Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 52 of 144
Found at i:16279332 original size:40 final size:40
Alignment explanation
Indices: 16279265--16279340 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
16279255 ACAAAAAATC
* *
16279265 GAGCATTAGCGGCGATTTAGCCAAAGCGTCGCTAAAGGTA
1 GAGCATCAGCGGCGATTTAGCCAAAGCGCCGCTAAAGGTA
16279305 GAGCATCAGCGGCGATTT--CCACCAAGCGCCGCTAAA
1 GAGCATCAGCGGCGATTTAGCCA--AAGCGCCGCTAAA
16279341 AATAGGAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 3 0.09
40 29 0.91
ACGTcount: A:0.29, C:0.26, G:0.28, T:0.17
Consensus pattern (40 bp):
GAGCATCAGCGGCGATTTAGCCAAAGCGCCGCTAAAGGTA
Found at i:16279506 original size:41 final size:41
Alignment explanation
Indices: 16279420--16279656 Score: 264
Period size: 41 Copynumber: 5.8 Consensus size: 41
16279410 TTTTTAAACC
* * * *
16279420 TTTAACGGTGTTTTTATCTAAGCGCCGCTAATGCTCAGATA
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGACA
* ** * * *
16279461 TTTAGCGGCGTTTGTATCCGAGCACCGCTAATTCTCTGG-CC
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTC-GGACA
*
16279502 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATA
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGACA
*
16279543 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATA
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGACA
* *
16279584 TTTAGCGGCGTTTTTATCTGAA-CGCCGCTAATTCTCTGG-CC
1 TTTAGCGGCGTTTTTATCT-AAGCGCCGCTAATGCTC-GGACA
* ** *
16279625 TTTAGTGGCGTTTTTGCCGAAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAAT
16279657 AGTAACAAAA
Statistics
Matches: 167, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
40 4 0.02
41 158 0.95
42 5 0.03
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGACA
Found at i:16279648 original size:123 final size:123
Alignment explanation
Indices: 16279420--16279656 Score: 375
Period size: 123 Copynumber: 1.9 Consensus size: 123
16279410 TTTTTAAACC
* *
16279420 TTTAACGGTGTTTTTATCTAAGCGCCGCTAATGCTCAGATATTTAGCGGCGTTTGTATCCGAGCA
1 TTTAACGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATATTTAGCGGCGTTTGTATCCGAACA
* *
16279485 CCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATA
66 CCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTACCGAAGCGCCGCTAATGCTCGGATA
* * * * *
16279543 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATATTTAGCGGCGTTTTTATCTGAACG
1 TTTAACGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATATTTAGCGGCGTTTGTATCCGAACA
* *
16279608 CCGCTAATTCTCTGGCCTTTAGTGGCGTTTTTGCCGAAGCGCCGCTAAT
66 CCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTACCGAAGCGCCGCTAAT
16279657 AGTAACAAAA
Statistics
Matches: 103, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
123 103 1.00
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (123 bp):
TTTAACGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATATTTAGCGGCGTTTGTATCCGAACA
CCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTACCGAAGCGCCGCTAATGCTCGGATA
Found at i:16281381 original size:22 final size:22
Alignment explanation
Indices: 16281350--16281402 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
16281340 TACTCTATTA
* *
16281350 GGGTTTGGGATATA-AGGTTTAG
1 GGGTTAGGGAT-TAGAGATTTAG
16281372 GGGTTAGGGATTAGAGATTTAG
1 GGGTTAGGGATTAGAGATTTAG
16281394 GGGTTAGGG
1 GGGTTAGGG
16281403 GTTAAGTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.23, C:0.00, G:0.45, T:0.32
Consensus pattern (22 bp):
GGGTTAGGGATTAGAGATTTAG
Found at i:16281402 original size:29 final size:28
Alignment explanation
Indices: 16281347--16281436 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 28
16281337 GTGTACTCTA
* * * *
16281347 TTAGGGTTTGGGATATAAGGTTTAGGGG
1 TTAGGGTTAGAGATTTAAGGGTTAGGGG
*
16281375 TTAGGGATTAGAGATTTAGGGGTTAGGGG
1 TTAGGG-TTAGAGATTTAAGGGTTAGGGG
* * *
16281404 TTAAGTGTTAGGGATTTAAGGGTTAGAGG
1 TT-AGGGTTAGAGATTTAAGGGTTAGGGG
16281433 TTAG
1 TTAG
16281437 AAATTTAGGG
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
28 8 0.16
29 40 0.78
30 3 0.06
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.34
Consensus pattern (28 bp):
TTAGGGTTAGAGATTTAAGGGTTAGGGG
Found at i:16281466 original size:22 final size:22
Alignment explanation
Indices: 16281440--16281490 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
16281430 AGGTTAGAAA
16281440 TTTAGGGGCTAGGAGATTTAAGG
1 TTTAGGGGCTAGG-GATTTAAGG
* *
16281463 -TTAGGGGTTAGGGATTTAGGG
1 TTTAGGGGCTAGGGATTTAAGG
16281484 TTTAGGG
1 TTTAGGG
16281491 TGTCAAGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.22, C:0.02, G:0.43, T:0.33
Consensus pattern (22 bp):
TTTAGGGGCTAGGGATTTAAGG
Found at i:16281472 original size:37 final size:37
Alignment explanation
Indices: 16281412--16281483 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
16281402 GGTTAAGTGT
16281412 TAGGGATTTAAGGGTTAGAGGTTAGAAATTTAGGGGC
1 TAGGGATTTAAGGGTTAGAGGTTAGAAATTTAGGGGC
* **
16281449 TAGGAGATTTAA-GGTTAGGGGTTAGGGATTTAGGG
1 TAGG-GATTTAAGGGTTAGAGGTTAGAAATTTAGGG
16281484 TTTAGGGTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 24 0.77
38 7 0.23
ACGTcount: A:0.28, C:0.01, G:0.40, T:0.31
Consensus pattern (37 bp):
TAGGGATTTAAGGGTTAGAGGTTAGAAATTTAGGGGC
Found at i:16282127 original size:8 final size:8
Alignment explanation
Indices: 16282114--16282158 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
16282104 AAAATATATG
16282114 AAAAAATA
1 AAAAAATA
16282122 AAAAAATA
1 AAAAAATA
*
16282130 TAAAAATGA
1 AAAAAAT-A
*
16282139 AATAAATA
1 AAAAAATA
16282147 AAAAAACTA
1 AAAAAA-TA
16282156 AAA
1 AAA
16282159 TTTATAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
8 20 0.65
9 11 0.35
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (8 bp):
AAAAAATA
Found at i:16282134 original size:17 final size:17
Alignment explanation
Indices: 16282104--16282158 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
16282094 GGATAGGATC
*
16282104 AAAATATATGAAAAAATA
1 AAAAAATAT-AAAAAATA
16282122 AAAAAATAT-AAAAATGA
1 AAAAAATATAAAAAAT-A
*
16282139 AATAAATA-AAAAAACTA
1 AAAAAATATAAAAAA-TA
16282156 AAA
1 AAA
16282159 TTTATAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 6 0.19
17 16 0.52
18 9 0.29
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (17 bp):
AAAAAATATAAAAAATA
Found at i:16284950 original size:29 final size:30
Alignment explanation
Indices: 16284909--16284968 Score: 68
Period size: 33 Copynumber: 1.9 Consensus size: 30
16284899 GATTAGTTTA
*
16284909 TTCGGTTTAATG-TGAATAAATTATCGATT
1 TTCGATTTAATGATGAATAAATTATCGATT
*
16284938 TTCGATTTTATGTCAATGAATAAATTATCGA
1 TTCGATTTAATG---ATGAATAAATTATCGA
16284969 CGTTAGATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 10 0.40
33 15 0.60
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (30 bp):
TTCGATTTAATGATGAATAAATTATCGATT
Found at i:16285179 original size:40 final size:38
Alignment explanation
Indices: 16285100--16285351 Score: 226
Period size: 40 Copynumber: 6.5 Consensus size: 38
16285090 TATATATTTT
* * * *
16285100 TAAAATTTATAACTTACATTACTTAAATATATTAATTAC
1 TAAAATTTATAA-ATATATTACTTAAATACATTACTTAC
16285139 TAAAATTTACTTAAATATATTACTTAAATACATTACTTAC
1 TAAAATTTA--TAAATATATTACTTAAATACATTACTTAC
* *
16285179 TAAAATTTGCTTAAATATATTACTTAAATACATGACTTAC
1 TAAAATTT--ATAAATATATTACTTAAATACATTACTTAC
**
16285219 TAAAA-TTA-AAGTATATATTACATTACTTACATTACTTAC
1 TAAAATTTATAA--ATATATTAC-TTAAATACATTACTTAC
* * *
16285258 TAAAA--TAT-ATTACATTACTTAAATATATTACTTAC
1 TAAAATTTATAAATATATTACTTAAATACATTACTTAC
* * * *
16285293 AAAAATTTATAACTTACATTACTTAAATATATTACATTAC
1 TAAAATTTATAA-ATATATTACTTAAATACATTAC-TTAC
*
16285333 TTAAAATTTATATATATAT
1 -TAAAATTTATAAATATAT
16285352 ATATATATAT
Statistics
Matches: 179, Mismatches: 20, Indels: 27
0.79 0.09 0.12
Matches are distributed among these distances:
35 18 0.10
36 9 0.05
37 3 0.02
38 13 0.07
39 52 0.29
40 71 0.40
41 13 0.07
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.42
Consensus pattern (38 bp):
TAAAATTTATAAATATATTACTTAAATACATTACTTAC
Found at i:16285217 original size:13 final size:13
Alignment explanation
Indices: 16285117--16285208 Score: 89
Period size: 13 Copynumber: 6.9 Consensus size: 13
16285107 TATAACTTAC
16285117 ATTACTTAAATAT
1 ATTACTTAAATAT
* *
16285130 ATTAATTACTAAAAT
1 ATTACTTA--AATAT
16285145 -TTACTTAAATAT
1 ATTACTTAAATAT
*
16285157 ATTACTTAAATAC
1 ATTACTTAAATAT
*
16285170 ATTACTTACTAAAAT
1 ATTACTTA--AATAT
*
16285185 -TTGCTTAAATAT
1 ATTACTTAAATAT
16285197 ATTACTTAAATA
1 ATTACTTAAATA
16285209 CATGACTTAC
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
12 8 0.13
13 36 0.57
14 12 0.19
15 7 0.11
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (13 bp):
ATTACTTAAATAT
Found at i:16285273 original size:22 final size:21
Alignment explanation
Indices: 16285245--16285335 Score: 72
Period size: 22 Copynumber: 4.6 Consensus size: 21
16285235 ATTACATTAC
16285245 TTACATTACTTACTAAAATATA
1 TTACATTACTTA-TAAAATATA
16285267 TTACATTAC-T-T-AAATATA
1 TTACATTACTTATAAAATATA
*
16285285 TTAC-TTAC--A-AAAATTTA
1 TTACATTACTTATAAAATATA
* *
16285302 TAAC-TTACATTACTTAAATATA
1 TTACATTAC-TTA-TAAAATATA
16285324 TTACATTACTTA
1 TTACATTACTTA
16285336 AAATTTATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
17 17 0.30
18 11 0.20
19 1 0.02
20 1 0.02
21 1 0.02
22 21 0.38
23 4 0.07
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (21 bp):
TTACATTACTTATAAAATATA
Found at i:16285275 original size:18 final size:18
Alignment explanation
Indices: 16285249--16285339 Score: 96
Period size: 18 Copynumber: 4.9 Consensus size: 18
16285239 CATTACTTAC
16285249 ATTAC-TTACTAAAATAT
1 ATTACATTACTAAAATAT
*
16285266 ATTACATTACTTAAATAT
1 ATTACATTACTAAAATAT
*
16285284 ATTAC-TTACAAAAATTTAT
1 ATTACATTACTAAAA--TAT
