Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2301
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: 132231
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
File 1 of 2
Found at i:447 original size:22 final size:22
Alignment explanation
Indices: 412--508 Score: 101
Period size: 23 Copynumber: 4.3 Consensus size: 22
402 TGAATAAAAA
*
412 ATTATATTTTTATTATTTTTAAT
1 ATTATATTTTAATTATTTTT-AT
435 ATTATATTTT-ATTATATTTTA-
1 ATTATATTTTAATTAT-TTTTAT
456 ATTAT-TTTTAAATTATTTTTAT
1 ATTATATTTT-AATTATTTTTAT
*
478 GTTATATTTTAATTTATTTTATAT
1 ATTATATTTTAA-TTATTTT-TAT
*
502 TTTATAT
1 ATTATAT
509 AATTTATCAA
Statistics
Matches: 65, Mismatches: 2, Indels: 13
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.06
21 10 0.15
22 17 0.26
23 25 0.38
24 9 0.14
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (22 bp):
ATTATATTTTAATTATTTTTAT
Found at i:469 original size:11 final size:12
Alignment explanation
Indices: 410--498 Score: 79
Period size: 11 Copynumber: 8.1 Consensus size: 12
400 TATGAATAAA
410 AAATTATATTTT
1 AAATTATATTTT
*
422 -TATTAT-TTTT
1 AAATTATATTTT
432 AATATTATATTTT
1 AA-ATTATATTTT
445 --ATTATATTTT
1 AAATTATATTTT
455 -AATTAT-TTTT
1 AAATTATATTTT
465 AAATTAT-TTTT
1 AAATTATATTTT
**
476 ATGTTATATTTT
1 AAATTATATTTT
488 -AATT-TATTTT
1 AAATTATATTTT
498 A
1 A
499 TATTTTATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
10 24 0.38
11 27 0.42
12 9 0.14
13 4 0.06
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (12 bp):
AAATTATATTTT
Found at i:493 original size:17 final size:17
Alignment explanation
Indices: 473--505 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
463 TTAAATTATT
473 TTTATGTTATATTTTAA
1 TTTATGTTATATTTTAA
*
490 TTTATTTTATATTTTA
1 TTTATGTTATATTTTA
506 TATAATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTATGTTATATTTTAA
Found at i:497 original size:43 final size:42
Alignment explanation
Indices: 416--498 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 42
406 TAAAAAATTA
*
416 TATTTTTATTATTTTTAATATTATATTTTATTATATTTTAAT
1 TATTTTTATTATTTTTAATATTATATTTTAATATATTTTAAT
* *
458 TATTTTTAAATTATTTTT-ATGTTATATTTTAATTTATTTTA
1 TATTTTT--ATTATTTTTAATATTATATTTTAATATATTTTA
499 TATTTTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 7 0.19
43 20 0.56
44 9 0.25
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (42 bp):
TATTTTTATTATTTTTAATATTATATTTTAATATATTTTAAT
Found at i:498 original size:33 final size:33
Alignment explanation
Indices: 412--497 Score: 122
Period size: 33 Copynumber: 2.6 Consensus size: 33
402 TGAATAAAAA
*
412 ATTATATTTTTATTATTTTTAATATTATATTTT
1 ATTATATTTTAATTATTTTTAATATTATATTTT
445 ATTATATTTTAATTATTTTTAA-ATTAT-TTTT
1 ATTATATTTTAATTATTTTTAATATTATATTTT
476 ATGTTATATTTTAATTTATTTT
1 A--TTATATTTTAA-TTATTTT
498 ATATTTTATA
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
31 5 0.10
32 5 0.10
33 32 0.65
34 7 0.14
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (33 bp):
ATTATATTTTAATTATTTTTAATATTATATTTT
Found at i:513 original size:17 final size:17
Alignment explanation
Indices: 446--505 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
436 TTATATTTTA
*
446 TTATATTTTAATTATTT
1 TTATATTTTAATTAATT
* * *
463 TTAAATTATT--TTTATG
1 TTATATT-TTAATTAATT
*
479 TTATATTTTAATTTATT
1 TTATATTTTAATTAATT
496 TTATATTTTA
1 TTATATTTTA
506 TATAATTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
15 2 0.06
16 9 0.26
17 21 0.62
18 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TTATATTTTAATTAATT
Found at i:1013 original size:18 final size:18
Alignment explanation
Indices: 990--1053 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
980 AATTCACAAG
990 TTAATTTAAAATATATAC
1 TTAATTTAAAATATATAC
* * *
1008 TTAATTATATTAAT-TCACAAA
1 TTAATT-TA-AAATAT-A-TAC
1029 TTAATTTAAAATATATAC
1 TTAATTTAAAATATATAC
1047 TTAATTT
1 TTAATTT
1054 TAAACAGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
18 14 0.40
19 7 0.20
20 7 0.20
21 7 0.20
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTTAAAATATATAC
Found at i:1023 original size:39 final size:39
Alignment explanation
Indices: 975--1052 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
965 ATTAATACAC
*
975 ATATTAATTCACAAGTTAATTTAAAATATATACTTAATT
1 ATATTAATTCACAAATTAATTTAAAATATATACTTAATT
1014 ATATTAATTCACAAATTAATTTAAAATATATACTTAATT
1 ATATTAATTCACAAATTAATTTAAAATATATACTTAATT
1053 TTAAACAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (39 bp):
ATATTAATTCACAAATTAATTTAAAATATATACTTAATT
Found at i:1354 original size:16 final size:17
Alignment explanation
Indices: 1323--1356 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1313 ATTTTACTTT
1323 AATTTATAAATTAAAAA
1 AATTTATAAATTAAAAA
*
1340 AATTT-TAATTTAAAAA
1 AATTTATAAATTAAAAA
1356 A
1 A
1357 TAAATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AATTTATAAATTAAAAA
Found at i:2274 original size:19 final size:19
Alignment explanation
Indices: 2250--2292 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
2240 GAATTGATCC
2250 AAAATAATAT-TTTTATATT
1 AAAATAATATATTTT-TATT
2269 AAAATAATATATTTTTATT
1 AAAATAATATATTTTTATT
*
2288 TAAAT
1 AAAAT
2293 TTAATTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAAATAATATATTTTTATT
Found at i:2379 original size:13 final size:12
Alignment explanation
Indices: 2348--2384 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
2338 TTAAATAAAC
2348 AAATT-AAA-TT
1 AAATTAAAATTT
2358 AAATTAAAATTT
1 AAATTAAAATTT
2370 AAACTTAAAATTT
1 AAA-TTAAAATTT
2383 AA
1 AA
2385 TTTTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 5 0.21
11 3 0.12
12 5 0.21
13 11 0.46
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATTAAAATTT
Found at i:2640 original size:18 final size:18
Alignment explanation
Indices: 2619--2657 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2609 AAAATGGATT
*
2619 AAATTAAATAAATTTATA
1 AAATTAAATAAATTGATA
*
2637 AAATTAATTAAATTGATA
1 AAATTAAATAAATTGATA
2655 AAA
1 AAA
2658 AATATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
AAATTAAATAAATTGATA
Found at i:3235 original size:19 final size:19
Alignment explanation
Indices: 3188--3235 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
3178 TAAAAAATTA
3188 ATTTAATTTATATATTTACAT
1 ATTT-ATTTATATATTTA-AT
3209 ATTT-TTTATAATATTT-AT
1 ATTTATTTAT-ATATTTAAT
3227 ATTTATTTA
1 ATTTATTTA
3236 ATTAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 6 0.24
19 9 0.36
20 6 0.24
21 4 0.16
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTATTTATATATTTAAT
Found at i:3359 original size:52 final size:50
Alignment explanation
Indices: 3258--3384 Score: 127
Period size: 50 Copynumber: 2.5 Consensus size: 50
3248 TTTATATTTT
* *
3258 ATTTATAAAATATAAACATTAAATTTTAAATAAATTAAAAATATTTAATA
1 ATTTATAAAATATAAAAATTAAATTATAAATAAATTAAAAATATTTAATA
* *
3308 ATTTATTAAATGTAAAAATATATAATTATAAATATATATT-AAAAT-TTTAAT-
1 ATTTATAAAATATAAAAAT-TA-AATTATAAATA-A-ATTAAAAATATTTAATA
* *
3359 ATTAATATAATA-AAAATATTAAATTA
1 ATTTATAAAATATAAAA-ATTAAATTA
3385 ATTTAAAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
49 5 0.08
50 22 0.34
51 12 0.19
52 16 0.25
53 6 0.09
54 3 0.05
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.42
Consensus pattern (50 bp):
ATTTATAAAATATAAAAATTAAATTATAAATAAATTAAAAATATTTAATA
Found at i:3366 original size:22 final size:20
Alignment explanation
Indices: 3331--3397 Score: 59
Period size: 23 Copynumber: 3.4 Consensus size: 20
3321 AAAAATATAT
*
3331 AATTATAAA-TATATATTAA
1 AATTTTAAATTATATATTAA
*
3350 AATTTTAATATTAATATAATAAA
1 AATTTTAA-ATT-ATAT-ATTAA
