Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold363
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: 552799
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
File 3 of 4
Found at i:415889 original size:16 final size:15
Alignment explanation
Indices: 415866--415913 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
415856 TTATAAAATT
415866 TTTAATTAAATAAAA
1 TTTAATTAAATAAAA
415881 TTATAATT-AATAAAA
1 TT-TAATTAAATAAAA
*
415896 TTTATTTAAA-AAAA
1 TTTAATTAAATAAAA
415910 TTTA
1 TTTA
415914 TATAGTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 12 0.40
15 13 0.43
16 5 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTTAATTAAATAAAA
Found at i:415914 original size:14 final size:14
Alignment explanation
Indices: 415866--415913 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
415856 TTATAAAATT
415866 TTTAATTAAATAAAA
1 TTTAATTAAA-AAAA
*
415881 TTATAATTAATAAAA
1 TT-TAATTAAAAAAA
*
415896 TTTATTTAAAAAAA
1 TTTAATTAAAAAAA
415910 TTTA
1 TTTA
415914 TATAGTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 14 0.48
15 8 0.28
16 7 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTAATTAAAAAAA
Found at i:416509 original size:18 final size:19
Alignment explanation
Indices: 416467--416502 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
416457 TTATTTAATT
*
416467 AATAAATAATTTAATATTA
1 AATAAATAATTAAATATTA
416486 AATAAAT-ATTAAATATT
1 AATAAATAATTAAATATT
416503 TGATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATAAATAATTAAATATTA
Found at i:423166 original size:17 final size:16
Alignment explanation
Indices: 423120--423167 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
423110 AATAAAAATA
*
423120 AAAATAATTATTATTTT
1 AAAAT-ATTATTATTAT
* *
423137 AAAAAATTGTTATATAT
1 AAAATATTATTAT-TAT
423154 AAAATATTATTATT
1 AAAATATTATTATT
423168 TTATTAACGT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 8 0.32
17 17 0.68
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
AAAATATTATTATTAT
Found at i:425280 original size:2 final size:2
Alignment explanation
Indices: 425273--425298 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
425263 AAAGTCTGGA
425273 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
425299 GGTTTGACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:427699 original size:2 final size:2
Alignment explanation
Indices: 427694--427724 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
427684 ACACACACAC
427694 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
427725 AACACAGACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:427868 original size:28 final size:25
Alignment explanation
Indices: 427814--427873 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 25
427804 TTAAAAAATT
427814 TTAATAAAATAAAATAATTTTATTTA
1 TTAATAAAATAAAAT-ATTTTATTTA
427840 TTAATAAAATATAAAT-TTATATATATTA
1 TTAATAAAATA-AAATATT-T-TAT-TTA
427868 TTAATA
1 TTAATA
427874 TATCAAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
25 2 0.07
26 12 0.40
27 7 0.23
28 9 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TTAATAAAATAAAATATTTTATTTA
Found at i:427876 original size:25 final size:25
Alignment explanation
Indices: 427814--427881 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
427804 TTAAAAAATT
** *
427814 TTAATAAAATAAAATAATTTTATTTA
1 TTAATAAAATATCA-AATTTTATATA
427840 TTAATAAAATAT-AAATTTATATATA
1 TTAATAAAATATCAAATTT-TATATA
* *
427865 TTATTAATATATCAAAT
1 TTAATAAAATATCAAAT
427882 ATAAACTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 5 0.14
25 16 0.44
26 15 0.42
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (25 bp):
TTAATAAAATATCAAATTTTATATA
Found at i:430318 original size:18 final size:20
Alignment explanation
Indices: 430297--430343 Score: 71
Period size: 18 Copynumber: 2.5 Consensus size: 20
430287 TAAACACATG
430297 ATATATTTAAA-ATTTT-TT
1 ATATATTTAAATATTTTATT
430315 ATATATTTAAATATTTTATT
1 ATATATTTAAATATTTTATT
*
430335 TTATATTTA
1 ATATATTTA
430344 TATTTAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 11 0.42
19 5 0.19
20 10 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATATTTAAATATTTTATT
Found at i:430326 original size:17 final size:18
Alignment explanation
Indices: 430297--430333 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
430287 TAAACACATG
*
430297 ATATATTTAAAATTTTTT
1 ATATATTTAAAATATTTT
430315 ATATATTT-AAATATTTT
1 ATATATTTAAAATATTTT
430332 AT
1 AT
430334 TTTATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATATTTAAAATATTTT
Found at i:430385 original size:17 final size:17
Alignment explanation
Indices: 430336--430372 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
430326 TATTTTATTT
*
430336 TATATTTATAT-TTAAA
1 TATATATATATATTAAA
430352 TATATATATATATTAAA
1 TATATATATATATTAAA
430369 TATA
1 TATA
430373 AGTATTATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATATATATATATTAAA
Found at i:431460 original size:13 final size:11
Alignment explanation
Indices: 431442--431488 Score: 51
Period size: 13 Copynumber: 4.0 Consensus size: 11
431432 TTTGAATTTT
431442 TTTAATACTCATA
1 TTTAATA-T-ATA
431455 TTTAATATTTATA
1 TTTAATA--TATA
431468 TTTAATATATA
1 TTTAATATATA
431479 TTT-ATATATA
1 TTTAATATATA
431489 AATATAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
10 7 0.22
11 7 0.22
13 17 0.53
14 1 0.03
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTAATATATA
Found at i:431481 original size:17 final size:16
Alignment explanation
Indices: 431459--431494 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
431449 CTCATATTTA
*
431459 ATATTTATATTTAATAT
1 ATATTTATATATAA-AT
431476 ATATTTATATATAAAT
1 ATATTTATATATAAAT
431492 ATA
1 ATA
431495 AAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATTTATATATAAAT
Found at i:431967 original size:2 final size:2
Alignment explanation
Indices: 431960--432005 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
431950 TAAAAGTTGA
431960 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
432002 -T AT A
1 AT AT A
432006 ATTAATGGGG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:432136 original size:16 final size:15
Alignment explanation
Indices: 432117--432178 Score: 70
Period size: 16 Copynumber: 3.9 Consensus size: 15
432107 TAATATAAAA
432117 ATATAATATAATATTT
1 ATATAATATAA-ATTT
432133 ATATAATATAAATTT
1 ATATAATATAAATTT
* *
432148 AAAAATATATTAAAATTT
1 ATATA-ATA-T-AAATTT
432166 ATATAATATAAAT
1 ATATAATATAAAT
432179 ATAATTAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 11 0.28
16 15 0.38
17 4 0.10
18 9 0.23
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATAATATAAATTT
Found at i:432171 original size:33 final size:35
Alignment explanation
Indices: 432112--432178 Score: 111
Period size: 33 Copynumber: 2.0 Consensus size: 35
432102 TAAAATAATA
*
432112 TAAAAATATAATATAATATTTATATAATATAAATT
1 TAAAAATATAATATAAAATTTATATAATATAAATT
432147 TAAAAATAT-AT-TAAAATTTATATAATATAAAT
1 TAAAAATATAATATAAAATTTATATAATATAAAT
