Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold41
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: 2798036
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Warning! 10448 characters in sequence are not A, C, G, or T
File 5 of 21
Found at i:428303 original size:18 final size:19
Alignment explanation
Indices: 428260--428315 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 19
428250 TTTATAATGA
*
428260 AATAATATTATCT-AATTT
1 AATAATATTATATAAATTT
*
428278 ATTAATATTATATAAATTT
1 AATAATATTATATAAATTT
*
428297 AAT-ATATTAAATATAATTT
1 AATAATATTATATA-AATTT
428316 TTTTATTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 20 0.62
19 12 0.38
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
AATAATATTATATAAATTT
Found at i:428409 original size:20 final size:21
Alignment explanation
Indices: 428381--428419 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
428371 TTTTTAAATA
*
428381 AATATAAATAATTTTATTTTT
1 AATATAAATAATATTATTTTT
*
428402 AATA-AAATGATATTATTT
1 AATATAAATAATATTATTT
428420 GATTTATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
AATATAAATAATATTATTTTT
Found at i:429536 original size:3 final size:3
Alignment explanation
Indices: 429528--429554 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
429518 GTTGCACATG
429528 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
429555 AATGGGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:430286 original size:22 final size:21
Alignment explanation
Indices: 430260--430300 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
430250 TTTAAGGAAA
*
430260 AAATTATACATTTTATAAATTT
1 AAATTATAAATTTTA-AAATTT
*
430282 AAATTTTAAATTTTAAAAT
1 AAATTATAAATTTTAAAAT
430301 ATGGGTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATTATAAATTTTAAAATTT
Found at i:430539 original size:14 final size:15
Alignment explanation
Indices: 430504--430541 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
430494 AATTATAATA
430504 ATATTTATATAAAAT
1 ATATTTATATAAAAT
*
430519 ATATTTA-ATAAATT
1 ATATTTATATAAAAT
*
430533 ATTTTTATA
1 ATATTTATA
430542 ATTTAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTTATATAAAAT
Found at i:430577 original size:16 final size:17
Alignment explanation
Indices: 430541--430592 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 17
430531 TTATTTTTAT
430541 AATTT-AATAA-AAATA
1 AATTTAAATAATAAATA
* *
430556 ATATTTTAATTATAAA-A
1 A-ATTTAAATAATAAATA
430573 AATTTAAATAATAAATA
1 AATTTAAATAATAAATA
430590 AAT
1 AAT
430593 AATCTCTAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 1 0.03
16 16 0.53
17 10 0.33
18 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AATTTAAATAATAAATA
Found at i:432053 original size:18 final size:17
Alignment explanation
Indices: 432009--432055 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
431999 TTAATTTGAT
*
432009 ATTTATAATATAATTTT
1 ATTTATAATATAATTTC
432026 ATTTATTAATATAGTATTTC
1 ATTTA-TAATATA--ATTTC
432046 A-TTATAATAT
1 ATTTATAATAT
432056 TTTTAGTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 5 0.19
18 13 0.50
19 3 0.12
20 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
ATTTATAATATAATTTC
Found at i:432582 original size:24 final size:24
Alignment explanation
Indices: 432542--432587 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
432532 AAAGTTATAA
432542 ATTAAAATTA-ATATTTTAAATTG
1 ATTAAAATTATATATTTTAAATTG
* *
432565 ATTAAATATTATTTTTTTTAAAT
1 ATTAAA-ATTATATATTTTAAAT
432588 AATTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 4 0.21
25 9 0.47
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTAAAATTATATATTTTAAATTG
Found at i:435024 original size:14 final size:16
Alignment explanation
Indices: 435005--435058 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 16
434995 AATATTAAAA
435005 TAATATTTT-TAT-AT
1 TAATATTTTATATAAT
435019 TAATATTTTATATAAT
1 TAATATTTTATATAAT
*
435035 TAA-A-TTTAAATAA-
1 TAATATTTTATATAAT
*
435048 AAATATTTTAT
1 TAATATTTTAT
435059 TAGTTGAACG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 2 0.06
14 18 0.55
15 8 0.24
16 5 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TAATATTTTATATAAT
Found at i:436459 original size:19 final size:21
Alignment explanation
Indices: 436420--436464 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
436410 GCTCGATAAT
436420 AATA-TTTATATTATATTTTA
1 AATATTTTATATTATATTTTA
436440 AATATTTTATATT-T-TTTTA
1 AATATTTTATATTATATTTTA
436459 AATATT
1 AATATT
436465 ATTTATAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.46
20 5 0.21
21 8 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
AATATTTTATATTATATTTTA
Found at i:437625 original size:16 final size:16
Alignment explanation
Indices: 437604--437640 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
437594 TAAATTTTTT
437604 AATTATTTTAAATATA
1 AATTATTTTAAATATA
* *
437620 AATTATTTTATATTTA
1 AATTATTTTAAATATA
437636 AATTA
1 AATTA
437641 ATTAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTATTTTAAATATA
Found at i:437648 original size:14 final size:14
Alignment explanation
Indices: 437631--437732 Score: 78
Period size: 14 Copynumber: 7.6 Consensus size: 14
437621 ATTATTTTAT
437631 ATTTAAATTAATTA
1 ATTTAAATTAATTA
437645 ATTTTAAAATT--TTA
1 A-TTT-AAATTAATTA
437659 ATTTAAATTAATTA
1 ATTTAAATTAATTA
437673 ATTT---TTAATT-
1 ATTTAAATTAATTA
437683 A-TTAAA--AATTA
1 ATTTAAATTAATTA
*
437694 AATTAAATTCAATTTTA
1 ATTTAAATT-AA--TTA
437711 ATTTAAATTAATTA
1 ATTTAAATTAATTA
*
437725 ATTAAAAT
1 ATTTAAAT
437733 ATTTAAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 28
0.71 0.02 0.27
Matches are distributed among these distances:
9 2 0.03
10 5 0.07
11 7 0.10
12 10 0.14
13 3 0.04
14 22 0.31
15 5 0.07
16 7 0.10
17 11 0.15
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTAAATTAATTA
Found at i:437667 original size:24 final size:23
Alignment explanation
Indices: 437592--437682 Score: 77
Period size: 21 Copynumber: 4.1 Consensus size: 23
437582 ATTTTAAAAT
437592 TTTAAATT-TTTTAATTATTTTAAA
1 TTTAAATTATTTTAA-TATTTT-AA
*
437616 TATAAATTATTTT-ATA-TTTAA
1 TTTAAATTATTTTAATATTTTAA
* *
437637 ATT-AATTAATTTTAAAATTTTAA
1 TTTAAATT-ATTTTAATATTTTAA
*
437660 TTTAAATTA-ATTAAT-TTTTAA
1 TTTAAATTATTTTAATATTTTAA
437681 TT
1 TT
437683 ATTAAAAATT
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
20 4 0.07
21 16 0.29
22 9 0.16
23 10 0.18
24 12 0.22
25 4 0.07
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTAAATTATTTTAATATTTTAA
Found at i:437711 original size:17 final size:16
Alignment explanation
Indices: 437632--437723 Score: 65
Period size: 15 Copynumber: 6.1 Consensus size: 16
437622 TTATTTTATA
437632 TTTAAATT-AATTAAT
1 TTTAAATTAAATTAAT
437647 TTTAAAATT---TTAA-
1 TTT-AAATTAAATTAAT
437660 TTTAAATT-AATTAAT
1 TTTAAATTAAATTAAT
* *
437675 TTTTAATT--ATTAAAA
1 TTTAAATTAAATT-AAT
*
437690 ATTAAATTAAATTCAAT
1 TTTAAATTAAATT-AAT
*
437707 TTTAATTTAAATTAAT
1 TTTAAATTAAATTAAT
437723 T
1 T
437724 AATTAAAATA
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
12 5 0.08
13 3 0.05
14 11 0.18
15 18 0.29
16 9 0.15
17 16 0.26
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTAAATTAAATTAAT
Found at i:437724 original size:31 final size:33
Alignment explanation
Indices: 437656--437730 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 33
437646 TTTTAAAATT
*
437656 TTAATTTAAATT-AATTAATTTTTAATTATTAAA
1 TTAA-TTAAATTAAATTAAATTTTAATTATTAAA
*
437689 --AATTAAATTAAATTCAATTTTAA-T-TTAAA
1 TTAATTAAATTAAATTAAATTTTAATTATTAAA
437718 TTAATT-AATTAAA
1 TTAATTAAATTAAA
437731 ATATTTAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
29 5 0.14
30 15 0.41
31 17 0.46
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (33 bp):
TTAATTAAATTAAATTAAATTTTAATTATTAAA
