Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 15 of 97
Found at i:7233788 original size:32 final size:32
Alignment explanation
Indices: 7233747--7233811 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
7233737 TACATAAATT
7233747 GTGAGTTTGAGCAGGAGAAAGAGAGATCAGAA
1 GTGAGTTTGAGCAGGAGAAAGAGAGATCAGAA
*
7233779 GTGAGTTTGAGCTGGAGAAAGAGAGATCAGAA
1 GTGAGTTTGAGCAGGAGAAAGAGAGATCAGAA
7233811 G
1 G
7233812 CCTTACTTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.06, G:0.38, T:0.17
Consensus pattern (32 bp):
GTGAGTTTGAGCAGGAGAAAGAGAGATCAGAA
Found at i:7234975 original size:2 final size:2
Alignment explanation
Indices: 7234968--7235071 Score: 113
Period size: 2 Copynumber: 51.0 Consensus size: 2
7234958 ATTAGTAGAG
7234968 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
** * * *
7235010 TA TA CTA CN TG CA AA GTGA GTA TA TA TA TA TA TA T- TA TA TA T-
1 TA TA -TA TA TA TA TA -T-A -TA TA TA TA TA TA TA TA TA TA TA TA
7235052 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
7235072 GTATCCATGA
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
1 2 0.02
2 81 0.91
3 3 0.03
4 3 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:7238340 original size:16 final size:16
Alignment explanation
Indices: 7238315--7238390 Score: 66
Period size: 16 Copynumber: 4.9 Consensus size: 16
7238305 TATAAAAATT
*
7238315 TATTAATTAATTGATA
1 TATTAATTAATTAATA
*
7238331 TATTATTTAATTAATA
1 TATTAATTAATTAATA
* *
7238347 AATT-ATTAATTTATA
1 TATTAATTAATTAATA
* * *
7238362 TTTTAATTAATAAAAA
1 TATTAATTAATTAATA
*
7238378 T-TTAATTGATTAA
1 TATTAATTAATTAA
7238391 AGTATTTTAA
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
15 21 0.45
16 26 0.55
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
TATTAATTAATTAATA
Found at i:7238358 original size:20 final size:20
Alignment explanation
Indices: 7238317--7238359 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
7238307 TAAAAATTTA
**
7238317 TTAATTAATTGATATATTAT
1 TTAATTAATAAATATATTAT
7238337 TTAATTAATAAAT-TATTAAT
1 TTAATTAATAAATATATT-AT
7238357 TTA
1 TTA
7238360 TATTTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TTAATTAATAAATATATTAT
Found at i:7238372 original size:31 final size:29
Alignment explanation
Indices: 7238320--7238387 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 29
7238310 AAATTTATTA
*
7238320 ATTAATTGATATATTATTTAATTAATAAATT
1 ATTAATTGATATATTAATTAA-TAA-AAATT
* *
7238351 ATTAATTTATATTTTAATTAATAAAAA-T
1 ATTAATTGATATATTAATTAATAAAAATT
7238379 -TTAATTGAT
1 ATTAATTGAT
7238388 TAAAGTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 8 0.24
28 1 0.03
29 3 0.09
30 3 0.09
31 18 0.55
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (29 bp):
ATTAATTGATATATTAATTAATAAAAATT
Found at i:7241577 original size:2 final size:2
Alignment explanation
Indices: 7241572--7241625 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
7241562 GAAAAAACAT
*
7241572 TA TA TA AA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7241613 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
7241626 TTACACACAC
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7245526 original size:14 final size:14
Alignment explanation
Indices: 7245507--7245554 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
7245497 ATGTTACAAA
7245507 CAAATAAATTACAC
1 CAAATAAATTACAC
* *
7245521 CAAATATAAATA-AG
1 CAAATA-AATTACAC
*
7245535 CAAATAAATTACAT
1 CAAATAAATTACAC
7245549 CAAATA
1 CAAATA
7245555 TAAATAAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 4 0.14
14 20 0.71
15 4 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (14 bp):
CAAATAAATTACAC
Found at i:7245531 original size:16 final size:16
Alignment explanation
Indices: 7245510--7245559 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
7245500 TTACAAACAA
7245510 ATAAATTACACCAAAT
1 ATAAATTACACCAAAT
*
7245526 ATAAA-TA-AGC-AA-
1 ATAAATTACACCAAAT
*
7245538 ATAAATTACATCAAAT
1 ATAAATTACACCAAAT
7245554 ATAAAT
1 ATAAAT
7245560 AAAGTTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 5 0.18
13 4 0.14
14 4 0.14
15 4 0.14
16 11 0.39
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (16 bp):
ATAAATTACACCAAAT
Found at i:7245539 original size:28 final size:28
Alignment explanation
Indices: 7245507--7245561 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
7245497 ATGTTACAAA
7245507 CAAATAAATTACACCAAATATAAATAAG
1 CAAATAAATTACACCAAATATAAATAAG
*
7245535 CAAATAAATTACATCAAATATAAATAA
1 CAAATAAATTACACCAAATATAAATAA
7245562 AGTTTCAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.62, C:0.13, G:0.02, T:0.24
Consensus pattern (28 bp):
CAAATAAATTACACCAAATATAAATAAG
Found at i:7254826 original size:2 final size:2
Alignment explanation
Indices: 7254819--7254862 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
7254809 CAGTTATCAT
* * *
7254819 TC TC TC TC TC TC TC TC TC TC TC TC TC CC TC TG TC TT TC T- TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7254860 TC T
1 TC T
7254863 TACAGTGTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.00, C:0.45, G:0.02, T:0.52
Consensus pattern (2 bp):
TC
Found at i:7261058 original size:16 final size:16
Alignment explanation
Indices: 7261014--7261066 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
7261004 GTGAAGAAGG
*
7261014 AAAGAAATGAAAAAAAA
1 AAAGAAAT-AAAATAAA
*
7261031 AAAGAAGA-AAAATAGA
1 AAAGAA-ATAAAATAAA
7261047 AAAGAAATAAAATAATA
1 AAAGAAATAAAATAA-A
7261064 AAA
1 AAA
7261067 AGACAGAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 1 0.03
16 18 0.60
17 10 0.33
18 1 0.03
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.09
Consensus pattern (16 bp):
AAAGAAATAAAATAAA
Found at i:7262058 original size:21 final size:21
Alignment explanation
Indices: 7262032--7262083 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
7262022 ACTGTGTCTT
*
7262032 TAGGATTGACTTTAGAGATTC
1 TAGGATTGACTATAGAGATTC
* *
7262053 TAGGATCGACTATAGAGCTTC
1 TAGGATTGACTATAGAGATTC
7262074 TAAGG-TTGAC
1 T-AGGATTGAC
7262084 ATGTTCTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (21 bp):
TAGGATTGACTATAGAGATTC
Found at i:7263253 original size:43 final size:44
Alignment explanation
Indices: 7263191--7263281 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 44
7263181 CAAAATTTTA
* * *
7263191 AATTTTTTATATATTATATATATTTTCAATGGGCTCC-CTAAAAT
1 AATTTTTGATATAATATATATATTTTCAATGAGC-CCTCTAAAAT
*
7263235 AATTTTTGA-ATAATATATATATTTTCAATGAGCCCTTTAAAAT
1 AATTTTTGATATAATATATATATTTTCAATGAGCCCTCTAAAAT
7263278 AATT
1 AATT
7263282 AATACGAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 2 0.05
43 32 0.76
44 8 0.19
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (44 bp):
AATTTTTGATATAATATATATATTTTCAATGAGCCCTCTAAAAT
Found at i:7263291 original size:45 final size:43
Alignment explanation
Indices: 7263205--7263292 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
7263195 TTTTATATAT
* **
7263205 TATATATATTTTCAATGGGCTCCCTAAAATAATTTTTGAATAA
1 TATATATATTTTCAATGAGCTCCCTAAAATAATTTACGAATAA
*
7263248 TATATATATTTTCAATGAGC-CCTTTAAAATAATTAATACGAATAA
1 TATATATATTTTCAATGAGCTCC-CTAAAATAATT--TACGAATAA
7263293 AAAATAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 2 0.05
43 29 0.76
45 7 0.18
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (43 bp):
TATATATATTTTCAATGAGCTCCCTAAAATAATTTACGAATAA
Found at i:7270821 original size:24 final size:24
Alignment explanation
Indices: 7270776--7270827 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
7270766 CGAATTTACA
* *
7270776 AAATTATTATTAAATTTTTTAAAT
1 AAATTATAATTAAATTTATTAAAT
*
7270800 AAATTATAATATAAA-TTATTAAGT
1 AAATTATAAT-TAAATTTATTAAAT
7270824 AAAT
1 AAAT
7270828 AAATATGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
AAATTATAATTAAATTTATTAAAT
Found at i:7275389 original size:23 final size:21
Alignment explanation
Indices: 7275359--7275408 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 21
7275349 ACTACCTCCT
7275359 TCTCTCTCTCTCCTTCCCCCCTC
1 TCTCTCTCTCTCC-T-CCCCCTC
7275382 TCTCTCTCTCTCCTCCCCCTC
1 TCTCTCTCTCTCCTCCCCCTC
*
7275403 TTTCTC
1 TCTCTC
7275409 CCTGCAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 12 0.46
22 1 0.04
23 13 0.50
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (21 bp):
TCTCTCTCTCTCCTCCCCCTC
Found at i:7288952 original size:19 final size:19
Alignment explanation
Indices: 7288911--7288952 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
7288901 AATTTTAGTG
* *
7288911 TTAAAATATATTTTAAATA
1 TTAAAATATAGTATAAATA
7288930 TTAAAATATTAGTATAAAT-
1 TTAAAATA-TAGTATAAATA
7288949 TTAA
1 TTAA
7288953 TTTAAATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
