Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 47 of 127
Found at i:9314064 original size:32 final size:32
Alignment explanation
Indices: 9313974--9314100 Score: 127
Period size: 32 Copynumber: 4.0 Consensus size: 32
9313964 TAAACTGGGT
* * *
9313974 TTAAATCTTTACCATATTCTAGCTAAATTAAAC
1 TTAAATCTTTATCATATGCTAGCTAAACT-AAC
* *
9314007 TTAAATC-TTATC-T-TGCACCAACTAAACTAAC
1 TTAAATCTTTATCATATG--CTAGCTAAACTAAC
9314038 TTAAATCTTTATCATATGCTAGCTAAACTAGAC
1 TTAAATCTTTATCATATGCTAGCTAAACTA-AC
* *
9314071 TCAAAT-TTTATCATATGCTAGCTAATCTAA
1 TTAAATCTTTATCATATGCTAGCTAAACTAA
9314101 GTTTAAATTA
Statistics
Matches: 79, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
30 1 0.01
31 12 0.15
32 49 0.62
33 15 0.19
34 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.37
Consensus pattern (32 bp):
TTAAATCTTTATCATATGCTAGCTAAACTAAC
Found at i:9320589 original size:17 final size:17
Alignment explanation
Indices: 9320567--9320613 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
9320557 TTAATATTTG
9320567 ATAAATATAAATTAAAT-
1 ATAAATA-AAATTAAATA
*
9320584 ATAAATAAAAATAAATA
1 ATAAATAAAATTAAATA
*
9320601 AGAAATAAAATTA
1 ATAAATAAAATTA
9320614 GTACCTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (17 bp):
ATAAATAAAATTAAATA
Found at i:9322684 original size:15 final size:16
Alignment explanation
Indices: 9322661--9322693 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9322651 GTTCTTAGCA
9322661 AAATATTTT-TTTTAT
1 AAATATTTTATTTTAT
*
9322676 AAATTTTTTATTTTAT
1 AAATATTTTATTTTAT
9322692 AA
1 AA
9322694 GAATTCTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
AAATATTTTATTTTAT
Found at i:9324947 original size:68 final size:68
Alignment explanation
Indices: 9324838--9324974 Score: 274
Period size: 68 Copynumber: 2.0 Consensus size: 68
9324828 TCATAGAATG
9324838 ATAGCCCAGGAATACAATAAAACATGTCACTAAAACTATCATACCCCAATTTAATATCCCAATCT
1 ATAGCCCAGGAATACAATAAAACATGTCACTAAAACTATCATACCCCAATTTAATATCCCAATCT
9324903 TGC
66 TGC
9324906 ATAGCCCAGGAATACAATAAAACATGTCACTAAAACTATCATACCCCAATTTAATATCCCAATCT
1 ATAGCCCAGGAATACAATAAAACATGTCACTAAAACTATCATACCCCAATTTAATATCCCAATCT
9324971 TGC
66 TGC
9324974 A
1 A
9324975 ATTGAAAAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.25
Consensus pattern (68 bp):
ATAGCCCAGGAATACAATAAAACATGTCACTAAAACTATCATACCCCAATTTAATATCCCAATCT
TGC
Found at i:9325275 original size:19 final size:19
Alignment explanation
Indices: 9325256--9325340 Score: 71
Period size: 19 Copynumber: 4.2 Consensus size: 19
9325246 TTGTATAATT
*
9325256 ATTTATTAATTACATGATT
1 ATTTATTAATTACATGATA
* *
9325275 ATTAATCAATTACATGATA
1 ATTTATTAATTACATGATA
*
9325294 ATTTATATTATATTTGCATGATA
1 A-TT-TATTA-A-TTACATGATA
* *
9325317 ATTTATATTATTACATGATC
1 ATTTAT-TAATTACATGATA
9325337 ATTT
1 ATTT
9325341 TTTTGTGATA
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
19 17 0.33
20 14 0.27
21 7 0.13
22 4 0.08
23 10 0.19
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (19 bp):
ATTTATTAATTACATGATA
Found at i:9325299 original size:23 final size:23
Alignment explanation
Indices: 9325273--9325340 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
9325263 AATTACATGA
9325273 TTAT-TAATCAATTACATGATAAT
1 TTATATAAT-AATTACATGATAAT
* * *
9325296 TTATATTATATTTGCATGATAAT
1 TTATATAATAATTACATGATAAT
*
9325319 TTATAT--T-ATTACATGATCAT
1 TTATATAATAATTACATGATAAT
9325339 TT
1 TT
9325341 TTTTGTGATA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 12 0.32
21 1 0.03
23 22 0.58
24 3 0.08
ACGTcount: A:0.37, C:0.07, G:0.06, T:0.50
Consensus pattern (23 bp):
TTATATAATAATTACATGATAAT
Found at i:9325335 original size:20 final size:22
Alignment explanation
Indices: 9325250--9325340 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 22
9325240 TATTAATTGT
*
9325250 ATAATTATTTATTA-ATTACATG
1 ATAATT-TATATTATATTACATG
* *
9325272 ATTA-TTA-ATCA-ATTACATG
1 ATAATTTATATTATATTACATG
*
9325291 ATAATTTATATTATATTTGCATG
1 ATAATTTATATTATA-TTACATG
9325314 ATAATTTATA-T-TATTACATG
1 ATAATTTATATTATATTACATG
*
9325334 ATCATTT
1 ATAATTT
9325341 TTTTGTGATA
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
19 14 0.25
20 16 0.28
21 6 0.11
22 5 0.09
23 16 0.28
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.49
Consensus pattern (22 bp):
ATAATTTATATTATATTACATG
Found at i:9327924 original size:25 final size:24
Alignment explanation
Indices: 9327896--9328041 Score: 93
Period size: 26 Copynumber: 6.0 Consensus size: 24
9327886 AGGGTTCTAT
9327896 TTTAGGATTTCATTTAAGGTTTTAA
1 TTTAGGATTTCATTT-AGGTTTTAA
* * **
9327921 TTTAAGATATCATTTAGG----GC
1 TTTAGGATTTCATTTAGGTTTTAA
**
9327941 TTTAGGGCTTCATTTAGGATTTTAA
1 TTTAGGATTTCATTTAGG-TTTTAA
* *
9327966 TTTTAGGATTTCATTTCGAGTTTCAA
1 -TTTAGGATTTCATTTAG-GTTTTAA
* *
9327992 TTTTAGGGTTTCACTTAGGCTTTTAA
1 -TTTAGGATTTCATTTAGG-TTTTAA
* *
9328018 TTTAAGATATCATTTAGGGTTTTA
1 TTTAGGATTTCATTTA-GGTTTTA
9328042 GGGTTTTAAT
Statistics
Matches: 90, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
20 14 0.16
24 3 0.03
25 31 0.34
26 41 0.46
27 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.18, T:0.49
Consensus pattern (24 bp):
TTTAGGATTTCATTTAGGTTTTAA
Found at i:9328136 original size:12 final size:12
Alignment explanation
Indices: 9328095--9328150 Score: 58
Period size: 12 Copynumber: 4.5 Consensus size: 12
9328085 TTTTATTTGG
*
9328095 GGTTTCATTTTTT
1 GGTTTCA-TTTTA
* *
9328108 GGTTTTAATTTA
1 GGTTTCATTTTA
9328120 GGGTTTCATTTTA
1 -GGTTTCATTTTA
*
9328133 GGTTTCACTTTA
1 GGTTTCATTTTA
9328145 GGTTTC
1 GGTTTC
9328151 GGGTGAGGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
12 20 0.56
13 16 0.44
ACGTcount: A:0.14, C:0.09, G:0.20, T:0.57
Consensus pattern (12 bp):
GGTTTCATTTTA
Found at i:9328136 original size:25 final size:26
Alignment explanation
Indices: 9328085--9328150 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 26
9328075 AAATTTAGAA
* *
9328085 TTTT-ATTTGGGGTTTCATTTTTTGG
1 TTTTAATTTAGGGTTTCATTTTTAGG
9328110 TTTTAATTTAGGGTTTCA-TTTTAGG
1 TTTTAATTTAGGGTTTCATTTTTAGG
* *
9328135 TTTCACTTTA-GGTTTC
1 TTTTAATTTAGGGTTTC
9328151 GGGTGAGGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 6 0.17
25 18 0.50
26 12 0.33
ACGTcount: A:0.14, C:0.08, G:0.20, T:0.59
Consensus pattern (26 bp):
TTTTAATTTAGGGTTTCATTTTTAGG
Found at i:9328308 original size:3 final size:3
Alignment explanation
Indices: 9328300--9328351 Score: 77
Period size: 3 Copynumber: 16.7 Consensus size: 3
9328290 CATTAAAAAT
*
9328300 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TCTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA
9328347 TTA TT
1 TTA TT
9328352 TAATAATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 40 0.89
4 5 0.11
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9329513 original size:26 final size:27
Alignment explanation
Indices: 9329484--9329543 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
9329474 TTTTCTACTT
9329484 TTTTTTTGCTTCTTTT-GCTTGCTGTCT-
1 TTTTTTTGCTT-TTTTGGCTTGCT-TCTC
*
9329511 TTTTTTT-CTTTTTTGGTTTGCTTCTC
1 TTTTTTTGCTTTTTTGGCTTGCTTCTC
9329537 TTTTTTT
1 TTTTTTT
9329544 TTTTTGCTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 7 0.23
26 16 0.53
27 7 0.23
ACGTcount: A:0.00, C:0.15, G:0.12, T:0.73
Consensus pattern (27 bp):
TTTTTTTGCTTTTTTGGCTTGCTTCTC
Found at i:9329516 original size:30 final size:28
Alignment explanation
Indices: 9329482--9329551 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 28
9329472 TCTTTTCTAC
*
9329482 TTTTTTTTTGCTTCTTTTGCTTGCTGTCTTT
1 TTTTTTTTTGCTTCGTTTGCTT-C--TCTTT
*
9329513 TTTTTCTTTT--TTGGTTTGCTTCTCTTT
1 TTTTT-TTTTGCTTCGTTTGCTTCTCTTT
9329540 TTTTTTTTTGCT
1 TTTTTTTTTGCT
9329552 AACTGGATCC
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
26 4 0.12
27 10 0.29
28 1 0.03
29 1 0.03
30 9 0.26
31 5 0.15
32 4 0.12
ACGTcount: A:0.00, C:0.14, G:0.11, T:0.74
Consensus pattern (28 bp):
TTTTTTTTTGCTTCGTTTGCTTCTCTTT
Found at i:9329540 original size:25 final size:26
Alignment explanation
Indices: 9329485--9329549 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
9329475 TTTCTACTTT
*
9329485 TTTTTTGCTTCTTTT-GCTTGCTGTCTT
1 TTTTTT-CTT-TTTTGGCTTGCTGTCTC
*
9329512 TTTTTTCTTTTTTGGTTTGCT-TCTC
1 TTTTTTCTTTTTTGGCTTGCTGTCTC
9329537 TTTTTT-TTTTTTG
1 TTTTTTCTTTTTTG
9329550 CTAACTGGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 7 0.20
25 13 0.37
26 9 0.26
27 6 0.17
ACGTcount: A:0.00, C:0.14, G:0.12, T:0.74
Consensus pattern (26 bp):
TTTTTTCTTTTTTGGCTTGCTGTCTC
Found at i:9329972 original size:14 final size:14
Alignment explanation
Indices: 9329951--9330053 Score: 56
Period size: 13 Copynumber: 7.3 Consensus size: 14
9329941 TTATATTTAA
*
9329951 TTAT-TTATTGTTT
