Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold54
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: 3629595
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 8670 characters in sequence are not A, C, G, or T
File 1 of 20
Found at i:10047 original size:2 final size:2
Alignment explanation
Indices: 10040--10065 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10030 TTACCTATTT
10040 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
10066 ATTATTATAA
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:10280 original size:2 final size:2
Alignment explanation
Indices: 10275--10304 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10265 TCCCAAAAAA
*
10275 AG AG AG AG AG AG AG AG AG AG AG AG GG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10305 GGAGTAGACT
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:0.53, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10402 original size:12 final size:12
Alignment explanation
Indices: 10385--10414 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10375 GAGGCCAGTC
10385 AAATATATATAT
1 AAATATATATAT
10397 AAATATATATAT
1 AAATATATATAT
*
10409 ATATAT
1 AAATAT
10415 GTTAAAAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
AAATATATATAT
Found at i:13325 original size:27 final size:27
Alignment explanation
Indices: 13295--13346 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
13285 CATAATTATA
*
13295 TTTAAAATATT-TTATATTTATATTAAT
1 TTTAAAATATTAATA-ATTTATATTAAT
*
13322 TTTAATATATTAATAATTTATATTA
1 TTTAAAATATTAATAATTTATATTA
13347 TATAAGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTAAAATATTAATAATTTATATTAAT
Found at i:15398 original size:18 final size:17
Alignment explanation
Indices: 15349--15460 Score: 58
Period size: 18 Copynumber: 6.4 Consensus size: 17
15339 ATGTATATTT
15349 TAAAATTTATAT-AATA
1 TAAAATTTATATAAATA
*
15365 T-TAA-TTATA-AAGATA
1 TAAAATTTATATAA-ATA
15380 TCAAAATTTATATAAATA
1 T-AAAATTTATATAAATA
*
15398 TAAAA--TATTTAAA-A
1 TAAAATTTATATAAATA
15412 TAAAATTATAATACGATTAAATA
1 TAAAATT-T-AT---A-TAAATA
*
15435 TATAAATATAATATAAATA
1 TA-AAAT-TTATATAAATA
15454 TAAAATT
1 TAAAATT
15461 ATCATGCACT
Statistics
Matches: 74, Mismatches: 5, Indels: 33
0.66 0.04 0.29
Matches are distributed among these distances:
14 12 0.16
15 13 0.18
16 1 0.01
17 8 0.11
18 15 0.20
19 10 0.14
20 1 0.01
22 4 0.05
23 5 0.07
24 4 0.05
25 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:17280 original size:46 final size:46
Alignment explanation
Indices: 17213--17302 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 46
17203 GCAATTGAGA
*
17213 TACTTTTTCATTGGTAATTCTATTCGAAATTAGTCTAAGCTAAAGG
1 TACTTTTTCATTGGTAATTCTATTCGAAATTAATCTAAGCTAAAGG
*
17259 TACTTTTTCTTTGGTAATTCTATTCGAAATTAATCTAAGCTAAA
1 TACTTTTTCATTGGTAATTCTATTCGAAATTAATCTAAGCTAAA
17303 ACCTTTTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.43
Consensus pattern (46 bp):
TACTTTTTCATTGGTAATTCTATTCGAAATTAATCTAAGCTAAAGG
Found at i:17609 original size:2 final size:2
Alignment explanation
Indices: 17587--17626 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
17577 AAGAGTGTAC
* * *
17587 AT AT AT AC AT AT TT AT GT 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
17627 CTTTCTTCTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19021 original size:20 final size:21
Alignment explanation
Indices: 18976--19021 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
18966 TGGAAGTTAA
* * *
18976 ATGTGTATATAGGAGGTATCT
1 ATGTGTATATAGAAGGCATAT
18997 ATGTGTATATA-AAGGCATAT
1 ATGTGTATATAGAAGGCATAT
19017 ATGTG
1 ATGTG
19022 AATTGTAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (21 bp):
ATGTGTATATAGAAGGCATAT
Found at i:20149 original size:24 final size:25
Alignment explanation
Indices: 20122--20169 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
20112 TTGCATTAAG
*
20122 TGATTTTA-TGTAAATTTTAATTGT
1 TGATTTTACTGAAAATTTTAATTGT
20146 TGATTTTATCTGAAAATTTTAATT
1 TGATTTTA-CTGAAAATTTTAATT
20170 TATAAATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
26 13 0.62
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (25 bp):
TGATTTTACTGAAAATTTTAATTGT
Found at i:20466 original size:18 final size:19
Alignment explanation
Indices: 20432--20473 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
20422 TTTTTAATTT
20432 AATA-AAAATAATATATTA
1 AATATAAAATAATATATTA
*
20450 AATATAAAA-AATTTATTA
1 AATATAAAATAATATATTA
20468 AA-ATAA
1 AATATAA
20474 TTATTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 4 0.18
18 14 0.64
19 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATATAAAATAATATATTA
Found at i:20474 original size:31 final size:32
Alignment explanation
Indices: 20427--20488 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
20417 GTGAATTTTT
20427 AATTTAATAAAAATAATATATTAAAT-ATAAAA
1 AATTTAATAAAAATAAT-TATTAAATAATAAAA
*
20459 AATTT-ATTAAAATAATTATTAAATAATAAA
1 AATTTAATAAAAATAATTATTAAATAATAAA
20489 TACCTATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 8 0.29
31 15 0.54
32 5 0.18
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (32 bp):
AATTTAATAAAAATAATTATTAAATAATAAAA
Found at i:20497 original size:30 final size:31
Alignment explanation
Indices: 20436--20498 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
20426 TAATTTAATA
**
20436 AAAATAATATATTAAATATAAAAAATTTATT
1 AAAATAATATATTAAATATAAAAAACCTATT
*
20467 AAAATAAT-TATTAAATA-ATAAATACCTATT
1 AAAATAATATATTAAATATA-AAAAACCTATT
20497 AA
1 AA
20499 TCGATTTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 1 0.04
30 19 0.68
31 8 0.29
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (31 bp):
AAAATAATATATTAAATATAAAAAACCTATT
Found at i:22015 original size:19 final size:20
Alignment explanation
Indices: 21991--22038 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
21981 GTTAATAAAA
21991 TTTTTATAAAAT-TTTATTT
1 TTTTTATAAAATATTTATTT
*
22010 TTTTTAAATAATATATTTATTT
1 TTTTT--ATAAAATATTTATTT
*
22032 TTATTAT
1 TTTTTAT
22039 TTTAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 5 0.21
20 2 0.08
21 6 0.25
22 11 0.46
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTATAAAATATTTATTT
Found at i:23469 original size:17 final size:16
Alignment explanation
Indices: 23447--23488 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
23437 TAGTGGGTTG
23447 TATTAAA-ATAATTAAAA
1 TATTAAATAT-ATT-AAA
23464 TATTAAATATATTAAA
1 TATTAAATATATTAAA
*
23480 TATTTAATA
1 TATTAAATA
23489 AAATTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 11 0.48
17 10 0.43
18 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTAAATATATTAAA
Found at i:23480 original size:16 final size:18
Alignment explanation
Indices: 23447--23494 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
23437 TAGTGGGTTG
23447 TATTAAA-ATAATTAAAA
1 TATTAAATATAATTAAAA
23464 TATTAAATAT-ATT-AAA
1 TATTAAATATAATTAAAA
* *
23480 TATTTAATAAAATTA
1 TATTAAATATAATTA
23495 TTTATTTGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 11 0.42
17 13 0.50
18 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TATTAAATATAATTAAAA
