Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold161
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: 434478
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.30
Warning! 56201 characters in sequence are not A, C, G, or T
File 2 of 4
Found at i:96876 original size:69 final size:65
Alignment explanation
Indices: 96794--96949 Score: 167
Period size: 62 Copynumber: 2.4 Consensus size: 65
96784 AACAAAAAAT
* * ** * *
96794 ACTATTCTAATCCGATGGCACAGTTCAGAACAAAAACTATTATTCTTATTTGGTGGTATGGCAAA
1 ACTATTCTTATCCGATGGCACAGTT--G--CAAAAACCATTATTCTTATCCGGTGGCATAGCAAA
96859 AACC
62 AACC
96863 ACTATTCTTATCCGATGGCAC-G--GCAAAAACCATTATTCTTATCCGGTGGCATAGCAAAAACC
1 ACTATTCTTATCCGATGGCACAGTTGCAAAAACCATTATTCTTATCCGGTGGCATAGCAAAAACC
* *
96925 A-TAATTCTTAACCGGTGGCACAGTT
1 ACT-ATTCTTATCCGATGGCACAGTT
96950 TGAAATCGAT
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
61 1 0.01
62 51 0.68
63 1 0.01
64 1 0.01
68 1 0.01
69 20 0.27
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.29
Consensus pattern (65 bp):
ACTATTCTTATCCGATGGCACAGTTGCAAAAACCATTATTCTTATCCGGTGGCATAGCAAAAACC
Found at i:103409 original size:12 final size:12
Alignment explanation
Indices: 103378--103416 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
103368 ATATAATTAT
*
103378 ATATAAAAAATA
1 ATATAAAATATA
103390 AT-TAAAATATA
1 ATATAAAATATA
*
103401 ATATAAAATAAA
1 ATATAAAATATA
103413 ATAT
1 ATAT
103417 CGTATCGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
ATATAAAATATA
Found at i:103657 original size:20 final size:21
Alignment explanation
Indices: 103634--103694 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
103624 ATAAATTATT
*
103634 AATATATTAAAAT-TTATATA
1 AATATATTAAAATATAATATA
*
103654 AATATATTTAAATATAATATA
1 AATATATTAAAATATAATATA
* * * *
103675 AACATAATACAATATTATAT
1 AATATATTAAAATATAATAT
103695 TTTTTTTAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 12 0.36
21 21 0.64
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
AATATATTAAAATATAATATA
Found at i:103673 original size:21 final size:20
Alignment explanation
Indices: 103634--103676 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
103624 ATAAATTATT
*
103634 AATATATTAAAATTTATATA
1 AATATATTAAAATTAATATA
*
103654 AATATATTTAAATATAATATA
1 AATATATTAAAAT-TAATATA
103675 AA
1 AA
103677 CATAATACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AATATATTAAAATTAATATA
Found at i:104097 original size:20 final size:19
Alignment explanation
Indices: 104072--104109 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
104062 TTATTATATT
104072 TTAAATAATAATTAAAATTA
1 TTAAATAA-AATTAAAATTA
*
104092 TTAAATAAAATTTAAATT
1 TTAAATAAAATTAAAATT
104110 TAAATCCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAAATAAAATTAAAATTA
Found at i:105182 original size:17 final size:18
Alignment explanation
Indices: 105160--105193 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
105150 ATTTGTATTC
*
105160 AAAT-AAATATTTATTTT
1 AAATAAAATATTAATTTT
105177 AAATAAAATATTAATTT
1 AAATAAAATATTAATTT
105194 ATGTTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATAAAATATTAATTTT
Found at i:105185 original size:22 final size:22
Alignment explanation
Indices: 105160--105203 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
105150 ATTTGTATTC
*
105160 AAATAA-ATATTTATTTTAAATA
1 AAATAATA-ATTTATGTTAAATA
*
105182 AAATATTAATTTATGTTAAATA
1 AAATAATAATTTATGTTAAATA
105204 TTTATTTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
AAATAATAATTTATGTTAAATA
Found at i:105219 original size:18 final size:18
Alignment explanation
Indices: 105162--105220 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
105152 TTGTATTCAA
*
105162 ATAAATATTTATTTTAAAT
1 ATAAATATTTA-TTTAAGT
* *
105181 A-AAATATTAATTTATGT
1 ATAAATATTTATTTAAGT
105198 -TAAATATTTATTTAAGT
1 ATAAATATTTATTTAAGT
105215 ATAAAT
1 ATAAAT
105221 TTAAAATTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
17 19 0.58
18 13 0.39
19 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
ATAAATATTTATTTAAGT
Found at i:105266 original size:17 final size:17
Alignment explanation
Indices: 105244--105278 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
105234 TTATTTTTAT
105244 ATAAATTAAAAATTAAA
1 ATAAATTAAAAATTAAA
*
105261 ATAAATTATAAATTAAA
1 ATAAATTAAAAATTAAA
105278 A
1 A
105279 ATTTATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAATTAAAAATTAAA
Found at i:105289 original size:24 final size:23
Alignment explanation
Indices: 105242--105295 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
105232 ACTTATTTTT
105242 ATATAAATTAAAAATTAAAATAA
1 ATATAAATTAAAAATTAAAATAA
* **
105265 ATTATAAATTAAAAATTTATTTAA
1 A-TATAAATTAAAAATTAAAATAA
105289 ATATAAA
1 ATATAAA
105296 AAAATAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 7 0.26
24 20 0.74
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
ATATAAATTAAAAATTAAAATAA
Found at i:105326 original size:3 final size:3
Alignment explanation
Indices: 105320--105353 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
105310 CTTCAAAGAT
105320 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
105354 AATAGCAGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:105554 original size:34 final size:33
Alignment explanation
Indices: 105516--105589 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 33
105506 TTTAACATAT
105516 TATATATTTTATATAAAATTTAATATATTAATA
1 TATATATTTTATATAAAATTTAATATATTAATA
* * * *
105549 -ATATATATTATATAAATTTTGATATATTCATA
1 TATATATTTTATATAAAATTTAATATATTAATA
*
105581 TATTTATTT
1 TATATATTT
105590 ATTGTTTATG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 28 0.82
33 6 0.18
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (33 bp):
TATATATTTTATATAAAATTTAATATATTAATA
Found at i:106767 original size:17 final size:17
Alignment explanation
Indices: 106730--106777 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
106720 TAAATATTTT
106730 TTTTACTAAAAAATCAA
1 TTTTACTAAAAAATCAA
* * *
106747 TTTTATTAAAAATTCACT
1 TTTTACTAAAAAATCA-A
106765 TTTTACATAAAAA
1 TTTTAC-TAAAAA
106778 TTTCTCAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 14 0.56
18 5 0.20
19 6 0.24
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTTACTAAAAAATCAA
Found at i:109735 original size:20 final size:21
Alignment explanation
Indices: 109701--109739 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
109691 AATTTAAAAT
*
109701 TTTTTGTGTTATTTATTTAGG
1 TTTTTATGTTATTTATTTAGG
109722 TTTTTATGTT-TTTATTTA
1 TTTTTATGTTATTTATTTA
109740 AAAAATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.00, G:0.13, T:0.72
Consensus pattern (21 bp):
TTTTTATGTTATTTATTTAGG
Found at i:109782 original size:22 final size:21
Alignment explanation
Indices: 109755--109795 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
109745 TATTAAAAAT
* *
109755 TATTTTTATATTAATATTTATA
1 TATTTTAAAATTAAT-TTTATA
109777 TATTTTAAAATTAATTTTA
1 TATTTTAAAATTAATTTTA
109796 AAAAATTATT
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTTTAAAATTAATTTTATA
Found at i:109972 original size:11 final size:11
Alignment explanation
Indices: 109956--109984 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
109946 TATTTATAAA
109956 TTTATATTATT
1 TTTATATTATT
109967 TTTATATTATT
1 TTTATATTATT
109978 TTTATAT
1 TTTATAT
109985 ATCTAATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTATATTATT
Found at i:109972 original size:19 final size:18
Alignment explanation
Indices: 109926--109972 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
109916 TTAATAATTA
109926 ATATTATATAAATTTTAGT
1 ATATT-TATAAATTTTAGT
*
109945 ATATTTATAAATTTATATT
1 ATATTTATAAATTT-TAGT
*
109964 ATTTTTATA
1 ATATTTATA
109973 TTATTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
ATATTTATAAATTTTAGT
Found at i:110131 original size:2 final size:2
Alignment explanation
Indices: 110124--110149 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
110114 TTCTTTTCTT
110124 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
110150 AAAAAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:111484 original size:6 final size:6
Alignment explanation
Indices: 111475--111503 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
111465 AGAAGTAGAA
111475 GGAGAG GGAGAG GGAGAG GGAGAG GGAGA
1 GGAGAG GGAGAG GGAGAG GGAGAG GGAGA
111504 AAGACCAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
GGAGAG
Found at i:111534 original size:21 final size:21
Alignment explanation
Indices: 111508--111553 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
111498 GGGAGAAAGA
*
111508 CCAGTAGCAGTAATTCAGATG
1 CCAGTAACAGTAATTCAGATG
**
111529 CCAGTAACAGTAATTTGGATG
1 CCAGTAACAGTAATTCAGATG
111550 CCAG
1 CCAG
111554 GAGATGTTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (21 bp):
