Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 137 of 147
Found at i:24996458 original size:13 final size:13
Alignment explanation
Indices: 24996440--24996465 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24996430 TTAAGATGTA
24996440 TTATTTTTATATC
1 TTATTTTTATATC
24996453 TTATTTTTATATC
1 TTATTTTTATATC
24996466 GTGTTCATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTTTTATATC
Found at i:24997531 original size:30 final size:30
Alignment explanation
Indices: 24997497--24997585 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
24997487 TTAATTTACA
24997497 TTAAGAGTTTATTTAAATACAAATTAAAAG
1 TTAAGAGTTTATTTAAATACAAATTAAAAG
* ** * * *
24997527 TTAAGAATTTATTTGGACATAAATTAAAGG
1 TTAAGAGTTTATTTAAATACAAATTAAAAG
*
24997557 TT-AGAGATTTATTTAAATGCAAATTAAAA
1 TTAAGAG-TTTATTTAAATACAAATTAAAA
24997586 ATTAGAATAT
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 3 0.07
30 42 0.93
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.37
Consensus pattern (30 bp):
TTAAGAGTTTATTTAAATACAAATTAAAAG
Found at i:24998781 original size:2 final size:2
Alignment explanation
Indices: 24998774--24998798 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24998764 AGCTGTAACT
24998774 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 T
24998799 TCATTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25003098 original size:15 final size:15
Alignment explanation
Indices: 25003080--25003111 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25003070 AAATAAAAAA
25003080 TAATATAATATTATT
1 TAATATAATATTATT
*
25003095 TAATATAATTTTATT
1 TAATATAATATTATT
25003110 TA
1 TA
25003112 TCGTCAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATATAATATTATT
Found at i:25005292 original size:12 final size:13
Alignment explanation
Indices: 25005256--25005294 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
25005246 AATAGAATAA
25005256 AAAAATTTATTATT
1 AAAAATTTA-TATT
25005270 AAAAATATTATATT
1 AAAAAT-TTATATT
25005284 -AAAATTTATAT
1 AAAAATTTATAT
25005295 ATAATACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 5 0.21
14 10 0.42
15 3 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAAATTTATATT
Found at i:25005338 original size:28 final size:25
Alignment explanation
Indices: 25005303--25005363 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 25
25005293 ATATAATACA
25005303 AATTTTAATTTATAA-AATAATATTTTT
1 AATTTTAA--TATAATAATAA-ATTTTT
25005330 AATTCTTAATATAATAATAAATTTTAT
1 AATT-TTAATATAATAATAAATTTT-T
*
25005357 TATTTTA
1 AATTTTA
25005364 TTATTTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 13 0.43
27 13 0.43
28 4 0.13
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (25 bp):
AATTTTAATATAATAATAAATTTTT
Found at i:25005374 original size:25 final size:26
Alignment explanation
Indices: 25005346--25005410 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
25005336 TAATATAATA
*
25005346 ATAAATTTTATTATTT-TATT-ATTTT
1 ATAAATTTTATT-TTTATATTAAATTT
*
25005371 ATAAAATTTATTTTTATATTAAATTT
1 ATAAATTTTATTTTTATATTAAATTT
25005397 A-AAATTTTCATTTT
1 ATAAATTTT-ATTTT
25005411 ATGTTTACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 3 0.09
25 21 0.62
26 10 0.29
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (26 bp):
ATAAATTTTATTTTTATATTAAATTT
Found at i:25005382 original size:17 final size:17
Alignment explanation
Indices: 25005360--25005397 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
25005350 ATTTTATTAT
25005360 TTTATTATTT-TATAAAA
1 TTTATT-TTTATATAAAA
*
25005377 TTTATTTTTATATTAAA
1 TTTATTTTTATATAAAA
25005394 TTTA
1 TTTA
25005398 AAATTTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTATTTTTATATAAAA
Found at i:25005896 original size:23 final size:22
Alignment explanation
Indices: 25005865--25005913 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
25005855 ATTACAAATA
* *
25005865 AATATAAAT-TTTATATAATTTT
1 AATATAAATATTAAT-TAATTAT
25005887 AATATTAAATATTAATTAATTAT
1 AATA-TAAATATTAATTAATTAT
25005910 AATA
1 AATA
25005914 CAATTAATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.17
23 15 0.65
24 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATATAAATATTAATTAATTAT
Found at i:25006217 original size:22 final size:22
Alignment explanation
Indices: 25006168--25006228 Score: 56
Period size: 24 Copynumber: 2.8 Consensus size: 22
25006158 ATTAAAAAAT
* *
25006168 TATTTTTA-ATTAAT-TAATTA
1 TATTTTTATATTTATATAATGA
25006188 -ATTATTTATATTTATATAATGA
1 TATT-TTTATATTTATATAATGA
25006210 TATTTTTAAATATTTATAT
1 TATTTTT--ATATTTATAT
25006229 TTTAAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 5 0.15
22 8 0.24
23 3 0.09
24 10 0.30
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TATTTTTATATTTATATAATGA
Found at i:25006243 original size:30 final size:30
Alignment explanation
Indices: 25006185--25006245 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
25006175 AATTAATTAA
* * *
25006185 TTAATTATTTATATTTATATAATGATATTT
1 TTAAATATTTATATTTATAAAATAATATTT
25006215 TTAAATATTTATATTT-TAAAAATAATATTT
1 TTAAATATTTATATTTAT-AAAATAATATTT
25006245 T
1 T
25006246 ATATTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (30 bp):
TTAAATATTTATATTTATAAAATAATATTT
Found at i:25006248 original size:21 final size:23
Alignment explanation
Indices: 25006218--25006270 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
25006208 GATATTTTTA
25006218 AATA-TTTATA-TTTT-AAAAAT
1 AATATTTTATATTTTTAAAAAAT
25006238 AATATTTTATATTTTTAAAAAAT
1 AATATTTTATATTTTTAAAAAAT
25006261 AATATTTTAT
1 AATATTTTAT
25006271 TAATTTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 4 0.13
23 16 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AATATTTTATATTTTTAAAAAAT
Found at i:25011040 original size:63 final size:58
Alignment explanation
Indices: 25010853--25011118 Score: 271
Period size: 57 Copynumber: 4.6 Consensus size: 58
25010843 TTATATAAAG
* *
25010853 AAAATTGATACTTTTAATTTTTTCTT-GAAATA---TTTTGAAATTTTTATTTTTAAG-
1 AAAATTGATACTTTTAATTTTTT-TTAAAAATATTTTTTTGAAAATTTTATTTTTAAGA
* * *
25010907 AAAATTGATAC-TTTAATTTTTATTTAAAAATATCTTTATGAAATTTTTATTTTTAAGA
1 AAAATTGATACTTTTAATTTTT-TTTAAAAATATTTTTTTGAAAATTTTATTTTTAAGA
*
25010965 AAAATTGATACTTTTAATTATTTTTT-TAAATACTTTTTTTGAAAATTTTATTTTTAAGGAAAA
1 AAAATTGATACTTTTAATT-TTTTTTAAAAATA-TTTTTTTGAAAATTTTATTTTTAA-G---A
* ** * *
25011028 AAAATTGATACTTTCAAATTTTTTTTAAAAATATTTTTTAAAAAATTTTA--TATAAAA
1 AAAATTGATACTTT-TAATTTTTTTTAAAAATATTTTTTTGAAAATTTTATTTTTAAGA
*
25011085 AAAATTGATACTTTCAATTTTTTTTCAAAAATAT
1 AAAATTGATACTTTTAATTTTTTTT-AAAAATAT
25011119 CTTATTTTTT
Statistics
Matches: 183, Mismatches: 13, Indels: 29
0.81 0.06 0.13
Matches are distributed among these distances:
53 12 0.07
54 17 0.09
56 10 0.05
57 44 0.24
58 16 0.09
59 31 0.17
60 4 0.02
61 4 0.02
63 36 0.20
64 9 0.05
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (58 bp):
AAAATTGATACTTTTAATTTTTTTTAAAAATATTTTTTTGAAAATTTTATTTTTAAGA
Found at i:25011070 original size:12 final size:13
Alignment explanation
Indices: 25011043--25011076 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
25011033 TGATACTTTC
*
25011043 AAATTTTTTTTAA
1 AAATATTTTTTAA
25011056 AAATATTTTTTAA
1 AAATATTTTTTAA
25011069 AAA-ATTTT
1 AAATATTTT
25011077 ATATAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AAATATTTTTTAA
Found at i:25011083 original size:14 final size:12
Alignment explanation
Indices: 25011048--25011086 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 12
25011038 CTTTCAAATT
25011048 TTTTTTAAAAATA
1 TTTTTTAAAAA-A
25011061 TTTTTTAAAAAA
1 TTTTTTAAAAAA
25011073 TTTTATATAAAAAA
1 TTTT-T-TAAAAAA
25011087 AATTGATACT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.21
13 12 0.50
14 7 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TTTTTTAAAAAA
Found at i:25014935 original size:2 final size:2
Alignment explanation
Indices: 25014928--25014969 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
25014918 GTTTATTAAA
25014928 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
25014970 GCAAACGAGA
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:25016193 original size:14 final size:14
Alignment explanation
Indices: 25016174--25016200 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25016164 AATAATTTTT
25016174 AATATTAAAAAATA
1 AATATTAAAAAATA
25016188 AATATTAAAAAAT
1 AATATTAAAAAAT
25016201 TAGATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATATTAAAAAATA
Found at i:25016444 original size:19 final size:19
Alignment explanation
Indices: 25016422--25016458 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25016412 CTACTTTATG
* *
25016422 TTTAACAGTTGTTTTTAAC
1 TTTAACAGGTGTATTTAAC
25016441 TTTAACAGGTGTATTTAA
1 TTTAACAGGTGTATTTAA
25016459 ACTTGACTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (19 bp):
TTTAACAGGTGTATTTAAC
Found at i:25016809 original size:20 final size:20
Alignment explanation