TTAAAATATAGTATAAATA
Found at i:7291078 original size:20 final size:22
Alignment explanation
Indices: 7291041--7291082 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7291031 TAGACTTCTT
*
7291041 TTTGTTTCTAGAGATTTCTTTA
1 TTTGTTTATAGAGATTTCTTTA
7291063 TTTGTTTATA-AG-TTTCTTTA
1 TTTGTTTATAGAGATTTCTTTA
7291083 CTTTTATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 2 0.11
22 9 0.47
ACGTcount: A:0.19, C:0.07, G:0.12, T:0.62
Consensus pattern (22 bp):
TTTGTTTATAGAGATTTCTTTA
Found at i:7296778 original size:20 final size:18
Alignment explanation
Indices: 7296737--7296787 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
7296727 AAATAAAAGG
7296737 AATAA-CAT-AAAATTAA
1 AATAATCATAAAAATTAA
7296753 AATAATTCACTAAAAATTAA
1 AATAA-TCA-TAAAAATTAA
**
7296773 CCTAATCATAAAAAT
1 AATAATCATAAAAAT
7296788 AACTAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 5 0.17
18 9 0.31
19 4 0.14
20 11 0.38
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (18 bp):
AATAATCATAAAAATTAA
Found at i:7301494 original size:2 final size:2
Alignment explanation
Indices: 7301487--7301555 Score: 122
Period size: 2 Copynumber: 34.5 Consensus size: 2
7301477 AAATACATAC
7301487 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
7301529 AT AT ANT -T AT AT AT AT AT AT AT AT AT A
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT A
7301556 ACACCATATC
Statistics
Matches: 65, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.02
2 63 0.97
3 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7306566 original size:20 final size:21
Alignment explanation
Indices: 7306541--7306581 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7306531 CTACATTATG
7306541 AGAATTATT-TGTTTCAATAT
1 AGAATTATTCTGTTTCAATAT
* *
7306561 AGAATTTTTCTTTTTCAATAT
1 AGAATTATTCTGTTTCAATAT
7306582 TGAAATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (21 bp):
AGAATTATTCTGTTTCAATAT
Found at i:7306596 original size:22 final size:21
Alignment explanation
Indices: 7306552--7306597 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
7306542 GAATTATTTG
*
7306552 TTTCAATATAGAATTTTTCTT
1 TTTCAATATAGAAATTTTCTT
*
7306573 TTTCAATATTGAAATTTTCTT
1 TTTCAATATAGAAATTTTCTT
7306594 TTTC
1 TTTC
7306598 GAACCACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.59
Consensus pattern (21 bp):
TTTCAATATAGAAATTTTCTT
Found at i:7309690 original size:3 final size:3
Alignment explanation
Indices: 7309682--7309715 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7309672 TATGTTTGTA
7309682 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
7309716 ACTAATAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:7315560 original size:62 final size:63
Alignment explanation
Indices: 7315413--7315724 Score: 370
Period size: 63 Copynumber: 5.0 Consensus size: 63
7315403 TGGCATGTGA
* ** * * *
7315413 TAAAATTATTGTAAAGGCCAAATTATAAACTTCTAAAAAATTAAAAGTAAGTTATAAAAATTT
1 TAAAATTTTTGTAAAGGTAAAATTATAAAATTCTAAAAAAATAAAAGTATGTTATAAAAATTT
* * *
7315476 TAAAATTTTTGTAGAGGAAAAATTATAAAATTCTAAAAAAATAAAAATATGTTATAAAAATTT
1 TAAAATTTTTGTAAAGGTAAAATTATAAAATTCTAAAAAAATAAAAGTATGTTATAAAAATTT
*
7315539 T-AAATTTTTGTAAAGGTAAAATTATAAAATTCTAAAAAAAATAAATGTATGTTATAAAAATTT
1 TAAAATTTTTGTAAAGGTAAAATTATAAAATTCT-AAAAAAATAAAAGTATGTTATAAAAATTT
* * *
7315602 TAAAATTTTTGTAAA-G-AGAAATTATTAAATT-TTAAAAAATANTAATGTATGTTAT-AAAA-T
1 TAAAATTTTTGTAAAGGTA-AAATTATAAAATTCTAAAAAAATA--AAAGTATGTTATAAAAATT
7315662 T
63 T
* * * * *
7315663 T-AAATTTTTGTAAAAGTAAAATTATAAAATTTTAAAAAAGTAAAGGTATGTT-TTAAAATTT
1 TAAAATTTTTGTAAAGGTAAAATTATAAAATTCTAAAAAAATAAAAGTATGTTATAAAAATTT
7315724 T
1 T
7315725 GGAGGGTGGA
Statistics
Matches: 221, Mismatches: 18, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
59 1 0.00
60 26 0.12
61 27 0.12
62 45 0.20
63 109 0.49
64 13 0.06
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (63 bp):
TAAAATTTTTGTAAAGGTAAAATTATAAAATTCTAAAAAAATAAAAGTATGTTATAAAAATTT
Found at i:7315682 original size:23 final size:24
Alignment explanation
Indices: 7315656--7315706 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
7315646 ATGTATGTTA
* **
7315656 TAAAATT-TAAATTTTTGTAAAAG
1 TAAAATTATAAAATTTTAAAAAAG
7315679 TAAAATTATAAAATTTTAAAAAAG
1 TAAAATTATAAAATTTTAAAAAAG
7315703 TAAA
1 TAAA
7315707 GGTATGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (24 bp):
TAAAATTATAAAATTTTAAAAAAG
Found at i:7325102 original size:17 final size:18
Alignment explanation
Indices: 7325077--7325111 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7325067 GTTTTTATTT
7325077 ATTTATTTTTC-TTTCTC
1 ATTTATTTTTCATTTCTC
*
7325094 ATTTCTTTTTCATTTCTC
1 ATTTATTTTTCATTTCTC
7325112 TCTCTGCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTATTTTTCATTTCTC
Found at i:7337643 original size:45 final size:42
Alignment explanation
Indices: 7337603--7337730 Score: 114
Period size: 42 Copynumber: 3.0 Consensus size: 42
7337593 TGGAGGCACC
7337603 GTCACCGGAGGGAGGTTAATGGGTGGCTTCACAATTGGAGGGA
1 GTCACCGGAGGGAGGTTAAT-GGTGGCTTCACAATTGGAGGGA
** * * * **
7337646 -TCAATGGGGGGAGGTTGATTGGCGGCTTCACAACGGGAGGGA
1 GTCACCGGAGGGAGGTT-AATGGTGGCTTCACAATTGGAGGGA
* * *
7337688 GTGTCACCGGAGGGACTGTGACTGGTGGCTTCACAATTGGAGG
1 --GTCACCGGAGGGA-GGTTAATGGTGGCTTCACAATTGGAGG
7337731 AACAGTAACC
Statistics
Matches: 64, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
42 32 0.50
43 2 0.03
45 28 0.44
46 2 0.03
ACGTcount: A:0.21, C:0.16, G:0.42, T:0.21
Consensus pattern (42 bp):
GTCACCGGAGGGAGGTTAATGGTGGCTTCACAATTGGAGGGA
Found at i:7337966 original size:5 final size:5
Alignment explanation
Indices: 7337932--7337962 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
7337922 CCATTTTGAT
*
7337932 AGTGG AGTGG AGTGG AGTGG AGTGG AATGG A
1 AGTGG AGTGG AGTGG AGTGG AGTGG AGTGG A
7337963 ATGGGTAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.26, C:0.00, G:0.55, T:0.19
Consensus pattern (5 bp):
AGTGG
Found at i:7340794 original size:2 final size:2
Alignment explanation
Indices: 7340787--7340816 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7340777 ATAAGTGTTC
7340787 AT 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 AT
7340817 TTTAACTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7349420 original size:26 final size:26
Alignment explanation
Indices: 7349384--7349548 Score: 146
Period size: 26 Copynumber: 6.6 Consensus size: 26
7349374 ACTGACTTTG
*
7349384 GGCATTACGTGACT-GATTTTTAATAA
1 GGCATTGCGTGACTAG-TTTTTAATAA
* * *
7349410 GGCATTGCGTGACTAATTTCTGATAA
1 GGCATTGCGTGACTAGTTTTTAATAA
*
7349436 GGCATTGCATGACTAG---TTAAT-A
1 GGCATTGCGTGACTAGTTTTTAATAA
*
7349458 GGCATT--GTGACTAGTTTTTTATAA
1 GGCATTGCGTGACTAGTTTTTAATAA
* * *
7349482 GGTATTGCGTGAATAGTTTTTTATAA
1 GGCATTGCGTGACTAGTTTTTAATAA
* ** *
7349508 GGTATTATGTGACTAGTTTCTAATAA
1 GGCATTGCGTGACTAGTTTTTAATAA
*
7349534 GGCATTGTGTGACTA
1 GGCATTGCGTGACTA
7349549 ACTTTGGGTA
Statistics
Matches: 113, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
20 7 0.06
22 7 0.06
23 7 0.06
24 6 0.05
26 86 0.76
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.39
Consensus pattern (26 bp):
GGCATTGCGTGACTAGTTTTTAATAA
Found at i:7349482 original size:46 final size:48
Alignment explanation
Indices: 7349403--7349540 Score: 118
Period size: 46 Copynumber: 2.8 Consensus size: 48
7349393 TGACTGATTT
*
7349403 TTAATAAGGCATTGCGTGACTAATTTCTGATAAGGCATTGCATGACTAG
1 TTAATAAGGCATT-CGTGACTAATTTCTGATAAGGCATTGCATGAATAG
* * * * *
7349452 TTAAT-AGGCATT-GTGACTAGTTTTTTATAAGGTATTGCGTGAATAG
1 TTAATAAGGCATTCGTGACTAATTTCTGATAAGGCATTGCATGAATAG
* * * * *
7349498 TTTTTTATAAGGTATTATGTGACTAGTTTCTAATAAGGCATTG
1 ---TTAATAAGGCATT-CGTGACTAATTTCTGATAAGGCATTG
7349541 TGTGACTAAC
Statistics
Matches: 72, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
46 28 0.39
48 7 0.10
49 9 0.12
50 6 0.08
52 22 0.31
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (48 bp):
TTAATAAGGCATTCGTGACTAATTTCTGATAAGGCATTGCATGAATAG
Found at i:7349521 original size:72 final size:72
Alignment explanation
Indices: 7349392--7349525 Score: 162
Period size: 72 Copynumber: 1.9 Consensus size: 72
7349382 TGGGCATTAC
* *
7349392 GTGACTGATTTTTAATAAGGCATTGCGTGACTAATTTCTGATAAGGCATTGCATGACTAGTTAAT
1 GTGACTGATTTTTAATAAGGCATTGCGTGAATAATTTCTGATAAGGCATTACATGACTAGTTAAT
7349457 AGGCATT
66 AGGCATT
* * * * * * **
7349464 GTGACT-AGTTTTTTATAAGGTATTGCGTGAATAGTTTTTTATAAGGTATTATGTGACTAGTT
1 GTGACTGA-TTTTTAATAAGGCATTGCGTGAATAATTTCTGATAAGGCATTACATGACTAGTT
7349526 TCTAATAAGG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
71 1 0.02
72 50 0.98
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (72 bp):
GTGACTGATTTTTAATAAGGCATTGCGTGAATAATTTCTGATAAGGCATTACATGACTAGTTAAT