CCAGTAACAGTAATTCAGATG
Found at i:112276 original size:11 final size:11
Alignment explanation
Indices: 112262--112287 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
112252 AAATGAAAAT
112262 TAAAGTATTTA
1 TAAAGTATTTA
112273 TAAAGTATTTA
1 TAAAGTATTTA
112284 TAAA
1 TAAA
112288 TTAAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (11 bp):
TAAAGTATTTA
Found at i:112442 original size:41 final size:41
Alignment explanation
Indices: 112364--112443 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
112354 GTTTATTCGA
* *
112364 AATAAAAAAATAATATTTATAATTTAATTTAAATAATTTTT
1 AATAAAAAAATAATATTCATAATTTAATTAAAATAATTTTT
*
112405 AATATAAAAATAATAATTCA-AA-TTAATTAAAATTAATTT
1 AATAAAAAAATAAT-ATTCATAATTTAATTAAAA-TAATTT
112444 AAATTATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 9 0.26
41 21 0.62
42 4 0.12
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (41 bp):
AATAAAAAAATAATATTCATAATTTAATTAAAATAATTTTT
Found at i:112452 original size:41 final size:41
Alignment explanation
Indices: 112363--112454 Score: 100
Period size: 41 Copynumber: 2.2 Consensus size: 41
112353 AGTTTATTCG
* * *
112363 AAATAAAAAAATAATATTTATAATTTAATTTAAATAATTTT
1 AAATATAAAAATAATATTCATAATTTAATTAAAATAATTTT
*
112404 TAATATAAAAATAATAATTCA-AA-TTAATTAAAATTAA-TTT
1 AAATATAAAAATAAT-ATTCATAATTTAATTAAAA-TAATTTT
112444 AAATTATAAAA
1 AAA-TATAAAA
112455 TATTTTATCT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
40 14 0.33
41 25 0.58
42 4 0.09
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (41 bp):
AAATATAAAAATAATATTCATAATTTAATTAAAATAATTTT
Found at i:113052 original size:20 final size:20
Alignment explanation
Indices: 113007--113054 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
112997 AATTTTTTAA
*
113007 TTTTATATTAAAAATAATAT
1 TTTTAAATTAAAAATAATAT
* *
113027 TATTAAATTAAATAT-ATATT
1 TTTTAAATTAAAAATAATA-T
113047 TTTTAAAT
1 TTTTAAAT
113055 AATTATTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTTAAATTAAAAATAATAT
Found at i:113423 original size:16 final size:16
Alignment explanation
Indices: 113402--113557 Score: 106
Period size: 16 Copynumber: 9.6 Consensus size: 16
113392 GTTTTTATAT
113402 TTTTAAATTTAAATTA
1 TTTTAAATTTAAATTA
*
113418 TTTTAAATTTTAATTA
1 TTTTAAATTTAAATTA
113434 TTTT-AATTTAATATTTAAA
1 TTTTAAATTTAA-A-TT--A
* * * *
113453 TTAAATAGATTTGAGTTA
1 TT--TTAAATTTAAATTA
*
113471 TTATAAATTTAAA-TA
1 TTTTAAATTTAAATTA
** *
113486 AATTAAGTTTAACATATA
1 TTTTAAATTTAA-AT-TA
*
113504 TTTTAAATTTGAATTA
1 TTTTAAATTTAAATTA
113520 TTTTAAA-TT-AATTA
1 TTTTAAATTTAAATTA
113534 -TTTAAATTTAAATTA
1 TTTTAAATTTAAATTA
*
113549 ATTTAAATT
1 TTTTAAATT
113558 ATTTATTTTT
Statistics
Matches: 110, Mismatches: 17, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
13 6 0.05
14 7 0.06
15 23 0.21
16 46 0.42
17 4 0.04
18 13 0.12
19 3 0.03
20 2 0.02
21 1 0.01
22 5 0.05
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTTAAATTTAAATTA
Found at i:113537 original size:29 final size:29
Alignment explanation
Indices: 113403--113565 Score: 106
Period size: 29 Copynumber: 5.6 Consensus size: 29
113393 TTTTTATATT
* *
113403 TTTAAATTTAAATTATTTTAAATTTTAATTAT
1 TTTAAA-TT-AATTA-TTTAAATTTAAATTAA
*
113435 TTTAATTTAA-TATTTAAA-TTAAA-TAGA
1 TTTAAATTAATTATTTAAATTTAAATTA-A
* *
113462 TTTGAGTT-ATTA--TAAATTTAAA-TAA
1 TTTAAATTAATTATTTAAATTTAAATTAA
* * * *
113487 ATTAAGTTTAACATATATTTTAAATTTGAATTAT
1 TTTAA-ATT-A-AT-TA-TTTAAATTTAAATTAA
113521 TTTAAATTAATTATTTAAATTTAAATTAA
1 TTTAAATTAATTATTTAAATTTAAATTAA
*
113550 TTTAAATTATTTATTT
1 TTTAAATTAATTATTT
113566 TTCATGAAAT
Statistics
Matches: 104, Mismatches: 15, Indels: 27
0.71 0.10 0.18
Matches are distributed among these distances:
25 8 0.08
26 12 0.12
27 12 0.12
28 6 0.06
29 33 0.32
30 6 0.06
31 4 0.04
32 6 0.06
33 11 0.11
34 6 0.06
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (29 bp):
TTTAAATTAATTATTTAAATTTAAATTAA
Found at i:113553 original size:10 final size:10
Alignment explanation
Indices: 113509--113562 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
113499 ATATATTTTA
*
113509 AATTTGAATT
1 AATTTAAATT
*
113519 ATTTTAAATT
1 AATTTAAATT
*
113529 AA-TT-ATTT
1 AATTTAAATT
113537 AAATTTAAATT
1 -AATTTAAATT
113548 AATTTAAATT
1 AATTTAAATT
113558 -ATTTA
1 AATTTA
113563 TTTTTCATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
8 3 0.08
9 9 0.25
10 21 0.58
11 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (10 bp):
AATTTAAATT
Found at i:114022 original size:48 final size:45
Alignment explanation
Indices: 113961--114089 Score: 125
Period size: 48 Copynumber: 2.8 Consensus size: 45
113951 AGATTTGATA
*
113961 ATTTATATATTTTATTATATAATAATTATATTTAAAAATATTTTAT
1 ATTTATATATTTTATTATATAATAATTATATTTAAAAAT-TTTAAT
* * * * * *
114007 ATTGATATAAATTTTAATATATTATATTTTTATTTTATAAATTTTAAT
1 ATT--TATATATTTTATTATATAATAATTATA-TTTAAAAATTTTAAT
*
114055 ATTTTTATATTTATATTATATTAAT-ATTATATTTA
1 ATTTATATATTT-TATTATA-TAATAATTATATTTA
114090 TATATTATAT
Statistics
Matches: 65, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
46 14 0.22
47 10 0.15
48 33 0.51
49 8 0.12
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (45 bp):
ATTTATATATTTTATTATATAATAATTATATTTAAAAATTTTAAT
Found at i:114025 original size:25 final size:25
Alignment explanation
Indices: 113997--114093 Score: 83
Period size: 30 Copynumber: 3.8 Consensus size: 25
113987 TATATTTAAA
*
113997 AATATTTTATATTGATATAAATTTT
1 AATATTTTATATTTATATAAATTTT
*
114022 AATATATTATATTTTTATTTTATAAATTTT
1 AATAT-TT-TATATTTA---TATAAATTTT
* *
114052 AATATTTTTATATTTATAT-TATATT
1 AATA-TTTTATATTTATATAAATTTT
114077 AATA--TTATATTTATATA
1 AATATTTTATATTTATATA
114094 TTATATTTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
22 12 0.20
25 13 0.22
26 5 0.08
27 6 0.10
29 7 0.12
30 16 0.27
31 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (25 bp):
AATATTTTATATTTATATAAATTTT
Found at i:114059 original size:17 final size:17
Alignment explanation
Indices: 114012--114059 Score: 59
Period size: 15 Copynumber: 3.1 Consensus size: 17
114002 TTTATATTGA
*
114012 TATAAATTTTAATATAT
1 TATAAATTTTAATATTT
114029 TAT--ATTTT--TATTT
1 TATAAATTTTAATATTT
114042 TATAAATTTTAATATTT
1 TATAAATTTTAATATTT
114059 T
1 T
114060 TATATTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
13 7 0.27
15 10 0.38
17 9 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATAAATTTTAATATTT
Found at i:114066 original size:31 final size:31
Alignment explanation
Indices: 114002--114100 Score: 114
Period size: 31 Copynumber: 3.3 Consensus size: 31
113992 TTAAAAATAT
*
114002 TTTATATTGATATAAATTTTAATA-TATTATA
1 TTTATATT-ATATAAATTTTAATATTTTTATA
* *
114033 TTTTTATTTTATAAATTTTAATATTTTTATA
1 TTTATATTATATAAATTTTAATATTTTTATA
* * *
114064 TTTATATTATATTAATATT-ATATTTATATA
1 TTTATATTATATAAATTTTAATATTTTTATA
114094 -TTATATT
1 TTTATATT
114101 TTAATTATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 7 0.12
30 24 0.41
31 28 0.47
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (31 bp):
TTTATATTATATAAATTTTAATATTTTTATA
Found at i:114069 original size:6 final size:6
Alignment explanation
Indices: 114058--114101 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
114048 TTTTAATATT
*
114058 TTTATA TTTATA -TTATA TTAATA -TTATA TTTATA TATTATA TTT
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA T-TTATA TTT
114102 TAATTATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 9 0.27
6 18 0.55
7 6 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TTTATA
Found at i:114085 original size:53 final size:52
Alignment explanation
Indices: 114025--114135 Score: 129
Period size: 53 Copynumber: 2.1 Consensus size: 52
114015 AAATTTTAAT
* *
114025 ATATTATATTTTTATTTTATAAATTTTAA-TATTT-TTATATTT-ATATTATATTA
1 ATATTATATTTATATATTAT--ATTTTAATTATTTATTATATTTGAT-TTAT-TTA
* *
114078 ATATTATATTTATATATTATATTTTAATTATTTATTGTATTTGATTTATTTT
1 ATATTATATTTATATATTATATTTTAATTATTTATTATATTTGATTTATTTA
114130 ATATTA
1 ATATTA
114136 AGAGTTTAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
51 7 0.14
52 13 0.25
53 29 0.57
54 2 0.04
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (52 bp):
ATATTATATTTATATATTATATTTTAATTATTTATTATATTTGATTTATTTA
Found at i:114108 original size:11 final size:11
Alignment explanation
Indices: 114059--114092 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
114049 TTTAATATTT
114059 TTATATTTATA
1 TTATATTTATA
*
114070 TTATATTAATA
1 TTATATTTATA
114081 TTATATTTATA
1 TTATATTTATA
114092 T
1 T
114093 ATTATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATATTTATA
Found at i:114126 original size:18 final size:18
Alignment explanation
Indices: 114085--114128 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
114075 TTAATATTAT
* *
