Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold136
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: 1039917
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.32
Warning! 114553 characters in sequence are not A, C, G, or T
File 2 of 6
Found at i:172781 original size:21 final size:21
Alignment explanation
Indices: 172757--172815 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
172747 TATTTGAATA
*
172757 TTAAATTTTAATTTAATTAAT
1 TTAAATTTTAATTTAATAAAT
* *
172778 TTAAAAATTAATATTTAATAAAT
1 TT-AAATTTTA-ATTTAATAAAT
*
172801 TTAAATTTTGATTTA
1 TTAAATTTTAATTTA
172816 TCTCTAAACT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 7 0.23
22 11 0.37
23 12 0.40
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTAAATTTTAATTTAATAAAT
Found at i:173273 original size:21 final size:20
Alignment explanation
Indices: 173244--173296 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
173234 ATTAAAATAC
173244 ATTTAATATGATATATTTAA
1 ATTTAATATGATATATTTAA
* * *
173264 TATTTTATATTATATCTTTAA
1 -ATTTAATATGATATATTTAA
*
173285 A-TTCATATGATA
1 ATTTAATATGATA
173297 AAAAAATAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 9 0.33
20 1 0.04
21 17 0.63
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (20 bp):
ATTTAATATGATATATTTAA
Found at i:173582 original size:3 final size:3
Alignment explanation
Indices: 173574--173612 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
173564 ACTATTTACG
173574 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
173613 TACTTCAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:174357 original size:22 final size:21
Alignment explanation
Indices: 174312--174353 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
174302 CTACCCACTA
** *
174312 ATTTAGAAAAATGATTAATTT
1 ATTTAGAAAAAAAACTAATTT
174333 ATTTAGAAAAAAAACTAATTT
1 ATTTAGAAAAAAAACTAATTT
174354 TATTATTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (21 bp):
ATTTAGAAAAAAAACTAATTT
Found at i:175036 original size:13 final size:12
Alignment explanation
Indices: 175001--175041 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
174991 AAATGGTGTC
*
175001 TTTTAATTATTA
1 TTTTAATAATTA
*
175013 TTTTAAAAATTA
1 TTTTAATAATTA
175025 TATTTAATAATTA
1 T-TTTAATAATTA
175038 TTTT
1 TTTT
175042 TATTGAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTTAATAATTA
Found at i:175043 original size:13 final size:13
Alignment explanation
Indices: 175001--175043 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
174991 AAATGGTGTC
*
175001 TTTTAATTATTA-
1 TTTTAATAATTAT
*
175013 TTTTAAAAATTAT
1 TTTTAATAATTAT
*
175026 ATTTAATAATTAT
1 TTTTAATAATTAT
175039 TTTTA
1 TTTTA
175044 TTGAATTCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAATAATTAT
Found at i:176341 original size:15 final size:16
Alignment explanation
Indices: 176322--176393 Score: 57
Period size: 15 Copynumber: 4.8 Consensus size: 16
176312 ATTCGATTCG
176322 ATTTAAATTATAAATT
1 ATTTAAATTATAAATT
176338 -TTTAAA-T-TAAATT
1 ATTTAAATTATAAATT
176351 AATTTAAATTA-AAATT
1 -ATTTAAATTATAAATT
** *
176367 A-AAAAATTA-AAAAT
1 ATTTAAATTATAAATT
*
176381 ATTTAAATCATAA
1 ATTTAAATTATAA
176394 TTAATTCGAC
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
13 6 0.14
14 12 0.27
15 18 0.41
16 8 0.18
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTAAATTATAAATT
Found at i:177899 original size:14 final size:15
Alignment explanation
Indices: 177863--177899 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
177853 TTAAAATTGT
177863 ATATTT-AATTTATA
1 ATATTTAAATTTATA
177877 ATATTTAAATTTA-A
1 ATATTTAAATTTATA
*
177891 ATTTTTAAA
1 ATATTTAAA
177900 AATTAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTTAAATTTATA
Found at i:178523 original size:21 final size:21
Alignment explanation
Indices: 178497--178537 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
178487 TTTCATTATT
178497 TTTTATATAAGATTAATATAA
1 TTTTATATAAGATTAATATAA
* * *
178518 TTTTATCTAATATTATTATA
1 TTTTATATAAGATTAATATA
178538 TTTAATTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TTTTATATAAGATTAATATAA
Found at i:178899 original size:15 final size:15
Alignment explanation
Indices: 178872--178903 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
178862 AGATTTCGTA
178872 AATATAATAAAAAAT
1 AATATAATAAAAAAT
178887 AATAGTAATAAAAAAT
1 AATA-TAATAAAAAAT
178903 A
1 A
178904 TTTATCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (15 bp):
AATATAATAAAAAAT
Found at i:179484 original size:16 final size:16
Alignment explanation
Indices: 179430--179484 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 16
179420 AGAGAATTAA
*
179430 AATTATTATTATATTTT
1 AATTA-TATAATATTTT
*
179447 -ATT-TAAAATATTTT
1 AATTATATAATATTTT
179461 ATATTTATATAATATTTT
1 A-A-TTATATAATATTTT
179479 AATTAT
1 AATTAT
179485 TTTTCATATC
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
14 9 0.29
16 8 0.26
17 3 0.10
18 11 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AATTATATAATATTTT
Found at i:179506 original size:23 final size:22
Alignment explanation
Indices: 179459--179512 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
179449 TTAAAATATT
179459 TTATATTTATATAATATTTTAA
1 TTATATTTATATAATATTTTAA
* *
179481 TTATTTTTCATATCATATTTGT-A
1 TTATATTT-ATATAATATTT-TAA
179504 TTATATTTA
1 TTATATTTA
179513 ACATTATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 8 0.30
23 18 0.67
24 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (22 bp):
TTATATTTATATAATATTTTAA
Found at i:179602 original size:2 final size:2
Alignment explanation
Indices: 179595--179625 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
179585 AATGATTTAT
*
179595 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
179626 TTGATTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:180089 original size:20 final size:20
Alignment explanation
Indices: 180029--180101 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
180019 CTATTTATTA
* *
180029 TTTAAAAAATTATTCATTTTT
1 TTTAAAAAATTACT-AATTTT
*
180050 TTTAAAACAAACTACTAATTTT
1 TTT-AAA-AAATTACTAATTTT
180072 TTTAAAAAATTA-TAAATTATT
1 TTTAAAAAATTACT-AATT-TT
*
180093 TTCAAAAAA
1 TTTAAAAAA
180102 ATAAATTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 1 0.02
20 9 0.21
21 16 0.37
22 11 0.26
23 6 0.14
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAAAAAATTACTAATTTT
Found at i:180685 original size:23 final size:23
Alignment explanation
Indices: 180639--180681 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
180629 TGGTTAAGTT
*
180639 TAAATTTTAATAATAAAAATATA
1 TAAATATTAATAATAAAAATATA
180662 TAAATATTAAT-ATAAAAATA
1 TAAATATTAATAATAAAAATA
180682 ATATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAATATTAATAATAAAAATATA
Found at i:189160 original size:18 final size:17
Alignment explanation
Indices: 189126--189169 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
189116 TATATTTTTA
*
189126 TATAATTTTAATATATT
1 TATAATATTAATATATT
*
189143 TATATTATTAATTATATT
1 TATAATATTAA-TATATT
189161 TATAATATT
1 TATAATATT
189170 TTATCTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATAATATTAATATATT
Found at i:189193 original size:27 final size:28
Alignment explanation
Indices: 189116--189193 Score: 72
