Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 114 of 141
Found at i:33439533 original size:56 final size:56
Alignment explanation
Indices: 33439410--33439694 Score: 256
Period size: 56 Copynumber: 5.4 Consensus size: 56
33439400 AGTATAATTA
* * * *
33439410 AGTTATGTAACTTATGATATGATATATATTTATGTATTATGCAAGCTATG-GAAGTTATGTG
1 AGTTATGTAAGTTATGATATGATATATA--TAAG--TTAT-TAAGTTATGTG-AGTTATGTG
33439471 AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTGAGTTA--T-
1 AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTGAGTTATGTG
*
33439524 -G-TA---AA-TTATGGTATGATATATATAAGTTATT-A--------AGTTATGTG
1 AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTGAGTTATGTG
* *
33439565 AGTTATGTAAGTTATGGTATGATATATATAAGTTATTAAGTTATGTAAGTTATGTG
1 AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTGAGTTATGTG
* *
33439621 AGTTATGTAAATTATGATATGATATATATAAGTTAGTAAGTTA----AGTTATGTG
1 AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTGAGTTATGTG
* *
33439673 AGTTATTTAAGTTATGGTATGA
1 AGTTATGTAAGTTATGATATGA
33439695 GTGAAACAAA
Statistics
Matches: 194, Mismatches: 11, Indels: 47
0.77 0.04 0.19
Matches are distributed among these distances:
38 5 0.03
40 1 0.01
42 1 0.01
43 2 0.01
46 3 0.02
47 51 0.26
48 3 0.02
51 2 0.01
52 29 0.15
54 1 0.01
56 61 0.31
57 5 0.03
59 3 0.02
61 27 0.14
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.44
Consensus pattern (56 bp):
AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTGAGTTATGTG
Found at i:33439571 original size:94 final size:102
Alignment explanation
Indices: 33439461--33439694 Score: 322
Period size: 103 Copynumber: 2.3 Consensus size: 102
33439451 CAAGCTATGG
33439461 AAGTTATGTGAGTTATGTAAGTTATGATATGATAT-A-TA-TAAGTTAT-TAAGTTATGTGAGTT
1 AAGTTATGTGAGTTATGTAAGTTATGATATGATATAAGTATTAAGTTATGTAAGTTATGTGAGTT
*
33439522 ATGTAAATTATGGTATGATATATATAAG-T-T-A-TT
66 ATGTAAATTATGATATGATATATATAAGTTATAAGTT
*
33439555 AAGTTATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTATTAAGTTATGTAAGTTATGT
1 AAGTTATGTGAGTTATGTAAGTTAT-G-AT-AT-GATATAAG-TATTAAGTTATGTAAGTTATGT
33439620 GAGTTATGTAAATTATGATATGATATATATAAGTTAGTAAGTT
61 GAGTTATGTAAATTATGATATGATATATATAAGTTA-TAAGTT
* *
33439663 AAGTTATGTGAGTTATTTAAGTTATGGTATGA
1 AAGTTATGTGAGTTATGTAAGTTATGATATGA
33439695 GTGAAACAAA
Statistics
Matches: 121, Mismatches: 5, Indels: 18
0.84 0.03 0.12
Matches are distributed among these distances:
94 25 0.21
95 1 0.01
96 2 0.02
97 2 0.02
98 4 0.03
99 1 0.01
101 2 0.02
102 8 0.07
103 42 0.35
104 2 0.02
105 2 0.02
106 2 0.02
107 2 0.02
108 26 0.21
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (102 bp):
AAGTTATGTGAGTTATGTAAGTTATGATATGATATAAGTATTAAGTTATGTAAGTTATGTGAGTT
ATGTAAATTATGATATGATATATATAAGTTATAAGTT
Found at i:33439621 original size:103 final size:106
Alignment explanation
Indices: 33439499--33439694 Score: 328
Period size: 103 Copynumber: 1.9 Consensus size: 106
33439489 ATGATATATA
*
33439499 TAAGTTATTAAGTTATGTGAGTTATGTAAATTATGGTATGATATATATAAG-T-T-A-TTAAGTT
1 TAAGTTATTAAGTTATGTGAGTTATGTAAATTATGATATGATATATATAAGTTATAAGTTAAGTT
33439560 ATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTAT
66 ATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTAT
33439601 TAAGTTATGTAAGTTATGTGAGTTATGTAAATTATGATATGATATATATAAGTTAGTAAGTTAAG
1 TAAGTTAT-TAAGTTATGTGAGTTATGTAAATTATGATATGATATATATAAGTTA-TAAGTTAAG
*
33439666 TTATGTGAGTTATTTAAGTTATGGTATGA
64 TTATGTGAGTTATGTAAGTTATGGTATGA
33439695 GTGAAACAAA
Statistics
Matches: 86, Mismatches: 2, Indels: 6
0.91 0.02 0.06
Matches are distributed among these distances:
102 8 0.09
103 42 0.49
104 1 0.01
106 1 0.01
107 1 0.01
108 33 0.38
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.44
Consensus pattern (106 bp):
TAAGTTATTAAGTTATGTGAGTTATGTAAATTATGATATGATATATATAAGTTATAAGTTAAGTT
ATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTAT
Found at i:33439660 original size:47 final size:47
Alignment explanation
Indices: 33439461--33439663 Score: 273
Period size: 47 Copynumber: 4.1 Consensus size: 47
33439451 CAAGCTATGG
* *
33439461 AAGTTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTATT
1 AAGTTATGTGAGTTATGTAAATTATGATATGATATATATAAGTTAGT
* *
33439508 AAGTTATGTGAGTTATGTAAATTATGGTATGATATATATAAGTTATT
1 AAGTTATGTGAGTTATGTAAATTATGATATGATATATATAAGTTAGT
33439555 AAGTTATGTGAGTTATGTAAGTTATGGTATGATAT-ATATAAGTTATTAAGTTATGT
1 AAGTTATGTGAGTTATGTAA---AT--TATGATATGATAT-A--TA-TAAGTTA-GT
33439611 AAGTTATGTGAGTTATGTAAATTATGATATGATATATATAAGTTAGT
1 AAGTTATGTGAGTTATGTAAATTATGATATGATATATATAAGTTAGT
33439658 AAGTTA
1 AAGTTA
33439664 AGTTATGTGA
Statistics
Matches: 141, Mismatches: 4, Indels: 22
0.84 0.02 0.13
Matches are distributed among these distances:
47 73 0.52
48 7 0.05
49 2 0.01
50 2 0.01
51 13 0.09
52 12 0.09
53 2 0.01
54 2 0.01
55 7 0.05
56 21 0.15
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (47 bp):
AAGTTATGTGAGTTATGTAAATTATGATATGATATATATAAGTTAGT
Found at i:33441383 original size:29 final size:26
Alignment explanation
Indices: 33441322--33441383 Score: 61
Period size: 29 Copynumber: 2.3 Consensus size: 26
33441312 AATAAAAGCT
33441322 CTTTTTTTTAAATTACCGAAATGGGC
1 CTTTTTTTTAAATTACCGAAATGGGC
** * *
33441348 CCATTTTTTAATTATTTACCGGAATGGTC
1 CTTTTTTTTAA--A-TTACCGAAATGGGC
33441377 CTTTTTT
1 CTTTTTT
33441384 CCGGGAAATC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
26 9 0.33
28 1 0.04
29 17 0.63
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (26 bp):
CTTTTTTTTAAATTACCGAAATGGGC
Found at i:33449628 original size:28 final size:28
Alignment explanation
Indices: 33449585--33449641 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
33449575 AACTAATGAA
* *
33449585 TGTGGTAAATTGCTCATTTGAGAACAAC
1 TGTGGTAAATTACTCATTCGAGAACAAC
*
33449613 TGTGGTAAATTACTCATTCGAGAATAAC
1 TGTGGTAAATTACTCATTCGAGAACAAC
33449641 T
1 T
33449642 AACCCATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (28 bp):
TGTGGTAAATTACTCATTCGAGAACAAC
Found at i:33453515 original size:34 final size:32
Alignment explanation
Indices: 33453477--33453548 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
33453467 CCCTGGTAAA
*
33453477 ATTTTGAGAAAATATGATCGAATGATTTATTTTC
1 ATTTTGA-AAAA-ATGATCAAATGATTTATTTTC
** *
33453511 ATTTTGATCAAATGGTCAAATGATTTATTTTC
1 ATTTTGAAAAAATGATCAAATGATTTATTTTC
33453543 ATTTTG
1 ATTTTG
33453549 GGCTTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 25 0.74
33 2 0.06
34 7 0.21
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (32 bp):
ATTTTGAAAAAATGATCAAATGATTTATTTTC
Found at i:33453650 original size:19 final size:18
Alignment explanation
Indices: 33453626--33453661 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33453616 ACAAATGAAT
33453626 CATTTCTCATTTCCATTTC
1 CATTTCT-ATTTCCATTTC
*
33453645 CATTTCTATTTCTATTT
1 CATTTCTATTTCCATTT
33453662 TGAGAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.17, C:0.25, G:0.00, T:0.58
Consensus pattern (18 bp):
CATTTCTATTTCCATTTC
Found at i:33454932 original size:16 final size:15
Alignment explanation
Indices: 33454891--33454932 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
33454881 CACTTTTTGG
33454891 GTTTTATTTT-AATA
1 GTTTTATTTTAAATA
*
33454905 GTTTAGATTTTAAATTA
1 GTTT-TATTTTAAA-TA
33454922 GTTTTATTTTA
1 GTTTTATTTTA
33454933 TTTACAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 4 0.17
15 5 0.22
16 8 0.35
17 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.62
Consensus pattern (15 bp):
GTTTTATTTTAAATA
Found at i:33458058 original size:43 final size:43
Alignment explanation
Indices: 33457996--33458082 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
33457986 AGAGATTGAC
33457996 TTTTTCAACTATTACGATTTAGTCCTTTTTGCTTAATTAACTA
1 TTTTTCAACTATTACGATTTAGTCCTTTTTGCTTAATTAACTA
*
33458039 TTTTTCAACTATTATGATTTAGTCCTTTTTGCTTAATTAACTA
1 TTTTTCAACTATTACGATTTAGTCCTTTTTGCTTAATTAACTA
33458082 T
1 T
33458083 CTAAACATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.25, C:0.15, G:0.07, T:0.53
Consensus pattern (43 bp):
TTTTTCAACTATTACGATTTAGTCCTTTTTGCTTAATTAACTA
Found at i:33459937 original size:16 final size:16
Alignment explanation
Indices: 33459916--33459959 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
33459906 AAAGGCTTTT
33459916 TTTTAATTTGTTTTAA
1 TTTTAATTTGTTTTAA
33459932 TTTTAATTT-TCTTTAA
1 TTTTAATTTGT-TTTAA
*
33459948 TTTTCATTTGTT
1 TTTTAATTTGTT
33459960 CATTTTCTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (16 bp):
TTTTAATTTGTTTTAA
Found at i:33462981 original size:29 final size:29
Alignment explanation
Indices: 33462937--33463159 Score: 218
Period size: 29 Copynumber: 7.7 Consensus size: 29
33462927 TCAATTTTCA
* * *
33462937 TATAAAAAAGCATTTGTGATGATCTCTGT
1 TATAAAGAAGCCTTTGTGGTGATCTCTGT
*
33462966 TATAAAGAAGCCTTTGTGGCGATCTCTGT
1 TATAAAGAAGCCTTTGTGGTGATCTCTGT
*
33462995 TATAATGAAGCCTTTGTGGTGATCTCTGT
1 TATAAAGAAGCCTTTGTGGTGATCTCTGT
* * *
33463024 TAT-AAGAAAGCCTTTGTAGTGAT-TATTAT
1 TATAAAG-AAGCCTTTGTGGTGATCT-CTGT
* * *
33463053 TATAAAGGAGCCTTTATGGTGATCTCTAT
1 TATAAAGAAGCCTTTGTGGTGATCTCTGT
* * * ** *
33463082 CATAAGGAAGCCTTTCTAATGATCTCTAT
1 TATAAAGAAGCCTTTGTGGTGATCTCTGT
* *
33463111 TAT-AAGAAAGCCTTTATGGCGATCTCTGT
1 TATAAAG-AAGCCTTTGTGGTGATCTCTGT
*
33463140 TATAAGGAAGCCTTTGTGGT
1 TATAAAGAAGCCTTTGTGGT
33463160 TGTTTTTGTT
Statistics
Matches: 158, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
28 5 0.03
29 147 0.93
30 6 0.04
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (29 bp):
TATAAAGAAGCCTTTGTGGTGATCTCTGT
Found at i:33469780 original size:36 final size:36
Alignment explanation
Indices: 33469723--33469796 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
33469713 GGAGGAGCAC
*
33469723 ATCAGTCAGAATAGATTCGAAAGCCTACTGAACTGA
1 ATCAGTCAAAATAGATTCGAAAGCCTACTGAACTGA
* * *
33469759 ATCAGTCAAAATA-TTTCCGAAAGGCTGCTGAACTGA
1 ATCAGTCAAAATAGATT-CGAAAGCCTACTGAACTGA
33469795 AT
1 AT
33469797 AGAGTTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 2 0.06
36 31 0.94
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (36 bp):
ATCAGTCAAAATAGATTCGAAAGCCTACTGAACTGA
Found at i:33469808 original size:16 final size:16
Alignment explanation
Indices: 33469787--33469819 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
33469777 GAAAGGCTGC
