Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 116 of 204
Found at i:35995012 original size:16 final size:16
Alignment explanation
Indices: 35994991--35995060 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
35994981 TTGATTTGCT
35994991 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
35995007 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
35995023 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
35995039 ATTACGCCTCTAATCC
1 ATTACACCTCTAATCC
*
35995055 AATACA
1 ATTACA
35995061 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.31, C:0.36, G:0.01, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:35998384 original size:13 final size:13
Alignment explanation
Indices: 35998368--35998433 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
35998358 TTTAAACCAA
35998368 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
35998381 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* * *
35998394 ACTTTTCCACAGT
1 ACTTTTCAAAAGC
*
35998407 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
35998420 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
35998433 A
1 A
35998434 ATAAAGAACT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:36007944 original size:47 final size:47
Alignment explanation
Indices: 36007891--36008090 Score: 305
Period size: 47 Copynumber: 4.3 Consensus size: 47
36007881 ATGATTTTAG
* * * *
36007891 TAAATTCATATAAGAATATTTATTATTAAGAATT-TTATAAAATTATA
1 TAAATTCATATAAGAAAATTTATTAGTAATAATTATT-TTAAATTATA
36007938 TAAATTCATATAAGAAAATTTATTAGTAATAATTATTTTAAATTATA
1 TAAATTCATATAAGAAAATTTATTAGTAATAATTATTTTAAATTATA
*
36007985 CAAATTCATATAAGAAAATTTATTAGTAATAATTATTTTAAATTATA
1 TAAATTCATATAAGAAAATTTATTAGTAATAATTATTTTAAATTATA
* *
36008032 CAAATTCATATAAGAAAATTTATTAGTAATAATTATTTTAAATTTTA
1 TAAATTCATATAAGAAAATTTATTAGTAATAATTATTTTAAATTATA
36008079 TTAAA-TCATATA
1 -TAAATTCATATA
36008091 CTTTAATTAA
Statistics
Matches: 144, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
47 139 0.97
48 5 0.03
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (47 bp):
TAAATTCATATAAGAAAATTTATTAGTAATAATTATTTTAAATTATA
Found at i:36008200 original size:15 final size:16
Alignment explanation
Indices: 36008172--36008201 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36008162 TAAATTCATA
36008172 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
36008188 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
36008202 AATCATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:36008212 original size:61 final size:59
Alignment explanation
Indices: 36008132--36008326 Score: 177
Period size: 59 Copynumber: 3.3 Consensus size: 59
36008122 TTCATATTAT
** *
36008132 ATTTTATTGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGA
1 ATTTTATTAAATCATATATTATTA-TTTAG-AAATTCATATAAGAATATTTATTATTAAGA
* * * * *
36008193 ATTTTATTAAATCATATATT-TTAATTA-AAATAT-ATTTAATAATAATTA-TATTAAATTA
1 ATTTTATTAAATCATATATTATTATTTAGAAAT-TCATATAAGAATATTTATTATT-AA-GA
* * *
36008251 TATTTTA-TAGTATCATATATTATTATAT-GAAATTCATATAAGAATATTGATTATTAAGA
1 -ATTTTATTA-AATCATATATTATTATTTAGAAATTCATATAAGAATATTTATTATTAAGA
*
36008310 ATTTTATTAAATTATAT
1 ATTTTATTAAATCATAT
36008327 TTTAATTAAA
Statistics
Matches: 106, Mismatches: 18, Indels: 23
0.72 0.12 0.16
Matches are distributed among these distances:
56 4 0.04
57 18 0.17
58 16 0.15
59 23 0.22
60 23 0.22
61 22 0.21
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (59 bp):
ATTTTATTAAATCATATATTATTATTTAGAAATTCATATAAGAATATTTATTATTAAGA
Found at i:36008221 original size:18 final size:15
Alignment explanation
Indices: 36008193--36008258 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
36008183 ATTATTAAGA
36008193 ATTTTATTAAATCATAT
1 ATTTTATTAAA--ATAT
36008210 ATTTTAATTAAAATAT
1 ATTTT-ATTAAAATAT
*
36008226 A-TTTA--ATAATA-
1 ATTTTATTAAAATAT
* *
36008237 ATTATATTAAATTAT
1 ATTTTATTAAAATAT
36008252 ATTTTAT
1 ATTTTAT
36008259 AGTATCATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
11 1 0.03
12 8 0.21
14 5 0.13
15 9 0.23
16 5 0.13
17 5 0.13
18 6 0.15
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTATTAAAATAT
Found at i:36008320 original size:117 final size:119
Alignment explanation
Indices: 36008072--36008362 Score: 466
Period size: 120 Copynumber: 2.5 Consensus size: 119
36008062 AATTATTTTA
* *
36008072 AATTTTATTAAATCATATACTTTAATTAAAATATATTTAATAATAATTATTTCATATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTT-AAATTATATTTT
* * *
36008137 ATTGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAG
65 ATAGTATCATATATTATGATTATAGTAAATTCATATAAGAATATTGATTATTAAG
36008192 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATATTAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAATTATATTTT
*
36008257 ATAGTATCATATATTATTA-TAT-G-AAATTCATATAAGAATATTGATTATTAAG
65 ATAGTATCATATATTATGATTATAGTAAATTCATATAAGAATATTGATTATTAAG
36008309 AATTTTATTAAAT--TATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAA
36008363 ATATGATTAA
Statistics
Matches: 163, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
115 40 0.25
117 41 0.25
118 1 0.01
119 2 0.01
120 77 0.47
121 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (119 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTAAATTATATTTTA
TAGTATCATATATTATGATTATAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:36008328 original size:15 final size:16
Alignment explanation
Indices: 36008310--36008344 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
36008300 ATTATTAAGA
*
36008310 ATTTT-ATTAAATTAT
1 ATTTTAATTAAAATAT
36008325 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
36008341 ATTT
1 ATTT
36008345 AATAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:36008392 original size:117 final size:114
Alignment explanation
Indices: 36008072--36008392 Score: 389
Period size: 117 Copynumber: 2.7 Consensus size: 114
36008062 AATTATTTTA
* *
36008072 AATTTTATTAAATCATATACTTTAATTAAAATATATTTAATAATAATTATTTCATATTATATTTT
1 AATTTTATTAAAT-ATATATTTTAATTAAAATATATTTAATAATAATTATTT-AAATTATA--TT
* * * *
36008137 ATTGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAG
62 ATTATATTAT-TATTAT-ATTATAGTAAATTCATATAAGAATATTGATTATTAAG
36008192 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATATTAAATTATATT-T
1 AATTTTATTAAAT-ATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAATTATATTAT
* *
36008256 TATAGTATCATATATTATTATA-TGAAATTCATATAAGAATATTGATTATTAAG
64 TATATTATTAT-TA-TATTATAGT-AAATTCATATAAGAATATTGATTATTAAG
*
36008309 AATTTTATTAAAT-TATATTTTAATTAAAATATATTTAATAATAATTATGTTAAAATATGATTAA
1 AATTTTATTAAATATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAATTAT-ATT--
36008373 ATTAT-TTATTATTGATATTA
62 ATTATATTATTATT-ATATTA
36008393 ATAATCTTAT
Statistics
Matches: 180, Mismatches: 12, Indels: 21
0.85 0.06 0.10
Matches are distributed among these distances:
115 43 0.24
116 6 0.03
117 60 0.33
118 9 0.05
119 4 0.02
120 56 0.31
121 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (114 bp):
AATTTTATTAAATATATATTTTAATTAAAATATATTTAATAATAATTATTTAAATTATATTATTA
TATTATTATTATATTATAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:36008596 original size:16 final size:16
Alignment explanation
Indices: 36008575--36008611 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
36008565 TTGATTTGCT
36008575 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
36008591 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
36008607 ATTAC
1 ATTAC
36008612 AGCGAACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.32, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:36009127 original size:19 final size:20
Alignment explanation
Indices: 36009096--36009153 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
36009086 TTAAAAATAT
36009096 AAATATTTAAAATTT-TAAA
1 AAATATTTAAAATTTATAAA
36009115 AAAT-TTTATAAATTTATAAA
1 AAATATTTA-AAATTTATAAA
* *
36009135 ACAT-TATTAAAATATATAA
1 AAATAT-TTAAAATTTATAA
36009154 TAATATTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 4 0.12
19 10 0.29
20 17 0.50
21 3 0.09
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATATTTAAAATTTATAAA
Found at i:36009526 original size:37 final size:37
Alignment explanation
Indices: 36009479--36009559 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
36009469 GTCCAATTAA
* *
36009479 AAAATGTGTATCAATTATCTTATTATATGTGTAGACT
1 AAAAGGTGTATCAATTATCTTATTACATGTGTAGACT
* * *
36009516 AAAAGGTGTATCAATTATTTTCTTACATGTGTAGCCT
1 AAAAGGTGTATCAATTATCTTATTACATGTGTAGACT
36009553 AAAAGGT
1 AAAAGGT
36009560 TTAAATAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.40
Consensus pattern (37 bp):
AAAAGGTGTATCAATTATCTTATTACATGTGTAGACT
Found at i:36015325 original size:21 final size:20
Alignment explanation
Indices: 36015301--36015343 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
36015291 ATTCTAGACT
36015301 TTAACTTTTAACTTTTTTTTA
1 TTAACTTTTAA-TTTTTTTTA
*
36015322 TTAATTTTTAATTTTTTTTA
1 TTAACTTTTAATTTTTTTTA
36015342 TT
1 TT
36015344 TTTTGAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TTAACTTTTAATTTTTTTTA
Found at i:36015336 original size:18 final size:18
Alignment explanation
Indices: 36015315--36015355 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
36015305 CTTTTAACTT
36015315 TTTTTTATTAATTTTT-AA
1 TTTTTT-TTAATTTTTGAA
*
36015333 TTTTTTTTATTTTTTGAA
1 TTTTTTTTAATTTTTGAA
36015351 TTTTT
1 TTTTT
36015356 AAAAATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTTTTTAATTTTTGAA
Found at i:36015397 original size:21 final size:21
Alignment explanation
Indices: 36015349--36015402 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
36015339 TTATTTTTTG
*
36015349 AATTTTTAAAAATATTTCTAT
1 AATTTTTAAAAATATTTCTAC
* *
36015370 AAATTTTAATAATATTT-TAC