*
16285303 AACTTACATTACTTAAATAT
1 -A-TTACATTACTAAAATAT
16285323 ATTACATTACTTAAAAT
1 ATTACATTAC-TAAAAT
16285340 TTATATATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
17 12 0.20
18 25 0.41
19 9 0.15
20 4 0.07
21 4 0.07
22 7 0.11
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTACATTACTAAAATAT
Found at i:16285298 original size:17 final size:17
Alignment explanation
Indices: 16285249--16285310 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
16285239 CATTACTTAC
*
16285249 ATTACTTACTAAAATAT
1 ATTACTTACAAAAATAT
**
16285266 ATTACATTACTTAAATAT
1 ATTAC-TTACAAAAATAT
*
16285284 ATTACTTACAAAAATTT
1 ATTACTTACAAAAATAT
*
16285301 ATAACTTACA
1 ATTACTTACA
16285311 TTACTTAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
17 23 0.59
18 16 0.41
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTACTTACAAAAATAT
Found at i:16285389 original size:2 final size:2
Alignment explanation
Indices: 16285341--16285369 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16285331 ACTTAAAATT
16285341 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16285370 TTATTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16285646 original size:9 final size:9
Alignment explanation
Indices: 16285628--16285847 Score: 146
Period size: 9 Copynumber: 25.8 Consensus size: 9
16285618 CTTATATATA
*
16285628 AACTTGCAT
1 AACTTACAT
16285637 AACTTACAT
1 AACTTACAT
*
16285646 AA-TAACATAAT
1 AACTTAC---AT
16285657 AACTTACAT
1 AACTTACAT
16285666 AA--TACAT
1 AACTTACAT
* *
16285673 AGCCTACAT
1 AACTTACAT
16285682 AACTTACAT
1 AACTTACAT
*
16285691 AA--TACAC
1 AACTTACAT
16285698 AACTTACAT
1 AACTTACAT
*
16285707 AACTTAAAT
1 AACTTACAT
16285716 AACTTACAT
1 AACTTACAT
16285725 AA--TACAT
1 AACTTACAT
**
16285732 AACTTTGAT
1 AACTTACAT
*
16285741 AACTAACAT
1 AACTTACAT
* *
16285750 TA--TACAC
1 AACTTACAT
16285757 AACTTACAT
1 AACTTACAT
16285766 AA--TACAT
1 AACTTACAT
* *
16285773 TACTTACTT
1 AACTTACAT
*
16285782 AACATACAT
1 AACTTACAT
* *
16285791 AGCCTACAT
1 AACTTACAT
16285800 AACTTACAT
1 AACTTACAT
*
16285809 AA--TACAC
1 AACTTACAT
16285816 AACTTACAT
1 AACTTACAT
*
16285825 AGCTTACAT
1 AACTTACAT
16285834 AA--TACAT
1 AACTTACAT
16285841 AACTTAC
1 AACTTAC
16285848 CCGTGCAATT
Statistics
Matches: 160, Mismatches: 33, Indels: 36
0.70 0.14 0.16
Matches are distributed among these distances:
7 42 0.26
8 3 0.02
9 108 0.68
11 4 0.03
12 3 0.02
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.30
Consensus pattern (9 bp):
AACTTACAT
Found at i:16285660 original size:20 final size:19
Alignment explanation
Indices: 16285635--16285733 Score: 73
Period size: 20 Copynumber: 5.1 Consensus size: 19
16285625 ATAAACTTGC
16285635 ATAACTTACATAATAACATA
1 ATAACTTACATAAT-ACATA
16285655 ATAACTTACATAATACATAGCCTA
1 ATAACTTACATAATAC--A---TA
16285679 CATAACTTACATAATAC---
1 -ATAACTTACATAATACATA
* *
16285696 ACAACTTACAT-A-ACTTAA
1 ATAACTTACATAATACAT-A
16285714 ATAACTTACATAATACATA
1 ATAACTTACATAATACATA
16285733 A
1 A
16285734 CTTTGATAAC
Statistics
Matches: 64, Mismatches: 3, Indels: 25
0.70 0.03 0.27
Matches are distributed among these distances:
14 2 0.03
15 1 0.02
16 10 0.16
18 10 0.16
19 5 0.08
20 17 0.27
21 1 0.02
24 2 0.03
25 16 0.25
ACGTcount: A:0.51, C:0.19, G:0.01, T:0.29
Consensus pattern (19 bp):
ATAACTTACATAATACATA
Found at i:16285685 original size:25 final size:23
Alignment explanation
Indices: 16285634--16285841 Score: 137
Period size: 25 Copynumber: 8.9 Consensus size: 23
16285624 TATAAACTTG
*
16285634 CATAACTTACATAATA-ACA-TA
1 CATAACTTACATAATACATACTA
16285655 -ATAACTTACATAATACATAGCCTA
1 CATAACTTACATAATACATA--CTA
*
16285679 CATAACTTACATAATACACAACTTA
1 CATAACTTACATAATACA-TAC-TA
* *
16285704 CATAACTTAAATAACTTACATAATA
1 CATAACTTACATAA--TACATACTA
**
16285729 CATAACTTTGATAACTAACATTA-TA
1 CATAACTTACATAA-T-ACA-TACTA
*
16285754 CACAACTTACATAATACAT--TA
1 CATAACTTACATAATACATACTA
* *
16285775 C-TTACTTA-A-CATACATAGCCTA
1 CATAACTTACATAATACATA--CTA
*
16285797 CATAACTTACATAATACACAACTTA
1 CATAACTTACATAATACA-TAC-TA
*
16285822 CATAGCTTACATAATACATA
1 CATAACTTACATAATACATA
16285842 ACTTACCCGT
Statistics
Matches: 148, Mismatches: 19, Indels: 37
0.73 0.09 0.18
Matches are distributed among these distances:
18 6 0.04
19 1 0.01
20 20 0.14
21 5 0.03
22 4 0.03
23 9 0.06
24 8 0.05
25 86 0.58
26 5 0.03
27 4 0.03
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (23 bp):
CATAACTTACATAATACATACTA
Found at i:16285718 original size:34 final size:34
Alignment explanation
Indices: 16285680--16285847 Score: 133
Period size: 34 Copynumber: 4.7 Consensus size: 34
16285670 CATAGCCTAC
*
16285680 ATAACTTACATAATACACAACTTACATAACTTAA
1 ATAACTTACATAATACATAACTTACATAACTTAA
*
16285714 ATAACTTACATAATACATAACTTTGATAACTAACATTATA
1 ATAACTTACATAATACATAAC-TT-A-CA-TAAC-TTA-A
* * * * *
16285754 CACAACTTACATAATACATTACTTACTTAACATAC
1 -ATAACTTACATAATACATAACTTACATAACTTAA
* * * *
16285789 ATAGCCTACATAACTTACATAA--TACACAACTTAC
1 ATAACTTACATAA--TACATAACTTACATAACTTAA
*
16285823 ATAGCTTACATAATACATAACTTAC
1 ATAACTTACATAATACATAACTTAC
16285848 CCGTGCAATT
Statistics
Matches: 107, Mismatches: 16, Indels: 22
0.74 0.11 0.15
Matches are distributed among these distances:
32 7 0.07
34 54 0.50
35 2 0.02
36 9 0.08
37 5 0.05
38 4 0.04
39 4 0.04
40 3 0.03
41 19 0.18
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (34 bp):
ATAACTTACATAATACATAACTTACATAACTTAA
Found at i:16285724 original size:59 final size:59
Alignment explanation
Indices: 16285654--16285842 Score: 233
Period size: 59 Copynumber: 3.2 Consensus size: 59
16285644 ATAATAACAT
16285654 AATAACTTACATAATACATAGCCTACATAACTTACATAATACACAACTTACATAACTTA
1 AATAACTTACATAATACATAGCCTACATAACTTACATAATACACAACTTACATAACTTA
* * ** * *
16285713 AATAACTTACATAATACATAACTTTGATAACTAACATTATACACAACTTACATAA--TA
1 AATAACTTACATAATACATAGCCTACATAACTTACATAATACACAACTTACATAACTTA
* * * *
16285770 CATTACTTACTTAACATACATAGCCTACATAACTTACATAATACACAACTTACATAGCTTA
1 AATAACTTACAT-A-ATACATAGCCTACATAACTTACATAATACACAACTTACATAACTTA
*
16285831 CATAA--TACATAA
1 AATAACTTACATAA
16285843 CTTACCCGTG
Statistics
Matches: 108, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
57 12 0.11
58 2 0.02
59 88 0.81
61 6 0.06
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (59 bp):
AATAACTTACATAATACATAGCCTACATAACTTACATAATACACAACTTACATAACTTA
Found at i:16291321 original size:21 final size:21
Alignment explanation
Indices: 16291291--16291359 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
16291281 CAACAACTTA
* *
16291291 AAGCAGATGCGGCAGCGAGGG
1 AAGCAGATGCCGCAGCGAGAG
* **
16291312 AAGCAAATGCTACAGCGAGAG
1 AAGCAGATGCCGCAGCGAGAG
*
16291333 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGATGCCGCAGCGAGAG
16291354 AAGCAG
1 AAGCAG
16291360 CGATAGAAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.36, C:0.20, G:0.39, T:0.04
Consensus pattern (21 bp):
AAGCAGATGCCGCAGCGAGAG
Found at i:16291989 original size:43 final size:42
Alignment explanation
Indices: 16291807--16292015 Score: 257
Period size: 42 Copynumber: 5.0 Consensus size: 42
16291797 GTTTGTGAAA
* **
16291807 TAAGCGCTGCTAAAGAACACT-A-CTGTTAGCGGCGTTTTTGAC
1 TAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTTTCC
* * *
16291849 AAAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCC
16291892 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
*
16291933 TAAGCGCCACTAAAGAACATGATCTTTAGCGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCC
*
16291976 TTAA-CGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTT
1 -TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
16292016 TCTGTAAACG
Statistics
Matches: 150, Mismatches: 10, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
41 5 0.03
42 102 0.68
43 40 0.27
44 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:16299539 original size:4 final size:4
Alignment explanation
Indices: 16299526--16299555 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
16299516 AAAATAATCT
16299526 TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
16299556 TAGATGCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:16299792 original size:17 final size:18
Alignment explanation
Indices: 16299758--16299796 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
16299748 TAACTTTTAT
*
16299758 AAAAAAACTATGAAAAATA
1 AAAAAAAATATG-AAAATA
16299777 AAAAAAAATATG-AAATA
1 AAAAAAAATATGAAAATA
16299794 AAA
1 AAA
16299797 TATTAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
19 11 0.58
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (18 bp):
AAAAAAAATATGAAAATA
Found at i:16306118 original size:13 final size:13
Alignment explanation
Indices: 16306100--16306143 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
16306090 TTTTCGGGTG
16306100 TTTATTTTAGTCA
1 TTTATTTTAGTCA
16306113 TTTATTTT-G-C-
1 TTTATTTTAGTCA
*
16306123 TTTA-TTTATTCA
1 TTTATTTTAGTCA
16306135 TTTATTTTA
1 TTTATTTTA
16306144 TATAATTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
9 3 0.12
10 4 0.15
11 2 0.08
12 5 0.19
13 12 0.46
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (13 bp):
TTTATTTTAGTCA
Found at i:16306135 original size:22 final size:23
Alignment explanation
Indices: 16306100--16306142 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
16306090 TTTTCGGGTG
16306100 TTTATTTTAGTCATTTATTTTGC
1 TTTATTTTAGTCATTTATTTTGC
*
16306123 TTTA-TTTATTCATTTATTTT
1 TTTATTTTAGTCATTTATTTT
16306143 ATATAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.70
Consensus pattern (23 bp):
TTTATTTTAGTCATTTATTTTGC
Found at i:16312251 original size:19 final size:20
Alignment explanation
Indices: 16312221--16312265 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
