Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 182 of 195
Found at i:31057965 original size:42 final size:42
Alignment explanation
Indices: 31057884--31058017 Score: 164
Period size: 42 Copynumber: 3.1 Consensus size: 42
31057874 TTGCATTATT
* *
31057884 TATTTAATTGTATGATTATATTTAATTTGATTGCATGATTGTTAATA
1 TATTTATTTGTATGATTATA--T--TTT-ATTGCATGATTATTAATA
*
31057931 TATTTATTTGTATGATTATATTTTATTGTATGATTATTAATA
1 TATTTATTTGTATGATTATATTTTATTGCATGATTATTAATA
* *
31057973 TATTTATTTGTGTGATTATATTTGATTGCATGATTA-T-ATA
1 TATTTATTTGTATGATTATATTTTATTGCATGATTATTAATA
31058013 TATTT
1 TATTT
31058018 GCATAAATTA
Statistics
Matches: 81, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
40 8 0.10
41 1 0.01
42 49 0.60
43 3 0.04
45 1 0.01
47 19 0.23
ACGTcount: A:0.30, C:0.01, G:0.12, T:0.57
Consensus pattern (42 bp):
TATTTATTTGTATGATTATATTTTATTGCATGATTATTAATA
Found at i:31057990 original size:24 final size:23
Alignment explanation
Indices: 31057858--31057991 Score: 83
Period size: 23 Copynumber: 6.2 Consensus size: 23
31057848 TAATTGCATG
*
31057858 TTATTAATATATTTATT-TG-CA
1 TTATTAATATATTTATTGTGTGA
* *
31057879 TTATT--TAT-TTAATTGTATGA
1 TTATTAATATATTTATTGTGTGA
* **
31057899 TTA-T-ATTTAATTTGATTGCATGA
1 TTATTAATAT-ATTT-ATTGTGTGA
*
31057922 TTGTTAATATATTTATT-TGT-A
1 TTATTAATATATTTATTGTGTGA
* *
31057943 TGATT-ATAT-TTTATTGTATGA
1 TTATTAATATATTTATTGTGTGA
31057964 TTATTAATATATTTATTTGTGTGA
1 TTATTAATATATTTA-TTGTGTGA
31057988 TTAT
1 TTAT
31057992 ATTTGATTGC
Statistics
Matches: 85, Mismatches: 15, Indels: 23
0.69 0.12 0.19
Matches are distributed among these distances:
18 5 0.06
19 11 0.13
20 12 0.14
21 14 0.16
22 7 0.08
23 17 0.20
24 16 0.19
25 3 0.04
ACGTcount: A:0.30, C:0.01, G:0.10, T:0.58
Consensus pattern (23 bp):
TTATTAATATATTTATTGTGTGA
Found at i:31057994 original size:18 final size:18
Alignment explanation
Indices: 31057929--31058018 Score: 67
Period size: 18 Copynumber: 4.7 Consensus size: 18
31057919 TGATTGTTAA
31057929 TATATTTATTTGTATGAT
1 TATATTTATTTGTATGAT
31057947 TATATTT-TATTGTATGATTATT
1 TATATTTAT-TTGTATG---A-T
*
31057969 AATATATTTATTTGTGTGAT
1 --TATATTTATTTGTATGAT
*
31057989 TATATTTGA-TTGCATGAT
1 TATATTT-ATTTGTATGAT
*
31058007 TATATATATTTG
1 TATATTTATTTG
31058019 CATAAATTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
17 2 0.03
18 37 0.64
19 1 0.02
20 1 0.02
21 2 0.03
22 1 0.02
24 13 0.22
25 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.12, T:0.58
Consensus pattern (18 bp):
TATATTTATTTGTATGAT
Found at i:31058113 original size:18 final size:18
Alignment explanation
Indices: 31058090--31058149 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
31058080 TTTGCTTGGT
31058090 ATGATTTTATATTATTGC
1 ATGATTTTATATTATTGC
* * *
31058108 ATGA-TTTAT-TACATAGT
1 ATGATTTTATAT-TATTGC
*
31058125 ATGATATTATATTATTGC
1 ATGATTTTATATTATTGC
31058143 ATGATTT
1 ATGATTT
31058150 ATTGCATGAT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 1 0.03
17 12 0.39
18 17 0.55
19 1 0.03
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.52
Consensus pattern (18 bp):
ATGATTTTATATTATTGC
Found at i:31058135 original size:35 final size:34
Alignment explanation
Indices: 31058088--31058182 Score: 145
Period size: 35 Copynumber: 2.7 Consensus size: 34
31058078 TTTTTGCTTG
31058088 GTATGATTTTATATTATTGCATGATTTATTACAT
1 GTATGATTTTATATTATTGCATGATTTATTACAT
* *
31058122 AGTATGATATTATATTATTGCATGATTTATTGCAT
1 -GTATGATTTTATATTATTGCATGATTTATTACAT
*
31058157 GATATAATTTTATATTATTGCATGAT
1 G-TATGATTTTATATTATTGCATGAT
31058183 ATGATTTAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
34 1 0.02
35 54 0.98
ACGTcount: A:0.32, C:0.05, G:0.13, T:0.51
Consensus pattern (34 bp):
GTATGATTTTATATTATTGCATGATTTATTACAT
Found at i:31058174 original size:23 final size:24
Alignment explanation
Indices: 31058146--31058203 Score: 91
Period size: 23 Copynumber: 2.5 Consensus size: 24
31058136 TTATTGCATG
*
31058146 ATTTATTGCATGATATAATTTTAT
1 ATTTATTGCATGATATAATTTAAT
*
31058170 A-TTATTGCATGATATGATTTAAT
1 ATTTATTGCATGATATAATTTAAT
31058193 ATTTATTGCAT
1 ATTTATTGCAT
31058204 AATTCATGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 21 0.68
24 10 0.32
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTATTGCATGATATAATTTAAT
Found at i:31064193 original size:26 final size:24
Alignment explanation
Indices: 31064138--31064193 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
31064128 GTTATATTTG
* *
31064138 ATATTA-TTGAAAAATTAAATATT
1 ATATTATTTAAAAAATTAAATATC
*
31064161 ATTTTATTTAAAAAATTAAAATAATC
1 ATATTATTTAAAAAATT-AAAT-ATC
31064187 ATATTAT
1 ATATTAT
31064194 AATAGTTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 5 0.19
24 9 0.35
25 4 0.15
26 8 0.31
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
ATATTATTTAAAAAATTAAATATC
Found at i:31064779 original size:32 final size:33
Alignment explanation
Indices: 31064743--31064820 Score: 92
Period size: 32 Copynumber: 2.4 Consensus size: 33
31064733 TATCATATGT
*
31064743 TATTAT-TTAAAGTTAATCATATTAA-AA-TTAAA
1 TATTATATTAAA-TTAAT-AAATTAATAATTTAAA
*
31064775 TATTATGTT-AATTAATAAATTAATAATTTAAA
1 TATTATATTAAATTAATAAATTAATAATTTAAA
31064807 TATTATATTAAATT
1 TATTATATTAAATT
31064821 TTTAAAATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
30 6 0.15
31 7 0.17
32 21 0.52
33 6 0.15
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (33 bp):
TATTATATTAAATTAATAAATTAATAATTTAAA
Found at i:31064825 original size:28 final size:29
Alignment explanation
Indices: 31064794--31064850 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
31064784 AATTAATAAA
31064794 TTAATAATT-TAAATATTATATTA-AATTT
1 TTAA-AATTATAAATATTATATTATAATTT
*
31064822 TTAAAATTATAAATATTTTATTATAATTT
1 TTAAAATTATAAATATTATATTATAATTT
31064851 AAAAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 4 0.15
28 17 0.65
29 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
TTAAAATTATAAATATTATATTATAATTT
Found at i:31064856 original size:28 final size:26
Alignment explanation
Indices: 31064766--31064860 Score: 59
Period size: 28 Copynumber: 3.4 Consensus size: 26
31064756 TAATCATATT
*
31064766 AAAATTAAATATTATGTTAATTAATAAATTA
1 AAAATTAAATATTA---T-ATT-ATAATTTA
*
31064797 ATAATTTAAATATTATATTA-AATTTTTA
1 A-AAATTAAATATTATATTATAA--TTTA
* *
31064825 AAATTATAAATATTTTATTATAATTTA
1 AAAAT-TAAATATTATATTATAATTTA
31064852 AAAA-TAAAT
1 AAAATTAAAT
31064861 GGTCACATTA
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
25 5 0.09
26 2 0.04
27 12 0.22
28 20 0.36
29 3 0.05
31 1 0.02
32 12 0.22
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (26 bp):
AAAATTAAATATTATATTATAATTTA
Found at i:31065452 original size:20 final size:21
Alignment explanation
Indices: 31065424--31065471 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
31065414 TTTAATTTAA
* **
31065424 TTAATATAT-ATAATTATTTT
1 TTAAAATATGATAATTAAATT
*
31065444 TTAAAATATGATATTTAAATT
1 TTAAAATATGATAATTAAATT
31065465 TTAAAAT
1 TTAAAAT
31065472 TTTAGAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TTAAAATATGATAATTAAATT
Found at i:31066555 original size:13 final size:12
Alignment explanation
Indices: 31066531--31066572 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
31066521 AAAATTTTTT
31066531 TATTTTTT-ATA
1 TATTTTTTAATA
31066542 TATTATTTTAATA
1 TATT-TTTTAATA
31066555 TAATTTTTTAATA
1 T-ATTTTTTAATA
31066568 T-TTTT
1 TATTTT
31066573 AATAGATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 8 0.29
12 4 0.14
13 13 0.46
14 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TATTTTTTAATA
Found at i:31066575 original size:22 final size:25
Alignment explanation
Indices: 31066532--31066576 Score: 69
Period size: 22 Copynumber: 1.9 Consensus size: 25
31066522 AAATTTTTTT
31066532 ATTTTTTATATATTATTTTAATATA
1 ATTTTTTATATATTATTTTAATATA
31066557 ATTTTTTA-ATA-T-TTTTAATA
1 ATTTTTTATATATTATTTTAATA