1 AATTTTTAAAAATATTTCTAC
36015390 AATTTTTTAAAAA
1 AA-TTTTTAAAAA
36015403 GCTAATATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (21 bp):
AATTTTTAAAAATATTTCTAC
Found at i:36015408 original size:29 final size:30
Alignment explanation
Indices: 36015376--36015432 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
36015366 CTATAAATTT
36015376 TAATA-ATATTTTACAATT-TTTTAAAAAGC
1 TAATATATATTTTA-AATTATTTTAAAAAGC
* *
36015405 TAATATTTTTTTTAAATTATTTTAAAAA
1 TAATATATATTTTAAATTATTTTAAAAA
36015433 ATTAAGCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (30 bp):
TAATATATATTTTAAATTATTTTAAAAAGC
Found at i:36020347 original size:62 final size:62
Alignment explanation
Indices: 36020257--36020380 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
36020247 GTCGTAGCAA
36020257 CAGGGTTGTGATCTGATCAGAGTTGGTAAATATTGTCATCCTAACTCCCCTTTATGCAACAG
1 CAGGGTTGTGATCTGATCAGAGTTGGTAAATATTGTCATCCTAACTCCCCTTTATGCAACAG
36020319 CAGGGTTGTGATCTGATCAGAGTTGGTAAATATTGTCATCCTAACTCCCCTTTATGCAACAG
1 CAGGGTTGTGATCTGATCAGAGTTGGTAAATATTGTCATCCTAACTCCCCTTTATGCAACAG
36020381 GGTTTTGGAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (62 bp):
CAGGGTTGTGATCTGATCAGAGTTGGTAAATATTGTCATCCTAACTCCCCTTTATGCAACAG
Found at i:36021427 original size:30 final size:30
Alignment explanation
Indices: 36021376--36021448 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
36021366 CAACCCAATC
* * *
36021376 ATAAAAATTACAAATAATTTAATAAATAAAA
1 ATAAAAA-TAAAAAAAATTTAAAAAATAAAA
36021407 ATAAAAATAAAAAAAATTTAAAAAATAAAA
1 ATAAAAATAAAAAAAATTTAAAAAATAAAA
36021437 ATAAAAATAAAA
1 ATAAAAATAAAA
36021449 TATAAATAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 32 0.82
31 7 0.18
ACGTcount: A:0.75, C:0.01, G:0.00, T:0.23
Consensus pattern (30 bp):
ATAAAAATAAAAAAAATTTAAAAAATAAAA
Found at i:36021456 original size:6 final size:6
Alignment explanation
Indices: 36021399--36021454 Score: 69
Period size: 6 Copynumber: 9.2 Consensus size: 6
36021389 ATAATTTAAT
**
36021399 AAATAA AAATAA AAATAA AAA-AA ATTTAAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATAA AAATAA AAATAA
36021447 AATATAA A
1 AA-ATAA A
36021455 TAGGCACATG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
5 3 0.07
6 31 0.72
7 9 0.21
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:36026218 original size:23 final size:23
Alignment explanation
Indices: 36026188--36026241 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
36026178 TTTAAAAGTT
* *
36026188 AAATATTATTTTATCCTAATATC
1 AAATATTATGTAATCCTAATATC
* *
36026211 AAATATTATGTAATTCTAATATT
1 AAATATTATGTAATCCTAATATC
36026234 AAATATTA
1 AAATATTA
36026242 ATTACAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (23 bp):
AAATATTATGTAATCCTAATATC
Found at i:36029255 original size:13 final size:14
Alignment explanation
Indices: 36029231--36029259 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
36029221 CATGCTTTTG
36029231 AACACTTTGATCAT
1 AACACTTTGATCAT
36029245 AACAC-TTGATCAT
1 AACACTTTGATCAT
36029258 AA
1 AA
36029260 ATCAACATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (14 bp):
AACACTTTGATCAT
Found at i:36031238 original size:15 final size:15
Alignment explanation
Indices: 36031218--36031249 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36031208 CATTTCACTA
*
36031218 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
36031233 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
36031248 TT
1 TT
36031250 TGCATGCATA
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:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:36037334 original size:33 final size:33
Alignment explanation
Indices: 36037297--36037370 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 33
36037287 CCTTGCCATA
* * * * *
36037297 GTCTTACGCTTATAGTGCCATAACTTAGATATG
1 GTCTTACGATTAGAATGCCATAACCTAAATATG
*
36037330 GTCTTATC-ATTAGAATGCCATAGCCTAAATATG
1 GTCTTA-CGATTAGAATGCCATAACCTAAATATG
36037363 GTCTTACG
1 GTCTTACG
36037371 TAAAGATTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
32 1 0.03
33 31 0.94
34 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (33 bp):
GTCTTACGATTAGAATGCCATAACCTAAATATG
Found at i:36056565 original size:16 final size:16
Alignment explanation
Indices: 36056546--36056590 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
36056536 GGCTACAATT
*
36056546 GAATAGAGCTGTAATG
1 GAATAAAGCTGTAATG
*
36056562 GAATAAAGTTGTAATG
1 GAATAAAGCTGTAATG
36056578 GAATAAAGCTGTA
1 GAATAAAGCTGTA
36056591 GTTAGTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.27, T:0.27
Consensus pattern (16 bp):
GAATAAAGCTGTAATG
Found at i:36060526 original size:33 final size:33
Alignment explanation
Indices: 36060489--36060565 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
36060479 CTTTATTCTA
* * **
36060489 TGTTTACTGTCCCATCAGACTATTTCTATTTCG
1 TGTTTACTGTCCCAACAGAATAACTCTATTTCG
* * *
36060522 TGTTTATTGTCCTAACAGAATAACTCTATTTTG
1 TGTTTACTGTCCCAACAGAATAACTCTATTTCG
36060555 TGTTTACTGTC
1 TGTTTACTGTC
36060566 TCAATGGATT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (33 bp):
TGTTTACTGTCCCAACAGAATAACTCTATTTCG
Found at i:36060623 original size:33 final size:34
Alignment explanation
Indices: 36060586--36060664 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 34
36060576 ATTTCTTTTC
** *
36060586 CGTGTTTAATGTCT-AGACGGGCTATATTTGTTT
1 CGTGTTTAATGTCTCAGACGAACTATATATGTTT
* *
36060619 CGTGTTTACTGT-TCAGATGAACTATATATGTTT
1 CGTGTTTAATGTCTCAGACGAACTATATATGTTT
*
36060652 CGTGTTTATTGTC
1 CGTGTTTAATGTC
36060665 CCAACAGACT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 1 0.03
33 37 0.97
ACGTcount: A:0.19, C:0.13, G:0.22, T:0.47
Consensus pattern (34 bp):
CGTGTTTAATGTCTCAGACGAACTATATATGTTT
Found at i:36060883 original size:51 final size:50
Alignment explanation
Indices: 36060788--36060883 Score: 111
Period size: 51 Copynumber: 1.9 Consensus size: 50
36060778 CTCATCATAC
* **
36060788 CTAGCTGTCATAACATCTTTTATCTATAGTTTTACACCGTATACCTTATA
1 CTAGCTGTCATAACATCTTTAATCTATAGTTTTACACCACATACCTTATA
* * * **
36060838 CTAGACTGTCATAGCCTCTTTAATCTATGGTTTTATGCCACATACC
1 CTAG-CTGTCATAACATCTTTAATCTATAGTTTTACACCACATACC
36060884 ATCATTACGG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
50 4 0.11
51 33 0.89
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (50 bp):
CTAGCTGTCATAACATCTTTAATCTATAGTTTTACACCACATACCTTATA
Found at i:36069892 original size:138 final size:138
Alignment explanation
Indices: 36069629--36069892 Score: 406
Period size: 138 Copynumber: 1.9 Consensus size: 138
36069619 AGAGAACATA
* *
36069629 AATATAATTAATGTATGAATTTGATTCATACAAAATATTAATTGTATGTATTTTACCGAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
* * *
36069694 TAATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGGCGTGGAAATTAATATTCTT
66 TAATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACGTGGAAATGAATATTCTT
36069759 TTGGAAAG
131 TTGGAAAG
36069767 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
* * * * *
36069832 TAATATTAACAATTATATTAGTTAATTT-TGATCAAAATATAAACGACATTGGAAA-GAATAT
66 TAATATAAACAATTATATTAATTAATTTCAG-TCAAAATATAAAAGAC-GTGGAAATGAATAT
36069893 AATTTTGTTT
Statistics
Matches: 114, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
137 1 0.01
138 107 0.94
139 6 0.05
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (138 bp):
AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
TAATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACGTGGAAATGAATATTCTT
TTGGAAAG
Found at i:36069959 original size:75 final size:75
Alignment explanation
Indices: 36069880--36070018 Score: 210
Period size: 75 Copynumber: 1.9 Consensus size: 75
36069870 ATAAACGACA
* *
36069880 TTGGAAAGAATATAATT-TTGTTTTCTAACTTTCCATTTGCCTTCTTTATTAATAA-AGAAATAA
1 TTGGAAAGAATATAATTCAT-TTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGAG-AATAA
36069943 TGATATATTCTT
64 TGATATATTCTT
* *
36069955 TTGGAAATAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGAGAATAAT
1 TTGGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGAGAATAAT
36070019 CCTAGTTTTC
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
75 55 0.95
76 3 0.05
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.46
Consensus pattern (75 bp):
TTGGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGAGAATAATG
ATATATTCTT
Found at i:36069978 original size:22 final size:22
Alignment explanation
Indices: 36069936--36069977 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
36069926 TATTAATAAA
36069936 GAAATAATGATATATTCTTTTG
1 GAAATAATGATATATTCTTTTG
36069958 GAAATAAT-ATA-ATTCATTTT
1 GAAATAATGATATATTC-TTTT
36069978 TCTAACTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 7 0.37
22 8 0.42
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (22 bp):
GAAATAATGATATATTCTTTTG
Found at i:36070658 original size:27 final size:27
Alignment explanation
Indices: 36070628--36070720 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
36070618 ATTCCAAATT
*
36070628 GGGTTCGCCAGTTGATTTGGCGAGCTG
1 GGGTTCGCCAGTTGATTTGGCGAGTTG
* *
36070655 GGGTTCTCCAATTGATTTGGCGAGTTG
1 GGGTTCGCCAGTTGATTTGGCGAGTTG
* * *
36070682 GGGTTCGCCAGATGGTTTAGCGAGTTG
1 GGGTTCGCCAGTTGATTTGGCGAGTTG
* *
36070709 GTGTTCACCAGT
1 GGGTTCGCCAGT
36070721 CAAAGTCAAG
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.14, C:0.17, G:0.37, T:0.32
Consensus pattern (27 bp):
GGGTTCGCCAGTTGATTTGGCGAGTTG
Found at i:36074453 original size:17 final size:17
Alignment explanation
Indices: 36074431--36074467 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
36074421 AATTTTTGAA
36074431 TTAGTGAATTCTGTGAT
1 TTAGTGAATTCTGTGAT
*
36074448 TTAGTGAATTTTGTGAT
1 TTAGTGAATTCTGTGAT
36074465 TTA
1 TTA
36074468 AAAAGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.03, G:0.22, T:0.51