114085 ATTTATATATTATATTTT
1 ATTTATTTATTATATTTG
* *
114103 AATTATTTATTGTATTTG
1 ATTTATTTATTATATTTG
114121 ATTTATTT
1 ATTTATTT
114129 TATATTAAGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (18 bp):
ATTTATTTATTATATTTG
Found at i:114587 original size:23 final size:23
Alignment explanation
Indices: 114547--114590 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
114537 TCATTAAAAT
114547 TTTATTATTAATAAATTAAGTTA
1 TTTATTATTAATAAATTAAGTTA
*
114570 TTTA-TATTAATTATATTAAGT
1 TTTATTATTAA-TAAATTAAGT
114591 AGTTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (23 bp):
TTTATTATTAATAAATTAAGTTA
Found at i:114596 original size:22 final size:22
Alignment explanation
Indices: 114552--114597 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
114542 AAAATTTTAT
*
114552 TATTAATAAATTAAGTTATTTA
1 TATTAATAAATTAAGTTAGTTA
*
114574 TATTAATTATATTAAG-TAGTTA
1 TATTAA-TAAATTAAGTTAGTTA
114596 TA
1 TA
114598 AAAAAAAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (22 bp):
TATTAATAAATTAAGTTAGTTA
Found at i:114765 original size:14 final size:13
Alignment explanation
Indices: 114746--114779 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
114736 AACTAATTTA
114746 TTAATAATAAAATT
1 TTAATAATAAAA-T
*
114760 TTAATAATATAAT
1 TTAATAATAAAAT
114773 TTAATAA
1 TTAATAA
114780 AATTAAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAATAATAAAAT
Found at i:115630 original size:14 final size:15
Alignment explanation
Indices: 115611--115647 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
115601 TCAATAATAT
115611 TAAATATAA-TTATA
1 TAAATATAATTTATA
115625 TAAATATAATTTATA
1 TAAATATAATTTATA
115640 TAAA-ATAA
1 TAAATATAA
115648 CTAAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAAATATAATTTATA
Found at i:115672 original size:14 final size:15
Alignment explanation
Indices: 115603--115673 Score: 53
Period size: 14 Copynumber: 4.9 Consensus size: 15
115593 ACGTACACTC
115603 AATAATAT-T-AAAT
1 AATAATATATAAAAT
115616 -ATAATTATATAAATAT
1 AATAA-TATATAAA-AT
*
115632 AAT-TTATATAAAAT
1 AATAATATATAAAAT
*
115646 AACTAAAATATAAAAT
1 AA-TAATATATAAAAT
*
115662 -ATTATATATAAA
1 AATAATATATAAA
115674 TTTAAAAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
12 4 0.09
13 3 0.07
14 14 0.30
15 12 0.26
16 11 0.24
17 2 0.04
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (15 bp):
AATAATATATAAAAT
Found at i:115679 original size:20 final size:20
Alignment explanation
Indices: 115651--115709 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 20
115641 AAAATAACTA
115651 AAATATAAAATATTATATAT
1 AAATATAAAATATTATATAT
*
115671 AAATTTAAAA-ATT-TATAT
1 AAATATAAAATATTATATAT
*
115689 -AATATAAATTATTA-ATAT
1 AAATATAAAATATTATATAT
115707 AAA
1 AAA
115710 AAATTAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 7 0.21
18 12 0.36
19 5 0.15
20 9 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATATAAAATATTATATAT
Found at i:115760 original size:47 final size:49
Alignment explanation
Indices: 115652--115772 Score: 144
Period size: 49 Copynumber: 2.5 Consensus size: 49
115642 AAATAACTAA
* *
115652 AATATAAAATATTATATATAAATTTAAAAATTTATATAATATAAATTATT
1 AATATAAAAAATTA-ATATAAATATAAAAATTTATATAATATAAATTATT
* *
115702 AATATAAAAAATTAATAAAAATATAAAAATTTTTA-AATAT-AATTA-T
1 AATATAAAAAATTAATATAAATATAAAAATTTATATAATATAAATTATT
*
115748 AATATTATAAAA-T-ATATAAATATAA
1 AATA-TAAAAAATTAATATAAATATAA
115773 TATAAACATA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
45 11 0.17
46 6 0.09
47 11 0.17
48 5 0.08
49 18 0.28
50 13 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (49 bp):
AATATAAAAAATTAATATAAATATAAAAATTTATATAATATAAATTATT
Found at i:115785 original size:19 final size:18
Alignment explanation
Indices: 115748--115787 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
115738 ATATAATTAT
* *
115748 AATATTATAAAATATATA
1 AATATAATAAAACATATA
115766 AATATAATATAAACATATA
1 AATATAATA-AAACATATA
115785 AAT
1 AAT
115788 TATTTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
AATATAATAAAACATATA
Found at i:116018 original size:27 final size:27
Alignment explanation
Indices: 115974--116034 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 27
115964 CTCATGGGTT
*
115974 AATTTATTTTTTTTAATATATT-TT-TA
1 AATTT-TTTTTTTTAATAAATTATTATA
116000 AATTTTTTATTTTGTAATAAATTATTATA
1 AATTTTTT-TTTT-TAATAAATTATTATA
116029 AATTTT
1 AATTTT
116035 AAATGATCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 3 0.10
26 9 0.30
27 8 0.27
28 2 0.07
29 8 0.27
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (27 bp):
AATTTTTTTTTTTAATAAATTATTATA
Found at i:117055 original size:14 final size:15
Alignment explanation
Indices: 117030--117063 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
117020 ACTTATAATC
117030 ATAATATTCAATTTT
1 ATAATATTCAATTTT
*
117045 TTAAT-TTCAATTTT
1 ATAATATTCAATTTT
117059 ATAAT
1 ATAAT
117064 CCAAAACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (15 bp):
ATAATATTCAATTTT
Found at i:117970 original size:24 final size:24
Alignment explanation
Indices: 117942--117987 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
117932 AATAAAAATT
117942 AGCCACCAATTT-TGACAAACAACA
1 AGCCACCAATTTGT-ACAAACAACA
*
117966 AGCCATCAATTTGTACAAACAA
1 AGCCACCAATTTGTACAAACAA
117988 AAATAACCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.46, C:0.26, G:0.09, T:0.20
Consensus pattern (24 bp):
AGCCACCAATTTGTACAAACAACA
Found at i:118024 original size:28 final size:28
Alignment explanation
Indices: 117992--118072 Score: 144
Period size: 28 Copynumber: 2.9 Consensus size: 28
117982 AAACAAAAAT
*
117992 AACCACCATATTTGACAAATATAAAGGA
1 AACCACCATATTTGACAAATACAAAGGA
118020 AACCACCATATTTGACAAATACAAAGGA
1 AACCACCATATTTGACAAATACAAAGGA
*
118048 AACTACCATATTTGACAAATACAAA
1 AACCACCATATTTGACAAATACAAA
118073 TGGTGGCATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.51, C:0.20, G:0.09, T:0.21
Consensus pattern (28 bp):
AACCACCATATTTGACAAATACAAAGGA
Found at i:122597 original size:24 final size:24
Alignment explanation
Indices: 122569--122614 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
122559 AATAAAAATT
122569 AGCCACCAATTT-TGACAAACAACA
1 AGCCACCAATTTGT-ACAAACAACA
122593 AGCCACCAATTTGTACAAACAA
1 AGCCACCAATTTGTACAAACAA
122615 AAATAACCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.46, C:0.28, G:0.09, T:0.17
Consensus pattern (24 bp):
AGCCACCAATTTGTACAAACAACA
Found at i:122652 original size:28 final size:28
Alignment explanation
Indices: 122619--122701 Score: 148
Period size: 28 Copynumber: 3.0 Consensus size: 28
122609 AAACAAAAAT
*
122619 AACCACCATATTTGACAAATATAAAGGA
1 AACCACCATATTTGACAAATACAAAGGA
122647 AACCACCATATTTGACAAATACAAAGGA
1 AACCACCATATTTGACAAATACAAAGGA
*
122675 AACTACCATATTTGACAAATACAAAGG
1 AACCACCATATTTGACAAATACAAAGG
122702 GTGACATTTG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.49, C:0.19, G:0.11, T:0.20
Consensus pattern (28 bp):
AACCACCATATTTGACAAATACAAAGGA
Found at i:122806 original size:2 final size:2
Alignment explanation
Indices: 122799--122826 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
122789 ATTTGGAACT
122799 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
122827 AACAAGCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:123093 original size:11 final size:11
Alignment explanation
Indices: 123067--123141 Score: 55
Period size: 11 Copynumber: 6.5 Consensus size: 11
123057 AATCATCTTA
*
123067 TATATTTATAA
1 TATATTTATAT
*
123078 CATATTTATAT
1 TATATTTATAT
123089 TATATTTA-ATT
1 TATATTTATA-T
*
123100 TATTTTTTATAT
1 TA-TATTTATAT
123112 TATATTT-TAAT
1 TATATTTAT-AT
*
123123 TATTTTTTAATAT
1 TA-TATTT-ATAT
123136 TATATT
1 TATATT
123142 CGTATAATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
10 2 0.04
11 27 0.54
12 15 0.30
13 5 0.10
14 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTTATAT
Found at i:123129 original size:24 final size:24
Alignment explanation
Indices: 123082--123141 Score: 97
Period size: 23 Copynumber: 2.5 Consensus size: 24
123072 TTATAACATA
123082 TTTATATTATA-TTTAATTTATTT
1 TTTATATTATATTTTAATTTATTT
123105 TTTATATTATATTTTAA-TTATTT
1 TTTATATTATATTTTAATTTATTT
123128 TTTAATATTATATT
1 TTT-ATATTATATT
123142 CGTATAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
23 20 0.57
24 15 0.43
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTATATTATATTTTAATTTATTT
Found at i:123683 original size:20 final size:20
Alignment explanation
Indices: 123658--123704 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
123648 GCTGAGCTCT
123658 GAGTTTGAGTTAAATTTTGA
1 GAGTTTGAGTTAAATTTTGA
*
123678 GAGTTTGAGTTGAATTTTGA
1 GAGTTTGAGTTAAATTTTGA
123698 GA-TTTGA
1 GAGTTTGA
123705 AATCCAGTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (20 bp):
