Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold72
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: 5928628
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 261288 characters in sequence are not A, C, G, or T
File 30 of 39
Found at i:4305267 original size:18 final size:18
Alignment explanation
Indices: 4305245--4305289 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
4305235 TAATTTATTT
4305245 AATAATTTTTAAAATTAA
1 AATAATTTTTAAAATTAA
* *
4305263 TATAA-TTTT-AACTTAA
1 AATAATTTTTAAAATTAA
4305279 AATAATTTTTA
1 AATAATTTTTA
4305290 TCAAAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
16 10 0.45
17 8 0.36
18 4 0.18
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
AATAATTTTTAAAATTAA
Found at i:4305268 original size:21 final size:21
Alignment explanation
Indices: 4305210--4305268 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 21
4305200 ACATATGATA
* *
4305210 TTTTAAATATTAA-ATTATTAT
1 TTTTAAA-ATTAATATAATAAT
* * *
4305231 TTTT-TAATTTATTTAATAAT
1 TTTTAAAATTAATATAATAAT
4305251 TTTTAAAATTAATATAAT
1 TTTTAAAATTAATATAAT
4305269 TTTAACTTAA
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
19 4 0.14
20 10 0.36
21 14 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTAAAATTAATATAATAAT
Found at i:4305416 original size:17 final size:19
Alignment explanation
Indices: 4305381--4305417 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
4305371 TCGAAATATG
*
4305381 AAAATATTTTAATTATTAA
1 AAAATATTTAAATTATTAA
4305400 AAAATA-TTAAATT-TTAA
1 AAAATATTTAAATTATTAA
4305417 A
1 A
4305418 TATTTTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 6 0.35
19 6 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATATTTAAATTATTAA
Found at i:4305682 original size:18 final size:18
Alignment explanation
Indices: 4305661--4305716 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
4305651 TTTTATGTAT
4305661 TATTATTATTAAAATTTATA
1 TATT-TTATTAAAA-TTATA
* *
4305681 TTTTTTATTATAATTATA
1 TATTTTATTAAAATTATA
4305699 TATTTTA-T-AAATTATA
1 TATTTTATTAAAATTATA
4305715 TA
1 TA
4305717 AAATATTAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 9 0.28
17 1 0.03
18 11 0.34
19 8 0.25
20 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTTTATTAAAATTATA
Found at i:4305690 original size:19 final size:20
Alignment explanation
Indices: 4305666--4305704 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
4305656 TGTATTATTA
4305666 TTATTAAAATT-TATATTTT
1 TTATTAAAATTATATATTTT
*
4305685 TTATTATAATTATATATTTT
1 TTATTAAAATTATATATTTT
4305705 ATAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTATTAAAATTATATATTTT
Found at i:4305713 original size:16 final size:16
Alignment explanation
Indices: 4305659--4305716 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 16
4305649 TTTTTTATGT
4305659 ATTAT-TATTATTA-AA
1 ATTATATATT-TTATAA
*
4305674 ATTTATATTTTTTATTATA
1 A-TTATATATTTTA-TA-A
4305693 ATTATATATTTTATAA
1 ATTATATATTTTATAA
4305709 ATTATATA
1 ATTATATA
4305717 AAATATTAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 1 0.03
16 16 0.44
17 5 0.14
18 12 0.33
19 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATATATTTTATAA
Found at i:4305730 original size:25 final size:25
Alignment explanation
Indices: 4305702--4305749 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
4305692 AATTATATAT
* *
4305702 TTTATAAATTATATAAAATATTAAC
1 TTTATAAATAATAAAAAATATTAAC
*
4305727 TTTATACATAATAAAAAATATTA
1 TTTATAAATAATAAAAAATATTA
4305750 GAACTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
TTTATAAATAATAAAAAATATTAAC
Found at i:4305853 original size:19 final size:21
Alignment explanation
Indices: 4305806--4305854 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4305796 TATAATACTT
4305806 TATT-TTTATCTTTGATACAAA
1 TATTATTTATCTTT-ATACAAA
4305827 TA-TATTTATCTTT-TA-AAA
1 TATTATTTATCTTTATACAAA
4305845 TATTATTTAT
1 TATTATTTAT
4305855 AAATTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 5 0.19
19 9 0.35
20 1 0.04
21 11 0.42
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (21 bp):
TATTATTTATCTTTATACAAA
Found at i:4305897 original size:11 final size:11
Alignment explanation
Indices: 4305881--4305926 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
4305871 AAAATAAAAA
4305881 TATTTATTTAT
1 TATTTATTTAT
*
4305892 TATTTATTAAT
1 TATTTATTTAT
*
4305903 TATTTTTTTAT
1 TATTTATTTAT
*
4305914 TTTTTATTT-T
1 TATTTATTTAT
4305924 TAT
1 TAT
4305927 ATAAAATATT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
10 3 0.10
11 26 0.90
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TATTTATTTAT
Found at i:4306319 original size:17 final size:17
Alignment explanation
Indices: 4306284--4306317 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4306274 AGATAAAATA
4306284 TATTTTTTATTAATTTT
1 TATTTTTTATTAATTTT
*
4306301 TATTTTTT-TTACTTTT
1 TATTTTTTATTAATTTT
4306317 T
1 T
4306318 TAACTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TATTTTTTATTAATTTT
Found at i:4307282 original size:38 final size:37
Alignment explanation
Indices: 4307240--4307317 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 37
4307230 TATTAAAATT
4307240 TTTTAAAATAT-ATAATTAAAAATTAAATTATATTTATA
1 TTTTAAAATATAAT-ATTAAAAATTAAATTATATTTA-A
* * * * *
4307278 TTTTATAATTTAATATTATAAATTTAATTATTTTTAA
1 TTTTAAAATATAATATTAAAAATTAAATTATATTTAA
4307315 TTT
1 TTT
4307318 AATAATAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
37 4 0.12
38 28 0.82
39 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (37 bp):
TTTTAAAATATAATATTAAAAATTAAATTATATTTAA
Found at i:4307309 original size:15 final size:14
Alignment explanation
Indices: 4307266--4307320 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
4307256 TAAAAATTAA
4307266 ATTAT-ATTTATATT
1 ATTATAATTTA-ATT
4307280 -TTATAATTTAA-T
1 ATTATAATTTAATT
4307292 ATTATAAATTTAATT
1 ATTAT-AATTTAATT
*
4307307 ATTTTTAATTTAAT
1 A-TTATAATTTAAT
4307321 AATAAAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 1 0.03
13 9 0.26
14 12 0.34
15 10 0.29
16 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTATAATTTAATT
Found at i:4308000 original size:17 final size:17
Alignment explanation
Indices: 4307978--4308012 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4307968 ACTCCTGACT
4307978 AAATATTAAAAAAATTA
1 AAATATTAAAAAAATTA
4307995 AAATATTAAAAAAATTA
1 AAATATTAAAAAAATTA
4308012 A
1 A
4308013 TTTTATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATATTAAAAAAATTA
Found at i:4308399 original size:30 final size:30
Alignment explanation
Indices: 4308365--4308425 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
4308355 AGGACTTTTA
* * *
4308365 TGAATACAATTTAAAAGTTAAAAATTTATT
1 TGAATAAAAATTAAAAATTAAAAATTTATT
4308395 TGAATAAAAATTAAAAATTAAAAATTTATT
1 TGAATAAAAATTAAAAATTAAAAATTTATT
4308425 T
1 T
4308426 AAGTATGATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (30 bp):
TGAATAAAAATTAAAAATTAAAAATTTATT
Found at i:4308465 original size:29 final size:28
Alignment explanation
Indices: 4308376--4308465 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 28
4308366 GAATACAATT
* *
4308376 TAAAAGTTAAAAATTTATTTGAATAAAAA
1 TAAAAATTAAAAATTTATTTAAAT-AAAA
* **
4308405 TTAAAAATTAAAAATTTATTTAAGTATGA
1 -TAAAAATTAAAAATTTATTTAAATAAAA
*
4308434 TAAAACTATAAAAATTTATTTAAATAAAA
1 TAAAAAT-TAAAAATTTATTTAAATAAAA
4308463 TAA
1 TAA
4308466 TAAAATTTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
28 6 0.12
29 23 0.46
30 21 0.42
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (28 bp):
