Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold258
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: 5730937
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 25
Found at i:2554930 original size:25 final size:28
Alignment explanation
Indices: 2554883--2554934 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 28
2554873 ATGAAGCATC
2554883 CATGAGTAGAATTTTTAAACAATTTATT
1 CATGAGTAGAATTTTTAAACAATTTATT
*
2554911 CATGAG-AG-ATTTTT-ACCAATTTAT
1 CATGAGTAGAATTTTTAAACAATTTAT
2554935 CTTAACTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 9 0.39
26 6 0.26
27 2 0.09
28 6 0.26
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.42
Consensus pattern (28 bp):
CATGAGTAGAATTTTTAAACAATTTATT
Found at i:2566513 original size:6 final size:6
Alignment explanation
Indices: 2566502--2566526 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2566492 CTCAAAGAAG
2566502 AGGTTC AGGTTC AGGTTC AGGTTC A
1 AGGTTC AGGTTC AGGTTC AGGTTC A
2566527 TCATGCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.32, T:0.32
Consensus pattern (6 bp):
AGGTTC
Found at i:2571655 original size:29 final size:31
Alignment explanation
Indices: 2571576--2571655 Score: 76
Period size: 31 Copynumber: 2.5 Consensus size: 31
2571566 TCATGGTTCA
* *
2571576 AAAAAAATTTTT-TATTTAAATTTAATTTATTT
1 AAAAATATTTTTATATTTAAA-TTAA-TTATTG
*
2571608 AAAAATTTATTTTACTATTTAAA-TAA-TATTG
1 AAAAATAT-TTTTA-TATTTAAATTAATTATTG
2571639 AAAAATATTTTTATATT
1 AAAAATATTTTTATATT
2571656 AATATTTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
29 4 0.10
30 5 0.12
31 11 0.27
32 6 0.15
33 7 0.17
35 8 0.20
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (31 bp):
AAAAATATTTTTATATTTAAATTAATTATTG
Found at i:2575510 original size:2 final size:2
Alignment explanation
Indices: 2575503--2575546 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2575493 TTCTCGGTTT
2575503 TA TA 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 TA TA
2575545 TA
1 TA
2575547 GTCACAGGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2580794 original size:18 final size:19
Alignment explanation
Indices: 2580764--2580818 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
2580754 AAATTTAATT
* *
2580764 ATAAAATATATAAATATTA
1 ATAAAATAAATAATTATTA
* *
2580783 ATATAA-AAATAATTTTTA
1 ATAAAATAAATAATTATTA
2580801 ATAAAATAAATAATTATT
1 ATAAAATAAATAATTATT
2580819 TAAGTTTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAAAATAAATAATTATTA
Found at i:2580829 original size:22 final size:19
Alignment explanation
Indices: 2580764--2580835 Score: 65
Period size: 18 Copynumber: 3.7 Consensus size: 19
2580754 AAATTTAATT
* * *
2580764 ATAAAATATATAAATATTA
1 ATAAAATAAATAATTTTTA
*
2580783 ATATAA-AAATAATTTTTA
1 ATAAAATAAATAATTTTTA
2580801 ATAAAATAAATAATTATTTA
1 ATAAAATAAATAATT-TTTA
*
2580821 AGTTTAAATAAATAA
1 A--TAAAATAAATAA
2580836 ATTGAGTCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 14 0.33
19 13 0.30
20 5 0.12
22 11 0.26
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (19 bp):
ATAAAATAAATAATTTTTA
Found at i:2581375 original size:3 final size:3
Alignment explanation
Indices: 2581367--2581411 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
2581357 TCACAAACAT
2581367 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2581412 CTATAGGTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2581843 original size:15 final size:15
Alignment explanation
Indices: 2581820--2581849 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2581810 AATTTAATTT
*
2581820 TTTATTTTAAAATAA
1 TTTAATTTAAAATAA
2581835 TTTAATTTAAAATAA
1 TTTAATTTAAAATAA
2581850 AATTTTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTAATTTAAAATAA
Found at i:2581886 original size:34 final size:34
Alignment explanation
Indices: 2581804--2581884 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
2581794 TCACGAGTTA
* * *
2581804 AATTTAAATTTAATTTTTTATTTTAAAATAATTT
1 AATTTAAAATAAAATTTTTATTTTAAAATAATTT
**
2581838 AATTTAAAATAAAATTTTTATTTTAATTTATATTT
1 AATTTAAAATAAAATTTTTATTTTAAAATA-ATTT
2581873 -A-TTAAAATAAAA
1 AATTTAAAATAAAA
2581885 ATAATTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
33 11 0.27
34 26 0.63
35 4 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (34 bp):
AATTTAAAATAAAATTTTTATTTTAAAATAATTT
Found at i:2581904 original size:22 final size:23
Alignment explanation
Indices: 2581870--2581914 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
2581860 TTAATTTATA
*
2581870 TTTATTAAAATAAA-AATAATTT
1 TTTAATAAAATAAATAATAATTT
*
2581892 TTTAATAAGATAAATAATAATTT
1 TTTAATAAAATAAATAATAATTT
2581915 AGACTTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TTTAATAAAATAAATAATAATTT
Found at i:2582470 original size:3 final size:3
Alignment explanation
Indices: 2582462--2582508 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
2582452 TCACAAACAT
2582462 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
2582508 A
1 A
2582509 ATATTAATAG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2585605 original size:13 final size:12
Alignment explanation
Indices: 2585563--2585608 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
2585553 TCTTAAACTG
*
2585563 TATTTTTTAACA
1 TATTTTTTAATA
2585575 TATTATTTTAATA
1 TATT-TTTTAATA
*
2585588 TATTTTTTAATT
1 TATTTTTTAATA
2585600 TAATTTTTT
1 T-ATTTTTT
2585609 TTAATAGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
12 12 0.40
13 18 0.60
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTTTTAATA
Found at i:2599481 original size:20 final size:20
Alignment explanation
Indices: 2599458--2599498 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2599448 TGGTGATAAT
2599458 CCATTCTTATTATGTGTTCG
1 CCATTCTTATTATGTGTTCG
2599478 CCATTCTTATTATGTGTTCG
1 CCATTCTTATTATGTGTTCG
2599498 C
1 C
2599499 TTATCTGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.49
Consensus pattern (20 bp):
CCATTCTTATTATGTGTTCG
Found at i:2605880 original size:14 final size:14
Alignment explanation
Indices: 2605863--2605898 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2605853 AAAAAAAATT
2605863 AAAAGAAAGAAA-A
1 AAAAGAAAGAAAGA
2605876 GAAAAGAAAGAAAGA
1 -AAAAGAAAGAAAGA
2605891 AAAAGAAA
1 AAAAGAAA
2605899 AATTGTGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 20 0.95
15 1 0.05
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAGAAAGAAAGA
Found at i:2607506 original size:2 final size:2
Alignment explanation
Indices: 2607499--2607538 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2607489 GTTATTCCTC
2607499 TA 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 TA
2607539 CATTATGATC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2609666 original size:3 final size:3
Alignment explanation