Found at i:24926 original size:31 final size:31
Alignment explanation
Indices: 24888--24958 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
24878 TGTTTGCATT
* *
24888 TCTTTTTAGGCCCTTTGATTTCCTTGACAAG
1 TCTTTTTAGGCCCCTTGATTTCCTTCACAAG
*
24919 TCTTTTTAGGCCCCTTGATTTCCTTCACAAT
1 TCTTTTTAGGCCCCTTGATTTCCTTCACAAG
*
24950 TCTCTTTAG
1 TCTTTTTAG
24959 CCCGTTCCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.15, C:0.25, G:0.13, T:0.46
Consensus pattern (31 bp):
TCTTTTTAGGCCCCTTGATTTCCTTCACAAG
Found at i:25177 original size:34 final size:33
Alignment explanation
Indices: 25118--25208 Score: 141
Period size: 34 Copynumber: 2.8 Consensus size: 33
25108 TTTATAAATA
*
25118 AATAAAT-TTAAAAT-TAAAATTAAATTATTAT
1 AATAAATATTAAAATATAAGATTAAATTATTAT
25149 AATAAATATGTAAAATATAAGATTAAATTATTAT
1 AATAAATAT-TAAAATATAAGATTAAATTATTAT
25183 AATAAATATATAAAATATAAGATTAA
1 AATAAATAT-TAAAATATAAGATTAA
25209 TTAAGATAAG
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
31 7 0.13
32 1 0.02
33 6 0.11
34 41 0.75
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.37
Consensus pattern (33 bp):
AATAAATATTAAAATATAAGATTAAATTATTAT
Found at i:26486 original size:32 final size:30
Alignment explanation
Indices: 26419--26498 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 30
26409 TATATATATA
* *
26419 TATTACTTTGAAATTTTATAAATTTTAATT
1 TATTAATTTGATATTTTATAAATTTTAATT
26449 T-TTAATTTGATATTTATAATATAATTTT-ATT
1 TATTAATTTGATATTT-T-ATA-AATTTTAATT
26480 TATTAATTTGATATTTTAT
1 TATTAATTTGATATTTTAT
26499 CTTTTAACGT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
29 12 0.27
30 4 0.09
31 8 0.18
32 20 0.45
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (30 bp):
TATTAATTTGATATTTTATAAATTTTAATT
Found at i:26656 original size:21 final size:23
Alignment explanation
Indices: 26607--26657 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
26597 TATTATTATT
* *
26607 TAAAATTTTTATATATTAATCAT
1 TAAAATTTTTATATATTAATAAG
*
26630 TAAAATTTTTA-AT-TTTATAAG
1 TAAAATTTTTATATATTAATAAG
26651 TAAAATT
1 TAAAATT
26658 ATAAAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.48
22 2 0.08
23 11 0.44
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
TAAAATTTTTATATATTAATAAG
Found at i:27389 original size:14 final size:16
Alignment explanation
Indices: 27357--27393 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
27347 AGGATATAGT
*
27357 AAAAATATATATTGTA
1 AAAAATATATATTGAA
27373 AAAAATA-ATA-TGAA
1 AAAAATATATATTGAA
27387 AAAAATA
1 AAAAATA
27394 CTTGTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 10 0.50
15 3 0.15
16 7 0.35
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (16 bp):
AAAAATATATATTGAA
Found at i:30003 original size:18 final size:21
Alignment explanation
Indices: 29980--30026 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
29970 TATTTCGAAT
29980 TAAATAT-TAA-T-AAATAAA
1 TAAATATATAATTAAAATAAA
29998 TAAATAATATAATTAAAATAAA
1 TAAAT-ATATAATTAAAATAAA
30020 -AAATATA
1 TAAATATA
30027 ATTGCATCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 5 0.20
19 2 0.08
20 6 0.24
21 5 0.20
22 7 0.28
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAATATATAATTAAAATAAA
Found at i:30027 original size:18 final size:18
Alignment explanation
Indices: 29995--30029 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
29985 ATTAATAAAT
*
29995 AAATAAATAATATAATTA
1 AAATAAAAAATATAATTA
30013 AAATAAAAAATATAATT
1 AAATAAAAAATATAATT
30030 GCATCTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAAAAAATATAATTA
Found at i:35164 original size:18 final size:21
Alignment explanation
Indices: 35141--35187 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
35131 TATTTCGAAT
35141 TAAATAT-TAA-T-AAATAAA
1 TAAATATATAATTAAAATAAA
35159 TAAATAATATAATTAAAATAAA
1 TAAAT-ATATAATTAAAATAAA
35181 -AAATATA
1 TAAATATA
35188 ATTGCATCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 5 0.20
19 2 0.08
20 6 0.24
21 5 0.20
22 7 0.28
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAATATATAATTAAAATAAA
Found at i:35188 original size:18 final size:18
Alignment explanation
Indices: 35156--35190 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35146 ATTAATAAAT
*
35156 AAATAAATAATATAATTA
1 AAATAAAAAATATAATTA
35174 AAATAAAAAATATAATT
1 AAATAAAAAATATAATT
35191 GCATCTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAAAAAATATAATTA
Found at i:35227 original size:8 final size:8
Alignment explanation
Indices: 35206--35235 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
35196 TTTAATTTAA
35206 GCCCAAGT
1 GCCCAAGT
35214 GCCCCAAGT
1 G-CCCAAGT
35223 GCCCAAGT
1 GCCCAAGT
35231 GCCCA
1 GCCCA
35236 TCTTTGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.23, C:0.43, G:0.23, T:0.10
Consensus pattern (8 bp):
GCCCAAGT
Found at i:37856 original size:18 final size:18
Alignment explanation
Indices: 37835--37893 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 18
37825 TTAATTATTA
37835 AAATATAAATTATTAAAT
1 AAATATAAATTATTAAAT
37853 AAATATAAA-TATTTAAATAT
1 AAATATAAATTA-TT-AA-AT
37873 AAATATAATATATATTAAAT
1 AAATATAA-AT-TATTAAAT
37893 A
1 A
37894 TATCATATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
17 2 0.06
18 11 0.31
19 2 0.06
20 13 0.37
21 3 0.09
22 2 0.06
23 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATATAAATTATTAAAT
Found at i:37860 original size:6 final size:6
Alignment explanation
Indices: 37835--37895 Score: 56
Period size: 6 Copynumber: 10.2 Consensus size: 6
37825 TTAATTATTA
*
37835 AAATAT AAATTAT TAA-AT AAATAT AAATATTT AAATAT AAATAT -AATAT
1 AAATAT AAA-TAT AAATAT AAATAT AAATA--T AAATAT AAATAT AAATAT
*
37884 ATAT-T AAATAT A
1 AAATAT AAATAT A
37896 TCATATTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
5 13 0.29
6 21 0.47
7 5 0.11
8 6 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (6 bp):
AAATAT
Found at i:37903 original size:14 final size:13
Alignment explanation
Indices: 37852--37921 Score: 55
Period size: 14 Copynumber: 5.8 Consensus size: 13
37842 AATTATTAAA
*
37852 TAAATATAAATATT
1 TAAATATATATA-T
37866 TAAATATA-A-A-
1 TAAATATATATAT
*
37876 TATA-ATATATAT
1 TAAATATATATAT
37888 TAAATATATCATAT
1 TAAATATAT-ATAT
37902 T-AAT-TATAT-T
1 TAAATATATATAT
37912 TAAATATATA
1 TAAATATATA
37922 AGACATTTCA
Statistics
Matches: 47, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
9 3 0.06
10 6 0.13
11 6 0.13
12 11 0.23
13 8 0.17
14 13 0.28
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAATATATATAT
Found at i:37916 original size:40 final size:37
Alignment explanation
Indices: 37821--37919 Score: 94
Period size: 40 Copynumber: 2.6 Consensus size: 37
37811 TCTAATTTTT
*
37821 TATATTAA-T-TATTAAAATATAAATTATTAAATAAA
1 TATATTAATTATATTTAAATATAAATTATTAAATAAA
* * * * *
37856 TATAAATATTTAAATATAAATATAATATATATTAAATATA
1 TAT-ATTAATTATATTTAAATATAA-AT-TATTAAATAAA
37896 TCATATTAATTATATTTAAATATA
1 T-ATATTAATTATATTTAAATATA
37920 TAAGACATTT
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
35 3 0.06
36 3 0.06
37 1 0.02
38 10 0.21
39 2 0.04
40 27 0.56
41 2 0.04