432179 ATAATTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 20 0.65
34 2 0.06
35 9 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (35 bp):
TAAAAATATAATATAAAATTTATATAATATAAATT
Found at i:432270 original size:29 final size:30
Alignment explanation
Indices: 432207--432270 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
432197 ATATATGAAT
*
432207 AATAATATTTATTTTTTATACTTATTTAATT
1 AATAATATTTATTTTTTATA-TTATTTAATA
*
432238 AATAATATTTATTTTATT-T-TTATTTAGTA
1 AATAATATTTATTTT-TTATATTATTTAATA
432267 AATA
1 AATA
432271 TAATAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 12 0.40
31 16 0.53
32 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (30 bp):
AATAATATTTATTTTTTATATTATTTAATA
Found at i:432556 original size:20 final size:20
Alignment explanation
Indices: 432513--432569 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
432503 TTTACATTTA
*
432513 AAATT-TATATTTAATATATT
1 AAATTATATATATAAT-TATT
432533 -AATTATATATATAATTATT
1 AAATTATATATATAATTATT
*
432552 AAATTA-A-ATAAAATTATT
1 AAATTATATATATAATTATT
432570 TTATTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 10 0.30
19 9 0.27
20 14 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATTATATATATAATTATT
Found at i:432696 original size:16 final size:16
Alignment explanation
Indices: 432655--432698 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
432645 TAATAACTAT
432655 TTATAAATTTA-TAAA
1 TTATAAATTTATTAAA
*
432670 TTATCAATTTATTAAA
1 TTATAAATTTATTAAA
432686 -TATAAACTTTATT
1 TTATAAA-TTTATT
432699 TTTATTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 15 0.60
16 10 0.40
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATAAATTTATTAAA
Found at i:433170 original size:2 final size:2
Alignment explanation
Indices: 433163--433192 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
433153 CCCTAAACTC
433163 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
433193 TTTCATTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:434449 original size:12 final size:12
Alignment explanation
Indices: 434432--434493 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 12
434422 GTAATTAATT
434432 ATATTATAATAA
1 ATATTATAATAA
434444 ATATTAATAATAA
1 ATATT-ATAATAA
*
434457 A-ATTATAAT-T
1 ATATTATAATAA
434467 ATAATTATAA-AA
1 AT-ATTATAATAA
*
434479 ATA--GTAATAA
1 ATATTATAATAA
434489 ATATT
1 ATATT
434494 GTATTATGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
9 3 0.08
10 6 0.15
11 6 0.15
12 17 0.43
13 8 0.20
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (12 bp):
ATATTATAATAA
Found at i:434461 original size:24 final size:24
Alignment explanation
Indices: 434434--434493 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 24
434424 AATTAATTAT
434434 ATTATAATAAATATTAATAATAAA
1 ATTATAATAAATATTAATAATAAA
*
434458 ATTATAAT---TA-TAATTATAAA
1 ATTATAATAAATATTAATAATAAA
*
434478 AATAGTAATAAATATT
1 ATTA-TAATAAATATT
434494 GTATTATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
20 12 0.41
21 6 0.21
24 10 0.34
25 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
ATTATAATAAATATTAATAATAAA
Found at i:434658 original size:19 final size:19
Alignment explanation
Indices: 434621--434659 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
434611 AATATAAAAA
* **
434621 TATTATTTTAATTTTTAAT
1 TATTATTTTAAATAATAAT
434640 TATTATTTTAAATAATAAT
1 TATTATTTTAAATAATAAT
434659 T
1 T
434660 CAATTAACTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTATTTTAAATAATAAT
Found at i:435992 original size:5 final size:5
Alignment explanation
Indices: 435979--436093 Score: 62
Period size: 5 Copynumber: 22.8 Consensus size: 5
435969 TAAAAAAAAT
*
435979 TATAA TATAT TATAA TATAAAA TATAA -ATAA -AT-A TATAA -ATAA TATTAA
1 TATAA TATAA TATAA TAT--AA TATAA TATAA TATAA TATAA TATAA TA-TAA
* * * * *
436028 TTATTAA TATAT TAAAA T-TTA TATAAA TATAA -ATAT TTTAA TATAA
1 -TA-TAA TATAA TATAA TATAA TAT-AA TATAA TATAA TATAA TATAA
*
436074 TTATAA TATAA TAAAA TATA
1 -TATAA TATAA TATAA TATA
436094 TAAATATTAC
Statistics
Matches: 85, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
3 1 0.01
4 17 0.20
5 42 0.49
6 14 0.16
7 11 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:436002 original size:17 final size:19
Alignment explanation
Indices: 435982--436100 Score: 67
Period size: 17 Copynumber: 6.3 Consensus size: 19
435972 AAAAAATTAT
435982 AATATATTAT-AATATA-A
1 AATATATTATAAATATATA
*
435999 AATATA-AATAAATATATA
1 AATATATTATAAATATATA
436017 AATAATATTAATTATTAATATATTA
1 AAT-ATATT-A-TA--AATATA-TA
436042 AA-AT-TTATATAA-ATATA
1 AATATATTATA-AATATATA
*
436059 AATATTTTAATATAAT-TAT-
1 AATATATT-ATA-AATATATA
*
436078 AATATAATA-AAATATATA
1 AATATATTATAAATATATA
436096 AATAT
1 AATAT
436101 TACGTAAAAT
Statistics
Matches: 83, Mismatches: 4, Indels: 29
0.72 0.03 0.25
Matches are distributed among these distances:
16 5 0.06
17 20 0.24
18 15 0.18
19 14 0.17
20 11 0.13
21 2 0.02
22 4 0.05
23 2 0.02
24 6 0.07
25 4 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATATATTATAAATATATA
Found at i:439953 original size:19 final size:18
Alignment explanation
Indices: 439899--439949 Score: 77
Period size: 19 Copynumber: 2.8 Consensus size: 18
439889 AAAATATATA
*
439899 ATATAAA-TTATTAATTT
1 ATATAAATTTATAAATTT
439916 ATATAAATTTATCAAATTT
1 ATATAAATTTAT-AAATTT
439935 ATATAAATTTATAAA
1 ATATAAATTTATAAA
439950 ATTTTAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 7 0.23
18 7 0.23
19 17 0.55
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATAAATTT
Found at i:439955 original size:10 final size:10
Alignment explanation
Indices: 439899--439953 Score: 66
Period size: 9 Copynumber: 6.0 Consensus size: 10
439889 AAAATATATA
439899 ATATAAA-TT
1 ATATAAATTT
439908 AT-T-AATTT
1 ATATAAATTT
439916 ATATAAATTT
1 ATATAAATTT
*
439926 AT-CAAATTT
1 ATATAAATTT
439935 ATATAAATTT
1 ATATAAATTT
439945 ATA-AAATTT
1 ATATAAATTT
439954 TAAATATACT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
7 2 0.05
8 5 0.12
9 17 0.43
10 16 0.40
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (10 bp):
ATATAAATTT
Found at i:440403 original size:11 final size:11
Alignment explanation
Indices: 440387--440421 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
440377 TATATATATT
440387 TAAATTCAAAA
1 TAAATTCAAAA
440398 TAAATTCAAAA
1 TAAATTCAAAA
440409 TAAATTCAAAA
1 TAAATTCAAAA
440420 TA
1 TA
440422 TATAATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAATTCAAAA
Found at i:441605 original size:21 final size:19
Alignment explanation
Indices: 441580--441634 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 19
441570 TTTTTATATA
441580 TTTTATATTTATAATTAAATT
1 TTTTATATTTATAA-T-AATT
441601 TTTTATATATT-TAATAATT
1 TTTTATAT-TTATAATAATT
441620 TATATTATATTTATA
1 T-T-TTATATTTATA
441635 TTTACGTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 5 0.17
20 4 0.13
21 19 0.63
22 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTATATTTATAATAATT
Found at i:441605 original size:30 final size:30
Alignment explanation