Indices: 2609658--2609701 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
2609648 CTTTTGTATC
*
2609658 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATC ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2609702 TGTGTTGCTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2612488 original size:2 final size:2
Alignment explanation
Indices: 2612469--2612512 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
2612459 GTACCTTCCC
* *
2612469 CT CT CT CC CT CT CC 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 CT
2612511 CT
1 CT
2612513 GTCCCCCTCG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (2 bp):
CT
Found at i:2613725 original size:25 final size:26
Alignment explanation
Indices: 2613697--2613752 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
2613687 AACATATTGC
* *
2613697 TTAAAAATTA-TTTAAT-TATTATTTT
1 TTAAAAAATACTTTAATATATT-TTTA
2613722 TTAAAAAATACTTTAATATATTTTTA
1 TTAAAAAATACTTTAATATATTTTTA
2613748 TTAAA
1 TTAAA
2613753 TTTAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 9 0.33
26 14 0.52
27 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (26 bp):
TTAAAAAATACTTTAATATATTTTTA
Found at i:2614467 original size:2 final size:2
Alignment explanation
Indices: 2614460--2614503 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2614450 AGACCTTCAA
2614460 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
2614502 AT
1 AT
2614504 TCAAAGATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2615787 original size:2 final size:2
Alignment explanation
Indices: 2615780--2615820 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2615770 CCATTTCTTG
2615780 TA TA 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 TA TA T
2615821 TGCTAACTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2616759 original size:2 final size:2
Alignment explanation
Indices: 2616718--2616748 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2616708 GTACAAATTG
2616718 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
2616749 CAGTTTATAT
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:2617267 original size:22 final size:20
Alignment explanation
Indices: 2617220--2617269 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
2617210 TATATTAATT
*
2617220 TTTATATTTTATAATATTATA
1 TTTATA-TTTAAAATATTATA
*
2617241 ATTATATTTAAAATATTTTATA
1 TTTATATTTAAAATA--TTATA
2617263 TTTATAT
1 TTTATAT
2617270 AAATTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 8 0.33
21 5 0.21
22 11 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTATATTTAAAATATTATA
Found at i:2617272 original size:20 final size:20
Alignment explanation
Indices: 2617219--2617272 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
2617209 GTATATTAAT
2617219 TTTTATATTT-TAT--AATA
1 TTTTATATTTATATAAAATA
* *
2617236 TTATA-ATTATATTTAAAATA
1 TTTTATATT-TATATAAAATA
2617256 TTTTATATTTATATAAA
1 TTTTATATTTATATAAA
2617273 TTTTATTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
16 3 0.11
17 5 0.18
18 2 0.07
20 15 0.54
21 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTATATTTATATAAAATA
Found at i:2621277 original size:2 final size:2
Alignment explanation
Indices: 2621270--2621297 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2621260 TTTGAAGACA
2621270 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
2621298 GCACGGAAAA
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:2624931 original size:16 final size:17
Alignment explanation
Indices: 2624910--2624948 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
2624900 ACAGTAACAA
2624910 TTCTTTCT-TTTTCTTT
1 TTCTTTCTCTTTTCTTT
2624926 TTCTTT-TCTTTTCTTT
1 TTCTTTCTCTTTTCTTT
*
2624942 TTTTTTC
1 TTCTTTC
2624949 CCAAAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTCTTTCTCTTTTCTTT
Found at i:2633867 original size:2 final size:2
Alignment explanation
Indices: 2633860--2633884 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2633850 GTATGCAACA
2633860 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
2633885 AACAATTTTC
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:2634260 original size:21 final size:21
Alignment explanation
Indices: 2634235--2634280 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2634225 AATGATCAGT
*
2634235 TTAATTTATTTAAATTAAAAA
1 TTAATTTAATTAAATTAAAAA
* *
2634256 TTAATTTAATTAAATTTAATA
1 TTAATTTAATTAAATTAAAAA
2634277 TTAA
1 TTAA
2634281 AATTAATCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAATTTAATTAAATTAAAAA
Found at i:2634268 original size:16 final size:17
Alignment explanation
Indices: 2634237--2634309 Score: 51
Period size: 21 Copynumber: 4.1 Consensus size: 17
2634227 TGATCAGTTT
*
2634237 AATTTATTTAAATTAAA
1 AATTAATTTAAATTAAA
2634254 AATTAATTT-AATT-AA
1 AATTAATTTAAATTAAA
*
2634269 ATTTAATATTAAAATTAATCA
1 AATTAAT-TT-AAATTAA--A
*
2634290 TATTAATTTTAAAATTAAA
1 AATTAA-TTT-AAATTAAA
2634309 A
1 A
2634310 TAATTAAACT
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
15 8 0.18
16 6 0.14
17 8 0.18
18 4 0.09
19 2 0.05
21 15 0.34
22 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTAATTTAAATTAAA
Found at i:2634272 original size:27 final size:27
Alignment explanation
Indices: 2634234--2634309 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
2634224 AAATGATCAG
*
2634234 TTTAATT-TATTTAAATTAAAAATTAA
1 TTTAATTAAATTTAAATTAAAAATTAA
2634260 TTTAATTAAATTTAATATT-AAAATTAA
1 TTTAATTAAATTTAA-ATTAAAAATTAA
* *
2634287 -TCATATTAATTTTAAAATTAAAA
1 TTTA-ATTAAATTT-AAATTAAAA
2634310 TAATTAAACT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
26 9 0.21
27 25 0.60
28 8 0.19
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (27 bp):
TTTAATTAAATTTAAATTAAAAATTAA
Found at i:2634310 original size:27 final size:27
Alignment explanation
Indices: 2634242--2634310 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
2634232 AGTTTAATTT
*
2634242 ATTT-AAATTAAAAATTAATTTAATTAA
1 ATTTAAAATT-AAAATTAATATAATTAA
*
2634269 ATTTAATATTAAAATTAATCAT-ATTAA
1 ATTTAAAATTAAAATTAAT-ATAATTAA
*
2634296 TTTTAAAATTAAAAT
1 ATTTAAAATTAAAAT
2634311 AATTAAACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 31 0.86
28 5 0.14
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (27 bp):
ATTTAAAATTAAAATTAATATAATTAA
Found at i:2634315 original size:21 final size:21
Alignment explanation
Indices: 2634271--2634316 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2634261 TTAATTAAAT
*
2634271 TTAATATTAAAATTAATCATA
1 TTAATATTAAAATTAATAATA
*
2634292 TTAATTTTAAAATTAA-AATAA
1 TTAATATTAAAATTAATAAT-A
2634313 TTAA
1 TTAA
2634317 ACTAATATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAATATTAAAATTAATAATA
Found at i:2648634 original size:23 final size:26
Alignment explanation