*
3373 AATATTAAATTA-AT-TTAA
1 AATTTTAAATTATATATTAA
3391 AATTTTA
1 AATTTTA
3398 TTTATATAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
18 9 0.23
19 7 0.18
20 3 0.08
21 2 0.05
22 7 0.18
23 11 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTTAAATTATATATTAA
Found at i:3426 original size:41 final size:42
Alignment explanation
Indices: 3346--3432 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 42
3336 TAAATATATA
3346 TTAAAATTTTAATATTAATATAATAAAAATATTAAATT-AAT
1 TTAAAATTTTAATATTAATATAATAAAAATATTAAATTAAAT
* *
3387 TTAAAATTTT-AT-TT-ATATAATAATATTATTATATTATTAAAT
1 TTAAAATTTTAATATTAATATAATAAAAATATTA-A--ATTAAAT
3429 TTAA
1 TTAA
3433 TTATAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
38 15 0.38
39 3 0.08
40 2 0.05
41 13 0.32
42 7 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (42 bp):
TTAAAATTTTAATATTAATATAATAAAAATATTAAATTAAAT
Found at i:3457 original size:46 final size:46
Alignment explanation
Indices: 3356--3457 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 46
3346 TTAAAATTTT
*
3356 AATATTAATATAATAAAAATATTAAATTAATTTAAAATTTTATTTA
1 AATATTAATATAATAAAAATATTAAATTAATTTAAAATTTTATTAA
* * * * * *
3402 TATAATAATATTATTATATTATTAAATTTAA-TTATAAA-TTTATTAA
1 AATATTAATATAATAAAAATATTAAA-TTAATTTA-AAATTTTATTAA
3448 AATATTAATA
1 AATATTAATA
3458 GTGTACACAA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
46 38 0.84
47 7 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (46 bp):
AATATTAATATAATAAAAATATTAAATTAATTTAAAATTTTATTAA
Found at i:4806 original size:29 final size:29
Alignment explanation
Indices: 4751--4811 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
4741 ATTGAATTAA
* *
4751 ATTTTAATTAAATTAAAAATTTATTTTTT
1 ATTTTAATTAAATTAAAAATATATTTTAT
* *
4780 ATTTTAAATTATATTAATAATAT-TTTTAT
1 ATTTT-AATTAAATTAAAAATATATTTTAT
4809 ATT
1 ATT
4812 AATATTTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
ATTTTAATTAAATTAAAAATATATTTTAT
Found at i:4822 original size:23 final size:22
Alignment explanation
Indices: 4781--4823 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
4771 TTATTTTTTA
4781 TTTTAAATTATATTAATAATAT
1 TTTTAAATTATATTAATAATAT
* *
4803 TTTTATATTAATATTTATAAT
1 TTTTAAATT-ATATTAATAAT
4824 TAAATATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTTAAATTATATTAATAATAT
Found at i:5472 original size:30 final size:30
Alignment explanation
Indices: 5438--5519 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 30
5428 TATGCTAATG
*
5438 TTTAAAATTTAATATATTTTTAAATTTTGA
1 TTTAAAATTTAATATATTTTTAAATATTGA
* *
5468 TTTAATTAATTTAAT-TA-ATTAAAATATTGA
1 TTTAA--AATTTAATATATTTTTAAATATTGA
*
5498 TTTAATATATTAATAT-TTTTTA
1 TTTAAAAT-TTAATATATTTTTA
5520 TGTTTAAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
28 2 0.05
29 5 0.12
30 24 0.59
31 2 0.05
32 8 0.20
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (30 bp):
TTTAAAATTTAATATATTTTTAAATATTGA
Found at i:6120 original size:5 final size:5
Alignment explanation
Indices: 6110--6141 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
6100 ATTGTTTTAT
6110 ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA AT
6142 TAAAATACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:7851 original size:33 final size:33
Alignment explanation
Indices: 7806--7989 Score: 176
Period size: 33 Copynumber: 5.6 Consensus size: 33
7796 GGCATCATCT
7806 CTGCTACTTGGTCTGCTTACAGGTGCGCTGTCC
1 CTGCTACTTGGTCTGCTTACAGGTGCGCTGTCC
*
7839 CTGCTACGTGGTCTGCTTACAGGTGCGCTGTCC
1 CTGCTACTTGGTCTGCTTACAGGTGCGCTGTCC
* * * * *
7872 CTGCTACTTGGTCTACATATAGGGGCATCT-TCC
1 CTGCTACTTGGTCTGCTTACAGGTGC-GCTGTCC
* * *** * * * *
7905 CCGATACTTAACCTGATTATAGAG-GC-ATCGTCT
1 CTGCTACTTGGTCTGCTTACAG-GTGCGCT-GTCC
*
7938 CGGCTACTTGGTCTGCTTACAGGTGCGCTGTCC
1 CTGCTACTTGGTCTGCTTACAGGTGCGCTGTCC
7971 CTGCTACTTGGTCTGCTTA
1 CTGCTACTTGGTCTGCTTA
7990 TAGGGGCATC
Statistics
Matches: 118, Mismatches: 27, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
31 1 0.01
32 1 0.01
33 112 0.95
34 4 0.03
ACGTcount: A:0.14, C:0.28, G:0.25, T:0.33
Consensus pattern (33 bp):
CTGCTACTTGGTCTGCTTACAGGTGCGCTGTCC
Found at i:7885 original size:66 final size:66
Alignment explanation
Indices: 7796--8022 Score: 183
Period size: 66 Copynumber: 3.4 Consensus size: 66
7786 TGATTATAGG
* * *
7796 GGCATCATCTCTGCTACTTGGTCTGCTTACAGGTGCGCTGTCCCTGCTACGTGGTCTGCTTACAG
1 GGCATCGTCCCTGCTACTTGGTCTGCTTACAGGTGCGCTGTCCCTGCTACTTGGTCTGCTTACAG
7861 -
66 A
* * * * * * * * *** *
7861 GTGC-GCTGTCCCTGCTACTTGGTCTACATATAGGGGCATCT-TCCCCGATACTTAACCTGATTA
1 G-GCATC-GTCCCTGCTACTTGGTCTGCTTACAGGTGC-GCTGTCCCTGCTACTTGGTCTGCTTA
*
7924 TAGA
63 CAGA
* * *
7928 GGCATCGTCTCGGCTACTTGGTCTGCTTACAGGTGCGCTGTCCCTGCTACTTGGTCTGCTTATAG
1 GGCATCGTCCCTGCTACTTGGTCTGCTTACAGGTGCGCTGTCCCTGCTACTTGGTCTGCTTACAG
*
7993 G
66 A
* * *
7994 GGCATCATCCCTACTGA-TTGGCCTGCTTA
1 GGCATCGTCCCTGCT-ACTTGGTCTGCTTA
8023 TAGACACATC
Statistics
Matches: 119, Mismatches: 36, Indels: 13
0.71 0.21 0.08
Matches are distributed among these distances:
65 4 0.03
66 110 0.92
67 5 0.04
ACGTcount: A:0.15, C:0.28, G:0.25, T:0.32
Consensus pattern (66 bp):
GGCATCGTCCCTGCTACTTGGTCTGCTTACAGGTGCGCTGTCCCTGCTACTTGGTCTGCTTACAG
A
Found at i:8005 original size:33 final size:33
Alignment explanation
Indices: 7789--8065 Score: 162
Period size: 33 Copynumber: 8.5 Consensus size: 33
7779 CTTAACCTGA
*
7789 TTATAGGGGCATCATCTCTGCTACTTGGTCTGC
1 TTATAGGGGCATCATCCCTGCTACTTGGTCTGC
* * *
7822 TTACAGGTGCGC-T-GTCCCTGCTACGTGGTCTGC
1 TTATAGG-G-GCATCATCCCTGCTACTTGGTCTGC
* * *
7855 TTACAGGTGCGC-T-GTCCCTGCTACTTGGTCTAC
1 TTATAGG-G-GCATCATCCCTGCTACTTGGTCTGC
* * * * *** *
7888 ATATAGGGGCATCTTCCCCGATACTTAACCTGA
1 TTATAGGGGCATCATCCCTGCTACTTGGTCTGC
* * * *
7921 TTATAGAGGCATCGTCTCGGCTACTTGGTCTGC
1 TTATAGGGGCATCATCCCTGCTACTTGGTCTGC
* *
7954 TTACAGGTGCGC-T-GTCCCTGCTACTTGGTCTGC
1 TTATAGG-G-GCATCATCCCTGCTACTTGGTCTGC
* *
7987 TTATAGGGGCATCATCCCTACTGA-TTGGCCTGC
1 TTATAGGGGCATCATCCCTGCT-ACTTGGTCTGC
* *
8020 TTATA--GACA-CATCCCTACTACTT-GTCCTGC
1 TTATAGGGGCATCATCCCTGCTACTTGGT-CTGC
* *
8050 TTAAAGGAGCATCATC
1 TTATAGGGGCATCATC
8066 TGTACTAATT
Statistics
Matches: 191, Mismatches: 39, Indels: 28
0.74 0.15 0.11
Matches are distributed among these distances:
29 2 0.01
30 20 0.10
31 7 0.04
32 6 0.03
33 147 0.77
34 5 0.03
35 4 0.02
ACGTcount: A:0.17, C:0.28, G:0.23, T:0.32
Consensus pattern (33 bp):
TTATAGGGGCATCATCCCTGCTACTTGGTCTGC
Found at i:8097 original size:33 final size:33
Alignment explanation
Indices: 8035--8099 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
8025 GACACATCCC
* * *
8035 TACTACTTGTCCTGCTTAAAGGAGCATCATCTG
1 TACTAATTGTCCTGCTTAAAGCAACATCATCTG
* *
8068 TACTAATTGTCCTGCTTACAGCAATATCATCT
1 TACTAATTGTCCTGCTTAAAGCAACATCATCT
8100 TTATGAACAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (33 bp):
TACTAATTGTCCTGCTTAAAGCAACATCATCTG
Found at i:13533 original size:22 final size:23
Alignment explanation
Indices: 13508--13559 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
13498 ATTTGCATCT
* *
13508 AATTTTTATTAAAT-TATTATAA
1 AATTTTAATTAAATCAATTATAA
*
13530 AATTTGAATTAAATCAATTATAA
1 AATTTTAATTAAATCAATTATAA
*
13553 TATTTTA
1 AATTTTA
13560 CTCAGGCATG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
AATTTTAATTAAATCAATTATAA
Found at i:13557 original size:23 final size:22
Alignment explanation
Indices: 13515--13557 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
13505 TCTAATTTTT
*
13515 ATTAAATTATTATAAAATTTGA
1 ATTAAATAATTATAAAATTTGA
*
13537 ATTAAATCAATTATAATATTT