31066577 GATTTAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 1 0.05
24 3 0.15
25 8 0.40
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
ATTTTTTATATATTATTTTAATATA
Found at i:31070784 original size:33 final size:33
Alignment explanation
Indices: 31070747--31070870 Score: 104
Period size: 36 Copynumber: 3.5 Consensus size: 33
31070737 TAGTTAATAT
*
31070747 ATAAATAAAATTTATTATATAATAAATTAATTC
1 ATAAATAAAATTTATTATATAATAAATTAATTA
* * *
31070780 ATAAATAAAAGTTATTATTATATTAATATTATGAACTA
1 ATAAATAAAA--T-TTATTATA-TAATA-AATTAATTA
* * * *
31070818 AAAAATAAATTTTATTATGATATAATAAACTAATAA
1 ATAAATAAAATTTA-T-T-ATATAATAAATTAATTA
31070854 ATAAATAAAATTTATTA
1 ATAAATAAAATTTATTA
31070871 ATTTATAATT
Statistics
Matches: 70, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
33 11 0.16
34 1 0.01
35 5 0.07
36 26 0.37
37 11 0.16
38 16 0.23
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (33 bp):
ATAAATAAAATTTATTATATAATAAATTAATTA
Found at i:31070902 original size:74 final size:74
Alignment explanation
Indices: 31070758--31070907 Score: 169
Period size: 74 Copynumber: 2.0 Consensus size: 74
31070748 TAAATAAAAT
* * ** *
31070758 TTATTATATAATAAATTAATTCATAAATAAAAGTTATTATTATATTAATATTATGAACTAAAAAA
1 TTATGATATAATAAACTAATAAATAAATAAAAGTTATTATTATATTAATAATATGAACTAAAAAA
*
31070823 TAAATTTTA
66 CAAATTTTA
* ** *
31070832 TTATGATATAATAAACTAATAAATAAATAAAATTTATTAATT-TA-TAATTAATATGAGTTAATA
1 TTATGATATAATAAACTAATAAATAAATAAAAGTTATT-ATTATATTAA-TAATATGAACTAAAA
*
31070895 TACAAATTTTA
64 AACAAATTTTA
31070906 TT
1 TT
31070908 TTAATATCCT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
73 3 0.05
74 57 0.90
75 3 0.05
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (74 bp):
TTATGATATAATAAACTAATAAATAAATAAAAGTTATTATTATATTAATAATATGAACTAAAAAA
CAAATTTTA
Found at i:31073548 original size:48 final size:47
Alignment explanation
Indices: 31073453--31073549 Score: 115
Period size: 48 Copynumber: 2.0 Consensus size: 47
31073443 AATTTTTTTA
* * *
31073453 TTTTTTTAATAACTTTTTTCCTAGATATATTCTATTATTATTGCAAT
1 TTTTTTTAATAACTTTTTTCCAAGATATATTCTATTACTATTACAAT
* * *
31073500 TTTTTGTTTATAATTTTTTTCCAATATATATT-TAATTACTATTACAAT
1 TTTTT-TTAATAACTTTTTTCCAAGATATATTCT-ATTACTATTACAAT
31073548 TT
1 TT
31073550 CATTCTTATG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
47 6 0.14
48 36 0.86
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (47 bp):
TTTTTTTAATAACTTTTTTCCAAGATATATTCTATTACTATTACAAT
Found at i:31074078 original size:34 final size:34
Alignment explanation
Indices: 31074040--31074105 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
31074030 GATTGATCGC
*
31074040 TTATTCAAAATGTGAAAATCGTTTTAAAGATTAT
1 TTATTCAAAATGTCAAAATCGTTTTAAAGATTAT
* *
31074074 TTATTTAAAATGTCAAAATTGTTTTAAAGATT
1 TTATTCAAAATGTCAAAATCGTTTTAAAGATT
31074106 GTGGAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.44
Consensus pattern (34 bp):
TTATTCAAAATGTCAAAATCGTTTTAAAGATTAT
Found at i:31074292 original size:17 final size:17
Alignment explanation
Indices: 31074266--31074301 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
31074256 GAAACTGATC
31074266 TAATTCTATAATTAAAT
1 TAATTCTATAATTAAAT
*
31074283 TAATTTTATAATTAAAT
1 TAATTCTATAATTAAAT
31074300 TA
1 TA
31074302 CTTTAAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATTCTATAATTAAAT
Found at i:31074681 original size:16 final size:16
Alignment explanation
Indices: 31074653--31074700 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
31074643 TCAAAATTAA
31074653 AAATAAT-TATAAAAT
1 AAATAATATATAAAAT
*
31074668 TAATAATATATAAAAT
1 AAATAATATATAAAAT
31074684 AAATAA-ATAATAAAAT
1 AAATAATAT-ATAAAAT
31074700 A
1 A
31074701 TTAATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATAATATATAAAAT
Found at i:31075048 original size:27 final size:27
Alignment explanation
Indices: 31074998--31075050 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
31074988 TTATTATATT
* *
31074998 TATTAAAATATAAGTATTATTTTTAAC
1 TATTAAAATATAAATATTAATTTTAAC
31075025 TATTAAAATATAAA-ATATAATTTTAA
1 TATTAAAATATAAATAT-TAATTTTAA
31075051 TAAAATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (27 bp):
TATTAAAATATAAATATTAATTTTAAC
Found at i:31076547 original size:18 final size:18
Alignment explanation
Indices: 31076526--31076561 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
31076516 TTTAATCGAA
31076526 TTAAATTATATAAATTTT
1 TTAAATTATATAAATTTT
* *
31076544 TTAATTTATATATATTTT
1 TTAAATTATATAAATTTT
31076562 AAGTTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTAAATTATATAAATTTT
Found at i:31076638 original size:26 final size:28
Alignment explanation
Indices: 31076608--31076672 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 28
31076598 AATCTACTTA
* *
31076608 AATATATTAAAATTT-TATATTAAAA-T
1 AATATATTAAAATTTAAAAATTAAAATT
*
31076634 AATATATAAAAATTTAAAAATTAAAATT
1 AATATATTAAAATTTAAAAATTAAAATT
*
31076662 AATAAATTAAA
1 AATATATTAAA
31076673 TCAAACCAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 14 0.44
27 8 0.25
28 10 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (28 bp):
AATATATTAAAATTTAAAAATTAAAATT
Found at i:31076661 original size:14 final size:14
Alignment explanation
Indices: 31076608--31076672 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 14
31076598 AATCTACTTA
*
31076608 AATATATTAAAATT
1 AATAAATTAAAATT
* *
31076622 -TTATATTAAAA-T
1 AATAAATTAAAATT
* *
31076634 AATATATAAAAATTT
1 AATAAATTAAAA-TT
31076649 AA-AAATTAAAATT
1 AATAAATTAAAATT
31076662 AATAAATTAAA
1 AATAAATTAAA
31076673 TCAAACCAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
12 1 0.02
13 23 0.55
14 15 0.36
15 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTAAAATT
Found at i:31077358 original size:16 final size:17
Alignment explanation
Indices: 31077317--31077358 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
31077307 AAAAATTTAT
*
31077317 TAAATTATTTTATATAA
1 TAAATAATTTTATATAA
*
31077334 AATAATAATTTTAT-TAA
1 TA-AATAATTTTATATAA
31077351 TAAATAAT
1 TAAATAAT
31077359 AAAAAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 6 0.29
17 5 0.24
18 10 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAATAATTTTATATAA
Found at i:31078436 original size:40 final size:40
Alignment explanation
Indices: 31078386--31078464 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
31078376 TAAACACTAC
* *
31078386 TAAATCTATATTTAGCA-GCGTTTATAAAATAAAATGTCAT
1 TAAATCTATATTGAG-AGGCATTTATAAAATAAAATGTCAT
31078426 TAAATCTATATTGAGAGGCATTTATAAAATAAAATGTCA
1 TAAATCTATATTGAGAGGCATTTATAAAATAAAATGTCA
31078465 CTAATGATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 1 0.03
40 35 0.97
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.35
Consensus pattern (40 bp):
TAAATCTATATTGAGAGGCATTTATAAAATAAAATGTCAT
Found at i:31079002 original size:30 final size:30
Alignment explanation
Indices: 31078930--31079022 Score: 93
Period size: 30 Copynumber: 3.1 Consensus size: 30
31078920 AATATATTTA
* *
31078930 TTGCATTCAAATAAGATTTTAACTTTTATT
1 TTGCATTCAAATAAAATTTTAACTTTTAAT
*
31078960 TTGTATTCAAATAAAATTTTAAAC-TTTAAT
1 TTGCATTCAAATAAAATTTT-AACTTTTAAT
**
31078990 TTGCA-TCTAAAT-AAATCTTTATTTTTTAAT
1 TTGCATTC-AAATAAAAT-TTTAACTTTTAAT
31079020 TTG
1 TTG
31079023 TACATAAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
29 7 0.13
30 43 0.81
31 3 0.06
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (30 bp):
TTGCATTCAAATAAAATTTTAACTTTTAAT
Found at i:31079158 original size:29 final size:28
Alignment explanation
Indices: 31079075--31079158 Score: 102
Period size: 29 Copynumber: 3.0 Consensus size: 28
31079065 ACAAAGACAT
31079075 ATTTATCT--ATAAATAAAAAAAT-AAA
1 ATTTATCTAAATAAATAAAAAAATAAAA
* * *
31079100 ATTTATTTAAGTATAATAAAAATATAAAA
1 ATTTATCTAAATA-AATAAAAAAATAAAA
31079129 ATTTATCTAAATAAAGTAAAAAAATAAAA
1 ATTTATCTAAATAAA-TAAAAAAATAAAA
31079158 A
1 A