Indices: 25016772--25016810 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25016762 TTGATGAAAA
*
25016772 TTGGATTGTTCTTTTGTTTT
1 TTGGATTGTTCTTCTGTTTT
25016792 TTGGATT-TTCATTCTGTTT
1 TTGGATTGTTC-TTCTGTTT
25016811 CAGAACTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.08, C:0.08, G:0.18, T:0.67
Consensus pattern (20 bp):
TTGGATTGTTCTTCTGTTTT
Found at i:25018933 original size:16 final size:16
Alignment explanation
Indices: 25018914--25018944 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25018904 TATTAAAATA
*
25018914 TATTGAAATTATTTAT
1 TATTAAAATTATTTAT
25018930 TATTAAAATTATTTA
1 TATTAAAATTATTTA
25018945 CATTAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATTAAAATTATTTAT
Found at i:25018953 original size:16 final size:16
Alignment explanation
Indices: 25018919--25018952 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
25018909 AAATATATTG
*
25018919 AAATTATTTATTATTA
1 AAATTATTTATCATTA
25018935 AAATTATTTA-CATTA
1 AAATTATTTATCATTA
25018950 AAA
1 AAA
25018953 AATAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATTATTTATCATTA
Found at i:25018976 original size:20 final size:21
Alignment explanation
Indices: 25018953--25018991 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25018943 TACATTAAAA
*
25018953 AATAATT-ATATTTTAATAAT
1 AATAATTAATATTTAAATAAT
*
25018973 AATATTTAATATTTAAATA
1 AATAATTAATATTTAAATA
25018992 TTATGTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAATTAATATTTAAATAAT
Found at i:25019061 original size:8 final size:8
Alignment explanation
Indices: 25019041--25019142 Score: 65
Period size: 8 Copynumber: 13.5 Consensus size: 8
25019031 TTATTCTTTA
25019041 TATT-ATT
1 TATTAATT
*
25019048 TATTAATC
1 TATTAATT
*
25019056 TATTAATA
1 TATTAATT
25019064 TATTAATT
1 TATTAATT
25019072 TATT-ATT
1 TATTAATT
25019079 TATTAA--
1 TATTAATT
*
25019085 TAAT-ATT
1 TATTAATT
*
25019092 TAATAATAT
1 TATTAAT-T
*
25019101 TATTAATA
1 TATTAATT
*
25019109 TATT-ATA
1 TATTAATT
* *
25019116 TAATAATA
1 TATTAATT
25019124 TATT-ATT
1 TATTAATT
*
25019131 TATTAATA
1 TATTAATT
25019139 TATT
1 TATT
25019143 GTAATATATT
Statistics
Matches: 77, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
5 1 0.01
6 3 0.04
7 27 0.35
8 39 0.51
9 7 0.09
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (8 bp):
TATTAATT
Found at i:25019124 original size:15 final size:15
Alignment explanation
Indices: 25019104--25019221 Score: 72
Period size: 15 Copynumber: 8.0 Consensus size: 15
25019094 ATAATATTAT
25019104 TAATATATTATATAA
1 TAATATATTATATAA
* *
25019119 TAATATATTATTTAT
1 TAATATATTATATAA
*
25019134 TAATATA-T-TGTAA
1 TAATATATTATATAA
25019147 T-ATAT-TTAT-TAA
1 TAATATATTATATAA
*
25019159 TAGTATATTAT-TAA
1 TAATATATTATATAA
* *
25019173 TTTATATAATATTATTTAT
1 --TA-AT-ATATTATATAA
25019192 TAATATATTATA-ATA
1 TAATATATTATATA-A
25019207 TAATATTATT-TATAA
1 TAATA-TATTATATAA
25019222 GTAAAATTAT
Statistics
Matches: 82, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
12 9 0.11
13 8 0.10
14 9 0.11
15 35 0.43
16 9 0.11
17 3 0.04
18 7 0.09
19 2 0.02
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
TAATATATTATATAA
Found at i:25019129 original size:83 final size:84
Alignment explanation
Indices: 25019039--25019219 Score: 219
Period size: 88 Copynumber: 2.1 Consensus size: 84
25019029 TATTATTCTT
* * *
25019039 TATATTATTTATTAATCTA-T-TAATATATTAATT-TATTAT-TTATTAATAATATTTAATAATA
1 TATATTATTTATTAATATATTGTAATATATTAATTATAGTATATTATTAAT-ATATATAATAATA
25019100 -TTATTAATATATTATATAATAA
65 TTTATTAATATA-T-TATAAT-A
* * *
25019122 TATATTATTTATTAATATATTGTAATATATTTATTAATAGTATATTATTAATTTATATAATATTA
1 TATATTATTTATTAATATATTGTAATATATTAATT-ATAGTATATTATTAATATATATAATAATA
25019187 TTTATTAATATATTATAATA
65 TTTATTAATATATTATAATA
25019207 TAATATTATTTAT
1 T-ATATTATTTAT
25019220 AAGTAAAATT
Statistics
Matches: 85, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
83 18 0.21
84 1 0.01
85 14 0.16
86 17 0.20
87 16 0.19
88 19 0.22
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (84 bp):
TATATTATTTATTAATATATTGTAATATATTAATTATAGTATATTATTAATATATATAATAATAT
TTATTAATATATTATAATA
Found at i:25019160 original size:40 final size:39
Alignment explanation
Indices: 25019056--25019196 Score: 122
Period size: 40 Copynumber: 3.7 Consensus size: 39
25019046 TTTATTAATC
* *
25019056 TATTAATATA-TTAATTTA-TTATTTATTAATA-A-TATT
1 TATTAATATATTTAATATATTTA-TTAATAATATATTATT
*
25019092 TAATAATAT-TATTAATATA-TTATATAATAATATATTATT
1 TATTAATATAT-TTAATATATTTAT-TAATAATATATTATT
*
25019131 TATTAATATATTGTAATATATTTATTAATAGTATATTATT
1 TATTAATATATT-TAATATATTTATTAATAATATATTATT
*
25019171 AATT--TATA--TAATATTATTTATTAATA
1 TATTAATATATTTAATA-TATTTATTAATA
25019197 TATTATAATA
Statistics
Matches: 90, Mismatches: 6, Indels: 18
0.79 0.05 0.16
Matches are distributed among these distances:
35 5 0.06
36 21 0.23
37 17 0.19
38 5 0.06
39 13 0.14
40 25 0.28
41 4 0.04
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (39 bp):
TATTAATATATTTAATATATTTATTAATAATATATTATT
Found at i:25023398 original size:4 final size:4
Alignment explanation
Indices: 25023389--25023423 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
25023379 TAGACAACAT
25023389 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
25023424 TATATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:25026616 original size:161 final size:161
Alignment explanation
Indices: 25026281--25026750 Score: 670
Period size: 161 Copynumber: 2.9 Consensus size: 161
25026271 TTAGTTTGTT
*
25026281 GAAAATTAATTCTCAATTGACTCTAATCACTTTTTAGGCCAGAAAATTGAAGAAAATTCTCTCAC
1 GAAAATT-ATTCTCAATTGACTCTAAT-AC-TTTTA-G-CAGAAAATTG-AGAAAATTCCCTCAC
* * *
25026346 CTCAAGAGTATGGCAAGAAAAAAC-ACTGTTTCACTTGCATGAGGCTCCGCCGTCCGGATTATTT
60 CTCAGGAGTAT-GCAAG-AAAAACTACTGTTTCACTTGCA-GAGGCTCCGTCGT-CGGATTAATT
* *
25026410 AAAG-----AAAAATCAAGATCAAACCAATTAATTAATTATC
121 AAAGAAAAAAAAAATCAAAATC-AACCAAGTAATTAATTATC
25026447 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
25026512 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA
*
25026577 AAAATCAAAATCAGCCAAGTAATTAATTATC
131 AAAATCAAAATCAACCAAGTAATTAATTATC
25026608 -AGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAG
1 GA-AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAG
* *
25026672 GAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAA-AAAA
65 GAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAA
*
25026736 AAAAAA-AAAAATCAA
129 AAAAAATCAAAATCAA
25026751 GATCAAAATC
Statistics
Matches: 285, Mismatches: 11, Indels: 22
0.90 0.03 0.07
Matches are distributed among these distances:
157 13 0.05
158 18 0.06
159 20 0.07
160 32 0.11
161 121 0.42
162 48 0.17
163 5 0.02
164 2 0.01
165 19 0.07
166 7 0.02
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (161 bp):
GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA
AAAATCAAAATCAACCAAGTAATTAATTATC
Found at i:25027167 original size:19 final size:19
Alignment explanation
Indices: 25027125--25027171 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
25027115 AGAACACCGG
*
25027125 TGCCGGATTCTGGAAATGT
1 TGCCGGAATCTGGAAATGT
* * *
25027144 CGCCGGAATCTGGAATTTT
1 TGCCGGAATCTGGAAATGT
25027163 TGCCGGAAT
1 TGCCGGAAT
25027172 ATGGCCGGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (19 bp):
TGCCGGAATCTGGAAATGT
Found at i:25027799 original size:3 final size:3
Alignment explanation
Indices: 25027791--25027819 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
25027781 ATCTTACAAA
25027791 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25027820 ATATATAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:25028003 original size:20 final size:20
Alignment explanation
Indices: 25027981--25028045 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
25027971 TTACCCATTT
* *
25027981 GGGCCAGGCCCAAATGATCT
1 GGGCCAGGCCCAATTGATCC
*
25028001 GGGTCAGGCCCAATTGATCC
1 GGGCCAGGCCCAATTGATCC
*
25028021 GGGTCAGGCCCAATTGATCC
1 GGGCCAGGCCCAATTGATCC
25028041 GGGCC
1 GGGCC
25028046 CGGACCTGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.20, C:0.31, G:0.32, T:0.17
Consensus pattern (20 bp):
GGGCCAGGCCCAATTGATCC
Found at i:25028163 original size:1 final size:1
Alignment explanation
Indices: 25028159--25028254 Score: 138
Period size: 1 Copynumber: 96.0 Consensus size: 1
25028149 TTATTTTTGA
* ** * *
25028159 TTTTTTTTTTTTTGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGATTTTTTTGTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
25028224 TTTTTTTTTTTTTTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
25028255 GGCCGAAGCT
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 84 1.00
ACGTcount: A:0.01, C:0.00, G:0.05, T:0.94
Consensus pattern (1 bp):
T
Found at i:25028170 original size:15 final size:14
Alignment explanation
Indices: 25028146--25028255 Score: 138
Period size: 13 Copynumber: 7.9 Consensus size: 14
25028136 CAACTCAACA
*
