26100525--26100606 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
26100515 CATAGTCTGG
* *
26100525 CAAATTAATACAGTT-CACCATATTAATACAAATCAC
1 CAAATTAACACAGTTGC-CCATAATAATACAAATCAC
* * *
26100561 CAAATTAACATAGTTGCCCATAATAATATAATTCAC
1 CAAATTAACACAGTTGCCCATAATAATACAAATCAC
*
26100597 CAAGTTAACA
1 CAAATTAACA
26100607 TGGTTTAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 38 0.97
37 1 0.03
ACGTcount: A:0.46, C:0.21, G:0.05, T:0.28
Consensus pattern (36 bp):
CAAATTAACACAGTTGCCCATAATAATACAAATCAC
Found at i:26101009 original size:27 final size:28
Alignment explanation
Indices: 26100972--26101034 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 28
26100962 AAATGCATAT
*
26100972 ATATATATTATATATAATAAAACC-CAC
1 ATATATATTATATATAACAAAACCACAC
*
26100999 ATATATATTATATATAGCAAAACCACAC
1 ATATATATTATATATAACAAAACCACAC
26101027 ATATATAT
1 ATATATAT
26101035 GTACTATGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
27 22 0.67
28 11 0.33
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (28 bp):
ATATATATTATATATAACAAAACCACAC
Found at i:26101979 original size:16 final size:16
Alignment explanation
Indices: 26101958--26102026 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
26101948 TTTGGTTCGC
*
26101958 TGTATTGGATTGGAGG
1 TGTATTGGATTAGAGG
26101974 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
26101990 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
26102007 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
26102023 TGTA
1 TGTA
26102027 ATAGCTAATC
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 35 0.69
17 16 0.31
ACGTcount: A:0.23, C:0.00, G:0.39, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:26102007 original size:33 final size:32
Alignment explanation
Indices: 26101958--26102026 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
26101948 TTTGGTTCGC
*
26101958 TGTATTGGATTGGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
26101990 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
26102023 TGTA
1 TGTA
26102027 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.23, C:0.00, G:0.39, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:26102091 original size:44 final size:45
Alignment explanation
Indices: 26102007--26102097 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
26101997 GGATTAGAGG
* * *
26102007 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
26102052 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
26102096 TG
1 TG
26102098 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:26102283 original size:18 final size:19
Alignment explanation
Indices: 26102262--26102298 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
26102252 TTATTATTAA
26102262 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
26102280 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
26102299 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:26102411 original size:18 final size:17
Alignment explanation
Indices: 26102384--26102418 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
26102374 TTAATATTAA
*
26102384 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
26102402 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
26102419 TCTTAACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:26109291 original size:84 final size:80
Alignment explanation
Indices: 26109143--26109300 Score: 217
Period size: 84 Copynumber: 1.9 Consensus size: 80
26109133 GATTACTATG
* * * **
26109143 ATTAATATGTACAGTATGTTGGTGTGTAGAACAATGAGCTTATGAGAAATTAACGAAGGTTTCAA
1 ATTAATACGTACAGTATGTTGGTGTGTAGAAAAATGAACTTATGAGAAATTAACGAAGACTTCAA