33469787 TGAACTGAATAGAGTT
1 TGAACTGAATAGAGTT
33469803 TGAACTGAATAGAGTT
1 TGAACTGAATAGAGTT
33469819 T
1 T
33469820 ACTCTTTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (16 bp):
TGAACTGAATAGAGTT
Found at i:33476451 original size:6 final size:6
Alignment explanation
Indices: 33476386--33476471 Score: 50
Period size: 6 Copynumber: 14.2 Consensus size: 6
33476376 AAACTTCTAA
* * * * * *
33476386 TTAATT TTAAACTT TTATTT TTAGTT TTAGTT TTATTT TTCATT TTTATCT
1 TTAATT TT-AA-TT TTAATT TTAATT TTAATT TTAATT TTAATT TTAAT-T
***
33476437 TTGCCT TTAATT TTAA-T TT-ATT TTAATT TTAATT T
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT T
33476472 GTTTATATTT
Statistics
Matches: 63, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
4 1 0.02
5 6 0.10
6 46 0.73
7 6 0.10
8 4 0.06
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.67
Consensus pattern (6 bp):
TTAATT
Found at i:33496350 original size:5 final size:5
Alignment explanation
Indices: 33496340--33496364 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
33496330 CTAAATTAGG
33496340 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
33496365 AAAATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:33499548 original size:20 final size:20
Alignment explanation
Indices: 33499523--33499576 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
33499513 AAAAATCAAT
*
33499523 AGTATCGATACCTTTTATAA
1 AGTATCGATACCTTTTACAA
* *
33499543 AGTATCGGTACTTTTTACAA
1 AGTATCGATACCTTTTACAA
*
33499563 AGTATTGATACCTT
1 AGTATCGATACCTT
33499577 ACTCCTGTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (20 bp):
AGTATCGATACCTTTTACAA
Found at i:33501581 original size:24 final size:24
Alignment explanation
Indices: 33501537--33501582 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
33501527 AGTTCATACA
*
33501537 TTTAAATAGCATTTTAAATTATGT
1 TTTAAATAGCATTATAAATTATGT
*
33501561 TTTAAAT-GCTATTATATATTAT
1 TTTAAATAGC-ATTATAAATTAT
33501583 CAAATTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (24 bp):
TTTAAATAGCATTATAAATTATGT
Found at i:33501671 original size:30 final size:30
Alignment explanation
Indices: 33501635--33501885 Score: 228
Period size: 30 Copynumber: 8.4 Consensus size: 30
33501625 TCACTGGCCA
*
33501635 ATGAAAAGGGATAGCTTCAGCTATCGAATC
1 ATGAAAAGGGATAGCTTCAGCTATCGAATT
*
33501665 ATGAAAAGGGATAGCTT-AGACTATCAAATT
1 ATGAAAAGGGATAGCTTCAG-CTATCGAATT
* * *
33501695 ATGAAAATGGATAGTTTCGGCTATCGAATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAATT
* *
33501725 ATGAAAAGGGATTGCTTCGGCTAT-GAAATT
1 ATGAAAAGGGATAGCTTCAGCTATCG-AATT
* * * *
33501755 ATGAAAAGGGAT-G-GTGACGACCATC-AACT
1 ATGAAAAGGGATAGCTTCA-G-CTATCGAATT
* * * * **
33501784 ATGAATAGGGAT-G-GTGATGACCATTAAATT
1 ATGAAAAGGGATAGCTTCA-G-CTATCGAATT
**
33501814 ATGAAAAGGGATAGCTTTGGCTATCGAATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAATT
33501844 ATGAAAAGGGATAGCTTCAGCTATCGAATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAATT
33501874 ATGAAAAGGGAT
1 ATGAAAAGGGAT
33501886 GCTGACAACA
Statistics
Matches: 185, Mismatches: 27, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
28 1 0.01
29 30 0.16
30 150 0.81
31 3 0.02
32 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCAGCTATCGAATT
Found at i:33501729 original size:60 final size:60
Alignment explanation
Indices: 33501635--33501885 Score: 267
Period size: 60 Copynumber: 4.2 Consensus size: 60
33501625 TCACTGGCCA
* * *
33501635 ATGAAAAGGGATAGCTTCAGCTATCGAATCATGAAAAGGGATAGCTTAGACTATCAAATT
1 ATGAAAAGGGATAGTTTCGGCTATCGAATTATGAAAAGGGATAGCTTAGACTATCAAATT
* * * * *
33501695 ATGAAAATGGATAGTTTCGGCTATCGAATTATGAAAAGGGATTGCTTCGGCTATGAAATT
1 ATGAAAAGGGATAGTTTCGGCTATCGAATTATGAAAAGGGATAGCTTAGACTATCAAATT
* ** * * * * * * * *
33501755 ATGAAAAGGGATGGTGACGACCATC-AACTATGAATAGGGAT-GGTGATGACCATTAAATT
1 ATGAAAAGGGATAGTTTCGGCTATCGAATTATGAAAAGGGATAGCTTA-GACTATCAAATT
*
33501814 ATGAAAAGGGATAGCTTT-GGCTATCGAATTATGAAAAGGGATAGCTTCAG-CTATCGAATT
1 ATGAAAAGGGATAG-TTTCGGCTATCGAATTATGAAAAGGGATAGCTT-AGACTATCAAATT
33501874 ATGAAAAGGGAT
1 ATGAAAAGGGAT
33501886 GCTGACAACA
Statistics
Matches: 152, Mismatches: 34, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
58 2 0.01
59 41 0.27
60 105 0.69
61 3 0.02
62 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (60 bp):
ATGAAAAGGGATAGTTTCGGCTATCGAATTATGAAAAGGGATAGCTTAGACTATCAAATT
Found at i:33501796 original size:29 final size:30
Alignment explanation
Indices: 33501754--33501825 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 30
33501744 GCTATGAAAT
*
33501754 TATGAAAAGGGATGGTGACGACCA-TCAAC
1 TATGAAAAGGGATGGTGACGACCATTAAAC
* * *
33501783 TATGAATAGGGATGGTGATGACCATTAAAT
1 TATGAAAAGGGATGGTGACGACCATTAAAC
33501813 TATGAAAAGGGAT
1 TATGAAAAGGGAT
33501826 AGCTTTGGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 22 0.59
30 15 0.41
ACGTcount: A:0.39, C:0.10, G:0.28, T:0.24
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGACGACCATTAAAC
Found at i:33510010 original size:18 final size:18
Alignment explanation
Indices: 33509987--33510025 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
33509977 AGCTCCTTAA
33509987 TATTAAAGTTGCCAAATT
1 TATTAAAGTTGCCAAATT
33510005 TATTAAAGTTGCCAAATT
1 TATTAAAGTTGCCAAATT
33510023 TAT
1 TAT
33510026 CTGTCTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (18 bp):
TATTAAAGTTGCCAAATT
Found at i:33511959 original size:25 final size:25
Alignment explanation
Indices: 33511931--33511980 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
33511921 CAGATACATG
*
33511931 GAGCTTATGCTTCTTACATTTCTAA
1 GAGCTTATGCATCTTACATTTCTAA
33511956 GAGCTTATGCATCTTACATTTCTAA
1 GAGCTTATGCATCTTACATTTCTAA
33511981 TTAACTGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (25 bp):
GAGCTTATGCATCTTACATTTCTAA
Found at i:33518008 original size:17 final size:17
Alignment explanation
Indices: 33517986--33518048 Score: 65
Period size: 17 Copynumber: 3.5 Consensus size: 17
33517976 ATTGAATCAC
33517986 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*
33518003 TACATAAGCCTT-TAAATCAT
1 TACATAA---TTAAAAAT-AT
*
33518023 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
33518040 TACATAATT
1 TACATAATT
33518049 CTTGAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
17 20 0.53
18 3 0.08
19 4 0.11
20 11 0.29
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.35
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:33518257 original size:39 final size:39
Alignment explanation
Indices: 33518175--33518291 Score: 191
Period size: 39 Copynumber: 3.0 Consensus size: 39
33518165 ACTTAAGAGT
* * *
33518175 TAGACTTTAGTTATATTTTTATTGGGTT-GGTAATTAGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
33518213 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
*
33518252 TAGACTTTAGTTTTAGTTTTATTGGGTTGAGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
33518291 T
1 T
33518292 TGGGTTGGTA
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
38 26 0.35
39 48 0.65
ACGTcount: A:0.21, C:0.03, G:0.27, T:0.50
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:33518304 original size:17 final size:18
Alignment explanation
Indices: 33518273--33518311 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
33518263 TTTAGTTTTA
33518273 TTGGGTTGAGTAATTGGG
1 TTGGGTTGAGTAATTGGG
33518291 TTGGGTTG-GTAATTGGG
1 TTGGGTTGAGTAATTGGG
33518308 TTGG
1 TTGG
33518312 CTAAGTGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.13, C:0.00, G:0.46, T:0.41
Consensus pattern (18 bp):
TTGGGTTGAGTAATTGGG
Found at i:33518308 original size:12 final size:13
Alignment explanation
Indices: 33518291--33518324 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
33518281 AGTAATTGGG
33518291 TTGGGTTGG-TAA
1 TTGGGTTGGCTAA
33518303 TTGGGTTGGCTAA
1 TTGGGTTGGCTAA
*
33518316 GTGGGTTGG
1 TTGGGTTGG
33518325 GTTGGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.12, C:0.03, G:0.47, T:0.38
Consensus pattern (13 bp):
TTGGGTTGGCTAA
Found at i:33518308 original size:30 final size:31
Alignment explanation
Indices: 33518272--33518335 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
33518262 TTTTAGTTTT
*
33518272 ATTGGGTTGAG-TAATTGGGTTGGGTTGG-TA
1 ATTGGGTTG-GCTAAGTGGGTTGGGTTGGATA
33518302 ATTGGGTTGGCTAAGTGGGTTGGGTTGGATA
1 ATTGGGTTGGCTAAGTGGGTTGGGTTGGATA
33518333 ATT
1 ATT
33518336 TTATTTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
29 1 0.03
30 25 0.81
31 5 0.16
ACGTcount: A:0.17, C:0.02, G:0.42, T:0.39
Consensus pattern (31 bp):
ATTGGGTTGGCTAAGTGGGTTGGGTTGGATA
Found at i:33518481 original size:17 final size:18
Alignment explanation
Indices: 33518450--33518488 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
33518440 TTTAGTTTTA
33518450 TTGGGTTGAGTAATTGGG
1 TTGGGTTGAGTAATTGGG
33518468 TTGGGTTG-GTAATTGGG
1 TTGGGTTGAGTAATTGGG
33518485 TTGG
1 TTGG
33518489 CTAAGTGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.13, C:0.00, G:0.46, T:0.41
Consensus pattern (18 bp):
TTGGGTTGAGTAATTGGG
Found at i:33518485 original size:12 final size:13
Alignment explanation
Indices: 33518468--33518501 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
33518458 AGTAATTGGG
33518468 TTGGGTTGG-TAA
1 TTGGGTTGGCTAA
33518480 TTGGGTTGGCTAA
1 TTGGGTTGGCTAA
*
33518493 GTGGGTTGG
1 TTGGGTTGG
33518502 GTTGGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.12, C:0.03, G:0.47, T:0.38
Consensus pattern (13 bp):
TTGGGTTGGCTAA
Found at i:33518485 original size:30 final size:31
Alignment explanation
Indices: 33518449--33518512 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
33518439 TTTTAGTTTT
*
33518449 ATTGGGTTGAG-TAATTGGGTTGGGTTGG-TA
1 ATTGGGTTG-GCTAAGTGGGTTGGGTTGGATA
33518479 ATTGGGTTGGCTAAGTGGGTTGGGTTGGATA
1 ATTGGGTTGGCTAAGTGGGTTGGGTTGGATA
33518510 ATT
1 ATT
33518513 TTATTTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
29 1 0.03
30 25 0.81
31 5 0.16
ACGTcount: A:0.17, C:0.02, G:0.42, T:0.39
Consensus pattern (31 bp):
ATTGGGTTGGCTAAGTGGGTTGGGTTGGATA
Found at i:33518548 original size:177 final size:177
Alignment explanation
Indices: 33518252--33518606 Score: 710
Period size: 177 Copynumber: 2.0 Consensus size: 177
33518242 GGTAATTGGG
33518252 TAGACTTTAGTTTTAGTTTTATTGGGTTGAGTAATTGGGTTGGGTTGGTAATTGGGTTGGCTAAG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGAGTAATTGGGTTGGGTTGGTAATTGGGTTGGCTAAG