25028146 TTTTTATTTTTGATT
1 TTTTTTTTTTTG-TT
25028161 TTTTTTTTTTTGTT
1 TTTTTTTTTTTGTT
25028175 TTTTTTTTTTT-TT
1 TTTTTTTTTTTGTT
25028188 TTTTTTTTTTT-TT
1 TTTTTTTTTTTGTT
25028201 TTTTGATTTTTTTGTT
1 TTTT--TTTTTTTGTT
25028217 TTTGTTTTTTTT-TT
1 TTT-TTTTTTTTGTT
25028231 TTTTTTTTTTT-TT
1 TTTTTTTTTTTGTT
*
25028244 TGTTTTTTTTTG
1 TTTTTTTTTTTG
25028256 GCCGAAGCTC
Statistics
Matches: 88, Mismatches: 2, Indels: 11
0.87 0.02 0.11
Matches are distributed among these distances:
13 39 0.44
14 18 0.20
15 25 0.28
16 5 0.06
17 1 0.01
ACGTcount: A:0.03, C:0.00, G:0.06, T:0.91
Consensus pattern (14 bp):
TTTTTTTTTTTGTT
Found at i:25028212 original size:48 final size:48
Alignment explanation
Indices: 25028146--25028253 Score: 189
Period size: 48 Copynumber: 2.2 Consensus size: 48
25028136 CAACTCAACA
* *
25028146 TTTTTATTTTTGATTTTTTTTTTTTTGTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTGATTTTTTTGTTTTTGTTTTTTTTTTTTTTTTTTTTT
25028194 TTTTTTTTTTTGATTTTTTTGTTTTTGTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTGATTTTTTTGTTTTTGTTTTTTTTTTTTTTTTTTTTT
25028242 TTTGTTTTTTTT
1 TTT-TTTTTTTT
25028254 TGGCCGAAGC
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
48 49 0.86
49 8 0.14
ACGTcount: A:0.03, C:0.00, G:0.06, T:0.92
Consensus pattern (48 bp):
TTTTTTTTTTTGATTTTTTTGTTTTTGTTTTTTTTTTTTTTTTTTTTT
Found at i:25028307 original size:41 final size:39
Alignment explanation
Indices: 25028262--25028876 Score: 869
Period size: 41 Copynumber: 15.2 Consensus size: 39
25028252 TTTGGCCGAA
* *
25028262 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAG--GCAACGAC-TTTGAAAAATAAATT
* *
25028303 GCTCCTCTAAACAGAGGCAACGGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAAC-GACTTTGAAAAATAAATT
25028343 GCTCCTCTAAACAGAGGCAACACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGC-A-ACGACTTT-GAAAAATAAATT
25028385 GCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAAC-G-ACTTTGAAAAATAAATT
*
25028426 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAC-TTTGAAAAATAAATT
25028468 GCTCCTCTAAACAGAGGCAACGACTTTG-AAAATAAATT
1 GCTCCTCTAAACAGAGGCAACGACTTTGAAAAATAAATT
25028506 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAATAAATT
*
25028546 GCTCCTCTAAACAGAGGCAACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAC-TTTGAAAAATAAATT
25028586 GCTCCTCTAAACAGAGGCAACGAACTTTG-AAAATAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAATAAATT
25028625 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAATAAATT
*
25028666 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAC-TTTGAAAAATAAATT
25028708 GCTCCTCTAAACAGAGGCAACAGAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAAC-G-ACTTTGAAAAATAAATT
*
25028749 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAC-TTTGAAAAATAAATT
25028791 GCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAAC-G-ACTTTGAAAAATAAATT
*
25028832 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAATAAATT
25028872 -CTCCT
1 GCTCCT
25028877 AGACGATCAT
Statistics
Matches: 537, Mismatches: 12, Indels: 52
0.89 0.02 0.09
Matches are distributed among these distances:
38 31 0.06
39 53 0.10
40 138 0.26
41 171 0.32
42 140 0.26
43 4 0.01
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (39 bp):
GCTCCTCTAAACAGAGGCAACGACTTTGAAAAATAAATT
Found at i:25028443 original size:83 final size:80
Alignment explanation
Indices: 25028262--25028876 Score: 926
Period size: 83 Copynumber: 7.6 Consensus size: 80
25028252 TTTGGCCGAA
* *
25028262 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGCAC-ACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAAC-G
* *
25028326 ACTTTGGAAAGTAAATT
64 ACTTTGAAAAATAAATT
* *
25028343 GCTCCTCTAAACAGAGGCAACACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGC-ACACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAAC-G
25028408 AACTTTGAAAAATAAATT
64 -ACTTTGAAAAATAAATT
25028426 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCA-CACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
25028491 CTTTG-AAAATAAATT
65 CTTTGAAAAATAAATT
*
25028506 GCTCCTCTAAACAGAGGCA-ACGAAC-TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACACG-ACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
*
25028569 CTTTTGAAAAGTAAATT
65 C-TTTGAAAAATAAATT
25028586 GCTCCTCTAAACAGAGGCA-ACGAAC-TTTGAAAA-TAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACACG-ACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
25028648 GACTTTGAAAAATAAATT
63 GACTTTGAAAAATAAATT
25028666 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAG
1 GCTCCTCTAAACAGAGGCA-CACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAAC-G
25028731 AACTTTGAAAAATAAATT
64 -ACTTTGAAAAATAAATT
25028749 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGCA-CACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAAC-G
25028814 AACTTTGAAAAATAAATT
64 -ACTTTGAAAAATAAATT
25028832 GCTCCTCTAAACAGAGGCA-ACGAAC-TTTGAAAAGTAAATT-CTCCT
1 GCTCCTCTAAACAGAGGCACACG-ACTTTTGAAAAGTAAATTGCTCCT
25028877 AGACGATCAT
Statistics
Matches: 506, Mismatches: 12, Indels: 33
0.92 0.02 0.06
Matches are distributed among these distances:
78 41 0.08
79 31 0.06
80 109 0.22
81 59 0.12
82 49 0.10
83 217 0.43
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (80 bp):
GCTCCTCTAAACAGAGGCACACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAC
TTTGAAAAATAAATT
Found at i:25029909 original size:10 final size:9
Alignment explanation
Indices: 25029888--25029992 Score: 87
Period size: 8 Copynumber: 11.8 Consensus size: 9
25029878 TTTCATTCAC
25029888 TTTTTC-TT
1 TTTTTCATT
25029896 TTTTTCCATT
1 TTTTT-CATT
*
25029906 TTTTCCATT
1 TTTTTCATT
25029915 TTTTT--TT
1 TTTTTCATT
*
25029922 CATTTTTCATCA
1 --TTTTTCAT-T
25029934 TTTTTCATT
1 TTTTTCATT
*
25029943 TTTTCCA-T
1 TTTTTCATT
25029951 TTTTTCATT
1 TTTTTCATT
25029960 TTTTT-ATT
1 TTTTTCATT
25029968 TTTTT-ATT
1 TTTTTCATT
*
25029976 TTTTTGTATT
1 TTTTT-CATT
25029986 TTTTTCA
1 TTTTTCA
25029993 AGCATAGTAT
Statistics
Matches: 80, Mismatches: 7, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
7 2 0.03
8 28 0.35
9 27 0.34
10 22 0.28
11 1 0.01
ACGTcount: A:0.11, C:0.12, G:0.01, T:0.75
Consensus pattern (9 bp):
TTTTTCATT
Found at i:25029938 original size:11 final size:10
Alignment explanation
Indices: 25029895--25029979 Score: 52
Period size: 9 Copynumber: 9.6 Consensus size: 10
25029885 CACTTTTTCT
25029895 TTTTTTC-CA
1 TTTTTTCTCA
25029904 TTTTTTC-CA
1 TTTTTTCTCA
*
25029913 TTTTTTTTTCA
1 -TTTTTTCTCA
25029924 -TTTTTCATCA
1 TTTTTTC-TCA
25029934 --TTTT-TCA
1 TTTTTTCTCA
25029941 TTTTTTC-CA
1 TTTTTTCTCA
25029950 -TTTTT-TCA
1 TTTTTTCTCA
25029958 TTTTTT-T-A
1 TTTTTTCTCA
25029966 TTTTTT-T-A
1 TTTTTTCTCA
25029974 TTTTTT
1 TTTTTT
25029980 TGTATTTTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 17
0.78 0.02 0.20
Matches are distributed among these distances:
7 3 0.05
8 22 0.33
9 30 0.45
10 9 0.14
11 2 0.03
ACGTcount: A:0.12, C:0.13, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTTTCTCA
Found at i:25029987 original size:16 final size:17
Alignment explanation
Indices: 25029917--25029988 Score: 69
Period size: 17 Copynumber: 4.3 Consensus size: 17
25029907 TTTCCATTTT
*
25029917 TTTTTCA-TTTTTCATCA
1 TTTTTCATTTTTTTAT-A
*
25029934 TTTTTCATTTTTTCCAT-
1 TTTTTCATTTTTT-TATA
25029951 TTTTTCATTTTTTTAT-
1 TTTTTCATTTTTTTATA
* *
25029967 TTTTTTATTTTTTTGTA
1 TTTTTCATTTTTTTATA
25029984 TTTTT
1 TTTTT
25029989 TTCAAGCATA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
16 16 0.33
17 25 0.51
18 5 0.10
19 3 0.06
ACGTcount: A:0.12, C:0.10, G:0.01, T:0.76
Consensus pattern (17 bp):
TTTTTCATTTTTTTATA
Found at i:25033640 original size:2 final size:2
Alignment explanation
Indices: 25033635--25033659 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25033625 TTTATTTATA
25033635 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
25033660 TTGTAAATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:25035727 original size:16 final size:16
Alignment explanation
Indices: 25035706--25035745 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
25035696 ATCCTTATGT
25035706 ATACATATACATATAC
1 ATACATATACATATAC
* *
25035722 ATACATACATATATAC
1 ATACATATACATATAC
25035738 ATACATAT
1 ATACATAT
25035746 GTATGCATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (16 bp):
ATACATATACATATAC
Found at i:25036756 original size:14 final size:16
Alignment explanation
Indices: 25036721--25036754 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25036711 ATTTTGATAT
*
25036721 ATATTTTTTTAAATAA
1 ATATTTTTGTAAATAA
*
25036737 ATATTTTTGTAAAAAA
1 ATATTTTTGTAAATAA
25036753 AT
1 AT
25036755 TTATGAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
ATATTTTTGTAAATAA
Found at i:25036878 original size:25 final size:24
Alignment explanation
Indices: 25036821--25036884 Score: 85
Period size: 25 Copynumber: 2.7 Consensus size: 24
25036811 TTTTAATAAT
*