Found at i:437856 original size:16 final size:16
Alignment explanation
Indices: 437835--437876 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 16
437825 ACGCCAAAAA
437835 AAAAAAAATAATAATAAT
1 AAAAAAAAT-A-AATAAT
437853 AAAAAAAATAAATAAT
1 AAAAAAAATAAATAAT
437869 AAATAAAA
1 AAA-AAAA
437877 GGAAAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.39
17 5 0.22
18 9 0.39
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAAAAAATAAATAAT
Found at i:437882 original size:22 final size:18
Alignment explanation
Indices: 437835--437876 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 18
437825 ACGCCAAAAA
437835 AAAAAAAATAATAATAAT
1 AAAAAAAATAATAATAAT
437853 AAAAAAAATAAATAATAAAT
1 AAAAAAAAT-AATAAT-AAT
437873 AAAA
1 AAAA
437877 GGAAAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 9 0.41
19 6 0.27
20 7 0.32
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (18 bp):
AAAAAAAATAATAATAAT
Found at i:438062 original size:15 final size:15
Alignment explanation
Indices: 438021--438064 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
438011 AATTTGATTT
*
438021 ATTTTAAATTAA-AA
1 ATTTTAAATTAATTA
*
438035 ATTTT-ATTTAATTA
1 ATTTTAAATTAATTA
438049 ATTTTAAATTAATTA
1 ATTTTAAATTAATTA
438064 A
1 A
438065 AAAATTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 5 0.20
14 11 0.44
15 9 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTTAAATTAATTA
Found at i:438522 original size:21 final size:22
Alignment explanation
Indices: 438498--438538 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
438488 ATTTAGCAAC
438498 AATTATTAA-ATTTTTTTAAAA
1 AATTATTAATATTTTTTTAAAA
438519 AATTATTAATATTTTTTTAA
1 AATTATTAATATTTTTTTAA
438539 TTTTCTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AATTATTAATATTTTTTTAAAA
Found at i:440265 original size:2 final size:2
Alignment explanation
Indices: 440258--440289 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
440248 GTAAGTAAAT
440258 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
440290 CACACACACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:440542 original size:20 final size:19
Alignment explanation
Indices: 440506--440542 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
440496 AAAATTATTT
440506 TAAATTTAATTATAAAAAA
1 TAAATTTAATTATAAAAAA
440525 TAAATATTAA-TATAAAAA
1 TAAAT-TTAATTATAAAAA
440543 TAATTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAATTTAATTATAAAAAA
Found at i:440552 original size:18 final size:20
Alignment explanation
Indices: 440506--440552 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
440496 AAAATTATTT
440506 TAAA-TTTAATTATAAAAAA
1 TAAATTTTAATTATAAAAAA
*
440525 TAAATATTAA-TAT-AAAAA
1 TAAATTTTAATTATAAAAAA
*
440543 TAATTTTTAA
1 TAAATTTTAA
440553 AATATTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 13 0.54
19 7 0.29
20 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAATTTTAATTATAAAAAA
Found at i:441253 original size:18 final size:18
Alignment explanation
Indices: 441230--441277 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
441220 AAAATATTTT
*
441230 TGATAGTATCTATACTTG
1 TGATAGAATCTATACTTG
*
441248 TGATAGAATCCCATACTTG
1 TGATAGAAT-CTATACTTG
441267 TGATAGAATCT
1 TGATAGAATCT
441278 CCAATTGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (18 bp):
TGATAGAATCTATACTTG
Found at i:441451 original size:2 final size:2
Alignment explanation
Indices: 441444--441470 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
441434 TTATTAACTT
441444 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
441471 GATGTATAGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:441566 original size:29 final size:30
Alignment explanation
Indices: 441514--441591 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 30
441504 TATATTAAAT
* *
441514 AAATATAAATA-ATATA--AAAATTTATAA
1 AAATATAAATATATATATTTAATTTTATAA
441541 AAATATATAATAT-TAT-TTTAATTTTATAA
1 AAATATA-AATATATATATTTAATTTTATAA
*
441570 TAATATAAATATATATATTTAA
1 AAATATAAATATATATATTTAA
441592 AATATTAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
27 7 0.17
28 12 0.29
29 18 0.43
30 5 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
AAATATAAATATATATATTTAATTTTATAA
Found at i:442904 original size:20 final size:19
Alignment explanation
Indices: 442875--442921 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
442865 GATTTAAATT
442875 AAATAATTTTAAATATTAAA
1 AAATAATTTT-AATATTAAA
* *
442895 AAATAGTTTTAATATTATAT
1 AAATAATTTTAATATTA-AA
442915 AAATAAT
1 AAATAAT
442922 AAATATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
AAATAATTTTAATATTAAA
Found at i:445042 original size:32 final size:33
Alignment explanation
Indices: 445005--445108 Score: 90
Period size: 34 Copynumber: 3.2 Consensus size: 33
444995 AATAATTATT
* *
445005 AAATTTATTAGTAATTATATCT-AATATTCATC
1 AAATTTATGAATAATTATATCTAAATATTCATC
* * *
445037 GAATTTATGAATAATTTTATTTAAAATATTCATC
1 AAATTTATGAATAATTATATCT-AAATATTCATC
** * *
445071 AAATTTAAAAATAATTAT-T-TATA-ATTAATC
1 AAATTTATGAATAATTATATCTAAATATTCATC
445101 AAATTTAT
1 AAATTTAT
445109 TATCAATATT
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
30 13 0.22
31 2 0.03
32 18 0.31
33 1 0.02
34 24 0.41
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (33 bp):
AAATTTATGAATAATTATATCTAAATATTCATC
Found at i:445791 original size:33 final size:33
Alignment explanation
Indices: 445754--445828 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 33
445744 TTAAAAAATT
445754 TTAAAAATAATATTTATTCTTAATACTATTAAA
1 TTAAAAATAATATTTATTCTTAATACTATTAAA
* * * * *
445787 TTAAAGATAATTTTTGTTTTTAATATTATTAAA
1 TTAAAAATAATATTTATTCTTAATACTATTAAA
*
445820 TTTAAAATA
1 TTAAAAATA
445829 TTTTTATCAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (33 bp):
TTAAAAATAATATTTATTCTTAATACTATTAAA
Found at i:445935 original size:24 final size:22
Alignment explanation
Indices: 445887--445936 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
445877 TTTTTTAATC
* *
445887 TGTGTGGATCTTAATGAAAATA
1 TGTGTGGACCTTAATGAAAAAA
445909 TGTGTGGACCTTAATGAAATCAAA
1 TGTGTGGACCTTAATGAAA--AAA
445933 TGTG
1 TGTG
445937 ACAATAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 18 0.75
24 6 0.25
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (22 bp):
TGTGTGGACCTTAATGAAAAAA
Found at i:446741 original size:27 final size:27
Alignment explanation
Indices: 446688--446741 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
446678 TTAAATTATT
*
446688 ATTTAATAATAATAAAAATTATTTTAA
1 ATTTAATAATAATAAAAATTATATTAA
* *
446715 ATTTAATTATAA-AAATATTAATATTAA
1 ATTTAATAATAATAAAAATT-ATATTAA
446742 TATAAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
ATTTAATAATAATAAAAATTATATTAA
Found at i:449135 original size:20 final size:21
Alignment explanation
Indices: 449096--449135 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
449086 AGTTTAAATT
*
449096 AAATAATTTTAAATATTAAAA
1 AAATAATTTTAAATACTAAAA
*
449117 AAATACTTTT-AATACTAAA
1 AAATAATTTTAAATACTAAA
449136 TAAGGAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATAATTTTAAATACTAAAA
Found at i:449451 original size:11 final size:11
Alignment explanation
Indices: 449425--449457 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
449415 ACATAAAGAG
449425 AATAAT-TAAA
1 AATAATATAAA
449435 ATATAATATAAA
1 A-ATAATATAAA
449447 AATAATATAAA
1 AATAATATAAA
449458 TACGATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 15 0.71
12 5 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AATAATATAAA
Found at i:449458 original size:22 final size:22
Alignment explanation
Indices: 449425--449468 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
449415 ACATAAAGAG
*
449425 AATAATTAAAATATAATATAAA
1 AATAATTAAAATACAATATAAA
*