26109208 GGTGTGTATTTTATA
66 GGTGTGTATTTTATA
* *
26109223 ATTAATACGTACAGTATGTTGGTGTGTGGGGATAAAAATGAACTTATGAGAAATTAATGAAGACT
1 ATTAATACGTACAGTATGTTGGTGTGT----AGAAAAATGAACTTATGAGAAATTAACGAAGACT
26109288 TCAAGGTGTGTAT
62 TCAAGGTGTGTAT
26109301 CAACACCACT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 26 0.39
84 41 0.61
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.34
Consensus pattern (80 bp):
ATTAATACGTACAGTATGTTGGTGTGTAGAAAAATGAACTTATGAGAAATTAACGAAGACTTCAA
GGTGTGTATTTTATA
Found at i:26113405 original size:20 final size:20
Alignment explanation
Indices: 26113371--26113420 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
26113361 TATCGATCCA
**
26113371 GTATCAATACCTTTTAATTG
1 GTATCAATATATTTTAATTG
**
26113391 GTATCAATATATTTTCTTTG
1 GTATCAATATATTTTAATTG
*
26113411 GTATCGATAT
1 GTATCAATAT
26113421 CTCTGGCTCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (20 bp):
GTATCAATATATTTTAATTG
Found at i:26117585 original size:63 final size:64
Alignment explanation
Indices: 26117465--26117588 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 64
26117455 ACCCATACGA
* * ** **
26117465 CCTAGACACACAGGCGTGTCCCAGGCCGTGTGCACGATGGGGTAATCAACAGTGAGTTACATGG
1 CCTAGACACACAGGCGTGTCCCAGGCCATGTGCACAATGGGCAAATCAACAAAGAGTTACATGG
* *
26117529 CCTAGACACAC-GGCGTGTCCCAGGCCATGTGCATAATGGAGCAAAT-GACAAAGAGTTACA
1 CCTAGACACACAGGCGTGTCCCAGGCCATGTGCACAATGG-GCAAATCAACAAAGAGTTACA
26117589 CGATGTGAAG
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
63 36 0.71
64 15 0.29
ACGTcount: A:0.29, C:0.25, G:0.28, T:0.18
Consensus pattern (64 bp):
CCTAGACACACAGGCGTGTCCCAGGCCATGTGCACAATGGGCAAATCAACAAAGAGTTACATGG
Found at i:26118636 original size:27 final size:30
Alignment explanation
Indices: 26118606--26118673 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
26118596 TTCCCTATAT
26118606 TTTTATTTT-CTTAAATTAA-TTAATTT-A
1 TTTTATTTTACTTAAATTAATTTAATTTAA
*
26118633 TTTTATTCTTACGCTTAATTTAATTTAATTTAA
1 TTTTATT-TTA--CTTAAATTAATTTAATTTAA
26118666 TTTTATTT
1 TTTTATTT
26118674 ATGCTATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
27 7 0.21
28 2 0.06
31 9 0.26
32 8 0.24
33 8 0.24
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.63
Consensus pattern (30 bp):
TTTTATTTTACTTAAATTAATTTAATTTAA
Found at i:26118707 original size:12 final size:12
Alignment explanation
Indices: 26118687--26118723 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
26118677 CTATTTAGCA
26118687 TTTATTATTATT
1 TTTATTATTATT
*
26118699 TTTAGTATTATT
1 TTTATTATTATT
26118711 TTATATTATTATT
1 TT-TATTATTATT
26118724 CCTACTACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 13 0.59
13 9 0.41
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (12 bp):
TTTATTATTATT
Found at i:26120235 original size:22 final size:20
Alignment explanation
Indices: 26120210--26120285 Score: 55
Period size: 22 Copynumber: 3.5 Consensus size: 20
26120200 TTCTTTTCAC
26120210 TTTTATTTTTATCCTTTTTTA
1 TTTTATTTTTAT-CTTTTTTA
*
26120231 TTTTTTGTTTTTAGT-TTTTTTAA
1 --TTTTATTTTTA-TCTTTTTT-A
*
26120254 TTTTATTTCTTAGACTTTTTTA
1 TTTTATTT-TTA-TCTTTTTTA
*
26120276 GTTTATTTTT
1 TTTTATTTTT
26120286 CTTTTAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
21 9 0.20
22 18 0.40
23 17 0.38
24 1 0.02
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.75
Consensus pattern (20 bp):
TTTTATTTTTATCTTTTTTA
Found at i:26126352 original size:19 final size:19
Alignment explanation
Indices: 26126316--26126363 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
26126306 CATTAGGATT
**
26126316 CCCCTCC-TTCCCTTTTTC
1 CCCCTCCTTTCCCCCTTTC
*