25036821 ATTTTA-TATATTATTAATATTAA
1 ATTTTATTAAATTATTAATATTAA
* *
25036844 ATTTTATTAATTTATTAATTTTAA
1 ATTTTATTAAATTATTAATATTAA
25036868 GATTTTATTAAATTATT
1 -ATTTTATTAAATTATT
25036885 TTTAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 6 0.17
24 14 0.40
25 15 0.43
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
ATTTTATTAAATTATTAATATTAA
Found at i:25043277 original size:9 final size:10
Alignment explanation
Indices: 25043250--25043279 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
25043240 AATATTCAAT
25043250 AAATATTTTA
1 AAATATTTTA
25043260 AAATATTTTA
1 AAATATTTTA
25043270 AAAT-TTTTA
1 AAATATTTTA
25043279 A
1 A
25043280 TTTAATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.30
10 14 0.70
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
AAATATTTTA
Found at i:25048597 original size:2 final size:2
Alignment explanation
Indices: 25048590--25048617 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25048580 TAATGACATA
25048590 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
25048618 CAAGTAACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25052299 original size:26 final size:27
Alignment explanation
Indices: 25052270--25052320 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
25052260 TAAATTAAGG
* *
25052270 ATAAA-ATAATAAATGTAGTTTTTTTT
1 ATAAATATAATAAATATAATTTTTTTT
*
25052296 ATAAATTTAATAAATATAATTTTTT
1 ATAAATATAATAAATATAATTTTTT
25052321 GTATCGATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.24
27 16 0.76
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (27 bp):
ATAAATATAATAAATATAATTTTTTTT
Found at i:25058123 original size:14 final size:13
Alignment explanation
Indices: 25058104--25058151 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
25058094 ACGTGAACTC
25058104 ATTAATGAATAAAA
1 ATTAAT-AATAAAA
* *
25058118 ATTAATACTTAAA
1 ATTAATAATAAAA
*
25058131 ATAAATATATAAAA
1 ATTAATA-ATAAAA
25058145 ATTAATA
1 ATTAATA
25058152 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (13 bp):
ATTAATAATAAAA
Found at i:25059521 original size:19 final size:19
Alignment explanation
Indices: 25059476--25059512 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
25059466 ATGGGTTGCT
25059476 ATTCAAATCCGAAATTCGA
1 ATTCAAATCCGAAATTCGA
*
25059495 ACTCAAAT-C-AAATTCGA
1 ATTCAAATCCGAAATTCGA
25059512 A
1 A
25059513 AATTCAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 1 0.06
19 7 0.41
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.24
Consensus pattern (19 bp):
ATTCAAATCCGAAATTCGA
Found at i:25061301 original size:28 final size:30
Alignment explanation
Indices: 25061265--25061331 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
25061255 TTTATTTTTA
* *
25061265 AAATAAATTTATATAT-TTTA-TTATACTC
1 AAATAAATTTATATATCATAATTTATACTC
* *
25061293 AAATAAATTTCTATCTCATAATTTATACTC
1 AAATAAATTTATATATCATAATTTATACTC
25061323 AAATAAATT
1 AAATAAATT
25061332 CTTATGGTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 14 0.42
29 2 0.06
30 17 0.52
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (30 bp):
AAATAAATTTATATATCATAATTTATACTC
Found at i:25061576 original size:32 final size:32
Alignment explanation
Indices: 25061535--25061597 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
25061525 TTAGATTATT
25061535 TGACCATATCAATGCACAATTCTTGACTAAGA
1 TGACCATATCAATGCACAATTCTTGACTAAGA
25061567 TGACCATATCAATGCACAATTCTTGACTAAG
1 TGACCATATCAATGCACAATTCTTGACTAAG
25061598 TTATCAATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.29
Consensus pattern (32 bp):
TGACCATATCAATGCACAATTCTTGACTAAGA
Found at i:25061602 original size:26 final size:28
Alignment explanation
Indices: 25061540--25061606 Score: 84
Period size: 32 Copynumber: 2.3 Consensus size: 28
25061530 TTATTTGACC
25061540 ATATCAATGCACAATTCTTGACTAAGAT
1 ATATCAATGCACAATTCTTGACTAAGAT
25061568 GACCATATCAATGCACAATTCTTGACTAAG-T
1 ----ATATCAATGCACAATTCTTGACTAAGAT
25061599 -TATCAATG
1 ATATCAATG
25061607 TTTAATCTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
26 8 0.23
31 1 0.03
32 26 0.74
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.31
Consensus pattern (28 bp):
ATATCAATGCACAATTCTTGACTAAGAT
Found at i:25062255 original size:19 final size:19
Alignment explanation
Indices: 25062231--25062268 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
25062221 ATATAAATTA
25062231 AAAATA-AAAATTATTTAAT
1 AAAATATAAAATT-TTTAAT
*
25062250 AAAATATATAATTTTTAAT
1 AAAATATAAAATTTTTAAT
25062269 TTTAATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATATAAAATTTTTAAT
Found at i:25064550 original size:17 final size:17
Alignment explanation
Indices: 25064528--25064576 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
25064518 TTATTTTCAA
* *
25064528 AATTATCACGGTGATCT
1 AATTATCAAGGTGATAT
*
25064545 AATTATCATGGTGATAT
1 AATTATCAAGGTGATAT
*
25064562 AATCATCAAGGTGAT
1 AATTATCAAGGTGAT
25064577 TTGATCACCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (17 bp):
AATTATCAAGGTGATAT
Found at i:25070598 original size:29 final size:28
Alignment explanation
Indices: 25070533--25070598 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
25070523 GAATTATAAT
* * *
25070533 TAAATATT-TAATTTAATTTTTAAATTT
1 TAAATATTATAATATAATATTTAAATTA
*
25070560 TAAAGAATTATAATATAATATTTAAATTA
1 TAAA-TATTATAATATAATATTTAAATTA
25070589 TAAATCATTA
1 TAAAT-ATTA
25070599 ATTTAATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
27 4 0.13
28 3 0.10
29 24 0.77
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (28 bp):
TAAATATTATAATATAATATTTAAATTA
Found at i:25070819 original size:15 final size:15
Alignment explanation
Indices: 25070799--25070828 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
25070789 ATTACATTAA
25070799 AAAAATTTTAAATTT
1 AAAAATTTTAAATTT
25070814 AAAAATTTTAAATTT
1 AAAAATTTTAAATTT
25070829 TTTTATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAAATTTTAAATTT
Found at i:25083714 original size:13 final size:13
Alignment explanation
Indices: 25083678--25083715 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
25083668 AAAATAATAA
25083678 TAATTATTTAAATG
1 TAATT-TTTAAATG
*
25083692 -AATCTTTAAATG
1 TAATTTTTAAATG
25083704 TAATTTTTAAAT
1 TAATTTTTAAAT
25083716 AAAACTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (13 bp):
TAATTTTTAAATG
Found at i:25085795 original size:20 final size:20
Alignment explanation
Indices: 25085770--25085813 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
25085760 CAATTGATTG
*
25085770 TTTGCATCTT-TAAATTTGTA
1 TTTGCATCTTGT-AATTTATA
25085790 TTTGCATCTTGTAATTTATA
1 TTTGCATCTTGTAATTTATA
25085810 TTTG
1 TTTG
25085814 TATTATTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.23, C:0.09, G:0.11, T:0.57
Consensus pattern (20 bp):
TTTGCATCTTGTAATTTATA
Found at i:25096867 original size:11 final size:10
Alignment explanation
Indices: 25096824--25096876 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
25096814 CTAGTAATTT
25096824 TATTTT-TTA
1 TATTTTATTA
*
25096833 -ATTTTATCA
1 TATTTTATTA
25096842 TATTTTATT-
1 TATTTTATTA
25096851 TA-TTTATTA
1 TATTTTATTA
25096860 TTATTTTATTA
1 -TATTTTATTA
25096871 TATTTT
1 TATTTT
25096877 TCTTTATTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
8 11 0.30
9 4 0.11
10 15 0.41
11 7 0.19
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (10 bp):
TATTTTATTA
Found at i:25098013 original size:3 final size:3
Alignment explanation
Indices: 25098007--25098032 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
25097997 AATAATACCA
25098007 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
25098033 AACAAACAAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:25098585 original size:95 final size:94
Alignment explanation
Indices: 25098419--25098630 Score: 277
Period size: 94 Copynumber: 2.3 Consensus size: 94
25098409 GGCTCAATGG
* * *
25098419 CTTTAAAAATCTTATTTTG-AAAAAGCTCATCTAAGCAAAAGCTCAACGACTTTAAAAGTTTAAA
1 CTTTAAAAATCTTATCTTGAAAAAAGCTCATCTAAGCAAAAACTCAACGACTTTAAAAATTTAAA
* *
25098483 AATGGTTTCTTTTAAACAGA-AGCTTAACAA
66 AAGGGTTTC-TCTAAACAGAGA-CTTAACAA
* * *
25098513 CTTTAAAAATCTTATCTTGAAAAAAGCTCATCTAAGCAAAAATTTAACGACTTTAAAAATTTTAA
1 CTTTAAAAATCTTATCTTGAAAAAAGCTCATCTAAGCAAAAACTCAACGACTTTAAAAATTTAAA
* **
25098578 AAGGGTTTCTCTAAATAGAGACTTAATGA
66 AAGGGTTTCTCTAAACAGAGACTTAACAA
25098607 -TCTTAAAAATCTTATCTTGAAAAA
1 CT-TTAAAAATCTTATCTTGAAAAA
25098631 GATTCCTCTA
Statistics
Matches: 104, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
93 1 0.01
94 54 0.52
95 49 0.47
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (94 bp):
CTTTAAAAATCTTATCTTGAAAAAAGCTCATCTAAGCAAAAACTCAACGACTTTAAAAATTTAAA
AAGGGTTTCTCTAAACAGAGACTTAACAA
Found at i:25098710 original size:16 final size:17
Alignment explanation
Indices: 25098684--25098717 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
25098674 TGAAAAATAC
25098684 TCTTATAAGTAGAGACT
1 TCTTATAAGTAGAGACT