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (37 bp):
TATATTAATTATATTTAAATATAAATTATTAAATAAA
Found at i:38743 original size:32 final size:28
Alignment explanation
Indices: 38696--38765 Score: 79
Period size: 32 Copynumber: 2.4 Consensus size: 28
38686 TTTTCTTTAA
*
38696 ATAAAAAAATTTAAAATATGATATAAATTTATT
1 ATAAAATAA-TTAAAATAT-A-ATAAA-TTA-T
38729 ATAAAATAATTAAAATATAATAAATTAT
1 ATAAAATAATTAAAATATAATAAATTAT
38757 A-AAAATAAT
1 ATAAAATAAT
38766 ATTATATTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
27 8 0.22
28 2 0.06
29 3 0.08
30 5 0.14
31 1 0.03
32 9 0.25
33 8 0.22
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (28 bp):
ATAAAATAATTAAAATATAATAAATTAT
Found at i:38810 original size:19 final size:18
Alignment explanation
Indices: 38728--38812 Score: 65
Period size: 18 Copynumber: 4.8 Consensus size: 18
38718 ATAAATTTAT
38728 TATA-AAATA-ATTAAAA
1 TATATAAATATATTAAAA
*
38744 TATAATAAAT-TATAAAAA
1 TAT-ATAAATATATTAAAA
*
38762 TA-AT-ATTATATTATATTAA
1 TATATAAATATATTA-A--AA
*
38781 TACATAAATATATTAAAA
1 TATATAAATATATTAAAA
38799 TATAT-AATATATTA
1 TATATAAATATATTA
38813 TTTTCACATT
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
15 2 0.04
16 9 0.16
17 11 0.20
18 18 0.33
19 4 0.07
20 3 0.05
21 8 0.15
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (18 bp):
TATATAAATATATTAAAA
Found at i:39538 original size:35 final size:35
Alignment explanation
Indices: 39471--39538 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
39461 TGGAGTAAAA
39471 AATAAATAAAATATTAAATATAAATTTTTAAAATT
1 AATAAATAAAATATTAAATATAAATTTTTAAAATT
* *
39506 AATAATTAAACATATTTAAT-T-AATTTTATAAAA
1 AATAAATAAA-ATATTAAATATAAATTTT-TAAAA
39539 AGATCACTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 6 0.21
35 15 0.52
36 8 0.28
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (35 bp):
AATAAATAAAATATTAAATATAAATTTTTAAAATT
Found at i:39847 original size:2 final size:2
Alignment explanation
Indices: 39842--39874 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
39832 AAATAAAAAA
39842 TC TC 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 TC TC T
39875 AACATTTGCT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:43046 original size:21 final size:21
Alignment explanation
Indices: 43020--43059 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
43010 ACTAAAGATC
*
43020 ATAGCACCAAGTCAAACAACT
1 ATAGCACCAAGTAAAACAACT
*
43041 ATAGCACTAAGTAAAACAA
1 ATAGCACCAAGTAAAACAA
43060 ATGCATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.23, G:0.10, T:0.15
Consensus pattern (21 bp):
ATAGCACCAAGTAAAACAACT
Found at i:43097 original size:11 final size:11
Alignment explanation
Indices: 43073--43107 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
43063 CATTTATTAA
43073 TTAATTATTATAT
1 TTAA-TATT-TAT
43086 TTAATATTTAT
1 TTAATATTTAT
43097 TTAATATTTAT
1 TTAATATTTAT
43108 GTGTTGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 14 0.64
12 4 0.18
13 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTAATATTTAT
Found at i:45380 original size:3 final size:3
Alignment explanation
Indices: 45372--45416 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
45362 CCCTGCCTTT
*
45372 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45417 CTGTGGTGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:48046 original size:18 final size:20
Alignment explanation
Indices: 48010--48050 Score: 68
Period size: 18 Copynumber: 2.1 Consensus size: 20
48000 AGTATAAAAC
48010 TTTTATAAAATACAAATAAA
1 TTTTATAAAATACAAATAAA
48030 TTTT-TAAAATA-AAATAAA
1 TTTTATAAAATACAAATAAA
48048 TTT
1 TTT
48051 CAATACTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.48
19 7 0.33
20 4 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTTATAAAATACAAATAAA
Found at i:49037 original size:28 final size:27
Alignment explanation
Indices: 48982--49062 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 27
48972 GCTACCCATT
48982 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
49009 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* * *
49037 TATTTGTCAAATATGGAGGCTTATTT
1 TGTTTGTCAAAAATGGTGG-TTATTT
49063 ATTTGTCAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
26 1 0.02
27 21 0.45
28 22 0.47
29 2 0.04
30 1 0.02
ACGTcount: A:0.22, C:0.07, G:0.23, T:0.47
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:49154 original size:20 final size:20
Alignment explanation
Indices: 49129--49174 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
49119 AAATAGAGGC
*
49129 TCCCTCCTCCCTCTCAAGTA
1 TCCCTCATCCCTCTCAAGTA
**
49149 TCCCTCATCCCTCTCTTGTA
1 TCCCTCATCCCTCTCAAGTA
49169 TCCCTC
1 TCCCTC
49175 TTCAATTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.11, C:0.50, G:0.04, T:0.35
Consensus pattern (20 bp):
TCCCTCATCCCTCTCAAGTA
Found at i:53611 original size:28 final size:27
Alignment explanation
Indices: 53556--53636 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 27
53546 GCCACTCATT
53556 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
53583 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* * *
53611 TATTTGTCAAATATGGAGGCTTATTT
1 TGTTTGTCAAAAATGGTGG-TTATTT
53637 ATTTGTCAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
26 1 0.02
27 21 0.45
28 22 0.47
29 2 0.04
30 1 0.02
ACGTcount: A:0.22, C:0.07, G:0.23, T:0.47
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:53728 original size:20 final size:20
Alignment explanation
Indices: 53703--53748 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
53693 AAATAGAGGC
*
53703 TCCCTCCTCCCTCTCAAGTA
1 TCCCTCATCCCTCTCAAGTA
**
53723 TCCCTCATCCCTCTCTTGTA
1 TCCCTCATCCCTCTCAAGTA
53743 TCCCTC
1 TCCCTC
53749 TTCAATTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.11, C:0.50, G:0.04, T:0.35
Consensus pattern (20 bp):
TCCCTCATCCCTCTCAAGTA
Found at i:54969 original size:2 final size:2
Alignment explanation
Indices: 54962--55000 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
54952 GCCGAAGAAC
54962 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 T
55001 GGTTGGTTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:55402 original size:75 final size:75
Alignment explanation
Indices: 55269--55407 Score: 188
Period size: 75 Copynumber: 1.9 Consensus size: 75
55259 GTGCTGATGG
* * * *
55269 ATAAAAGTGGGTATCATTTCAAGGTGCATGGTCCAGACCCAGAGATGCAACAATGGCAACACCCG
1 ATAAAAGTGGGTATCATTTCAAGATGCATGGTCCAGACCCAAAGAGGCAACAACGGCAACACCCG
55334 TGTAATGATA
66 TGTAATGATA
* ** * **
55344 ATAAAAGTGGGTATTATTTGGAGATGCATGGTCCAGATCCAAAGAGGGGACAACGGCAACACCC
1 ATAAAAGTGGGTATCATTTCAAGATGCATGGTCCAGACCCAAAGAGGCAACAACGGCAACACCC
55408 TTATCATGAT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
75 54 1.00
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (75 bp):
ATAAAAGTGGGTATCATTTCAAGATGCATGGTCCAGACCCAAAGAGGCAACAACGGCAACACCCG
TGTAATGATA
Found at i:67701 original size:14 final size:14
Alignment explanation
Indices: 67677--67709 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
67667 TAATTTTTAT
*
67677 AATAA-AATATATA
1 AATAATAATATAAA