1 TTATATTATTATTT
9329964 TTATATTA-TATTT
1 TTATATTATTATTT
9329977 TTATTATTATAATATTT
1 TTA-TATTAT--TATTT
* *
9329994 TTATA-T-TTACTA
1 TTATATTATTATTT
*
9330006 TTATATTTTTATTT
1 TTATATTATTATTT
*
9330020 TAATATTTTATATATTT
1 T--TATATTAT-TATTT
9330037 TTAT-TTGATT-TTT
1 TTATATT-ATTATTT
9330050 TTAT
1 TTAT
9330054 TTGGTTTTGT
Statistics
Matches: 72, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
12 8 0.11
13 19 0.26
14 17 0.24
15 6 0.08
16 8 0.11
17 14 0.19
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.70
Consensus pattern (14 bp):
TTATATTATTATTT
Found at i:9330007 original size:23 final size:21
Alignment explanation
Indices: 9329975--9330042 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 21
9329965 TATATTATAT
*
9329975 TTTTATTATTATAATATTTTTA
1 TTTTAATATT-TAATATTTTTA
*
9329997 TATTTACTA-TT-ATATTTTTA
1 T-TTTAATATTTAATATTTTTA
9330017 TTTTAATATTTTATATATTTTTA
1 TTTTAATA-TTTA-ATATTTTTA
9330040 TTT
1 TTT
9330043 GATTTTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 6 0.15
20 10 0.26
21 3 0.08
22 2 0.05
23 18 0.46
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTAATATTTAATATTTTTA
Found at i:9330008 original size:37 final size:34
Alignment explanation
Indices: 9329963--9330055 Score: 107
Period size: 36 Copynumber: 2.6 Consensus size: 34
9329953 ATTTATTGTT
9329963 TTTATATTATATTTTTATTATTATAATATTTT-TATA
1 TTTATATTATATTTTTA-T-TT-TAATATTTTATATA
9329999 TTTACTATTATATTTTTATTTTAATATTTTATATA
1 TTTA-TATTATATTTTTATTTTAATATTTTATATA
* *
9330034 TTTTTATTTGATTTTTTTATTT
1 TTTATA-TT-ATATTTTTATTT
9330056 GGTTTTGTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
34 11 0.22
35 11 0.22
36 16 0.31
37 13 0.25
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (34 bp):
TTTATATTATATTTTTATTTTAATATTTTATATA
Found at i:9330017 original size:8 final size:8
Alignment explanation
Indices: 9329969--9330040 Score: 56
Period size: 8 Copynumber: 8.5 Consensus size: 8
9329959 TGTTTTTATA
9329969 TTATATTT
1 TTATATTT
*
9329977 TTATTATTA
1 TTA-TATTT
*
9329986 TAATATTT
1 TTATATTT
9329994 TTATATTT
1 TTATATTT
*
9330002 ACTATTATATT
1 -TTA-TAT-TT
9330013 TT-TATTT
1 TTATATTT
*
9330020 TAATATTT
1 TTATATTT
9330028 TATATATTT
1 T-TATATTT
9330037 TTAT
1 TTAT
9330041 TTGATTTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
7 3 0.06
8 26 0.52
9 15 0.30
10 4 0.08
11 2 0.04
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (8 bp):
TTATATTT
Found at i:9330018 original size:26 final size:23
Alignment explanation
Indices: 9329989--9330042 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 23
9329979 ATTATTATAA
*
9329989 TATTTTTATATTTACTATTATATTTT
1 TATTTTAATATTT--TA-TATATTTT
9330015 TATTTTAATATTTTATATATTTT
1 TATTTTAATATTTTATATATTTT
9330038 TATTT
1 TATTT
9330043 GATTTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 13 0.48
24 2 0.07
26 12 0.44
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
TATTTTAATATTTTATATATTTT
Found at i:9330049 original size:34 final size:34
Alignment explanation
Indices: 9329961--9330036 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
9329951 TTATTTATTG
*
9329961 TTTTTATA-TTA-TATT-T-TTATTATTATAATA
1 TTTTTATATTTACTATTATATTTTTATTATAATA
*
9329991 TTTTTATATTTACTATTATATTTTTATTTTAATA
1 TTTTTATATTTACTATTATATTTTTATTATAATA
9330025 TTTTATATATTT
1 TTTT-TATATTT
9330037 TTATTTGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 8 0.21
31 3 0.08
32 4 0.10
33 1 0.03
34 16 0.41
35 7 0.18
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.68
Consensus pattern (34 bp):
TTTTTATATTTACTATTATATTTTTATTATAATA
Found at i:9330051 original size:23 final size:23
Alignment explanation
Indices: 9330007--9330053 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
9329997 TATTTACTAT
*
9330007 TATATTTTTATTTTAATATTTTA
1 TATATTTTTATTTGAATATTTTA
* *
9330030 TATATTTTTATTTGATTTTTTTA
1 TATATTTTTATTTGAATATTTTA
9330053 T
1 T
9330054 TTGGTTTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (23 bp):
TATATTTTTATTTGAATATTTTA
Found at i:9330820 original size:33 final size:33
Alignment explanation
Indices: 9330781--9330925 Score: 130
Period size: 33 Copynumber: 4.4 Consensus size: 33
9330771 CTAAACTAAA
* *
9330781 CTTAAATTTTCATTGGGTGCCAAATACTTTGGG
1 CTTAAATTTTCATTGGGTGCCAAATAATCTGGG
* *
9330814 CTTAAATTCTT-ATTGGGTGCTAGATAATCTGGG
1 CTTAAATT-TTCATTGGGTGCCAAATAATCTGGG
* * * * * *
9330847 TTTAAATTTTCCTTGGATGCCAATTAAACTGGA
1 CTTAAATTTTCATTGGGTGCCAAATAATCTGGG
* * ** *
9330880 CTTAAATTTTCATAGGGTGCTAGCTAATTTGGG
1 CTTAAATTTTCATTGGGTGCCAAATAATCTGGG
*
9330913 TTTAAATTTTCAT
1 CTTAAATTTTCAT
9330926 CAATACCAGC
Statistics
Matches: 87, Mismatches: 23, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
32 2 0.02
33 83 0.95
34 2 0.02
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.41
Consensus pattern (33 bp):
CTTAAATTTTCATTGGGTGCCAAATAATCTGGG
Found at i:9330868 original size:66 final size:66
Alignment explanation
Indices: 9330782--9330925 Score: 182
Period size: 66 Copynumber: 2.2 Consensus size: 66
9330772 TAAACTAAAC
* *** * *
9330782 TTAAATTTTCATTGGGTGCCAAATACTTTGGGCTTAAATTCTT-ATTGGGTGCTAGATAATCTGG
1 TTAAATTTTCATTGGATGCCAAATAAACTGGACTTAAATT-TTCATAGGGTGCTAGATAATCTGG
9330846 GT
65 GT
* * * *
9330848 TTAAATTTTCCTTGGATGCCAATTAAACTGGACTTAAATTTTCATAGGGTGCTAGCTAATTTGGG
1 TTAAATTTTCATTGGATGCCAAATAAACTGGACTTAAATTTTCATAGGGTGCTAGATAATCTGGG
9330913 T
66 T
9330914 TTAAATTTTCAT
1 TTAAATTTTCAT
9330926 CAATACCAGC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
65 2 0.03
66 64 0.97
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.42
Consensus pattern (66 bp):
TTAAATTTTCATTGGATGCCAAATAAACTGGACTTAAATTTTCATAGGGTGCTAGATAATCTGGG
T
Found at i:9331567 original size:22 final size:22
Alignment explanation
Indices: 9331539--9331583 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9331529 CTAAGTTGGA
* *
9331539 CTTATGTGCTAGGTAATCTAAG
1 CTTATGTGCCAGCTAATCTAAG
*
9331561 CTTATGTGCCAGCTCATCTAAG
1 CTTATGTGCCAGCTAATCTAAG
9331583 C
1 C
9331584 CTGCATGCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (22 bp):
CTTATGTGCCAGCTAATCTAAG
Found at i:9331764 original size:34 final size:33
Alignment explanation
Indices: 9331701--9331782 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 33
9331691 TAAACTGAGT
* * **
9331701 TTAAATTTTTTCTCATGTGCTAACTAAATTAGGC
1 TTAAATTTTTTCTCAAGTGCTAACAAAATT-GAA
*
9331735 TTAAATTTTTTCTCAAGTTCTAGA-AAAATTGAA
1 TTAAATTTTTTCTCAAGTGCTA-ACAAAATTGAA
9331768 TCTAAATTTTTTCTC
1 T-TAAATTTTTTCTC
9331783 GAGAGTTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
33 2 0.05
34 38 0.93
35 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (33 bp):
TTAAATTTTTTCTCAAGTGCTAACAAAATTGAA
Found at i:9332275 original size:17 final size:18
Alignment explanation
Indices: 9332248--9332284 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
9332238 CTAGACCCAC
*
9332248 ATTCATTTTTTTATTTTT
1 ATTCATTTTTTTATTATT
9332266 ATTC-TTTTTTTATTATT
1 ATTCATTTTTTTATTATT
9332283 AT
1 AT
9332285 CTATGCACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (18 bp):
ATTCATTTTTTTATTATT
Found at i:9333067 original size:10 final size:9
Alignment explanation
Indices: 9333052--9333076 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9333042 TTCACTTTGG
9333052 TTTTTTTTA
1 TTTTTTTTA
9333061 TTTTTTTTA
1 TTTTTTTTA
9333070 TTTTTTT
1 TTTTTTT
9333077 CAAAATTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:9333170 original size:18 final size:17
Alignment explanation
Indices: 9333147--9333184 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
9333137 GTTATAACCA
*
9333147 TTTTTTT-ATTCTTTTT
1 TTTTTTTCATTATTTTT
9333163 GTTTTTTTCATTATTTTT
1 -TTTTTTTCATTATTTTT
9333181 TTTT
1 TTTT
9333185 ATATGCCCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.08, C:0.05, G:0.03, T:0.84
Consensus pattern (17 bp):
TTTTTTTCATTATTTTT
Found at i:9338651 original size:17 final size:19
Alignment explanation
Indices: 9338623--9338658 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9338613 TATCTTTTTT
9338623 TTTAATTTTTATT-CTTTA
1 TTTAATTTTTATTACTTTA
9338641 TTTAA-TTTTATTACTTTA
1 TTTAATTTTTATTACTTTA
9338659 AAATACGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTAATTTTTATTACTTTA
Found at i:9338928 original size:19 final size:19
Alignment explanation
Indices: 9338887--9338939 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
9338877 GATTTAGGGT
*
9338887 TTCAATTAAGGTTTCAAGT
1 TTCAATTAAGGTTTCAAGA
*
9338906 TTCAGTTAAGGTTT-AAGGA
1 TTCAATTAAGGTTTCAA-GA
**
9338925 TTCACCTAAGGTTTC
1 TTCAATTAAGGTTTC
9338940 GAGTTAGGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 2 0.07
19 26 0.93
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (19 bp):