1 ATTAAAT-AATTATAAAATTT
13558 TACTCAGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
ATTAAATAATTATAAAATTTGA
Found at i:13657 original size:6 final size:6
Alignment explanation
Indices: 13646--13684 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
13636 AAAAACTCTT
* *
13646 AATTTA AATTTA AAATTA AATATA AATATTA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AAT-TTA AATTTA AA
13685 CTGAAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (6 bp):
AATTTA
Found at i:13676 original size:13 final size:12
Alignment explanation
Indices: 13649--13684 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
13639 AACTCTTAAT
13649 TTAAATTTAAAA
1 TTAAATTTAAAA
*
13661 TTAAATATAAATA
1 TTAAATTTAAA-A
13674 TTAAATTTAAA
1 TTAAATTTAAA
13685 CTGAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TTAAATTTAAAA
Found at i:13695 original size:25 final size:25
Alignment explanation
Indices: 13649--13696 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
13639 AACTCTTAAT
* *
13649 TTAAATTTAAAATTAAATATAAATA
1 TTAAATTTAAAATGAAAAATAAATA
*
13674 TTAAATTTAAACTGAAAAATAAA
1 TTAAATTTAAAATGAAAAATAAA
13697 AATTTAAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (25 bp):
TTAAATTTAAAATGAAAAATAAATA
Found at i:14489 original size:2 final size:2
Alignment explanation
Indices: 14484--14517 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14474 TATATAACAT
14484 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
14518 AGTTTTAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17449 original size:3 final size:3
Alignment explanation
Indices: 17441--17484 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
17431 ATGAAGAATA
17441 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17485 GGTAGAACCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:20139 original size:16 final size:16
Alignment explanation
Indices: 20118--20169 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
20108 TATATTAAAA
20118 TATTAAATTTATTTTT
1 TATTAAATTTATTTTT
20134 TATTAATATTTATATATTT
1 TATTAA-ATTTAT-T-TTT
* *
20153 TAAT-AATTTAATTTT
1 TATTAAATTTATTTTT
20168 TA
1 TA
20170 AAAAATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
15 5 0.16
16 7 0.23
17 11 0.35
18 2 0.06
19 6 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTAAATTTATTTTT
Found at i:23009 original size:2 final size:2
Alignment explanation
Indices: 23004--23032 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22994 TTTTATATTT
23004 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
23033 CTTTTGTTTC
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:23820 original size:199 final size:200
Alignment explanation
Indices: 23426--23821 Score: 598
Period size: 199 Copynumber: 2.0 Consensus size: 200
23416 GTATGATTTT
* *
23426 ATCTTAATTTAATGTACATAAAAATATTTCAACCCATTCTTATCAAATATATATTAAATTTAAAT
1 ATCTTAATTTAATATACATAAAAATATTTCAACCCATTCTTATCAAATATATATTAAATATAAAT
* * * * ** * * *
23491 TTAAATGTGTGACTTTAAATAAATAAAATTGATTCGTGCATCATATGGATAGAAAATTTGTTGCA
66 TTAAATATATGACCTTAAATAAATAAAATTAATTAATACATCATATGAATAGAAAATTTATTGCA
* * * *
23556 TAAATATTAAAAATACCAATATTAAATAAGCCAATGACCAAGGCCACCAAACCTTAGTCCATTGG
131 TAAATATTAAAAATACCAATATTAAATAAACCAATGACAAAGGCCACCAAACCTCACTCCATTGG
23621 ACTCA
196 ACTCA
*
23626 ATCTTAATTTAATATACATAAAAATATTTCAATCCATTCTTATCAAATATATATTAAATATAAAT
1 ATCTTAATTTAATATACATAAAAATATTTCAACCCATTCTTATCAAATATATATTAAATATAAAT
* *
23691 TTAAATATATGACCTTAAATAAA-AAAATTAATTAATATATCATATGAATTGAAAATTTATT-CT
66 TTAAATATATGACCTTAAATAAATAAAATTAATTAATACATCATATGAATAGAAAATTTATTGC-
*
23754 ATAAATATTAAAAATACCAATATTAAATAAATCAATGACAAAGGCCACCAAACCTCACTCCATTG
130 ATAAATATTAAAAATACCAATATTAAATAAACCAATGACAAAGGCCACCAAACCTCACTCCATTG
23819 GAC
195 GAC
23822 CAAATATTGT
Statistics
Matches: 176, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
198 1 0.01
199 93 0.53
200 82 0.47
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (200 bp):
ATCTTAATTTAATATACATAAAAATATTTCAACCCATTCTTATCAAATATATATTAAATATAAAT
TTAAATATATGACCTTAAATAAATAAAATTAATTAATACATCATATGAATAGAAAATTTATTGCA
TAAATATTAAAAATACCAATATTAAATAAACCAATGACAAAGGCCACCAAACCTCACTCCATTGG
ACTCA
Found at i:27971 original size:20 final size:21
Alignment explanation
Indices: 27943--27988 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
27933 ATTTTTTAAA
*
27943 ATTATATTAAATATTATA-TT
1 ATTAAATTAAATATTATATTT
27963 ATTAAATTAAATATTATATTT
1 ATTAAATTAAATATTATATTT
27984 ATTAA
1 ATTAA
27989 TTATTTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTAAATTAAATATTATATTT
Found at i:28008 original size:12 final size:12
Alignment explanation
Indices: 27959--28015 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
27949 TTAAATATTA
27959 TATTATTAAATT
1 TATTATTAAATT
* * *
27971 AAATATTATATT
1 TATTATTAAATT
27983 TATTAATT--ATT
1 TATT-ATTAAATT
27994 TATTATTAAATT
1 TATTATTAAATT
*
28006 TATTTTTAAA
1 TATTATTAAA
28016 CATTTAAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
10 3 0.08
11 7 0.19
12 23 0.64
13 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTATTAAATT
Found at i:29743 original size:30 final size:31
Alignment explanation
Indices: 29704--29761 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
29694 TAATAATTAT
* *
29704 TGTATATTTTAATTA-ATTTTTTTAATTTTTA
1 TGTATATTTT-ATTACATATATTTAATTTTTA
29735 TGTA-ATTTTATTACATATATTTAATTT
1 TGTATATTTTATTACATATATTTAATTT
29762 AATTTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 4 0.17
30 16 0.67
31 4 0.17
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (31 bp):
TGTATATTTTATTACATATATTTAATTTTTA
Found at i:29764 original size:24 final size:23
Alignment explanation
Indices: 29706--29769 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 23
29696 ATAATTATTG
*
29706 TATATTTTAA-TTAATTTTTTTAA
1 TATA-TTTAATTTAATTTTATTAA
*
29729 T-T-TTT-ATGTAATTTTATTACA
1 TATATTTAATTTAATTTTATTA-A
29750 TATATTTAATTTAATTTTAT
1 TATATTTAATTTAATTTTAT
29770 AAAAACTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
19 1 0.03
20 13 0.39
21 2 0.06
22 2 0.06
23 4 0.12
24 11 0.33
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
TATATTTAATTTAATTTTATTAA
Found at i:31219 original size:19 final size:19
Alignment explanation
Indices: 31170--31215 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
31160 TTCCGAGCCC
*
31170 ATTTAAATTACTATTTATT
1 ATTTAAATTAATATTTATT
* *
31189 AATTAAAATAATATTT-TT
1 ATTTAAATTAATATTTATT
31207 ATTTAAATT
1 ATTTAAATT
31216 TAATTATAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTAAATTAATATTTATT
Found at i:32443 original size:2 final size:2
Alignment explanation
Indices: 32430--32460 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
32420 TTGTAAATGT
*
32430 TA TA TC 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 T
32461 TTCAGATCAT
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:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32622 original size:12 final size:11
Alignment explanation
Indices: 32601--32651 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
32591 TGCAAAATAA
32601 ATAAATAAAAT
1 ATAAATAAAAT
32612 ATAACATAAAAT
1 ATAA-ATAAAAT
* *
32624 ATAAATGAATT
1 ATAAATAAAAT
**
32635 A-AAATATTAT
1 ATAAATAAAAT
32645 ATAAATA
1 ATAAATA
32652 TATAATATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
10 6 0.19
11 15 0.47
12 11 0.34
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (11 bp):
ATAAATAAAAT
Found at i:32639 original size:28 final size:28
Alignment explanation
Indices: 32597--32656 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
