Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 37 of 325
Found at i:11123291 original size:5 final size:5
Alignment explanation
Indices: 11123272--11123311 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
11123262 CTTTTGTCGT
11123272 TTTTA -TTTA -TTTA TTTTA TTTTA TTTTA -TTTA TTATTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TT
11123312 AACTTTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
4 12 0.38
5 15 0.47
6 5 0.16
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:11123378 original size:22 final size:22
Alignment explanation
Indices: 11123319--11123387 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
11123309 ATTAACTTTA
11123319 AAAATTTTGAAATATATA-TTTG
1 AAAATTTT-AAATATATATTTTG
*
11123341 AAATATTTTATTAATATATATTTTT
1 AAA-ATTTTA--AATATATATTTTG
*
11123366 TAAATTTTAAATATATATTTTG
1 AAAATTTTAAATATATATTTTG
11123388 GAATTACTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 16 0.40
23 5 0.12
24 14 0.35
25 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (22 bp):
AAAATTTTAAATATATATTTTG
Found at i:11123420 original size:22 final size:23
Alignment explanation
Indices: 11123390--11123433 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
11123380 ATATTTTGGA
*
11123390 ATTACTTTTTTAA-ATTTTAAAT
1 ATTACTTTTTAAATATTTTAAAT
*
11123412 ATTATTTTTTAAATATTTTAAA
1 ATTACTTTTTAAATATTTTAAA
11123434 CTTTCAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTACTTTTTAAATATTTTAAAT
Found at i:11123502 original size:21 final size:21
Alignment explanation
Indices: 11123461--11123502 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11123451 AGTTTTATAA
*
11123461 TAATTTAAATATTATTTAATT
1 TAATTTAAATATTATTAAATT
11123482 TAATTTATAATATT-TTAAATT
1 TAATTTA-AATATTATTAAATT
11123503 AGGATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATTTAAATATTATTAAATT
Found at i:11123750 original size:20 final size:19
Alignment explanation
Indices: 11123725--11123845 Score: 72
Period size: 18 Copynumber: 6.4 Consensus size: 19
11123715 ATCTTTCACT
11123725 TTTTTTTTACTTATTTATTA
1 TTTTTTTTACTT-TTTATTA
*
11123745 TTTTTTTTAGTTTTTTATTA
1 TTTTTTTTA-CTTTTTATTA
* * *
11123765 TCTTTTGT-CTTTTTTTTAA
1 TTTTTTTTACTTTTTATT-A
11123784 TTTTTTTT-CTTTTT-TTA
1 TTTTTTTTACTTTTTATTA
** * * *
11123801 AGTTTTATATTTTTTCTTA
1 TTTTTTTTACTTTTTATTA
* *
11123820 TTTTATTT--TGTTTACTTA
1 TTTTTTTTACTTTTTA-TTA
11123838 TTTTTTTT
1 TTTTTTTT
11123846 GTTATTAATT
Statistics
Matches: 78, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
17 10 0.13
18 24 0.31
19 20 0.26
20 22 0.28
21 2 0.03
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTTTTTTACTTTTTATTA
Found at i:11123777 original size:19 final size:19
Alignment explanation
Indices: 11123755--11123799 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
11123745 TTTTTTTTAG
11123755 TTTTTTATT-ATCTTTTGTC
1 TTTTTT-TTAATCTTTTGTC
* *
11123774 TTTTTTTTAATTTTTTTTC
1 TTTTTTTTAATCTTTTGTC
11123793 TTTTTTT
1 TTTTTTT
11123800 AAGTTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.82
Consensus pattern (19 bp):
TTTTTTTTAATCTTTTGTC
Found at i:11123857 original size:16 final size:18
Alignment explanation
Indices: 11123803--11123848 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
11123793 TTTTTTTAAG
11123803 TTTTATATTT-TTT-CTTA
1 TTTTAT-TTTGTTTACTTA
11123820 TTTTATTTTGTTTACTTA
1 TTTTATTTTGTTTACTTA
11123838 TTTT-TTTTGTT
1 TTTTATTTTGTT
11123849 ATTAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.11
17 16 0.59
18 8 0.30
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.78
Consensus pattern (18 bp):
TTTTATTTTGTTTACTTA
Found at i:11124363 original size:20 final size:19
Alignment explanation
Indices: 11124328--11124370 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
11124318 TATTTAAAAG
*
11124328 TTAAAAAATAATATTTTAA
1 TTAAAAAATAATATTTGAA
11124347 TTAAAAAAGTGAA-ATTTGAA
1 TTAAAAAA-T-AATATTTGAA
11124367 TTAA
1 TTAA
11124371 TTAGAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 8 0.38
20 11 0.52
21 2 0.10
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (19 bp):
TTAAAAAATAATATTTGAA
Found at i:11124408 original size:19 final size:20
Alignment explanation
Indices: 11124386--11124429 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
11124376 AAATAAAAAA
*
11124386 TATTTGTTAAAAAA-AGATT
1 TATTTGTTAAAAAATAAATT
11124405 TATTTGTTAAAAAATAAATT
1 TATTTGTTAAAAAATAAATT
11124425 TATTT
1 TATTT
11124430 AAAAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (20 bp):
TATTTGTTAAAAAATAAATT
Found at i:11124417 original size:20 final size:19
Alignment explanation
Indices: 11124386--11124429 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
11124376 AAATAAAAAA
11124386 TATTTGTTAAAAA-AAGATT
1 TATTTGTTAAAAATAA-ATT
11124405 TATTTGTTAAAAAATAAATT
1 TATTTGTT-AAAAATAAATT
11124425 TATTT
1 TATTT
11124430 AAAAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.35
20 13 0.57
21 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (19 bp):
TATTTGTTAAAAATAAATT
Found at i:11124425 original size:16 final size:16
Alignment explanation
Indices: 11124406--11124455 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
11124396 AAAAAGATTT
*
11124406 ATTTGTTAAAAAATAA
1 ATTTATTAAAAAATAA
* *
11124422 ATTTATTTAAAAATAT
1 ATTTATTAAAAAATAA
* *
11124438 ATATATTAAAAAGTAA
1 ATTTATTAAAAAATAA
11124454 AT
1 AT
11124456 ATTTAAATTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTTATTAAAAAATAA
Found at i:11124457 original size:16 final size:15
Alignment explanation
Indices: 11124414--11124462 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
11124404 TTATTTGTTA
*
11124414 AAAAATAAATTTATTT
1 AAAAATAAATATA-TT
*
11124430 AAAAATATATATATT
1 AAAAATAAATATATT
11124445 AAAAAGTAAATAT-TT
1 AAAAA-TAAATATATT
11124460 AAA
1 AAA
11124463 TTAAAAGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
AAAAATAAATATATT
Found at i:11124457 original size:20 final size:21
Alignment explanation
Indices: 11124432--11124490 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
11124422 ATTTATTTAA
11124432 AAATATATATATTAAAAAG-T
1 AAATATATATATTAAAAAGTT
* *
11124452 AAATATTTAAATT-AAAAGTT
1 AAATATATATATTAAAAAGTT
11124472 AAA-ACTATATATTATAAAA
1 AAATA-TATATATTA-AAAA
11124491 TTACATCATG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 6 0.19
20 21 0.68
22 4 0.13
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (21 bp):
AAATATATATATTAAAAAGTT
Found at i:11124949 original size:20 final size:20
Alignment explanation
Indices: 11124926--11124990 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
11124916 ATAATTTTTT
11124926 AATTTTAGTACACATTTATA
1 AATTTTAGTACACATTTATA
* * *
11124946 AATTTATA-TATGA-ATTTTTT
1 AATTT-TAGTA-CACATTTATA
*
11124966 AATTTTAGTACACATTCATA
1 AATTTTAGTACACATTTATA
11124986 AATTT
1 AATTT
11124991 ATGTACTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (20 bp):
AATTTTAGTACACATTTATA
Found at i:11125151 original size:71 final size:71
Alignment explanation
Indices: 11125064--11125215 Score: 241
Period size: 71 Copynumber: 2.1 Consensus size: 71
11125054 GGTTAATAAC
* * * * *
11125064 TTAAAGAAATTAAATATATTAAAAAATGTTATGTATAGCCAATTTTAAAATTTTAATATATTTAA
1 TTAAA-AAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAA
11125129 TATATTT
65 TATATTT
11125136 TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAAT
1 TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAAT
11125201 ATATTT
66 ATATTT
*
11125207 TTTAAAAAT
1 TTAAAAAAT
11125216 ATATTTTAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 69 0.93
72 5 0.07
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (71 bp):
TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAAT
ATATTT
Found at i:11125296 original size:17 final size:16
Alignment explanation
Indices: 11125274--11125336 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 16
11125264 AAAAATGATT
11125274 TTTTAATATATATAAAA
1 TTTTAA-ATATATAAAA
* *
11125291 TTTTAAAAAACGTAAAAAA
1 TTTT-AAATA--TATAAAA
*
11125310 ATTTAAATATATTAAAA
1 TTTTAAATATA-TAAAA
11125327 TTTTAAATAT
1 TTTTAAATAT
11125337 GTTAAAAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
16 2 0.06
17 19 0.53
18 6 0.17
19 9 0.25
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (16 bp):
TTTTAAATATATAAAA
Found at i:11125341 original size:17 final size:17
Alignment explanation
Indices: 11125306--11125343 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
11125296 AAAAACGTAA
11125306 AAAAATTTAAATATATT
1 AAAAATTTAAATATATT
* *
11125323 AAAATTTTAAATATGTT
1 AAAAATTTAAATATATT
11125340 AAAA
1 AAAA
11125344 GAAAATGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
AAAAATTTAAATATATT
