Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 128 of 210
Found at i:39058152 original size:20 final size:20
Alignment explanation
Indices: 39058129--39058191 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
39058119 TGTTTAACTA
*
39058129 ATTATTTTAGTGTTATTATT
1 ATTATTTTAGTATTATTATT
*
39058149 ATTATTTTATTATTATTATT
1 ATTATTTTAGTATTATTATT
*
39058169 ATTA--TTACTATTAATTATT
1 ATTATTTTAGTATT-ATTATT
39058188 ATTA
1 ATTA
39058192 GTTTCATCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
18 7 0.18
19 10 0.26
20 22 0.56
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (20 bp):
ATTATTTTAGTATTATTATT
Found at i:39058688 original size:17 final size:16
Alignment explanation
Indices: 39058659--39058697 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
39058649 TATCTTTTTA
39058659 CATTTTTAATTATATT
1 CATTTTTAATTATATT
* *
39058675 CATTATTTATTTATTTT
1 CATT-TTTAATTATATT
39058692 CATTTT
1 CATTTT
39058698 CATTATTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (16 bp):
CATTTTTAATTATATT
Found at i:39062849 original size:9 final size:9
Alignment explanation
Indices: 39062837--39062902 Score: 57
Period size: 9 Copynumber: 7.4 Consensus size: 9
39062827 AATCAAAATC
*
39062837 AAAAAACAA
1 AAAAAAGAA
*
39062846 AAAACA-AA
1 AAAAAAGAA
39062854 AAAAAAGAA
1 AAAAAAGAA
*
39062863 GAAAAAGAA
1 AAAAAAGAA
39062872 AAATCAAAG--
1 AAA--AAAGAA
*
39062881 TAAAAAGAA
1 AAAAAAGAA
39062890 AAAAAAGAA
1 AAAAAAGAA
39062899 AAAA
1 AAAA
39062903 TCAATCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
7 4 0.09
8 7 0.15
9 31 0.67
11 4 0.09
ACGTcount: A:0.83, C:0.05, G:0.09, T:0.03
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:39062867 original size:27 final size:27
Alignment explanation
Indices: 39062837--39062902 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
39062827 AATCAAAATC
*
39062837 AAAAAACAAAAAACAAA-AAAAAAGAA
1 AAAAAAGAAAAAACAAAGAAAAAAGAA
* * *
39062863 GAAAAAGAAAAATCAAAGTAAAAAGAA
1 AAAAAAGAAAAAACAAAGAAAAAAGAA
39062890 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
39062903 TCAATCAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.83, C:0.05, G:0.09, T:0.03
Consensus pattern (27 bp):
AAAAAAGAAAAAACAAAGAAAAAAGAA
Found at i:39062912 original size:27 final size:26
Alignment explanation
Indices: 39062837--39062912 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 26
39062827 AATCAAAATC
* *
39062837 AAAAAACAAAAAA-CAAAAAAAAAGAA
1 AAAAAAGAAAAAATC-AATAAAAAGAA
*
39062863 GAAAAAG-AAAAATCAAAGTAAAAAGAA
1 AAAAAAGAAAAAATC-AA-TAAAAAGAA
*
39062890 AAAAAAGAAAAAATCAATCAAAA
1 AAAAAAGAAAAAATCAATAAAAA
39062913 TCAAAATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
25 5 0.12
26 14 0.33
27 16 0.38
28 7 0.17
ACGTcount: A:0.80, C:0.07, G:0.08, T:0.05
Consensus pattern (26 bp):
AAAAAAGAAAAAATCAATAAAAAGAA
Found at i:39062918 original size:18 final size:16
Alignment explanation
Indices: 39062822--39062937 Score: 73
Period size: 15 Copynumber: 7.2 Consensus size: 16
39062812 AGATTCAATC
39062822 AAAAAAATCAAAATCAA
1 AAAAAAATCAAAAT-AA
* *
39062839 AAAACAA--AAAACAA
1 AAAAAAATCAAAATAA
*
39062853 AAAAAAA-GAAGAA-AA
1 AAAAAAATCAA-AATAA
* *
39062868 AGAAAAATCAAAGTAA
1 AAAAAAATCAAAATAA
*
39062884 AAAGAAAA--AAAAGAA
1 AAA-AAAATCAAAATAA
*
39062899 AAAATCAATCAAAATCAA
1 AAAA-AAATCAAAAT-AA
39062917 AATAAAAATCAAAATAA
1 AA-AAAAATCAAAATAA
39062934 AAAA
1 AAAA
39062938 GGAGAAAAAG
Statistics
Matches: 77, Mismatches: 12, Indels: 21
0.70 0.11 0.19
Matches are distributed among these distances:
14 9 0.12
15 25 0.32
16 10 0.13
17 18 0.23
18 13 0.17
19 2 0.03
ACGTcount: A:0.78, C:0.08, G:0.05, T:0.09
Consensus pattern (16 bp):
AAAAAAATCAAAATAA
Found at i:39062924 original size:12 final size:12
Alignment explanation
Indices: 39062909--39062936 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
39062899 AAAATCAATC
39062909 AAAATCAAAATA
1 AAAATCAAAATA
39062921 AAAATCAAAATA
1 AAAATCAAAATA
39062933 AAAA
1 AAAA
