Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 19 of 131
Found at i:4780045 original size:50 final size:50
Alignment explanation
Indices: 4779965--4780064 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
4779955 TATTTTTTCA
* *
4779965 AAGTTGTTGAGCCTCTTATTAGAGAAGCCATTTATTTTTCCAAAGTCGTT
1 AAGTCGTTGAGCCTCTAATTAGAGAAGCCATTTATTTTTCCAAAGTCGTT
* *
4780015 AAGTCGTTGAGCCTCTAATTAGAGGAGCCATTTATTTTTTCAAAGTCGTT
1 AAGTCGTTGAGCCTCTAATTAGAGAAGCCATTTATTTTTCCAAAGTCGTT
4780065 GAGCATCTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (50 bp):
AAGTCGTTGAGCCTCTAATTAGAGAAGCCATTTATTTTTCCAAAGTCGTT
Found at i:4780061 original size:217 final size:219
Alignment explanation
Indices: 4779798--4780237 Score: 688
Period size: 217 Copynumber: 2.0 Consensus size: 219
4779788 TTACTTTTCA
* * *
4779798 AAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCCAAAGTCGTTGAGCCTCTGATTAGA
1 AAGTCGTTGAGCCTCTAATTAGAGGAGCCATTTATTTTTCCAAAGTCGTTGAGCATCTGATTAGA
*
4779863 GGAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCGTTTATTTTTTCAGAGTC
66 GGAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAGAGAAGCCGTTTATTTTTTCAGAGTC
* ** *
4779928 GTTGAGCCTCTGATTAGAAGTGTCATTTATTTTTTC-AAAGTTGTTGAGCCTCTTATTAGAGAAG
131 GTTGAGCCTCTGATTAGAAGAGTCATTTA-TTTTTCAAAAGTCATTGAGCCTCTGATTAGAGAAG
*
4779992 C-CATTTATTTTTC-CAAAGTCGTT
195 CTCATTTATGTTTCTCAAAGTCGTT
*
4780015 AAGTCGTTGAGCCTCTAATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGAGCATCTGATTAGA
1 AAGTCGTTGAGCCTCTAATTAGAGGAGCCATTTATTTTTCCAAAGTCGTTGAGCATCTGATTAGA
* * *
4780080 TGAGCCATTTACTTTTCAAAGTTGTTGAGTCTCTGATTAGAGAAGTCGTTTATTTTTTCAGAGTC
66 GGAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAGAGAAGCCGTTTATTTTTTCAGAGTC
* * *
4780145 GTTGAGCCTCTGATTAGAGGAGTCGTTTATTTTTCAAAAGTCATTGAGCCTCTGATTAGAGGAGC
131 GTTGAGCCTCTGATTAGAAGAGTCATTTATTTTTCAAAAGTCATTGAGCCTCTGATTAGAGAAGC
*
4780210 TTTATTTATGTTTCTCAAAGTCGTT
196 -TCATTTATGTTTCTCAAAGTCGTT
4780235 AAG
1 AAG
4780238 CCTTTGCTTA
Statistics
Matches: 202, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
216 6 0.03
217 173 0.86
219 10 0.05
220 13 0.06
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.39
Consensus pattern (219 bp):
AAGTCGTTGAGCCTCTAATTAGAGGAGCCATTTATTTTTCCAAAGTCGTTGAGCATCTGATTAGA
GGAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAGAGAAGCCGTTTATTTTTTCAGAGTC
GTTGAGCCTCTGATTAGAAGAGTCATTTATTTTTCAAAAGTCATTGAGCCTCTGATTAGAGAAGC
TCATTTATGTTTCTCAAAGTCGTT
Found at i:4780501 original size:7 final size:7
Alignment explanation
Indices: 4780484--4780550 Score: 53
Period size: 7 Copynumber: 8.7 Consensus size: 7
4780474 CCCAATGGGC
4780484 TTATATTT
1 TTAT-TTT
4780492 TTATTTT
1 TTATTTT
4780499 TTATTTT
1 TTATTTT
*
4780506 TTATCTAT
1 TTAT-TTT
*
4780514 TAATATTT
1 TTAT-TTT
*
4780522 TTATTAT
1 TTATTTT
4780529 TTATCTGCTT
1 TTAT-T--TT
4780539 TTATTTT
1 TTATTTT
4780546 TTATT
1 TTATT
4780551 ATTATTTATC
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
7 27 0.56
8 15 0.31
9 1 0.02
10 5 0.10
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.73
Consensus pattern (7 bp):
TTATTTT
Found at i:4780543 original size:23 final size:23
Alignment explanation
Indices: 4780490--4780589 Score: 84
Period size: 23 Copynumber: 4.5 Consensus size: 23
4780480 GGGCTTATAT
*
4780490 TTTTATTTTTTATTTTTTATCTA
1 TTTTATTTTTTATTATTTATCTA
* *
4780513 -TTAATATTTTTATTATTTATCTGC
1 TTTTAT-TTTTTATTATTTATCT-A
*
4780537 TTTTATTTTTTATTA-TTATTTA
1 TTTTATTTTTTATTATTTATCTA
* *
4780559 -TCTATTTCTT-TTATTTATCTA
1 TTTTATTTTTTATTATTTATCTA
*
4780580 ATTT-TTTTTT
1 TTTTATTTTTT
4780590 GTCATCTATT
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
20 3 0.05
21 19 0.31
22 6 0.10
23 20 0.33
24 9 0.15
25 4 0.07
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.73
Consensus pattern (23 bp):
TTTTATTTTTTATTATTTATCTA
Found at i:4780575 original size:27 final size:28
Alignment explanation
Indices: 4780517--4780576 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
4780507 TATCTATTAA
*
4780517 TATTT-TTATTATTTATCTGCTTTTATT
1 TATTTATTATTATTTATCTGATTTTATT
4780544 T-TTTATTATTATTTATCT-ATTTCT-TT
1 TATTTATTATTATTTATCTGATTT-TATT
4780570 TATTTAT
1 TATTTAT
4780577 CTAATTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.72
Consensus pattern (28 bp):
TATTTATTATTATTTATCTGATTTTATT
Found at i:4780619 original size:29 final size:29
Alignment explanation
Indices: 4780583--4780647 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
4780573 TTATCTAATT
4780583 TTTTTTTGTCATCTATTAATATATTTATC
1 TTTTTTTGTCATCTATTAATATATTTATC
*
4780612 TTTTTTTGTTATCTATTAATATATTTATC
1 TTTTTTTGTCATCTATTAATATATTTATC
4780641 TTTTTTT
1 TTTTTTT
4780648 TTTATTAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.68
Consensus pattern (29 bp):
TTTTTTTGTCATCTATTAATATATTTATC
Found at i:4781558 original size:21 final size:21
Alignment explanation
Indices: 4781510--4781558 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
4781500 AATTGTTTAA
4781510 TATTTTTAATTTTATTTATTT
1 TATTTTTAATTTTATTTATTT
*
4781531 TCA-TTTTCATTTTATTTATTT
1 T-ATTTTTAATTTTATTTATTT
4781552 TATTTTT
1 TATTTTT
4781559 TTAAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (21 bp):
TATTTTTAATTTTATTTATTT
Found at i:4781638 original size:59 final size:59
Alignment explanation
Indices: 4781565--4781853 Score: 261
Period size: 61 Copynumber: 4.8 Consensus size: 59
4781555 TTTTTTAAAT
* * *
4781565 AAAATTTTAAAAAAATTATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTTTCGAAATTA
1 AAAATTTTCAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTCGAAATTA
* **
4781625 AAAATTTTCAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTTTTTAAAATTA
1 AAAATTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTTTTCGAAATTA
* * *
4781685 AAAGTTTTCTAAAAAATATTTATG-GGAAAAAGTTGAAAGTATCAATTTTCCTT--AAA--A
1 AAAATTTTC-AAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTT-TTTCGAAATTA
* * * **
4781742 ATAAATTTTCAAAAAAAAAAAGATTTTGAGGAAAAGTTGAGAGTATCAATTTTCCTCGAAATT-
1 A-AAATTTTC---AAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTCGAAATTA
* * *
4781805 -AAAGTTTCAAAATAATATTTTTG-GAAAAAAGATGAAAGTATCAATTTTT
1 AAAATTTTCAAAA-AATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTT
4781854 CTTGCACAAA
Statistics
Matches: 190, Mismatches: 24, Indels: 32
0.77 0.10 0.13
Matches are distributed among these distances:
57 3 0.02
58 36 0.19
59 32 0.17
60 50 0.26
61 64 0.34
62 5 0.03
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (59 bp):
AAAATTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTCGAAATTA
Found at i:4781852 original size:119 final size:123
Alignment explanation
Indices: 4781634--4781852 Score: 304
Period size: 119 Copynumber: 1.8 Consensus size: 123
4781624 AAAAATTTTC
* ** *
4781634 AAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTTTTTAAAATTAAAAGTTTTCTAAAA
1 AAAAAAGATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCCTCAAAATTAAAAGTTTTCTAAAA
* *
4781699 AATATTTATGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAA
66 AATATTTATGGAAAAAAGATGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAA
* * *
4781757 AAAAAAGA-TTTTGAGGAAAAGTTGAGAGTATCAA-TTTTCCTCGAAATT-AAAG-TTTC-AAAA
1 AAAAAAGATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCCTCAAAATTAAAAGTTTTCTAAAA
*
4781817 TAATATTTTTGGAAAAAAGATGAAAGTATCAATTTT
66 -AATATTTATGGAAAAAAGATGAAAGTATCAATTTT
4781853 TCTTGCACAA
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
118 4 0.05
119 36 0.42
120 4 0.05
121 10 0.12
122 24 0.28
123 7 0.08
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (123 bp):
AAAAAAGATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCCTCAAAATTAAAAGTTTTCTAAAA
AATATTTATGGAAAAAAGATGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAA
Found at i:4783270 original size:326 final size:326
Alignment explanation
Indices: 4782670--4783320 Score: 1248
Period size: 326 Copynumber: 2.0 Consensus size: 326
4782660 GAATTGTAAG
* *
4782670 ATTTTAGGAAATAGACACCCCATAGGACTACTGAAGATTTATATCTTATAAGTATATATGTTTAT
1 ATTTTAAGAAATAGACACACCATAGGACTACTGAAGATTTATATCTTATAAGTATATATGTTTAT
4782735 ATGTTTGTGAGTGAATTAAAGGAGATTGAGATGATCCACATAGGTATGGTACATAGGTGCATATG
66 ATGTTTGTGAGTGAATTAAAGGAGATTGAGATGATCCACATAGGTATGGTACATAGGTGCATATG
4782800 GGTATATATTTGTTTGAGTTAAGAATATTCATAGAACTAGAGGAGATTGAGAGGGTCTATGGGTA
131 GGTATATATTTGTTTGAGTTAAGAATATTCATAGAACTAGAGGAGATTGAGAGGGTCTATGGGTA
*
4782865 TTAATTGTGAGTAAGATTGATTTGTCTTGGTGTAATTCTTTATAATTAGTGGATCTTATTTCTCA
196 TTAATTGTGAGTAAGATTGATTTGTCTTGGTGTAATTCTCTATAATTAGTGGATCTTATTTCTCA
4782930 TCCATAGATATAGGTCGATTGGTTTGAACCATATTAAATTATTATCTCTTATTGAGTGGTTGTTT
261 TCCATAGATATAGGTCGATTGGTTTGAACCATATTAAATTATTATCTCTTATTGAGTGGTTGTTT
4782995 A
326 A
*
4782996 ATTTTAAGAAATAGACACACCATAGGACTACTGAAGATTTATGTCTTATAAGTATATATGTTTAT