Indices: 441569--441631 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
441559 AGTTAATTCT
*
441569 TTTTTTATATATTTTAT-ATTTATAATTAAA
1 TTTTTTATATATTTAATAATTTAT-ATTAAA
*
441599 TTTTTTATATATTTAATAATTTATATTATA
1 TTTTTTATATATTTAATAATTTATATTAAA
441629 TTT
1 TTT
441632 ATATTTACGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 24 0.80
31 6 0.20
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (30 bp):
TTTTTTATATATTTAATAATTTATATTAAA
Found at i:441999 original size:2 final size:2
Alignment explanation
Indices: 441992--442031 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
441982 ACGTACATAG
* * *
441992 AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT TT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
442032 TAAGATTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:442941 original size:13 final size:14
Alignment explanation
Indices: 442901--442947 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
442891 TAATTTTATT
*
442901 AATTTATATAATTAA
1 AATTTA-ATATTTAA
442916 AATTTAATATTTAA
1 AATTTAATATTTAA
*
442930 AATTT-TTATTTATA
1 AATTTAATATTTA-A
442944 AATT
1 AATT
442948 AAATTATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 6 0.21
14 17 0.59
15 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTTAATATTTAA
Found at i:442981 original size:23 final size:23
Alignment explanation
Indices: 442938--442981 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
442928 AAAATTTTTA
* *
442938 TTTATAAATTAAATTATAATATT
1 TTTATAAAATAAAATATAATATT
442961 TTTATAAAAATAAAATA-AATA
1 TTTAT-AAAATAAAATATAATA
442982 AAATTTCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TTTATAAAATAAAATATAATATT
Found at i:444143 original size:26 final size:26
Alignment explanation
Indices: 444105--444174 Score: 63
Period size: 26 Copynumber: 2.6 Consensus size: 26
444095 GCGTGAGATG
*
444105 TATAT-TTTCAAAATATTTTAATTTTT-
1 TATATATTT-AAAATATTAT-ATTTTTA
*
444131 TATATATTTAAAAAATTATATTTTTA
1 TATATATTTAAAATATTATATTTTTA
444157 TAATTATATTTTAAAATA
1 T-A-TATA-TTTAAAATA
444175 CATTAAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
25 6 0.17
26 14 0.39
27 4 0.11
28 4 0.11
29 8 0.22
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (26 bp):
TATATATTTAAAATATTATATTTTTA
Found at i:444149 original size:16 final size:15
Alignment explanation
Indices: 444130--444172 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
444120 TTTTAATTTT
444130 TTATATATTTAAAAAA
1 TTATAT-TTTAAAAAA
* *
444146 TTATATTTT-TATAA
1 TTATATTTTAAAAAA
444160 TTATATTTTAAAA
1 TTATATTTTAAAA
444173 TACATTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
14 12 0.55
15 4 0.18
16 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATATTTTAAAAAA
Found at i:444669 original size:19 final size:19
Alignment explanation
Indices: 444614--444669 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 19
444604 ACTTGTTTTC
* *
444614 TATTTATATAAATATAGAT
1 TATTTATATAAATATATAA
444633 TA-TTA-AT--ATAT-TAA
1 TATTTATATAAATATATAA
444647 -ATTTATATAAATATATAA
1 TATTTATATAAATATATAA
444665 TATTT
1 TATTT
444670 TAAATATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
13 1 0.03
14 4 0.14
15 6 0.21
17 6 0.21
18 6 0.21
19 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TATTTATATAAATATATAA
Found at i:444990 original size:22 final size:23
Alignment explanation
Indices: 444965--445025 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
444955 ATCACATTTT
444965 ATATATTATATATTTAT-AATTC
1 ATATATTATATATTTATAAATTC
* * *
444987 ATATAATATAAATATTGATAAATTT
1 ATAT-AT-TATATATTTATAAATTC
445012 ATATATT-TATATTT
1 ATATATTATATATTT
445026 TGTAATTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
22 9 0.29
23 3 0.10
24 11 0.35
25 8 0.26
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
ATATATTATATATTTATAAATTC
Found at i:445032 original size:22 final size:22
Alignment explanation
Indices: 444962--445033 Score: 56
Period size: 24 Copynumber: 3.1 Consensus size: 22
444952 CATATCACAT
*
444962 TTTATATA-TTATATATTTATAA
1 TTTATATATTTATAT-TTTGTAA
* * * *
444984 TTCATATAATATAAATATTGATAAA
1 TTTATAT-ATTTATATTTTG-T-AA
445009 TTTATATATTTATATTTTGTAA
1 TTTATATATTTATATTTTGTAA
445031 TTT
1 TTT
445034 TTTTAACATA
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
22 11 0.30
23 4 0.11
24 14 0.38
25 8 0.22
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (22 bp):
TTTATATATTTATATTTTGTAA
Found at i:445673 original size:16 final size:17
Alignment explanation
Indices: 445646--445677 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
445636 AAGTATAATT
445646 ATAAATTTTTAAATAAA
1 ATAAATTTTTAAATAAA
445663 ATAAA-TTTTAAATAA
1 ATAAATTTTTAAATAA
445678 TAAAACATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAAATTTTTAAATAAA
Found at i:445674 original size:24 final size:25
Alignment explanation
Indices: 445625--445675 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
445615 ATATAAATAT
445625 ATTTTCAAAAAAAGTATAATTATAA
1 ATTTTCAAAAAAAGTATAATTATAA
* *
445650 ATTTTTAAATAAAA-TA-AATTTTAA
1 ATTTTCAAA-AAAAGTATAATTATAA
445674 AT
1 AT
445676 AATAAAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 9 0.39
25 10 0.43
26 4 0.17
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (25 bp):
ATTTTCAAAAAAAGTATAATTATAA
Found at i:457587 original size:2 final size:2
Alignment explanation
Indices: 457580--457606 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
457570 ATTAATAAAA
457580 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
457607 CACAAAGAAA
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:461704 original size:2 final size:2
Alignment explanation
Indices: 461697--461734 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
461687 TTTATCTATC
461697 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
461735 AGCATCTCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:464270 original size:23 final size:23
Alignment explanation
Indices: 464223--464294 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 23
464213 GTTAATTTAA
464223 AATATTATTTTTAT-ATT-AATATT
1 AATA-TATTTTTATAATTAAAT-TT
464246 AATATATTTTTATAATTAAATTT
1 AATATATTTTTATAATTAAATTT
* *
464269 AAATAAATTTTT-TATTTAATATTT
1 -AATATATTTTTATAATTAA-ATTT
464293 AA
1 AA
464295 ATTAAATTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
22 9 0.21
23 17 0.40
24 17 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AATATATTTTTATAATTAAATTT
Found at i:464278 original size:24 final size:24
Alignment explanation
Indices: 464229--464302 Score: 75
Period size: 24 Copynumber: 3.1 Consensus size: 24
464219 TTAAAATATT
*
464229 ATTTTTAT-ATT-AATATT-AATAT
1 ATTTTTATAATTAAAT-TTAAATAA
464251 ATTTTTATAATTAAATTTAAATAA
1 ATTTTTATAATTAAATTTAAATAA
*
464275 ATTTTT-TATTTAATATTTAAATTAA
1 ATTTTTATAATTAA-ATTTAAA-TAA
464300 ATT
1 ATT
464303 AATTTAATTG
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.18
23 11 0.24
24 20 0.44
25 6 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTTTATAATTAAATTTAAATAA
Found at i:464443 original size:22 final size:22
Alignment explanation
Indices: 464418--464459 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
464408 TATTTAAAAA
464418 TATTTTTAT-ATTAATATTTATT
1 TATTTTTATAATTAA-ATTTATT
464440 TATTTTTATAATTAAATTTA
1 TATTTTTATAATTAAATTTA
464460 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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATT
Found at i:465966 original size:21 final size:21
Alignment explanation
Indices: 465937--465992 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
465927 AAAAAGACAA
*
465937 TTATCTAAATATAAATTTATT
1 TTATTTAAATATAAATTTATT
*
465958 TTATTTAAAT-TATTATTTATT
1 TTATTTAAATATA-AATTTATT
*
465979 TAAATTT-AATATAA
1 T-TATTTAAATATAA
465993 TATATAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 2 0.07
21 20 0.71
22 6 0.21
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATTTAAATATAAATTTATT
Found at i:469683 original size:2 final size:2
Alignment explanation
Indices: 469676--469722 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
469666 CCTCTATACG
*
469676 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
469718 TA TA T
1 TA TA T
469723 TATTTGAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:470636 original size:25 final size:25
Alignment explanation
Indices: 470599--470647 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
470589 AAAAATAATA
*
470599 AAAATAATAAATTAAATAATTTTTTT
1 AAAATAATAAATTAAA-AAGTTTTTT
470625 AAAATAAT-AATTAAAAAGTTTTT
1 AAAATAATAAATTAAAAAGTTTTT
470648 ACATTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 7 0.32
26 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
AAAATAATAAATTAAAAAGTTTTTT
Found at i:471128 original size:38 final size:37
Alignment explanation
Indices: 471098--471167 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
471088 AAATTACGAT
*
471098 TTTAAAA-TAT-TTTTATTAAATTTAAATTAAATTAA
1 TTTAAAATTATATTTTATAAAATTTAAATTAAATTAA
*
471133 TTTAAAATTTTATTTTATAAAATTTAAATTTAAAT
1 TTTAAAATTATATTTTATAAAATTTAAA-TTAAAT
471168 AATAATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 7 0.23
36 2 0.07
37 15 0.50
38 6 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (37 bp):
TTTAAAATTATATTTTATAAAATTTAAATTAAATTAA
Found at i:471343 original size:2 final size:2
Alignment explanation
Indices: 471336--471373 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
471326 CTTTATAATG
*
471336 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
471374 GGATTCCAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:471680 original size:2 final size:2
Alignment explanation
Indices: 471627--471663 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
471617 TGGTCGTGTG
471627 TA TA TA TA 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 TA TA TA TA T
471664 TTGTATTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:471680 original size:17 final size:18
Alignment explanation
Indices: 471658--471697 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
471648 ATATATATAT
471658 ATATATTTGTA-TTAAAA
1 ATATATTTGTATTTAAAA
* *
471675 ATATATTTTTATTTATAA
1 ATATATTTGTATTTAAAA
471693 ATATA
1 ATATA
471698 AAATATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
ATATATTTGTATTTAAAA
Found at i:471703 original size:7 final size:7
Alignment explanation
Indices: 471691--471734 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
471681 TTTTATTTAT
471691 AAATATA
1 AAATATA
471698 AAATATA
1 AAATATA
471705 AAATTATA
1 AAA-TATA
471713 AATATATA
1 AA-ATATA
* *
471721 AAAAATT
1 AAATATA
471728 AAATATA
1 AAATATA
471735 TTTATATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
7 18 0.58
8 12 0.39
9 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AAATATA
Found at i:471721 original size:16 final size:15
Alignment explanation
Indices: 471694--471723 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
471684 TATTTATAAA
471694 TATAAAATATAAAAT
1 TATAAAATATAAAAT
471709 TATAAATATATAAAA
1 TATAAA-ATATAAAA
471724 AATTAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TATAAAATATAAAAT
Found at i:471911 original size:26 final size:27
Alignment explanation
Indices: 471876--471935 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 27
471866 TTAATTATTT
471876 TAAAAT-TTTAATATTAT-TT-TAAAAA
1 TAAAATATTT-ATATTATATTATAAAAA
*
471901 TAAAATATTTATTTTATATTATAAAAA
1 TAAAATATTTATATTATATTATAAAAA
471928 T-AAATATT
1 TAAAATATT
471936 AATTAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
25 12 0.39
26 12 0.39
27 7 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TAAAATATTTATATTATATTATAAAAA
Found at i:471912 original size:20 final size:19
Alignment explanation
Indices: 471869--471916 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
471859 TTAATTATTA
* **
471869 ATTATTTTAAAATTTTAAT
1 ATTATTTTAAAAATAAAAT
471888 ATTATTTTAAAAATAAAAT
1 ATTATTTTAAAAATAAAAT
471907 ATTTATTTTA
1 A-TTATTTTA
471917 TATTATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTATTTTAAAAATAAAAT
Found at i:472679 original size:20 final size:20
Alignment explanation
Indices: 472637--472677 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
472627 TTTTTATTAA
472637 TTATATAAATATAATAAAAT
1 TTATATAAATATAATAAAAT
*
472657 TTAT-TAAATATATTAAAAT
1 TTATATAAATATAATAAAAT
472676 TT
1 TT
472678 TAAATATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTATATAAATATAATAAAAT
Found at i:472720 original size:24 final size:23
Alignment explanation
Indices: 472632--472724 Score: 57
Period size: 19 Copynumber: 4.5 Consensus size: 23
472622 CGTATTTTTT
*
472632 ATTAA-TTATATAAATATA-ATA
1 ATTAATTTATTTAAATATATATA
472653 A--AATTTA-TTAAATATAT-TA
1 ATTAATTTATTTAAATATATATA
* *
472672 A--AA--T-TTTAAATATGTATT
1 ATTAATTTATTTAAATATATATA
472690 ATTAATTATATTTAAATATATA-A
1 ATTAATT-TATTTAAATATATATA
472713 ATTAAATTTATT
1 ATT-AATTTATT
472725 ATCAAAGTCA
Statistics
Matches: 56, Mismatches: 5, Indels: 20
0.69 0.06 0.25
Matches are distributed among these distances:
17 10 0.18
18 2 0.04
19 15 0.27
20 5 0.09
21 1 0.02
23 8 0.14
24 15 0.27
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (23 bp):
ATTAATTTATTTAAATATATATA
Found at i:472746 original size:26 final size:26
Alignment explanation
Indices: 472716--472769 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
472706 TATATAAATT
472716 AAATTTATTATCAAAGTCAAAGTTAA
1 AAATTTATTATCAAAGTCAAAGTTAA
*
472742 AAATTTATTATCAAAGTCGAAGTTAA
1 AAATTTATTATCAAAGTCAAAGTTAA
472768 AA
1 AA
472770 CTTTTATGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.33
Consensus pattern (26 bp):
AAATTTATTATCAAAGTCAAAGTTAA
Found at i:472923 original size:13 final size:11
Alignment explanation
Indices: 472894--472936 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
472884 TTCTATTCAC
*
472894 TATATTATTTT
1 TATATTATATT
472905 TATATT-TA-T
1 TATATTATATT
472914 TATA-TATATT
1 TATATTATATT
472924 TATATTATATT
1 TATATTATATT
472935 TA
1 TA
472937 AAATTATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
8 1 0.04
9 7 0.25