Indices: 2648587--2648637 Score: 72
Period size: 23 Copynumber: 2.1 Consensus size: 26
2648577 TATGAAAGTG
2648587 ATTTTAATATTATTGTTTTAATTAAA
1 ATTTTAATATTATTGTTTTAATTAAA
*
2648613 ATTTTAA-A-TATT-TTTTATTTAAA
1 ATTTTAATATTATTGTTTTAATTAAA
2648636 AT
1 AT
2648638 AATATTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 12 0.50
24 4 0.17
25 1 0.04
26 7 0.29
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (26 bp):
ATTTTAATATTATTGTTTTAATTAAA
Found at i:2653178 original size:2 final size:2
Alignment explanation
Indices: 2653173--2653215 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2653163 GAAAAAAAGA
2653173 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
2653215 A
1 A
2653216 GAGAGAGAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2653220 original size:2 final size:2
Alignment explanation
Indices: 2653215--2653239 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2653205 ATATATATAT
2653215 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 A
2653240 TAGGCAGATA
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2659347 original size:21 final size:21
Alignment explanation
Indices: 2659323--2659383 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
2659313 AAATTTATCT
**
2659323 AAATTATATCAAATTTTATTA
1 AAATTATATCAAAAATTATTA
*
2659344 AAATTATATTAAAAATTATTA
1 AAATTATATCAAAAATTATTA
* *
2659365 AAATTATATTAAAAGTTAT
1 AAATTATATCAAAAATTAT
2659384 AACAAATGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
AAATTATATCAAAAATTATTA
Found at i:2659358 original size:12 final size:11
Alignment explanation
Indices: 2659323--2659384 Score: 74
Period size: 11 Copynumber: 5.7 Consensus size: 11
2659313 AAATTTATCT
*
2659323 AAATTATA-TC
1 AAATTATATTA
*
2659333 AAATTTTATTA
1 AAATTATATTA
2659344 AAATTATATTA
1 AAATTATATTA
*
2659355 AAAAT-TATTA
1 AAATTATATTA
2659365 AAATTATATTA
1 AAATTATATTA
2659376 AAAGTTATA
1 AAA-TTATA
2659385 ACAAATGGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
10 16 0.36
11 23 0.52
12 5 0.11
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (11 bp):
AAATTATATTA
Found at i:2660186 original size:21 final size:21
Alignment explanation
Indices: 2660160--2660225 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
2660150 TTCATTAACA
2660160 ATATTAAAAGTTACTAAAATT
1 ATATTAAAAGTTACTAAAATT
* *
2660181 ATATTAAAAATGA-TCAAAATT
1 ATATTAAAAGTTACT-AAAATT
*
2660202 ATATT-AAAGATTACTATAATT
1 ATATTAAAAG-TTACTAAAATT
2660223 ATA
1 ATA
2660226 ACAATAAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
20 4 0.11
21 32 0.86
22 1 0.03
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (21 bp):
ATATTAAAAGTTACTAAAATT
Found at i:2660313 original size:21 final size:20
Alignment explanation
Indices: 2660286--2660377 Score: 85
Period size: 21 Copynumber: 4.3 Consensus size: 20
2660276 AGTTTTATAA
2660286 AAAATTATATAAAAATATACC
1 AAAATTATATAAAAAT-TACC
* *
2660307 CAAATTATTTAAACAATTACC
1 AAAATTATATAAA-AATTACC
* *
2660328 AAAATTAAATAAAAATTTATC
1 AAAATTATATAAAAA-TTACC
* *
2660349 AAAATGATACAAAAAATTTACC
1 AAAATTATA-TAAAAA-TTACC
2660371 AAAATTA
1 AAAATTA
2660378 CATTAATGAT
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
20 2 0.04
21 36 0.63
22 19 0.33
ACGTcount: A:0.59, C:0.11, G:0.01, T:0.29
Consensus pattern (20 bp):
AAAATTATATAAAAATTACC
Found at i:2660947 original size:3 final size:3
Alignment explanation
Indices: 2660931--2660972 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
2660921 GTTTTAAAAA
*
2660931 AAT ATAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2660973 ACCGCTATAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2661746 original size:2 final size:2
Alignment explanation
Indices: 2661739--2661778 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
2661729 CAATGAACTA
*
2661739 AT AT AT AT AT AT AA 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
2661779 TATGTATCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2667763 original size:182 final size:182
Alignment explanation
Indices: 2667456--2667820 Score: 622
Period size: 182 Copynumber: 2.0 Consensus size: 182
2667446 TCAAAACGGT
* * * *
2667456 AGTTGAAGTGAAACACTGTCAGTGATTTGAAGTTGTCCACTTACTTCAACTTATATGCTCTTTGG
1 AGTTGAAATAAAACACTCTCAGTGATTTGAAGTTGTCCACTTACTCCAACTTATATGCTCTTTGG
*
2667521 TAGAGTCTTTGCCTTGAGCAGCAAGCATTTTTTGCCATCTAAAATCTTTTTCACCATTATTCAAT
66 TAGAGTCTTTGCCTTGAGCAGCAAGCATTTTTTGCCATCTAAAATATTTTTCACCATTATTCAAT
2667586 CAAACCCTTGGCTGCAACTTAGTCAAAATTTTATGGTTTTTTCACTTTATTA
131 CAAACCCTTGGCTGCAACTTAGTCAAAATTTTATGGTTTTTTCACTTTATTA
*
2667638 AGTTGAAATAAAACACTCTCAGTGATTTGAAGTTGTCCGCTTACTCCAACTTATATGCTCTTTGG
1 AGTTGAAATAAAACACTCTCAGTGATTTGAAGTTGTCCACTTACTCCAACTTATATGCTCTTTGG
* * *
2667703 TAGATTCTTTGCCTTGAGCAGCAAGCATTTTTTGCCTTGTAAAATATTTTTCACCATTATTCAAT
66 TAGAGTCTTTGCCTTGAGCAGCAAGCATTTTTTGCCATCTAAAATATTTTTCACCATTATTCAAT
* * *
2667768 CAAACCCTTGGCTGCAACTTAGTCCAAATTTTGTGGTTTTTTCCCTTTATTA
131 CAAACCCTTGGCTGCAACTTAGTCAAAATTTTATGGTTTTTTCACTTTATTA
2667820 A
1 A
2667821 CCACATCCCA
Statistics
Matches: 171, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
182 171 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.40
Consensus pattern (182 bp):
AGTTGAAATAAAACACTCTCAGTGATTTGAAGTTGTCCACTTACTCCAACTTATATGCTCTTTGG
TAGAGTCTTTGCCTTGAGCAGCAAGCATTTTTTGCCATCTAAAATATTTTTCACCATTATTCAAT
CAAACCCTTGGCTGCAACTTAGTCAAAATTTTATGGTTTTTTCACTTTATTA
Found at i:2669341 original size:2 final size:2
Alignment explanation
Indices: 2669334--2669375 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2669324 TGAATAAGGA
2669334 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
2669376 GCATCTATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2673052 original size:24 final size:22
Alignment explanation
Indices: 2673025--2673083 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
2673015 GGGTTATTCT
*
2673025 ATTAGTATTAATATTTATAAGTTA
1 ATTAATATTAATATTTATAA--TA
*
2673049 ATTAATA-TATTATTTATAATA
1 ATTAATATTAATATTTATAATA
*
2673070 ATTATTATT-ATATT
1 ATTAATATTAATATT
2673084 AAATATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 12 0.40
22 1 0.03
23 11 0.37
24 6 0.20
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (22 bp):
ATTAATATTAATATTTATAATA
Found at i:2673073 original size:21 final size:23
Alignment explanation
Indices: 2673036--2673096 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
2673026 TTAGTATTAA
2673036 TATTTATAAGTTAATTA-A-TATAT
1 TATTTATAA--TAATTATATTATAT
2673059 TATTTATAATAATTATTATTATAT
1 TATTTATAATAATTA-TATTATAT
**
2673083 TAAATATAATAATT
1 TATTTATAATAATT
2673097 GATAATTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 6 0.18
23 10 0.30
24 17 0.52
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TATTTATAATAATTATATTATAT