26126334 TCCCTCCTTTCCCCCTTTC
1 CCCCTCCTTTCCCCCTTTC
*
26126353 CCCCTTCTTTC
1 CCCCTCCTTTC
26126364 ATTTGTTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (19 bp):
CCCCTCCTTTCCCCCTTTC
Found at i:26126380 original size:18 final size:18
Alignment explanation
Indices: 26126357--26126399 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
26126347 CCTTTCCCCC
*
26126357 TTCTTTCATTTGTTTATT
1 TTCTTTCATTTATTTATT
*
26126375 TTCTTTCGTTTATTTATT
1 TTCTTTCATTTATTTATT
*
26126393 TACTTTC
1 TTCTTTC
26126400 TTTTTATGCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.14, G:0.05, T:0.70
Consensus pattern (18 bp):
TTCTTTCATTTATTTATT
Found at i:26129977 original size:41 final size:41
Alignment explanation
Indices: 26129932--26130055 Score: 239
Period size: 41 Copynumber: 3.0 Consensus size: 41
26129922 ATGAAAGGTA
*
26129932 TAAGTATATGAAAATTGATTATTTATTAGCTCATATATGTT
1 TAAGTATATGAAAATTGATTATTGATTAGCTCATATATGTT
26129973 TAAGTATATGAAAATTGATTATTGATTAGCTCATATATGTT
1 TAAGTATATGAAAATTGATTATTGATTAGCTCATATATGTT
26130014 TAAGTATATGAAAATTGATTATTGATTAGCTCATATATGTT
1 TAAGTATATGAAAATTGATTATTGATTAGCTCATATATGTT
26130055 T
1 T
26130056 CTTAATATTC
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 82 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (41 bp):
TAAGTATATGAAAATTGATTATTGATTAGCTCATATATGTT
Found at i:26139121 original size:26 final size:25
Alignment explanation
Indices: 26139050--26139130 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 25
26139040 ACACAATGCA
* *
26139050 GCTC-TTATGAGCATCCTGATATATA-
1 GCTCTTTATGAGC-TTCTGAT-TAAAG
*
26139075 GCTCTTT-GGAGCTTCTCGATTAAAG
1 GCTCTTTATGAGCTTCT-GATTAAAG
*
26139100 GCTCTTTATGAGCTTGCTGATTAATG
1 GCTCTTTATGAGCTT-CTGATTAAAG
26139126 GCTCT
1 GCTCT
26139131 CCAGAGCTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
24 6 0.13
25 18 0.39
26 20 0.43
27 2 0.04
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (25 bp):
GCTCTTTATGAGCTTCTGATTAAAG
Found at i:26139258 original size:24 final size:25
Alignment explanation
Indices: 26139228--26139312 Score: 88
Period size: 24 Copynumber: 3.5 Consensus size: 25
26139218 TATTGACTCA
26139228 CATGAGCTTCCTGAATATGGCTCTT
1 CATGAGCTTCCTGAATATGGCTCTT
* * * * *
26139253 CA-GAGCTACCCG-TTATTGACTC-A
1 CATGAGCTTCCTGAATA-TGGCTCTT
26139276 CATGAGCTTCCTGAATATGGCTCTT
1 CATGAGCTTCCTGAATATGGCTCTT
26139301 -ATGAGCTTCCTG
1 CATGAGCTTCCTG
26139313 TTATATAGCC
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
23 4 0.09
24 38 0.83
25 4 0.09
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (25 bp):
CATGAGCTTCCTGAATATGGCTCTT
Found at i:26139316 original size:48 final size:48
Alignment explanation
Indices: 26139186--26139300 Score: 212
Period size: 48 Copynumber: 2.4 Consensus size: 48
26139176 TATCTGAAGT
*
26139186 TTCCTGATTAATGGCTCTTCAGAGCTACCCGTTATTGACTCACATGAGC
1 TTCCTGAAT-ATGGCTCTTCAGAGCTACCCGTTATTGACTCACATGAGC
26139235 TTCCTGAATATGGCTCTTCAGAGCTACCCGTTATTGACTCACATGAGC
1 TTCCTGAATATGGCTCTTCAGAGCTACCCGTTATTGACTCACATGAGC
26139283 TTCCTGAATATGGCTCTT
1 TTCCTGAATATGGCTCTT
26139301 ATGAGCTTCC
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
48 57 0.88
49 8 0.12
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (48 bp):
TTCCTGAATATGGCTCTTCAGAGCTACCCGTTATTGACTCACATGAGC
Found at i:26156821 original size:18 final size:18
Alignment explanation
Indices: 26156782--26156823 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
26156772 AGGTCATGAT
* *
26156782 CAATAGCGTCACTAGCAT
1 CAATATCGTCACTAGCAA
*
26156800 CAATATCGTCACTATCAA
1 CAATATCGTCACTAGCAA
26156818 CAATAT
1 CAATAT