16312211 TTTCAATGTG
16312221 TAATTTTATACA-CAAATTT
1 TAATTTTATACATCAAATTT
* *
16312240 TGATTTTGTACATCAAATTT
1 TAATTTTATACATCAAATTT
16312260 TAATTT
1 TAATTT
16312266 GATTAAATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (20 bp):
TAATTTTATACATCAAATTT
Found at i:16312266 original size:19 final size:19
Alignment explanation
Indices: 16312229--16312266 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
16312219 TGTAATTTTA
*
16312229 TACACAAATTTTGATTTTG
1 TACACAAATTTTGAATTTG
16312248 TACATCAAATTTT-AATTTG
1 TACA-CAAATTTTGAATTTG
16312267 ATTAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (19 bp):
TACACAAATTTTGAATTTG
Found at i:16312567 original size:9 final size:9
Alignment explanation
Indices: 16312553--16312595 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
16312543 AAAATATATC
16312553 AAAAAAACA
1 AAAAAAACA
16312562 AAAAAAAC-
1 AAAAAAACA
*
16312570 AAAAAAATA
1 AAAAAAACA
* *
16312579 AAAAACAGA
1 AAAAAAACA
16312588 AAAAAAAC
1 AAAAAAAC
16312596 CTGAACTGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.86, C:0.09, G:0.02, T:0.02
Consensus pattern (9 bp):
AAAAAAACA
Found at i:16312574 original size:17 final size:17
Alignment explanation
Indices: 16312552--16312593 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
16312542 CAAAATATAT
16312552 CAAAAAAACAAAAAAAA
1 CAAAAAAACAAAAAAAA
* *
16312569 CAAAAAAATAAAAAACA
1 CAAAAAAACAAAAAAAA
*
16312586 GAAAAAAA
1 CAAAAAAA
16312594 ACCTGAACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (17 bp):
CAAAAAAACAAAAAAAA
Found at i:16312581 original size:15 final size:16
Alignment explanation
Indices: 16312563--16312592 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16312553 AAAAAAACAA
16312563 AAAAAACA-AAAAAAT
1 AAAAAACAGAAAAAAT
16312578 AAAAAACAGAAAAAA
1 AAAAAACAGAAAAAA
16312593 AACCTGAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.87, C:0.07, G:0.03, T:0.03
Consensus pattern (16 bp):
AAAAAACAGAAAAAAT
Found at i:16312779 original size:10 final size:10
Alignment explanation
Indices: 16312749--16312820 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
16312739 AGGAGAGGGG
*
16312749 AAGAAGAAGA
1 AAGAAAAAGA
16312759 AAGAAAGAAAGA
1 AAG-AA-AAAGA
16312771 AAGAAAAAGA
1 AAGAAAAAGA
* *
16312781 AGGAAAAGGA
1 AAGAAAAAGA
16312791 AAGGAGAGGAAAGA
1 AA-GA-A--AAAGA
16312805 AAGAAAAAGA
1 AAGAAAAAGA
*
16312815 AGGAAA
1 AAGAAA
16312821 GAAAAGGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 27 0.54
11 6 0.12
12 9 0.18
13 2 0.04
14 6 0.12
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:16312825 original size:38 final size:38
Alignment explanation
Indices: 16312761--16312915 Score: 160
Period size: 38 Copynumber: 4.1 Consensus size: 38
16312751 GAAGAAGAAA
* *
16312761 GAAAGAAAGAAAGAA-AAAGAAGGAAAAGGAAAGGAGAG
1 GAAAGAAAGAAA-AAGAAGGAAAGAAAAGGAAAGGAGAG
16312799 GAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAATGG-GAG
1 GAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAA-GGAGAG
* *
16312837 GAAAGAAAGAAAAATAAGGAAAGAAAACGAAAGGAGAAG
1 GAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAG-AG
* * *
16312876 AGAAA-AAAAAAGAAAGAA-G-AAGAAGAGGGAAGGA-AG
1 -GAAAGAAAGAA-AAAGAAGGAAAGAAAAGGAAAGGAGAG
16312912 GAAA
1 GAAA
16312916 AAAAAAGAAA
Statistics
Matches: 102, Mismatches: 9, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
35 4 0.04
36 2 0.02
37 4 0.04
38 73 0.72
39 10 0.10
40 9 0.09
ACGTcount: A:0.66, C:0.01, G:0.32, T:0.01
Consensus pattern (38 bp):
GAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAG
Found at i:16312827 original size:10 final size:10
Alignment explanation
Indices: 16312761--16312893 Score: 68
Period size: 10 Copynumber: 13.7 Consensus size: 10
16312751 GAAGAAGAAA
16312761 GAAAG-AAA-
1 GAAAGAAAAG
*
16312769 GAAAGAAAAA
1 GAAAGAAAAG
*
16312779 GAAGGAAAAG
1 GAAAGAAAAG
* *
16312789 GAAAGGAGAG
1 GAAAGAAAAG
16312799 GAAAG-AAA-
1 GAAAGAAAAG
16312807 GAAA-AAGAAG
1 GAAAGAA-AAG
16312817 GAAAGAAAAG
1 GAAAGAAAAG
**
16312827 GAAATG-GGAG
1 GAAA-GAAAAG
16312837 GAAAG-AAA-
1 GAAAGAAAAG
16312845 GAAA-AATAAG
1 GAAAGAA-AAG
*
16312855 GAAAGAAAAC
1 GAAAGAAAAG
*
16312865 GAAAGGAGAAG
1 GAAA-GAAAAG
* *
16312876 AGAAAAAAAAA
1 -GAAAGAAAAG
16312887 GAAAGAA
1 GAAAGAA
16312894 GAAGAAGAGG
Statistics
Matches: 95, Mismatches: 17, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
8 15 0.16
9 11 0.12
10 53 0.56
11 12 0.13
12 4 0.04
ACGTcount: A:0.68, C:0.01, G:0.30, T:0.02
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:16312891 original size:32 final size:33
Alignment explanation
Indices: 16312840--16312925 Score: 90
Period size: 32 Copynumber: 2.6 Consensus size: 33
16312830 ATGGGAGGAA
* *
16312840 AGAA-AGAAAAATAAGGAAAGAA-AACGAA-AGG
1 AGAAGAGAAAAAAAAAGAAAGAAGAA-GAAGAGG
16312871 AGAAGAGAAAAAAAAAGAAAGAAGAAGAAGAGG
1 AGAAGAGAAAAAAAAAGAAAGAAGAAGAAGAGG
16312904 -GAAGGAAGGAAAAAAAAAGAAA
1 AGAA-G-A-GAAAAAAAAAGAAA
16312926 ATAAGGTAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
31 4 0.09
32 22 0.47
33 6 0.13
34 1 0.02
35 14 0.30
ACGTcount: A:0.70, C:0.01, G:0.28, T:0.01
Consensus pattern (33 bp):
AGAAGAGAAAAAAAAAGAAAGAAGAAGAAGAGG
Found at i:16312899 original size:76 final size:75
Alignment explanation
Indices: 16312761--16312931 Score: 179
Period size: 76 Copynumber: 2.3 Consensus size: 75
16312751 GAAGAAGAAA
* * * *
16312761 GAAAGAAAGAAAGAA-AAAGAAGGAAAAGGAAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAA
1 GAAAGAAAGAAA-AATAAGGAAAGAAAACGAAAGGAGAGGAAAGAAAAAAAAAGAAGGAAAGAAA
*
16312825 AGGAAATGGGAG
65 AGGAAA-GGAAG
16312837 GAAAGAAAGAAAAATAAGGAAAGAAAACGAAAGGAGAAGAGAAA-AAAAAAGAAAGAA-G-AAGA
1 GAAAGAAAGAAAAATAAGGAAAGAAAACGAAAGGAG-AG-GAAAGAAAAAA-AAAGAAGGAAAGA
* *
16312899 AGAGGGAAGGAAG
63 AAAGGAAAGGAAG
* *
16312912 GAAAAAAAAAGAAAATAAGG
1 GAAAGAAAGA-AAAATAAGG
16312932 TAATTATTAT
Statistics
Matches: 81, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
75 14 0.17
76 49 0.60
77 8 0.10
78 10 0.12
ACGTcount: A:0.67, C:0.01, G:0.31, T:0.02
Consensus pattern (75 bp):
GAAAGAAAGAAAAATAAGGAAAGAAAACGAAAGGAGAGGAAAGAAAAAAAAAGAAGGAAAGAAAA
GGAAAGGAAG
Found at i:16313656 original size:19 final size:19
Alignment explanation
Indices: 16313608--16313659 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
16313598 TATATATATA
** *
16313608 TAATATTTTGGTATTTTTT
1 TAATATTTTATTATTTTTG
16313627 TAATATTTTATTATTTTTG
1 TAATATTTTATTATTTTTG
*
16313646 TAATGTTTTATTAT
1 TAATATTTTATTAT
16313660 GGGTTTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (19 bp):
TAATATTTTATTATTTTTG
Found at i:16313734 original size:28 final size:28
Alignment explanation
Indices: 16313696--16313765 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
16313686 AAATAAAAAA
*
16313696 TTACCAAAATAT-TATAACTTTTTTTTAT
1 TTACCAAAATATATATAA-ATTTTTTTAT
16313724 TTACCAAAATATATATAAATTTTTTTAT
1 TTACCAAAATATATATAAATTTTTTTAT
16313752 TTACCAAAATATAT
1 TTACCAAAATATAT
16313766 CAAAAAATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 35 0.88
29 5 0.12
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (28 bp):
TTACCAAAATATATATAAATTTTTTTAT
Found at i:16318964 original size:46 final size:44
Alignment explanation
Indices: 16318860--16318967 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
16318850 TGTCTTTAAC
** * * *
16318860 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
16318904 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
16318950 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
16318968 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:16319343 original size:30 final size:30
Alignment explanation
Indices: 16319307--16319364 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
16319297 CCTCGACTCT
*
16319307 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
16319337 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
16319365 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:16319949 original size:9 final size:9
Alignment explanation
Indices: 16319935--16319968 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
16319925 TTCTATTCTG
16319935 TTTCTTTTC
1 TTTCTTTTC
16319944 TTTCTTTT-
1 TTTCTTTTC
*
16319952 TTTCTATTC
1 TTTCTTTTC
16319961 TTTCTTTT
1 TTTCTTTT
16319969 GTTTTATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:16319961 original size:17 final size:17
Alignment explanation
Indices: 16319935--16319968 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16319925 TTCTATTCTG
*
16319935 TTTCTTTTCTTTCTTTT
1 TTTCTATTCTTTCTTTT
16319952 TTTCTATTCTTTCTTTT
1 TTTCTATTCTTTCTTTT
16319969 GTTTTATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTCTATTCTTTCTTTT
Found at i:16319990 original size:5 final size:5
Alignment explanation
Indices: 16319977--16320049 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
16319967 TTGTTTTATG
16319977 TATATA TATAA TATAA TATAA TAT-A T-TAA TGATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
16320025 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
16320050 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:16320002 original size:19 final size:19
Alignment explanation
Indices: 16319978--16320020 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
16319968 TGTTTTATGT
16319978 ATATATATAAT-ATAATATA
1 ATATAT-TAATGATAATATA
16319997 ATATATTAATGATAATATA
1 ATATATTAATGATAATATA
16320016 ATATA
1 ATATA
16320021 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATATTAATGATAATATA
Found at i:16320030 original size:24 final size:24
Alignment explanation
Indices: 16319984--16320048 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
16319974 ATGTATATAT
* * *
16319984 ATAATATAATATAATATATTAATG
1 ATAATATAATATAATAAAATAATC
