Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 99 of 126
Found at i:19428819 original size:155 final size:153
Alignment explanation
Indices: 19428515--19428826 Score: 421
Period size: 155 Copynumber: 2.0 Consensus size: 153
19428505 CTTGCCCAAA
* * *
19428515 TCTGATTTCTCTTTCAAACAACAATTTGCCTTCGAATCTAAAAATCCTAGATTGGTGTTGTGAAA
1 TCTGATTTCTCTTTCAAACAACAATTTGCCTTCGAATCTAAAAAGCCTAGATTAGTGTTGTAAAA
* * * *
19428580 ATATACAGTGTTTGTTCGAAGAGGGAGAGAATGTTAACATCGGCAGTGTATGTCTTCTTGAGCAG
66 ATATACAGTGTTTGTTCGAAGAGGGAGAGAATATTAACATCAGCAGTGCATGTCTTCTTGAACAG
*
19428645 TTGAATATTAGCTACTGTCCATC
131 TTGAATATTAGCAACTGTCCATC
*
19428668 TCTGATTTCTCTTTCAAA-AACAATTTGCCTTCGAATCTCAAAAGCCTAGCGATTAGTGATTGTA
1 TCTGATTTCTCTTTCAAACAACAATTTGCCTTCGAATCTAAAAAGCCTA--GATTAGTG-TTGTA
* * * *
19428732 AAAATTTACGGTGTTTGTTGGAAGAGGGAGAGAATATTAACCTCAGCAGTGCATGTCTTCTTGAA
63 AAAATATACAGTGTTTGTTCGAAGAGGGAGAGAATATTAACATCAGCAGTGCATGTCTTCTTGAA
* * * *
19428797 CGGTTGTATGTT-GACAATTGTCCATC
128 CAGTTGAATATTAG-CAACTGTCCATC
19428823 TCTG
1 TCTG
19428827 GTATCTTTAT
Statistics
Matches: 138, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
152 28 0.20
153 18 0.13
154 8 0.06
155 84 0.61
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (153 bp):
TCTGATTTCTCTTTCAAACAACAATTTGCCTTCGAATCTAAAAAGCCTAGATTAGTGTTGTAAAA
ATATACAGTGTTTGTTCGAAGAGGGAGAGAATATTAACATCAGCAGTGCATGTCTTCTTGAACAG
TTGAATATTAGCAACTGTCCATC
Found at i:19435278 original size:19 final size:19
Alignment explanation
Indices: 19435244--19435296 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
19435234 TGTTAATTTT
19435244 AATTAATTTA--AAAT-AA
1 AATTAATTTATTAAATAAA
*
19435260 AATTTATATTATTAAATAAA
1 AATTAAT-TTATTAAATAAA
19435280 AATTAATTTATTAAATA
1 AATTAATTTATTAAATA
19435297 TATTAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 6 0.19
17 3 0.10
19 14 0.45
20 8 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTAATTTATTAAATAAA
Found at i:19436432 original size:24 final size:28
Alignment explanation
Indices: 19436405--19436456 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
19436395 AAATTAAGTT
19436405 TTATT-TATC-AAA-AAATA-TTATTTA
1 TTATTGTATCAAAATAAATACTTATTTA
19436429 TTATTGTATCAAAATAAATACTTATTTA
1 TTATTGTATCAAAATAAATACTTATTTA
19436457 AAAAAAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 5 0.21
25 4 0.17
26 3 0.12
27 5 0.21
28 7 0.29
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (28 bp):
TTATTGTATCAAAATAAATACTTATTTA
Found at i:19440323 original size:16 final size:14
Alignment explanation
Indices: 19440298--19440339 Score: 66
Period size: 16 Copynumber: 2.9 Consensus size: 14
19440288 AAATGTCCAA
19440298 ATTTTTTATATTTT
1 ATTTTTTATATTTT
19440312 ATTTCATTTATATTTT
1 ATTT--TTTATATTTT
19440328 ATTTTTTATATT
1 ATTTTTTATATT
19440340 GATAATTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 12 0.46
16 14 0.54
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (14 bp):
ATTTTTTATATTTT
Found at i:19440406 original size:21 final size:19
Alignment explanation
Indices: 19440388--19440427 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 19
19440378 TTATTTTACC
19440388 TTTATTTTTATCTTATTTA
1 TTTATTTTTATCTTATTTA
19440407 TTTATCTATTTATCTTTATTT
1 TTTAT-T-TTTATC-TTATTT
19440428 GATTCATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 1 0.06
21 6 0.33
22 6 0.33
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTTTTATCTTATTTA
Found at i:19441549 original size:14 final size:13
Alignment explanation
Indices: 19441521--19441545 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19441511 AGGCTTTTAA
19441521 AATTTTTAAAAAT
1 AATTTTTAAAAAT
19441534 AATTTTTAAAAA
1 AATTTTTAAAAA
19441546 ATAAATTGAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATTTTTAAAAAT
Found at i:19442743 original size:5 final size:6
Alignment explanation
Indices: 19442728--19442752 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
19442718 AACTTTTTTA
19442728 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
19442753 TATTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:19447268 original size:15 final size:16
Alignment explanation
Indices: 19447245--19447277 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
19447235 GATTTTAAAA
19447245 AATTAAAAATTAATTT
1 AATTAAAAATTAATTT
*
19447261 AATT-AAAATTATTTT
1 AATTAAAAATTAATTT
19447276 AA
1 AA
19447278 AAGATTAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTAAAAATTAATTT
Found at i:19447382 original size:16 final size:17
Alignment explanation
Indices: 19447350--19447383 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
19447340 TTTTGATTTA
*
19447350 TTTTATTTTTTACAATT
1 TTTTATTTTATACAATT
19447367 TTTTATTTTATA-AATT
1 TTTTATTTTATACAATT
19447383 T
1 T
19447384 CAAAATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATTTTATACAATT
Found at i:19448028 original size:16 final size:17
Alignment explanation
Indices: 19448007--19448049 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
19447997 CAGTTCATTA
19448007 ATTTTTTAATTTT-AAT
1 ATTTTTTAATTTTAAAT
*
19448023 A-TTTTTATTTTTAAAT
1 ATTTTTTAATTTTAAAT
19448039 ATTATTTTAAT
1 ATT-TTTTAAT
19448050 ATAATTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 10 0.45
16 5 0.23
17 1 0.05
18 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTTTAATTTTAAAT
Found at i:19448059 original size:22 final size:21
Alignment explanation
Indices: 19448032--19448082 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
19448022 TATTTTTATT
19448032 TTTAAATATTATTTTAATATAA
1 TTTAAATATTATTTTAATA-AA
*
19448054 TTTAAA-AGATATTTTAATAAA
1 TTTAAATA-TTATTTTAATAAA
19448075 -TTAAATAT
1 TTTAAATAT
19448083 AAAATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 5 0.20
21 4 0.16
22 16 0.64
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTAAATATTATTTTAATAAA
Found at i:19451491 original size:17 final size:19
Alignment explanation
Indices: 19451455--19451493 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
19451445 TATTAGAAAA
*
19451455 TTATTAATTTATATTATTT
1 TTATTAAATTATATTATTT
19451474 TTATTAAATTA-A-TATTT
1 TTATTAAATTATATTATTT
19451491 TTA
1 TTA
19451494 AAAACTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 1 0.05
19 10 0.53
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTAAATTATATTATTT
Found at i:19458430 original size:2 final size:2
Alignment explanation
Indices: 19458423--19458448 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19458413 GTTTATTTGG
19458423 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
19458449 TTCAAAGCTG
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:19470509 original size:12 final size:13
Alignment explanation
Indices: 19470470--19470511 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
19470460 GTTTTTTTTA
* *
19470470 TTTATTCACATAT
1 TTTATTTACTTAT
19470483 TTTATTTACTTAT
1 TTTATTTACTTAT
19470496 TTTATTTA-TTAT
1 TTTATTTACTTAT
19470508 TTTA
1 TTTA
19470512 AATAAAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 8 0.30
13 19 0.70
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTATTTACTTAT
Found at i:19470652 original size:38 final size:40
Alignment explanation
Indices: 19470557--19470652 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 40
19470547 AATTTTCATG
* * *
19470557 AAATCCTACCAAGATATT-GAGTGATATTTTTAGACAGAA
1 AAATTCTACCAAAATATTAGAGTCATATTTTTAGACAGAA
** *
19470596 AAATTCTACCAACGTATTAGAG-CATATTTTTAGATAG-A
1 AAATTCTACCAAAATATTAGAGTCATATTTTTAGACAGAA
*
19470634 AAATTTTACCAAAATATTA
1 AAATTCTACCAAAATATTA
19470653 AAAAATATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
38 17 0.35
39 28 0.58
40 3 0.06
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.33
Consensus pattern (40 bp):
AAATTCTACCAAAATATTAGAGTCATATTTTTAGACAGAA
Found at i:19470661 original size:38 final size:39
Alignment explanation
Indices: 19470580--19470662 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 39
19470570 ATATTGAGTG
** * **
19470580 ATATTTTTAGACAGAAAAATTCTACCAACGTATTAGAGC
1 ATATTTTTAGACAGAAAAATTCTACCAAAATATTAAAAA
* *
19470619 ATATTTTTAGATAG-AAAATTTTACCAAAATATTAAAAA
1 ATATTTTTAGACAGAAAAATTCTACCAAAATATTAAAAA
19470657 ATATTT
1 ATATTT
19470663 CAAAAAATGA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
38 24 0.65
39 13 0.35
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (39 bp):
ATATTTTTAGACAGAAAAATTCTACCAAAATATTAAAAA
Found at i:19472593 original size:18 final size:18
Alignment explanation
Indices: 19472570--19472605 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
19472560 AAAAAAGAAA
19472570 AAAAGCTAAAAGTGAAGG
1 AAAAGCTAAAAGTGAAGG
19472588 AAAAGCTAAAAGTGAAGG
1 AAAAGCTAAAAGTGAAGG
19472606 TAATTAAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.06, G:0.28, T:0.11
Consensus pattern (18 bp):
AAAAGCTAAAAGTGAAGG
Found at i:19476050 original size:21 final size:21
Alignment explanation
Indices: 19476024--19476095 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
19476014 TCTTTCAAAA
19476024 GTGAAT-TGTTGAATTTTGGAT
1 GTGAATAT-TTGAATTTTGGAT
* *
19476045 GTGAATCTCTTGAATTTTTCGAAT
1 GTGAATAT-TTGAA-TTTT-GGAT
* *
19476069 ATGAATATTTGAACTTTGGAT
1 GTGAATATTTGAATTTTGGAT
19476090 GTGAAT
1 GTGAAT
19476096 TTTTAAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
21 14 0.34
22 9 0.22
23 9 0.22
24 9 0.22