Found at i:11127413 original size:30 final size:30
Alignment explanation
Indices: 11127377--11127479 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
11127367 CGCAGAGCAA
* * *
11127377 TTCATATCACTCAGACATTGCCGGTTCAAG
1 TTCATATCACCCAGACATAGGCGGTTCAAG
* *
11127407 TTCATATCACCCGGATATAGGCGGTTCAAG
1 TTCATATCACCCAGACATAGGCGGTTCAAG
* *
11127437 TTCATATCACCCAAACATAGGCGGTTCGAG
1 TTCATATCACCCAGACATAGGCGGTTCAAG
*
11127467 TTCATTTCACCCA
1 TTCATATCACCCA
11127480 AACCAACTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.28
Consensus pattern (30 bp):
TTCATATCACCCAGACATAGGCGGTTCAAG
Found at i:11131744 original size:16 final size:15
Alignment explanation
Indices: 11131717--11131787 Score: 53
Period size: 13 Copynumber: 4.8 Consensus size: 15
11131707 TCGTTAAAAT
11131717 TAATTTTAAAATTAA
1 TAATTTTAAAATTAA
11131732 TAATTTATAAAATT-A
1 TAATTT-TAAAATTAA
11131747 T-A-TTTAAAATTTAAA
1 TAATTTTAAAA-TT-AA
*
11131762 AAATATTTAAAA-T-A
1 TAAT-TTTAAAATTAA
*
11131776 TAAATTTAAAAT
1 TAATTTTAAAAT
11131788 ATTATAAAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 17
0.69 0.05 0.26
Matches are distributed among these distances:
12 5 0.11
13 11 0.24
14 4 0.09
15 9 0.20
16 9 0.20
18 7 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTTTAAAATTAA
Found at i:11131756 original size:12 final size:13
Alignment explanation
Indices: 11131710--11131757 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 13
11131700 TTGAATATCG
11131710 TTAAAATTA-ATT
1 TTAAAATTATATT
11131722 TTAAAATTAATAATT
1 TTAAAATT-AT-ATT
11131737 TATAAAATTATA-T
1 T-TAAAATTATATT
11131750 TTAAAATT
1 TTAAAATT
11131758 TAAAAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 15 0.47
13 3 0.09
14 1 0.03
15 6 0.19
16 7 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAAAATTATATT
Found at i:11132002 original size:115 final size:112
Alignment explanation
Indices: 11131730--11132002 Score: 311
Period size: 115 Copynumber: 2.4 Consensus size: 112
11131720 TTTTAAAATT
*
11131730 AATAATTTATAAAATTATATTTAAAATTTAAAAAATATTTAAAATATAAATTTAAAATATTATAA
1 AATAATTTA-AAAA-TATATTTAAAATTAAAAAAATATTTAAAATATAAATTTAAAATATTATAA
*
11131795 AACAAATAATAAATTTGAAATGTCATATCTTTAAAAATAATATACTTTA
64 AACAAATAATAAATTTAAAATGTCATATCTTTAAAAATAATATACTTTA
* * *
11131844 AATAATTTCAAAATCATAATTAAAAAATTATAAAACAA-A-TTAAAATATACATTTAAAATATTA
1 AATAATTTAAAAAT-AT-ATT-TAAAATTA-AAAA-AATATTTAAAATATAAATTTAAAATATTA
* **
11131907 TAAAACTAATAATAAATTTAAAATGTCATATCTTTAAAATATTTAA-ATGTTTTA
61 TAAAACAAATAATAAATTTAAAATGTCATATCTTTAAAA-A--TAATATACTTTA
* * *
11131961 TATTA-TTAAAAATATATTTAATAGTTAAAAATAATATTTAAA
1 AATAATTTAAAAATATATTTAA-AATTAAAAA-AATATTTAAA
11132003 TTTTTAAACA
Statistics
Matches: 134, Mismatches: 14, Indels: 21
0.79 0.08 0.12
Matches are distributed among these distances:
112 1 0.01
113 14 0.10
114 19 0.14
115 73 0.54
116 13 0.10
117 11 0.08
118 3 0.02
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (112 bp):
AATAATTTAAAAATATATTTAAAATTAAAAAAATATTTAAAATATAAATTTAAAATATTATAAAA
CAAATAATAAATTTAAAATGTCATATCTTTAAAAATAATATACTTTA
Found at i:11132072 original size:22 final size:24
Alignment explanation
Indices: 11132047--11132102 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
11132037 TTAGAAAAAT
*
11132047 AATTTCAAAAATGTATATT-T-AA
1 AATTTCAAAAATATATATTATAAA
*
11132069 AATTTTAAAAATATATATTATAAA
1 AATTTCAAAAATATATATTATAAA
11132093 ACATTTCAAA
1 A-ATTTCAAA
11132103 TATACATTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.61
23 1 0.04
24 3 0.11
25 7 0.25
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (24 bp):
AATTTCAAAAATATATATTATAAA
Found at i:11132145 original size:19 final size:19
Alignment explanation
Indices: 11132121--11132190 Score: 67
Period size: 18 Copynumber: 3.8 Consensus size: 19
11132111 TCAAGTTTTT
*
11132121 TAAAATTAATAATAAA-AAA
1 TAAAA-TAAAAATAAATAAA
11132140 TAAAATAAAAATAAATAAA
1 TAAAATAAAAATAAATAAA
* * *
11132159 T-AAATAAAGATAAAGACA
1 TAAAATAAAAATAAATAAA
11132177 -AAAATAAAAA-AAAT
1 TAAAATAAAAATAAAT
11132191 GTCAGAGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
17 3 0.07
18 31 0.72
19 9 0.21
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.20
Consensus pattern (19 bp):
TAAAATAAAAATAAATAAA
Found at i:11132171 original size:14 final size:12
Alignment explanation
Indices: 11132131--11132187 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
11132121 TAAAATTAAT
11132131 AATAAAAAATAA
1 AATAAAAAATAA
11132143 AAT-AAAAAT-A
1 AATAAAAAATAA
11132153 AATAAATAAATAA
1 AATAAA-AAATAA
*
11132166 AGATAAAGACA-AA
1 A-ATAAA-AAATAA
11132179 AATAAAAAA
1 AATAAAAAA
11132188 AATGTCAGAG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
10 4 0.11
11 10 0.26
12 12 0.32
13 5 0.13
14 7 0.18
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.16
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:11132290 original size:11 final size:11
Alignment explanation
Indices: 11132263--11132293 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
11132253 AATATTCAAA
11132263 ATTTAAAAAAT
1 ATTTAAAAAAT
11132274 AGTTTAAAAAAT
1 A-TTTAAAAAAT
11132286 ATTTAAAA
1 ATTTAAAA
11132294 TTTTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
ATTTAAAAAAT
Found at i:11132349 original size:23 final size:23
Alignment explanation
Indices: 11132287--11132349 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
11132277 TTAAAAAATA
* *
11132287 TTTAAAATTTTAAAAATATATAT
1 TTTAAAATTTTTAAAATATACAT
* ** *
11132310 TATAAAACATTTCAAATATACAT
1 TTTAAAATTTTTAAAATATACAT
*
11132333 TTTAAATTTTTTAAAAT
1 TTTAAAATTTTTAAAAT
11132350 TAATAACAAA
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTAAAATTTTTAAAATATACAT
Found at i:11132690 original size:14 final size:15
Alignment explanation
Indices: 11132671--11132703 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
11132661 ATCTTTAAAA
11132671 ATAATTTAAAA-ATT
1 ATAATTTAAAATATT
11132685 ATAATTTAAAATATT
1 ATAATTTAAAATATT
11132700 ATAA
1 ATAA
11132704 AACAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATTTAAAATATT
Found at i:11132798 original size:21 final size:22
Alignment explanation
Indices: 11132761--11132815 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 22
11132751 GAAAGTTTAA
11132761 AATATTTAAATATTTAAAAAA-T
1 AATATTTAAA-ATTTAAAAAAGT
11132783 AATATTTAAAATTTAAAAAAGT
1 AATATTTAAAATTTAAAAAAGT
*
11132805 AAT-TTCAAAAT
1 AATATTTAAAAT
11132816 ATATATTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAGT
Found at i:11132839 original size:22 final size:24
Alignment explanation
Indices: 11132806--11132862 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 24
11132796 TAAAAAAGTA
*
11132806 ATTTCAAAATATATATT-TAAAAT
1 ATTTAAAAATATATATTATAAAAT
11132829 -TTTAAAAATATATATTAATAAAAT
1 ATTTAAAAATATATATT-ATAAAAT
*
11132853 ATTTCAAAAT
1 ATTTAAAAAT
11132863 TTTTAAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 15 0.52
24 6 0.21
25 8 0.28
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTTAAAAATATATATTATAAAAT
Found at i:11132886 original size:33 final size:32
Alignment explanation
Indices: 11132756--11132886 Score: 90
Period size: 34 Copynumber: 4.0 Consensus size: 32
11132746 AATTTGAAAG
* * *
11132756 TTTAAAATATTTAAATATTTA-AAAAAT-AATA
1 TTTAAAAT-TTTAAAAATATATAATAATAAATA
* * *
11132787 TTTAAAATTTAAAAAAGTAATTTCAA-AATATATA
1 TTTAAAATTTTAAAAA-T-ATAT-AATAATAAATA
*
11132821 TTTAAAATTTTAAAAATATATATTAATAAAATA
1 TTTAAAATTTTAAAAATATATAATAAT-AAATA
* *
11132854 TTTCAAAATTTTTAAAGT-TAATAATAATAAATA
1 TTT-AAAATTTTAAAAATAT-ATAATAATAAATA
11132887 AATAAAATAA
Statistics
Matches: 79, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
30 6 0.08
31 10 0.13
32 7 0.09
33 17 0.22
34 39 0.49
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (32 bp):
TTTAAAATTTTAAAAATATATAATAATAAATA
Found at i:11132899 original size:14 final size:14
Alignment explanation
Indices: 11132873--11132910 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
11132863 TTTTAAAGTT
11132873 AATAATAAT-AAATA
1 AATAA-AATAAAATA
11132887 AATAAAATAAAATA
1 AATAAAATAAAATA
11132901 AAT-AAATAAA
1 AATAAAATAAA
11132911 GAAAAAAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AATAAAATAAAATA
Found at i:11132902 original size:18 final size:19
Alignment explanation
Indices: 11132873--11132910 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
11132863 TTTTAAAGTT
11132873 AATAATAATAAATAAATAA
1 AATAATAATAAATAAATAA
11132892 AATAA-AATAAATAAATAA
1 AATAATAATAAATAAATAA
11132910 A
1 A
11132911 GAAAAAAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AATAATAATAAATAAATAA
Found at i:11138046 original size:38 final size:40
Alignment explanation
Indices: 11137995--11138191 Score: 141