1 ATTTTAAGAAATAGACACACCATAGGACTACTGAAGATTTATATCTTATAAGTATATATGTTTAT
* *
4783061 ATGTTTGTGAGTGACTTAAAGGAGATTGAGATGGTCCACATAGGTATGGTACATAGGTGCATATG
66 ATGTTTGTGAGTGAATTAAAGGAGATTGAGATGATCCACATAGGTATGGTACATAGGTGCATATG
4783126 GGTATATATTTGTTTGAGTTAAGAATATTCATAGAACTAGAGGAGATTGAGAGGGTCTATGGGTA
131 GGTATATATTTGTTTGAGTTAAGAATATTCATAGAACTAGAGGAGATTGAGAGGGTCTATGGGTA
4783191 TTAATTGTGAGTAAGATTGATTTGTCTTGGTGTAATTCTCTATAATTAGTGGATCTTATTTCTCA
196 TTAATTGTGAGTAAGATTGATTTGTCTTGGTGTAATTCTCTATAATTAGTGGATCTTATTTCTCA
4783256 TCCATAGATATAGGTCGATTGGTTTGAACCATATTAAATTATTATCTCTTATTGAGTGGTTGTTT
261 TCCATAGATATAGGTCGATTGGTTTGAACCATATTAAATTATTATCTCTTATTGAGTGGTTGTTT
4783321 GATTGTTTGA
Statistics
Matches: 319, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
326 319 1.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (326 bp):
ATTTTAAGAAATAGACACACCATAGGACTACTGAAGATTTATATCTTATAAGTATATATGTTTAT
ATGTTTGTGAGTGAATTAAAGGAGATTGAGATGATCCACATAGGTATGGTACATAGGTGCATATG
GGTATATATTTGTTTGAGTTAAGAATATTCATAGAACTAGAGGAGATTGAGAGGGTCTATGGGTA
TTAATTGTGAGTAAGATTGATTTGTCTTGGTGTAATTCTCTATAATTAGTGGATCTTATTTCTCA
TCCATAGATATAGGTCGATTGGTTTGAACCATATTAAATTATTATCTCTTATTGAGTGGTTGTTT
A
Found at i:4783328 original size:8 final size:8
Alignment explanation
Indices: 4783315--4783348 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
4783305 TATTGAGTGG
4783315 TTGTTTGA
1 TTGTTTGA
4783323 TTGTTTGA
1 TTGTTTGA
*
4783331 TTGTCTGA
1 TTGTTTGA
4783339 TTGTTTGA
1 TTGTTTGA
4783347 TT
1 TT
4783349 ATGCTTTCGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.12, C:0.03, G:0.24, T:0.62
Consensus pattern (8 bp):
TTGTTTGA
Found at i:4784428 original size:13 final size:13
Alignment explanation
Indices: 4784401--4784442 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
4784391 AAATAAACAA
* *
4784401 TAAAATTAACAAT
1 TAAAATGAACTAT
4784414 TAAAA-GAAACTAT
1 TAAAATG-AACTAT
4784427 TAAAATGAACTAT
1 TAAAATGAACTAT
4784440 TAA
1 TAA
4784443 TATTTTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 24 0.96
14 1 0.04
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.29
Consensus pattern (13 bp):
TAAAATGAACTAT
Found at i:4784642 original size:6 final size:6
Alignment explanation
Indices: 4784631--4784673 Score: 50
Period size: 6 Copynumber: 6.7 Consensus size: 6
4784621 TAATAGATCC
*
4784631 AAAAAT AAAAATTT AAAAAT CAAAAAT TAAAAT AAAAAT AAAA
1 AAAAAT AAAAA--T AAAAAT -AAAAAT AAAAAT AAAAAT AAAA
4784674 TATCATGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 20 0.62
7 6 0.19
8 6 0.19
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:4784648 original size:14 final size:14
Alignment explanation
Indices: 4784631--4784669 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
4784621 TAATAGATCC
4784631 AAAAATAAAAATTT
1 AAAAATAAAAATTT
4784645 AAAAATCAAAAA-TT
1 AAAAAT-AAAAATTT
4784659 -AAAATAAAAAT
1 AAAAATAAAAAT
4784670 AAAATATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 8 0.35
15 5 0.22
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAATAAAAATTT
Found at i:4784649 original size:15 final size:14
Alignment explanation
Indices: 4784631--4784678 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
4784621 TAATAGATCC
4784631 AAAAAT-AAAAATTT
1 AAAAATCAAAAA-TT
4784645 AAAAATCAAAAATT
1 AAAAATCAAAAATT
4784659 -AAAAT-AAAAA-T
1 AAAAATCAAAAATT
4784670 AAAATATCA
1 AAAA-ATCA
4784679 TGAAAAAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.03
12 8 0.27
13 7 0.23
14 9 0.30
15 5 0.17
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAATCAAAAATT
Found at i:4786078 original size:17 final size:17
Alignment explanation
Indices: 4786056--4786122 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
4786046 CTAATGATAA
4786056 ATACTATTTCACTAAAC
1 ATACTATTTCACTAAAC
* *
4786073 ATACTATTTACTCCATCAGAAG
1 ATACTATTT-C-AC-T-A-AAC
4786095 A-ACTATTTCACTAAAC
1 ATACTATTTCACTAAAC
4786111 ATACTA-TTCACT
1 ATACTATTTCACT
4786123 CCATTAGGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
16 9 0.22
17 14 0.35
18 2 0.05
19 2 0.05
20 2 0.05
21 8 0.20
22 3 0.08
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (17 bp):
ATACTATTTCACTAAAC
Found at i:4795966 original size:13 final size:13
Alignment explanation
Indices: 4795948--4795995 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
4795938 CTATATATAT
4795948 AAATTAAAAATAA
1 AAATTAAAAATAA
**
4795961 AAATTATATATGTAA
1 AAATTA-A-AAATAA
4795976 AAATTAAAAATAA
1 AAATTAAAAATAA
4795989 AAATTAA
1 AAATTAA
4795996 GTTTAATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 17 0.59
14 2 0.07
15 10 0.34
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (13 bp):
AAATTAAAAATAA
Found at i:4795979 original size:28 final size:28
Alignment explanation
Indices: 4795939--4795994 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
4795929 ATTTAATTCC
*
4795939 TATATATATAAATTAAAAATAAAAATTA
1 TATATATAAAAATTAAAAATAAAAATTA
*
4795967 TATATGTAAAAATTAAAAATAAAAATTA
1 TATATATAAAAATTAAAAATAAAAATTA
4795995 AGTTTAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (28 bp):
TATATATAAAAATTAAAAATAAAAATTA
Found at i:4795985 original size:7 final size:7
Alignment explanation
Indices: 4795948--4795995 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
4795938 CTATATATAT
4795948 AAATTAA
1 AAATTAA
4795955 AAA-TAA
1 AAATTAA
*
4795961 AAATTAT
1 AAATTAA
*
4795968 ATATGTAA
1 AAAT-TAA
4795976 AAATTAA
1 AAATTAA
4795983 AAA-TAA
1 AAATTAA
4795989 AAATTAA
1 AAATTAA
4795996 GTTTAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 12 0.35
7 17 0.50
8 5 0.15
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (7 bp):
AAATTAA
Found at i:4800999 original size:21 final size:21
Alignment explanation
Indices: 4800973--4801013 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
4800963 GGATGTACAT
4800973 AGTGTTTGTTCAATAAAATGC
1 AGTGTTTGTTCAATAAAATGC
4800994 AGTGTTTGTTCAATAAAATG
1 AGTGTTTGTTCAATAAAATG
4801014 GCAAAGCAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (21 bp):
AGTGTTTGTTCAATAAAATGC
Found at i:4802501 original size:14 final size:15
Alignment explanation
Indices: 4802474--4802502 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4802464 ACGGCCATGA
4802474 TCATTAGTTCATTAC
1 TCATTAGTTCATTAC
4802489 TCATTAG-TCATTAC
1 TCATTAGTTCATTAC
4802503 CAAACCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.45
Consensus pattern (15 bp):
TCATTAGTTCATTAC
Found at i:4806504 original size:12 final size:12
Alignment explanation
Indices: 4806487--4806512 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4806477 CTCTATTGTA
4806487 ACCTGAGTTCTC
1 ACCTGAGTTCTC
4806499 ACCTGAGTTCTC
1 ACCTGAGTTCTC
4806511 AC
1 AC
4806513 TCTCTCTTTC
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:0.19, C:0.35, G:0.15, T:0.31
Consensus pattern (12 bp):
ACCTGAGTTCTC
Found at i:4810428 original size:2 final size:2
Alignment explanation
Indices: 4810421--4810448 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4810411 AATGCTTTAC
4810421 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
4810449 GCACGCATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4811711 original size:31 final size:30
Alignment explanation
Indices: 4811644--4811713 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
4811634 GAATCATTTC
*
4811644 AACCATTAAACATCTATTTTCACCCAATTG
1 AACCCTTAAACATCTATTTTCACCCAATTG
* *
4811674 AACCCTTAAATATCTATTTTTACCCCAATT-
1 AACCCTTAAACATCTATTTTCA-CCCAATTG
4811704 AAGCCCTTAA
1 AA-CCCTTAA
4811714 TCAGACGGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
30 21 0.60
31 14 0.40
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (30 bp):
AACCCTTAAACATCTATTTTCACCCAATTG
Found at i:4811901 original size:2 final size:2
Alignment explanation
Indices: 4811894--4811922 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4811884 TAAACCTAAA
4811894 AG AG 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 AG AG A
4811923 TTTGGAAATC
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4812684 original size:35 final size:35
Alignment explanation
Indices: 4812638--4812708 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
4812628 TAGCTTGAAG
4812638 TCTGTTGGTTTACGAGTTAAAACTTTAAAGCTGCC
1 TCTGTTGGTTTACGAGTTAAAACTTTAAAGCTGCC
*
4812673 TCTGTTGGTTTATGAGTTAAAACTTTAAAGCTGCC
1 TCTGTTGGTTTACGAGTTAAAACTTTAAAGCTGCC
4812708 T
1 T
4812709 TTTGTTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.39
Consensus pattern (35 bp):
TCTGTTGGTTTACGAGTTAAAACTTTAAAGCTGCC
Found at i:4815019 original size:2 final size:2
Alignment explanation
Indices: 4815012--4815043 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4815002 AGCTGACGTA
4815012 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4815044 CGCGTCTGAA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4815990 original size:4 final size:4