39062937 AGGAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAATCAAAATA
Found at i:39065250 original size:129 final size:129
Alignment explanation
Indices: 39065017--39066145 Score: 1764
Period size: 129 Copynumber: 8.8 Consensus size: 129
39065007 GTGAATATAG
* * ** *
39065017 CAGATCTTGTCTCTCTAAGTAGTAGTAGAGCACATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
39065082 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
* **
39065146 CAGATCTTGTCTCCCTAAGTAGTAGCGGAGCAGATCGAAAAAGGCAAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
* *
39065211 AGGAAGTAGATTTAAGCCACAAGTCCTATATCCCCGGTCAGCAGTGGAATAGGTTGGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
*
39065275 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGTGGCAAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
* ** *
39065340 AGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAATAGTGGAGTAGGTT-GGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
* * *
39065403 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAAGTGGCGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
*
39065468 AGGAAGCAGATTTTAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
*
39065532 TAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
* * *
39065597 AGGAAGCAAATTTGAGCCACAAGTCCTATATCCCTGGTCAGCAGTGCAATAGGTTGGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
* * *
39065661 CAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCGAAAGCGACCAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
* *
39065726 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCTTGGTCAGCAGTGGAATAGGTTGTGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
* * * * *
39065790 CAGATCTTCTCTCCCTAAGAAGTATCGGAGTAGATCGAAAGCGGCAAATCTTATCTTCAGGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
* * * * *
39065855 AGGAAGCAGATTTAAGCCACAAGTCCGATCTCTCTGGTCAACAGTGGAGTAGGTT-GGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
* * *
39065918 CAGATCTCGTCTCCTTAAGCAGTAGCGGAGCAGATCGAAAGCGGCGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
* *
39065983 AGGAAGCAGATTTAAGCCACAAGTCCTATGTCGCTGGTCAGCAGTGGAATAGGTT-GGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
* *
39066046 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCG-AAGACGGCGAATCTTATCTTTAAGTGT
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAG-CGGCAAATCTTATCTTCAAGTGT
* * * *
39066110 AAGGAAACAGATTGAAGCCGATAA-TCCTATCTCCCT
65 AAGGAAGCAGATTTAAGCC-ACAAGTCCTATATCCCT
39066146 TAAGTTGAAG
Statistics
Matches: 921, Mismatches: 76, Indels: 7
0.92 0.08 0.01
Matches are distributed among these distances:
127 3 0.00
128 327 0.36
129 591 0.64
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (129 bp):
CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
Found at i:39065730 original size:386 final size:387
Alignment explanation
Indices: 39065017--39066145 Score: 1782
Period size: 386 Copynumber: 2.9 Consensus size: 387
39065007 GTGAATATAG
* * ** *
39065017 CAGATCTTGTCTCTCTAAGTAGTAGTAGAGCACATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGAAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
39065082 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTAC
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTAC
* **
39065147 AGATCTTGTCTCCCTAAGTAGTAGCGGAGCAGATCGAAAAAGGCAAATCTTATCTTCAAGTGTAA
131 AGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTAA
* *
39065212 GGAAGTAGATTTAAGCCACAAGTCCTATATCCCCGGTCAGCAGTGGAATAGGTTGGGAAATTACA
196 GGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACA
*
39065277 GATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGTGGCAAATCTTATCTTCAAGTGTAAG
261 GATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTAAG
* *
39065342 GAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAATAGTGGAGTAGGTTG-GAAATTA
326 GAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAACAGTGGAATAGGTTGTGAAATTA
* * * *