TTCAATTAAGGTTTCAAGA
Found at i:9339413 original size:3 final size:3
Alignment explanation
Indices: 9339405--9339432 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9339395 TAGAGATTTA
9339405 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9339433 TTATTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9345947 original size:12 final size:12
Alignment explanation
Indices: 9345930--9345962 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
9345920 GCTTTCTTTC
9345930 TTTTTGCTTTTT
1 TTTTTGCTTTTT
9345942 TTTTTGCTTTTT
1 TTTTTGCTTTTT
9345954 TTGTTTGCT
1 TT-TTTGCT
9345963 ACCTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.00, C:0.09, G:0.12, T:0.79
Consensus pattern (12 bp):
TTTTTGCTTTTT
Found at i:9345953 original size:13 final size:13
Alignment explanation
Indices: 9345920--9345962 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
9345910 TTTTTACATG
9345920 GCTTTCTTTCTTTTT
1 GCTTT-TTT-TTTTT
9345935 GC-TTTTTTTTTT
1 GCTTTTTTTTTTT
*
9345947 GCTTTTTTTGTTT
1 GCTTTTTTTTTTT
9345960 GCT
1 GCT
9345963 ACCTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 7 0.27
13 15 0.58
14 2 0.08
15 2 0.08
ACGTcount: A:0.00, C:0.14, G:0.12, T:0.74
Consensus pattern (13 bp):
GCTTTTTTTTTTT
Found at i:9346398 original size:16 final size:15
Alignment explanation
Indices: 9346379--9346445 Score: 71
Period size: 16 Copynumber: 4.1 Consensus size: 15
9346369 ATTATATTTA
*
9346379 TTTATTATTTAGTATT
1 TTTA-TATTTATTATT
9346395 TTTATATTATATTATT
1 TTTATATT-TATTATT
9346411 TTTATATTTATTATTAT
1 TTTATATTTATTA-T-T
*
9346428 TTTATATATTTTTATT
1 TTTATAT-TTATTATT
9346444 TT
1 TT
9346446 GTTTCATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
15 9 0.20
16 22 0.49
17 9 0.20
18 5 0.11
ACGTcount: A:0.27, C:0.00, G:0.01, T:0.72
Consensus pattern (15 bp):
TTTATATTTATTATT
Found at i:9346402 original size:18 final size:17
Alignment explanation
Indices: 9346365--9346443 Score: 79
Period size: 18 Copynumber: 4.4 Consensus size: 17
9346355 CTCTTTCTTC
*
9346365 TTTTATTATATTTATTTAT
1 TTTTATTAT-TTT-TATAT
*
9346384 TATTTAGTATTTTTATA-
1 T-TTTATTATTTTTATAT
*
9346401 TTATATTATTTTTATAT
1 TTTTATTATTTTTATAT
9346418 TTATTATTATTTTATATAT
1 TT-TTATTATTTT-TATAT
9346437 TTTTATT
1 TTTTATT
9346444 TTGTTTCATT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
16 13 0.25
17 3 0.06
18 17 0.33
19 11 0.22
20 7 0.14
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.71
Consensus pattern (17 bp):
TTTTATTATTTTTATAT
Found at i:9346405 original size:31 final size:32
Alignment explanation
Indices: 9346365--9346444 Score: 94
Period size: 31 Copynumber: 2.5 Consensus size: 32
9346355 CTCTTTCTTC
9346365 TTTTATTATATTTATTTAT-TATTTAGTATT-
1 TTTTATTATATTTATTTATATATTTAGTATTA
* *
9346395 TTTATATTATA-TTATTTTTATATTTATTATTA
1 TTT-TATTATATTTATTTATATATTTAGTATTA
*
9346427 TTTTATATATTTTTATTT
1 TTTTAT-TATATTTATTT
9346445 TGTTTCATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
30 10 0.24
31 20 0.48
32 6 0.14
33 6 0.14
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.71
Consensus pattern (32 bp):
TTTTATTATATTTATTTATATATTTAGTATTA
Found at i:9346432 original size:23 final size:26
Alignment explanation
Indices: 9346370--9346438 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 26
9346360 TCTTCTTTTA
9346370 TTATAT-TTA-TTTATTATTTAGTAT
1 TTATATATTATTTTATTATTTAGTAT
* *
9346394 TTTTATATTATATTATT-TTTA-TAT
1 TTATATATTATTTTATTATTTAGTAT
9346418 TTAT-TATTATTTTATATATTT
1 TTATATATTATTTTAT-TATTT
9346439 TTATTTTGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 10 0.27
24 12 0.32
25 10 0.27
26 5 0.14
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.70
Consensus pattern (26 bp):
TTATATATTATTTTATTATTTAGTAT
Found at i:9346437 original size:15 final size:15
Alignment explanation
Indices: 9346402--9346445 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
9346392 ATTTTTATAT
9346402 TATATTATT-TTTATA
1 TATATTATTATTT-TA
*
9346417 TTTATTATTATTTTA
1 TATATTATTATTTTA
*
9346432 TATATTTTTATTTT
1 TATATTATTATTTT
9346446 GTTTCATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 22 0.88
16 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TATATTATTATTTTA
Found at i:9348076 original size:21 final size:21
Alignment explanation
Indices: 9348059--9348099 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
9348049 AGATTTTGTA
9348059 AATTGTTGTATAGCTTTTAAT
1 AATTGTTGTATAGCTTTTAAT
9348080 AATTGTTGTATAGCTTTTAA
1 AATTGTTGTATAGCTTTTAA
9348100 GTAGAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (21 bp):
AATTGTTGTATAGCTTTTAAT
Found at i:9348702 original size:40 final size:40
Alignment explanation
Indices: 9348647--9348727 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
9348637 TAGGGTTTGA
9348647 TTTAGTTGTATGCAAGATTGAAATGTTTATTAAGGTATAG
1 TTTAGTTGTATGCAAGATTGAAATGTTTATTAAGGTATAG
*
9348687 TTTAGTTGTATGCAAGATTGAAATGTTTATTAAGGTGTAG
1 TTTAGTTGTATGCAAGATTGAAATGTTTATTAAGGTATAG
9348727 T
1 T
9348728 GTGTAGCAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.43
Consensus pattern (40 bp):
TTTAGTTGTATGCAAGATTGAAATGTTTATTAAGGTATAG
Found at i:9349008 original size:23 final size:24
Alignment explanation
Indices: 9348977--9349026 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
9348967 AGAAAGCTAG
9348977 CATTCTTATTAAACAAAACAAGGT
1 CATTCTTATTAAACAAAACAAGGT
* *
9349001 CATT-TTATTAAAGAAAATAAGGT
1 CATTCTTATTAAACAAAACAAGGT
9349024 CAT
1 CAT
9349027 CTGCTAGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (24 bp):
CATTCTTATTAAACAAAACAAGGT
Found at i:9350613 original size:48 final size:48
Alignment explanation
Indices: 9350561--9350663 Score: 136
Period size: 48 Copynumber: 2.1 Consensus size: 48
9350551 TCATTTTTAG
* *
9350561 CCTCATTTGCACCATTATCTTTTGCCAAATTGGT-AGTACCATCATTAA
1 CCTCATTTGCACCATTATCTTTTGCCAAATT-ATAAGTACCATCATCAA
* * * *
9350609 CCTCATTTGCATCATTATTTTTTGTCAAATTATAAGTACTATCATCAA
1 CCTCATTTGCACCATTATCTTTTGCCAAATTATAAGTACCATCATCAA
9350657 CCTCATT
1 CCTCATT
9350664 AGCATTAATG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
47 1 0.02
48 47 0.98
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (48 bp):
CCTCATTTGCACCATTATCTTTTGCCAAATTATAAGTACCATCATCAA
Found at i:9350678 original size:48 final size:48
Alignment explanation
Indices: 9350595--9350698 Score: 120
Period size: 48 Copynumber: 2.2 Consensus size: 48
9350585 CCAAATTGGT
* * * **
9350595 AGTACCATCATTAACCTCATTTGCATCATTATTTTTTGTCAAATTATA
1 AGTACCATCATCAACCTCATTAGCATCAATATTTTTTACCAAATTATA
* * *
9350643 AGTACTATCATCAACCTCATTAGCATTAATGTTTTTTACCAAATTAGT-
1 AGTACCATCATCAACCTCATTAGCATCAATATTTTTTACCAAATTA-TA
9350691 AGTACCAT
1 AGTACCAT
9350699 TATGTACCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
48 45 0.98
49 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (48 bp):
AGTACCATCATCAACCTCATTAGCATCAATATTTTTTACCAAATTATA
Found at i:9358334 original size:100 final size:100
Alignment explanation
Indices: 9358190--9358375 Score: 225
Period size: 100 Copynumber: 1.9 Consensus size: 100
9358180 GTTTCACTTT
*
9358190 ATAGCTTTTGATTTAATAAATATTTATTATAATTATAATGATTATTACACTTCTCTAAACAAAAA
1 ATAGCTTTTGATTTAATAAATATTTATTATAATTATAATAATTATTACA-TTCTCTAAACAAAAA
*
9358255 TGTAGTATTTGA-ATTTTTTTTATGCGTTTGACATG
65 TGTAATATTTGACATTTTTTTTATGCGTTTGACATG
* * * * * * * *
9358290 ATAGTTTTTTATTTAATAAAT-TTTGATTAT-ATGTATGATAATTATTGCATTTTTTTAATAAAA
1 ATAGCTTTTGATTTAATAAATATTT-ATTATAAT-TATAATAATTATTACATTCTCTAAACAAAA
*
9358353 ATGTAATATTTGACGTTTTTTTT
64 ATGTAATATTTGACATTTTTTTT
9358376 TTTGTGAATT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
99 27 0.38
100 45 0.62
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (100 bp):
ATAGCTTTTGATTTAATAAATATTTATTATAATTATAATAATTATTACATTCTCTAAACAAAAAT
GTAATATTTGACATTTTTTTTATGCGTTTGACATG
Found at i:9361096 original size:23 final size:23
Alignment explanation
Indices: 9361066--9361121 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
9361056 ATAAAATTAA
*
9361066 ATAATTTTAAAAAATA-ATATTTT
1 ATAATTTTAAAAAATATA-ATCTT
* *
9361089 ATATTTTTAACAAATATAATCTT
1 ATAATTTTAAAAAATATAATCTT
9361112 ATAATTTTAA
1 ATAATTTTAA
9361122 TTACTATCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 27 0.96
24 1 0.04
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAATTTTAAAAAATATAATCTT
Found at i:9361307 original size:37 final size:37
Alignment explanation
Indices: 9361255--9361330 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
9361245 TCTAAGGGAA
*
9361255 TAAATGTTATGTATAACAATATTAAGTAAACAAATTT
1 TAAATGTTATATATAACAATATTAAGTAAACAAATTT
* * *
9361292 TAAATTTTATATATAACAATATTAAGTAAATATATTT
1 TAAATGTTATATATAACAATATTAAGTAAACAAATTT