449447 AATAA-TATAAATACGATATAAA
1 AATAATTA-AAATACAATATAAA
449469 TATATAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
AATAATTAAAATACAATATAAA
Found at i:449560 original size:11 final size:12
Alignment explanation
Indices: 449541--449576 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
449531 ATATAACACT
449541 TTAAAAAAATTA
1 TTAAAAAAATTA
*
449553 TT-AAAAAATAA
1 TTAAAAAAATTA
449564 TTAAAAAAATTA
1 TTAAAAAAATTA
449576 T
1 T
449577 AATATAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TTAAAAAAATTA
Found at i:450056 original size:16 final size:18
Alignment explanation
Indices: 450035--450068 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
450025 AATTTAAAAA
450035 TAAAATT-A-TAAAAATT
1 TAAAATTAATTAAAAATT
450051 TAAAATTAATTAAAAATT
1 TAAAATTAATTAAAAATT
450069 AAATAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAATTAATTAAAAATT
Found at i:450939 original size:19 final size:20
Alignment explanation
Indices: 450917--450978 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 20
450907 AATAAAGTTA
450917 AAATATTTTAATAA-TTATT
1 AAATATTTTAATAATTTATT
*
450936 AAAT-TTATAAATAATTTTATT
1 AAATATT-TTAATAA-TTTATT
*
450957 TAATATTTATAA-AATTTATT
1 AAATATTT-TAATAATTTATT
450977 AA
1 AA
450979 TAATTATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
18 2 0.06
19 10 0.29
20 7 0.21
21 11 0.32
22 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AAATATTTTAATAATTTATT
Found at i:450972 original size:32 final size:32
Alignment explanation
Indices: 450922--450992 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
450912 AGTTAAAATA
*
450922 TTTTAATAATTATTAAATTTATAAATAATT-T
1 TTTTAATAATTATAAAATTTATAAATAATTAT
* *
450953 TATTTAATATTTATAAAATTTATTAATAATTAT
1 T-TTTAATAATTATAAAATTTATAAATAATTAT
450986 TTTTAAT
1 TTTTAAT
450993 TTATCAAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
31 1 0.03
32 32 0.91
33 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
TTTTAATAATTATAAAATTTATAAATAATTAT
Found at i:450979 original size:19 final size:20
Alignment explanation
Indices: 450918--450985 Score: 72
Period size: 19 Copynumber: 3.5 Consensus size: 20
450908 ATAAAGTTAA
450918 AATATTT-TAATAA-TTATT
1 AATATTTATAATAATTTATT
450936 AA-ATTTATAAATAATTTTATTT
1 AATATTTAT-AATAA-TTTA-TT
450958 AATATTTATAA-AATTTATT
1 AATATTTATAATAATTTATT
*
450977 AATAATTAT
1 AATATTTAT
450986 TTTTAATTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
17 4 0.09
18 3 0.07
19 15 0.35
20 4 0.09
21 5 0.12
22 6 0.14
23 6 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AATATTTATAATAATTTATT
Found at i:450996 original size:11 final size:11
Alignment explanation
Indices: 450924--450996 Score: 52
Period size: 10 Copynumber: 7.1 Consensus size: 11
450914 TTAAAATATT
450924 TTAATAA-TTA
1 TTAATAATTTA
450934 TT-A-AATTTA
1 TTAATAATTTA
*
450943 TAAATAATTTTA
1 TTAATAA-TTTA
450955 TTTAAT-ATTTA
1 -TTAATAATTTA
450966 -TAA-AATTTA
1 TTAATAATTTA
450975 TTAATAA-TTA
1 TTAATAATTTA
**
450985 TTTTTAATTTA
1 TTAATAATTTA
450996 T
1 T
450997 CAAACTTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 17
0.70 0.06 0.24
Matches are distributed among these distances:
8 2 0.04
9 13 0.26
10 14 0.28
11 12 0.24
12 5 0.10
13 4 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTAATAATTTA
Found at i:451151 original size:26 final size:26
Alignment explanation
Indices: 451121--451184 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
451111 TAATATCAAA
* *
451121 ATTAAAATATATTAAAAATT-ATTAAT
1 ATTAAAATA-ATAAAAAATTAATAAAT
**
451147 ATTAATTTAATAAAAAATTAATAAAT
1 ATTAAAATAATAAAAAATTAATAAAT
*
451173 ATTAATATAATA
1 ATTAAAATAATA
451185 CCAATAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 9 0.28
26 23 0.72
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
ATTAAAATAATAAAAAATTAATAAAT
Found at i:451269 original size:16 final size:16
Alignment explanation
Indices: 451248--451279 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
451238 ATATTAAAAA
451248 TAATAAATTATAATTT
1 TAATAAATTATAATTT
451264 TAATAAATTATAATTT
1 TAATAAATTATAATTT
451280 ATAAAATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATAAATTATAATTT
Found at i:451271 original size:23 final size:22
Alignment explanation
Indices: 451241--451283 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
451231 TTATTTTATA
451241 TTAAAAATAATAAATTATAATT
1 TTAAAAATAATAAATTATAATT
* *
451263 TTAATAAATTATAATTTATAA
1 TTAA-AAATAATAAATTATAA
451284 AATCATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAAAAATAATAAATTATAATT
Found at i:451387 original size:22 final size:21
Alignment explanation
Indices: 451361--451418 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 21
451351 CCATTTCATG
451361 TTATTATTTAATAATTTAATTT
1 TTATTATTTAATAA-TTAATTT
451383 TTATTGATAATT-ATAA-TAATTT
1 TTATT-AT--TTAATAATTAATTT
451405 TT-TTATTTAATAAT
1 TTATTATTTAATAAT
451419 ATAAAAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
18 2 0.06
19 4 0.13
20 2 0.06
21 2 0.06
22 13 0.42
23 2 0.06
24 4 0.13
25 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTATTATTTAATAATTAATTT
Found at i:451481 original size:39 final size:40
Alignment explanation
Indices: 451406--451483 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
451396 TAATAATTTT
* *
451406 TTTATTTAATAATATAAAAAACAAATAAATATTATAACTG
1 TTTATTCAATAATATAAAAAACAAATAAATAATATAACTG
*
451446 TTTATTCAATAATAT-AAAAACTAAAT-ATTAATATAACT
1 TTTATTCAATAATATAAAAAAC-AAATAAATAATATAACT
451484 TTATGTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 16 0.47
40 18 0.53
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.38
Consensus pattern (40 bp):
TTTATTCAATAATATAAAAAACAAATAAATAATATAACTG
Found at i:452159 original size:29 final size:26
Alignment explanation
Indices: 452113--452182 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 26
452103 ATTATTGATT
452113 ATTATTTTAATATATTTTATGATATTATA
1 ATTATTTTAATATATTTTAT--TA-TATA
*
452142 ATTATATTTAA-ATTTTTTATTATATA
1 ATTAT-TTTAATATATTTTATTATATA
452168 ATTATTTT-ATATATT
1 ATTATTTTAATATATT
452183 GACGATAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
24 1 0.03
25 7 0.19
26 9 0.24
27 2 0.05
29 13 0.35
30 5 0.14
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (26 bp):
ATTATTTTAATATATTTTATTATATA
Found at i:453740 original size:50 final size:50
Alignment explanation
Indices: 453682--453923 Score: 369
Period size: 50 Copynumber: 4.8 Consensus size: 50
453672 ATTATCTTTT
*
453682 ACCAACCTTTGACAATAGAGAGAGGTGACCATAATTGTTGACGATTATTC
1 ACCAACCTTTGACAATAGAGAGAGGTGACCATAATTGTTGACGATTCTTC
* *
453732 ACCAACCTTTCACAATAGAGGGAGGTGACCATAATTGTTGACGATTCTTC
1 ACCAACCTTTGACAATAGAGAGAGGTGACCATAATTGTTGACGATTCTTC
* * * *
453782 ACCAACCTTTGACAATAGAAAGAGGTAACCATAATTGTTTACAATTCTTC
1 ACCAACCTTTGACAATAGAGAGAGGTGACCATAATTGTTGACGATTCTTC
* *
453832 ACCAACCTTTGACAATAAAAAGAGGTGGA-CATAATTGTTGACGATTCTTC
1 ACCAACCTTTGACAATAGAGAGAGGT-GACCATAATTGTTGACGATTCTTC
* *
453882 ACCAATCTTTGACAATAGAGGGAGGTGACCATAATTGTTGAC
1 ACCAACCTTTGACAATAGAGAGAGGTGACCATAATTGTTGAC
453924 TCTAAGTATA
Statistics
Matches: 173, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
49 2 0.01
50 170 0.98
51 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (50 bp):
ACCAACCTTTGACAATAGAGAGAGGTGACCATAATTGTTGACGATTCTTC
Found at i:459647 original size:50 final size:50
Alignment explanation
Indices: 459572--459874 Score: 456
Period size: 50 Copynumber: 6.2 Consensus size: 50
459562 AGTTGTTGTC
* * *
459572 ATTGTTGACTATCCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
* *
459622 ATTGTTGACGATTTTTCACCAACCTTTGACAATAGAGGGAGGTGGCAATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
* **
459672 ATTGTTGACGATTCTTCACCAACCTTTGATAATAGAAAGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