Period size: 27 Copynumber: 2.8 Consensus size: 28
189106 TAACCTTGTA
* *
189116 TATATTTTTATATA-ATTTTAATATATT
1 TATATTATTAAATATATTTTAATATATT
*
189143 TATATTATTAATTATATTTATAATAT-TT
1 TATATTATTAAATATATTT-TAATATATT
* *
189171 TATCTT-TTATAATGTATTTTAAT
1 TATATTATTA-AATATATTTTAAT
189194 TAATTTTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
27 18 0.43
28 18 0.43
29 6 0.14
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (28 bp):
TATATTATTAAATATATTTTAATATATT
Found at i:306274 original size:18 final size:19
Alignment explanation
Indices: 306242--306277 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
306232 TTATTTAAAA
*
306242 ATTTTTCATTTAATATAAT
1 ATTTTTCATTGAATATAAT
306261 ATTTTT-ATTGAATATAA
1 ATTTTTCATTGAATATAA
306278 AAAATAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
ATTTTTCATTGAATATAAT
Found at i:307842 original size:19 final size:18
Alignment explanation
Indices: 307796--307832 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
307786 AAAACTGTTA
*
307796 ATTAAATATAATAATTTT
1 ATTAAATTTAATAATTTT
307814 ATTAAATTTAAT-ATTTT
1 ATTAAATTTAATAATTTT
307831 AT
1 AT
307833 ATTATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTAAATTTAATAATTTT
Found at i:308395 original size:16 final size:15
Alignment explanation
Indices: 308374--308407 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
308364 ATTAAAAATT
308374 AAAAAATAATATAATA
1 AAAAAATAATATAA-A
308390 AAAAAATAATATAAA
1 AAAAAATAATATAAA
308405 AAA
1 AAA
308408 TATAGAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAAATAATATAAA
Found at i:309738 original size:37 final size:35
Alignment explanation
Indices: 309691--309764 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 35
309681 ATACTTTTTG
* *
309691 TAAATTTAAATGAAATAA-AAAATATAATTTTTAATA
1 TAAATTTAAAT--AATAAGAAAATAAAATTTATAATA
309727 TAAATTTTAAATAATAAGTAAAATAAAATTTATAATA
1 TAAA-TTTAAATAATAAG-AAAATAAAATTTATAATA
309764 T
1 T
309765 CAACGTAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
35 5 0.15
36 4 0.12
37 24 0.73
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (35 bp):
TAAATTTAAATAATAAGAAAATAAAATTTATAATA
Found at i:311051 original size:11 final size:11
Alignment explanation
Indices: 311035--311097 Score: 65
Period size: 12 Copynumber: 5.5 Consensus size: 11
311025 AAATAATTGA
311035 ATTTTATTAAT
1 ATTTTATTAAT
*
311046 ATTTTATTAAAA
1 ATTTTATT-AAT
311058 ATTTTATTTAAT
1 ATTTTA-TTAAT
*
311070 -TTTTAATAAT
1 ATTTTATTAAT
311080 ATTTTAATTAAT
1 ATTTT-ATTAAT
*
311092 TTTTTA
1 ATTTTA
311098 AATATAATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
10 4 0.09
11 18 0.42
12 19 0.44
13 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTTTATTAAT
Found at i:311091 original size:12 final size:12
Alignment explanation
Indices: 311035--311098 Score: 64
Period size: 11 Copynumber: 5.6 Consensus size: 12
311025 AAATAATTGA
311035 ATTTT-ATTAAT
1 ATTTTAATTAAT
*
311046 ATTTT-ATTAAAA
1 ATTTTAATT-AAT
*
311058 ATTTTATTTAAT
1 ATTTTAATTAAT
311070 -TTTTAA-TAAT
1 ATTTTAATTAAT
311080 ATTTTAATTAAT
1 ATTTTAATTAAT
*
311092 TTTTTAA
1 ATTTTAA
311099 ATATAATAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
10 4 0.09
11 19 0.43
12 19 0.43
13 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTTTAATTAAT
Found at i:311096 original size:23 final size:24
Alignment explanation
Indices: 311034--311098 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
311024 TAAATAATTG
* *
311034 AATTTT-ATTAATATTTTATTAAA
1 AATTTTAATTAATTTTTTAATAAA
*
311057 AATTTTATTTAA-TTTTTAAT-AA
1 AATTTTAATTAATTTTTTAATAAA
*
311079 TATTTTAATTAATTTTTTAA
1 AATTTTAATTAATTTTTTAA
311099 ATATAATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 12 0.34
23 19 0.54
24 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
AATTTTAATTAATTTTTTAATAAA
Found at i:311136 original size:14 final size:14
Alignment explanation
Indices: 311117--311173 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
311107 ATTTAGTTTT
311117 TTTAATATT-TATA
1 TTTAATATTATATA
311130 TTATAATATTATATA
1 TT-TAATATTATATA
*
311145 TTTAATATAATATA
1 TTTAATATTATATA
* *
311159 TATAA-ATAATATA
1 TTTAATATTATATA
311172 TT
1 TT
311174 ATATAAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
13 11 0.28
14 22 0.56
15 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTAATATTATATA
Found at i:311176 original size:16 final size:16
Alignment explanation
Indices: 311135--311180 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
311125 TTATATTATA
**
311135 ATATTATATATTTAAT
1 ATATTATATAAATAAT
311151 ATAATATATATAAATAAT
1 AT-AT-TATATAAATAAT
311169 ATATTATATAAA
1 ATATTATATAAA
311181 ATTTAAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 10 0.38
17 4 0.15
18 12 0.46
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATTATATAAATAAT
Found at i:317561 original size:5 final size:5
Alignment explanation
Indices: 317551--317575 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
317541 AGATTGGCTA
317551 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
317576 GAAGAATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:318698 original size:14 final size:14
Alignment explanation
Indices: 318663--318702 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
318653 ATCCGAAATA
318663 TATTTAAATATAAG
1 TATTTAAATATAAG
* *
318677 TATATAAATATAAT
1 TATTTAAATATAAG
*
318691 TTTTTAAATATA
1 TATTTAAATATA
318703 TAAAAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
TATTTAAATATAAG
Found at i:318720 original size:21 final size:22
Alignment explanation
Indices: 318677--318725 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
318667 TAAATATAAG
* **
318677 TATATAAATATAATTTTTTAAA
1 TATATAAATAAAATTTTAAAAA
318699 TATATAAA-AAAATTTTAAAAA
1 TATATAAATAAAATTTTAAAAA
*
318720 TTTATA
1 TATATA
318726 TATACTCGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TATATAAATAAAATTTTAAAAA
Found at i:324702 original size:16 final size:17
Alignment explanation
Indices: 324668--324713 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
324658 TTAATTTTAT
*
324668 TAAATTATATT-ATTAA
1 TAAATTAAATTAATTAA
324684 TAAATTAAATTAATT-A
1 TAAATTAAATTAATTAA
*
324700 TAAA-AAAATTAATT
1 TAAATTAAATTAATT
324714 TGATATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 9 0.33
16 15 0.56
17 3 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATTAAATTAATTAA
Found at i:324708 original size:20 final size:21
Alignment explanation
Indices: 324666--324720 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
324656 TTTTAATTTT
* *
324666 ATTAAATTATATTATTAATAA
1 ATTAAATTATATTATAAAAAA
324687 ATTAAATTA-ATTATAAAAAA
1 ATTAAATTATATTATAAAAAA
*
324707 ATTAATTTGATATT
1 ATTAAATT-ATATT
324721 TTTATATAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.55
21 10 0.34
22 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTAAATTATATTATAAAAAA
Found at i:324910 original size:29 final size:26
Alignment explanation
Indices: 324878--324958 Score: 65
Period size: 27 Copynumber: 2.9 Consensus size: 26
324868 AATATTTATA
324878 ATTTATATAAATATTTAAAAAATTAACTT
1 ATTTATATAAATATTTAAAAAATT---TT
* * *
324907 ATTTCAAATAAAAAATATAAAAATATTTT
1 ATTT-ATAT-AAATATTTAAAAA-ATTTT
324936 ATTT-TATATAATATTTAAAAAAT
1 ATTTATATA-AATATTTAAAAAAT