Alignment explanation
Indices: 4815983--4816007 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4815973 TGCTACTAGT
4815983 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
4816008 AACGCCATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:4820150 original size:18 final size:18
Alignment explanation
Indices: 4820129--4820163 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4820119 TCATAATTGC
* *
4820129 GGTCACGTTCTCGATAAT
1 GGTCACGATCACGATAAT
4820147 GGTCACGATCACGATAA
1 GGTCACGATCACGATAA
4820164 CGTGCACAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (18 bp):
GGTCACGATCACGATAAT
Found at i:4823067 original size:12 final size:13
Alignment explanation
Indices: 4823050--4823082 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4823040 TACACTACCT
4823050 AAAAACAAA-CAA
1 AAAAACAAAGCAA
*
4823062 AAAAACAAAGCAC
1 AAAAACAAAGCAA
4823075 AAAAACAA
1 AAAAACAA
4823083 TTAGAAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.79, C:0.18, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAACAAAGCAA
Found at i:4824426 original size:17 final size:17
Alignment explanation
Indices: 4824382--4824437 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
4824372 ACAGAATTTT
4824382 TATTATATTTTTAA-TAA
1 TATTA-ATTTTTAATTAA
*
4824399 T-TTAAAATTTTAATTAA
1 TATT-AATTTTTAATTAA
4824416 TATTAATTTTTATATTATA
1 TATTAATTTTTA-ATTA-A
4824435 TAT
1 TAT
4824438 AAATAAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 9 0.28
17 13 0.41
18 6 0.19
19 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTAATTTTTAATTAA
Found at i:4825375 original size:19 final size:20
Alignment explanation
Indices: 4825351--4825397 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
4825341 GTATGTTGTA
*
4825351 ATATAATATTAT-ATATGAT
1 ATATAATATTATGATAAGAT
4825370 ATATAATA-TATGATAAGAT
1 ATATAATATTATGATAAGAT
4825389 ATATAATAT
1 ATATAATAT
4825398 CAATGCAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 3 0.12
19 22 0.88
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (20 bp):
ATATAATATTATGATAAGAT
Found at i:4825600 original size:14 final size:15
Alignment explanation
Indices: 4825581--4825609 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4825571 AATAATTTAT
4825581 ATTATTTA-AAAATA
1 ATTATTTATAAAATA
4825595 ATTATTTATAAAATA
1 ATTATTTATAAAATA
4825610 TTAATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATTTATAAAATA
Found at i:4825612 original size:14 final size:13
Alignment explanation
Indices: 4825579--4825612 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
4825569 TTAATAATTT
4825579 ATATTATTTAAAA
1 ATATTATTTAAAA
4825592 ATAATTATTTATAAA
1 AT-ATTATTTA-AAA
4825607 ATATTA
1 ATATTA
4825613 ATAATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 12 0.63
15 5 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTATTTAAAA
Found at i:4826722 original size:30 final size:30
Alignment explanation
Indices: 4826654--4826755 Score: 84
Period size: 30 Copynumber: 3.4 Consensus size: 30
4826644 ATTTTATTGC
* * *
4826654 ATTCAAACAAATTGTTAATATTTAATTTAT
1 ATTCAAATAAATTTTTAATTTTTAATTTAT
4826684 ATAT-AAATAAATTTTTAATTTTTAATTT-T
1 AT-TCAAATAAATTTTTAATTTTTAATTTAT
* * * *
4826713 GATTCAAATAAGTCTTTAAACTTTTAATTTGT
1 -ATTCAAATAAAT-TTTTAATTTTTAATTTAT
4826745 ATAT-AAATAAA
1 AT-TCAAATAAA
4826756 CTCATAATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
29 2 0.03
30 32 0.54
31 23 0.39
32 2 0.03
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (30 bp):
ATTCAAATAAATTTTTAATTTTTAATTTAT
Found at i:4826753 original size:31 final size:29
Alignment explanation
Indices: 4826674--4826755 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 29
4826664 ATTGTTAATA
* *
4826674 TTTAATTTATATATAAATAAATTTTTAATT
1 TTTAATTT-TATATAAATAAATTTTAAACT
*
4826704 TTTAATTTTGAT-TCAAATAAGTCTTTAAACT
1 TTTAATTTT-ATAT-AAATAAAT-TTTAAACT
4826735 TTTAATTTGTATATAAATAAA
1 TTTAATTT-TATATAAATAAA
4826756 CTCATAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
29 2 0.05
30 17 0.40
31 22 0.51
32 2 0.05
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (29 bp):
TTTAATTTTATATAAATAAATTTTAAACT
Found at i:4826806 original size:15 final size:16
Alignment explanation
Indices: 4826774--4826807 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4826764 ATAAATTATT
4826774 TTTTATTAAAATAAAA
1 TTTTATTAAAATAAAA
*
4826790 TTTTATTTAAA-AAAA
1 TTTTATTAAAATAAAA
4826805 TTT
1 TTT
4826808 AAATATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTTATTAAAATAAAA
Found at i:4827303 original size:18 final size:19
Alignment explanation
Indices: 4827280--4827322 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
4827270 AAATTTTATT
4827280 TTATAAAAATT-TAAAATA
1 TTATAAAAATTATAAAATA
4827298 TTATAAAAATTACTAAAATA
1 TTATAAAAATTA-TAAAATA
4827318 -TATAA
1 TTATAA
4827323 TTTGATTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 11 0.48
19 5 0.22
20 7 0.30
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
TTATAAAAATTATAAAATA
Found at i:4828415 original size:21 final size:23
Alignment explanation
Indices: 4828372--4828416 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
4828362 AAAAAGTAAA
*
4828372 AAAATATAAAAATATATAATTTT
1 AAAATATAAAAATATAGAATTTT
4828395 AAAATAT-AAAATA-AGAATTTT
1 AAAATATAAAAATATAGAATTTT
4828416 A
1 A
4828417 GATGTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 6 0.29
23 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAATATAAAAATATAGAATTTT
Found at i:4830400 original size:16 final size:18
Alignment explanation
Indices: 4830366--4830400 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
4830356 CCTACCTTTA
4830366 ACAATCCCTTGAGACCCT
1 ACAATCCCTTGAGACCCT
4830384 ACAA-CCCTTGA-ACCCT
1 ACAATCCCTTGAGACCCT
4830400 A
1 A
4830401 ACCCTTAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 7 0.41
18 4 0.24
ACGTcount: A:0.31, C:0.40, G:0.09, T:0.20
Consensus pattern (18 bp):
ACAATCCCTTGAGACCCT
Found at i:4831385 original size:3 final size:3
Alignment explanation
Indices: 4831377--4831408 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4831367 ATATTTGTTT
4831377 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4831409 TGAACAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4831831 original size:29 final size:29
Alignment explanation
Indices: 4831779--4831847 Score: 113
Period size: 29 Copynumber: 2.3 Consensus size: 29
4831769 TTTTCTATGA
4831779 AATAAAATAAAAATTAACTAAAAATTATT
1 AATAAAATAAAAATTAACTAAAAATTATT
4831808 AATAAGAATAAAAATTAACT-AAAATTATT
1 AATAA-AATAAAAATTAACTAAAAATTATT
4831837 AATAACAATAA
1 AATAA-AATAA
4831848 TAACAAAAGG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 24 0.63
30 14 0.37
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (29 bp):
AATAAAATAAAAATTAACTAAAAATTATT
Found at i:4836130 original size:3 final size:3
Alignment explanation
Indices: 4836122--4836182 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
4836112 TTCTTACATT
4836122 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4836170 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
4836183 ATAAGGTTTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4836342 original size:21 final size:22
Alignment explanation
Indices: 4836318--4836363 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
4836308 TAATATGCAT
4836318 AAATAA-AATTTAAAATAA-CAA
1 AAATAATAATTTAAAA-AATCAA
*
4836339 AAATAATATTTTAAAAAATCAA
1 AAATAATAATTTAAAAAATCAA
4836361 AAA
1 AAA
4836364 ATTCAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (22 bp):
AAATAATAATTTAAAAAATCAA
Found at i:4838915 original size:22 final size:21
Alignment explanation
Indices: 4838867--4838916 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
4838857 TTGCCTGAAG
*
4838867 GTCTTAAAGATTGTGCTCAAA
1 GTCTTAAAGATTATGCTCAAA
* *
4838888 GATCTTAGAGATTATGTTCGAAA
1 G-TCTTAAAGATTATGCTC-AAA
4838911 GTCTTA
1 GTCTTA
4838917 CAAATCTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 19 0.79
23 4 0.17
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (21 bp):
GTCTTAAAGATTATGCTCAAA
Found at i:4845874 original size:21 final size:20
Alignment explanation
Indices: 4845850--4845915 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 20
4845840 TATTTATTTA
4845850 TTATTATAAAACAATAAAATT
1 TTATTATAAAA-AATAAAATT
*
4845871 TTATTTTAAAAAATTTAAACATT
1 TTATTATAAAAAA--TAAA-ATT
* *
4845894 TTAATATACATAAATAAAATT
1 TTATTATA-AAAAATAAAATT
4845915 T
1 T
4845916 AAAACAACAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 2 0.05
21 14 0.38
22 8 0.22
23 9 0.24
24 4 0.11
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TTATTATAAAAAATAAAATT
Found at i:4845929 original size:21 final size:21
Alignment explanation
Indices: 4845905--4845958 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