26156824 TGATATCATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.26
Consensus pattern (18 bp):
CAATATCGTCACTAGCAA
Found at i:26162235 original size:14 final size:14
Alignment explanation
Indices: 26162216--26162244 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
26162206 ACAGATGGAT
26162216 TCGTATAATTCTTA
1 TCGTATAATTCTTA
26162230 TCGTATAATTCTTA
1 TCGTATAATTCTTA
26162244 T
1 T
26162245 ATATATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:26162641 original size:15 final size:15
Alignment explanation
Indices: 26162565--26162645 Score: 55
Period size: 15 Copynumber: 5.6 Consensus size: 15
26162555 AATTCATATT
*
26162565 TTAATAATAAATATA
1 TTAATAATAATTATA
*
26162580 TTAAGAAT-ATTAT-
1 TTAATAATAATTATA
* *
26162593 TAAATTATATATTAT-
1 TTAATAATA-ATTATA
* *
26162608 TTTATTA-AATTATA
1 TTAATAATAATTATA
26162622 TTTAATAATAATTATA
1 -TTAATAATAATTATA
26162638 TTAA-AATA
1 TTAATAATA
26162646 TGATTTAATT
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
13 10 0.19
14 9 0.17
15 26 0.50
16 7 0.13
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (15 bp):
TTAATAATAATTATA
Found at i:26162693 original size:62 final size:61
Alignment explanation
Indices: 26162515--26162706 Score: 234
Period size: 62 Copynumber: 3.2 Consensus size: 61
26162505 ATCAAATGAA
* * *
26162515 ATATGAAAATATGATTAAATTATTTATTATGATATTTATT-AATTCATATTTTAATAATAAAT
1 ATATTAAAATATGATTAAATTATTTATTATTATATTTATTAAATT-ATA-TTTAATAATAATT
*
26162577 ATATTAAGAATATTATTAAATTA--TA-TATTAT-TTTATTAAATTATATTTAATAATAATT
1 ATATTAA-AATATGATTAAATTATTTATTATTATATTTATTAAATTATATTTAATAATAATT
* * *
26162635 ATATTAAAATATGATTTAATTATTTACTTTTTATATTTATTAAATTATATTTACTAATAATCT
1 ATATTAAAATATGATTAAATTATTTA-TTATTATATTTATTAAATTATATTTAATAATAAT-T
26162698 -TATTAAAAT
1 ATATTAAAAT
26162707 TTAATAACAA
Statistics
Matches: 114, Mismatches: 8, Indels: 16
0.83 0.06 0.12
Matches are distributed among these distances:
57 13 0.11
58 19 0.17
59 11 0.10
60 9 0.08
61 7 0.06
62 40 0.35
63 15 0.13
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (61 bp):
ATATTAAAATATGATTAAATTATTTATTATTATATTTATTAAATTATATTTAATAATAATT
Found at i:26163238 original size:25 final size:25
Alignment explanation
Indices: 26163174--26163255 Score: 93
Period size: 25 Copynumber: 3.5 Consensus size: 25
26163164 TATAACCTTG
*
26163174 TTTGTGTATTATCATATGCA-TATT
1 TTTGTATATTATCATATGCATTATT
* *
26163198 TTTGTACA-T-TC-T-TGCATTACT
1 TTTGTATATTATCATATGCATTATT
26163219 TTTGTATATTATCATATGCATTATT
1 TTTGTATATTATCATATGCATTATT
*
26163244 TTTATATATTAT
1 TTTGTATATTAT
26163256 TTTATAACAT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
20 4 0.09
21 11 0.23
22 3 0.06
23 3 0.06
24 7 0.15
25 19 0.40
ACGTcount: A:0.26, C:0.10, G:0.09, T:0.56
Consensus pattern (25 bp):
TTTGTATATTATCATATGCATTATT
Found at i:26166142 original size:14 final size:14
Alignment explanation
Indices: 26166123--26166150 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
26166113 TTCCTTCGCG
26166123 TAACTGTTTTGTCA
1 TAACTGTTTTGTCA
26166137 TAACTGTTTTGTCA
1 TAACTGTTTTGTCA
26166151 AAGTTTTTAG
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:0.14, G:0.14, T:0.50
Consensus pattern (14 bp):
TAACTGTTTTGTCA
Found at i:26173498 original size:69 final size:69
Alignment explanation
Indices: 26173370--26173498 Score: 206
Period size: 69 Copynumber: 1.9 Consensus size: 69
26173360 CTTAAATGAT
* *
26173370 AAGTTGGGCTAAATTAACTATATATGTCGATTTTTTTATTTGAGATTTTAGGCTGTTTTTGGAGA
1 AAGTTGGGCTAAATTAACTATACATGTCGATTTTTTTATTTGAGATTTTAGGCTCTTTTTGGAGA
26173435 GAGA
66 GAGA
* *
26173439 AAGTTGGGCTAAATTAACTATACATGTCGATTTTTTTTATTTGGGCTTTTAGGC-CTTTTT