324959 AATTTAACTA
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
26 3 0.07
27 12 0.29
29 10 0.24
30 3 0.07
31 11 0.26
32 3 0.07
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
ATTTATATAAATATTTAAAAAATTTT
Found at i:324963 original size:29 final size:29
Alignment explanation
Indices: 324879--324963 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 29
324869 ATATTTATAA
*
324879 TTTATATAAATATTTAAAAAATTAA-CTTAT
1 TTTATAT-AATATTTAAAAAA-TAATTTTAT
* * * **
324909 TTCAAATAAAAAATATAAAAAT-ATTTTAT
1 TTTATATAATATTTA-AAAAATAATTTTAT
324938 TTTATATAATATTTAAAAAATAATTT
1 TTTATATAATATTTAAAAAATAATTT
324964 AACTAAATCG
Statistics
Matches: 41, Mismatches: 11, Indels: 7
0.69 0.19 0.12
Matches are distributed among these distances:
28 7 0.17
29 24 0.59
30 10 0.24
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
TTTATATAATATTTAAAAAATAATTTTAT
Found at i:325010 original size:20 final size:20
Alignment explanation
Indices: 324978--325021 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
324968 AAATCGAATC
324978 AAAATTTAATTTAAATTAA-
1 AAAATTTAATTTAAATTAAT
324997 AAAATTTAAATTTAAATTAAT
1 AAAATTT-AATTTAAATTAAT
325018 AAAA
1 AAAA
325022 ATATTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 7 0.30
20 12 0.52
21 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATTTAATTTAAATTAAT
Found at i:334726 original size:2 final size:2
Alignment explanation
Indices: 334719--334743 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
334709 TTATAATGCA
334719 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
334744 GCTTAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:334972 original size:23 final size:24
Alignment explanation
Indices: 334928--334975 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
334918 GGAATTATAG
334928 TTTTTTAACAATTAAATATTTATT
1 TTTTTTAACAATTAAATATTTATT
* * *
334952 TTTTTTCACATTTTAAT-TTTATT
1 TTTTTTAACAATTAAATATTTATT
334975 T
1 T
334976 CAATTAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTTTTAACAATTAAATATTTATT
Found at i:336323 original size:3 final size:3
Alignment explanation
Indices: 336315--336352 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
336305 AATTAACTCT
336315 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
336353 GTTTCAGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:337464 original size:14 final size:14
Alignment explanation
Indices: 337445--337472 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
337435 GAAGAAATTC
337445 GGTTTGCATATATA
1 GGTTTGCATATATA
337459 GGTTTGCATATATA
1 GGTTTGCATATATA
337473 TGTATGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (14 bp):
GGTTTGCATATATA
Found at i:337502 original size:11 final size:10
Alignment explanation
Indices: 337463--337513 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
337453 TATATAGGTT
337463 TGCATATATA
1 TGCATATATA
* *
337473 TGTATGTATA
1 TGCATATATA
*
337483 TACATATATA
1 TGCATATATA
337493 TGCAATATATA
1 TGC-ATATATA
337504 TGCATATATA
1 TGCATATATA
337514 GACCATTTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 24 0.71
11 10 0.29
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (10 bp):
TGCATATATA
Found at i:337894 original size:19 final size:19
Alignment explanation
Indices: 337870--337932 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 19
337860 GTGAGATTAT
337870 ATAATACTGATATTAAAAA
1 ATAATACTGATATTAAAAA
* * *
337889 ATAATAAT-A-ATTTAAAT
1 ATAATACTGATATTAAAAA
* *
337906 ATAACA-TAAT-TTAAAAA
1 ATAATACTGATATTAAAAA
337923 ATAATACTGA
1 ATAATACTGA
337933 ACACGATACG
Statistics
Matches: 33, Mismatches: 8, Indels: 7
0.69 0.17 0.15
Matches are distributed among these distances:
16 1 0.03
17 22 0.67
18 3 0.09
19 7 0.21
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (19 bp):
ATAATACTGATATTAAAAA
Found at i:337926 original size:17 final size:18
Alignment explanation
Indices: 337882--337928 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
337872 AATACTGATA
337882 TTAAAAAATAATAATAAT
1 TTAAAAAATAATAATAAT
* *
337900 TT-AAATATAA-CATAAT
1 TTAAAAAATAATAATAAT
337916 TTAAAAAATAATA
1 TTAAAAAATAATA
337929 CTGAACACGA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
16 7 0.30
17 14 0.61
18 2 0.09
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAAAAAATAATAATAAT
Found at i:338489 original size:21 final size:22
Alignment explanation
Indices: 338464--338511 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 22
338454 TCATATCACA
*
338464 TAATTAATTTTTTTA-AAAAAT
1 TAATTAATTTTATTATAAAAAT
338485 TAATT-A-TTTATTATAAAAAT
1 TAATTAATTTTATTATAAAAAT
338505 T-ATTAAT
1 TAATTAAT
338512 AAATTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 9 0.39
20 9 0.39
21 5 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATTAATTTTATTATAAAAAT
Found at i:338502 original size:20 final size:17
Alignment explanation
Indices: 338465--338506 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 17
338455 CATATCACAT
338465 AATTAATTTTTTTAAAA
1 AATTAATTTTTTTAAAA
338482 AATTAATTATTTATTATAAA
1 AATTAATT-TTT-TTA-AAA
338502 AATTA
1 AATTA
338507 TTAATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.36
18 3 0.14
19 3 0.14
20 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTAATTTTTTTAAAA
Found at i:341973 original size:7 final size:7
Alignment explanation
Indices: 341961--342033 Score: 50
Period size: 7 Copynumber: 10.7 Consensus size: 7
341951 GCTCAACTCG
341961 AAATTTA
1 AAATTTA
341968 AAATTTA
1 AAATTTA
341975 AAATTTAA
1 AAATTT-A
341983 TTAAATATT-
1 --AAAT-TTA
*
341992 -AATTTT
1 AAATTTA
*
341998 AAATTTT
1 AAATTTA
342005 AAATTT-
1 AAATTTA
342011 AAA-TTA
1 AAATTTA
342017 AAA-TTA
1 AAATTTA
342023 AAA-TTA
1 AAATTTA
342029 AAATT
1 AAATT
342034 AAACGTAAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 16
0.78 0.00 0.22
Matches are distributed among these distances:
5 4 0.07
6 21 0.36
7 26 0.45
8 1 0.02
10 4 0.07
11 2 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
AAATTTA
Found at i:342002 original size:30 final size:30
Alignment explanation
Indices: 341962--342033 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
341952 CTCAACTCGA
341962 AATTTAAAATTTAAAATTT-AATTAAATATT
1 AATTTAAAATTTAAAATTTAAATTAAA-ATT
* *
341992 AATTTTAAATTTTAAATTTAAATTAAAATT
1 AATTTAAAATTTAAAATTTAAATTAAAATT
*
342022 AAAATTAAAATT
1 -AATTTAAAATT
342034 AAACGTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 20 0.56
31 16 0.44
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
AATTTAAAATTTAAAATTTAAATTAAAATT
Found at i:342112 original size:7 final size:6
Alignment explanation
Indices: 341965--342109 Score: 67
Period size: 6 Copynumber: 23.0 Consensus size: 6
341955 AACTCGAAAT
* ** * * *
341965 TTAAAA TTTAAAA TT-TAA TTAAATA TTAATT TTAAAT TTTAAA TTTAAA
1 TTAAAA -TTAAAA TTAAAA TTAAA-A TTAAAA TTAAAA TTAAAA TTAAAA
* * * *
342014 TTAAAA TTAAAA TTAAAA TTAAAC GTAAAA GTTTTAAATA TTAAAA GATAAAT
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA ---TTAAA-A TTAAAA -TTAAAA
* * ** * *
342067 TTAATTA TTTATG TTGAAG TTAAAA TTAAAA TTAAAA TTAAAA
1 TTAA-AA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
342110 ATTTTTAATA
Statistics
Matches: 107, Mismatches: 23, Indels: 17
0.73 0.16 0.12