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (21 bp):
GTGAATATTTGAATTTTGGAT
Found at i:19476081 original size:45 final size:45
Alignment explanation
Indices: 19476011--19476268 Score: 165
Period size: 45 Copynumber: 5.7 Consensus size: 45
19476001 GAATATCTAA
*
19476011 AAATCTTTCAAA-AGTGAAT-TGTTGAATTTTGGATGTGAATCTCTT
1 AAATTTTTCAAATA-TGAATAT-TTGAATTTTGGATGTGAATCTCTT
* * * *
19476056 GAATTTTTCGAATATGAATATTTGAACTTTGGATGTGAAT-TTTT
1 AAATTTTTCAAATATGAATATTTGAATTTTGGATGTGAATCTCTT
* * * * * * *
19476100 AAAAAAATTTT--AATGTGAACCA-TTGAATTTTTAGTTGAGAAT-TTTT
1 ---AAATTTTTCAAATATGAA-TATTTGAA-TTTTGGATGTGAATCTCTT
* * * * *
19476146 AAAATTTTTTCAAATAAGAATATTTGAATTGTAGATGTAAATCTCTA
1 -AAA-TTTTTCAAATATGAATATTTGAATTTTGGATGTGAATCTCTT
* * *
19476193 AAATTTTTCGAATATGAATATTTGAATTGTGGATATGAATCT-TT
1 AAATTTTTCAAATATGAATATTTGAATTTTGGATGTGAATCTCTT
19476237 AAGATTTTTCAAAT-TAGAATATTTGAAATTTT
1 AA-ATTTTTCAAATAT-GAATATTTG-AATTTT
19476269 TTATTGAGTA
Statistics
Matches: 167, Mismatches: 31, Indels: 29
0.74 0.14 0.13
Matches are distributed among these distances:
44 11 0.07
45 101 0.60
46 36 0.22
47 19 0.11
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.44
Consensus pattern (45 bp):
AAATTTTTCAAATATGAATATTTGAATTTTGGATGTGAATCTCTT
Found at i:19476149 original size:137 final size:137
Alignment explanation
Indices: 19475974--19476238 Score: 338
Period size: 137 Copynumber: 1.9 Consensus size: 137
19475964 TGAAGTTTCA
* * *
19475974 AATGTGAATCTTTAAATTTTTAGTTAAGAATATCTAAAAATCTTTCAAA-AGTGAAT-TGTTGAA
1 AATGTGAACCATTAAATTTTTAGTTAAGAATATCTAAAAATCTTTCAAATA-AGAATAT-TTGAA
* * * ** * *
19476037 TTTTGGATGTGAATCTCTTGAATTTTTCGAATATGAATATTTGAACTT-TGGATGTGAATTTTTA
64 TTGTAGATGTAAATCTCTAAAATTTTTCGAATATGAATATTTGAA-TTGTGGATATGAATCTTTA
19476101 AAAAAATTTT
128 AAAAAATTTT
* * * * * *
19476111 AATGTGAACCATTGAATTTTTAGTTGAGAATTTTTAAAATTTTTTCAAATAAGAATATTTGAATT
1 AATGTGAACCATTAAATTTTTAGTTAAGAATATCTAAAAATCTTTCAAATAAGAATATTTGAATT
19476176 GTAGATGTAAATCTCTAAAATTTTTCGAATATGAATATTTGAATTGTGGATATGAATCTTTAA
66 GTAGATGTAAATCTCTAAAATTTTTCGAATATGAATATTTGAATTGTGGATATGAATCTTTAA
19476239 GATTTTTCAA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
136 2 0.02
137 105 0.96
138 2 0.02
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (137 bp):
AATGTGAACCATTAAATTTTTAGTTAAGAATATCTAAAAATCTTTCAAATAAGAATATTTGAATT
GTAGATGTAAATCTCTAAAATTTTTCGAATATGAATATTTGAATTGTGGATATGAATCTTTAAAA
AAATTTT
Found at i:19476263 original size:137 final size:138
Alignment explanation
Indices: 19475969--19476269 Score: 321
Period size: 137 Copynumber: 2.2 Consensus size: 138
19475959 AGATGTGAAG
* * *
19475969 TTTCAAATGTGAATCTTTAAATTTTTAGTTAAGAATATCTAAAAATCTTTCAAAAGTGAATTGTT
1 TTTCAAATGTGAATATTTGAATTTTTAGTTAAGAATATCTAAAAATCTTTCAAAAGAGAATTGTT
* * * ** * *
19476034 GAATTTTGGATGTGAATCTCTTGAATTTTTCGAATATGAATATTTGAACTTTGGATGTGAATTTT
66 GAATTGTAGATGTAAATCTCTAAAATTTTTCGAATATGAATATTTGAACTTTGGATATGAATCTT
19476099 TAAAAAAAT
131 T-AAAAAAT
* * * * * *
19476108 TTT--AATGTGAACCA-TTGAATTTTTAGTTGAGAATTTTTAAAATTTTTTCAAATA-AGAATAT
1 TTTCAAATGTGAA-TATTTGAATTTTTAGTTAAGAATATCTAAAAATCTTTCAAA-AGAGAAT-T
19476169 -TTGAATTGTAGATGTAAATCTCTAAAATTTTTCGAATATGAATATTTGAA-TTGTGGATATGAA
63 GTTGAATTGTAGATGTAAATCTCTAAAATTTTTCGAATATGAATATTTGAACTT-TGGATATGAA
* *
19476232 TCTTT-AAGATT
127 TCTTTAAAAAAT
19476243 TTTCAAAT-TAGAATATTTGAAATTTTT
1 TTTCAAATGT-GAATATTTG-AATTTTT
19476270 TATTGAGTAT
Statistics
Matches: 134, Mismatches: 19, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
135 7 0.05
136 4 0.03
137 111 0.83
138 9 0.07
139 3 0.02
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.45
Consensus pattern (138 bp):
TTTCAAATGTGAATATTTGAATTTTTAGTTAAGAATATCTAAAAATCTTTCAAAAGAGAATTGTT
GAATTGTAGATGTAAATCTCTAAAATTTTTCGAATATGAATATTTGAACTTTGGATATGAATCTT
TAAAAAAT
Found at i:19476368 original size:116 final size:116
Alignment explanation
Indices: 19476237--19476464 Score: 402
Period size: 116 Copynumber: 2.0 Consensus size: 116
19476227 ATGAATCTTT
*
19476237 AAGATTTTTCAAATTAGAATATTTGAAATTTTTTATTGAGTATTTCCAAATGCAAAGAATCATAT
1 AAGATTTTTCAAATTAGAATATTTGAAATTTTTGATTGAGTATTTCCAAATGCAAAGAATCATAT
19476302 CAAATAATATAAAATGACTAAGATTTGTTCCACAAAGATTGTAAATAGAGA
66 CAAATAATATAAAATGACTAAGATTTGTTCCACAAAGATTGTAAATAGAGA
** * * *
19476353 AAGATTTTTTGAATTAGAATATTTGAAATTTTTGATTGAGTATTTTCAAGTGCAAAGAATCGTAT
1 AAGATTTTTCAAATTAGAATATTTGAAATTTTTGATTGAGTATTTCCAAATGCAAAGAATCATAT
19476418 CAAATAATATAAAATGACTAAGATTTGTTCCACAAAGATTGTAAATA
66 CAAATAATATAAAATGACTAAGATTTGTTCCACAAAGATTGTAAATA
19476465 AAGAGAGCTA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 106 1.00
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (116 bp):
AAGATTTTTCAAATTAGAATATTTGAAATTTTTGATTGAGTATTTCCAAATGCAAAGAATCATAT
CAAATAATATAAAATGACTAAGATTTGTTCCACAAAGATTGTAAATAGAGA
Found at i:19476997 original size:17 final size:17
Alignment explanation
Indices: 19476977--19477020 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
19476967 GAAACTTAAA
19476977 TTAAATTGCAAGAAAGT
1 TTAAATTGCAAGAAAGT
19476994 TTAAATTG--A-AAAGT
1 TTAAATTGCAAGAAAGT
19477008 TT-AATTGCAAGAA
1 TTAAATTGCAAGAA
19477021 CAAAATTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 5 0.21
14 7 0.29
15 2 0.08
16 2 0.08
17 8 0.33
ACGTcount: A:0.48, C:0.05, G:0.16, T:0.32
Consensus pattern (17 bp):
TTAAATTGCAAGAAAGT
Found at i:19482541 original size:23 final size:21
Alignment explanation
Indices: 19482515--19482558 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
19482505 GAATTGCATG
*
19482515 AAAATTGAACTTGAAAGTTTGCT
1 AAAATTG-ACTTCAAA-TTTGCT
19482538 AAAATTGACTTCAAATTTGCT
1 AAAATTGACTTCAAATTTGCT
19482559 TAGAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 7 0.35
23 7 0.35
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (21 bp):
AAAATTGACTTCAAATTTGCT
Found at i:19482861 original size:22 final size:22
Alignment explanation
Indices: 19482836--19482974 Score: 56
Period size: 22 Copynumber: 6.3 Consensus size: 22
19482826 TAGAGTTATT
19482836 AATTTTAGATGTGAATCTCTAA
1 AATTTTAGATGTGAATCTCTAA
* * **
19482858 AATTTTTCGAATG-CAAT-TCTTTG
1 AA-TTTTAG-ATGTGAATCTC-TAA
* *
19482881 AATTTT-GATGTGAA-CTTTGA
1 AATTTTAGATGTGAATCTCTAA
**
19482901 AATTTTTTATGTGAATC-CTTAA
1 AATTTTAGATGTGAATCTC-TAA
* * *
19482923 AGTTGTTCGAATGAGAATCT-TAGA
1 AATT-TTAG-ATGTGAATCTCTA-A
* *
19482947 AATTTTAGATGTAAATCCCTAA
1 AATTTTAGATGTGAATCTCTAA
19482969 AATTTT
1 AATTTT
19482975 TTAAATGCAA
Statistics
Matches: 84, Mismatches: 20, Indels: 26
0.65 0.15 0.20
Matches are distributed among these distances:
20 10 0.12
21 11 0.13
22 28 0.33
23 20 0.24
24 15 0.18
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.43
Consensus pattern (22 bp):
AATTTTAGATGTGAATCTCTAA
Found at i:19483195 original size:18 final size:18
Alignment explanation
Indices: 19483174--19483211 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
19483164 TGAATATTTG
19483174 AATTCTTGAGAATCTTTA
1 AATTCTTGAGAATCTTTA
*
19483192 AATTCTTGCGAATCTTTA
1 AATTCTTGAGAATCTTTA
19483210 AA
1 AA
19483212 ACTTTTACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (18 bp):
AATTCTTGAGAATCTTTA
Found at i:19483301 original size:57 final size:58
Alignment explanation
Indices: 19483174--19483312 Score: 142
Period size: 57 Copynumber: 2.4 Consensus size: 58
19483164 TGAATATTTG
* * *
19483174 AATTCTTGAGAATCTTTAAATTCTTGCGAATCTTTAAAACTTTTACTAATCTTTGATT
1 AATTCTTGAGAATCTTTGAATTCTTACGAATCTATAAAACTTTTACTAATCTTTGATT
* * * * * *
19483232 -ATTTTTGTGAATCTTGGAATTCTTATGAATCTAT-AAACTTTT-GTGAATCTTT-TTT
1 AATTCTTGAGAATCTTTGAATTCTTACGAATCTATAAAACTTTTACT-AATCTTTGATT
*
19483287 AAATTCTTGAGAATCTTTGAGTTCTT
1 -AATTCTTGAGAATCTTTGAATTCTT
19483313 CCTAATTTTC
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
55 3 0.05
56 15 0.23
57 47 0.72
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.49
Consensus pattern (58 bp):
AATTCTTGAGAATCTTTGAATTCTTACGAATCTATAAAACTTTTACTAATCTTTGATT
Found at i:19483456 original size:22 final size:22
Alignment explanation
Indices: 19483430--19483504 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
19483420 GTTTGAAATT
*
19483430 ATTGAGAATCTTTGGATTTTAA
1 ATTGAGAATCTTTGAATTTTAA
* * *
19483452 ATTGAAAACCTTTGAACTTTAA
1 ATTGAGAATCTTTGAATTTTAA
* * * *
19483474 GTTGGGAATATTTGAATTTCAA
1 ATTGAGAATCTTTGAATTTTAA
*
19483496 ATTGGGAAT
1 ATTGAGAAT
19483505 TTTAAATGTT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.40
Consensus pattern (22 bp):
ATTGAGAATCTTTGAATTTTAA
Found at i:19487066 original size:46 final size:47
Alignment explanation
Indices: 19486994--19487097 Score: 124
Period size: 46 Copynumber: 2.2 Consensus size: 47
19486984 AAGCAAAGTC
19486994 AAATAAAAATAAAAATAACATAAAGATAAA-ATAAGGATAAATAATAT
1 AAATAAAAATAAAAATAACATAAAGATAAACATAA-GATAAATAATAT
* * * *
19487041 AAAT-AAAATAAAGATTAC-TATAAGATAAACATAAGATAAATATAAAA
1 AAATAAAAATAAAAATAACATA-AAGATAAACATAAGATAAATA-ATAT
19487088 AAATAAAAAT
1 AAATAAAAAT
19487098 TGGACATTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
45 2 0.04
46 28 0.57
47 14 0.29
48 5 0.10
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (47 bp):
AAATAAAAATAAAAATAACATAAAGATAAACATAAGATAAATAATAT
Found at i:19490341 original size:11 final size:11
Alignment explanation
Indices: 19490315--19490380 Score: 62
Period size: 11 Copynumber: 5.9 Consensus size: 11