AGGCATT
Found at i:7349561 original size:21 final size:21
Alignment explanation
Indices: 7349537--7349611 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
7349527 CTAATAAGGC
*
7349537 ATTGTGTGACTAACTTTGGGT
1 ATTGCGTGACTAACTTTGGGT
7349558 ATTGCGTGACTAACTTTGGGT
1 ATTGCGTGACTAACTTTGGGT
**
7349579 ATTGCGTGACTAACTTTGGAC
1 ATTGCGTGACTAACTTTGGGT
7349600 ATTGCGTGACTA
1 ATTGCGTGACTA
7349612 GTTTTTGATA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.37
Consensus pattern (21 bp):
ATTGCGTGACTAACTTTGGGT
Found at i:7349634 original size:26 final size:26
Alignment explanation
Indices: 7349597--7349666 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
7349587 ACTAACTTTG
*
7349597 GACATTGCGTGACTAGTTTTTGATAA
1 GACATTGCGTGACTAGTTTCTGATAA
*
7349623 GACATTGTGTGACTAGTTTCTGATAA
1 GACATTGCGTGACTAGTTTCTGATAA
* *
7349649 GGCATTGCATGACTAGTT
1 GACATTGCGTGACTAGTT
7349667 GATAAACATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (26 bp):
GACATTGCGTGACTAGTTTCTGATAA
Found at i:7349719 original size:23 final size:23
Alignment explanation
Indices: 7349646--7349756 Score: 84
Period size: 23 Copynumber: 4.8 Consensus size: 23
7349636 TAGTTTCTGA
* *
7349646 TAAGGCATTGCATGACTAGTT-G
1 TAAGGCATTGCGTGATTAGTTCG
* * *
7349668 ATAA-ACATTGCATGACTT-GTTAG
1 -TAAGGCATTGCGTGA-TTAGTTCG
*
7349691 TTAGGCATTGCGTGATTAGTTCG
1 TAAGGCATTGCGTGATTAGTTCG
* *
7349714 TAAGGCATTGTGTGACTAGTTCG
1 TAAGGCATTGCGTGATTAGTTCG
* *
7349737 TAAGGAATTGTGTGACTTAG
1 TAAGGCATTGCGTGA-TTAG
7349757 GCATTGCTTA
Statistics
Matches: 72, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
22 17 0.24
23 52 0.72
24 3 0.04
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.35
Consensus pattern (23 bp):
TAAGGCATTGCGTGATTAGTTCG
Found at i:7349812 original size:22 final size:22
Alignment explanation
Indices: 7349787--7349842 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
7349777 ATGCAATGTA
7349787 TAAAAACTAGTCACGTAAT-ACC
1 TAAAAACTAGTCACGTAATGA-C
* * *
7349809 TAAAATC-AATCTCGTAATGAC
1 TAAAAACTAGTCACGTAATGAC
7349830 TAAAAACTAGTCA
1 TAAAAACTAGTCA
7349843 TACGGTGATT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.25
Consensus pattern (22 bp):
TAAAAACTAGTCACGTAATGAC
Found at i:7350345 original size:46 final size:46
Alignment explanation
Indices: 7350295--7350386 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
7350285 GAACCCCAAA
7350295 ATCCACCATCCAAAAAAATAAAATAAAATAAGAAATAGCTTGATGT
1 ATCCACCATCCAAAAAAATAAAATAAAATAAGAAATAGCTTGATGT
7350341 ATCCACCATCCAAAAAAATAAAATAAAATAAGAAATAGCTTGATGT
1 ATCCACCATCCAAAAAAATAAAATAAAATAAGAAATAGCTTGATGT
7350387 CATATCTGCG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.54, C:0.15, G:0.09, T:0.22
Consensus pattern (46 bp):
ATCCACCATCCAAAAAAATAAAATAAAATAAGAAATAGCTTGATGT
Found at i:7351197 original size:30 final size:30
Alignment explanation
Indices: 7351161--7351250 Score: 162
Period size: 30 Copynumber: 3.0 Consensus size: 30
7351151 TTTGTTTGAT
7351161 GCCATTGATGAAGAATCACTTGGGGAAGTG
1 GCCATTGATGAAGAATCACTTGGGGAAGTG
**
7351191 GCCATTGATGAAGAATCACTTGGGGATTTG
1 GCCATTGATGAAGAATCACTTGGGGAAGTG
7351221 GCCATTGATGAAGAATCACTTGGGGAAGTG
1 GCCATTGATGAAGAATCACTTGGGGAAGTG
7351251 TCTTGCCAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (30 bp):
GCCATTGATGAAGAATCACTTGGGGAAGTG
Found at i:7354018 original size:17 final size:17
Alignment explanation
Indices: 7353988--7354022 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7353978 CTGCCATATC
* *
7353988 TCTATTTTGTTTTTTAT
1 TCTATCTTGATTTTTAT
7354005 TCTATCTTGATTTTTAT
1 TCTATCTTGATTTTTAT
7354022 T
1 T
7354023 ATTCACTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.14, C:0.09, G:0.06, T:0.71
Consensus pattern (17 bp):
TCTATCTTGATTTTTAT
Found at i:7360794 original size:17 final size:16
Alignment explanation
Indices: 7360769--7360815 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
7360759 CCACCAATAA
* *
7360769 TTCCCTCTTTCATTCTT
1 TTCCTTCTTTC-TTCTC
7360786 TTCCTTCTTTTCTTCTC
1 TTCCTTC-TTTCTTCTC
7360803 TTCCTT-TTTCTTC
1 TTCCTTCTTTCTTC
7360816 CATTGCCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 7 0.26
17 16 0.59
18 4 0.15
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (16 bp):
TTCCTTCTTTCTTCTC
Found at i:7374595 original size:21 final size:21
Alignment explanation
Indices: 7374569--7374608 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7374559 AAACCTTCTT
*
7374569 TTCTTCTTTTTTTAGTTTGCA
1 TTCTTCATTTTTTAGTTTGCA
*
7374590 TTCTTCATTTTTTGGTTTG
1 TTCTTCATTTTTTAGTTTG
7374609 TATATTGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.12, G:0.12, T:0.68
Consensus pattern (21 bp):
TTCTTCATTTTTTAGTTTGCA
Found at i:7376573 original size:28 final size:29
Alignment explanation
Indices: 7376532--7376591 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
7376522 GTCTATGGGC
*
7376532 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCAGTTTTAGGGGGCAAAAATGT
* * *
7376560 AATTTTTGATTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAGTTTTA-GGGGGCAAAAATGT
7376590 AA
1 AA
7376592 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (29 bp):
AATTTTTCAGTTTTAGGGGGCAAAAATGT
Found at i:7384097 original size:15 final size:13
Alignment explanation
Indices: 7384067--7384091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7384057 TTTCAGAAAA
7384067 TTTATAAAATCAT
1 TTTATAAAATCAT
7384080 TTTATAAAATCA
1 TTTATAAAATCA
7384092 CATTTTTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:7385169 original size:15 final size:14
Alignment explanation
Indices: 7385148--7385177 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
7385138 ACCATGCATT
7385148 CCCTTTGACTTATC
1 CCCTTTGACTTATC
7385162 CNCCTTTGACTTATC
1 C-CCTTTGACTTATC
7385177 C
1 C
7385178 AAGTCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 1 0.07
15 14 0.93
ACGTcount: A:0.13, C:0.37, G:0.07, T:0.40
Consensus pattern (14 bp):
CCCTTTGACTTATC
Found at i:7387024 original size:26 final size:26
Alignment explanation
Indices: 7386995--7387100 Score: 90
Period size: 26 Copynumber: 4.1 Consensus size: 26
7386985 TGGGTTAAGA
* **
7386995 TATCCATCTACTTCTGGTGGTAAAAT
1 TATCCATCCACTTCTAATGGTAAAAT
* * *
7387021 TATCCATCCACTTTTGACGGTAAAAT
1 TATCCATCCACTTCTAATGGTAAAAT
* * **
7387047 TATTCTTAGA-TTCTAATGGTAAAAT
1 TATCCATCCACTTCTAATGGTAAAAT
*
7387072 TATCCATCCACTTAC-AGTGGTAAAAT
1 TATCCATCCACTT-CTAATGGTAAAAT
7387098 TAT
1 TAT
7387101 TTTTAGAATT
Statistics
Matches: 62, Mismatches: 16, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
25 18 0.29
26 43 0.69
27 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (26 bp):
TATCCATCCACTTCTAATGGTAAAAT
Found at i:7391596 original size:2 final size:2
Alignment explanation
Indices: 7391589--7391621 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7391579 TAAGATACCA
7391589 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7391622 AGATTATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7419703 original size:15 final size:15
Alignment explanation
Indices: 7419675--7419719 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
7419665 TCGGCGTCGA
7419675 TATT-CTTT-TTTAT
1 TATTACTTTATTTAT
7419688 TATTTA-TTTATTTAT
1 TA-TTACTTTATTTAT
7419703 TATTACTTTATTATAT
1 TATTACTTTATT-TAT
7419719 T
1 T
7419720 TGTGTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 2 0.07
14 8 0.30
15 13 0.48
16 4 0.15
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTACTTTATTTAT
Found at i:7420074 original size:24 final size:23
Alignment explanation
Indices: 7420041--7420105 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 23
7420031 AAATATAATT
7420041 AATTAATTTTAATTATTTTATTT-A
1 AATTAATTTT--TTATTTTATTTGA
* *
7420065 AATTACTTTTTTATTATATTTGA
1 AATTAATTTTTTATTTTATTTGA
7420088 AATTAATTTTCTTATTTT
1 AATTAATTTT-TTATTTT
7420106 TATATGACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 10 0.29
23 10 0.29
24 15 0.43
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (23 bp):
AATTAATTTTTTATTTTATTTGA
Found at i:7424317 original size:27 final size:27
Alignment explanation
Indices: 7424278--7424340 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
7424268 CTGCACAATC
7424278 CTCATTTTATTTCGAGATACAGCTCTTA
1 CTCA-TTTATTTCGAGATACAGCTCTTA
*
7424306 CTCATTTATTTCGGGATACAGCTCTTA
1 CTCATTTATTTCGAGATACAGCTCTTA
7424333 CTCATTTA
1 CTCATTTA
7424341 GAAAGACAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 30 0.88
28 4 0.12
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (27 bp):
CTCATTTATTTCGAGATACAGCTCTTA
Found at i:7426733 original size:160 final size:159
Alignment explanation
Indices: 7426470--7426770 Score: 532