9361329 TA
1 TA
9361331 TGCTTTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (37 bp):
TAAATGTTATATATAACAATATTAAGTAAACAAATTT
Found at i:9361865 original size:113 final size:112
Alignment explanation
Indices: 9361612--9361866 Score: 287
Period size: 113 Copynumber: 2.3 Consensus size: 112
9361602 AAAGGTTATC
* * * * * *
9361612 TTTGTTGAATTTTAGAAAATATATTTTTGCATGCTTTCAACAAAACTTCATTTTTATATTAGAAA
1 TTTGTTAAATTTTAAAAAATA-ATTTTTTCATGCTTTCAACAAAACTACAATTTTATATTAAAAA
* * * * * *
9361677 TATCATCTTTTCAATAAAGATTATATTTTTTCTTTTAGAAATGTCCTT
65 TATCATCTTTTCAATAAAGATTATACTTTTTATCTTAAAAATATCATT
*** ** * *
9361725 TTTGTTAAATTTTAAATTTTTTTTTTTTTATG-TTTACAACAAAAACTACAATTTTATTTTAAAA
1 TTTGTTAAATTTTAAAAAATAATTTTTTCATGCTTT-CAAC-AAAACTACAATTTTATATTAAAA
* *
9361789 ATATCATCTTTTTAATAAAGATTGTACTTTTTATCTTAAAAATATCATT
64 ATATCATCTTTTCAATAAAGATTATACTTTTTATCTTAAAAATATCATT
9361838 TTTGTTAAATTTTAAAAAATAATTTTTTC
1 TTTGTTAAATTTTAAAAAATAATTTTTTC
9361867 CATATTTTTA
Statistics
Matches: 113, Mismatches: 27, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
111 3 0.03
112 12 0.11
113 98 0.87
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (112 bp):
TTTGTTAAATTTTAAAAAATAATTTTTTCATGCTTTCAACAAAACTACAATTTTATATTAAAAAT
ATCATCTTTTCAATAAAGATTATACTTTTTATCTTAAAAATATCATT
Found at i:9362055 original size:27 final size:26
Alignment explanation
Indices: 9362020--9362072 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
9362010 GTTATCTTTG
9362020 TTTAAAATATATTAAGAAAAAATTATT
1 TTTAAAATAT-TTAAGAAAAAATTATT
* * *
9362047 TTTATAATATTTTATAAAAAATTATT
1 TTTAAAATATTTAAGAAAAAATTATT
9362073 ACGTTTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
TTTAAAATATTTAAGAAAAAATTATT
Found at i:9362307 original size:13 final size:13
Alignment explanation
Indices: 9362269--9362311 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
9362259 CTTATGAACC
*
9362269 AAATTA-AAAAATC
1 AAATTACAAAAA-A
9362282 AAATTACAAAAAA
1 AAATTACAAAAAA
*
9362295 AAATTTCAAAAAA
1 AAATTACAAAAAA
9362308 AAAT
1 AAAT
9362312 ATTTTCCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 22 0.81
14 5 0.19
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATTACAAAAAA
Found at i:9363869 original size:41 final size:41
Alignment explanation
Indices: 9363809--9363894 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
9363799 TGAGACTTAT
9363809 AAATAGTTCCATTAACGTTAATTTTAACACACTTTTAAAAC
1 AAATAGTTCCATTAACGTTAATTTTAACACACTTTTAAAAC
*
9363850 AAATAGTTCCATTAGCGTTAATTTTAACACACTTTTAAAAC
1 AAATAGTTCCATTAACGTTAATTTTAACACACTTTTAAAAC
9363891 AAAT
1 AAAT
9363895 TTCTCAAGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (41 bp):
AAATAGTTCCATTAACGTTAATTTTAACACACTTTTAAAAC
Found at i:9364199 original size:1 final size:1
Alignment explanation
Indices: 9364195--9364227 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
9364185 CTCCAAAGGG
9364195 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9364228 CAACACCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9364691 original size:2 final size:2
Alignment explanation
Indices: 9364684--9364709 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9364674 TCTCTAGCTA
9364684 GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT
9364710 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:9365741 original size:2 final size:2
Alignment explanation
Indices: 9365729--9365763 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
9365719 ACAATGGTAC
9365729 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9365764 CTGCAAACAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9368047 original size:22 final size:22
Alignment explanation
Indices: 9368022--9368071 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
9368012 TTAATAAATG
*
9368022 AATTTTAATGATTTAAGAGAAA
1 AATTTTAACGATTTAAGAGAAA
9368044 AATTTTAACGATTTAAGAGAAA
1 AATTTTAACGATTTAAGAGAAA
9368066 AATTTT
1 AATTTT
9368072 TTAAAAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (22 bp):
AATTTTAACGATTTAAGAGAAA
Found at i:9368466 original size:20 final size:20
Alignment explanation
Indices: 9368441--9368491 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
9368431 AAGATTGTTA
9368441 AAAATTAAATTTTGATAATT
1 AAAATTAAATTTTGATAATT
9368461 AAAATTAAATTTTGATAATT
1 AAAATTAAATTTTGATAATT
9368481 --AATTAAATTTT
1 AAAATTAAATTTT
9368492 TTTATATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.35
20 20 0.65
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (20 bp):
AAAATTAAATTTTGATAATT
Found at i:9369745 original size:21 final size:20
Alignment explanation
Indices: 9369721--9369759 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9369711 CCGAATAGTG
9369721 ACATAAAAAATCAATAAAACA
1 ACAT-AAAAATCAATAAAACA
* *
9369742 ACATAGAAATCACTAAAA
1 ACATAAAAATCAATAAAA
9369760 AAATTCACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.67, C:0.15, G:0.03, T:0.15
Consensus pattern (20 bp):
ACATAAAAATCAATAAAACA
Found at i:9373988 original size:19 final size:15
Alignment explanation
Indices: 9373950--9373981 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
9373940 TAAAAGTAAT
9373950 ATATAAATAAATTAA
1 ATATAAATAAATTAA
9373965 ATATAAATAAATTAA
1 ATATAAATAAATTAA
9373980 AT
1 AT
9373982 CACTATATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATATAAATAAATTAA
Found at i:9375043 original size:53 final size:53
Alignment explanation
Indices: 9374961--9375070 Score: 168
Period size: 53 Copynumber: 2.1 Consensus size: 53
9374951 TAGCCCCCTA
* *
9374961 AAAGCTAATTAATTTAAAATAAAAATTTTATTTATTAATTTTATATAATTATAT
1 AAAGCTAATTAATTT-AAATAAAAATTTTATTTACTAATTATATATAATTATAT
*
9375015 AAAGCTAATTAATATT-AATAAAAATTTTATTTACTAGTTATATATAATTATAT
1 AAAGCTAATTAAT-TTAAATAAAAATTTTATTTACTAATTATATATAATTATAT
9375068 AAA
1 AAA
9375071 AATGTATTGG
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
53 37 0.71
54 13 0.25
55 2 0.04
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (53 bp):
AAAGCTAATTAATTTAAATAAAAATTTTATTTACTAATTATATATAATTATAT
Found at i:9376737 original size:28 final size:25
Alignment explanation
Indices: 9376686--9376750 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 25
9376676 TTTTATCTAA
*
9376686 ATATAATTTTATTCTTTAGTTTATC
1 ATATAATTTTATTCTTTAGATTATC
*
9376711 ATATAATTTTTTGTCTTTTAAGATTAT-
1 ATATAATTTTAT-TC-TTT-AGATTATC
9376738 AT-TATATTTTATT
1 ATATA-ATTTTATT
9376751 TTTTTATAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 11 0.33
26 5 0.15
27 11 0.33
28 6 0.18
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (25 bp):
ATATAATTTTATTCTTTAGATTATC
Found at i:9379569 original size:6 final size:6
Alignment explanation
Indices: 9379558--9379593 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
9379548 ATATGTAGAC
9379558 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
9379594 TTTCTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:9381955 original size:15 final size:14
Alignment explanation
Indices: 9381928--9381954 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9381918 TTTTTTTCTT
9381928 AAAAAATGATTTTC
1 AAAAAATGATTTTC
9381942 AAAAAATGATTTT
1 AAAAAATGATTTT
9381955 TATATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (14 bp):
AAAAAATGATTTTC
Found at i:9382534 original size:10 final size:10
Alignment explanation
Indices: 9382519--9382547 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
9382509 ATTATTATTT
9382519 TAATAATATA
1 TAATAATATA
9382529 TAATAATATA
1 TAATAATATA
9382539 TAATAATAT
1 TAATAATAT
9382548 GTTTATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATAATATA
Found at i:9382792 original size:21 final size:21
Alignment explanation
Indices: 9382732--9382784 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
9382722 TAATTTAATA
*
9382732 ATAAATACTTTCAATAGAAAAT
1 ATAAATA-TTTCAATAAAAAAT
9382754 ATAAATATTTCAATAAAAAAT
1 ATAAATATTTCAATAAAAAAT
9382775 ATAAATATTT
1 ATAAATATTT
9382785 TTTAAAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.36
Consensus pattern (21 bp):
ATAAATATTTCAATAAAAAAT
Found at i:9383501 original size:23 final size:23
Alignment explanation
Indices: 9383470--9383516 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
9383460 ACAATATGAA
*
9383470 ATAAACTATTTTTAATAAA-ATAT
1 ATAAACTA-TTTAAATAAAGATAT
*
9383493 ATAATCTATTTAAATAAAGATAT
1 ATAAACTATTTAAATAAAGATAT
9383516 A
1 A
9383517 AGCATATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (23 bp):
ATAAACTATTTAAATAAAGATAT
Found at i:9384096 original size:20 final size:20
Alignment explanation
Indices: 9384071--9384110 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
9384061 GAGATATCTA
9384071 CAGTTAATTTTAACATAGTG
1 CAGTTAATTTTAACATAGTG
9384091 CAGTTAATTTTAACATAGTG