TAAAAATTAAAAATTTATTTAAATAAAA
Found at i:4308707 original size:27 final size:27
Alignment explanation
Indices: 4308669--4308721 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
4308659 AATATTTATA
*
4308669 TTTTTAATTAAA-TTAAAATAAAAATAT
1 TTTTTAATTAAACAT-AAATAAAAATAT
4308696 TTTTTAATTAAACATAAATAAAAATA
1 TTTTTAATTAAACATAAATAAAAATA
4308722 AAATAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TTTTTAATTAAACATAAATAAAAATAT
Found at i:4308729 original size:15 final size:17
Alignment explanation
Indices: 4308704--4308744 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
4308694 ATTTTTTAAT
4308704 TAAACATAAA-TAAA-AA
1 TAAA-ATAAATTAAATAA
4308720 TAAAATAAATTTAAATAA
1 TAAAATAAA-TTAAATAA
4308738 TAAAATA
1 TAAAATA
4308745 TTGTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.23
16 4 0.18
17 4 0.18
18 9 0.41
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAAATAAATTAAATAA
Found at i:4310503 original size:21 final size:22
Alignment explanation
Indices: 4310449--4310508 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
4310439 ATTTTTACAG
*
4310449 TTTATAATAATATTAAAATATTAT
1 TTTATAATAATATT--TATATTAT
*
4310473 TTT-TATTAATATTTATA-TAT
1 TTTATAATAATATTTATATTAT
4310493 TTTATAATAATATTTA
1 TTTATAATAATATTTA
4310509 AATAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 6 0.19
21 14 0.44
23 9 0.28
24 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTATAATAATATTTATATTAT
Found at i:4311392 original size:37 final size:37
Alignment explanation
Indices: 4311351--4311465 Score: 105
Period size: 37 Copynumber: 3.1 Consensus size: 37
4311341 ATTTATGATG
4311351 AATATAATTATATTATTAAATTTAATAAAATTATAAA
1 AATATAATTATATTATTAAATTTAATAAAATTATAAA
4311388 AATATTAATTATA-TA-TAAATTT-ATAAAAATATATAAA
1 AATA-TAATTATATTATTAAATTTAAT-AAAAT-TATAAA
* ** * *
4311425 ATTATAAAAAATATT-TAAAATATAAATAAAATT-TAAA
1 AATAT-AATTATATTATTAAAT-TTAATAAAATTATAAA
4311462 AATA
1 AATA
4311466 ATATATATTT
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
35 2 0.03
36 13 0.20
37 27 0.42
38 14 0.22
39 6 0.09
40 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (37 bp):
AATATAATTATATTATTAAATTTAATAAAATTATAAA
Found at i:4311426 original size:36 final size:37
Alignment explanation
Indices: 4311351--4311431 Score: 105
Period size: 36 Copynumber: 2.2 Consensus size: 37
4311341 ATTTATGATG
*
4311351 AATATAATTATATTATTAAATTTAATAAAATTATAAA
1 AATATAATTATATTATTAAATTTAATAAAAATATAAA
4311388 AATATTAATTATA-TA-TAAATTT-ATAAAAATATATAA
1 AATA-TAATTATATTATTAAATTTAATAAAAATATA-AA
4311424 AATTATAA
1 AA-TATAA
4311432 AAAATATTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
35 10 0.25
36 14 0.35
37 8 0.20
38 8 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (37 bp):
AATATAATTATATTATTAAATTTAATAAAAATATAAA
Found at i:4311434 original size:19 final size:19
Alignment explanation
Indices: 4311368--4311450 Score: 75
Period size: 18 Copynumber: 4.5 Consensus size: 19
4311358 TTATATTATT
4311368 AAATT-TAATAAAAT-TATA
1 AAATTATAA-AAAATATATA
* * **
4311386 AAAATATTAATTATATATA
1 AAATTATAAAAAATATATA
*
4311405 AATTTAT-AAAAATATATA
1 AAATTATAAAAAATATATA
*
4311423 AAATTATAAAAAATATTTA
1 AAATTATAAAAAATATATA
4311442 AAA-TATAAA
1 AAATTATAAA
4311451 TAAAATTTAA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
18 28 0.54
19 24 0.46
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATTATAAAAAATATATA
Found at i:4311444 original size:9 final size:9
Alignment explanation
Indices: 4311375--4311525 Score: 64
Period size: 9 Copynumber: 16.9 Consensus size: 9
4311365 ATTAAATTTA
4311375 ATAAAAT-T
1 ATAAAATAT
4311383 ATAAAA-AT
1 ATAAAATAT
* *
4311391 ATTAATTAT
1 ATAAAATAT
*
4311400 ATATAAATTT
1 ATA-AAATAT
4311410 ATAAAAATAT
1 AT-AAAATAT
4311420 ATAAAATTAT
1 ATAAAA-TAT
*
4311430 AAAAAATAT
1 ATAAAATAT
*
4311439 TTAAAATAT
1 ATAAAATAT
*
4311448 AAATAAAATTT
1 --ATAAAATAT
4311459 A-AAAATA-
1 ATAAAATAT
*
4311466 AT-ATATAT
1 ATAAAATAT
* *
4311474 TTTAAA-AT
1 ATAAAATAT
* *
4311482 ATAATATAA
1 ATAAAATAT
*
4311491 AT-AAATAA
1 ATAAAATAT
*
4311499 ATAAAGAAAT
1 ATAAA-ATAT
*
4311509 ATAATATAT
1 ATAAAATAT
*
4311518 ATATAATA
1 ATAAAATA
4311526 ATTTTTAATT
Statistics
Matches: 104, Mismatches: 26, Indels: 25
0.67 0.17 0.16
Matches are distributed among these distances:
7 5 0.05
8 29 0.28
9 35 0.34
10 27 0.26
11 8 0.08
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (9 bp):
ATAAAATAT
Found at i:4311448 original size:18 final size:18
Alignment explanation
Indices: 4311412--4311485 Score: 80
Period size: 18 Copynumber: 4.1 Consensus size: 18
4311402 ATAAATTTAT
*
4311412 AAAAATATATAAAATTATA
1 AAAAATATTTAAAA-TATA
4311431 AAAAATATTTAAAATATA
1 AAAAATATTTAAAATATA
4311449 AATAAA-ATTTAAAA-ATA
1 AA-AAATATTTAAAATATA
* *
4311466 ATATATATTTTAAAATATA
1 AAAAATA-TTTAAAATATA
4311485 A
1 A
4311486 TATAAATAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
16 2 0.04
17 5 0.10
18 21 0.44
19 20 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATATTTAAAATATA
Found at i:4311475 original size:17 final size:18
Alignment explanation
Indices: 4311351--4311489 Score: 74
Period size: 18 Copynumber: 7.6 Consensus size: 18
4311341 ATTTATGATG
*
4311351 AATATAAT-TATATTATTA
1 AATATAATATATATT-TAA
* *
4311369 AATTTAATA-AAATTATAAA
1 AATATAATATATATT-T-AA
*
4311388 AATATTAAT-TATATATAA
1 AATA-TAATATATATTTAA
* * *
4311406 ATTTATAA-AAATATATAA
1 A-ATATAATATATATTTAA
* *
4311424 AATTATAAAAAATATTTAA
1 AA-TATAATATATATTTAA
*
4311443 AATATAA-ATAAAATTTAA
1 AATATAATAT-ATATTTAA
4311461 AA-ATAATATATATTTTAA
1 AATATAATATATA-TTTAA
4311479 AATATAATATA
1 AATATAATATA
4311490 AATAAATAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
17 7 0.07
18 56 0.58
19 26 0.27
20 7 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATATAATATATATTTAA
Found at i:4311760 original size:11 final size:11
Alignment explanation
Indices: 4311737--4311773 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
4311727 AATTGTGGTA
4311737 ATTTATA-TAT
1 ATTTATATTAT
4311747 ATTTATATTAT
1 ATTTATATTAT
4311758 A-TTATAATTAT
1 ATTTAT-ATTAT
4311769 ATTTA
1 ATTTA
4311774 AAATATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 11 0.46
11 10 0.42
12 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTTATATTAT
Found at i:4311784 original size:22 final size:22
Alignment explanation
Indices: 4311744--4311786 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4311734 GTAATTTATA
* *
4311744 TATATTTATATTATATTATAAT
1 TATATTTAAAATATATTATAAT
*
4311766 TATATTTAAAATATTTTATAA
1 TATATTTAAAATATATTATAA
4311787 ATTTAATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TATATTTAAAATATATTATAAT
Found at i:4311811 original size:18 final size:18
Alignment explanation
Indices: 4311735--4311815 Score: 75
Period size: 16 Copynumber: 4.8 Consensus size: 18
4311725 TTAATTGTGG
4311735 TAATTTAT-ATATATTTA
1 TAATTTATAATATATTTA
* *
4311752 T-A-TTATATTATAATTA
1 TAATTTATAATATATTTA
*
4311768 T-ATTTAAAATAT-TTTA
1 TAATTTATAATATATTTA
* *
4311784 TAAATT-TAATATATTAA
1 TAATTTATAATATATTTA
4311801 TAATTTATAATATAT
1 TAATTTATAATATAT
4311816 AAATTTTAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
15 4 0.08
16 19 0.38
17 19 0.38
18 8 0.16
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATTTATAATATATTTA
Found at i:4311848 original size:25 final size:24
Alignment explanation
Indices: 4311820--4311870 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 24
4311810 ATATATAAAT
*
4311820 TTTAAAAAAATATATTTATATTATA
1 TTTAAAAAAATATATTTA-ATAATA
* * *