10 6 0.21
11 14 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATATTATATT
Found at i:473666 original size:12 final size:12
Alignment explanation
Indices: 473645--473685 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
473635 AATTATAAAA
473645 TATATAAATATT
1 TATATAAATATT
*
473657 TATATTAATATT
1 TATATAAATATT
*
473669 TA-ATATAT-TT
1 TATATAAATATT
473679 TATATAA
1 TATATAA
473686 TAAAATAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
10 4 0.17
11 7 0.29
12 13 0.54
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TATATAAATATT
Found at i:473669 original size:45 final size:45
Alignment explanation
Indices: 473618--473757 Score: 134
Period size: 45 Copynumber: 3.2 Consensus size: 45
473608 AAAACATAAA
473618 AATATTTAATATAATTTAATTATAAAATATATAAATATTTATATT
1 AATATTTAATATAATTTAATTATAAAATATATAAATATTTATATT
* * * **
473663 AATATTTAATATATTTTATATAATAAAATAAAT-TTTAATTTA-ATT
1 AATATTTAATATAATTTA-ATTATAAAATATATAAAT-ATTTATATT
* *
473708 AATA--AAATTTAATTTAATT-TAAAAT-TAATAAATATTTAT-TT
1 AATATTTAATATAATTTAATTATAAAATAT-ATAAATATTTATATT
473749 AA-ATTTAAT
1 AATATTTAAT
473758 CTCATTCCAC
Statistics
Matches: 75, Mismatches: 13, Indels: 17
0.71 0.12 0.16
Matches are distributed among these distances:
40 1 0.01
41 17 0.23
42 6 0.08
43 9 0.12
45 25 0.33
46 17 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (45 bp):
AATATTTAATATAATTTAATTATAAAATATATAAATATTTATATT
Found at i:473704 original size:24 final size:24
Alignment explanation
Indices: 473683--473757 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 24
473673 ATATTTTATA
473683 TAATAAAA-TAAATTTTAATTTAAT
1 TAATAAAATTAAA-TTTAATTTAAT
*
473707 TAATAAAATTTAATTTAATTTAAAAT
1 TAATAAAATTAAATTTAATTT--AAT
*
473733 TAATAAATATT-TATTTAAATTTAAT
1 TAATAAA-ATTAAATTT-AATTTAAT
473758 CTCATTCCAC
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
24 16 0.36
25 6 0.14
26 14 0.32
27 8 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TAATAAAATTAAATTTAATTTAAT
Found at i:473711 original size:19 final size:19
Alignment explanation
Indices: 473689--473726 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
473679 TATATAATAA
*
473689 AATAAATTTTAATTTAATT
1 AATAAAATTTAATTTAATT
473708 AATAAAATTTAATTTAATT
1 AATAAAATTTAATTTAATT
473727 TAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATAAAATTTAATTTAATT
Found at i:474078 original size:21 final size:18
Alignment explanation
Indices: 474041--474101 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 18
474031 ATTAAATAAA
*
474041 AATTAAATATA-TTAATT
1 AATTAAAAATATTTAATT
474058 AATTAAATCAATTATTTAATT
1 AATTAAA--AA-TATTTAATT
474079 -A-TAAAAATATTTAAATT
1 AATTAAAAATATTT-AATT
474096 AATTAA
1 AATTAA
474102 TCTGTATCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
16 5 0.14
17 13 0.36
18 1 0.03
19 8 0.22
20 3 0.08
21 6 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTAAAAATATTTAATT
Found at i:475556 original size:2 final size:2
Alignment explanation
Indices: 475549--475594 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
475539 ACAGACAAAC
475549 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
475591 AG AG
1 AG AG
475595 TTGTTCCATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:476954 original size:2 final size:2
Alignment explanation
Indices: 476947--476986 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
476937 AAGGTCACTG
476947 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
476987 TTACTGCCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:477660 original size:2 final size:2
Alignment explanation
Indices: 477655--477689 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
477645 ATATTGACTG
477655 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 A
477690 CACACACATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:488867 original size:18 final size:19
Alignment explanation
Indices: 488840--488875 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
488830 TATTAAATAT
488840 AAAAATTTAGAAAAACATG
1 AAAAATTTAGAAAAACATG
*
488859 AAAAA-TTAGAACAACAT
1 AAAAATTTAGAAAAACAT
488876 TGTTAAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.19
Consensus pattern (19 bp):
AAAAATTTAGAAAAACATG
Found at i:494478 original size:2 final size:2
Alignment explanation
Indices: 494471--494509 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
494461 AAATTACGTA
494471 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
494510 TAAGTTAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:500075 original size:25 final size:26
Alignment explanation
Indices: 500047--500097 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
500037 TTTTCAGTTA
500047 ATTTTATTTTATAA-T-ATTAAAAAAT
1 ATTTTATTTTA-AATTAATTAAAAAAT
500072 ATTTTATTTTAAATTAATTAAAAAAT
1 ATTTTATTTTAAATTAATTAAAAAAT
500098 TAAAATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 2 0.08
25 12 0.50
26 10 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
ATTTTATTTTAAATTAATTAAAAAAT
Found at i:500821 original size:17 final size:16
Alignment explanation
Indices: 500799--500841 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
500789 ATTTACACTT
*
500799 AAATAAATTTTTATTTA
1 AAATAAAATTTTA-TTA
500816 AAATAAAATTTTATTA
1 AAATAAAATTTTATTA
500832 AAATACAAAT
1 AAATA-AAAT
500842 CAAATGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATAAAATTTTATTA
Found at i:501126 original size:14 final size:14
Alignment explanation
Indices: 501107--501155 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 14
501097 GACGAATCAG
501107 ATAAGATCACAAAC
1 ATAAGATCACAAAC
*
501121 ATAAGAATTATCGAAAC
1 ATAAG-ATCA-C-AAAC
501138 ATAAAGATCACAAAC
1 AT-AAGATCACAAAC
501153 ATA
1 ATA
501156 TGGTGCTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 6 0.21
15 9 0.31
16 2 0.07
17 9 0.31
18 3 0.10
ACGTcount: A:0.57, C:0.16, G:0.08, T:0.18
Consensus pattern (14 bp):
ATAAGATCACAAAC
Found at i:502700 original size:22 final size:22
Alignment explanation
Indices: 502649--502723 Score: 57
Period size: 22 Copynumber: 3.4 Consensus size: 22
502639 GATTCAAATC
502649 ATTAT-TTATTAATTAAATTAAT
1 ATTATATT-TTAATTAAATTAAT
* *
502671 ATTTTATTTTAATTTAATTAA-
1 ATTATATTTTAATTAAATTAAT
* *
502692 A-TATATATTAAATTAAAATTTAT
1 ATTATAT-TTTAATT-AAATTAAT
*
502715 ATTTTATTT
1 ATTATATTT
502724 ATTTTATTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
20 4 0.10
21 7 0.17
22 21 0.51
23 5 0.12
24 4 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTATATTTTAATTAAATTAAT
Found at i:506955 original size:49 final size:50
Alignment explanation
Indices: 506881--506976 Score: 131
Period size: 49 Copynumber: 1.9 Consensus size: 50
506871 TTAGATATAA
*
506881 ATTTTATTATTTAAATATTTTATTATATGAATAAATTAAGA-TGAAAAGG
1 ATTTTATTATTTAAATATTTAATTATATGAATAAATTAAGATTGAAAAGG
* * * * *
506930 ATTTTGTTATTTGAATATTTAATTATATTAATGAATTGAGATTGAAA
1 ATTTTATTATTTAAATATTTAATTATATGAATAAATTAAGATTGAAA
506977 TATTTTAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 35 0.88