4845895 TAATATACAT
4845905 AAATAAAATTTAAAACAA-CAA
1 AAATAAAATTTAAAA-AATCAA
* *
4845926 AAATAATATTTTAAAAAATTAA
1 AAATAA-AATTTAAAAAATCAA
*
4845948 AAAAAAAATTT
1 AAATAAAATTT
4845959 TACGTGAACC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATAAAATTTAAAAAATCAA
Found at i:4847115 original size:24 final size:26
Alignment explanation
Indices: 4847088--4847139 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
4847078 AGGGATTGTG
4847088 TTGGCTT-TT-TTATTTTTTTT-GTTT
1 TTGGCTTCTTCTT-TTTTTTTTGGTTT
*
4847112 TTGGGTTCTTCTTTTTTTTTTGGTTT
1 TTGGCTTCTTCTTTTTTTTTTGGTTT
4847138 TT
1 TT
4847140 TTAGGTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 6 0.25
25 10 0.42
26 8 0.33
ACGTcount: A:0.02, C:0.06, G:0.15, T:0.77
Consensus pattern (26 bp):
TTGGCTTCTTCTTTTTTTTTTGGTTT
Found at i:4847687 original size:16 final size:17
Alignment explanation
Indices: 4847668--4847702 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
4847658 TTTTTTTAAC
4847668 TTTTTTTAT-TTTTTTG
1 TTTTTTTATATTTTTTG
4847684 TTTTTTTATATTTTTTG
1 TTTTTTTATATTTTTTG
4847701 TT
1 TT
4847703 GTATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.86
Consensus pattern (17 bp):
TTTTTTTATATTTTTTG
Found at i:4853847 original size:20 final size:20
Alignment explanation
Indices: 4853822--4853861 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4853812 TCTCTATGTG
4853822 AGGCATAGATGTCATCTGTT
1 AGGCATAGATGTCATCTGTT
4853842 AGGCATAGATGTCATCTGTT
1 AGGCATAGATGTCATCTGTT
4853862 TCATCGCTCT
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:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (20 bp):
AGGCATAGATGTCATCTGTT
Found at i:4855781 original size:44 final size:43
Alignment explanation
Indices: 4855733--4855826 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 43
4855723 AAGTTATTGT
*
4855733 GCCTCTACTTA-GATAAGCCT-TTTAAAGTTTTCAAAAGTTGTCAA
1 GCCTCTACTTAGGA-AAG-CTGTTTAAA-TTTTCAAAAGTTGCCAA
* * *
4855777 GCCTCTGCTTAGGAGAGTTGTTTAAATTTTCAAAAGTTGCCAA
1 GCCTCTACTTAGGAAAGCTGTTTAAATTTTCAAAAGTTGCCAA
*
4855820 ACCTCTA
1 GCCTCTA
4855827 GTAAGATGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
43 22 0.52
44 18 0.43
45 2 0.05
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (43 bp):
GCCTCTACTTAGGAAAGCTGTTTAAATTTTCAAAAGTTGCCAA
Found at i:4856151 original size:12 final size:13
Alignment explanation
Indices: 4856134--4856167 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
4856124 AGACCCACTA
4856134 TTTTATTTTTA-C
1 TTTTATTTTTATC
4856146 TTTTATTTTTATTC
1 TTTTATTTTTA-TC
4856160 TTTTATTT
1 TTTTATTT
4856168 AGTTTTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 11 0.55
14 9 0.45
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTATTTTTATC
Found at i:4857730 original size:29 final size:29
Alignment explanation
Indices: 4857678--4857775 Score: 171
Period size: 29 Copynumber: 3.4 Consensus size: 29
4857668 TTTTCTATGA
4857678 AATAA-AATAAAAATTAACTAAAAATTATT
1 AATAAGAATAAAAATTAACT-AAAATTATT
4857707 AATAAGAATAAAAATTAACTAAAATTATT
1 AATAAGAATAAAAATTAACTAAAATTATT
4857736 AATAAGAATAAAAATTAACTAAAATTATT
1 AATAAGAATAAAAATTAACTAAAATTATT
*
4857765 AATAAAAATAA
1 AATAAGAATAA
4857776 TAAAAATAAA
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 53 0.79
30 14 0.21
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (29 bp):
AATAAGAATAAAAATTAACTAAAATTATT
Found at i:4864148 original size:18 final size:18
Alignment explanation
Indices: 4864125--4864159 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4864115 AAAAGTTTGA
*
4864125 TAATTTGTACTCGAGTTC
1 TAATTTGAACTCGAGTTC
*
4864143 TAATTTGAATTCGAGTT
1 TAATTTGAACTCGAGTT
4864160 ATTTTATCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (18 bp):
TAATTTGAACTCGAGTTC
Found at i:4866371 original size:72 final size:72
Alignment explanation
Indices: 4866189--4866379 Score: 222
Period size: 73 Copynumber: 2.6 Consensus size: 72
4866179 TTAAGGATGT
** * *
4866189 TTATAAGATAAAAATGTAATTTTTGTTAAAAACATAAAACAATATATGTTTTTCAAGATTTAACA
1 TTATAAGATAAAAAAATAATTTTTGTTAAAAATATAAAA-AA-ATA-GTTTTTCAAAATTTAACA
**
4866254 AAAAAAATGT
63 AAAAAAATAC
* * *
4866264 TTCTAAAATAAAAAAATACAGTCTTTGTTAAAAATATAAAAAAATA-TTTTTCAAAATTTAACAA
1 TTATAAGATAAAAAAATA-A-TTTTTGTTAAAAATATAAAAAAATAGTTTTTCAAAATTTAACAA
*
4866328 AAAAGATAC
64 AAAAAATAC
*
4866337 TTATAAGATAAAAAACATTATTTTTGTTAAAAATATAAAAAAA
1 TTATAAGATAAAAAA-ATAATTTTTGTTAAAAATATAAAAAAA
4866380 AATTATAGAA
Statistics
Matches: 99, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
72 22 0.22
73 37 0.37
74 2 0.02
75 17 0.17
76 3 0.03
77 18 0.18
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (72 bp):
TTATAAGATAAAAAAATAATTTTTGTTAAAAATATAAAAAAATAGTTTTTCAAAATTTAACAAAA
AAAATAC
Found at i:4866636 original size:73 final size:73
Alignment explanation
Indices: 4866557--4866696 Score: 203
Period size: 73 Copynumber: 1.9 Consensus size: 73
4866547 ATAAATAAAT
* * * *
4866557 TTCTAAGATAAAAATGTA-ATTTTTTGTTAAAAACATAAAAAAA-ATATTTTTCAAAATTCAACA
1 TTCTAAGATAAAAA-ATACAGTATTTATTAAAAACATAAAAAAATATATTTTT-AAAATTCAACA
4866620 AAGATAATAC
64 AAGATAATAC
*
4866630 TTCTAAGATAAAAAATACAGTATTTATTAAAAATATAAAAAAATATATTTTTAAAATTCAACAAA
1 TTCTAAGATAAAAAATACAGTATTTATTAAAAACATAAAAAAATATATTTTTAAAATTCAACAAA
4866695 GA
66 GA
4866697 CAACGTCTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
72 2 0.03
73 50 0.83
74 8 0.13
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (73 bp):
TTCTAAGATAAAAAATACAGTATTTATTAAAAACATAAAAAAATATATTTTTAAAATTCAACAAA
GATAATAC
Found at i:4868113 original size:16 final size:16
Alignment explanation
Indices: 4868076--4868114 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4868066 ATTATTTTAA
* *
4868076 ATATAAATATAAAATT
1 ATATATATATAAAAAT
*
4868092 AAATATATATAAAAAT
1 ATATATATATAAAAAT
4868108 ATATATA
1 ATATATA
4868115 AGTAAATATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATATATATAAAAAT
Found at i:4868121 original size:14 final size:13
Alignment explanation
Indices: 4868078--4868124 Score: 55
Period size: 12 Copynumber: 3.7 Consensus size: 13
4868068 TATTTTAAAT
4868078 ATAAATATA-A-A
1 ATAAATATATATA
4868089 ATTAAATATATATA
1 A-TAAATATATATA
4868103 A-AAATATATATA
1 ATAAATATATATA
4868115 AGTAAATATA
1 A-TAAATATA
4868125 AATTTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
11 1 0.03
12 20 0.65
13 1 0.03
14 9 0.29
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (13 bp):
ATAAATATATATA
Found at i:4868966 original size:16 final size:16
Alignment explanation
Indices: 4868925--4868967 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
4868915 TTTATTTTAT
4868925 TTTAAATATAAAAAAA
1 TTTAAATATAAAAAAA
* * *
4868941 TTAAAAATATAATATAA
1 TT-TAAATATAAAAAAA
4868958 TTTAAATATA
1 TTTAAATATA
4868968 TTTATTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TTTAAATATAAAAAAA
Found at i:4871709 original size:27 final size:25
Alignment explanation
Indices: 4871679--4871741 Score: 63
Period size: 27 Copynumber: 2.4 Consensus size: 25
4871669 AATTATAATT
4871679 TAAATAATTTAAATATGTAAATAAATA
1 TAAATAATTT-AATATGTAAATAAA-A
* * *
4871706 TAAAATGATTTAATTTGTAATTAAAA
1 T-AAATAATTTAATATGTAAATAAAA
*
4871732 TAAATTATTT
1 TAAATAATTT
4871742 TATTTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 8 0.26
26 2 0.06
27 13 0.42
28 8 0.26
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (25 bp):
TAAATAATTTAATATGTAAATAAAA
Found at i:4871716 original size:28 final size:26
Alignment explanation
Indices: 4871680--4871735 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
4871670 ATTATAATTT
4871680 AAATAATTTAAATATGTAAATAAATATA
1 AAATAATTT-AATATGTAAATAAA-ATA
* * *
4871708 AAATGATTTAATTTGTAATTAAAATA
1 AAATAATTTAATATGTAAATAAAATA
4871734 AA
1 AA
4871736 TTATTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.20
27 12 0.48
28 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (26 bp):
AAATAATTTAATATGTAAATAAAATA
Found at i:4872969 original size:22 final size:22
Alignment explanation
Indices: 4872941--4872983 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4872931 AAACTTTACA
4872941 AAAAAAGATGAATAAAA-AAAAG
1 AAAAAAG-TGAATAAAATAAAAG
4872963 AAAAAAGTGAATAAAATAAAA
1 AAAAAAGTGAATAAAATAAAA
4872984 AAATATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (22 bp):
AAAAAAGTGAATAAAATAAAAG
Found at i:4873155 original size:24 final size:22
Alignment explanation
Indices: 4873112--4873156 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
4873102 TATATTTTTA
* *
4873112 AATTTATATTTGATACACTATT
1 AATTTATATTTCATAAACTATT
4873134 AATTTATAAATTTCATAAACTAT
1 AATTTAT--ATTTCATAAACTAT
4873157 CAGAATTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
24 12 0.63
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (22 bp):
AATTTATATTTCATAAACTATT
Found at i:4873218 original size:14 final size:15