16320008 ATAATATAATATAA-AAACATAATC
1 ATAATATAATATAATAAA-ATAATC
*
16320032 ATTACTATAATATAATA
1 A-TAATATAATATAATA
16320049 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 19 0.56
25 12 0.35
26 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (24 bp):
ATAATATAATATAATAAAATAATC
Found at i:16321950 original size:13 final size:13
Alignment explanation
Indices: 16321932--16321959 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16321922 GATAAAAGAG
16321932 CATATAGAATACC
1 CATATAGAATACC
16321945 CATATAGAATACC
1 CATATAGAATACC
16321958 CA
1 CA
16321960 GAAGAGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (13 bp):
CATATAGAATACC
Found at i:16324462 original size:46 final size:44
Alignment explanation
Indices: 16324358--16324465 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
16324348 TGTCTTTAAC
** * * *
16324358 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
16324402 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
16324448 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
16324466 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:16325357 original size:9 final size:9
Alignment explanation
Indices: 16325343--16325377 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
16325333 TTCTATTCTG
16325343 TTTCTTTTC
1 TTTCTTTTC
*
16325352 TTTCTTTTT
1 TTTCTTTTC
*
16325361 TTTCTATTC
1 TTTCTTTTC
16325370 TTTCTTTT
1 TTTCTTTT
16325378 GTTTTATGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:16325370 original size:18 final size:19
Alignment explanation
Indices: 16325343--16325382 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
16325333 TTCTATTCTG
*
16325343 TTTCTTTTCTTTCTTTT-T
1 TTTCTATTCTTTCTTTTGT
16325361 TTTCTATTCTTTCTTTTGT
1 TTTCTATTCTTTCTTTTGT
16325380 TTT
1 TTT
16325383 ATGTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTCTATTCTTTCTTTTGT
Found at i:16325399 original size:5 final size:5
Alignment explanation
Indices: 16325386--16325458 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
16325376 TTGTTTTATG
16325386 TATATA TATAA TATAA TATAA TAT-A T-TAA TGATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
16325434 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
16325459 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:16325411 original size:19 final size:19
Alignment explanation
Indices: 16325387--16325429 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
16325377 TGTTTTATGT
16325387 ATATATATAAT-ATAATATA
1 ATATAT-TAATGATAATATA
16325406 ATATATTAATGATAATATA
1 ATATATTAATGATAATATA
16325425 ATATA
1 ATATA
16325430 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATATTAATGATAATATA
Found at i:16325439 original size:24 final size:24
Alignment explanation
Indices: 16325393--16325457 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
16325383 ATGTATATAT
* * *
16325393 ATAATATAATATAATATATTAATG
1 ATAATATAATATAATAAAATAATC
16325417 ATAATATAATATAA-AAACATAATC
1 ATAATATAATATAATAAA-ATAATC
*
16325441 ATTACTATAATATAATA
1 A-TAATATAATATAATA
16325458 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 19 0.56
25 12 0.35
26 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (24 bp):
ATAATATAATATAATAAAATAATC
Found at i:16330677 original size:50 final size:50
Alignment explanation
Indices: 16330553--16330801 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
16330543 GATAATAACA
* * ** * *
16330553 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
16330604 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
16330654 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
16330704 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
16330759 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
16330802 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:16330731 original size:100 final size:104
Alignment explanation
Indices: 16330552--16330801 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
16330542 TGATAATAAC
**
16330552 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
16330617 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
16330654 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
16330717 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
16330759 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
16330802 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:16330917 original size:13 final size:13
Alignment explanation
Indices: 16330896--16330927 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16330886 GCTTGGATCA
*
16330896 TCATCAAATAAAT
1 TCATAAAATAAAT
16330909 TCATAAAATAAAT
1 TCATAAAATAAAT
16330922 TCATAA
1 TCATAA
16330928 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:16331175 original size:30 final size:30
Alignment explanation
Indices: 16331139--16331196 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
16331129 CCTCGACTCT
*
16331139 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
16331169 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
16331197 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:16331780 original size:9 final size:9
Alignment explanation
Indices: 16331766--16331799 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
16331756 TTCTATTCTG
16331766 TTTCTTTTC
1 TTTCTTTTC
16331775 TTTCTTTT-
1 TTTCTTTTC
*
16331783 TTTCTATTC
1 TTTCTTTTC
16331792 TTTCTTTT
1 TTTCTTTT
16331800 GTTTTATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:16331792 original size:17 final size:17
Alignment explanation
Indices: 16331766--16331799 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16331756 TTCTATTCTG
*
16331766 TTTCTTTTCTTTCTTTT
1 TTTCTATTCTTTCTTTT
16331783 TTTCTATTCTTTCTTTT
1 TTTCTATTCTTTCTTTT
16331800 GTTTTATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTCTATTCTTTCTTTT
Found at i:16331821 original size:5 final size:5
Alignment explanation
Indices: 16331808--16331879 Score: 62
Period size: 5 Copynumber: 14.4 Consensus size: 5
16331798 TTGTTTTATG
16331808 TATATA TATAA TATAA TATAA TAT-A T-TAA TGATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
16331856 CATAA TCATTAC TATAA TATAA TA
1 TATAA T-A-TAA TATAA TATAA TA
16331880 ATATTTTTAC
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 34 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:16331833 original size:19 final size:19
Alignment explanation
Indices: 16331809--16331851 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
16331799 TGTTTTATGT
16331809 ATATATATAAT-ATAATATA
1 ATATAT-TAATGATAATATA
16331828 ATATATTAATGATAATATA
1 ATATATTAATGATAATATA
16331847 ATATA
1 ATATA
16331852 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATATTAATGATAATATA
Found at i:16331861 original size:24 final size:24
Alignment explanation
Indices: 16331815--16331880 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
16331805 ATGTATATAT
* * *
16331815 ATAATATAATATAATATATTAATG
1 ATAATATAATATAATAAAATAATC
16331839 ATAATATAATATAA-AAACATAATC
1 ATAATATAATATAATAAA-ATAATC
*
16331863 ATTACTATAATATAATAA
1 A-TAATATAATATAATAA
16331881 TATTTTTACA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.06
24 19 0.54
25 12 0.34
26 2 0.06
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (24 bp):
ATAATATAATATAATAAAATAATC
Found at i:16337021 original size:46 final size:44
Alignment explanation
Indices: 16336917--16337024 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
16336907 TGTCTTTGAC
** * * *
16336917 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
16336961 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
16337007 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
16337025 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:16345934 original size:30 final size:33
Alignment explanation
Indices: 16345893--16345975 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 33
16345883 ACAGAAATAA
*
16345893 GAAAGATATATAATATATTCCT-AA-ATAT-CT
1 GAAAAATATATAATATATTCCTAAATATATGCT
*
16345923 GAAAAATATATAATATATTCTTAAATATATGCT
1 GAAAAATATATAATATATTCCTAAATATATGCT
*
16345956 TAAAAGATATATAATATATT
1 GAAAA-ATATATAATATATT
16345976 TAGATATTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
30 20 0.43
31 2 0.04
32 4 0.09
33 6 0.13
34 14 0.30
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (33 bp):
GAAAAATATATAATATATTCCTAAATATATGCT
Found at i:16345990 original size:30 final size:30
Alignment explanation
Indices: 16345894--16345993 Score: 105
Period size: 30 Copynumber: 3.2 Consensus size: 30
16345884 CAGAAATAAG
*
16345894 AAAGATATATAATATATTCCTAAATA-TCTGA
1 AAAGATATATAATATATT--TAAATATTCTTA
16345925 AAA-ATATATAATATATTCTTAAATATATGCTTA
1 AAAGATATATAATATA-T-TTAAATAT-T-CTTA
* *
16345958 AAAGATATATAATATATTTAGATATTTTTA
1 AAAGATATATAATATATTTAAATATTCTTA
16345988 AAAGAT
1 AAAGAT
16345994 CTGTAAAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
30 27 0.45
31 5 0.08
32 9 0.15
33 7 0.12
34 12 0.20
ACGTcount: A:0.49, C:0.05, G:0.06, T:0.40
Consensus pattern (30 bp):
AAAGATATATAATATATTTAAATATTCTTA
Found at i:16351318 original size:18 final size:19
Alignment explanation
Indices: 16351295--16351330 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16351285 ATATATATTT
16351295 GGGTAAA-AGATTATTTAA
1 GGGTAAATAGATTATTTAA
*
16351313 GGGTAAATCGATTATTTA
1 GGGTAAATAGATTATTTA
16351331 TTTTTATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (19 bp):
GGGTAAATAGATTATTTAA
Found at i:16379874 original size:37 final size:36
Alignment explanation
Indices: 16379802--16379875 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 36
16379792 CTTAGCCGCA
* *
16379802 CAACGATTGCAAATAAAAAACTTCGGAGTCGCCCCC
1 CAACGATTGCAAATAAAAAACTTCGCAGTCCCCCCC
16379838 CAACGATTGCAAATAAAAAACTTCGCAGATCCCCCCC