50 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (50 bp):
ATTTTATTATTTAAATATTTAATTATATGAATAAATTAAGATTGAAAAGG
Found at i:507167 original size:13 final size:13
Alignment explanation
Indices: 507151--507197 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
507141 TATAAAAAAT
507151 AAAATTAAATATA
1 AAAATTAAATATA
*
507164 AAAATT-AAT-TT
1 AAAATTAAATATA
507175 AAAATTAAATATA
1 AAAATTAAATATA
507188 AAAATTAAAT
1 AAAATTAAAT
507198 TTATTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 7 0.23
12 6 0.20
13 17 0.57
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAAATTAAATATA
Found at i:507182 original size:24 final size:25
Alignment explanation
Indices: 507150--507200 Score: 95
Period size: 24 Copynumber: 2.1 Consensus size: 25
507140 TTATAAAAAA
507150 TAAAATTAAATATAAAAATT-AATT
1 TAAAATTAAATATAAAAATTAAATT
507174 TAAAATTAAATATAAAAATTAAATT
1 TAAAATTAAATATAAAAATTAAATT
507199 TA
1 TA
507201 TTTAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAAATTAAATATAAAAATTAAATT
Found at i:507184 original size:29 final size:29
Alignment explanation
Indices: 507146--507211 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
507136 AGATTTATAA
*
507146 AAAATAAAAT-TAAATATAAAAATTAATTT
1 AAAATAAAATATAAAAAT-AAAATTAATTT
* * *
507175 AAAATTAAATATAAAAATTAAATTTATTT
1 AAAATAAAATATAAAAATAAAATTAATTT
507204 AAAATAAA
1 AAAATAAA
507212 CAAATATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
AAAATAAAATATAAAAATAAAATTAATTT
Found at i:507621 original size:6 final size:6
Alignment explanation
Indices: 507613--507645 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
507603 ACCTTTTATA
*
507613 ATAATA ATAATT ATAATT ATAATT ATAATT ATA
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATA
507646 TATAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
ATAATT
Found at i:508021 original size:21 final size:20
Alignment explanation
Indices: 507997--508040 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
507987 ATTATATAAA
507997 ATTTAAA-TATATTTATTTTAT
1 ATTTAAATTAT-TTTA-TTTAT
*
508018 ATTTTAATTATTTTATTTAT
1 ATTTAAATTATTTTATTTAT
508038 ATT
1 ATT
508041 ATATTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 10 0.48
22 3 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTAAATTATTTTATTTAT
Found at i:508036 original size:20 final size:22
Alignment explanation
Indices: 507998--508040 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
507988 TTATATAAAA
507998 TTTAAATATATTTATTTTATAT
1 TTTAAATATATTTATTTTATAT
*
508020 TTTAATTAT-TTTA-TTTATAT
1 TTTAAATATATTTATTTTATAT
508040 T
1 T
508041 ATATTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 4 0.20
22 8 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTAAATATATTTATTTTATAT
Found at i:508037 original size:25 final size:23
Alignment explanation
Indices: 508006--508083 Score: 72
Period size: 25 Copynumber: 3.3 Consensus size: 23
507996 AATTTAAATA
508006 TATTTATTTTATATTTTAATTATTT
1 TATTTA-TTTATATTTTAA-TATTT
* *
508031 TATTTATATTATATTTATAAAATTA
1 TATTTAT-TTATATTT-TAATATTT
508056 TATTTA-TTAT-TTTTAAATATTT
1 TATTTATTTATATTTT-AATATTT
508078 T-TTTAT
1 TATTTAT
508084 GATTTGCTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
21 5 0.11
22 9 0.20
23 4 0.09
24 1 0.02
25 23 0.51
26 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TATTTATTTATATTTTAATATTT
Found at i:508048 original size:20 final size:21
Alignment explanation
Indices: 508008--508048 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
507998 TTTAAATATA
*
508008 TTTATTTTATATTTTAATTAT
1 TTTATTTTATATTATAATTAT
*
508029 TTTA-TTTATATTATATTTAT
1 TTTATTTTATATTATAATTAT
508049 AAAATTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTATTTTATATTATAATTAT
Found at i:508108 original size:2 final size:2
Alignment explanation
Indices: 508101--508136 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
508091 TACAATCAAC
*
508101 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
508137 TCTCCTTTAA
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:508249 original size:25 final size:22
Alignment explanation
Indices: 508219--508272 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
508209 AAAATATATA
508219 TTTATAAAATTATATTATTATTT
1 TTTATAAAATTAT-TTATTATTT
* * *
508242 TTAATATATTTATTTATTATTT
1 TTTATAAAATTATTTATTATTT
508264 TTTATAAAA
1 TTTATAAAA
508273 CAATTCATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTATAAAATTATTTATTATTT
Found at i:508428 original size:19 final size:19
Alignment explanation
Indices: 508401--508439 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
508391 AAAAATTGAA
508401 TTATAAAATAAATAATATAT
1 TTATAAAATAAATAAT-TAT
*
508421 TTAT-AAATAATTAATTAT
1 TTATAAAATAAATAATTAT
508439 T
1 T
508440 CACTTATTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTATAAAATAAATAATTAT
Found at i:508828 original size:25 final size:24
Alignment explanation
Indices: 508789--508878 Score: 62
Period size: 24 Copynumber: 3.7 Consensus size: 24
508779 GTCGAATTTA
*
508789 AATTATAAATTTTATTATTTAAATT
1 AATT-TAAATATTATTATTTAAATT
508814 AATTTAAATCATTATT-TATT-AATT
1 AATTTAAAT-ATTATTAT-TTAAATT
** *
508838 AAAAT-AATATTTTTATTTAAATTT
1 AATTTAAATATTATTATTTAAA-TT
508862 AATTATAAA-ATATATTA
1 AATT-TAAATAT-TATTA
508879 ATATTAATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
22 7 0.14
23 6 0.12
24 17 0.34
25 14 0.28
26 6 0.12
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (24 bp):
AATTTAAATATTATTATTTAAATT
Found at i:508836 original size:20 final size:19
Alignment explanation
Indices: 508811--508859 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
508801 TATTATTTAA
*
508811 ATTAATTTAAATCATTATTT
1 ATTAATTTAAAT-AATATTT
*
508831 ATTAATTAAAATAATATTT
1 ATTAATTTAAATAATATTT
508850 -TT-ATTTAAAT
1 ATTAATTTAAAT
508860 TTAATTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 7 0.27
18 2 0.08
19 6 0.23
20 11 0.42
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTAATTTAAATAATATTT
Found at i:508885 original size:28 final size:28
Alignment explanation
Indices: 508832--508885 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
508822 TCATTATTTA
* *
508832 TTAATTAAAATAATATTTTTATTTAAAT
1 TTAATTAAAATAATATATTAATTTAAAT
*
508860 TTAATTATAA-AATATATTAATATTAA
1 TTAATTAAAATAATATATTAAT-TTAA
508886 TATAAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
TTAATTAAAATAATATATTAATTTAAAT
Found at i:509451 original size:31 final size:31
Alignment explanation
Indices: 509388--509479 Score: 91
Period size: 32 Copynumber: 2.9 Consensus size: 31
509378 CAATAAATTA
*
509388 ATTTAATTTA--AATTAATAAAATTATAACTATT
1 ATTTAATTTATTATTTAA-AAAATTA-AA-TATT
509420 ATTTAATTTATTATTTAAAAAATTAAATATT
1 ATTTAATTTATTATTTAAAAAATTAAATATT
* *
509451 A-TAAATTATATTTTTTAAAAAAATTAAAT
1 ATTTAATT-TATTATTT-AAAAAATTAAAT
509480 TAAATCAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
30 5 0.09
31 12 0.23
32 24 0.45
33 7 0.13
34 5 0.09
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (31 bp):
ATTTAATTTATTATTTAAAAAATTAAATATT