67690 AATAATAATATAAA
1 AATAATAATATAAA
67704 AATAAT
1 AATAAT
67710 TTTTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAATAATATAAA
Found at i:68524 original size:20 final size:20
Alignment explanation
Indices: 68482--68530 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
68472 ATACATTTGA
* *
68482 TAAAAATATATTTAATTTTTT
1 TAAAAA-ATATTTAATATATT
*
68503 TAAAAAATATTTCATATATT
1 TAAAAAATATTTAATATATT
68523 TAAAAAAT
1 TAAAAAAT
68531 CGTATCTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
TAAAAAATATTTAATATATT
Found at i:69428 original size:8 final size:8
Alignment explanation
Indices: 69415--69440 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
69405 TTAACATATA
69415 ATAATTTT
1 ATAATTTT
69423 ATAATTTT
1 ATAATTTT
69431 ATAATTTT
1 ATAATTTT
69439 AT
1 AT
69441 TTACTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATAATTTT
Found at i:74292 original size:19 final size:21
Alignment explanation
Indices: 74256--74296 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
74246 AAAAAAATTA
*
74256 TTTTTATGTCATATTTATATT
1 TTTTTATGTCATAATTATATT
74277 TTTTTAT-T-ATAATTATATT
1 TTTTTATGTCATAATTATATT
74296 T
1 T
74297 AATATATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 1 0.05
21 7 0.37
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTTTATGTCATAATTATATT
Found at i:75258 original size:19 final size:18
Alignment explanation
Indices: 75216--75267 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
75206 AAATAAATTT
*
75216 AAATTTTAAAATATTTATA
1 AAATTTT-AAATATTTAAA
*
75235 TAATTTTAAATATTATAAA
1 AAATTTTAAATATT-TAAA
*
75254 AAATTATAAATATT
1 AAATTTTAAATATT
75268 CAATTCCCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATTTTAAATATTTAAA
Found at i:75753 original size:3 final size:3
Alignment explanation
Indices: 75745--75771 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
75735 TATGAAAATC
75745 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
75772 TATTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:76312 original size:13 final size:14
Alignment explanation
Indices: 76288--76319 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
76278 CAAATATGTT
76288 TATAATATAAATTA
1 TATAATATAAATTA
76302 TATAA-ATAAATTA
1 TATAATATAAATTA
76315 T-TAAT
1 TATAAT
76320 TTTAACATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 9 0.53
14 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TATAATATAAATTA
Found at i:76709 original size:10 final size:10
Alignment explanation
Indices: 76696--76735 Score: 57
Period size: 9 Copynumber: 4.2 Consensus size: 10
76686 TGCAAAATGC
76696 AAAAAAAA-A
1 AAAAAAAAGA
76705 AAAAAAAAGA
1 AAAAAAAAGA
*
76715 AAAGAAAAG-
1 AAAAAAAAGA
76724 AAAAAAAAGA
1 AAAAAAAAGA
76734 AA
1 AA
76736 TAACCATCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 16 0.59
10 11 0.41
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:76722 original size:19 final size:18
Alignment explanation
Indices: 76696--76735 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
76686 TGCAAAATGC
76696 AAAAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAAAG
*
76714 AAAAGAAAAGAAAAAAAAG
1 AAAA-AAAAAAAAAAAAAG
76733 AAA
1 AAA
76736 TAACCATCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAAAAAAAG
Found at i:79974 original size:101 final size:100
Alignment explanation
Indices: 79860--80064 Score: 265
Period size: 101 Copynumber: 2.0 Consensus size: 100
79850 ATATCAACAA
*
79860 CCAAAACAACATTAATTTGAAAAGA-CGAATAAAAAAAATAAAACAAGTCATC-C-AGTGAAAAA
1 CCAAAACAACATTAATTT-AAAAAACCGAATAAAAAAAA-AAAACAAGTCATCTCTAGT-AAAAA
*
79922 AGGG-ACCAAACAATAAAGTTGATTTGACAATCCCACCTT
63 AGGGAACC-AACAATAAAGTTGATTTGACAAT-CCACCTC
* * * * *
79961 CCAAAACAACATTAATTTAAAAAACCGAATCAAAAAGAAAAACAAGTCCTCTCTCGTAAAGAAGG
1 CCAAAACAACATTAATTTAAAAAACCGAATAAAAAAAAAAAACAAGTCATCTCTAGTAAAAAAGG
*
80026 GAACCAACAATAAAGTTGATTTGATAATCCACCTC
66 GAACCAACAATAAAGTTGATTTGACAATCCACCTC
80061 CCAA
1 CCAA
80065 GAAATTTCTT
Statistics
Matches: 92, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
100 27 0.29
101 60 0.65
102 5 0.05
ACGTcount: A:0.50, C:0.20, G:0.11, T:0.19
Consensus pattern (100 bp):
CCAAAACAACATTAATTTAAAAAACCGAATAAAAAAAAAAAACAAGTCATCTCTAGTAAAAAAGG
GAACCAACAATAAAGTTGATTTGACAATCCACCTC
Found at i:80243 original size:22 final size:21
Alignment explanation
Indices: 80218--80286 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 21
80208 ATTAATTTAC
80218 ATAATAATTAAATTTAAATAAA
1 ATAA-AATTAAATTTAAATAAA
* * **
80240 ATAAATTTTATATAAAAATAAA
1 ATAAA-ATTAAATTTAAATAAA
80262 ATAAAATTACAATCTTATAATAAA
1 ATAAAATTA-AAT-TTA-AATAAA
80286 A
1 A
80287 AATTTTCAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
21 4 0.11
22 23 0.66
23 1 0.03
24 7 0.20
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAAATTAAATTTAAATAAA
Found at i:80254 original size:16 final size:16
Alignment explanation
Indices: 80204--80261 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 16
80194 TAAGAAATAA
* *
80204 AAAAATTAATTTACAT
1 AAAAATAAATTTAAAT
*
80220 AATAATTAAATTTAAAT
1 AA-AAATAAATTTAAAT
*
80237 -AAAATAAATTTTATAT
1 AAAAATAAA-TTTAAAT
80253 AAAAATAAA
1 AAAAATAAA
80262 ATAAAATTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
15 6 0.18
16 9 0.26
17 19 0.56
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAAATAAATTTAAAT
Found at i:80267 original size:27 final size:30
Alignment explanation
Indices: 80233--80287 Score: 80
Period size: 27 Copynumber: 1.9 Consensus size: 30
80223 AATTAAATTT
*
80233 AAATAAAA-TA-AATTTTAT-ATAAAAATA
1 AAATAAAATTACAATCTTATAATAAAAATA
80260 AAATAAAATTACAATCTTATAATAAAAA
1 AAATAAAATTACAATCTTATAATAAAAA
80288 ATTTTCAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 8 0.33
28 2 0.08
29 7 0.29
30 7 0.29
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (30 bp):
AAATAAAATTACAATCTTATAATAAAAATA
Found at i:80432 original size:11 final size:11
Alignment explanation
Indices: 80400--80432 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
80390 TCTCAAATTA
80400 TTATTTATTTT
1 TTATTTATTTT
80411 TTA-TTATTTT
1 TTATTTATTTT
80421 TTATTTACTTTT
1 TTATTTA-TTTT
80433 AAAAGTAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 6 0.30
12 4 0.20
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (11 bp):
TTATTTATTTT
Found at i:81258 original size:25 final size:24
Alignment explanation
Indices: 81218--81276 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
81208 ATAAAAAAAT
* *
81218 TAAAATATAAAAATTTTATATTAATA
1 TAAAA-ATAAAAATTTAAAATTAA-A
* *
81244 TTAAAATAAATATTTAAAATTAAA
1 TAAAAATAAAAATTTAAAATTAAA
81268 TAAAAATAA
1 TAAAAATAA
81277 TTTATTAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 9 0.32
25 15 0.54
26 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TAAAAATAAAAATTTAAAATTAAA
Found at i:83120 original size:3 final size:3
Alignment explanation
Indices: 83112--83147 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
83102 TATGAAAATA
83112 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
83148 TTGATATGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:84174 original size:33 final size:33