4311845 TTTATATAATTATATTTAATAATA
1 TTTAAAAAAATATATTTAATAATA
4311869 TT
1 TT
4311871 ATTTACAGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTAAAAAAATATATTTAATAATA
Found at i:4311875 original size:13 final size:14
Alignment explanation
Indices: 4311737--4311867 Score: 56
Period size: 13 Copynumber: 9.8 Consensus size: 14
4311727 AATTGTGGTA
4311737 ATTTATATATATTTAT
1 ATTTATATA-A-TTAT
4311753 ATTATATTATAATTAT
1 ATT-TA-TATAATTAT
4311769 ATTTA-A-AA-TAT
1 ATTTATATAATTAT
4311780 -TTTATA-AATTTAAT
1 ATTTATATAA-TT-AT
4311794 ATATTA-ATAATT-T
1 AT-TTATATAATTAT
*
4311807 ATAATATATAA--AT
1 AT-TTATATAATTAT
* * *
4311820 -TTTAAAAAAATAT
1 ATTTATATAATTAT
4311833 A-TT-TAT-ATTAT
1 ATTTATATAATTAT
4311844 ATTTATATAATTAT
1 ATTTATATAATTAT
4311858 ATTTA-ATAAT
1 ATTTATATAAT
4311868 ATTATTTACA
Statistics
Matches: 91, Mismatches: 7, Indels: 37
0.67 0.05 0.27
Matches are distributed among these distances:
10 4 0.04
11 16 0.18
12 6 0.07
13 21 0.23
14 16 0.18
15 6 0.07
16 15 0.16
17 3 0.03
18 4 0.04
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTTATATAATTAT
Found at i:4314308 original size:83 final size:82
Alignment explanation
Indices: 4314164--4314322 Score: 228
Period size: 83 Copynumber: 1.9 Consensus size: 82
4314154 TTGAATCAGC
* * * *
4314164 ACTCAAAAGAGCACAGTTCATGCCCACCTTTTTCTTGAAATATCCATATTTTATGTATATCTAAA
1 ACTCAAAACAGCACAGTTCATACCCACCTTTTTCTGGAAATATCCATATTATATGTATATCTAAA
*
4314229 CACGAAATATATGTAGT
66 CAAGAAATATATGTAGT
* * *
4314246 ACTCAAAACATCACATTTCATACCCACTTTTTTCTGGGAAATATCCATATTATATGTATATCTAA
1 ACTCAAAACAGCACAGTTCATACCCACCTTTTTCT-GGAAATATCCATATTATATGTATATCTAA
*
4314311 ACAAGAATTATA
65 ACAAGAAATATA
4314323 CTTGTTATAT
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
82 30 0.45
83 37 0.55
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (82 bp):
ACTCAAAACAGCACAGTTCATACCCACCTTTTTCTGGAAATATCCATATTATATGTATATCTAAA
CAAGAAATATATGTAGT
Found at i:4314335 original size:2 final size:2
Alignment explanation
Indices: 4314328--4314378 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
4314318 TTATACTTGT
*
4314328 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4314369 TA CA TA TA TA
1 TA TA TA TA TA
4314379 AACCCAAGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4317870 original size:19 final size:19
Alignment explanation
Indices: 4317825--4317872 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
4317815 AAAAGTAAAA
* *
4317825 TTTTTAATTTGAGTTTATT
1 TTTTTAATTTGAATTAATT
* * *
4317844 ATTATAATTTTAATTAATT
1 TTTTTAATTTGAATTAATT
4317863 TTTTTAATTT
1 TTTTTAATTT
4317873 ATTTATTTAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTTTAATTTGAATTAATT
Found at i:4318215 original size:32 final size:35
Alignment explanation
Indices: 4318170--4318240 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
4318160 ATATTTTAAA
4318170 AAATTTAGACAAAAA-TAT-TAGA-TTTAAAAAAT
1 AAATTTAGACAAAAATTATGTAGATTTTAAAAAAT
* * **
4318202 AAATTTTGTCAAAAATTATGTCTATTTTAAAAAAT
1 AAATTTAGACAAAAATTATGTAGATTTTAAAAAAT
4318237 AAAT
1 AAAT
4318241 CAGATATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 13 0.41
33 3 0.09
34 2 0.06
35 14 0.44
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.37
Consensus pattern (35 bp):
AAATTTAGACAAAAATTATGTAGATTTTAAAAAAT
Found at i:4318563 original size:14 final size:14
Alignment explanation
Indices: 4318544--4318591 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
4318534 ATATTTTTAA
4318544 TTTTTTAAATAAGT
1 TTTTTTAAATAAGT
4318558 TTTTTTAAA-AA-T
1 TTTTTTAAATAAGT
*
4318570 ATTTTTTACAATATGT
1 -TTTTTTA-AATAAGT
4318586 TTTTTT
1 TTTTTT
4318592 TTTAAATTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 1 0.03
13 9 0.31
14 11 0.38
15 7 0.24
16 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (14 bp):
TTTTTTAAATAAGT
Found at i:4318799 original size:30 final size:29
Alignment explanation
Indices: 4318765--4318840 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 29
4318755 ATTAACAAAT
4318765 TAAAATATTAATTATTTTTATATAAAATAA
1 TAAAATATTAATTATTTTTA-ATAAAATAA
4318795 TAAAA-ATTATTATTATTTTTAATAAAATAA
1 TAAAATATTA--ATTATTTTTAATAAAATAA
*
4318825 AAATAATATTTAATTA
1 TAA-AATA-TTAATTA
4318841 AGTTTTTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
29 4 0.10
30 16 0.40
31 16 0.40
32 1 0.03
33 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
TAAAATATTAATTATTTTTAATAAAATAA
Found at i:4318801 original size:31 final size:29
Alignment explanation
Indices: 4318766--4318840 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 29
4318756 TTAACAAATT
4318766 AAAATATTAATTATTTTTATATAAAATAATA
1 AAAATATTAATTATTTTTA-ATAAAATAA-A
4318797 AAAATTATT-ATTATTTTTAATAAAATAAA
1 AAAA-TATTAATTATTTTTAATAAAATAAA
4318826 AATAATATTTAATTA
1 AA-AATA-TTAATTA
4318841 AGTTTTTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.12
30 13 0.32
31 18 0.45
32 4 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
AAAATATTAATTATTTTTAATAAAATAAA
Found at i:4318828 original size:102 final size:101
Alignment explanation
Indices: 4318722--4319138 Score: 281
Period size: 102 Copynumber: 4.0 Consensus size: 101
4318712 TAAAAATTTT
4318722 AAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTTTTATA
1 AAAATAATATTTAATTAAGTTTAAAAAA-TTACATTAACAAATTAAAATATTAATTATTTTTATA
4318787 TAAAATAATAAAAATTATTATTATTTTTAATAAAATA
65 TAAAATAATAAAAATTATTATTATTTTTAATAAAATA
*
4318824 AAAATAATATTTAATTAAGTTTTTTAAAAATTACATTAAC-AATTAAAATATTGATTATTATGTT
1 AAAATAATATTTAATTAAG--TTTAAAAAATTACATTAACAAATTAAAATATT-A--ATTA---T
* * *
4318888 TTTGTAAAAAAAATATTTTAAAATAA-AAAAATATTTTTATTATAATTTTTATAAAAT-
58 TTT-T-------ATA---TAAAATAATAAAAAT-TATTA-TTAT--TTTTAATAAAATA
* * * *
4318945 -AAATAATATTTAATTAAGTTTAGAACATTTACATTAATAAATTTAAATATTAATTATTATATT-
1 AAAATAATATTTAATTAAGTTTA-AAAAATTACATTAACAAATTAAAATATTAATTATT-T-TTA
* * *
4319008 T-TTAAA-AATAAAAAATATTTATTATTATTAATAAAATTA
63 TATAAAATAATAAAAATTA-TTATTATTTTTAATAAAA-TA
* * * *
4319047 AAAA-AATAATATTAATTAA-ATTAAAAAAATACATTAATAAATTAAAA-AATAA-TA--TTTA-
1 AAAATAAT-AT-TTAATTAAGTTTAAAAAATTACATTAACAAATTAAAATATTAATTATTTTTAT
* * *
4319105 A-AAAATAAAAAAAATTATCATTA-TTTAAATAAAA
64 ATAAAATAATAAAAATTATTATTATTTTTAATAAAA
4319139 AACCCTATTT
Statistics
Matches: 251, Mismatches: 27, Indels: 81
0.70 0.08 0.23
Matches are distributed among these distances:
95 9 0.04
96 10 0.04
97 10 0.04
100 11 0.04
101 5 0.02
102 61 0.24
103 30 0.12
104 16 0.06
105 4 0.02
107 1 0.00
108 4 0.02
109 1 0.00
114 2 0.01
115 2 0.01
116 4 0.02
117 4 0.02
118 9 0.04
119 24 0.10
120 33 0.13
122 11 0.04
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (101 bp):
AAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAATATTAATTATTTTTATAT
AAAATAATAAAAATTATTATTATTTTTAATAAAATA
Found at i:4319059 original size:23 final size:23
Alignment explanation
Indices: 4319033--4319119 Score: 110
Period size: 23 Copynumber: 3.9 Consensus size: 23
4319023 TATTTATTAT
4319033 TATTAATAAAATTAAAAAAATAA
1 TATTAATAAAATTAAAAAAATAA
*
4319056 TATTAATTAAATTAAAAAAAT-A
1 TATTAATAAAATTAAAAAAATAA
*
4319078 CATTAAT-AAATT-AAAAAATAA
1 TATTAATAAAATTAAAAAAATAA
*
4319099 TATTTAA-AAAATAAAAAAAAT
1 TA-TTAATAAAATTAAAAAAAT
4319120 TATCATTATT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.12
21 7 0.12
22 15 0.27
23 27 0.48
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (23 bp):
TATTAATAAAATTAAAAAAATAA
Found at i:4319105 original size:22 final size:21
Alignment explanation
Indices: 4319033--4319117 Score: 91
Period size: 22 Copynumber: 3.9 Consensus size: 21