32587 ACAGTGCAAA
32597 ATAAATAAATAAAATATAACATAAA-AT
1 ATAAATAAATAAAATATAACATAAATAT
* * *
32624 ATAAATGAATTAAAATATTATATAAATAT
1 ATAAAT-AAATAAAATATAACATAAATAT
32653 ATAA
1 ATAA
32657 TATTTTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 6 0.21
28 16 0.57
29 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (28 bp):
ATAAATAAATAAAATATAACATAAATAT
Found at i:32660 original size:18 final size:17
Alignment explanation
Indices: 32636--32688 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
32626 AAATGAATTA
32636 AAATATTATATAAATAT
1 AAATATTATATAAATAT
32653 ATAATATT-T-TAAATAT
1 A-AATATTATATAAATAT
* *
32669 AATTATTATATAAAAAT
1 AAATATTATATAAATAT
32686 AAA
1 AAA
32689 AAATATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 5 0.17
16 9 0.30
17 10 0.33
18 6 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATTATATAAATAT
Found at i:33222 original size:30 final size:29
Alignment explanation
Indices: 33166--33243 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 29
33156 GTCTGGCTTG
*
33166 ATTTATAATTTAATAATAAAAATTATTTT
1 ATTTATAATTTAATAAAAAAAATTATTTT
33195 ATTTA-AATTTAATATAAAAATAATTATTTATT
1 ATTTATAATTTAATA-AAAAA-AATTA-TT-TT
* *
33227 ATTTATTATTTTATAAA
1 ATTTATAATTTAATAAA
33244 TAATGATTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 9 0.22
29 9 0.22
30 5 0.12
31 2 0.05
32 9 0.22
33 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
ATTTATAATTTAATAAAAAAAATTATTTT
Found at i:34618 original size:2 final size:2
Alignment explanation
Indices: 34611--34640 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
34601 AATGAATAAG
34611 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
34641 AAGATAAATT
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):
TA
Found at i:36786 original size:19 final size:20
Alignment explanation
Indices: 36744--36798 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
36734 TATATTTTTC
*
36744 ATATTAATTATATAAATAAA
1 ATATAAATTATATAAATAAA
36764 ATATAAATTAT-TAACAT-AA
1 ATATAAATTATATAA-ATAAA
*
36783 ATATAAAATATATAAA
1 ATATAAATTATATAAA
36799 AAATATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATAAATTATATAAATAAA
Found at i:37044 original size:2 final size:2
Alignment explanation
Indices: 37032--37064 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
37022 ATCATATTGA
37032 AG AG A- 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
37065 TCACTCTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:41910 original size:15 final size:13
Alignment explanation
Indices: 41879--41925 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
41869 TTATGTCCAA
41879 AAATATATTAAAT
1 AAATATATTAAAT
41892 AAATATATTAAAT
1 AAATATATTAAAT
*
41905 ACAA-ATATTTCAAT
1 A-AATATA-TTAAAT
41919 AAATATA
1 AAATATA
41926 AAGAGTCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATATATTAAAT
Found at i:42102 original size:17 final size:17
Alignment explanation
Indices: 42080--42115 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
42070 TGGTCTCTTC
*
42080 CTTATATTATTTGAACT
1 CTTATATTATTTAAACT
42097 CTTATATTATTTAAACT
1 CTTATATTATTTAAACT
42114 CT
1 CT
42116 AAAAGTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.03, T:0.53
Consensus pattern (17 bp):
CTTATATTATTTAAACT
Found at i:42155 original size:2 final size:2
Alignment explanation
Indices: 42148--42173 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
42138 TGTTGAACAC
42148 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
42174 GTGTGTGTTT
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:46151 original size:34 final size:34
Alignment explanation
Indices: 46100--46165 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
46090 TACTTTTTAA
* * *
46100 AATAATATTTAAAAAATTTAAAATATTTTATATT
1 AATAATATATAAAAAATTTAAAAAATTATATATT
46134 AATAAT-TATAAATAAATTTAAAAAATTATATA
1 AATAATATATAAA-AAATTTAAAAAATTATATA
46166 AATAGTAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 5 0.18
34 23 0.82
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (34 bp):
AATAATATATAAAAAATTTAAAAAATTATATATT
Found at i:46672 original size:2 final size:2
Alignment explanation
Indices: 46667--46694 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
46657 TATATTTGCT
46667 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
46695 GGAAATCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47145 original size:20 final size:19
Alignment explanation
Indices: 47106--47147 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
47096 ATCCGACTTG
* *
47106 AAATAGTATTTTTTAATTA
1 AAATAATATATTTTAATTA
*
47125 AAATAATATATTTTAATTT
1 AAATAATATATTTTAATTA
47144 AAAT
1 AAAT
47148 TTAATTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
AAATAATATATTTTAATTA
Found at i:48702 original size:16 final size:16
Alignment explanation
Indices: 48681--48719 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
48671 ATATTTTATG
48681 TTTAAAAATTT-TAAAT
1 TTTAAAAATTTAT-AAT
*
48697 TTTAAATATTTATAAT
1 TTTAAAAATTTATAAT
48713 TTTAAAA
1 TTTAAAA
48720 GTTATATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTAAAAATTTATAAT
Found at i:49128 original size:38 final size:38
Alignment explanation
Indices: 49086--49162 Score: 86
Period size: 38 Copynumber: 2.0 Consensus size: 38
49076 ATGACTTAAC
*
49086 TTAATTAATAAAATTAATTTTAA-TAAATATTT-TAATAT
1 TTAATAAATAAAA-T-ATTTTAACTAAATATTTATAATAT
**
49124 TTAATAAATTTAATATTTTAATCTAAATATTTATAATAT
1 TTAATAAATAAAATATTTTAA-CTAAATATTTATAATAT
49163 ATATTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
36 7 0.21
37 1 0.03
38 19 0.58
39 6 0.18
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (38 bp):
TTAATAAATAAAATATTTTAACTAAATATTTATAATAT
Found at i:49137 original size:16 final size:16
Alignment explanation
Indices: 49090--49141 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 16
49080 CTTAACTTAA
*
49090 TTAATAAAATTAAT-T
1 TTAATAAATTTAATAT
49105 TTAATAAATATTTTAATAT
1 TTAAT-AA-A-TTTAATAT
49124 TTAATAAATTTAATAT
1 TTAATAAATTTAATAT
49140 TT
1 TT
49142 TAATCTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 5 0.16
16 12 0.38
17 2 0.06
18 7 0.22
19 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAATAAATTTAATAT
Found at i:49699 original size:26 final size:26
Alignment explanation
Indices: 49662--49717 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
49652 ATCTAAATTC
* *
49662 AAATCAAATTAA-AAAATATAAATTTT
1 AAATCAAATTAATAAAAAAT-AATGTT
49688 AAAT-AAATTTAATAAAAAATAATGTT
1 AAATCAAA-TTAATAAAAAATAATGTT
49714 AAAT
1 AAAT
49718 GTTATCATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 3 0.12
26 17 0.65
27 6 0.23
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (26 bp):
AAATCAAATTAATAAAAAATAATGTT
Found at i:49741 original size:17 final size:17
Alignment explanation
Indices: 49719--49753 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
49709 ATGTTAAATG
*
49719 TTATCATATATATTTAT
1 TTATCATATAAATTTAT
*
49736 TTATCATTTAAATTTAT
1 TTATCATATAAATTTAT
49753 T
1 T
49754 AAAATTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATCATATAAATTTAT
Found at i:52603 original size:278 final size:276
Alignment explanation
Indices: 52119--52674 Score: 1076
Period size: 278 Copynumber: 2.0 Consensus size: 276
52109 AAGAAATTTT
52119 ATATATAAAATCTTCACTTGATGTGGTAATCCATTATATGAAAATCAATGCTTCCAATTCAATTC
1 ATATATAAAATCTTCACTTGATGTGGTAATCCATTATATGAAAATCAATGCTTCCAATTCAATTC
52184 CACTTTACTTTTTTTTTTTCCTTTCTTTGAAAAGCAACATTAGAAATGAGTAGAAAAGTTGGTAT