Alignment explanation
Indices: 4873201--4873239 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
4873191 ATATCAATTC
4873201 TTAAAATAAATA-TT
1 TTAAAATAAATATTT
*
4873215 TTAAAATTAATATTT
1 TTAAAATAAATATTT
4873230 TTAAAA-AAAT
1 TTAAAATAAAT
4873240 TTATTTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAAAATAAATATTT
Found at i:4873439 original size:24 final size:22
Alignment explanation
Indices: 4873396--4873440 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
4873386 TATACTTTTA
* *
4873396 AATTTATATTTGATACACTATT
1 AATTTATATTTCATAAACTATT
4873418 AATTTATAAATTTCATAAACTAT
1 AATTTAT--ATTTCATAAACTAT
4873441 CATAATCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
24 12 0.63
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (22 bp):
AATTTATATTTCATAAACTATT
Found at i:4873528 original size:270 final size:275
Alignment explanation
Indices: 4873028--4873589 Score: 841
Period size: 284 Copynumber: 2.0 Consensus size: 275
4873018 ATGAAAAATA
*
4873028 ATATAAAAATTTTATTCATTATTTACTAAAATTTAAAATGGAAGAAACAAATTAAAATTTTATTA
1 ATATAAAAATTTTATTCATTATTTACTAAAATTTAAAATGAAAGAAACAAATTAAAATTTTATTA
*
4873093 AATTTTAAGTATATTTTTAAATTTATATTTGATACACTATTAATTTATAAATTTCATAAACTATC
66 AATTTTAAGTATACTTTTAAATTTATATTTGATACACTATTAATTTATAAATTTCATAAACTATC
* * *
4873158 AGAATTAGATTATAGCATATTATTAATATGTAAATATCAATTCTTAAAATAAATATTTTAAAATT
131 AGAATCAGATGATAGCATATTATTAATATGCAAATATCAATTCTTAAAATAAATA--TT--AATT
* *
4873223 AATATTTTTAAAAAAATTTATTTATTAATAAGATGTTAGT-ATTTGATTGACTATATTAATGAA-
192 -ATA----TAAAAAAATTTATTTATTAATAAGATGTTA-TCATCTGATTCACTATATTAAT-AAG
* * *
4873286 CTGATATCATCTCATTTATTGATAGT
250 ATGATATCATCTAATTTAATGATAGT
* *
4873312 ATATAAAAATTTTATTTATTATTTACTAAAATTTAAAATGAAATAAACAAATTAAAATTTTATTA
1 ATATAAAAATTTTATTCATTATTTACTAAAATTTAAAATGAAAGAAACAAATTAAAATTTTATTA
*
4873377 ATTTTTAAGTATACTTTTAAATTTATATTTGATACACTATTAATTTATAAATTTCATAAACTATC
66 AATTTTAAGTATACTTTTAAATTTATATTTGATACACTATTAATTTATAAATTTCATAAACTATC
*
4873442 ATAATCAGATGATAGCATATTATTAATATGCAAATATCAATTCTTAAAATAAATA-T-A-T-TA-
131 AGAATCAGATGATAGCATATTATTAATATGCAAATATCAATTCTTAAAATAAATATTAATTATAT
*
4873502 AAAAAAATTTATTTATTAATAAGATGTTATCATCTGCTTCACTATATTAATAAGATGATATCATC
196 AAAAAAATTTATTTATTAATAAGATGTTATCATCTGATTCACTATATTAATAAGATGATATCATC
4873567 TAATTTAATGATAGT
261 TAATTTAATGATAGT
4873582 ATATAAAA
1 ATATAAAA
4873590 TTTATATATT
Statistics
Matches: 261, Mismatches: 15, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
269 3 0.01
270 77 0.30
275 2 0.01
277 1 0.00
278 1 0.00
281 1 0.00
284 176 0.67
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (275 bp):
ATATAAAAATTTTATTCATTATTTACTAAAATTTAAAATGAAAGAAACAAATTAAAATTTTATTA
AATTTTAAGTATACTTTTAAATTTATATTTGATACACTATTAATTTATAAATTTCATAAACTATC
AGAATCAGATGATAGCATATTATTAATATGCAAATATCAATTCTTAAAATAAATATTAATTATAT
AAAAAAATTTATTTATTAATAAGATGTTATCATCTGATTCACTATATTAATAAGATGATATCATC
TAATTTAATGATAGT
Found at i:4879186 original size:15 final size:16
Alignment explanation
Indices: 4879157--4879189 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4879147 TTATGTATTT
*
4879157 TTTTTATAAATATATA
1 TTTTAATAAATATATA
4879173 TTTTAATAAA-ATATA
1 TTTTAATAAATATATA
4879188 TT
1 TT
4879190 AATTCTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTAATAAATATATA
Found at i:4893469 original size:54 final size:54
Alignment explanation
Indices: 4893410--4893520 Score: 204
Period size: 54 Copynumber: 2.1 Consensus size: 54
4893400 CAGCAAATGA
*
4893410 TATGGATGGGAAGGTTGAGCAAAATCAATTAACTTCTTCCATGGGGCTGGTTGG
1 TATGGATGGGAAGGTTGAGCAAAATCAATTAAATTCTTCCATGGGGCTGGTTGG
*
4893464 TATGGATGGGAAGGTTGAGCAAAATCAATTAAATTCTTCCATGGGTCTGGTTGG
1 TATGGATGGGAAGGTTGAGCAAAATCAATTAAATTCTTCCATGGGGCTGGTTGG
4893518 TAT
1 TAT
4893521 ACGTTTCTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.32
Consensus pattern (54 bp):
TATGGATGGGAAGGTTGAGCAAAATCAATTAAATTCTTCCATGGGGCTGGTTGG
Found at i:4903279 original size:32 final size:34
Alignment explanation
Indices: 4903240--4903303 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
4903230 AAATATTTTA
*
4903240 TTTTTGTTTATAC-TA-ATCATATTATTGTTGTT
1 TTTTTGTTTATACTTATAACATATTATTGTTGTT
4903272 TTTTTGTTTATACTTATAACATATTATTGTTG
1 TTTTTGTTTATACTTATAACATATTATTGTTG
4903304 ATATAAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.45
33 2 0.07
34 14 0.48
ACGTcount: A:0.23, C:0.06, G:0.09, T:0.61
Consensus pattern (34 bp):
TTTTTGTTTATACTTATAACATATTATTGTTGTT
Found at i:4912325 original size:14 final size:15
Alignment explanation
Indices: 4912306--4912338 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
4912296 CTTAGCAGGA
4912306 TAAGAAAA-AAAAAT
1 TAAGAAAAGAAAAAT
4912320 TAAGAAAATGAAAAAT
1 TAAGAAAA-GAAAAAT
4912336 TAA
1 TAA
4912339 TTTGAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
16 9 0.53
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (15 bp):
TAAGAAAAGAAAAAT
Found at i:4912513 original size:18 final size:18
Alignment explanation
Indices: 4912474--4912519 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
4912464 AAATCAAACC
* **
4912474 AAATTATATGTTTTTATT
1 AAATTATATATTTTTAAA
4912492 AAATTATATATTTTTAAA
1 AAATTATATATTTTTAAA
*
4912510 AAATTTTATA
1 AAATTATATA
4912520 AAATAAACAT
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:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
AAATTATATATTTTTAAA
Found at i:4917236 original size:101 final size:101
Alignment explanation
Indices: 4917081--4917470 Score: 422
Period size: 101 Copynumber: 4.0 Consensus size: 101
4917071 AATCAGCATG
* * * *
4917081 CTTAAGGCCTAGATTTATAAGTCAGGTTTTGTAAAATAGAAGTAATCAGCTTTATATATAAACAT
1 CTTAAGGCCTTGATTTACATGTCAGGTTTTGTAAAATAGAAGTAATCAGCTTTATATATAAATAT
4917146 ATTAGACAGGAAGAAACAAAAGAATAACATATTATT
66 ATTAGACAGGAAGAAACAAAAGAATAACATATTATT
4917182 CTTAAGGCCTTGATTTACATGTCAGGTTTTGTAAAATAGAAGTAATCAGCTTTATATATAAATAT
1 CTTAAGGCCTTGATTTACATGTCAGGTTTTGTAAAATAGAAGTAATCAGCTTTATATATAAATAT
4917247 ATTAGACAGGAAGAAACAAAAGAAT-A-ATA-TA--
66 ATTAGACAGGAAGAAACAAAAGAATAACATATTATT
** * * ** * * *
4917278 -TT-A--CCATTAGA-AAACGTGGCAGAAG-AATG--AATTAG--GCT--TCAAGTCATAATA-A
1 CTTAAGGCC-TT-GATTTACATGTCAG--GTTTTGTAAAATAGAAG-TAATC-AG-CTTTATATA
* * * *
4917330 GAGATATATTATA-AAGAAGAAACAAAAGAATAACATATTATT
59 TAAATATATTAGACAGGAAGAAACAAAAGAATAACATATTATT
4917372 CTTAAGGCCTTGATTTACATGTCAGGTTTTGTAAAATAGAAGTAATCAGCTTTATATATAAATAT
1 CTTAAGGCCTTGATTTACATGTCAGGTTTTGTAAAATAGAAGTAATCAGCTTTATATATAAATAT
*
4917437 ATTAGACAGGAAGAAACAAAAGAATAATATATTA
66 ATTAGACAGGAAGAAACAAAAGAATAACATATTA
4917471 CCATTAGAAA
Statistics
Matches: 232, Mismatches: 31, Indels: 52
0.74 0.10 0.17
Matches are distributed among these distances:
89 19 0.08
90 15 0.06
91 9 0.04
92 9 0.04
93 9 0.04
94 5 0.02
95 6 0.03
96 5 0.02
97 9 0.04
98 9 0.04
99 9 0.04
100 15 0.06
101 113 0.49
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.30
Consensus pattern (101 bp):
CTTAAGGCCTTGATTTACATGTCAGGTTTTGTAAAATAGAAGTAATCAGCTTTATATATAAATAT
ATTAGACAGGAAGAAACAAAAGAATAACATATTATT
Found at i:4917478 original size:190 final size:190
Alignment explanation
Indices: 4917155--4917541 Score: 765
Period size: 190 Copynumber: 2.0 Consensus size: 190
4917145 TATTAGACAG
4917155 GAAGAAACAAAAGAATAACATATTATTCTTAAGGCCTTGATTTACATGTCAGGTTTTGTAAAATA
1 GAAGAAACAAAAGAATAACATATTATTCTTAAGGCCTTGATTTACATGTCAGGTTTTGTAAAATA
4917220 GAAGTAATCAGCTTTATATATAAATATATTAGACAGGAAGAAACAAAAGAATAATATATTACCAT
66 GAAGTAATCAGCTTTATATATAAATATATTAGACAGGAAGAAACAAAAGAATAATATATTACCAT
4917285 TAGAAAACGTGGCAGAAGAATGAATTAGGCTTCAAGTCATAATAAGAGATATATTATAAA
131 TAGAAAACGTGGCAGAAGAATGAATTAGGCTTCAAGTCATAATAAGAGATATATTATAAA
4917345 GAAGAAACAAAAGAATAACATATTATTCTTAAGGCCTTGATTTACATGTCAGGTTTTGTAAAATA
1 GAAGAAACAAAAGAATAACATATTATTCTTAAGGCCTTGATTTACATGTCAGGTTTTGTAAAATA
4917410 GAAGTAATCAGCTTTATATATAAATATATTAGACAGGAAGAAACAAAAGAATAATATATTACCAT
66 GAAGTAATCAGCTTTATATATAAATATATTAGACAGGAAGAAACAAAAGAATAATATATTACCAT
4917475 TAGAAAACGTGGCAGAAGAATGAATTAGGCTTCAAGTCATAATAAGAGATATATTATAAA
131 TAGAAAACGTGGCAGAAGAATGAATTAGGCTTCAAGTCATAATAAGAGATATATTATAAA
*
4917535 GAGGAAA
1 GAAGAAA
4917542 TGTAACAACT
Statistics
Matches: 196, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
190 196 1.00
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.28
Consensus pattern (190 bp):
GAAGAAACAAAAGAATAACATATTATTCTTAAGGCCTTGATTTACATGTCAGGTTTTGTAAAATA
GAAGTAATCAGCTTTATATATAAATATATTAGACAGGAAGAAACAAAAGAATAATATATTACCAT
TAGAAAACGTGGCAGAAGAATGAATTAGGCTTCAAGTCATAATAAGAGATATATTATAAA
Found at i:4921050 original size:4 final size:4
Alignment explanation
Indices: 4921041--4921065 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4921031 TCAGTGGAGA
4921041 AAAC AAAC AAAC AAAC AAAC AAAC A
1 AAAC AAAC AAAC AAAC AAAC AAAC A
4921066 GGTTGGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:4922111 original size:11 final size:11