Consensus pattern (17 bp):
TTAGTGAATTCTGTGAT
Found at i:36075745 original size:46 final size:46
Alignment explanation
Indices: 36075692--36075923 Score: 385
Period size: 46 Copynumber: 5.0 Consensus size: 46
36075682 CCATGGAAAA
*
36075692 TTGTGAAAAGTAGATATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
36075738 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
36075784 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* * *
36075830 TTGTGAAAAGTAGGCATGGTGTTTCAGTGAATAAAACCATACT-AA
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* * *
36075875 TTAGTGAAAAGTAGATATGGTATTTCAGTGAAGGAAACCATACTGAG
1 TT-GTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
36075922 TT
1 TT
36075924 ATAGCATTGT
Statistics
Matches: 174, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
45 3 0.02
46 168 0.97
47 3 0.02
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.29
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:36079985 original size:20 final size:20
Alignment explanation
Indices: 36079956--36080000 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
36079946 CTATTTATGC
* *
36079956 ACATATTC-AAGAGACTTAA
1 ACATATTCAAACACACTTAA
36079975 ACATCATTCAAACACACTTAA
1 ACAT-ATTCAAACACACTTAA
36079996 ACATA
1 ACATA
36080001 CCATTTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 4 0.18
20 5 0.23
21 13 0.59
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.24
Consensus pattern (20 bp):
ACATATTCAAACACACTTAA
Found at i:36089779 original size:95 final size:95
Alignment explanation
Indices: 36089612--36089789 Score: 329
Period size: 95 Copynumber: 1.9 Consensus size: 95
36089602 TATTATTTAG
36089612 AATATACCTTTAGATGTTAATATATAAAACCAGTGTCAGTGGGGTACAATTATGATATTGCATGT
1 AATATACCTTTAGATGTTAATATATAAAACCAGTGTCAGTGGGGTACAATTATGATATTGCATGT
*
36089677 TTGTTTATGTTTCATGCATTATACGAATGC
66 TTCTTTATGTTTCATGCATTATACGAATGC
* *
36089707 AATATGCCTTTAGATGTTAATATATAAAACCAGTGTCAGTGGGGTGCAATTATGATATTGCATGT
1 AATATACCTTTAGATGTTAATATATAAAACCAGTGTCAGTGGGGTACAATTATGATATTGCATGT
36089772 TTCTTTATGTTTCATGCA
66 TTCTTTATGTTTCATGCA
36089790 CGAATGCATC
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 80 1.00
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (95 bp):
AATATACCTTTAGATGTTAATATATAAAACCAGTGTCAGTGGGGTACAATTATGATATTGCATGT
TTCTTTATGTTTCATGCATTATACGAATGC
Found at i:36094347 original size:13 final size:14
Alignment explanation
Indices: 36094317--36094349 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
36094307 TCAATAATCA
36094317 AAAAATAGAAAATG
1 AAAAATAGAAAATG
*
36094331 AAAATTAGAAAAT-
1 AAAAATAGAAAATG
36094344 AAAAAT
1 AAAAAT
36094350 GAATATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (14 bp):
AAAAATAGAAAATG
Found at i:36096226 original size:43 final size:43
Alignment explanation
Indices: 36096165--36096251 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
36096155 CATAGTTTGA
36096165 TTAGATTTATTGAATTCTACCAAGTTGGATACAGAAATTAATT
1 TTAGATTTATTGAATTCTACCAAGTTGGATACAGAAATTAATT
36096208 TTAGATTTATTGAATTCTACCAAGTTGGATACAGAAATTAATT
1 TTAGATTTATTGAATTCTACCAAGTTGGATACAGAAATTAATT
36096251 T
1 T
36096252 ATCTTATTGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (43 bp):
TTAGATTTATTGAATTCTACCAAGTTGGATACAGAAATTAATT
Found at i:36096962 original size:19 final size:19
Alignment explanation
Indices: 36096933--36096978 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
36096923 GTTAAAGATG
*
36096933 TTATT-AAAATAAT-TTTTC
1 TTATTCAAAAT-ATGTTTTA
36096951 TTATTCAAAATATGTTTTA
1 TTATTCAAAATATGTTTTA
36096970 TTATTCAAA
1 TTATTCAAA
36096979 GTTATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (19 bp):
TTATTCAAAATATGTTTTA
Found at i:36097286 original size:19 final size:20
Alignment explanation
Indices: 36097262--36097306 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
36097252 TCAAAATTTT
36097262 ATTTTAATATTT-TT-TATAC
1 ATTTTAAT-TTTATTATATAC
*
36097281 ATTTTAATTTTATTATGTAC
1 ATTTTAATTTTATTATATAC
36097301 ATTTTA
1 ATTTTA
36097307 TTACCTCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 3 0.13
19 10 0.43
20 10 0.43
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTTTAATTTTATTATATAC
Found at i:36102569 original size:22 final size:21
Alignment explanation
Indices: 36102529--36102569 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
36102519 AGTTTTAAGT
**
36102529 TTAGTTTTCTCTAGGTTTTCC
1 TTAGTTTTCTCTACATTTTCC
36102550 TTAGTTTTTCTCTACATTTT
1 TTAG-TTTTCTCTACATTTT
36102570 TCTAGGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.12, C:0.17, G:0.10, T:0.61
Consensus pattern (21 bp):
TTAGTTTTCTCTACATTTTCC
Found at i:36109254 original size:28 final size:27
Alignment explanation
Indices: 36109196--36109255 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
36109186 GAAGCATTTG
* **
36109196 TGGCAATCTATGAAATGAAAGTCTTTG
1 TGGCAATCTATGAAATGAAAGCCTTCA
* *
36109223 TGGCGATCTATGGAAATGAATGCCTTCA
1 TGGCAATCTAT-GAAATGAAAGCCTTCA
36109251 TGGCA
1 TGGCA
36109256 GATTCTAAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (27 bp):
TGGCAATCTATGAAATGAAAGCCTTCA
Found at i:36109475 original size:27 final size:26
Alignment explanation
Indices: 36109419--36109536 Score: 94
Period size: 27 Copynumber: 4.4 Consensus size: 26
36109409 GCGTGTGGCT
* * * * *
36109419 AACTCTAAAGGACTGTAGATATGGTA
1 AACTCTGAAGGAATGAATATATGGTG
36109445 AACTCT-AAGAGAATGATATATATGGTG
1 AACTCTGAAG-GAATGA-ATATATGGTG
* *
36109472 AACTCTGAAGGAACAGAATATATGGCG
1 AACTCTGAAGGAA-TGAATATATGGTG
* ** *
36109499 AACTCTGAAGGAATAGCACGTATGGCG
1 AACTCTGAAGGAAT-GAATATATGGTG
36109526 AACTCTGAAGG
1 AACTCTGAAGG
36109537 GACGGTTCTA
Statistics
Matches: 77, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
25 3 0.04
26 10 0.13
27 59 0.77
28 5 0.06
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (26 bp):
AACTCTGAAGGAATGAATATATGGTG
Found at i:36125074 original size:89 final size:89
Alignment explanation
Indices: 36124923--36125102 Score: 360
Period size: 89 Copynumber: 2.0 Consensus size: 89
36124913 ATCGTACATC
36124923 AAATTCTATACTTCCCTAAGAAAATAATTGAACACAAATGTCAACTTCAGCCAACATTTCACTAA
1 AAATTCTATACTTCCCTAAGAAAATAATTGAACACAAATGTCAACTTCAGCCAACATTTCACTAA
36124988 ATCATTATAAGATTTCCTATAAAA
66 ATCATTATAAGATTTCCTATAAAA
36125012 AAATTCTATACTTCCCTAAGAAAATAATTGAACACAAATGTCAACTTCAGCCAACATTTCACTAA
1 AAATTCTATACTTCCCTAAGAAAATAATTGAACACAAATGTCAACTTCAGCCAACATTTCACTAA
36125077 ATCATTATAAGATTTCCTATAAAA
66 ATCATTATAAGATTTCCTATAAAA
36125101 AA
1 AA
36125103 TGCTAAAGAC
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 91 1.00
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.30
Consensus pattern (89 bp):
AAATTCTATACTTCCCTAAGAAAATAATTGAACACAAATGTCAACTTCAGCCAACATTTCACTAA
ATCATTATAAGATTTCCTATAAAA
Found at i:36136841 original size:20 final size:22
Alignment explanation
Indices: 36136816--36136856 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
36136806 ATGCAGGTTT
36136816 TTTTACT-CTTT-TTGTTTTTG
1 TTTTACTACTTTGTTGTTTTTG
*
36136836 TTTTACTAGTTTGTTGTTTTT
1 TTTTACTACTTTGTTGTTTTT
36136857 TCACTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.07, C:0.07, G:0.12, T:0.73
Consensus pattern (22 bp):
TTTTACTACTTTGTTGTTTTTG
Found at i:36143685 original size:20 final size:20
Alignment explanation
Indices: 36143652--36143690 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36143642 TGAATTTTGT
*
36143652 AAAAATCAGAGTGAAATAGG
1 AAAAAACAGAGTGAAATAGG
* *
36143672 AAAAAACAGTGTGATATAG
1 AAAAAACAGAGTGAAATAG
36143691 TGAGCCAACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.05, G:0.23, T:0.18
Consensus pattern (20 bp):
AAAAAACAGAGTGAAATAGG
Found at i:36144773 original size:6 final size:6
Alignment explanation
Indices: 36144762--36144810 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
36144752 TGACATACCC
* * *
36144762 CTAAAG CTAAAG CTGAAG CTAAAG CTGAAG CTAAAG CTGAAG CTAAAG
1 CTAAAG CTAAAG CTAAAG CTAAAG CTAAAG CTAAAG CTAAAG CTAAAG
36144810 C
1 C
36144811 CAAGCAAACT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.16
Consensus pattern (6 bp):
CTAAAG
Found at i:36144782 original size:12 final size:12
Alignment explanation
Indices: 36144765--36144810 Score: 92
Period size: 12 Copynumber: 3.8 Consensus size: 12
36144755 CATACCCCTA
36144765 AAGCTAAAGCTG
1 AAGCTAAAGCTG
36144777 AAGCTAAAGCTG
1 AAGCTAAAGCTG
36144789 AAGCTAAAGCTG
1 AAGCTAAAGCTG
36144801 AAGCTAAAGC
1 AAGCTAAAGC
36144811 CAAGCAAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.15
Consensus pattern (12 bp):
AAGCTAAAGCTG
Found at i:36146042 original size:18 final size:19
Alignment explanation
Indices: 36146019--36146054 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
36146009 TAATAAACAT
36146019 TAAAAAAA-ATTTTAAAAA
1 TAAAAAAATATTTTAAAAA
36146037 TAAAAAAATATTTTAAAA
1 TAAAAAAATATTTTAAAA
36146055 GTATTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAAAAATATTTTAAAAA
Found at i:36147456 original size:15 final size:15
Alignment explanation
Indices: 36147436--36147465 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
36147426 CACTTTTCCA
36147436 TTTTATGCATAATAT
1 TTTTATGCATAATAT
36147451 TTTTATGCATAATAT
1 TTTTATGCATAATAT
36147466 CCCACTCTGA
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:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (15 bp):
TTTTATGCATAATAT
Found at i:36149394 original size:3 final size:3
Alignment explanation
Indices: 36149386--36149422 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
36149376 CCACTTAAGA
36149386 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA- AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
36149423 CCTTCTTCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:36149493 original size:3 final size:3