66 CACTTTACTTTTTTTTTTTCCTTTCTTTGAAAAGCAACATTAGAAATGAGTAGAAAAGTTGGTAT
*
52249 TTGACTTTTGAGAGAGTCCAAAAATTTATAAATTTTTCTTTGAAAGTACATAAAAGGTGAAAAAA
131 TTGACTTTTGAGAGAGTCCAAAAATTTATAAATTTTTCTCTGAAAGTACATAAAAGGTGAAAAAA
52314 AACCTAAAAAAAAAAAGAGCTTTGATTATGTAGGTAATAGCAACCATTGATAAGTGTAGTGATGT
196 AACCTAAAAAAAAAAAGAGCTTTGATTATGTAGGTAATAGCAACCATTGATAAGTGTAGTGATGT
52379 ATTATAAAAGAAAGTG
261 ATTATAAAAGAAAGTG
52395 ATATATAAAATCTTCACTTGATGTGGTAATCCATTATATGAAAATCAATGCTTCCAATTCAATTC
1 ATATATAAAATCTTCACTTGATGTGGTAATCCATTATATGAAAATCAATGCTTCCAATTCAATTC
*
52460 CACTTTACTTTTTTTTTTCTTTCTTTCTTTGAAAAGCAACATTAGAAATGAGTAGAAAAGTTGGT
66 CACTTTAC-TTTTTTTTT-TTCCTTTCTTTGAAAAGCAACATTAGAAATGAGTAGAAAAGTTGGT
52525 ATTTGACTTTTGAGAGAGTCCAAAAATTTATAAATTTTTCTCTGAAAGTACATAAAAGGTGAAAA
129 ATTTGACTTTTGAGAGAGTCCAAAAATTTATAAATTTTTCTCTGAAAGTACATAAAAGGTGAAAA
52590 AAAACCTAAAAAAAAAAAGAGCTTTGATTATGTAGGTAATAGCAACCATTGATAAGTGTAGTGAT
194 AAAACCTAAAAAAAAAAAGAGCTTTGATTATGTAGGTAATAGCAACCATTGATAAGTGTAGTGAT
52655 GTATTATAAAAGAAAGTG
259 GTATTATAAAAGAAAGTG
52673 AT
1 AT
52675 GTATTGTTGC
Statistics
Matches: 276, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
276 73 0.26
277 9 0.03
278 194 0.70
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (276 bp):
ATATATAAAATCTTCACTTGATGTGGTAATCCATTATATGAAAATCAATGCTTCCAATTCAATTC
CACTTTACTTTTTTTTTTTCCTTTCTTTGAAAAGCAACATTAGAAATGAGTAGAAAAGTTGGTAT
TTGACTTTTGAGAGAGTCCAAAAATTTATAAATTTTTCTCTGAAAGTACATAAAAGGTGAAAAAA
AACCTAAAAAAAAAAAGAGCTTTGATTATGTAGGTAATAGCAACCATTGATAAGTGTAGTGATGT
ATTATAAAAGAAAGTG
Found at i:52758 original size:2 final size:2
Alignment explanation
Indices: 52753--52777 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
52743 GGTTAAAAAG
52753 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 A
52778 CATTCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:53047 original size:31 final size:30
Alignment explanation
Indices: 53007--53079 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 30
52997 GTGATTCGAC
53007 AAAAT-ATAAAAATAATATGAATATAATAAA
1 AAAATAATAAAAATAATATGAATATAAT-AA
*
53037 AAAATAATAAATATAATATGAATATAATAA
1 AAAATAATAAAAATAATATGAATATAATAA
*
53067 AAAATAATTAAAA
1 AAAATAATAAAAA
53080 CATGATAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
30 18 0.46
31 21 0.54
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (30 bp):
AAAATAATAAAAATAATATGAATATAATAA
Found at i:53067 original size:20 final size:20
Alignment explanation
Indices: 53009--53054 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
52999 GATTCGACAA
*
53009 AATATAAAAATAATATGAATAT
1 AATAAAAAAATAATA--AATAT
53031 AATAAAAAAATAATAAATAT
1 AATAAAAAAATAATAAATAT
53051 AATA
1 AATA
53055 TGAATATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.39
22 14 0.61
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (20 bp):
AATAAAAAAATAATAAATAT
Found at i:53078 original size:11 final size:10
Alignment explanation
Indices: 53009--53093 Score: 55
Period size: 11 Copynumber: 8.1 Consensus size: 10
52999 GATTCGACAA
53009 AATATAAAAAT
1 AATA-AAAAAT
* *
53020 AATATGAATAT
1 AATA-AAAAAT
53031 AATAAAAAAAT
1 AAT-AAAAAAT
*
53042 AAT-AAATAT
1 AATAAAAAAT
* *
53051 AATATGAATAT
1 AATA-AAAAAT
53062 AATAAAAAAT
1 AATAAAAAAT
*
53072 AATTAAAACAT
1 AA-TAAAAAAT
*
53083 GATAAAAAAT
1 AATAAAAAAT
53093 A
1 A
53094 TACGTAAATA
Statistics
Matches: 58, Mismatches: 12, Indels: 9
0.73 0.15 0.11
Matches are distributed among these distances:
9 8 0.14
10 13 0.22
11 36 0.62
12 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (10 bp):
AATAAAAAAT
Found at i:54003 original size:34 final size:34
Alignment explanation
Indices: 53943--54025 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
53933 AAAAAAATTA
* * * *
53943 AAATAATAAATTAATAAATATTTTAAAATTTATAT
1 AAAT-ATAAATTATTAAATATATTAAAATCTACAT
53978 -AATATAAATTATTAATATATATTAAAATCTACAT
1 AAATATAAATTATTAA-ATATATTAAAATCTACAT
*
54012 AAATATAAAATATT
1 AAATATAAATTATT
54026 TAAAATAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
33 11 0.27
34 18 0.44
35 12 0.29
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (34 bp):
AAATATAAATTATTAAATATATTAAAATCTACAT
Found at i:54281 original size:15 final size:15
Alignment explanation
Indices: 54261--54290 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
54251 ATTTAAAAAT
54261 AAATATATTCATATC
1 AAATATATTCATATC
54276 AAATATATTCATATC
1 AAATATATTCATATC
54291 CTACCTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATATATTCATATC
Found at i:55373 original size:20 final size:19
Alignment explanation
Indices: 55316--55374 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
55306 TTGATCTTCG
*
55316 ATAGAATATAAAATTTTTTT
1 ATAGAAT-TCAAATTTTTTT
* **
55336 ATGGAATTCGGATATTTTTT
1 ATAGAATTCAAAT-TTTTTT
55356 ATAAGAATTCAAATTTTTT
1 AT-AGAATTCAAATTTTTT
55375 AATATTTCAT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
19 3 0.10
20 19 0.63
21 8 0.27
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.49
Consensus pattern (19 bp):
ATAGAATTCAAATTTTTTT
Found at i:55815 original size:18 final size:17
Alignment explanation
Indices: 55776--55825 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
55766 CATTCTTAGA
55776 TTTAATAAAAATAATAT
1 TTTAATAAAAATAATAT
*
55793 ATTAACTAAAAATTAAT-T
1 TTTAA-TAAAAA-TAATAT
*
55811 TTTAA-AATAATAATA
1 TTTAATAAAAATAATA
55826 AAAAAATTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
15 4 0.15
16 4 0.15
17 4 0.15
18 11 0.41
19 4 0.15
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
TTTAATAAAAATAATAT
Found at i:56540 original size:37 final size:37
Alignment explanation
Indices: 56499--56572 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
56489 TTACACATAC
*
56499 TTCTAATTAATATAATTAACTATTATTAAGTTAATTT
1 TTCTAATTAATATAATTAAATATTATTAAGTTAATTT
*
56536 TTCTAATTAATATAATTAAATATTATTCAGTTAATTT
1 TTCTAATTAATATAATTAAATATTATTAAGTTAATTT
56573 AACATGAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (37 bp):
TTCTAATTAATATAATTAAATATTATTAAGTTAATTT
Found at i:57898 original size:14 final size:13
Alignment explanation
Indices: 57876--57909 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
57866 TAATATTTTA
57876 TAAATTTAATATT
1 TAAATTTAATATT
57889 TAAATCTTAATATT
1 TAAAT-TTAATATT
*
57903 TATATTT
1 TAAATTT
57910 TTTTAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (13 bp):
TAAATTTAATATT
Found at i:57921 original size:17 final size:18
Alignment explanation
Indices: 57895--57932 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
57885 TATTTAAATC
57895 TTAATATTTATATT-TTT
1 TTAATATTTATATTATTT
* *
57912 TTAATTTTTATTTTATTT
1 TTAATATTTATATTATTT
57930 TTA
1 TTA
57933 TAGGTTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTAATATTTATATTATTT
Found at i:58609 original size:17 final size:17
Alignment explanation
Indices: 58566--58609 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
58556 AATATTAATA
58566 TAAA-AATAATATTTTT
1 TAAATAATAATATTTTT
* **
58582 TATATTTTAATATTTTT
1 TAAATAATAATATTTTT
58599 TAAATAATAAT
1 TAAATAATAAT
58610 TTAAACTTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TAAATAATAATATTTTT
Found at i:59158 original size:2 final size:2
Alignment explanation
Indices: 59151--59178 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
59141 TTGTCAAGTG
59151 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
59179 TTTTTACCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59476 original size:22 final size:23
Alignment explanation
Indices: 59444--59486 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