Alignment explanation
Indices: 84126--84201 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
84116 TCCTTTGTTA
** * *
84126 TATTATATTGCTTTATTATATACTAATAAAATT
1 TATTATATTATTTTATTATAAAATAATAAAATT
* *
84159 TATTATATTATTTTATTTTAAAATATTAAAATT
1 TATTATATTATTTTATTATAAAATAATAAAATT
84192 TATT-TATTAT
1 TATTATATTAT
84202 ATTAAATCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 6 0.16
33 31 0.84
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (33 bp):
TATTATATTATTTTATTATAAAATAATAAAATT
Found at i:84406 original size:26 final size:26
Alignment explanation
Indices: 84347--84407 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
84337 GCAAACGATG
84347 GAAGAAAATAATTTTTAAAAGGTTTA
1 GAAGAAAATAATTTTTAAAAGGTTTA
* *
84373 GAAAAAAATAATTTTTAAAGGGTTTA
1 GAAGAAAATAATTTTTAAAAGGTTTA
*
84399 GATGAAAAT
1 GAAGAAAAT
84408 TAGTGAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.33
Consensus pattern (26 bp):
GAAGAAAATAATTTTTAAAAGGTTTA
Found at i:85271 original size:100 final size:100
Alignment explanation
Indices: 85098--85304 Score: 405
Period size: 100 Copynumber: 2.1 Consensus size: 100
85088 ATCGAGCACT
85098 AATATTACTCTTATAAAATTATCTAATTATATACTATTATATAACAAATGCCGTTAAGCTATGAC
1 AATATTACTCTTATAAAATTATCTAATTATATACTATTATATAACAAATGCCGTTAAGCTATGAC
85163 TACACTTTAATGTACTTAATTTAATAATTAAAATA
66 TACACTTTAATGTACTTAATTTAATAATTAAAATA
*
85198 AATATTACTCTTATAAAATTATCTAATTATATACTATTATATAACAAATGCCGTTAAGCTATGGC
1 AATATTACTCTTATAAAATTATCTAATTATATACTATTATATAACAAATGCCGTTAAGCTATGAC
85263 TACACTTTAATGTACTTAATTTAATAATTAAAATA
66 TACACTTTAATGTACTTAATTTAATAATTAAAATA
85298 AATATTA
1 AATATTA
85305 AAAAATTACT
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 106 1.00
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (100 bp):
AATATTACTCTTATAAAATTATCTAATTATATACTATTATATAACAAATGCCGTTAAGCTATGAC
TACACTTTAATGTACTTAATTTAATAATTAAAATA
Found at i:86006 original size:3 final size:3
Alignment explanation
Indices: 85998--86029 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
85988 TGAAAATGAG
*
85998 TAA TAA TAA TAA TAA TAA TAA TAA TCA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
86030 GACACATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:86194 original size:18 final size:18
Alignment explanation
Indices: 86159--86203 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
86149 TTAATAATAT
*
86159 AATTTTAAATATAGTTAA
1 AATTTTAAAAATAGTTAA
86177 AATTATTAAAAATA-TTAA
1 AATT-TTAAAAATAGTTAA
86195 AATTTTAAA
1 AATTTTAAA
86204 TAAAATATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 5 0.20
18 12 0.48
19 8 0.32
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
AATTTTAAAAATAGTTAA
Found at i:86620 original size:22 final size:21
Alignment explanation
Indices: 86566--86628 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 21
86556 ATAATTAAAA
86566 AATATATTTTTTAAAAAATATG
1 AATA-ATTTTTTAAAAAATATG
*
86588 AATAATATTTTTAAAAAAT-TT
1 AATAAT-TTTTTAAAAAATATG
86609 ACAGTAATTTTTTAAGAAAA
1 A-A-TAATTTTTTAA-AAAA
86629 ATTATTGTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
21 4 0.11
22 24 0.67
23 8 0.22
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.43
Consensus pattern (21 bp):
AATAATTTTTTAAAAAATATG
Found at i:89380 original size:3 final size:3
Alignment explanation
Indices: 89372--89411 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
89362 TATGGAAATG
* *
89372 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAC AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
89412 GACACATCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:89393 original size:12 final size:12
Alignment explanation
Indices: 89372--89411 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
89362 TATGGAAATG
*
89372 AATAATAATAAT
1 AATAACAATAAT
89384 AATAACAATAAT
1 AATAACAATAAT
89396 AATAACAATAAT
1 AATAACAATAAT
89408 AATA
1 AATA
89412 GACACATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (12 bp):
AATAACAATAAT
Found at i:97902 original size:2 final size:2
Alignment explanation
Indices: 97895--97936 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
97885 TACAATTTCA
97895 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
97937 TACATACATT
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:100707 original size:2 final size:2
Alignment explanation
Indices: 100702--100746 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
100692 ACACACACAC
100702 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
100744 AT A
1 AT A
100747 CACACACACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:101212 original size:20 final size:21
Alignment explanation
Indices: 101184--101222 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
101174 ATTTTATTAA
101184 TTTTAAAATA-TAAAAAAAGG
1 TTTTAAAATATTAAAAAAAGG
*
101204 TTTTTAAATATTAAAAAAA
1 TTTTAAAATATTAAAAAAA
101223 TAGAAAGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
TTTTAAAATATTAAAAAAAGG
Found at i:101329 original size:13 final size:13
Alignment explanation
Indices: 101311--101373 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 13
101301 GGCTTATTTG
101311 ATTATATCAATTA
1 ATTATATCAATTA
*
101324 ATTATATTGAAAATTA
1 ATTATA-T--CAATTA
*
101340 GATTATATCATTTA
1 -ATTATATCAATTA
* *
101354 ATTGTGTCAATTA
1 ATTATATCAATTA
101367 ATTATAT
1 ATTATAT
101374 TGAAATTATA
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
13 21 0.55
14 5 0.13
16 6 0.16
17 6 0.16
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (13 bp):
ATTATATCAATTA
Found at i:102130 original size:2 final size:2
Alignment explanation
Indices: 102125--102151 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
102115 TTAATGAATA
102125 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
102152 AAGAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:102509 original size:6 final size:6
Alignment explanation
Indices: 102498--102525 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
102488 GGATTGAATA
102498 TATATT TATATT TATATT TATATT TATA
1 TATATT TATATT TATATT TATATT TATA
102526 ATTGATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TATATT
Found at i:102535 original size:18 final size:18
Alignment explanation
Indices: 102498--102535 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
102488 GGATTGAATA
*
102498 TATATTTATATTTATATT
1 TATATTTATATTGATATT
102516 TATATTTATAATTGAT-TT
1 TATATTTAT-ATTGATATT
102534 TA
1 TA
102536 CCAGTACCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
TATATTTATATTGATATT
Found at i:104499 original size:72 final size:72
Alignment explanation
Indices: 104382--104529 Score: 203
Period size: 72 Copynumber: 2.1 Consensus size: 72
104372 ATTGCTTCTA
*
104382 TTTGTCAACATTAGATGTTAGCAATAACAAACTCGTTGGTGGGATACCAAATTGGATGGAGAATA
1 TTTGTCAACATTAGATGTTAGCAATAACAAACTCGTTGGTGGGATACCAAAGTGGATGGAGAATA
104447 TGTCAAG
66 TGTCAAG
* * *
104454 TTTGTCAACATTGGAT-TTAAGCAATAACAAACT-TTCTGG-GCGGATACCAAAGTGGATGGGGA
1 TTTGTCAACATTAGATGTT-AGCAATAACAAACTCGT-TGGTG-GGATACCAAAGTGGATGGAGA
*
104516 ATTTGTCAAG