Matches are distributed among these distances:
5 4 0.04
6 75 0.70
7 23 0.21
9 4 0.04
10 1 0.01
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (6 bp):
TTAAAA
Found at i:343826 original size:2 final size:2
Alignment explanation
Indices: 343819--343845 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
343809 GACATTTCTG
343819 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
343846 GCGTTTCGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:345537 original size:25 final size:25
Alignment explanation
Indices: 345509--345560 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
345499 ATATATTAAC
*
345509 TTAAATTCCGATGTTAAATTACCAA
1 TTAAATTCCGATGTCAAATTACCAA
* *
345534 TTAAATTCTGATGTCGAATTACCAA
1 TTAAATTCCGATGTCAAATTACCAA
345559 TT
1 TT
345561 TTAACACATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (25 bp):
TTAAATTCCGATGTCAAATTACCAA
Found at i:346331 original size:13 final size:13
Alignment explanation
Indices: 346313--346354 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
346303 TTGTCTTCTA
346313 TATTAAATATTTT
1 TATTAAATATTTT
*
346326 TATT-AATTTTTT
1 TATTAAATATTTT
346338 ATATTAAATATTTT
1 -TATTAAATATTTT
346352 TAT
1 TAT
346355 ATTCATCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 7 0.28
13 11 0.44
14 7 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTAAATATTTT
Found at i:346365 original size:14 final size:15
Alignment explanation
Indices: 346311--346357 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
346301 ACTTGTCTTC
346311 TATATTAAATA-TTT
1 TATATTAAATATTTT
346325 T-TATT-AAT-TTTT
1 TATATTAAATATTTT
346337 TATATTAAATATTTT
1 TATATTAAATATTTT
346352 TATATT
1 TATATT
346358 CATCTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 7 0.24
13 8 0.28
14 4 0.14
15 10 0.34
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TATATTAAATATTTT
Found at i:347470 original size:2 final size:2
Alignment explanation
Indices: 347463--347513 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
347453 GTTGTTAATA
347463 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
347505 AT AT AT AT A
1 AT AT AT AT A
347514 AACCAAATCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:347814 original size:70 final size:70
Alignment explanation
Indices: 347701--347841 Score: 228
Period size: 70 Copynumber: 2.0 Consensus size: 70
347691 TTTTTAACTG
*
347701 TTTTATCATTATGTGTTTATTTTATCGTTTTCTTTTAACATATTAAGCTGCACTCAAGTATATTT
1 TTTTATCATTATGTGTTTATTTTATCATTTTCTTTTAACATATTAAGCTGCACTCAAGTATATTT
347766 GTTTA
66 GTTTA
* * * * *
347771 TTTTATCATTCTGTGTTTATTTTGTCATTTTCTTTTAATATATTAAGCTTCACTCGAGTATATTT
1 TTTTATCATTATGTGTTTATTTTATCATTTTCTTTTAACATATTAAGCTGCACTCAAGTATATTT
347836 GTTTA
66 GTTTA
347841 T
1 T
347842 GAGTTAAAGT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.23, C:0.11, G:0.10, T:0.56
Consensus pattern (70 bp):
TTTTATCATTATGTGTTTATTTTATCATTTTCTTTTAACATATTAAGCTGCACTCAAGTATATTT
GTTTA
Found at i:349164 original size:2 final size:2
Alignment explanation
Indices: 349152--349199 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
349142 GCCAACTATG
349152 AT AT A- 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
349193 AT AT AT A
1 AT AT AT A
349200 GCCAATGAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:349743 original size:19 final size:18
Alignment explanation
Indices: 349719--349756 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
349709 ACATTAATTT
349719 AAAATTAATTTAAATTATA
1 AAAATTAATTTAAA-TATA
*
349738 AAAATTATTTTAAATATA
1 AAAATTAATTTAAATATA
349756 A
1 A
349757 TTTAATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATTAATTTAAATATA
Found at i:351803 original size:64 final size:65
Alignment explanation
Indices: 351692--351854 Score: 177
Period size: 64 Copynumber: 2.5 Consensus size: 65
351682 TTATACTATT
* * * * ** *
351692 ATTTTTATTTTTACTTATGTTATAGTAAAAAGTTAGTCTCGATA-TTTTTATTTGACATCTGATA
1 ATTTTTATTTTTATTTATGCTATAGTTAAAAGTTAGTCTCGAGATTTTTTACCTAACATCTGATA
* * * * *
351756 ATTTTTATTTTTATTTATGCTATAGTTATAA-TTAAGTGTCGGGATTTTTTACCTAACATGTGGT
1 ATTTTTATTTTTATTTATGCTATAGTTAAAAGTT-AGTCTCGAGATTTTTTACCTAACATCTGAT
351820 A
65 A
*
351821 ATTTTTTATTTTTATTTATGCTATGGTTAAAAGT
1 A-TTTTTATTTTTATTTATGCTATAGTTAAAAGT
351855 AAATCCGAAG
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
63 2 0.02
64 34 0.42
65 16 0.20
66 28 0.35
67 1 0.01
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.53
Consensus pattern (65 bp):
ATTTTTATTTTTATTTATGCTATAGTTAAAAGTTAGTCTCGAGATTTTTTACCTAACATCTGATA
Found at i:353143 original size:27 final size:29
Alignment explanation
Indices: 353115--353174 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
353105 TTTTAGATAT
*
353115 TATAAAAT-TATTAT-ATAT-AAAAATAA
1 TATAAAATATAATATAATATAAAAAATAA
353141 T-TAAAATATAATATAATATAAAAAATAA
1 TATAAAATATAATATAATATAAAAAATAA
353169 TATAAA
1 TATAAA
353175 TATTTGATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 6 0.21
26 6 0.21
27 4 0.14
28 9 0.31
29 4 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
TATAAAATATAATATAATATAAAAAATAA
Found at i:353162 original size:17 final size:16
Alignment explanation
Indices: 353137--353173 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
353127 ATATATAAAA
*
353137 ATAATTAAAATATAAT
1 ATAATTAAAAAATAAT
353153 ATAATATAAAAAATAAT
1 ATAAT-TAAAAAATAAT
353170 ATAA
1 ATAA
353174 ATATTTGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAATTAAAAAATAAT
Found at i:353524 original size:9 final size:8
Alignment explanation
Indices: 353495--353524 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
353485 TAATAAATTT
353495 AAATTTTA
1 AAATTTTA
353503 AAATTTTA
1 AAATTTTA
353511 AAATTTTCA
1 AAATTTT-A
353520 AAATT
1 AAATT
353525 ATTCTATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 15 0.71
9 6 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (8 bp):
AAATTTTA
Found at i:364833 original size:3 final size:3
Alignment explanation
Indices: 364825--364865 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
364815 GAATATGATT
364825 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
364866 TGTTGTTTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:365134 original size:16 final size:16
Alignment explanation
Indices: 365076--365166 Score: 63
Period size: 15 Copynumber: 5.8 Consensus size: 16
365066 TTTAAATCGG
365076 TAATT-AAAT-TAATA
1 TAATTAAAATATAATA
365090 TAACTT-AAA-A-AA-A
1 TAA-TTAAAATATAATA
365103 TAATTAAAATATAATA
1 TAATTAAAATATAATA
365119 TAA-TAAAATATAAATA
1 TAATTAAAATAT-AATA
365135 TATTTATTAAAAT-TAATA
1 TA---ATTAAAATATAATA
365153 TAAATATAAAATAT
1 T-AAT-TAAAATAT
365167 TTTAAATATA
Statistics
Matches: 63, Mismatches: 0, Indels: 24
0.72 0.00 0.28
Matches are distributed among these distances:
12 2 0.03
13 7 0.11
14 6 0.10
15 15 0.24
16 12 0.19
17 6 0.10
18 6 0.10
19 3 0.05
20 6 0.10
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (16 bp):
TAATTAAAATATAATA
Found at i:365746 original size:19 final size:19
Alignment explanation
Indices: 365722--365774 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 19
365712 TGTGTAAACA
365722 TAAATATAATATAAATAAT
1 TAAATATAATATAAATAAT
**
365741 TAAATAT-AT-TAAATTTT
1 TAAATATAATATAAATAAT
* *
365758 TTAACATAATATAAATA