59434 TGATTTTAAT
59444 TTATAAATTAAATAAATTAAAAA
1 TTATAAATTAAATAAATTAAAAA
* *
59467 TTAT-AATTAATTGAATTAAA
1 TTATAAATTAAATAAATTAAA
59487 GTAAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
TTATAAATTAAATAAATTAAAAA
Found at i:59619 original size:20 final size:19
Alignment explanation
Indices: 59588--59629 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
59578 AAATTGATAA
*
59588 ATTAAATTAATTTAAATCG
1 ATTAAATTAATTCAAATCG
*
59607 ATTAAATTTAATTCGAATCG
1 ATTAAA-TTAATTCAAATCG
59627 ATT
1 ATT
59630 TGATTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (19 bp):
ATTAAATTAATTCAAATCG
Found at i:61825 original size:77 final size:79
Alignment explanation
Indices: 61698--61845 Score: 210
Period size: 77 Copynumber: 1.9 Consensus size: 79
61688 AAAATGTGAC
* * * * *
61698 GCATGAATGATGTATATAATACTAAGATATAATTACACATATTAATATAAT-AATTAA-TATAAT
1 GCATGAATGACGTAAATAATACTAAAATATAATTACACATATTAATATAATAAAATAATTAAAAT
61761 ATAATAATTAAGAT
66 ATAATAATTAAGAT
* * *
61775 GCATGTATGACGTAAATAATATTAAAATATAATTATACATATTAATATAATAAAATAATTAAAAT
1 GCATGAATGACGTAAATAATACTAAAATATAATTACACATATTAATATAATAAAATAATTAAAAT
61840 ATAATA
66 ATAATA
61846 TGATATAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
77 45 0.74
78 5 0.08
79 11 0.18
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.36
Consensus pattern (79 bp):
GCATGAATGACGTAAATAATACTAAAATATAATTACACATATTAATATAATAAAATAATTAAAAT
ATAATAATTAAGAT
Found at i:61832 original size:26 final size:25
Alignment explanation
Indices: 61803--61919 Score: 71
Period size: 24 Copynumber: 4.5 Consensus size: 25
61793 ATATTAAAAT
*
61803 ATAATTATACATATTAATATAATA-AA
1 ATAATTA-AAATA-TAATATAATATAA
*
61829 ATAATTAAAATATAATATGATATAAA
1 ATAATTAAAATATAATATAATAT-AA
*
61855 TATATATTTAAAATTTAA-ATAATATAA
1 -ATA-A-TTAAAATATAATATAATATAA
* * * *
61882 ATTATTAATATATTAAAATTTATATAA
1 ATAATTAAAATA-TAATA-TAATATAA
61909 A-AA-TAAAATAT
1 ATAATTAAAATAT
61920 TTTAAATAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
24 16 0.22
25 14 0.19
26 13 0.18
27 13 0.18
28 7 0.10
29 10 0.14
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (25 bp):
ATAATTAAAATATAATATAATATAA
Found at i:61862 original size:65 final size:66
Alignment explanation
Indices: 61750--61962 Score: 164
Period size: 65 Copynumber: 3.1 Consensus size: 66
61740 TAATATAATA
* * * **
61750 ATTAATATAATATAATAATTAAGATGCAT-GTATGACGTAAATA-ATATTAAAATAT-AATTATA
1 ATTAATATAATAAAATAATTAAAAT--ATAATATGAAATAAATATATATTAAAATATAAATTATA
61812 CAT
64 CAT
* *
61815 ATTAATATAATAAAATAATTAAAATATAATATGATATAAATATATATTTAAAATTTAAATAATAT
1 ATTAATATAATAAAATAATTAAAATATAATATGAAATAAATATATA-TTAAAATATAAAT--TAT
*
61880 AAATT
63 ACA-T
* * * * *
61885 ATTAATATATTAAAATTTATATAAAAATAAAATATTTTAAATAAATATAAATATAAATATATAAA
1 ATTAATATAATAAAA--TA-ATTAAAATATAATA--TGAAATAAATATATAT-TAAA-ATATAAA
61950 TTAT-CAT
59 TTATACAT
61957 ATTAAT
1 ATTAAT
61963 GCACGAAAGC
Statistics
Matches: 119, Mismatches: 15, Indels: 21
0.77 0.10 0.14
Matches are distributed among these distances:
63 2 0.02
64 11 0.09
65 26 0.22
66 8 0.07
67 3 0.03
69 5 0.04
70 15 0.13
72 9 0.08
73 13 0.11
74 4 0.03
75 16 0.13
76 7 0.06
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (66 bp):
ATTAATATAATAAAATAATTAAAATATAATATGAAATAAATATATATTAAAATATAAATTATACA
T
Found at i:61915 original size:33 final size:33
Alignment explanation
Indices: 61856--61920 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
61846 TGATATAAAT
* *
61856 ATATATTTAAAATTTAAATAATATAAATTATTA
1 ATATATTTAAAATTTAAATAAAATAAAATATTA
*
61889 ATATA-TTAAAATTTATATAAAAATAAAATATT
1 ATATATTTAAAATTTAAAT-AAAATAAAATATT
61921 TTAAATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
ATATATTTAAAATTTAAATAAAATAAAATATTA
Found at i:62464 original size:18 final size:19
Alignment explanation
Indices: 62438--62473 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
62428 TTATTTAGAT
62438 TTAATTATAAAAATATATA
1 TTAATTATAAAAATATATA
62457 TTAA-TATAAAAATATAT
1 TTAATTATAAAAATATAT
62474 TCTTTTTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAATTATAAAAATATATA
Found at i:63723 original size:20 final size:21
Alignment explanation
Indices: 63685--63723 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
63675 TTTAAAAATA
* *
63685 AATATAAATAATTTTATTTTT
1 AATATAAATAATATCATTTTT
63706 AATA-AAATAATATCATTT
1 AATATAAATAATATCATTT
63724 AATTTATTGA
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:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATAAATAATATCATTTTT
Found at i:63723 original size:25 final size:25
Alignment explanation
Indices: 63681--63746 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
63671 ATTTTTTAAA
*
63681 AATAAATATAAATAATTTTATTTTT
1 AATAAATATAAATAATTTAATTTTT
*
63706 AATAAA-ATAATATCATTTAATTTATT
1 AATAAATATAA-ATAATTTAATTT-TT
* *
63732 GATGATATATAAATA
1 AAT-AAATATAAATA
63747 TATACACTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
24 4 0.12
25 16 0.50
26 4 0.12
27 4 0.12
28 4 0.12
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (25 bp):
AATAAATATAAATAATTTAATTTTT
Found at i:67730 original size:20 final size:19
Alignment explanation
Indices: 67691--67732 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
67681 CGATACAATA
**
67691 ATCGATACATGTTCATTGT
1 ATCGATACATGGACATTGT
67710 ATCGATACATGGACAATTGT
1 ATCGATACATGGAC-ATTGT
67730 ATC
1 ATC
67733 AATGCATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (19 bp):
ATCGATACATGGACATTGT
Found at i:71216 original size:18 final size:19
Alignment explanation
Indices: 71179--71217 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
71169 GTTATTAAAT
71179 TTAATAAATATATATAATA
1 TTAATAAATATATATAATA
* *
71198 TTAATAATTA-ATATTATA
1 TTAATAAATATATATAATA
71216 TT
1 TT
71218 TAAATAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAATAAATATATATAATA
Found at i:77568 original size:3 final size:3
Alignment explanation
Indices: 77562--77593 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
77552 TGTTTTTTTT
77562 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
77594 TTAATATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:80745 original size:7 final size:8
Alignment explanation
Indices: 80720--80744 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
80710 TTATAATAAA
80720 TTATTTTT
1 TTATTTTT
80728 TTATTTTT
1 TTATTTTT
80736 TTATTTTT
1 TTATTTTT
80744 T
1 T
80745 AACCAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTATTTTT
Found at i:80901 original size:27 final size:26
Alignment explanation
Indices: 80845--80933 Score: 78
Period size: 26 Copynumber: 3.5 Consensus size: 26
80835 TCATTTATTT
**
80845 TATATA-ATTTAAATTACTTAT-ATA
1 TATATATATTTAAATTAAATATAATA
80869 TAATATATATTTAAATATAAATATAATA
1 T-ATATATATTTAAAT-TAAATATAATA
* *
80897 TATAT-TTTTTAAATTAAA-AAAATTA
1 TATATATATTTAAATTAAATATAA-TA
*
80922 AATATATATTTA
1 TATATATATTTA
80934 TATTTTATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
24 4 0.08
25 15 0.28
26 21 0.40
27 9 0.17
28 4 0.08
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (26 bp):
TATATATATTTAAATTAAATATAATA
Found at i:81320 original size:25 final size:26
Alignment explanation
Indices: 81292--81392 Score: 82
Period size: 25 Copynumber: 3.7 Consensus size: 26
81282 TAAATTTATA
*
81292 TTAAATTAAATTTAAATATAATT-TT
1 TTAAATTAAATTTAAATATAATTAAT
81317 TTAAATTTAAA-TTAAAT-TAATTAAT
1 TTAAA-TTAAATTTAAATATAATTAAT
* *
81342 TTAAATTATTATTTAAATAATAAAAATATAT
1 TTAAATTA-AATTTAAAT-AT--AATTA-AT
*
81373 TTAAATTTAATTATAAATAT
1 TTAAATTAAATT-TAAATAT