31079159 ATTCTTTTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
25 7 0.15
27 2 0.04
28 12 0.25
29 27 0.56
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (28 bp):
ATTTATCTAAATAAATAAAAAAATAAAA
Found at i:31079170 original size:29 final size:27
Alignment explanation
Indices: 31079083--31079170 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 27
31079073 ATATTTATCT
31079083 ATAAATAAAAAAAT--AAAATTTATTTA
1 ATAAATAAAAAAATAAAAAATTT-TTTA
* *
31079109 AGTATAATAAAAATAT-AAAAATTTATCTAA
1 A-TA-AATAAAAAAATAAAAAATTT-T-TTA
31079139 ATAAAGTAAAAAAATAAAAAATTCTTTTA
1 ATAAA-TAAAAAAATAAAAAATT-TTTTA
31079168 ATA
1 ATA
31079171 TTTTAACCAT
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
26 1 0.02
27 2 0.04
28 12 0.24
29 24 0.47
30 11 0.22
31 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (27 bp):
ATAAATAAAAAAATAAAAAATTTTTTA
Found at i:31079282 original size:2 final size:2
Alignment explanation
Indices: 31079275--31079309 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
31079265 TAACTAATTG
31079275 CT CT CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
31079310 ATATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:31087019 original size:13 final size:13
Alignment explanation
Indices: 31087001--31087026 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31086991 AACTACTTAG
31087001 GGATTCACAGAAA
1 GGATTCACAGAAA
31087014 GGATTCACAGAAA
1 GGATTCACAGAAA
31087027 AGGCAGTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (13 bp):
GGATTCACAGAAA
Found at i:31109112 original size:29 final size:29
Alignment explanation
Indices: 31109056--31109118 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
31109046 ATTAGTGAAT
* *
31109056 TTTTTATAATTAAAATTATTAAAAATAAAA
1 TTTTAATAATTAAAATGA-TAAAAATAAAA
31109086 TTTTAATAATTAAAATGA-AAAATATAAAA
1 TTTTAATAATTAAAATGATAAAA-ATAAAA
31109115 TTTT
1 TTTT
31109119 GTCAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 4 0.13
29 10 0.33
30 16 0.53
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (29 bp):
TTTTAATAATTAAAATGATAAAAATAAAA
Found at i:31111400 original size:7 final size:7
Alignment explanation
Indices: 31111385--31111417 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
31111375 AGACAAGGGT
*
31111385 ATTATTA
1 ATTACTA
31111392 ATTACTA
1 ATTACTA
31111399 ATTACTA
1 ATTACTA
31111406 ATTACTA
1 ATTACTA
31111413 ATTAC
1 ATTAC
31111418 CCTTGTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (7 bp):
ATTACTA
Found at i:31112055 original size:16 final size:17
Alignment explanation
Indices: 31112031--31112065 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
31112021 TTATTTATAT
31112031 TTATGAATTA-AAAAAA
1 TTATGAATTATAAAAAA
*
31112047 TTATTAATTATAAAAAA
1 TTATGAATTATAAAAAA
31112064 TT
1 TT
31112066 GAATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (17 bp):
TTATGAATTATAAAAAA
Found at i:31117088 original size:2 final size:2
Alignment explanation
Indices: 31117081--31117109 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
31117071 CTCCTCCTCC
31117081 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
31117110 AGAGATTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:31118225 original size:14 final size:14
Alignment explanation
Indices: 31118206--31118235 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31118196 TTTAATTTGA
*
31118206 TTTAATTTATTCAT
1 TTTAATTTATTAAT
31118220 TTTAATTTATTAAT
1 TTTAATTTATTAAT
31118234 TT
1 TT
31118236 ATCTATTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTAATTTATTAAT
Found at i:31119069 original size:21 final size:20
Alignment explanation
Indices: 31119036--31119075 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
31119026 AGTAAAAATA
31119036 ATAATTTTTTAAA-AAATTT
1 ATAATTTTTTAAATAAATTT
31119055 ATAACTTTATTTAAATAAATT
1 ATAA-TTT-TTTAAATAAATT
31119076 ATTTTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 3 0.17
21 6 0.33
22 5 0.28
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAATTTTTTAAATAAATTT
Found at i:31119077 original size:21 final size:18
Alignment explanation
Indices: 31119029--31119077 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 18
31119019 TTTGGAAAGT
*
31119029 AAAAATAATAATTTTTTA
1 AAAAATTATAATTTTTTA
31119047 AAAAATTTATAACTTTATTTA
1 AAAAA-TTATAA-TTT-TTTA
31119068 AATAAATTAT
1 AA-AAATTAT
31119078 TTTATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.19
19 5 0.19
20 3 0.12
21 10 0.38
22 3 0.12
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAAATTATAATTTTTTA
Found at i:31119153 original size:23 final size:23
Alignment explanation
Indices: 31119112--31119155 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
31119102 ATCATTAATT
*
31119112 TTTAATTTATATTTCAATAAATA
1 TTTAATTTATATCTCAATAAATA
31119135 TTTAATTTATA-CTCAAATAAA
1 TTTAATTTATATCTC-AATAAA
31119156 CTCTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTAATTTATATCTCAATAAATA
Found at i:31119442 original size:22 final size:24
Alignment explanation
Indices: 31119406--31119449 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
31119396 TATAATTATT
31119406 TTTAAGATATAATA-TTTAATAAA
1 TTTAAGATATAATATTTTAATAAA
*
31119429 TTTAA-ATATTATATTTTAATA
1 TTTAAGATATAATATTTTAATA
31119450 TCTATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTAAGATATAATATTTTAATAAA
Found at i:31124576 original size:2 final size:2
Alignment explanation
Indices: 31124569--31124600 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
31124559 ATCATACTGA
31124569 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
31124601 TCCAAAATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31136372 original size:1 final size:1
Alignment explanation
Indices: 31136366--31136391 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
31136356 GGTACGTGGG
31136366 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
31136392 AAGGCTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:31139914 original size:36 final size:36
Alignment explanation
Indices: 31139874--31139945 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
31139864 AATTAGCAAG
* *
31139874 AAACCACAAATAAATATCTAAATAATTAAGAATTAT
1 AAACCACAAATAAATATATAAATAATTAAAAATTAT
31139910 AAACCACAAATAAATATATAAATAATTAAAAATTAT
1 AAACCACAAATAAATATATAAATAATTAAAAATTAT
31139946 GAAAATTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.61, C:0.10, G:0.01, T:0.28
Consensus pattern (36 bp):
AAACCACAAATAAATATATAAATAATTAAAAATTAT
Found at i:31140012 original size:20 final size:20
Alignment explanation
Indices: 31139970--31140012 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
31139960 TAAATTTATT
*
31139970 ATATTTTAATCATCTAGTCA
1 ATATTTTAATCATCAAGTCA
*
31139990 ATATTTT-ATGCATCAAGTGA
1 ATATTTTAAT-CATCAAGTCA
31140010 ATA
1 ATA
31140013 CCAAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (20 bp):
ATATTTTAATCATCAAGTCA
Found at i:31140117 original size:2 final size:2
Alignment explanation
Indices: 31140110--31140136 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
31140100 TCTTAACTTA
31140110 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 A
31140137 ATTGTCTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31145202 original size:1 final size:1
Alignment explanation
Indices: 31145196--31145221 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
31145186 TTTGACTTCC
31145196 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
31145222 GTATCTTGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:31158798 original size:17 final size:17
Alignment explanation
Indices: 31158778--31158811 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
31158768 GTGAAATTGA
*
31158778 TTTTGTTTTT-CTTTTC
1 TTTTTTTTTTCCTTTTC
31158794 TTTTTTTTTTCCTTTTC
1 TTTTTTTTTTCCTTTTC
31158811 T
1 T
31158812 CCAGACCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTCCTTTTC
Found at i:31159757 original size:18 final size:18
Alignment explanation
Indices: 31159734--31159769 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
31159724 CATGAAGACT
31159734 AGGTTACTGTATAAACAA
1 AGGTTACTGTATAAACAA
31159752 AGGTTACTGTATAAACAA
1 AGGTTACTGTATAAACAA
31159770 TCTAATTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (18 bp):
AGGTTACTGTATAAACAA
Found at i:31168020 original size:28 final size:27
Alignment explanation
Indices: 31167967--31168020 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
31167957 TATGTAATTT
*
31167967 ATATTATGTACAAGTTAAATATATATA
1 ATATTATGTACAAGTTAAATAAATATA
*
31167994 ATATTAGTGTACAAATTTAAA-AAATAT
1 ATATTA-TGTAC-AAGTTAAATAAATAT
31168021 GCTTAGTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 6 0.26
28 10 0.43
29 7 0.30
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (27 bp):
ATATTATGTACAAGTTAAATAAATATA
Found at i:31172841 original size:15 final size:16
Alignment explanation
Indices: 31172815--31172844 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
31172805 CTTAAAATTG
31172815 TAATTATTTTATATTA
1 TAATTATTTTATATTA
31172831 TAATT-TTTTATATT
1 TAATTATTTTATATT
31172845 TTCAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TAATTATTTTATATTA
Found at i:31172938 original size:29 final size:27
Alignment explanation
Indices: 31172889--31172961 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
31172879 TAATTTGTAT
*
31172889 TTTTTTATTTTTTAAACATTTTATATAA
1 TTTTTTATTTTTTAAACATTTAATAT-A
31172917 TTTTTTATTTTATTATAA-ATTTAATATA
1 TTTTTTATTTT-TTA-AACATTTAATATA
31172945 TTATATTTATTTTTTAA
1 TT-T-TTTATTTTTTAA
31172962 TTCAAATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
28 15 0.38
29 15 0.38
30 10 0.25
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTTTTATTTTTTAAACATTTAATATA
Found at i:31177909 original size:9 final size:9
Alignment explanation
Indices: 31177897--31177928 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
31177887 GATGAGTCCT
31177897 ATGAAGATG
1 ATGAAGATG
*
31177906 ATGAAGATT
1 ATGAAGATG
31177915 ATGAAGATG
1 ATGAAGATG
31177924 ATGAA
1 ATGAA
31177929 TGTGATGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (9 bp):
ATGAAGATG
Found at i:31179640 original size:163 final size:163
Alignment explanation
Indices: 31179365--31179687 Score: 567
Period size: 163 Copynumber: 2.0 Consensus size: 163
31179355 CTAGAAGGTC
31179365 CAAGAACCTTTTAAAGTCTTCTTCCACGCTTAGGATGAAGGAAACATAATTTTTGAAGCCAAAAG
1 CAAGAACCTTTTAAAGTCTTCTTCCACGCTTAGGATGAAGGAAACATAATTTTTGAAGCCAAAAG
31179430 GGAAAAAGCAAAAACAATATAGAGTCAGACCTTTCTATATTATTGATAATAACTCTATTTTCTTT
66 GGAAAAAGCAAAAACAATATAGAGTCAGACCTTTCTATATTATTGATAATAACTCTATTTTCTTT
*
31179495 TTTACTTACCTAATTTTGACCCAATTTTAGTTA
131 TCTACTTACCTAATTTTGACCCAATTTTAGTTA
* *
31179528 CAAGCACCTTTTAAAGTCTTCTTTCACGCTTAGGATGAAGGAAACAT-ATGTTTTGAAGCCAAAA
1 CAAGAACCTTTTAAAGTCTTCTTCCACGCTTAGGATGAAGGAAACATAAT-TTTTGAAGCCAAAA
* * * *
31179592 TGGACAAAGCAAAAATAATATAGAGTCAGACCTTTCTATATTATTGATAATAGCTCTATTTTCTT
65 GGGAAAAAGCAAAAACAATATAGAGTCAGACCTTTCTATATTATTGATAATAACTCTATTTTCTT
31179657 TTCTACTTACCTAATTTTGACCCAATTTTAG
130 TTCTACTTACCTAATTTTGACCCAATTTTAG
31179688 GGCTGAACTT
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
162 2 0.01
163 150 0.99
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (163 bp):
CAAGAACCTTTTAAAGTCTTCTTCCACGCTTAGGATGAAGGAAACATAATTTTTGAAGCCAAAAG
GGAAAAAGCAAAAACAATATAGAGTCAGACCTTTCTATATTATTGATAATAACTCTATTTTCTTT
TCTACTTACCTAATTTTGACCCAATTTTAGTTA
Found at i:31188511 original size:28 final size:28
Alignment explanation
Indices: 31188467--31188520 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
31188457 AATAAGCATC
* *
31188467 ATTTCATCTTCTAGTAACCTAAAAAAAT
1 ATTTCACCTTCTAGTAAACTAAAAAAAT
31188495 ATTTCACCTTGCT-GTAAACTAAAAAA
1 ATTTCACCTT-CTAGTAAACTAAAAAA
31188521 TTTTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.33
Consensus pattern (28 bp):
ATTTCACCTTCTAGTAAACTAAAAAAAT
Found at i:31194467 original size:2 final size:2
Alignment explanation
Indices: 31194460--31194485 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
31194450 AAATTAAAAG
31194460 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
31194486 ATGGGAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:31197213 original size:13 final size:14
Alignment explanation
Indices: 31197188--31197214 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31197178 AATAAATAGA
31197188 TTTGATTGAAAAAT
1 TTTGATTGAAAAAT
31197202 TTTGATTGAAAAA
1 TTTGATTGAAAAA
31197215 CCTTTAAGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (14 bp):
TTTGATTGAAAAAT
Found at i:31198042 original size:37 final size:37
Alignment explanation
Indices: 31197958--31198058 Score: 97
Period size: 39 Copynumber: 2.8 Consensus size: 37
31197948 TATAAATCTG
*
31197958 ATAATTTTTATTTATATTATATAAAATATTAATAATT
1 ATAATTTTTATATATATTATATAAAATATTAATAATT
*
31197995 -TATATATTTTATCATATTTTATATAAAA-ATT-ATATATT
1 ATA-AT-TTTTAT-ATATATTATATAAAATATTAATA-ATT
*
31198033 ATAATTTTTAT-TA-A-TATAAAAAATAT
1 ATAATTTTTATATATATTATATAAAATAT
31198059 ATTTTTATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
33 8 0.15
34 2 0.04
35 2 0.04
36 2 0.04
37 11 0.20
38 14 0.26
39 15 0.28
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (37 bp):
ATAATTTTTATATATATTATATAAAATATTAATAATT
Found at i:31198853 original size:18 final size:17
Alignment explanation
Indices: 31198830--31198863 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
31198820 TCTTATATGA
*
31198830 AATTAATTTAATATTTTT
1 AATTAATATAAT-TTTTT
31198848 AATTAATATAATTTTT
1 AATTAATATAATTTTT
31198864 ATAAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTAATATAATTTTTT
Found at i:31198904 original size:16 final size:16
Alignment explanation
Indices: 31198872--31198952 Score: 53
Period size: 16 Copynumber: 5.1 Consensus size: 16
31198862 TTATAAAAAT
*
31198872 ATTATATTTTATATAA
1 ATTATATTTAATATAA
31198888 ATTATATTTAA-ATTAA
1 ATTATATTTAATA-TAA
*
31198904 A--ATATTAAATAATAA
1 ATTATATTTAAT-ATAA
*
31198919 ATT-TATTAACATATAA
1 ATTATATTTA-ATATAA
* *
31198935 ATTAAATTAAATAATAA
1 ATTATATTTAAT-ATAA
31198952 A
1 A
31198953 ATATTTTTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
14 7 0.13
15 5 0.09
16 30 0.56
17 12 0.22
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTATATTTAATATAA
Found at i:31202588 original size:8 final size:8
Alignment explanation
Indices: 31202572--31202606 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
31202562 AGTTTGGGAG
31202572 TTTTGTTT
1 TTTTGTTT
*
31202580 TGTT-TTT
1 TTTTGTTT
31202587 TTTTGTTT
1 TTTTGTTT
31202595 TTTTGTTT
1 TTTTGTTT
31202603 TTTT
1 TTTT
31202607 ACTGGCCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (8 bp):
TTTTGTTT
Found at i:31202590 original size:15 final size:15
Alignment explanation
Indices: 31202572--31202605 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
31202562 AGTTTGGGAG
31202572 TTTTGTTTTGTTT-TT
1 TTTTGTTTT-TTTGTT
31202587 TTTTGTTTTTTTGTT
1 TTTTGTTTTTTTGTT
31202602 TTTT
1 TTTT
31202606 TACTGGCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (15 bp):
TTTTGTTTTTTTGTT
Found at i:31215035 original size:13 final size:14
Alignment explanation
Indices: 31215005--31215056 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
31214995 GAGGGAAGGA
31215005 TTTAAATAAAATTT
1 TTTAAATAAAATTT
*
31215019 TTTAAATGAAA-TT
1 TTTAAATAAAATTT
* * *
31215032 TTTAATTAAAAATA
1 TTTAAATAAAATTT
*
31215046 ATTAAATAAAA
1 TTTAAATAAAA
31215057 AATTAAAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
13 11 0.35
14 20 0.65
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
TTTAAATAAAATTT
Found at i:31215078 original size:21 final size:22
Alignment explanation
Indices: 31215035--31215082 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
31215025 TGAAATTTTT