19490305 TTTAGTGATC
19490315 GATTATCAATCA
1 GATTATCAAT-A
19490327 -ATTATCAATA
1 GATTATCAATA
*
19490337 GATTATCGATA
1 GATTATCAATA
*
19490348 GATTATCGATA
1 GATTATCAATA
**
19490359 TTTTTATCAATA
1 -GATTATCAATA
*
19490371 AATTATCAAT
1 GATTATCAAT
19490381 TGAATTACCG
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
10 1 0.02
11 37 0.80
12 8 0.17
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.41
Consensus pattern (11 bp):
GATTATCAATA
Found at i:19496227 original size:156 final size:156
Alignment explanation
Indices: 19495944--19496259 Score: 467
Period size: 156 Copynumber: 2.0 Consensus size: 156
19495934 ATTGCCCAAA
19495944 TCTGATTTCTCTTTCAAACAACAATTTGCCTTCGAATCTAAAATGCCTAAAGATTGAAGGTTGTG
1 TCTGATTTCTCTTTCAAACAACAATTTGCCTTCGAATCTAAAATGCCTAAAGATTGAAGGTTGTG
* * * * *
19496009 TAAATTTACGGTGTTTGTTGGAAGAGGGAGAGCATGTTAACCTCAGTAGTGCATGTCCTCTTGAG
66 TAAATTTACGGTGTTTGTTGGAAGAGGGAGAGAATGTTAACATCAGCAATGCAGGTCCTCTTGAG
19496074 CAGATGAATATT-A-GCTATTGTCCATC
131 CAGATGAATATTAAGGC--TTGTCCATC
* * * *
19496100 TCTGATTTCTCTTTCGAAGAACAATTTGCCTTCGAATTTAAGAA-GCCTAAAGATTGAATGTTGT
1 TCTGATTTCTCTTTCAAACAACAATTTGCCTTCGAATCTAA-AATGCCTAAAGATTGAAGGTTGT
* *
19496164 GTAAATTTACGGTGTTTGTTGGAAGAGGGAGAGAATGTTGACATCAGCAATGCAGGTCTTCTTGA
65 GTAAATTTACGGTGTTTGTTGGAAGAGGGAGAGAATGTTAACATCAGCAATGCAGGTCCTCTTGA
* *
19496229 GCAGTTGGATATTAAGGCTTGTCCATC
130 GCAGATGAATATTAAGGCTTGTCCATC
19496256 TCTG
1 TCTG
19496260 GTATCTTTAT
Statistics
Matches: 144, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
156 139 0.97
157 3 0.02
158 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (156 bp):
TCTGATTTCTCTTTCAAACAACAATTTGCCTTCGAATCTAAAATGCCTAAAGATTGAAGGTTGTG
TAAATTTACGGTGTTTGTTGGAAGAGGGAGAGAATGTTAACATCAGCAATGCAGGTCCTCTTGAG
CAGATGAATATTAAGGCTTGTCCATC
Found at i:19503866 original size:10 final size:10
Alignment explanation
Indices: 19503853--19503891 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
19503843 ATGAATGATA
19503853 ATGATGATTT
1 ATGATGATTT
*
19503863 ATGATGA-TG
1 ATGATGATTT
*
19503872 GTGATGATTT
1 ATGATGATTT
19503882 ATGATGATTT
1 ATGATGATTT
19503892 TAAACATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (10 bp):
ATGATGATTT
Found at i:19504292 original size:16 final size:18
Alignment explanation
Indices: 19504266--19504302 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
19504256 ATCTTATAAA
19504266 ATGGTTTTGTATTT-TAT
1 ATGGTTTTGTATTTGTAT
19504283 ATGG-TTTGTATTTGTAT
1 ATGGTTTTGTATTTGTAT
19504300 ATG
1 ATG
19504303 TAAAGATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.59
Consensus pattern (18 bp):
ATGGTTTTGTATTTGTAT
Found at i:19519687 original size:28 final size:28
Alignment explanation
Indices: 19519619--19519693 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
19519609 TTGAATTATA
* * *
19519619 ATAAAATATCTAATATGATATTTAAATT
1 ATAAAATTTTTAATATAATATTTAAATT
*
19519647 TTAAAATTTTTAATATAATATTTAAATT
1 ATAAAATTTTTAATATAATATTTAAATT
19519675 AT-AAATTTATTAATTATAA
1 ATAAAATTT-TTAA-TATAA
19519694 AAATAATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
27 6 0.15
28 29 0.73
29 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
ATAAAATTTTTAATATAATATTTAAATT
Found at i:19519691 original size:15 final size:15
Alignment explanation
Indices: 19519650--19519694 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 15
19519640 TTAAATTTTA
19519650 AAATTT-TTAA-TAT
1 AAATTTATTAATTAT
19519663 AATATTTA--AATTAT
1 AA-ATTTATTAATTAT
19519677 AAATTTATTAATTAT
1 AAATTTATTAATTAT
19519692 AAA
1 AAA
19519695 AATAATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
13 9 0.33
14 9 0.33
15 9 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AAATTTATTAATTAT
Found at i:19521147 original size:14 final size:13
Alignment explanation
Indices: 19521120--19521168 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
19521110 TGATTTTTTA
* *
19521120 AATTTTAAAAATT
1 AATTTTTAATATT
19521133 AATTTCTTAATATT
1 AATTT-TTAATATT
19521147 -A-TTTTAATA-T
1 AATTTTTAATATT
19521157 AATTTTTAATAT
1 AATTTTTAATAT
19521169 ATTTAACTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
10 1 0.03
11 7 0.23
12 10 0.33
13 6 0.20
14 6 0.20
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (13 bp):
AATTTTTAATATT
Found at i:19521165 original size:12 final size:12
Alignment explanation
Indices: 19521132--19521169 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
19521122 TTTTAAAAAT
19521132 TAATTTCTTAATA
1 TAATTT-TTAATA
*
19521145 TTA-TTTTAATA
1 TAATTTTTAATA
19521156 TAATTTTTAATA
1 TAATTTTTAATA
19521168 TA
1 TA
19521170 TTTAACTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 8 0.36
12 12 0.55
13 2 0.09
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (12 bp):
TAATTTTTAATA
Found at i:19521892 original size:6 final size:6
Alignment explanation
Indices: 19521836--19521876 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
19521826 ATACAATATT
*
19521836 TAATTG TGATTG TAATTG TAATTG TAATTG TAATTG TAATT
1 TAATTG TAATTG TAATTG TAATTG TAATTG TAATTG TAATT
19521877 TTATTGGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (6 bp):
TAATTG
Found at i:19523421 original size:21 final size:22
Alignment explanation
Indices: 19523376--19523423 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
19523366 ATTTTAAAAA
19523376 TATTTTTCAATATCTAAAATTTT
1 TATTTTT-AATATCTAAAATTTT
19523399 TATTTTT-ATAT-TAAAATTATT
1 TATTTTTAATATCTAAAATT-TT
19523420 TATT
1 TATT
19523424 ACGATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.29
21 10 0.42
23 7 0.29
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTTTAATATCTAAAATTTT
Found at i:19525403 original size:13 final size:12
Alignment explanation
Indices: 19525385--19525420 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
19525375 TATATCATAT
19525385 TTTATATAAAAA
1 TTTATATAAAAA
*
19525397 TTATATATAATAA
1 TT-TATATAAAAA
19525410 TTTATATAAAA
1 TTTATATAAAA
19525421 CATAAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TTTATATAAAAA
Found at i:19525437 original size:25 final size:25
Alignment explanation
Indices: 19525376--19525431 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
19525366 TTATATATTT
* * * *
19525376 ATATCATATTTTATATAAAAATTAT
1 ATATAATAATTTATATAAAAATAAA
19525401 ATATAATAATTTATATAAAACATAAA
1 ATATAATAATTTATATAAAA-ATAAA
19525427 ATATA
1 ATATA
19525432 TTATTTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 18 0.69
26 8 0.31
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (25 bp):
ATATAATAATTTATATAAAAATAAA
Found at i:19525483 original size:23 final size:21
Alignment explanation
Indices: 19525457--19525519 Score: 65
Period size: 23 Copynumber: 3.0 Consensus size: 21
19525447 TTTATTTATA
*
19525457 ATTATTATTAAATTTTAAATC
1 ATTATTATTATATTTTAAATC
* * *
19525478 ATATTATTTTTTTATTTTATATC
1 --ATTATTATTATATTTTAAATC
19525501 ATTA-TATTATATTTTAAAT
1 ATTATTATTATATTTTAAAT
19525520 TATCAAATCT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
20 12 0.36
21 4 0.12
23 17 0.52
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTATTATTATATTTTAAATC
Found at i:19525791 original size:32 final size:32
Alignment explanation
Indices: 19525735--19525822 Score: 83
Period size: 31 Copynumber: 2.8 Consensus size: 32
19525725 TTTTGATTTT
*** * *
19525735 TTTATATTATATAAAATATTAAAATTTGTATA
1 TTTATATTATATTTTATATAAAAATTTATATA
19525767 TTTATATTATATTTTATATAAAAA-TTATATA
1 TTTATATTATATTTTATATAAAAATTTATATA
*
19525798 -TTATAATT-TGTATTTATATAAAAAT
1 TTTAT-ATTATAT-TTTATATAAAAAT
19525823 ATAAAATATA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 6 0.13
31 21 0.45
32 20 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (32 bp):
TTTATATTATATTTTATATAAAAATTTATATA
Found at i:19525845 original size:31 final size:32
Alignment explanation
Indices: 19525776--19525849 Score: 91
Period size: 30 Copynumber: 2.4 Consensus size: 32
19525766 ATTTATATTA
* *
19525776 TATTTTATATAAAAATTATATATTATAATTTG
1 TATTTTATATAAAAATTATAAAATATAATTTG
* *
19525808 TA-TTTATATAAAAA-TATAAAATATATTTTT
1 TATTTTATATAAAAATTATAAAATATAATTTG
19525838 TATTTTAT-TAAA
1 TATTTTATATAAA
19525850 TTTATTTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 18 0.49
31 17 0.46
32 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (32 bp):
TATTTTATATAAAAATTATAAAATATAATTTG
Found at i:19525855 original size:21 final size:22
Alignment explanation
Indices: 19525826--19525871 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
19525816 TAAAAATATA
* *
19525826 AAATATATTTTTTATT-TTATT
1 AAATATATTTATAATTATTATT
*
19525847 AAATTTATTTATAATTATTATT
1 AAATATATTTATAATTATTATT
19525869 AAA
1 AAA
19525872 ATGTTAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
AAATATATTTATAATTATTATT
Found at i:19525917 original size:19 final size:18
Alignment explanation
Indices: 19525882--19525918 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
19525872 ATGTTAAATC
*
19525882 ATATCATTTTATTTTTAT
1 ATATCATTTTATATTTAT
19525900 ATATCATATTTATATTTAT
1 ATATCAT-TTTATATTTAT
19525919 CATTATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
ATATCATTTTATATTTAT
Found at i:19528206 original size:14 final size:14
Alignment explanation
Indices: 19528187--19528215 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
19528177 AAATTCTAGA
19528187 AAATAACAGTAGTT