4319023 TATTTATTAT
4319033 TATTAATAAAATTAAAAAAATAA
1 TATTAAT-AAATT-AAAAAATAA
4319056 TATTAATTAAATTAAAAAA-ATA
1 TATTAA-TAAATTAAAAAATA-A
*
4319078 CATTAATAAATTAAAAAATAA
1 TATTAATAAATTAAAAAATAA
* *
4319099 TATTTAAAAAATAAAAAAA
1 TA-TTAATAAATTAAAAAA
4319118 ATTATCATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
21 15 0.28
22 27 0.50
23 11 0.20
24 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (21 bp):
TATTAATAAATTAAAAAATAA
Found at i:4319113 original size:21 final size:21
Alignment explanation
Indices: 4319033--4319116 Score: 82
Period size: 21 Copynumber: 3.9 Consensus size: 21
4319023 TATTTATTAT
4319033 TATTAATAAAATTAAAAAAATAA
1 TATTAATAAAA-T-AAAAAATAA
*
4319056 TATTAATTAAATTAAAAAA-ATA
1 TATTAA-TAAAATAAAAAATA-A
* *
4319078 CATTAATAAATTAAAAAATAA
1 TATTAATAAAATAAAAAATAA
4319099 TATTTAA-AAAATAAAAAA
1 TA-TTAATAAAATAAAAAA
4319117 AATTATCATT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
21 25 0.47
22 17 0.32
23 7 0.13
24 4 0.08
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (21 bp):
TATTAATAAAATAAAAAATAA
Found at i:4319116 original size:43 final size:45
Alignment explanation
Indices: 4319034--4319119 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 45
4319024 ATTTATTATT
* *
4319034 ATTAATAAAATTAAAAAAATAATATTAATTAAATTAAAAAAATAC
1 ATTAATAAAATTAAAAAAATAATATTAATAAAATAAAAAAAATAC
4319079 ATTAAT-AAATT-AAAAAATAATATTTAA-AAAATAAAAAAAAT
1 ATTAATAAAATTAAAAAAATAATA-TTAATAAAATAAAAAAAAT
4319120 TATCATTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
43 23 0.61
44 9 0.24
45 6 0.16
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (45 bp):
ATTAATAAAATTAAAAAAATAATATTAATAAAATAAAAAAAATAC
Found at i:4319138 original size:23 final size:22
Alignment explanation
Indices: 4319045--4319140 Score: 63
Period size: 23 Copynumber: 4.3 Consensus size: 22
4319035 TTAATAAAAT
* *
4319045 TAAAAAAATAATATTAATTAAA
1 TAAAAAAATTATATTATTTAAA
* *
4319067 TTAAAAAAA-TACATTA-ATAAA
1 -TAAAAAAATTATATTATTTAAA
* * **
4319088 TTAAAAAATAATATT-TAAAAAA
1 TAAAAAAATTATATTAT-TTAAA
4319110 TAAAAAAAATTATCATTATTTAAA
1 T-AAAAAAATTAT-ATTATTTAAA
4319134 TAAAAAA
1 TAAAAAA
4319141 CCCTATTTAA
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
20 7 0.12
21 8 0.14
22 10 0.18
23 23 0.41
24 7 0.12
25 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAAAAATTATATTATTTAAA
Found at i:4320145 original size:23 final size:23
Alignment explanation
Indices: 4320109--4320161 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
4320099 AAATTTATTC
*
4320109 ATATTATATTTAAAA-AAATAAAA
1 ATATAATA-TTAAAATAAATAAAA
*
4320132 AGTATAATATTAAAATAAATATAA
1 A-TATAATATTAAAATAAATAAAA
4320156 ATATAA
1 ATATAA
4320162 CATAAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 12 0.46
24 14 0.54
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
ATATAATATTAAAATAAATAAAA
Found at i:4320539 original size:19 final size:19
Alignment explanation
Indices: 4320517--4320576 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
4320507 CTAATGAATT
4320517 AAAAATATAAATTATTTAA
1 AAAAATATAAATTATTTAA
*
4320536 AAAATTATATAAA-TATATAA
1 AAAA--ATATAAATTATTTAA
* *
4320556 AATTAATAT-AATTTTTTAA
1 AA-AAATATAAATTATTTAA
4320575 AA
1 AA
4320577 TATATATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 2 0.06
19 15 0.45
20 8 0.24
21 8 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATATAAATTATTTAA
Found at i:4320607 original size:28 final size:28
Alignment explanation
Indices: 4320546--4320601 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
4320536 AAAATTATAT
*
4320546 AAATATATAAAATTAATATAATTTTTTA
1 AAATATATAAAATAAATATAATTTTTTA
*
4320574 AAATATATATAATAAATA-ATATTTTTTA
1 AAATATATAAAATAAATATA-ATTTTTTA
4320602 TTATATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 24 0.96
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
AAATATATAAAATAAATATAATTTTTTA
Found at i:4321044 original size:20 final size:20
Alignment explanation
Indices: 4321021--4321058 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4321011 TACTGAAATT
4321021 TATT-TTTTATTAAATTTATA
1 TATTATTTT-TTAAATTTATA
4321041 TATTATTTTTTAAATTTA
1 TATTATTTTTTAAATTTA
4321059 AATTAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTATTTTTTAAATTTATA
Found at i:4321258 original size:15 final size:16
Alignment explanation
Indices: 4321229--4321264 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
4321219 ATTCAAAGTA
4321229 AAATA-AAAATAATTT
1 AAATATAAAATAATTT
4321244 AAATATAAAAT-ATTT
1 AAATATAAAATAATTT
4321259 AAATAT
1 AAATAT
4321265 TTTTATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATATAAAATAATTT
Found at i:4321591 original size:18 final size:19
Alignment explanation
Indices: 4321565--4321608 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
4321555 ATTGTTGTCT
*
4321565 TAATTTTTTAATA-AAAAA
1 TAATATTTTAATATAAAAA
* *
4321583 TAATATTTTATTATAAATA
1 TAATATTTTAATATAAAAA
4321602 TAATATT
1 TAATATT
4321609 AAACGAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATATTTTAATATAAAAA
Found at i:4321727 original size:2 final size:2
Alignment explanation
Indices: 4321720--4321751 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
4321710 CAATAAATGC
4321720 AT AT AT AT AT AT AT AT AT AT AT -T AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4321752 TTGTGTTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4322110 original size:33 final size:33
Alignment explanation
Indices: 4322067--4322136 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
4322057 AATACTTTCT
*
4322067 TTTTACTTTTATTTTTTAGTTTGATTTATAATA
1 TTTTACTTTTATTTTTTACTTTGATTTATAATA
* * *
4322100 TTTTATTTTTATTTTTTACTTTTATTTTTAATA
1 TTTTACTTTTATTTTTTACTTTGATTTATAATA
4322133 TTTT
1 TTTT
4322137 TTATAACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (33 bp):
TTTTACTTTTATTTTTTACTTTGATTTATAATA
Found at i:4322615 original size:19 final size:19
Alignment explanation
Indices: 4322566--4322618 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
4322556 ATTAACCTCT
*
4322566 TTAAAATATCATA-AAATA
1 TTAAAATATAATATAAATA
* *
4322584 TTAAAA-ATAATATAACTC
1 TTAAAATATAATATAAATA
*
4322602 TTAAAATATTATATAAA
1 TTAAAATATAATATAAA
4322619 AATGTGCAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 5 0.18
18 15 0.54
19 8 0.29
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (19 bp):
TTAAAATATAATATAAATA
Found at i:4323515 original size:19 final size:20
Alignment explanation
Indices: 4323483--4323520 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
4323473 ATTATAATCA
4323483 TTATATTAAATTTA-ATTAT
1 TTATATTAAATTTATATTAT
4323502 TTATA-TAAATTTTATATTA
1 TTATATTAAA-TTTATATTA
4323521 ATTTCTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTATATTAAATTTATATTAT
Found at i:4323580 original size:16 final size:17
Alignment explanation
Indices: 4323561--4323594 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4323551 TAAAATTTTA
4323561 TTAATAT-AAAAAATAT
1 TTAATATGAAAAAATAT
4323577 TTAATATGAAAAAATAT
1 TTAATATGAAAAAATAT
4323594 T
1 T
4323595 AATTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TTAATATGAAAAAATAT
Found at i:4323596 original size:16 final size:15
Alignment explanation
Indices: 4323536--4323597 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 15
4323526 TGAATTATTA
*
4323536 AAAAAATAATTAACAT
1 AAAAAAT-ATTAATAT
**
4323552 AAAATTTTATTAATAT
1 AAAA-AATATTAATAT
4323568 AAAAAATATTTAATAT
1 AAAAAATA-TTAATAT
4323584 GAAAAAATATTAAT
1 -AAAAAATATTAAT
4323598 TTTTATTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