33518317 TGGGTTGGGTTGGATAATTTTATTTATTAATTTTTTCGATTAACCAAAAAATCATAAAAAAATTA
66 TGGGTTGGGTTGGATAATTTTATTTATTAATTTTTTCGATTAACCAAAAAATCATAAAAAAATTA
33518382 ACCGACCTCCAATCGAAAAAATTCGGTTAACCGACCGATTAACCGAA
131 ACCGACCTCCAATCGAAAAAATTCGGTTAACCGACCGATTAACCGAA
33518429 TAGACTTTAGTTTTAGTTTTATTGGGTTGAGTAATTGGGTTGGGTTGGTAATTGGGTTGGCTAAG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGAGTAATTGGGTTGGGTTGGTAATTGGGTTGGCTAAG
33518494 TGGGTTGGGTTGGATAATTTTATTTATTAATTTTTTCGATTAACCAAAAAATCATAAAAAAATTA
66 TGGGTTGGGTTGGATAATTTTATTTATTAATTTTTTCGATTAACCAAAAAATCATAAAAAAATTA
33518559 ACCGACCTCCAATCGAAAAAATTCGGTTAACCGACCGATTAACCGAA
131 ACCGACCTCCAATCGAAAAAATTCGGTTAACCGACCGATTAACCGAA
33518606 T
1 T
33518607 TCGGTCGGTT
Statistics
Matches: 178, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
177 178 1.00
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.36
Consensus pattern (177 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGAGTAATTGGGTTGGGTTGGTAATTGGGTTGGCTAAG
TGGGTTGGGTTGGATAATTTTATTTATTAATTTTTTCGATTAACCAAAAAATCATAAAAAAATTA
ACCGACCTCCAATCGAAAAAATTCGGTTAACCGACCGATTAACCGAA
Found at i:33526327 original size:17 final size:18
Alignment explanation
Indices: 33526307--33526340 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
33526297 TATATTATAT
33526307 ATGTATATATA-ATCAAA
1 ATGTATATATATATCAAA
33526324 ATGTATATATATATCAA
1 ATGTATATATATATCAA
33526341 CTAAGCCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
ATGTATATATATATCAAA
Found at i:33528239 original size:67 final size:68
Alignment explanation
Indices: 33528160--33528425 Score: 378
Period size: 67 Copynumber: 4.0 Consensus size: 68
33528150 TTTTTTCATA
* * *
33528160 GGAATTGTGCCA-TTAACTTTTTATTCACAAGCCTCACAAAAGTGTCATTTTCTCATGGGAATTG
1 GGAATTGTGCCATTTAACTTTTTATTCACAAGCCTCACAAGAGTGCCATTTTTTCATGGGAATTG
33528224 TTG
66 TTG
* * *
33528227 GGAATTGTGCCATTTAACTTTTTATTGACAAGCCTCACAATAGTGCCA-TTTTTCATGGGAATTA
1 GGAATTGTGCCATTTAACTTTTTATTCACAAGCCTCACAAGAGTGCCATTTTTTCATGGGAATTG
33528291 TTG
66 TTG
* * *
33528294 AGAATTATGGCA-TTAACTTTTTATTCACAAGCCTCACAAGAGTGCCATTTTTTCATGGGAATTG
1 GGAATTGTGCCATTTAACTTTTTATTCACAAGCCTCACAAGAGTGCCATTTTTTCATGGGAATTG
33528358 TTG
66 TTG
* * * * *
33528361 GAAATTGTGCCATTTAAC-TTTTATTGAAAAGCCTCACAAGAGTGTCATTTTTTTATGGGAATTG
1 GGAATTGTGCCATTTAACTTTTTATTCACAAGCCTCACAAGAGTGCCATTTTTTCATGGGAATTG
33528425 T
66 T
33528426 ACCATTAACT
Statistics
Matches: 177, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
66 33 0.19
67 107 0.60
68 37 0.21
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (68 bp):
GGAATTGTGCCATTTAACTTTTTATTCACAAGCCTCACAAGAGTGCCATTTTTTCATGGGAATTG
TTG
Found at i:33528413 original size:134 final size:134
Alignment explanation
Indices: 33528161--33528423 Score: 420
Period size: 134 Copynumber: 2.0 Consensus size: 134
33528151 TTTTTCATAG
* *
33528161 GAATTGTGCCATTAACTTTTTATTCACAAGCCTCACAAAAGTGTCATTTTCTCATGGGAATTGTT
1 GAATTATGCCATTAACTTTTTATTCACAAGCCTCACAAAAGTGCCATTTTCTCATGGGAATTGTT
* * *
33528226 GGGAATTGTGCCATTTAACTTTTTATTGACAAGCCTCACAATAGTGCCATTTTTCATGGGAATTA
66 GGAAATTGTGCCATTTAACTTTTTATTGAAAAGCCTCACAAGAGTGCCATTTTTCATGGGAATTA
33528291 TTGA
131 TTGA
* * *
33528295 GAATTATGGCATTAACTTTTTATTCACAAGCCTCACAAGAGTGCCATTTTTTCATGGGAATTGTT
1 GAATTATGCCATTAACTTTTTATTCACAAGCCTCACAAAAGTGCCATTTTCTCATGGGAATTGTT
* *
33528360 GGAAATTGTGCCATTTAAC-TTTTATTGAAAAGCCTCACAAGAGTGTCATTTTTTTATGGGAATT
66 GGAAATTGTGCCATTTAACTTTTTATTGAAAAGCCTCACAAGAGTGCCA-TTTTTCATGGGAATT
33528424 GTACCATTAA
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
133 26 0.22
134 92 0.78
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.38
Consensus pattern (134 bp):
GAATTATGCCATTAACTTTTTATTCACAAGCCTCACAAAAGTGCCATTTTCTCATGGGAATTGTT
GGAAATTGTGCCATTTAACTTTTTATTGAAAAGCCTCACAAGAGTGCCATTTTTCATGGGAATTA
TTGA
Found at i:33528456 original size:58 final size:58
Alignment explanation
Indices: 33528363--33528484 Score: 167
Period size: 58 Copynumber: 2.1 Consensus size: 58
33528353 AATTGTTGGA
* *
33528363 AATTGTGCCATTTAACTTTTATTGAAAAGCCTCACAAGAGTGTCATTTTTTT-ATGGG
1 AATTGTACCATTTAACTTTTATTCAAAAGCCTCACAAGAGTGTCATTTTTTTAATGGG
* * *
33528420 AATTGTACCA-TTAACTTTTTTATTCACAAGCTTCACAAGATTGTCATTTTTTTAATGGG
1 AATTGTACCATTTAAC--TTTTATTCAAAAGCCTCACAAGAGTGTCATTTTTTTAATGGG
33528479 AATTGT
1 AATTGT
33528485 GAGGCTTGTG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
56 5 0.09
57 9 0.16
58 32 0.56
59 11 0.19
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.43
Consensus pattern (58 bp):
AATTGTACCATTTAACTTTTATTCAAAAGCCTCACAAGAGTGTCATTTTTTTAATGGG
Found at i:33533184 original size:45 final size:45
Alignment explanation
Indices: 33533134--33533303 Score: 180
Period size: 45 Copynumber: 3.8 Consensus size: 45
33533124 ACTATATGCC
* * * *
33533134 TAAAATGAGTAAGACCATAGCTGAAAGATGCTATGACATTATGGT
1 TAAAATAAGTAAAACCATAGCTAAAAGATGCTATGGCATTATGGT
* * * *
33533179 TAAAATGAGTAAGATCGTAGCTAAAAGATGCTATGGCATTATGGT
1 TAAAATAAGTAAAACCATAGCTAAAAGATGCTATGGCATTATGGT
* * ** * *
33533224 TAAGATAAGTAAAACCATAACTAAAAGAAACTATGGCATCAT-GA
1 TAAAATAAGTAAAACCATAGCTAAAAGATGCTATGGCATTATGGT
* *
33533268 TAGAAATAAGTAAAACCATGGCTGAAAGATGCTATG
1 TA-AAATAAGTAAAACCATAGCTAAAAGATGCTATG
33533304 TCATCATATG
Statistics
Matches: 104, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
44 3 0.03
45 101 0.97
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.25
Consensus pattern (45 bp):
TAAAATAAGTAAAACCATAGCTAAAAGATGCTATGGCATTATGGT
Found at i:33534876 original size:70 final size:67
Alignment explanation
Indices: 33534754--33534886 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 67
33534744 ATAAACAATA
* * * * * *
33534754 TAATGATTTTGTCTTTTAACTTAATAGGTAAACATTTATCAAAACGATGTAGTTTTTCCTTTTAA
1 TAATGATTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACAACGTAGTTTTGCCTTTTAA
33534819 CT
66 CT
33534821 TAATGATTTTGACTTTTAACTTTAAAAAAAGTAAACATTTATCAAAACAACGTAGTTTTGCCTTT
1 TAATGATTTTGACTTTTAAC-TT--AAAAAGTAAACATTTATCAAAACAACGTAGTTTTGCCTTT
33534886 T
63 T
33534887 TTTTATTTGG
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
67 19 0.33
68 2 0.04
70 36 0.63
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.44
Consensus pattern (67 bp):
TAATGATTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACAACGTAGTTTTGCCTTTTAA
CT
Found at i:33535727 original size:33 final size:33
Alignment explanation
Indices: 33535685--33535773 Score: 128
Period size: 33 Copynumber: 2.7 Consensus size: 33
33535675 AAAATCTAGA
*
33535685 TAGGTGAGACGAAGAGGGTATTTGTCATATGCC
1 TAGGTGAGACGAAGAGGGTATTCGTCATATGCC
*
33535718 TAGGTGAGACTGAA-AGGGTATTCGTCATATGTC
1 TAGGTGAGAC-GAAGAGGGTATTCGTCATATGCC
33535751 TAGGTGAGATCG-AGAGGGTATTC
1 TAGGTGAGA-CGAAGAGGGTATTC
33535774 TTATCTAAGG
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
32 1 0.02
33 46 0.90
34 4 0.08
ACGTcount: A:0.27, C:0.11, G:0.34, T:0.28
Consensus pattern (33 bp):
TAGGTGAGACGAAGAGGGTATTCGTCATATGCC
Found at i:33537197 original size:20 final size:18
Alignment explanation
Indices: 33537172--33537213 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
33537162 GCATCATTAC
33537172 TTTTATAAAATTTTTTAATA
1 TTTTAT-AAATTTTTTAA-A
*
33537192 TTTTATATATTTTTTAAA
1 TTTTATAAATTTTTTAAA
33537210 TTTT
1 TTTT
33537214 TATGTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 10 0.48
20 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATAAATTTTTTAAA
Found at i:33537205 original size:19 final size:19
Alignment explanation
Indices: 33537181--33537225 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
33537171 CTTTTATAAA
33537181 ATTTTTT-AATATTTTATAT
1 ATTTTTTAAAT-TTTTATAT
*
33537200 ATTTTTTAAATTTTTATGT
1 ATTTTTTAAATTTTTATAT
33537219 ATTTTTT
1 ATTTTTT
33537226 TGTTTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 21 0.88
20 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
ATTTTTTAAATTTTTATAT
Found at i:33538607 original size:29 final size:28
Alignment explanation
Indices: 33538573--33538646 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 28
33538563 GTTATTTCAA
33538573 TTTTGGTTTAGGGTTTTAAAATGTAAGGG
1 TTTTGGTTTAGGGTTTT-AAATGTAAGGG
* **
33538602 TTTTGGTTTAGGGTTGTTAAATTTGGGGG
1 TTTTGGTTTAGGGTT-TTAAATGTAAGGG
*
33538631 TTTTGGTTTAAGGTTT
1 TTTTGGTTTAGGGTTT
33538647 CAGATTTTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 1 0.03
29 37 0.93
30 2 0.05
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (28 bp):
TTTTGGTTTAGGGTTTTAAATGTAAGGG
Found at i:33538656 original size:29 final size:28
Alignment explanation
Indices: 33538599--33538653 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
33538589 TAAAATGTAA
* *
33538599 GGGTTTTGGTTTAGGGTTGTTAAATTTGG
1 GGGTTTTGGTTTAAGGTT-TCAAATTTGG
*
33538628 GGGTTTTGGTTTAAGGTTTCAGATTT
1 GGGTTTTGGTTTAAGGTTTCAAATTT
33538654 TGGAGATTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.15, C:0.02, G:0.35, T:0.49
Consensus pattern (28 bp):
GGGTTTTGGTTTAAGGTTTCAAATTTGG
Found at i:33540374 original size:29 final size:28
Alignment explanation
Indices: 33540341--33540414 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 28
33540331 GTTATTTCAA
33540341 TTTTGGTTTAGGGTTTTAAAATTTAAGGG
1 TTTTGGTTTAGGGTTTT-AAATTTAAGGG
**
33540370 TTTTGGTTTAGGGTTGTTAAATTTGGGGG
1 TTTTGGTTTAGGGTT-TTAAATTTAAGGG
*
33540399 TTTTGGTTTAAGGTTT
1 TTTTGGTTTAGGGTTT
33540415 CAGATTTTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
28 1 0.02
29 38 0.93
30 2 0.05
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (28 bp):
TTTTGGTTTAGGGTTTTAAATTTAAGGG
Found at i:33542236 original size:21 final size:21
Alignment explanation
Indices: 33542212--33542280 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
33542202 TTTGAGCTCT
*
33542212 TGTTTAACCTTTACGGGTTTC
1 TGTTTAACCTTTATGGGTTTC
* * *
33542233 TG-TTCAGCTCTTATGAGTTTC
1 TGTTTAACCT-TTATGGGTTTC
** *
33542254 CATTTAACCCTTATGGGTTTC
1 TGTTTAACCTTTATGGGTTTC
33542275 TGTTTA
1 TGTTTA
33542281 GCACTTATGT
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
20 5 0.15
21 25 0.74
22 4 0.12
ACGTcount: A:0.16, C:0.19, G:0.17, T:0.48
Consensus pattern (21 bp):
TGTTTAACCTTTATGGGTTTC
Found at i:33542287 original size:21 final size:21