1 CAACGATTGCAAATAAAAAACTTCGCAG-TCCCCCCC
16379875 C
1 C
16379876 CCCCCAACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 27 0.77
37 8 0.23
ACGTcount: A:0.36, C:0.34, G:0.14, T:0.16
Consensus pattern (36 bp):
CAACGATTGCAAATAAAAAACTTCGCAGTCCCCCCC
Found at i:16385191 original size:22 final size:22
Alignment explanation
Indices: 16385161--16385203 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16385151 ACAGCAGAAC
* *
16385161 AGGTTTTTAGCGGCGTTTTTTT
1 AGGTCTTTAGCGGCGCTTTTTT
16385183 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
16385204 AACGCCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.14, G:0.28, T:0.49
Consensus pattern (22 bp):
AGGTCTTTAGCGGCGCTTTTTT
Found at i:16385437 original size:42 final size:42
Alignment explanation
Indices: 16385275--16385666 Score: 410
Period size: 42 Copynumber: 9.4 Consensus size: 42
16385265 ACGTCGCTAA
* *
16385275 CTTTTGCGGCGCTTACATAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGATCATGTT
* *
16385318 CTTTAGCGGTGCTTAG-AAAAAACGCCGCTAAAGATCATGCT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* *
16385359 CTTTAGCGTCGCTTAGAATAAAAACGCCCCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAA-AAAAACGCCGCTAAAGATCATGTT
*
16385402 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGCT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* * *
16385444 CTTTAGCGGCGCTTAGAAAAAAAAACACCGCTAAAGA-AAAG--
1 CTTTAGCGGCGCTTAG--AAAAAAACGCCGCTAAAGATCATGTT
* *
16385485 ----AGCGGCGCTTAGAAAAAAAAACACCCCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAG--AAAAAAACGCCGCTAAAGATCATGTT
*
16385525 CTTTAGCGGCGCTTAGAAACAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* * * * *
16385567 CTTTAGCGGCACTTTGGAAGAAAACGCCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGA-TCATGTT
* *** *
16385610 CTATAGCGGCGCTTATTCAAAAATGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGA-TCA-TGTT
16385652 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
16385667 TTTCACAAAC
Statistics
Matches: 299, Mismatches: 36, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
37 32 0.11
38 2 0.01
41 39 0.13
42 109 0.36
43 87 0.29
44 30 0.10
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:16385549 original size:123 final size:121
Alignment explanation
Indices: 16385275--16385576 Score: 401
Period size: 123 Copynumber: 2.4 Consensus size: 121
16385265 ACGTCGCTAA
* * *
16385275 CTTTTGCGGCGCTTACATAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGTGCTTAGAAAAAA
1 CTTTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAA
* * * * * *
16385340 CGCCGCTAAAGATCATGCTCTTTAGCGTCGCTTAGAATAAAAACGCCCCTAAAGATCATGTT
65 CACCGCTAAAGATAAAG-----TAGCGGCGCTTAGAAAAAAAACACCCCTAAAGATCATGTT
*
16385402 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTAGAAAAAAA
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG---AAAA
16385467 AACACCGCTAAAGA-AAAG-AGCGGCGCTTAGAAAAAAAAACACCCCTAAAGATCATGTT
63 AACACCGCTAAAGATAAAGTAGCGGCGCTTAG-AAAAAAAACACCCCTAAAGATCATGTT
*
16385525 CTTTAGCGGCGCTTAGAAACAAACGCCGCTAAAGATCATGTTCTTTAGCGGC
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGC
16385577 ACTTTGGAAG
Statistics
Matches: 159, Mismatches: 12, Indels: 12
0.87 0.07 0.07
Matches are distributed among these distances:
122 11 0.07
123 75 0.47
126 39 0.25
127 15 0.09
128 2 0.01
129 17 0.11
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (121 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAC
ACCGCTAAAGATAAAGTAGCGGCGCTTAGAAAAAAAACACCCCTAAAGATCATGTT
Found at i:16385558 original size:79 final size:78
Alignment explanation
Indices: 16385406--16385559 Score: 229
Period size: 81 Copynumber: 1.9 Consensus size: 78
16385396 CATGTTCTTT
* *
16385406 AGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTAGAAAAAAAAACA
1 AGCGGCGCTTAGAAAAAAACACCCCTAAAGATCATGCTCTTTAGCGGCGCTTAG-AAAAAAAACA
16385471 CCGCTAAAGAAAAG
65 CCGCTAAAGAAAAG
* *
16385485 AGCGGCGCTTAGAAAAAAAAACACCCCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AAACAAAC
1 AGCGGCGCTTAG--AAAAAAACACCCCTAAAGATCATGCTCTTTAGCGGCGCTTAGAAAAAAAAC
*
16385549 GCCGCTAAAGA
64 ACCGCTAAAGA
16385560 TCATGTTCTT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
79 29 0.43
81 39 0.57
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (78 bp):
AGCGGCGCTTAGAAAAAAACACCCCTAAAGATCATGCTCTTTAGCGGCGCTTAGAAAAAAAACAC
CGCTAAAGAAAAG
Found at i:16385611 original size:208 final size:206
Alignment explanation
Indices: 16385280--16385666 Score: 530
Period size: 208 Copynumber: 1.9 Consensus size: 206
16385270 GCTAACTTTT
* * * * *
16385280 GCGGCGCTTACATAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGTGCTTAGAAAAAACGCCG
1 GCGGCGCTTAAAAAAAAAACACCCCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCG
* * * *
16385345 CTAAAGATCATGCTCTTTAGCGTCGCTTAGAATAAAAACGCCCCTAAAGATCATGTTCTTTAGCG
66 CTAAAGATCATGCTCTTTAGCGGCACTTAGAATAAAAACGCCCCTAAAGATAATGTTCTATAGCG
16385410 GCGCTTAGAAAAAAACGCCGCT-AAAGATCA-TGCTCTTTAGCGGCGCTTAGAAAAAAAAACACC
131 GCGCTTAGAAAAAAACGCCGCTAAAAG-T-AGTGCTCTTTAGCGGCGCTTAGAAAAAAAAACACC
16385473 GCTAAAGAAAAGA
194 GCTAAAGAAAAGA
16385486 GCGGCGCTTAGAAAAAAAAACACCCCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAACAAACGC
1 GCGGCGCTTA-AAAAAAAAACACCCCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAA-AAACGC
* * * *
16385551 CGCTAAAGATCATGTTCTTTAGCGGCACTTTGGAA-GAAAACGCCTCTAAA-AGTAATGTTCTAT
64 CGCTAAAGATCATGCTCTTTAGCGGCAC-TTAGAATAAAAACGCCCCTAAAGA-TAATGTTCTAT
*** * *
16385614 AGCGGCGCTTATTCAAAAATGCCGCTAAAAGTAGTGTTCTTTAGCGGCGCTTA
127 AGCGGCGCTTAGAAAAAAACGCCGCTAAAAGTAGTGCTCTTTAGCGGCGCTTA
16385667 TTTCACAAAC
Statistics
Matches: 157, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
206 10 0.06
207 44 0.28
208 94 0.60
209 9 0.06
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (206 bp):
GCGGCGCTTAAAAAAAAAACACCCCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCG
CTAAAGATCATGCTCTTTAGCGGCACTTAGAATAAAAACGCCCCTAAAGATAATGTTCTATAGCG
GCGCTTAGAAAAAAACGCCGCTAAAAGTAGTGCTCTTTAGCGGCGCTTAGAAAAAAAAACACCGC
TAAAGAAAAGA
Found at i:16386101 original size:12 final size:12
Alignment explanation
Indices: 16386084--16386123 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
16386074 TTTTGAACCT
*
16386084 CTGCTTCTATTG
1 CTGCTTCTATCG
*
16386096 CTGCTTCTCTCG
1 CTGCTTCTATCG
*
16386108 CTGCTTCTCTCG
1 CTGCTTCTATCG
16386120 CTGC
1 CTGC
16386124 GGCCTCTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.03, C:0.38, G:0.17, T:0.42
Consensus pattern (12 bp):
CTGCTTCTATCG
Found at i:16386134 original size:21 final size:21
Alignment explanation
Indices: 16386108--16386176 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
16386098 GCTTCTCTCG
*
16386108 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
16386129 CTGCTTCTCTTGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* * *
16386150 CTGCTTCCCTCGCTGCCGCAT
1 CTGCTTCTCTCGCTGCAGCCT
16386171 CTGCTT
1 CTGCTT
16386177 TAAGTTGCTG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.41, G:0.20, T:0.36
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:16391689 original size:7 final size:7
Alignment explanation
Indices: 16391677--16391730 Score: 63
Period size: 7 Copynumber: 7.1 Consensus size: 7
16391667 TGATATATTT
16391677 TTATGTA
1 TTATGTA
16391684 TTATGTAA
1 TTATGT-A
16391692 GTTATGTAA
1 -TTATGT-A
*
16391701 GTTCTGTA
1 -TTATGTA
16391709 TTATGTA
1 TTATGTA
16391716 TTATGTA
1 TTATGTA
16391723 TTATGTA
1 TTATGTA
16391730 T
1 T
16391731 GCCCCATGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
7 27 0.63
8 2 0.05
9 14 0.33
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.54
Consensus pattern (7 bp):
TTATGTA
Found at i:16391783 original size:27 final size:27
Alignment explanation
Indices: 16391753--16392133 Score: 440
Period size: 27 Copynumber: 13.4 Consensus size: 27
16391743 TAATGTAAGC
*
16391753 TATGTAAGTAATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
* *
16391780 TATGTAAATTATGCAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
16391807 TATGTAAGTTATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
*
16391834 TATGTAAATTATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
* *
16391861 TACGTAAGTTATGCAAGTTATTTAATTTACTTAATT
1 TATGTAAGTTATGTAAG--A--T-A--T--TTAATT
16391897 TATGTAAGTTATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
16391924 TATGTAAGTTATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
*
16391951 TATGTAAATTATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
*
16391978 TATGTAAGTTATGCAAGTTATTTAATTTACTTAATT
1 TATGTAAGTTATGTAAG--A--T-A--T--TTAATT
16392014 TATGTAAGTTATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
*
16392041 TATGTAAGTTATGTAAGATACTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
* ** *
16392068 TATGTAAGTTATTTAATTTACTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
* * *
16392095 TATGTAAGTTATTTAA-TTAACTTAATT
1 TATGTAAGTTATGTAAGAT-ATTTAATT
16392122 TATGTAAGTTAT
1 TATGTAAGTTAT
16392134 TTAATTTACT
Statistics
Matches: 316, Mismatches: 19, Indels: 38
0.85 0.05 0.10
Matches are distributed among these distances:
26 2 0.01
27 255 0.81
29 4 0.01
31 4 0.01
32 4 0.01
34 4 0.01
36 43 0.14
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.48
Consensus pattern (27 bp):
TATGTAAGTTATGTAAGATATTTAATT
Found at i:16391896 original size:117 final size:117
Alignment explanation
Indices: 16391774--16392133 Score: 585
Period size: 117 Copynumber: 3.2 Consensus size: 117
16391764 TGTAAGATAT
* *
16391774 TTAATTTATGTAAATTATGCAAGATATTTAATTTATGTAAGTTATGTAAGATATTTAATTTATGT
1 TTAATTTATGTAAGTTATGTAAGATATTTAATTTATGTAAGTTATGTAAGATATTTAATTTATGT