Period size: 38 Copynumber: 4.7 Consensus size: 40
11137985 GAAAAAACAT
11137995 GGTGCTAAGTGGATATACCACGGTTATACA-TG-TAATGA
1 GGTGCTAAGTGGATATACCACGGTTATACATTGATAATGA
* * *
11138033 GGTGCTAAGTGGATAGACCACGATTACACATATTGATACATGTAACA
1 GGTGCTAAGTGGATATACCACGGTTATAC--ATTGATA-ATG----A
* * * *
11138080 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGT
1 -GGTGCTAAGTGGATATACCACGGTT--ATACATTG----A-TAATGA
* *
11138128 GGTGCTAAGTGGATATACCACGGTTAAACA-TGA-AATGT
1 GGTGCTAAGTGGATATACCACGGTTATACATTGATAATGA
*
11138166 GGTGCTAAGTGGATATGCCACGGTTA
1 GGTGCTAAGTGGATATACCACGGTTA
11138192 CATATATTGA
Statistics
Matches: 127, Mismatches: 15, Indels: 34
0.72 0.09 0.19
Matches are distributed among these distances:
38 55 0.43
40 2 0.02
41 2 0.02
42 2 0.02
43 3 0.02
44 2 0.02
45 3 0.02
47 25 0.20
48 26 0.20
50 2 0.02
52 3 0.02
53 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (40 bp):
GGTGCTAAGTGGATATACCACGGTTATACATTGATAATGA
Found at i:11138149 original size:47 final size:47
Alignment explanation
Indices: 11138033--11138238 Score: 250
Period size: 47 Copynumber: 4.6 Consensus size: 47
11138023 CATGTAATGA
* * * * *
11138033 GGTGCTAAGTGGATAGACCACGATTACACATATTGATACATGTAACAT
1 GGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT-TAACGT
*
11138081 GGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGT
1 GGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAACGT
* *
11138128 GGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG----A--AATGT
1 GGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAACGT
*
11138166 GGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGT
1 GGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAACGT
*
11138213 GGTGCTAAGTGGATATACCATGGTTA
1 GGTGCTAAGTGGATATACCACGGTTA
11138239 AACATGTTAA
Statistics
Matches: 135, Mismatches: 14, Indels: 19
0.80 0.08 0.11
Matches are distributed among these distances:
38 29 0.21
39 1 0.01
40 3 0.02
41 2 0.01
44 2 0.01
45 3 0.02
46 1 0.01
47 58 0.43
48 36 0.27
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (47 bp):
GGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAACGT
Found at i:11138182 original size:85 final size:85
Alignment explanation
Indices: 11138080--11138244 Score: 321
Period size: 85 Copynumber: 1.9 Consensus size: 85
11138070 ACATGTAACA
11138080 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATA
1 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATA
11138145 CCACGGTTAAACATGAAATG
66 CCACGGTTAAACATGAAATG
11138165 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATA
1 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATA
*
11138230 CCATGGTTAAACATG
66 CCACGGTTAAACATG
11138245 TTAATTTGAA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (85 bp):
TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATA
CCACGGTTAAACATGAAATG
Found at i:11140561 original size:30 final size:31
Alignment explanation
Indices: 11140527--11140586 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
11140517 TATTTTATTA
11140527 TTAATTTTGTTA-TTATTTTAAAGGAATTTG
1 TTAATTTTGTTATTTATTTTAAAGGAATTTG
* * *
11140557 TTAATTTTTTTATTTATTTTAGAGGCATTT
1 TTAATTTTGTTATTTATTTTAAAGGAATTT
11140587 TCTTGTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.27, C:0.02, G:0.12, T:0.60
Consensus pattern (31 bp):
TTAATTTTGTTATTTATTTTAAAGGAATTTG
Found at i:11142966 original size:37 final size:37
Alignment explanation
Indices: 11142923--11142995 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
11142913 AAAGACTGAT
11142923 GATGCTAAGTATGGTATCTAAAAATGGAAATTAGTAC
1 GATGCTAAGTATGGTATCTAAAAATGGAAATTAGTAC
*
11142960 GATGCTAAGTATGGTATCTAAAAATGTAAATTAGTA
1 GATGCTAAGTATGGTATCTAAAAATGGAAATTAGTA
11142996 GGATATTATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.32
Consensus pattern (37 bp):
GATGCTAAGTATGGTATCTAAAAATGGAAATTAGTAC
Found at i:11153154 original size:17 final size:15
Alignment explanation
Indices: 11153134--11153217 Score: 66
Period size: 15 Copynumber: 5.5 Consensus size: 15
11153124 ATTATTTAAA
*
11153134 TTTTATTTAGTTTTATG
1 TTTTATTTA-TTTT-TC
11153151 TTTTATTTATTTTTC
1 TTTTATTTATTTTTC
* *
11153166 TTTTATTTCTATTTC
1 TTTTATTTATTTTTC
* *
11153181 TATT-TGTATTTTTTC
1 TTTTATTTA-TTTTTC
11153196 TTGTTA-TTATTTTT-
1 TT-TTATTTATTTTTC
11153210 TTTTATTT
1 TTTTATTT
11153218 TTTAGACTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
13 3 0.06
14 6 0.11
15 28 0.52
16 8 0.15
17 9 0.17
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (15 bp):
TTTTATTTATTTTTC
Found at i:11153214 original size:66 final size:60
Alignment explanation
Indices: 11153169--11153303 Score: 231
Period size: 58 Copynumber: 2.3 Consensus size: 60
11153159 ATTTTTCTTT
11153169 TATTTCTATTTCTA-TTTGTATTTTTTCTTGTTATTATTTTTTTTTATTTTTTAGACTTATA
1 TATTT-TATTT-TATTTTGTATTTTTTCTTGTTATTATTTTTTTTTATTTTTTAGACTTATA
11153230 TATTTTATTTTATTTTGTATTTTTTCTTGTTATTA--TTTTTTTATTTTTTAGACTTATA
1 TATTTTATTTTATTTTGTATTTTTTCTTGTTATTATTTTTTTTTATTTTTTAGACTTATA
11153288 TATTTTATTTTATTTT
1 TATTTTATTTTATTTT
11153304 ATTTTATTAT
Statistics
Matches: 73, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
58 39 0.53
59 2 0.03
60 27 0.37
61 5 0.07
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (60 bp):
TATTTTATTTTATTTTGTATTTTTTCTTGTTATTATTTTTTTTTATTTTTTAGACTTATA
Found at i:11153233 original size:27 final size:26
Alignment explanation
Indices: 11153199--11153303 Score: 93
Period size: 27 Copynumber: 3.8 Consensus size: 26
11153189 TTTTTTCTTG
11153199 TTATTATTTTTTTTTATTTTTTAGAC
1 TTATTATTTTTTTTTATTTTTTAGAC
* ***
11153225 TTATATATTTTATTTTATTTTGTATTTTTTC
1 TTAT-TATTTT-TTTT-TATT-T-TTTAGAC
*
11153256 TTGTTATTATTTTTTTATTTTTTAGAC
1 TTATTATT-TTTTTTTATTTTTTAGAC
*
11153283 TTATATATTTTATTTTATTTT
1 TTAT-TATTTTTTTTTATTTT
11153304 ATTTTATTAT
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
26 4 0.07
27 24 0.39
28 9 0.15
29 6 0.10
30 9 0.15
31 9 0.15
ACGTcount: A:0.20, C:0.03, G:0.04, T:0.73
Consensus pattern (26 bp):
TTATTATTTTTTTTTATTTTTTAGAC
Found at i:11153238 original size:32 final size:32
Alignment explanation
Indices: 11153202--11153308 Score: 122
Period size: 32 Copynumber: 3.5 Consensus size: 32
11153192 TTTCTTGTTA
11153202 TTATTTTTTTTTATTTTTTAGACTTATATATT
1 TTATTTTTTTTTATTTTTTAGACTTATATATT
*
11153234 TTATTTTATTTTGTATTTTTT---CTTGT-TA--
1 TTATTTT-TTTT-TATTTTTTAGACTTATATATT
11153262 TTA--TTTTTTTATTTTTTAGACTTATATATT
1 TTATTTTTTTTTATTTTTTAGACTTATATATT
*
11153292 TTATTTTATTTTATTTT
1 TTATTTTTTTTTATTTT
11153309 ATTATGTACT
Statistics
Matches: 62, Mismatches: 3, Indels: 20
0.73 0.04 0.24
Matches are distributed among these distances:
24 8 0.13
25 4 0.06
26 2 0.03
27 4 0.06
28 5 0.08
30 5 0.08
31 4 0.06
32 18 0.29
33 4 0.06
34 8 0.13
ACGTcount: A:0.20, C:0.03, G:0.04, T:0.74
Consensus pattern (32 bp):
TTATTTTTTTTTATTTTTTAGACTTATATATT
Found at i:11153313 original size:27 final size:27
Alignment explanation
Indices: 11153133--11153313 Score: 83
Period size: 28 Copynumber: 6.6 Consensus size: 27
11153123 AATTATTTAA
* *
11153133 ATTTTA-TTTAGTTTTATGTTTTA-TTT
1 ATTTTATTTTA-TTATATATTTTATTTT
* *
11153159 ATTTTTCTTTTATT-TCTATTTCTATTTGT
1 A-TTTTATTTTATTATATATTT-TATTT-T
* *
11153188 ATTTT-TTCTTGTTAT-TATTTTTTTTT
1 ATTTTATT-TTATTATATATTTTATTTT
**
11153214 ATTTT-TTAGACTTATATATTTTATTTT
1 ATTTTATTTTA-TTATATATTTTATTTT
* *
11153241 ATTTTGTATTTT-TTCT-TGTTATTATTTT
1 A-TTT-TATTTTATTATATATT-TTATTTT
*
11153269 -TTTATTTTTTAGACTTATATATTTTATTTT
1 ATTT-TATTTT--A-TTATATATTTTATTTT
11153299 ATTTTATTTTATTAT
1 ATTTTATTTTATTAT
11153314 GTACTTCACT
Statistics
Matches: 118, Mismatches: 18, Indels: 37
0.68 0.10 0.21
Matches are distributed among these distances:
26 26 0.22
27 32 0.27
28 33 0.28
29 4 0.03
30 17 0.14
31 6 0.05
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (27 bp):
ATTTTATTTTATTATATATTTTATTTT
Found at i:11155023 original size:7 final size:8
Alignment explanation
Indices: 11155004--11155030 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
11154994 AAAAACGAGT
11155004 AAAAATCG
1 AAAAATCG
11155012 AAAAATCG
1 AAAAATCG
11155020 AAAAATCG
1 AAAAATCG
11155028 AAA
1 AAA
11155031 CAAGCTACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.67, C:0.11, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAAATCG
Found at i:11156352 original size:20 final size:21
Alignment explanation
Indices: 11156327--11156385 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 21
11156317 ATAAAATCCT
11156327 AACCTACCAAATTAGTTATCA
1 AACCTACCAAATTAGTTATCA
11156348 ACCTACCATACCAAATTAGTTATC-
1 A---ACC-TACCAAATTAGTTATCA
*
11156372 AACCTACCAGATTA
1 AACCTACCAAATTA
11156386 CTTAGCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