Found at i:509477 original size:32 final size:32
Alignment explanation
Indices: 509400--509479 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
509390 TTAATTTAAA
* *
509400 TTAATAAAATTATAACTATTATTTAATTTATTAT
1 TTAAAAAAATTA-AA-TATTATTAAATTTATTAT
*
509434 TT-AAAAAATTAAATATTA-TAAATTATATTTT
1 TTAAAAAAATTAAATATTATTAAATT-TATTAT
509465 TTAAAAAAATTAAAT
1 TTAAAAAAATTAAAT
509480 TAAATCAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 5 0.12
31 12 0.29
32 14 0.34
33 8 0.20
34 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (32 bp):
TTAAAAAAATTAAATATTATTAAATTTATTAT
Found at i:509495 original size:33 final size:31
Alignment explanation
Indices: 509428--509498 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 31
509418 TTATTTAATT
* *
509428 TATTATTTAAAAAATTAAATATTATAAATTA
1 TATTATTTAAAAAATTAAATATAATAAATCA
*
509459 TATTTTTTAAAAAAATTAAAT-TAAATCAAATCA
1 TATTATTT-AAAAAATTAAATAT-AAT-AAATCA
509492 TATTATT
1 TATTATT
509499 AGCATAAGCG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 8 0.24
32 14 0.42
33 11 0.33
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (31 bp):
TATTATTTAAAAAATTAAATATAATAAATCA
Found at i:510130 original size:17 final size:17
Alignment explanation
Indices: 510104--510137 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
510094 TTAAATATGA
510104 GTATTAAATATGAATAT
1 GTATTAAATATGAATAT
*
510121 GTATTTAATATGAATAT
1 GTATTAAATATGAATAT
510138 ATTTTGATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (17 bp):
GTATTAAATATGAATAT
Found at i:510191 original size:17 final size:18
Alignment explanation
Indices: 510171--510204 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
510161 ATATATGTTG
510171 AATATAAAT-ATTTAAAA
1 AATATAAATAATTTAAAA
510188 AATATAAATAATTTAAA
1 AATATAAATAATTTAAA
510205 GCTTAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AATATAAATAATTTAAAA
Found at i:512471 original size:16 final size:17
Alignment explanation
Indices: 512447--512479 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
512437 TGGATTTGAG
512447 CATAAATCT-TTTAATT
1 CATAAATCTATTTAATT
*
512463 CATATATCTATTTAATT
1 CATAAATCTATTTAATT
512480 TGAATTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (17 bp):
CATAAATCTATTTAATT
Found at i:512545 original size:31 final size:29
Alignment explanation
Indices: 512487--512547 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 29
512477 ATTTGAATTA
*
512487 TTAATTTAATAAAAATATTTTATTTAAAT
1 TTAATTTAATAAAAATATTATATTTAAAT
*
512516 TTAATTATAAGTAAAAATATTAATATTAAAAT
1 TTAATT-TAA-TAAAAATATT-ATATTTAAAT
512548 CCTTTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 6 0.22
30 3 0.11
31 10 0.37
32 8 0.30
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
TTAATTTAATAAAAATATTATATTTAAAT
Found at i:512968 original size:24 final size:26
Alignment explanation
Indices: 512940--513004 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 26
512930 TTAAAATATT
512940 TTTATAATTAAATT-TAT-ATAAAAA
1 TTTATAATTAAATTATATAATAAAAA
* ** *
512964 TTTATTATTTTATTATATAAATAATAA
1 TTTATAATTAAATTATAT-AATAAAAA
512991 TTTA-AATTAAATTA
1 TTTATAATTAAATTA
513005 ACTTTCAAAC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
24 11 0.35
25 3 0.10
26 7 0.23
27 10 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TTTATAATTAAATTATATAATAAAAA
Found at i:517001 original size:2 final size:2
Alignment explanation
Indices: 516994--517025 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
516984 TTCAAATGCG
516994 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
517026 TATATATCTA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:518813 original size:2 final size:2
Alignment explanation
Indices: 518806--518835 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
518796 AAAACTAATA
518806 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
518836 TTGCAAAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:520238 original size:21 final size:20
Alignment explanation
Indices: 520214--520253 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
520204 ATATATATAT
520214 ATATATATATATTTTATAAAA
1 ATATATATA-ATTTTATAAAA
* *
520235 ATATATTTAATTTTTTAAA
1 ATATATATAATTTTATAAA
520254 TTTTTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATATAATTTTATAAAA
Found at i:520325 original size:17 final size:16
Alignment explanation
Indices: 520294--520329 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
520284 CTTATGTATT
*
520294 TATATTTATATATAAA
1 TATATTTAAATATAAA
520310 TATATGTTAAATATAAA
1 TATAT-TTAAATATAAA
520327 TAT
1 TAT
520330 TAAATATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TATATTTAAATATAAA
Found at i:526144 original size:32 final size:29
Alignment explanation
Indices: 526088--526150 Score: 81
Period size: 32 Copynumber: 2.1 Consensus size: 29
526078 TCATAATATG
526088 TTTAATATATATTTTATTTATATTTAAAT
1 TTTAATATATATTTTATTTATATTTAAAT
* *
526117 TTTAATATAATTTTTATAATTTATATTTATAT
1 TTTAATAT-ATATTT-T-ATTTATATTTAAAT
526149 TT
1 TT
526151 ACATTATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 8 0.28
30 5 0.17
31 1 0.03
32 15 0.52
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (29 bp):
TTTAATATATATTTTATTTATATTTAAAT
Found at i:526589 original size:27 final size:28
Alignment explanation
Indices: 526557--526620 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
526547 TTTAAATTAA
*
526557 ATTAAATTAAAATTATTAAA-AT-ATTT
1 ATTAAATTAAAATTATAAAATATAATTT
*
526583 ATTTAAATT-TAATTATAAAATATAATTT
1 A-TTAAATTAAAATTATAAAATATAATTT
526611 ATTAAATTAA
1 ATTAAATTAA
526621 GTAAAATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
26 10 0.32
27 16 0.52
28 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTAAATTAAAATTATAAAATATAATTT
Found at i:528294 original size:16 final size:16
Alignment explanation
Indices: 528275--528320 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
528265 TTATGAATAT
528275 ATATAATTAATATTTA
1 ATATAATTAATATTTA
*
528291 ATATAATTAAT-TATA
1 ATATAATTAATATTTA
* *
528306 ATAAAATTAAAATTT
1 ATATAATTAATATTT
528321 TTATAAATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATAATTAATATTTA
Found at i:528985 original size:29 final size:27
Alignment explanation
Indices: 528935--528996 Score: 81
Period size: 30 Copynumber: 2.2 Consensus size: 27
528925 TGAGTATTAT
*
528935 TTTTATTATATTAGTTAATTT-AAATA
1 TTTTATTATATTAATTAATTTAAAATA
528961 TTTTATTATATTATAATTATATTTAAAATA
1 TTTTATTATA-T-TAATTA-ATTTAAAATA
528991 TTTTAT
1 TTTTAT
528997 ATTTTTATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 10 0.32
27 1 0.03
28 5 0.16
29 4 0.13
30 11 0.35
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTTATTATATTAATTAATTTAAAATA
Found at i:529016 original size:18 final size:19
Alignment explanation
Indices: 528968--529024 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 19
528958 ATATTTTATT
*
528968 ATATTATAATTATATTTA-AA
1 ATATT-TAA-TATTTTTATAA
*
528988 ATATTTTATATTTTTATAA
1 ATATTTAATATTTTTATAA
*
529007 ATA-TTAATATTTTAATAA
1 ATATTTAATATTTTTATAA