*
459722 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
*
459772 A---TTAACGATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
* *
459819 A---TTAACGATTCTTCACCAACCTTTGATAATAGAGGGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
459866 ATTGTTGAC
1 ATTGTTGAC
459875 TCTAAGTATA
Statistics
Matches: 232, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
47 91 0.39
50 141 0.61
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (50 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
Found at i:461615 original size:2 final size:2
Alignment explanation
Indices: 461608--461638 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
461598 AATTTTACTT
*
461608 TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
461639 CGTTTTCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:461936 original size:20 final size:21
Alignment explanation
Indices: 461913--461962 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
461903 TATTTTCATG
461913 ATAATTAATATATT-TATATT
1 ATAATTAATATATTATATATT
* *
461933 ATAATCGTATTATTTTATATATT
1 ATAAT--TAATATATTATATATT
461956 ATAATTA
1 ATAATTA
461963 TGTTAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 5 0.20
21 2 0.08
22 7 0.28
23 11 0.44
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
ATAATTAATATATTATATATT
Found at i:464177 original size:22 final size:21
Alignment explanation
Indices: 464148--464190 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
464138 AAAAATTTAT
464148 ATATTATATTGATA-TCAAATC
1 ATATTATATT-ATATTCAAATC
464169 ATATCTATATTATATTCAAATC
1 ATAT-TATATTATATTCAAATC
464191 CATGCTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (21 bp):
ATATTATATTATATTCAAATC
Found at i:464973 original size:26 final size:26
Alignment explanation
Indices: 464926--464976 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
464916 AAAAGATAAA
* *
464926 GAAGAGAGAAGAGAAGGAAGAAAGGG
1 GAAGAGAGAAGAAAAAGAAGAAAGGG
464952 GAAGAGA-AAGAAAAAGAGAGAAAGG
1 GAAGAGAGAAGAAAAAGA-AGAAAGG
464977 AAAGAAAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (26 bp):
GAAGAGAGAAGAAAAAGAAGAAAGGG
Found at i:466625 original size:2 final size:2
Alignment explanation
Indices: 466618--466646 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
466608 GAAACAAAAG
466618 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
466647 TACTTTCATG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:468265 original size:24 final size:23
Alignment explanation
Indices: 468225--468284 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
468215 TTAATTTAAT
*
468225 TTATTATTTA-AAAAATATTAAAAA
1 TTATT-TTTATAATAATATT-AAAA
*
468249 TTATTTTTATAATAATATTAATA
1 TTATTTTTATAATAATATTAAAA
468272 -TA-TTTTATAATAA
1 TTATTTTTATAATAA
468285 AATTTTACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 11 0.33
22 2 0.06
23 7 0.21
24 13 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTATTTTTATAATAATATTAAAA
Found at i:468623 original size:38 final size:35
Alignment explanation
Indices: 468555--468629 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 35
468545 CCCCTCCACT
*
468555 AAAATTAAATTATATTTATTAATTT-TTTAAATAA
1 AAAATTAAATTATATTTATTAATTTATTAAAATAA
*
468589 AAAATTAAATTATATATATTTTAATAATTATTAAAATAA
1 AAAATTAAATTATAT-T-TATTAAT--TTATTAAAATAA
468628 AA
1 AA
468630 TTCTCACCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 15 0.44
35 1 0.03
36 6 0.18
38 2 0.06
39 10 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (35 bp):
AAAATTAAATTATATTTATTAATTTATTAAAATAA
Found at i:473234 original size:20 final size:22
Alignment explanation
Indices: 473184--473236 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
473174 ATTTATGAAT
*
473184 AAACTTATTT-ATAAATTGTTA
1 AAACTCATTTAATAAATTGTTA
473205 AAATCTCATTTAATAAA-T-TTA
1 AAA-CTCATTTAATAAATTGTTA
473226 AAACTCATTTA
1 AAACTCATTTA
473237 TTATATGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 8 0.28
21 9 0.31
22 7 0.24
23 5 0.17
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.43
Consensus pattern (22 bp):
AAACTCATTTAATAAATTGTTA
Found at i:473543 original size:19 final size:17
Alignment explanation
Indices: 473529--473562 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
473519 AATTATAGTA
473529 TTTATTATTATTTATAT
1 TTTATTATTATTTATAT
473546 TTTATT-TTATTT-TAT
1 TTTATTATTATTTATAT
473561 TT
1 TT
473563 ATTTATGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 6 0.35
17 6 0.35
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTATTATTTATAT
Found at i:473553 original size:5 final size:5
Alignment explanation
Indices: 473529--473566 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
473519 AATTATAGTA
473529 TTTAT TATTAT TTATAT TTTAT TTTAT TTTA- TTTAT TT
1 TTTAT T-TTAT TT-TAT TTTAT TTTAT TTTAT TTTAT TT
473567 ATGATATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 4 0.13
5 16 0.53
6 10 0.33
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:473653 original size:24 final size:23
Alignment explanation
Indices: 473626--473672 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
473616 AAAAAATAAG
* *
473626 TTCATTTGTTTATTTTTGTTTAAA
1 TTCATTTATTTATTATT-TTTAAA
473650 TTCATTTATTTATTATTTTTAAA
1 TTCATTTATTTATTATTTTTAAA
473673 CATATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (23 bp):
TTCATTTATTTATTATTTTTAAA
Found at i:473723 original size:24 final size:23
Alignment explanation
Indices: 473670--473731 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
473660 TATTATTTTT
473670 AAACATATTTT-TAATTATTCAC
1 AAACATATTTTATAATTATTCAC
* * *
473692 AAAAATATTTTATTATATATTCAT
1 AAACATATTTTATAAT-TATTCAC
*
473716 GAACATATTATTATAA
1 AAACATATT-TTATAA
473732 AATTTGTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 10 0.32
23 3 0.10
24 13 0.42
25 5 0.16
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (23 bp):
AAACATATTTTATAATTATTCAC
Found at i:474142 original size:30 final size:31
Alignment explanation
Indices: 474100--474162 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
474090 TAACAAAATT
*
474100 AATTTAAATAATTTAATTTATTAACAA-TAAA
1 AATTTAAATAATTTAATTTAATAA-AATTAAA
474131 AATTT-AATAATTTAATTTAATAAAATTAAA
1 AATTTAAATAATTTAATTTAATAAAATTAAA
474161 AA
1 AA
474163 ATTTTAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 2 0.07
30 23 0.77
31 5 0.17
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (31 bp):
AATTTAAATAATTTAATTTAATAAAATTAAA
Found at i:474165 original size:23 final size:23
Alignment explanation
Indices: 474148--474198 Score: 52
Period size: 23 Copynumber: 2.2 Consensus size: 23
474138 TAATTTAATT
474148 TAAT-AAAATTAAAAAATTTTAATT
1 TAATAAAAATT-AAAAA-TTTAATT
*
474172 TATATAAAAATT-AATATTTAATT
1 TA-ATAAAAATTAAAAATTTAATT
474195 TAAT
1 TAAT
474199 TACTCAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
22 2 0.08
23 9 0.38
24 5 0.21
25 2 0.08
26 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATAAAAATTAAAAATTTAATT
Found at i:474190 original size:24 final size:22
Alignment explanation
Indices: 474125--474198 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 22
474115 ATTTATTAAC
474125 AATAAAAATTTAATAATTTAATTT
1 AATAAAAA-TTAAT-ATTTAATTT
*
474149 AAT-AAAATTAAAAAATTTTAATTT
1 AATAAAAATT--AATA-TTTAATTT
474173 ATATAAAAATTAATATTTAATTT
1 A-ATAAAAATTAATATTTAATTT
474196 AAT
1 AAT
474199 TACTCAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
22 4 0.09
23 14 0.33
24 17 0.40
25 2 0.05
26 6 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATAAAAATTAATATTTAATTT
Found at i:475596 original size:25 final size:26
Alignment explanation
Indices: 475526--475597 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 26
475516 ATAAAGTGAA
* *
475526 AATTAAAAATGATCATTAAA-AATATT