Found at i:2673084 original size:24 final size:24
Alignment explanation
Indices: 2673049--2673096 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2673039 TTATAAGTTA
**
2673049 ATTAATATATTATTTATAATAATT
1 ATTAATATATTAAATATAATAATT
*
2673073 ATTATTATATTAAATATAATAATT
1 ATTAATATATTAAATATAATAATT
2673097 GATAATTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTAATATATTAAATATAATAATT
Found at i:2676297 original size:41 final size:41
Alignment explanation
Indices: 2676240--2676362 Score: 237
Period size: 41 Copynumber: 3.0 Consensus size: 41
2676230 AGGAAGCAAG
2676240 GAGTTAAAAGTCTATGTTCATTTAGTTTAGAAGGTTGAAGT
1 GAGTTAAAAGTCTATGTTCATTTAGTTTAGAAGGTTGAAGT
2676281 GAGTTAAAAGTCTATGTTCATTTAGTTTAGAAGGTTGAAGT
1 GAGTTAAAAGTCTATGTTCATTTAGTTTAGAAGGTTGAAGT
*
2676322 GAGTTAAAATTCTATGTTCATTTAGTTTAGAAGGTTGAAGT
1 GAGTTAAAAGTCTATGTTCATTTAGTTTAGAAGGTTGAAGT
2676363 ATATTTTCCT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 81 1.00
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.40
Consensus pattern (41 bp):
GAGTTAAAAGTCTATGTTCATTTAGTTTAGAAGGTTGAAGT
Found at i:2677054 original size:2 final size:2
Alignment explanation
Indices: 2677011--2677037 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2677001 TTAAGTAAAT
2677011 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2677038 CATCTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2678291 original size:2 final size:2
Alignment explanation
Indices: 2678284--2678316 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2678274 TCTTCAATAC
2678284 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 T
2678317 TTTATCTAGT
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2681734 original size:16 final size:17
Alignment explanation
Indices: 2681702--2681743 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
2681692 ATTAATCAAT
*
2681702 TAAATTAATATTTTAAA
1 TAAATTAATAATTTAAA
2681719 TAAATTAA-AATTTAAA
1 TAAATTAATAATTTAAA
2681735 TAAATTAAT
1 TAAATTAAT
2681744 TGAATATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATTAATAATTTAAA
Found at i:2688910 original size:29 final size:28
Alignment explanation
Indices: 2688862--2688928 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 28
2688852 ATAAAAACGT
*
2688862 TATAAATATATAAATATATTAAAATTTA
1 TATAAATATATAAATATATTAAAATGTA
* * *
2688890 TATAATATATATTAATCTATTATAATGTA
1 TATAA-ATATATAAATATATTAAAATGTA
2688919 TATAAATATA
1 TATAAATATA
2688929 ATATTTTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 10 0.29
29 24 0.71
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (28 bp):
TATAAATATATAAATATATTAAAATGTA
Found at i:2689154 original size:15 final size:15
Alignment explanation
Indices: 2689134--2689164 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2689124 TATTAAATAA
2689134 TAATTTAAATTAAAT
1 TAATTTAAATTAAAT
2689149 TAATTTAAATTAAAT
1 TAATTTAAATTAAAT
2689164 T
1 T
2689165 TTTATCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAATTTAAATTAAAT
Found at i:2698367 original size:13 final size:13
Alignment explanation
Indices: 2698349--2698374 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2698339 AAAATGACGT
2698349 GGCAACTTTTAGA
1 GGCAACTTTTAGA
2698362 GGCAACTTTTAGA
1 GGCAACTTTTAGA
2698375 CTAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GGCAACTTTTAGA
Found at i:2702282 original size:3 final size:3
Alignment explanation
Indices: 2702274--2702322 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
2702264 ATGGTTAGAG
2702274 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2702322 A
1 A
2702323 GATTTTAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2702685 original size:10 final size:10
Alignment explanation
Indices: 2702643--2702757 Score: 99
Period size: 11 Copynumber: 11.1 Consensus size: 10
2702633 AATATAACTC
*
2702643 TTAATAAAACT
1 TTAAT-AAATT
*
2702654 TTAA-AATTT
1 TTAATAAATT
2702663 TTAATATAATT
1 TTAATA-AATT
*
2702674 TTGATAAATT
1 TTAATAAATT
* *
2702684 TTAATATGAGT
1 TTAATA-AATT
2702695 TTAAT-AATT
1 TTAATAAATT
2702704 TTAATAAATT
1 TTAATAAATT
2702714 TTAATAAATTT
1 TTAATAAA-TT
*
2702725 TTAATAATTT
1 TTAATAAATT
*
2702735 TTAATATATTT
1 TTAATA-AATT
2702746 TTAATAACATT
1 TTAATAA-ATT
2702757 T
1 T
2702758 GCTATACATT
Statistics
Matches: 86, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
9 14 0.16
10 31 0.36
11 41 0.48
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (10 bp):
TTAATAAATT
Found at i:2702698 original size:41 final size:41
Alignment explanation
Indices: 2702653--2702730 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
2702643 TTAATAAAAC
*
2702653 TTTAA-AATTTTTAATATAATTTTGATAAA-TTTTAATATGAG
1 TTTAATAA-TTTTAATA-AATTTTAATAAATTTTTAATATGAG
2702694 TTTAATAATTTTAATAAATTTTAATAAATTTTTAATA
1 TTTAATAATTTTAATAAATTTTAATAAATTTTTAATA
2702731 ATTTTTAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
40 11 0.32
41 21 0.62
42 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (41 bp):
TTTAATAATTTTAATAAATTTTAATAAATTTTTAATATGAG
Found at i:2702752 original size:21 final size:20
Alignment explanation
Indices: 2702643--2702757 Score: 108
Period size: 21 Copynumber: 5.5 Consensus size: 20
2702633 AATATAACTC
*
2702643 TTAATAAAACTTTAA-AATTT
1 TTAAT-AAATTTTAATAATTT
* *
2702663 TTAATATAATTTTGATAAATT
1 TTAATA-AATTTTAATAATTT
* *
2702684 TTAATATGAGTTTAATAA-TT
1 TTAATA-AATTTTAATAATTT
2702704 TTAATAAATTTTAATAAATTT
1 TTAATAAATTTTAAT-AATTT
*
2702725 TTAATAATTTTTAATATATTT
1 TTAATAAATTTTAATA-ATTT
2702746 TTAATAACATTT
1 TTAATAA-ATTT
2702758 GCTATACATT
Statistics
Matches: 79, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
19 8 0.10
20 22 0.28
21 46 0.58
22 3 0.04
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (20 bp):
TTAATAAATTTTAATAATTT
Found at i:2702829 original size:21 final size:21
Alignment explanation
Indices: 2702804--2702843 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2702794 TAAATATGAT
2702804 ATAATTTTAATAATATTTAAA
1 ATAATTTTAATAATATTTAAA
*
2702825 ATAATTTTAATAATTTTTA
1 ATAATTTTAATAATATTTA
2702844 TATATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAATTTTAATAATATTTAAA
Found at i:2702995 original size:31 final size:31
Alignment explanation
Indices: 2702960--2703022 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
2702950 GCATTGTTTC
2702960 ATAGTTTTAACGATTAGAATTTAAACTATGT
1 ATAGTTTTAACGATTAGAATTTAAACTATGT
2702991 ATAGTTTTAACGATTAGAATTTAAACTATGT
1 ATAGTTTTAACGATTAGAATTTAAACTATGT
2703022 A
1 A
2703023 CCGGTTGGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (31 bp):
ATAGTTTTAACGATTAGAATTTAAACTATGT
Found at i:2713471 original size:21 final size:21
Alignment explanation
Indices: 2713447--2713495 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