1 TAAATATAATATAAATA
365775 GGATATATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 11 0.41
18 4 0.15
19 12 0.44
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATATAATATAAATAAT
Found at i:366496 original size:19 final size:18
Alignment explanation
Indices: 366451--366511 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 18
366441 AAAATATGAG
*
366451 ATAAATATGA-AAAATAAAA
1 ATAAATATGATAAAAT--AT
*
366470 ATACATATGATATAAATAT
1 ATAAATATGATA-AAATAT
* *
366489 ATAAATATGTTAAAATTT
1 ATAAATATGATAAAATAT
366507 ATAAA
1 ATAAA
366512 ATATTAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 10 0.29
19 20 0.57
20 1 0.03
21 4 0.11
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (18 bp):
ATAAATATGATAAAATAT
Found at i:366515 original size:25 final size:26
Alignment explanation
Indices: 366480--366542 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
366470 ATACATATGA
366480 TATAAATATATAAATATGTT-AAAATT
1 TATAAATATATAAATAT-TTCAAAATT
*
366506 TATAAA-ATATTAATATTTCAAAATT
1 TATAAATATATAAATATTTCAAAATT
*
366531 TATATATATATA
1 TATAAATATATA
366543 TCTGAAATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 2 0.06
25 20 0.62
26 10 0.31
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
TATAAATATATAAATATTTCAAAATT
Found at i:369242 original size:17 final size:16
Alignment explanation
Indices: 369210--369267 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 16
369200 AAAAAAATTA
*
369210 ATATTATTACTCATTTT
1 ATATTATTAAT-ATTTT
*
369227 ATATTATTAAATATTTA
1 ATATTATT-AATATTTT
* *
369244 ATATAATTATTATTTT
1 ATATTATTAATATTTT
*
369260 ATTTTATT
1 ATATTATT
369268 TTAAGTAAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
16 12 0.36
17 19 0.58
18 2 0.06
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATTATTAATATTTT
Found at i:369360 original size:20 final size:19
Alignment explanation
Indices: 369335--369386 Score: 52
Period size: 22 Copynumber: 2.6 Consensus size: 19
369325 GATATGCATC
369335 AAATTTTAATATTATATAT
1 AAATTTTAATATTATATAT
* *
369354 AAAATTTGTTAATATTTTATCT
1 -AAA-TT-TTAATATTATATAT
369376 AAA-TTTAATAT
1 AAATTTTAATAT
369387 AATTTATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 7 0.25
19 1 0.04
20 3 0.11
21 5 0.18
22 12 0.43
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
AAATTTTAATATTATATAT
Found at i:369837 original size:96 final size:97
Alignment explanation
Indices: 369716--369918 Score: 306
Period size: 96 Copynumber: 2.1 Consensus size: 97
369706 TAATTTAGTT
* * *
369716 ATTA-TTATTATTATTACTATTGGCAAAGTATATCAACTTTCTAAAATGAATGTTTATAAAGCTA
1 ATTAGTTATTATTATTACTATTGGCAAAATATATCAACTTTCTAAAATGAATATTCATAAAGCTA
* *
369780 TTA-TTATTACATTGTACT-ATTTTTTTAAGTA
66 TTATTTATTACATCGTACTGA-TTTTGTAAGTA
* *
369811 ATTAGTTATTATTATTATTATTGGCAAAATGTATCAACTTTCTAAAATGAATATTCATAAAGCTA
1 ATTAGTTATTATTATTACTATTGGCAAAATATATCAACTTTCTAAAATGAATATTCATAAAGCTA
369876 TTATTTATTACATCGTACTGATTTTGTAAGTA
66 TTATTTATTACATCGTACTGATTTTGTAAGTA
369908 ATTAGTT-TTAT
1 ATTAGTTATTAT
369919 GCATGCTTAT
Statistics
Matches: 98, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
95 4 0.04
96 62 0.63
97 31 0.32
98 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.47
Consensus pattern (97 bp):
ATTAGTTATTATTATTACTATTGGCAAAATATATCAACTTTCTAAAATGAATATTCATAAAGCTA
TTATTTATTACATCGTACTGATTTTGTAAGTA
Found at i:370665 original size:24 final size:24
Alignment explanation
Indices: 370638--370706 Score: 56
Period size: 24 Copynumber: 3.0 Consensus size: 24
370628 AAAATAATAT
370638 ATATTTTTATTTTTATAATATTAA
1 ATATTTTTATTTTTATAATATTAA
* * * *
370662 ATATATCTATATTAAT-ATATTTAA
1 ATATTTTTATTTTTATAATA-TTAA
*
370686 A-A-TTTTATTATT-TAATATTAA
1 ATATTTTTATTTTTATAATATTAA
370707 TTAGAATGAT
Statistics
Matches: 34, Mismatches: 9, Indels: 7
0.68 0.18 0.14
Matches are distributed among these distances:
21 5 0.15
22 8 0.24
23 4 0.12
24 17 0.50
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (24 bp):
ATATTTTTATTTTTATAATATTAA
Found at i:376323 original size:2 final size:2
Alignment explanation
Indices: 376316--376347 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
376306 GGTCTCTTAA
376316 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
376348 TTTATTGCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:376562 original size:6 final size:6
Alignment explanation
Indices: 376553--376587 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
376543 TGCCATTGAA
376553 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAG
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAG
376588 AACAACACTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:385066 original size:2 final size:2
Alignment explanation
Indices: 385059--385103 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
385049 CCCCTTTCTG
* * *
385059 GA GA GA GA AA GA GA AA GA AA GA GA GA GA GA GA GA GA G- GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
385100 GA GA
1 GA GA
385104 AACCTGAGAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (2 bp):
GA
Found at i:385077 original size:10 final size:10
Alignment explanation
Indices: 385059--385131 Score: 64
Period size: 10 Copynumber: 7.3 Consensus size: 10
385049 CCCCTTTCTG
385059 GAGAGAGAAA
1 GAGAGAGAAA
*
385069 GAGAAAGAAA
1 GAGAGAGAAA
385079 GAGAGAG--A
1 GAGAGAGAAA
*
385087 GAGAGAG-AG
1 GAGAGAGAAA
385096 GAGAGAGAAA
1 GAGAGAGAAA
385106 CCTGAGAG-GAAAA
1 ---GAGAGAG-AAA
385119 GAGAGAGAAA
1 GAGAGAGAAA
385129 GAG
1 GAG
385132 GGAAAAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
8 8 0.15
9 7 0.13
10 27 0.52
11 1 0.02
12 1 0.02
13 8 0.15
ACGTcount: A:0.55, C:0.03, G:0.41, T:0.01
Consensus pattern (10 bp):
GAGAGAGAAA
Found at i:385217 original size:2 final size:2
Alignment explanation
Indices: 385212--385240 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
385202 AAATTAAGAA
385212 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
385241 CCTAAAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:385369 original size:25 final size:26
Alignment explanation
Indices: 385330--385397 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 26
385320 TTATAACTGT
* *
385330 TATTTAATTATATTATATAAAAA-AA
1 TATTTAAATAAATTATATAAAAATAA
*
385355 TATTTAAATAAATTAACATAAAAATTAA
1 TATTTAAATAAATT-ATATAAAAA-TAA
*
385383 T-TTAAAATAAATTAT
1 TATTTAAATAAATTAT
385398 TTTTAATATT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 12 0.34
26 9 0.26
27 11 0.31
28 3 0.09
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (26 bp):
TATTTAAATAAATTATATAAAAATAA
Found at i:386283 original size:9 final size:9
Alignment explanation
Indices: 386269--386307 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
386259 CTCTTCTCTA
386269 TTTTATTAT
1 TTTTATTAT
386278 TTTTATTAT
1 TTTTATTAT
*
386287 TATTATTAT
1 TTTTATTAT
386296 TATTTA-TAT
1 T-TTTATTAT
386305 TTT
1 TTT
386308 CTCTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 2 0.07
9 22 0.81
10 3 0.11
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTATTAT
Found at i:386286 original size:3 final size:3
Alignment explanation
Indices: 386267--386299 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
386257 CTCTCTTCTC
*
386267 TAT T-T TAT TAT TTT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