Alignment explanation
Indices: 36149485--36149533 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
36149475 CAATTTAACA
36149485 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA- AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
36149532 AA
1 AA
36149534 CCTGCTTCAG
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:36149577 original size:111 final size:111
Alignment explanation
Indices: 36149386--36149592 Score: 353
Period size: 111 Copynumber: 1.9 Consensus size: 111
36149376 CCACTTAAGA
* *
36149386 AAGAAGAAGAAGAAGAAGAAGAAGAAGAAAAGAAGAACCTTCTTCAGAACTCATCTTACATATAT
1 AAGAAGAAGAAGAAGAAGAAGAAGAAGAAAAGAAGAACCTGCTTCAGAACTCATCTTACACATAT
*
36149451 AAATATGACTCAACTTACTTAGTGCAATTTAACAAAGAAGAAGAAG
66 AAATATGACTAAACTTACTTAGTGCAATTTAACAAAGAAGAAGAAG
*
36149497 AAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAA-AAGAACCTGCTTCAGAACTCATCTTACGCATA
1 AAGAAGAAGAAGAAGAAGAAGAAGAAGAA-AAGAAGAACCTGCTTCAGAACTCATCTTACACATA
*
36149561 TAAATATGACTAAACTTACTTGGTGCAATTTA
65 TAAATATGACTAAACTTACTTAGTGCAATTTA
36149593 TCAAGTGCCA
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
111 88 0.98
112 2 0.02
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (111 bp):
AAGAAGAAGAAGAAGAAGAAGAAGAAGAAAAGAAGAACCTGCTTCAGAACTCATCTTACACATAT
AAATATGACTAAACTTACTTAGTGCAATTTAACAAAGAAGAAGAAG
Found at i:36168321 original size:20 final size:20
Alignment explanation
Indices: 36168296--36168336 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
36168286 CACATGGTAG
*
36168296 TGTGTTTGAAAACCATAACT
1 TGTGTTGGAAAACCATAACT
*
36168316 TGTGTTGGGAAACCATAACT
1 TGTGTTGGAAAACCATAACT
36168336 T
1 T
36168337 TACTTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (20 bp):
TGTGTTGGAAAACCATAACT
Found at i:36174758 original size:16 final size:15
Alignment explanation
Indices: 36174690--36174762 Score: 57
Period size: 16 Copynumber: 4.9 Consensus size: 15
36174680 TAAAGTTAAA
36174690 ATATATATTATA-AT
1 ATATATATTATATAT
*
36174704 ATTATAATATTATATGT
1 A-TAT-ATATTATATAT
*
36174721 -TA-ATGTT-TA-AGT
1 ATATATATTATATA-T
36174733 ATATATATTATATAT
1 ATATATATTATATAT
36174748 ATATCATATTATATA
1 ATAT-ATATTATATA
36174763 ATAAAACAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
12 3 0.07
13 6 0.13
14 5 0.11
15 12 0.26
16 19 0.41
17 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (15 bp):
ATATATATTATATAT
Found at i:36210533 original size:29 final size:29
Alignment explanation
Indices: 36210501--36210575 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
36210491 TTTTTTTTAA
36210501 ATTTACCGAAATGGGCCAGGTATTTTATT
1 ATTTACCGAAATGGGCCAGGTATTTTATT
*
36210530 ATTTACTGAAATGGGCCAGGTATTTTATT
1 ATTTACCGAAATGGGCCAGGTATTTTATT
36210559 ATTTACC-AGAATGGGCC
1 ATTTACCGA-AATGGGCC
36210576 CTTTTCCCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 1 0.02
29 42 0.98
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (29 bp):
ATTTACCGAAATGGGCCAGGTATTTTATT
Found at i:36210860 original size:12 final size:12
Alignment explanation
Indices: 36210843--36210895 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 12
36210833 ACTAATACTC
36210843 TCTCAAATTTCT
1 TCTCAAATTTCT
36210855 TCTC-AATTTGCT
1 TCTCAAATTT-CT
*
36210867 T-TCAAATTCCT
1 TCTCAAATTTCT
*
36210878 TC-AAAATTTC-
1 TCTCAAATTTCT
36210888 TCTCAAAT
1 TCTCAAAT
36210896 CCATATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
10 2 0.06
11 20 0.61
12 11 0.33
ACGTcount: A:0.28, C:0.25, G:0.02, T:0.45
Consensus pattern (12 bp):
TCTCAAATTTCT
Found at i:36210885 original size:23 final size:22
Alignment explanation
Indices: 36210841--36210895 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
36210831 AAACTAATAC
* **
36210841 TCTCTCAAATTTCTTCTCAATT
1 TCTCTCAAATTCCTTCAAAATT
*
36210863 TGCTTTCAAATTCCTTCAAAATT
1 T-CTCTCAAATTCCTTCAAAATT
36210886 TCTCTCAAAT
1 TCTCTCAAAT
36210896 CCATATTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.27, C:0.25, G:0.02, T:0.45
Consensus pattern (22 bp):
TCTCTCAAATTCCTTCAAAATT
Found at i:36210917 original size:51 final size:51
Alignment explanation
Indices: 36210857--36210954 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
36210847 AAATTTCTTC
*
36210857 TCAATTTGCTTTCAAATTCCT-TCAAAATTTCTCTCAAATCCATATTTATTT
1 TCAATTTGCTCTCAAATTCCTGT-AAAATTTCTCTCAAATCCATATTTATTT
* * * *
36210908 TCAATTTGCTCTCAAGTTCCTGTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTGCTCTCAAATTCCTGTAAAATTTCTCTCAAATCCATATTT
36210955 TTAAATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 40 0.98
52 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.04, T:0.47
Consensus pattern (51 bp):
TCAATTTGCTCTCAAATTCCTGTAAAATTTCTCTCAAATCCATATTTATTT
Found at i:36212756 original size:18 final size:18
Alignment explanation
Indices: 36212733--36212772 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
36212723 CAGGTGCGTT
*
36212733 TCCTAACCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
36212751 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
36212769 TCCT
1 TCCT
36212773 TTTTCCAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:36213392 original size:22 final size:22
Alignment explanation
Indices: 36213367--36213468 Score: 145
Period size: 22 Copynumber: 4.7 Consensus size: 22
36213357 CTTAAATTAA
*
36213367 AAACCCTTAACCTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
36213389 AAACCCTTAACTTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
* *
36213411 -AACCCTTAACTTTAAAATCCT
1 AAACCCTTAACTTAAAAACCCT
* *
36213432 AAACCCTTAAATTTAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
36213454 -AACCCTTAACTTAAA
1 AAACCCTTAACTTAAA
36213469 TATAATTTGA
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
21 32 0.44
22 40 0.56
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.25
Consensus pattern (22 bp):
AAACCCTTAACTTAAAAACCCT
Found at i:36213393 original size:15 final size:15
Alignment explanation
Indices: 36213364--36213393 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36213354 ACCCTTAAAT
*
36213364 TAAAAACCCTTAACC
1 TAAAAACCCTAAACC
36213379 TAAAAACCCTAAACC
1 TAAAAACCCTAAACC
36213394 CTTAACTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (15 bp):
TAAAAACCCTAAACC
Found at i:36213408 original size:15 final size:15
Alignment explanation
Indices: 36213325--36213388 Score: 62
Period size: 15 Copynumber: 4.5 Consensus size: 15
36213315 GACAAACCTT
36213325 AAACCCTTAACTTAA
1 AAACCCTTAACTTAA
*
36213340 AAACCC-TAAC--CA
1 AAACCCTTAACTTAA
** *
36213352 TGACCCTTAAATTAA
1 AAACCCTTAACTTAA
*
36213367 AAACCCTTAACCTAA
1 AAACCCTTAACTTAA
36213382 AAACCCT
1 AAACCCT
36213389 AAACCCTTAA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
12 5 0.14
13 3 0.08
14 4 0.11
15 25 0.68
ACGTcount: A:0.45, C:0.31, G:0.02, T:0.22
Consensus pattern (15 bp):
AAACCCTTAACTTAA
Found at i:36213426 original size:64 final size:65
Alignment explanation
Indices: 36213318--36213468 Score: 189
Period size: 64 Copynumber: 2.4 Consensus size: 65
36213308 TTTAATTGAC
* * * *
36213318 AAACCTTAAACCCTTAACTTAAAAACCCTAACCATGACCCTT-AAATTAAAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCATGAACCTTAAAATCAAAAACCCTTAAACTAA
* * * ** * *
36213382 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAAAATCCTAAACCCTTAAATTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCATGAACCTTAAAATCAAAAACCCTTAAACTAA
36213447 AAACCCT-AACCCTTAACTTAAA
1 AAACCCTAAACCCTTAACTTAAA
36213469 TATAATTTGA
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
64 52 0.69
65 23 0.31
ACGTcount: A:0.44, C:0.30, G:0.01, T:0.25
Consensus pattern (65 bp):
AAACCCTAAACCCTTAACTTAAAAACCCTAACCATGAACCTTAAAATCAAAAACCCTTAAACTAA
Found at i:36213433 original size:43 final size:43
Alignment explanation
Indices: 36213368--36213468 Score: 157
Period size: 43 Copynumber: 2.3 Consensus size: 43
36213358 TTAAATTAAA
* *
36213368 AACCCTTAACCTAAAAACCCTAAACCCTTAACTTAAAAACCCT
1 AACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCT
* * *
36213411 AACCCTTAACTTTAAAATCCTAAACCCTTAAATTTAAAACCCT
1 AACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCT
36213454 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
36213469 TATAATTTGA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.26
Consensus pattern (43 bp):
AACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCT
Found at i:36216781 original size:124 final size:125
Alignment explanation
Indices: 36216616--36217182 Score: 642
Period size: 124 Copynumber: 4.5 Consensus size: 125
36216606 CCTAAACATG
* * * *
36216616 CTACTGTAGAAAAAGCGCGTTCAAGTA-GGCGCGATTTCACAAATTCTTCTCATAAAGCATCTTG
1 CTACTGTAGCAAAAGCGCGTCCACG-AGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTG
* * * *
36216680 CTAGAAGCG-ATTTTATACTATTTGCTCAGAAATG-CTAAGTCGAAATTATTTTTCCAAGAC
65 CTTGAAGCGTATTTTAAACTATTTGCTCAGAAACGTC-AACTCGAAATTATTTTTCCAAGAC
* *
36216740 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAACATGCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * * * *
36216804 CTTGCAGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTA-TTTT-CAGGAC
65 CTTGAAGCG-TATTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
* ** * * * * *
36216864 CTACTATAGCAAAAATGCATCCACGTGGGCGAGACTTCACAAATTCTTCTTATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* *
36216929 TTGAAGCGTTTTTTAAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAAGAC
66 TTGAAGCGTATTTT-AAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAGAC
* * * *
36216991 CAACTGTAGCAAAAGCGAGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGTATCCTTC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * * * *
36217056 TTGAAGCATTTTTTAAACTTTTTGATCAGAAACGTCAAGTCGAAATTATTTTTCCAGGAC
66 TTGAAGCGTATTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