63 ATATGTCAAG
104526 TTTG
1 TTTG
104530 GAAGAAATTG
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
71 4 0.06
72 64 0.94
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.30
Consensus pattern (72 bp):
TTTGTCAACATTAGATGTTAGCAATAACAAACTCGTTGGTGGGATACCAAAGTGGATGGAGAATA
TGTCAAG
Found at i:107183 original size:20 final size:21
Alignment explanation
Indices: 107158--107196 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
107148 TGCAGATGTA
*
107158 AGAACAT-TTAAAACAAAAAT
1 AGAACATGTAAAAACAAAAAT
107178 AGAACATGTAAAAACAAAA
1 AGAACATGTAAAAACAAAA
107197 TTCTTTGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.67, C:0.10, G:0.08, T:0.15
Consensus pattern (21 bp):
AGAACATGTAAAAACAAAAAT
Found at i:107893 original size:2 final size:2
Alignment explanation
Indices: 107888--107917 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
107878 CGGAAGGGGG
107888 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
107918 AGGGGTGTGA
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:108251 original size:60 final size:60
Alignment explanation
Indices: 108156--108274 Score: 177
Period size: 60 Copynumber: 2.0 Consensus size: 60
108146 AATTTTGCCT
108156 GCTTAACACTAGAAAAGAATAACCTAGTCCATGGGAATTTTAAGTTATTATTTATTTACA
1 GCTTAACACTAGAAAAGAATAACCTAGTCCATGGGAATTTTAAGTTATTATTTATTTACA
* * * * *
108216 GCTTACCACTAGAAAAGAATGACCTTGT-CAGTGGGAATTTTAAGTTTTTATTTGTTTAC
1 GCTTAACACTAGAAAAGAATAACCTAGTCCA-TGGGAATTTTAAGTTATTATTTATTTAC
108275 TTTCAAGTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
59 2 0.04
60 51 0.96
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (60 bp):
GCTTAACACTAGAAAAGAATAACCTAGTCCATGGGAATTTTAAGTTATTATTTATTTACA
Found at i:114019 original size:2 final size:2
Alignment explanation
Indices: 114012--114054 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
114002 GCTGTAGCCA
114012 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
114054 A
1 A
114055 AGATGAGTCT
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:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:120348 original size:2 final size:2
Alignment explanation
Indices: 120341--120381 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
120331 ATGATGTGTT
120341 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
120382 GTCTTTATTC
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:120565 original size:22 final size:20
Alignment explanation
Indices: 120540--120580 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
120530 TAAAATAAAA
120540 AATAATATTATTTTAAATATTT
1 AATAATA-TATTTT-AATATTT
*
120562 AATATTATATTTTAATATT
1 AATAATATATTTTAATATT
120581 ATTCTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 6 0.33
22 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AATAATATATTTTAATATTT
Found at i:120566 original size:19 final size:20
Alignment explanation
Indices: 120542--120580 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
120532 AAATAAAAAA
120542 TAATATTAT-TTTAAATATT
1 TAATATTATATTTAAATATT
*
120561 TAATATTATATTTTAATATT
1 TAATATTATATTTAAATATT
120581 ATTCTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TAATATTATATTTAAATATT
Found at i:120996 original size:27 final size:28
Alignment explanation
Indices: 120960--121026 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 28
120950 ATTTTTATAT
120960 TTTATAATTATATTTAAAAAT-TTATATAA
1 TTTAT-ATTATATTTAAAAATGTTA-ATAA
* *
120989 TTT-TATTA-ATTTTAATATGTTAATAA
1 TTTATATTATATTTAAAAATGTTAATAA
121015 TTTATATTATAT
1 TTTATATTATAT
121027 AAATTTTACA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
26 15 0.45
27 12 0.36
28 3 0.09
29 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (28 bp):
TTTATATTATATTTAAAAATGTTAATAA
Found at i:121062 original size:16 final size:17
Alignment explanation
Indices: 121043--121082 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
121033 TACAATACAT
*
121043 TTATTTTATG-TTTATA
1 TTATTTTATGATATATA
*
121059 TTATTTTATGATATATT
1 TTATTTTATGATATATA
121076 TTATTTT
1 TTATTTT
121083 TTTTAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (17 bp):
TTATTTTATGATATATA
Found at i:121493 original size:34 final size:34
Alignment explanation
Indices: 121428--121493 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
121418 ATTTAACATA
* *
121428 TTTTTATATTTATAATATAATATTTACATATAAC
1 TTTTTATATATATAATATAATATATACATATAAC
* *
121462 TTTTTATATAATATAA-ATTATATATATATATA
1 TTTTTATAT-ATATAATATAATATATACATATA
121494 TAATATATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 22 0.81
35 5 0.19
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (34 bp):
TTTTTATATATATAATATAATATATACATATAAC
Found at i:121580 original size:42 final size:40
Alignment explanation
Indices: 121496--121580 Score: 91
Period size: 42 Copynumber: 2.1 Consensus size: 40
121486 TATATATATA
* * *
121496 ATATATTATATTATTAACTAAAAACGAATTTAACTTATTT
1 ATATATCATATTATTAACTAAAAACAAATTTAACTTAATT
* *
121536 ATATATCATATTATATAATTAAAAAATAAATTTAA-TTAAATT
1 ATATATCATATTAT-TAACT-AAAAACAAATTTAACTT-AATT
121578 ATA
1 ATA
121581 CTCAAATCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
40 13 0.35
41 6 0.16
42 18 0.49
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.44
Consensus pattern (40 bp):
ATATATCATATTATTAACTAAAAACAAATTTAACTTAATT
Found at i:122041 original size:2 final size:2
Alignment explanation
Indices: 122034--122083 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
122024 TGTGCTCAGG
122034 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
122076 TC TC TC TC
1 TC TC TC TC
122084 GCTTCGCTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:124044 original size:15 final size:15
Alignment explanation
Indices: 124026--124074 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
124016 CGGCGAAGAC
*
124026 GATGACGATGATGGG
1 GATGACGATGATGAG
* * *
124041 GATGAAGATGAAGAT
1 GATGACGATGATGAG
*
124056 GATGACGATGATGAT
1 GATGACGATGATGAG
124071 GATG
1 GATG
124075 GGGAAGAAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.35, C:0.04, G:0.39, T:0.22
Consensus pattern (15 bp):
GATGACGATGATGAG
Found at i:124084 original size:30 final size:30
Alignment explanation
Indices: 124020--124084 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
124010 AGAGGACGGC
* *
124020 GAAGACGATGACGATGATGGGGATGAAGAT
1 GAAGACGATGACGATGATGAGGATGAAGAA
* * **
124050 GAAGATGATGACGATGATGATGATGGGGAA
1 GAAGACGATGACGATGATGAGGATGAAGAA
124080 GAAGA
1 GAAGA
124085 AGAAGAGGAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.05, G:0.40, T:0.17
Consensus pattern (30 bp):
GAAGACGATGACGATGATGAGGATGAAGAA
Found at i:125410 original size:14 final size:14
Alignment explanation
Indices: 125386--125418 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
125376 TAATTTTTAT
*
125386 AATAA-AATATATA
1 AATAATAATATAAA
125399 AATAATAATATAAA
1 AATAATAATATAAA
125413 AATAAT
1 AATAAT
125419 TTTTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAATAATATAAA
Found at i:125784 original size:13 final size:13
Alignment explanation
Indices: 125765--125797 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