GAGTTTGAGTTAAATTTTGA
Found at i:127430 original size:2 final size:2
Alignment explanation
Indices: 127425--127455 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
127415 AAATATATGC
*
127425 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
127456 GGCATATTTC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:127678 original size:2 final size:2
Alignment explanation
Indices: 127671--127697 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
127661 ATTTATCAGT
127671 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
127698 TTGTTAAGCT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:128818 original size:3 final size:3
Alignment explanation
Indices: 128810--128849 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
128800 TTGATAGCAA
* * *
128810 TGC TGC TGC TGC TGC TGC TGC TGT TTC TGC TGC TGA TGC T
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC T
128850 TCTGGTGCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.03, C:0.28, G:0.30, T:0.40
Consensus pattern (3 bp):
TGC
Found at i:129892 original size:203 final size:203
Alignment explanation
Indices: 129543--129928 Score: 745
Period size: 203 Copynumber: 1.9 Consensus size: 203
129533 TTCAATTTTT
*
129543 TCTATGCTTTTCCATGTATTTGGAGGGTCATATCCCCATACTTATGTCAGCAAATATGTCGGACA
1 TCTATGCTTTTCCATGTATTTGGAGGGTCATATCCCCATACTTATGTCAGAAAATATGTCGGACA
*
129608 CAGATGTCAGACACGGATATTTTAAGAAAAATGAAGAGTCGTAGCAACATAGGTCCTCATCTTGG
66 CAGATGTCAGACACGGATATTTTAAGAAAAATAAAGAGTCGTAGCAACATAGGTCCTCATCTTGG
*
129673 TTCAAGTTTTTAAGTCAAGCGTCTATTGTCTTCTGCTATAAAAGACAGGACCATATTGGAAAAGC
131 TTCAAGTTTTTAAGTCAAGCGTCTATTGTCTTCTGCTATAAAAGAAAGGACCATATTGGAAAAGC
129738 GTCTATTG
196 GTCTATTG
129746 TCTATGCTTTTCCATGTATTTGGAGGGTCATATCCCCATACTTATGTCAGAAAATATGTCGGACA
1 TCTATGCTTTTCCATGTATTTGGAGGGTCATATCCCCATACTTATGTCAGAAAATATGTCGGACA
129811 CAGATGTCAGACACGGATATTTTAAGAAAAATAAAGAGTCGTAGCAACATAGGTCCTCATCTTGG
66 CAGATGTCAGACACGGATATTTTAAGAAAAATAAAGAGTCGTAGCAACATAGGTCCTCATCTTGG
129876 TTCAAGTTTTTAAGTCAAGCGTCTATTGTCTTCTGCTATAAAAGAAAGGACCA
131 TTCAAGTTTTTAAGTCAAGCGTCTATTGTCTTCTGCTATAAAAGAAAGGACCA
129929 ATGAACACTT
Statistics
Matches: 180, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
203 180 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (203 bp):
TCTATGCTTTTCCATGTATTTGGAGGGTCATATCCCCATACTTATGTCAGAAAATATGTCGGACA
CAGATGTCAGACACGGATATTTTAAGAAAAATAAAGAGTCGTAGCAACATAGGTCCTCATCTTGG
TTCAAGTTTTTAAGTCAAGCGTCTATTGTCTTCTGCTATAAAAGAAAGGACCATATTGGAAAAGC
GTCTATTG
Found at i:133007 original size:2 final size:2
Alignment explanation
Indices: 133000--133024 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
132990 AAGGGGGCTC
133000 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 A
133025 ATCAGTATGA
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:133352 original size:22 final size:22
Alignment explanation
Indices: 133326--133368 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
133316 AAGTTACATT
133326 TAAAAT-TTAAAATTATTATTTA
1 TAAAATATTAAAATT-TTATTTA
133348 TAAAATATTAAAATTTTATTT
1 TAAAATATTAAAATTTTATTT
133369 TTATATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TAAAATATTAAAATTTTATTTA
Found at i:133376 original size:19 final size:21
Alignment explanation
Indices: 133352--133394 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
133342 TATTTATAAA
133352 ATATTAAAATTT-TAT-TTTT
1 ATATTAAAATTTATATATTTT
*
133371 ATATTAATATTTATATATTTT
1 ATATTAAAATTTATATATTTT
133392 ATA
1 ATA
133395 AATAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 3 0.14
21 7 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATTAAAATTTATATATTTT
Found at i:134825 original size:21 final size:19
Alignment explanation
Indices: 134799--134846 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
134789 ATATAAATCA
*
134799 TTAATATGTTAAATTATATAT
1 TTAATATCTTAAA-TATA-AT
134820 TTAATATCTTAAATATAAT
1 TTAATATCTTAAATATAAT
134839 TATAATAT
1 T-TAATAT
134847 AAAAATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.40
21 12 0.48
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
TTAATATCTTAAATATAAT
Found at i:134859 original size:5 final size:5
Alignment explanation
Indices: 134831--134878 Score: 69
Period size: 5 Copynumber: 9.2 Consensus size: 5
134821 TAATATCTTA
*
134831 AATAT AATTAT AATAT AAAAAT AATAT AATAT AATAT AATAT AATAT A
1 AATAT AA-TAT AATAT -AATAT AATAT AATAT AATAT AATAT AATAT A
134879 CGGACTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
5 30 0.77
6 9 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:135308 original size:23 final size:24
Alignment explanation
Indices: 135282--135336 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 24
135272 TGGATAAATT
*
135282 AAAAAATTTATATCATT-ATTTAA
1 AAAAAATTTATATAATTAATTTAA
* *
135305 AAAATATTTTTATAATTAAATTTAA
1 AAAAAATTTATATAATT-AATTTAA
135330 ATAAAAA
1 A-AAAAA
135337 ATAATTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 14 0.56
25 7 0.28
26 4 0.16
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
AAAAAATTTATATAATTAATTTAA
Found at i:135490 original size:2 final size:2
Alignment explanation
Indices: 135485--135514 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
135475 ATTCTTCTTA
135485 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
135515 TGAGCTGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:141472 original size:97 final size:97
Alignment explanation
Indices: 141291--141478 Score: 259
Period size: 97 Copynumber: 1.9 Consensus size: 97
141281 TTATTCATAA
* * * *
141291 GGATACTCCAACCCTATTCTTTCGATAAGATACTCTAACCTCATTTTAAAACTTGTCAATATTTA
1 GGATACTCCAACCCTATTCTTTCGAGAAGATACTCCAACCCCATTTTAAAACTTGTCAAGATTTA
****
141356 AATCTTATTTTTGTTTAAATTGTCATTATCAG
66 AATCTTATTTTCACCTAAATTGTCATTATCAG
* ** * *
141388 GGATACTTCAACCCTATTCTTTCGAGGGGATACTCCAACCCCGTTTTTAAACTTGTCAAGATTTA
1 GGATACTCCAACCCTATTCTTTCGAGAAGATACTCCAACCCCATTTTAAAACTTGTCAAGATTTA
141453 AATCTTATTTTCACCTAAATTGTCAT
66 AATCTTATTTTCACCTAAATTGTCAT
141479 CATCGGAGAC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
97 78 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (97 bp):
GGATACTCCAACCCTATTCTTTCGAGAAGATACTCCAACCCCATTTTAAAACTTGTCAAGATTTA
AATCTTATTTTCACCTAAATTGTCATTATCAG
Found at i:141497 original size:97 final size:98
Alignment explanation
Indices: 141297--141503 Score: 249
Period size: 97 Copynumber: 2.1 Consensus size: 98
141287 ATAAGGATAC
* * * *
141297 TCCAACCCTATTCTTTCGATAAGATACTCTAACCTCATTTTAAAACTTGTCAATATTTAAATCTT
1 TCCAACCCTATTCTTTCGAGAAGATACTCCAACCCCATTTTAAAACTTGTCAAGATTTAAATCTT
**** * *
141362 ATTTTTGTTTAAATTGTCATTATCAGGGATACT
66 ATTTTCACCTAAATTGTCATCATCAGGGACACT
** * *
141395 T-CAACCCTATTCTTTCGAGGGGATACTCCAACCCCGTTTTTAAACTTGTCAAGATTTAAATCTT
1 TCCAACCCTATTCTTTCGAGAAGATACTCCAACCCCATTTTAAAACTTGTCAAGATTTAAATCTT
141459 ATTTTCACCTAAATTGTCATCATC-GGAGACA-T
66 ATTTTCACCTAAATTGTCATCATCAGG-GACACT
*
141491 TCCAACCCCATTC
1 TCCAACCCTATTC
141504 CTCTGAAGAG
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
96 4 0.04
97 87 0.95
98 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (98 bp):
TCCAACCCTATTCTTTCGAGAAGATACTCCAACCCCATTTTAAAACTTGTCAAGATTTAAATCTT
ATTTTCACCTAAATTGTCATCATCAGGGACACT
Found at i:141532 original size:97 final size:97
Alignment explanation
Indices: 141299--141532 Score: 242
Period size: 97 Copynumber: 2.4 Consensus size: 97
141289 AAGGATACTC
* * * * *
141299 CAACCCTATTCTTTCGATA-AGATACTCTAACCTCATTTTAAAACTTGTCAATATTTAAATCTTA
1 CAACCCCATTCTCTCGA-AGAGATACTCTAACCCCATTTTTAAACTTGTCAAGATTTAAATCTTA
**** * *
141363 TTTTTGTTTAAATTGTCATTATCAGGGATACTT
65 TTTTCACCTAAATTGTCATCATCAGGGACACTT
* * * * * *
141396 CAACCCTATTCTTTCGAGGGGATACTCCAACCCCGTTTTTAAACTTGTCAAGATTTAAATCTTAT
1 CAACCCCATTCTCTCGAAGAGATACTCTAACCCCATTTTTAAACTTGTCAAGATTTAAATCTTAT
141461 TTTCACCTAAATTGTCATCATC-GGAGACA-TT
66 TTTCACCTAAATTGTCATCATCAGG-GACACTT
*
141492 CCAACCCCATTC-CTCTGAAGAGATACTCTAGCCCCATTTTT
1 -CAACCCCATTCTCTC-GAAGAGATACTCTAACCCCATTTTT
141533 CAACAAAAAA
Statistics
Matches: 113, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
96 6 0.05
97 107 0.95
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.38
Consensus pattern (97 bp):
CAACCCCATTCTCTCGAAGAGATACTCTAACCCCATTTTTAAACTTGTCAAGATTTAAATCTTAT
TTTCACCTAAATTGTCATCATCAGGGACACTT
Found at i:144705 original size:39 final size:39
Alignment explanation
Indices: 144657--144782 Score: 130
Period size: 39 Copynumber: 3.2 Consensus size: 39
144647 ATATCAAAAG
*
144657 ATCACAAGATCAATCAAATTCATATAAATCCAAAAATGC
1 ATCAAAAGATCAATCAAATTCATATAAATCCAAAAATGC
* * * **
144696 ATCAAAAGATCAATTAAATCCATATAAAAT-GAAAAATTT
1 ATCAAAAGATCAATCAAATTCATAT-AAATCCAAAAATGC
* * *
144735 ATCAAAAGATCAATCACATTCATCTAAGA-CCAAATATGC
1 ATCAAAAGATCAATCAAATTCATATAA-ATCCAAAAATGC