Alignment explanation
Indices: 33542226--33542299 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
33542216 TAACCTTTAC
* *
33542226 GGGTTTCTGTTCAGCTCTTAT
1 GGGTTTCTGTTTAGCACTTAT
* ** * *
33542247 GAGTTTCCATTTAACCCTTAT
1 GGGTTTCTGTTTAGCACTTAT
33542268 GGGTTTCTGTTTAGCACTTAT
1 GGGTTTCTGTTTAGCACTTAT
* *
33542289 GTGCTTCTGTT
1 GGGTTTCTGTT
33542300 CAGCCTTCGG
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.14, C:0.19, G:0.20, T:0.47
Consensus pattern (21 bp):
GGGTTTCTGTTTAGCACTTAT
Found at i:33544710 original size:73 final size:72
Alignment explanation
Indices: 33544574--33544746 Score: 265
Period size: 73 Copynumber: 2.4 Consensus size: 72
33544564 AAAAATAATC
* *
33544574 ATTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGTCGTTTCCCGAGCTT
1 ATTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAAGCCCAACGACGACGTTTCCCGAGCTT
33544639 TCGGGGA
66 TCGGGGA
* ***
33544646 ATTAGCGGCGTTTCTGAGAAAGCGCCGCACAAAAACATAAGCCCAACGACGACGTTTTGTGAGCT
1 ATTAGCGGCGTTTTTGAGAAAGCGCCGCA-AAAAACATAAGCCCAACGACGACGTTTCCCGAGCT
33544711 TTCGGGGA
65 TTCGGGGA
* *
33544719 TTTAGCGGCGTTTTTAAGAAAGCGCCGC
1 ATTAGCGGCGTTTTTGAGAAAGCGCCGC
33544747 TAATGCTCAG
Statistics
Matches: 91, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 28 0.31
73 63 0.69
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (72 bp):
ATTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAAGCCCAACGACGACGTTTCCCGAGCTT
TCGGGGA
Found at i:33544801 original size:114 final size:113
Alignment explanation
Indices: 33544647--33545182 Score: 763
Period size: 114 Copynumber: 4.7 Consensus size: 113
33544637 TTTCGGGGAA
* * * * *
33544647 TTAGCGGCGTTTCTGAGAAAGCGCCGCACAAAAACATAAGCCCAACGACGACGTTTTGTGAGCTT
1 TTAGCGGCGTTTTTGA-AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
* *
33544712 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGCCT
65 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAATGCTCAGGGCT
* * * * *
33544761 TTAGTGGCGCTTTCTCAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTT
1 TTAGCGGCG-TTTTTGAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
* **
33544826 TCAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAATGCTTTGGGCT
65 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAATGCTCAGGGCT
*
33544875 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTT-GAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
* **
33544940 TCGGGTATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAATGCTTTGGGCT
65 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAATGCTCAGGGCT
*
33544989 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTT-GAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
* * *
33545054 TCGGGTATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCAGGGCT
65 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAATGCTCAGGGCT
* *
33545103 TTAGCGACGTTTTTGAGAAAGCGCCGCAAAAATTA--TAAGCCCAACGACG-CAGTTTTCTGAGC
1 TTAGCGGCGTTTTTGA-AAAGCGCCGCAAAAA-AACCTAAGCCCAACGACGTC-GTTTTCTGAGC
33545165 TTTCGGGGATTTAGCGGC
63 TTTCGGGGATTTAGCGGC
33545183 CAAAAATGCT
Statistics
Matches: 391, Mismatches: 26, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
112 1 0.00
113 47 0.12
114 336 0.86
115 7 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (113 bp):
TTAGCGGCGTTTTTGAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTT
CGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAATGCTCAGGGCT
Found at i:33545553 original size:15 final size:14
Alignment explanation
Indices: 33545530--33545588 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 14
33545520 GATTTAAGGT
*
33545530 TTAGGGGTTAGAGGG
1 TTAGAGGTTAG-GGG
33545545 TTAGAGGTTTAGGGG
1 TTAGAGG-TTAGGGG
33545560 TTAGACGTGTTAGGGG
1 TTAGA-G-GTTAGGGG
* *
33545576 TTAAAAGTTAGGG
1 TTAGAGGTTAGGG
33545589 ATTCAGGGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
14 7 0.18
15 14 0.37
16 16 0.42
17 1 0.03
ACGTcount: A:0.24, C:0.02, G:0.44, T:0.31
Consensus pattern (14 bp):
TTAGAGGTTAGGGG
Found at i:33545556 original size:16 final size:16
Alignment explanation
Indices: 33545536--33545578 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
33545526 AGGTTTAGGG
*
33545536 GTTAGAGGGTTAGAGGT
1 GTTAG-GGGTTAGACGT
33545553 -TTAGGGGTTAGACGT
1 GTTAGGGGTTAGACGT
33545568 GTTAGGGGTTA
1 GTTAGGGGTTA
33545579 AAAGTTAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.21, C:0.02, G:0.44, T:0.33
Consensus pattern (16 bp):
GTTAGGGGTTAGACGT
Found at i:33549642 original size:43 final size:42
Alignment explanation
Indices: 33549569--33549753 Score: 237
Period size: 43 Copynumber: 4.3 Consensus size: 42
33549559 AGAACGTACT
* * * *
33549569 TTTAGCGGCGTTTGT-GATAAAAGTGCCGCTAAAGGTCATATTC
1 TTTAGCGGCGTTTGTGGGT-AAAGCG-CGCTAAAGATCATGTTC
* ** *
33549612 TTTAGCGGCATTTGCAGGTAAAGCGTCGCTAAAGTTCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCG-CGCTAAAGATCATGTTC
*
33549655 TTTAGCGACGTTTGTGGGTAAAGCGCTGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCGC-GCTAAAGATCATGTTC
33549698 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCG-CGCTAAAGATCATGTTC
33549741 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
33549754 TTCACATAAA
Statistics
Matches: 126, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.01
43 122 0.97
44 3 0.02
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGGTAAAGCGCGCTAAAGATCATGTTC
Found at i:33549769 original size:43 final size:43
Alignment explanation
Indices: 33549545--33549753 Score: 228
Period size: 43 Copynumber: 4.9 Consensus size: 43
33549535 GCGTTTTTTT
* *
33549545 ATAAA-CGCCGCTAAAGA--ACGTACTTTTAGCGGCGTTTGT-G
1 ATAAAGCGCCGCTAAAGATCATGTTC-TTTAGCGGCGTTTGTAG
* * * * *
33549585 ATAAAAGTGCCGCTAAAGGTCATATTCTTTAGCGGCATTTGCAG
1 AT-AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTAG
* * * * *
33549629 GTAAAGCGTCGCTAAAGTTCATGTTCTTTAGCGACGTTTGTGG
1 ATAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTAG
* * *
33549672 GTAAAGCGCTGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGG
1 ATAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTAG
*
33549715 GTAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
1 ATAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
33549754 TTCACATAAA
Statistics
Matches: 143, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
40 2 0.01
41 3 0.02
42 10 0.07
43 123 0.86
44 5 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
ATAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTAG
Found at i:33549877 original size:22 final size:22
Alignment explanation
Indices: 33549846--33549888 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
33549836 TAACGGCGCT
* *
33549846 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAACGCCGCTAAAAGCCTA
33549868 AAAAAACGCCGCTAAAAGCCT
1 AAAAAACGCCGCTAAAAGCCT
33549889 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.28, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAGCCTA
Found at i:33550363 original size:4 final size:4
Alignment explanation
Indices: 33550354--33550390 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
33550344 AAAGACACGC
33550354 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
33550391 CTCGATTCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:33557209 original size:21 final size:21
Alignment explanation
Indices: 33557185--33557227 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
33557175 AAAAACCTTA
33557185 CACC-ATCAAATCCTAGTCTTT
1 CACCTATCAAATCCTAG-CTTT
*
33557206 CACCTATCACATCCTAGCTTT
1 CACCTATCAAATCCTAGCTTT
33557227 C
1 C
33557228 TTTTCACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.26, C:0.37, G:0.05, T:0.33
Consensus pattern (21 bp):
CACCTATCAAATCCTAGCTTT
Found at i:33561697 original size:22 final size:22
Alignment explanation
Indices: 33561667--33561715 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
33561657 AGGGTGAAAA
33561667 GAAA-GCTAGGATGTGATAGGT
1 GAAAGGCTAGGATGTGATAGGT
* *
33561688 GAAAGGCTAGGATTTGATGGGT
1 GAAAGGCTAGGATGTGATAGGT
*
33561710 GTAAGG
1 GAAAGG
33561716 GTTTTTGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.31, C:0.04, G:0.41, T:0.24
Consensus pattern (22 bp):
GAAAGGCTAGGATGTGATAGGT
Found at i:33562062 original size:24 final size:22
Alignment explanation
Indices: 33562008--33562064 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
33561998 TGCAAAATAG
33562008 AAATAAAACAAAAATTAAATAAA
1 AAATAAAA-AAAAATTAAATAAA
* *
33562031 ATAGTAAAAAATAATTATAATAGAA
1 A-AATAAAAAAAAATTA-AATA-AA
33562056 AAATAAAAA
1 AAATAAAAA
33562065 TGTTCTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 8 0.29
24 17 0.61
25 3 0.11
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (22 bp):
AAATAAAAAAAAATTAAATAAA
Found at i:33564677 original size:23 final size:24
Alignment explanation
Indices: 33564659--33564705 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
33564649 TCTTAATTAT
*
33564659 CAAATCAAATT-AAAATTAAAAAA
1 CAAATCAAATTAAAAATTAATAAA
*
33564682 CAAATTAAATTAAAAATTAATAAA
1 CAAATCAAATTAAAAATTAATAAA
33564706 AATTTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (24 bp):
CAAATCAAATTAAAAATTAATAAA
Found at i:33564693 original size:17 final size:18
Alignment explanation
Indices: 33564664--33564697 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
33564654 ATTATCAAAT
33564664 CAAATTAAAATTAAAAAA
1 CAAATTAAAATTAAAAAA
33564682 CAAATT-AAATTAAAAA
1 CAAATTAAAATTAAAAA
33564698 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (18 bp):
CAAATTAAAATTAAAAAA
Found at i:33564716 original size:24 final size:23
Alignment explanation
Indices: 33564659--33564706 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
33564649 TCTTAATTAT
*
33564659 CAAATCAAATTAAAATTAAAAAA
1 CAAATTAAATTAAAATTAAAAAA
33564682 CAAATTAAATTAAAAATTAATAAAA
1 CAAATTAAATT-AAAATTAA-AAAA
33564707 ATTTGAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.45
24 8 0.36
25 4 0.18
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (23 bp):
CAAATTAAATTAAAATTAAAAAA
Found at i:33567709 original size:23 final size:22
Alignment explanation
Indices: 33567683--33567737 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
33567673 AGAGTAAGCA
33567683 GTTTGGGATGTCAAGACACCAAG
1 GTTTGGG-TGTCAAGACACCAAG