1 AATTAAAAATTA-CATTAAATAACATT
* *
475552 AAATAAAAA-TATA-TATAATAACA-T
1 AATTAAAAATTACATTA-AATAACATT
475576 AATTAAAAATTACATTAAATAA
1 AATTAAAAATTACATTAAATAA
475598 TAAAATATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
23 2 0.06
24 12 0.33
25 12 0.33
26 10 0.28
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (26 bp):
AATTAAAAATTACATTAAATAACATT
Found at i:475691 original size:18 final size:18
Alignment explanation
Indices: 475668--475741 Score: 57
Period size: 17 Copynumber: 4.3 Consensus size: 18
475658 TTTTTATTGC
*
475668 TAAAAATTATATTTATAT
1 TAAAAATAATATTTATAT
* **
475686 TAAAAA-AACAAAT-TAT
1 TAAAAATAATATTTATAT
*
475702 T-AAAATCATATTTATAT
1 TAAAAATAATATTTATAT
* *
475719 TAAAAATAA-ATTAATAA
1 TAAAAATAATATTTATAT
475736 TAAAAA
1 TAAAAA
475742 GAGAAAAAAT
Statistics
Matches: 42, Mismatches: 11, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
15 4 0.10
16 7 0.17
17 19 0.45
18 12 0.29
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAAATAATATTTATAT
Found at i:477178 original size:15 final size:15
Alignment explanation
Indices: 477138--477210 Score: 54
Period size: 15 Copynumber: 5.3 Consensus size: 15
477128 AGTAAATGGA
477138 ATATTA-AAAA-AAT
1 ATATTATAAAATAAT
* *
477151 A-ATTACAATATAAT
1 ATATTATAAAATAAT
477165 ATATTATAAAATAAT
1 ATATTATAAAATAAT
477180 A-A-TATAAACATTAAT
1 ATATTATAAA-A-TAAT
477195 AT-TT-TAAAAT-AT
1 ATATTATAAAATAAT
477207 ATAT
1 ATAT
477211 AATATTAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
12 8 0.16
13 12 0.24
14 7 0.14
15 21 0.43
16 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
ATATTATAAAATAAT
Found at i:477253 original size:7 final size:8
Alignment explanation
Indices: 477238--477310 Score: 53
Period size: 8 Copynumber: 8.9 Consensus size: 8
477228 TTTTAAAATT
477238 TATATAAA
1 TATATAAA
477246 TATA-AAA
1 TATATAAA
* *
477253 TATTTATA
1 TATATAAA
477261 TATAT-AA
1 TATATAAA
477268 TATTATAAAA
1 TA-TAT-AAA
*
477278 TATTTAAATA
1 TATAT-AA-A
477288 TGATATAAA
1 T-ATATAAA
477297 TATATAAA
1 TATATAAA
477305 T-TATAA
1 TATATAA
477311 GTTTAGTGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
7 14 0.26
8 21 0.40
9 7 0.13
10 8 0.15
11 3 0.06
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (8 bp):
TATATAAA
Found at i:477274 original size:25 final size:23
Alignment explanation
Indices: 477238--477288 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 23
477228 TTTTAAAATT
*
477238 TATATAAATATAAAATATTTATA
1 TATATAAATATAAAATATTTAAA
477261 TATATAATATTATAAAATATTTAAA
1 TATATAA-A-TATAAAATATTTAAA
477286 TAT
1 TAT
477289 GATATAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 7 0.28
24 1 0.04
25 17 0.68
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATATAAATATAAAATATTTAAA
Found at i:477284 original size:51 final size:56
Alignment explanation
Indices: 477203--477305 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 56
477193 ATATTTTAAA
* *
477203 ATATATATAATATTAATTATTAATATTTTAAA-ATTTATATAAATATA-AAATATTT
1 ATATATATAATATTAATTATAAATATTTTAAATA-TGATATAAATATATAAATATTT
477258 ATATATATAATATT-A-TA-AAATA-TTTAAATATGATATAAATATATAAAT
1 ATATATATAATATTAATTATAAATATTTTAAATATGATATAAATATATAAAT
477306 TATAAGTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
51 18 0.41
52 9 0.20
53 2 0.05
54 1 0.02
55 14 0.32
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (56 bp):
ATATATATAATATTAATTATAAATATTTTAAATATGATATAAATATATAAATATTT
Found at i:477286 original size:40 final size:39
Alignment explanation
Indices: 477205--477288 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 39
477195 ATTTTAAAAT
* *
477205 ATATATAATATTAATTATTAATATTTTAAAATTTATATAA
1 ATATAAAATATTAATTATTAATATTATAAAA-TTATATAA
* *
477245 ATATAAAATATTTATATATATAATATTATAAAA-TATTTAA
1 ATATAAAATATTAAT-TAT-TAATATTATAAAATTATATAA
477285 ATAT
1 ATAT
477289 GATATAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
40 23 0.61
41 3 0.08
42 12 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (39 bp):
ATATAAAATATTAATTATTAATATTATAAAATTATATAA
Found at i:484548 original size:15 final size:15
Alignment explanation
Indices: 484530--484562 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
484520 ATTTAAAGAG
484530 TAAAAATATTAATAT
1 TAAAAATATTAATAT
484545 TAAAAATATTAATAT
1 TAAAAATATTAATAT
484560 TAA
1 TAA
484563 TATTTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAAAAATATTAATAT
Found at i:484842 original size:22 final size:22
Alignment explanation
Indices: 484816--484857 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
484806 ATAAAAAATT
484816 TATTTTTAT-ATTAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
484838 TATTTTTATAATTAAATTTA
1 TATTTTTATAATTAAATTTA
484858 AATAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Found at i:484889 original size:20 final size:21
Alignment explanation
Indices: 484855--484895 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
484845 ATAATTAAAT
*
484855 TTAAATAAAATATTTTAATTA
1 TTAAATAAAATATTTAAATTA
*
484876 TTAAATAATA-ATTTAAATTA
1 TTAAATAAAATATTTAAATTA
484896 AACTAAACGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAAATAAAATATTTAAATTA
Found at i:485509 original size:16 final size:16
Alignment explanation
Indices: 485461--485528 Score: 68
Period size: 16 Copynumber: 4.1 Consensus size: 16
485451 ATCGTATTTA
*
485461 TTTATTTTAAATTTAAAT
1 TTTATTTTAAA--AAAAT
485479 TTTA--TTAATAAAAAT
1 TTTATTTTAA-AAAAAT
485494 TTTATTTTAAAAAAAT
1 TTTATTTTAAAAAAAT
*
485510 TTTATTTTATAATAAAT
1 TTTATTTTA-AAAAAAT
485527 TT
1 TT
485529 ACTCAATTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
15 8 0.18
16 19 0.43
17 13 0.30
18 4 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTATTTTAAAAAAAT
Found at i:486083 original size:33 final size:30
Alignment explanation
Indices: 486045--486120 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 30
486035 ATAATATTAA
*
486045 AAAATTTAAAAATATTTTATATTGATATATAAT
1 AAAATTTAAAAATATTTT-TAAT-ATATA-AAT
*
486078 TAAATTTAAAAAATATTTTTAATATATAAAT
1 AAAATTT-AAAAATATTTTTAATATATAAAT
486109 AATAATTTAAAA
1 AA-AATTTAAAA
486121 TAAATCAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
31 8 0.21
32 10 0.26
33 9 0.24
34 11 0.29
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (30 bp):
AAAATTTAAAAATATTTTTAATATATAAAT
Found at i:486116 original size:32 final size:34
Alignment explanation
Indices: 486029--486120 Score: 97
Period size: 32 Copynumber: 2.9 Consensus size: 34
486019 TCTAATATTA
* *
486029 TTTAAAATAATAT-TAA-AAAATTT-AAAAATAT
1 TTTATAATGATATATAATAAAATTTAAAAAATAT
* *
486060 TTTATATTGATATATAATTAAATTTAAAAAATAT
1 TTTATAATGATATATAATAAAATTTAAAAAATAT
486094 TTT-TAAT-ATATA-AATAATAATTTAAAA
1 TTTATAATGATATATAATAA-AATTTAAAA
486121 TAAATCAAAC
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
31 14 0.27
32 17 0.33
33 9 0.18
34 11 0.22
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (34 bp):
TTTATAATGATATATAATAAAATTTAAAAAATAT
Found at i:486870 original size:16 final size:15
Alignment explanation
Indices: 486849--486887 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
486839 AATTTTATAA
486849 TTAATTTTAATATTTT
1 TTAATTTTAAT-TTTT
*
486865 TTAATTATAATTTTT
1 TTAATTTTAATTTTT
*
486880 TTGATTTT
1 TTAATTTT
486888 TATAAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTAATTTTAATTTTT
Found at i:486878 original size:22 final size:19
Alignment explanation
Indices: 486834--486871 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
486824 AAAATATATT
486834 TTTTAAATTTTATAATTAA
1 TTTTAAATTTTATAATTAA
*
486853 TTTTAATATTTTTTAATTA
1 TTTTAA-ATTTTATAATTA
486872 TAATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTAAATTTTATAATTAA
Found at i:488712 original size:26 final size:22
Alignment explanation