1 AAATAACAGTAGTT
19528201 AAATAACAGTAGTT
1 AAATAACAGTAGTT
19528215 A
1 A
19528216 CAAAAGAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
AAATAACAGTAGTT
Found at i:19530504 original size:108 final size:108
Alignment explanation
Indices: 19530301--19530520 Score: 350
Period size: 108 Copynumber: 2.0 Consensus size: 108
19530291 AAAGGATCCT
* *
19530301 AATGCAATGGTCCATCTATGGCAAAAGTTGGGAATGCACTAACAATGAAAAAGTCAGCAGTGGAG
1 AATGCAATGGTCCATCTATGGCAAAAGTTGGCAATGCACTAACAATGAAAAAGTCAGCAATGGAG
* *
19530366 GCTGCCAAGCCATTAGGAGGAGAAAGAAAGAGAATGAGACACA
66 GCTGCCAAGCCATAAGGAGGAGAAACAAAGAGAATGAGACACA
*
19530409 AATGCAATGGTCCATCTATGGCAAAAGTTGGCAATGCACTAACAATGGAAAAGTCAGCAATGGAA
1 AATGCAATGGTCCATCTATGGCAAAAGTTGGCAATGCACTAACAATGAAAAAGTCAGCAATGG-A
*
19530474 GGCTGCCAAGCCATAAGGAGGAGAACAAAGAAAGAGAATGAGACACA
65 GGCTGCCAAGCCATAAGGAGGAG---AAACAAAGAGAATGAGACACA
19530521 CATTCGGAGA
Statistics
Matches: 104, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
108 60 0.58
109 23 0.22
112 21 0.20
ACGTcount: A:0.42, C:0.16, G:0.27, T:0.15
Consensus pattern (108 bp):
AATGCAATGGTCCATCTATGGCAAAAGTTGGCAATGCACTAACAATGAAAAAGTCAGCAATGGAG
GCTGCCAAGCCATAAGGAGGAGAAACAAAGAGAATGAGACACA
Found at i:19533024 original size:10 final size:10
Alignment explanation
Indices: 19533009--19533346 Score: 85
Period size: 10 Copynumber: 35.3 Consensus size: 10
19532999 TGAGCATAAA
19533009 AAAAAATTTT
1 AAAAAATTTT
19533019 AAAAAATTCTT
1 AAAAAATT-TT
*
19533030 -AAAAATATT
1 AAAAAATTTT
*
19533039 -AAAATTTTT
1 AAAAAATTTT
* *
19533048 TAAAAATTCT
1 AAAAAATTTT
*
19533058 AACAAATTTT
1 AAAAAATTTT
*
19533068 AGAAAATTCTT
1 AAAAAATT-TT
19533079 -AAAAATTTT
1 AAAAAATTTT
*
19533088 AAAATA-TTT
1 AAAAAATTTT
*
19533097 -AAAACTTTT
1 AAAAAATTTT
*
19533106 TAAAAATTTT
1 AAAAAATTTT
19533116 ----AA-TTT
1 AAAAAATTTT
* *
19533121 AAAAACCTTAT
1 AAAAA-ATTTT
*
19533132 AAAAAATTCT
1 AAAAAATTTT
*
19533142 -AAAAA-TAT
1 AAAAAATTTT
*
19533150 AAGAAAATTCT
1 AA-AAAATTTT
*
19533161 AAACAAATTCT
1 AAA-AAATTTT
*
19533172 AAAAAA-TTC
1 AAAAAATTTT
** *
19533181 AAAACCTACTT
1 AAAAAAT-TTT
*
19533192 -AAAAATTCT
1 AAAAAATTTT
* *
19533201 CAAAAATATT
1 AAAAAATTTT
*
19533211 -AAAAATTCT
1 AAAAAATTTT
**
19533220 AAAATTTTTT
1 AAAAAATTTT
*** *
19533230 TTTAAA-TTC
1 AAAAAATTTT
*
19533239 AAAAAA-TTC
1 AAAAAATTTT
*
19533248 AAAAAAGTTCT
1 AAAAAA-TTTT
19533259 -AAAAATTTT
1 AAAAAATTTT
*
19533268 TAAAAATTTT
1 AAAAAATTTT
19533278 AAAATAA---T
1 AAAA-AATTTT
19533286 AAAAAA-TTT
1 AAAAAATTTT
**
19533295 AAAAAA-ACT
1 AAAAAATTTT
*
19533304 AAAAATTTTT
1 AAAAAATTTT
* *
19533314 AGAAAA-TTC
1 AAAAAATTTT
*
19533323 AAAATATTTTT
1 AAAA-AATTTT
19533334 AAAAAATTTT
1 AAAAAATTTT
19533344 AAA
1 AAA
19533347 TATTTAAAAA
Statistics
Matches: 236, Mismatches: 63, Indels: 58
0.66 0.18 0.16
Matches are distributed among these distances:
5 3 0.01
6 2 0.01
7 2 0.01
8 10 0.04
9 72 0.31
10 112 0.47
11 35 0.15
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.37
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:19533042 original size:19 final size:19
Alignment explanation
Indices: 19533010--19533223 Score: 87
Period size: 19 Copynumber: 11.2 Consensus size: 19
19533000 GAGCATAAAA
*
19533010 AAAAATTTTAAAAAATTCTT
1 AAAAATATT-AAAAATTCTT
* *
19533030 AAAAATATTAAAATTTTTT
1 AAAAATATTAAAAATTCTT
19533049 AAAAAT-TCTAACAAATT-TT
1 AAAAATAT-TAA-AAATTCTT
*
19533068 AGAAAATTCTTAAAAATT-TT
1 A-AAAA-TATTAAAAATTCTT
* *
19533088 -AAAATATTTAAAACTTTTT
1 AAAAATA-TTAAAAATTCTT
*
19533107 AAAAAT-TT--TAA-T-TT
1 AAAAATATTAAAAATTCTT
*
19533121 AAAAACCTTATAAAAAATTC-T
1 AAAAA---TATTAAAAATTCTT
* *
19533142 AAAAATATAAGAAAATTCTA
1 AAAAATATTA-AAAATTCTT
19533162 AACAAAT-TCTAAAAAATTC--
1 AA-AAATAT-T-AAAAATTCTT
* *
19533181 AAAACCTACTTAAAAATTCTC
1 AAAA-ATA-TTAAAAATTCTT
19533202 AAAAATATTAAAAATTC-T
1 AAAAATATTAAAAATTCTT
19533220 AAAA
1 AAAA
19533224 TTTTTTTTTA
Statistics
Matches: 153, Mismatches: 15, Indels: 54
0.69 0.07 0.24
Matches are distributed among these distances:
14 7 0.05
15 1 0.01
16 1 0.01
17 2 0.01
18 27 0.18
19 50 0.33
20 36 0.24
21 27 0.18
22 2 0.01
ACGTcount: A:0.55, C:0.08, G:0.01, T:0.36
Consensus pattern (19 bp):
AAAAATATTAAAAATTCTT
Found at i:19533290 original size:17 final size:18
Alignment explanation
Indices: 19533268--19533312 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
19533258 TAAAAATTTT
*
19533268 TAAAAATTTTAAAATAA-
1 TAAAAATTTTAAAAAAAC
*
19533285 TAAAAAATTTAAAAAAAC
1 TAAAAATTTTAAAAAAAC
19533303 TAAAAATTTT
1 TAAAAATTTT
19533313 TAGAAAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAAATTTTAAAAAAAC
Found at i:19533327 original size:45 final size:46
Alignment explanation
Indices: 19533239--19533328 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 46
19533229 TTTTAAATTC
* *
19533239 AAAAAATTCAAAAAAGTTCTAAAAATTTTTAAAAATTTTAAAATAAT
1 AAAAAATTCAAAAAAG-ACTAAAAATTTTTAAAAATTTCAAAATAAT
*
19533286 AAAAAATTTAAAAAA-ACTAAAAATTTTTAGAAAA-TTCAAAATA
1 AAAAAATTCAAAAAAGACTAAAAATTTTTA-AAAATTTCAAAATA
19533329 TTTTTAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
45 21 0.54
46 4 0.10
47 14 0.36
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (46 bp):
AAAAAATTCAAAAAAGACTAAAAATTTTTAAAAATTTCAAAATAAT
Found at i:19533331 original size:20 final size:20
Alignment explanation
Indices: 19533304--19533351 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
19533294 TAAAAAAACT
*
19533304 AAAA-ATTTTTAGAAAATTC
1 AAAATATTTTTAAAAAATTC
*
19533323 AAAATATTTTTAAAAAATTT
1 AAAATATTTTTAAAAAATTC
*
19533343 TAAATATTT
1 AAAATATTT
19533352 AAAAATTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
AAAATATTTTTAAAAAATTC
Found at i:19533357 original size:10 final size:10
Alignment explanation
Indices: 19533010--19533357 Score: 68
Period size: 9 Copynumber: 35.6 Consensus size: 10
19533000 GAGCATAAAA
19533010 AAAAAT-TTT
1 AAAAATATTT
19533019 AAAAA-ATTCTT
1 AAAAATA-T-TT
19533030 AAAAATA-TT
1 AAAAATATTT
* *
19533039 AAAATTTTTT
1 AAAAATATTT
*
19533049 AAAAAT-TCT
1 AAAAATATTT
19533058 AACAAAT-TTT
1 AA-AAATATTT
19533068 AGAAAAT-TCTT
1 A-AAAATAT-TT
19533079 AAAAAT-TTT
1 AAAAATATTT
19533088 -AAAATATTT
1 AAAAATATTT
* *
19533097 AAAACTTTTT
1 AAAAATATTT
19533107 AAAAATTTTAATTT
1 AAAAA---T-ATTT
**
19533121 AAAAACCTTAT
1 AAAAATATT-T
19533132 AAAAA-ATTCT
1 AAAAATATT-T
19533142 AAAAATA--T
1 AAAAATATTT
19533150 AAGAAA-ATTCT
1 AA-AAATATT-T
19533161 AAACAA-ATTCT
1 AAA-AATATT-T
*
19533172 AAAAA-ATTC
1 AAAAATATTT
* *
19533181 AAAACCTACTT
1 AAAA-ATATTT
*
19533192 AAAAAT-TCTC
1 AAAAATAT-TT
19533202 AAAAATA-TT
1 AAAAATATTT
*
19533211 AAAAAT-TCT
1 AAAAATATTT
* *
19533220 AAAATTTTTT
1 AAAAATATTT
*** *
19533230 TTTAA-ATTC
1 AAAAATATTT
*
19533239 AAAAA-ATTC
1 AAAAATATTT
19533248 AAAAA-AGTTCT
1 AAAAATA-TT-T
*
19533259 AAAAATTTTT
1 AAAAATATTT
19533269 AAAAAT-TTT
1 AAAAATATTT
*
19533278 -AAAATA-AT
1 AAAAATATTT
19533286 AAAAA-ATTT
1 AAAAATATTT
**
19533295 AAAAA-AACT
1 AAAAATATTT
*
19533304 AAAAATTTTT
1 AAAAATATTT
* *
19533314 AGAAA-ATTC
1 AAAAATATTT
*
19533323 AAAATATTTTT
1 AAAA-ATATTT
19533334 AAAAA-ATTT
1 AAAAATATTT
*
19533343 -TAAATATTT
1 AAAAATATTT
19533352 AAAAAT
1 AAAAAT
19533358 TTGTTTAAAT
Statistics
Matches: 250, Mismatches: 51, Indels: 75
0.66 0.14 0.20
Matches are distributed among these distances:
8 19 0.08
9 87 0.35
10 84 0.34
11 50 0.20
12 1 0.00
13 1 0.00
14 8 0.03
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.37
Consensus pattern (10 bp):
AAAAATATTT
Found at i:19533385 original size:19 final size:17
Alignment explanation
Indices: 19533331--19533390 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 17
19533321 TCAAAATATT
*
19533331 TTTAAAAAATTTTAAATA
1 TTTAAAAAATTTTTAA-A
*
19533349 TTTAAAAATTTGTTTAAA
1 TTTAAAAAATT-TTTAAA
19533367 TTTACCAAAAATTTTTAAA
1 TTTA--AAAAATTTTTAAA
19533386 TTTAA
1 TTTAA
19533391 TAAGAATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.03
18 15 0.42
19 14 0.39
20 6 0.17
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (17 bp):
TTTAAAAAATTTTTAAA
Found at i:19533489 original size:20 final size:20
Alignment explanation
Indices: 19533445--19533489 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
19533435 TCATAATTTG
* **
19533445 AAAATTTTTTAAAAATTATG
1 AAAATTTTTTAAAAAATAAA
*
19533465 TAAATTTTTTAAAAAATAAA
1 AAAATTTTTTAAAAAATAAA
19533485 AAAAT
1 AAAAT
19533490 CCAAAAAAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
AAAATTTTTTAAAAAATAAA
Found at i:19533631 original size:29 final size:28
Alignment explanation
Indices: 19533599--19533654 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
19533589 TTTTTTGTTA
19533599 TTTTTGAATTGTCTA-AAATTTTCTAGAAT
1 TTTTTGAATT-TCTATAAATTTT-TAGAAT
* *
19533628 TTTTTTAATTTTTATAAATTTTTAGAA
1 TTTTTGAATTTCTATAAATTTTTAGAA
19533655 CTTGTTAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.57
Consensus pattern (28 bp):
TTTTTGAATTTCTATAAATTTTTAGAAT
Found at i:19533640 original size:10 final size:10
Alignment explanation
Indices: 19533625--19533779 Score: 60
Period size: 9 Copynumber: 15.8 Consensus size: 10
19533615 AATTTTCTAG
*
19533625 AATTTTT-TT
1 AATTTTTATA
19533634 AATTTTTATA
1 AATTTTTATA
*
19533644 AATTTTTAGA
1 AATTTTTATA
* * *
19533654 ACTTGTTAGA
1 AATTTTTATA
*
19533664 AAATTTTA-A
1 AATTTTTATA
*
19533673 AACTTTT-TA
1 AATTTTTATA
*
19533682 ATTTTTTA-A