Alignment explanation
Indices: 4922080--4922112 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
4922070 TTATTTTTTG
4922080 TAAAAA-TAAA
1 TAAAAATTAAA
4922090 TAAATAATTAAA
1 TAAA-AATTAAA
4922102 TAAAAATTAAA
1 TAAAAATTAAA
4922113 GATAAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.19
11 9 0.43
12 8 0.38
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TAAAAATTAAA
Found at i:4922815 original size:13 final size:13
Alignment explanation
Indices: 4922793--4922822 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4922783 ATTAAAGACA
*
4922793 AATTAGTTCAATT
1 AATTAATTCAATT
4922806 AATTAATTCAATT
1 AATTAATTCAATT
4922819 AATT
1 AATT
4922823 TTGAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (13 bp):
AATTAATTCAATT
Found at i:4924613 original size:30 final size:30
Alignment explanation
Indices: 4924548--4924615 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
4924538 TTATATACGA
* ***
4924548 ATTTATTTAAATACAAATTAAAGTTTAAAG
1 ATTTATTTAAATAAAAATTAAAGAGAAAAG
4924578 ATTTATTTAAATAAAAATTAAAAGAGAAAAG
1 ATTTATTTAAATAAAAATT-AAAGAGAAAAG
4924609 -TTTATTT
1 ATTTATTT
4924616 TGATGCAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 25 0.76
31 8 0.24
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.40
Consensus pattern (30 bp):
ATTTATTTAAATAAAAATTAAAGAGAAAAG
Found at i:4927470 original size:24 final size:24
Alignment explanation
Indices: 4927440--4927490 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4927430 GTATATGCTA
*
4927440 GAACAAATTATGTAAAAAAACTAG
1 GAACAAATTAAGTAAAAAAACTAG
* *
4927464 GAACAAATTAAGTAAAAACACTTG
1 GAACAAATTAAGTAAAAAAACTAG
4927488 GAA
1 GAA
4927491 GGCACTAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.57, C:0.10, G:0.14, T:0.20
Consensus pattern (24 bp):
GAACAAATTAAGTAAAAAAACTAG
Found at i:4932658 original size:27 final size:25
Alignment explanation
Indices: 4932613--4932669 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
4932603 TAATTATATT
**
4932613 TTAAAATAAATTTAAAATTTTAAAATA
1 TTAAAATAAAAATAAAATTTT--AATA
*
4932640 TTAAAATAAAAATATAATTTTAATA
1 TTAAAATAAAAATAAAATTTTAATA
4932665 TTAAA
1 TTAAA
4932670 TGACTTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 9 0.33
27 18 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
TTAAAATAAAAATAAAATTTTAATA
Found at i:4943327 original size:7 final size:7
Alignment explanation
Indices: 4943315--4943339 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4943305 GGAGCCTTGC
4943315 TCTAAAG
1 TCTAAAG
4943322 TCTAAAG
1 TCTAAAG
4943329 TCTAAAG
1 TCTAAAG
4943336 TCTA
1 TCTA
4943340 TACTCTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (7 bp):
TCTAAAG
Found at i:4943346 original size:14 final size:14
Alignment explanation
Indices: 4943314--4943348 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
4943304 TGGAGCCTTG
4943314 CTCTAAAGTCTAAA
1 CTCTAAAGTCTAAA
* *
4943328 GTCTAAAGTCTATA
1 CTCTAAAGTCTAAA
4943342 CTCTAAA
1 CTCTAAA
4943349 CCGTGTCTCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (14 bp):
CTCTAAAGTCTAAA
Found at i:4945547 original size:16 final size:16
Alignment explanation
Indices: 4945521--4945553 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4945511 TTTTGGCATG
4945521 TGTTATTTGTTTTGTTT
1 TGTTATTTGTTTT-TTT
4945538 TGTT-TTTGTTTTTTT
1 TGTTATTTGTTTTTTT
4945553 T
1 T
4945554 AATACACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (16 bp):
TGTTATTTGTTTTTTT
Found at i:4958206 original size:14 final size:13
Alignment explanation
Indices: 4958187--4958218 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
4958177 TCAAGAAGAG
4958187 AAAAAAAAGCAAAA
1 AAAAAAAAG-AAAA
4958201 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
4958214 AAAAA
1 AAAAA
4958219 GAGAGAGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.91, C:0.03, G:0.06, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAA
Found at i:4959015 original size:3 final size:3
Alignment explanation
Indices: 4958994--4959169 Score: 75
Period size: 3 Copynumber: 65.0 Consensus size: 3
4958984 CTGTTTTTAC
* * * *
4958994 TAT TTT TAT T-T TGT TAT TAT TAT TGT TA- TAT TAT CA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
4959039 CA- TAT TA- TAT TA- TAC TA- TAT TA- TAT T-G TAT CA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
4959080 AAT TAT T-T TGT CAT TA- TAG TA- TCT TAT TAT TAT TAC TAT T-G TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4959124 TAT TAT TA- TAT TA- TAG TA- TAT TA- TAT TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4959167 TAT
1 TAT
4959170 CCTTTGTTTT
Statistics
Matches: 130, Mismatches: 24, Indels: 38
0.68 0.12 0.20
Matches are distributed among these distances:
2 32 0.25
3 98 0.75
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:4959050 original size:5 final size:5
Alignment explanation
Indices: 4959029--4959169 Score: 83
Period size: 5 Copynumber: 27.4 Consensus size: 5
4959019 TTATATTATC
* * * *
4959029 ATATT ATTATC ATATT ATATT ATACT ATATT ATATT GTATC ATA-T -TATT
1 ATATT A-TATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
* * * * *
4959078 ATAATT ATTTT GTCATT ATAGT AT-CT -TATT ATTATT ACTATT GTATT
1 AT-ATT ATATT AT-ATT ATATT ATATT ATATT A-TATT A-TATT ATATT
* *
4959125 ATTATT ATATT ATAGT ATATT ATATT ATTATT ATTATT ATTTT AT
1 A-TATT ATATT ATATT ATATT ATATT A-TATT A-TATT ATATT AT
4959170 CCTTTGTTTT
Statistics
Matches: 105, Mismatches: 21, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
3 3 0.03
4 3 0.03
5 62 0.59
6 37 0.35
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:4959127 original size:41 final size:37
Alignment explanation
Indices: 4959029--4959169 Score: 115
Period size: 41 Copynumber: 3.6 Consensus size: 37
4959019 TTATATTATC
* * *
4959029 ATATTATTA-TCA-TATTATATTATACTATATTATATT
1 ATATTATTACT-ATTATTATTTTATATTATAGTATATT
* * * * *
4959065 GTATCATATTATTATAATTATTTTGTCATTATAGTATCTT
1 ATAT--TATTACTATTATTATTTTAT-ATTATAGTATATT
4959105 ATTATTATTACTATTGTATTATTATTATATTATAGTATATT
1 A-TATTATTACTA-T-TATTATT-TTATATTATAGTATATT
*
4959146 ATATTATTATTATTATTATTTTAT
1 ATATTATTACTATTATTATTTTAT
4959170 CCTTTGTTTT
Statistics
Matches: 83, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
36 3 0.04
37 4 0.05
38 13 0.16
39 17 0.20
40 21 0.25
41 22 0.27
42 3 0.04
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (37 bp):
ATATTATTACTATTATTATTTTATATTATAGTATATT
Found at i:4959130 original size:11 final size:11
Alignment explanation
Indices: 4959008--4959169 Score: 96
Period size: 11 Copynumber: 15.5 Consensus size: 11
4958998 TTTATTTTGT
*
4959008 TATTATTATTG
1 TATTATTATTA
*
4959019 T-TATATTATCA
1 TAT-TATTATTA
*
4959030 TATTATTATCA
1 TATTATTATTA
4959041 TATTA-TATTA
1 TATTATTATTA
*
4959051 TACTA-TATTA
1 TATTATTATTA
* *
4959061 TATT-GTATCA
1 TATTATTATTA
4959071 TATTATTA-TA
1 TATTATTATTA
*
4959081 -ATTATT-TTG
1 TATTATTATTA
*
4959090 TCATTA-TAGTA
1 T-ATTATTATTA
*
4959101 TCTTATTA-T-
1 TATTATTATTA
* *
4959110 TATTACTATTG
1 TATTATTATTA
4959121 TATTATTATTA
1 TATTATTATTA
*
4959132 TATTA-TAGTA
1 TATTATTATTA
4959142 TATTA-TATTA
1 TATTATTATTA
4959152 TTATTATTATTA
1 -TATTATTATTA
*
4959164 TTTTAT
1 TATTAT
4959170 CCTTTGTTTT
Statistics
Matches: 119, Mismatches: 19, Indels: 26
0.73 0.12 0.16
Matches are distributed among these distances:
9 13 0.11
10 45 0.38
11 55 0.46
12 6 0.05
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (11 bp):
TATTATTATTA
Found at i:4959644 original size:20 final size:20
Alignment explanation
Indices: 4959615--4959655 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
4959605 AATTTTAAGA
*
4959615 TTTTTCTGAAAAATTTTGGG
1 TTTTTCTGAAAAAATTTGGG
*
4959635 TTTTTTTGAAAAAATTTGGG
1 TTTTTCTGAAAAAATTTGGG
4959655 T
1 T
4959656 GGAGATGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (20 bp):
TTTTTCTGAAAAAATTTGGG
Found at i:4960027 original size:21 final size:21
Alignment explanation
Indices: 4959992--4960070 Score: 54
Period size: 21 Copynumber: 3.6 Consensus size: 21
4959982 CTATTTTAAT
*
4959992 TTTATTTTTAGATTTAATTTTA
1 TTTA-TTTTATATTTAATTTTA
* *
4960014 TTTATTTTATATTTTTAGTTT-
1 TTTATTTTATA-TTTAATTTTA
* *
4960035 TTTATTTTATTTTTCTATTTTTTA
1 TTTATTTTA-TATT-TA-ATTTTA
4960059 TTTATTTT-TATT
1 TTTATTTTATATT
4960071 AAGTAATTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
21 17 0.39
22 16 0.36
23 3 0.07
24 8 0.18
ACGTcount: A:0.20, C:0.01, G:0.03, T:0.76
Consensus pattern (21 bp):
TTTATTTTATATTTAATTTTA
Found at i:4960042 original size:6 final size:6
Alignment explanation
Indices: 4959973--4960070 Score: 55
Period size: 6 Copynumber: 16.3 Consensus size: 6
4959963 CCGATCGCAG
* ** *
4959973 TTTTT- TTTTCTA -TTTTA ATTTTA TTTTTA GATTTA ATTTTA --TTTA
1 TTTTTA TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