2713437 CAGAACTAAA
*
2713447 AACCATTGGTTGACTATACTG
1 AACCATTGGTTGACTATAATG
2713468 AACCATTGGTTGACTATAATG
1 AACCATTGGTTGACTATAATG
2713489 AACCATT
1 AACCATT
2713496 TCAGGGTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (21 bp):
AACCATTGGTTGACTATAATG
Found at i:2714506 original size:5 final size:5
Alignment explanation
Indices: 2714498--2714528 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
2714488 CTCTGATCTG
2714498 CTCTT CTCTT CTCTT CTCTT CTCTT CTCTT C
1 CTCTT CTCTT CTCTT CTCTT CTCTT CTCTT C
2714529 GTAAGGCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (5 bp):
CTCTT
Found at i:2720593 original size:26 final size:25
Alignment explanation
Indices: 2720564--2720622 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
2720554 GCAATAATAC
*
2720564 TAAATTAATTAATAATTTTTAAAAAA
1 TAAATTAATTAATAA-TATTAAAAAA
* * *
2720590 TAAATAAATTTATAATATTAAATAA
1 TAAATTAATTAATAATATTAAAAAA
2720615 TACAATTA
1 TA-AATTA
2720623 GATATTATTG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
TAAATTAATTAATAATATTAAAAAA
Found at i:2722365 original size:16 final size:16
Alignment explanation
Indices: 2722336--2722374 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
2722326 TCTTCTTTTC
2722336 TATTTATA--ATATTA
1 TATTTATATTATATTA
*
2722350 TTTTTATATTATATTA
1 TATTTATATTATATTA
2722366 TATTTATAT
1 TATTTATAT
2722375 ATTTTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 7 0.33
16 14 0.67
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTATATTATATTA
Found at i:2723186 original size:16 final size:16
Alignment explanation
Indices: 2723139--2723201 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
2723129 TTTTATTTTT
*
2723139 TAAAAAATAAATAAAAA
1 TAAAAAATAAA-AAATA
* **
2723156 TTAAAAAGTCTAAAATA
1 -TAAAAAATAAAAAATA
* *
2723173 TAAAATATAAAAAATC
1 TAAAAAATAAAAAATA
2723189 TAAAAAATAAAAA
1 TAAAAAATAAAAA
2723202 TTCAGTTCTA
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
16 23 0.66
17 4 0.11
18 8 0.23
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.22
Consensus pattern (16 bp):
TAAAAAATAAAAAATA
Found at i:2723675 original size:22 final size:20
Alignment explanation
Indices: 2723638--2723677 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
2723628 AATTTTATAT
*
2723638 TATTTAATTATTTTTAAAAA
1 TATTTAATTATATTTAAAAA
2723658 TATTTATATTTATATTTAAA
1 TATTTA-A-TTATATTTAAA
2723678 TAAATAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTTAATTATATTTAAAAA
Found at i:2736962 original size:15 final size:15
Alignment explanation
Indices: 2736942--2736997 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
2736932 ATTTAACTTT
2736942 TAATTTATAATTAAA
1 TAATTTATAATTAAA
**
2736957 TAATTTATTAATT-TT
1 TAATTTA-TAATTAAA
2736972 TAATTTAT-ATTAAA
1 TAATTTATAATTAAA
2736986 TTAATTT-TAATT
1 -TAATTTATAATT
2736998 TTTAATATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
13 3 0.09
14 2 0.06
15 23 0.70
16 5 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAATTTATAATTAAA
Found at i:2736975 original size:30 final size:29
Alignment explanation
Indices: 2736933--2737012 Score: 103
Period size: 28 Copynumber: 2.8 Consensus size: 29
2736923 AAATATAAAA
*
2736933 TTTAACTTTTAATTTATAATTAAA-TAATT
1 TTTAATTTTTAATTTATAATTAAATTAA-T
2736962 TATTAATTTTTAATTTAT-ATTAAATTAAT
1 T-TTAATTTTTAATTTATAATTAAATTAAT
*
2736991 TTTAATTTTTAATATA-AATTAA
1 TTTAATTTTTAATTTATAATTAA
2737013 TTTTTTATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
28 19 0.41
29 9 0.20
30 18 0.39
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTAATTTTTAATTTATAATTAAATTAAT
Found at i:2737008 original size:23 final size:21
Alignment explanation
Indices: 2736963--2737016 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 21
2736953 TAAATAATTT
2736963 ATTAATTTTTAATTTATATTAA
1 ATTAA-TTTTAATTTATATTAA
*
2736985 ATTAATTTTAATTTTTAATATAA
1 ATTAATTTTAATTTAT-AT-TAA
2737008 ATTAATTTT
1 ATTAATTTT
2737017 TTATTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 10 0.34
22 7 0.24
23 12 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTAATTTTAATTTATATTAA
Found at i:2737029 original size:22 final size:22
Alignment explanation
Indices: 2736963--2737030 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
2736953 TAAATAATTT
* * *
2736963 ATTAATTTTTAATTTATATTAA
1 ATTAATTTTTTATTTAAAATAA
*
2736985 ATTAATTTTAATT-TTTAATATAA
1 ATTAATTTT--TTATTTAAAATAA
2737008 ATTAATTTTTTATTTAAAATAA
1 ATTAATTTTTTATTTAAAATAA
2737030 A
1 A
2737031 AACCTATTCG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 2 0.05
22 19 0.50
23 16 0.42
24 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTAATTTTTTATTTAAAATAA
Found at i:2741655 original size:22 final size:23
Alignment explanation
Indices: 2741627--2741669 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2741617 TGAGAGATTA
2741627 TTTA-TTTGT-CATCTTAATTTTT
1 TTTATTTTGTGCAT-TTAATTTTT
2741649 TTTATTTTGTGCATTTAATTT
1 TTTATTTTGTGCATTTAATTT
2741670 ATTATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.21
23 12 0.63
24 3 0.16
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (23 bp):
TTTATTTTGTGCATTTAATTTTT
Found at i:2752484 original size:16 final size:16
Alignment explanation
Indices: 2752463--2752519 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
2752453 TATTATGATC
2752463 AATTATAATAAATATA
1 AATTATAATAAATATA
* *
2752479 AATTATAAAAAAAATAA
1 AATTATAATAAATAT-A
2752496 AATTAT--TAAATA-A
1 AATTATAATAAATATA
2752509 TAATTATAATA
1 -AATTATAATA
2752520 TTTTATTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
13 1 0.03
14 6 0.18
15 4 0.12
16 15 0.45
17 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTATAATAAATATA
Found at i:2752552 original size:17 final size:18
Alignment explanation
Indices: 2752509--2752556 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
2752499 TATTAAATAA
2752509 TAATTATAATATTTTATTAC
1 TAATTA-AAT-TTTTATTAC
* *
2752529 TATTTAAATTTTTA-TAT
1 TAATTAAATTTTTATTAC
2752546 TAATTAAATTT
1 TAATTAAATTT
2752557 ATCAAATGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 12 0.48
18 5 0.20
19 3 0.12
20 5 0.20
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TAATTAAATTTTTATTAC
Found at i:2759553 original size:1 final size:1
Alignment explanation
Indices: 2759547--2759571 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
2759537 TGAGCTGGTT
2759547 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
2759572 GAAATTCCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:2759876 original size:24 final size:23
Alignment explanation
Indices: 2759844--2759915 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 23
2759834 CCTGCTAGCC
*
2759844 CTCTCGCACCCGAGCCTTCCAGT
1 CTCTTGCACCCGAGCCTTCCAGT
* * **
2759867 CAAT-TTGCACCTGAGCCTGCTGGT