25098701 TCTT-TAAGTAGAGACT
1 TCTTATAAGTAGAGACT
25098717 T
1 T
25098718 AACGACTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (17 bp):
TCTTATAAGTAGAGACT
Found at i:25098773 original size:50 final size:49
Alignment explanation
Indices: 25098702--25098928 Score: 196
Period size: 50 Copynumber: 4.7 Consensus size: 49
25098692 GTAGAGACTT
* * *
25098702 CTTTAAGTAGAGACTTAACGACTTTAAAAATCTTATTTTGAAAAGGGCTC
1 CTTTAAGTAGAG-GTTAACGACTTTAAAAATCTTATCTTGAAAATGGCTC
* * *
25098752 CTCTAAGCAGAGGTTCAACGACTTTAAAAA----AT-TT-AAAATGACTC
1 CTTTAAGTAGAGGTT-AACGACTTTAAAAATCTTATCTTGAAAATGGCTC
* * * **
25098796 CTTTAAATAGAGGTTTTATGACTTTAAAAATCTTATCTTGAAAAAAGCTC
1 CTTTAAGTAGAGG-TTAACGACTTTAAAAATCTTATCTTGAAAATGGCTC
* * *
25098846 CTTTAAGTATAGGCTTAATGACTTTAAAAATCTCATCTTGAAAATGGCTC
1 CTTTAAGTAGAGG-TTAACGACTTTAAAAATCTTATCTTGAAAATGGCTC
*** * *
25098896 CAGCAAATAGAGGCTTAATGACTTTAAAAATCT
1 CTTTAAGTAGAGG-TTAACGACTTTAAAAATCT
25098929 ACATCTTTTT
Statistics
Matches: 144, Mismatches: 25, Indels: 16
0.78 0.14 0.09
Matches are distributed among these distances:
44 30 0.21
45 4 0.03
46 2 0.01
48 2 0.01
49 4 0.03
50 102 0.71
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (49 bp):
CTTTAAGTAGAGGTTAACGACTTTAAAAATCTTATCTTGAAAATGGCTC
Found at i:25098874 original size:210 final size:210
Alignment explanation
Indices: 25098505--25098889 Score: 522
Period size: 210 Copynumber: 1.8 Consensus size: 210
25098495 TAAACAGAAG
*
25098505 CTTAACAACTTTAAAAATCTTATCTTGAAAAAAGCTCATCTAAGCAAAAATTTAACGACTTTAAA
1 CTTAACAACTTTAAAAATCTTATCTTGAAAAAAGCTCATCTAAGCAAAAATTCAACGACTTTAAA
* ** * *
25098570 AATTTTAAAAGGGTTTCTCTAAATAGAGACTTAATGATCTTAAAAATCTTATCTTGAAAAAGATT
66 AAATTTAAAAGGACTCCTCTAAATAGAGACTTAATGATCTTAAAAATCTTATCTTGAAAAAGACT
*
25098635 CCTCTAAGTATAAGCTAAATAATTTTAAAAATCTCATCTTGAAAAATACTCTTATAAGTAGAGAC
131 CCTCTAAGTATAAGCTAAATAACTTTAAAAATCTCATCTTGAAAAATACTCTTATAAGTAGAGAC
25098700 TTCTTTAAGTAGAGA
196 TTCTTTAAGTAGAGA
* * ** * * **
25098715 CTTAACGACTTTAAAAATCTTATTTTGAAAAGGGCTCCTCTAAGCAGAGGTTCAACGACTTTAAA
1 CTTAACAACTTTAAAAATCTTATCTTGAAAAAAGCTCATCTAAGCAAAAATTCAACGACTTTAAA
* * ** *
25098780 AAATTTAAAATGACTCCTTTAAATAGAGGTTTTATGA-CTTTAAAAATCTTATCTTGAAAAA-AG
66 AAATTTAAAAGGACTCCTCTAAATAGAGACTTAATGATC-TTAAAAATCTTATCTTGAAAAAGA-
* * * *
25098843 CTCCTTTAAGTATAGGCTTAATGACTTTAAAAATCTCATCTTGAAAA
129 CTCCTCTAAGTATAAGCTAAATAACTTTAAAAATCTCATCTTGAAAA
25098890 TGGCTCCAGC
Statistics
Matches: 149, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
209 2 0.01
210 147 0.99
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (210 bp):
CTTAACAACTTTAAAAATCTTATCTTGAAAAAAGCTCATCTAAGCAAAAATTCAACGACTTTAAA
AAATTTAAAAGGACTCCTCTAAATAGAGACTTAATGATCTTAAAAATCTTATCTTGAAAAAGACT
CCTCTAAGTATAAGCTAAATAACTTTAAAAATCTCATCTTGAAAAATACTCTTATAAGTAGAGAC
TTCTTTAAGTAGAGA
Found at i:25106234 original size:16 final size:16
Alignment explanation
Indices: 25106212--25106244 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
25106202 CCGGGTCTAC
*
25106212 ATTTTTTT-AATAATA
1 ATTTTTTTAAAAAATA
25106227 ATTTTTTTAAAAAATA
1 ATTTTTTTAAAAAATA
25106243 AT
1 AT
25106245 AATAATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTTTTAAAAAATA
Found at i:25107740 original size:16 final size:16
Alignment explanation
Indices: 25107718--25107834 Score: 94
Period size: 16 Copynumber: 7.2 Consensus size: 16
25107708 ATCCTAGGTT
25107718 TCTAAAACCCCTAAAA
1 TCTAAAACCCCTAAAA
25107734 T-TCAAAATCCCCTAAAA
1 TCT-AAAA-CCCCTAAAA
* **
25107751 TC-CAAAGTCCTAAAA
1 TCTAAAACCCCTAAAA
** *
25107766 TCTAAAATTCCTTAAA
1 TCTAAAACCCCTAAAA
*
25107782 TCTAAACCCCCGTAAAA
1 TCTAAAACCCC-TAAAA
**
25107799 TCCGAAACCCCTAAAA
1 TCTAAAACCCCTAAAA
*
25107815 TCGAAAACCCCTTAAAA
1 TCTAAAACCCC-TAAAA
25107832 TCT
1 TCT
25107835 GAAATCCCAA
Statistics
Matches: 79, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
15 10 0.13
16 40 0.51
17 29 0.37
ACGTcount: A:0.44, C:0.30, G:0.03, T:0.22
Consensus pattern (16 bp):
TCTAAAACCCCTAAAA
Found at i:25107862 original size:23 final size:24
Alignment explanation
Indices: 25107812--25107877 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 24
25107802 GAAACCCCTA
* * *
25107812 AAATCGAAAACCCCTTAAAATCTG
1 AAATCCAAAATCCTTTAAAATCTG
* * *
25107836 AAATCCCAAA-CCTTTAAACTCTT
1 AAATCCAAAATCCTTTAAAATCTG
25107859 AAATCCAAAATCCTTTAAA
1 AAATCCAAAATCCTTTAAA
25107878 TCCAAACCTC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 19 0.54
24 16 0.46
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (24 bp):
AAATCCAAAATCCTTTAAAATCTG
Found at i:25114587 original size:13 final size:12
Alignment explanation
Indices: 25114567--25114597 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
25114557 TCAAAGTTTT
25114567 GAAAAAAAAAAA
1 GAAAAAAAAAAA
25114579 GACAAAAAAAAAA
1 GA-AAAAAAAAAA
25114592 GAAAAA
1 GAAAAA
25114598 TTTTTTTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (12 bp):
GAAAAAAAAAAA
Found at i:25115771 original size:5 final size:5
Alignment explanation
Indices: 25115761--25115789 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
25115751 CCAAATTCTA
25115761 AAAAT AAAAT -AAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
25115790 TTAAGCCCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:25115774 original size:9 final size:10
Alignment explanation
Indices: 25115761--25115789 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
25115751 CCAAATTCTA
25115761 AAAATAAAAT
1 AAAATAAAAT
25115771 -AAATAAAAT
1 AAAATAAAAT
25115780 AAAATAAAAT
1 AAAATAAAAT
25115790 TTAAGCCCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:25115778 original size:14 final size:14
Alignment explanation
Indices: 25115761--25115787 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25115751 CCAAATTCTA
25115761 AAAATAAAATAAAT
1 AAAATAAAATAAAT
25115775 AAAATAAAATAAA
1 AAAATAAAATAAA
25115788 ATTTAAGCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:25115818 original size:32 final size:32
Alignment explanation
Indices: 25115782--25116030 Score: 177
Period size: 32 Copynumber: 7.7 Consensus size: 32
25115772 AATAAAATAA
25115782 AATAAAATTTAAGCCCAGTTTATCTAGCTATC
1 AATAAAATTTAAGCCCAGTTTATCTAGCTATC
* *
25115814 AATAAAATTTAAGCTCAGTTTATCTGGCT-TC
1 AATAAAATTTAAGCCCAGTTTATCTAGCTATC
** * *
25115845 AAATGAAGCTTTAAGCCCAGTTTATCTAACCATC
1 -AAT-AAAATTTAAGCCCAGTTTATCTAGCTATC
* * *
25115879 ATTGAAATTTAAGCCCAGTTTATCT-GGTCATC
1 AATAAAATTTAAGCCCAGTTTATCTAGCT-ATC
* *
25115911 AATGAAACTTTAAGCCCAGTTTATCT-GGTCATC
1 AAT-AAAATTTAAGCCCAGTTTATCTAGCT-ATC
* * * * * * *
25115944 AATGACATTAAAGCCCA-ATTATATGGC-CTC
1 AATAAAATTTAAGCCCAGTTTATCTAGCTATC
** * *
25115974 AAATAAGGTTTTAAGCCCAGTTTAGCTGACCT-TC
1 -AATAA-AATTTAAGCCCAGTTTATCT-AGCTATC
*
25116008 AATAAAATTTAAGTCCAGTTTAT
1 AATAAAATTTAAGCCCAGTTTAT
25116031 TTGGCCCTAA
Statistics
Matches: 167, Mismatches: 39, Indels: 22
0.73 0.17 0.10
Matches are distributed among these distances:
30 2 0.01
31 11 0.07
32 88 0.53
33 61 0.37
34 5 0.03
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (32 bp):
AATAAAATTTAAGCCCAGTTTATCTAGCTATC
Found at i:25115870 original size:65 final size:65
Alignment explanation
Indices: 25115789--25116035 Score: 252
Period size: 65 Copynumber: 3.8 Consensus size: 65
25115779 TAAAATAAAA
* *
25115789 TTTAAGCCCAGTTTATCTAGCTATCAATAAAATTTAAGCTCAGTTTATCTGGCTTCAAATGAAGC
1 TTTAAGCCCAGTTTATCTAGCTATCAATAAAATTTAAGCCCAGTTTATCTGGCATCAAATGAAGC
* * * * *
25115854 TTTAAGCCCAGTTTATCTAACCATCATTGAAATTTAAGCCCAGTTTATCTGGTCATC-AATGAAA
1 TTTAAGCCCAGTTTATCTAGCTATCAATAAAATTTAAGCCCAGTTTATCTGG-CATCAAATGAAG
25115918 C
65 C
* * * * * * *
25115919 TTTAAGCCCAGTTTATCT-GGTCATCAATGACATTAAAGCCCA-ATTATATGGCCTCAAAT-AAG
1 TTTAAGCCCAGTTTATCTAGCT-ATCAATAAAATTTAAGCCCAGTTTATCTGGCATCAAATGAA-
*
25115981 GT
64 GC
* * * *
25115983 TTTAAGCCCAGTTTAGCTGACCT-TCAATAAAATTTAAGTCCAGTTTATTTGGC
1 TTTAAGCCCAGTTTATCT-AGCTATCAATAAAATTTAAGCCCAGTTTATCTGGC
25116036 CCTAAAAGAA
Statistics
Matches: 148, Mismatches: 27, Indels: 14
0.78 0.14 0.07
Matches are distributed among these distances:
63 5 0.03
64 42 0.28
65 97 0.66
66 4 0.03
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (65 bp):
TTTAAGCCCAGTTTATCTAGCTATCAATAAAATTTAAGCCCAGTTTATCTGGCATCAAATGAAGC
Found at i:25116725 original size:24 final size:24
Alignment explanation
Indices: 25116697--25116742 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
25116687 GTCGATTTTA
*
25116697 TAAGACCTCCGGGCATGATTTCTG
1 TAAGACCTCCGAGCATGATTTCTG
*
25116721 TAAGACCTTCGAGCATGATTTC
1 TAAGACCTCCGAGCATGATTTC
25116743 GATTCGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (24 bp):
TAAGACCTCCGAGCATGATTTCTG
Found at i:25117063 original size:18 final size:18
Alignment explanation
Indices: 25117042--25117079 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
25117032 CATGGTCTAC
*
25117042 ATTTTTTTAATAATAATA
1 ATTTTTTAAATAATAATA
25117060 ATTTTTTAAATAATAATA
1 ATTTTTTAAATAATAATA