20 9 0.27
21 4 0.12
24 4 0.12
25 16 0.48
ACGTcount: A:0.41, C:0.27, G:0.05, T:0.27
Consensus pattern (21 bp):
AACCTACCAAATTAGTTATCA
Found at i:11156352 original size:25 final size:26
Alignment explanation
Indices: 11156324--11156377 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 26
11156314 CTAATAAAAT
11156324 CCTAACC-TACCAAATTAGTTATCAA
1 CCTAACCATACCAAATTAGTTATCAA
11156349 CCT-ACCATACCAAATTAGTTATCAA
1 CCTAACCATACCAAATTAGTTATCAA
11156374 CCTA
1 CCTA
11156378 CCAGATTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 3 0.11
25 24 0.89
ACGTcount: A:0.39, C:0.30, G:0.04, T:0.28
Consensus pattern (26 bp):
CCTAACCATACCAAATTAGTTATCAA
Found at i:11156378 original size:25 final size:25
Alignment explanation
Indices: 11156331--11156380 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
11156321 AATCCTAACC
11156331 TACCAAATTAGTTATCAACCTACCA
1 TACCAAATTAGTTATCAACCTACCA
11156356 TACCAAATTAGTTATCAACCTACCA
1 TACCAAATTAGTTATCAACCTACCA
11156381 GATTACTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.28, G:0.04, T:0.28
Consensus pattern (25 bp):
TACCAAATTAGTTATCAACCTACCA
Found at i:11157569 original size:41 final size:41
Alignment explanation
Indices: 11157509--11157590 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
11157499 AAAAAGGCAA
* * *
11157509 AGTTAGTGTTTCCTCGTTATATCTAAAGAATGTCATCCCAT
1 AGTTAGTGTTTCCTCGTTATATATAAAAAATGGCATCCCAT
*
11157550 AGTTAGTGTTTCCTTGTTATATATAAAAAATGGCATCCCAT
1 AGTTAGTGTTTCCTCGTTATATATAAAAAATGGCATCCCAT
11157591 CTTAATAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (41 bp):
AGTTAGTGTTTCCTCGTTATATATAAAAAATGGCATCCCAT
Found at i:11166344 original size:5 final size:5
Alignment explanation
Indices: 11166327--11166363 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
11166317 AAAATTGATA
11166327 GGCCC GAGCCC GGCCC GGCCC GGCCC GGCCC GGCCC G
1 GGCCC G-GCCC GGCCC GGCCC GGCCC GGCCC GGCCC G
11166364 ACTAATATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.03, C:0.57, G:0.41, T:0.00
Consensus pattern (5 bp):
GGCCC
Found at i:11167158 original size:11 final size:11
Alignment explanation
Indices: 11167136--11167217 Score: 58
Period size: 11 Copynumber: 7.5 Consensus size: 11
11167126 TAAAACACCA
11167136 CAAAAGTAGCAC
1 CAAAA-TAGCAC
*
11167148 TAAAATAGCAC
1 CAAAATAGCAC
*
11167159 CAAAATAGCAT
1 CAAAATAGCAC
* *
11167170 CAAAACAGCTC
1 CAAAATAGCAC
* *
11167181 CAAAACAGCTC
1 CAAAATAGCAC
* * *
11167192 CGAAACAGCAA
1 CAAAATAGCAC
*
11167203 CAAAACAGCA-
1 CAAAATAGCAC
11167213 CAAAA
1 CAAAA
11167218 AAACAGCACT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
10 5 0.08
11 51 0.85
12 4 0.07
ACGTcount: A:0.54, C:0.27, G:0.11, T:0.09
Consensus pattern (11 bp):
CAAAATAGCAC
Found at i:11167167 original size:22 final size:23
Alignment explanation
Indices: 11167127--11167185 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
11167117 AAAGAACAAT
*
11167127 AAAACACCA-CAAAAGTAGCA-C
1 AAAACAGCACCAAAAGTAGCATC
*
11167148 TAAAATAGCACCAAAA-TAGCATC
1 -AAAACAGCACCAAAAGTAGCATC
*
11167171 AAAACAGCTCCAAAA
1 AAAACAGCACCAAAA
11167186 CAGCTCCGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 25 0.81
23 6 0.19
ACGTcount: A:0.56, C:0.25, G:0.08, T:0.10
Consensus pattern (23 bp):
AAAACAGCACCAAAAGTAGCATC
Found at i:11170948 original size:20 final size:20
Alignment explanation
Indices: 11170923--11170972 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
11170913 AAAAACCTGC
*
11170923 AAGAAGAAGATGCAGCAGTG
1 AAGAAGAAGATGCAGCAGTA
11170943 AAGAAGAAGATGCAGCAGTA
1 AAGAAGAAGATGCAGCAGTA
11170963 AAGAAGAAGA
1 AAGAAGAAGA
11170973 AGAAGAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.52, C:0.08, G:0.32, T:0.08
Consensus pattern (20 bp):
AAGAAGAAGATGCAGCAGTA
Found at i:11171396 original size:5 final size:5
Alignment explanation
Indices: 11171388--11171412 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11171378 ATATAAATTT
11171388 GGGCC GGGCC GGGCC GGGCC GGGCC
1 GGGCC GGGCC GGGCC GGGCC GGGCC
11171413 AAAAAATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.60, T:0.00
Consensus pattern (5 bp):
GGGCC
Found at i:11173201 original size:26 final size:26
Alignment explanation
Indices: 11173171--11173223 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
11173161 CTAACAATCT
11173171 TCCCCTTTAACATTTTTTATAAAACA
1 TCCCCTTTAACATTTTTTATAAAACA
11173197 TCCCCTTTAACATTTTTTATAAAACA
1 TCCCCTTTAACATTTTTTATAAAACA
11173223 T
1 T
11173224 AACAGGCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (26 bp):
TCCCCTTTAACATTTTTTATAAAACA
Found at i:11177154 original size:50 final size:50
Alignment explanation
Indices: 11177037--11177275 Score: 273
Period size: 50 Copynumber: 4.6 Consensus size: 50
11177027 GATAATAACA
* * * ** * *
11177037 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
11177088 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
11177138 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
11177188 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
11177243 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACA
11177276 TTGGATCTCT
Statistics
Matches: 161, Mismatches: 20, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.57
51 32 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 31 0.19
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:11177214 original size:100 final size:104
Alignment explanation
Indices: 11177036--11177285 Score: 339
Period size: 100 Copynumber: 2.4 Consensus size: 104
11177026 TGATAATAAC
* **
11177036 ATGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
11177101 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
11177138 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
11177201 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* * *
11177243 ATGCCAATGCCATGTCCCAGACATGGTCTTACATTGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11177286 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:11177401 original size:13 final size:13
Alignment explanation
Indices: 11177380--11177411 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11177370 ACTTGGATCA
*
11177380 TCATCAAATAAAT
1 TCATAAAATAAAT
11177393 TCATAAAATAAAT
1 TCATAAAATAAAT
11177406 TCATAA
1 TCATAA
11177412 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:11177658 original size:30 final size:30
Alignment explanation
Indices: 11177623--11177680 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11177613 CCTCGACTCT
*
11177623 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
11177653 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
11177681 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:11178770 original size:27 final size:27
Alignment explanation
Indices: 11178701--11178775 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
11178691 TCTCATCTCT
*
11178701 ATTTTACCT-TCAATAAAA-TTTTGACG
1 ATTTTACCTCT-ATTAAAATTTTTGACG
*
11178727 ATTTTA-CTCT-TGGTAAAATTTTTGATG
1 ATTTTACCTCTAT--TAAAATTTTTGACG
11178754 ATTTTACCTCTATTAAAATTTT
1 ATTTTACCTCTATTAAAATTTT
11178776 GAGAAAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
25 2 0.05
26 12 0.29
27 22 0.54
28 4 0.10
29 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (27 bp):
ATTTTACCTCTATTAAAATTTTTGACG
Found at i:11178925 original size:6 final size:6
Alignment explanation
Indices: 11178914--11178956 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
11178904 TGTAAATGAA
* *
11178914 TCATTT TCATTT TCATTT TCATTT CCATTT TCATTT CCATTT T
1 TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT T
11178957 GGAAACCTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.16, C:0.21, G:0.00, T:0.63
Consensus pattern (6 bp):
TCATTT
Found at i:11178931 original size:12 final size:12
Alignment explanation
Indices: 11178915--11178956 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
11178905 GTAAATGAAT
*
11178915 CATTTTCATTTT
1 CATTTTCATTTC
11178927 CATTTTCATTTC
1 CATTTTCATTTC
11178939 CATTTTCATTTC
1 CATTTTCATTTC
11178951 CATTTT
1 CATTTT
11178957 GGAAACCTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (12 bp):
CATTTTCATTTC
Found at i:11180134 original size:18 final size:19
Alignment explanation
Indices: 11180093--11180141 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
11180083 TAAGAATAAA
11180093 AAAC-AAATAA-AAATCAC
1 AAACTAAATAAGAAATCAC
*
11180110 AAA-TAAATAAGAAAT-AT
1 AAACTAAATAAGAAATCAC
*
11180127 AAACTAAAAAAGAAA
1 AAACTAAATAAGAAA
11180142 AAAATGGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.73, C:0.08, G:0.04, T:0.14
Consensus pattern (19 bp):
AAACTAAATAAGAAATCAC
Found at i:11187250 original size:18 final size:18