***
33567706 GTTTGGGTGTTGCGACACCAAG
1 GTTTGGGTGTCAAGACACCAAG
*
33567728 GTTTAGGTGT
1 GTTTGGGTGT
33567738 TGTAACACCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 21 0.75
23 7 0.25
ACGTcount: A:0.22, C:0.15, G:0.35, T:0.29
Consensus pattern (22 bp):
GTTTGGGTGTCAAGACACCAAG
Found at i:33567725 original size:22 final size:22
Alignment explanation
Indices: 33567697--33567739 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
33567687 GGGATGTCAA
*
33567697 GACACCAAGGTTTGGGTGTTGC
1 GACACCAAGGTTTAGGTGTTGC
33567719 GACACCAAGGTTTAGGTGTTG
1 GACACCAAGGTTTAGGTGTTG
33567740 TAACACCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.16, G:0.35, T:0.28
Consensus pattern (22 bp):
GACACCAAGGTTTAGGTGTTGC
Found at i:33567745 original size:22 final size:22
Alignment explanation
Indices: 33567698--33567746 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
33567688 GGATGTCAAG
* *
33567698 ACACCAAGGTTTGGGTGTTGCG
1 ACACCAAGGTTTAGGTGTTGCA
*
33567720 ACACCAAGGTTTAGGTGTTGTA
1 ACACCAAGGTTTAGGTGTTGCA
33567742 ACACC
1 ACACC
33567747 GAAGCTGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (22 bp):
ACACCAAGGTTTAGGTGTTGCA
Found at i:33571513 original size:28 final size:28
Alignment explanation
Indices: 33571432--33571535 Score: 113
Period size: 28 Copynumber: 3.7 Consensus size: 28
33571422 GGTGCACTGG
* *
33571432 AGTGCATTATTAGAATAGAACAACACCA-
1 AGTGC-TTATCAGAACAGAACAACACCAT
*
33571460 ATGTGCTTAATCAGAACAGAAAAACACCAT
1 A-GTGCTT-ATCAGAACAGAACAACACCAT
*
33571490 AGTGCTTATCAGAACAGAACAACACCGT
1 AGTGCTTATCAGAACAGAACAACACCAT
* *
33571518 AGTGC-AATCAAAACAGAA
1 AGTGCTTATCAGAACAGAA
33571536 AGTGCACTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
27 11 0.17
28 27 0.41
29 27 0.41
30 1 0.02
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.18
Consensus pattern (28 bp):
AGTGCTTATCAGAACAGAACAACACCAT
Found at i:33574387 original size:14 final size:14
Alignment explanation
Indices: 33574347--33574388 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 14
33574337 GGTAAACCGA
*
33574347 AATTTTCCCAGCCC
1 AATTTACCCAGCCC
33574361 AATTTAAACCCAGCCC
1 AATTT--ACCCAGCCC
33574377 AATTTACCCAGC
1 AATTTACCCAGC
33574389 ACCGAATAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 12 0.48
16 13 0.52
ACGTcount: A:0.31, C:0.38, G:0.07, T:0.24
Consensus pattern (14 bp):
AATTTACCCAGCCC
Found at i:33574429 original size:26 final size:27
Alignment explanation
Indices: 33574367--33574429 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
33574357 GCCCAATTTA
*
33574367 AACCCAGCCCAATTTACCCAGCACCGAAT
1 AACCCAGCCCAATTTA--CAACACCGAAT
**
33574396 AAGACAGCCCAATTTA-AACACCGAAT
1 AACCCAGCCCAATTTACAACACCGAAT
33574422 AACCCAGC
1 AACCCAGC
33574430 ACCGAAATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 15 0.52
29 14 0.48
ACGTcount: A:0.40, C:0.37, G:0.11, T:0.13
Consensus pattern (27 bp):
AACCCAGCCCAATTTACAACACCGAAT
Found at i:33578958 original size:17 final size:17
Alignment explanation
Indices: 33578936--33579033 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
33578926 AATTCAAGAC
33578936 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* * ***
33578953 TTATGTAGTGACTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
33578972 CTTATGTAATATTTTTAA
1 -TTATGTAATGTTTTTAA
* **
33578990 TTATGTAGTGATTTAAAGA
1 TTATGTAATG-TTTTTA-A
*
33579009 TTTATGTAATGCTTTTAA
1 -TTATGTAATGTTTTTAA
33579027 TTATGTA
1 TTATGTA
33579034 GTGATTTAAT
Statistics
Matches: 56, Mismatches: 19, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
17 24 0.43
18 8 0.14
19 7 0.12
20 17 0.30
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:33579015 original size:20 final size:18
Alignment explanation
Indices: 33578951--33579042 Score: 62
Period size: 17 Copynumber: 5.0 Consensus size: 18
33578941 TAATGTTTTT
* *
33578951 AATTATGTAGTGACTCAA
1 AATTATGTAGTGATTTAA
* **
33578969 AGACTTATGTAAT-ATTTTT
1 A-A-TTATGTAGTGATTTAA
33578988 AATTATGTAGTGATTTAA
1 AATTATGTAGTGATTTAA
* * *
33579006 AGATTTATGTAATGCTTT-T
1 A-A-TTATGTAGTGATTTAA
33579025 AATTATGTAGTGATTTAA
1 AATTATGTAGTGATTTAA
33579043 TTCGGGTAAT
Statistics
Matches: 54, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
17 20 0.37
18 8 0.15
19 6 0.11
20 20 0.37
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (18 bp):
AATTATGTAGTGATTTAA
Found at i:33579038 original size:37 final size:37
Alignment explanation
Indices: 33578931--33579042 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
33578921 GTGTTAATTC
* *
33578931 AAGACTTATGTAATGTTTTTAATTATGTAGTGACTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
*
33578968 AAGACTTATGTAATATTTTTAATTATGTAGTGATTTA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
* *
33579005 AAGATTTATGTAATGCTTTTAATTATGTAGTGATTTA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
33579042 A
1 A
33579043 TTCGGGTAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.46
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
Found at i:33579630 original size:121 final size:122
Alignment explanation
Indices: 33579480--33579725 Score: 277
Period size: 127 Copynumber: 2.0 Consensus size: 122
33579470 TAGCTATTTG
* * *
33579480 ATTTATATAAAAAAACTTTCAATGGTTC-A-ATTAATATATACAATATTTTAAATTAATATGATA
1 ATTTACATAAAAAAACTTTCAATGATTCAATATTAATATATACAATATTTTAAATTAATATAATA
** *
33579543 -AATATATCAGGTCAGA-TCGAAATTTTACATGTATGATAAGTACAATTATATTGATAA
66 GAAT-TATCAGAAC-GATTCAAAATTTTACATGTATGATAAGTACAATTATATTGATAA
* * *
33579600 ATTTACATATAAAAAACTTTTAACT-ATTCAATAAATATTAATATATTCAATATTTTAAATTGAT
1 ATTTACATA-AAAAAACTTTCAA-TGATTC----AATATTAATATATACAATATTTTAAATTAAT
* * *
33579664 ATAATAGAGTTATCAGAACGATTTAAAATTTTACATGTATGATAAGTAGAATTATATTGATA
60 ATAATAGAATTATCAGAACGATTCAAAATTTTACATGTATGATAAGTACAATTATATTGATA
33579726 GGTTCAATAG
Statistics
Matches: 104, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
120 8 0.08
121 15 0.14
122 1 0.01
126 3 0.03
127 75 0.72
128 2 0.02
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (122 bp):
ATTTACATAAAAAAACTTTCAATGATTCAATATTAATATATACAATATTTTAAATTAATATAATA
GAATTATCAGAACGATTCAAAATTTTACATGTATGATAAGTACAATTATATTGATAA
Found at i:33580205 original size:30 final size:31
Alignment explanation
Indices: 33580171--33580230 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
33580161 AAACTTTTTA
*
33580171 TTTTTCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
*
33580201 TTTTTCCCTAAAACTTTTACTCCCTTCCCA
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCA
33580231 TCCCACCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:33580648 original size:76 final size:76
Alignment explanation
Indices: 33580558--33580710 Score: 254
Period size: 77 Copynumber: 2.0 Consensus size: 76
33580548 AAATAACTTT
* * *
33580558 TATTAAAAAAATCATATTTTTACATTTAATATA-TTTTTAATTCCAAAATACATAGTGATAAGAA
1 TATTAAAAAAATCATATTATTACATTTAATATATTTTTTAATTCAAAAATACATAGTGACAAGAA
33580622 TCTAAAGATAA
66 TCTAAAGATAA
33580633 TATTAAAAAAAATCATATTATTACATTTAATATATTTTTTAATTCAAAAATACATAGTGACAAGA
1 TATT-AAAAAAATCATATTATTACATTTAATATATTTTTTAATTCAAAAATACATAGTGACAAGA
*
33580698 ATCTGAAGATAA
65 ATCTAAAGATAA
33580710 T
1 T
33580711 TAAAACAACT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
75 4 0.06
76 28 0.39
77 40 0.56
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (76 bp):
TATTAAAAAAATCATATTATTACATTTAATATATTTTTTAATTCAAAAATACATAGTGACAAGAA
TCTAAAGATAA
Found at i:33581226 original size:74 final size:74
Alignment explanation
Indices: 33581141--33581288 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
33581131 ATAATTTTCA
33581141 TATTTTTTTTAGGGAATAAATTTCATATAGTCAACTTGCAAAATTATATGTTGCCAGAGGTCAAG
1 TATTTTTTTTAGGGAATAAATTTCATATAGTCAACTTGCAAAATTATATGTTGCCAGAGGTCAAG
33581206 ATTCTAGAC
66 ATTCTAGAC
*
33581215 TATTTTTTTTAGGGAATAAATTTCATATAGTCAACTTGCAAAATTATATGTTGCCAGATGTCAAG
1 TATTTTTTTTAGGGAATAAATTTCATATAGTCAACTTGCAAAATTATATGTTGCCAGAGGTCAAG
33581280 ATTCTAGAC
66 ATTCTAGAC
33581289 CCTTCATATA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.39
Consensus pattern (74 bp):
TATTTTTTTTAGGGAATAAATTTCATATAGTCAACTTGCAAAATTATATGTTGCCAGAGGTCAAG
ATTCTAGAC
Found at i:33584364 original size:46 final size:45
Alignment explanation
Indices: 33584310--33584405 Score: 138
Period size: 46 Copynumber: 2.1 Consensus size: 45
33584300 TCATGAATGA
* * * *
33584310 TATTATGTATTTAATATATTGTTGAAAAATGGAGTGTTGTTAAAT
1 TATTATGTATTTAACATATTGTTGAAAAATGAAATGTAGTTAAAT
*
33584355 TGATTATGTATTTAGCATATTGTTGAAAAATGAAATGTAGTTAAAT
1 T-ATTATGTATTTAACATATTGTTGAAAAATGAAATGTAGTTAAAT
33584401 TATTA
1 TATTA
33584406 ATTGAAATGA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
45 5 0.11
46 40 0.89
ACGTcount: A:0.38, C:0.01, G:0.17, T:0.45
Consensus pattern (45 bp):
TATTATGTATTTAACATATTGTTGAAAAATGAAATGTAGTTAAAT
Found at i:33585359 original size:21 final size:21
Alignment explanation
Indices: 33585320--33585361 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33585310 TTTTCCTAGG
*
33585320 ATGTGAATTGGATGGAATTGA
1 ATGTGAATTGGATGAAATTGA
* *
33585341 ATGTGAATTGTATTAAATTGA
1 ATGTGAATTGGATGAAATTGA
33585362 TTTAAAGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (21 bp):
ATGTGAATTGGATGAAATTGA
Found at i:33585855 original size:64 final size:64
Alignment explanation
Indices: 33585737--33585864 Score: 139
Period size: 64 Copynumber: 2.0 Consensus size: 64
33585727 GCGAGCATCC
* * ** * * * * * * *
33585737 TGATCGGTATTGATCCTGCATGTGTTGCGGATAAATCGCAGCTCTTTGTAAGCGTTCTGTTATA
1 TGATCGGTATAGATCCTGCATATAATGCAGACAAACCGCAACTCTTTATAAGCGTCCTGATATA
* *
33585801 TGATCGGTATAGATCCTGCATATAATGCAGACATACCGCAACTCTTTATGAGCGTCCTGATATA
1 TGATCGGTATAGATCCTGCATATAATGCAGACAAACCGCAACTCTTTATAAGCGTCCTGATATA
33585865 GGCTTTTTTT
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (64 bp):
TGATCGGTATAGATCCTGCATATAATGCAGACAAACCGCAACTCTTTATAAGCGTCCTGATATA
Found at i:33587796 original size:42 final size:41
Alignment explanation
Indices: 33587725--33587839 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 41
33587715 TGTTAACTCA
* * *
33587725 TATGAGTTTCCGTTTAACCCTAATAGGTTTCCATTCAGCTCT
1 TATGAGCTT-CGTTTAACCCTTATAGGTTTCCATTCAGCTCC
* * * * *
33587767 TTTGAGCTTCAGTTTAACCCTTATGGGTTTTCGTTTAGCTCC
1 TATGAGCTTC-GTTTAACCCTTATAGGTTTCCATTCAGCTCC
* *