31215035 AATTAAAAATAATTAAATAAAA
1 AATTAAAAATAATTAAATAAAA
* *
31215057 AATTAAAATTAA-TAGATTAAAA
1 AATTAAAAATAATTA-AATAAAA
31215079 AATT
1 AATT
31215083 TTATTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
AATTAAAAATAATTAAATAAAA
Found at i:31219055 original size:27 final size:29
Alignment explanation
Indices: 31219025--31219091 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 29
31219015 TATTTTTAAG
*
31219025 ATATTTAA-A-TTATAAAATTATTAATTA
1 ATATTTAATATTTAAAAAATTATTAATTA
*
31219052 ATA--TAATATTTAAAAAATTATTTATTA
1 ATATTTAATATTTAAAAAATTATTAATTA
*
31219079 ATAATTTATTATT
1 AT-ATTTAATATT
31219092 ATTTAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
25 3 0.09
26 1 0.03
27 21 0.66
28 1 0.03
30 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
ATATTTAATATTTAAAAAATTATTAATTA
Found at i:31220059 original size:21 final size:20
Alignment explanation
Indices: 31220041--31220088 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
31220031 CTCGAAATTA
31220041 ATAAAATAT-TTTTTTAAAT
1 ATAAAATATATTTTTTAAAT
31220060 ATAAAATATAATTTTTT-AAT
1 ATAAAATAT-ATTTTTTAAAT
31220080 AT-AAATATA
1 ATAAAATATA
31220089 AAATTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 1 0.04
19 15 0.56
20 5 0.19
21 6 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
ATAAAATATATTTTTTAAAT
Found at i:31220093 original size:21 final size:21
Alignment explanation
Indices: 31220050--31220093 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
31220040 AATAAAATAT
*
31220050 TTTTTTAAATATAAAATATAA
1 TTTTTTAAATATAAAATAAAA
31220071 TTTTTT-AATATAAATATAAAA
1 TTTTTTAAATATAAA-ATAAAA
31220092 TT
1 TT
31220094 AAATAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTTTAAATATAAAATAAAA
Found at i:31221173 original size:7 final size:7
Alignment explanation
Indices: 31221161--31221189 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
31221151 CATTTGAGTA
31221161 TTAAAAT
1 TTAAAAT
31221168 TTAAAAT
1 TTAAAAT
31221175 TTAAAAT
1 TTAAAAT
31221182 TTAAAAT
1 TTAAAAT
31221189 T
1 T
31221190 ATTTGACGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TTAAAAT
Found at i:31222496 original size:12 final size:12
Alignment explanation
Indices: 31222479--31222504 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31222469 AGAATTTTTT
31222479 TTTATTAGAAAC
1 TTTATTAGAAAC
31222491 TTTATTAGAAAC
1 TTTATTAGAAAC
31222503 TT
1 TT
31222505 CATAAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (12 bp):
TTTATTAGAAAC
Found at i:31229990 original size:55 final size:55
Alignment explanation
Indices: 31229899--31230009 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 55
31229889 CAAACATCAA
*
31229899 TGAACTGGTTAACAGTGGTTCACACAATTATGCACTAGATGATGGGAGCGTGTGT
1 TGAACTGGTTAACAGTGGTTCACACAATTATACACTAGATGATGGGAGCGTGTGT
* *
31229954 TGAATTGGTTAACAGTGGTTCACACAATTATACACTAGATGATGGGAGTGTGTGT
1 TGAACTGGTTAACAGTGGTTCACACAATTATACACTAGATGATGGGAGCGTGTGT
31230009 T
1 T
31230010 TGGAATGTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (55 bp):
TGAACTGGTTAACAGTGGTTCACACAATTATACACTAGATGATGGGAGCGTGTGT
Found at i:31232903 original size:34 final size:36
Alignment explanation
Indices: 31232845--31232913 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 36
31232835 ATTTAAAATT
31232845 ATTAATTTTTATAATAAATAAATAAATAAAATTTTA
1 ATTAATTTTTATAATAAATAAATAAATAAAATTTTA
* * * *
31232881 ATTATTTTTTA-AAT-ATTAAATAATTTAAATTTT
1 ATTAATTTTTATAATAAATAAATAAATAAAATTTT
31232914 TTATTAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 16 0.55
35 3 0.10
36 10 0.34
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (36 bp):
ATTAATTTTTATAATAAATAAATAAATAAAATTTTA
Found at i:31232927 original size:16 final size:18
Alignment explanation
Indices: 31232908--31232948 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 18
31232898 AAATAATTTA
31232908 AATTTTTTA-TT-AATAT
1 AATTTTTTACTTCAATAT
31232924 AA-TTTTTACTTCAATAT
1 AATTTTTTACTTCAATAT
*
31232941 CATTTTTT
1 AATTTTTT
31232949 TTTTACTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 6 0.29
16 4 0.19
17 6 0.29
18 5 0.24
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (18 bp):
AATTTTTTACTTCAATAT
Found at i:31232931 original size:15 final size:17
Alignment explanation
Indices: 31232911--31232947 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
31232901 TAATTTAAAT
31232911 TTTTTA-TT-AATATAA
1 TTTTTACTTCAATATAA
*
31232926 TTTTTACTTCAATATCA
1 TTTTTACTTCAATATAA
31232943 TTTTT
1 TTTTT
31232948 TTTTTACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 6 0.32
16 2 0.11
17 11 0.58
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTACTTCAATATAA
Found at i:31240329 original size:31 final size:29
Alignment explanation
Indices: 31240294--31240363 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
31240284 AAATAATTGT
*
31240294 TAAATTATAATAAAATATTTAATATGATACA
1 TAAATTATAAT--AATATTTAATATAATACA
* * *
31240325 TAAATTTTAATAATTTTTAATATAATATA
1 TAAATTATAATAATATTTAATATAATACA
*
31240354 TGAATTATAA
1 TAAATTATAA
31240364 ATCTATTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 23 0.70
31 10 0.30
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (29 bp):
TAAATTATAATAATATTTAATATAATACA
Found at i:31246155 original size:20 final size:20
Alignment explanation
Indices: 31246130--31246169 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
31246120 TATTTCATTG
31246130 ACTGTCGGCGATAGCCTATC
1 ACTGTCGGCGATAGCCTATC
31246150 ACTGTCGGCGATAGCCTATC
1 ACTGTCGGCGATAGCCTATC
31246170 CCAGTCGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.25, T:0.25
Consensus pattern (20 bp):
ACTGTCGGCGATAGCCTATC
Found at i:31246176 original size:20 final size:20
Alignment explanation
Indices: 31246133--31246176 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
31246123 TTCATTGACT
*
31246133 GTCGGCGATAGCCTATCACT
1 GTCGGCGATAGCCTATCACA
*
31246153 GTCGGCGATAGCCTATCCCA
1 GTCGGCGATAGCCTATCACA
31246173 GTCG
1 GTCG
31246177 ACACATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.18, C:0.32, G:0.27, T:0.23
Consensus pattern (20 bp):
GTCGGCGATAGCCTATCACA
Found at i:31248223 original size:34 final size:34
Alignment explanation
Indices: 31248180--31248246 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
31248170 ATTGTGCTTT
31248180 ATTTGTCTGTACCAAAAAGATTTGAGCTTATGCG
1 ATTTGTCTGTACCAAAAAGATTTGAGCTTATGCG
* * *
31248214 ATTTGTCTGTACGAAAAATATTTGATCTTATGC
1 ATTTGTCTGTACCAAAAAGATTTGAGCTTATGC
31248247 CATTAACAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (34 bp):
ATTTGTCTGTACCAAAAAGATTTGAGCTTATGCG
Found at i:31248511 original size:16 final size:15
Alignment explanation
Indices: 31248472--31248522 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
31248462 TTATTTGATG
*
31248472 AATAAAAAAATTTGTA
1 AATAAAATAATTT-TA
31248488 AA-AAAATAATTTTA
1 AATAAAATAATTTTA
*
31248502 AGATAAAATAGATTTTT
1 A-ATAAAATA-ATTTTA
31248519 AATA
1 AATA
31248523 GATAAATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 3 0.10
15 10 0.33
16 11 0.37
17 6 0.20
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (15 bp):
AATAAAATAATTTTA
Found at i:31251841 original size:21 final size:22
Alignment explanation
Indices: 31251806--31251848 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
31251796 TTTAAATATA
31251806 ATATTTAATATATTTAAAATTT
1 ATATTTAATATATTTAAAATTT
* *
31251828 ATATTTTA-ATATTTATAATTT
1 ATATTTAATATATTTAAAATTT
31251849 TTTTTATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATTTAATATATTTAAAATTT
Found at i:31252289 original size:21 final size:25
Alignment explanation
Indices: 31252264--31252317 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
31252254 AAATTTAATA
31252264 TAAATCAAA-TAAA-A-AACAA-TT
1 TAAATCAAATTAAACACAACAATTT
* *
31252285 TAAATTAAATTAAACACTACAATTT
1 TAAATCAAATTAAACACAACAATTT
31252310 TAAATCAA
1 TAAATCAA