Indices: 488655--488714 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 22
488645 TAGATTTGTT
488655 AATATTATTTTTTTAAATTAAA
1 AATATTATTTTTTTAAATTAAA
*
488677 AATATT-TTTTTTTAATTTTACATA
1 AATATTATTTTTTTAA-ATTA-A-A
488701 AATATATATTTTTT
1 AATAT-TATTTTTT
488715 ATTAAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 9 0.28
22 9 0.28
23 1 0.03
24 6 0.19
25 1 0.03
26 6 0.19
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
AATATTATTTTTTTAAATTAAA
Found at i:493297 original size:2 final size:2
Alignment explanation
Indices: 493284--493318 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
493274 ATTTTTAGTA
* *
493284 AT AT AT AC AT AT AT CT 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 A
493319 ATAATTCTTC
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:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:497937 original size:16 final size:16
Alignment explanation
Indices: 497916--498024 Score: 57
Period size: 17 Copynumber: 6.6 Consensus size: 16
497906 CCATCGAATA
497916 TAATATATAAAATATT
1 TAATATATAAAATATT
*
497932 TAATATATGATATAA-ATA
1 TAATATAT-A-A-AATATT
*
497950 TAA-ATATTAAA-ATT
1 TAATATATAAAATATT
*
497964 TATATAATATAAATTA-T
1 TA-AT-ATATAAAATATT
*
497981 TAATATATTAAAATTTT
1 TAATATA-TAAAATATT
* *
497998 TATAAATATATAATATTT
1 TA-ATATATAAAATA-TT
498016 TAA-ATATAA
1 TAATATATAA
498025 TTATAATATA
Statistics
Matches: 71, Mismatches: 11, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
14 6 0.08
15 5 0.07
16 20 0.28
17 23 0.32
18 15 0.21
19 2 0.03
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (16 bp):
TAATATATAAAATATT
Found at i:497950 original size:34 final size:32
Alignment explanation
Indices: 497912--498066 Score: 99
Period size: 28 Copynumber: 5.1 Consensus size: 32
497902 TAATCCATCG
497912 AATATAATATATAAAATATTTAATATATGATATA
1 AATATAATATATAAAATATTTAATATA--ATATA
*
497946 AATATAA-ATATTAAA-ATTT-ATATAATATA
1 AATATAATATATAAAATATTTAATATAATATA
497975 AATTATTAATATATTAAAAT-TTT--TATAA-AT-
1 AA-TA-TAATATA-TAAAATATTTAATATAATATA
* *
498005 -ATATAATATTTTAAATA--TAATTATAATAT-
1 AATATAATATATAAAATATTTAA-TATAATATA
498034 AATA-AA-ATA-AAAA-ATTTAATATTAATAATA
1 AATATAATATATAAAATATTTAATA-TAAT-ATA
498064 AAT
1 AAT
498067 TATTAAATCA
Statistics
Matches: 99, Mismatches: 6, Indels: 36
0.70 0.04 0.26
Matches are distributed among these distances:
25 1 0.01
26 6 0.06
27 11 0.11
28 16 0.16
29 14 0.14
30 8 0.08
31 10 0.10
32 12 0.12
33 14 0.14
34 7 0.07
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.43
Consensus pattern (32 bp):
AATATAATATATAAAATATTTAATATAATATA
Found at i:497970 original size:18 final size:18
Alignment explanation
Indices: 497947--498006 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
497937 TATGATATAA
497947 ATATAAATATTAAAATTT
1 ATATAAATATTAAAATTT
497965 ATAT-AATA-T-AAA-TT
1 ATATAAATATTAAAATTT
497979 AT-TAATATATTAAAATTT
1 ATATAA-ATATTAAAATTT
*
497997 TTATAAATAT
1 ATATAAATAT
498007 ATAATATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
13 1 0.03
14 5 0.14
15 6 0.17
16 2 0.06
17 7 0.20
18 11 0.31
19 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATAAATATTAAAATTT
Found at i:497972 original size:17 final size:17
Alignment explanation
Indices: 497947--498002 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
497937 TATGATATAA
497947 ATATAAATATTAAAATTT
1 ATAT-AATATTAAAATTT
*
497965 ATATAATA-TAAATTATT
1 ATATAATATTAAAAT-TT
497982 A-AT-ATATTAAAATTT
1 ATATAATATTAAAATTT
*
497997 TTATAA
1 ATATAA
498003 ATATATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
15 5 0.16
16 14 0.45
17 8 0.26
18 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATATTAAAATTT
Found at i:497989 original size:32 final size:30
Alignment explanation
Indices: 497912--498019 Score: 107
Period size: 32 Copynumber: 3.5 Consensus size: 30
497902 TAATCCATCG
*
497912 AATATAATATATAAAATATTTAATATATGATATA
1 AATATAATATATTAAA-ATTT-ATATA--ATATA
497946 AATATAA-ATATTAAAATTTATATAATATA
1 AATATAATATATTAAAATTTATATAATATA
*
497975 AATTATTAATATATTAAAATTTTTATAA-AT-
1 AA-TA-TAATATATTAAAATTTATATAATATA
*
498005 -ATATAATATTTTAAA
1 AATATAATATATTAAA
498020 TATAATTATA
Statistics
Matches: 68, Mismatches: 3, Indels: 13
0.81 0.04 0.15
Matches are distributed among these distances:
27 11 0.16
28 2 0.03
29 8 0.12
30 2 0.03
31 10 0.15
32 21 0.31
33 7 0.10
34 7 0.10
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (30 bp):
AATATAATATATTAAAATTTATATAATATA
Found at i:498011 original size:27 final size:29
Alignment explanation
Indices: 497912--498073 Score: 101
Period size: 32 Copynumber: 5.6 Consensus size: 29
497902 TAATCCATCG
*
497912 AATATAATATATAAAATATTTAATATATGATAT
1 AATATAATATATTAAA-ATTT-ATATA--ATAT
497945 AAATATAA-ATATTAAAATTTATATAATAT
1 -AATATAATATATTAAAATTTATATAATAT
*
497974 AAATTATTAATATATTAAAATTTTTATAA-AT
1 -AA-TA-TAATATATTAAAATTTATATAATAT
* *
498005 -ATATAATAT-TTTAAATATAATTATAATAT
1 AATATAATATATTAAAAT-TTA-TATAATAT
* *
498034 AATA-AA-ATA-AAAAATTTA-ATATTAAT
1 AATATAATATATTAAAATTTATATAAT-AT
498060 AATA-AAT-TATTAAA
1 AATATAATATATTAAA
498074 TCAACCGTGA
Statistics
Matches: 107, Mismatches: 10, Indels: 29
0.73 0.07 0.20
Matches are distributed among these distances:
25 4 0.04
26 16 0.15
27 12 0.11
28 13 0.12
29 12 0.11
30 5 0.05
31 10 0.09
32 21 0.20
33 7 0.07
34 7 0.07
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.43
Consensus pattern (29 bp):
AATATAATATATTAAAATTTATATAATAT
Found at i:498274 original size:29 final size:29
Alignment explanation
Indices: 498193--498274 Score: 96
Period size: 28 Copynumber: 2.8 Consensus size: 29
498183 GATAATTTTA
498193 AATTTTTTT-AATTTAAATAATATTAAATAT
1 AATTTTTTTAAATTTAAAT--TATTAAATAT
* * *
498223 AGATTTTTTTAAGTTTACA-TATTAAATTT
1 A-ATTTTTTTAAATTTAAATTATTAAATAT
498252 AATTTTTTTAAATTTAAATTATT
1 AATTTTTTTAAATTTAAATTATT
498275 TGAATTATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
28 15 0.34
29 14 0.32
30 1 0.02
31 8 0.18
32 6 0.14
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (29 bp):
AATTTTTTTAAATTTAAATTATTAAATAT
Found at i:498280 original size:15 final size:15
Alignment explanation
Indices: 498189--498280 Score: 53
Period size: 15 Copynumber: 6.1 Consensus size: 15
498179 ATTAGATAAT
* *
498189 TTTAAATTTTTTTAA
1 TTTAAATTATTTAAA
*
498204 TTTAAATAATATTAAA
1 TTTAAATTAT-TTAAA
* * * *
498220 TATAGATTTTTTTAAG
1 TTTA-AATTATTTAAA
*
498236 TTTACA-TA-TTAAA
1 TTTAAATTATTTAAA
* *
498249 TTTAATTTTTTTAAA
1 TTTAAATTATTTAAA
*
498264 TTTAAATTATTTGAA
1 TTTAAATTATTTAAA
498279 TT
1 TT
498281 ATTATGATTT
Statistics
Matches: 54, Mismatches: 19, Indels: 8
0.67 0.23 0.10
Matches are distributed among these distances:
13 8 0.15
14 2 0.04
15 27 0.50
16 14 0.26
17 3 0.06
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (15 bp):
TTTAAATTATTTAAA
Found at i:498337 original size:16 final size:16
Alignment explanation
Indices: 498318--498348 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
498308 TTTAAATTCG
*
498318 ATTATTTTATATTTAA
1 ATTATTTTAAATTTAA
498334 ATTATTTTAAATTTA
1 ATTATTTTAAATTTA
498349 TTTTTAAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATTTTAAATTTAA
Found at i:510224 original size:18 final size:18
Alignment explanation
Indices: 510201--510290 Score: 65
Period size: 18 Copynumber: 4.8 Consensus size: 18
510191 ATTCGTAATT
*
510201 TTTTTATTAATATTTTTA
1 TTTTTATTAATATTTTAA
** *
510219 TTTTTATTTGTGACTTTAAAA
1 TTTTTATTAAT-A-TTT-TAA
* **
510240 TTTGTATTAACTATCATAA
1 TTTTTATTAA-TATTTTAA
510259 TTTTTATTAATATTTT-A
1 TTTTTATTAATATTTTAA
510276 TTTTTATTAAATATT
1 TTTTTATT-AATATT
510291 ATTTTTAAAA
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
17 9 0.17
18 19 0.35
19 12 0.22
20 4 0.07
21 9 0.17
22 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTTATTAATATTTTAA
Found at i:510280 original size:17 final size:16
Alignment explanation
Indices: 510258--510297 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
510248 AACTATCATA
*
510258 ATTTTTATTAATATTTT
1 ATTTTTATTAA-ATATT
510275 ATTTTTATTAAATATT
1 ATTTTTATTAAATATT
510291 ATTTTTA
1 ATTTTTA
510298 AAAATTACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTTTATTAAATATT
Found at i:510292 original size:16 final size:17
Alignment explanation
Indices: 510239--510297 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
510229 TGACTTTAAA
* *
510239 ATTTGTATTAACTATCATA
1 ATTTTTATTAA-TAT-ATT
*
510258 ATTTTTATTAATATTTT
1 ATTTTTATTAATATATT
510275 ATTTTTATTAA-ATATT
1 ATTTTTATTAATATATT
510291 ATTTTTA
1 ATTTTTA
510298 AAAATTACAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
16 11 0.31
17 12 0.33
18 3 0.08
19 10 0.28
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (17 bp):
ATTTTTATTAATATATT
Found at i:511328 original size:23 final size:21
Alignment explanation
Indices: 511288--511333 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
511278 CCATTCATAT
*
511288 TATATTTTTTTTATTTTTAAA
1 TATATTTTTTTTAATTTTAAA
*
511309 TATATTTTTAATTTAATTTTTAA
1 TATATTTTT--TTTAATTTTAAA
511332 TA
1 TA
511334 ATTAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
23 12 0.57
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TATATTTTTTTTAATTTTAAA
Found at i:511987 original size:44 final size:44
Alignment explanation
Indices: 511936--512019 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
511926 AAACTCAGTC
* *
511936 TTCATTTATTAGTTCCGCAAGTAATTTAATCTCATTTTGACGGT
1 TTCATTTATTAGTTCCACAAGTAACTTAATCTCATTTTGACGGT
*
511980 TTCATTTATTAGTTTCACAAGTAACTTAATCTCATTTTGA
1 TTCATTTATTAGTTCCACAAGTAACTTAATCTCATTTTGA
512020 TAATTTCATG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.46
Consensus pattern (44 bp):
TTCATTTATTAGTTCCACAAGTAACTTAATCTCATTTTGACGGT
Found at i:513835 original size:22 final size:23
Alignment explanation
Indices: 513801--513855 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
513791 ATTTTTATAT
* *
513801 TATATAATTTATATCACATAAAAA
1 TATA-AATATATATAACATAAAAA
* *
513825 T-TAAATATATATAATATAATAA
1 TATAAATATATATAACATAAAAA
513847 TATAAATAT
1 TATAAATAT
513856 TAAAAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 16 0.62
23 9 0.35
24 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (23 bp):
TATAAATATATATAACATAAAAA
Found at i:514987 original size:2 final size:2
Alignment explanation
Indices: 514980--515006 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
514970 TAACCTCTTG
514980 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
515007 AAGTTTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:517810 original size:31 final size:31
Alignment explanation
Indices: 517775--517939 Score: 99
Period size: 32 Copynumber: 5.4 Consensus size: 31
517765 ATATACGGTT
517775 ATATAAATATAAAATAAAAAATATAATTAAA
1 ATATAAATATAAAATAAAAAATATAATTAAA
* ** *
517806 ATAT-AATATAATATAAATTTATATATTTTAAA
1 ATATAAATATAAAATAAA-AAATATA-ATTAAA
* *
517838 AT-T-TATAT-AAATATAAAATAT--TTAAA
1 ATATAAATATAAAATAAAAAATATAATTAAA
* * * *
517864 ATATAATTATAATATAAAAATATATAAATATA
1 ATATAAATATAAAATAAAAA-ATATAATTAAA
* * * * *
517896 ATTTAAATAGATAATAAAATATATGAATATAAT
1 ATATAAATATAAAATAAAAAATAT-AAT-TAAA
*
517929 ATAAAAATATA
1 ATATAAATATA
517940 TGTAAAAAAA
Statistics
Matches: 97, Mismatches: 27, Indels: 18
0.68 0.19 0.13
Matches are distributed among these distances:
26 7 0.07
27 1 0.01
28 3 0.03
29 11 0.11
30 21 0.22
31 18 0.19
32 26 0.27
33 10 0.10
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (31 bp):
ATATAAATATAAAATAAAAAATATAATTAAA
Found at i:517815 original size:16 final size:16
Alignment explanation
Indices: 517794--517890 Score: 52
Period size: 16 Copynumber: 6.4 Consensus size: 16
517784 TAAAATAAAA
517794 AATATAATTAAAATAT
1 AATATAATTAAAATAT
517810 AATATAA-TATAAAT-T
1 AATATAATTA-AAATAT
* *
517825 TATATATTTTAAAAT-T
1 AATATA-ATTAAAATAT
517841 --TAT-A-T-AAATAT
1 AATATAATTAAAATAT
* *
517852 AAAATATTTAAAATAT
1 AATATAATTAAAATAT
517868 AATTATAATATAAAA-AT
1 AA-TATAAT-TAAAATAT
517885 -ATATAA
1 AATATAA
517891 ATATAATTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 23
0.68 0.08 0.25
Matches are distributed among these distances:
10 4 0.06
11 2 0.03
13 2 0.03
14 3 0.05
15 14 0.22
16 25 0.40
17 8 0.13
18 5 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATATAATTAAAATAT
Found at i:517904 original size:27 final size:27
Alignment explanation
Indices: 517845--517933 Score: 83
Period size: 31 Copynumber: 3.1 Consensus size: 27
517835 AAAATTTATA
*
517845 TAAATAT-AAAATATTTAAAATATAA-T
1 TAAATATAAAAATATAT-AAATATAATT
517871 TATAATATAAAAATATATAAATATAATT
1 TA-AATATAAAAATATATAAATATAATT
* *
517899 TAAATAGATAATAAAATATATGAATATAATA
1 TAAAT--AT-A-AAAATATATAAATATAATT
517930 TAAA
1 TAAA
517934 AATATATGTA
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
26 2 0.04
27 16 0.30
28 11 0.21
29 2 0.04
30 1 0.02
31 21 0.40
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (27 bp):
TAAATATAAAAATATATAAATATAATT
Found at i:517925 original size:39 final size:36
Alignment explanation
Indices: 517841--517926 Score: 86
Period size: 39 Copynumber: 2.3 Consensus size: 36
517831 TTTTAAAATT
* *
517841 TATATAA-ATATAAAATATTTAAAATATAATTATAA
1 TATATAATATATAAAATATTTAAAAGATAATTAAAA
*
517876 TATAAAAATATATAAATATAATTTAAATAGATAA-TAAAA
1 TAT-ATAATATATAAA-AT-ATTTAAA-AGATAATTAAAA
517915 TATATGAATATA
1 TATAT-AATATA
517927 ATATAAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
35 3 0.07
36 3 0.07
37 7 0.17
38 3 0.07
39 20 0.49
40 5 0.12
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (36 bp):
TATATAATATATAAAATATTTAAAAGATAATTAAAA
Found at i:524576 original size:2 final size:2
Alignment explanation
Indices: 524569--524597 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
524559 ACAAATTAAT
524569 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
524598 TTGTTCAAGG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:525683 original size:22 final size:21
Alignment explanation
Indices: 525658--525716 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
525648 ATTTTTAAAT
525658 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTATAAAAATA-A
525680 TAAATATTAA-TATAAAAATAA
1 TAAAT-TTAATTATAAAAATAA
* *
525701 T-ATTTTAATAATAAAA
1 TAAATTTAATTATAAAA
525717 TAAATTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 4 0.12
20 8 0.24
21 2 0.06
22 15 0.45
23 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAATTTAATTATAAAAATAA
Found at i:525710 original size:19 final size:19
Alignment explanation
Indices: 525662--525726 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
525652 TTAAATTAAA
525662 TTTAATTATAAAAATATATAAAT
1 TTTAA-TATAAAAATA-AT--AT
*
525685 ATTAATATAAAAATAATAT
1 TTTAATATAAAAATAATAT
525704 TTTAATA-ATAAAATAA-AT
1 TTTAATATA-AAAATAATAT
525722 TTTAA
1 TTTAA
525727 ATCATTCGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 8 0.21
19 15 0.38
21 2 0.05
22 10 0.26
23 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTAATATAAAAATAATAT
Found at i:527177 original size:24 final size:24
Alignment explanation
Indices: 527124--527178 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
527114 TTTCTTAATA
* **
527124 TAATTT-AAAATTATTAAATATTT
1 TAATTTAAAAATAATTAAATAAAT
* *
527147 TATTTTAAAAATAATTATATAAAT
1 TAATTTAAAAATAATTAAATAAAT
527171 TAATTTAA
1 TAATTTAA
527179 TTAAATCTCA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TAATTTAAAAATAATTAAATAAAT
Found at i:529831 original size:16 final size:16
Alignment explanation
Indices: 529788--529847 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