15 2 0.05
16 27 0.71
17 9 0.24
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
AAAAAATATTAATAT
Found at i:4324804 original size:3 final size:3
Alignment explanation
Indices: 4324790--4324822 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
4324780 ACTTTCTTAT
*
4324790 TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
4324823 ATTTGTGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:4331232 original size:20 final size:21
Alignment explanation
Indices: 4331193--4331234 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
4331183 TTATAATTTG
4331193 AATTAAAATTTAAATATAAAT
1 AATTAAAATTTAAATATAAAT
4331214 AATT-AAATTTAAA-ATTAAAT
1 AATTAAAATTTAAATA-TAAAT
4331234 A
1 A
4331235 GGTAACTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 1 0.05
20 15 0.75
21 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AATTAAAATTTAAATATAAAT
Found at i:4333755 original size:3 final size:3
Alignment explanation
Indices: 4333749--4333773 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4333739 TGAAAAAAAT
4333749 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
4333774 CCTTCTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:4335641 original size:26 final size:25
Alignment explanation
Indices: 4335612--4335671 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
4335602 AAAATTTAAT
* *
4335612 TTAAACTTGAATTTAAAAATAAATAA
1 TTAAACTTAAAATTAAAAATAAA-AA
* *
4335638 TTAAATTTAAAATTATAAATAAAAA
1 TTAAACTTAAAATTAAAAATAAAAA
4335663 TTAAACTTA
1 TTAAACTTA
4335672 TCGTTATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (25 bp):
TTAAACTTAAAATTAAAAATAAAAA
Found at i:4335663 original size:20 final size:19
Alignment explanation
Indices: 4335621--4335664 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 19
4335611 TTTAAACTTG
4335621 AATTTAAAAATAAATAATTA
1 AATTTAAAAATAAATAA-TA
4335641 AATTTAAAATTATAAATAA-A
1 AATTTAAAA--ATAAATAATA
4335661 AATT
1 AATT
4335665 AAACTTATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 14 0.64
22 8 0.36
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTTAAAAATAAATAATA
Found at i:4335666 original size:19 final size:21
Alignment explanation
Indices: 4335630--4335672 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
4335620 GAATTTAAAA
4335630 ATAAATAATTAAATTTAAAATT
1 ATAAATAA-TAAATTTAAAATT
*
4335652 ATAAATAA-AAA-TTAAACTT
1 ATAAATAATAAATTTAAAATT
4335671 AT
1 AT
4335673 CGTTATTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 3 0.15
22 8 0.40
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
ATAAATAATAAATTTAAAATT
Found at i:4341101 original size:13 final size:14
Alignment explanation
Indices: 4341071--4341102 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4341061 ATATTATTTA
4341071 ATAAATTTAAAATT
1 ATAAATTTAAAATT
4341085 -TAAATTT-AAATT
1 ATAAATTTAAAATT
4341097 ATAAAT
1 ATAAAT
4341103 ATTTATGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAAATTTAAAATT
Found at i:4341198 original size:15 final size:16
Alignment explanation
Indices: 4341173--4341205 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
4341163 AATAAAAATA
4341173 AAAAAATTATTTTTAT
1 AAAAAATTATTTTTAT
4341189 AAAAAA-TATTTTTAT
1 AAAAAATTATTTTTAT
4341204 AA
1 AA
4341206 TTAATATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAAAATTATTTTTAT
Found at i:4341220 original size:27 final size:27
Alignment explanation
Indices: 4341190--4341241 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
4341180 TATTTTTATA
4341190 AAAAATA-TTTTTATAATTAATATAAAT
1 AAAAATATTTTTTATAATTAA-ATAAAT
* *
4341217 AAAATTATTTTTTATTATTAAATAA
1 AAAAATATTTTTTATAATTAAATAA
4341242 TAATTTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
AAAAATATTTTTTATAATTAAATAAAT
Found at i:4341777 original size:23 final size:23
Alignment explanation
Indices: 4341738--4341823 Score: 70
Period size: 23 Copynumber: 3.7 Consensus size: 23
4341728 TATTATTTAT
4341738 TTTTAT-ATT-AATTTAAATATA
1 TTTTATAATTAAATTTAAATATA
*
4341759 TTTTATAATTAAATTTAAATAAA
1 TTTTATAATTAAATTTAAATATA
* * * *
4341782 ATATATTATTTTAATTTAATAATATTA
1 TTTTA-TAATTAAATTT-A-AATA-TA
4341809 TTTTA-AATTAAATTT
1 TTTTATAATTAAATTT
4341824 TTTAAAATTA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
21 6 0.12
22 3 0.06
23 14 0.29
24 9 0.18
25 9 0.18
26 4 0.08
27 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTTATAATTAAATTTAAATATA
Found at i:4341836 original size:6 final size:6
Alignment explanation
Indices: 4341825--4341858 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
4341815 ATTAAATTTT
4341825 TTAAAA TTAAAAAA TTAAAA TTAAAA TTAAAA TT
1 TTAAAA TT--AAAA TTAAAA TTAAAA TTAAAA TT
4341859 TAATCGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.77
8 6 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TTAAAA
Found at i:4341880 original size:14 final size:16
Alignment explanation
Indices: 4341849--4341880 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
4341839 TTAAAATTAA
4341849 AATTAAAATTTAATCG
1 AATTAAAATTTAATCG
4341865 AATT-AAATTT-ATCG
1 AATTAAAATTTAATCG
4341879 AA
1 AA
4341881 CATGTATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 6 0.38
16 4 0.25
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (16 bp):
AATTAAAATTTAATCG
Found at i:4342052 original size:2 final size:2
Alignment explanation
Indices: 4342045--4342094 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
4342035 AGTCAGCAAA
4342045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4342087 AT AT AT AT
1 AT AT AT AT
4342095 TGAGACATGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4342386 original size:13 final size:13
Alignment explanation
Indices: 4342368--4342393 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4342358 ATATTTATAT
4342368 TTAAATATAAATA
1 TTAAATATAAATA
4342381 TTAAATATAAATA
1 TTAAATATAAATA
4342394 AAAAATCTGG
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAATATAAATA
Found at i:4342647 original size:19 final size:19
Alignment explanation
Indices: 4342625--4342661 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4342615 ATTAAAAAAT
*
4342625 TATATTATATATATTTTAA
1 TATATCATATATATTTTAA
4342644 TATATCATATATATTTTA
1 TATATCATATATATTTTA
4342662 TCGAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATCATATATATTTTAA
Found at i:4346160 original size:16 final size:17
Alignment explanation
Indices: 4346139--4346171 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4346129 AACTGGTAAA
4346139 TTTAAAT-TAAAATAAT
1 TTTAAATGTAAAATAAT
*
4346155 TTTAAATGTTAAATAAT
1 TTTAAATGTAAAATAAT
4346172 ATATATGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TTTAAATGTAAAATAAT
Found at i:4347262 original size:22 final size:20
Alignment explanation
Indices: 4347235--4347287 Score: 79
Period size: 22 Copynumber: 2.5 Consensus size: 20
4347225 GTATTTTAAA
*
4347235 ATTTAAATTTATTTATTATT
1 ATTTAAATTTATATATTATT
4347255 CATATTAAATTTATATATTATT
1 -AT-TTAAATTTATATATTATT
4347277 ATTTAAATTTA
1 ATTTAAATTTA
4347288 AATTAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 9 0.30
21 4 0.13
22 17 0.57
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTTAAATTTATATATTATT
Found at i:4347288 original size:26 final size:26
Alignment explanation
Indices: 4347201--4347291 Score: 102
Period size: 26 Copynumber: 3.7 Consensus size: 26
4347191 AGCTGTTTGT
*
4347201 TTATTCAAATTTAAATTTATATAAGTA
1 TTATTCAAATTTAAATTTATAT-ATTA
*
4347228 TT-TTAAAATTTAAA-TT-TAT-TTA
1 TTATTCAAATTTAAATTTATATATTA
*
4347250 TTATTCATA-TTAAATTTATATATTA