Alignment explanation
Indices: 11187207--11187259 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
11187197 ATTTATTTAG
* **
11187207 TAATAGTCAATTATTCGG
1 TAATAATCAATTATTCAA
*
11187225 TAACAATCAATTATTCAA
1 TAATAATCAATTATTCAA
*
11187243 TAATAATCAGTTATTCA
1 TAATAATCAATTATTCA
11187260 GTATCAAATC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.38
Consensus pattern (18 bp):
TAATAATCAATTATTCAA
Found at i:11187345 original size:19 final size:19
Alignment explanation
Indices: 11187280--11187347 Score: 68
Period size: 18 Copynumber: 3.7 Consensus size: 19
11187270 AACTGATCGG
* *
11187280 TTATCCAGTAACAGTC-AA
1 TTATTCAGTAACAATCAAA
* *
11187298 TTATTCAGTAAAAATCAGA
1 TTATTCAGTAACAATCAAA
* *
11187317 -TATACAGTAACAATTAAA
1 TTATTCAGTAACAATCAAA
11187335 TTATTCAGTAACA
1 TTATTCAGTAACA
11187348 GTCGATCTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
18 27 0.69
19 12 0.31
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.31
Consensus pattern (19 bp):
TTATTCAGTAACAATCAAA
Found at i:11187529 original size:59 final size:58
Alignment explanation
Indices: 11187462--11187599 Score: 169
Period size: 53 Copynumber: 2.4 Consensus size: 58
11187452 GCCGAAGCTG
* *
11187462 AAACAGTAACAGTAACAGTAGCAGTACGGTATACAGAGTACCTCATCGGAACAAATCCA
1 AAACAGTAACAGTAACAGTA-CAGTACGGTACACAGAGTACCTCATCAGAACAAATCCA
**
11187521 AAACAGTAACAGTAACA-T----TACGGTACACAGAGTACCTCATCAGAACAAATCTG
1 AAACAGTAACAGTAACAGTACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCA
* *
11187574 AAACAGTAATAGTAACGGTAACAGTA
1 AAACAGTAACAGTAACAGT-ACAGTA
11187600 ACAATATCCG
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
53 46 0.69
54 1 0.01
58 1 0.01
59 19 0.28
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.18
Consensus pattern (58 bp):
AAACAGTAACAGTAACAGTACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCA
Found at i:11187530 original size:53 final size:53
Alignment explanation
Indices: 11187469--11187589 Score: 179
Period size: 53 Copynumber: 2.3 Consensus size: 53
11187459 CTGAAACAGT
* * *
11187469 AACAGTAACAGTAGCAGTACGGTATACAGAGTACCTCATCGGAACAAATCCAA
1 AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCAA
* **
11187522 AACAGTAACAGTAACATTACGGTACACAGAGTACCTCATCAGAACAAATCTGA
1 AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCAA
*
11187575 AACAGTAATAGTAAC
1 AACAGTAACAGTAAC
11187590 GGTAACAGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCAA
Found at i:11188737 original size:20 final size:18
Alignment explanation
Indices: 11188701--11188745 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
11188691 AAACCTTCAA
11188701 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
11188719 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
11188739 -TTTCCCT
1 TTTTCCCT
11188746 GCTTTTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:11191405 original size:14 final size:14
Alignment explanation
Indices: 11191386--11191423 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
11191376 CCAGAAAAGT
11191386 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
11191400 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
11191414 AAAACATTTT
1 AAATCATTTT
11191424 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:11192673 original size:16 final size:17
Alignment explanation
Indices: 11192652--11192684 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11192642 TGCGTAATAG
*
11192652 AATAAAA-AAAAGCTAA
1 AATAAAAGAAAACCTAA
11192668 AATAAAAGAAAACCTAA
1 AATAAAAGAAAACCTAA
11192685 TGCTAGAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.73, C:0.09, G:0.06, T:0.12
Consensus pattern (17 bp):
AATAAAAGAAAACCTAA
Found at i:11195145 original size:26 final size:26
Alignment explanation
Indices: 11195111--11195175 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
11195101 TAATCTTTTG
11195111 AAAAGCCTTTGTGGCATGTCACTTGA
1 AAAAGCCTTTGTGGCATGTCACTTGA
* * * *
11195137 AAAAACCTTTTTGGCATGTCATTTGG
1 AAAAGCCTTTGTGGCATGTCACTTGA
11195163 AAAAGCCTTTGTG
1 AAAAGCCTTTGTG
11195176 CCTAATCTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (26 bp):
AAAAGCCTTTGTGGCATGTCACTTGA
Found at i:11198907 original size:19 final size:19
Alignment explanation
Indices: 11198858--11198909 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
11198848 GCAGGTCATC
*
11198858 GGCCATATTTGATCTCAAT
1 GGCCATATTTGGTCTCAAT
11198877 GGCCATATTTGGTCTCAAT
1 GGCCATATTTGGTCTCAAT
11198896 GGCCATATTTGGTC
1 GGCCATATTTGGTC
11198910 CAACAACTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (19 bp):
GGCCATATTTGGTCTCAAT
Found at i:11207760 original size:15 final size:15
Alignment explanation
Indices: 11207740--11207772 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
11207730 ATAGGGCATA
11207740 TTTGAATTTTTATTT
1 TTTGAATTTTTATTT
11207755 TTTGAATTTTTATTT
1 TTTGAATTTTTATTT
11207770 TTT
1 TTT
11207773 AAACTTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (15 bp):
TTTGAATTTTTATTT
Found at i:11209647 original size:7 final size:8
Alignment explanation
Indices: 11209605--11209645 Score: 50
Period size: 7 Copynumber: 5.2 Consensus size: 8
11209595 TAAGTATAAG
11209605 ATAT-TTA
1 ATATATTA
11209612 ATATATATA
1 ATATAT-TA
11209621 ATATATTA
1 ATATATTA
*
11209629 TTATATTA
1 ATATATTA
11209637 AT-TATTA
1 ATATATTA
11209644 AT
1 AT
11209646 TAATTGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 11 0.37
8 11 0.37
9 8 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
ATATATTA
Found at i:11216736 original size:20 final size:19
Alignment explanation
Indices: 11216696--11216737 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11216686 TTTTTAGAAT
* *
11216696 TTTTTTTAAAAAATTACAA
1 TTTTTCTAAAAAATTAAAA
11216715 TTTTTCTAAAAAATATAAAA
1 TTTTTCTAAAAAAT-TAAAA
11216735 TTT
1 TTT
11216738 GAATTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTTTCTAAAAAATTAAAA
Found at i:11216910 original size:23 final size:23
Alignment explanation
Indices: 11216874--11216927 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
11216864 CTCGGCTCAG
* *
11216874 AACTCGTATTACTT-ATTCGAGTT
1 AACTCGAATAACTTGATTCGA-TT
* *
11216897 GACTCGAATAACTTGATTTGATT
1 AACTCGAATAACTTGATTCGATT
11216920 AACTCGAA
1 AACTCGAA
11216928 ATTCAAAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (23 bp):
AACTCGAATAACTTGATTCGATT
Found at i:11219755 original size:22 final size:20
Alignment explanation
Indices: 11219721--11219760 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
11219711 CAATTTCTCA
11219721 TTATTTTGTTATACTTTTTTT
1 TTATTTTGTTATA-TTTTTTT
*
11219742 TTATTTTTTCTATATTTTT
1 TTATTTTGT-TATATTTTT
11219761 AATAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (20 bp):
TTATTTTGTTATATTTTTTT
Found at i:11219811 original size:9 final size:9
Alignment explanation
Indices: 11219787--11219836 Score: 59
Period size: 8 Copynumber: 5.7 Consensus size: 9
11219777 GTTTTCTAAT
11219787 AATTTTTATA
1 AATTTTTA-A
*
11219797 AGTTTTTAA
1 AATTTTTAA
11219806 AA-TTTTAA
1 AATTTTTAA
11219814 AATTTTT-A
1 AATTTTTAA
*
11219822 TATTTTTAA
1 AATTTTTAA
11219831 AATTTT
1 AATTTT
11219837 GTGATTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
8 15 0.44
9 12 0.35
10 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (9 bp):
AATTTTTAA
Found at i:11219821 original size:17 final size:17
Alignment explanation
Indices: 11219799--11219836 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
11219789 TTTTTATAAG
11219799 TTTTTAAAATTTTAAAA
1 TTTTTAAAATTTTAAAA
* *
11219816 TTTTTATATTTTTAAAA
1 TTTTTAAAATTTTAAAA
11219833 TTTT
1 TTTT
11219837 GTGATTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTTAAAATTTTAAAA
Found at i:11220045 original size:27 final size:27
Alignment explanation
Indices: 11220010--11220072 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
11220000 AAGTTGTCTA
*
11220010 ATAA-TTTTTATCAGTTTTTACATGTTT
1 ATAACTTTTAATCA-TTTTTACATGTTT
* *
11220037 ATAACTTTTAAATCATTTTTATATTTTT
1 ATAACTTTT-AATCATTTTTACATGTTT
*
11220065 AAAACTTT
1 ATAACTTT
11220073 AAAGGTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 4 0.13
28 22 0.73
29 4 0.13
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (27 bp):
ATAACTTTTAATCATTTTTACATGTTT
Found at i:11225845 original size:20 final size:21
Alignment explanation
Indices: 11225784--11225851 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 21
11225774 AGGATTTTTA
11225784 TTTAGATTTAATTTTAGGATTTAT-
1 TTTA-ATTT-ATTTTA--ATTTATC
11225808 TTTAATTTATTTTAATTTATC
1 TTTAATTTATTTTAATTTATC
11225829 TTT-ATTTATTTGT-ATTTATC
1 TTTAATTTATTT-TAATTTATC
11225849 TTT
1 TTT
11225852 TAGAATTTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
20 24 0.57
21 4 0.10
22 6 0.14