529778 GATTTATCCA
*
529788 TTTATATTATATTTATT
1 TTTATATT-TAATTATT
*
529805 TATTTTATTTAATTATT
1 T-TTATATTTAATTATT
*
529822 TTTATATTTAA-AATAT
1 TTTATATTTAATTAT-T
529838 TTTATATTTA
1 TTTATATTTA
529848 TAAAAATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 2 0.05
16 20 0.54
17 9 0.24
18 6 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATATTTAATTATT
Found at i:529887 original size:32 final size:33
Alignment explanation
Indices: 529833--529894 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
529823 TTATATTTAA
*
529833 AATATTTTATATTTATAAAAATTTAAACATTTT
1 AATAGTTTATATTTATAAAAATTTAAACATTTT
* *
529866 AATAGTTTATA-TTATATAAATTTTAACAT
1 AATAGTTTATATTTATAAAAATTTAAACAT
529895 ATGTATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 16 0.62
33 10 0.38
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (33 bp):
AATAGTTTATATTTATAAAAATTTAAACATTTT
Found at i:531452 original size:33 final size:33
Alignment explanation
Indices: 531403--531495 Score: 95
Period size: 33 Copynumber: 2.8 Consensus size: 33
531393 ATATTATATA
*
531403 TTAATATATCAATAATTTATGTTTATAT-AAAT
1 TTAATATATTAATAATTTATGTTTATATAAAAT
*
531435 TTTATCATATTAATAA-TT-TGTATTATATAAAAT
1 TTAAT-ATATTAATAATTTATGT-TTATATAAAAT
* *
531468 TTAATATATTTATATATATAT-TTTATAT
1 TTAATATATTAATA-ATTTATGTTTATAT
531496 TTATATTATA
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
31 3 0.06
32 20 0.40
33 24 0.48
34 2 0.04
35 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (33 bp):
TTAATATATTAATAATTTATGTTTATATAAAAT
Found at i:531464 original size:32 final size:33
Alignment explanation
Indices: 531408--531470 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
531398 ATATATTAAT
*
531408 ATATCAATAATTTATGTTTATATAAATTTTATC
1 ATATCAATAATTTATGTTTATATAAAATTTATC
*
531441 ATATTAATAA-TT-TGTATTATATAAAATTTA
1 ATATCAATAATTTATGT-TTATATAAAATTTA
531471 ATATATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 3 0.11
32 15 0.56
33 9 0.33
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (33 bp):
ATATCAATAATTTATGTTTATATAAAATTTATC
Found at i:531768 original size:14 final size:15
Alignment explanation
Indices: 531725--531776 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
531715 ATATTTAAAT
* *
531725 TTAAATTAAATTTAA
1 TTAATTTAAAATTAA
*
531740 TTTAATTAAAAAATTAA
1 -TTAATT-TAAAATTAA
531757 -TAATTTAAAATTAA
1 TTAATTTAAAATTAA
531771 TTAATT
1 TTAATT
531777 CGAATTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 8 0.27
15 10 0.33
16 5 0.17
17 7 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TTAATTTAAAATTAA
Found at i:531847 original size:16 final size:16
Alignment explanation
Indices: 531828--531862 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
531818 TAAATAATCT
531828 GAATTCGAAACAATTC
1 GAATTCGAAACAATTC
* *
531844 GAATTTGAAATAATTC
1 GAATTCGAAACAATTC
531860 GAA
1 GAA
531863 CTCAATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (16 bp):
GAATTCGAAACAATTC
Found at i:531908 original size:15 final size:16
Alignment explanation
Indices: 531869--531910 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
531859 CGAACTCAAT
* *
531869 ATAACTCAAAATTAAA
1 ATAACTTAAAATAAAA
*
531885 ATAATTTAAAATAAAA
1 ATAACTTAAAATAAAA
531901 AT-ACTTAAAA
1 ATAACTTAAAA
531911 ATTTAAAATC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAACTTAAAATAAAA
Found at i:533177 original size:16 final size:16
Alignment explanation
Indices: 533158--533194 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
533148 GATCTAATAG
*
533158 TAAAATAACTTAAATT
1 TAAAATAACTTAAAAT
533174 TAAAATAACTTAAAAT
1 TAAAATAACTTAAAAT
533190 TAAAA
1 TAAAA
533195 CTATAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAAATAACTTAAAAT
Found at i:535125 original size:14 final size:14
Alignment explanation
Indices: 535106--535155 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
535096 ATATATCTTT
535106 TAATATTTATATTA
1 TAATATTTATATTA
*
535120 TAATATTAATATT-
1 TAATATTTATATTA
* *
535133 TAATTTTTATATGA
1 TAATATTTATATTA
*
535147 TATTATTTA
1 TAATATTTA
535156 CATAATAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
13 10 0.34
14 19 0.66
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (14 bp):
TAATATTTATATTA
Found at i:536836 original size:17 final size:17
Alignment explanation
Indices: 536816--536852 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
536806 ATTTTTGTGG
*
536816 AATATGTGAATTTGTTA
1 AATATGTGAATTTATTA
*
536833 AATATTTGAATTTATTA
1 AATATGTGAATTTATTA
536850 AAT
1 AAT
536853 TAATATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.49
Consensus pattern (17 bp):
AATATGTGAATTTATTA
Found at i:537603 original size:38 final size:38
Alignment explanation
Indices: 537552--537629 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
537542 TCACTTAGGG
537552 GGCACTTAGGGGGCAGAGGGAAATTAATCATTATCTGT
1 GGCACTTAGGGGGCAGAGGGAAATTAATCATTATCTGT
537590 GGCACTTAGGGGGCAGAGGGAAATTAATCATTATCTGT
1 GGCACTTAGGGGGCAGAGGGAAATTAATCATTATCTGT
537628 GG
1 GG
537630 GCATTTTCCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (38 bp):
GGCACTTAGGGGGCAGAGGGAAATTAATCATTATCTGT
Found at i:538886 original size:15 final size:16
Alignment explanation
Indices: 538857--538892 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
538847 TGATTTGTAA
538857 TTAATTTTTTATAATT
1 TTAATTTTTTATAATT
538873 TTAATTTTTT-TAATT
1 TTAATTTTTTATAATT
*
538888 ATAAT
1 TTAAT
538893 AATATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTAATTTTTTATAATT
Found at i:538919 original size:16 final size:16
Alignment explanation
Indices: 538900--538930 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
538890 AATAATATTT
*
538900 ATTTATGATTATAATC
1 ATTTACGATTATAATC
538916 ATTTACGATTATAAT
1 ATTTACGATTATAAT
538931 TTAAATTTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (16 bp):
ATTTACGATTATAATC
Found at i:539456 original size:8 final size:8
Alignment explanation
Indices: 539439--539498 Score: 54
Period size: 8 Copynumber: 7.8 Consensus size: 8
539429 AATTTATTTC
539439 ATTA-ATT
1 ATTATATT
539446 ATTATATT
1 ATTATATT
* *
539454 ATTACAAT
1 ATTATATT
539462 ATTATTATT
1 ATTA-TATT
539471 ATTATATT
1 ATTATATT
*
539479 AATAT-TT
1 ATTATATT
539486 A-TATATT
1 ATTATATT
*
539493 TTTATA
1 ATTATA
539499 ATAAAATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
6 3 0.07
7 9 0.21
8 25 0.58
9 6 0.14
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (8 bp):
ATTATATT
Found at i:539492 original size:22 final size:21
Alignment explanation
Indices: 539444--539508 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 21
539434 ATTTCATTAA
* *
539444 TTATTA-TATTATTACAATA-
1 TTATTATTATTATAATAATAT
*
539463 TTATTATTATTATATTAATAT
1 TTATTATTATTATAATAATAT
* *
539484 TTATATATTTTTATAATAAAAT
1 TTAT-TATTATTATAATAATAT
539506 TTA
1 TTA
539509 AATAAAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
19 6 0.16
20 10 0.27
21 4 0.11
22 17 0.46
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTATTATTATTATAATAATAT
Found at i:539671 original size:12 final size:13
Alignment explanation
Indices: 539649--539687 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
539639 ATCACAAATT
*
539649 AATAATATATTAA
1 AATATTATATTAA
539662 AAT-TTATATTAA
1 AATATTATATTAA
*
539674 AATATTATTTTAA
1 AATATTATATTAA
539687 A
1 A
539688 CAATTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AATATTATATTAA
Found at i:539686 original size:13 final size:12
Alignment explanation
Indices: 539654--539687 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
539644 AAATTAATAA
539654 TATATTAAAATT
1 TATATTAAAATT
539666 TATATTAAAATAT
1 TATATTAAAAT-T
*
539679 TATTTTAAA
1 TATATTAAA
539688 CAATTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TATATTAAAATT
Done.