1 CAGTTAATTTTAACATAGTG
9384111 AAATTAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (20 bp):
CAGTTAATTTTAACATAGTG
Found at i:9384117 original size:20 final size:20
Alignment explanation
Indices: 9384074--9384122 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
9384064 ATATCTACAG
* *
9384074 TTAATTTTAACATAGTGCAG
1 TTAATTTTAACATAGTGAAA
9384094 TTAATTTTAACATAGTGAAA
1 TTAATTTTAACATAGTGAAA
9384114 TTAAGTTTT
1 TTAA-TTTT
9384123 TTACATGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (20 bp):
TTAATTTTAACATAGTGAAA
Found at i:9385190 original size:2 final size:2
Alignment explanation
Indices: 9385183--9385220 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
9385173 GAGCAGCTAG
9385183 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9385221 CCTATCTTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9391301 original size:14 final size:15
Alignment explanation
Indices: 9391268--9391302 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9391258 ATACAAAATG
9391268 ATAAATTTAATTACT
1 ATAAATTTAATTACT
*
9391283 ATAAATTTATTTA-T
1 ATAAATTTAATTACT
9391297 ATAAAT
1 ATAAAT
9391303 CATATTTGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (15 bp):
ATAAATTTAATTACT
Found at i:9391713 original size:24 final size:20
Alignment explanation
Indices: 9391669--9391715 Score: 58
Period size: 24 Copynumber: 2.1 Consensus size: 20
9391659 ATCATTTTTT
9391669 AATTATTATTTTTTTAAAAA
1 AATTATTATTTTTTTAAAAA
9391689 AATTAATTCATTTTATTTAAGAAA
1 AATT-ATT-ATTTT-TTTAA-AAA
9391713 AAT
1 AAT
9391716 AAATAAGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.17
21 3 0.13
22 5 0.22
23 5 0.22
24 6 0.26
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (20 bp):
AATTATTATTTTTTTAAAAA
Found at i:9392936 original size:21 final size:22
Alignment explanation
Indices: 9392912--9392961 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
9392902 AAATAAGGAA
*
9392912 ATTTTTATT-ATTATTTTA-TTT
1 ATTTTTATTCATT-TTTCATTTT
*
9392933 ATTTTTTTTCATTTTTCATTTT
1 ATTTTTATTCATTTTTCATTTT
9392955 ATTTTTA
1 ATTTTTA
9392962 AAGAAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (22 bp):
ATTTTTATTCATTTTTCATTTT
Found at i:9392959 original size:12 final size:11
Alignment explanation
Indices: 9392912--9392961 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 11
9392902 AAATAAGGAA
9392912 ATTTTTATTATT
1 ATTTTTATT-TT
9392924 A-TTTTA-TTT
1 ATTTTTATTTT
*
9392933 ATTTTT-TTTC
1 ATTTTTATTTT
9392943 ATTTTTCATTTT
1 ATTTTT-ATTTT
9392955 ATTTTTA
1 ATTTTTA
9392962 AAGAAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
9 3 0.09
10 13 0.41
11 6 0.19
12 10 0.31
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:9394029 original size:26 final size:26
Alignment explanation
Indices: 9394000--9394051 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
9393990 TAACCAAATA
**
9394000 TGGTAAGGTGTATTTAGAAAGAGGAG
1 TGGTAAGGTGTAACTAGAAAGAGGAG
* *
9394026 TGGTAGGGTGTAACTAGAAAGGGGAG
1 TGGTAAGGTGTAACTAGAAAGAGGAG
9394052 ATTGCGGGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.42, T:0.23
Consensus pattern (26 bp):
TGGTAAGGTGTAACTAGAAAGAGGAG
Found at i:9398576 original size:53 final size:53
Alignment explanation
Indices: 9398505--9398605 Score: 175
Period size: 53 Copynumber: 1.9 Consensus size: 53
9398495 ATGATAACCA
*
9398505 CACACATCAACTTCTTTGCCCCCTTTTGTTCCTTTCTTTCAACCACTTTTGTG
1 CACACATCAACTTCTTTGCCCCCTATTGTTCCTTTCTTTCAACCACTTTTGTG
* *
9398558 CACACATCAGCTTTTTTGCCCCCTATTGTTCCTTTCTTTCAACCACTT
1 CACACATCAACTTCTTTGCCCCCTATTGTTCCTTTCTTTCAACCACTT
9398606 GTTTAGGGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.16, C:0.35, G:0.07, T:0.43
Consensus pattern (53 bp):
CACACATCAACTTCTTTGCCCCCTATTGTTCCTTTCTTTCAACCACTTTTGTG
Found at i:9404890 original size:26 final size:26
Alignment explanation
Indices: 9404862--9404912 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
9404852 GTTAATTTTT
9404862 AAAATAAACTTTAAAAATAATAATATA
1 AAAAT-AACTTTAAAAATAATAATATA
* *
9404889 AAAATAAGTTTAATAATAATAATA
1 AAAATAACTTTAAAAATAATAATA
9404913 AACTAACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (26 bp):
AAAATAACTTTAAAAATAATAATATA
Found at i:9406277 original size:18 final size:17
Alignment explanation
Indices: 9406241--9406299 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
9406231 AAAAGGTAAA
* *
9406241 AAAAAAAAAAAACCAAAC
1 AAAAAAAACAAATC-AAC
9406259 AAAACAAAACAAATCAAC
1 AAAA-AAAACAAATCAAC
*
9406277 AATAAAAAGCAAATCAA-
1 AA-AAAAAACAAATCAAC
9406294 AAAAAA
1 AAAAAA
9406300 TTCACACACT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 4 0.11
17 2 0.06
18 20 0.56
19 10 0.28
ACGTcount: A:0.78, C:0.15, G:0.02, T:0.05
Consensus pattern (17 bp):
AAAAAAAACAAATCAAC
Found at i:9406772 original size:13 final size:12
Alignment explanation
Indices: 9406722--9406788 Score: 57
Period size: 13 Copynumber: 5.2 Consensus size: 12
9406712 GTATAACACG
9406722 AAACAAAACAAA
1 AAACAAAACAAA
*
9406734 ACAAAATAAACAAA
1 A-AACA-AAACAAA
9406748 AAATCTCAAAACATAA
1 AAA---CAAAACA-AA
9406764 AAACAAAAC-AA
1 AAACAAAACAAA
9406775 AAA-AAAACAAA
1 AAACAAAACAAA
9406786 AAA
1 AAA
9406789 ATGTTTTCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
10 5 0.11
11 10 0.22
12 1 0.02
13 11 0.24
14 8 0.17
15 5 0.11
16 6 0.13
ACGTcount: A:0.79, C:0.15, G:0.00, T:0.06
Consensus pattern (12 bp):
AAACAAAACAAA
Found at i:9415880 original size:9 final size:9
Alignment explanation
Indices: 9415866--9415909 Score: 63
Period size: 9 Copynumber: 4.8 Consensus size: 9
9415856 TATTTTGCTT
9415866 AAAAAAAGA
1 AAAAAAAGA
9415875 AAAAAAAG-
1 AAAAAAAGA
9415883 AAAAAAAGTAA
1 AAAAAAAG--A
9415894 AAAAAAAGA
1 AAAAAAAGA
9415903 AAAAAAA
1 AAAAAAA
9415910 TGATGATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.25
9 16 0.50
11 8 0.25
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.02
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:9415896 original size:19 final size:17
Alignment explanation
Indices: 9415866--9415908 Score: 68
Period size: 19 Copynumber: 2.4 Consensus size: 17
9415856 TATTTTGCTT
9415866 AAAAAAAGAAAAAAAAG
1 AAAAAAAGAAAAAAAAG
9415883 AAAAAAAGTAAAAAAAAAG
1 AAAAAAAG--AAAAAAAAG
9415902 AAAAAAA
1 AAAAAAA
9415909 ATGATGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.33
19 16 0.67
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.02
Consensus pattern (17 bp):
AAAAAAAGAAAAAAAAG
Found at i:9416744 original size:48 final size:47
Alignment explanation
Indices: 9416683--9417616 Score: 1275
Period size: 45 Copynumber: 20.1 Consensus size: 47
9416673 AATTCAAAAA
** *
9416683 AGAAGAGAGATTTTAAAGTTGTTGAGCCTCTATTAAGAGGAGCTTTTTC
1 AGAAGA-A-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
9416732 AGGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 A-GAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* * *
9416780 ATG-TGAGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTC
1 A-GAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
9416827 AAGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 -AGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
*
9416875 --AAGAAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTC
1 AGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* *
9416920 AAGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGTTTTTTC
1 -AGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* *
9416968 --AAGAGATTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTC
1 AGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
9417013 --AAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* * * *
9417058 ATATGAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGC-TTTTC
1 AGAAGA-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
*
9417105 AAGAAAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTC
1 -AGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* *
9417152 --AAGAGATTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCTTTTTC
1 AGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
9417197 AAGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 -AGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
*
9417245 --AAGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* * *
9417290 --AAGAAATTTTAAAGTTATTGAGCCTCTGCTGAGAGGATCTTTTTT
1 AGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* * *
9417335 AGATGAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGC-TTTTC
1 AGAAGA-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* *
9417382 AAGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTAAGATGAGCTTTTTC
1 -AGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
*