529025 TTTATATGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 20 0.62
19 7 0.22
20 5 0.16
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTTAATATTTTTATAA
Found at i:529028 original size:25 final size:25
Alignment explanation
Indices: 528987--529057 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
528977 TTATATTTAA
*
528987 AATATTTT-AT-ATTTTTATAAATATT
1 AATATTTTAATAATTTATAT-AATA-T
*
529012 AATATTTTAATAATTTATATGATAT
1 AATATTTTAATAATTTATATAATAT
*
529037 -ATATTTTAAAAAATTTATATA
1 AATATTTT-AATAATTTATATA
529058 TTTATATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 7 0.18
25 20 0.51
26 5 0.13
27 7 0.18
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (25 bp):
AATATTTTAATAATTTATATAATAT
Found at i:529045 original size:24 final size:24
Alignment explanation
Indices: 529013--529064 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
529003 ATAAATATTA
*
529013 ATATTTT-AATAATTTATATGATAT
1 ATATTTTAAAAAATTTATAT-ATAT
*
529037 ATATTTTAAAAAATTTATATATTT
1 ATATTTTAAAAAATTTATATATAT
529061 ATAT
1 ATAT
529065 ATTACTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATATTTTAAAAAATTTATATATAT
Found at i:529061 original size:33 final size:32
Alignment explanation
Indices: 529024--529135 Score: 84
Period size: 33 Copynumber: 3.3 Consensus size: 32
529014 TATTTTAATA
529024 ATTTATATGATATATATTTTAAAAAATTTATAT
1 ATTTATAT-ATATATATTTTAAAAAATTTATAT
* ** *
529057 ATTTATATATTACTATTTTTTAATTATTTTAATTAT
1 ATTTATATA-TA-TATATTTTAAAAAATTT-A-TAT
* *
529093 ATTTATATA-AT-TATATTTAAAATAATTAAATTT
1 ATTTATATATATATAT-TTTAAAA-AATT-TATAT
529126 ATTTATATAT
1 ATTTATATAT
529136 TTATGAGTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
32 3 0.05
33 27 0.44
34 18 0.30
35 1 0.02
36 12 0.20
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (32 bp):
ATTTATATATATATATTTTAAAAAATTTATAT
Found at i:529117 original size:15 final size:15
Alignment explanation
Indices: 529086--529126 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
529076 TTAATTATTT
*
529086 TAATTATATTT-ATA
1 TAATTATATTTAAAA
529100 TAATTATATTTAAAA
1 TAATTATATTTAAAA
*
529115 TAATTAAATTTA
1 TAATTATATTTA
529127 TTTATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATTATATTTAAAA
Found at i:531913 original size:12 final size:12
Alignment explanation
Indices: 531896--531970 Score: 51
Period size: 12 Copynumber: 6.0 Consensus size: 12
531886 ATAAATTTAA
*
531896 AATTTTAATTTT
1 AATTTTAAATTT
531908 AATTTTAAATTT
1 AATTTTAAATTT
**
531920 AATTCAAAATTT
1 AATTTTAAATTT
***
531932 AAAAATAAATTAAGT
1 AATTTTAAATT---T
* *
531947 AAATTTAAATTA
1 AATTTTAAATTT
531959 AATTTTAAATTT
1 AATTTTAAATTT
531971 TGAGTCAAAC
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
12 38 0.79
15 10 0.21
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (12 bp):
AATTTTAAATTT
Found at i:535687 original size:11 final size:11
Alignment explanation
Indices: 535641--535685 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 11
535631 ATTAAATTTA
535641 ATAATATTAAAT
1 ATAATA-TAAAT
535653 ATAATATAAAT
1 ATAATATAAAT
*
535664 ATACTATAAAAT
1 ATAATAT-AAAT
535676 ATAAATATAA
1 AT-AATATAA
535686 TACTATGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 11 0.38
12 14 0.48
13 4 0.14
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:535699 original size:24 final size:22
Alignment explanation
Indices: 535647--535703 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
535637 TTTAATAATA
535647 TTAAATAT-AATATAAATATAC
1 TTAAATATAAATATAAATATAC
*
535668 TATAAAATATAAATATAATACTATGC
1 T-T-AAATATAAATATAA-A-TATAC
535694 TTAAATATAA
1 TTAAATATAA
535704 TGTCTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 1 0.03
22 1 0.03
23 6 0.20
24 15 0.50
25 2 0.07
26 5 0.17
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (22 bp):
TTAAATATAAATATAAATATAC
Found at i:536139 original size:21 final size:21
Alignment explanation
Indices: 536100--536139 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
536090 TCATATATTT
*
536100 ATATCATATTTATTATTTTTA
1 ATATCATATATATTATTTTTA
536121 ATATCATATAATATT-TTTT
1 ATATCATAT-ATATTATTTT
536140 ATTGTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATCATATATATTATTTTTA
Found at i:536859 original size:21 final size:22
Alignment explanation
Indices: 536834--536889 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
536824 AAATACAGAC
536834 TTAAATTC-AAATTAAAA-AAA
1 TTAAATTCTAAATTAAAAGAAA
* *
536854 TTTAAATACTAATTTAAAAGAAA
1 -TTAAATTCTAAATTAAAAGAAA
536877 TTAAATTCGTAAA
1 TTAAATTC-TAAA
536890 CTATTCAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 7 0.25
22 15 0.54
23 6 0.21
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (22 bp):
TTAAATTCTAAATTAAAAGAAA
Found at i:538381 original size:17 final size:17
Alignment explanation
Indices: 538333--538382 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 17
538323 GTAAATCTAA
538333 TAAAATTTATATAATA-
1 TAAAATTTATATAATAT
*
538349 TAAATTATTA-AT-ATAT
1 TAAAAT-TTATATAATAT
538365 TAAAATTTATATAATAT
1 TAAAATTTATATAATAT
538382 T
1 T
538383 TTAAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 6 0.21
16 14 0.50
17 8 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAAATTTATATAATAT
Found at i:538397 original size:20 final size:20
Alignment explanation
Indices: 538351--538411 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
538341 ATATAATATA
*
538351 AATTATTAATATATTAAAATT
1 AATTA-TAATATATTAAAAAT
* *
538372 TA-TATAATATTTTAAAAAT
1 AATTATAATATATTAAAAAT
*
538391 AATTATAATACATTAAAAAT
1 AATTATAATATATTAAAAAT
538411 A
1 A
538412 TATGAAAAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
19 14 0.42
20 18 0.55
21 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AATTATAATATATTAAAAAT
Found at i:549375 original size:28 final size:30
Alignment explanation
Indices: 549344--549399 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
549334 GTGTTTGATT
*
549344 TAATTTTTTATTTATA-AAT-TAAAAATTA
1 TAATTATTTATTTATATAATATAAAAATTA
*
549372 TAATTATTTATTTTTATAATATAAAAAT
1 TAATTATTTATTTATATAATATAAAAAT
549400 AAGTATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 14 0.58
29 3 0.12
30 7 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
TAATTATTTATTTATATAATATAAAAATTA
Found at i:549548 original size:17 final size:18
Alignment explanation
Indices: 549516--549552 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
549506 TTAAAAAAAG
549516 TTAAAAATAAATATATTA
1 TTAAAAATAAATATATTA
549534 TTAAAAATTAAATAT-TTA
1 TTAAAAA-TAAATATATTA
549552 T
1 T
549553 GTTTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAAAAATAAATATATTA
Found at i:549852 original size:20 final size:22
Alignment explanation
Indices: 549808--549857 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
549798 ATTAGTGATA
*
549808 TTTTAAATATTATAAAAATA-T
1 TTTTAAATACTATAAAAATATT
*
549829 TTTTAAATACTA-AAATATATT
1 TTTTAAATACTATAAAAATATT
549850 TTTTAAAT
1 TTTTAAAT
549858 TTGATATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTTAAATACTATAAAAATATT
Done.