1 C--TCTTGCACCCGAGCCTTCCAGT
2759891 GCTCTTGCACCCGAGCCTTCCAGT
1 -CTCTTGCACCCGAGCCTTCCAGT
2759915 C
1 C
2759916 CATCTGATGA
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
23 3 0.08
24 31 0.86
25 2 0.06
ACGTcount: A:0.14, C:0.40, G:0.21, T:0.25
Consensus pattern (23 bp):
CTCTTGCACCCGAGCCTTCCAGT
Found at i:2763772 original size:2 final size:2
Alignment explanation
Indices: 2763765--2763794 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2763755 CATTAAATTG
2763765 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
2763795 CCTACAGCAA
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:2766693 original size:22 final size:22
Alignment explanation
Indices: 2766668--2766710 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2766658 AGTATCTCTT
*
2766668 TTGGCGACATTAATCATGAATG
1 TTGGCCACATTAATCATGAATG
2766690 TTGGCCACATTAATCATGAAT
1 TTGGCCACATTAATCATGAAT
2766711 ATTGAATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (22 bp):
TTGGCCACATTAATCATGAATG
Found at i:2766971 original size:21 final size:21
Alignment explanation
Indices: 2766947--2766986 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2766937 ATAGTAATTC
2766947 AATTAAAATG-TTAAAATTTTT
1 AATT-AAATGATTAAAATTTTT
2766968 AATTAAATGATTAAAATTT
1 AATTAAATGATTAAAATTT
2766987 AAACTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (21 bp):
AATTAAATGATTAAAATTTTT
Found at i:2767373 original size:30 final size:29
Alignment explanation
Indices: 2767313--2767377 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
2767303 ATAATATGTT
* *
2767313 AATAAATTTTTAATTTTATTTTACATTTA
1 AATAAATTTTTAACTTTATTTTACAGTTA
**
2767342 AATAAATTTTTAACCTTTATTTTTTAGTTA
1 AATAAATTTTTAA-CTTTATTTTACAGTTA
2767372 AATAAA
1 AATAAA
2767378 CTCTTAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 13 0.42
30 18 0.58
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.54
Consensus pattern (29 bp):
AATAAATTTTTAACTTTATTTTACAGTTA
Found at i:2771375 original size:2 final size:2
Alignment explanation
Indices: 2771368--2771392 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2771358 ATGTTTTCTA
2771368 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
2771393 ATTTTTAACT
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:2783398 original size:35 final size:35
Alignment explanation
Indices: 2783352--2783424 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
2783342 AATTTATCTA
2783352 TATAAGAACATTCTATTATTATATTATAAAATAAT
1 TATAAGAACATTCTATTATTATATTATAAAATAAT
*
2783387 TATAAGCACATTCTATTATTATATTATAAAATAAT
1 TATAAGAACATTCTATTATTATATTATAAAATAAT
2783422 TAT
1 TAT
2783425 TTTTTTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.44
Consensus pattern (35 bp):
TATAAGAACATTCTATTATTATATTATAAAATAAT
Found at i:2784753 original size:2 final size:2
Alignment explanation
Indices: 2784746--2784780 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2784736 CATATTATGA
2784746 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
2784781 ACGTAATAAA
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:2785148 original size:55 final size:55
Alignment explanation
Indices: 2785088--2785201 Score: 174
Period size: 55 Copynumber: 2.1 Consensus size: 55
2785078 TAAGAGTAAT
2785088 TAATTACGTAAATATTATTAAAGATAATAACATTTTTAAAAAATTCAAGCTACAC
1 TAATTACGTAAATATTATTAAAGATAATAACATTTTTAAAAAATTCAAGCTACAC
* ** * * *
2785143 TAATTACGTGAATATTATTAAAGATGGTAACATTTTTAGAAGATTCAAGTTACAC
1 TAATTACGTAAATATTATTAAAGATAATAACATTTTTAAAAAATTCAAGCTACAC
2785198 TAAT
1 TAAT
2785202 ATATTTTTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.36
Consensus pattern (55 bp):
TAATTACGTAAATATTATTAAAGATAATAACATTTTTAAAAAATTCAAGCTACAC
Found at i:2786353 original size:2 final size:2
Alignment explanation
Indices: 2786346--2786377 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2786336 ATTTCAATGT
2786346 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
2786378 ATTTATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2788184 original size:2 final size:2
Alignment explanation
Indices: 2788177--2788232 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
2788167 ACCGAGGAAA
*
2788177 AG AG AG AG AC 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
2788219 AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG
2788233 CAAAAAATAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.02, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2797704 original size:13 final size:12
Alignment explanation
Indices: 2797688--2797730 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
2797678 ATCATCGATT
2797688 TTTATGATTAATA
1 TTTATGA-TAATA
*
2797701 TTTATAATAATTA
1 TTTATGATAA-TA
*
2797714 ATTATGATAATA
1 TTTATGATAATA
2797726 TTTAT
1 TTTAT
2797731 TATATCAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 9 0.36
13 16 0.64
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (12 bp):
TTTATGATAATA
Found at i:2800596 original size:21 final size:20
Alignment explanation
Indices: 2800563--2800603 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
2800553 ATTTTAATAT
2800563 TTATAATTTTTTA-TTAAAA
1 TTATAATTTTTTATTTAAAA
2800582 TTATAATCATTTTTATTTAAAA
1 TTATAAT--TTTTTATTTAAAA
2800604 AAAAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
21 6 0.32
22 6 0.32
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATAATTTTTTATTTAAAA
Found at i:2802685 original size:2 final size:2
Alignment explanation
Indices: 2802678--2802707 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2802668 ACATACATAC
2802678 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
2802708 GTAATTCTGC
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:2804733 original size:15 final size:16
Alignment explanation
Indices: 2804705--2804737 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
2804695 TCACTGCAGC
2804705 ATCCTATAATAAGTAT
1 ATCCTATAATAAGTAT
2804721 ATCCTAT-ATAAGTAT
1 ATCCTATAATAAGTAT
2804736 AT
1 AT
2804738 ATATAAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (16 bp):
ATCCTATAATAAGTAT
Found at i:2805277 original size:14 final size:16
Alignment explanation
Indices: 2805247--2805278 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2805237 ATTAAAAAAA
2805247 TTATAAATCTCATTTT
1 TTATAAATCTCATTTT
2805263 TTATAAAT-T-ATTTT
1 TTATAAATCTCATTTT
2805277 TT
1 TT
2805279 TTTAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 1 0.06
16 8 0.50
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATAAATCTCATTTT
Found at i:2808110 original size:2 final size:2
Alignment explanation
Indices: 2808103--2808149 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
2808093 CACAATCTAC
* * *
2808103 TA TA TA TA TA TA TA TA CA TA TA CA TA TA CA 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 TA TA