23 4 0.10
24 4 0.10
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.66
Consensus pattern (21 bp):
TTTAATTTATTTTAATTTATC
Found at i:11225847 original size:10 final size:10
Alignment explanation
Indices: 11225780--11225839 Score: 61
Period size: 10 Copynumber: 5.7 Consensus size: 10
11225770 ATTAAGGATT
11225780 TTTA-TTTAGA
1 TTTATTTTA-A
11225790 TTTAATTTTAGGA
1 TTT-ATTTTA--A
11225803 TTTATTTTAA
1 TTTATTTTAA
11225813 TTTATTTTAA
1 TTTATTTTAA
11225823 TTTATCTTT-A
1 TTTAT-TTTAA
11225833 TTTATTT
1 TTTATTT
11225840 GTATTTATCT
Statistics
Matches: 46, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.04
10 25 0.54
11 4 0.09
12 10 0.22
13 5 0.11
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.67
Consensus pattern (10 bp):
TTTATTTTAA
Found at i:11244624 original size:5 final size:5
Alignment explanation
Indices: 11244614--11244643 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
11244604 TTCTGAAACT
*
11244614 TAAAA TAAAA TAAAA TAAAA CAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
11244644 AGAGAGGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (5 bp):
TAAAA
Found at i:11245386 original size:35 final size:36
Alignment explanation
Indices: 11245337--11245405 Score: 97
Period size: 35 Copynumber: 1.9 Consensus size: 36
11245327 CCGATGTGCT
*
11245337 ATTTTTATTA-TTTTTTATAATTATTTACATATTTGA
1 ATTTTTATTATTTTTTTAT-ATTATTTAAATATTTGA
*
11245373 ATTTTT-TTATTTTTTTATATTTTTTAAATATTT
1 ATTTTTATTATTTTTTTATATTATTTAAATATTT
11245406 TTTTTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (36 bp):
ATTTTTATTATTTTTTTATATTATTTAAATATTTGA
Found at i:11246170 original size:40 final size:41
Alignment explanation
Indices: 11246126--11246222 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 41
11246116 GTGTTTTACC
* * * *
11246126 AAAAATGCCACTAAAAA-TAGAGCAATAGCGACGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCAATAGCGACGCTTTTAG
* *
11246166 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTAG
1 AAAAACGCCGCTAAAAACCAGAGCAATAGCGACGCTTTTAG
*
11246207 CAAAACGCCGCTAAAA
1 AAAAACGCCGCTAAAA
11246223 GTCATATAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 15 0.31
41 34 0.69
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAACCAGAGCAATAGCGACGCTTTTAG
Found at i:11246411 original size:21 final size:21
Alignment explanation
Indices: 11246387--11246471 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
11246377 CATTATAGTT
*
11246387 TATGGTTTATGGTTTAAGATA
1 TATGGTTTAGGGTTTAAGATA
*
11246408 TATGGTTTAGGGTTTAAGATT
1 TATGGTTTAGGGTTTAAGATA
* * *
11246429 TTTGAGTTAATTATGGTTTAATATA
1 TATG-G-T--TTAGGGTTTAAGATA
11246454 TATGGTTTAGGGTTTAAG
1 TATGGTTTAGGGTTTAAG
11246472 GTTTAGGAGT
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 32 0.63
22 1 0.02
23 2 0.04
24 1 0.02
25 15 0.29
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (21 bp):
TATGGTTTAGGGTTTAAGATA
Found at i:11246482 original size:46 final size:46
Alignment explanation
Indices: 11246393--11246484 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
11246383 AGTTTATGGT
**
11246393 TTATGGTTTAAGATATATGGTTTAGGGTTTAAGATTTTTGAGTTAA
1 TTATGGTTTAAGATATATGGTTTAGGGTTTAAGATTTAGGAGTTAA
* *
11246439 TTATGGTTTAATATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAA
1 TTATGGTTTAAGATATATGGTTTAGGGTTTAAGATTTAGGAGTTAA
11246485 CTAGTATTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (46 bp):
TTATGGTTTAAGATATATGGTTTAGGGTTTAAGATTTAGGAGTTAA
Found at i:11247122 original size:22 final size:22
Alignment explanation
Indices: 11247062--11247123 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
11247052 TAATATCCTA
* *
11247062 TATATGTAATTGAATTTAAATT
1 TATATGTAATTGTATTAAAATT
* *
11247084 TTTAATTTATATT-TATTAAAATT
1 TAT-ATGTA-ATTGTATTAAAATT
11247107 TATATGTAATTGTATTA
1 TATATGTAATTGTATTA
11247124 GCATTTTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
21 3 0.10
22 11 0.35
23 14 0.45
24 3 0.10
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (22 bp):
TATATGTAATTGTATTAAAATT
Found at i:11249000 original size:22 final size:22
Alignment explanation
Indices: 11248972--11249016 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
11248962 TGGTTTCGTA
11248972 ACCATAGATCCGATTTAAAGAG
1 ACCATAGATCCGATTTAAAGAG
11248994 ACCATAGATCCGATTTAAAGAG
1 ACCATAGATCCGATTTAAAGAG
11249016 A
1 A
11249017 AATTTATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (22 bp):
ACCATAGATCCGATTTAAAGAG
Found at i:11254480 original size:23 final size:23
Alignment explanation
Indices: 11254454--11254519 Score: 54
Period size: 23 Copynumber: 3.1 Consensus size: 23
11254444 CTTTTCTTTC
11254454 TTTCTTTCCTTCTTCCTTCTCTG
1 TTTCTTTCCTTCTTCCTTCTCTG
* *
11254477 ----TTTCGTT-TTGC-TCTCTG
1 TTTCTTTCCTTCTTCCTTCTCTG
* *
11254494 TTTCTTTCTTTCTCCCTTCTCTG
1 TTTCTTTCCTTCTTCCTTCTCTG
11254517 TTT
1 TTT
11254520 GTTTTTGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 12
0.65 0.10 0.24
Matches are distributed among these distances:
17 6 0.19
18 3 0.09
19 6 0.19
21 6 0.19
22 2 0.06
23 9 0.28
ACGTcount: A:0.00, C:0.30, G:0.08, T:0.62
Consensus pattern (23 bp):
TTTCTTTCCTTCTTCCTTCTCTG
Found at i:11254512 original size:40 final size:42
Alignment explanation
Indices: 11254454--11254551 Score: 128
Period size: 45 Copynumber: 2.3 Consensus size: 42
11254444 CTTTTCTTTC
* *
11254454 TTTCTTTCCTTCTTCCTTCTC-TG-TTTCGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTTGTTTTCGTTTTGCTCTCTG
*
11254494 TTTCTTTCTTTCTCCCTTCTCTGTTTGTTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTC---TTGTTTTCGTTTTGCTCTCTG
11254539 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
11254552 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
40 19 0.38
44 2 0.04
45 29 0.58
ACGTcount: A:0.00, C:0.27, G:0.09, T:0.64
Consensus pattern (42 bp):
TTTCTTTCTTTCTCCCTTCTCTTGTTTTCGTTTTGCTCTCTG
Found at i:11261543 original size:21 final size:21
Alignment explanation
Indices: 11261519--11261588 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 21
11261509 TCCTTCTCTG
11261519 TTTCGTTTTGCTCTCTGTTTC
1 TTTCGTTTTGCTCTCTGTTTC
* *
11261540 TTTC-TTTCTCCCTTCTCTGTTTTGT
1 TTTCGTTT-T-GC-TCTCTG-TTT-C
*
11261565 TTTTGTTTTGCTCTCTGTTTC
1 TTTCGTTTTGCTCTCTGTTTC
11261586 TTT
1 TTT
11261589 TCTTTCTTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
20 3 0.08
21 8 0.21
22 4 0.11
23 12 0.32
24 4 0.11
25 4 0.11
26 3 0.08
ACGTcount: A:0.00, C:0.23, G:0.11, T:0.66
Consensus pattern (21 bp):
TTTCGTTTTGCTCTCTGTTTC
Found at i:11272003 original size:43 final size:43
Alignment explanation
Indices: 11271932--11272078 Score: 186
Period size: 43 Copynumber: 3.4 Consensus size: 43
11271922 TTTTATTTTT
* * * * *
11271932 ATGACATTTAGCGGCGTTTTTCGAAAAAGCGCTGCCAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTC
* * *
11271975 CTGACCTTTGGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTC
* * *
11272018 ATGGCCTTTGGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTC
*
11272061 AGGACCTTTAGCGGCGTT
1 ATGACCTTTAGCGGCGTT
11272079 GTTTTCAAAT
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 90 1.00
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.25
Consensus pattern (43 bp):
ATGACCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTC
Found at i:11277572 original size:46 final size:46
Alignment explanation
Indices: 11277505--11277633 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
11277495 TGTAACCCGC
* * * *
11277505 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
11277551 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
11277597 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
11277634 TGCTCAGCCA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:11280056 original size:30 final size:30
Alignment explanation
Indices: 11280012--11280099 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
11280002 CAAAGATAAC
11280012 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
11280041 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * *
11280071 AAGAGATCCAG-ATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
11280100 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
29 23 0.46
30 27 0.54
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:11280060 original size:15 final size:15
Alignment explanation
Indices: 11280012--11280090 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
11280002 CAAAGATAAC
*
11280012 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
11280026 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
11280041 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
11280056 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