81393 TAATATAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
24 8 0.13
25 18 0.30
26 11 0.18
28 1 0.02
30 9 0.15
31 14 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TTAAATTAAATTTAAATATAATTAAT
Found at i:81334 original size:20 final size:21
Alignment explanation
Indices: 81281--81350 Score: 76
Period size: 20 Copynumber: 3.4 Consensus size: 21
81271 ATTTATCAAG
81281 TTAAATT-TATATTAAATTAAAT
1 TTAAATTATA-ATT-AATTAAAT
**
81303 TTAAA-TATAATTTTTTAAAT
1 TTAAATTATAATTAATTAAAT
81323 TTAAATTA-AATTAATT-AAT
1 TTAAATTATAATTAATTAAAT
81342 TTAAATTAT
1 TTAAATTAT
81351 TATTTAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 11 0.27
20 17 0.41
21 6 0.15
22 7 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAAATTATAATTAATTAAAT
Found at i:81696 original size:2 final size:2
Alignment explanation
Indices: 81689--81715 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
81679 CTGATTTTGA
81689 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
81716 GGTTTAGCAG
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:82102 original size:17 final size:17
Alignment explanation
Indices: 82080--82114 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
82070 TCGATTTAAC
82080 AAAA-TTAATTAATTTAT
1 AAAATTTAA-TAATTTAT
82097 AAAATTTAATAATTTAT
1 AAAATTTAATAATTTAT
82114 A
1 A
82115 TTGATCCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAAATTTAATAATTTAT
Found at i:89631 original size:2 final size:2
Alignment explanation
Indices: 89624--89656 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
89614 CATAAGGTGG
89624 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
89657 TACATAAGCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:94697 original size:35 final size:35
Alignment explanation
Indices: 94649--94718 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
94639 TGATTATTCG
* *
94649 GTTGCAATGAACAAAAGAATGTAACCATCTTGTTC
1 GTTGCAATAAACAAAAGAATATAACCATCTTGTTC
**
94684 GTTGCAATAAACAATGGAATATAACCATCTTGTTC
1 GTTGCAATAAACAAAAGAATATAACCATCTTGTTC
94719 TGCAGCAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (35 bp):
GTTGCAATAAACAAAAGAATATAACCATCTTGTTC
Found at i:96010 original size:14 final size:13
Alignment explanation
Indices: 95991--96054 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
95981 TTTAAATACG
95991 TATTTATTTAAATT
1 TATTT-TTTAAATT
*
96005 TATTTATATTATA-T
1 TATTT-T-TTAAATT
* *
96019 T-TTTTTAAAAAT
1 TATTTTTTAAATT
96031 TATTTTTTAAATT
1 TATTTTTTAAATT
*
96044 TAATTTTTAAA
1 TATTTTTTAAA
96055 AATTTAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
11 3 0.07
12 3 0.07
13 22 0.54
14 9 0.22
15 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTTTTTAAATT
Found at i:96072 original size:23 final size:24
Alignment explanation
Indices: 96042--96087 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
96032 ATTTTTTAAA
96042 TTTAATTTT-TAAAAATTTAAAAT
1 TTTAATTTTATAAAAATTTAAAAT
* *
96065 TTTAATTTTATTAAATTTTAAAA
1 TTTAATTTTATAAAAATTTAAAA
96088 AGTAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTAATTTTATAAAAATTTAAAAT
Found at i:96243 original size:7 final size:6
Alignment explanation
Indices: 96198--96247 Score: 57
Period size: 6 Copynumber: 8.0 Consensus size: 6
96188 ATTAAAAAAT
*
96198 AATTTA AATTTA AATTTA AATTTTA AATATTAA AATTAA AATTT- AATTTA
1 AATTTA AATTTA AATTTA AA-TTTA AAT-TT-A AATTTA AATTTA AATTTA
96248 TTTTTAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 5 0.13
6 20 0.53
7 9 0.24
8 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTTA
Found at i:96249 original size:21 final size:20
Alignment explanation
Indices: 96198--96243 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
96188 ATTAAAAAAT
*
96198 AATTTAAAT-TTAAATTTAA
1 AATTTAAATATTAAAATTAA
*
96217 ATTTTAAATATTAAAATTAA
1 AATTTAAATATTAAAATTAA
96237 AATTTAA
1 AATTTAA
96244 TTTATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTTAAATATTAAAATTAA
Found at i:96256 original size:18 final size:19
Alignment explanation
Indices: 96233--96282 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
96223 AATATTAAAA
96233 TTAAAATTTAATT-TATTT
1 TTAAAATTTAATTATATTT
* *
96251 TTAAAA-TAAATTATTTTT
1 TTAAAATTTAATTATATTT
96269 TTAAAATTT-ATTAT
1 TTAAAATTTAATTAT
96283 TAAACATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 5 0.19
18 21 0.78
19 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAAAATTTAATTATATTT
Found at i:96277 original size:31 final size:32
Alignment explanation
Indices: 96242--96304 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
96232 ATTAAAATTT
* *
96242 AATTTATTTTTAAA-ATAA-ATTATTTTTTTAA
1 AATTTATTATTAAACATAATATT-TTTATTTAA
96273 AATTTATTATTAAACATAATATTTTTATTTAA
1 AATTTATTATTAAACATAATATTTTTATTTAA
96305 TTAATTCGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 13 0.46
32 12 0.43
33 3 0.11
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (32 bp):
AATTTATTATTAAACATAATATTTTTATTTAA
Found at i:107089 original size:15 final size:15
Alignment explanation
Indices: 107050--107081 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
107040 GAATTGTTCC
107050 AAATATAAAATTTTT
1 AAATATAAAATTTTT
107065 AAATATAAAATTTTT
1 AAATATAAAATTTTT
107080 AA
1 AA
107082 TCATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATATAAAATTTTT
Found at i:108546 original size:14 final size:16
Alignment explanation
Indices: 108494--108546 Score: 65
Period size: 17 Copynumber: 3.4 Consensus size: 16
108484 ATAAAAAATA
108494 AATTATAAATAATTACT
1 AATTATAAATAATTA-T
* *
108511 AATAATAAATAATTAA
1 AATTATAAATAATTAT
108527 AATTATAAA-AA-TAT
1 AATTATAAATAATTAT
108541 AATTAT
1 AATTAT
108547 TTTATTAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 8 0.25
15 2 0.06
16 8 0.25
17 14 0.44
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTATAAATAATTAT
Found at i:109107 original size:16 final size:17
Alignment explanation
Indices: 109075--109107 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
109065 AGTTTTTATG
109075 TTAAAATATTAACAAAT
1 TTAAAATATTAACAAAT
*
109092 TTAAAA-ATTAAGAAAT
1 TTAAAATATTAACAAAT
109108 GTGTTGAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (17 bp):
TTAAAATATTAACAAAT
Found at i:110013 original size:15 final size:16
Alignment explanation
Indices: 109985--110018 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
109975 TAAATTACTG
109985 AAAAAAATGCATAATA
1 AAAAAAATGCATAATA
*
110001 AAAAAAAT-TATAATA
1 AAAAAAATGCATAATA
110016 AAA
1 AAA
110019 GAGAAACCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAAAAATGCATAATA
Found at i:110805 original size:19 final size:21
Alignment explanation
Indices: 110758--110798 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
110748 AATATTAAGA
*
110758 TTATAAATAATATATAAATTTC
1 TTAT-AATAAAATATAAATTTC
110780 TTATAATAAAATA-AAATTT
1 TTATAATAAAATATAAATTT
110799 TTTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TTATAATAAAATATAAATTTC
Found at i:115079 original size:76 final size:76
Alignment explanation
Indices: 114989--115143 Score: 267
Period size: 76 Copynumber: 2.0 Consensus size: 76
114979 ATTATTAACA
114989 TATCAAAATTTATATTAATATAAAATATTTTAAACATAAATATAATAAATAT-ATGAACACGATA
1 TATCAAAATTTATATTAATATAAAATATTTTAAACATAAATATAATAAAT-TCATGAACACGATA
*
115053 TAAATACTGAAT
65 TAAATACCGAAT
* *
115065 TATCAAAATTTATATTAATATAAAATATTTTAAATATAAATATAATAAATTCATTAACACGATAT
1 TATCAAAATTTATATTAATATAAAATATTTTAAACATAAATATAATAAATTCATGAACACGATAT
115130 AAATACCGAAT
66 AAATACCGAAT
115141 TAT
1 TAT
115144 TAAAGTTTGT
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