9417430 --AAGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* * *
9417475 AGATGAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGC-TTTTC
1 AGAAGA-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* *
9417522 AAGAA-AAATTTTAAAGTTGTTGAGCCTATGTTGAGAGGAGCCTTTTTC
1 -AGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTC
*
9417570 --AAG-ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
9417614 AGA
1 AGA
9417617 TTTTAAGTTT
Statistics
Matches: 795, Mismatches: 62, Indels: 59
0.87 0.07 0.06
Matches are distributed among these distances:
44 43 0.05
45 293 0.37
46 33 0.04
47 136 0.17
48 283 0.36
49 2 0.00
50 5 0.01
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (47 bp):
AGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
Found at i:9416926 original size:93 final size:93
Alignment explanation
Indices: 9416688--9417614 Score: 1398
Period size: 93 Copynumber: 10.0 Consensus size: 93
9416678 AAAAAAGAAG
* * *
9416688 AGAGATTTTAAAGTTGTTGAGCCTCTATTAAGAGGAGCTTTTTCAGGAAGAAATTTTAAAGTTGT
1 AGAGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAGAAATTTTAAAGTTGT
9416753 TGAGCCTCTGCTGAGAGGAGCTTTTTCA
66 TGAGCCTCTGCTGAGAGGAGCTTTTTCA
*
9416781 TGTGAGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAGAAATTTTAAAGTT
1 --AGAGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAGAAATTTTAAAGTT
9416846 GTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
64 GTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
*
9416876 AGAAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAGAAATTTTAAAGTTGT
1 AGAGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAGAAATTTTAAAGTTGT
* *
9416941 TGAGCCTCTGCTGAGAAGAGTTTTTTCA
66 TGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
9416969 AGAGATTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTC---AAGAAATTTTAAAGTTGT
1 AGAGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAGAAATTTTAAAGTTGT
9417031 TGAGCCTCTGCTGAGAGGAGCTTTTTCA
66 TGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
9417059 TATGAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGC-TTTTCAAGAAAAAATTTTAAAGT
1 -A-GAG-ATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAGAAATTTTAAAGT
9417123 TGTTGAGCCTCTGCTGAGAGGAGC-TTTTCA
63 TGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
9417153 AGAGATTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCTTTTTCAAGAAGAAATTTTAAAGTTGT
1 AGAGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAGAAATTTTAAAGTTGT
9417218 TGAGCCTCTGCTGAGAGGAGCTTTTTCA
66 TGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
9417246 AGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC---AAGAAATTTTAAAGTTAT
1 AGAGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAGAAATTTTAAAGTTGT
* *
9417308 TGAGCCTCTGCTGAGAGGATCTTTTTTA
66 TGAGCCTCTGCTGAGAGGAGCTTTTTCA
*
9417336 GATGAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGC-TTTTCAAGAAGAAATTTTAAAGT
1 -A-GAG-ATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAGAAATTTTAAAGT
* *
9417400 TGTTGAGCCTCTGCTAAGATGAGCTTTTTCA
63 TGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
9417431 AGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC-AGATGAGAATTTTAAAGTTG
1 AGAGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAGA-AATTTTAAAGTTG
* *
9417495 TGGAGCCTCTGTTGAGAGGAGC-TTTTCA
65 TTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * *
9417523 AGAAAAATTTTAAAGTTGTTGAGCCTATGTTGAGAGGAGCCTTTTTC---AAG-ATTTTTAAAGT
1 AG--AGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAG-CTTTTTCAAGAAGAAATTTTAAAGT
9417584 TGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
63 TGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
9417615 GATTTTAAGT
Statistics
Matches: 766, Mismatches: 46, Indels: 43
0.90 0.05 0.05
Matches are distributed among these distances:
90 87 0.11
91 65 0.08
92 116 0.15
93 284 0.37
94 39 0.05
95 175 0.23
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (93 bp):
AGAGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAGAAATTTTAAAGTTGT
TGAGCCTCTGCTGAGAGGAGCTTTTTCA
Found at i:9417828 original size:20 final size:20
Alignment explanation
Indices: 9417783--9417828 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
9417773 CAGAAGTAAT
* *
9417783 AAATACGTAGTATACATATA
1 AAATACGAAGTATACATAAA
9417803 AAATACGAAGTATA-ATAAA
1 AAATACGAAGTATACATAAA
9417822 AAGATAC
1 AA-ATAC
9417829 AAAATACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.24
Consensus pattern (20 bp):
AAATACGAAGTATACATAAA
Found at i:9417844 original size:14 final size:15
Alignment explanation
Indices: 9417825--9417864 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
9417815 TAATAAAAAG
9417825 ATACAAAATACAAA-
1 ATACAAAATACAAAT
9417839 ATACAAAA-A-AAAT
1 ATACAAAATACAAAT
9417852 ATGACAAAATACA
1 AT-ACAAAATACA
9417865 CCGAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.14
13 3 0.14
14 14 0.64
15 1 0.05
16 1 0.05
ACGTcount: A:0.70, C:0.12, G:0.03, T:0.15
Consensus pattern (15 bp):
ATACAAAATACAAAT
Found at i:9417860 original size:21 final size:21
Alignment explanation
Indices: 9417834--9417894 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 21
9417824 GATACAAAAT
**
9417834 ACAAAATACAAAAAAAATATG
1 ACAAAATACAAAAAAAATAAA
9417855 ACAAAATACACCGAAAAAAATAAA
1 ACAAAATACA---AAAAAAATAAA
9417879 AC-AAA-ACAAAAAAAAT
1 ACAAAATACAAAAAAAAT
9417895 CAAGGATGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
19 8 0.23
21 10 0.29
22 3 0.09
23 3 0.09
24 11 0.31
ACGTcount: A:0.74, C:0.13, G:0.03, T:0.10
Consensus pattern (21 bp):
ACAAAATACAAAAAAAATAAA
Found at i:9424502 original size:14 final size:15
Alignment explanation
Indices: 9424469--9424503 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9424459 ATACAAAATG
9424469 ATAAATTTAATTACT
1 ATAAATTTAATTACT
*
9424484 ATAAATTTATTTA-T
1 ATAAATTTAATTACT
9424498 ATAAAT
1 ATAAAT
9424504 CATATTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (15 bp):
ATAAATTTAATTACT
Found at i:9424897 original size:24 final size:24
Alignment explanation
Indices: 9424870--9424918 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
9424860 TTATCATTTT
*
9424870 TTAATT-ATTATTTTTTAAAAAAAA
1 TTAATTCATT-TTATTTAAAAAAAA
*
9424894 TTAATTCATTTTATTTAAGAAAAA
1 TTAATTCATTTTATTTAAAAAAAA
9424918 T
1 T
9424919 AAATAAGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
TTAATTCATTTTATTTAAAAAAAA
Found at i:9425827 original size:2 final size:2
Alignment explanation
Indices: 9425820--9425852 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
9425810 TTCAGAACTA
*
9425820 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9425853 CATAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9432152 original size:27 final size:27
Alignment explanation
Indices: 9432089--9432143 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
9432079 AAATTTTATT
* **
9432089 AAAATCATATTTTATATTTTAATAGTTA
1 AAAATAATA-TTTATATTTTAATAAATA
9432117 AAAATAATATTTATATTTTAATAAATA
1 AAAATAATATTTATATTTTAATAAATA
9432144 TAAGAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
AAAATAATATTTATATTTTAATAAATA
Found at i:9432207 original size:27 final size:26
Alignment explanation
Indices: 9432168--9432218 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
9432158 TAATAAATAA
*
9432168 TTATTAATAAT-AATAATTATTTATAT
1 TTATTAAAAATAAAT-ATTATTTATAT
9432194 TTATTAAAATATAAATATTATTTAT
1 TTATTAAAA-ATAAATATTATTTAT
9432219 TAATATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 11 0.50
28 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TTATTAAAAATAAATATTATTTATAT
Found at i:9432268 original size:136 final size:133
Alignment explanation
Indices: 9432134--9432402 Score: 396
Period size: 136 Copynumber: 2.0 Consensus size: 133
9432124 TATTTATATT
*
9432134 TTAATAAATATAAGAAATA-ATAACTAATAAATAATTATTAATAATAATAATTATTTATATTTAT
1 TTAATAAA-A-AAGAAATAGATAAATAATAAATAA-TA--AATAATAATAATTATTTATATTTAT
*
9432198 TAAAATATAAATATTATTTATTAATATATAATAATTAATCTTTATGTAATAAAAAAGAAATATCT
61 TAAAATATAAATATTATTTATTAATATATAATAAATAATCTTTATGTAATAAAAAAGAAATATCT
9432263 ATATATAAAA
126 ATATAT--AA
* * * *
9432273 TTAATAAAAAAGAAATATGATAAATAATAACTAATAAATCATTATTATTATTTATATTTATTAAA
1 TTAATAAAAAAGAAATA-GATAAATAATAAATAATAAATAATAATAATTATTTATATTTATTAAA
*
9432338 ATATAAATATTATTTATTAATATATAATAAATAATCTTTATGTAATAAAAAAGAAATATTTATAT
65 ATATAAATATTATTTATTAATATATAATAAATAATCTTTATGTAATAAAAAAGAAATATCTATAT
9432403 TTATATGAAA
Statistics
Matches: 121, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
136 89 0.74
137 8 0.07
138 3 0.02
139 21 0.17
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (133 bp):
TTAATAAAAAAGAAATAGATAAATAATAAATAATAAATAATAATAATTATTTATATTTATTAAAA