125755 ATATTTCATT
125765 CTTTAATTTG-TG
1 CTTTAATTTGTTG
125777 CTTATAATTTGTTG
1 CTT-TAATTTGTTG
125791 CTTTAAT
1 CTTTAAT
125798 AGCTTGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 11 0.58
14 5 0.26
ACGTcount: A:0.21, C:0.09, G:0.12, T:0.58
Consensus pattern (13 bp):
CTTTAATTTGTTG
Found at i:131559 original size:14 final size:15
Alignment explanation
Indices: 131530--131562 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
131520 CTTCAACTTA
131530 TTAAAATAACTTTTT
1 TTAAAATAACTTTTT
131545 TTAAAAT-A-TTTTT
1 TTAAAATAACTTTTT
131558 TTAAA
1 TTAAA
131563 GGTAAATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 1 0.06
15 7 0.39
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAAAATAACTTTTT
Found at i:131979 original size:24 final size:22
Alignment explanation
Indices: 131936--131979 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
131926 TAAATAATCA
* *
131936 TATTTTTTGATTATGTTTATAT
1 TATTTTTTGATCATGCTTATAT
131958 TATTTTTTCGTATCATGCTTAT
1 TATTTTTT-G-ATCATGCTTAT
131980 TTTAATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
23 1 0.06
24 9 0.50
ACGTcount: A:0.20, C:0.07, G:0.09, T:0.64
Consensus pattern (22 bp):
TATTTTTTGATCATGCTTATAT
Found at i:133490 original size:20 final size:20
Alignment explanation
Indices: 133454--133492 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
133444 CGTCATACCC
*
133454 AATTTATATTAATTTTTAAT
1 AATTTATATTAAATTTTAAT
133474 AATTTAT-TTAAAATTTTAA
1 AATTTATATT-AAATTTTAA
133493 AAAAATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTTATATTAAATTTTAAT
Found at i:133674 original size:22 final size:22
Alignment explanation
Indices: 133649--133690 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
133639 TAATACATGT
133649 AAATTTACAA-TCCCAAAATAAG
1 AAATTT-CAATTCCCAAAATAAG
133671 AAATTTCAATTCCCAAAATA
1 AAATTTCAATTCCCAAAATA
133691 CTATTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.52, C:0.19, G:0.02, T:0.26
Consensus pattern (22 bp):
AAATTTCAATTCCCAAAATAAG
Found at i:133823 original size:13 final size:13
Alignment explanation
Indices: 133789--133826 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
133779 ATAACACTTG
*
133789 TAAATATATT-TA
1 TAAATAAATTATA
133801 TAATATAAATTATA
1 TAA-ATAAATTATA
133815 TAAATAAATTAT
1 TAAATAAATTAT
133827 TAATTTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 3 0.13
13 15 0.65
14 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAATAAATTATA
Found at i:135094 original size:19 final size:19
Alignment explanation
Indices: 135063--135110 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
135053 AAATTTAATT
* *
135063 TTTTAAATA-TTTATATAA
1 TTTTAAATATTTTAAAAAA
135081 TTTTAAATATTTTAAAAAA
1 TTTTAAATATTTTAAAAAA
*
135100 TTATAAATATT
1 TTTTAAATATT
135111 CAATTCCCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTTAAATATTTTAAAAAA
Found at i:138909 original size:21 final size:20
Alignment explanation
Indices: 138862--138909 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
138852 ATCACTTTGC
* *
138862 AAAAT-AACTAAATTTAATT
1 AAAATAAACTAAATATAAGT
*
138881 AGAATAAACTAAATAATAAGT
1 AAAATAAACTAAAT-ATAAGT
138902 AAAATAAA
1 AAAATAAA
138910 ATTACAATCC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 4 0.17
20 8 0.35
21 11 0.48
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (20 bp):
AAAATAAACTAAATATAAGT
Found at i:141631 original size:27 final size:29
Alignment explanation
Indices: 141596--141654 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 29
141586 TGTATAAAAT
* *
141596 ATATTTAATTTAT-TATTTTAAAT-ATTA
1 ATATGTAATATATATATTTTAAATAATTA
*
141623 ATATGTAATATATCATATTTTATATAATTA
1 ATATGTAATATAT-ATATTTTAAATAATTA
141653 AT
1 AT
141655 TATTAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 11 0.42
29 9 0.35
30 6 0.23
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (29 bp):
ATATGTAATATATATATTTTAAATAATTA
Found at i:142942 original size:2 final size:2
Alignment explanation
Indices: 142935--142971 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
142925 AACTACAATT
142935 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
142972 TACATACATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:148739 original size:69 final size:69
Alignment explanation
Indices: 148651--148809 Score: 291
Period size: 69 Copynumber: 2.3 Consensus size: 69
148641 TATATCTTTA
* *
148651 TTCCAATCAGTTTTCTGGAGATGTATCCGTCCTTAAGAGTCTAACATCCCTTCAGTCGTTAGATC
1 TTCCAATCAATTTTCTGGAGATGTATCCGCCCTTAAGAGTCTAACATCCCTTCAGTCGTTAGATC
148716 TCTC
66 TCTC
*
148720 TTCCAATCAATTTTCTGGAGATGTATCCGCCCTTAAGAGTCTAACATCCCTTCAGTGGTTAGATC
1 TTCCAATCAATTTTCTGGAGATGTATCCGCCCTTAAGAGTCTAACATCCCTTCAGTCGTTAGATC
148785 TCTC
66 TCTC
148789 TTCCAATCAATTTTCTGGAGA
1 TTCCAATCAATTTTCTGGAGA
148810 ATTATTTTGG
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 87 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (69 bp):
TTCCAATCAATTTTCTGGAGATGTATCCGCCCTTAAGAGTCTAACATCCCTTCAGTCGTTAGATC
TCTC
Found at i:149192 original size:72 final size:72
Alignment explanation
Indices: 149075--149222 Score: 212
Period size: 72 Copynumber: 2.1 Consensus size: 72
149065 ATTGCTCCTA
*
149075 TTTGTCAACATTGGATGTTAGCAATAACAAACTCGTTGGTGGGATACCAAATTGGATGGAGAATA
1 TTTGTCAACATTGGATGTTAGCAATAACAAACTCGTTGGTGGGATACCAAAGTGGATGGAGAATA
149140 TGTCAAG
66 TGTCAAG
* *
149147 TTTGTCAACATTGGAT-TTAAGCAATAACAAACT-TTCTGG-GCGGATACCAAAGTGGATGGGGA
1 TTTGTCAACATTGGATGTT-AGCAATAACAAACTCGT-TGGTG-GGATACCAAAGTGGATGGAGA
*
149209 ATTTGTCAAG
63 ATATGTCAAG
149219 TTTG
1 TTTG
149223 GAAGAAATTG
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
71 4 0.06
72 65 0.94
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (72 bp):
TTTGTCAACATTGGATGTTAGCAATAACAAACTCGTTGGTGGGATACCAAAGTGGATGGAGAATA
TGTCAAG
Found at i:150676 original size:3 final size:3
Alignment explanation
Indices: 150668--150693 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
150658 GAAGAAATGA
150668 AGC AGC AGC AGC AGC AGC AGC AGC AG
1 AGC AGC AGC AGC AGC AGC AGC AGC AG
150694 TAGGGATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.35, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:152293 original size:2 final size:2
Alignment explanation
Indices: 152288--152328 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
152278 GGGGGGGGGA
152288 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
152329 AGGGGTGTGA
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:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:152662 original size:60 final size:60
Alignment explanation
Indices: 152567--152685 Score: 177
Period size: 60 Copynumber: 2.0 Consensus size: 60
152557 AATTTTGCCT
152567 GCTTAACACTAGAAAAGAATAACCTAGTCCATGGGAATTTTAAGTTATTATTTATTTACA
1 GCTTAACACTAGAAAAGAATAACCTAGTCCATGGGAATTTTAAGTTATTATTTATTTACA
* * * * *
152627 GCTTACCACTAGAAAAGAATGACCTTGT-CAGTGGGAATTTTAAGTTTTTATTTGTTTAC
1 GCTTAACACTAGAAAAGAATAACCTAGTCCA-TGGGAATTTTAAGTTATTATTTATTTAC
152686 TTTCAAGTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
59 2 0.04