11280071 AAGAGATCCAG-ATA
1 AAGAAATCCAGAATA
11280085 AAGAAA
1 AAGAAA
11280091 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
14 17 0.31
15 37 0.67
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:11283068 original size:46 final size:46
Alignment explanation
Indices: 11282999--11283126 Score: 213
Period size: 45 Copynumber: 2.8 Consensus size: 46
11282989 TGTAACCCGC
* * *
11282999 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
11283045 CTATAAGTGAACTCGGACTCAACTCAACGAGTTC-GACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
11283090 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
11283127 TGCTCAACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 42 0.55
46 34 0.45
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:11287208 original size:2 final size:2
Alignment explanation
Indices: 11287201--11287226 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11287191 TTAGAAAATT
11287201 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
11287227 AATTGAAACC
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):
TA
Found at i:11288676 original size:20 final size:20
Alignment explanation
Indices: 11288649--11288696 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
11288639 ACAATTTCTT
11288649 TTAA-TTTTTT-AATAATT-
1 TTAACTTTTTTAAATAATTA
11288666 TTATACTTTTTTAAATAATTA
1 TTA-ACTTTTTTAAATAATTA
11288687 TTAACTTTTT
1 TTAACTTTTT
11288697 ATTTTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 3 0.11
18 1 0.04
19 6 0.22
20 14 0.52
21 3 0.11
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
TTAACTTTTTTAAATAATTA
Found at i:11299072 original size:33 final size:33
Alignment explanation
Indices: 11299030--11299092 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
11299020 AGGAAACATT
11299030 ATGATTAAGGGTATTAATAAGATTGACTATATC
1 ATGATTAAGGGTATTAATAAGATTGACTATATC
11299063 ATGATTAAGGGTATTAATAAGATTGACTAT
1 ATGATTAAGGGTATTAATAAGATTGACTAT
11299093 CTTGGGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.37
Consensus pattern (33 bp):
ATGATTAAGGGTATTAATAAGATTGACTATATC
Found at i:11299102 original size:33 final size:33
Alignment explanation
Indices: 11299032--11299106 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
11299022 GAAACATTAT
*
11299032 GATTAAGGGTATTAATAAGATTGACTATATCAT
1 GATTAAGGGTATTAATAAGATTGACTATATCAG
* **
11299065 GATTAAGGGTATTAATAAGATTGACTATCTTGG
1 GATTAAGGGTATTAATAAGATTGACTATATCAG
11299098 GATTAAGGG
1 GATTAAGGG
11299107 AAGCGGTGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (33 bp):
GATTAAGGGTATTAATAAGATTGACTATATCAG
Found at i:11299749 original size:25 final size:25
Alignment explanation
Indices: 11299721--11299772 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
11299711 TTTGGCTTGA
**
11299721 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
11299746 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
11299771 CA
1 CA
11299773 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:11301023 original size:11 final size:11
Alignment explanation
Indices: 11301007--11301031 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11300997 TTCAGCTGAC
11301007 GAAAATGAAGA
1 GAAAATGAAGA
11301018 GAAAATGAAGA
1 GAAAATGAAGA
11301029 GAA
1 GAA
11301032 TTCTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:11306044 original size:24 final size:24
Alignment explanation
Indices: 11306017--11306066 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
11306007 TTCCCCACAT
* * *
11306017 AAATCTAGTTTCTTCTCCCAGTTA
1 AAATCTACTATCTTCTCCCAATTA
*
11306041 AAATCTACTATCTTTTCCCAATTA
1 AAATCTACTATCTTCTCCCAATTA
11306065 AA
1 AA
11306067 CTATGATTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATCTACTATCTTCTCCCAATTA
Found at i:11306389 original size:13 final size:13
Alignment explanation
Indices: 11306373--11306397 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11306363 ACCGAGCCTA
11306373 TAAATATTTTTAT
1 TAAATATTTTTAT
11306386 TAAATATTTTTA
1 TAAATATTTTTA
11306398 GAGTTTTTTA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTTTAT
Found at i:11306654 original size:23 final size:23
Alignment explanation
Indices: 11306628--11306672 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11306618 AAAATTTTAA
*
11306628 TTAAATTTTAAAGAAAACATAAG
1 TTAAAGTTTAAAGAAAACATAAG
**
11306651 TTAAAGTTTAATTAAAACATAA
1 TTAAAGTTTAAAGAAAACATAA
11306673 AATAAACATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (23 bp):
TTAAAGTTTAAAGAAAACATAAG
Found at i:11315462 original size:26 final size:26
Alignment explanation
Indices: 11315426--11315559 Score: 241
Period size: 26 Copynumber: 5.2 Consensus size: 26
11315416 TGAAATTCCA
11315426 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
11315452 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11315478 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
**
11315504 ATCATAAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11315530 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11315556 ATCA
1 ATCA
11315560 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11323038 original size:13 final size:13
Alignment explanation
Indices: 11323020--11323094 Score: 50
Period size: 13 Copynumber: 5.7 Consensus size: 13
11323010 GAATAAATAA
*
11323020 AAGAAAGAGAAAC
1 AAGAAAAAGAAAC
11323033 AAGAAAAAGAAAC
1 AAGAAAAAGAAAC
11323046 AGAGAAGAAACGAAA-
1 A-AGAA-AAA-GAAAC
* *
11323061 TAGAAAGAAAGAAAG
1 AAG-AA-AAAGAAAC
11323076 AAG-AAAAG-AA-
1 AAGAAAAAGAAAC
11323086 AAGAAAAAG
1 AAGAAAAAG
11323095 GAGAAATTAG
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
10 3 0.06
11 7 0.13
12 4 0.08
13 14 0.26
14 10 0.19
15 11 0.21
16 4 0.08
ACGTcount: A:0.72, C:0.04, G:0.23, T:0.01
Consensus pattern (13 bp):
AAGAAAAAGAAAC
Found at i:11323100 original size:26 final size:26
Alignment explanation
Indices: 11323038--11323091 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
11323028 GAAACAAGAA
* * *
11323038 AAAGAAACAGAGAAGAAACGAAATAG
1 AAAGAAAGAAAGAAGAAAAGAAATAG
11323064 AAAGAAAGAAAGAAGAAAAGAAA-AG
1 AAAGAAAGAAAGAAGAAAAGAAATAG
11323089 AAA
1 AAA
11323092 AAGGAGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.72, C:0.04, G:0.22, T:0.02
Consensus pattern (26 bp):
AAAGAAAGAAAGAAGAAAAGAAATAG
Found at i:11327576 original size:25 final size:25
Alignment explanation
Indices: 11327546--11327630 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 25
11327536 GCCCTCTCTC
11327546 GAGCCATATAATAGGAAGCTCATGT
1 GAGCCATATAATAGGAAGCTCATGT
* ** * *
11327571 GAGCCATGTAACGGGAAGCTTATCT
1 GAGCCATATAATAGGAAGCTCATGT
* **
11327596 GGGCTGTATAATAGGAAGCTCATGT
1 GAGCCATATAATAGGAAGCTCATGT
11327621 GAGCCA-ATAA
1 GAGCCATATAA
11327631 CGGGTAACTC
Statistics
Matches: 44, Mismatches: 16, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
24 4 0.09
25 40 0.91
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (25 bp):
GAGCCATATAATAGGAAGCTCATGT
Found at i:11327721 original size:23 final size:25
Alignment explanation
Indices: 11327706--11327764 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 25
11327696 GCCATATTGA
*
11327706 GAAGCTC-CAGAGAGCCATAATTAG
1 GAAGCTCACAAAGAGCCATAATTAG
* **
11327730 GAAGCTCACAAAGAGCCTTTAATCGG
1 GAAGCTCACAAAGAGCC-ATAATTAG
11327756 GAAGCTCAC
1 GAAGCTCAC
11327765 GAAAATCCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 7 0.24
25 8 0.28
26 14 0.48
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.17
Consensus pattern (25 bp):
GAAGCTCACAAAGAGCCATAATTAG
Found at i:11332530 original size:12 final size:12
Alignment explanation
Indices: 11332515--11332539 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11332505 TTTTGCTTAA
11332515 TTTTTTTTGTTT
1 TTTTTTTTGTTT
11332527 TTTTTTTTGTTT
1 TTTTTTTTGTTT
11332539 T
1 T
11332540 AATAAAGGCT
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTTTTTGTTT
Found at i:11337131 original size:12 final size:12
Alignment explanation
Indices: 11337098--11337132 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
11337088 TGAGACAAGA
11337098 TATTCTTTAAAT
1 TATTCTTTAAAT
*
11337110 TACTCTTTTAAAT
1 TATTC-TTTAAAT
11337123 TATTCTTTAA
1 TATTCTTTAA
11337133 GTAGCATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTCTTTAAAT
Found at i:11337281 original size:21 final size:23
Alignment explanation
Indices: 11337235--11337281 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
11337225 AAATAGGTTG
* *
11337235 TATATTATTTTTTTGTAATATTA
1 TATATTATTTTTATGTAATATCA
11337258 TATATTATTTTTAT-TAAT-TCA
1 TATATTATTTTTATGTAATATCA
11337279 TAT
1 TAT
11337282 TTTAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 4 0.18
23 13 0.59
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