1 AATTTTTATA
*
19533691 AATTTTTTTCA
1 AATTTTTAT-A
19533702 GAATTTTT-TA
1 -AATTTTTATA
19533712 AATTTTTA-A
1 AATTTTTATA
*
19533721 ATTTTTTA-A
1 AATTTTTATA
19533730 GAATGTTTTA-A
1 -AAT-TTTTATA
19533741 AATTATTT-TA
1 AATT-TTTATA
* *
19533751 GAATATTTA-G
1 -AATTTTTATA
*
19533761 AATTTTTGTAA
1 AATTTTTAT-A
19533772 AATTTTTA
1 AATTTTTA
19533780 GAATTTATAC
Statistics
Matches: 111, Mismatches: 20, Indels: 28
0.70 0.13 0.18
Matches are distributed among these distances:
9 50 0.45
10 36 0.32
11 18 0.16
12 7 0.06
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (10 bp):
AATTTTTATA
Found at i:19533699 original size:11 final size:10
Alignment explanation
Indices: 19533612--19534001 Score: 89
Period size: 10 Copynumber: 39.2 Consensus size: 10
19533602 TTGAATTGTC
*
19533612 TAAAATTTTC
1 TAAAATTTTT
*
19533622 TAGAATTTTT
1 TAAAATTTTT
*
19533632 T-TAA-TTTT
1 TAAAATTTTT
19533640 TATAAA-TTTT
1 TA-AAATTTTT
* * *
19533650 TAGAACTTGT
1 TAAAATTTTT
*
19533660 TAGAAA-ATTT
1 TA-AAATTTTT
*
19533670 TAAAACTTTT
1 TAAAATTTTT
19533680 T--AATTTTT
1 TAAAATTTTT
19533688 TAAAATTTTTT
1 TAAAA-TTTTT
*
19533699 TCAGAATTTTT
1 T-AAAATTTTT
19533710 T-AAA-TTTT
1 TAAAATTTTT
19533718 T-AAATTTTT
1 TAAAATTTTT
*
19533727 TAAGAATGTTT
1 TAA-AATTTTT
19533738 TAAAATTATTT
1 TAAAATT-TTT
* *
19533749 TAGAA-TATT
1 TAAAATTTTT
*
19533758 TAGAATTTTT
1 TAAAATTTTT
19533768 GTAAAA-TTTT
1 -TAAAATTTTT
* *
19533778 TAGAATTTATA
1 TAAAATTT-TT
* * *
19533789 CAAAAATTTC
1 TAAAATTTTT
* *
19533799 T-GAATATTT
1 TAAAATTTTT
*
19533808 T-AGATTTTT
1 TAAAATTTTT
*
19533817 T-GAATATTTT
1 TAAAAT-TTTT
*
19533827 TATAACTTTTT
1 TA-AAATTTTT
* *
19533838 AAAAAAATTTT
1 -TAAAATTTTT
** *
19533849 GGAATTTTTT
1 TAAAATTTTT
19533859 TAAAA-TTTT
1 TAAAATTTTT
*
19533868 AAAGAATTTTT
1 TAA-AATTTTT
*
19533879 T-AGATTTTT
1 TAAAATTTTT
*
19533888 TATTTGAA-TTTT
1 TA---AAATTTTT
19533900 T-AAATTTTT
1 TAAAATTTTT
* **
19533909 AAAAAAATTT
1 TAAAATTTTT
19533919 T-AAATTATTT
1 TAAAATT-TTT
*
19533929 TAAAATTTGTA
1 TAAAATTT-TT
* **
19533940 AAAAAAATTT
1 TAAAATTTTT
*
19533950 TATAATTTTT
1 TAAAATTTTT
* *
19533960 TAGAATTTCT
1 TAAAATTTTT
*
19533970 TAAATTTTTT
1 TAAAATTTTT
*
19533980 TAGAATTTTT
1 TAAAATTTTT
**
19533990 TTTAATTTTT
1 TAAAATTTTT
19534000 TA
1 TA
19534002 TGCTAATGTG
Statistics
Matches: 270, Mismatches: 78, Indels: 64
0.66 0.19 0.16
Matches are distributed among these distances:
8 22 0.08
9 58 0.21
10 113 0.42
11 65 0.24
12 11 0.04
13 1 0.00
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (10 bp):
TAAAATTTTT
Found at i:19533710 original size:30 final size:28
Alignment explanation
Indices: 19533667--19533785 Score: 91
Period size: 29 Copynumber: 4.0 Consensus size: 28
19533657 TGTTAGAAAA
* *
19533667 TTTTAA-AACTTTTTAATTTTTTAAAATTT
1 TTTTAAGAATTTTTTAAATTTTT-AAA-TT
*
19533696 TTTTCAGAATTTTTTAAATTTTTAAATT
1 TTTTAAGAATTTTTTAAATTTTTAAATT
*
19533724 TTTTAAGAATGTTTTAAAATTATTTTAGAA-T
1 TTTTAAGAAT-TTTTTAAA-T-TTTTA-AATT
*
19533755 ATTT-AGAATTTTTGTAAAATTTTTAGAATT
1 TTTTAAGAATTTTT-T-AAATTTTTA-AATT
19533785 T
1 T
19533786 ATACAAAAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 15
0.76 0.08 0.15
Matches are distributed among these distances:
28 11 0.15
29 27 0.36
30 22 0.30
31 12 0.16
32 2 0.03
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (28 bp):
TTTTAAGAATTTTTTAAATTTTTAAATT
Found at i:19533738 original size:21 final size:18
Alignment explanation
Indices: 19533614--19533785 Score: 73
Period size: 19 Copynumber: 8.8 Consensus size: 18
19533604 GAATTGTCTA
*
19533614 AAATTTTCTAGAATTTTTT
1 AAATTTTTTA-AATTTTTT
*
19533633 TAATTTTTATAAA-TTTTT
1 AAATTTTT-TAAATTTTTT
** * *
19533651 AGAACTTGTTAGAAAATTTTA
1 A-AA-TT-TTTTAAATTTTTT
*
19533672 AAACTTTTT-AATTTTTT
1 AAATTTTTTAAATTTTTT
19533689 AAAATTTTTTTCAGAATTTTTT
1 -AAA-TTTTTT-A-AATTTTTT
19533711 AAA-TTTTTAAATTTTTT
1 AAATTTTTTAAATTTTTT
*
19533728 AAGAATGTTTTAAAATTATTTT
1 -A-AAT-TTTTTAAATT-TTTT
*
19533750 AGAA-TATTTAGAATTTTTGT
1 A-AATTTTTTA-AATTTTT-T
*
19533770 AAAATTTTTAGAATTT
1 AAATTTTTTA-AATTT
19533786 ATACAAAAAT
Statistics
Matches: 119, Mismatches: 16, Indels: 35
0.70 0.09 0.21
Matches are distributed among these distances:
17 14 0.12
18 12 0.10
19 32 0.27
20 26 0.22
21 23 0.19
22 12 0.10
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (18 bp):
AAATTTTTTAAATTTTTT
Found at i:19533740 original size:20 final size:19
Alignment explanation
Indices: 19533598--19533785 Score: 136
Period size: 20 Copynumber: 9.7 Consensus size: 19
19533588 TTTTTTTGTT
* *
19533598 ATTTTT-GAATTGTCTAAA
1 ATTTTTAGAATTTTTTAAA
*
19533616 ATTTTCTAGAATTTTTT-TA
1 ATTTT-TAGAATTTTTTAAA
* *
19533635 ATTTTTATAAATTTTTAGAA
1 ATTTTTAGAATTTTTTA-AA
* * **
19533655 CTTGTTAGAAAATTTTAAA
1 ATTTTTAGAATTTTTTAAA
19533674 ACTTTTT--AATTTTTTAAA
1 A-TTTTTAGAATTTTTTAAA
19533692 ATTTTTTTCAGAATTTTTT-AA
1 A--TTTTT-AGAATTTTTTAAA
19533713 ATTTTTA-AATTTTTTAAGA
1 ATTTTTAGAATTTTTTAA-A
* *
19533732 ATGTTTTAAAATTATTTTAGA
1 AT-TTTTAGAATT-TTTTAAA
*
19533753 ATATTTAGAATTTTTGTAAA
1 ATTTTTAGAATTTTT-TAAA
19533773 ATTTTTAGAATTT
1 ATTTTTAGAATTT
19533786 ATACAAAAAT
Statistics
Matches: 135, Mismatches: 20, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
17 8 0.06
18 26 0.19
19 25 0.19
20 53 0.39
21 10 0.07
22 13 0.10
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (19 bp):
ATTTTTAGAATTTTTTAAA
Found at i:19533806 original size:49 final size:50
Alignment explanation
Indices: 19533751--19533847 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 50
19533741 AATTATTTTA
*
19533751 GAATA-TTTAGAATTTTTGTAAAATTTTTAGAA-TTTATACAAAAATTTCT
1 GAATATTTTAGAATTTTTG-AAAATTTTTAGAACTTTATAAAAAAATTTCT
* * * *
19533800 GAATATTTTAGATTTTTTGAATATTTTTATAACTTTTTAAAAAAATTT
1 GAATATTTTAGAATTTTTGAAAATTTTTAGAACTTTATAAAAAAATTT
19533848 TGGAATTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
49 16 0.39
50 25 0.61
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (50 bp):
GAATATTTTAGAATTTTTGAAAATTTTTAGAACTTTATAAAAAAATTTCT
Found at i:19533880 original size:71 final size:70
Alignment explanation
Indices: 19533800--19533978 Score: 195
Period size: 71 Copynumber: 2.5 Consensus size: 70
19533790 AAAAATTTCT
* *
19533800 GAATATTTTAGATTTTTTGA-AT-ATTTTTATAACTTTTTAAAAAAATTTTGGAATTTTTTTAAA
1 GAATATTTTAGATTTTTT-ATATAATTTTTA-AA-TTTTTAAAAAAATTTT-AAATTATTTTAAA
19533863 ATTT-TAAA
62 ATTTGTAAA
* *
19533871 GAATTTTTTAGATTTTTTATTTGAATTTTTAAATTTTTAAAAAAATTTTAAATTATTTTAAAATT
1 GAATATTTTAGATTTTTTATAT-AATTTTTAAATTTTTAAAAAAATTTTAAATTATTTTAAAATT
19533936 TGTAAA
65 TGTAAA
* * * * *
19533942 AAAAATTTTATAATTTTT-TAGAATTTCTTAAATTTTT
1 GAATATTTTAGATTTTTTATATAATTT-TTAAATTTTT
19533979 TTAGAATTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
69 5 0.05
70 27 0.29
71 51 0.55
72 2 0.02
73 7 0.08
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.55
Consensus pattern (70 bp):
GAATATTTTAGATTTTTTATATAATTTTTAAATTTTTAAAAAAATTTTAAATTATTTTAAAATTT
GTAAA
Found at i:19533944 original size:31 final size:31
Alignment explanation
Indices: 19533895--19533967 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
19533885 TTTTATTTGA
* *
19533895 ATTTTTAAATTTTTAAAAAAATTTTA-AATT
1 ATTTTAAAATTTTAAAAAAAATTTTATAATT
19533925 ATTTTAAAATTTGTAAAAAAAATTTTATAATT
1 ATTTTAAAATTT-TAAAAAAAATTTTATAATT
*
19533957 -TTTTAGAATTT
1 ATTTTAAAATTT
19533968 CTTAAATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 11 0.29
31 23 0.61
32 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (31 bp):
ATTTTAAAATTTTAAAAAAAATTTTATAATT
Found at i:19535558 original size:6 final size:6
Alignment explanation
Indices: 19535538--19535570 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
19535528 TTCTTAAATT
*
19535538 TTTATA -TTATA TTTATT TTTATA TTTATA TTTA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTA
19535571 ATGGATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTATA
Found at i:19535565 original size:18 final size:17
Alignment explanation
Indices: 19535535--19535570 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
19535525 TCATTCTTAA
19535535 ATTTTTATATTATATTT
1 ATTTTTATATTATATTT
19535552 ATTTTTATATTTATATTT
1 ATTTTTATA-TTATATTT
19535570 A
1 A
19535571 ATGGATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTATATTATATTT
Found at i:19535837 original size:10 final size:10
Alignment explanation
Indices: 19535822--19535860 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
19535812 ATCTATTTAC
19535822 TAAATATATA
1 TAAATATATA
19535832 TAAATATATA
1 TAAATATATA
*
19535842 CAAATATATA
1 TAAATATATA
*
19535852 TATATATAT
1 TAAATATAT
19535861 GTACGAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
TAAATATATA
Found at i:19535848 original size:20 final size:20
Alignment explanation
Indices: 19535823--19535860 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
19535813 TCTATTTACT
19535823 AAATATATATAAATATATAC
1 AAATATATATAAATATATAC
*
19535843 AAATATATATATATATAT
1 AAATATATATAAATATAT
19535861 GTACGAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATATATATAAATATATAC
Found at i:19548171 original size:17 final size:19
Alignment explanation
Indices: 19548149--19548186 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
19548139 AATCTAATCA
19548149 AATTTTTA-TATTTTAA-T
1 AATTTTTATTATTTTAACT
19548166 AA-TTTTATTATTTTAACT
1 AATTTTTATTATTTTAACT
19548184 AAT