25117078 AT
1 AT
25117080 AATATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTTTAAATAATAATA
Found at i:25117094 original size:21 final size:21
Alignment explanation
Indices: 25117048--25117094 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
25117038 CTACATTTTT
*
25117048 TTAATAATAATAATTTTTTAA
1 TTAATAATAATAATTTATTAA
*
25117069 ATAATAATAATAATATTATT-A
1 TTAATAATAATAAT-TTATTAA
25117090 TTAAT
1 TTAAT
25117095 TTAATTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATAATAATAATTTATTAA
Found at i:25118586 original size:17 final size:16
Alignment explanation
Indices: 25118549--25118627 Score: 88
Period size: 17 Copynumber: 4.9 Consensus size: 16
25118539 CTAAAACCTT
*
25118549 TAAAATTCAAAATCCCC
1 TAAAATCCAAAAT-CCC
*
25118566 TAAAATCCAAAATCCT
1 TAAAATCCAAAATCCC
* *
25118582 TTAAATCCAAACT-CC
1 TAAAATCCAAAATCCC
25118597 TAAAATCCAAAACTCCC
1 TAAAATCCAAAA-TCCC
*
25118614 TAAAATCTAAAATC
1 TAAAATCCAAAATC
25118628 TCAAACCTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
15 11 0.21
16 16 0.31
17 25 0.48
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAAATCCAAAATCCC
Found at i:25118589 original size:16 final size:16
Alignment explanation
Indices: 25118541--25118670 Score: 67
Period size: 16 Copynumber: 8.2 Consensus size: 16
25118531 CTAGGTTTCT
*
25118541 AAAA-CCTTTAAAATTC
1 AAAATCCTTT-AAATCC
* *
25118557 AAAATCCCCTAAAATCC
1 AAAAT-CCTTTAAATCC
25118574 AAAATCCTTTAAATCC
1 AAAATCCTTTAAATCC
* *
25118590 AAACTCC-TAAAATCC
1 AAAATCCTTTAAATCC
* * *
25118605 AAAACTCCCTAAAATCT
1 AAAA-TCCTTTAAATCC
*
25118622 AAAAT-C-TCAAA-CC
1 AAAATCCTTTAAATCC
*
25118635 TTTAAA--CTCTTAAATCC
1 --AAAATCCT-TTAAATCC
25118652 AAAATCCTTTAAATCC
1 AAAATCCTTTAAATCC
25118668 AAA
1 AAA
25118671 CCTCTAAAAT
Statistics
Matches: 89, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
13 1 0.01
14 5 0.06
15 17 0.19
16 38 0.43
17 25 0.28
18 3 0.03
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATCCTTTAAATCC
Found at i:25118604 original size:15 final size:15
Alignment explanation
Indices: 25118564--25118620 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 15
25118554 TTCAAAATCC
*
25118564 CCTAAAATCCAAAAT
1 CCTAAAATCCAAACT
*
25118579 CCTTTAAATCCAAACT
1 CC-TAAAATCCAAACT
25118595 CCTAAAATCCAAAACT
1 CCTAAAATCC-AAACT
25118611 CCCTAAAATC
1 -CCTAAAATC
25118621 TAAAATCTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 9 0.25
16 18 0.50
17 9 0.25
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.23
Consensus pattern (15 bp):
CCTAAAATCCAAACT
Found at i:25118649 original size:23 final size:24
Alignment explanation
Indices: 25118596--25118664 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
25118586 ATCCAAACTC
*
25118596 CTAAAATCCAAAACTCC-CTAAAAT
1 CTAAAATCCAAAA-TCCTTTAAAAT
*
25118620 CTAAAATCTC-AAA-CCTTTAAACT
1 CTAAAATC-CAAAATCCTTTAAAAT
*
25118643 CTTAAATCCAAAATCCTTTAAA
1 CTAAAATCCAAAATCCTTTAAA
25118665 TCCAAACCTC
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 3 0.08
23 15 0.39
24 19 0.50
25 1 0.03
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (24 bp):
CTAAAATCCAAAATCCTTTAAAAT
Found at i:25121817 original size:42 final size:41
Alignment explanation
Indices: 25121730--25121839 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 41
25121720 ATTATAATTT
25121730 ATTTA-TTATTATTATTTTTTTATCTTGTAATATTTTTTGG
1 ATTTATTTATTATTATTTTTTTATCTTGTAATATTTTTTGG
* *
25121770 ATTTATCTTATT-TTATTTTTAATTATC-TGTAAATTTTTTTTTG
1 ATTTAT-TTATTATTATTTTT--TTATCTTGT-AATATTTTTTGG
*
25121813 -TTTATTTGATTATTATTTTTTTTTCTT
1 ATTTATTT-ATTATTATTTTTTTATCTT
25121840 CTTTCTTTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
40 5 0.08
41 14 0.24
42 17 0.29
43 23 0.39
ACGTcount: A:0.21, C:0.04, G:0.05, T:0.70
Consensus pattern (41 bp):
ATTTATTTATTATTATTTTTTTATCTTGTAATATTTTTTGG
Found at i:25122669 original size:10 final size:8
Alignment explanation
Indices: 25122650--25122801 Score: 73
Period size: 8 Copynumber: 18.4 Consensus size: 8
25122640 CCGCTCCAGA
25122650 TTTTTT-T
1 TTTTTTAT
**
25122657 TTTTGAAT
1 TTTTTTAT
25122665 TTTTTTAT
1 TTTTTTAT
25122673 TTTTTTA-
1 TTTTTTAT
25122680 TTTTTTAT
1 TTTTTTAT
25122688 TTTTATT-T
1 TTTT-TTAT
*
25122696 TTATTTAT
1 TTTTTTAT
25122704 TTTATTTAT
1 TTT-TTTAT
***
25122713 TAGATTAT
1 TTTTTTAT
25122721 GTTTATTTAAT
1 -TTT-TTT-AT
*
25122732 ATTTTTTCT
1 -TTTTTTAT
25122741 CTTTATTT-T
1 -TTT-TTTAT
*
25122750 ATTTTTAT
1 TTTTTTAT
25122758 TTTTATT-T
1 TTTT-TTAT
*
25122766 TTGTTTTAC
1 TT-TTTTAT
25122775 TTTTTT-T
1 TTTTTTAT
*
25122782 TATTTTATT
1 TTTTTTA-T
25122791 TTTTTTAT
1 TTTTTTAT
25122799 TTT
1 TTT
25122802 CATTTTTATT
Statistics
Matches: 109, Mismatches: 21, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
7 21 0.19
8 48 0.44
9 27 0.25
10 8 0.07
11 5 0.05
ACGTcount: A:0.16, C:0.02, G:0.03, T:0.79
Consensus pattern (8 bp):
TTTTTTAT
Found at i:25122675 original size:6 final size:6
Alignment explanation
Indices: 25122674--25122813 Score: 87
Period size: 6 Copynumber: 22.7 Consensus size: 6
25122664 TTTTTTTATT
* *
25122674 TTTTTA TTTTTTA TTTTTA TTTTTA TTTATT- TTATTTA TTAGATTA TGTTTA
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTT-TTA TT-TTTA TT--TTTA TTTTTA
* *
25122726 TTTAATA TTTTT- TCTCTTTA -TTTTA TTTTTA TTTTTA TTTTT- GTTTTA
1 TTT-TTA TTTTTA T-T-TTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
25122774 CTTTTT- TTTATT- TTATTT- TTTTTA TTTTCA TTTTTA TTTT
1 -TTTTTA TTT-TTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTT
25122814 GTTTTAGTAT
Statistics
Matches: 108, Mismatches: 11, Indels: 29
0.73 0.07 0.20
Matches are distributed among these distances:
5 15 0.14
6 65 0.60
7 24 0.22
8 4 0.04
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:25122675 original size:16 final size:15
Alignment explanation
Indices: 25122649--25122706 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
25122639 GCCGCTCCAG
*
25122649 ATTTTTTT-TTTTGA
1 ATTTTTTTATTTTTA
25122663 ATTTTTTTATTTTT-
1 ATTTTTTTATTTTTA
*
25122677 TTATTTTTTATTTTTA
1 AT-TTTTTTATTTTTA
*
25122693 TTTTTATTTATTTT
1 ATTTT-TTTATTTT
25122707 ATTTATTAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
14 9 0.24
15 19 0.50
16 10 0.26
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.83
Consensus pattern (15 bp):
ATTTTTTTATTTTTA
Found at i:25122683 original size:23 final size:24
Alignment explanation
Indices: 25122649--25122706 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
25122639 GCCGCTCCAG
25122649 ATTTTTTT-TTTTGAATTTTT-TT
1 ATTTTTTTATTTTGAATTTTTATT
**
25122671 ATTTTTTTATTTTTTATTTTTATT
1 ATTTTTTTATTTTGAATTTTTATT
*
25122695 -TTTATTTATTTT
1 ATTTTTTTATTTT
25122707 ATTTATTAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.26
23 21 0.68
24 2 0.06
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.83
Consensus pattern (24 bp):
ATTTTTTTATTTTGAATTTTTATT
Found at i:25122707 original size:5 final size:5
Alignment explanation
Indices: 25122667--25122819 Score: 84
Period size: 5 Copynumber: 29.0 Consensus size: 5
25122657 TTTTGAATTT
*
25122667 TTTTA TTTT- TTTATT TTTTA TTTTTA TTTT- TATTTA TTTTA -TTTA
1 TTTTA TTTTA TTT-TA TTTTA -TTTTA TTTTA T-TTTA TTTTA TTTTA
* * *
25122712 TTAGATTA TGTTTA TTTAA TATT- TTTTC TCTTTA TTTTA TTTTTA TTTTTA
1 TT---TTA T-TTTA TTTTA TTTTA TTTTA T-TTTA TTTTA -TTTTA -TTTTA
*
25122763 TTTTTG TTTTA CTTTT- TTTTA TTTTA TTTT- TTTTA TTTTCA TTTTTA
1 -TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A -TTTTA
*
25122810 TTTTG TTTTA
1 TTTTA TTTTA
25122820 GTATTCAATT
Statistics
Matches: 120, Mismatches: 10, Indels: 36
0.72 0.06 0.22
Matches are distributed among these distances:
4 19 0.16
5 53 0.44
6 39 0.32
7 4 0.03
8 4 0.03
9 1 0.01
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:25122771 original size:47 final size:45
Alignment explanation
Indices: 25122666--25122817 Score: 111
Period size: 47 Copynumber: 3.3 Consensus size: 45
25122656 TTTTTGAATT
*
25122666 TTTTTATTTT-TTTA-TTTTTTATT-TT-TATTTTTATTTA-TTTTA
1 TTTTTATTTTGTTTACTTTTTT-TTATTCTATTTAT-TTTATTTTTA
* *
25122708 TTTATTAGATTATGTTTA-TTTAATATTTT-TTCTCTTTATTTTATTTTTA
1 TTT-TT--ATTTTGTTTACTTT--T-TTTTATTCTATTTATTTTATTTTTA
* * *
25122757 TTTTTATTTTTGTTTTACTTTTTTTTATTTTATTTTTTTTATTTTCA
1 TTTTTA-TTTTG-TTTACTTTTTTTTATTCTATTTATTTTATTTTTA
25122804 TTTTTATTTTGTTT
1 TTTTTATTTTGTTT
25122818 TAGTATTCAA
Statistics
Matches: 89, Mismatches: 8, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
42 3 0.03
43 2 0.02
45 7 0.08
46 17 0.19
47 27 0.30
48 15 0.17
49 18 0.20
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (45 bp):
TTTTTATTTTGTTTACTTTTTTTTATTCTATTTATTTTATTTTTA
Found at i:25122940 original size:64 final size:60
Alignment explanation
Indices: 25122858--25123071 Score: 216
Period size: 64 Copynumber: 3.5 Consensus size: 60
25122848 AAAAAAAATC
* * *
25122858 TTTTTGGGAAAAGTTGAAAGTATCGATTTTCTTTAAAAATAAAATTTAAAAAAAAGGGTTTTTT