*
144774 ATTAAAAGA
1 ATCAAAAGA
144783 CCATAATAAG
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
38 2 0.03
39 63 0.91
40 4 0.06
ACGTcount: A:0.52, C:0.17, G:0.06, T:0.25
Consensus pattern (39 bp):
ATCAAAAGATCAATCAAATTCATATAAATCCAAAAATGC
Found at i:147222 original size:79 final size:77
Alignment explanation
Indices: 147127--147628 Score: 453
Period size: 79 Copynumber: 6.4 Consensus size: 77
147117 TTCCTCAATG
*
147127 GTGAAAAATCGATGTTTT-GAAAATAAAATCGGGATTGAAGTATCCCAGCAGAAATAACGAGGTT
1 GTGAAAAATCGATGTTTTAG-AAATAAAATCGGG-TTGAAGTATCCC-TCAGAAATAACGAGGTT
147191 GGAGTATCCACGATT
63 GGAGTATCCACGATT
* * * * * * * *
147206 GTAAAAAATCAATGTTTTAGAAATAAAACTGGGGGTGAAGCATCCCATCAGAAATAATGGGGTTA
1 GTGAAAAATCGATGTTTTAGAAATAAAA-TCGGGTTGAAGTATCCC-TCAGAAATAACGAGGTTG
*
147271 GAGTAT-CATTGATT
64 GAGTATCCA-CGATT
* * * * *
147285 GTGAAAAATCGGTGTTTTAGAAATAAAAATTGGTGTTGGAGTATCCCCTCAAAAATAACGGGGTT
1 GTGAAAAATCGATGTTTTAGAAAT-AAAATCGG-GTTGAAGTAT-CCCTCAGAAATAACGAGGTT
*
147350 GGAGTATCCCCGATT
63 GGAGTATCCACGATT
* * * * * * *
147365 ATGAAAAATCGATATTTTGGAAATAAAATTGGGGTTGGAGTATCTTCTC-GAAAATAATGAGGTT
1 GTGAAAAATCGATGTTTTAGAAATAAAA-TCGGGTTGAAGTATC-CCTCAG-AAATAACGAGGTT
*
147429 GGAGTATCCCCGATT
63 GGAGTATCCACGATT
* * * *
147444 GTGAAAAAATAG-TGTTTTGGAAATAAAA-CTGGGTTGGAGTATTCCCTC-GAAAATAACGGGGT
1 GTG-AAAAATCGATGTTTTAGAAATAAAATC-GGGTTGAAGTA-TCCCTCAG-AAATAACGAGGT
*
147506 TGGAGTATCCTCGATT
62 TGGAGTATCCACGATT
* **
147522 GTGAAAAATCGATGTTTTAGAAATAAAATTAGGGTTGAAGTATCCCCTC-GAAAATAATAAGGTT
1 GTGAAAAATCGATGTTTTAGAAATAAAA-TCGGGTTGAAGTAT-CCCTCAG-AAATAACGAGGTT
*
147586 GGAGTATTCC-CGATG
63 GGAGTA-TCCACGATT
* *
147601 GTGAAAAATCGGTATTTTAGAAATAAAA
1 GTGAAAAATCGATGTTTTAGAAATAAAA
147629 ACATGAATAA
Statistics
Matches: 356, Mismatches: 49, Indels: 36
0.81 0.11 0.08
Matches are distributed among these distances:
77 7 0.02
78 63 0.18
79 208 0.58
80 74 0.21
81 4 0.01
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (77 bp):
GTGAAAAATCGATGTTTTAGAAATAAAATCGGGTTGAAGTATCCCTCAGAAATAACGAGGTTGGA
GTATCCACGATT
Found at i:147420 original size:159 final size:156
Alignment explanation
Indices: 147127--147629 Score: 584
Period size: 157 Copynumber: 3.2 Consensus size: 156
147117 TTCCTCAATG
* * * ** * *
147127 GTGAAAAATCGATGTTTT-GAAA-ATAAAATCGGGATTGAAGTATCCCAGCAGAAATAACGAGGT
1 GTGAAAAATCGGTGTTTTAGAAATA-AAAATTGGG-TTGGAGTATCCCCTCAAAAATAACGGGGT
* * * * *
147190 TGGAGTATCCACGATTGTAAAAAATCAATGTTTTAGAAATAAAACTGGGGGTGAAGCATCCCATC
64 TGGAGTATCCACGATTGTGAAAAATCGATGTTTTAGAAATAAAATTGGGGTTGAAGTATCCC-TC
* * **
147255 -AGAAATAATGGGGTTAGAGTATCATTGATT
128 GA-AAATAATGAGGTTGGAGTATC-CCGATT
147285 GTGAAAAATCGGTGTTTTAGAAATAAAAATTGGTGTTGGAGTATCCCCTCAAAAATAACGGGGTT
1 GTGAAAAATCGGTGTTTTAGAAATAAAAATTGG-GTTGGAGTATCCCCTCAAAAATAACGGGGTT
* * * * * *
147350 GGAGTATCCCCGATTATGAAAAATCGATATTTTGGAAATAAAATTGGGGTTGGAGTATCTTCTCG
65 GGAGTATCCACGATTGTGAAAAATCGATGTTTTAGAAATAAAATTGGGGTTGAAGTATC-CCTCG
147415 AAAATAATGAGGTTGGAGTATCCCCGATT
129 AAAATAATGAGGTTGGAGTAT-CCCGATT
* * * * *
147444 GTGAAAAAAT-AGTGTTTTGGAAAT-AAAACTGGGTTGGAGTATTCCCTCGAAAATAACGGGGTT
1 GTG-AAAAATCGGTGTTTTAGAAATAAAAATTGGGTTGGAGTATCCCCTCAAAAATAACGGGGTT
* *
147507 GGAGTATCCTCGATTGTGAAAAATCGATGTTTTAGAAATAAAATTAGGGTTGAAGTATCCCCTCG
65 GGAGTATCCACGATTGTGAAAAATCGATGTTTTAGAAATAAAATTGGGGTTGAAGTAT-CCCTCG
* *
147572 AAAATAATAAGGTTGGAGTATTCCCGATG
129 AAAATAATGAGGTTGGAGTA-TCCCGATT
*
147601 GTGAAAAATCGGTATTTTAGAAATAAAAA
1 GTGAAAAATCGGTGTTTTAGAAATAAAAA
147630 CATGAATAAA
Statistics
Matches: 295, Mismatches: 39, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
156 6 0.02
157 124 0.42
158 30 0.10
159 124 0.42
160 11 0.04
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (156 bp):
GTGAAAAATCGGTGTTTTAGAAATAAAAATTGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTG
GAGTATCCACGATTGTGAAAAATCGATGTTTTAGAAATAAAATTGGGGTTGAAGTATCCCTCGAA
AATAATGAGGTTGGAGTATCCCGATT
Found at i:153292 original size:19 final size:19
Alignment explanation
Indices: 153268--153335 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
153258 AATTCAACGA
153268 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
153287 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
153302 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
153319 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
153336 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:153306 original size:32 final size:32
Alignment explanation
Indices: 153270--153332 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
153260 TTCAACGATT
*
153270 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
153302 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
153333 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:153307 original size:13 final size:13
Alignment explanation
Indices: 153289--153313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
153279 ACATAAGTTT
153289 TGTATCGATACAA
1 TGTATCGATACAA
153302 TGTATCGATACA
1 TGTATCGATACA
153314 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:155734 original size:51 final size:52
Alignment explanation
Indices: 155667--156050 Score: 209
Period size: 52 Copynumber: 7.3 Consensus size: 52
155657 AATTCTCCAC
* * * *
155667 AATCGGAGATATTCCAACTCCGATTTTATTTTC-AAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCTAT
*
155718 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAA-TTTCTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTTTC-T-AT
* * * *** * * * *
155772 AATCGGGGATACTCCAACCCCG--TTGATCATCGGGGATACTCCAA-CTCCGT-T
1 AATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAATTTTC-TAT
* * * * ***
155823 ATTTCCGAGGGGATACTCCAACCCCGA-CTTATTTCC-AAAATATTGATTTT-TCAT
1 A-AT-C--GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCT-AT
* * * * * * *
155877 AATCGGGGATATTCCAA-TCCCGGTTTTA-TTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAAACACCAA-TTTTCTAT
* * * * *
155929 AATCGGGGATACTCCAACCCCGGTTTTATTTTC-GAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTT-CTAT
* *
155981 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTT-TCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCT-AT
*
156033 AATCGAGGATACTCCAAC
1 AATCGGGGATACTCCAAC
156051 CTCGTTATTT
Statistics
Matches: 251, Mismatches: 58, Indels: 47
0.71 0.16 0.13
Matches are distributed among these distances:
50 18 0.07
51 46 0.18
52 97 0.39
53 42 0.17
54 25 0.10
55 20 0.08
56 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (52 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCTAT
Found at i:155843 original size:28 final size:29
Alignment explanation
Indices: 155803--155858 Score: 87
Period size: 28 Copynumber: 1.9 Consensus size: 29
155793 GTTGATCATC
*
155803 GGGGATACTCCAACTCCG-TTATTTCCGA
1 GGGGATACTCCAACCCCGATTATTTCCGA
155831 GGGGATACTCCAACCCCGACTTATTTCC
1 GGGGATACTCCAACCCCGA-TTATTTCC
155859 AAAATATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 17 0.68
30 8 0.32
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.27
Consensus pattern (29 bp):
GGGGATACTCCAACCCCGATTATTTCCGA
Found at i:155857 original size:30 final size:28
Alignment explanation
Indices: 155776--155858 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 28
155766 CTTCACAATC
*
155776 GGGGATACTCCAACCCCGTTGATCAT-C--
1 GGGGATACTCCAACCCCGTT-AT-TTCCGA
*
155803 GGGGATACTCCAACTCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
155831 GGGGATACTCCAACCCCGACTTATTTCC
1 GGGGATACTCCAACCCCG--TTATTTCC
155859 AAAATATTGA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
25 1 0.02
26 3 0.06
27 19 0.40
28 17 0.35
30 8 0.17
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCGA
Found at i:156070 original size:28 final size:28
Alignment explanation
Indices: 156034--156110 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
156024 ATTTTTCACA
* * *
156034 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
156062 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
156090 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
156111 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:156177 original size:107 final size:107
Alignment explanation
Indices: 155985--156189 Score: 252
Period size: 107 Copynumber: 1.9 Consensus size: 107
155975 TCCTTTAATC
* * *
155985 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
156050 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTT-ATCGGGGATACTCCAACCCCGTTACTTCCGA
* * *** * * *
156093 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
156157 CCCCGTTATTT-TCGAAGGGATACTCCAATCCCG
66 CCCCGTTATTTATCG--GGGATACTCCAACCCCG
156190 ATTTTTTTTC
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
105 3 0.04
107 58 0.71
108 21 0.26
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:156243 original size:78 final size:79