1 AAT
19548187 AAAATATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.28
17 10 0.56
18 3 0.17
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
AATTTTTATTATTTTAACT
Found at i:19550423 original size:3 final size:3
Alignment explanation
Indices: 19550415--19550446 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
19550405 TAGAACTGAT
19550415 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
19550447 GAGAAGATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:19554887 original size:23 final size:25
Alignment explanation
Indices: 19554851--19554907 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
19554841 TTTTAAGGAA
*
19554851 CATATATATAAATATGCTAAATTTT
1 CATATATATAAATATACTAAATTTT
*
19554876 CATAT-TAT-AATATATTAAATTTT
1 CATATATATAAATATACTAAATTTT
19554899 -ATATCATAT
1 CATAT-ATAT
19554908 TTTTTATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 4 0.14
23 13 0.46
24 6 0.21
25 5 0.18
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (25 bp):
CATATATATAAATATACTAAATTTT
Found at i:19557666 original size:36 final size:36
Alignment explanation
Indices: 19557626--19557699 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
19557616 GGTAAAAAAC
* * *
19557626 ACGAAAAAAGGTTAAAACGTTAGAAGGGGGGTTTGA
1 ACGAAAAAAGGTTAAAACGCTAGAAGGAGGGCTTGA
*
19557662 ACGAAAAAGGGTTAAAACGCTAGAAGGAGGGCTTGA
1 ACGAAAAAAGGTTAAAACGCTAGAAGGAGGGCTTGA
19557698 AC
1 AC
19557700 CTCCGACCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.42, C:0.09, G:0.32, T:0.16
Consensus pattern (36 bp):
ACGAAAAAAGGTTAAAACGCTAGAAGGAGGGCTTGA
Found at i:19560510 original size:2 final size:2
Alignment explanation
Indices: 19560503--19560527 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19560493 ACAAAAGCTA
19560503 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
19560528 AAGGAATTAC
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:19562681 original size:52 final size:52
Alignment explanation
Indices: 19562595--19562697 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
19562585 GGACAAGAAA
*
19562595 ACTTGCAAAAGAAGAATTCTAAGGGAAAGATGATTCTTAATGGGCAAGTTTC
1 ACTTGCAAAAGAAGAATTCTAAGGGAAAGATGATTCTTAATAGGCAAGTTTC
*
19562647 ACTTGCAAGAGAAGAATTCTAAGAGGAAAG-TGATTCTTAATAGGCAAGTTT
1 ACTTGCAAAAGAAGAATTCTAAG-GGAAAGATGATTCTTAATAGGCAAGTTT
19562698 GTATGGTTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 42 0.88
53 6 0.12
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (52 bp):
ACTTGCAAAAGAAGAATTCTAAGGGAAAGATGATTCTTAATAGGCAAGTTTC
Found at i:19563833 original size:35 final size:35
Alignment explanation
Indices: 19563767--19563833 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
19563757 GTGATGTATG
* * *
19563767 GGTGCATATGGGTATGTATTTGGTTGTGTTGAAAT
1 GGTGCACATGGGTATATATTTGGTTGGGTTGAAAT
* *
19563802 GGTGCACATGGGTATATGTTTGTTTGGGTTGA
1 GGTGCACATGGGTATATATTTGGTTGGGTTGA
19563834 GAATACTCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.18, C:0.04, G:0.36, T:0.42
Consensus pattern (35 bp):
GGTGCACATGGGTATATATTTGGTTGGGTTGAAAT
Found at i:19566400 original size:3 final size:3
Alignment explanation
Indices: 19566392--19566426 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
19566382 TAGAACTGAT
* *
19566392 TAA TAA TAA TAA TAA TAA TAA TTA TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
19566427 GAGAAGATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:19567860 original size:147 final size:147
Alignment explanation
Indices: 19567593--19567862 Score: 396
Period size: 147 Copynumber: 1.8 Consensus size: 147
19567583 CCGTATCTAT
* *
19567593 ACAATTACCACCACCAATGAAGAGTCTTGTAAGAGAGGTGAGCCTATGTAATCCCCACTCCATTA
1 ACAATTACCACCACAAATGAAGAGTCTTGTAAGAGAGGTGAGCCTATGCAATCCCCACTCCATTA
*
19567658 CTGCCTTAACAATACTGGGGCCAGAGATGTAAAGCATTGTTAAGTTGGTAGGCAAACCGCTTTCT
66 CTGCCTTAACAATACTGGGGCCAGAGATCTAAAGCATTGTTAAGTTGGTAGGCAAACCGCTTTCT
19567723 GGAAATGTCACAGCATC
131 GGAAATGTCACAGCATC
* * * * * * * *
19567740 ACAATTACCACCATAAATTACGAGTTTTTTAAGAGTGGTGAGTCTATGCAATCCCCCCTCCATTA
1 ACAATTACCACCACAAATGAAGAGTCTTGTAAGAGAGGTGAGCCTATGCAATCCCCACTCCATTA
* * * * *
19567805 CTGCCTTAACAATATTGGGTCCAGAGATCTCAAGCCTTGTTAGGTTGGTAGGCAAACC
66 CTGCCTTAACAATACTGGGGCCAGAGATCTAAAGCATTGTTAAGTTGGTAGGCAAACC
19567863 CCCTTCTGAG
Statistics
Matches: 107, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
147 107 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (147 bp):
ACAATTACCACCACAAATGAAGAGTCTTGTAAGAGAGGTGAGCCTATGCAATCCCCACTCCATTA
CTGCCTTAACAATACTGGGGCCAGAGATCTAAAGCATTGTTAAGTTGGTAGGCAAACCGCTTTCT
GGAAATGTCACAGCATC
Found at i:19575268 original size:2 final size:2
Alignment explanation
Indices: 19575261--19575291 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
19575251 CTGTCAGAAA
*
19575261 AT AT AT AT AT AT AC 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 A
19575292 ACACCTTAAT
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:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:19576863 original size:10 final size:9
Alignment explanation
Indices: 19576826--19576855 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
19576816 TAAAAAAGTG
19576826 AAAAATATAA
1 AAAAATA-AA
19576836 AAAAATAAA
1 AAAAATAAA
19576845 AAAAATAAA
1 AAAAATAAA
19576854 AA
1 AA
19576856 TTAATAAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAAATAAA
Found at i:19576863 original size:19 final size:17
Alignment explanation
Indices: 19576816--19576855 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
19576806 TTTCTTCTAT
* * *
19576816 TAAAAAAGTGAAAAATA
1 TAAAAAAATAAAAAAAA
19576833 TAAAAAAATAAAAAAAA
1 TAAAAAAATAAAAAAAA
19576850 TAAAAA
1 TAAAAA
19576856 TTAATAAACG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (17 bp):
TAAAAAAATAAAAAAAA
Found at i:19584117 original size:18 final size:18
Alignment explanation
Indices: 19584091--19584125 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19584081 AGAAAAGATT
*
19584091 ACATCCAGCAATTAAGCA
1 ACATCCAGCAATCAAGCA
*
19584109 ACATTCAGCAATCAAGC
1 ACATCCAGCAATCAAGC
19584126 TTGATTCAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.29, G:0.11, T:0.17
Consensus pattern (18 bp):
ACATCCAGCAATCAAGCA
Found at i:19585406 original size:147 final size:146
Alignment explanation
Indices: 19585200--19585475 Score: 396
Period size: 147 Copynumber: 1.9 Consensus size: 146
19585190 AATGACACAC
* *
19585200 AATTACTACCATCAATGCGGAGCATTGTAAGAGAGGTGAGTCTATGCAATCCCCACTCCATTACT
1 AATTACCACCATCAATGAGGAGCATTGTAAGAGAGGTGAGTCTATGCAATCCCCACTCCATTACT
* * *
19585265 GCCTTAACAATATTGGGTCCAGAGATGCT-AA-GCATTGTTAGGTTGGTAGGCAAACCCCTTTCT
66 GACTTAACAA-ATTGGGTCCAGAGATG-TAAAGGC-TTGTTAGGTCGGTAGGCAAACCCCCTTCT
19585328 GGAAATATTACCGCATCAG
128 GGAAATATTACCGCATCAG
* * *
19585347 AATTACCACCATCAATTAGGAG-ATCTTTAATAGAGGTGAGTCTATGCAATCCCCACTCCATTAC
1 AATTACCACCATCAATGAGGAGCAT-TGTAAGAGAGGTGAGTCTATGCAATCCCCACTCCATTAC
* **
19585411 TGACTTAACAAATTGGGTTCATTGATGTAAAGGCTTGTTAGGTCGGTAGGCAAACCCCCTTCTGG
65 TGACTTAACAAATTGGGTCCAGAGATGTAAAGGCTTGTTAGGTCGGTAGGCAAACCCCCTTCTGG
19585476 GATGGATGTC
Statistics
Matches: 115, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
145 1 0.01
146 46 0.40
147 68 0.59
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (146 bp):
AATTACCACCATCAATGAGGAGCATTGTAAGAGAGGTGAGTCTATGCAATCCCCACTCCATTACT
GACTTAACAAATTGGGTCCAGAGATGTAAAGGCTTGTTAGGTCGGTAGGCAAACCCCCTTCTGGA
AATATTACCGCATCAG
Found at i:19597191 original size:15 final size:14
Alignment explanation
Indices: 19597171--19597201 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
19597161 TTCATGCCTC
19597171 TTTTCTTTTTTCTTT
1 TTTTCTTTTTT-TTT
19597186 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
19597200 TT
1 TT
19597202 GTAGATATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTCTTTTTTTTT
Found at i:19598401 original size:39 final size:39
Alignment explanation
Indices: 19598347--19598424 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
19598337 GTACCCCGAG
* *
19598347 AAGCTAATTCACCCAAAGCAATCAAATTGTAGTGACAAT
1 AAGCTAACTCACCCAAAACAATCAAATTGTAGTGACAAT
19598386 AAGCTAACTCACCCAAAACAATCAAATTGTAGTGACAAT
1 AAGCTAACTCACCCAAAACAATCAAATTGTAGTGACAAT
19598425 TTGGTACATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.45, C:0.22, G:0.12, T:0.22
Consensus pattern (39 bp):
AAGCTAACTCACCCAAAACAATCAAATTGTAGTGACAAT
Found at i:19599440 original size:52 final size:52
Alignment explanation
Indices: 19599383--19599482 Score: 200
Period size: 52 Copynumber: 1.9 Consensus size: 52
19599373 ATTCCCTCAG
19599383 GCTTACTATTCTCTAATGCCTAATCCAATCCTTGTTGTACTAACAGATTCAA
1 GCTTACTATTCTCTAATGCCTAATCCAATCCTTGTTGTACTAACAGATTCAA
19599435 GCTTACTATTCTCTAATGCCTAATCCAATCCTTGTTGTACTAACAGAT
1 GCTTACTATTCTCTAATGCCTAATCCAATCCTTGTTGTACTAACAGAT
19599483 CTTGAATCGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (52 bp):
GCTTACTATTCTCTAATGCCTAATCCAATCCTTGTTGTACTAACAGATTCAA
Found at i:19605311 original size:7 final size:7
Alignment explanation
Indices: 19605299--19605325 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
19605289 CTAGGTAGGG
19605299 ATATTTT
1 ATATTTT
19605306 ATATTTT
1 ATATTTT
19605313 ATATTTT
1 ATATTTT
19605320 ATATTT
1 ATATTT
19605326 AACATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATATTTT
Found at i:19606964 original size:13 final size:13