75 1 0.01
76 74 0.99
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (76 bp):
TATCAAAATTTATATTAATATAAAATATTTTAAACATAAATATAATAAATTCATGAACACGATAT
AAATACCGAAT
Found at i:116346 original size:24 final size:23
Alignment explanation
Indices: 116319--116380 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
116309 TAAATACATA
116319 AATATATAAAAATAATTCAAATAT-
1 AATATATAAAAATAA--CAAATATG
*
116343 AATATAAATAAAAATAACTAATATG
1 AATAT--ATAAAAATAACAAATATG
*
116368 AATATATTAAAAT
1 AATATATAAAAAT
116381 TTATATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
23 7 0.21
24 11 0.33
25 5 0.15
26 10 0.30
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (23 bp):
AATATATAAAAATAACAAATATG
Found at i:116391 original size:20 final size:21
Alignment explanation
Indices: 116363--116413 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
116353 AAAATAACTA
* *
116363 ATATGAATATAT-TAAAATTT
1 ATATAAATATATATAAAATGT
*
116383 ATATAAATATATATAATATGT
1 ATATAAATATATATAAAATGT
116404 ATGATAAATA
1 AT-ATAAATA
116414 ATTTAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 11 0.42
21 8 0.31
22 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (21 bp):
ATATAAATATATATAAAATGT
Found at i:116699 original size:2 final size:2
Alignment explanation
Indices: 116694--116724 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
116684 TGGCCGCCTC
116694 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
116725 ATAAGCTAAA
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:117114 original size:11 final size:11
Alignment explanation
Indices: 117098--117140 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
117088 TTATAGTATC
117098 ATTAAATTATA
1 ATTAAATTATA
117109 ATTAAATTATA
1 ATTAAATTATA
117120 ATTAAATT-TA
1 ATTAAATTATA
117130 A-T-AATTATA
1 ATTAAATTATA
117139 AT
1 AT
117141 ATTTATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 4 0.13
9 4 0.13
10 3 0.10
11 19 0.63
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATTAAATTATA
Found at i:117181 original size:30 final size:29
Alignment explanation
Indices: 117115--117204 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 29
117105 TATAATTAAA
* * *
117115 TTATAATTAAATTTAATA-ATTATAATAT
1 TTATAATTATATTTAATATATTTTATTAT
*
117143 TTAT-ATTATATTTTATATATTTTATTAT
1 TTATAATTATATTTAATATATTTTATTAT
* *
117171 ATTATAATTATGTTAAATATATTTTA-TAT
1 -TTATAATTATATTTAATATATTTTATTAT
117200 TTATA
1 TTATA
117205 TAAATTTTGA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
27 11 0.21
28 17 0.33
29 7 0.13
30 17 0.33
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (29 bp):
TTATAATTATATTTAATATATTTTATTAT
Found at i:117261 original size:19 final size:19
Alignment explanation
Indices: 117239--117284 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
117229 ATATTATACA
117239 ATTTTTAAAATATTTATAT
1 ATTTTTAAAATATTTATAT
* **
117258 ATTTATATCATATTTATAT
1 ATTTTTAAAATATTTATAT
117277 -TTTTTAAA
1 ATTTTTAAA
117285 TTATATCATA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTTAAAATATTTATAT
Found at i:117296 original size:36 final size:36
Alignment explanation
Indices: 117239--117308 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
117229 ATATTATACA
*
117239 ATTTTTAAAATATTTATATATTTATATCATATTTAT
1 ATTTTTAAAATATATATATATTTATATCATATTTAT
* * *
117275 ATTTTTTAAAT-TATATCATATTTTTATCGTATTT
1 ATTTTTAAAATATATAT-ATATTTATATCATATTT
117309 TAATCATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 4 0.14
36 25 0.86
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (36 bp):
ATTTTTAAAATATATATATATTTATATCATATTTAT
Found at i:117388 original size:12 final size:12
Alignment explanation
Indices: 117371--117410 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
117361 TAAGTAGATT
117371 TAATGATGATGA
1 TAATGATGATGA
*
117383 TAATGATGATAA
1 TAATGATGATGA
117395 TAATGATGATGA
1 TAATGATGATGA
117407 TAAT
1 TAAT
117411 AGCAGCAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (12 bp):
TAATGATGATGA
Found at i:117896 original size:33 final size:33
Alignment explanation
Indices: 117858--117932 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
117848 TAATTACACG
117858 AATAT-AATATAAAAAAT-AATTAAAATATAATAT
1 AATATAAATAT-AAAAATGAATTAAAAT-TAATAT
* * *
117891 AATATAAATATATAAATGATTTAAAATTTATAT
1 AATATAAATATAAAAATGAATTAAAATTAATAT
117924 AATATAAAT
1 AATATAAAT
117933 TATTAACATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 24 0.65
34 13 0.35
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (33 bp):
AATATAAATATAAAAATGAATTAAAATTAATAT
Found at i:117899 original size:16 final size:16
Alignment explanation
Indices: 117858--117902 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 16
117848 TAATTACACG
117858 AATATAATATAAA-A-
1 AATATAATATAAATAT
*
117872 AATA-ATTA-AAATAT
1 AATATAATATAAATAT
117886 AATATAATATAAATAT
1 AATATAATATAAATAT
117902 A
1 A
117903 TAAATGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 3 0.12
13 4 0.16
14 8 0.32
15 3 0.12
16 7 0.28
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATATAATATAAATAT
Found at i:118525 original size:22 final size:19
Alignment explanation
Indices: 118480--118556 Score: 57
Period size: 18 Copynumber: 3.9 Consensus size: 19
118470 TAATATTCAT
*
118480 AATAAATATTTTTTATTATT
1 AATAAA-ATTTTTTATTATA
118500 AATAAAATTTATTTAATTTATA
1 AATAAAATTT-TTT-A-TTATA
* * *
118522 AATAAAAATTTTAATT-TT
1 AATAAAATTTTTTATTATA
* *
118540 ATTAAAATATTTTATTA
1 AATAAAATTTTTTATTA
118557 AATATATTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
18 13 0.29
19 6 0.13
20 10 0.22
21 3 0.07
22 13 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATAAAATTTTTTATTATA
Found at i:118551 original size:19 final size:19
Alignment explanation
Indices: 118479--118553 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 19
118469 TTAATATTCA
*
118479 TAAT-AAATATTTTTTATTAT
1 TAATAAAATA-TTTTAATT-T
*
118499 TAATAAAATTTATTTAATTT
1 TAATAAAATAT-TTTAATTT
118519 ATAAATAAAA-ATTTTAATTT
1 -T-AATAAAATATTTTAATTT
*
118539 TATTAAAATATTTTA
1 TAATAAAATATTTTA
118554 TTAAATATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
18 6 0.13
19 7 0.15
20 14 0.30
21 12 0.26
22 7 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TAATAAAATATTTTAATTT
Found at i:118553 original size:13 final size:14
Alignment explanation
Indices: 118535--118565 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
118525 AAAAATTTTA
118535 ATTTTATTAAA-AT
1 ATTTTATTAAATAT
118548 ATTTTATTAAATAT
1 ATTTTATTAAATAT
118562 ATTT
1 ATTT
118566 ATTTGATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTTATTAAATAT
Found at i:118932 original size:35 final size:34
Alignment explanation
Indices: 118873--118942 Score: 90
Period size: 33 Copynumber: 2.0 Consensus size: 34
118863 GTTTATAGCT
118873 TTTTTTAAAAAAATAATTATACAATAAT-AATAA
1 TTTTTTAAAAAAATAATTATACAATAATAAATAA
*
118906 TTTTTTAAAAAAAT-ATTATTTGACAATGATAAATAA
1 TTTTTTAAAAAAATAATTA--T-ACAATAATAAATAA
118942 T
1 T
118943 AGTAATTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
32 4 0.12
33 14 0.44
34 1 0.03
35 7 0.22
36 6 0.19
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (34 bp):
TTTTTTAAAAAAATAATTATACAATAATAAATAA
Found at i:120644 original size:2 final size:2
Alignment explanation
Indices: 120629--120660 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
120619 ATGTTTACAC
120629 TA TA -A TA T- 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
120661 AGACATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.