Alignment explanation
Indices: 156065--156265 Score: 237
Period size: 78 Copynumber: 2.6 Consensus size: 79
156055 TTATTTCATC
* * * * *
156065 GGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATT
1 GGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGATTTATTCCCAAAATATC
* *
156130 GATTTCTCATAATT
66 GATTTCTCACAACT
* * ** *
156144 GGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCC-GATTTTTTTTC-TAATCAT
1 GGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGATTTATTCCCAAAAT-AT
156207 CGATTTCTCACAACT
65 CGATTTCTCACAACT
* *
156222 GGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCC
1 GGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCC
156266 TGTTATTATC
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
77 8 0.08
78 56 0.53
79 41 0.39
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGATTTATTCCCAAAATATC
GATTTCTCACAACT
Found at i:168683 original size:12 final size:11
Alignment explanation
Indices: 168666--168695 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
168656 CTTCTCTTCA
168666 AAAAAAAAAGG
1 AAAAAAAAAGG
168677 CAAAAAAAAAGG
1 -AAAAAAAAAGG
168689 AAAAAAA
1 AAAAAAA
168696 CAAAAAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.83, C:0.03, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGG
Found at i:169777 original size:55 final size:55
Alignment explanation
Indices: 169693--170541 Score: 987
Period size: 55 Copynumber: 15.0 Consensus size: 55
169683 CTTCTCCGTC
* * *
169693 CATTTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACATAAGTTGGTGG
1 CATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG
169748 CATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG
1 CATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG
*
169803 CATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTCGGTGG
1 CATTTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGG
* * *
169858 CATTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGG
1 CATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG
* * *
169913 CATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGG
1 CATTTTCCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGG
* * * *
169974 CGTCTTCCAGTCCTCAAAGAGGAGGAAACCTCTT-AAAGCCCACACAAGTTGGTGG
1 CATTTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGG
***
170029 CGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGG
1 CATTTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGG
* * *
170084 CATTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGG
1 CATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG
* * *
170139 CATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGG
1 CATTTTCCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGG
* *
170200 CACCTTTT--AGTCCTCAAAGAGCAGGATGCTTTGTCTTTTCAAAGCCCACACAAGTTGGTGG
1 CA--TTTTCCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGG
*** *
170261 CGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACAAAAGTTGGTGG
1 CATTTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGG
* * * *
170316 CACCTTT-CAGTCCCCAAAGAGCATGACACCTTTCAAAGCCCACCCAAGTTGGTGG
1 CA-TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG
* * *
170371 CATTTT-CAGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGG
1 CATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG
* * *
170425 CATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGG
1 CATTTTCCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGG
* *
170486 CA-TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTAGTGG
1 CATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG
170540 CA
1 CA
170542 AACCTTCCCA
Statistics
Matches: 702, Mismatches: 62, Indels: 61
0.85 0.08 0.07
Matches are distributed among these distances:
54 85 0.12
55 406 0.58
56 9 0.01
57 3 0.00
58 1 0.00
59 3 0.00
60 22 0.03
61 169 0.24
63 4 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (55 bp):
CATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:169781 original size:27 final size:27
Alignment explanation
Indices: 169751--169833 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
169741 TTGGTGGCAT
169751 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
169778 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
169806 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
169833 T
1 T
169834 CTTAAAGCCC
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:170085 original size:226 final size:228
Alignment explanation
Indices: 169723--170541 Score: 1160
Period size: 226 Copynumber: 3.6 Consensus size: 228
169713 GCAGGACACC
* * *
169723 TTTCAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC-C-TTTCAAAG
1 TTTCAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCCTCAAAGAGCAGGATACTCTTTTCAAAG
***
169786 CCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAG
66 CCCACACAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAG
*
169851 TCGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCAT
131 TTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCAT
169916 TTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCT
196 TTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCT
* * * *
169949 TTTCAAAGCCCACACAAGTTGGTGGCGTCTTCCAGTCCTCAAAGAGGAGGAAAC-CTCTT-AAAG
1 TTTCAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCCTCAAAGAGCAGGATACTCTTTTCAAAG
170012 CCCACACAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAG
66 CCCACACAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAG
170077 TTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCAT
131 TTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCAT
170142 TTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCT
196 TTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCT
* ** *
170175 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCTTTGTCTTTTC
1 TTTCAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCCTCAAAGAGCAGGATAC----TCTTTTC
170240 AAAGCCCACACAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
62 AAAGCCCACACAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
* * * * * * * *
170305 AAAGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCATGACACCTTTCAAAGCCCACCCAAGTTGGT
127 CAAGTTGGTGGCA-TTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGT
* **
170369 GGCA-TTTTCAGTCCCCAAAGAGCAGGA--C---ACCT
191 GGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCT
* * * *
170401 TTT-AAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
1 TTTCAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCCTCAAAGAGCAGGATAC----TCTTTTC
** *
170465 AAAGCCCACACAAGTTGGTGGC-ATTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACA
62 AAAGCCCACACAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
*
170529 CAAGTTAGTGGCA
127 CAAGTTGGTGGCA
170542 AACCTTCCCA
Statistics
Matches: 546, Mismatches: 39, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
224 50 0.09
225 78 0.14
226 265 0.49
227 2 0.00
229 1 0.00
231 26 0.05
232 121 0.22
233 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (228 bp):
TTTCAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCCTCAAAGAGCAGGATACTCTTTTCAAAG
CCCACACAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAG
TTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCAT
TTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCT
Found at i:171100 original size:19 final size:19
Alignment explanation
Indices: 171076--171143 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
171066 AATTCAACGA
171076 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
171095 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
171110 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
171127 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
171144 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:171114 original size:32 final size:32
Alignment explanation
Indices: 171078--171140 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
171068 TTCAACGATT
*
171078 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
171110 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
171141 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:171115 original size:13 final size:13
Alignment explanation
Indices: 171097--171121 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
171087 ACATAAGTTT
171097 TGTATCGATACAA
1 TGTATCGATACAA
171110 TGTATCGATACA
1 TGTATCGATACA
171122 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:171201 original size:13 final size:13
Alignment explanation
Indices: 171183--171208 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
171173 CATTTTTCTG
171183 TGTATCGATACAT
1 TGTATCGATACAT
171196 TGTATCGATACAT
1 TGTATCGATACAT