4960018 TTTTATA TTTTTA GTTTTT- TATTTTA TTTTTCTA TTTTT- TATTTA TTTTTA
1 TTTT-TA TTTTTA -TTTTTA T-TTTTA -TTTT-TA TTTTTA TTTTTA TTTTTA
4960069 TT
1 TT
4960071 AAGTAATTTA
Statistics
Matches: 74, Mismatches: 7, Indels: 23
0.71 0.07 0.22
Matches are distributed among these distances:
4 4 0.05
5 11 0.15
6 38 0.51
7 18 0.24
8 3 0.04
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:4960047 original size:19 final size:18
Alignment explanation
Indices: 4959973--4960070 Score: 78
Period size: 17 Copynumber: 5.4 Consensus size: 18
4959963 CCGATCGCAG
*
4959973 TTTTT-TTTTCTATTTTA
1 TTTTTATTTTTTATTTTA
* *
4959990 ATTTTA-TTTTTAGATTTA
1 TTTTTATTTTTTA-TTTTA
* * *
4960008 ATTTTATTTATT-TTATA
1 TTTTTATTTTTTATTTTA
4960025 TTTTTAGTTTTTTATTTTA
1 TTTTTA-TTTTTTATTTTA
4960044 TTTTTCTATTTTTTA-TTTA
1 -TTTT-TATTTTTTATTTTA
4960063 TTTTTATT
1 TTTTTATT
4960071 AAGTAATTTA
Statistics
Matches: 65, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
17 21 0.32
18 19 0.29
19 12 0.18
20 11 0.17
21 2 0.03
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTTTATTTTTTATTTTA
Found at i:4960055 original size:20 final size:20
Alignment explanation
Indices: 4960014--4960067 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
4960004 TTTAATTTTA
4960014 TTTATTTTATATTTTTAGTTT
1 TTTATTTTAT-TTTTTAGTTT
4960035 TTTATTTTATTTTTCTA-TTT
1 TTTATTTTATTTTT-TAGTTT
4960055 TTTA-TTTATTTTT
1 TTTATTTTATTTTT
4960068 ATTAAGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.28
20 11 0.34
21 12 0.38
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTATTTTATTTTTTAGTTT
Found at i:4960097 original size:18 final size:17
Alignment explanation
Indices: 4960057--4960097 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
4960047 TTCTATTTTT
*
4960057 TATTTATTTTTATTAAG
1 TATTTATTTTTATTAAA
4960074 TAATTTATTATTTATTAAA
1 T-ATTTATT-TTTATTAAA
4960093 TATTT
1 TATTT
4960098 TACAAGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 11 0.52
19 9 0.43
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATTTATTTTTATTAAA
Found at i:4960099 original size:19 final size:18
Alignment explanation
Indices: 4960058--4960099 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
4960048 TCTATTTTTT
*
4960058 ATTTATTTTTATTAAGTA
1 ATTTATTTTTATTAAATA
4960076 ATTTATTATTTATTAAATA
1 ATTTATT-TTTATTAAATA
*
4960095 TTTTA
1 ATTTA
4960100 CAAGAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTTATTTTTATTAAATA
Found at i:4965527 original size:55 final size:55
Alignment explanation
Indices: 4965394--4965706 Score: 224
Period size: 55 Copynumber: 5.7 Consensus size: 55
4965384 TGTATTTTCA
* ** * *
4965394 ATCTT-GCTCAGTTCAGATCATTTTTCTA-TCTTATGATTTCGTCCAAGTCATCCG
1 ATCTTGGCTCAGTTCAGATCATTTTTC-AGACTCGTGGTTTCGTCCAGGTCATCCG
* * * * *
4965448 ATCTTGGCTTAATTCAAATCATTTTTCAGACTCATGGTTTCGTTCAGGTCATCCG
1 ATCTTGGCTCAGTTCAGATCATTTTTCAGACTCGTGGTTTCGTCCAGGTCATCCG
* ** * * * *
4965503 ATCTTGGCTCAGTTCAGATAATTTTTTGGACTTGTGGTTTCATCTC-GATCATCAG
1 ATCTTGGCTCAGTTCAGATCATTTTTCAGACTCGTGGTTTCGTC-CAGGTCATCCG
* * * * * * * * **
4965558 ATCTTAGTTCAGTCCAGATCATTTTTCAGATTTGTAGTTTCATCCTGGTCATTTG
1 ATCTTGGCTCAGTTCAGATCATTTTTCAGACTCGTGGTTTCGTCCAGGTCATCCG
* *
4965613 ATTTTGGCTCAG-TCTAGATCATTTTTTTCAAACTCGTGGTTTTCGTCCTA-GTCATCCG
1 ATCTTGGCTCAGTTC-AGATCA--TTTTTCAGACTCGTGG-TTTCGTCC-AGGTCATCCG
* * *
4965671 ATCTTGGCTTAG-TCTAAATTATTTTTCAGACTCGTG
1 ATCTTGGCTCAGTTC-AGATCATTTTTCAGACTCGTG
4965707 ATTCTATCTC
Statistics
Matches: 202, Mismatches: 48, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
54 8 0.04
55 137 0.68
56 15 0.07
57 12 0.06
58 30 0.15
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (55 bp):
ATCTTGGCTCAGTTCAGATCATTTTTCAGACTCGTGGTTTCGTCCAGGTCATCCG
Found at i:4965832 original size:65 final size:65
Alignment explanation
Indices: 4965746--4965888 Score: 184
Period size: 65 Copynumber: 2.2 Consensus size: 65
4965736 ATTCCAGATC
* *
4965746 ATTTTTCAGACTTACGGCTCAGTCCTAATCACCTGTTTTGATCTCGACTCAA--TCTAAATCATT
1 ATTTTTCTGACTTACGACTCAGTCCTAATCACCTGTTTTGATCTCGACT-AAGTTC-AAATCATT
4965809 TT
64 TT
** * *
4965811 A-TTTTCTTGACTTACGACTCAGTCCTGGTCACTTGTTTTGATCTCGGCTAAGTTCAAATCATTT
1 ATTTTTC-TGACTTACGACTCAGTCCTAATCACCTGTTTTGATCTCGACTAAGTTCAAATCATTT
4965875 T
65 T
4965876 ATTTTTCTGACTT
1 ATTTTTCTGACTT
4965889 GCAGCTCAGT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
64 7 0.10
65 54 0.79
66 7 0.10
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (65 bp):
ATTTTTCTGACTTACGACTCAGTCCTAATCACCTGTTTTGATCTCGACTAAGTTCAAATCATTTT
Found at i:4966122 original size:3 final size:3
Alignment explanation
Indices: 4966094--4966268 Score: 78
Period size: 3 Copynumber: 63.3 Consensus size: 3
4966084 AATTGAAGTA
* * * *
4966094 TAT TTT TAT TGT TAT TAT T-T TGT TAT TAT TAT TA- TAT TAT CA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
4966139 TA- TAT TA- TAC TA- AAT TA- TAT T-G TAT CA- TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
4966180 TAT TGT TGT T-T TAT CAT TA- TAGT GTCT TA- TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T -TAT TAT TAT TAT TAT TAT TAT
* * *
4966223 TA- TAG TA- TAT TA- CAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4966268 T
1 T
4966269 TATTCTTCTT
Statistics
Matches: 132, Mismatches: 21, Indels: 38
0.69 0.11 0.20
Matches are distributed among these distances:
2 29 0.22
3 101 0.77
4 1 0.01
5 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:4966131 original size:8 final size:8
Alignment explanation
Indices: 4966105--4966272 Score: 70
Period size: 8 Copynumber: 19.2 Consensus size: 8
4966095 ATTTTTATTG
*
4966105 TTATTATT
1 TTATTATA
*
4966113 TTGTTATTA
1 TTATTA-TA
4966122 TTATTATA
1 TTATTATA
*
4966130 TTATCATA
1 TTATTATA
4966138 TTATATTATA
1 -T-TATTATA
*
4966148 CTAAATTATA
1 -T-TATTATA
*
4966158 TTGTATCATA
1 -T-TATTATA
4966168 TTATTATA
1 TTATTATA
*
4966176 TTATTATTG
1 TTATTA-TA
* *
4966185 TTGTTTTA
1 TTATTATA
*
4966193 TCATTATA
1 TTATTATA
*
4966201 GTGTCTTATA
1 -T-TATTATA
4966211 TTA-TATTA
1 TTATTA-TA
4966219 TTATTATA
1 TTATTATA
*
4966227 GTATATTACA
1 -T-TATTATA
*
4966237 CTATTATTA
1 TTATTA-TA
4966246 TTATTATTA
1 TTATTA-TA
4966255 TTATTATTA
1 TTATTA-TA
4966264 TTATT-TA
1 TTATTATA
4966271 TT
1 TT
4966273 CTTCTTTCCT
Statistics
Matches: 123, Mismatches: 26, Indels: 23
0.72 0.15 0.13
Matches are distributed among these distances:
7 6 0.05
8 45 0.37
9 41 0.33
10 31 0.25
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (8 bp):
TTATTATA
Found at i:4966133 original size:5 final size:5
Alignment explanation
Indices: 4966117--4966264 Score: 59
Period size: 5 Copynumber: 28.2 Consensus size: 5
4966107 ATTATTTTGT
* * * * *
4966117 TATTA TTATTA TA-T- TATCA TATTA TATTA TACTA AATTA TATTG TATCA
1 TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
* * * * * *
4966166 TATTA T-TATA TTATTA TTGTTG TTTTA TCATTA TAGTG TCTTA TATTA
1 TATTA TAT-TA -TATTA -TATTA TATTA T-ATTA TATTA TATTA TATTA
* * *
4966214 TATTA TTATTA TAGTA TATTA CACTA TTATTA TTATTA TTATTA TTATTA
1 TATTA -TATTA TATTA TATTA TATTA -TATTA -TATTA -TATTA -TATTA
4966264 T
1 T
4966265 TATTTATTCT
Statistics
Matches: 107, Mismatches: 27, Indels: 17
0.71 0.18 0.11
Matches are distributed among these distances:
3 2 0.02
4 2 0.02
5 60 0.56
6 42 0.39
7 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (5 bp):
TATTA
Found at i:4972634 original size:3 final size:3
Alignment explanation
Indices: 4972626--4972665 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
4972616 TTTGAGATCC
*
4972626 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4972666 CAATTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4982192 original size:26 final size:27
Alignment explanation
Indices: 4982149--4982208 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
4982139 ATTTATCAAA
*
4982149 TAAAT-TTTTTAATAAATTATTTAAAT
1 TAAATATTTTGAATAAATTATTTAAAT
4982175 TAAATATTTTGAAT-AATTATTTAAAT
1 TAAATATTTTGAATAAATTATTTAAAT
4982201 TAAA-ATTT
1 TAAATATTT
4982209 AAATGTATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 4 0.12
26 21 0.66
27 7 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (27 bp):
TAAATATTTTGAATAAATTATTTAAAT
Found at i:4982389 original size:39 final size:39
Alignment explanation
Indices: 4982344--4982459 Score: 105
Period size: 39 Copynumber: 3.0 Consensus size: 39
4982334 TAAATAATTC
4982344 TATTTAATAAATTATTTAAATTTAATATTTTTAGATAAT
1 TATTTAATAAATTATTTAAATTTAATATTTTTAGATAAT
** * * *
4982383 TATTTAAATTCA-TATTAAAATATATCAA-A-ATTT-GAAAAT
1 TATTT-AATAAATTATTTAAAT-T-T-AATATTTTTAGATAAT
* *
4982422 TATTTAATAGATTATTTAAAATTAATATTTTTAGATAA
1 TATTTAATAAATTATTTAAATTTAATATTTTTAGATAA
4982460 GTTAATAAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 16
0.68 0.13 0.19
Matches are distributed among these distances:
36 2 0.03
37 2 0.03
38 8 0.14