1 AAGTTGGGCTAAATTAACTATACATGTCGA-TTTTTTTATTTGAGATTTTAGGCTCTTTTT
26173499 TTAAAATTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
69 34 0.62
70 21 0.38
ACGTcount: A:0.25, C:0.09, G:0.21, T:0.46
Consensus pattern (69 bp):
AAGTTGGGCTAAATTAACTATACATGTCGATTTTTTTATTTGAGATTTTAGGCTCTTTTTGGAGA
GAGA
Found at i:26177856 original size:41 final size:40
Alignment explanation
Indices: 26177719--26177860 Score: 160
Period size: 41 Copynumber: 3.5 Consensus size: 40
26177709 TTTCATTGCT
* ** * *
26177719 ATCCTTTTCAACATTTTCCCTTGATATCTTTTTCGAATAAC
1 ATCCTTTTCAACCTTTTCATTTGATATCATTTTCGGAT-AC
*
26177760 ATCATTTTCAACCTTTTCATTTGATATCATTTTCGGATAC
1 ATCCTTTTCAACCTTTTCATTTGATATCATTTTCGGATAC
* * *
26177800 ATCCTTTTCAACCTTTTTATTTGTTATC-CTTTCTGGATAGC
1 ATCCTTTTCAACCTTTTCATTTGATATCATTTTC-GGATA-C
*
26177841 TTCCTTTTCAACCTTTTCAT
1 ATCCTTTTCAACCTTTTCAT
26177861 AGAATTAAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 32 0.37
41 51 0.59
ACGTcount: A:0.21, C:0.23, G:0.06, T:0.49
Consensus pattern (40 bp):
ATCCTTTTCAACCTTTTCATTTGATATCATTTTCGGATAC
Found at i:26186251 original size:35 final size:35
Alignment explanation
Indices: 26186202--26186322 Score: 170
Period size: 35 Copynumber: 3.5 Consensus size: 35
26186192 CAATGTTATT
* * * *
26186202 TGGTGTGCTAGATGGTACTAGCTCTTCTAAGCATC
1 TGGTGTGTTGGATGGTACTAGCTCTTATGAGCATC
*
26186237 TGGTGTGTTGGATGGTACTAGTTCTTATGAGCATC
1 TGGTGTGTTGGATGGTACTAGCTCTTATGAGCATC
* *
26186272 TGGTGTGTTGGATGGTATTGGCTCTTATGAGCATC
1 TGGTGTGTTGGATGGTACTAGCTCTTATGAGCATC
*
26186307 TAGTGTGTTGGATGGT
1 TGGTGTGTTGGATGGT
26186323 TAACTGTGTA
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 77 1.00
ACGTcount: A:0.17, C:0.12, G:0.32, T:0.39
Consensus pattern (35 bp):
TGGTGTGTTGGATGGTACTAGCTCTTATGAGCATC
Found at i:26188502 original size:15 final size:15
Alignment explanation
Indices: 26188482--26188510 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
26188472 ATGAATGACA
26188482 ATAATTAATAAATCG
1 ATAATTAATAAATCG
26188497 ATAATTAATAAATC
1 ATAATTAATAAATC
26188511 AGTAAGAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (15 bp):
ATAATTAATAAATCG
Found at i:26202017 original size:19 final size:19
Alignment explanation
Indices: 26201982--26202026 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
26201972 TTAATAAAAA
26201982 AATA-TAACATACTTTAAC
1 AATATTAACATACTTTAAC
26202000 AATATTAAC-TACTATTAAC
1 AATATTAACATACT-TTAAC
26202019 AATATTAA
1 AATATTAA
26202027 ATAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (19 bp):
AATATTAACATACTTTAAC
Found at i:26202313 original size:20 final size:20
Alignment explanation
Indices: 26202285--26202322 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
26202275 AAATATAACA
*
26202285 TACTTTTAACAATATTAAAC
1 TACTATTAACAATATTAAAC
26202305 TACTATTAACAATATTAA
1 TACTATTAACAATATTAA
26202323 TTAAAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.39
Consensus pattern (20 bp):
TACTATTAACAATATTAAAC
Found at i:26203252 original size:17 final size:16
Alignment explanation
Indices: 26203205--26203252 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
26203195 GCAACAAATA
**
26203205 TTGTTTAGAATAGTTG
1 TTGTTTAGAATAACTG
*
26203221 TTGTTTAGAACAACTG
1 TTGTTTAGAATAACTG
26203237 TTGTTCTAGAATAACT
1 TTGTT-TAGAATAACT
26203253 ATGTTCAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
16 18 0.67
17 9 0.33
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (16 bp):
TTGTTTAGAATAACTG
Found at i:26216774 original size:20 final size:20
Alignment explanation
Indices: 26216751--26216790 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
26216741 AATAAACACC