386300 TATATTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (3 bp):
TAT
Found at i:386390 original size:12 final size:12
Alignment explanation
Indices: 386357--386394 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
386347 CATCTTTTAC
*
386357 ATATATATATAT
1 ATATATATAAAT
386369 ATATATATAAAT
1 ATATATATAAAT
*
386381 ATATAGATAAAT
1 ATATATATAAAT
386393 AT
1 AT
386395 GAGATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (12 bp):
ATATATATAAAT
Found at i:388020 original size:2 final size:2
Alignment explanation
Indices: 388013--388038 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
388003 AAAAATCCAC
388013 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
388039 GTCATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:389877 original size:12 final size:12
Alignment explanation
Indices: 389856--389905 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
389846 ATGATAAAAA
*
389856 ATATATATATTT
1 ATATAAATATTT
389868 ATATAAATATTT
1 ATATAAATATTT
* *
389880 A-ATATA-ATTA
1 ATATAAATATTT
*
389890 ATATAAATATTG
1 ATATAAATATTT
389902 ATAT
1 ATAT
389906 TTTCATTTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 4 0.13
11 8 0.26
12 19 0.61
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (12 bp):
ATATAAATATTT
Found at i:389895 original size:22 final size:23
Alignment explanation
Indices: 389858--389900 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
389848 GATAAAAAAT
*
389858 ATATATATTTATATAAATATTTA
1 ATATATATTAATATAAATATTTA
389881 ATATA-ATTAATATAAATATT
1 ATATATATTAATATAAATATT
389901 GATATTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATATATATTAATATAAATATTTA
Found at i:391774 original size:2 final size:2
Alignment explanation
Indices: 391767--391807 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
391757 CAGTCTGGAA
391767 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
391808 AAGTCAGGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:392957 original size:2 final size:2
Alignment explanation
Indices: 392952--392991 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
392942 TGTGTGTGTG
392952 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
392992 GTAAGATATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:393735 original size:16 final size:16
Alignment explanation
Indices: 393716--393777 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
393706 TATTATATAA
393716 ATAATTAAAATATTAT
1 ATAATTAAAATATTAT
*
393732 ATAA--AATATTATTAAT
1 ATAATTAA-AATATT-AT
393748 ATATATTAAAAT-TTAT
1 ATA-ATTAAAATATTAT
*
393764 ATAAATAAAATATT
1 ATAATTAAAATATT
393778 TTTAATATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
14 2 0.05
15 12 0.32
16 16 0.43
17 3 0.08
18 2 0.05
19 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATTAAAATATTAT
Found at i:393736 original size:12 final size:11
Alignment explanation
Indices: 393719--393768 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
393709 TATATAAATA
393719 ATTAAAATATT
1 ATTAAAATATT
393730 ATATAAAATATT
1 AT-TAAAATATT
*
393742 ATTAATATA-T
1 ATTAAAATATT
393752 ATTAAAAT-TT
1 ATTAAAATATT
393762 ATATAAA
1 AT-TAAA
393769 TAAAATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 11 0.32
11 12 0.35
12 11 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTAAAATATT
Found at i:393750 original size:36 final size:38
Alignment explanation
Indices: 393705--393790 Score: 103
Period size: 36 Copynumber: 2.4 Consensus size: 38
393695 TATAAATACG
*
393705 TTATT-ATATAAATAATTAAAA-TAT-TATATAAAATA
1 TTATTAATATAAATAATTAAAATTATATAAATAAAATA
393740 TTATTAATAT--AT-ATTAAAATTTATATAAATAAAATA
1 TTATTAATATAAATAATTAAAA-TTATATAAATAAAATA
*
393776 TTTTTAATATAAATA
1 TTATTAATATAAATA
393791 TGATATATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
33 7 0.17
34 2 0.05
35 8 0.19
36 23 0.55
38 2 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (38 bp):
TTATTAATATAAATAATTAAAATTATATAAATAAAATA
Found at i:393752 original size:20 final size:20
Alignment explanation
Indices: 393724--393786 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 20
393714 AAATAATTAA
393724 AATATTATATAAAATATTATT
1 AATA-TATATAAAATATTATT
393745 AATATATATTAAAAT-TTA-T
1 AATATATA-TAAAATATTATT
*
393764 -ATA-A-ATAAAATATTTTT
1 AATATATATAAAATATTATT
393781 AATATA
1 AATATA
393787 AATATGATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
15 6 0.17
16 3 0.08
17 2 0.06
18 6 0.17
19 2 0.06
20 7 0.19
21 10 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATATATATAAAATATTATT
Found at i:393764 original size:32 final size:32
Alignment explanation
Indices: 393706--393768 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
393696 ATAAATACGT
393706 TATTATATAAATAATTAAAATATTATATAAAA
1 TATTATATAAATAATTAAAATATTATATAAAA
393738 TATTAT-TAATATATATTAAAAT-TTATATAAA
1 TATTATATAA-ATA-ATTAAAATATTATATAAA
393769 TAAAATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 3 0.10
32 18 0.62
33 8 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (32 bp):
TATTATATAAATAATTAAAATATTATATAAAA
Found at i:393787 original size:20 final size:20
Alignment explanation
Indices: 393732--393790 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
393722 AAAATATTAT
* *
393732 ATAAAATATTATTAATATAT
1 ATAAAATATTTTTAATATAA
*
393752 ATTAAA-A--TTT-ATATAA
1 ATAAAATATTTTTAATATAA
393768 ATAAAATATTTTTAATATAA
1 ATAAAATATTTTTAATATAA
393788 ATA
1 ATA
393791 TGATATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
16 10 0.32
17 3 0.10
19 4 0.13
20 14 0.45
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAAAATATTTTTAATATAA
Found at i:397206 original size:21 final size:20
Alignment explanation
Indices: 397180--397219 Score: 57
Period size: 18 Copynumber: 2.0 Consensus size: 20
397170 AATTTTTATT
397180 TTATATTTATGATAAATTTAA
1 TTATATTTAT-ATAAATTTAA
397201 TTATA-TTAT-TAAATTTAA
1 TTATATTTATATAAATTTAA
397219 T
1 T
397220 AATTAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.53
20 4 0.21
21 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TTATATTTATATAAATTTAA
Found at i:397245 original size:15 final size:16
Alignment explanation
Indices: 397221--397250 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
397211 AAATTTAATA
397221 ATTAATTTATTAAAAT
1 ATTAATTTATTAAAAT
397237 ATTAA-TTATTAAAA
1 ATTAATTTATTAAAA
397251 AAATTATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTAATTTATTAAAAT
Found at i:401221 original size:2 final size:2
Alignment explanation
Indices: 401214--401244 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
401204 TAAAAACATG
*
401214 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
401245 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:402851 original size:18 final size:17
Alignment explanation
Indices: 402825--402860 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
402815 TTATGGGAAA
*
402825 ATTTTTTATTATATTTT
1 ATTTTTTATTAAATTTT
402842 ATTTTGTTATTAAATTTT
1 ATTTT-TTATTAAATTTT
402860 A
1 A
402861 AAATTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
ATTTTTTATTAAATTTT
Found at i:403790 original size:17 final size:16
Alignment explanation
Indices: 403742--403792 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