Alignment explanation
Indices: 19606909--19606968 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
19606899 ATAACATAAG
19606909 AAAATATCAT--A
1 AAAATATCATGCA
*
19606920 AAAAAATCATGCA
1 AAAATATCATGCA
* * **
19606933 ACATTATCATAATA
1 AAAATATCAT-GCA
19606947 AAAATATCATGCA
1 AAAATATCATGCA
19606960 AAAATATCA
1 AAAATATCA
19606969 AAATAAAATC
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
11 9 0.25
13 18 0.50
14 9 0.25
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.25
Consensus pattern (13 bp):
AAAATATCATGCA
Found at i:19606964 original size:51 final size:50
Alignment explanation
Indices: 19606909--19607144 Score: 224
Period size: 51 Copynumber: 4.8 Consensus size: 50
19606899 ATAACATAAG
* * *
19606909 AAAATATCATAAAAAAATCATGCAACATTATCATAATAAAAATATCATGCA
1 AAAATATCATAAAAAAATCATGCAATAATACCATAATAAAAA-ATCATGCA
* *
19606960 AAAATATCA-AAATAAAATCATACAATAATACCAAAAT-AAAAATCATGCCA
1 AAAATATCATAAA-AAAATCATGCAATAATACCATAATAAAAAATCATG-CA
* * *
19607010 TAAAA-A--AT--AAAATTCATGCAATAATATCATAAT-AAAAATTATGCA
1 -AAAATATCATAAAAAAATCATGCAATAATACCATAATAAAAAATCATGCA
* *
19607055 AAAATATCTTAATAAAAAATCATGCAATAATACCATAAT---AAATCATACA
1 AAAATATCAT-A-AAAAAATCATGCAATAATACCATAATAAAAAATCATGCA
* *
19607104 AAAATATCCTAATAAAAATCATGTAATAATACCATAATAAA
1 AAAATATCATAA-AAAAATCATGCAATAATACCATAATAAA
19607145 TCAAGCAAAA
Statistics
Matches: 153, Mismatches: 17, Indels: 30
0.76 0.09 0.15
Matches are distributed among these distances:
44 4 0.03
45 3 0.02
46 29 0.19
47 3 0.02
48 26 0.17
49 23 0.15
50 10 0.07
51 55 0.36
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.25
Consensus pattern (50 bp):
AAAATATCATAAAAAAATCATGCAATAATACCATAATAAAAAATCATGCA
Found at i:19606986 original size:21 final size:21
Alignment explanation
Indices: 19606962--19607032 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
19606952 ATCATGCAAA
*
19606962 AATATCAAAATAAAATCATAC
1 AATATCAAAATAAAATCATGC
19606983 AATAATACCAAAATAAAAATCATGC
1 AAT-AT--CAAAAT-AAAATCATGC
* *
19607008 CATA-AAAAATAAAATTCATGC
1 AATATCAAAATAAAA-TCATGC
19607029 AATA
1 AATA
19607033 ATATCATAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 4 0.10
21 17 0.41
22 2 0.05
24 7 0.17
25 11 0.27
ACGTcount: A:0.61, C:0.14, G:0.03, T:0.23
Consensus pattern (21 bp):
AATATCAAAATAAAATCATGC
Found at i:19607012 original size:25 final size:25
Alignment explanation
Indices: 19606911--19607144 Score: 198
Period size: 25 Copynumber: 9.6 Consensus size: 25
19606901 AACATAAGAA
* *
19606911 AATATCATAA-AAAAATCATGCAAC
1 AATACCATAATAAAAATCATGCAAT
* * *
19606935 ATTATCATAATAAAAATATCATGCAAA
1 AATACCATAAT-AAAA-ATCATGCAAT
* * *
19606962 AATATCAAAAT-AAAATCATACAAT
1 AATACCATAATAAAAATCATGCAAT
* *
19606986 AATACCAAAATAAAAATCATGCCAT
1 AATACCATAATAAAAATCATGCAAT
*
19607011 AA-A--A-AATAAAATTCATGCAAT
1 AATACCATAATAAAAATCATGCAAT
* * *
19607032 AATATCATAATAAAAATTATGCAAA
1 AATACCATAATAAAAATCATGCAAT
* *
19607057 AATATCTTAATAAAAAATCATGCAAT
1 AATACCATAAT-AAAAATCATGCAAT
* *
19607083 AATACCATAAT--AAATCATACAAA
1 AATACCATAATAAAAATCATGCAAT
*
19607106 AATATCC-TAATAAAAATCATGTAAT
1 AATA-CCATAATAAAAATCATGCAAT
19607131 AATACCATAATAAA
1 AATACCATAATAAA
19607145 TCAAGCAAAA
Statistics
Matches: 173, Mismatches: 24, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
21 17 0.10
22 2 0.01
23 18 0.10
24 33 0.19
25 60 0.35
26 25 0.14
27 18 0.10
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (25 bp):
AATACCATAATAAAAATCATGCAAT
Found at i:19607021 original size:20 final size:22
Alignment explanation
Indices: 19606992--19607055 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 22
19606982 CAATAATACC
*
19606992 AAAATAAAAA-TCATGCCATAA
1 AAAATAAAAATTCATGCAATAA
19607013 AAAAT-AAAATTCATGCAATAA
1 AAAATAAAAATTCATGCAATAA
19607034 TATCATAATAAAAATT-ATGCAA
1 -A--A-AATAAAAATTCATGCAA
19607056 AAATATCTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
20 4 0.11
21 15 0.42
22 1 0.03
24 1 0.03
25 9 0.25
26 6 0.17
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (22 bp):
AAAATAAAAATTCATGCAATAA
Found at i:19607033 original size:21 final size:21
Alignment explanation
Indices: 19606992--19607033 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
19606982 CAATAATACC
*
19606992 AAAATAAAAATCATGCCATAA
1 AAAATAAAAATCATGCAATAA
*
19607013 AAAATAAAATTCATGCAATAA
1 AAAATAAAAATCATGCAATAA
19607034 TATCATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.21
Consensus pattern (21 bp):
AAAATAAAAATCATGCAATAA
Found at i:19607042 original size:97 final size:96
Alignment explanation
Indices: 19606921--19607096 Score: 257
Period size: 97 Copynumber: 1.8 Consensus size: 96
19606911 AATATCATAA
*
19606921 AAAAATCATGCAACATTATCATAATAAAAATATCATGCAAAAATATC-AA-AATAAAATCATACA
1 AAAAATCATGCAACAATATCATAATAAAAAT-T-ATGCAAAAATATCTAATAA-AAAATCATACA
19606984 ATAATACCAAAATAAAAATCATGCCATAAAAAAT
63 ATAATACCAAAATAAAAATCATGCCATAAAAAAT
* * *
19607018 AAAATTCATGCAATAATATCATAATAAAAATTATGCAAAAATATCTTAATAAAAAATCATGCAAT
1 AAAAATCATGCAACAATATCATAATAAAAATTATGCAAAAATATC-TAATAAAAAATCATACAAT
*
19607083 AATACCATAATAAA
65 AATACCAAAATAAA
19607097 TCATACAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
95 13 0.18
96 1 0.01
97 55 0.77
98 2 0.03
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.25
Consensus pattern (96 bp):
AAAAATCATGCAACAATATCATAATAAAAATTATGCAAAAATATCTAATAAAAAATCATACAATA
ATACCAAAATAAAAATCATGCCATAAAAAAT
Found at i:19607156 original size:25 final size:24
Alignment explanation
Indices: 19607080--19607165 Score: 56
Period size: 25 Copynumber: 3.5 Consensus size: 24
19607070 AAAATCATGC
19607080 AATAATACCATAATAAATCATAC-A
1 AATAATACCATAATAAATCA-ACAA
*
19607104 AA-AATATCC-TAATAAA--AATCATGT
1 AATAATA-CCATAATAAATCAA-CA--A
19607128 AATAATACCATAATAAATCAAGCAA
1 AATAATACCATAATAAATCAA-CAA
*
19607153 AATACATATCATA
1 AATA-ATACCATA
19607166 CAAAAAGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 18
0.69 0.06 0.26
Matches are distributed among these distances:
20 1 0.02
21 2 0.04
23 11 0.23
24 8 0.17
25 15 0.31
26 7 0.15
27 4 0.08
ACGTcount: A:0.57, C:0.15, G:0.02, T:0.26
Consensus pattern (24 bp):
AATAATACCATAATAAATCAACAA
Found at i:19610264 original size:14 final size:12
Alignment explanation
Indices: 19610243--19610299 Score: 60
Period size: 14 Copynumber: 4.2 Consensus size: 12
19610233 TAAAACATAA
19610243 TAATTTTATATTT
1 TAATTTTAT-TTT
19610256 TATATTTTATTTT
1 TA-ATTTTATTTT
19610269 TAATTTTTAATTTT
1 TAA-TTTT-ATTTT
19610283 TAATTTTTAATTTT
1 TAA-TTTT-ATTTT
19610297 TAA
1 TAA
19610300 AATTCAACAA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
12 1 0.02
13 11 0.27
14 29 0.71
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TAATTTTATTTT
Found at i:19610276 original size:7 final size:7
Alignment explanation
Indices: 19610260--19610299 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
19610250 ATATTTTATA
19610260 TTTT-AT
1 TTTTAAT
19610266 TTTTAAT
1 TTTTAAT
19610273 TTTTAAT
1 TTTTAAT
19610280 TTTTAAT
1 TTTTAAT
19610287 TTTTAAT
1 TTTTAAT
19610294 TTTTAA
1 TTTTAA
19610300 AATTCAACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.12
7 29 0.88
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTAAT
Found at i:19610375 original size:72 final size:73
Alignment explanation
Indices: 19610293--19610456 Score: 171
Period size: 72 Copynumber: 2.3 Consensus size: 73
19610283 TAATTTTTAA
* * **
19610293 TTTTTAAAATTCAACAAAAAT-AACGCAT-TAAGAT-AAAAT-ATCGTTTTTGTTAAAA-TTTTG
1 TTTTTAAAATT-AACAAAAATCAACACATATAAGATCAAAATGAT-ATTTTTG-TAAAACTAATG
19610353 AAAAAAATTCAT
63 AAAAAAATT-AT
**
19610365 TTTTTAAAATT-A-AAAAATGCAACATTTATAAGATCAAAATGATATTTTTGTAAAACTAATGAA
1 TTTTTAAAATTAACAAAAAT-CAACACATATAAGATCAAAATGATATTTTTGTAAAACTAATGAA
19610428 AAAAATTAT
65 AAAAATTAT
19610437 TTTTTAAAATTTAACAAAAA
1 TTTTTAAAA-TTAACAAAAA
19610457 CGGCTTTTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
69 6 0.08
70 1 0.01
71 4 0.05
72 33 0.43
73 25 0.32
74 3 0.04
75 5 0.06
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.37
Consensus pattern (73 bp):
TTTTTAAAATTAACAAAAATCAACACATATAAGATCAAAATGATATTTTTGTAAAACTAATGAAA
AAAATTAT
Found at i:19611246 original size:14 final size:14
Alignment explanation
Indices: 19611224--19611276 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
19611214 TTTATTGTAA
19611224 TTATT-TTATTATT
1 TTATTGTTATTATT
19611237 TTATTGTTATTA-T
1 TTATTGTTATTATT
19611250 TTATTGCTTATTATT
1 TTATTG-TTATTATT
* *
19611265 TTTTTATTATTA
1 TTATTGTTATTA
19611277 AAAAATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
13 12 0.34
14 18 0.51
15 5 0.14
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (14 bp):
TTATTGTTATTATT
Found at i:19611417 original size:3 final size:3
Alignment explanation
Indices: 19611409--19611441 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
19611399 CAAAATATCA
19611409 ATT ATT ATT ATT ATT ATT ATT ATT -TT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
19611442 GTATAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:19611583 original size:14 final size:13
Alignment explanation
Indices: 19611564--19611597 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
19611554 AGTTTTCTCT
19611564 AAAAATTACATTTA
1 AAAAATT-CATTTA
19611578 AAAAATTCATTTA
1 AAAAATTCATTTA
*
19611591 AACAATT
1 AAAAATT