Period size: 160 Copynumber: 1.9 Consensus size: 159
7426460 GCAAAGTTTA
7426470 TGCAGTGTTACCCTGGAGGTCCCAATTTTTTGAAAAAGTATTGCATCAGAAGTCATATACCAAAT
1 TGCAGTGTTACCCTGGAGGTCCCAATTTTTTGAAAAAGTATTGCATCAGAAGTCATATACCAAAT
* * *
7426535 CCGTGAGACAACTCAGGGTAACACTTTTAGCCAATTTTCACATATAATTATAAATTTTTAGAGAT
66 CCGTGAGACAACTCAGGGTAACACTTGTAGACAATTTTCACACATAATTATAAATTTTTAGAGAT
7426600 TATCTCCAGCATATTTCAAGATATAATCT
131 TATCTCCAGCATATTTCAAGATATAATCT
*
7426629 TGCAGT-TTCACCCTGGAGGTCCCAATTTTTTGAAAAAAGTATTGCATCAGAATTCATATACCAA
1 TGCAGTGTT-ACCCTGGAGGTCCCAATTTTTTG-AAAAAGTATTGCATCAGAAGTCATATACCAA
*
7426693 ATCTGTGAGACAACTCAGGGTAACACTTGTAGACAATTTTCACACATAATTATAAATTTTTAGAG
64 ATCCGTGAGACAACTCAGGGTAACACTTGTAGACAATTTTCACACATAATTATAAATTTTTAGAG
7426758 ATTATCTCCAGCA
129 ATTATCTCCAGCA
7426771 CAGGTCTTTC
Statistics
Matches: 135, Mismatches: 5, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
158 2 0.01
159 29 0.21
160 104 0.77
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.33
Consensus pattern (159 bp):
TGCAGTGTTACCCTGGAGGTCCCAATTTTTTGAAAAAGTATTGCATCAGAAGTCATATACCAAAT
CCGTGAGACAACTCAGGGTAACACTTGTAGACAATTTTCACACATAATTATAAATTTTTAGAGAT
TATCTCCAGCATATTTCAAGATATAATCT
Found at i:7426883 original size:17 final size:20
Alignment explanation
Indices: 7426841--7426884 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 20
7426831 AGTAAACCAC
7426841 AAGAAAAATACAAAAAAAGG
1 AAGAAAAATACAAAAAAAGG
7426861 AA-AAAAA-A-AAAAAAA-G
1 AAGAAAAATACAAAAAAAGG
7426877 AAGAAAAA
1 AAGAAAAA
7426885 GAAGAGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 12 0.52
18 1 0.04
19 5 0.22
20 2 0.09
ACGTcount: A:0.84, C:0.02, G:0.11, T:0.02
Consensus pattern (20 bp):
AAGAAAAATACAAAAAAAGG
Found at i:7433231 original size:25 final size:25
Alignment explanation
Indices: 7433203--7433259 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
7433193 AATATAAAAC
7433203 TATATATCTAAATAA-AAACAATTAT
1 TATATAT-TAAATAAGAAACAATTAT
**
7433228 TATA-ATTAAATAATGGTACAATTAT
1 TATATATTAAATAA-GAAACAATTAT
7433253 TATATAT
1 TATATAT
7433260 AGTGTAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 7 0.26
24 2 0.07
25 16 0.59
26 2 0.07
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (25 bp):
TATATATTAAATAAGAAACAATTAT
Found at i:7449844 original size:20 final size:20
Alignment explanation
Indices: 7449809--7449846 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7449799 AGTTTGTAAG
* *
7449809 TTCCCTTCCTTTCCCTTTCC
1 TTCCCTTCCCTCCCCTTTCC
7449829 TTCCCTTCCCTCCCCTTT
1 TTCCCTTCCCTCCCCTTT
7449847 TCCCTTTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (20 bp):
TTCCCTTCCCTCCCCTTTCC
Found at i:7450004 original size:4 final size:4
Alignment explanation
Indices: 7449995--7450045 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
7449985 CCCATCTCAT
7449995 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7450043 ATA
1 ATA
7450046 TCATGAAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:7450785 original size:3 final size:3
Alignment explanation
Indices: 7450777--7450807 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
7450767 TCAAGCTCTG
*
7450777 ATC ATC ATC ATC ATC ATC ATC CTC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
7450808 ACTTTCTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:7455358 original size:21 final size:23
Alignment explanation
Indices: 7455311--7455359 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
7455301 TAAAGTCTAT
* * *
7455311 TATAAGTTATAATAATATTTATG
1 TATAAATTATAATAATATGTATA
7455334 TATAAATTA-AAT-ATATGTATA
1 TATAAATTATAATAATATGTATA
7455355 TATAA
1 TATAA
7455360 TATATGACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 12 0.52
22 3 0.13
23 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (23 bp):
TATAAATTATAATAATATGTATA
Found at i:7455565 original size:218 final size:218
Alignment explanation
Indices: 7455187--7455582 Score: 630
Period size: 218 Copynumber: 1.8 Consensus size: 218
7455177 NNNNNNNAAA
* * * *
7455187 TTATATGTTAAAATGTTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAATAATATATTA
1 TTATATGTTAAAATATTTTATATCAAAATTTCTATAAATAATAACTAATTATAAACAATATATTA
* * * *
7455252 TAAAATCTAAGGTGATAACTAATAAAATTATTAATTGTAATGATATAAATAAAGTCTATTATAAG
66 TAAAATCTAAGGTGATAACTAATAAAATTATTAAATGTAATCATAAAAATAAAGTCTATTATAAA
* *
7455317 TTATAATAATATTTATGTATAAATTAAATATATGTATATATAATATATGACTTTATTATATATAT
131 TTATAATAATACTTATATATAAATTAAATATATGTATATATAATATATGACTTTATTATATATAT
7455382 ATATATGAAATTAATGACATAAC
196 ATATATGAAATTAATGACATAAC
7455405 TTATATGTTAAAATATTTTATATCAAAATTTCTATAAATAATAACTAATTATAAACAATATATTA
1 TTATATGTTAAAATATTTTATATCAAAATTTCTATAAATAATAACTAATTATAAACAATATATTA
* * *
7455470 TAAAATCTAAGGTGATAACTAATACAATTATTAAATGTAATCTTAAAAATAAAGTTTATTATAAA
66 TAAAATCTAAGGTGATAACTAATAAAATTATTAAATGTAATCATAAAAATAAAGTCTATTATAAA
** * * *
7455535 TTATGGTAATGCTTATATATAAATTAAATATATTTGTATATAATATAT
131 TTATAATAATACTTATATATAAATTAAATATATGTATATATAATATAT
7455583 TTATACAATT
Statistics
Matches: 160, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
218 160 1.00
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (218 bp):
TTATATGTTAAAATATTTTATATCAAAATTTCTATAAATAATAACTAATTATAAACAATATATTA
TAAAATCTAAGGTGATAACTAATAAAATTATTAAATGTAATCATAAAAATAAAGTCTATTATAAA
TTATAATAATACTTATATATAAATTAAATATATGTATATATAATATATGACTTTATTATATATAT
ATATATGAAATTAATGACATAAC
Found at i:7457907 original size:14 final size:14
Alignment explanation
Indices: 7457885--7457949 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
7457875 CAAAAAACCA
*
7457885 AATAAATTTATTAT
1 AATATATTTATTAT
7457899 AATATATTTA-TAT
1 AATATATTTATTAT
7457912 ATATATATTAATATCTAT
1 A-ATATATT--TAT-TAT
*
7457930 AATAT-TTTTTTAT
1 AATATATTTATTAT
7457943 -ATATATT
1 AATATATT
7457950 AAGAAGAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
12 4 0.09
13 9 0.21
14 18 0.42
16 4 0.09
17 4 0.09
18 4 0.09
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (14 bp):
AATATATTTATTAT
Found at i:7458324 original size:67 final size:68
Alignment explanation
Indices: 7458248--7458375 Score: 213
Period size: 67 Copynumber: 1.9 Consensus size: 68
7458238 TATAAACATT
* *
7458248 ATATATTTAATTTATACATAAGCATTATTGTAACTTATGATAAATTTTATTNATAT-ATTATATA
1 ATATATTTAATTTATACATAAGCATTATTATAACTTATGATAAATTTTATTTATATGATTATATA
7458312 TAC
66 TAC
* *
7458315 ATATATTTAATTTATACATAAGTATTATTATAATTTATGATAAATTTTATTTATATGATTA
1 ATATATTTAATTTATACATAAGCATTATTATAACTTATGATAAATTTTATTTATATGATTA
7458376 CACTTAATAA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
67 52 0.93
68 4 0.07
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (68 bp):
ATATATTTAATTTATACATAAGCATTATTATAACTTATGATAAATTTTATTTATATGATTATATA
TAC
Found at i:7458349 original size:23 final size:22
Alignment explanation
Indices: 7458251--7458352 Score: 75
Period size: 23 Copynumber: 4.5 Consensus size: 22
7458241 AAACATTATA
*
7458251 TATTTAATTTATACATAAGCAT
1 TATTTAATTTATACATAAGTAT
* * * *
7458273 TATTGTAACTTAT-GATAAATTT
1 TATT-TAATTTATACATAAGTAT
* *
7458295 TATTNATATATTATATATACA-TA-
1 TATTTA-AT-TTATACATA-AGTAT
7458318 TATTTAATTTATACATAAGTAT
1 TATTTAATTTATACATAAGTAT
7458340 TATTATAATTTAT
1 TATT-TAATTTAT
7458353 GATAAATTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
20 1 0.02
21 11 0.18
22 20 0.33
23 24 0.39
24 4 0.07
25 1 0.02
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.50
Consensus pattern (22 bp):
TATTTAATTTATACATAAGTAT
Found at i:7458369 original size:23 final size:22
Alignment explanation
Indices: 7458272--7458365 Score: 68
Period size: 22 Copynumber: 4.2 Consensus size: 22
7458262 TACATAAGCA
* *
7458272 TTATTGTAACTTATGATAAATT
1 TTATTATAATTTATGATAAATT
*
7458294 TTATTNATATATTATAT-ATACA-T
1 TTATT-ATA-ATT-TATGATAAATT
* * * *
7458317 ATATT-TAATTTATACATAAGTA
1 TTATTATAATTTAT-GATAAATT
7458339 TTATTATAATTTATGATAAATT
1 TTATTATAATTTATGATAAATT
7458361 TTATT
1 TTATT
7458366 TATATGATTA
Statistics
Matches: 54, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
19 3 0.06
20 3 0.06
21 5 0.09
22 19 0.35
23 15 0.28
24 6 0.11
25 3 0.06
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.52
Consensus pattern (22 bp):
TTATTATAATTTATGATAAATT
Found at i:7458532 original size:19 final size:17
Alignment explanation
Indices: 7458508--7458546 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
7458498 TAATAAAGTA
7458508 ATATATTTTATATATATAC
1 ATATA-TTTA-ATATATAC
*
7458527 ATATATTTAATTTATAC
1 ATATATTTAATATATAC
7458544 ATA
1 ATA
7458547 AGTATTACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 4 0.21
19 5 0.26
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATATTTAATATATAC
Found at i:7458533 original size:212 final size:216
Alignment explanation
Indices: 7458306--7458766 Score: 636
Period size: 212 Copynumber: 2.1 Consensus size: 216
7458296 ATTNATATAT
* * *
7458306 TATATATACATATATTTAATTTATACATAAGTATTATTATAATTTATGATAAATTTTATTTATAT
1 TATATATACATATATTTAATTTATACATAAGTATTACTATAATTTATAATAAACTTTATTTATAT
* *
7458371 GATTACACTTAAT-AATTTTATTAATTATCACCTTATTTTTTATAAC-ATATTATTTGTAATTAG
66 GATTACACTTAATAAATTTT-TTAATTATCACCTTAATTTTTATAACAATATTATTTATAATTAG
7458434 CT-ATTATTTATACAAACTTTG-AT-A-TAAAATATTATAACATATAAATTGTATCATTAA-TTA
130 -TGATTATTTATACAAACTTTGAATAATTAAAATATTATAACATATAAATTGTATCATTAATTTA
7458494 TAT-ATAATAAAGTAATATATTTTA
194 TATAATAATAAAGTAATATA--TTA
*
7458518 TATATATACATATATTTAATTTATACATAAGTATTACTATAATTTATAATAGACTTTATTTATAT
1 TATATATACATATATTTAATTTATACATAAGTATTACTATAATTTATAATAAACTTTATTTATAT
* ** * * *
7458583 GATTACACTTAATAAATTTTTTAGTTATTGCTTTAATTTTTATAACATATATTGTTTATAATTTG
66 GATTACACTTAATAAATTTTTTAATTATCACCTTAATTTTTATAACA-ATATTATTTATAATTAG
*
7458648 TGATTATTTATACAAACTTTGATATAAAAATTAAAATATTATAATATATAAATTGTATCATTAAT
130 TGATTATTTATACAAACTTTGA-AT---AATTAAAATATTATAACATATAAATTGTATCATTAA-
*
7458713 TTTATATAATAATAAAGTAATATATTC
190 TTTATATAATAATAAAGTAATATATTA
7458740 TATATAT-C-TATATTTAATTTATACATA
1 TATATATACATATATTTAATTTATACATA
7458767 TTATAATTAT
Statistics
Matches: 221, Mismatches: 14, Indels: 20
0.87 0.05 0.08
Matches are distributed among these distances:
212 95 0.43
213 7 0.03
214 33 0.15
216 2 0.01
220 20 0.09
221 33 0.15
222 9 0.04
223 6 0.03
224 16 0.07
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (216 bp):
TATATATACATATATTTAATTTATACATAAGTATTACTATAATTTATAATAAACTTTATTTATAT
GATTACACTTAATAAATTTTTTAATTATCACCTTAATTTTTATAACAATATTATTTATAATTAGT
GATTATTTATACAAACTTTGAATAATTAAAATATTATAACATATAAATTGTATCATTAATTTATA
TAATAATAAAGTAATATATTA
Found at i:7464729 original size:66 final size:66
Alignment explanation
Indices: 7464647--7464782 Score: 245
Period size: 66 Copynumber: 2.1 Consensus size: 66
7464637 GCAACAGAAA
* * *
7464647 CTTAACTATGCATAATCCTTTTCACATCTATGTTAAGAAAATAAAGCACTAGAGTTAAGTCCATG
1 CTTAACTATGCATAATCCTTTTCACAACTATGTGAAGAAAATAAAGCAATAGAGTTAAGTCCATG
7464712 C
66 C
7464713 CTTAACTATGCATAATCCTTTTCACAACTATGTGAAGAAAATAAAGCAATAGAGTTAAGTCCATG
1 CTTAACTATGCATAATCCTTTTCACAACTATGTGAAGAAAATAAAGCAATAGAGTTAAGTCCATG
7464778 C
66 C
7464779 CTTA
1 CTTA
7464783 TTAATACAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (66 bp):
CTTAACTATGCATAATCCTTTTCACAACTATGTGAAGAAAATAAAGCAATAGAGTTAAGTCCATG
C
Found at i:7466006 original size:20 final size:21
Alignment explanation
Indices: 7465973--7466011 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
7465963 TACATTCTTA
7465973 AAAAAAAAACGAAAGAAAGCC
1 AAAAAAAAACGAAAGAAAGCC
*
7465994 AAAAAGAAA-GAAAGAAAG
1 AAAAAAAAACGAAAGAAAG
7466012 AGAAAGAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.74, C:0.08, G:0.18, T:0.00
Consensus pattern (21 bp):
AAAAAAAAACGAAAGAAAGCC
Found at i:7468278 original size:11 final size:11
Alignment explanation
Indices: 7468260--7468306 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
7468250 AAATTGAGAT
7468260 TTAATTTTTTG
1 TTAATTTTTTG
*
7468271 TTAGTTTTTT-
1 TTAATTTTTTG
7468281 TTAATTTTTTG
1 TTAATTTTTTG
7468292 TT-ATTATTTT-
1 TTAATT-TTTTG
7468302 TTAAT
1 TTAAT
7468307 ATTAATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
10 14 0.45
11 17 0.55
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (11 bp):
TTAATTTTTTG
Found at i:7468284 original size:21 final size:21
Alignment explanation
Indices: 7468259--7468306 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
7468249 AAAATTGAGA
7468259 TTTAATTTTTTGTTAGTT-TTT
1 TTTAATTTTTTGTTA-TTATTT
7468280 TTTAATTTTTTGTTATTATTT
1 TTTAATTTTTTGTTATTATTT
7468301 TTTAAT
1 TTTAAT
7468307 ATTAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (21 bp):
TTTAATTTTTTGTTATTATTT
Found at i:7468312 original size:27 final size:29
Alignment explanation
Indices: 7468281--7468335 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
7468271 TTAGTTTTTT
* *
7468281 TTAATTTTTTGTT-ATTAT-TTTTTAATA
1 TTAATTTTTTATTGATTATATTTATAATA
7468308 TTAATTTTTTATTGATTATATTTATAAT
1 TTAATTTTTTATTGATTATATTTATAAT
7468336 TTTTTTATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 12 0.50
28 5 0.21
29 7 0.29
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (29 bp):
TTAATTTTTTATTGATTATATTTATAATA
Found at i:7468314 original size:14 final size:14
Alignment explanation
Indices: 7468281--7468318 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
7468271 TTAGTTTTTT
**
7468281 TTAATTTTTTGTTA
1 TTAATTTTTTAATA
7468295 TT-ATTTTTTAATA
1 TTAATTTTTTAATA
7468308 TTAATTTTTTA
1 TTAATTTTTTA
7468319 TTGATTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (14 bp):
TTAATTTTTTAATA
Found at i:7468595 original size:26 final size:26
Alignment explanation
Indices: 7468555--7468604 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
7468545 AAATAATATT
7468555 TTAATTATTATTTTTATTAATATAAA
1 TTAATTATTATTTTTATTAATATAAA
*
7468581 TTAATT-TTATATTTTATTTATATA
1 TTAATTATTAT-TTTTATTAATATA
7468605 TAAAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
TTAATTATTATTTTTATTAATATAAA
Found at i:7468614 original size:28 final size:26
Alignment explanation
Indices: 7468557--7468614 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
7468547 ATAATATTTT
**
7468557 AATTATTATTTTTATTAATATAAATT
1 AATTATTATTTTTATTAATATAAAAA
7468583 AATT-TTATATTTTATTTATATATAAAAA
1 AATTATTAT-TTTTA-TTA-ATATAAAAA
7468611 AATT
1 AATT
7468615 GTACCCGACG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 4 0.15
26 9 0.33
27 3 0.11
28 11 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
AATTATTATTTTTATTAATATAAAAA
Found at i:7468614 original size:32 final size:32
Alignment explanation
Indices: 7468552--7468614 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
7468542 TATAAATAAT
* *
7468552 ATTTTAATTATTATTTTTATTAATATAAATTA
1 ATTTTAATTATTATTTATATTAATAAAAATTA
7468584 ATTTTATATT-TTATTTATATATAA-AAAAATT
1 ATTTTA-ATTATTATTTATAT-TAATAAAAATT
7468615 GTACCCGACG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 21 0.78
33 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (32 bp):
ATTTTAATTATTATTTATATTAATAAAAATTA
Found at i:7469005 original size:16 final size:16
Alignment explanation
Indices: 7468993--7469026 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7468983 TATAATACAA
7468993 AATTACATAAATAAAT
1 AATTACATAAATAAAT
*
7469009 ATTTACATAAATATAAT
1 AATTACATAAATA-AAT
7469026 A
1 A
7469027 TCATAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTACATAAATAAAT
Found at i:7483555 original size:2 final size:2
Alignment explanation
Indices: 7483548--7483572 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7483538 TTCGAGACAC
7483548 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
7483573 CCGAAGAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7486184 original size:17 final size:17
Alignment explanation
Indices: 7486162--7486194 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7486152 GGAAATAAAT
*
7486162 TATTATATAGAAAAAAG
1 TATTATAGAGAAAAAAG
7486179 TATTATAGAGAAAAAA
1 TATTATAGAGAAAAAA
7486195 TTTAATAAAC
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:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (17 bp):
TATTATAGAGAAAAAAG
Found at i:7489475 original size:10 final size:10
Alignment explanation
Indices: 7489460--7489489 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
7489450 CTTGTCATTT
7489460 AATTGAAACA
1 AATTGAAACA
*
7489470 AATTGAAAAA
1 AATTGAAACA
7489480 AATTGAAACA
1 AATTGAAACA
7489490 TCCTACTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.63, C:0.07, G:0.10, T:0.20
Consensus pattern (10 bp):
AATTGAAACA
Found at i:7491425 original size:15 final size:15
Alignment explanation
Indices: 7491405--7491444 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
7491395 TTTTTTTAAT
7491405 TATAATAAAATATAA
1 TATAATAAAATATAA
7491420 TATAATATAAA-ATAA
1 TATAATA-AAATATAA
7491435 T-TAA-AAAATA
1 TATAATAAAATA
7491445 AAGAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.13
13 2 0.09
14 3 0.13
15 12 0.52
16 3 0.13
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TATAATAAAATATAA
Found at i:7492532 original size:2 final size:2
Alignment explanation
Indices: 7492525--7492555 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7492515 GTTTAGAAGA
7492525 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7492556 ATAAGTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7498543 original size:218 final size:216
Alignment explanation
Indices: 7498284--7498741 Score: 546