1 TTTTTAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAATTTCAAAAAAA-GG---TTT
* * * *
25122922 TTTTTAGGAAAAGATGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCAAAAAAAGGTTT
1 TTTTTAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAAT-AAAATTTCAAAAAAAGGTTT
* * * ****
25122983 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAAT-CAATTTC-AAAAAATCAAT
1 TTTTTAGGAAAAGTTGAAAGTATCAA-TTTTCTTTAAAAATAAAATTTCAAAAAAAGGTTT
**
25123042 TTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 TTTTTAGGAAAAGTTGAAAGTATCAATTTT
25123072 TCCTGCACAA
Statistics
Matches: 129, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
58 4 0.03
59 32 0.25
60 5 0.04
61 27 0.21
62 11 0.09
64 37 0.29
65 13 0.10
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.37
Consensus pattern (60 bp):
TTTTTAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAATTTCAAAAAAAGGTTT
Found at i:25123009 original size:61 final size:60
Alignment explanation
Indices: 25122858--25123071 Score: 236
Period size: 59 Copynumber: 3.5 Consensus size: 60
25122848 AAAAAAAATC
* * * *
25122858 TTTTTG-GGAAAAGTTGAAAGTATCGATTTTCTTTAAAAATAAAATTTAAAAAAAAGGGTTTTT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTTCAAAAAAA-GG---TT
* * *
25122921 TTTTTTAGGAAAAGATGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCAAAAAAAGGTT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAA-TTTCAAAAAAAGGTT
* ****
25122982 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAATC-AATTTC-AAAAAATCAA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATCAAATTTCAAAAAAAGGTT
*
25123041 TTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTT
25123072 TCCTGCACAA
Statistics
Matches: 132, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
59 36 0.27
60 4 0.03
61 36 0.27
62 6 0.05
63 5 0.04
64 35 0.27
65 10 0.08
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.37
Consensus pattern (60 bp):
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTTCAAAAAAAGGTT
Found at i:25123036 original size:14 final size:14
Alignment explanation
Indices: 25123017--25123043 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25123007 AATTTTTCTT
25123017 AAAAAATCAATTTC
1 AAAAAATCAATTTC
25123031 AAAAAATCAATTT
1 AAAAAATCAATTT
25123044 TTGGGGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAAAATCAATTTC
Found at i:25132225 original size:14 final size:14
Alignment explanation
Indices: 25132208--25132234 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25132198 ATTTTATCAA
25132208 AAAAATTTTTAGAG
1 AAAAATTTTTAGAG
25132222 AAAAATTTTTAGA
1 AAAAATTTTTAGA
25132235 TGCTCAGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
AAAAATTTTTAGAG
Found at i:25137269 original size:16 final size:14
Alignment explanation
Indices: 25137247--25137288 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 14
25137237 AAAAAAATGT
25137247 ATAAAATAATAAAA
1 ATAAAATAATAAAA
*
25137261 ATTTAAAATTATAAAA
1 A--TAAAATAATAAAA
25137277 ATAAAATAATAA
1 ATAAAATAATAA
25137289 TTTTACTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 11 0.46
16 13 0.54
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAAAATAATAAAA
Found at i:25142098 original size:27 final size:27
Alignment explanation
Indices: 25142058--25142130 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
25142048 GTGGGCACAA
* * *
25142058 AGGCTACCTTCATTTGCATGATCAAAT
1 AGGCTCCCTGCATTTCCATGATCAAAT
* *
25142085 TGGTTCCCTGCATTTCCATGATCAAAT
1 AGGCTCCCTGCATTTCCATGATCAAAT
*
25142112 AGGCTCCCTTCATTTCCAT
1 AGGCTCCCTGCATTTCCAT
25142131 AACAAAAACT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (27 bp):
AGGCTCCCTGCATTTCCATGATCAAAT
Found at i:25142297 original size:48 final size:47
Alignment explanation
Indices: 25142226--25142319 Score: 111
Period size: 48 Copynumber: 2.0 Consensus size: 47
25142216 TTCATCTCCA
*
25142226 TAACCCTCATTCTCTGCAGCATCATTCTCACCA-GTTTGATATTCTCTG
1 TAACCCTCATTCTC-GCAGCATCACTCTC-CCAGGTTTGATATTCTCTG
* *
25142274 TAACCCTCATTCTC-CACGACATCACTCTCGCAGGTTTGATCTTCTC
1 TAACCCTCATTCTCGCA-G-CATCACTCTCCCAGGTTTGATATTCTC
25142320 CTTCATTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
46 2 0.05
47 3 0.08
48 35 0.88
ACGTcount: A:0.20, C:0.34, G:0.11, T:0.35
Consensus pattern (47 bp):
TAACCCTCATTCTCGCAGCATCACTCTCCCAGGTTTGATATTCTCTG
Found at i:25145169 original size:3 final size:3
Alignment explanation
Indices: 25145161--25145185 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
25145151 TTTAAATAAG
25145161 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
25145186 AAGGTAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:25145278 original size:29 final size:29
Alignment explanation
Indices: 25145220--25145278 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
25145210 AAATTATAAT
*
25145220 AAAATATTTAATATGATATTTAAATTTTA
1 AAAATATTTAATATGATATTTAAATATTA
*
25145249 AAAATTTTTAATATGATA-TTAAACTATTA
1 AAAATATTTAATATGATATTTAAA-TATTA
25145278 A
1 A
25145279 TTTATTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (29 bp):
AAAATATTTAATATGATATTTAAATATTA
Found at i:25145376 original size:27 final size:26
Alignment explanation
Indices: 25145345--25145416 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 26
25145335 TGTGAATATT
25145345 ATATTAATTAATATATTTATAA-TTTAA
1 ATATTAATTAA-ATATTTA-AATTTTAA
*
25145372 ATATTATTTAGAGAT-TTTAAATTTTAA
1 ATATTAATTA-A-ATATTTAAATTTTAA
*
25145399 ATATTTTATTAAATATTT
1 ATA-TTAATTAAATATTT
25145417 CAATATATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
26 4 0.11
27 25 0.68
28 8 0.22
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (26 bp):
ATATTAATTAAATATTTAAATTTTAA
Found at i:25148073 original size:5 final size:5
Alignment explanation
Indices: 25148063--25148121 Score: 56
Period size: 5 Copynumber: 12.6 Consensus size: 5
25148053 AAAATTTTAA
* *
25148063 ATTAT ATTAT ATT-T ATT-T TTTAT -TTAT ATTACT TTTAT ATTAT A-T-T
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTA-T ATTAT ATTAT ATTAT
25148109 ATTAT ATTAT ATT
1 ATTAT ATTAT ATT
25148122 TTAAATTATC
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
3 2 0.04
4 13 0.28
5 27 0.59
6 4 0.09
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (5 bp):
ATTAT
Found at i:25148078 original size:11 final size:11
Alignment explanation
Indices: 25148064--25148122 Score: 66
Period size: 11 Copynumber: 5.2 Consensus size: 11
25148054 AAATTTTAAA
25148064 TTATATTATAT
1 TTATATTATAT
* *
25148075 TTATTTTTTAT
1 TTATATTATAT
25148086 TTATATTACT-T
1 TTATATTA-TAT
25148097 TTATATTATATT
1 TTATATTATA-T
25148109 ATTATATTATAT
1 -TTATATTATAT
25148121 TT
1 TT
25148123 TAAATTATCA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 1 0.03
11 26 0.65
12 3 0.08
13 10 0.25
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (11 bp):
TTATATTATAT
Found at i:25148086 original size:16 final size:17
Alignment explanation
Indices: 25148064--25148108 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
25148054 AAATTTTAAA
25148064 TTATATTATATTTA-TT
1 TTATATTATATTTACTT
*
25148080 TTTTATT-TATATTACTT
1 TTATATTATAT-TTACTT
25148097 TTATATTATATT
1 TTATATTATATT
25148109 ATTATATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 3 0.12
16 9 0.38
17 9 0.38
18 3 0.12
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATATTATATTTACTT
Found at i:25148092 original size:13 final size:14
Alignment explanation
Indices: 25148069--25148123 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 14
25148059 TTAAATTATA
25148069 TTATATT-TATTTT
1 TTATATTATATTTT
25148082 TTAT-TTATATTACTT
1 TTATATTATATT--TT
*
25148097 TTATATTATA-TTA
1 TTATATTATATTTT
25148110 TTATATTATATTTT
1 TTATATTATATTTT
25148124 AAATTATCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
12 2 0.06
13 19 0.54
14 2 0.06
15 7 0.20
16 5 0.14
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATATTATATTTT
Found at i:25148608 original size:24 final size:25
Alignment explanation
Indices: 25148573--25148622 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
25148563 TAAAATTTGA
*
25148573 TTGAATTCGAGTTAAATTTTAAATT
1 TTGAATTCGAGTTAAATATTAAATT
*
25148598 TTGAA-TCGAGTTCAATATTAAATT
1 TTGAATTCGAGTTAAATATTAAATT
25148622 T
1 T
25148623 AATATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.46
Consensus pattern (25 bp):
TTGAATTCGAGTTAAATATTAAATT
Found at i:25152290 original size:29 final size:30
Alignment explanation
Indices: 25152258--25152316 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
25152248 AAGTTAAATA
25152258 TTAAAAAAATTTTAAT-TATTTTA-TTATTC
1 TTAAAAAAATTTTAATAT-TTTTACTTATTC
* *
25152287 TTAAATAAATTTTTATATTTTTACTTATTC
1 TTAAAAAAATTTTAATATTTTTACTTATTC
25152317 AAATAATCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (30 bp):
TTAAAAAAATTTTAATATTTTTACTTATTC
Found at i:25152320 original size:28 final size:27
Alignment explanation
Indices: 25152276--25152360 Score: 73
Period size: 30 Copynumber: 2.9 Consensus size: 27