1 TTATTCAAATTTAAATTTATATATTA
*
4347275 TTATTTAAATTTAAATT
1 TTATTCAAATTTAAATT
4347292 AAATAATATT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
22 9 0.17
23 6 0.11
24 6 0.11
25 12 0.23
26 18 0.34
27 2 0.04
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (26 bp):
TTATTCAAATTTAAATTTATATATTA
Found at i:4348556 original size:59 final size:59
Alignment explanation
Indices: 4348473--4348591 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
4348463 TATATCTATC
4348473 TATGTTAGACACAAAACTGAATCTGAATAACATAAGATATTTTGAATTGGATATATTTT
1 TATGTTAGACACAAAACTGAATCTGAATAACATAAGATATTTTGAATTGGATATATTTT
* *
4348532 TATGTTAGACACACAACTGAATCTGAATAACATAGGATATTTTGAATTGGATATATTTT
1 TATGTTAGACACAAAACTGAATCTGAATAACATAAGATATTTTGAATTGGATATATTTT
4348591 T
1 T
4348592 TTTATGTGTG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (59 bp):
TATGTTAGACACAAAACTGAATCTGAATAACATAAGATATTTTGAATTGGATATATTTT
Found at i:4356434 original size:20 final size:19
Alignment explanation
Indices: 4356388--4356435 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
4356378 ATTTTTTTAG
4356388 ATTAATTTATTAATTTAAT
1 ATTAATTTATTAATTTAAT
4356407 ATGT-ATTT-TTATATTTAAAT
1 AT-TAATTTATTA-ATTT-AAT
4356427 ATTAATTTA
1 ATTAATTTA
4356436 ATATAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
18 3 0.12
19 11 0.46
20 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTAATTTATTAATTTAAT
Found at i:4357164 original size:19 final size:20
Alignment explanation
Indices: 4357126--4357166 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4357116 TATTTATATT
**
4357126 TTTTAAAAAAATTATATAAA
1 TTTTAAAAAAAAAATATAAA
4357146 TTTTAAAAAAAAAAT-TAAA
1 TTTTAAAAAAAAAATATAAA
4357165 TT
1 TT
4357167 GATCTAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TTTTAAAAAAAAAATATAAA
Found at i:4359093 original size:21 final size:20
Alignment explanation
Indices: 4359052--4359088 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
4359042 TTGAATTTTT
4359052 TATTTTATATATATGAAAAA
1 TATTTTATATATATGAAAAA
4359072 TATTTT-TATATATGAAA
1 TATTTTATATATATGAAA
4359089 TAAATGAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
TATTTTATATATATGAAAAA
Found at i:4359252 original size:32 final size:32
Alignment explanation
Indices: 4359213--4359281 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
4359203 CTTTTTAATG
*
4359213 ATTTATAAGTAGTTATGTTTT-ATATTCATTAA
1 ATTTATAAGTAATTAT-TTTTAATATTCATTAA
*
4359245 ATTTATAAGTAATTATTTTTAATATTTATTAA
1 ATTTATAAGTAATTATTTTTAATATTCATTAA
4359277 ATTTA
1 ATTTA
4359282 AAATTAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 4 0.12
32 30 0.88
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (32 bp):
ATTTATAAGTAATTATTTTTAATATTCATTAA
Found at i:4365366 original size:23 final size:22
Alignment explanation
Indices: 4365327--4365369 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4365317 TATTTTACGT
4365327 TAAATTTAATTATAAATATATA
1 TAAATTTAATTATAAATATATA
4365349 TAAATATTAA-TATAAA-ATATA
1 TAAAT-TTAATTATAAATATATA
4365370 ATATTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAAATTTAATTATAAATATATA
Found at i:4365371 original size:12 final size:11
Alignment explanation
Indices: 4365327--4365373 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
4365317 TATTTTACGT
*
4365327 TAAATTTAATTA
1 TAAATATAA-TA
4365339 TAAATAT-ATA
1 TAAATATAATA
4365349 TAAATATTAATA
1 TAAATA-TAATA
4365361 TAAAATATAATA
1 T-AAATATAATA
4365373 T
1 T
4365374 TTTAATATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
10 8 0.26
11 2 0.06
12 16 0.52
13 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TAAATATAATA
Found at i:4367192 original size:19 final size:18
Alignment explanation
Indices: 4367155--4367195 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
4367145 GATTAAAATT
*
4367155 TAAATATTAAATAAATAA
1 TAAATATAAAATAAATAA
*
4367173 TAAATATAATAATAATTAA
1 TAAATATAA-AATAAATAA
4367192 TAAA
1 TAAA
4367196 ATATGAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAATATAAAATAAATAA
Found at i:4367540 original size:3 final size:3
Alignment explanation
Indices: 4367532--4367569 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4367522 TTCACCCTTT
4367532 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4367570 TTACTTTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4369096 original size:2 final size:2
Alignment explanation
Indices: 4369080--4369119 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
4369070 CTTCATCATA
*
4369080 TC TC -C TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4369120 ATATATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:4369835 original size:29 final size:29
Alignment explanation
Indices: 4369802--4369874 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
4369792 TTTTTATCAT
*
4369802 ATTTATTAAATTTATTTATAAATTAAA-TA
1 ATTTATTATATTTATTT-TAAATTAAATTA
* *
4369831 ATTTATTATGTTTAATTTAAATTAAATTA
1 ATTTATTATATTTATTTTAAATTAAATTA
*
4369860 AATTATTATATTTAT
1 ATTTATTATATTTAT
4369875 GATCCTTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
28 9 0.24
29 28 0.76
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (29 bp):
ATTTATTATATTTATTTTAAATTAAATTA
Found at i:4370229 original size:24 final size:23
Alignment explanation
Indices: 4370164--4370253 Score: 69
Period size: 25 Copynumber: 3.8 Consensus size: 23
4370154 AATTTTAAAA
*
4370164 ATAAATAAAAAT-AATTTAATTT
1 ATAAATAAATATAAATTTAATTT
* *
4370186 -TTAATAAAATAATATTATTTAATTT
1 ATAAAT-AAAT-ATA-AATTTAATTT
4370211 ATAAATAATATATAAATTTATATATT
1 ATAAATAA-ATATAAATTTA-AT-TT
*
4370237 A-AATTAAATATAAATTT
1 ATAAATAAATATAAATTT
4370254 TTTTATTAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
21 4 0.07
22 3 0.06
23 2 0.04
24 15 0.28
25 21 0.39
26 9 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
ATAAATAAATATAAATTTAATTT
Found at i:4370247 original size:14 final size:12
Alignment explanation
Indices: 4370204--4370252 Score: 57
Period size: 11 Copynumber: 4.2 Consensus size: 12
4370194 ATAATATTAT
*
4370204 TTAATTTATAAA
1 TTAATATATAAA
4370216 -TAATATATAAA
1 TTAATATATAAA
*
4370227 TTTATATATTAAA
1 TTAATATA-TAAA
4370240 TTAA-ATATAAA
1 TTAATATATAAA
4370251 TT
1 TT
4370253 TTTTTATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
11 16 0.50
12 9 0.28
13 7 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TTAATATATAAA
Found at i:4370260 original size:24 final size:24
Alignment explanation
Indices: 4370202--4370263 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
4370192 AAATAATATT
4370202 ATTTAATTTA-TAAATAATATATAA
1 ATTT-ATTTATTAAATAATATATAA
*
4370226 ATTTATATATTAAATTAA-ATATAA
1 ATTTATTTATTAAA-TAATATATAA
*
4370250 ATTTTTTTATTAAA
1 ATTTATTTATTAAA
4370264 ATGTGTAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 4 0.12
24 26 0.79
25 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTTATTTATTAAATAATATATAA
Found at i:4370474 original size:15 final size:15
Alignment explanation
Indices: 4370454--4370488 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
4370444 CCCTGAACAC
4370454 AAAAAGAGA-GAAAAA
1 AAAAAGA-ACGAAAAA
4370469 AAAAAGAACGAAAAA
1 AAAAAGAACGAAAAA
4370484 AAAAA
1 AAAAA
4370489 AGAAGAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.05
15 18 0.95
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAGAACGAAAAA
Found at i:4371207 original size:2 final size:2
Alignment explanation
Indices: 4371200--4371226 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4371190 GTAATATCTT
4371200 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