* * * * * * * * *
36217116 CTACTGTAGCAAAAGTGCGTACATGTGGGCGCGACTTCAAAAATCCTTCTGATAAATCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
36217181 TT
66 TT
36217183 TGATTTTATC
Statistics
Matches: 373, Mismatches: 60, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
123 8 0.02
124 155 0.42
125 70 0.19
126 68 0.18
127 72 0.19
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTATTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
Found at i:36227608 original size:4 final size:4
Alignment explanation
Indices: 36227599--36227624 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
36227589 CCTCCCCCCA
36227599 ACCC ACCC ACCC ACCC ACCC ACCC AC
1 ACCC ACCC ACCC ACCC ACCC ACCC AC
36227625 TCAAACTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.73, G:0.00, T:0.00
Consensus pattern (4 bp):
ACCC
Found at i:36230629 original size:16 final size:15
Alignment explanation
Indices: 36230608--36230647 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
36230598 TTTATGCTTG
36230608 TGAAAAAAATGAAAAA
1 TGAAAAAAA-GAAAAA
*
36230624 TGAAAAGAAAGAGAAA
1 TGAAAA-AAAGAAAAA
36230640 TGAAAAAA
1 TGAAAAAA
36230648 TGGATTCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 17 0.77
17 3 0.14
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.10
Consensus pattern (15 bp):
TGAAAAAAAGAAAAA
Found at i:36232530 original size:27 final size:27
Alignment explanation
Indices: 36232499--36232572 Score: 76
Period size: 30 Copynumber: 2.6 Consensus size: 27
36232489 GTTCATTGGC
36232499 CTAGTTTAGATTTAGTGGTTGTGAGGT
1 CTAGTTTAGATTTAGTGGTTGTGAGGT
* * * *
36232526 CTAGTTTACATAGTGTATTAGTTTTGAGGT
1 CTAGTTTAGAT--T-TAGTGGTTGTGAGGT
*
36232556 CTATTTTAGATTTAGTG
1 CTAGTTTAGATTTAGTG
36232573 ACCTAGTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
27 13 0.36
28 1 0.03
29 1 0.03
30 21 0.58
ACGTcount: A:0.22, C:0.05, G:0.26, T:0.47
Consensus pattern (27 bp):
CTAGTTTAGATTTAGTGGTTGTGAGGT
Found at i:36234228 original size:12 final size:12
Alignment explanation
Indices: 36234211--36234239 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
36234201 AAGCTTTTTC
36234211 TTTTAGAAGCTG
1 TTTTAGAAGCTG
36234223 TTTTAGAAGCTG
1 TTTTAGAAGCTG
36234235 TTTTA
1 TTTTA
36234240 ACAATCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (12 bp):
TTTTAGAAGCTG
Found at i:36234250 original size:23 final size:23
Alignment explanation
Indices: 36234223--36234274 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
36234213 TTAGAAGCTG
*
36234223 TTTTAGAAGCTGTTTTAACAATC
1 TTTTAGAAGCTGTTTTAACAATA
*
36234246 TTTTAGAAGTTGTTTTAACAATA
1 TTTTAGAAGCTGTTTTAACAATA
36234269 TTTTAG
1 TTTTAG
36234275 GTTGTGGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (23 bp):
TTTTAGAAGCTGTTTTAACAATA
Found at i:36237130 original size:30 final size:30
Alignment explanation
Indices: 36237096--36237155 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
36237086 AGAGTATACA
36237096 ATAAGAAGCTTTGAATCATGGTACTACTTG
1 ATAAGAAGCTTTGAATCATGGTACTACTTG
36237126 ATAAGAAGCTTTGAATCATGGTACTACTTG
1 ATAAGAAGCTTTGAATCATGGTACTACTTG
36237156 TGGACCGACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (30 bp):
ATAAGAAGCTTTGAATCATGGTACTACTTG
Found at i:36237486 original size:19 final size:20
Alignment explanation
Indices: 36237449--36237487 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
36237439 GTGATTTTTG
* *
36237449 GAAAAATTAATTTCGATCAA
1 GAAAAATTAAGTTCAATCAA
36237469 GAAAAATTAAGTT-AATCAA
1 GAAAAATTAAGTTCAATCAA
36237488 ATTAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.28
Consensus pattern (20 bp):
GAAAAATTAAGTTCAATCAA
Found at i:36237879 original size:17 final size:17
Alignment explanation
Indices: 36237859--36237897 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
36237849 CCAAAAATAA
36237859 TAATATTTTAA-TAAATT
1 TAATA-TTTAATTAAATT
*
36237876 TAATATTTAATTTAATT
1 TAATATTTAATTAAATT
36237893 TAATA
1 TAATA
36237898 CTTATCCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAATATTTAATTAAATT
Found at i:36247298 original size:6 final size:6
Alignment explanation
Indices: 36247287--36247343 Score: 96
Period size: 6 Copynumber: 9.5 Consensus size: 6
36247277 TTCTTATTTC
* *
36247287 AAAAAT AAAAAT AAAAAT AAAAAT AACACT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
36247335 AAAAAT AAA
1 AAAAAT AAA
36247344 GAAGACCAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:36253883 original size:15 final size:13
Alignment explanation
Indices: 36253867--36253891 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36253857 TACATGACTG
36253867 TGTGGGTAGACCA
1 TGTGGGTAGACCA
36253880 TGTGGGTAGACC
1 TGTGGGTAGACC
36253892 GTGTAACTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (13 bp):
TGTGGGTAGACCA
Found at i:36265416 original size:16 final size:16
Alignment explanation
Indices: 36265395--36265426 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36265385 ATTTTGTTGC
*
36265395 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
36265411 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
36265427 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:36265712 original size:51 final size:51
Alignment explanation
Indices: 36265654--36265844 Score: 210
Period size: 51 Copynumber: 3.8 Consensus size: 51
36265644 TCGGTTCACA
** * *
36265654 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACATGACCATCACTATCTGGTACACG
* * * * *
36265705 TAGTAGCCTGCACATAGTACCACACACGTGATCGA--AGCTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACATGA-CCATCA-CTATCTGGTACACG
* * * *
36265756 TAGTAGCTTGCACATAATACTACACATACGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACATGACC-ATCACTATCTGGTACACG
36265806 TAGTAGCCTGCACATAGTACTACACACATGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACATGACCATCACT
36265845 TTCACTTTCA
Statistics
Matches: 114, Mismatches: 20, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
49 4 0.04
50 41 0.36
51 66 0.58
52 2 0.02
53 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACATGACCATCACTATCTGGTACACG
Found at i:36265859 original size:101 final size:102
Alignment explanation
Indices: 36265647--36265870 Score: 240
Period size: 101 Copynumber: 2.2 Consensus size: 102
36265637 AATGATATCG
* **
36265647 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTGCACATAATACTACACATACGACCATCACTATCCGATACACGTAGTAGC
* * **
36265712 CTGCACATAGTACCACACACGTGATCGAAGCTATCTG
66 CTGCACATAGTACCACACACATGATCCAAGCTATCAC
* * * * *
36265749 GTACGCATAGTAGCTTGCACATAATACTACACATACGACCTATCA-T-TCTGGTACACGTAGTAG
1 GTTCACATAGTAGCCTGCACATAATACTACACATACGACC-ATCACTATCCGATACACGTAGTAG
* *
36265812 CCTGCACATAGTACTACACACATGA-CCATCA-CTTTCAC
65 CCTGCACATAGTACCACACACATGATCCA--AGCTATCAC
* * *
36265850 TTTCACATAGTGGCCTACACA
1 GTTCACATAGTAGCCTGCACA
36265871 CAGTCCATGC
Statistics
Matches: 99, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
100 2 0.02
101 57 0.58
102 36 0.36
103 4 0.04
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.25
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAATACTACACATACGACCATCACTATCCGATACACGTAGTAGC
CTGCACATAGTACCACACACATGATCCAAGCTATCAC
Found at i:36267929 original size:16 final size:17
Alignment explanation
Indices: 36267908--36267941 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
36267898 TTGGGTTGAG
36267908 AAAATT-ATTTAATTAA
1 AAAATTAATTTAATTAA
*
36267924 AAAATTAATTTATTTAA
1 AAAATTAATTTAATTAA
36267941 A
1 A
36267942 TTATTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATTAATTTAATTAA
Found at i:36270383 original size:43 final size:43
Alignment explanation
Indices: 36270322--36270513 Score: 242
Period size: 43 Copynumber: 4.5 Consensus size: 43
36270312 TTTGCGACGC
*
36270322 CTTTTCCCACAAACGCCGCTGTAGACCACGACCTTTAGCGGCA
1 CTTTTCCCACAAACGCCGCTATAGACCACGACCTTTAGCGGCA
* * *
36270365 CTTTTCTCACAAACGCCGCTATAGACCATGACCTTTAGCGGCG
1 CTTTTCCCACAAACGCCGCTATAGACCACGACCTTTAGCGGCA
* *
36270408 CTTTTCCCACAAACGCCGCTATTGACCACGACCTTTAGCGGCG
1 CTTTTCCCACAAACGCCGCTATAGACCACGACCTTTAGCGGCA
** * * * *
36270451 CTTTTATCACAAACGCCGCTAAAGAACA-AACCTTTAGCGACA
1 CTTTTCCCACAAACGCCGCTATAGACCACGACCTTTAGCGGCA
* * *
36270493 CTTCTCGCAAAAACGCCGCTA
1 CTTTTCCCACAAACGCCGCTA
36270514 AAAACATAAC
Statistics
Matches: 130, Mismatches: 19, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
42 28 0.22
43 102 0.78
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.22
Consensus pattern (43 bp):
CTTTTCCCACAAACGCCGCTATAGACCACGACCTTTAGCGGCA
Found at i:36270424 original size:86 final size:85
Alignment explanation
Indices: 36270322--36270513 Score: 267
Period size: 86 Copynumber: 2.2 Consensus size: 85
36270312 TTTGCGACGC
* * *
36270322 CTTTTCCCACAAACGCCGCTGTAGACCACGACCTTTAGCGGCACTTTTCTCACAAACGCCGCTAT
1 CTTTTCCCACAAACGCCGCTATAGACCACGACCTTTAGCGGCACTTTTATCACAAACGCCGCTAA
* * * *
36270387 AGACCATGACCTTTAGCGGCG
66 AGAACA-AACCTTTAGCGACA
* *
36270408 CTTTTCCCACAAACGCCGCTATTGACCACGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAA
1 CTTTTCCCACAAACGCCGCTATAGACCACGACCTTTAGCGGCACTTTTATCACAAACGCCGCTAA
36270473 AGAACAAACCTTTAGCGACA
66 AGAACAAACCTTTAGCGACA
* * *
36270493 CTTCTCGCAAAAACGCCGCTA
1 CTTTTCCCACAAACGCCGCTA
36270514 AAAACATAAC
Statistics
Matches: 94, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
85 29 0.31
86 65 0.69
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.22
Consensus pattern (85 bp):
CTTTTCCCACAAACGCCGCTATAGACCACGACCTTTAGCGGCACTTTTATCACAAACGCCGCTAA
AGAACAAACCTTTAGCGACA
Found at i:36272443 original size:22 final size:22
Alignment explanation
Indices: 36272415--36272458 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
36272405 CAACGTTATA
36272415 TAAAATTCTTATAGCCAATAGC
1 TAAAATTCTTATAGCCAATAGC
36272437 TAAAATTCTTATAGCCAATAGC