60 51 0.96
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (60 bp):
GCTTAACACTAGAAAAGAATAACCTAGTCCATGGGAATTTTAAGTTATTATTTATTTACA
Found at i:164834 original size:36 final size:36
Alignment explanation
Indices: 164794--164865 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
164784 TCATTTTATA
164794 TATATATATATATATATATTGGTATGAATTATGAAG
1 TATATATATATATATATATTGGTATGAATTATGAAG
164830 TATATATATATATATATATTGGTATGAATTATGAAG
1 TATATATATATATATATATTGGTATGAATTATGAAG
164866 AAAGATGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (36 bp):
TATATATATATATATATATTGGTATGAATTATGAAG
Found at i:165092 original size:19 final size:18
Alignment explanation
Indices: 165070--165117 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
165060 AAATAATAAA
165070 TAATATTATTTTAAATATT
1 TAATATTATTTTAAAT-TT
* *
165089 TAATATTAATATTAGATTT
1 TAATATT-ATTTTAAATTT
165108 TAATATTATT
1 TAATATTATT
165118 CTTTAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 16 0.64
20 7 0.28
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TAATATTATTTTAAATTT
Found at i:165579 original size:11 final size:11
Alignment explanation
Indices: 165565--165609 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
165555 TTATATAAAT
165565 TTTATGATATA
1 TTTATGATATA
**
165576 TTTATTTTATA
1 TTTATGATATA
165587 TTTAT-ATAT-
1 TTTATGATATA
165596 TTTATGATATA
1 TTTATGATATA
165607 TTT
1 TTT
165610 TAATTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 5 0.17
10 7 0.24
11 17 0.59
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (11 bp):
TTTATGATATA
Found at i:165601 original size:31 final size:32
Alignment explanation
Indices: 165549--165609 Score: 106
Period size: 31 Copynumber: 1.9 Consensus size: 32
165539 GTGTTAATAA
165549 TTTATATTATATAAATTTTATGATATATTTAT
1 TTTATATTATATAAATTTTATGATATATTTAT
*
165581 TTTATATT-TATATATTTTATGATATATTT
1 TTTATATTATATAAATTTTATGATATATTT
165610 TAATTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (32 bp):
TTTATATTATATAAATTTTATGATATATTTAT
Found at i:165610 original size:27 final size:30
Alignment explanation
Indices: 165549--165616 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
165539 GTGTTAATAA
165549 TTTATATTATATAAATTTTATGATATATTTAT
1 TTTATATTATATAAATTTTATGA-ATA-TTAT
*
165581 TTTATATT-TATATATTTTATG-ATA-TAT
1 TTTATATTATATAAATTTTATGAATATTAT
165608 TTTA-ATTAT
1 TTTATATTAT
165617 TTTTTAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
26 3 0.09
27 8 0.24
29 3 0.09
31 12 0.35
32 8 0.24
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (30 bp):
TTTATATTATATAAATTTTATGAATATTAT
Found at i:166012 original size:17 final size:16
Alignment explanation
Indices: 165998--166028 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
165988 ACATATAATT
165998 TTTTATATAATATAAA
1 TTTTATATAATATAAA
166014 TTTTATATAA-ATAAA
1 TTTTATATAATATAAA
166029 AAATATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTTATATAATATAAA
Found at i:166115 original size:42 final size:40
Alignment explanation
Indices: 166031--166115 Score: 100
Period size: 42 Copynumber: 2.1 Consensus size: 40
166021 TAAATAAAAA
* * *
166031 ATATATTATATTATTAACTAAAAACGAATTTAACTTATTT
1 ATATATCATATTATTAACTAAAAACAAATTTAACTTAATT
*
166071 ATATATCATATTATATAACTAAAAAATAAATTTAA-TTAAATT
1 ATATATCATATTAT-TAACT-AAAAACAAATTTAACTT-AATT
166113 ATA
1 ATA
166116 CTTAAATCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
40 13 0.34
41 7 0.18
42 18 0.47
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (40 bp):
ATATATCATATTATTAACTAAAAACAAATTTAACTTAATT
Found at i:166532 original size:6 final size:6
Alignment explanation
Indices: 166521--166552 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
166511 ACCCTAACTG
*
166521 GACCCA GACCCA TACCCA GACCCA GACCCA GA
1 GACCCA GACCCA GACCCA GACCCA GACCCA GA
166553 ATCCACTCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.34, C:0.47, G:0.16, T:0.03
Consensus pattern (6 bp):
GACCCA
Found at i:166578 original size:2 final size:2
Alignment explanation
Indices: 166571--166610 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
166561 TGTGCTCAGG
*
166571 TC TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
166611 GCTTCGCTAT
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:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:168551 original size:21 final size:21
Alignment explanation
Indices: 168516--168635 Score: 80
Period size: 21 Copynumber: 5.6 Consensus size: 21
168506 GGAGGGAGTA
* * * *
168516 ATGAAGAGGACGGCGAAGACG
1 ATGAAGATGATGGCGATGAAG
*
168537 ATGACGATGATGGCGATGAAG
1 ATGAAGATGATGGCGATGAAG
*
168558 ATGAAGATGATGACGATGATGATG
1 ATGAAGATGATGGCGATGA--A-G
* * *
168582 ATGATGATGATGGGGAAGAAG
1 ATGAAGATGATGGCGATGAAG
* * *
168603 AAGAAGAAGA-GGACGAAGAAG
1 ATGAAGATGATGG-CGATGAAG
*
168624 ATGAGGATGATG
1 ATGAAGATGATG
168636 AGGTTCCTCA
Statistics
Matches: 76, Mismatches: 18, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
20 2 0.03
21 55 0.72
22 2 0.03
23 1 0.01
24 16 0.21
ACGTcount: A:0.40, C:0.06, G:0.39, T:0.15
Consensus pattern (21 bp):
ATGAAGATGATGGCGATGAAG
Found at i:168578 original size:3 final size:3
Alignment explanation
Indices: 168536--168593 Score: 62
Period size: 3 Copynumber: 19.3 Consensus size: 3
168526 CGGCGAAGAC
* ** * * *
168536 GAT GAC GAT GAT GGC GAT GAA GAT GAA GAT GAT GAC GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
168584 GAT GAT GAT G
1 GAT GAT GAT G
168594 GGGAAGAAGA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:170040 original size:14 final size:14
Alignment explanation
Indices: 170000--170032 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
169990 TAATTTTTAT
170000 AATAA-AATATAAA
1 AATAATAATATAAA
170013 AATAATAATATAAA
1 AATAATAATATAAA
170027 AATAAT
1 AATAAT
170033 TTTTTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAATAATATAAA
Found at i:170280 original size:18 final size:17
Alignment explanation
Indices: 170257--170296 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
170247 TTCACATTCC
170257 ATTTTTATCAATTAATAT
1 ATTTTTAT-AATTAATAT
**
170275 ATTTTTATTTTTAATAT
1 ATTTTTATAATTAATAT
170292 ATTTT
1 ATTTT
170297 AAAAATTACG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTTATAATTAATAT
Found at i:170402 original size:13 final size:13
Alignment explanation
Indices: 170383--170415 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
170373 ATATTTCATT
170383 CTTTAATTTG-TG
1 CTTTAATTTGTTG
170395 CTTATAATTTGTTG
1 CTT-TAATTTGTTG
170409 CTTTAAT
1 CTTTAAT
170416 AGCTTGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 11 0.58
14 5 0.26
ACGTcount: A:0.21, C:0.09, G:0.12, T:0.58
Consensus pattern (13 bp):
CTTTAATTTGTTG
Found at i:170866 original size:17 final size:18
Alignment explanation
Indices: 170835--170875 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
170825 ATTTAATTTT
*
170835 TTTAAAAAATTTTATATA
1 TTTAAAAAATATTATATA
*
170853 TTTAAAAAA-ATTATATC
1 TTTAAAAAATATTATATA
170870 TTTAAA
1 TTTAAA
170876 TATATTTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTAAAAAATATTATATA
Done.