4371227 TTAAAGTTTT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4375240 original size:30 final size:30
Alignment explanation
Indices: 4375204--4375276 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
4375194 TGAGTATCAG
* *
4375204 CAGCAGCAGCTGCA-CCGTCAAGACCAGGAA
1 CAGCAGCAGCTGCAGCC-TCAACACCAGCAA
*
4375234 CAGCAGCAGTTGCAGCCTCAACACCAGCAA
1 CAGCAGCAGCTGCAGCCTCAACACCAGCAA
* *
4375264 CTGCAACAGCTGC
1 CAGCAGCAGCTGC
4375277 TGCATCATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
30 34 0.94
31 2 0.06
ACGTcount: A:0.32, C:0.36, G:0.23, T:0.10
Consensus pattern (30 bp):
CAGCAGCAGCTGCAGCCTCAACACCAGCAA
Found at i:4376222 original size:23 final size:24
Alignment explanation
Indices: 4376196--4376249 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
4376186 GAAAAAACTT
* * *
4376196 TATTTTCATATT-TTTAAATTAAA
1 TATTTTAATATTATTAAAATAAAA
4376219 TATTTTAATATTAATTAAAATAAAA
1 TATTTTAATATT-ATTAAAATAAAA
4376244 TATTTT
1 TATTTT
4376250 GACTATAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 11 0.42
25 15 0.58
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
TATTTTAATATTATTAAAATAAAA
Found at i:4376339 original size:25 final size:24
Alignment explanation
Indices: 4376307--4376353 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
4376297 ATATATTAAA
4376307 AAATTTAAATTCGATTTGAATAATT
1 AAATTTAAATTCGATTT-AATAATT
*
4376332 AAATTTAAATTTGATTTAATAA
1 AAATTTAAATTCGATTTAATAA
4376354 AATATTATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (24 bp):
AAATTTAAATTCGATTTAATAATT
Found at i:4376702 original size:26 final size:26
Alignment explanation
Indices: 4376673--4376755 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
4376663 TATTCAGCTT
4376673 TTTTTCAAGTTAAAATCCAATTAAGG
1 TTTTTCAAGTTAAAATCCAATTAAGG
** * * *
4376699 TTTTTTTTAGTT-AAATTC-ATTTAGTT
1 -TTTTTCAAGTTAAAATCCAATTAAG-G
*
4376725 TTTTTCGAGTTAAAATCCAATTAAGG
1 TTTTTCAAGTTAAAATCCAATTAAGG
4376751 TTTTT
1 TTTTT
4376756 GTCGAGTGAA
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
25 14 0.33
26 15 0.35
27 14 0.33
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (26 bp):
TTTTTCAAGTTAAAATCCAATTAAGG
Found at i:4376702 original size:27 final size:27
Alignment explanation
Indices: 4376672--4376755 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 27
4376662 TTATTCAGCT
4376672 TTTTTTCAAGTTAAAATCCAATTAAGG
1 TTTTTTCAAGTTAAAATCCAATTAAGG
** * * *
4376699 TTTTTTTTAGTT-AAATTC-ATTTAGT
1 TTTTTTCAAGTTAAAATCCAATTAAGG
*
4376724 TTTTTTCGAGTTAAAATCCAATTAAGG
1 TTTTTTCAAGTTAAAATCCAATTAAGG
4376751 TTTTT
1 TTTTT
4376756 GTCGAGTGAA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
25 15 0.33
26 10 0.22
27 20 0.44
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (27 bp):
TTTTTTCAAGTTAAAATCCAATTAAGG
Found at i:4376735 original size:25 final size:27
Alignment explanation
Indices: 4376671--4376755 Score: 95
Period size: 28 Copynumber: 3.2 Consensus size: 27
4376661 CTTATTCAGC
4376671 TTTTTTTCAAGTTAAAATCCAATTAAGG
1 TTTTTTTCAAGTT-AAATCCAATTAAGG
* * *
4376699 TTTTTTT-TAGTTAAATTC-ATTTA-G
1 TTTTTTTCAAGTTAAATCCAATTAAGG
*
4376723 TTTTTTTCGAGTTAAAATCCAATTAAGG
1 TTTTTTTCAAGTT-AAATCCAATTAAGG
4376751 TTTTT
1 TTTTT
4376756 GTCGAGTGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
24 8 0.17
25 8 0.17
26 10 0.21
27 8 0.17
28 13 0.28
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.52
Consensus pattern (27 bp):
TTTTTTTCAAGTTAAATCCAATTAAGG
Found at i:4386338 original size:24 final size:24
Alignment explanation
Indices: 4386311--4386368 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
4386301 ATTTTTAATA
*
4386311 TATATTTAATAATTAA-AAATATTT
1 TATATTTAATAAATAATAAATA-TT
*
4386335 TATATTAAATAAATAATTAAATATT
1 TATATTTAATAAATAA-TAAATATT
4386360 TATAATTTA
1 TAT-ATTTA
4386369 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 14 0.50
25 5 0.18
26 9 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TATATTTAATAAATAATAAATATT
Found at i:4386459 original size:26 final size:28
Alignment explanation
Indices: 4386405--4386470 Score: 86
Period size: 26 Copynumber: 2.5 Consensus size: 28
4386395 ATAAATAGAT
4386405 TATAAAATATAATAATAAATTAAACAAA
1 TATAAAATATAATAATAAATTAAACAAA
*
4386433 TATAAATTAT-ATAA-AAATTATAA-AAA
1 TATAAAATATAATAATAAATTA-AACAAA
4386459 TATAAAAT-TAAT
1 TATAAAATATAAT
4386471 TTAATTTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 1 0.03
26 18 0.53
27 6 0.18
28 9 0.26
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (28 bp):
TATAAAATATAATAATAAATTAAACAAA
Found at i:4386829 original size:30 final size:30
Alignment explanation
Indices: 4386793--4386851 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
4386783 AACATAAATC
*
4386793 ATTTAATTTATTAATAA-TAAAAAATTTATA
1 ATTTAATTTAATAA-AATTAAAAAATTTATA
4386823 ATTTAATTTAATAAAATTAAAAAATTTAT
1 ATTTAATTTAATAAAATTAAAAAATTTAT
4386852 TTCAATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
ATTTAATTTAATAAAATTAAAAAATTTATA
Found at i:4391250 original size:2 final size:2
Alignment explanation
Indices: 4391245--4391280 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4391235 TTTTTGCCAC
*
4391245 AG AG AG AG AG AG AG AG AG AG AG AG AT AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4391281 GCGCAAATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (2 bp):
AG
Found at i:4402891 original size:3 final size:3
Alignment explanation
Indices: 4402883--4402918 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
4402873 CCAAAGTTAA
4402883 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4402919 TGTGACTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4402964 original size:5 final size:5
Alignment explanation
Indices: 4402954--4402978 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4402944 CGGTAAACCA
4402954 CAAAC CAAAC CAAAC CAAAC CAAAC
1 CAAAC CAAAC CAAAC CAAAC CAAAC
4402979 TGGAAGGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.40, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAC
Found at i:4403618 original size:27 final size:28
Alignment explanation
Indices: 4403584--4403636 Score: 99
Period size: 27 Copynumber: 1.9 Consensus size: 28
4403574 GATTTTCCTA
4403584 ATAAAAATAATTAAAATATA-ATATAAT
1 ATAAAAATAATTAAAATATAGATATAAT
4403611 ATAAAAATAATTAAAATATAGATATA
1 ATAAAAATAATTAAAATATAGATATA
4403637 TAATATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (28 bp):
ATAAAAATAATTAAAATATAGATATAAT
Found at i:4405711 original size:22 final size:23
Alignment explanation
Indices: 4405681--4405730 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
4405671 CATGTATTTG
*
4405681 AAATAAAAGATAAA-AATAAACA
1 AAATTAAAGATAAAGAATAAACA
* *
4405703 AAATTAAAGATAAAGTATAAATA
1 AAATTAAAGATAAAGAATAAACA
4405726 AAATT
1 AAATT
4405731 CTTAATCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (23 bp):
AAATTAAAGATAAAGAATAAACA
Found at i:4409710 original size:2 final size:2
Alignment explanation
Indices: 4409703--4409743 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4409693 TTGGAATTGC
4409703 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4409744 AAGAAAGTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4409967 original size:11 final size:12
Alignment explanation
Indices: 4409952--4410008 Score: 66
Period size: 12 Copynumber: 4.9 Consensus size: 12
4409942 AGATAATTTT
4409952 AAATATAATATA
1 AAATATAATATA
4409964 AATATATAATA-A
1 AA-ATATAATATA
4409976 AAA-ATAAT-TA
1 AAATATAATATA
*
4409986 AAATATAATATG
1 AAATATAATATA
*