33587809 TATGAGCTTTCGTTCAACCCTTAAAGGTTTC
1 TATGAGC-TTCGTTTAACCCTTATAGGTTTC
33587840 TGTTTAGCAC
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
41 1 0.02
42 54 0.93
43 3 0.05
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.42
Consensus pattern (41 bp):
TATGAGCTTCGTTTAACCCTTATAGGTTTCCATTCAGCTCC
Found at i:33590641 original size:25 final size:25
Alignment explanation
Indices: 33590596--33590675 Score: 90
Period size: 25 Copynumber: 3.1 Consensus size: 25
33590586 TTCTTCTTTC
* * *
33590596 TTTCTTTCTCTCTTTTTTATTTTAT
1 TTTCTTTCTCTCCTTTCTATTTCAT
*
33590621 TTTCTTTCTTTCCTTTCTATTTCAT
1 TTTCTTTCTCTCCTTTCTATTTCAT
33590646 TTTGCTTTCTCT-CTTTCTTTATTTCAT
1 TTT-CTTTCTCTCCTTTC--TATTTCAT
33590673 TTT
1 TTT
33590676 GTTTTATTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
25 29 0.62
26 7 0.15
27 11 0.23
ACGTcount: A:0.07, C:0.20, G:0.01, T:0.71
Consensus pattern (25 bp):
TTTCTTTCTCTCCTTTCTATTTCAT
Found at i:33590726 original size:26 final size:25
Alignment explanation
Indices: 33590679--33590727 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
33590669 TCATTTTGTT
* *
33590679 TTATTATATTTACTTTATTATTATA
1 TTATTATATTTACTTAAATATTATA
33590704 TTATATATATTTACTTAAATATTA
1 TTAT-TATATTTACTTAAATATTA
33590728 AGTAAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
TTATTATATTTACTTAAATATTATA
Found at i:33594990 original size:4 final size:4
Alignment explanation
Indices: 33594967--33595052 Score: 75
Period size: 4 Copynumber: 20.8 Consensus size: 4
33594957 TTATTATTAT
* * **
33594967 TTTA CTTTA TGTTCA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TATG TCCA
1 TTTA -TTTA T-TT-A TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
33595018 TTTT TTTA TGT- TTTA GTTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTT
33595053 GTTATTGTAT
Statistics
Matches: 66, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
3 2 0.03
4 50 0.76
5 12 0.18
6 2 0.03
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:33595003 original size:36 final size:37
Alignment explanation
Indices: 33594963--33595040 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 37
33594953 ATTATTATTA
* *
33594963 TTATTTTACTT-TATGTTCATTTATTTATTTATTTA-T
1 TTATTTTACTTATATGTCCATTTATTTATGT-TTTAGT
* *
33594999 TTA-TTTATTTATATGTCCATTTTTTTATGTTTTAGT
1 TTATTTTACTTATATGTCCATTTATTTATGTTTTAGT
33595035 TTATTT
1 TTATTT
33595041 ATTTATTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
35 10 0.29
36 23 0.66
37 2 0.06
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (37 bp):
TTATTTTACTTATATGTCCATTTATTTATGTTTTAGT
Found at i:33595534 original size:107 final size:107
Alignment explanation
Indices: 33595170--33595591 Score: 529
Period size: 108 Copynumber: 4.0 Consensus size: 107
33595160 AAGGAAAATT
* * * *
33595170 TTTCAAAGTAAGGCAATATTTTACGTTTGGAAATTTGAGAAAACGTGTCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAGATTCGAGAAAACGTG-CCTAATGTGCTGGGTTT
* * * *
33595235 CGATTTTTTTCGTTCGACTAAATAGCTAAATATCCTTTTAAAT
65 CGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
* * * *
33595278 TTTCAAAGTAAGGTAATATTTTGAGTTTGGAGATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAGATTCGAGAAAACGTG-CCTAATGTGCTGGGTTT
* *
33595343 CGATTTTTTTCGTTCGACCAAATAGCTAAATATCCTTTTAAAA
65 CGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
* *
33595386 TTTC---A-AAGGTAATATTTTGCGTTTGGAGATTCGAGGAAACGTGCCATAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAGATTCGAGAAAACGTGCC-TAATGTGCTGGGTTT
* *
33595447 CGA-TTTTCTCGCTCGA-CAAATAGCCGAATATCCTTTTAAAAA
65 CGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTT-AAAA
* * *
33595489 TTTCAAAATAAGGCAATGTTTTGCGTTTGGTA-ATTCGAGGAAACGTGCTCTAATGTACTGGGTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGG-AGATTCGAGAAAACGTGC-CTAATGTGCTGGGTT
*
33595553 TCGA--TTTCTCGTTGGACCAAATAGCCAAATATCCTTTTA
64 TCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTA
33595592 TATCTTAATC
Statistics
Matches: 284, Mismatches: 21, Indels: 20
0.87 0.06 0.06
Matches are distributed among these distances:
102 19 0.07
103 21 0.07
104 53 0.19
106 12 0.04
107 72 0.25
108 107 0.38
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (107 bp):
TTTCAAAATAAGGCAATATTTTGCGTTTGGAGATTCGAGAAAACGTGCCTAATGTGCTGGGTTTC
GATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
Found at i:33596091 original size:18 final size:18
Alignment explanation
Indices: 33596068--33596106 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
33596058 AGTGGATCCA
33596068 CAATTATGGAGTTTGTCC
1 CAATTATGGAGTTTGTCC
33596086 CAATTATGGAGTTTGTCC
1 CAATTATGGAGTTTGTCC
33596104 CAA
1 CAA
33596107 ATGCATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (18 bp):
CAATTATGGAGTTTGTCC
Found at i:33602625 original size:66 final size:66
Alignment explanation
Indices: 33602543--33602676 Score: 250
Period size: 66 Copynumber: 2.0 Consensus size: 66
33602533 ACCAAAATAG
* *
33602543 AATAAAAGGCATAGTCGGATGTACCCGTAAAGAAAACAATTTTCAGGATGATAGAAGTGATTATT
1 AATAAAAGGCATAGTCGGATGTACCCATAAAGAAAACAATTTTCAGCATGATAGAAGTGATTATT
33602608 T
66 T
33602609 AATAAAAGGCATAGTCGGATGTACCCATAAAGAAAACAATTTTCAGCATGATAGAAGTGATTATT
1 AATAAAAGGCATAGTCGGATGTACCCATAAAGAAAACAATTTTCAGCATGATAGAAGTGATTATT
33602674 T
66 T
33602675 AA
1 AA
33602677 GAGAAAGACT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.27
Consensus pattern (66 bp):
AATAAAAGGCATAGTCGGATGTACCCATAAAGAAAACAATTTTCAGCATGATAGAAGTGATTATT
T
Found at i:33603338 original size:80 final size:80
Alignment explanation
Indices: 33603245--33603411 Score: 309
Period size: 80 Copynumber: 2.1 Consensus size: 80
33603235 CATAAAATTA
*
33603245 TAATAATTCTTGTCTTTTTCTACAATTTATATACTAATAAGTAAATATATGATGTTTAAAATGAA
1 TAATAATTCTTGTCTTTTTCTACAATTTATACACTAATAAGTAAATATATGATGTTTAAAATGAA
*
33603310 TTTATGAATTATAAT
66 TTTATAAATTATAAT
33603325 TAATAATTCTTGTCTTTTTCTACAATTTATACACTAATAAGTAAATATATGATGTTTAAAATGAA
1 TAATAATTCTTGTCTTTTTCTACAATTTATACACTAATAAGTAAATATATGATGTTTAAAATGAA
33603390 TTTATAAATTATAAT
66 TTTATAAATTATAAT
33603405 T-ATAATT
1 TAATAATT
33603412 ATAATTGTAA
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
79 6 0.07
80 79 0.93
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (80 bp):
TAATAATTCTTGTCTTTTTCTACAATTTATACACTAATAAGTAAATATATGATGTTTAAAATGAA
TTTATAAATTATAAT
Found at i:33603392 original size:40 final size:39
Alignment explanation
Indices: 33603268--33603396 Score: 102
Period size: 40 Copynumber: 3.2 Consensus size: 39
33603258 CTTTTTCTAC
33603268 AATTTATATACTAATAAGTAAATATATGATGTTTAAAATG
1 AATTTATA-ACTAATAAGTAAATATATGATGTTTAAAATG
* * ** **** *
33603308 AATTTATGAA-TTATAA-TTAATA-ATTCTTGTCTTTTTCTAC
1 AATTTAT-AACTAATAAGTAAATATA-TGATGT-TTAAAAT-G
33603348 AATTTATACACTAATAAGTAAATATATGATGTTTAAAATG
1 AATTTATA-ACTAATAAGTAAATATATGATGTTTAAAATG
33603388 AATTTATAA
1 AATTTATAA
33603397 ATTATAATTA
Statistics
Matches: 63, Mismatches: 18, Indels: 17
0.64 0.18 0.17
Matches are distributed among these distances:
37 1 0.02
38 9 0.14
39 10 0.16
40 24 0.38
41 9 0.14
42 9 0.14
43 1 0.02
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.43
Consensus pattern (39 bp):
AATTTATAACTAATAAGTAAATATATGATGTTTAAAATG
Found at i:33608032 original size:31 final size:31
Alignment explanation
Indices: 33607996--33608057 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
33607986 AGATAATTTT
33607996 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
33608027 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
33608058 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:33615946 original size:5 final size:5
Alignment explanation
Indices: 33615936--33616093 Score: 309
Period size: 5 Copynumber: 31.8 Consensus size: 5
33615926 NNNNNNNNNT
33615936 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
33615986 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
33616036 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
33616086 TAT-A TATA
1 TATAA TATA
33616094 CTTAAATCTT
Statistics
Matches: 152, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
4 4 0.03
5 148 0.97
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:33625461 original size:21 final size:21
Alignment explanation
Indices: 33625422--33625461 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33625412 TGTCCAAAGA
*
33625422 TTTAAAAAAATATTATTAATT
1 TTTAAAAAAAAATTATTAATT
33625443 TTTAAAATAAAAATT-TTAA
1 TTTAAAA-AAAAATTATTAA
33625462 ATTATAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTAAAAAAAAATTATTAATT
Found at i:33640053 original size:19 final size:20
Alignment explanation
Indices: 33640007--33640053 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
33639997 TTTATATTAT
* *
33640007 TAAAAAA-TATTAATTACCA
1 TAAAAAATTATCAATTACAA
33640026 TAAAAAATTATCAA-TACAA
1 TAAAAAATTATCAATTACAA
33640045 TAAAAAATT
1 TAAAAAATT
33640054 TCTAAATGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.30
Consensus pattern (20 bp):
TAAAAAATTATCAATTACAA
Found at i:33647057 original size:13 final size:13
Alignment explanation
Indices: 33647039--33647067 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
33647029 AAAATAAAAA
33647039 ATATATTTATTAT
1 ATATATTTATTAT
33647052 ATATATTTATTAT
1 ATATATTTATTAT
33647065 ATA
1 ATA
33647068 AATACTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATATTTATTAT
Found at i:33647428 original size:31 final size:30
Alignment explanation
Indices: 33647347--33647438 Score: 91
Period size: 30 Copynumber: 3.0 Consensus size: 30
33647337 TGGTGGAACG
*
33647347 TGAGGGGTCTAATTAAAATTTTCAAAA-TTT
1 TGAGAGGTCTAATTAAAATTTT-AAAATTTT
*
33647377 TGAGAGGCCTAA-TAAGAATTTTAAAATTTT
1 TGAGAGGTCTAATTAA-AATTTTAAAATTTT
*
33647407 ATGA-AGGATCTAATTATAATTTTTAAAATTTT
1 -TGAGAGG-TCTAATTA-AAATTTTAAAATTTT
33647439 GAAAGAATTG
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
29 7 0.13
30 22 0.42
31 7 0.13
32 15 0.29
33 1 0.02
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.41
Consensus pattern (30 bp):
TGAGAGGTCTAATTAAAATTTTAAAATTTT
Found at i:33647456 original size:61 final size:61
Alignment explanation
Indices: 33647354--33647501 Score: 172
Period size: 61 Copynumber: 2.4 Consensus size: 61
33647344 ACGTGAGGGG
* ** *
33647354 TCTAATTAAAATTTTCAAAATTTTGAGAGGCCTAATAAGAA-TTTTAAAATTTTATGAAGGA