Period size: 218 Copynumber: 2.1 Consensus size: 216
7498274 TAAACATGAT
* * * * * *
7498284 ATATATTTAATTTTTATATTAGTATTATTATAAGTTATAATAAACTTTATTTATATAATTACACT
1 ATATATTTAATTTATACATAAGTACTACTATAACTTATAATAAACTTTATTTATATAATTACACT
* * * *
7498349 TAATAACCTTATTAATTATTACCTTAGTTTTTATAACATATTGTTTATAATTAATTATTATTTAT
66 TAATAACCTTATTAATAATCACCTTAATTTTTATAACATATTGTTTATAATTAATTATTATATAT
* * *
7498414 ACAAACTTT-A-AT-A-TAAAATATTATAATATATAAGTTGTGTCATTAATTATATATATATATA
131 ACAAACTTTGATATAATTAAAATATTATAACATATAAGTTGTGTCATTAA-T-T-T-CACATATA
*
7498475 TAATAAAGTAATATGTTATATATATAC
192 TAATAAAGTAATAT-AT-TATATATAC
* * * * *
7498502 ATGTATTTAATTTATAGATAAGTACTACTATAACTTATAATAGATTTTATTTATATGATTACACT
1 ATATATTTAATTTATACATAAGTACTACTATAACTTATAATAAACTTTATTTATATAATTACACT
* ** * * *** *
7498567 TAGTAATTTTTTTAGTAATCGTTTTAATTTTTATAACATATTGTTTATAATTAGTTATTATATAT
66 TAATAACCTTATTAATAATCACCTTAATTTTTATAACATATTGTTTATAATTAATTATTATATAT
7498632 ACAAACTTTGATATAAAAATTAAAATATTATAACATATAAGTTGTGTCATTAATTTCACATATAT
131 ACAAACTTTGATAT---AATTAAAATATTATAACATATAAGTTGTGTCATTAATTTCACATATAT
7498697 AATAAAGTAATATATTATATATAC
193 AATAAAGTAATATATTATATATAC
*
7498721 TTATATTTAATTTATACATAA
1 ATATATTTAATTTATACATAA
7498742 TTTGTATATA
Statistics
Matches: 203, Mismatches: 30, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
218 116 0.57
219 28 0.14
220 3 0.01
221 20 0.10
222 1 0.00
223 1 0.00
224 2 0.01
225 32 0.16
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (216 bp):
ATATATTTAATTTATACATAAGTACTACTATAACTTATAATAAACTTTATTTATATAATTACACT
TAATAACCTTATTAATAATCACCTTAATTTTTATAACATATTGTTTATAATTAATTATTATATAT
ACAAACTTTGATATAATTAAAATATTATAACATATAAGTTGTGTCATTAATTTCACATATATAAT
AAAGTAATATATTATATATAC
Found at i:7501379 original size:8 final size:8
Alignment explanation
Indices: 7501334--7501393 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
7501324 ATTATTAGTA
7501334 ATTAAATT
1 ATTAAATT
7501342 ATT-AATT
1 ATTAAATT
* *
7501349 -TTATATA
1 ATTAAATT
7501356 ATTAAATAT
1 ATTAAAT-T
*
7501365 ATAAAATT
1 ATTAAATT
7501373 ATTAAATT
1 ATTAAATT
7501381 AATTAAAATT
1 -ATT-AAATT
7501391 ATT
1 ATT
7501394 TTTTTGGTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
6 2 0.05
7 6 0.15
8 16 0.39
9 12 0.29
10 5 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTAAATT
Found at i:7520571 original size:21 final size:22
Alignment explanation
Indices: 7520537--7520577 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
7520527 TTATATTAAC
**
7520537 AGTTTTTATTGTTAA-ATTTTT
1 AGTTTTTACCGTTAAGATTTTT
7520558 AGTTTTTACCGTTAAGATTT
1 AGTTTTTACCGTTAAGATTT
7520578 AAGATTTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.24, C:0.05, G:0.12, T:0.59
Consensus pattern (22 bp):
AGTTTTTACCGTTAAGATTTTT
Found at i:7523090 original size:22 final size:22
Alignment explanation
Indices: 7523062--7523103 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
7523052 TGTCCTCAGC
7523062 ACTTACGTTTTCAAATACATTT
1 ACTTACGTTTTCAAATACATTT
7523084 ACTTACGTTTTCAAATACAT
1 ACTTACGTTTTCAAATACAT
7523104 CTTTTTCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.43
Consensus pattern (22 bp):
ACTTACGTTTTCAAATACATTT
Found at i:7523823 original size:22 final size:22
Alignment explanation
Indices: 7523769--7523828 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
7523759 GTTTTTAAGC
* * *
7523769 ATTGTGTCACTGATTTTTAGAT
1 ATTGTGTGACTGAATTTTAAAT
* *
7523791 ATTATGAGACTGAATTTTAAAT
1 ATTGTGTGACTGAATTTTAAAT
*
7523813 ATTGTGTGACTTAATT
1 ATTGTGTGACTGAATT
7523829 ATTGCGTCTC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.47
Consensus pattern (22 bp):
ATTGTGTGACTGAATTTTAAAT
Found at i:7524592 original size:33 final size:33
Alignment explanation
Indices: 7524541--7524623 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
7524531 TAATGTCATG
* * *
7524541 TATTTTATTTTCAATTCTTGTTATA-ATCTTATA
1 TATTTTATTTTTATTTCTT-TAATATATCTTATA
* *
7524574 TATTTTATTTTTATTTCTTTAATATATTTTTTA
1 TATTTTATTTTTATTTCTTTAATATATCTTATA
*
7524607 TATTATATATTTTATTT
1 TATTTTAT-TTTTATTT
7524624 TAATTATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
32 4 0.10
33 30 0.71
34 8 0.19
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.67
Consensus pattern (33 bp):
TATTTTATTTTTATTTCTTTAATATATCTTATA
Found at i:7524613 original size:14 final size:14
Alignment explanation
Indices: 7524569--7524634 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
7524559 TGTTATAATC
*
7524569 TTATATATTTTAT-
1 TTATATTTTTTATA
*
7524582 TTTTATTTCTTTA-A
1 TTATATTT-TTTATA
7524596 -TATATTTTTTATA
1 TTATATTTTTTATA
* *
7524609 TTATATATTTTATT
1 TTATATTTTTTATA
7524623 TTA-ATTATTTTA
1 TTATATT-TTTTA
7524635 CCTATATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
12 4 0.10
13 15 0.36
14 23 0.55
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATATTTTTTATA
Found at i:7524646 original size:30 final size:27
Alignment explanation
Indices: 7524599--7524718 Score: 79
Period size: 24 Copynumber: 4.3 Consensus size: 27
7524589 TCTTTAATAT
7524599 ATTTTTTA-TAT-TATATATTTTATTTTA
1 ATTTTTTACTATAT-TATA-TTTATTTTA
**
7524626 ATTATTTTACCTATATTATATAAATTTTA
1 ATT-TTTTA-CTATATTATATTTATTTTA
*
7524655 ATTTCTTA-TAT-TT-TATTTATTTTA
1 ATTTTTTACTATATTATATTTATTTTA
*
7524679 ATTTTTAATTCTTATATTATATATTTATTTTA
1 ATTTTT--TAC-TATA-T-TATATTTATTTTA
7524711 ATATTTTT
1 AT-TTTTT
7524719 TATTTTAAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 22
0.72 0.07 0.22
Matches are distributed among these distances:
24 14 0.19
25 2 0.03
26 4 0.05
27 3 0.04
28 12 0.16
29 10 0.14
30 8 0.11
31 3 0.04
32 13 0.18
33 4 0.05
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (27 bp):
ATTTTTTACTATATTATATTTATTTTA
Found at i:7524709 original size:32 final size:32
Alignment explanation
Indices: 7524649--7524717 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
7524639 TATTATATAA
7524649 ATTTTAATTTCTTATATTTTATTTATTTTAAT
1 ATTTTAATTTCTTATATTTTATTTATTTTAAT
7524681 -TTTTAA-TTCTTATATTATATATTTATTTTAAT
1 ATTTTAATTTCTTATATT-T-TATTTATTTTAAT
7524713 ATTTT
1 ATTTT
7524718 TTATTTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
30 10 0.29
31 7 0.21
32 13 0.38
33 4 0.12
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (32 bp):
ATTTTAATTTCTTATATTTTATTTATTTTAAT
Found at i:7525172 original size:13 final size:15
Alignment explanation
Indices: 7525124--7525172 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
7525114 TAAATATATG
* *
7525124 AATTAATTTAATTAA
1 AATTAATTTTATTTA
*
7525139 AAATAATTTTATTTA
1 AATTAATTTTATTTA
7525154 AATTAATTTT-TTT-
1 AATTAATTTTATTTA
7525167 AATTAA
1 AATTAA
7525173 AAATAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 6 0.20
14 3 0.10
15 21 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATTAATTTTATTTA
Found at i:7531535 original size:12 final size:12
Alignment explanation
Indices: 7531520--7531559 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
7531510 CATTTTATGG
*
7531520 TTATTTATTTAA
1 TTATTTATATAA
7531532 TTATTTATAT-A
1 TTATTTATATAA
7531543 TTAATTTATATAA
1 TT-ATTTATATAA
7531556 TTAT
1 TTAT
7531560 ATATGCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 3 0.12
12 19 0.76
13 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATTTATATAA
Found at i:7531791 original size:23 final size:21
Alignment explanation
Indices: 7531749--7531792 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
7531739 TATAGAGGAC
*
7531749 AAAAAAAAAACAAAATTGAAA
1 AAAAAAAAAACAAAAGTGAAA
*
7531770 AAAAAAATAAAGAAGAAGTGAAA
1 AAAAAAA-AAACAA-AAGTGAAA
7531793 TTAGGTCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 5 0.26
23 7 0.37
ACGTcount: A:0.77, C:0.02, G:0.11, T:0.09
Consensus pattern (21 bp):
AAAAAAAAAACAAAAGTGAAA
Found at i:7535960 original size:39 final size:38
Alignment explanation
Indices: 7535900--7535974 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
7535890 TAATCTCTTA
* *
7535900 AATATATTTTTAATGTCATATATTTTATTTTTATTTTT
1 AATATATTTTTAATATCATATATTTTATTTTAATTTTT
* *
7535938 AATATAATTTTTTATATTATATATTTTATTTTAATTT
1 AATAT-ATTTTTAATATCATATATTTTATTTTAATTT
7535975 CTTTTACTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 5 0.16
39 27 0.84
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (38 bp):
AATATATTTTTAATATCATATATTTTATTTTAATTTTT
Found at i:7536044 original size:55 final size:57
Alignment explanation
Indices: 7535942--7536048 Score: 150
Period size: 55 Copynumber: 1.9 Consensus size: 57
7535932 ATTTTTAATA
* *
7535942 TAATTTTTTATATTATATATTTTATTTTAATTTCTTTTACTTGTATTATATAAATTT
1 TAATTTCTTATATTATATATTTTATTTTAATTTCTTTTACTTATATTATATAAATTT
7535999 TAATTTCTTATA-T-TATATTTTATTTTAATTT-TTAATT-CTTATATTATATA