TATATTATTTTTATGTAATATCA
Found at i:11337620 original size:16 final size:16
Alignment explanation
Indices: 11337585--11337638 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
11337575 TTGAATTGCT
* **
11337585 ATTACAATTCTATTTT
1 ATTACAACTCTATTCC
11337601 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
* *
11337617 ATTACAGCCCTATTCC
1 ATTACAACTCTATTCC
11337633 ATTACA
1 ATTACA
11337639 CTGAATCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.26, G:0.02, T:0.41
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:11342334 original size:2 final size:2
Alignment explanation
Indices: 11342327--11342355 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11342317 GGTTCAGAGG
11342327 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
11342356 TTTTCTTTTT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:11343382 original size:20 final size:18
Alignment explanation
Indices: 11343357--11343404 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 18
11343347 AGATTTGAGG
*
11343357 AAGAAAATGCAAAGAAAGTT
1 AAGAAAATG-AAA-AAAATT
11343377 AAGAAAGCATGAAAAAAATT
1 AAGAAA--ATGAAAAAAATT
11343397 AAGAAAAT
1 AAGAAAAT
11343405 TTGGGTTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 2 0.08
20 17 0.68
21 3 0.12
22 3 0.12
ACGTcount: A:0.65, C:0.04, G:0.17, T:0.15
Consensus pattern (18 bp):
AAGAAAATGAAAAAAATT
Found at i:11354335 original size:131 final size:126
Alignment explanation
Indices: 11354084--11354523 Score: 438
Period size: 131 Copynumber: 3.4 Consensus size: 126
11354074 AACATAAGGA
* * *
11354084 AATATCTCGTATTTGGGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGTTCTTTTCATT
1 AATATTTCGTATTT-GGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGTTTTTTTCATT
* *
11354149 CGACTAAAATACGGAATATCC-TTTGAAAATTTCATCCATGTTTTTTTAAAAAAAATAAAATGAG
65 CGACTAAAATA-GGAAAATCCTTTTGAAAATTTCATCCATGTTTTCTT----AAAATAAAATGAG
*
11354213 GT
125 GC
11354215 AATATTTCGTATTTGGAGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGTTTTTTTTCAT
1 AATATTTCGTATTTGGA-AGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCG-TTTTTTTCAT
* * *
11354280 TCGACTAAAATATGGAAAATCCTTTTTTGAAATTTTCATCCACGTTTTCTTAAAATAAAACGAGG
64 TCGACTAAAATA-GGAAAATCC--TTTTGAAAATTTCATCCATGTTTTCTTAAAATAAAATGAGG
*
11354345 G
126 C
** * * ** *
11354346 AATATTTCGTGCTTGGAAGTTTG-GGGAGTCGTGCCCAATCGTGCTGGGCTTC-AATTTTCCATT
1 AATATTTCGTATTTGGAAGTTTGAGAGA-TCGTGCCCAATCGTGCTGGGTTTCGTTTTTTTCATT
** * * * * *
11354409 CGACTAAAATACAAAATATCCTTTTG-AAGTTTCGTCCATGTTTTCTCAAATTAAAATTAGGC
65 CGACTAAAATAGGAAA-ATCCTTTTGAAAATTTCATCCATGTTTTCTTAAAATAAAATGAGGC
** * * * * * * *
11354471 AATGCTACATATTTGGAAATTCGATAAATCGTGCCTAATCGTGCTGGGTTTCG
1 AATATTTCGTATTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCG
11354524 ATTTACCGTT
Statistics
Matches: 260, Mismatches: 40, Indels: 23
0.80 0.12 0.07
Matches are distributed among these distances:
125 65 0.25
126 6 0.02
127 3 0.01
128 23 0.09
129 3 0.01
130 31 0.12
131 77 0.30
132 29 0.11
135 23 0.09
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (126 bp):
AATATTTCGTATTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGTTTTTTTCATTC
GACTAAAATAGGAAAATCCTTTTGAAAATTTCATCCATGTTTTCTTAAAATAAAATGAGGC
Found at i:11356188 original size:133 final size:133
Alignment explanation
Indices: 11355950--11356659 Score: 1053
Period size: 133 Copynumber: 5.3 Consensus size: 133
11355940 AAATTTCGAC
11355950 AGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
* * *
11356015 CGACATTGGAGCATATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
66 CGGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
11356080 ACT
131 ACT
** * *
11356083 AGATCTTATCTTTACTGAGCAGGAGCGGAGCAAATCAAATTTTGGTGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
* * *
11356148 CGGCAATGGAGCAGATTTCAGCCACCAGGCTTATCTTCACTGAGCAAGAGTGGAGCAGGCTAAAC
66 CGGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA-
11356213 ATACT
129 ATACT
* * *
11356218 AGATCTTATCTTCTCTGAGCAGGAGTGAAGCAGATCAAATTTTGGC-AAGTCTTATCTCCATGTA
1 AGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAA-TCTTATCTCCATGTA
*
11356282 TCGGCATTGGAGCAGATTTCAGCCACCAGCCTTAGCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
65 TCGGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
11356347 TACT
130 TACT
*
11356351 AGATCTTATCTTCGCTGAGCAGGAGCAGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
* *
11356416 CGGCATTGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTATAT
66 CGGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
11356481 ACT
131 ACT
* ** **
11356484 AGATCTTATATTCGCTGAGCAGGAGCAAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
* * ** * *
11356549 CGGCAATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTAAGCAGGAGTGGAGCAGGCTAAAC
66 CGGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA-
*
11356614 ATACC
129 ATACT
* ** ***
11356619 AGATCTTATATTTACTGAGCAGGAGTAAAGCAGATCAAATT
1 AGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATT
11356660 ATAGTAGATC
Statistics
Matches: 528, Mismatches: 43, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
133 359 0.68
134 9 0.02
135 160 0.30
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (133 bp):
AGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
CGGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
ACT
Found at i:11356428 original size:268 final size:265
Alignment explanation
Indices: 11355950--11356659 Score: 1080
Period size: 268 Copynumber: 2.7 Consensus size: 265
11355940 AAATTTCGAC
*
11355950 AGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTGGC-AATCTTATCTCCATGTAT
* * *
11356015 CGACATTGGAGCATATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
65 CGGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
* * *
11356080 ACTAGATCTTATCTTTACTGAGCAGGAGCGGAGCAAATCAAATTTTGGTGAATCTTATCTCCATG
130 ACTAGATCTTATCTTTACTGAGCAGGAGCAGAGCAGATCAAATTTTGGCGAATCTTATCTCCATG
* *
11356145 TATCGGCAATGGAGCAGATTTCAGCCACCAGGCTTATCTTCACTGAGCAAGAGTGGAGCAGGCTA
195 TATCGGCAATGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAAGAGTGGAGCAGGCT-
11356210 AACATACT
259 -ACATACT
* *
11356218 AGATCTTATCTTCTCTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTGGCAA-TCTTATCTCCATGTAT
*
11356283 CGGCATTGGAGCAGATTTCAGCCACCAGCCTTAGCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
65 CGGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
**
11356348 ACTAGATCTTATCTTCGCTGAGCAGGAGCAGAGCAGATCAAATTTTGGCGAATCTTATCTCCATG
130 ACTAGATCTTATCTTTACTGAGCAGGAGCAGAGCAGATCAAATTTTGGCGAATCTTATCTCCATG
* *
11356413 TATCGGCATTGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTA
195 TATCGGCAATGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAAGAGTGGAGCAGGCTA
*
11356478 TATACT
260 CATACT
* *
11356484 AGATCTTATATTCGCTGAGCAGGAGCAAAGCAGATCAAATTTTGATG-AATCTTATCTCCATGTA
1 AGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTG--GCAATCTTATCTCCATGTA
* * ** * *
11356548 TCGGCAATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTAAGCAGGAGTGGAGCAGGCTAAA
64 TCGGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA
* * * *
11356613 CATACCAGATCTTATATTTACTGAGCAGGAGTAAAGCAGATCAAATT
128 -ATACTAGATCTTATCTTTACTGAGCAGGAGCAGAGCAGATCAAATT
11356660 ATAGTAGATC
Statistics
Matches: 403, Mismatches: 34, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
266 116 0.29
267 6 0.01
268 281 0.70
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (265 bp):
AGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTGGCAATCTTATCTCCATGTATC
GGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATA
CTAGATCTTATCTTTACTGAGCAGGAGCAGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGT
ATCGGCAATGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAAGAGTGGAGCAGGCTAC
ATACT
Found at i:11356905 original size:29 final size:29
Alignment explanation
Indices: 11356872--11356935 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
11356862 CCAAATTAAA
* *
11356872 CACCCCACTAAATCGA-CCACTAACTCTAT
1 CACCCCACTAAA-CCATCCACTAACTCCAT
* *
11356901 CACCCTACTAAACCATCCACTACCTCCAT
1 CACCCCACTAAACCATCCACTAACTCCAT
11356930 CACCCC
1 CACCCC
11356936 CACACCCTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.31, C:0.48, G:0.02, T:0.19
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTAACTCCAT
Found at i:11357412 original size:19 final size:18
Alignment explanation
Indices: 11357388--11357424 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
11357378 TTATGTTTCA
11357388 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
11357407 TATTATTATATATTTATT
1 TATTATTATATATTTATT
11357425 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Done.