2808145 TA TA T
1 TA TA T
2808150 TTCTGTTATC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:2810836 original size:29 final size:29
Alignment explanation
Indices: 2810802--2810857 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
2810792 ACATTTTTCA
2810802 TGATAATTTTATATTA-AATTTATAATAAT
1 TGATAATTTTA-ATTATAATTTATAATAAT
*
2810831 TGATAATTTTAATTATAATTTTTAATA
1 TGATAATTTTAATTATAATTTATAATA
2810858 TTTTATTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (29 bp):
TGATAATTTTAATTATAATTTATAATAAT
Found at i:2811875 original size:13 final size:13
Alignment explanation
Indices: 2811857--2811881 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2811847 TTTTATTTTT
2811857 TTTGTTTTTTTAA
1 TTTGTTTTTTTAA
2811870 TTTGTTTTTTTA
1 TTTGTTTTTTTA
2811882 TTAAGAGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (13 bp):
TTTGTTTTTTTAA
Found at i:2812326 original size:20 final size:19
Alignment explanation
Indices: 2812301--2812340 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
2812291 TGCCTAAAAA
* *
2812301 TTATTTTATTTATTATATTT
1 TTATTTGATATATTA-ATTT
2812321 TTATTTGATATATTAATTT
1 TTATTTGATATATTAATTT
2812340 T
1 T
2812341 ATAAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (19 bp):
TTATTTGATATATTAATTT
Found at i:2813519 original size:2 final size:2
Alignment explanation
Indices: 2813512--2813549 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
2813502 AGAACCGAAA
2813512 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- 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
2813550 TCATGCGATC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2813703 original size:2 final size:2
Alignment explanation
Indices: 2813696--2813733 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2813686 CCAGAAAGAA
2813696 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
2813734 CGTCATCTAG
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):
AT
Found at i:2814325 original size:1 final size:1
Alignment explanation
Indices: 2814319--2814343 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
2814309 TTCTTAACTG
2814319 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
2814344 TTTATTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:2816248 original size:24 final size:24
Alignment explanation
Indices: 2816221--2816276 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
2816211 AACTCGTCCG
*
2816221 TTAAATTTC-ATAATTAATATTATT
1 TTAAATTTCAATAATTAATA-AATT
** *
2816245 TTAAAAATCAATATTTAATAAATT
1 TTAAATTTCAATAATTAATAAATT
2816269 TTAAATTT
1 TTAAATTT
2816277 AAATCTTTAG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (24 bp):
TTAAATTTCAATAATTAATAAATT
Found at i:2816299 original size:2 final size:2
Alignment explanation
Indices: 2816292--2816321 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2816282 TTTAGCTCTA
*
2816292 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2816322 GTGTAAGGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:2817910 original size:24 final size:22
Alignment explanation
Indices: 2817875--2817945 Score: 61
Period size: 28 Copynumber: 3.0 Consensus size: 22
2817865 TAACAAAATT
*
2817875 TAAATTATTATTATTTTTTAAA
1 TAAATCATTATTATTTTTTAAA
2817897 TAAATCCATATATTTTATTATATTTAAA
1 TAAAT-CAT-TA--TTATT-T-TTTAAA
* *
2817925 TAAATTATTATTATTATTTAA
1 TAAATCATTATTATTTTTTAA
2817946 TTTGTAACTA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
22 10 0.25
23 2 0.05
24 7 0.17
26 7 0.17
27 3 0.08
28 11 0.28
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (22 bp):
TAAATCATTATTATTTTTTAAA
Found at i:2818051 original size:28 final size:30
Alignment explanation
Indices: 2818020--2818082 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
2818010 TATTTATAAA
2818020 TAAATTATAATTAAAAAT-TAAGAATT-AT-
1 TAAATTATAA-TAAAAATATAAGAATTCATC
* *
2818048 TAAAATATAATAAAAATATAATAATTCATC
1 TAAATTATAATAAAAATATAAGAATTCATC
2818078 TAAAT
1 TAAAT
2818083 AAAATCATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 7 0.24
28 16 0.55
29 2 0.07
30 4 0.14
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.37
Consensus pattern (30 bp):
TAAATTATAATAAAAATATAAGAATTCATC
Found at i:2832160 original size:2 final size:2
Alignment explanation
Indices: 2832153--2832198 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
2832143 TTTTCAATGC
2832153 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2832194 AT AT A
1 AT AT A
2832199 CATACATATC
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:2839875 original size:22 final size:22
Alignment explanation
Indices: 2839849--2839890 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2839839 AAATTATAAA
2839849 TATTAAAAAGTAAATTTAAATT
1 TATTAAAAAGTAAATTTAAATT
* *
2839871 TATTAAACATTAAATTTAAA
1 TATTAAAAAGTAAATTTAAA
2839891 AAATAACTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
TATTAAAAAGTAAATTTAAATT
Found at i:2845306 original size:2 final size:2
Alignment explanation
Indices: 2845299--2845327 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2845289 TCAACAAGAA
2845299 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 A
2845328 GATAGGGGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2847863 original size:2 final size:2
Alignment explanation
Indices: 2847856--2847893 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2847846 CAAAGGAAAG
2847856 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
2847894 TATGGTGGTG
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2856892 original size:25 final size:27
Alignment explanation
Indices: 2856849--2856910 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
2856839 ATTAATTTTT
* *
2856849 TATATATTTTTAATTATT-ATTTATAAA
1 TATA-ATTTTTAATAATTAATTAATAAA
*
2856876 TATAATTTTT-ATAATTAATTAATGAA
1 TATAATTTTTAATAATTAATTAATAAA
*
2856902 TTTAATTTT
1 TATAATTTT
2856911 ATACATGTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 5 0.17
26 21 0.70
27 4 0.13
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
TATAATTTTTAATAATTAATTAATAAA
Found at i:2858008 original size:22 final size:24
Alignment explanation
Indices: 2857981--2858028 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
2857971 AGTTTTTTTT
2857981 AAATAAAA-AAATATAAAT-TTAA
1 AAATAAAATAAATATAAATATTAA
*
2858003 AAATAAAATAATTATAAATATTAA
1 AAATAAAATAAATATAAATATTAA
2858027 AA
1 AA
2858029 TTTAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.35
23 9 0.39
24 6 0.26
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (24 bp):
AAATAAAATAAATATAAATATTAA
Found at i:2858206 original size:2 final size:2
Alignment explanation
Indices: 2858193--2858225 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2858183 TCTGTTTGGA
*