19611598 TATCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (13 bp):
AAAAATTCATTTA
Found at i:19611618 original size:19 final size:21
Alignment explanation
Indices: 19611596--19611639 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
19611586 ATTTAAACAA
* *
19611596 TTTATCATTTT-TTA-TCTTT
1 TTTATAATTTTATTACTATTT
19611615 TTTATAATTTTATTACTATTT
1 TTTATAATTTTATTACTATTT
19611636 TTTA
1 TTTA
19611640 ACAAAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 3 0.14
21 8 0.38
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTATAATTTTATTACTATTT
Found at i:19611737 original size:3 final size:3
Alignment explanation
Indices: 19611729--19611772 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
19611719 CCTTAAATAG
19611729 TTA 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 TTA TT
19611773 TTTACGATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19611951 original size:6 final size:6
Alignment explanation
Indices: 19611948--19611975 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
19611938 AAACAAAACA
19611948 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
19611976 TGGAAATGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:19611958 original size:18 final size:18
Alignment explanation
Indices: 19611937--19611975 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19611927 AATAAAAATC
19611937 AAAACAAAACA-AAAAAGA
1 AAAACAAAA-AGAAAAAGA
*
19611955 AAAAGAAAAAGAAAAAGA
1 AAAACAAAAAGAAAAAGA
19611973 AAA
1 AAA
19611976 TGGAAATGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (18 bp):
AAAACAAAAAGAAAAAGA
Found at i:19612525 original size:28 final size:27
Alignment explanation
Indices: 19612468--19612529 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
19612458 GATCGAGAAA
*
19612468 TTTTTTTTATTTCTGAAAATTTGTTTT
1 TTTTTTTTACTTCTGAAAATTTGTTTT
*
19612495 TTTTTTTTGCTTCTGAAAATTT-TTTT
1 TTTTTTTTACTTCTGAAAATTTGTTTT
19612521 GTTTTTTTT
1 -TTTTTTTT
19612530 CACTACTGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 4 0.12
27 28 0.88
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.73
Consensus pattern (27 bp):
TTTTTTTTACTTCTGAAAATTTGTTTT
Found at i:19612892 original size:12 final size:12
Alignment explanation
Indices: 19612875--19612908 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
19612865 CAGAGTTGAA
19612875 ACTTTTTTTTTT
1 ACTTTTTTTTTT
19612887 ACTTTTTTCTTTT
1 ACTTTTTT-TTTT
19612900 -CTTTTTTTT
1 ACTTTTTTTT
19612909 AAAAGCTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.10
12 15 0.71
13 4 0.19
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (12 bp):
ACTTTTTTTTTT
Found at i:19614604 original size:18 final size:18
Alignment explanation
Indices: 19614581--19614617 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
19614571 TCAGTTCAGG
* *
19614581 TATTTTTATTTATTCTTT
1 TATTTTTATATATTATTT
19614599 TATTTTTATATATTATTT
1 TATTTTTATATATTATTT
19614617 T
1 T
19614618 TCAATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (18 bp):
TATTTTTATATATTATTT
Found at i:19616937 original size:15 final size:15
Alignment explanation
Indices: 19616913--19616942 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19616903 GTTTTATCTC
19616913 AAAATGAAAAAAATT
1 AAAATGAAAAAAATT
*
19616928 AAAATTAAAAAAATT
1 AAAATGAAAAAAATT
19616943 TTGAATGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
AAAATGAAAAAAATT
Found at i:19618250 original size:52 final size:52
Alignment explanation
Indices: 19618094--19618250 Score: 192
Period size: 52 Copynumber: 3.0 Consensus size: 52
19618084 TATAACCATA
* * *
19618094 CAAATTTACCCATTAAGAAT-CTCTCTTCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTACCTATTAAGAATCCTCT-TTCTCTTAGAATTCTTCTCTTGTAAGT
* * * *
19618146 CAAACTTGCCTATTAAAAATCCT-TTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCCTCTTT-CTCTTAGAATTCTTCTCTTGTAAGT
* * *
19618198 CAAACTTACCTATTAAGAATCCTCTTTCTCTTAGAATTTTTTTTTTGTAAGT
1 CAAACTTACCTATTAAGAATCCTCTTTCTCTTAGAATTCTTCTCTTGTAAGT
19618250 C
1 C
19618251 TTCTTGTCCA
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
51 2 0.02
52 81 0.92
53 5 0.06
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.43
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCCTCTTTCTCTTAGAATTCTTCTCTTGTAAGT
Found at i:19621614 original size:21 final size:21
Alignment explanation
Indices: 19621585--19621625 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19621575 CCTTGCCCAA
*
19621585 TTATGTAATTATTAAAATTTT
1 TTATGTAATCATTAAAATTTT
* *
19621606 TTATTTAATCATTAACATTT
1 TTATGTAATCATTAAAATTT
19621626 GAATAAGTAT
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:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (21 bp):
TTATGTAATCATTAAAATTTT
Found at i:19623974 original size:18 final size:18
Alignment explanation
Indices: 19623948--19623982 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19623938 AGAAAAGATT
*
19623948 ACATCCAGCAATTAAGCA
1 ACATCCAGCAATCAAGCA
*
19623966 ACATTCAGCAATCAAGC
1 ACATCCAGCAATCAAGC
19623983 TTGATTCAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.29, G:0.11, T:0.17
Consensus pattern (18 bp):
ACATCCAGCAATCAAGCA
Found at i:19625317 original size:147 final size:147
Alignment explanation
Indices: 19625050--19625329 Score: 374
Period size: 147 Copynumber: 1.9 Consensus size: 147
19625040 GGAAATGACA
* * * *
19625050 CACAATTACTACCATTAATGTAGAGCGTTGTAAGAGAGGTGAGTTCATGCAATCCGCACTCCATT
1 CACAATTACGACCATCAATGTAGAGCCTTGTAAGAGAGGTGAGTTCATGCAATCCCCACTCCATT
* * * *
19625115 ACTGCCTTAACAATATTGGGTCCAGAGATGCTAAGCTTTGTTAGGTTGGTAGGCAAACCCCTTTC
66 ACTGACTTAACAACATTGGGTCCAGAGATGCTAAGCTTTGTTAGGTCGGTAGGCAAACCCCCTTC
19625180 TGGAAATATCACCGCAT
131 TGGAAATATCACCGCAT
*
19625197 CACAATTACGACCATCAAT-TAGGAGACCTT-TAATAGAGGTGAG-TCTATGCAATCCCCACTCC
1 CACAATTACGACCATCAATGTA-GAG-CCTTGTAAGAGAGGTGAGTTC-ATGCAATCCCCACTCC
*
19625259 ATTACTGACTTAACAACATTGGGTTCATG-GATG-TAAAGGC-TTGTTAGGTCGGTAGGCAAACC
63 ATTACTGACTTAACAACATTGGGTCCA-GAGATGCT-AA-GCTTTGTTAGGTCGGTAGGCAAACC
19625321 CCCTTCTGG
125 CCCTTCTGG
19625330 GATGGATGTC
Statistics
Matches: 117, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
146 5 0.04
147 106 0.91
148 6 0.05
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (147 bp):
CACAATTACGACCATCAATGTAGAGCCTTGTAAGAGAGGTGAGTTCATGCAATCCCCACTCCATT
ACTGACTTAACAACATTGGGTCCAGAGATGCTAAGCTTTGTTAGGTCGGTAGGCAAACCCCCTTC
TGGAAATATCACCGCAT
Found at i:19635581 original size:24 final size:24
Alignment explanation
Indices: 19635535--19635581 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
19635525 TTGATTCAAT
*
19635535 TTATTATATTTTAAAAATTAATTA
1 TTATTATATTTTAAAAATAAATTA
*
19635559 TTATTATTATTTT-AATATAAATT
1 TTATTA-TATTTTAAAAATAAATT
19635582 TTAAGATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTATTATATTTTAAAAATAAATTA
Found at i:19636578 original size:21 final size:21
Alignment explanation
Indices: 19636540--19636591 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 21
19636530 TTCGAAATTA
19636540 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTT-AAAT
19636562 ATAAAATATTA-TTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
19636582 ATAAATATAT
1 ATAAA-ATAT
19636592 AATTATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.31
21 9 0.31
22 11 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:19636587 original size:19 final size:21
Alignment explanation
Indices: 19636539--19636589 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
19636529 ATTCGAAATT
19636539 AATA-AAATATTATTTTTTAA
1 AATATAAATATTATTTTTTAA
19636559 AATATAAAATATTA-TTTTT-A
1 AATAT-AAATATTATTTTTTAA
19636579 AATATAAATAT
1 AATATAAATAT
19636590 ATAATTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.21
20 10 0.34
21 5 0.17
22 8 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATATAAATATTATTTTTTAA
Found at i:19637239 original size:17 final size:16
Alignment explanation
Indices: 19637217--19637248 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
19637207 TATATTTTTC
19637217 TTATATTTGAAAAAAAA
1 TTATATTT-AAAAAAAA
19637234 TTATATTTAAAAAAA
1 TTATATTTAAAAAAA
19637249 TATAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
TTATATTTAAAAAAAA
Found at i:19637272 original size:23 final size:23
Alignment explanation
Indices: 19637229--19637272 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
19637219 ATATTTGAAA
*
19637229 AAAAATTATATTTAAAAAAATAT
1 AAAAATTATATTAAAAAAAATAT
19637252 AAAAA-TATATTAAAAATAAAT
1 AAAAATTATATTAAAAA-AAAT
19637273 TATTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
AAAAATTATATTAAAAAAAATAT
Found at i:19640507 original size:11 final size:12
Alignment explanation
Indices: 19640480--19640505 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19640470 AAAATAATAA
19640480 AAATTATTTTTT
1 AAATTATTTTTT
19640492 AAATTATTTTTT
1 AAATTATTTTTT
19640504 AA
1 AA
19640506 TTTTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
AAATTATTTTTT
Found at i:19640528 original size:8 final size:8
Alignment explanation
Indices: 19640517--19640553 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
19640507 TTTTAATTTA
19640517 TATATATT
1 TATATATT
*
19640525 TATATAAT
1 TATATATT
19640533 TATATATT
1 TATATATT
*
19640541 TAAATATT
1 TATATATT
19640549 TATAT
1 TATAT
19640554 TTAAAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TATATATT
Done.