39 34 0.59
40 8 0.14
41 2 0.03
42 2 0.03
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (39 bp):
TATTTAATAAATTATTTAAATTTAATATTTTTAGATAAT
Found at i:4985194 original size:31 final size:31
Alignment explanation
Indices: 4985159--4985219 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
4985149 ACTTAAATTT
4985159 AAGGGATAACAAGAATAATGC-GTCCAATCTA
1 AAGGGATAACAAGAATAAT-CTGTCCAATCTA
*
4985190 AAGGGATAACTAGAATAATCTGTCCAATCT
1 AAGGGATAACAAGAATAATCTGTCCAATCT
4985220 GTTTCCTATC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (31 bp):
AAGGGATAACAAGAATAATCTGTCCAATCTA
Found at i:4987234 original size:29 final size:29
Alignment explanation
Indices: 4987201--4987259 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
4987191 AAAAGAGAGG
4987201 TACACTCCAGGCCACTCAAATTTCAATTT
1 TACACTCCAGGCCACTCAAATTTCAATTT
*
4987230 TACACTCCAGGCCGCTCAAATTTCAATTT
1 TACACTCCAGGCCACTCAAATTTCAATTT
4987259 T
1 T
4987260 TATCACATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (29 bp):
TACACTCCAGGCCACTCAAATTTCAATTT
Found at i:4989811 original size:18 final size:18
Alignment explanation
Indices: 4989779--4989813 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4989769 ATTATTTGAA
4989779 TAAAAAATTTAATATATT
1 TAAAAAATTTAATATATT
4989797 TAAATAAATTT-ATATAT
1 TAAA-AAATTTAATATAT
4989814 AAAATAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAAAAATTTAATATATT
Found at i:4989926 original size:11 final size:11
Alignment explanation
Indices: 4989893--4989948 Score: 58
Period size: 13 Copynumber: 4.7 Consensus size: 11
4989883 TTTTTTAATT
*
4989893 ATTTATATTTA
1 ATTTAAATTTA
4989904 TATTTAAAATTTA
1 -ATTT-AAATTTA
*
4989917 ATTCAAATTTA
1 ATTTAAATTTA
4989928 ATATATAAATTTA
1 AT-T-TAAATTTA
4989941 ATTTAAAT
1 ATTTAAAT
4989949 CAAATAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
11 14 0.37
12 9 0.24
13 15 0.39
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:4989961 original size:24 final size:24
Alignment explanation
Indices: 4989909--4989961 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
4989899 ATTTATATTT
** *
4989909 AAAATTTAATTCAAATTTAATATA
1 AAAATTTAATTCAAATCAAATAAA
* *
4989933 TAAATTTAATTTAAATCAAATAAA
1 AAAATTTAATTCAAATCAAATAAA
4989957 AAAAT
1 AAAAT
4989962 ATTCCGATTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAATTTAATTCAAATCAAATAAA
Found at i:4990213 original size:18 final size:17
Alignment explanation
Indices: 4990185--4990232 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
4990175 AACGAATAAT
*
4990185 ATCTTATAAAAATATGA
1 ATCTAATAAAAATATGA
* *
4990202 ATCGTAATAAAAAAATTA
1 ATC-TAATAAAAATATGA
*
4990220 ATCTAAAAAAAAT
1 ATCTAATAAAAAT
4990233 CTCGAAACCA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.29
Consensus pattern (17 bp):
ATCTAATAAAAATATGA
Found at i:4990502 original size:22 final size:21
Alignment explanation
Indices: 4990462--4990507 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4990452 AAAGTTTTTT
* *
4990462 TATTTTGAATATAAAATAACA
1 TATTTTAAATATAAAATAAAA
*
4990483 TATTTTAAATTTATAAATAAAA
1 TATTTTAAATATA-AAATAAAA
4990505 TAT
1 TAT
4990508 ATTACTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TATTTTAAATATAAAATAAAA
Found at i:4991093 original size:3 final size:3
Alignment explanation
Indices: 4991085--4991110 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4991075 ATCTCTCCAT
4991085 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
4991111 GTAGTCAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4997352 original size:2 final size:2
Alignment explanation
Indices: 4997345--4997379 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
4997335 TTTAACAGGA
* *
4997345 AT AT AT AT AT AC AT AT AC 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 A
4997380 ATTAACATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:5000221 original size:23 final size:22
Alignment explanation
Indices: 5000162--5000221 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
5000152 AAGTTGAAAC
*
5000162 TCAAATATTCACAA-TTTGAGT
1 TCAAATATTCACAATTTTGAAT
* *
5000183 TCAAATAATCAAAATTTTGTAAT
1 TCAAATATTCACAATTTTG-AAT
*
5000206 TCAAATGTTCACAATT
1 TCAAATATTCACAATT
5000222 CAAATTTTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 12 0.39
22 4 0.13
23 15 0.48
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (22 bp):
TCAAATATTCACAATTTTGAAT
Found at i:5000386 original size:17 final size:17
Alignment explanation
Indices: 5000364--5000418 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
5000354 TTCATATTTC
*
5000364 CAAGAACTTAAGGTTCA
1 CAAGAATTTAAGGTTCA
**
5000381 CAAGAATTTAAGGTTTG
1 CAAGAATTTAAGGTTCA
*
5000398 CAAGGATTTAAGGTTCA
1 CAAGAATTTAAGGTTCA
5000415 CAAG
1 CAAG
5000419 CTTTCAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (17 bp):
CAAGAATTTAAGGTTCA
Found at i:5000521 original size:17 final size:17
Alignment explanation
Indices: 5000495--5000528 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
5000485 GATTTGATTA
5000495 TCAAAATTTT-AGTTTC
1 TCAAAATTTTCAGTTTC
5000511 TCAAGAATTTTCAGTTTC
1 TCAA-AATTTTCAGTTTC
5000529 GTATTTGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 6 0.38
18 6 0.38
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (17 bp):
TCAAAATTTTCAGTTTC
Found at i:5000985 original size:18 final size:19
Alignment explanation
Indices: 5000962--5001003 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
5000952 TCAAAGATTC
5000962 AGATTTAAA-AAATT-TTGA
1 AGATTTAAATAAATTCTT-A
5000980 AGATTTAAATAAATTCTTA
1 AGATTTAAATAAATTCTTA
5000999 AGATT
1 AGATT
5001004 CACATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.41
19 11 0.50
20 2 0.09
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (19 bp):
AGATTTAAATAAATTCTTA
Found at i:5001076 original size:21 final size:21
Alignment explanation
Indices: 5001038--5001087 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
5001028 ATTCTCATTG
5001038 AAAGATT-TTCATTAAAACTC
1 AAAGATTCTTCATTAAAACTC
5001058 AAAGATTCTT-ATATAAAACTC
1 AAAGATTCTTCAT-TAAAACTC
5001079 AAAGATTCT
1 AAAGATTCT
5001088 CATCATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (21 bp):
AAAGATTCTTCATTAAAACTC
Found at i:5007636 original size:26 final size:29
Alignment explanation
Indices: 5007586--5007644 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 29
5007576 AAATGAAATG
5007586 TTTACATATATAATATTTAATAATATAT-
1 TTTACATATATAATATTTAATAATATATA
5007614 TTTA-ATATTATAAT-TTT-ATAATATATA
1 TTTACATA-TATAATATTTAATAATATATA
5007641 TTTA
1 TTTA
5007645 TCAAATGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
26 9 0.31
27 10 0.34
28 10 0.34
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (29 bp):
TTTACATATATAATATTTAATAATATATA
Found at i:5007645 original size:13 final size:14
Alignment explanation
Indices: 5007593--5007644 Score: 63
Period size: 13 Copynumber: 3.8 Consensus size: 14
5007583 ATGTTTACAT
5007593 ATATAATATTTAATA
1 ATAT-ATATTTAATA
5007608 ATATAT-TTTAATA
1 ATATATATTTAATA
* *
5007621 TTATA-ATTTTATA
1 ATATATATTTAATA
5007634 ATATATATTTA
1 ATATATATTTA
5007645 TCAAATGAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 21 0.68
14 6 0.19
15 4 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATATATATTTAATA
Found at i:5013770 original size:52 final size:53
Alignment explanation
Indices: 5013682--5013783 Score: 154
Period size: 52 Copynumber: 1.9 Consensus size: 53
5013672 TATTTATAAG
* * *
5013682 AATACAAATTTGCCTATTAAGAATCTCTTTTCTCTTAGAATTCTTTTTTTTCA
1 AATACAAACTTGCCTATTAAAAATCTCTTTTATCTTAGAATTCTTTTTTTTCA
5013735 AATA-AAACTTGCCTATTAAAAATC-CATTTTATCTTAGAATTCTTTTTTT
1 AATACAAACTTGCCTATTAAAAATCTC-TTTTATCTTAGAATTCTTTTTTT
5013784 GTAGGTCTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
51 1 0.02
52 40 0.89
53 4 0.09
ACGTcount: A:0.31, C:0.16, G:0.05, T:0.48
Consensus pattern (53 bp):
AATACAAACTTGCCTATTAAAAATCTCTTTTATCTTAGAATTCTTTTTTTTCA
Found at i:5021827 original size:102 final size:102
Alignment explanation
Indices: 5021701--5021893 Score: 332
Period size: 102 Copynumber: 1.9 Consensus size: 102
5021691 TATATATCAC
* * **
5021701 GTCCCGGGGAAATTTCATAACCCAGGCCCATGAGCATAGTGTGAATATAATAACGTGATGAGCCA
1 GTCCCAGGGAAATTTCAGAACCCAGGCCCATGAAAATAGTGTGAATATAATAACGTGATGAGCCA
5021766 CCATTTTCATATGTTTATTTTTAGAAATCACGTCCCA
66 CCATTTTCATATGTTTATTTTTAGAAATCACGTCCCA
* *
5021803 GTCCCAGGGAAATTTCAGAGCCCAGGCCCCTGAAAATAGTGTGAATATAATAACGTGATGAGCCA
1 GTCCCAGGGAAATTTCAGAACCCAGGCCCATGAAAATAGTGTGAATATAATAACGTGATGAGCCA
5021868 CCATTTTCATATGTTTATTTTTAGAA
66 CCATTTTCATATGTTTATTTTTAGAA
5021894 TTCCAATCTG
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 85 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (102 bp):
GTCCCAGGGAAATTTCAGAACCCAGGCCCATGAAAATAGTGTGAATATAATAACGTGATGAGCCA
CCATTTTCATATGTTTATTTTTAGAAATCACGTCCCA
Done.