31252318 TTTTTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 8 0.31
22 4 0.15
23 1 0.04
24 4 0.15
25 9 0.35
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (25 bp):
TAAATCAAATTAAACACAACAATTT
Found at i:31253888 original size:23 final size:24
Alignment explanation
Indices: 31253799--31253890 Score: 93
Period size: 23 Copynumber: 3.9 Consensus size: 24
31253789 TTATAATTAT
31253799 ATAT-ATTTATTTAA-ATTTATTTGA
1 ATATGATTTATTTAATATTTA--TGA
* * * *
31253823 TTATGATTAATTTATTATTAATGA
1 ATATGATTTATTTAATATTTATGA
*
31253847 ATATGA-TTATTTATTATTTATGA
1 ATATGATTTATTTAATATTTATGA
31253870 ATAT-ATTTATTTAATATTTAT
1 ATATGATTTATTTAATATTTAT
31253891 ATATTAATTC
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
22 1 0.02
23 33 0.58
24 11 0.19
25 8 0.14
26 4 0.07
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (24 bp):
ATATGATTTATTTAATATTTATGA
Found at i:31254828 original size:29 final size:28
Alignment explanation
Indices: 31254770--31254833 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
31254760 ATAGATTTTT
31254770 ATAATTAA-ATTTTTAAATATATTGTATA
1 ATAA-TAATATTTTTAAATATATTGTATA
** * *
31254798 ATATATAATATTTTTATTTATATTTTTTA
1 ATA-ATAATATTTTTAAATATATTGTATA
31254827 ATAATAA
1 ATAATAA
31254834 AAAATATGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 10 0.33
29 20 0.67
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (28 bp):
ATAATAATATTTTTAAATATATTGTATA
Found at i:31258383 original size:14 final size:14
Alignment explanation
Indices: 31258364--31258395 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
31258354 GTGTGGTGTT
*
31258364 GAAAAAGAAAAAAA
1 GAAAAAAAAAAAAA
31258378 GAAAAAAAAAAAAA
1 GAAAAAAAAAAAAA
31258392 GAAA
1 GAAA
31258396 GAGTTAGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (14 bp):
GAAAAAAAAAAAAA
Found at i:31262734 original size:34 final size:34
Alignment explanation
Indices: 31262657--31262736 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
31262647 TAACTTTGGA
*
31262657 AAATTCATTTTCAAAAAGTCATAACACATCTCAT
1 AAATACATTTTCAAAAAGTCATAACACATCTCAT
* * *
31262691 AAATGCATTTTCAAGAAGTCATAAC-C-TTTCAT
1 AAATACATTTTCAAAAAGTCATAACACATCTCAT
31262723 GAATATACATTTTC
1 -AA-ATACATTTTC
31262737 GAGAGTGTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
32 5 0.12
33 3 0.08
34 32 0.80
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (34 bp):
AAATACATTTTCAAAAAGTCATAACACATCTCAT
Found at i:31264935 original size:32 final size:32
Alignment explanation
Indices: 31264859--31264926 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 32
31264849 TATAATGAAA
31264859 TATTTAATATAATATATAAATTCTAAATTTAT
1 TATTTAATATAATATATAAATTCTAAATTTAT
* * * *
31264891 TAATTAATATAATAT-TAATTTCTAAAGTAAT
1 TATTTAATATAATATATAAATTCTAAATTTAT
31264922 TATTT
1 TATTT
31264927 TTAAATAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
31 17 0.55
32 14 0.45
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (32 bp):
TATTTAATATAATATATAAATTCTAAATTTAT
Found at i:31265006 original size:28 final size:27
Alignment explanation
Indices: 31264975--31265040 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 27
31264965 TATCATATCA
*
31264975 ATTAATATATTTATAATTCAAATATTAT
1 ATTAA-ATATTTAAAATTCAAATATTAT
* *
31265003 ATTAAAATTTTTAAAATTTAAATATTAT
1 ATT-AAATATTTAAAATTCAAATATTAT
31265031 ATTAAATATT
1 ATTAAATATT
31265041 ATATTAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 6 0.18
28 25 0.76
29 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTAAATATTTAAAATTCAAATATTAT
Found at i:31265037 original size:12 final size:12
Alignment explanation
Indices: 31265020--31265049 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
31265010 TTTTTAAAAT
31265020 TTAAATATTATA
1 TTAAATATTATA
31265032 TTAAATATTATA
1 TTAAATATTATA
31265044 TTAAAT
1 TTAAAT
31265050 TTAAAGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTAAATATTATA
Found at i:31265323 original size:29 final size:28
Alignment explanation
Indices: 31265281--31265336 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
31265271 AAAGATTTTT
*
31265281 ATTATTATGTATTTTCAATTAAATTTATG
1 ATTAATATGTA-TTTCAATTAAATTTATG
* * *
31265310 ATTAATATTTATTTGAATTAATTTTAT
1 ATTAATATGTATTTCAATTAAATTTAT
31265337 TTATTTTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (28 bp):
ATTAATATGTATTTCAATTAAATTTATG
Found at i:31268839 original size:22 final size:21
Alignment explanation
Indices: 31268798--31268841 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
31268788 ATATATTTTT
*
31268798 ATATTATTAATAAATTAAATA
1 ATATTATTAATAAATAAAATA
*
31268819 ATATTATTTAATTAATAAAATA
1 ATATTA-TTAATAAATAAAATA
31268841 A
1 A
31268842 ATCACATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATATTATTAATAAATAAAATA
Found at i:31268864 original size:31 final size:26
Alignment explanation
Indices: 31268796--31268868 Score: 74
Period size: 26 Copynumber: 2.6 Consensus size: 26
31268786 GTATATATTT
* *
31268796 TTATATTATTAATAAATTAAATAATA
1 TTATTTTATTAATAAAATAAATAATA
*
31268822 TTATTTAATTAATAAAATAAATCACATTA
1 TTATTTTATTAATAAAATAAAT-A-A-TA
31268851 TATCATTTTATTAATAAA
1 T-T-ATTTTATTAATAAA
31268869 TATTTTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
26 19 0.50
27 1 0.03
28 1 0.03
29 3 0.08
30 1 0.03
31 13 0.34
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (26 bp):
TTATTTTATTAATAAAATAAATAATA
Found at i:31273623 original size:10 final size:10
Alignment explanation
Indices: 31273607--31273642 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
31273597 TGCATTTCAA
31273607 ATATATATGT
1 ATATATATGT
* *
31273617 GTATATATAT
1 ATATATATGT
31273627 ATATATATGT
1 ATATATATGT
31273637 ATATAT
1 ATATAT
31273643 TCATTTTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (10 bp):
ATATATATGT
Found at i:31275271 original size:20 final size:21
Alignment explanation
Indices: 31275248--31275304 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 21
31275238 TCACACAGTT
31275248 TAATTTTTTATCAAGAACAATAA
1 TAATTTTTTATCAAGAAC-A-AA
31275271 TAATTTTTTATCAAGAAC-AA
1 TAATTTTTTATCAAGAACAAA
*
31275291 TAATTTTTGATCAA
1 TAATTTTTTATCAA
31275305 TTTAATGCCT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 15 0.45
23 18 0.55
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (21 bp):
TAATTTTTTATCAAGAACAAA
Found at i:31275278 original size:23 final size:23
Alignment explanation
Indices: 31275248--31275294 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
31275238 TCACACAGTT
31275248 TAATTTTTTATCAAGAACAATAA
1 TAATTTTTTATCAAGAACAATAA
31275271 TAATTTTTTATCAAGAACAATAA
1 TAATTTTTTATCAAGAACAATAA
31275294 T
1 T
31275295 TTTTGATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (23 bp):
TAATTTTTTATCAAGAACAATAA
Found at i:31275775 original size:2 final size:2
Alignment explanation
Indices: 31275770--31275805 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
31275760 TCCACGTTGG
* *
31275770 TA TA TA TA TA TA TA TA TA TA TT TG 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
31275806 CTATTTCCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:31275799 original size:18 final size:19
Alignment explanation
Indices: 31275776--31275811 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
31275766 TTGGTATATA
31275776 TATATATATATA-TATTTG
1 TATATATATATACTATTTG
31275794 TATATATATATACTATTT
1 TATATATATATACTATTT
31275812 CCAATGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
TATATATATATACTATTTG
Found at i:31276054 original size:18 final size:18
Alignment explanation
Indices: 31276027--31276086 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
31276017 TAGATGTAAT
31276027 TAATTATTTATTAAAATA
1 TAATTATTTATTAAAATA
* *
31276045 TAATTTTTTAATAAAATA
1 TAATTATTTATTAAAATA
*
31276063 TTAA-AATTTATTAAAAATA
1 -TAATTATTTATT-AAAATA
31276082 TAATT
1 TAATT
31276087 TTAAGATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
18 24 0.73