16391839 AAATTATGTAAGATATTTAATTTACGTAAGTTATGCAAGTTATTTAATTTAC
66 AAATTATGTAAGATATTTAATTTACGTAAGTTATGCAAGTTATTTAATTTAC
16391891 TTAATTTATGTAAGTTATGTAAGATATTTAATTTATGTAAGTTATGTAAGATATTTAATTTATGT
1 TTAATTTATGTAAGTTATGTAAGATATTTAATTTATGTAAGTTATGTAAGATATTTAATTTATGT
*
16391956 AAATTATGTAAGATATTTAATTTATGTAAGTTATGCAAGTTATTTAATTTAC
66 AAATTATGTAAGATATTTAATTTACGTAAGTTATGCAAGTTATTTAATTTAC
*
16392008 TTAATTTATGTAAGTTATGTAAGATATTTAATTTATGTAAGTTATGTAAGATACTTAATTTATGT
1 TTAATTTATGTAAGTTATGTAAGATATTTAATTTATGTAAGTTATGTAAGATATTTAATTTATGT
* * * *
16392073 --A--A-GT----TATTTAATTTACTTAATTTATGTAAGTTATTTAATTAAC
66 AAATTATGTAAGATATTTAATTTACGTAAGTTATGCAAGTTATTTAATTTAC
16392116 TTAATTTATGTAAGTTAT
1 TTAATTTATGTAAGTTAT
16392134 TTAATTTACT
Statistics
Matches: 234, Mismatches: 9, Indels: 9
0.93 0.04 0.04
Matches are distributed among these distances:
108 52 0.22
112 2 0.01
113 1 0.00
115 1 0.00
117 178 0.76
ACGTcount: A:0.37, C:0.03, G:0.12, T:0.49
Consensus pattern (117 bp):
TTAATTTATGTAAGTTATGTAAGATATTTAATTTATGTAAGTTATGTAAGATATTTAATTTATGT
AAATTATGTAAGATATTTAATTTACGTAAGTTATGCAAGTTATTTAATTTAC
Found at i:16392146 original size:9 final size:9
Alignment explanation
Indices: 16392059--16392148 Score: 69
Period size: 9 Copynumber: 10.0 Consensus size: 9
16392049 TTATGTAAGA
16392059 TACTTAATT
1 TACTTAATT
*
16392068 TA-TGTAAGT
1 TACT-TAATT
*
16392077 TATTTAATT
1 TACTTAATT
16392086 TACTTAATT
1 TACTTAATT
*
16392095 TA-TGTAAGT
1 TACT-TAATT
*
16392104 TATTTAATT
1 TACTTAATT
*
16392113 AACTTAATT
1 TACTTAATT
*
16392122 TA-TGTAAGT
1 TACT-TAATT
*
16392131 TATTTAATT
1 TACTTAATT
16392140 TACTTAATT
1 TACTTAATT
16392149 ATGATTTTTA
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
8 3 0.05
9 58 0.91
10 3 0.05
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.54
Consensus pattern (9 bp):
TACTTAATT
Found at i:16392746 original size:13 final size:13
Alignment explanation
Indices: 16392724--16392760 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
16392714 CTCCATGGAA
16392724 ACAT-TTTTAATT
1 ACATATTTTAATT
*
16392736 ACGTATTTTAATT
1 ACATATTTTAATT
16392749 ACATATTTTAAT
1 ACATATTTTAAT
16392761 AAACATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 3 0.14
13 19 0.86
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (13 bp):
ACATATTTTAATT
Found at i:16395433 original size:21 final size:20
Alignment explanation
Indices: 16395403--16395441 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
16395393 AACACATATT
*
16395403 AACCTTAAACCTTAAACCCC
1 AACCTTAAACCATAAACCCC
16395423 AACCTTTAAACCATAAACC
1 AACC-TTAAACCATAAACC
16395442 ATAGACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.21
Consensus pattern (20 bp):
AACCTTAAACCATAAACCCC
Found at i:16406169 original size:125 final size:125
Alignment explanation
Indices: 16405915--16406154 Score: 367
Period size: 125 Copynumber: 1.9 Consensus size: 125
16405905 GCTAAGTTCG
* * * *
16405915 AGCTTGAACTCGAACTCGATTTGAAATTTGCAAAAGATACTTGGCTTGAGCTTGATTCAACATTT
1 AGCTCGAACTCGAACTCAAGTTGAAATTTGCAAAAGACACTTGGCTTGAGCTTGATTCAACATTT
* * *
16405980 AATTTTAAATTTGAGTTTAGTTCAAAATATAATTGAGCTACTCAAGCTCGTATATATTCA
66 AATTATAAACTTGAGCTTAGTTCAAAATATAATTGAGCTACTCAAGCTCGTATATATTCA
16406040 AGCTCGAACTCGAACTCAAGTT-AATATTTGCAAAAGACACTTGGCTTGAGCTTGA-TCGAACAT
1 AGCTCGAACTCGAACTCAAGTTGAA-ATTTGCAAAAGACACTTGGCTTGAGCTTGATTC-AACAT
* *
16406103 TTAATTATAAACTTGAGCTTGGTTCAAGATATAATTGAGCTACTCAAGCTCG
64 TTAATTATAAACTTGAGCTTAGTTCAAAATATAATTGAGCTACTCAAGCTCG
16406155 AGCTCAATTA
Statistics
Matches: 104, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
124 4 0.04
125 100 0.96
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (125 bp):
AGCTCGAACTCGAACTCAAGTTGAAATTTGCAAAAGACACTTGGCTTGAGCTTGATTCAACATTT
AATTATAAACTTGAGCTTAGTTCAAAATATAATTGAGCTACTCAAGCTCGTATATATTCA
Found at i:16434974 original size:31 final size:31
Alignment explanation
Indices: 16434936--16434998 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
16434926 GATAAAGGCT
16434936 TTGTTTTGGTTTCTGGGTTTTTGGGAAAGAG
1 TTGTTTTGGTTTCTGGGTTTTTGGGAAAGAG
*
16434967 TTGTTTTGGTTTCTGGGTTTTTGTGAAAGAG
1 TTGTTTTGGTTTCTGGGTTTTTGGGAAAGAG
16434998 T
1 T
16434999 GGATAAGGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.13, C:0.03, G:0.33, T:0.51
Consensus pattern (31 bp):
TTGTTTTGGTTTCTGGGTTTTTGGGAAAGAG
Found at i:16437256 original size:20 final size:20
Alignment explanation
Indices: 16437233--16437270 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16437223 TGCTCTTCGT
16437233 TCTC-CTCCTCTACTCTCTAA
1 TCTCACTCCTCT-CTCTCTAA
*
16437253 TCTCACTTCTCTCTCTCT
1 TCTCACTCCTCTCTCTCT
16437271 CTTTCTGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.11, C:0.45, G:0.00, T:0.45
Consensus pattern (20 bp):
TCTCACTCCTCTCTCTCTAA
Found at i:16439246 original size:219 final size:222
Alignment explanation
Indices: 16438680--16439277 Score: 717
Period size: 231 Copynumber: 2.7 Consensus size: 222
16438670 ACTCATAAAA
* * *
16438680 AGCATAAGACAAGTAAAGATGCAGTTGAAGAGATTCCAATGGAAACTTGTTTGGGTGGAAAAGAG
1 AGCATAAGAAAAGTAAAGATG-AGTTGAAGAGATTTCAATGGAAACTTGTTTAGGTGGAAAAGAG
*
16438745 AACGCAGAACAAGAAAGTAGCAAGGCGATGAACTTGGAGAACAATGGGGAAGCAAAAAGGGTTA-
65 AACGCAGAACAAGAAAGTAGCAAGGTGATGAACTTGGAGAACAATGGGGAAGCAAAAAGGG-TAG
* * * * *
16438809 AGAAAGACAAACATAAGAAGAACAGGGATGAGATCAATGCAGTTGCTACTGTGACTGAAACCCTC
129 GGAAAGATAAACACAAG-AGAACAAGGATGAGATCAATGCAGTTGCTACTGTGACCGAAACCCTC
* *
16438874 AAACATAGTTAAAAGGACTCTAAGAAGGCTC
193 AAACATAGTAAAAAGGAATCTAAGAAGGC-C
* * **
16438905 ATAAAAAGCATAAGAAAAGTAAAGATGAGGTTAAAGAGATTTCAATGGAAAGTTGTAAAGGTGGA
1 ------AGCATAAGAAAAGTAAAGATGA-GTTGAAGAGATTTCAATGGAAACTTGTTTAGGTGGA
* * *
16438970 AAAAAGAACACAGAACAAGAAAGTAGCAAGGTGATGAACTTGGAGAACAACGGGGAAGCAAAAAG
59 AAAGAGAACGCAGAACAAGAAAGTAGCAAGGTGATGAACTTGGAGAACAATGGGGAAGCAAAAAG
* * * *
16439035 GGTCGGGAAAGATAAACACAAG-G-ACAAGGATGGGA-CTAATGCAGTTGGTACTGTGACCGGAA
124 GGTAGGGAAAGATAAACACAAGAGAACAAGGATGAGATC-AATGCAGTTGCTACTGTGACCGAAA
** *
16439097 CCCTTGAACATAGTAAAAAGGAATCTCCA-AAGG-C
188 CCCTCAAACATAGTAAAAAGGAATCT-AAGAAGGCC
16439131 -GCATAAGAAAAGTAAAGATGTAGTTGAAGAGATTTCAATGGAAACTTGTTTAGGTGGAAAAGAG
1 AGCATAAGAAAAGTAAAGATG-AGTTGAAGAGATTTCAATGGAAACTTGTTTAGGTGGAAAAGAG
* * * * * * *
16439195 AATGCAGAAAAAGAAAGTAGTAAGGTGGTGAATTTGGGGAACAATGGGGAAGCAGAAAAGGTTAG
65 AACGCAGAACAAGAAAGTAGCAAGGTGATGAACTTGGAGAACAATGGGGAAGCA-AAAAGGGTAG
16439260 GG-AAGATAAACACAAGAG
129 GGAAAGATAAACACAAGAG
16439278 GAAGAATAAG
Statistics
Matches: 320, Mismatches: 40, Indels: 25
0.83 0.10 0.06
Matches are distributed among these distances:
219 117 0.37
220 12 0.04
226 1 0.00
227 1 0.00
228 58 0.18
229 2 0.01
230 2 0.01
231 127 0.40
ACGTcount: A:0.44, C:0.11, G:0.28, T:0.17
Consensus pattern (222 bp):
AGCATAAGAAAAGTAAAGATGAGTTGAAGAGATTTCAATGGAAACTTGTTTAGGTGGAAAAGAGA
ACGCAGAACAAGAAAGTAGCAAGGTGATGAACTTGGAGAACAATGGGGAAGCAAAAAGGGTAGGG
AAAGATAAACACAAGAGAACAAGGATGAGATCAATGCAGTTGCTACTGTGACCGAAACCCTCAAA
CATAGTAAAAAGGAATCTAAGAAGGCC
Found at i:16442179 original size:22 final size:22
Alignment explanation
Indices: 16442163--16442207 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
16442153 TAAGAGCGAG
16442163 AACAAACAGACTGAAGATGGAA
1 AACAAACAGACTGAAGATGGAA
16442185 AACAAACAGACTGAAGATGGAA
1 AACAAACAGACTGAAGATGGAA
16442207 A
1 A
16442208 CTTTGCTGAA
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:0.56, C:0.13, G:0.22, T:0.09
Consensus pattern (22 bp):
AACAAACAGACTGAAGATGGAA
Found at i:16449553 original size:21 final size:22
Alignment explanation
Indices: 16449529--16449573 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
16449519 AGAAAAAGAG
16449529 AAATACAAAAAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
*
16449550 AAATCAAAAAGGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
16449572 AA
1 AA
16449574 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:16452461 original size:35 final size:34
Alignment explanation
Indices: 16452374--16452647 Score: 317
Period size: 35 Copynumber: 8.1 Consensus size: 34
16452364 GTCCAAAAAG
* *
16452374 AAATAATACATGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
*
16452408 AAATGAT-GTGAACAGGAGAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
*
16452441 AAATAATCCGTGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
* *
16452475 AAATGAT-GTGAACAGGAAAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
*
16452508 AAATAATGTGTGAACAGGAGAGATTCCCTGCAACA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
*
16452543 AAATAATGCGTGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
* *
16452577 AAATGAT-GTGAACAGGAAAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
* * * * * *
16452610 GAATAATGCGTGAACGGGAAATATTCCTTGCAAGA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
16452645 AAA
1 AAA
16452648 GACAAGTGAA
Statistics
Matches: 209, Mismatches: 22, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
32 69 0.33
33 17 0.08
34 18 0.09
35 105 0.50
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (34 bp):
AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
Found at i:16452482 original size:67 final size:66
Alignment explanation
Indices: 16452374--16452607 Score: 328
Period size: 67 Copynumber: 3.5 Consensus size: 66
16452364 GTCCAAAAAG
*
16452374 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
16452439 CA
65 CA
*
16452441 AAATAATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
16452506 CA
65 CA
* * *
16452508 AAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTG
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAA-GAAATGAT--GTGAACAGGAGAGATTCCCTG
*
16452573 CAA-G
62 CAACA
* *
16452577 AAATGAT-GTGAACAGGAAAGATTCCCTGCAA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAA
16452608 CAGAATAATG
Statistics
Matches: 153, Mismatches: 11, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
67 118 0.77
68 6 0.04
69 6 0.04
70 23 0.15
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (66 bp):
AAATAATCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAAC
A
Found at i:16452557 original size:102 final size:102
Alignment explanation
Indices: 16452384--16452647 Score: 408
Period size: 102 Copynumber: 2.6 Consensus size: 102
16452374 AAATAATACA
* * *
16452384 TGAACAGGAGAGATTCCCTGCAA-GAAATGA--TGTGAACAGGAGAGATTCCCTGCAACAAAATA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
16452446 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
66 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
16452483 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
*
16452548 ATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
66 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
* * * * * * *
16452585 TGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAACGGGAAATATTCCTTGCAAGAAAA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAA
16452648 GACAAGTGAA
Statistics
Matches: 151, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
99 22 0.15
100 5 0.03
102 124 0.82
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (102 bp):
TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
Found at i:16452608 original size:67 final size:65
Alignment explanation
Indices: 16452384--16452647 Score: 305
Period size: 67 Copynumber: 3.9 Consensus size: 65
16452374 AAATAATACA
* * *
16452384 TGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAACAAAATAATC
1 TGAACAGGAGAGATTCCCTGCAAAAAATAATGTGAACAGGAAAGATTCCCTGCAACAAAATAAT-
16452449 CG
65 -G
* *
16452451 TGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAACAAAATAATG
1 TGAACAGGAGAGATTCCCTGCAAAAAATAATGTGAACAGGAAAGATTCCCTGCAACAAAATAA--
16452516 TG
64 TG
* * *
16452518 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTGCAA-GAAATG
1 TGAACAGGAGAGATTCCCTGCAA-AAAATAAT--GTGAACAGGAAAGATTCCCTGCAACAAAATA
16452582 ATG
63 ATG
* * * * * *
16452585 TGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAACGGGAAATATTCCTTGCAAGAAAA
1 TGAACAGGAGAGATTCCCTGCAA-AAAATAAT--GTGAACAGGAAAGATTCCCTGCAACAAAA
16452648 GACAAGTGAA
Statistics
Matches: 178, Mismatches: 13, Indels: 11
0.88 0.06 0.05
Matches are distributed among these distances:
67 140 0.79
68 9 0.05
69 6 0.03
70 23 0.13
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (65 bp):
TGAACAGGAGAGATTCCCTGCAAAAAATAATGTGAACAGGAAAGATTCCCTGCAACAAAATAATG
Found at i:16465540 original size:20 final size:20
Alignment explanation
Indices: 16465517--16465563 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
16465507 ATTTTTTTAC
*
16465517 TTTTTTATCAACTTTTGTCT
1 TTTTTTATAAACTTTTGTCT
* *
16465537 TTTTCTT-TAAATTTTTTTCT
1 TTTT-TTATAAACTTTTGTCT
16465557 TTTTTTA
1 TTTTTTA
16465564 AGTTTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
19 2 0.09
20 18 0.82
21 2 0.09
ACGTcount: A:0.15, C:0.11, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTTTTATAAACTTTTGTCT
Found at i:16465595 original size:9 final size:9
Alignment explanation
Indices: 16465583--16465627 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
16465573 TTTTTCTTAT
*
16465583 TTTATTTTG
1 TTTATTTTA
16465592 TTTA-TTTA
1 TTTATTTTA
16465600 TTTATTTTA
1 TTTATTTTA
16465609 TTTATTGTTA
1 TTTATT-TTA
*
16465619 TTAATTTTA
1 TTTATTTTA
16465628 AAAAATTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 7 0.22
9 17 0.53
10 8 0.25
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (9 bp):
TTTATTTTA
Found at i:16465840 original size:22 final size:21
Alignment explanation
Indices: 16465783--16465847 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
16465773 TTTCTCTGAC
* *
16465783 ATTTTTTTATT-TTTGTCTTT
1 ATTTTTTTATTATTTATTTTT
16465803 ATTTTTATTTATTTATTTATTTTT
1 A-TTTT-TTTA-TTATTTATTTTT
*
16465827 ATTTATTTTATTATTAATTTT
1 ATTT-TTTTATTATTTATTTT
16465848 AAAAAACTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 1 0.03
21 4 0.11
22 14 0.38
23 9 0.24
24 9 0.24
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (21 bp):
ATTTTTTTATTATTTATTTTT
Found at i:16465841 original size:8 final size:9
Alignment explanation
Indices: 16465783--16465838 Score: 55
Period size: 8 Copynumber: 6.3 Consensus size: 9
16465773 TTTCTCTGAC
16465783 ATTT-TTTT
1 ATTTATTTT
*
16465791 ATTT-TTGT
1 ATTTATTTT
*
16465799 CTTTATTTTT
1 ATTTA-TTTT
16465809 ATTTA-TTT
1 ATTTATTTT
16465817 ATTTATTTTT
1 ATTTA-TTTT
16465827 ATTTATTTT
1 ATTTATTTT
16465836 ATT
1 ATT
16465839 ATTAATTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
8 18 0.45
9 7 0.17
10 15 0.38
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (9 bp):
ATTTATTTT
Found at i:16465841 original size:18 final size:18
Alignment explanation
Indices: 16465786--16465834 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
16465776 CTCTGACATT
*
16465786 TTTTTATTT-TTGTCTTTA
1 TTTTTATTTATT-TATTTA
16465804 TTTTTATTTATTTATTTA
1 TTTTTATTTATTTATTTA
16465822 TTTTTATTTATTT
1 TTTTTATTTATTT
16465835 TATTATTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 27 0.93
19 2 0.07
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTTATTTATTTATTTA
Found at i:16465906 original size:21 final size:21
Alignment explanation
Indices: 16465876--16465975 Score: 100
Period size: 21 Copynumber: 4.8 Consensus size: 21
16465866 ATTTGAAATG
16465876 TTTTATAATATATTTTTTAAAA
1 TTTTA-AATATATTTTTTAAAA
* *
16465898 TTTTAAATATATATTTGAAATTA
1 TTTTAAATATATTTTTTAAA--A
*
16465921 TTTTTAAT-T-TTTTTTAAAA
1 TTTTAAATATATTTTTTAAAA
16465940 -TTTAAATATTATTTTTT-AAA
1 TTTTAAATA-TATTTTTTAAAA
*
16465960 TATTAAATATATTTTT
1 TTTTAAATATATTTTT
16465976 AATAATATAA
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
18 6 0.09
19 1 0.02
20 11 0.17
21 33 0.51
22 6 0.09
23 8 0.12
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (21 bp):
TTTTAAATATATTTTTTAAAA
Found at i:16465975 original size:41 final size:43
Alignment explanation
Indices: 16465858--16465975 Score: 122
Period size: 42 Copynumber: 2.8 Consensus size: 43
16465848 AAAAAACTTG
*
16465858 AAATGTATATTTGAAATGT-TTTATAATATATTTTTTAAAATTTT
1 AAATATATATTTGAAAT-TATTTA-AATATATTTTTTAAAATTTT
*
16465902 AAATATATATTTGAAATTATTTTTAAT-T-TTTTTTAAAA-TTT
1 AAATATATATTTGAAATTA-TTTAAATATATTTTTTAAAATTTT
* *
16465943 AAATATTATTTTTTAAA-TA-TTAAATATATTTTT
1 AAATA-TATATTTGAAATTATTTAAATATATTTTT
16465976 AATAATATAA
Statistics
Matches: 64, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
39 5 0.08
40 1 0.02
41 15 0.23
42 19 0.30
43 2 0.03
44 19 0.30
45 3 0.05
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (43 bp):
AAATATATATTTGAAATTATTTAAATATATTTTTTAAAATTTT
Found at i:16465986 original size:20 final size:20
Alignment explanation
Indices: 16465931--16465986 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
16465921 TTTTTAATTT
*
16465931 TTTTTAAAATTTAAATATTA
1 TTTTTAAAATATAAATATTA
*
16465951 TTTTTTAAATATTAAATA-TA
1 TTTTTAAAATA-TAAATATTA
16465971 TTTTTAATAATATAAA
1 TTTTTAA-AATATAAA
16465987 ACATTTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 21 0.68
21 10 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTTAAAATATAAATATTA
Found at i:16466173 original size:13 final size:13
Alignment explanation
Indices: 16466155--16466182 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16466145 TTGTTTTATA
16466155 ATATTTTAAATAT
1 ATATTTTAAATAT
16466168 ATATTTTAAATAT
1 ATATTTTAAATAT
16466181 AT
1 AT
16466183 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATTTTAAATAT
Found at i:16466180 original size:11 final size:11
Alignment explanation
Indices: 16466155--16466189 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
16466145 TTGTTTTATA
16466155 ATATTTTAAATAT
1 ATATTTT-AA-AT
16466168 ATATTTTAAAT
1 ATATTTTAAAT
16466179 ATATTTTAAAT
1 ATATTTTAAAT
16466190 TTTAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 13 0.59
12 2 0.09
13 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATATTTTAAAT
Found at i:16466219 original size:29 final size:30
Alignment explanation
Indices: 16466157--16466236 Score: 94
Period size: 29 Copynumber: 2.7 Consensus size: 30
16466147 GTTTTATAAT
*
16466157 ATTTTAAATATATATTTTAAATATATTTTAA
1 ATTTTAAATATA-ATTTTAAATAAATTTTAA
*
16466188 ATTTTAAATATAATTTT-TATAAATTATT-A
1 ATTTTAAATATAATTTTAAATAAATT-TTAA
16466217 ATTTTAAA-ATTAATTTTAAA
1 ATTTTAAATA-TAATTTTAAA
16466237 GATATTCAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 1 0.02
29 22 0.51
30 8 0.19
31 12 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
ATTTTAAATATAATTTTAAATAAATTTTAA
Found at i:16466234 original size:116 final size:114
Alignment explanation
Indices: 16465997--16466241 Score: 280
Period size: 116 Copynumber: 2.1 Consensus size: 114
16465987 ACATTTAAAT
* *
16465997 ATTTTAAAGATATGACCTTTCAAATCTATTATTACTTTTATCATATTTTAAATGTATATTTTAAT
1 ATTTTAAAGATATGACCTTTCAAATCTATTATTACTTTTATAATATTTTAAATATATATTTTAAT
* * * * *
16466062 TTGTTTTATAATTTTTTTAATTATGATTTTTAAATTATTTAAAATATATTA
66 ATATTTTATAA--TTTTTAAATATAATTTTTAAATTATTTAAAATAAATTA
* * * **
16466113 TTTTTAAAGATATGACTTTTCAAATTTATTATTTGTTTTATAATATTTTAAATATATATTTTAAA
1 ATTTTAAAGATATGACCTTTCAAATCTATTATTACTTTTATAATATTTTAAATATATATTTT-AA
**
16466178 TATATTTTA-AA-TTTTAAATATAATTTTTATAAATTA-TTAATTTTAAAATTA
65 TATATTTTATAATTTTTAAATATAA-TTTT-TAAATTATTTAA-AAT-AAATTA
16466229 ATTTTAAAGATAT
1 ATTTTAAAGATAT
16466242 TCAAACATTT
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
113 10 0.09
114 8 0.07
115 8 0.07
116 74 0.68
117 9 0.08
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (114 bp):