*
26216751 AAAAATTTATTTTAAAAATA
1 AAAAATGTATTTTAAAAATA
26216771 AAAAATGTATTTTAAAAATA
1 AAAAATGTATTTTAAAAATA
26216791 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
AAAAATGTATTTTAAAAATA
Found at i:26216803 original size:8 final size:8
Alignment explanation
Indices: 26216790--26216814 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
26216780 TTTTAAAAAT
26216790 ATTTTAAA
1 ATTTTAAA
26216798 ATTTTAAA
1 ATTTTAAA
26216806 ATTTTAAA
1 ATTTTAAA
26216814 A
1 A
26216815 ACATATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTTTAAA
Found at i:26218473 original size:16 final size:17
Alignment explanation
Indices: 26218452--26218486 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
26218442 TAAAATCTAG
*
26218452 TATATAATAATT-TAAT
1 TATATAAGAATTATAAT
26218468 TATATAAGAATTATAAT
1 TATATAAGAATTATAAT
26218485 TA
1 TA
26218487 AAATTTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TATATAAGAATTATAAT
Found at i:26220598 original size:21 final size:21
Alignment explanation
Indices: 26220585--26220663 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 21
26220575 TTTATTTTTT
26220585 ATTTTAAAATATTTTTTACATA
1 ATTTTAAAATATTTTTTA-ATA
26220607 ATTTTAAAATATTTTTTACATA
1 ATTTTAAAATATTTTTTA-ATA
* **
26220629 CTTTT-TTA-ATTTTTT--TA
1 ATTTTAAAATATTTTTTAATA
26220646 ATTTTAAAATACTTTTTT
1 ATTTTAAAATA-TTTTTT
26220664 TTTTAATTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
17 6 0.12
18 1 0.02
19 1 0.02
20 13 0.27
21 1 0.02
22 26 0.54
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTAAAATATTTTTTAATA
Found at i:26220644 original size:22 final size:22
Alignment explanation
Indices: 26220585--26220633 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
26220575 TTTATTTTTT
26220585 ATTTTAAAATATTTTTTACATA
1 ATTTTAAAATATTTTTTACATA
26220607 ATTTTAAAATATTTTTTACATA
1 ATTTTAAAATATTTTTTACATA
*
26220629 CTTTT
1 ATTTT
26220634 TTAATTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTTAAAATATTTTTTACATA
Found at i:26220671 original size:32 final size:31
Alignment explanation
Indices: 26220630--26220693 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 31
26220620 TTTTACATAC
26220630 TTTTTTAATTTTTTTAATTTTAAAATACTTTT
1 TTTTTTAATTTTTTTAATTTTAAAATA-TTTT
26220662 TTTTTTAATTTTTTTAATTTTAAAATATTTT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTT
26220693 T
1 T
26220694 AAAATACTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 5 0.16
32 27 0.84
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (31 bp):
TTTTTTAATTTTTTTAATTTTAAAATATTTT
Found at i:26220693 original size:11 final size:11
Alignment explanation
Indices: 26220679--26220731 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 11
26220669 ATTTTTTTAA
26220679 TTTTAAAATAT
1 TTTTAAAATAT
26220690 TTTTAAAATACT
1 TTTTAAAATA-T
**
26220702 TTTTTTAAT-T
1 TTTTAAAATAT
*
26220712 TTTTTAAA-AT
1 TTTTAAAATAT
26220722 TTTTAAAATA
1 TTTTAAAATA
26220732 AAAATGGGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 16 0.46
11 11 0.31
12 8 0.23
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:26220694 original size:17 final size:17
Alignment explanation
Indices: 26220640--26220695 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
26220630 TTTTTTAATT
26220640 TTTTTAATTTTAAAATA
1 TTTTTAATTTTAAAATA
* *
26220657 CTTTTT--TTTT-TAATT
1 -TTTTTAATTTTAAAATA
26220672 TTTTTAATTTTAAAATA
1 TTTTTAATTTTAAAATA
26220689 TTTTTAA
1 TTTTTAA
26220696 AATACTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 5 0.16
15 3 0.10
16 8 0.26
17 10 0.32
18 5 0.16
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTAATTTTAAAATA
Done.