TATAAATATTATTTATTAATATATAATAAATAATCTTTATGTAATAAAAAAGAAATATCTATATA
TAA
Found at i:9432308 original size:30 final size:30
Alignment explanation
Indices: 9432244--9432310 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
9432234 AATCTTTATG
* * *
9432244 TAATAAAAAAGAAATATCTATATATAAAAT
1 TAATAAAAAAGAAATATCGATAAATAAAAC
9432274 TAATAAAAAAGAAATAT-GATAAATAATAAC
1 TAATAAAAAAGAAATATCGATAAATAA-AAC
9432304 TAATAAA
1 TAATAAA
9432311 TCATTATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (30 bp):
TAATAAAAAAGAAATATCGATAAATAAAAC
Found at i:9432348 original size:24 final size:23
Alignment explanation
Indices: 9432321--9432406 Score: 59
Period size: 24 Copynumber: 3.5 Consensus size: 23
9432311 TCATTATTAT
9432321 TATTTATATTTATTAAAATATAAA
1 TATTT-TATTTATTAAAATATAAA
9432345 TA--TTATTTATTAATATATAATAAA
1 TATTTTATTTATTAA-A-AT-ATAAA
* * * *
9432369 TAATCTTTATGTAATAAAAAAGAAA
1 T-AT-TTTATTTATTAAAATATAAA
9432394 TATTTATATTTAT
1 TATTT-TATTTAT
9432407 ATGAAAATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
21 10 0.21
22 2 0.04
23 4 0.08
24 15 0.31
25 6 0.12
26 1 0.02
27 1 0.02
28 9 0.19
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (23 bp):
TATTTTATTTATTAAAATATAAA
Found at i:9438210 original size:22 final size:22
Alignment explanation
Indices: 9438185--9438229 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
9438175 TAATTATTAT
9438185 CCTATAAACCAATGTTTATTTC
1 CCTATAAACCAATGTTTATTTC
9438207 CCTATAAACCAATGTTTATTTC
1 CCTATAAACCAATGTTTATTTC
9438229 C
1 C
9438230 TATTTTGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.40
Consensus pattern (22 bp):
CCTATAAACCAATGTTTATTTC
Found at i:9449956 original size:12 final size:13
Alignment explanation
Indices: 9449934--9449964 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
9449924 AAAATTTTAT
9449934 TTTTGTCTCTTTC
1 TTTTGTCTCTTTC
9449947 TTTT-TCTCTTTC
1 TTTTGTCTCTTTC
9449959 TTTTGT
1 TTTTGT
9449965 TGGTTATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.00, C:0.19, G:0.06, T:0.74
Consensus pattern (13 bp):
TTTTGTCTCTTTC
Found at i:9455231 original size:22 final size:22
Alignment explanation
Indices: 9455203--9455246 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9455193 CTAAATCTTC
*
9455203 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
9455225 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
9455247 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:9459130 original size:22 final size:22
Alignment explanation
Indices: 9459102--9459145 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9459092 CTAAATCTTC
*
9459102 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
9459124 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
9459146 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:9459378 original size:43 final size:43
Alignment explanation
Indices: 9459329--9459410 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
9459319 CTTCGGGCTT
* *
9459329 GGAGGATTTGGTTGGATGTTTTGGACTTGAAAGGGAGTTGGAG
1 GGAGGATCTGGTTGGATGTTTTGGACGTGAAAGGGAGTTGGAG
9459372 GGAGGATCTGGTTGGATGTTTTGGACGTGAAAGGGAGTT
1 GGAGGATCTGGTTGGATGTTTTGGACGTGAAAGGGAGTT
9459411 TGAGAAGTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.21, C:0.04, G:0.44, T:0.32
Consensus pattern (43 bp):
GGAGGATCTGGTTGGATGTTTTGGACGTGAAAGGGAGTTGGAG
Found at i:9460057 original size:6 final size:6
Alignment explanation
Indices: 9460016--9460050 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
9460006 TCAACACTTG
9460016 GATTTT GATTTT GATTTT GATTTT GATTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTT
9460051 GAGTTTGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
GATTTT
Found at i:9468825 original size:34 final size:34
Alignment explanation
Indices: 9468787--9468862 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 34
9468777 CTTTTCAGAG
* *
9468787 TACATTTTTTGATAATTACAATGCTTTTT-GAAAA
1 TACATTTTTGGATAATTACAAT-ATTTTTCGAAAA
*
9468821 TACATTTTTGGATAATTATAATATTTTTCGAAAA
1 TACATTTTTGGATAATTACAATATTTTTCGAAAA
*
9468855 TATATTTT
1 TACATTTT
9468863 CCTATATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
33 5 0.14
34 32 0.86
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.50
Consensus pattern (34 bp):
TACATTTTTGGATAATTACAATATTTTTCGAAAA
Found at i:9469603 original size:26 final size:26
Alignment explanation
Indices: 9469574--9469624 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
9469564 TTAATGTTGC
*
9469574 ATTTATCTAATTATATTTTATTTTTA
1 ATTTATCTAATTATATTTTACTTTTA
*
9469600 ATTTATCTAGTTATATTTTACTTTT
1 ATTTATCTAATTATATTTTACTTTT
9469625 GTTAACGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (26 bp):
ATTTATCTAATTATATTTTACTTTTA
Found at i:9473250 original size:22 final size:22
Alignment explanation
Indices: 9473186--9473252 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
9473176 CTGTATATTT
* *
9473186 ATATTTGTATCTCTAGAATTTA
1 ATATTTGTATCTCTAAAATTAA
* *
9473208 GTATTTGTATCCCTAAAATTAA
1 ATATTTGTATCTCTAAAATTAA
*
9473230 ATATTTGTATATCTAAAATTAA
1 ATATTTGTATCTCTAAAATTAA
9473252 A
1 A
9473253 GACAAAAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (22 bp):
ATATTTGTATCTCTAAAATTAA
Found at i:9479122 original size:12 final size:12
Alignment explanation
Indices: 9479105--9479133 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
9479095 GAGGCAAGCC
9479105 ATGAATATAGAA
1 ATGAATATAGAA
9479117 ATGAATATAGAA
1 ATGAATATAGAA
9479129 ATGAA
1 ATGAA
9479134 GGCCTTAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.17, T:0.24
Consensus pattern (12 bp):
ATGAATATAGAA
Found at i:9486099 original size:22 final size:22
Alignment explanation
Indices: 9486086--9486129 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9486076 TATATATTTA
9486086 TATTTGTATATCTAGAATTAAG
1 TATTTGTATATCTAGAATTAAG
**
9486108 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATATCTAGAATTAAG
9486130 AAGAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATATCTAGAATTAAG
Found at i:9487505 original size:269 final size:264
Alignment explanation
Indices: 9486985--9487511 Score: 668
Period size: 269 Copynumber: 2.0 Consensus size: 264
9486975 CTTTGCTGAC
* * *
9486985 ATCAAGAGGCTCTTGACAGTCCTTCGATGGCCATAAAGAAGGATAACCAGTCCCCCTAAAGAATT
1 ATCAAGAGGATCTTGACAATCCTTCGATGGCCATAAAGAAGGATAACCAGTACCCCTAAAGAATT
* ** *
9487050 AAAACCGCAGTTACTCAAAACATTATAGAACAATAGAAATAATAAAATTTGTAGGACATACATCC
66 AAAACCGCAGTTACTCAAAAAATTATAGAACAATAGAAATAATAAAATTACTAGGACACACATCC
** * * *
9487115 TGACTTCTGTTTTGCAATATTTATCGGTGTTTGTTGTGTGTATTTGATCACAAGTATTTTAGCAT
131 TGACTTCAATTTTGCAATATTTATCCGTGTTTGTTGTGTGTATTCGAACACAAGTATTTTAGCAT
* *
9487180 ATGTTAAATATGCAAGACCAGCTATTTATGATAATTTGGGTCATGCAAACCACATAGATAGTTGC
196 ATGTTAAATATGCAAGACCAGCCATTTATGATAATTTGGGTCACGCAAACCACATAGATAGTTGC
9487245 TAAA
261 TAAA
* ** * *
9487249 ATCAAGAGGATGTTGACAATCCTTCGATGGCCATAAAGAAGGATAATTAGTACTCCTAGAGAATT
1 ATCAAGAGGATCTTGACAATCCTTCGATGGCCATAAAGAAGGATAACCAGTACCCCTAAAGAATT
** * * * *
9487314 AAAATTGCAGTTACTCAAAAAATTATAGGACAA-GGCCAATAA-AAAGCATGTAAACTCATTGAC
66 AAAACCGCAGTTACTCAAAAAATTATAGAACAATAG-AAATAATAAA--AT-T--ACT-A-GGAC
*
9487377 ACACATCCTGACTTCAATTTTGCAATA-TTATCCGTGTTTGTTGTGTGTATTCGAACACCAGTAT
123 ACACATCCTGACTTCAATTTTGCAATATTTATCCGTGTTTGTTGTGTGTATTCGAACACAAGTAT
* * *
9487441 TTTAGTATA-GATTAAATATGCAAGA-CTGACCATTTATGATAATTTGGGTCACGCAAAGCACAT
188 TTTAGCATATG-TTAAATATGCAAGACCAG-CCATTTATGATAATTTGGGTCACGCAAACCACAT
9487504 AGATAGTT
251 AGATAGTT
9487512 TCTTTGTCAA
Statistics
Matches: 224, Mismatches: 29, Indels: 15
0.84 0.11 0.06
Matches are distributed among these distances:
263 4 0.02
264 91 0.41
265 2 0.01
266 1 0.00
268 4 0.02
269 95 0.42
270 27 0.12
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (264 bp):
ATCAAGAGGATCTTGACAATCCTTCGATGGCCATAAAGAAGGATAACCAGTACCCCTAAAGAATT
AAAACCGCAGTTACTCAAAAAATTATAGAACAATAGAAATAATAAAATTACTAGGACACACATCC
TGACTTCAATTTTGCAATATTTATCCGTGTTTGTTGTGTGTATTCGAACACAAGTATTTTAGCAT
ATGTTAAATATGCAAGACCAGCCATTTATGATAATTTGGGTCACGCAAACCACATAGATAGTTGC
TAAA
Found at i:9492049 original size:9 final size:9
Alignment explanation
Indices: 9492037--9492092 Score: 57
Period size: 9 Copynumber: 6.6 Consensus size: 9
9492027 TTAAATATTT
9492037 AAATTTTAA
1 AAATTTTAA
9492046 AAATATTT--
1 AAAT-TTTAA
9492054 -AATTTTAA
1 AAATTTTAA
*
9492062 AGATTTT-A
1 AAATTTTAA
9492070 AAATTTTAA
1 AAATTTTAA
9492079 AAATTTTAA
1 AAATTTTAA
*
9492088 TAATT
1 AAATT
9492093 ACATAGTAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
6 3 0.08
7 3 0.08
8 7 0.18
9 23 0.59
10 3 0.08
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (9 bp):
AAATTTTAA
Found at i:9492059 original size:16 final size:16