171209 GGATCTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:171205 original size:33 final size:33
Alignment explanation
Indices: 171163--171229 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
171153 GCCAAGGAAA
*** *
171163 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTATGTATCGATACAT
171196 TGTATCGATACATGGATCTATGTATCGATACAT
1 TGTATCGATACATGGATCTATGTATCGATACAT
171229 T
1 T
171230 TGGAAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGGATCTATGTATCGATACAT
Found at i:173647 original size:51 final size:53
Alignment explanation
Indices: 173572--173702 Score: 169
Period size: 51 Copynumber: 2.5 Consensus size: 53
173562 AGTTTCTCAA
* * * *
173572 TTCTCCACAATCGGAGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAAC
* *
173623 TT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAATACTAAC
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACTAAC
173677 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
173703 CCCGTTGATC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
50 2 0.03
51 33 0.49
53 9 0.13
54 21 0.31
55 3 0.04
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.33
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAAC
Found at i:173756 original size:28 final size:28
Alignment explanation
Indices: 173689--173789 Score: 154
Period size: 28 Copynumber: 3.6 Consensus size: 28
173679 CTTCACAATC
*
173689 GGGGATACTCCAACCCCGTTGATCAT-C--
1 GGGGATACTCCAACCCCGTT-AT-TTCCGA
173716 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
173744 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
173772 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
173790 ACTTTATTTC
Statistics
Matches: 70, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
25 1 0.01
26 3 0.04
27 20 0.29
28 46 0.66
ACGTcount: A:0.22, C:0.34, G:0.23, T:0.22
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCGA
Found at i:173847 original size:51 final size:52
Alignment explanation
Indices: 173772--173917 Score: 168
Period size: 52 Copynumber: 2.8 Consensus size: 52
173762 TTATTTCCGA
** * * * *
173772 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTT-CATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCCACAATC
* * * *
173823 GGGGATATTCCAATCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCCACAATC
* * *
173875 GGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAATTTT
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTT
173918 CCTTTAATCC
Statistics
Matches: 77, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
51 35 0.45
52 42 0.55
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCCACAATC
Found at i:173887 original size:52 final size:51
Alignment explanation
Indices: 173772--173900 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 51
173762 TTATTTCCGA
** * * * * *
173772 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTGCCAAAACACTAATTTTTCACAATC
* * *
173823 GGGGATATTCCAATCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTGCCAAAACACTAATTTTT-CACAATC
173875 GGGGATACTCCAACCCCGGTTTTATT
1 GGGGATACTCCAACCCCGGTTTTATT
173901 TTCGAAACAC
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
51 35 0.54
52 30 0.46
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTGCCAAAACACTAATTTTTCACAATC
Found at i:174097 original size:19 final size:19
Alignment explanation
Indices: 174073--174140 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
174063 AATTCAACGA
174073 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
174092 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
174107 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
174124 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
174141 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:174111 original size:32 final size:32
Alignment explanation
Indices: 174075--174137 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
174065 TTCAACGATT
*
174075 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
174107 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
174138 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:174112 original size:13 final size:13
Alignment explanation
Indices: 174094--174118 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
174084 ACATAAGTTT
174094 TGTATCGATACAA
1 TGTATCGATACAA
174107 TGTATCGATACA
1 TGTATCGATACA
174119 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:174198 original size:13 final size:13
Alignment explanation
Indices: 174180--174205 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
174170 CATTTTTTTG
174180 TGTATCGATACAT
1 TGTATCGATACAT
174193 TGTATCGATACAT
1 TGTATCGATACAT
174206 GGATCTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:176754 original size:28 final size:27
Alignment explanation
Indices: 176684--176758 Score: 100
Period size: 27 Copynumber: 2.7 Consensus size: 27
176674 TTTCTTCACA
176684 ATCGGGGATACTCCAACCCCGTTGATC
1 ATCGGGGATACTCCAACCCCGTTGATC
176711 ATCGGGGATACTCCAACCCCGTT-AT-
1 ATCGGGGATACTCCAACCCCGTTGATC
*
176736 TTCCGAGGGGATACTCCAACCCC
1 AT-C--GGGGATACTCCAACCCC
176759 AACTTTATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
25 1 0.02
26 3 0.07
27 23 0.52
28 17 0.39
ACGTcount: A:0.23, C:0.35, G:0.21, T:0.21
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTGATC
Found at i:176817 original size:51 final size:52
Alignment explanation
Indices: 176742--176887 Score: 150
Period size: 52 Copynumber: 2.8 Consensus size: 52
176732 TTATTTCCGA
*** * * * *
176742 GGGGATACTCCAACCCCAACTTTATTTCCAAAATATTGATTTTT-CATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCCACAATC
* * * * *
176793 GGGGATATTCTAATCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCCACAATC
* * *
176845 GGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAATTTT
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTT
176888 CCTTTAATCC
Statistics
Matches: 74, Mismatches: 20, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
51 33 0.45
52 41 0.55
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCCACAATC
Found at i:176879 original size:52 final size:51
Alignment explanation
Indices: 176575--176887 Score: 161
Period size: 51 Copynumber: 6.0 Consensus size: 51
176565 CTCAATTCTC
* * * * *
176575 CACAATCGGAGATATTCCAACTCCGATTTTATTTTCAAAACACTAA-TTTT
1 CACAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTT
* * * * *
176625 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTCTT
1 C-ACAATCGGGGATACTCCAACCCCGGTTTTATTTCC--AAAACACTAATTT-TT
* * ** * * *
176680 CACAATCGGGGATACTCCAACCCC-G-TTGATCATCGGGGATACTCCAACCCCGTTATTT
1 CACAATCGGGGATACTCCAACCCCGGTTTTAT-TTC--CAAAACACTAA-----TT-TTT
* *** * * *
176738 C-CGA--GGGGATACTCCAACCCCAACTTTATTTCCAAAATATTGATTTTT
1 CACAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTT
* * * * * *
176786 CATAATCGGGGATATTCTAATCCCGGTTTTATTGCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTT
* * *
176837 CCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAATTTT
1 -CACAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTT
176888 CCTTTAATCC
Statistics
Matches: 193, Mismatches: 50, Indels: 38
0.69 0.18 0.14
Matches are distributed among these distances:
48 4 0.02
49 3 0.02
50 1 0.01
51 64 0.33
52 45 0.23
53 16 0.08
54 26 0.13
55 20 0.10
56 2 0.01
57 6 0.03
58 5 0.03
59 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
CACAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTT
Found at i:177067 original size:19 final size:19
Alignment explanation
Indices: 177043--177110 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
177033 AATTCAACGA
177043 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
177062 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
177077 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
177094 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
177111 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:177081 original size:32 final size:32
Alignment explanation
Indices: 177045--177107 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
177035 TTCAACGATT
*
177045 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
177077 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
177108 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:177082 original size:13 final size:13
Alignment explanation
Indices: 177064--177088 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
177054 ACATAAGTTT
177064 TGTATCGATACAA
1 TGTATCGATACAA
177077 TGTATCGATACA
1 TGTATCGATACA
177089 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:177168 original size:13 final size:13
Alignment explanation
Indices: 177150--177175 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
177140 CATTTTTCTG
177150 TGTATCGATACAT
1 TGTATCGATACAT