1 TAATTTCTTATATTATATATTTTATTTTAATTTCTT--TTACTTATATTATATA
7536049 TTTTATTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
54 2 0.04
55 30 0.65
56 3 0.07
57 11 0.24
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (57 bp):
TAATTTCTTATATTATATATTTTATTTTAATTTCTTTTACTTATATTATATAAATTT
Found at i:7536054 original size:33 final size:34
Alignment explanation
Indices: 7535995--7536083 Score: 116
Period size: 33 Copynumber: 2.7 Consensus size: 34
7535985 TATTATATAA
7535995 ATTTTAATTTCTTATA-T-TATATTTTATTTTAAT
1 ATTTTAA-TTCTTATATTATATATTTTATTTTAAT
7536028 -TTTTAATTCTTATATTATATATTTTATTTTAAT
1 ATTTTAATTCTTATATTATATATTTTATTTTAAT
*
7536061 ATTTTTATT-TTA-ATTATAATATT
1 ATTTTAATTCTTATATTAT-ATATT
7536084 ATAAAATGTT
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
31 8 0.16
32 12 0.24
33 24 0.47
34 7 0.14
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.66
Consensus pattern (34 bp):
ATTTTAATTCTTATATTATATATTTTATTTTAAT
Found at i:7536080 original size:20 final size:21
Alignment explanation
Indices: 7536028--7536086 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
7536018 TTATTTTAAT
* *
7536028 TTTTAATTCTTATATTATATA
1 TTTTAATTATAATATTATATA
* *
7536049 TTTT-ATTTTAATATT-TTTA
1 TTTTAATTATAATATTATATA
7536068 TTTTAATTATAATATTATA
1 TTTTAATTATAATATTATA
7536087 AAATGTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 7 0.23
20 19 0.61
21 5 0.16
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTAATTATAATATTATATA
Found at i:7537609 original size:27 final size:27
Alignment explanation
Indices: 7537579--7537637 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
7537569 TTGCGTTTAA
* *
7537579 AACACCCCTGGGTGTTTCCATGCTTGG
1 AACACCCCTAGGCGTTTCCATGCTTGG
* *
7537606 AACA-CCCTAGGCGTTTCTATGTTTGG
1 AACACCCCTAGGCGTTTCCATGCTTGG
7537632 AACACC
1 AACACC
7537638 TTTGAGCGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (27 bp):
AACACCCCTAGGCGTTTCCATGCTTGG
Found at i:7539239 original size:39 final size:41
Alignment explanation
Indices: 7539187--7539266 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 41
7539177 GTACATGTAT
7539187 ACGTTTAATAAACGTGT-A-ACACGACACAACACGATTAAC
1 ACGTTTAATAAACGTGTAATACACGACACAACACGATTAAC
* * *
7539226 ACGTTTATTAAACGTGTCAATATACGACACGACACGATTAA
1 ACGTTTAATAAACGTGT-AATACACGACACAACACGATTAA
7539267 TAACACGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
39 16 0.46
41 1 0.03
42 18 0.51
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (41 bp):
ACGTTTAATAAACGTGTAATACACGACACAACACGATTAAC
Found at i:7539673 original size:18 final size:18
Alignment explanation
Indices: 7539647--7539692 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
7539637 TATCACGTAT
* * *
7539647 ACACATTTAAATACGATA
1 ACACGTTTAAACACAATA
7539665 ACACGTTTAAACACAATA
1 ACACGTTTAAACACAATA
*
7539683 ACACGATTAA
1 ACACGTTTAA
7539693 GTAAACGTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.24
Consensus pattern (18 bp):
ACACGTTTAAACACAATA
Found at i:7555021 original size:69 final size:69
Alignment explanation
Indices: 7554895--7555030 Score: 168
Period size: 69 Copynumber: 2.0 Consensus size: 69
7554885 AATCTTCTTC
* * * *
7554895 AAGGGAAAAGAGCACCGATTTAATGTTTCTCAAAGGAGGGAAGCACTAGGATTGATGCTCTCCCA
1 AAGGGAAAAGAGCACCGATTTAATGCTCCTCAAAGGAGGGAAGCACGAGGATCGATGCTCTCCCA
7554960 AGAG
66 AGAG
* * * *
7554964 AAGGGAAGAGAGCACCGATTTAATGCTCCTCAAGGGAGAGG-AGCGTCGA-GATCGATGCTTTCC
1 AAGGGAAAAGAGCACCGATTTAATGCTCCTCAAAGGAG-GGAAGC-ACGAGGATCGATGCTCTCC
7555027 CAAG
64 CAAG
7555031 GGACTGGAGC
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
69 53 0.93
70 4 0.07
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.19
Consensus pattern (69 bp):
AAGGGAAAAGAGCACCGATTTAATGCTCCTCAAAGGAGGGAAGCACGAGGATCGATGCTCTCCCA
AGAG
Found at i:7559021 original size:8 final size:8
Alignment explanation
Indices: 7559012--7559042 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
7559002 ATATTAACAT
*
7559012 ATATATAT
1 ATATATAG
7559020 ATATATAG
1 ATATATAG
7559028 ATATATAG
1 ATATATAG
7559036 ATATATA
1 ATATATA
7559043 AATCTTAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (8 bp):
ATATATAG
Found at i:7569157 original size:23 final size:23
Alignment explanation
Indices: 7569127--7569179 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
7569117 TTGTGATAGA
7569127 AAAAGGAAGCATTGCAAACAAGT
1 AAAAGGAAGCATTGCAAACAAGT
7569150 AAAAGGAAGCATTGCAAACAAGT
1 AAAAGGAAGCATTGCAAACAAGT
7569173 AAAAGGA
1 AAAAGGA
7569180 TGCACCGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.55, C:0.11, G:0.23, T:0.11
Consensus pattern (23 bp):
AAAAGGAAGCATTGCAAACAAGT
Found at i:7569554 original size:29 final size:29
Alignment explanation
Indices: 7569521--7569622 Score: 159
Period size: 29 Copynumber: 3.5 Consensus size: 29
7569511 AGAAAAGATA
*
7569521 TATACAAGAAAAGGTACAAGAGAAGAAGC
1 TATACAAGAATAGGTACAAGAGAAGAAGC
7569550 TATACAAGAATAGGTACAAGAGAAGAAGC
1 TATACAAGAATAGGTACAAGAGAAGAAGC
* *
7569579 TGTACGAGAATAGGTACAAGAGAAGAAGC
1 TATACAAGAATAGGTACAAGAGAAGAAGC
* *
7569608 TGTACATGAATAGGT
1 TATACAAGAATAGGT
7569623 GTACGAGAAC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 68 1.00
ACGTcount: A:0.48, C:0.10, G:0.26, T:0.16
Consensus pattern (29 bp):
TATACAAGAATAGGTACAAGAGAAGAAGC
Found at i:7569583 original size:17 final size:17
Alignment explanation
Indices: 7569534--7569613 Score: 63
Period size: 14 Copynumber: 5.3 Consensus size: 17
7569524 ACAAGAAAAG
7569534 GTACAAGAGAAGAAGCT
1 GTACAAGAGAAGAAGCT
* *
7569551 ATAC-A-AGAA-TAG--
1 GTACAAGAGAAGAAGCT
7569563 GTACAAGAGAAGAAGCT
1 GTACAAGAGAAGAAGCT
*
7569580 GTAC--GAGAA-TAG--
1 GTACAAGAGAAGAAGCT
7569592 GTACAAGAGAAGAAGCT
1 GTACAAGAGAAGAAGCT
7569609 GTACA
1 GTACA
7569614 TGAATAGGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 20
0.64 0.08 0.27
Matches are distributed among these distances:
12 7 0.15
13 1 0.02
14 13 0.28
15 13 0.28
16 1 0.02
17 12 0.26
ACGTcount: A:0.47, C:0.11, G:0.28, T:0.14
Consensus pattern (17 bp):
GTACAAGAGAAGAAGCT
Found at i:7569910 original size:35 final size:35
Alignment explanation
Indices: 7569871--7569978 Score: 121
Period size: 35 Copynumber: 3.1 Consensus size: 35
7569861 GCTTTAGTTA
* * * *
7569871 TTCTAGTTGTTCTGCTTTAAGTAG-TATTCCACTTG
1 TTCTAGTTATTCTGCGTGAAGTAGCGATT-CACTTG
* *
7569906 TTCTAGTTATTTTGCGTGAAGTAGCGCTTCACTTG
1 TTCTAGTTATTCTGCGTGAAGTAGCGATTCACTTG
*
7569941 TTCTAGTTATT-TAGCGTGAAGTAGCAATTCACTTG
1 TTCTAGTTATTCT-GCGTGAAGTAGCGATTCACTTG
7569976 TTC
1 TTC
7569979 AGGTTGTTCT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
34 1 0.02
35 60 0.95
36 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.44
Consensus pattern (35 bp):
TTCTAGTTATTCTGCGTGAAGTAGCGATTCACTTG
Found at i:7570574 original size:67 final size:67
Alignment explanation
Indices: 7570420--7570556 Score: 238
Period size: 67 Copynumber: 2.0 Consensus size: 67
7570410 TGAGGATAAT
*
7570420 TAAAGGAACGAAGGGGAGAAAGATTTGGGCTTTAACTGGGCCTCAAAGTAATGTCGCCGAAGCCC
1 TAAAGCAACGAAGGGGAGAAAGATTTGGGCTTTAACTGGGCCTCAAAGTAATGTCGCCGAAGCCC
7570485 AA
66 AA
* **
7570487 TAAAGCAACGAAGGGGAGAAAGATTTGGGCTTTAACTGGGCCTTAAAGTAATGTCTTCGAAGCCC
1 TAAAGCAACGAAGGGGAGAAAGATTTGGGCTTTAACTGGGCCTCAAAGTAATGTCGCCGAAGCCC
7570552 AA
66 AA
7570554 TAA
1 TAA
7570557 TAAAGCAGAA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (67 bp):
TAAAGCAACGAAGGGGAGAAAGATTTGGGCTTTAACTGGGCCTCAAAGTAATGTCGCCGAAGCCC
AA
Found at i:7572006 original size:25 final size:22
Alignment explanation
Indices: 7571968--7572018 Score: 57
Period size: 25 Copynumber: 2.2 Consensus size: 22
7571958 AAAAAAGTAA
* *
7571968 ATAAAATTTTTTATGATGTGATTG
1 ATAAAATTTATTATAATGT--TTG
7571992 ATAAAATTATATTATAATGTTTG
1 ATAAAATT-TATTATAATGTTTG
7572015 ATAA
1 ATAA
7572019 TAAAAAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.29
24 8 0.33
25 9 0.38
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (22 bp):
ATAAAATTTATTATAATGTTTG
Found at i:7592879 original size:23 final size:24
Alignment explanation
Indices: 7592829--7592881 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
7592819 AAGAGTGGCG
* **
7592829 GAGAGAAAGAGGGGAAGAACGGCT
1 GAGAGAAAGAGGGAAAGAACGGAA
*
7592853 GAGAGAAAGAGGGAAAGGA-GGAA
1 GAGAGAAAGAGGGAAAGAACGGAA
7592876 GAGAGA
1 GAGAGA
7592882 GAGAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.47, C:0.04, G:0.47, T:0.02
Consensus pattern (24 bp):
GAGAGAAAGAGGGAAAGAACGGAA
Found at i:7599080 original size:12 final size:12
Alignment explanation
Indices: 7599063--7599087 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7599053 GATTGCTGAC
7599063 AATGTTGGTGAT
1 AATGTTGGTGAT
7599075 AATGTTGGTGAT
1 AATGTTGGTGAT
7599087 A
1 A