1 TCTAATTAAAATTTTCAAAATTTTGAAAGAACTAATAAGAATTTTTAAAATTTTA-AAAGGA
* * * * *
33647415 TCTAATTATAATTTTTAAAATTTTGAAAGAATTGATGAGAATTTTTAAAATTTTAAAAGGA
1 TCTAATTAAAATTTTCAAAATTTTGAAAGAACTAATAAGAATTTTTAAAATTTTAAAAGGA
* *
33647476 ACTAATTAAAATTTTCAGAACTTTTG
1 TCTAATTAAAATTTTCA-AAATTTTG
33647502 GGGAGCTTAA
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
61 52 0.72
62 20 0.28
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (61 bp):
TCTAATTAAAATTTTCAAAATTTTGAAAGAACTAATAAGAATTTTTAAAATTTTAAAAGGA
Found at i:33650186 original size:18 final size:18
Alignment explanation
Indices: 33650165--33650225 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 18
33650155 TTGAAGGCGA
33650165 GTCTATTTTTTTATTTTT
1 GTCTATTTTTTTATTTTT
* *
33650183 GTCTATTCTTTT-TTGTT
1 GTCTATTTTTTTATTTTT
*
33650200 -T-TATTTTTTTATCTTT
1 GTCTATTTTTTTATTTTT
* *
33650216 ATTTATTTTT
1 GTCTATTTTT
33650226 CCTTTAAAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 8 0.23
16 4 0.11
17 5 0.14
18 18 0.51
ACGTcount: A:0.11, C:0.07, G:0.05, T:0.77
Consensus pattern (18 bp):
GTCTATTTTTTTATTTTT
Found at i:33650841 original size:3 final size:3
Alignment explanation
Indices: 33650835--33650870 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
33650825 TTTGACATTG
33650835 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
33650871 AATATTCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:33650952 original size:50 final size:48
Alignment explanation
Indices: 33650882--33650978 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 48
33650872 ATATTCATAT
*
33650882 GCATGGTTCTTATACAATATATATATGT-ATTTTTATATATAGTATACAC
1 GCATGGTTCTTATACAATATATATAGGTAATTTTT-T-TATAGTATACAC
*
33650931 GCATGGTTTCTTTTA-ATATATATATAGGTACATTTTTTTATAGTATAC
1 GCATGG-TTCTTATACA-ATATATATAGGTA-ATTTTTTTATAGTATAC
33650979 GGATATTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
49 7 0.17
50 28 0.67
51 1 0.02
52 6 0.14
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.47
Consensus pattern (48 bp):
GCATGGTTCTTATACAATATATATAGGTAATTTTTTTATAGTATACAC
Found at i:33651463 original size:13 final size:14
Alignment explanation
Indices: 33651445--33651473 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
33651435 ATTTCAAATT
33651445 TACTTGTATAT-TA
1 TACTTGTATATATA
33651458 TACTTGTATATATA
1 TACTTGTATATATA
33651472 TA
1 TA
33651474 TATATTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (14 bp):
TACTTGTATATATA
Found at i:33651481 original size:17 final size:18
Alignment explanation
Indices: 33651451--33651492 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
33651441 AATTTACTTG
*
33651451 TATAT-TATACTTGTATA
1 TATATATATACTTGTAAA
33651468 TATATATATA-TTGTAAA
1 TATATATATACTTGTAAA
*
33651485 TACATATA
1 TATATATA
33651493 CACATGTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (18 bp):
TATATATATACTTGTAAA
Found at i:33655208 original size:52 final size:52
Alignment explanation
Indices: 33655130--33655238 Score: 182
Period size: 52 Copynumber: 2.1 Consensus size: 52
33655120 AATCTTGCCT
* * *
33655130 CAAGTGTAGGGGGCATAGGTCCAAACTCAACAAGGTTGGGGTGTACCTACAC
1 CAAGTGTAGGGGGCATAGGTCCAAACTCAACAAGGGTGAGGTGTAACTACAC
33655182 CAAGTGTAGGGGGCATAGGTCCAAACTCAACAAGGGTGAGGTGTAACTACAC
1 CAAGTGTAGGGGGCATAGGTCCAAACTCAACAAGGGTGAGGTGTAACTACAC
*
33655234 GAAGT
1 CAAGT
33655239 ATTTGACACT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.18
Consensus pattern (52 bp):
CAAGTGTAGGGGGCATAGGTCCAAACTCAACAAGGGTGAGGTGTAACTACAC
Found at i:33657217 original size:18 final size:19
Alignment explanation
Indices: 33657179--33657223 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
33657169 GTTAAATAAC
* *
33657179 TTTAAATAAATTTTCTTTT
1 TTTAAATAAAATATCTTTT
33657198 TTTAAATAAAATAT-TTTT
1 TTTAAATAAAATATCTTTT
*
33657216 TTGAAATA
1 TTTAAATA
33657224 TTTGAAAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTAAATAAAATATCTTTT
Found at i:33657289 original size:25 final size:27
Alignment explanation
Indices: 33657245--33657300 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 27
33657235 TAATAGTGAT
*
33657245 TTTAAAATTTTTTATATTT-AAATT-A
1 TTTAAAATTTTATATATTTAAAATTAA
33657270 TTTAAAATTCTTATAT-TTTAAAATTAA
1 TTTAAAATT-TTATATATTTAAAATTAA
33657297 TTTA
1 TTTA
33657301 TATTTATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 12 0.44
26 10 0.37
27 5 0.19
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTAAAATTTTATATATTTAAAATTAA
Found at i:33666894 original size:16 final size:16
Alignment explanation
Indices: 33666854--33666888 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
33666844 TTTATGAAAC
*
33666854 AAAACCAAACATAAAA
1 AAAACAAAACATAAAA
33666870 AAAACAAAACA-AAAA
1 AAAACAAAACATAAAA
33666885 AAAA
1 AAAA
33666889 GGAAAAGGAA
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:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (16 bp):
AAAACAAAACATAAAA
Found at i:33667343 original size:19 final size:20
Alignment explanation
Indices: 33667321--33667358 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
33667311 TTTTAAAATA
33667321 ATTTACTTT-TTTT-CTTTTT
1 ATTT-CTTTATTTTCCTTTTT
33667340 ATTTCTTTATTTTCCTTTT
1 ATTTCTTTATTTTCCTTTT
33667359 CTTCTTCGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 8 0.47
20 5 0.29
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (20 bp):
ATTTCTTTATTTTCCTTTTT
Found at i:33674193 original size:16 final size:16
Alignment explanation
Indices: 33674172--33674202 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33674162 CAAGAGCAGA
33674172 GAGGGAGAGAGAGAGG
1 GAGGGAGAGAGAGAGG
*
33674188 GAGGGAGGGAGAGAG
1 GAGGGAGAGAGAGAG
33674203 CATACCGGAA
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:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (16 bp):
GAGGGAGAGAGAGAGG
Found at i:33684422 original size:17 final size:18
Alignment explanation
Indices: 33684396--33684432 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
33684386 TTAATATTTC
33684396 TTTTACATTTTTAATAAT
1 TTTTACATTTTTAATAAT
*
33684414 TTTTA-ATTTTTTATAAT
1 TTTTACATTTTTAATAAT
33684431 TT
1 TT
33684433 AAAAATATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTACATTTTTAATAAT
Found at i:33685839 original size:14 final size:15
Alignment explanation
Indices: 33685802--33685843 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
33685792 TAAATAACTC
33685802 TTATATAATATTTTG
1 TTATATAATATTTTG
33685817 TTGA-A-AATATTTT-
1 TT-ATATAATATTTTG
33685830 TTATATAATATTTT
1 TTATATAATATTTT
33685844 AAATATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 3 0.12
14 16 0.67
15 3 0.12
16 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (15 bp):
TTATATAATATTTTG
Found at i:33687495 original size:31 final size:33
Alignment explanation
Indices: 33687442--33687531 Score: 93
Period size: 32 Copynumber: 2.8 Consensus size: 33
33687432 CATGTACATA
*
33687442 TATAAAAAAATAATTATATACATATATATAGAT
1 TATAAAAAAATAATAATATACATATATATAGAT
*
33687475 TATAAAAAAA-GATAAT-TACATATATAT--A-
1 TATAAAAAAATAATAATATACATATATATAGAT
33687503 TA-AAAACAAATAATAATAATTACATATAT
1 TATAAAA-AAATAATAAT-A-TACATATAT
33687532 TGAAATTAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
27 4 0.08
28 5 0.10
29 6 0.12
31 11 0.22
32 13 0.27
33 10 0.20
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (33 bp):
TATAAAAAAATAATAATATACATATATATAGAT
Found at i:33687505 original size:16 final size:17
Alignment explanation
Indices: 33687486--33687531 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
33687476 ATAAAAAAAG
33687486 ATAATTACATATATAT-
1 ATAATTACATATATATA
** *
33687502 ATAAAAACAAATA-ATA
1 ATAATTACATATATATA
33687518 ATAATTACATATAT
1 ATAATTACATATAT
33687532 TGAAATTAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 3
0.71 0.19 0.10
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATTACATATATATA
Found at i:33687772 original size:3 final size:3
Alignment explanation
Indices: 33687764--33687804 Score: 57
Period size: 3 Copynumber: 13.3 Consensus size: 3
33687754 ATGTAGGTAC
33687764 AAT AAT AAT AAT ATAT AAT -AT AAT AAT AAT AAT AATT AAT A
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T AAT A
33687805 CAATAAGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.06
3 27 0.77
4 6 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:33687790 original size:21 final size:21
Alignment explanation
Indices: 33687761--33687810 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
33687751 TATATGTAGG
33687761 TACAATAATAATAAT-ATATAA
1 TACAATAATAATAATAAT-TAA
*
33687782 TATAATAATAATAATAATTAA
1 TACAATAATAATAATAATTAA
33687803 TACAATAA
1 TACAATAA
33687811 GAATGTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (21 bp):
TACAATAATAATAATAATTAA
Found at i:33689304 original size:44 final size:44
Alignment explanation
Indices: 33689197--33689308 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
33689187 CGGCTTTAAT
* * * *
33689197 CTGCTCCACTGCAACCTCAGGGAGATAAGATTTGTCATCTTCAAT
1 CTGCTCCACTGCAA-CTTAGGGAGATAAGATCTGTAATCTTCAAC
* ** *
33689242 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
1 CTGCTCCACTGCAACTTAGGGAGATAAGATCTGTAATCTTCAAC
*
33689286 CTGCTCCGCTGCAACTTAGGGAG
1 CTGCTCCACTGCAACTTAGGGAG
33689309 GCAAGGCTGG
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
44 44 0.80
45 11 0.20
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.29
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTAGGGAGATAAGATCTGTAATCTTCAAC
Found at i:33689362 original size:88 final size:88
Alignment explanation
Indices: 33689267--33690019 Score: 847
Period size: 88 Copynumber: 8.6 Consensus size: 88
33689257 TTAGGGAGAT
* ** * *
33689267 AAGATCTG-TAATTTTCAACCTGCTCCGCTGCAACTTAGGGAGGCAAGGCTGGTGTCTTCAATCT
1 AAGATCTGCT-ATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCT
*
33689331 GCTTCACTGTTAGTACAGGAATGC
65 GCTTCACTGTTAGTACAGGAAGGC
* * * *
33689355 AAGATCTGCTATCTTT-AACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCT
1 AAGATCTGCTAT-TTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCT
33689419 GCTTCACTGTTAGTACAGGAAGGC
65 GCTTCACTGTTAGTACAGGAAGGC
* *
33689443 AAGATCTGCTATCTTT-AACCTGCTCCACTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGATCT
1 AAGATCTGCTAT-TTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCT
* * ** * * **
33689507 ACTCCACTACT-GCT-TAGGGAGAT
65 GCTTCACTGTTAG-TACAGGAAGGC
* * ** * *
33689530 AAGATCTGCAATTTTCAACC-GACTCCGCTGCAACCCAATGAGGCAAGGCTGGTGTCTTTGATCT
1 AAGATCTGCTATTTTCAACCTG-CTCCACTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCT
* **
33689594 GCTTCGCTGTCGGTACAGGAAGGC
65 GCTTCACTGTTAGTACAGGAAGGC
* * * *
33689618 AAGATCTGTTATTTTTAACCTGCTCCGCTGTAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTG
1 AAGATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTG
*
33689683 CTTCGCTGTTAGTACAGGAAGGC
66 CTTCACTGTTAGTACAGGAAGGC
* * * * * * *
33689706 AAGATCTGCTATCTTCAACCTGCTCCACTACGACCTAGGGAGGCAAAGCTGGTATCTTCGATCTG
1 AAGATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTG
* **
33689771 CTTCACTATCGGTACAGGAAGGC
66 CTTCACTGTTAGTACAGGAAGGC
* * *
33689794 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTAGTATCTTCGATCTG
1 AAGATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTG
* * * *
33689859 CTTCGCTG-TCGATGCAAGAAGGC
66 CTTCACTGTTAG-TACAGGAAGGC
* * *
33689882 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTAGTATCTTCGATCTG
1 AAGATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTG
* * * *
33689947 CTTCGCTG-TCGATGCAAGAAGGC
66 CTTCACTGTTAG-TACAGGAAGGC
* *
33689970 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCT
1 AAGATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCT
33690020 TTGTGATTTC
Statistics
Matches: 588, Mismatches: 68, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
86 4 0.01
87 63 0.11
88 516 0.88
89 5 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (88 bp):
AAGATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTG
CTTCACTGTTAGTACAGGAAGGC
Found at i:33689421 original size:43 final size:43
Alignment explanation
Indices: 33689374--33689514 Score: 124
Period size: 43 Copynumber: 3.2 Consensus size: 43
33689364 TATCTTTAAC
*
33689374 CTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAAT
1 CTGCTCCACTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAAT
* ** * * * * * *
33689417 CTGCTTCACTGTTAGTAC-AGGAAGGCAAGATCT-GCTATCTTTAAC
1 CTGCTCCACTGCCA--CCGAGGGAGGCAAG-GCTAG-TGTCTTCAAT
*
33689462 CTGCTCCACTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGAT
1 CTGCTCCACTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAAT
*
33689505 CTACTCCACT
1 CTGCTCCACT
33689515 ACTGCTTAGG
Statistics
Matches: 71, Mismatches: 21, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
43 28 0.39
44 22 0.31
45 21 0.30
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (43 bp):
CTGCTCCACTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAAT
Found at i:33689443 original size:44 final size:43
Alignment explanation
Indices: 33689307--33689445 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 43
33689297 CAACTTAGGG
33689307 AGGCAAGGCTGGTGTCTTCAATCTGCTTCACTGTTAGTACAGGA
1 AGGCAAGGCT-GTGTCTTCAATCTGCTTCACTGTTAGTACAGGA
* * * * * * * ** * *
33689351 ATGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCA--CCGAGGG
1 AGGCAAG-GCTG-TGTCTTCAATCTGCTTCACTGTTAGTAC-AGGA
33689395 AGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGA
1 AGGCAAGGCT-GTGTCTTCAATCTGCTTCACTGTTAGTACAGGA
33689439 AGGCAAG
1 AGGCAAG
33689446 ATCTGCTATC
Statistics
Matches: 67, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
43 20 0.30
44 27 0.40
45 20 0.30
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.27
Consensus pattern (43 bp):
AGGCAAGGCTGTGTCTTCAATCTGCTTCACTGTTAGTACAGGA
Found at i:33689472 original size:45 final size:45
Alignment explanation
Indices: 33689329--33689472 Score: 134
Period size: 45 Copynumber: 3.2 Consensus size: 45
33689319 TGTCTTCAAT
* *
33689329 CTGCTTCACTGTTAGTACAGGAATGCAAGATCTGCTATCTTTAAC
1 CTGCTCCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
* ** * * * * * *
33689374 CTGCTCCGCTGCCA--CCGAGGGAGGCAAG-GCTAG-TGTCTTCAAT
1 CTGCTCCACTGTTAGTAC-AGGAAGGCAAGATCT-GCTATCTTTAAC
*
33689417 CTGCTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
1 CTGCTCCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
33689462 CTGCTCCACTG
1 CTGCTCCACTG
33689473 CCACCGAGGG
Statistics
Matches: 71, Mismatches: 22, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
43 20 0.28
44 21 0.30
45 30 0.42
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (45 bp):
CTGCTCCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
Found at i:33689487 original size:44 final size:44
Alignment explanation
Indices: 33689353--33689489 Score: 136
Period size: 44 Copynumber: 3.1 Consensus size: 44
33689343 GTACAGGAAT
*
33689353 GCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAG
1 GCAAGATCTGCTATCTTTAACCTGCTCCACTGCCACCGAGGGAG
* * * * * ** * *
33689397 GCAAG-GCTAG-TGTCTTCAATCTGCTTCACTGTTAGTAC-AGGAAG
1 GCAAGATCT-GCTATCTTTAACCTGCTCCACTGCCA--CCGAGGGAG
33689441 GCAAGATCTGCTATCTTTAACCTGCTCCACTGCCACCGAGGGAG
1 GCAAGATCTGCTATCTTTAACCTGCTCCACTGCCACCGAGGGAG
33689485 GCAAG
1 GCAAG
33689490 GCTAGTGTCT
Statistics
Matches: 68, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
43 20 0.29
44 27 0.40
45 21 0.31
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (44 bp):
GCAAGATCTGCTATCTTTAACCTGCTCCACTGCCACCGAGGGAG
Found at i:33689620 original size:44 final size:43
Alignment explanation
Indices: 33689570--33689708 Score: 125
Period size: 44 Copynumber: 3.2 Consensus size: 43
33689560 CAACCCAATG
*
33689570 AGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCGGTACAGGA
1 AGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGT-AGTACAGGA
* * * * * * * *** *
33689614 AGGCAAGATCTGTTATTTTTAACCTGCTCCGCTGTAACCCAGGG
1 AGGCAAG-GCTGGTGTCTTTGATCTGCTTCGCTGTAGTACAGGA
* *
33689658 AGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGA
1 AGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTG-TAGTACAGGA
33689702 AGGCAAG
1 AGGCAAG
33689709 ATCTGCTATC
Statistics
Matches: 68, Mismatches: 25, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
43 17 0.25
44 31 0.46
45 20 0.29
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (43 bp):
AGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTAGTACAGGA
Found at i:33689712 original size:263 final size:263
Alignment explanation
Indices: 33689197--33690019 Score: 1058
Period size: 263 Copynumber: 3.1 Consensus size: 263
33689187 CGGCTTTAAT
* ** ** * *
33689197 CTGCTCCACTGCAACCTCAGGGAGATAAGATTTGTCATCTTCAATCTGCTCCACTACTGCTTAGG
1 CTGCTCCACTACAACC-CAGGGAGGCAAGGCTAGT-ATCTTCGATCTGCTCCACTACTGCTTAGG
* ** *
33689262 GAGATAAGATCTGTAATTTTCAACCTGCTCCGCTGCAACTTAGGGAGGCAAGGCTGGTGTCTTCA
64 GAGATAAGATCTGCAATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCG
* ** * * *
33689327 ATCTGCTTCACTGTTAGTACAGGAATGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGA
129 ATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCA
* *
33689392 GGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCT
194 GGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCT
*
33689457 TTAAC
259 TCAAC
* * * * *
33689462 CTGCTCCACTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTACTCCACTACTGCTTAGGGA
1 CTGCTCCACTACAACCCAGGGAGGCAAGGCTAGTATCTTCGATCTGCTCCACTACTGCTTAGGGA
** *
33689527 GATAAGATCTGCAATTTTCAACC-GACTCCGCTGCAACCCAATGAGGCAAGGCTGGTGTCTTTGA
66 GATAAGATCTGCAATTTTCAACCTG-CTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGA
* * *
33689591 TCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGTTATTTTTAACCTGCTCCGCTGTAACCCAG
130 TCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAG
33689656 GGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTT
195 GGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTT
33689721 CAAC
260 CAAC
* * * * * * *
33689725 CTGCTCCACTACGACCTAGGGAGGCAAAGCTGGTATCTTCGATCTGCTTCACTA-TCGGTACAGG
1 CTGCTCCACTACAACCCAGGGAGGCAAGGCTAGTATCTTCGATCTGCTCCACTACT-GCT-TAGG
* ** * * * * * *
33689789 AAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTAGTATCTTCG
64 GAGATAAGATCTGCAATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCG
* * * * * *
33689854 ATCTGCTTCGCTGTCGATGCAAGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCA
129 ATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCA
* * * *
33689919 GGGAGGCAAGGCTAGTATCTTCGATCTGCTTCGCTG-TCGATGCAAGAAGGCAAGATCTGCTATC
194 GGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTTAG-TACAGGAAGGCAAGATCTGCTATC
33689983 TTCAAC
258 TTCAAC
33689989 CTGCTCCACTACAACCCAGGGAGGCAAGGCT
1 CTGCTCCACTACAACCCAGGGAGGCAAGGCT
33690020 TTGTGATTTC
Statistics
Matches: 486, Mismatches: 67, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
262 2 0.00
263 255 0.52
264 213 0.44
265 16 0.03
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (263 bp):
CTGCTCCACTACAACCCAGGGAGGCAAGGCTAGTATCTTCGATCTGCTCCACTACTGCTTAGGGA
GATAAGATCTGCAATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGAT
CTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGG
GAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTTC
AAC
Found at i:33696413 original size:32 final size:33
Alignment explanation
Indices: 33696359--33696447 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 33
33696349 CATGTACATA
*
33696359 TATAAAAAAATAATTATATACATATATATAGAT
1 TATAAAAAAATAATAATATACATATATATAGAT
33696392 TATAAAAAAA-AGATAAT-TACATATATAT--A-
1 TATAAAAAAATA-ATAATATACATATATATAGAT
33696421 TA-AACAAATAATAATAAT-TACATATAT
1 TATAA-AAA-AATAATAATATACATATAT
33696448 TGAAATTAAC
Statistics
Matches: 51, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
28 2 0.04
29 5 0.10
30 17 0.33
31 1 0.02
32 12 0.24
33 14 0.27
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (33 bp):
TATAAAAAAATAATAATATACATATATATAGAT
Found at i:33696708 original size:15 final size:15
Alignment explanation
Indices: 33696688--33696753 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 15
33696678 AGGTACAATA
33696688 ATAATAAT-ATATAAT
1 ATAATAATAAT-TAAT
33696703 ATAATAATAATTAAT
1 ATAATAATAATTAAT
* * *
33696718 ACAATAAGAA-T-GT
1 ATAATAATAATTAAT
33696731 A-AA-AATAATTAAT
1 ATAATAATAATTAAT
*
33696744 TTAATAATAA
1 ATAATAATAA
33696754 ATAACTAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
11 4 0.10
12 3 0.08
13 3 0.08
14 3 0.08
15 25 0.62
16 2 0.05
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (15 bp):
ATAATAATAATTAAT
Done.