177163 TGTATCGATACAT
1 TGTATCGATACAT
177176 GGATCTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:177172 original size:33 final size:33
Alignment explanation
Indices: 177130--177196 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
177120 GCCAAGGAAA
*** *
177130 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTATGTATCGATACAT
177163 TGTATCGATACATGGATCTATGTATCGATACAT
1 TGTATCGATACATGGATCTATGTATCGATACAT
177196 T
1 T
177197 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGGATCTATGTATCGATACAT
Found at i:179768 original size:51 final size:52
Alignment explanation
Indices: 179693--179838 Score: 168
Period size: 52 Copynumber: 2.8 Consensus size: 52
179683 TTATTTCCGA
** * * * *
179693 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTT-CATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCCACAATC
* * * *
179744 GGGGATATTCCAATCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCCACAATC
* * *
179796 GGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAATTTT
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTT
179839 CCTTTAATCC
Statistics
Matches: 77, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
51 35 0.45
52 42 0.55
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCCACAATC
Found at i:179830 original size:52 final size:51
Alignment explanation
Indices: 179528--179838 Score: 177
Period size: 51 Copynumber: 6.0 Consensus size: 51
179518 CTCAATTCTC
* * * * *
179528 CACAATCGGAGATATTCCAACTCCGATTTTATTTTCAAAACACTAA-TTTT
1 CACAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTT
* * * * *
179578 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTCTT
1 C-ACAATCGGGGATACTCCAACCCCGGTTTTATTTCC-AAAACACTAATTT-TT
* * ** * * *
179632 CACAATCGGGGATACTCCAA-CCC-G-TTGATCATCGGGGATACTCCAACCCCGTTATTT
1 CACAATCGGGGATACTCCAACCCCGGTTTTAT-TTC--CAAAACACTAA-----TT-TTT
* ** * * *
179689 C-CGA--GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTT
1 CACAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTT
* * * * *
179737 CATAATCGGGGATATTCCAATCCCGGTTTTATTGCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTT
* * *
179788 CCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAATTTT
1 -CACAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTT
179839 CCTTTAATCC
Statistics
Matches: 194, Mismatches: 47, Indels: 38
0.70 0.17 0.14
Matches are distributed among these distances:
48 4 0.02
49 3 0.02
50 5 0.03
51 68 0.35
52 58 0.30
53 20 0.10
54 19 0.10
55 3 0.02
56 4 0.02
57 9 0.05
58 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
CACAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTT
Found at i:180018 original size:19 final size:19
Alignment explanation
Indices: 179994--180061 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
179984 AATTCAACGA
179994 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
180013 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
180028 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
180045 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
180062 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:180032 original size:32 final size:32
Alignment explanation
Indices: 179996--180058 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
179986 TTCAACGATT
*
179996 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
180028 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
180059 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:180033 original size:13 final size:13
Alignment explanation
Indices: 180015--180039 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
180005 ACATAAGTTT
180015 TGTATCGATACAA
1 TGTATCGATACAA
180028 TGTATCGATACA
1 TGTATCGATACA
180040 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:180119 original size:13 final size:13
Alignment explanation
Indices: 180101--180126 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
180091 CATTTTTCTG
180101 TGTATCGATACAT
1 TGTATCGATACAT
180114 TGTATCGATACAT
1 TGTATCGATACAT
180127 GGATCTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:180123 original size:33 final size:33
Alignment explanation
Indices: 180081--180147 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
180071 GCCAAGGAAA
*** *
180081 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTATGTATCGATACAT
180114 TGTATCGATACATGGATCTATGTATCGATACAT
1 TGTATCGATACATGGATCTATGTATCGATACAT
180147 T
1 T
180148 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGGATCTATGTATCGATACAT
Found at i:242558 original size:27 final size:27
Alignment explanation
Indices: 242528--242593 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
242518 ACCCTTTATG
242528 TTTGTCAAAAATGGTGATTACTTTGTA
1 TTTGTCAAAAATGGTGATTACTTTGTA
* * * *
242555 TTTGTCAAAAATGGTGGTTCCTTTTTG
1 TTTGTCAAAAATGGTGATTACTTTGTA
242582 TTTGTCAAAAAT
1 TTTGTCAAAAAT
242594 TATGGCTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.45
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGATTACTTTGTA
Found at i:242715 original size:13 final size:13
Alignment explanation
Indices: 242682--242724 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
242672 CCCTCCTCCT
*
242682 TCTCAAGTATCCC
1 TCTCAAGCATCCC
* *
242695 TCTTAAGCATCTC
1 TCTCAAGCATCCC
242708 TCTCAAGCATCCC
1 TCTCAAGCATCCC
242721 TCTC
1 TCTC
242725 TTGTATCCCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.21, C:0.40, G:0.07, T:0.33
Consensus pattern (13 bp):
TCTCAAGCATCCC
Found at i:247142 original size:27 final size:25
Alignment explanation
Indices: 247111--247201 Score: 91
Period size: 24 Copynumber: 3.6 Consensus size: 25
247101 AAAACTACCT
247111 TTTGTGTTTGTCAAAAATGATGATTAC
1 TTTGTGTTTGTCAAAAAT-ATGATT-C
*
247138 TTTGTATTTGTC-AAAA-ATGATTCC
1 TTTGTGTTTGTCAAAAATATGATT-C
*
247162 TTTTTGTTTGTCAAAAATTATGATT-
1 TTTGTGTTTGTCAAAAA-TATGATTC
*
247187 TAT-TGTTTGTCAAAA
1 TTTGTGTTTGTCAAAA
247202 TTTGTAGTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
24 29 0.52
25 6 0.11
26 4 0.07
27 17 0.30
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (25 bp):
TTTGTGTTTGTCAAAAATATGATTC
Found at i:248364 original size:31 final size:31
Alignment explanation
Indices: 248288--248349 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
248278 GATTTCAATT
248288 ATTATTT-CA-AATAAAAAAT-ATATTGTTA
1 ATTATTTACATAATAAAAAATAATATTGTTA
*
248316 ATTATTTACATAATAAAAAATAAT-TTTTTA
1 ATTATTTACATAATAAAAAATAATATTGTTA
248346 ATTA
1 ATTA
248350 AATTTAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 7 0.23
29 2 0.07
30 19 0.63
31 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (31 bp):
ATTATTTACATAATAAAAAATAATATTGTTA
Found at i:259247 original size:24 final size:24
Alignment explanation
Indices: 259202--259247 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
259192 TTTTTAAATT
* *
259202 TAAATTAATAATTTAATTTATAAA
1 TAAATTAATAATTAAATATATAAA
259226 TAAATTTAAT-ATTAAATATATA
1 TAAA-TTAATAATTAAATATATA
259248 TCTATATCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TAAATTAATAATTAAATATATAAA
Found at i:262220 original size:20 final size:20
Alignment explanation
Indices: 262187--262224 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
262177 TTTCAGCAAT
*
262187 ATAAAAACTTAAAATATTTA
1 ATAAAAACTAAAAATATTTA
*
262207 ATAAAGACTAAAAATATT
1 ATAAAAACTAAAAATATT
262225 ATATTTTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (20 bp):
ATAAAAACTAAAAATATTTA
Found at i:262894 original size:17 final size:18
Alignment explanation
Indices: 262863--262896 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
262853 TAAATTTAAT
262863 TATAAAAATATATATTTA
1 TATAAAAATATATATTTA
*
262881 TATAAAATTA-ATATTT
1 TATAAAAATATATATTT
262897 TAATAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TATAAAAATATATATTTA
Found at i:263411 original size:19 final size:19
Alignment explanation
Indices: 263387--263436 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
263377 ATTTGTTATC
* *
263387 AATTAAATTTATTTAATGA
1 AATTAAATTTATTAAATAA
*
263406 AATTAAATCT-TTAAATAA
1 AATTAAATTTATTAAATAA
263424 AATTAAAATTTAT
1 AATT-AAATTTAT
263437 ATATGTGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 10 0.40
19 14 0.56
20 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
AATTAAATTTATTAAATAA
Found at i:264020 original size:21 final size:21
Alignment explanation
Indices: 263973--264016 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
263963 CTAATTTTAG
*
263973 TTTTATCTTTTCTTTTACTTA
1 TTTTATCTTTTCTTGTACTTA
263994 TTTTATC-TTTCTTGTA-TTA
1 TTTTATCTTTTCTTGTACTTA
264013 TTTT
1 TTTT
264017 TTATGGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 8 0.36
21 7 0.32
ACGTcount: A:0.14, C:0.11, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTATCTTTTCTTGTACTTA
Done.