19 9 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TAATTATTTATTAAAATA
Found at i:31276225 original size:29 final size:29
Alignment explanation
Indices: 31276178--31276252 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 29
31276168 CGGTATCAAT
*
31276178 TAATTATATGTTATCTTTTGAT-TTTGATAAAA
1 TAATTAT-T-TTATTTTTTG-TGTTTGA-AAAA
31276210 -AATTATTTTATTTTTTGTGTTTGAAAAA
1 TAATTATTTTATTTTTTGTGTTTGAAAAA
*
31276238 TAATTTTTTTGATTT
1 TAATTATTTT-ATTT
31276253 ATTTATTAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
28 5 0.13
29 22 0.58
30 5 0.13
31 6 0.16
ACGTcount: A:0.31, C:0.01, G:0.09, T:0.59
Consensus pattern (29 bp):
TAATTATTTTATTTTTTGTGTTTGAAAAA
Found at i:31276264 original size:29 final size:25
Alignment explanation
Indices: 31276239--31276285 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
31276229 TTTGAAAAAT
31276239 AATT-TTTTTGATTTATTTATTAGA
1 AATTATTTTTGATTTATTTATTAGA
31276263 AATTATTTTTGATTTATTTATTA
1 AATTATTTTTGATTTATTTATTA
31276286 ATTATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (25 bp):
AATTATTTTTGATTTATTTATTAGA
Found at i:31276291 original size:22 final size:22
Alignment explanation
Indices: 31276238--31276294 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 22
31276228 GTTTGAAAAA
31276238 TAATT-TTTTTGATTTATTTAT
1 TAATTATTTTTGATTTATTTAT
31276259 TAGAAATTATTTTTGATTTATTTAT
1 T---AATTATTTTTGATTTATTTAT
31276284 TAATTATTTTT
1 TAATTATTTTT
31276295 TAATTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.03
22 10 0.31
24 4 0.12
25 17 0.53
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
TAATTATTTTTGATTTATTTAT
Found at i:31277087 original size:21 final size:23
Alignment explanation
Indices: 31277063--31277108 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
31277053 AAATATTATT
*
31277063 AATAAT-TATTAAAATAA-CAAA
1 AATAATATATTAAAAAAATCAAA
*
31277084 AATAATATTTTAAAAAAATCAAA
1 AATAATATATTAAAAAAATCAAA
31277107 AA
1 AA
31277109 ATTAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 9 0.43
23 6 0.29
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (23 bp):
AATAATATATTAAAAAAATCAAA
Found at i:31277363 original size:27 final size:27
Alignment explanation
Indices: 31277331--31277399 Score: 138
Period size: 27 Copynumber: 2.6 Consensus size: 27
31277321 CAAGGGTTTA
31277331 AAACGACGTCGTTTTAACCGTTTAATG
1 AAACGACGTCGTTTTAACCGTTTAATG
31277358 AAACGACGTCGTTTTAACCGTTTAATG
1 AAACGACGTCGTTTTAACCGTTTAATG
31277385 AAACGACGTCGTTTT
1 AAACGACGTCGTTTT
31277400 GACTTTCAGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (27 bp):
AAACGACGTCGTTTTAACCGTTTAATG
Found at i:31278275 original size:27 final size:27
Alignment explanation
Indices: 31278217--31278311 Score: 120
Period size: 28 Copynumber: 3.4 Consensus size: 27
31278207 GGTCCAGTCA
*
31278217 AATTAAAATTGAACATGAAGTCCAATTG
1 AATTAAAATCGAACATGAA-TCCAATTG
31278245 AATTAAAATCGAATC-TGAATCCAATTG
1 AATTAAAATCGAA-CATGAATCCAATTG
* *
31278272 AATTAAAATCGAACTTGAAATTCAATTG
1 AATTAAAATCGAACATG-AATCCAATTG
*
31278300 AATTGAAATCGA
1 AATTAAAATCGA
31278312 GTATCGATTC
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
26 1 0.02
27 23 0.38
28 36 0.59
29 1 0.02
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (27 bp):
AATTAAAATCGAACATGAATCCAATTG
Found at i:31279874 original size:94 final size:93
Alignment explanation
Indices: 31279759--31279939 Score: 229
Period size: 94 Copynumber: 1.9 Consensus size: 93
31279749 ATTTGTAATG
* * * *
31279759 AAAATAACTAATCCTATTATTTTAAAAAATTATTATAATATTATTCACAAAAACTA-TCGACATA
1 AAAATAACTAATCCTACTATTTTAAAAAACTATTACAATATTATTCAAAAAAACTATTC-ACATA
**
31279823 AATGTTTATGTAACAAATTTTATCAGGTA
65 AACATTTATGTAACAAATTTTATCAGGTA
* * * * *
31279852 AAAATAAACTTATCCTACTATTTTAAAAAACTATTACAGTGTTATTTAAAAAAATTATTCACATA
1 AAAAT-AACTAATCCTACTATTTTAAAAAACTATTACAATATTATTCAAAAAAACTATTCACATA
*
31279917 AACATTTATGTGACAAATTTTAT
65 AACATTTATGTAACAAATTTTAT
31279940 TAAATATTTA
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
93 5 0.07
94 67 0.91
95 2 0.03
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (93 bp):
AAAATAACTAATCCTACTATTTTAAAAAACTATTACAATATTATTCAAAAAAACTATTCACATAA
ACATTTATGTAACAAATTTTATCAGGTA
Found at i:31280351 original size:12 final size:12
Alignment explanation
Indices: 31280334--31280360 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31280324 TATTTTAATG
31280334 ATTAAAAATTTA
1 ATTAAAAATTTA
31280346 ATTAAAAATTTA
1 ATTAAAAATTTA
31280358 ATT
1 ATT
31280361 TGGATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
ATTAAAAATTTA
Found at i:31288203 original size:17 final size:16
Alignment explanation
Indices: 31288181--31288216 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
31288171 ATCATCTTGT
*
31288181 TTTATTTTTTAATATAA
1 TTTATTTTATAATA-AA
31288198 TTTATTTTATAATAAA
1 TTTATTTTATAATAAA
31288214 TTT
1 TTT
31288217 GTACATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTATTTTATAATAAA
Found at i:31289659 original size:165 final size:164
Alignment explanation
Indices: 31289355--31289683 Score: 563
Period size: 165 Copynumber: 2.0 Consensus size: 164
31289345 GGAAGGAGAG
31289355 CATGAAGTTGACCCCATTGCTTGAAACATCTTGTGCCTCTGATGATGATGATGATGATGTTGGGA
1 CATGAAGTTGACCCCATTGCTTGAAACATCTTGTGCCTCTGATGATGATGATGATGATGTTGGGA
* *
31289420 TCACTGAAAATAACCCTATTGACGGATAGCGTAGATCCAATTGAAAAACAGGACAAAGGTCAGGA
66 TCACTGAAAATAACCCCATTGACGGATAGCGTAGATCCAATTGAAAAACAGGACAAAGATCAGGA
*
31289485 ACGAGCTCAGTTAGTGGAAAATGTTGAGTGCCTA
131 ACAAGCTCAGTTAGTGGAAAATGTTGAGTGCCTA
*
31289519 CATGAAGTTGA-CTCATTGCTTGAAACATCTTGTGCCTCTGATGATGATGATGACGATGATGTTG
1 CATGAAGTTGACCCCATTGCTTGAAACATCTTGTGCCTCTGATGATGATGAT---GATGATGTTG
* *
31289583 GGATCATTGAAAATAACCCCATTGA-GGATAGTGTAGATCCAATTGAAAAACAGGACAAAGATCA
63 GGATCACTGAAAATAACCCCATTGACGGATAGCGTAGATCCAATTGAAAAACAGGACAAAGATCA
31289647 GGAACAAGCTCAGTTAGTGGAAAATGTTGAGTGCCTA
128 GGAACAAGCTCAGTTAGTGGAAAATGTTGAGTGCCTA
31289684 AAGAAAGGTT
Statistics
Matches: 156, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
163 39 0.25
164 11 0.07
165 73 0.47
166 33 0.21
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (164 bp):
CATGAAGTTGACCCCATTGCTTGAAACATCTTGTGCCTCTGATGATGATGATGATGATGTTGGGA
TCACTGAAAATAACCCCATTGACGGATAGCGTAGATCCAATTGAAAAACAGGACAAAGATCAGGA
ACAAGCTCAGTTAGTGGAAAATGTTGAGTGCCTA
Found at i:31291488 original size:27 final size:27
Alignment explanation
Indices: 31291430--31291524 Score: 120
Period size: 28 Copynumber: 3.4 Consensus size: 27
31291420 GGTCCAGTCA
*
31291430 AATTAAAATTGAACATGAAGTCCAATTG
1 AATTAAAATCGAACATGAA-TCCAATTG
31291458 AATTAAAATCGAATC-TGAATCCAATTG
1 AATTAAAATCGAA-CATGAATCCAATTG
* *
31291485 AATTAAAATCGAACTTGAAATTCAATTG
1 AATTAAAATCGAACATG-AATCCAATTG
*
31291513 AATTGAAATCGA
1 AATTAAAATCGA
31291525 GTATCGATTC
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
26 1 0.02
27 23 0.38
28 36 0.59
29 1 0.02
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (27 bp):
AATTAAAATCGAACATGAATCCAATTG
Found at i:31302756 original size:159 final size:161
Alignment explanation
Indices: 31302555--31302878 Score: 553
Period size: 165 Copynumber: 2.0 Consensus size: 161
31302545 GGAAGGAGAG
31302555 CATGAAGTTGACCCATTGCTTGAAACATCTTGTGCCTC-TGATGATGAT-GATGATGTTGGGATC
1 CATGAAGTTGACCCATTGCTTGAAACATCTTGTGCCTCATGATGATGATAGATGATGTTGGGATC
* *
31302618 ACTGAAAATAACCCTATTGAGGATAGCGTAGATCCAATTGAAAAACAGGACAAAGGTCAGGAACA
66 ACTGAAAATAACCCCATTGAGGATAGCGTAGATCCAATTGAAAAACAGGACAAAGATCAGGAACA
31302683 AGCTCAGTTAGTGGAAAATGTTGAGTGCCTA
131 AGCTCAGTTAGTGGAAAATGTTGAGTGCCTA
*
31302714 CATGAAGTTGACTCATTGCTTGAAACATCTTGTGCCTCTGATGATGATGATGACGATGATGTTGG
1 CATGAAGTTGACCCATTGCTTGAAACATCTTGTGCCTC--ATGATGATGAT-A-GATGATGTTGG
* *
31302779 GATCATTGAAAATAACCCCATTGAGGATAGTGTAGATCCAATTGAAAAACAGGACAAAGATCAGG
62 GATCACTGAAAATAACCCCATTGAGGATAGCGTAGATCCAATTGAAAAACAGGACAAAGATCAGG
31302844 AACAAGCTCAGTTAGTGGAAAATGTTGAGTGCCTA