1 TAAAATTCTTATAGCCAATAGC
36272459 CAATATTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (22 bp):
TAAAATTCTTATAGCCAATAGC
Found at i:36275235 original size:146 final size:143
Alignment explanation
Indices: 36274935--36275200 Score: 365
Period size: 146 Copynumber: 1.8 Consensus size: 143
36274925 GGGGGGGGGT
* * * *
36274935 AAAATTAATTTTTGTGGCGTTTTTTATAAAACGCCGCTATTTCTTACATTTTGTGACGTTTTTGT
1 AAAATTATTTTTTGTGGCGTTTTTTATAAAACGCCGCTATTGCTTACATTTTGCGACGTTTTTAT
*** *
36275000 GAAAAACGCTGTAATAAATTATTTCATTTGGAATAAAACGACACTGTTTTACTATATAAAATGGC
66 GAAAAACGCCACAAAAAATTATTTCATTTGGAATAAAACGACACTGTTTTACTATATAAAAT-GC
36275065 ACTATTTTTTTAAAG
130 ACTATTTTTTT-AAG
* **
36275080 TAAAATTATTTTTTGTGGCG-TTTTTATAAAAACGCCGCTATTGCTTACCTTTTGCGGTGTTTTT
1 -AAAATTATTTTTTGTGGCGTTTTTTAT-AAAACGCCGCTATTGCTTACATTTTGCGACGTTTTT
*
36275144 CAT-AAAAACGCCACAAAAAATTATTTCATTTGGAATAAAACGACACTGTTTTGCTAT
64 -ATGAAAAACGCCACAAAAAATTATTTCATTTGGAATAAAACGACACTGTTTTACTAT
36275201 GCTAAAAATC
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
145 7 0.07
146 98 0.92
147 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (143 bp):
AAAATTATTTTTTGTGGCGTTTTTTATAAAACGCCGCTATTGCTTACATTTTGCGACGTTTTTAT
GAAAAACGCCACAAAAAATTATTTCATTTGGAATAAAACGACACTGTTTTACTATATAAAATGCA
CTATTTTTTTAAG
Found at i:36276289 original size:14 final size:15
Alignment explanation
Indices: 36276272--36276304 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
36276262 CTTAAATCAG
*
36276272 AATCCCTGA-TCCAT
1 AATCCCTAATTCCAT
36276286 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
36276301 AATC
1 AATC
36276305 TATAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:36276844 original size:81 final size:81
Alignment explanation
Indices: 36276709--36276861 Score: 252
Period size: 81 Copynumber: 1.9 Consensus size: 81
36276699 AAATGTTTTT
* *
36276709 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGACGCATCTTGGAAAACGCCGC
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCGAGCATTAGCGACGCATCTTGGAAAACGCCGC
36276774 TAAAGCCAGAGCATTA
66 TAAAGCCAGAGCATTA
* * * *
36276790 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTCTTGGAAAACGCCGC
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCGAGCATTAGCGACGCATCTTGGAAAACGCCGC
36276855 TAAAGCC
66 TAAAGCC
36276862 CTGAGAAACG
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.18
Consensus pattern (81 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCGAGCATTAGCGACGCATCTTGGAAAACGCCGC
TAAAGCCAGAGCATTA
Found at i:36276866 original size:41 final size:41
Alignment explanation
Indices: 36276709--36276866 Score: 194
Period size: 41 Copynumber: 3.9 Consensus size: 41
36276699 AAATGTTTTT
* *
36276709 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * ** *
36276750 GCGACGCATCTTGGAAAACGCCGCTAAAG-CCAGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
**
36276790 GCGGCGCTT-TTCCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTCTT-CAAAAACGCCGCTAAAGCCCTGAGCATTA
**
36276831 GCGGCGCTTCTTGGAAAACGCCGCTAAAGCCCTGAG
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAG
36276867 AAACGCCGCT
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 32 0.33
41 62 0.63
42 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.25, T:0.18
Consensus pattern (41 bp):
GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:36286434 original size:27 final size:27
Alignment explanation
Indices: 36286404--36286465 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
36286394 TATAAAATAA
* * *
36286404 TTAAAATTCAATTTTTTTA-AATGAAGG
1 TTAAAATT-AATTATTTTATAATAAAAG
36286431 TT-AAATTAATTATTTTATAATAAAAG
1 TTAAAATTAATTATTTTATAATAAAAG
36286457 TATAAAATT
1 T-TAAAATT
36286466 TGACAGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 9 0.31
26 12 0.41
27 3 0.10
28 5 0.17
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (27 bp):
TTAAAATTAATTATTTTATAATAAAAG
Found at i:36289764 original size:43 final size:43
Alignment explanation
Indices: 36289713--36289806 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
36289703 GAGTCCTCAG
* * * *
36289713 TGCATCATCAGATAAACCGAAGCAAATATATTGGCACACATAA
1 TGCATCATCAAACAAACCGAAGCAAATATACTGACACACATAA
* *
36289756 TGTATCATCAAACAAACCGAAGCAAATATACTGACACACATAG
1 TGCATCATCAAACAAACCGAAGCAAATATACTGACACACATAA
36289799 TGCATCAT
1 TGCATCAT
36289807 TGGAAAAATC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.21
Consensus pattern (43 bp):
TGCATCATCAAACAAACCGAAGCAAATATACTGACACACATAA
Found at i:36290386 original size:9 final size:9
Alignment explanation
Indices: 36290372--36290398 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
36290362 TACATCCAAG
36290372 TTTAATTTA
1 TTTAATTTA
36290381 TTTAATTTA
1 TTTAATTTA
36290390 TTTAATTTA
1 TTTAATTTA
36290399 GTCCCTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTAATTTA
Found at i:36299636 original size:6 final size:6
Alignment explanation
Indices: 36299625--36299683 Score: 64
Period size: 6 Copynumber: 9.7 Consensus size: 6
36299615 AGGAGGAAGA
* ** *
36299625 AAAATC AAAATC AAAATC AAAAGC AAAAAGA AAAATC AAAATC AAAGTC
1 AAAATC AAAATC AAAATC AAAATC -AAAATC AAAATC AAAATC AAAATC
*
36299674 AAAGTC AAAA
1 AAAATC AAAA
36299684 AATGAAAATG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
6 41 0.89
7 5 0.11
ACGTcount: A:0.68, C:0.14, G:0.07, T:0.12
Consensus pattern (6 bp):
AAAATC
Found at i:36299656 original size:31 final size:31
Alignment explanation
Indices: 36299621--36299684 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
36299611 AAAAAGGAGG
36299621 AAGAAAAATCAAAATCAAAATCAAAAG-CAAA
1 AAGAAAAATCAAAATCAAAATC-AAAGTCAAA
*
36299652 AAGAAAAATCAAAATCAAAGTCAAAGTCAAA
1 AAGAAAAATCAAAATCAAAATCAAAGTCAAA
36299683 AA
1 AA
36299685 ATGAAAATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.69, C:0.12, G:0.08, T:0.11
Consensus pattern (31 bp):
AAGAAAAATCAAAATCAAAATCAAAGTCAAA
Found at i:36302030 original size:88 final size:87
Alignment explanation
Indices: 36301872--36302857 Score: 1148
Period size: 88 Copynumber: 11.2 Consensus size: 87
36301862 AACAGATCAG
* * *
36301872 TGAAGATAACAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
36301937 CCCTGGATTACAGTGGAGCAGGT
66 CCCTGG-TTGCAGCGGAGCAGGT
* * ** **
36301960 TGAAAATAACAGATCTTGTCTTCCTATACTGACAGTTAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
36302025 TCCTGGGTTACAGCGGAGCAGGT
66 CCCT-GGTTGCAGCGGAGCAGGT
* * ** *
36302048 TAAAAATAGCAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGACACCAGACTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
36302113 CCCTAGGTTGCAGCGGAGTAGGT
66 CCCT-GGTTGCAGCGGAGCAGGT
* * * ** *
36302136 TAAAAATAGCATATCTTGCCTTCCTGCACCGATGGCAAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
36302201 CCCTGGATTGCAGTGGAGCAGGT
66 CCCTGG-TTGCAGCGGAGCAGGT
* * ** *
36302224 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGACACCAGACTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
36302289 CCTTAGGTTGCAGCGGAGCAGGT
66 CCCT-GGTTGCAGCGGAGCAGGT
* ** **
36302312 TGAAAAATA-CAGATCTTGCCTTCCTGCACCGATGGAAAAGCAGATCGAAGACACCAGCCTTGCC
1 TG-AAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
*
36302376 TCCCTGGGTTGCAGCAGAGCAGGT
65 TCCCT-GGTTGCAGCGGAGCAGGT
* * ** * * * * * *
36302400 TAAAAATAGCAGATCTTGTCTTCCTGCACCAATAACGAAGCAGACCGAAGATAGCAGACTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
36302465 CTCTGAGTTGCAGCGGAGCAGGT
66 CCCTG-GTTGCAGCGGAGCAGGT
* * * *
36302488 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCAAAGCTGATCGAAGACACCAGCCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
36302553 CCCTAGGTTGCAGCGAAACATGT
66 CCCT-GGTTGCAGCGGAGCAGGT
* *
36302576 TGAAAATAGCAAATCTTGCCTTCCTGCACTGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
36302641 TCCTAGGTTGCAGCGGAACAGGT
66 CCCT-GGTTGCAGCGGAGCAGGT
* * * * *
36302664 TGAAAATAGCAGATCTTGCCTTCCTTCACCGGCAGCGAAACAGATCGAAGACACTAGCCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * *
36302729 CCTTGGATTACAGTGGAGTAGGT
66 CCCTGG-TTGCAGCGGAGCAGGT
* * ** * *
36302752 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGACCCCAGCCTTACCT
1 TGAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
36302817 CCCTGGGTTACAGCGGAGCAAGT
66 CCCT-GGTTGCAGCGGAGCAGGT
36302840 TGAAAAATA-CAGATCTTG
1 TG-AAAATAGCAGATCTTG
36302858 TCTCCCTAAG
Statistics
Matches: 772, Mismatches: 116, Indels: 20
0.85 0.13 0.02
Matches are distributed among these distances:
87 11 0.01
88 744 0.96
89 17 0.02
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (87 bp):
TGAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTGGTTGCAGCGGAGCAGGT
Found at i:36302355 original size:264 final size:265
Alignment explanation
Indices: 36301881--36302857 Score: 1327
Period size: 264 Copynumber: 3.7 Consensus size: 265
36301871 GTGAAGATAA
* * *
36301881 CAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGATT
1 CAGATCTTGCCTTCCTGCACCGACAGCAAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGATT
* * *
36301946 ACAGTGGAGCAGGTTGAAAATAACAGATCTTGTCTTCCTATACTGACAGTTAAGCAGATCGAAGA
66 ACAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGA
* * *
36302011 CACCAGCCTTGCCTTCCTGGGTTACAGCGGAGCAGGTT-AAAAATAGCAGATCTTGCCTTCCTGT
131 CACCAGCCTTGCCTCCCTAGGTTACAGCGGAGCAGGTTGAAAAATAGCAGATCTTGCCTTCCTGC
* * *
36302075 ACTGACAGTTAAGCAGATCGAAGACACCAGACTTGCCTCCCTAGGTTGCAGCGGAGTAGGTTAAA
196 ACTGACAGTAAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTAAA
36302140 AATAG
261 AATAG
* **
36302145 CATATCTTGCCTTCCTGCACCGATGGCAAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGATT
1 CAGATCTTGCCTTCCTGCACCGACAGCAAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGATT
* *
36302210 GCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGA
66 ACAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGA
* * *
36302275 CACCAGACTTGCCTCCTTAGGTTGCAGCGGAGCAGGTTGAAAAATA-CAGATCTTGCCTTCCTGC
131 CACCAGCCTTGCCTCCCTAGGTTACAGCGGAGCAGGTTGAAAAATAGCAGATCTTGCCTTCCTGC
* ** * * *
36302339 ACCGATGGAAAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAA
196 ACTGACAGTAAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTAAA
36302404 AATAG
261 AATAG
* * * * * * * * * *
36302409 CAGATCTTGTCTTCCTGCACCAATAACGAAGCAGACCGAAGATAGCAGACTTGCCTCTCT-GAGT
1 CAGATCTTGCCTTCCTGCACCGACAGCAAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGA-T
* * * * * ** *
36302473 TGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCAAAGCTGATCGAAG
65 TACAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAG
* * * * *
36302538 ACACCAGCCTTGCCTCCCTAGGTTGCAGCGAAACATGTTG-AAAATAGCAAATCTTGCCTTCCTG
130 ACACCAGCCTTGCCTCCCTAGGTTACAGCGGAGCAGGTTGAAAAATAGCAGATCTTGCCTTCCTG
* * * *
36302602 CACTGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTAGGTTGCAGCGGAACAGGTTGA
195 CACTGACAGTAAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTAA
36302667 AAATAG
260 AAATAG
* * * *
36302673 CAGATCTTGCCTTCCTTCACCGGCAGCGAAA-CAGATCGAAGACACTAGCCTTGCCTCCTTGGAT
1 CAGATCTTGCCTTCCTGCACCGACAGC-AAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGAT
* *
36302737 TACAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAG
65 TACAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAG
* * * *
36302802 ACCCCAGCCTTACCTCCCTGGGTTACAGCGGAGCAAGTTGAAAAATA-CAGATCTTG
130 ACACCAGCCTTGCCTCCCTAGGTTACAGCGGAGCAGGTTGAAAAATAGCAGATCTTG
36302858 TCTCCCTAAG
Statistics
Matches: 614, Mismatches: 93, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
263 8 0.01
264 589 0.96
265 17 0.03
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (265 bp):
CAGATCTTGCCTTCCTGCACCGACAGCAAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGATT
ACAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGA
CACCAGCCTTGCCTCCCTAGGTTACAGCGGAGCAGGTTGAAAAATAGCAGATCTTGCCTTCCTGC
ACTGACAGTAAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTAAA
AATAG
Found at i:36302638 original size:44 final size:44
Alignment explanation
Indices: 36302590--36302821 Score: 123
Period size: 44 Copynumber: 5.3 Consensus size: 44
36302580 AATAGCAAAT
36302590 CTTGCCTTCCTGCACTGACAGTGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACTGACAGTGAAGCAGATCGAAGACACCAGC
** * * * * * * *
36302634 CTTGCCTTCCTAG-GTTG-CAGCGGAA-CAGGTTGAAAATAGCAGAT
1 CTTGCCTTCCT-GCACTGACAG-TGAAGCAGATCGAAGACACCAG-C
* * * * * *
36302678 CTTGCCTTCCTTCACCGGCAGCGAAACAGATCGAAGACACTAGC
1 CTTGCCTTCCTGCACTGACAGTGAAGCAGATCGAAGACACCAGC
* * * * * * * * *
36302722 CTTGCC-TCCTTGGA-TTACAGTGGAGTAGGTTGAAGATAGCAGAT
1 CTTGCCTTCC-TGCACTGACAGTGAAGCAGATCGAAGACACCAG-C
* * *
36302766 CTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGACCCCAGC
1 CTTGCCTTCCTGCACTGACAGTGAAGCAGATCGAAGACACCAGC
* *
36302810 CTTACCTCCCTG
1 CTTGCCTTCCTG
36302822 GGTTACAGCG
Statistics
Matches: 129, Mismatches: 49, Indels: 20
0.65 0.25 0.10
Matches are distributed among these distances:
43 34 0.26
44 58 0.45
45 37 0.29
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (44 bp):
CTTGCCTTCCTGCACTGACAGTGAAGCAGATCGAAGACACCAGC
Found at i:36302706 original size:45 final size:45
Alignment explanation
Indices: 36302562--36302706 Score: 109
Period size: 45 Copynumber: 3.3 Consensus size: 45
36302552 TCCCTAGGTT
* * * *
36302562 GCAGCGAAACATGTTGAAAATAGCAAATCTTGCCTTCCTGCACTG
1 GCAGCGAAACAGGTTGAAAATAGCAGATCTTGCCTTCCTTCACCG
* * * * * * * * * *
36302607 ACAGTGAAGCAGATCGAAGACACCAG-CCTTGCCTTCC-T-A-GG
1 GCAGCGAAACAGGTTGAAAATAGCAGATCTTGCCTTCCTTCACCG
*
36302648 TTGCAGCGGAACAGGTTGAAAATAGCAGATCTTGCCTTCCTTCACCG
1 --GCAGCGAAACAGGTTGAAAATAGCAGATCTTGCCTTCCTTCACCG
36302695 GCAGCGAAACAG
1 GCAGCGAAACAG
36302707 ATCGAAGACA
Statistics
Matches: 69, Mismatches: 25, Indels: 12
0.65 0.24 0.11
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 17 0.25
44 20 0.29
45 28 0.41
46 1 0.01
47 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (45 bp):
GCAGCGAAACAGGTTGAAAATAGCAGATCTTGCCTTCCTTCACCG
Found at i:36303017 original size:128 final size:128
Alignment explanation
Indices: 36302838--36303489 Score: 1153
Period size: 128 Copynumber: 5.1 Consensus size: 128
36302828 AGCGGAGCAA
* * **
36302838 GTTGAAAAATACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGACGAATCTTAT
1 GTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGTGAATCTTAT
36302903 CTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
66 CTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
* *
36302966 GTTAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACGGTGAATCTTAT
1 GTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGTGAATCTTAT
36303031 CTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
66 CTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
* *
36303094 GTTGGAAATTACAGATCTTGTCTCCCTAAGCATTAGCGGAGCAGATCGAAGACAGTGAATCTTAT
1 GTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGTGAATCTTAT
* * *
36303159 CTTCAAGAGTATGGAAGCAAATTTAAGCCACAAGTCCTATCTCCTTGGTCAG-AGTGGAATAG
66 CTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
*
36303221 GTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGTAAATCTTAT
1 GTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGTGAATCTTAT
*
36303286 CTTCAAGAGTAGGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
66 CTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
* * *
36303349 GTTAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGTAGATCGAAGACGGCGAATCTTAT
1 GTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGTGAATCTTAT
36303414 CTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
66 CTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
36303477 GTTGGAAATTACA
1 GTTGGAAATTACA
36303490 AATCCTATCT
Statistics
Matches: 498, Mismatches: 25, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
127 121 0.24
128 377 0.76
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (128 bp):
GTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGTGAATCTTAT
CTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
Found at i:36303323 original size:255 final size:255
Alignment explanation
Indices: 36302838--36303489 Score: 1153
Period size: 255 Copynumber: 2.5 Consensus size: 255
36302828 AGCGGAGCAA
* *
36302838 GTTGAAAAATACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGACGAATCTTAT
1 GTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACG-CGAATCTTAT
36302903 CTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGT
65 CTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGT
* *
36302968 TAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACGGTGAATCTTATCT
130 TGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACGGTAAATCTTATCT
36303033 TCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
195 TCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
* *
36303094 GTTGGAAATTACAGATCTTGTCTCCCTAAGCATTAGCGGAGCAGATCGAAGACAGTGAATCTTAT
1 GTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGAC-GCGAATCTTAT
* * *
36303159 CTTCAAGAGTATGGAAGCAAATTTAAGCCACAAGTCCTATCTCCTTGGTCAG-AGTGGAATAGGT
65 CTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGT
*
36303223 TGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGTAAATCTTATCT
130 TGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACGGTAAATCTTATCT
*
36303288 TCAAGAGTAGGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
195 TCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
* *
36303349 GTTAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGTAGATCGAAGACGGCGAATCTTAT
1 GTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGAC-GCGAATCTTAT
36303414 CTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGT
65 CTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGT
36303479 TGGAAATTACA
130 TGGAAATTACA
36303490 AATCCTATCT
Statistics
Matches: 375, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
255 243 0.65
256 131 0.35
257 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (255 bp):
GTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGCGAATCTTATC
TTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTT
GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACGGTAAATCTTATCTT
CAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
Found at i:36316104 original size:37 final size:37
Alignment explanation
Indices: 36316054--36316126 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
36316044 TGGAAAATAG
36316054 ATGCTTCAGTTATAAGGTGGAAATATTATTTGCATCA
1 ATGCTTCAGTTATAAGGTGGAAATATTATTTGCATCA
36316091 ATGCTTCAGTTATAAGGTGGAAATATTATTTGCATC
1 ATGCTTCAGTTATAAGGTGGAAATATTATTTGCATC
36316127 TACTTTCTCG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (37 bp):
ATGCTTCAGTTATAAGGTGGAAATATTATTTGCATCA
Found at i:36317739 original size:6 final size:6
Alignment explanation
Indices: 36317713--36317763 Score: 84
Period size: 6 Copynumber: 8.2 Consensus size: 6
36317703 GTTAAATGAA
36317713 TTCATT TCTCATT TCTCATT TTCATT TTCATT TTCATT TTCATT TTCATT
1 TTCATT T-TCATT T-TCATT TTCATT TTCATT TTCATT TTCATT TTCATT
36317763 T
1 T
36317764 CTGAGAAAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 31 0.70
7 13 0.30
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.65
Consensus pattern (6 bp):
TTCATT
Found at i:36319168 original size:23 final size:23
Alignment explanation
Indices: 36319142--36319188 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
36319132 CGTCCAACCC
36319142 CTTGCATGATTCATGCATGAAAT
1 CTTGCATGATTCATGCATGAAAT
36319165 CTTGCATGATTCATGCATGAAAT
1 CTTGCATGATTCATGCATGAAAT
36319188 C
1 C
36319189 AAGCATGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (23 bp):