25152266 ATTTTAATTA
25152276 TTTTATTATTCTTAAATAAATTTTTATAT
1 TTTTATTATTC--AAATAAATTTTTATAT
*
25152305 TTTTACTTATTCAAAT-AATCTTTTATGT
1 TTTTA-TTATTCAAATAAAT-TTTTATAT
* *
25152333 TTTAATTTGTATTAAAATAAATTTTTAT
1 TTT--TAT-TATTCAAATAAATTTTTAT
25152361 TTCAAATAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
27 3 0.06
28 14 0.30
29 6 0.13
30 21 0.45
31 3 0.06
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTTATTATTCAAATAAATTTTTATAT
Found at i:25152359 original size:30 final size:28
Alignment explanation
Indices: 25152256--25152360 Score: 74
Period size: 28 Copynumber: 3.7 Consensus size: 28
25152246 TTAAGTTAAA
*
25152256 TATTAAAA-AAATTTTAATTATTTT-A-T
1 TATTAAAATAAATTTTTA-TATTTTAACT
* *
25152282 TATTCTTAAATAAATTTTTATATTTTTACT
1 TA-T-TAAAATAAATTTTTATATTTTAACT
* * *
25152312 TATTCAAAT-AATCTTTTATGTTTTAATTT
1 TATTAAAATAAAT-TTTTATATTTTAA-CT
25152341 GTATTAAAATAAATTTTTAT
1 -TATTAAAATAAATTTTTAT
25152361 TTCAAATAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
26 2 0.03
27 4 0.06
28 26 0.41
29 11 0.17
30 17 0.27
31 3 0.05
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (28 bp):
TATTAAAATAAATTTTTATATTTTAACT
Found at i:25153234 original size:2 final size:2
Alignment explanation
Indices: 25153227--25153251 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25153217 GGCCATGGTG
25153227 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 T
25153252 GTGTGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25154162 original size:22 final size:22
Alignment explanation
Indices: 25154127--25154171 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
25154117 TTCAAAAGAT
* *
25154127 AATTTACTATAATTGAAATGAG
1 AATTTACTAGAATTGAAACGAG
*
25154149 AATTTATTAGAATTGAAACGAG
1 AATTTACTAGAATTGAAACGAG
25154171 A
1 A
25154172 TGTTAACATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.04, G:0.16, T:0.33
Consensus pattern (22 bp):
AATTTACTAGAATTGAAACGAG
Found at i:25154866 original size:26 final size:26
Alignment explanation
Indices: 25154835--25154902 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 26
25154825 TTTTATATAA
25154835 TATTAATAAATTAAATAATAATAATT
1 TATTAATAAATTAAATAATAATAATT
*
25154861 TATTAATAAGATGAATTAAATAATAATATTT
1 TATTAAT---A--AATTAAATAATAATAATT
25154892 TATTAATAAAT
1 TATTAATAAAT
25154903 AAGTTATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
26 10 0.28
28 1 0.03
29 1 0.03
31 24 0.67
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (26 bp):
TATTAATAAATTAAATAATAATAATT
Found at i:25156748 original size:10 final size:10
Alignment explanation
Indices: 25156733--25156761 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
25156723 GACACTTTCA
25156733 TTATTTTTTT
1 TTATTTTTTT
25156743 TTA-TTTTTT
1 TTATTTTTTT
25156752 TTATTTTTTT
1 TTATTTTTTT
25156762 AAAGCTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (10 bp):
TTATTTTTTT
Found at i:25157048 original size:16 final size:17
Alignment explanation
Indices: 25157020--25157052 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
25157010 ATAAATATAT
25157020 ATTTTATTATTTATTTA
1 ATTTTATTATTTATTTA
25157037 ATTTTA-TATTTATTTA
1 ATTTTATTATTTATTTA
25157053 TACTATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTATTATTTATTTA
Found at i:25157742 original size:13 final size:14
Alignment explanation
Indices: 25157716--25157744 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
25157706 TATACTTATA
25157716 TAATTATAATATTT
1 TAATTATAATATTT
25157730 TAATTAT-ATATTT
1 TAATTATAATATTT
25157743 TA
1 TA
25157745 TTTGGATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTATAATATTT
Found at i:25158231 original size:40 final size:41
Alignment explanation
Indices: 25158165--25158247 Score: 123
Period size: 40 Copynumber: 2.0 Consensus size: 41
25158155 AAATATAAAA
*
25158165 TAAAATTTTATAATTTTATTAAATTTATATATAATTATTAT
1 TAAAATTTTATAATTATATTAAATTTATATATAATTATTAT
* * *
25158206 TAAAATTTTA-AATTATATTATATTTATATATATTTTTTAT
1 TAAAATTTTATAATTATATTAAATTTATATATAATTATTAT
25158246 TA
1 TA
25158248 TATTCGTATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
40 28 0.74
41 10 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (41 bp):
TAAAATTTTATAATTATATTAAATTTATATATAATTATTAT
Found at i:25158264 original size:22 final size:22
Alignment explanation
Indices: 25158221--25158264 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25158211 TTTTAAATTA
*
25158221 TATTATATTTATATATATTTTT
1 TATTATATTCATATATATTTTT
*
25158243 TATTATATTCGTATGATATTTT
1 TATTATATTCATAT-ATATTTT
25158265 AAATTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (22 bp):
TATTATATTCATATATATTTTT
Found at i:25159100 original size:11 final size:11
Alignment explanation
Indices: 25159084--25159108 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25159074 CCAAAAATCT
25159084 AATTAAAGGTG
1 AATTAAAGGTG
25159095 AATTAAAGGTG
1 AATTAAAGGTG
25159106 AAT
1 AAT
25159109 GAGTAATGAG
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:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (11 bp):
AATTAAAGGTG
Found at i:25163343 original size:121 final size:115
Alignment explanation
Indices: 25163207--25163433 Score: 348
Period size: 114 Copynumber: 1.9 Consensus size: 115
25163197 ACAAGAAAAT
25163207 AAAAAATTTACAAATACTAAATTTTAATTTTAATTTATTAAATATTATATTTTAAAAATAAATTA
1 AAAAAATTTACAAATACTAAA-TTT-A----AATTTATTAAA-ATTATATTTTAAAAATAAATTA
* * *
25163272 CATAAATCAATTAAGTTATAAATTTTGAATTCTTTT-TGATAATGCTTATTTTTATA
59 CATAAATCAATTAAGTTATAAACTATGAATTATTTTCTGATAATGCTTATTTTTATA
*
25163328 AAAAAATTTATAAATACTAAATTTAAATTTATTAAAATTATATTTTAAAAATAAATTACATAAAT
1 AAAAAATTTACAAATACTAAATTTAAATTTATTAAAATTATATTTTAAAAATAAATTACATAAAT
25163393 CAATTAAGTTATAAACTATGAATTATTTTCTGATAATGCTT
66 CAATTAAGTTATAAACTATGAATTATTTTCTGATAATGCTT
25163434 TCTTTTCTAC
Statistics
Matches: 101, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
114 55 0.54
115 22 0.22
119 1 0.01
120 3 0.03
121 20 0.20
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (115 bp):
AAAAAATTTACAAATACTAAATTTAAATTTATTAAAATTATATTTTAAAAATAAATTACATAAAT
CAATTAAGTTATAAACTATGAATTATTTTCTGATAATGCTTATTTTTATA
Found at i:25165372 original size:21 final size:23
Alignment explanation
Indices: 25165348--25165396 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
25165338 GAATTATTTA
*
25165348 TTAAAAAATA-ATATTT-TTATT
1 TTAAAAAATAGATATTTGTAATT
25165369 TTAAAAAATAGTATATTTGTAATT
1 TTAAAAAATAG-ATATTTGTAATT
25165393 TTAA
1 TTAA
25165397 TAAGAAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 10 0.42
23 6 0.25
24 8 0.33
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
TTAAAAAATAGATATTTGTAATT
Found at i:25167971 original size:2 final size:2
Alignment explanation
Indices: 25167958--25167990 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
25167948 TTCAATGGGA
*
25167958 AT AT AA AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25167991 GTGGAGCTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:25168127 original size:50 final size:50
Alignment explanation
Indices: 25168062--25168162 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
25168052 TTGACCTTGC
25168062 ATGACTGAATACATTACCGTATCACACAAAAGTAGCAACTTTTGACAGTG
1 ATGACTGAATACATTACCGTATCACACAAAAGTAGCAACTTTTGACAGTG
* * *
25168112 ATGATTGAATGCATTACCGTATCTCACAAAAGTAGCAACTTTTGACAGTG
1 ATGACTGAATACATTACCGTATCACACAAAAGTAGCAACTTTTGACAGTG
25168162 A
1 A
25168163 GGCTTACACA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (50 bp):
ATGACTGAATACATTACCGTATCACACAAAAGTAGCAACTTTTGACAGTG
Found at i:25171977 original size:31 final size:30
Alignment explanation
Indices: 25171907--25171981 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
25171897 TTTTTGCATC
* *
25171907 CAAATAAATTTTTAAATTTTAATTTGTATT
1 CAAATAAATTTTTAAAATTTAATTTATATT
*
25171937 CGAATAAATTTTTAAAATTTAATTTATACTT
1 CAAATAAATTTTTAAAATTTAATTTATA-TT
*
25171968 -AAATAAAATTTTAA
1 CAAATAAATTTTTAA
25171982 TATAAATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 37 0.95
31 2 0.05
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (30 bp):
CAAATAAATTTTTAAAATTTAATTTATATT
Found at i:25171991 original size:22 final size:22
Alignment explanation
Indices: 25171949--25171991 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
25171939 AATAAATTTT
* *
25171949 TAAAATTTAATTTATACTTAAA
1 TAAAATTTAATATATAATTAAA
25171971 TAAAATTTTAATATA-AATTAA
1 TAAAA-TTTAATATATAATTAA
25171992 TTTTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TAAAATTTAATATATAATTAAA
Found at i:25172014 original size:16 final size:17
Alignment explanation
Indices: 25171995--25172029 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
25171985 AAATTAATTT
25171995 TTTTATTTAAA-ATAAA
1 TTTTATTTAAATATAAA
25172011 TTTTATTTAAATATAAA
1 TTTTATTTAAATATAAA
25172028 TT
1 TT
25172030 AAAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTATTTAAATATAAA
Done.