403732 GAAGTCAACC
*
403742 AATTAAATATTAAATA
1 AATTAAATATTAAACA
*
403758 AAATAAATA-TATAACA
1 AATTAAATATTA-AACA
403774 ATATTAAATATTAAACA
1 A-ATTAAATATTAAACA
403791 AA
1 AA
403793 AAATAATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 2 0.07
16 13 0.45
17 12 0.41
18 2 0.07
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (16 bp):
AATTAAATATTAAACA
Found at i:404180 original size:26 final size:29
Alignment explanation
Indices: 404141--404197 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 29
404131 TATTTTTTAT
*
404141 TTATTATTTTTTAATATATTT-T-AAAAA
1 TTATTATTTATTAATATATTTATGAAAAA
*
404168 TTATT-TTTATTAATTTATTTATGAAAAA
1 TTATTATTTATTAATATATTTATGAAAAA
404196 TT
1 TT
404198 TATATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 13 0.50
27 6 0.23
28 7 0.27
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (29 bp):
TTATTATTTATTAATATATTTATGAAAAA
Found at i:405307 original size:55 final size:54
Alignment explanation
Indices: 405204--405308 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 54
405194 TTTTTAATTT
*
405204 AATAATATTAAAAATAAATATTATCTTTAAAATCTTTCAAAAACAATTTTAAAA
1 AATAATATTAAAAATAAATATTATCTTTAAAATCTTTCAAAAAAAATTTTAAAA
* * *
405258 AATAATTATTAAAGATAAAT-TTGATTTTTAAAAT-TTTTAAAAATAAATTTT
1 AATAA-TATTAAAAATAAATATT-ATCTTTAAAATCTTTCAAAAA-AAATTTT
405309 TTTATTTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
54 15 0.34
55 29 0.66
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (54 bp):
AATAATATTAAAAATAAATATTATCTTTAAAATCTTTCAAAAAAAATTTTAAAA
Found at i:405476 original size:14 final size:14
Alignment explanation
Indices: 405457--405487 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
405447 TCGAATACGA
405457 TTTATAATTTTTAT
1 TTTATAATTTTTAT
405471 TTTATAATTTTTAT
1 TTTATAATTTTTAT
405485 TTT
1 TTT
405488 TTTCACCGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATAATTTTTAT
Found at i:405869 original size:13 final size:13
Alignment explanation
Indices: 405851--405881 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
405841 TAAATTTTAA
*
405851 TATTTAAAATTTT
1 TATTTAAAAATTT
405864 TATTTAAAAATTT
1 TATTTAAAAATTT
405877 TATTT
1 TATTT
405882 TTATACATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTTAAAAATTT
Found at i:406490 original size:21 final size:23
Alignment explanation
Indices: 406466--406508 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
406456 TTTTTAAGTT
406466 TTTA-CATTA-ATTATAAAAATA
1 TTTATCATTATATTATAAAAATA
**
406487 TTTATTTTTATATTATAAAAAT
1 TTTATCATTATATTATAAAAAT
406509 TAAAAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 3 0.17
23 11 0.61
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTATCATTATATTATAAAAATA
Found at i:408576 original size:24 final size:24
Alignment explanation
Indices: 408526--408579 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
408516 TTTTAAATTT
*
408526 TATAT-TATATATTAGTTTGTATT
1 TATATATATATATTAGTTTGTATA
408549 TATATATATATATTAGTTTTGTA-A
1 TATATATATATATTAG-TTTGTATA
408573 TATATAT
1 TATATAT
408580 TATGTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 5 0.18
24 17 0.61
25 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (24 bp):
TATATATATATATTAGTTTGTATA
Found at i:409505 original size:15 final size:16
Alignment explanation
Indices: 409487--409525 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
409477 AATTTTAATA
409487 TTTATAATTAT-TTTT
1 TTTATAATTATATTTT
*
409502 TTTAAAATTATGATTTT
1 TTTATAATTAT-ATTTT
409519 TTTATAA
1 TTTATAA
409526 AAAAAGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 10 0.50
17 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (16 bp):
TTTATAATTATATTTT
Found at i:409512 original size:21 final size:21
Alignment explanation
Indices: 409479--409521 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
409469 GATATTTAAA
*
409479 TTTTAATATTTATAATTATTTT
1 TTTTAATAATTATAATT-TTTT
*
409501 TTTTAA-AATTATGATTTTTT
1 TTTTAATAATTATAATTTTTT
409521 T
1 T
409522 ATAAAAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 8 0.42
22 6 0.32
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTAATAATTATAATTTTTT
Found at i:412558 original size:9 final size:9
Alignment explanation
Indices: 412541--412573 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
412531 TTTTTGTCTA
*
412541 ATTTCTTTT
1 ATTTATTTT
412550 ATTTATTTT
1 ATTTATTTT
412559 ATTTATTTT
1 ATTTATTTT
412568 -TTTATT
1 ATTTATT
412574 CGATAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 6 0.26
9 17 0.74
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (9 bp):
ATTTATTTT
Found at i:416971 original size:28 final size:26
Alignment explanation
Indices: 416925--416997 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
416915 CATATGTAAT
* *
416925 TAAAAAATAATATAAATATTATATAAAAA
1 TAAAAAAT-ATTTATATATTA-A-AAAAA
***
416954 TAAAAAATATTTATATATTAAAATTT
1 TAAAAAATATTTATATATTAAAAAAA
416980 TAAAAAATATTTATATAT
1 TAAAAAATATTTATATAT
416998 ACATATAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 20 0.51
27 1 0.03
28 10 0.26
29 8 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
TAAAAAATATTTATATATTAAAAAAA
Found at i:417302 original size:18 final size:19
Alignment explanation
Indices: 417281--417322 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
417271 ATATTAATCA
417281 TATATAATT-ATGAAAGTT
1 TATATAATTAATGAAAGTT
* * *
417299 TATAAAATTAATTAAATTT
1 TATATAATTAATGAAAGTT
417318 TATAT
1 TATAT
417323 TAATATTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (19 bp):
TATATAATTAATGAAAGTT
Found at i:417856 original size:2 final size:2
Alignment explanation
Indices: 417851--417875 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
417841 AAATTACACG
417851 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
417876 CATCTTAAAA
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:418184 original size:28 final size:28
Alignment explanation
Indices: 418121--418200 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
418111 TACCTTATAA
418121 ATATAATA-TAAAAATAATTAAAATATT
1 ATATAATATTAAAAATAATTAAAATATT
*
418148 ATATTATATTACAAAA-AA-TATAAATATT
1 ATATAATATTA-AAAATAATTA-AAATATT
*
418176 ATATAATATATTAAAAT-ATTAAAAT
1 ATATAATAT-TAAAAATAATTAAAAT
418201 TTTTAACATA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
27 9 0.20
28 28 0.64
29 7 0.16
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (28 bp):
ATATAATATTAAAAATAATTAAAATATT
Found at i:418238 original size:27 final size:28
Alignment explanation
Indices: 418168--418246 Score: 74
Period size: 30 Copynumber: 2.8 Consensus size: 28
418158 ACAAAAAATA
* *
418168 TAAATATTATAT-AATATATTAAAATAT
1 TAAATTTTATATAAATATATTAAAACAT
* *
418195 TAAAATTTTTAACATAAAT-TATTAATACAT
1 T-AAA-TTTT-ATATAAATATATTAAAACAT
418225 TAAATTTTATATAAATAT-TTAA
1 TAAATTTTATATAAATATATTAA
418247 TTATAATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
27 12 0.29
28 8 0.19
29 6 0.14
30 13 0.31
31 3 0.07
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TAAATTTTATATAAATATATTAAAACAT
Found at i:418247 original size:27 final size:28
Alignment explanation
Indices: 418168--418247 Score: 76
Period size: 27 Copynumber: 2.9 Consensus size: 28
418158 ACAAAAAATA
* * *
418168 TAAATATTATAT-AATATATTAAAATAT