Alignment explanation
Indices: 9492029--9492087 Score: 75
Period size: 17 Copynumber: 3.6 Consensus size: 16
9492019 TAACATAATT
9492029 AAATATTTAAATTTTAA
1 AAAT-TTTAAATTTTAA
9492046 AAATATTT-AATTTTAA
1 AAAT-TTTAAATTTTAA
*
9492062 AGATTTTAAAATTTTAA
1 AAATTTT-AAATTTTAA
9492079 AAATTTTAA
1 AAATTTTAA
9492088 TAATTACATA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
15 3 0.08
16 13 0.34
17 22 0.58
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
AAATTTTAAATTTTAA
Found at i:9492361 original size:4 final size:4
Alignment explanation
Indices: 9492352--9492398 Score: 53
Period size: 4 Copynumber: 11.5 Consensus size: 4
9492342 ATATTTGATA
9492352 TTAT TTAT TTAT TTA- TTAT TTAT TTAT TT-T GTTAT CTGTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT -T-TAT TTAT TT
9492399 GTTAGGATAG
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
3 4 0.11
4 28 0.74
5 3 0.08
6 3 0.08
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:9492368 original size:15 final size:15
Alignment explanation
Indices: 9492350--9492380 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9492340 ATATATTTGA
9492350 TATTATTTATTTATT
1 TATTATTTATTTATT
9492365 TATTATTTATTTATT
1 TATTATTTATTTATT
9492380 T
1 T
9492381 TGTTATCTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTATTTATTTATT
Found at i:9492991 original size:23 final size:23
Alignment explanation
Indices: 9492965--9493020 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
9492955 TTTAATTAAG
* *
9492965 TTAAACGAATTCGTTTATGAATA
1 TTAAACGAATTCATTTATGAACA
*
9492988 TTAAATGAATTCATTTATGAACA
1 TTAAACGAATTCATTTATGAACA
9493011 TTAAACGAAT
1 TTAAACGAAT
9493021 ATGTTCATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.38
Consensus pattern (23 bp):
TTAAACGAATTCATTTATGAACA
Found at i:9493030 original size:23 final size:22
Alignment explanation
Indices: 9492965--9493034 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 22
9492955 TTTAATTAAG
*
9492965 TTAAACGAAT-TCGTTTATGAATA
1 TTAAACGAATAT-G-TTATGAACA
*
9492988 TTAAATGAATTCAT-TTATGAACA
1 TTAAACGAA-T-ATGTTATGAACA
9493011 TTAAACGAATATGTTCATGAACA
1 TTAAACGAATATGTT-ATGAACA
9493034 T
1 T
9493035 ATATAAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
21 2 0.05
22 3 0.08
23 32 0.82
24 1 0.03
26 1 0.03
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.37
Consensus pattern (22 bp):
TTAAACGAATATGTTATGAACA
Found at i:9493243 original size:11 final size:11
Alignment explanation
Indices: 9493207--9493247 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
9493197 TATTATTATA
9493207 AAATGAATAAT
1 AAATGAATAAT
* *
9493218 AAATTAACAAT
1 AAATGAATAAT
*
9493229 AAATGAATAAC
1 AAATGAATAAT
9493240 AAATGAAT
1 AAATGAAT
9493248 GAGTTTTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.24
Consensus pattern (11 bp):
AAATGAATAAT
Found at i:9493557 original size:22 final size:24
Alignment explanation
Indices: 9493534--9493578 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
9493524 CATTTTTCAC
9493534 TTCCTTT-AAAAAAAAAAAAAACT
1 TTCCTTTCAAAAAAAAAAAAAACT
**
9493557 TTTTTTTCAAAAAAAAAAAAAA
1 TTCCTTTCAAAAAAAAAAAAAA
9493579 AACTGACTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (24 bp):
TTCCTTTCAAAAAAAAAAAAAACT
Found at i:9497836 original size:31 final size:31
Alignment explanation
Indices: 9497778--9497849 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
9497768 CAGAATCTTT
* *
9497778 CCAAAAAATTCAATCAGCACAGGAAAATTCA
1 CCAAAAAATTCAACCAGCACAGAAAAATTCA
* **
9497809 CCAAAAAATTCAACCGGCATTGAAAAATTCA
1 CCAAAAAATTCAACCAGCACAGAAAAATTCA
*
9497840 CTGAAAAAAT
1 C-CAAAAAAT
9497850 GAAAATTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 27 0.79
32 7 0.21
ACGTcount: A:0.51, C:0.21, G:0.10, T:0.18
Consensus pattern (31 bp):
CCAAAAAATTCAACCAGCACAGAAAAATTCA
Found at i:9503756 original size:2 final size:2
Alignment explanation
Indices: 9503744--9503782 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
9503734 TGAACTACAA
* *
9503744 AT AT TT AT AT AT AT AT -T TT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9503783 GGAGTCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:9503963 original size:2 final size:2
Alignment explanation
Indices: 9503958--9503989 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9503948 ATATATATAT
*
9503958 AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
9503990 TGAAAGGAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9503994 original size:12 final size:12
Alignment explanation
Indices: 9503958--9503995 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
9503948 ATATATATAT
*
9503958 AGAGAGAGAGAG
1 AGAGAGAGAGAA
9503970 AGAGAGAGAGAA
1 AGAGAGAGAGAA
*
9503982 AGAGAGAGTGAA
1 AGAGAGAGAGAA
9503994 AG
1 AG
9503996 GAGGGATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.45, T:0.03
Consensus pattern (12 bp):
AGAGAGAGAGAA
Found at i:9507276 original size:269 final size:272
Alignment explanation
Indices: 9506744--9507289 Score: 755
Period size: 273 Copynumber: 2.0 Consensus size: 272
9506734 TGTAAATTCT
* * *
9506744 TTGCTGACATCAAGAGGCTGTTGACAGTCCTTCGATGGCCATAAAGAAGGATAACCAGTCCCCCT
1 TTGCTGACATCAAGAGGCTGTTGACAGTCCTTCGATAGCCATAAAGAAGGATAACCACTCACCCT
* **
9506809 AAAGAACTAAAACCGCAGTAACTCAAAAAATTATAGGACAAGGCCAAAAGAAAGAACATGATTTT
66 AAAGAACTAAAACCGCAGTAACTCAAAAAATTACAGGACAAGGCCAAAAGAAAG-ACATGATTCG
* *
9506874 TTGGACATACATCCTGACTTCAGTTTTGCAATATCTATCAGAGTTTGTTGTGTGTTTGATTTTGA
130 TTGGACACACATCCTGACTTCAATTTTGCAATATCTATCAGAGTTTGTTGTGTG-TTGATTTTGA
* **
9506939 TCACAAGTATTTTAGTATAAATTAAGTATGCAAGACCGGCTATTTATGATAATTTGGGTCATGCA
194 ACACAAGTATTTTAGTATAAATTAAAAATGCAAGACCGGCTATTTATGATAATTTGGGTCATGCA
9507004 AACCACAAAGATAG
259 AACCACAAAGATAG
* * *
9507018 TTGCTGACATCAAGAGGGTGTTGACAGTTCTTCGATAGCCATAAAGAAGGATAACTACT-ACCCT
1 TTGCTGACATCAAGAGGCTGTTGACAGTCCTTCGATAGCCATAAAGAAGGATAACCACTCACCCT
* * ** * * *
9507082 AGAGAATTAAAATTGCAGTTACTCAAAATATTACAGGACAAGGCCAATAGAAAG-CATGTAAATT
66 AAAGAACTAAAACCGCAGTAACTCAAAAAATTACAGGACAAGGCCAAAAGAAAGACATG---ATT
* *
9507146 CGTT-GACACACATCCTGACTTCAATTTTGCAATATTTAT-ACGTGTTTGTTGTGTG-T-A-TTT
128 CGTTGGACACACATCCTGACTTCAATTTTGCAATATCTATCA-GAGTTTGTTGTGTGTTGATTTT
* *
9507206 GAACACAAGTATTTTAGTATAGATTAAAAATGCAAGACTGGCTATTTATGATAATTTGGGTCATG
192 GAACACAAGTATTTTAGTATAAATTAAAAATGCAAGACCGGCTATTTATGATAATTTGGGTCATG
*
9507271 CAAACCACATAGATAG
257 CAAACCACAAAGATAG
9507287 TTG
1 TTG
9507290 GCTATGCAAG
Statistics
Matches: 242, Mismatches: 26, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
269 81 0.33
270 1 0.00
271 5 0.02
272 1 0.00
273 95 0.39
274 59 0.24
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (272 bp):
TTGCTGACATCAAGAGGCTGTTGACAGTCCTTCGATAGCCATAAAGAAGGATAACCACTCACCCT
AAAGAACTAAAACCGCAGTAACTCAAAAAATTACAGGACAAGGCCAAAAGAAAGACATGATTCGT
TGGACACACATCCTGACTTCAATTTTGCAATATCTATCAGAGTTTGTTGTGTGTTGATTTTGAAC
ACAAGTATTTTAGTATAAATTAAAAATGCAAGACCGGCTATTTATGATAATTTGGGTCATGCAAA
CCACAAAGATAG
Found at i:9510693 original size:17 final size:17
Alignment explanation
Indices: 9510673--9510724 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
9510663 TAATATAATT
9510673 AAATATTTAAATTTTAA
1 AAATATTTAAATTTTAA
9510690 AAATTATTT-AATTTTAA
1 AAA-TATTTAAATTTTAA
*
9510707 AGAT-TTTAAAATTTTAA
1 AAATATTT-AAATTTTAA
9510724 A
1 A
9510725 TTTTTTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 3 0.10
16 1 0.03
17 22 0.71
18 5 0.16
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
AAATATTTAAATTTTAA
Found at i:9511679 original size:15 final size:14
Alignment explanation
Indices: 9511654--9511696 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
9511644 TATGTCATGA
9511654 ATAATAAATAAATT
1 ATAATAAATAAATT
9511668 ATAATCAAATAAATT
1 ATAAT-AAATAAATT
*
9511683 -TAAATGAATAAATT
1 AT-AATAAATAAATT
9511697 TTAAACGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (14 bp):
ATAATAAATAAATT
Found at i:9511697 original size:14 final size:15
Alignment explanation
Indices: 9511660--9511707 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
9511650 ATGAATAATA
* * *
9511660 AATAAATTATAATCA
1 AATAAATTTTAAACG
*
9511675 AATAAA-TTTAAATG
1 AATAAATTTTAAACG
9511689 AATAAATTTTAAACG
1 AATAAATTTTAAACG
9511704 AATA
1 AATA
9511708 TAAATAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (15 bp):
AATAAATTTTAAACG
Found at i:9512302 original size:14 final size:14
Alignment explanation
Indices: 9512283--9512312 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9512273 TATCAGATTA
9512283 TTAATTCTTTTCTT
1 TTAATTCTTTTCTT
*
9512297 TTAATTTTTTTCTT
1 TTAATTCTTTTCTT
9512311 TT
1 TT
9512313 TCTCTTAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (14 bp):
TTAATTCTTTTCTT
Done.