CTTGCATGATTCATGCATGAAAT
Found at i:36319194 original size:23 final size:23
Alignment explanation
Indices: 36319145--36319196 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
36319135 CCAACCCCTT
**
36319145 GCATGATTCATGCATGAAATCTT
1 GCATGATTCATGCATGAAATCAA
36319168 GCATGATTCATGCATGAAATCAA
1 GCATGATTCATGCATGAAATCAA
36319191 GCATGA
1 GCATGA
36319197 ATCAAGCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (23 bp):
GCATGATTCATGCATGAAATCAA
Found at i:36319204 original size:11 final size:11
Alignment explanation
Indices: 36319144--36319200 Score: 60
Period size: 11 Copynumber: 5.0 Consensus size: 11
36319134 TCCAACCCCT
*
36319144 TGCATGATTCA
1 TGCATGAATCA
*
36319155 TGCATGAAATCT
1 TGCATG-AATCA
*
36319167 TGCATGATTCA
1 TGCATGAATCA
36319178 TGCATGAAATCA
1 TGCATG-AATCA
*
36319190 AGCATGAATCA
1 TGCATGAATCA
36319201 AGCAACCACT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
11 20 0.53
12 18 0.47
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (11 bp):
TGCATGAATCA
Found at i:36321450 original size:17 final size:17
Alignment explanation
Indices: 36321428--36321460 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
36321418 TCCCAGATTT
36321428 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
36321445 TGATACCCATATCTTT
1 TGATACCCATATCTTT
36321461 GACTTCCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:36324316 original size:17 final size:17
Alignment explanation
Indices: 36324290--36324322 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
36324280 TCCCAGATTT
*
36324290 TGATATCCATATCTTTC
1 TGATACCCATATCTTTC
36324307 TGATACCCATATCTTT
1 TGATACCCATATCTTT
36324323 GACTTTCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.45
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:36327936 original size:42 final size:42
Alignment explanation
Indices: 36327877--36327962 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
36327867 ATTAGTTTAC
36327877 ACATAGGAATGAAATTGTACCTATGTTTCCGCAAGTAGATAT
1 ACATAGGAATGAAATTGTACCTATGTTTCCGCAAGTAGATAT
36327919 ACATAGGAATGAAATTGTACCTATGTTTCCGCAAGTAGATAT
1 ACATAGGAATGAAATTGTACCTATGTTTCCGCAAGTAGATAT
36327961 AC
1 AC
36327963 TTTGCATGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (42 bp):
ACATAGGAATGAAATTGTACCTATGTTTCCGCAAGTAGATAT
Found at i:36330998 original size:6 final size:6
Alignment explanation
Indices: 36330989--36331024 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
36330979 GAATTTGAAC
36330989 TATTTT TATTTT TATTTT TA-TTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT T
36331025 TAGATTTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TATTTT
Found at i:36331012 original size:11 final size:11
Alignment explanation
Indices: 36330989--36331023 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
36330979 GAATTTGAAC
36330989 TATTTTTATTTT
1 TATTTTTA-TTT
36331001 TATTTTTATTT
1 TATTTTTATTT
36331012 TATTTTTATTT
1 TATTTTTATTT
36331023 T
1 T
36331024 TTAGATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:36331014 original size:17 final size:17
Alignment explanation
Indices: 36330992--36331024 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
36330982 TTTGAACTAT
36330992 TTTTATTTTTATTTTTA
1 TTTTATTTTTATTTTTA
36331009 TTTTATTTTTATTTTT
1 TTTTATTTTTATTTTT
36331025 TAGATTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTATTTTTATTTTTA
Found at i:36351789 original size:12 final size:12
Alignment explanation
Indices: 36351772--36351797 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36351762 CATTCCGAAG
36351772 TATATATATACA
1 TATATATATACA
36351784 TATATATATACA
1 TATATATATACA
36351796 TA
1 TA
36351798 AGTATGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:36352328 original size:27 final size:28
Alignment explanation
Indices: 36352244--36352341 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
36352234 CATGAGATTG
* * * *
36352244 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
36352273 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
36352301 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
36352328 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
36352342 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:36352352 original size:27 final size:27
Alignment explanation
Indices: 36352272--36352354 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
36352262 TAAATTGTAC
* *
36352272 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
36352300 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
36352327 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
36352354 A
1 A
36352355 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:36359752 original size:14 final size:14
Alignment explanation
Indices: 36359733--36359762 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
36359723 CATTCCGAAG
36359733 TATATATATATACA
1 TATATATATATACA
36359747 TATATATATATACA
1 TATATATATATACA
36359761 TA
1 TA
36359763 AGTATGCCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TATATATATATACA
Found at i:36360293 original size:27 final size:28
Alignment explanation
Indices: 36360209--36360306 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
36360199 CATGAGATTG
* * * *
36360209 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
36360238 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
36360266 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
36360293 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
36360307 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:36360317 original size:27 final size:27
Alignment explanation
Indices: 36360237--36360319 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
36360227 TAAATTGTAC
* *
36360237 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
36360265 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
36360292 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
36360319 A
1 A
36360320 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:36367304 original size:6 final size:6
Alignment explanation
Indices: 36367286--36367335 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
36367276 TGCAAATAAA
* *
36367286 TCATTT CTCATTT TCATTT TCATTT TCA-TT TCAATTT CCATTT CCATTT
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TC-ATTT TCATTT TCATTT
36367335 T
1 T
36367336 GAGAAAACCA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
5 4 0.10
6 26 0.67
7 9 0.23
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.60
Consensus pattern (6 bp):
TCATTT
Found at i:36367449 original size:21 final size:19
Alignment explanation
Indices: 36367406--36367453 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
36367396 CATTTCTGAA
36367406 TATTTTTCATTTCTCTCTT
1 TATTTTTCATTTCTCTCTT
*
36367425 TATTTTTCATTTCTCTATT
1 TATTTTTCATTTCTCTCTT
*
36367444 T-TTATTCATT
1 TATTTTTCATT
36367454 ATGTTCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTTTTCATTTCTCTCTT
Found at i:36380711 original size:53 final size:52
Alignment explanation
Indices: 36380641--36380811 Score: 135
Period size: 53 Copynumber: 3.4 Consensus size: 52
36380631 AGAAAAAATC
*
36380641 AATTAAATTAGGATTTAGGGTTACTTGAGTAATTTAATTAAAAAAATTTTAAA
1 AATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATT-AAAAAATTTTAAA
* * ** * ** *
36380694 AATTAGATTAGGGTTTAGAGTTA-AAG-GT-TTTTAA-GGAAAAA---T-CA
1 AATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAATTTTAAA
* * * *
36380738 AA-TAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAA
1 AATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAATTTT-AAA
*
36380790 AATTAGATTAGGGTTTAGGGTT
1 AATTAAATTAGGGTTTAGGGTT
36380812 TTTAAGTAAA
Statistics
Matches: 85, Mismatches: 23, Indels: 20
0.66 0.18 0.16
Matches are distributed among these distances:
43 17 0.20
44 4 0.05
45 3 0.04
46 4 0.05
47 3 0.04
48 5 0.06
50 6 0.07
51 2 0.02
52 4 0.05
53 37 0.44
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.38
Consensus pattern (52 bp):
AATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAATTTTAAA
Found at i:36380725 original size:96 final size:96
Alignment explanation
Indices: 36380625--36380807 Score: 287
Period size: 96 Copynumber: 1.9 Consensus size: 96
36380615 TGTTTATTGT
* * *
36380625 TTTTTAAGAAAAAATCAATTAAATTAGGATTTAGGGTTACTTGAGTAATTTAATTAAAAAAATTT
1 TTTTTAAGAAAAAATCAAATAAATTAGGATTCAGGGTTACTTGAGTAAATTAATT-AAAAAATTT
36380690 T-AAAAATTAGATTAGGGTTTAGAGTTAAAGG
65 TAAAAAATTAGATTAGGGTTTAGAGTTAAAGG
* * * *
36380721 TTTTTAAGGAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTTT
1 TTTTTAAGAAAAAATCAAATAAATTAGGATTCAGGGTTACTTGAGTAAATTAATTAAAAAATTTT
36380786 AAAAAATTAGATTAGGGTTTAG
66 AAAAAATTAGATTAGGGTTTAG
36380808 GGTTTTTAAG
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 8 0.10
96 71 0.90
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.38
Consensus pattern (96 bp):
TTTTTAAGAAAAAATCAAATAAATTAGGATTCAGGGTTACTTGAGTAAATTAATTAAAAAATTTT
AAAAAATTAGATTAGGGTTTAGAGTTAAAGG
Found at i:36381420 original size:18 final size:18
Alignment explanation
Indices: 36381394--36381436 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
36381384 ACTAGAAAAA
* * *
36381394 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
36381412 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
36381430 AGGATAC
1 AGGATAC
36381437 TCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:36382101 original size:7 final size:7
Alignment explanation
Indices: 36382091--36382122 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
36382081 CATAATACAT
36382091 AATACTA
1 AATACTA
36382098 AATACTA
1 AATACTA
36382105 AATACTA
1 AATACTA
36382112 AATACTA
1 AATACTA
36382119 AATA
1 AATA
36382123 TCAATCGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Done.