127 AACAAGCTCAGTTAGTGGAAAATGTTGAGTGCCTA
31302879 AAGAAAGGTT
Statistics
Matches: 154, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
159 37 0.24
162 10 0.06
165 107 0.69
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (161 bp):
CATGAAGTTGACCCATTGCTTGAAACATCTTGTGCCTCATGATGATGATAGATGATGTTGGGATC
ACTGAAAATAACCCCATTGAGGATAGCGTAGATCCAATTGAAAAACAGGACAAAGATCAGGAACA
AGCTCAGTTAGTGGAAAATGTTGAGTGCCTA
Found at i:31318672 original size:16 final size:15
Alignment explanation
Indices: 31318651--31318703 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
31318641 TTAATTTTTT
31318651 ATTTTAACTCAATTAA
1 ATTTTAA-TCAATTAA
*
31318667 ATTTTAAAT-AAATAA
1 ATTTT-AATCAATTAA
*
31318682 AATTTAATCAATTAA
1 ATTTTAATCAATTAA
*
31318697 TTTTTAA
1 ATTTTAA
31318704 ATTTTATTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
14 3 0.10
15 19 0.63
16 6 0.20
17 2 0.07
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTTTAATCAATTAA
Found at i:31340444 original size:3 final size:3
Alignment explanation
Indices: 31340436--31340465 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
31340426 AAGTGGTGTT
31340436 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
31340466 AGTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:31340656 original size:20 final size:21
Alignment explanation
Indices: 31340631--31340674 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
31340621 ATGATAGAAT
31340631 ATTAAAATTTAA-TTTTAATA
1 ATTAAAATTTAATTTTTAATA
31340651 ATTAAAATTTAATTTTTAATA
1 ATTAAAATTTAATTTTTAATA
31340672 ATT
1 ATT
31340675 TTAAATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTAAAATTTAATTTTTAATA
Found at i:31346347 original size:36 final size:37
Alignment explanation
Indices: 31346277--31346348 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 37
31346267 CCTCAGTAAT
* * *
31346277 CTTTTCGAAAAGACCAAAAATGCTGTGTTATTCTGGC
1 CTTTTCGAAAAGACCAAAAAAGCTGTATGATTCTGGC
*
31346314 CTTTT-GAAAAGACCAAAAAAGCTGTATGGTTCTGG
1 CTTTTCGAAAAGACCAAAAAAGCTGTATGATTCTGG
31346349 TAAGAAGGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 26 0.84
37 5 0.16
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (37 bp):
CTTTTCGAAAAGACCAAAAAAGCTGTATGATTCTGGC
Found at i:31354314 original size:2 final size:2
Alignment explanation
Indices: 31354307--31354333 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
31354297 ACTAAAGGAA
31354307 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
31354334 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:31356020 original size:12 final size:12
Alignment explanation
Indices: 31356003--31356029 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31355993 TTGATACTTT
31356003 CTTGATTATAAA
1 CTTGATTATAAA
31356015 CTTGATTATAAA
1 CTTGATTATAAA
31356027 CTT
1 CTT
31356030 CCGGAGGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (12 bp):
CTTGATTATAAA
Found at i:31358583 original size:21 final size:23
Alignment explanation
Indices: 31358558--31358605 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
31358548 ATTATTTAAT
31358558 ATATATTATAAAA-ATAAAA-AA
1 ATATATTATAAAAGATAAAATAA
* *
31358579 ATATATTTTAAAAGGTAAAATAA
1 ATATATTATAAAAGATAAAATAA
31358602 ATAT
1 ATAT
31358606 GTTTGACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 12 0.52
22 5 0.22
23 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
ATATATTATAAAAGATAAAATAA
Found at i:31359447 original size:188 final size:188
Alignment explanation
Indices: 31359130--31359506 Score: 745
Period size: 188 Copynumber: 2.0 Consensus size: 188
31359120 CAGGTACAAC
*
31359130 ACATCTTATTTTAACCTAAAAGATTGAGTAACTTATTTATTTCAGATTTTTTTCCTACAAAAAAA
1 ACATCTTATTTTAACCTAAAAGATTGAGTAACCTATTTATTTCAGATTTTTTTCCTACAAAAAAA
31359195 AAATATGTTTCTAATAGAACATTTATTCAATAACAGCATATTTTGTTCTTGGTTTTTCAGTTGGT
66 AAATATGTTTCTAATAGAACATTTATTCAATAACAGCATATTTTGTTCTTGGTTTTTCAGTTGGT
31359260 GATTCTTATCAAACAAATAAGTTGAGGAATGTAAGAGGCATTGAGTAGACAGAAATGT
131 GATTCTTATCAAACAAATAAGTTGAGGAATGTAAGAGGCATTGAGTAGACAGAAATGT
31359318 ACATCTTATTTTAACCTAAAAGATTGAGTAACCTATTTATTTCAGATTTTTTTCCTACAAAAAAA
1 ACATCTTATTTTAACCTAAAAGATTGAGTAACCTATTTATTTCAGATTTTTTTCCTACAAAAAAA
31359383 AAATATGTTTCTAATAGAACATTTATTCAATAACAGCATATTTTGTTCTTGGTTTTTCAGTTGGT
66 AAATATGTTTCTAATAGAACATTTATTCAATAACAGCATATTTTGTTCTTGGTTTTTCAGTTGGT
31359448 GATTCTTATCAAACAAATAAGTTGAGGAATGTAAGAGGCATTGAGTAGACAGAAATGT
131 GATTCTTATCAAACAAATAAGTTGAGGAATGTAAGAGGCATTGAGTAGACAGAAATGT
31359506 A
1 A
31359507 AAAGATACTA
Statistics
Matches: 188, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
188 188 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.38
Consensus pattern (188 bp):
ACATCTTATTTTAACCTAAAAGATTGAGTAACCTATTTATTTCAGATTTTTTTCCTACAAAAAAA
AAATATGTTTCTAATAGAACATTTATTCAATAACAGCATATTTTGTTCTTGGTTTTTCAGTTGGT
GATTCTTATCAAACAAATAAGTTGAGGAATGTAAGAGGCATTGAGTAGACAGAAATGT
Found at i:31366374 original size:46 final size:46
Alignment explanation
Indices: 31366307--31366399 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
31366297 CAATTTTAAA
*
31366307 TTTATAGTAACAACCATTACAAAGCTGTGAACTTACATGATACCAG
1 TTTATAGTAACAAACATTACAAAGCTGTGAACTTACATGATACCAG
*
31366353 TTTATGGTAACAAACATTACAAAGCTGTGAACTTACATGATACCAG
1 TTTATAGTAACAAACATTACAAAGCTGTGAACTTACATGATACCAG
31366399 T
1 T
31366400 CCCTGATATG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (46 bp):
TTTATAGTAACAAACATTACAAAGCTGTGAACTTACATGATACCAG
Found at i:31370488 original size:21 final size:22
Alignment explanation
Indices: 31370434--31370492 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
31370424 TATTTATAAA
* *
31370434 ATATTATTTTTA-ATATAAATT
1 ATATTATATTTATATAAAAATT
* *
31370455 ATATTTTAATTATATAAAAATT
1 ATATTATATTTATATAAAAATT
31370477 -TATTATATTTAT-TAAA
1 ATATTATATTTATATAAA
31370493 CTTATATCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 4 0.13
21 19 0.61
22 8 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATTATATTTATATAAAAATT
Found at i:31371553 original size:30 final size:30
Alignment explanation
Indices: 31371519--31371588 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
31371509 TTTTTAATTA
* * *
31371519 TTTTATTTATATATATTTATATAATGATAT
1 TTTTATTTATATATATTTAAAAAATAATAT
** *
31371549 TTTTAAATATTTATATTTAAAAAATAATAT
1 TTTTATTTATATATATTTAAAAAATAATAT
31371579 TTTATATTTA
1 TTT-TATTTA
31371589 AAAAATATTT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
30 27 0.87
31 4 0.13
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (30 bp):
TTTTATTTATATATATTTAAAAAATAATAT
Found at i:31371579 original size:20 final size:21
Alignment explanation
Indices: 31371554--31371595 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
31371544 GATATTTTTA
31371554 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
31371574 AATATTTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
31371595 A
1 A
31371596 TTTTATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:31371597 original size:18 final size:19
Alignment explanation
Indices: 31371553--31371601 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
31371543 TGATATTTTT
31371553 AAATA-TTTATATTTAAAAA
1 AAATATTTTATATTT-AAAA
31371572 ATAATATTTTATATTT-AAA
1 A-AATATTTTATATTTAAAA
31371591 AAATATTTTAT
1 AAATATTTTAT
31371602 TAATTTCGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.36
19 5 0.18
20 4 0.14
21 9 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATATTTTATATTTAAAA
Found at i:31378679 original size:19 final size:20
Alignment explanation
Indices: 31378630--31378680 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
31378620 TTTTGTTACT
*
31378630 TTAATATAA-AATAAAATTTA
1 TTAATA-AATAATAAAATTAA
* *
31378650 TTATTATATAAT-AAATTAA
1 TTAATAAATAATAAAATTAA
31378669 TTAATAAATAAT
1 TTAATAAATAAT
31378681 TTTAATTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAATAAATAATAAAATTAA
Done.