ATTTTAAAGATATGACCTTTCAAATCTATTATTACTTTTATAATATTTTAAATATATATTTTAAT
ATATTTTATAATTTTTAAATATAATTTTTAAATTATTTAAAATAAATTA
Found at i:16469182 original size:71 final size:71
Alignment explanation
Indices: 16469088--16469239 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 71
16469078 TTTAAAATAT
* * * *
16469088 ATTTTTTAAAAATATATTGAATATATTATAA-TTTTAATATTGGTTATACTTAACATTTTTTAAT
1 ATTTTTTAAAAATATATTAAATATATTA-AAGTTTTAAAATTGGCTATACATAACATTTTTTAAT
16469152 ATATTTA
65 ATATTTA
16469159 ATTTTTTAAAAATATATTAAATATATTAAAGTTTTAAAATTGGCTATACATAACATTTTTTAATA
1 ATTTTTTAAAAATATATTAAATATATTAAAGTTTTAAAATTGGCTATACATAACATTTTTTAATA
16469224 TATTTA
66 TATTTA
16469230 ATTTCTTTAA
1 ATTT-TTTAA
16469240 GTTTTTAAAC
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
70 2 0.03
71 68 0.91
72 5 0.07
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (71 bp):
ATTTTTTAAAAATATATTAAATATATTAAAGTTTTAAAATTGGCTATACATAACATTTTTTAATA
TATTTA
Found at i:16469187 original size:20 final size:20
Alignment explanation
Indices: 16469149--16469188 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
16469139 AACATTTTTT
* * *
16469149 AATATATTTAATTTTTTAAA
1 AATATATTAAATATATTAAA
16469169 AATATATTAAATATATTAAA
1 AATATATTAAATATATTAAA
16469189 GTTTTAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATATTAAATATATTAAA
Found at i:16469355 original size:40 final size:41
Alignment explanation
Indices: 16469302--16469386 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 41
16469292 AAAAATATAT
* *
16469302 ATTAAGTACATAAATTTATGAACGTGTACTAAAATTAAAAA
1 ATTAAGTACATAAAATTATAAACGTGTACTAAAATTAAAAA
* * *
16469343 ATTAA-TATATAAAATTATAAATGTGTACTAAGATTAAAAA
1 ATTAAGTACATAAAATTATAAACGTGTACTAAAATTAAAAA
16469383 ATTA
1 ATTA
16469387 TAACCAACAC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 34 0.87
41 5 0.13
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (41 bp):
ATTAAGTACATAAAATTATAAACGTGTACTAAAATTAAAAA
Found at i:16469902 original size:20 final size:20
Alignment explanation
Indices: 16469877--16469933 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
16469867 ATATATATTT
16469877 AAATAAATTTATTTTTTAAC
1 AAATAAATTTATTTTTTAAC
*
16469897 AAATAAA--TCTTTTTTAAC
1 AAATAAATTTATTTTTTAAC
**
16469915 AAATATTTTTATTTTTTAA
1 AAATAAATTTATTTTTTAA
16469934 TTAATTCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 15 0.48
20 16 0.52
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATAAATTTATTTTTTAAC
Found at i:16470251 original size:22 final size:23
Alignment explanation
Indices: 16470199--16470257 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
16470189 ATATCTTTAA
16470199 AAATAAT-TTAAAAATCATAATT
1 AAATAATATTAAAAATCATAATT
*
16470221 TAA-AATATTATAAAA-CA-AATT
1 AAATAATATTA-AAAATCATAATT
16470242 AAATAATATTAAAAAT
1 AAATAATATTAAAAAT
16470258 ATTAAAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 13 0.42
22 14 0.45
23 4 0.13
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATAATATTAAAAATCATAATT
Found at i:16470336 original size:23 final size:22
Alignment explanation
Indices: 16470307--16470375 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 22
16470297 AAAATATATA
*
16470307 AATATTTTATATTATT-AAAAAT
1 AATATTTAATATT-TTAAAAAAT
16470329 ATATATTTAATATTTTAAAAAAT
1 A-ATATTTAATATTTTAAAAAAT
* *
16470352 AATATTCAAAATTTT-AAAAAT
1 AATATTTAATATTTTAAAAAAT
16470373 AAT
1 AAT
16470376 TTAAAAATAG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 9 0.21
22 15 0.36
23 18 0.43
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (22 bp):
AATATTTAATATTTTAAAAAAT
Found at i:16470346 original size:22 final size:23
Alignment explanation
Indices: 16470294--16470373 Score: 92
Period size: 22 Copynumber: 3.4 Consensus size: 23
16470284 AGGTCATACC
*
16470294 TTTAAAATATATAAATATTTTATAT
1 TTTAAAA-ATAT-AATATTTAATAT
16470319 TATTAAAAATAT-ATATTTAATAT
1 T-TTAAAAATATAATATTTAATAT
* *
16470342 TTTAAAAA-ATAATATTCAAAAT
1 TTTAAAAATATAATATTTAATAT
16470364 TTTAAAAATA
1 TTTAAAAATA
16470374 ATTTAAAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
21 2 0.04
22 24 0.49
23 12 0.24
25 5 0.10
26 6 0.12
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTAAAAATATAATATTTAATAT
Found at i:16470395 original size:32 final size:33
Alignment explanation
Indices: 16470337--16470402 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
16470327 ATATATATTT
*
16470337 AATATTTTAAAAAATAATATTCAAAATTTTAAA
1 AATAATTTAAAAAATAATATTCAAAATTTTAAA
* *
16470370 AATAATTT-AAAAATAGTATTTAAAATTTTAAA
1 AATAATTTAAAAAATAATATTCAAAATTTTAAA
16470402 A
1 A
16470403 GATATATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 23 0.77
33 7 0.23
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (33 bp):
AATAATTTAAAAAATAATATTCAAAATTTTAAA
Found at i:16470473 original size:9 final size:9
Alignment explanation
Indices: 16470446--16470490 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
16470436 CCAAATTTTT
*
16470446 TAAAATTAA
1 TAAAATAAA
16470455 TAACAATAAA
1 TAA-AATAAA
16470465 TAAAATAAA
1 TAAAATAAA
16470474 T-AAATAAA
1 TAAAATAAA
*
16470482 CAAAATAAA
1 TAAAATAAA
16470491 ATAAGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 7 0.22
9 17 0.53
10 8 0.25
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (9 bp):
TAAAATAAA
Found at i:16470509 original size:9 final size:8
Alignment explanation
Indices: 16470459--16470536 Score: 66
Period size: 8 Copynumber: 9.2 Consensus size: 8
16470449 AATTAATAAC
16470459 AATAAATAA
1 AATAAA-AA
*
16470468 AATAAATA
1 AATAAAAA
16470476 AATAAACAA
1 AATAAA-AA
*
16470485 AATAAAAT
1 AATAAAAA
*
16470493 AAGAAAAA
1 AATAAAAA
16470501 AATATAAAA
1 AATA-AAAA
**
16470510 CTTAAAAA
1 AATAAAAA
*
16470518 AAGAAAAA
1 AATAAAAA
16470526 AATTAAAAA
1 AA-TAAAAA
16470535 AA
1 AA
16470537 AAGGACAAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
8 28 0.52
9 26 0.48
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (8 bp):
AATAAAAA
Found at i:16470518 original size:17 final size:17
Alignment explanation
Indices: 16470496--16470536 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
16470486 ATAAAATAAG
* * *
16470496 AAAAAAATATAAAACTT
1 AAAAAAAGAAAAAAATT
16470513 AAAAAAAGAAAAAAATT
1 AAAAAAAGAAAAAAATT
16470530 AAAAAAA
1 AAAAAAA
16470537 AAGGACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (17 bp):
AAAAAAAGAAAAAAATT
Found at i:16470534 original size:25 final size:25
Alignment explanation
Indices: 16470487--16470533 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
16470477 ATAAACAAAA
*
16470487 TAAAATAAGAAAAAAATATAAAACT
1 TAAAAAAAGAAAAAAATATAAAACT
16470512 TAAAAAAAGAAAAAAAT-TAAAA
1 TAAAAAAAGAAAAAAATATAAAA
16470534 AAAAAGGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (25 bp):
TAAAAAAAGAAAAAAATATAAAACT
Found at i:16470536 original size:20 final size:20
Alignment explanation
Indices: 16470513--16470580 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
16470503 TATAAAACTT
16470513 AAAAAAAGAAAAAAATTAAA
1 AAAAAAAGAAAAAAATTAAA
* * *
16470533 AAAAAAGGACAAAAGTT-AA
1 AAAAAAAGAAAAAAATTAAA
* *
16470552 TAAAAAAG-TAAAAA-TAAA
1 AAAAAAAGAAAAAAATTAAA
16470570 AAATAAAAGAA
1 AAA-AAAAGAA
16470581 GGGTCTAGTG
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
17 1 0.03
18 8 0.22
19 13 0.36
20 14 0.39
ACGTcount: A:0.78, C:0.01, G:0.09, T:0.12
Consensus pattern (20 bp):
AAAAAAAGAAAAAAATTAAA
Found at i:16471589 original size:30 final size:30
Alignment explanation
Indices: 16471553--16471614 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
16471543 AAAACTTAAA
*
16471553 TTTTTAAAATT-AAAAAATATTTTTTAAATT
1 TTTTTAAAATTGAAAAAATA-TTATTAAATT
* *
16471583 TTTTTAAATTTGTAAAAATATTATTAAATT
1 TTTTTAAAATTGAAAAAATATTATTAAATT
16471613 TT
1 TT
16471615 ATAAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 21 0.75
31 7 0.25
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
TTTTTAAAATTGAAAAAATATTATTAAATT
Found at i:16471609 original size:20 final size:21
Alignment explanation
Indices: 16471586--16471624 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16471576 TTAAATTTTT
*
16471586 TTAAA-TTTGTAAAAATATTA
1 TTAAATTTTATAAAAATATTA
16471606 TTAAATTTTATAAAAATAT
1 TTAAATTTTATAAAAATAT
16471625 CAAATAGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (21 bp):
TTAAATTTTATAAAAATATTA
Found at i:16480848 original size:24 final size:24
Alignment explanation
Indices: 16480820--16480867 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
16480810 ATAAGTAAGG
16480820 TAGTTTCATGTCCTTTTTATGGTA
1 TAGTTTCATGTCCTTTTTATGGTA
16480844 TAGTTTCATGTCCTTTTTATGGTA
1 TAGTTTCATGTCCTTTTTATGGTA
16480868 ATAAAGACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.12, G:0.17, T:0.54
Consensus pattern (24 bp):
TAGTTTCATGTCCTTTTTATGGTA
Found at i:16481224 original size:21 final size:21
Alignment explanation
Indices: 16481172--16481224 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
16481162 TGATATCGAC
*
16481172 AGCAATGGCCTTGACATAGAA
1 AGCAATGGCCTCGACATAGAA
* * *
16481193 GGAAACT-GCCTCGACATTGAA
1 AGCAA-TGGCCTCGACATAGAA
16481214 AGCAATGGCCT
1 AGCAATGGCCT
16481225 TCAGGATGAT
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.19
Consensus pattern (21 bp):
AGCAATGGCCTCGACATAGAA
Found at i:16488480 original size:16 final size:16
Alignment explanation
Indices: 16488459--16488512 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
16488449 TTTGATTCAC
16488459 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAGT
**
16488475 TGTAATTTAATAGAGT
1 TGTAATGGAATAGAGT
* *
16488491 TGTAATGGAATAAAGC
1 TGTAATGGAATAGAGT
16488507 TGTAAT
1 TGTAAT
16488513 CAGTAATTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (16 bp):
TGTAATGGAATAGAGT
Done.