4409998 AAATATGATAT
1 AAATATAATAT
4410009 GAATATTACA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 9 0.23
11 6 0.15
12 16 0.41
13 8 0.21
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (12 bp):
AAATATAATATA
Found at i:4412836 original size:15 final size:14
Alignment explanation
Indices: 4412816--4412861 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
4412806 ACAAACACTG
4412816 TTAAATTTATATTTA
1 TTAAATTTAT-TTTA
*
4412831 TTAAATTAATTTTA
1 TTAAATTTATTTTA
*
4412845 TTTAATTT-TTTTA
1 TTAAATTTATTTTA
4412858 TTAA
1 TTAA
4412862 TTTTCTAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 8 0.30
14 10 0.37
15 9 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTAAATTTATTTTA
Found at i:4413203 original size:6 final size:6
Alignment explanation
Indices: 4413192--4413238 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
4413182 AAAGTCCTGC
* *
4413192 CTATGG CTATGG CTATGG CTATGG CTGTGG CTCTGG CTATGG CTATG
1 CTATGG CTATGG CTATGG CTATGG CTATGG CTATGG CTATGG CTATG
4413239 ACCATTATCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.13, C:0.19, G:0.34, T:0.34
Consensus pattern (6 bp):
CTATGG
Found at i:4425953 original size:22 final size:23
Alignment explanation
Indices: 4425928--4425975 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
4425918 ATTATTATTT
4425928 TATTTAACT-TTAAT-TAAAAATA
1 TATTTAA-TATTAATATAAAAATA
4425950 TA-TTAATATTAATATAAAAATA
1 TATTTAATATTAATATAAAAATA
4425972 -ATTT
1 TATTT
4425976 TTTAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 1 0.04
21 10 0.43
22 12 0.52
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
TATTTAATATTAATATAAAAATA
Found at i:4426379 original size:13 final size:12
Alignment explanation
Indices: 4426356--4426404 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
4426346 AGGCTTAATT
4426356 TATGTATATATA
1 TATGTATATATA
4426368 TATGTA-ATATA
1 TATGTATATATA
*
4426379 TAT-TATATTTA
1 TATGTATATATA
* *
4426390 TATTTATATTTA
1 TATGTATATATA
4426402 TAT
1 TAT
4426405 ACCCACAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
10 2 0.06
11 15 0.44
12 17 0.50
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (12 bp):
TATGTATATATA
Found at i:4426392 original size:6 final size:6
Alignment explanation
Indices: 4426375--4426404 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
4426365 ATATATGTAA
4426375 TATATAT TATATT TATATT TATATT TATAT
1 TATAT-T TATATT TATATT TATATT TATAT
4426405 ACCCACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
TATATT
Found at i:4427481 original size:5 final size:5
Alignment explanation
Indices: 4427471--4427503 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
4427461 ATGAAAATGA
4427471 ATAAT ATAAT ATAAT ATAAT AT-AT ATATAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATA
4427504 TTCTTGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:4431338 original size:25 final size:25
Alignment explanation
Indices: 4431288--4431337 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
4431278 AGGTTAAGTT
* * *
4431288 TATTAATAAAATAATAAATTTAAAA
1 TATTAAAAAAATAAAAAAATTAAAA
4431313 TATTAAAAAATATAAAAAAATTAAA
1 TATTAAAAAA-ATAAAAAAATTAAA
4431338 TTAATTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (25 bp):
TATTAAAAAAATAAAAAAATTAAAA
Found at i:4433342 original size:9 final size:9
Alignment explanation
Indices: 4433328--4433380 Score: 61
Period size: 9 Copynumber: 5.8 Consensus size: 9
4433318 TTTTGATAAA
4433328 TTTTTTCTT
1 TTTTTTCTT
4433337 TTTTTTCTT
1 TTTTTTCTT
* *
4433346 CTTTCTTCCT
1 -TTTTTTCTT
*
4433356 TTCTTTCTT
1 TTTTTTCTT
4433365 TTTTTTCTT
1 TTTTTTCTT
*
4433374 TCTTTTC
1 TTTTTTC
4433381 CATCACGTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
9 29 0.81
10 7 0.19
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:4433372 original size:25 final size:24
Alignment explanation
Indices: 4433331--4433377 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
4433321 TGATAAATTT
4433331 TTTCTTTTTTTTCTTCTTTCTTCC
1 TTTCTTTTTTTTCTTCTTTCTTCC
*
4433355 TTTCTTTCTTTTTTTTCTTTCTT
1 TTTCTTT-TTTTTCTTCTTTCTT
4433378 TTCCATCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTCTTTTTTTTCTTCTTTCTTCC
Found at i:4434564 original size:16 final size:15
Alignment explanation
Indices: 4434543--4434584 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
4434533 TTTTTCTCCC
4434543 ATATATAAAATAAAT
1 ATATATAAAATAAAT
*
4434558 -TATATATAA-AAAT
1 ATATATAAAATAAAT
4434571 ATATATAAAATAAA
1 ATATATAAAATAAA
4434585 ATCAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 4 0.17
14 16 0.70
15 3 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATATAAAATAAAT
Found at i:4434697 original size:19 final size:19
Alignment explanation
Indices: 4434675--4434715 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
4434665 AATTTTTTCC
4434675 TTTTT-TTTCTTTTTTGCT
1 TTTTTGTTTCTTTTTTGCT
*
4434693 TTTTTGTTTCTTTTTTTCT
1 TTTTTGTTTCTTTTTTGCT
4434712 TTTT
1 TTTT
4434716 CACCTGAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (19 bp):
TTTTTGTTTCTTTTTTGCT
Found at i:4436241 original size:4 final size:4
Alignment explanation
Indices: 4436232--4436304 Score: 71
Period size: 4 Copynumber: 19.0 Consensus size: 4
4436222 ATATAATTTT
* * * *
4436232 TTTC TTTC TTT- TTTT TTTC TTTT TTTC -TTC TTTC ATTC ATTC TTT-
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
* *
4436277 TTTT TTTC TTAC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC
4436305 CCAGCCAAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
3 9 0.16
4 49 0.84
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:4436258 original size:23 final size:23
Alignment explanation
Indices: 4436228--4436304 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
4436218 CAACATATAA
*
4436228 TTTTTTTCTTTCTTTTTTTTTTC
1 TTTTTTTCTTTCTTTTTTCTTTC
* *
4436251 TTTTTTTC-TTCTTTCATTCATTC
1 TTTTTTTCTTTCTTT-TTTCTTTC
*
4436274 TTTTTTT-TTTCTTACTTTCTTTC
1 TTTTTTTCTTTCTT-TTTTCTTTC
*
4436297 TTTCTTTC
1 TTTTTTTC
4436305 CCAGCCAAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
22 6 0.14
23 37 0.86
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTTTCTTTCTTTTTTCTTTC
Found at i:4436367 original size:3 final size:3
Alignment explanation
Indices: 4436354--4436402 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
4436344 TTAATGTATA
4436354 AAT AGAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4436399 AAT A
1 AAT A
4436403 CCTTTTTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4436554 original size:23 final size:23
Alignment explanation
Indices: 4436526--4436576 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 23
4436516 TAGATATAAA
4436526 TTTTTTTCTTTCTTTCTTTTTTTTC
1 TTTTTTTC--TCTTTCTTTTTTTTC
4436551 TTTTTTTCTCTTTCTTTTTTTTC
1 TTTTTTTCTCTTTCTTTTTTTTC
4436574 TTT
1 TTT
4436577 CTCTCTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 18 0.69
25 8 0.31
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTTTTCTCTTTCTTTTTTTTC
Found at i:4436583 original size:17 final size:17
Alignment explanation
Indices: 4436526--4436586 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 17
4436516 TAGATATAAA
*
4436526 TTTTTTTCTTTCTTTCT
1 TTTTTTTCTTTCTCTCT
4436543 TTTTTTTCTTTTTTTCTCTTTCT
1 TTTTTTTC----TTTCTC--TCT
4436566 TTTTTTTCTTTCTCTCT
1 TTTTTTTCTTTCTCTCT
4436583 TTTT
1 TTTT
4436587 CGGCTGCACC
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
17 15 0.41
19 6 0.16
21 5 0.14
23 11 0.30
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTCTTTCTCTCT
Done.