7599088 TAGCTGGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (12 bp):
AATGTTGGTGAT
Found at i:7602892 original size:23 final size:25
Alignment explanation
Indices: 7602866--7602914 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
7602856 ATTTAAAATA
7602866 TTTTCTATT-TGGTTTGAAT-TTAT
1 TTTTCTATTCTGGTTTGAATATTAT
* *
7602889 TTTTTTATTCTGTTTTGAATATTAT
1 TTTTCTATTCTGGTTTGAATATTAT
7602914 T
1 T
7602915 ATATATATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 8 0.36
24 9 0.41
25 5 0.23
ACGTcount: A:0.18, C:0.04, G:0.10, T:0.67
Consensus pattern (25 bp):
TTTTCTATTCTGGTTTGAATATTAT
Found at i:7604115 original size:15 final size:15
Alignment explanation
Indices: 7604092--7604121 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7604082 AACATATTTA
*
7604092 TATTTTTTTAATTAT
1 TATTATTTTAATTAT
7604107 TATTATTTTAATTAT
1 TATTATTTTAATTAT
7604122 GACACCATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTTTAATTAT
Found at i:7604626 original size:42 final size:42
Alignment explanation
Indices: 7604531--7604628 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 42
7604521 ATCATCGGGG
* *
7604531 GAAGAAAAAACATTGCAAGTTATATGCAGAACACTCTTAGGA
1 GAAGAAAAAGCATTGCAAGTTACATGCAGAACACTCTTAGGA
***
7604573 GAAGAAAAAGCATTGCAAGTTACATTTGGAACAC-CTTCAGGA
1 GAAGAAAAAGCATTGCAAGTTACATGCAGAACACTCTT-AGGA
*
7604615 GAAGAAGAAGCATT
1 GAAGAAAAAGCATT
7604629 ATGAGTAGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 3 0.06
42 46 0.94
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.20
Consensus pattern (42 bp):
GAAGAAAAAGCATTGCAAGTTACATGCAGAACACTCTTAGGA
Found at i:7604642 original size:42 final size:42
Alignment explanation
Indices: 7604596--7604690 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
7604586 TGCAAGTTAC
* *
7604596 ATTTGGAACACCT-TCAGGAGAAGAAGAAGCAT-TATGAGTAGT
1 ATTTGGAACACCTCTCA-AAGAAGAAAAAGCATAT-TGAGTAGT
* *
7604638 ATTTGGAACACGTCTCAAAGAAGAAAAAGGATATTGAGTAGT
1 ATTTGGAACACCTCTCAAAGAAGAAAAAGCATATTGAGTAGT
*
7604680 ATTTAGAACAC
1 ATTTGGAACAC
7604691 AAAACATTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 42 0.91
43 4 0.09
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.24
Consensus pattern (42 bp):
ATTTGGAACACCTCTCAAAGAAGAAAAAGCATATTGAGTAGT
Found at i:7604746 original size:70 final size:70
Alignment explanation
Indices: 7604632--7604788 Score: 237
Period size: 70 Copynumber: 2.2 Consensus size: 70
7604622 AAGCATTATG
*
7604632 AGTAGTATTTGGAACACGTCTCAAAGAAGAAAAAGGATATTGAGTAGTATTTAGAACACAAAACA
1 AGTAGTATTTGGAACACCTCTCAAAGAAGAAAAAGGATATTGAGTAGTATTTAGAACACAAAACA
7604697 TTGTA
66 TTGTA
* ***
7604702 AGTAGAATTTGGAACACCTCTTGGAGAAGAAAGAA-GAT-TGTGAGTAGTATTTAGAACACAAAA
1 AGTAGTATTTGGAACACCTCTCAAAGAAGAAA-AAGGATAT-TGAGTAGTATTTAGAACACAAAA
7604765 CATTGTA
64 CATTGTA
7604772 AGTAGTATTTGGAACAC
1 AGTAGTATTTGGAACAC
7604789 TTGCAAAAGA
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
69 1 0.01
70 76 0.96
71 2 0.03
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (70 bp):
AGTAGTATTTGGAACACCTCTCAAAGAAGAAAAAGGATATTGAGTAGTATTTAGAACACAAAACA
TTGTA
Found at i:7604800 original size:70 final size:68
Alignment explanation
Indices: 7604632--7604806 Score: 221
Period size: 70 Copynumber: 2.5 Consensus size: 68
7604622 AAGCATTATG
7604632 AGTAGTATTTGGAACACGTCTCAAAGAAGAAA-AAGGATATTGAGTAGTATTTAGAACACAAAAC
1 AGTAGTATTTGGAACAC-T-TCAAAGAAGAAAGAA-GATATTGAGTAGTATTTAGAACACAAAAC
7604696 ATTGTA
63 ATTGTA
* ***
7604702 AGTAGAATTTGGAACACCTCTTGGAGAAGAAAGAAGAT-TGTGAGTAGTATTTAGAACACAAAAC
1 AGTAGTATTTGGAACA-CT-TCAAAGAAGAAAGAAGATAT-TGAGTAGTATTTAGAACACAAAAC
7604766 ATTGTA
63 ATTGTA
7604772 AGTAGTATTTGGAACACTTGCAAAAGAAG-AAGAAG
1 AGTAGTATTTGGAACACTT-C-AAAGAAGAAAGAAG
7604807 TAGTCTAACT
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
68 1 0.01
69 9 0.10
70 79 0.86
71 3 0.03
ACGTcount: A:0.43, C:0.10, G:0.22, T:0.25
Consensus pattern (68 bp):
AGTAGTATTTGGAACACTTCAAAGAAGAAAGAAGATATTGAGTAGTATTTAGAACACAAAACATT
GTA
Found at i:7607319 original size:2 final size:2
Alignment explanation
Indices: 7607255--7607300 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
7607245 ATATATAAGA
7607255 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7607296 AT AT A
1 AT AT A
7607301 AACTTCAANG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7607357 original size:39 final size:38
Alignment explanation
Indices: 7607275--7607357 Score: 87
Period size: 39 Copynumber: 2.1 Consensus size: 38
7607265 ATATATATAT
*****
7607275 ATATATATATATATATTATATATATAAACTTCAANGTTG
1 ATATATATATATATATTATATATATAAAC-TCAATAAAC
7607314 ATATATATATATATATTATGTATATATAAA-TCAATAAAC
1 ATATATATATATATATTA--TATATATAAACTCAATAAAC
7607353 ATATA
1 ATATA
7607358 CCAAAAAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
39 27 0.73
41 10 0.27
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.42
Consensus pattern (38 bp):
ATATATATATATATATTATATATATAAACTCAATAAAC
Found at i:7608850 original size:40 final size:39
Alignment explanation
Indices: 7608788--7608880 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 39
7608778 TTTAAAGCTT
*
7608788 ATAAACT-AACTTAA-CCCCACTAACTTAAACATGATAA
1 ATAAACTGACCTTAATCCCCACTAACTTAAACATGATAA
* **
7608825 ATAAAACTGACCTTAATCCCTACTAACTTAAATGTGATAA
1 AT-AAACTGACCTTAATCCCCACTAACTTAAACATGATAA
*
7608865 ATAAACTGACTTTAAT
1 ATAAACTGACCTTAAT
7608881 TAAATTTCTT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
37 2 0.04
38 5 0.10
39 19 0.40
40 22 0.46
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.29
Consensus pattern (39 bp):
ATAAACTGACCTTAATCCCCACTAACTTAAACATGATAA
Found at i:7625141 original size:113 final size:111
Alignment explanation
Indices: 7624913--7625152 Score: 320
Period size: 113 Copynumber: 2.1 Consensus size: 111
7624903 AAGTTTCGTT
* * * * *
7624913 GCCTCAGTTTTGAGGAGTTCATTTTAAAGTTTCGGTGCCTCAGTTTTAAGGGGTTCATTTTTTAA
1 GCCTCAGTTTTGAGGAGTTCATTTTAAAGTTTCGGTGCCTCAGCTTTAAGGAGCTCACTTTTAAA
* * * *
7624978 AGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTCTCATT
66 AGTCCCATTGCCTCAGTTTTGAGGAGTTCATTTTAAAAGTCTCATG
* *
7625024 GCCTCAGTTTTGAGGAGTTCATTTTTAAA-TTCTCGTTGCCTCAGCTTTGAGGAGCTCACTTTTA
1 GCCTCAGTTTTGAGGAGTTCA-TTTTAAAGTT-TCGGTGCCTCAGCTTTAAGGAGCTCACTTTTA
* **
7625088 AAAGTTCCCATTGCCTCAGTTTTGAGGAGTTTATTTTAAAAGTCTTGTG
64 AAAG-TCCCATTGCCTCAGTTTTGAGGAGTTCATTTTAAAAGTCTCATG
7625137 GCCTCAGTTTTGAGGA
1 GCCTCAGTTTTGAGGA
7625153 ATTTATATTT
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
111 23 0.21
112 36 0.32
113 53 0.47
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (111 bp):
GCCTCAGTTTTGAGGAGTTCATTTTAAAGTTTCGGTGCCTCAGCTTTAAGGAGCTCACTTTTAAA
AGTCCCATTGCCTCAGTTTTGAGGAGTTCATTTTAAAAGTCTCATG
Found at i:7625158 original size:37 final size:37
Alignment explanation
Indices: 7624902--7625152 Score: 324
Period size: 37 Copynumber: 6.7 Consensus size: 37
7624892 CAAAAAAGAA
*
7624902 AAAGTTTCGTTGCCTCAGTTTTGAGGAGTTCA-TTTT
1 AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
* * * *
7624938 AAAGTTTCGGTGCCTCAGTTTTAAGGGGTTCATTTTTT
1 AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCA-TTTTT
7624976 AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
1 AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
*
7625013 AAAGTCTCATTGCCTCAGTTTTGAGGAGTTCATTTTT
1 AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
* * * *
7625050 AAATTCTCGTTGCCTCAGCTTTGAGGAGCTCACTTTTA
1 AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCA-TTTTT
* * * *
7625088 AAAGTTCCCATTGCCTCAGTTTTGAGGAGTTTATTTTA
1 AAAG-TCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
* *
7625126 AAAGTCTTGTGGCCTCAGTTTTGAGGA
1 AAAGTCTCGTTGCCTCAGTTTTGAGGA
7625153 ATTTATATTT
Statistics
Matches: 188, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
36 29 0.15
37 88 0.47
38 48 0.26
39 23 0.12
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (37 bp):
AAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
Found at i:7625176 original size:2 final size:2
Alignment explanation
Indices: 7625169--7625209 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
7625159 ATTTTTAAAA
7625169 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7625210 CTGTACAGAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7634788 original size:24 final size:24
Alignment explanation
Indices: 7634756--7634809 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
7634746 TTTATAAATT
* *
7634756 AATAATATTTAAATATTTTTTAAA
1 AATAATATTTAAATATTATTAAAA
*
7634780 AATAATATTTGAATATTATTAAAA
1 AATAATATTTAAATATTATTAAAA
7634804 AATAAT
1 AATAAT
7634810 TTATATATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
AATAATATTTAAATATTATTAAAA
Done.