1 TAAATTTTATATAAATATATTAATACAT
*
418195 TAAAATTTTTAACATAAAT-TATTAATACAT
1 T-AAA-TTTT-ATATAAATATATTAATACAT
418225 TAAATTTTATATAAATAT-TTAAT
1 TAAATTTTATATAAATATATTAAT
418248 TATAATTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
27 13 0.30
28 8 0.19
29 6 0.14
30 13 0.30
31 3 0.07
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TAAATTTTATATAAATATATTAATACAT
Found at i:418268 original size:21 final size:21
Alignment explanation
Indices: 418234--418273 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
418224 TTAAATTTTA
* * *
418234 TATAAATATTTAATTATAATT
1 TATAAAAATATAATAATAATT
418255 TATAAAAATATAATAATAA
1 TATAAAAATATAATAATAA
418274 AATATAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TATAAAAATATAATAATAATT
Found at i:422673 original size:10 final size:11
Alignment explanation
Indices: 422644--422676 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
422634 AACTCGCGAA
422644 AAAAATAATTT
1 AAAAATAATTT
422655 AATAAATAATTT
1 AA-AAATAATTT
422667 -AAAATAATTT
1 AAAAATAATTT
422677 TTTTAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.43
11 3 0.14
12 9 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AAAAATAATTT
Found at i:423849 original size:90 final size:89
Alignment explanation
Indices: 423726--423931 Score: 270
Period size: 90 Copynumber: 2.3 Consensus size: 89
423716 TGATTATATG
* *
423726 GGTTATATTTGGCATGGGTTTGTTTTATTTTTTATTATCAACGCCTCCTCTTTGAAAGTTCCTTT
1 GGTTATATTTGGCATGGGTTTCTTTTACTTTTTATTATCAACGCCTCCTCTTTGAAAGTTCCTTT
*
423791 TTCATTATATATGGTTTTTC-ACTT
66 TTCATTATATATGG-TTTCCGACTT
* * * * * * *
423815 GGTTCATATTTGGCATGGGTTTTTTTTACTTTTTATTTTCAATGCTTTCTTTTTGAAAGTTCTTT
1 GGTT-ATATTTGGCATGGGTTTCTTTTACTTTTTATTATCAACGCCTCCTCTTTGAAAGTTCCTT
423880 TTTCATTATATATGGTTTCCGACTT
65 TTTCATTATATATGGTTTCCGACTT
* *
423905 GGTTAATATTTGGTATGAGTTTCTTTT
1 GGTT-ATATTTGGCATGGGTTTCTTTT
423932 GATTTTTTTA
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
89 8 0.08
90 94 0.92
ACGTcount: A:0.17, C:0.12, G:0.16, T:0.55
Consensus pattern (89 bp):
GGTTATATTTGGCATGGGTTTCTTTTACTTTTTATTATCAACGCCTCCTCTTTGAAAGTTCCTTT
TTCATTATATATGGTTTCCGACTT
Found at i:430974 original size:26 final size:25
Alignment explanation
Indices: 430944--431006 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
430934 TTTCTATATT
430944 AATATTAATTTATGTTTTTATAATTA
1 AATATTAATTTAT-TTTTTATAATTA
* * *
430970 AATATAAATAATATTTTTTATCATTA
1 AATATTAAT-TTATTTTTTATAATTA
430996 AATCA-TAATTT
1 AAT-ATTAATTT
431007 GGGTTGGATC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
25 1 0.03
26 25 0.83
27 4 0.13
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (25 bp):
AATATTAATTTATTTTTTATAATTA
Found at i:432276 original size:2 final size:2
Alignment explanation
Indices: 432269--432306 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
432259 TCTGTCAGAA
432269 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
432307 TCATCATGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:434851 original size:25 final size:25
Alignment explanation
Indices: 434817--434867 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
434807 CCGTGGTGTA
*
434817 AATAGATTCTGTATTTCATACTATT
1 AATAGATTCTGTATTGCATACTATT
434842 AATAGATTCTGTATTGCATACTATT
1 AATAGATTCTGTATTGCATACTATT
434867 A
1 A
434868 CCCCTTGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (25 bp):
AATAGATTCTGTATTGCATACTATT
Found at i:435027 original size:2 final size:2
Alignment explanation
Indices: 435020--435045 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
435010 CGTCTTCTGG
435020 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
435046 ATCATCTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:437953 original size:128 final size:127
Alignment explanation
Indices: 437725--438084 Score: 561
Period size: 128 Copynumber: 2.9 Consensus size: 127
437715 GAATTCTAAT
437725 GGGTGTTTATAGTTGTATTATCTATTGTCAAATAAGGTGCAGGTCCCCCTTGTTTTAGCTTTTAG
1 GGGTGTTTATAGTTGTATTATCTATTGTCAAAT-AGGTGCAGGTCCCCCTTGTTTTAGCTTTTAG
*
437790 CAATAATAATGCTTTCTGATTATGTCCTGCGCACAATTTAAGCTCCTGAAAGAGCATGTTGAC
65 CAATAATAATGCTTTCTGATTATGTCCTGAGCACAATTTAAGCTCCTGAAAGAGCATGTTGAC
*
437853 GGGTGTTTATGGTTGTATTATCTATTGTCAAATGAGGTGCAGGTCCCCCTTGTTTTAGCTTTTAG
1 GGGTGTTTATAGTTGTATTATCTATTGTCAAAT-AGGTGCAGGTCCCCCTTGTTTTAGCTTTTAG
*
437918 CAATAATAATGCTTTCTGATTATGTCCTGAGCACAATTTAAGCTCCTGAAAGAGCATTTTGAC
65 CAATAATAATGCTTTCTGATTATGTCCTGAGCACAATTTAAGCTCCTGAAAGAGCATGTTGAC
*
437981 GGTTGTTTATAGTTGTATTATCTATTGTC-AA-A--TG-AGG-------TG---TAGCTTTTAGC
1 GGGTGTTTATAGTTGTATTATCTATTGTCAAATAGGTGCAGGTCCCCCTTGTTTTAGCTTTTAGC
438031 AATAATAATGCTTTCTGATTATGTCCTGAGCACAATTTAAGCTCCTGAAAGAGC
66 AATAATAATGCTTTCTGATTATGTCCTGAGCACAATTTAAGCTCCTGAAAGAGC
438085 GTTTTGACTG
Statistics
Matches: 226, Mismatches: 6, Indels: 16
0.91 0.02 0.06
Matches are distributed among these distances:
112 65 0.29
115 2 0.01
122 3 0.01
123 2 0.01
125 1 0.00
127 2 0.01
128 151 0.67
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.38
Consensus pattern (127 bp):
GGGTGTTTATAGTTGTATTATCTATTGTCAAATAGGTGCAGGTCCCCCTTGTTTTAGCTTTTAGC
AATAATAATGCTTTCTGATTATGTCCTGAGCACAATTTAAGCTCCTGAAAGAGCATGTTGAC
Found at i:439675 original size:2 final size:2
Alignment explanation
Indices: 439670--439705 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
439660 TACACACGCG
439670 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
439706 TATATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:441968 original size:2 final size:2
Alignment explanation
Indices: 441961--441993 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
441951 ACACTAATCT
441961 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
441994 AAATCATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:445418 original size:22 final size:22
Alignment explanation
Indices: 445393--445434 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
445383 AGGTATGTAA
* *
445393 TATAGATATTATTTATAAAATT
1 TATAGATATTAATAATAAAATT
445415 TATAGATATTAATAATAAAA
1 TATAGATATTAATAATAAAA
445435 AGCAAAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (22 bp):
TATAGATATTAATAATAAAATT
Found at i:445711 original size:18 final size:18
Alignment explanation
Indices: 445675--445712 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
445665 AAAATTTTTG
*
445675 TTAATTATATTATTTTAT
1 TTAATTAAATTATTTTAT
445693 TTAATTAAATT-TTTATAT
1 TTAATTAAATTATTT-TAT
445711 TT
1 TT
445713 TTATTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTAATTAAATTATTTTAT
Found at i:445784 original size:59 final size:58
Alignment explanation
Indices: 445709--445827 Score: 129
Period size: 59 Copynumber: 2.0 Consensus size: 58
445699 AAATTTTTAT
* *
445709 ATTTTTATTATATTTAAA-TA-AGTTAATAATTATAATTTAAT-TTTTAATTTATATTAAA
1 ATTTTTATTATATTTAAAGTATA-TTAA-AA-TAAAATTTAATCTTTTAATTTATATAAAA
* *
445767 ATTTTTATTA-ACTTTTAAAGTATATTAAAATAAAATTTTATCTTTTTATTTATATAAAA
1 ATTTTTATTATA--TTTAAAGTATATTAAAATAAAATTTAATCTTTTAATTTATATAAAA
445826 AT
1 AT
445828 AAATTTTTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
57 1 0.02
58 19 0.37
59 25 0.48
60 6 0.12
61 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (58 bp):
ATTTTTATTATATTTAAAGTATATTAAAATAAAATTTAATCTTTTAATTTATATAAAA
Done.