2858193 AG AG AA 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 A
2858226 AAGGGGGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2858407 original size:2 final size:2
Alignment explanation
Indices: 2858402--2858439 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2858392 CCCCCCACCA
2858402 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
2858440 GAAACATTGA
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):
AT
Found at i:2862411 original size:16 final size:18
Alignment explanation
Indices: 2862392--2862436 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
2862382 TTTTTTATTT
2862392 TATATAT-TATGAA-ATA
1 TATATATATATGAATATA
* *
2862408 TATAGATATATGAATGTA
1 TATATATATATGAATATA
2862426 TATATATATAT
1 TATATATATAT
2862437 ATATATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 6 0.25
17 6 0.25
18 12 0.50
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (18 bp):
TATATATATATGAATATA
Found at i:2863654 original size:19 final size:19
Alignment explanation
Indices: 2863626--2863727 Score: 63
Period size: 19 Copynumber: 5.5 Consensus size: 19
2863616 AACCTCATTC
*
2863626 ATTAAATTTAATATAATAT
1 ATTAATTTTAATATAATAT
2863645 ATTAATTTT-AT-TAAT-T
1 ATTAATTTTAATATAATAT
* *
2863661 ACT--TTTT-ATATTATAT
1 ATTAATTTTAATATAATAT
* ** *
2863677 TTTAATTCTTTTTAGTAAAATT
1 ATTAATT-TTAATA-TAATA-T
*
2863699 ATTAAATTTAATATAATAT
1 ATTAATTTTAATATAATAT
2863718 ATTAATTTTA
1 ATTAATTTTA
2863728 TTAATTACCT
Statistics
Matches: 61, Mismatches: 14, Indels: 16
0.67 0.15 0.18
Matches are distributed among these distances:
14 6 0.10
15 3 0.05
16 5 0.08
17 4 0.07
18 4 0.07
19 20 0.33
20 6 0.10
21 7 0.11
22 6 0.10
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (19 bp):
ATTAATTTTAATATAATAT
Found at i:2863703 original size:22 final size:23
Alignment explanation
Indices: 2863652--2863703 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
2863642 TATATTAATT
*
2863652 TTATTAATTACTTTTTATATTATA
1 TTATTAATTACTTTTTATA-TAAA
2863676 TT-TTAATT-CTTTTTAGTA-AAA
1 TTATTAATTACTTTTTA-TATAAA
2863697 TTATTAA
1 TTATTAA
2863704 ATTTAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 4 0.16
22 11 0.44
23 8 0.32
24 2 0.08
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATTAATTACTTTTTATATAAA
Found at i:2863754 original size:73 final size:72
Alignment explanation
Indices: 2863626--2863762 Score: 220
Period size: 73 Copynumber: 1.9 Consensus size: 72
2863616 AACCTCATTC
* * * *
2863626 ATTAAATTTAATATAATATATTAATTTTATTAATTACTTTTTATATTATATTTTAATTCTTTTTA
1 ATTAAATTTAATATAATATATTAATTTTATTAATTACCTTTTAAATTACACTTTAATT-TTTTTA
2863691 GTAAAATT
65 GTAAAATT
*
2863699 ATTAAATTTAATATAATATATTAATTTTATTAATTACCTTTTAAATTACGCTTTAATTTTTTTA
1 ATTAAATTTAATATAATATATTAATTTTATTAATTACCTTTTAAATTACACTTTAATTTTTTTA
2863763 ACAAAATTTG
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
72 6 0.10
73 53 0.90
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.56
Consensus pattern (72 bp):
ATTAAATTTAATATAATATATTAATTTTATTAATTACCTTTTAAATTACACTTTAATTTTTTTAG
TAAAATT
Found at i:2865564 original size:2 final size:2
Alignment explanation
Indices: 2865559--2865610 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
2865549 ATATATATAT
2865559 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
2865601 AG AG AG AG AG
1 AG AG AG AG AG
2865611 TTATTTTGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2866921 original size:16 final size:16
Alignment explanation
Indices: 2866900--2866930 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2866890 ACCGTGATTA
*
2866900 ACAGTTTCTACTGATG
1 ACAGTTACTACTGATG
2866916 ACAGTTACTACTGAT
1 ACAGTTACTACTGAT
2866931 TAACTGAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
ACAGTTACTACTGATG
Found at i:2871876 original size:45 final size:44
Alignment explanation
Indices: 2871803--2871893 Score: 107
Period size: 45 Copynumber: 2.0 Consensus size: 44
2871793 TCTAGATGAA
* *
2871803 ATATATAAAAATTTTATAATATATATTATTTTCAT-ATAAAAATAT
1 ATATATAAAAATTTTATAATATAGATTATATT-ATAAT-AAAATAT
2871848 ATATATAAAAATATTT-TAA-ATACGATTATATTATAATAAAATAT
1 ATATATAAAAAT-TTTATAATATA-GATTATATTATAATAAAATAT
2871892 AT
1 AT
2871894 TAATATAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
44 14 0.34
45 24 0.59
46 3 0.07
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (44 bp):
ATATATAAAAATTTTATAATATAGATTATATTATAATAAAATAT
Found at i:2873512 original size:49 final size:49
Alignment explanation
Indices: 2873452--2873549 Score: 153
Period size: 49 Copynumber: 2.0 Consensus size: 49
2873442 AACTGACTTA
2873452 ATTAAAATTTAATCTTTTATATAACCTT-AAACAGGACAAACCGTCAATT
1 ATTAAAATTTAATCTTTTATATAACCTTGAAAC-GGACAAACCGTCAATT
* * *
2873501 ATTAAAATTTAATCTTTTATATAACTTTGAATCGGACGAACCGTCAATT
1 ATTAAAATTTAATCTTTTATATAACCTTGAAACGGACAAACCGTCAATT
2873550 CTTGATTCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 42 0.93
50 3 0.07
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (49 bp):
ATTAAAATTTAATCTTTTATATAACCTTGAAACGGACAAACCGTCAATT
Found at i:2886085 original size:14 final size:14
Alignment explanation
Indices: 2886061--2886094 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
2886051 TTAGTTGATT
2886061 TTAGTAATGATTGGA
1 TTAG-AATGATTGGA
2886076 TTAGAATGATTGGA
1 TTAGAATGATTGGA
2886090 TTAGA
1 TTAGA
2886095 CTTTTTACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.38
Consensus pattern (14 bp):
TTAGAATGATTGGA
Found at i:2888935 original size:18 final size:18
Alignment explanation
Indices: 2888912--2888947 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2888902 TAATTAAACT
2888912 CCACGTATATTCCAAGTG
1 CCACGTATATTCCAAGTG
2888930 CCACGTATATTCCAAGTG
1 CCACGTATATTCCAAGTG
2888948 GTTCTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (18 bp):
CCACGTATATTCCAAGTG
Found at i:2894506 original size:12 final size:12
Alignment explanation
Indices: 2894489--2894513 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2894479 TGTCTAGACC
2894489 TGACGATTCATG
1 TGACGATTCATG
2894501 TGACGATTCATG
1 TGACGATTCATG
2894513 T
1 T
2894514 ATTTGTGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (12 bp):
TGACGATTCATG
Found at i:2903137 original size:2 final size:2
Alignment explanation
Indices: 2903125--2903154 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2903115 GTTCATAGCT
*
2903125 TA TA CA 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
2903155 ATAACCAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2904613 original size:3 final size:3
Alignment explanation
Indices: 2904605--2904629 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2904595 TTAAATTTAA
2904605 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
2904630 TATCATATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Done.