39065403 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAAGTGGCGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGAAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
* *
39065468 AGGAAGCAGATTTTAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTAT
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTAC
39065533 AGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTAA
131 AGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTAA
* * *
39065598 GGAAGCAAATTTGAGCCACAAGTCCTATATCCCTGGTCAGCAGTGCAATAGGTTGGGAAATTACA
196 GGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACA
* * *
39065663 GATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCGAAAGCGACCAATCTTATCTTCAAGTGTAAG
261 GATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTAAG
* * *
39065728 GAAGCAGATTTAAGCCACAAGTCCTATATCCTTGGTCAGCAGTGGAATAGGTTGTGAAATTA
326 GAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAACAGTGGAATAGGTTGTGAAATTA
* * * *
39065790 CAGATCTTCTCTCCCTAAGAAGTATCGGAGTAGATCGAAAGCGGCAAATCTTATCTTCAGGTGTA
1 CAGATCTTGTCTCCCTAAGAAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
* * * * *
39065855 AGGAAGCAGATTTAAGCCACAAGTCCGATCTCTCTGGTCAACAGTGGAGTAGGTT-GGAAATTAC
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTAC
* * *
39065919 AGATCTCGTCTCCTTAAGCAGTAGCGGAGCAGATCGAAAGCGGCGAATCTTATCTTCAAGTGTAA
131 AGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTAA
* *
39065984 GGAAGCAGATTTAAGCCACAAGTCCTATGTCGCTGGTCAGCAGTGGAATAGGTT-GGAAATTACA
196 GGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACA
* *
39066048 GATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCG-AAGACGGCGAATCTTATCTTTAAGTGTAA
261 GATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAG-CGGCAAATCTTATCTTCAAGTGTAA
* * *
39066112 GGAAACAGATTGAAGCCGATAA-TCCTATCTCCCT
325 GGAAGCAGATTTAAGCC-ACAAGTCCTATCTCCCT
39066146 TAAGTTGAAG
Statistics
Matches: 681, Mismatches: 59, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
384 3 0.00
385 91 0.13
386 474 0.70
387 113 0.17
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (387 bp):
CAGATCTTGTCTCCCTAAGAAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTAC
AGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTAA
GGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACA
GATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTAAG
GAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAACAGTGGAATAGGTTGTGAAATTA
Found at i:39065989 original size:515 final size:514
Alignment explanation
Indices: 39065017--39066115 Score: 1840
Period size: 515 Copynumber: 2.1 Consensus size: 514
39065007 GTGAATATAG
* * ** *
39065017 CAGATCTTGTCTCTCTAAGTAGTAGTAGAGCACATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
* *
39065082 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTAC
66 AGGAAGCAAATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGCAATAGGTTGGGAAATTAC
* * *
39065147 AGATCTTGTCTCCCTAAGTAGTAGCGGAGCAGATCGAAAAAGGCAAATCTTATCTTCAAGTGTAA
131 AGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCGAAAAAGACAAATCTTATCTTCAAGTGTAA
*
39065212 GGAAGTAGATTTAAGCCACAAGTCCTATATCCCCGGTCAGCAGTGGAATAGGTTGGGAAATTACA
196 GGAAGCAGATTTAAGCCACAAGTCCTATATCCCCGGTCAGCAGTGGAATAGGTTGGGAAATTACA
* * *
39065277 GATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGTGGCAAATCTTATCTTCAAGTGTAAG
261 GATCTTCTCTCCCTAAGAAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTAAG
* *
39065342 GAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAATAGTGGAGTAGGTTGGAAATTACAGA
326 GAAGCAGATTTAAGCCACAAGTCCGATCTCCCTGGTCAACAGTGGAGTAGGTTGGAAATTACAGA
* *
39065407 TCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAAGTGGCGAATCTTATCTTCAAGTGTAAGGA
391 TCTCGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAAGCGGCGAATCTTATCTTCAAGTGTAAGGA
*
39065472 AGCAGATTTTAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
456 AGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTT-GGAAATTA
*
39065532 TAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
*
39065597 AGGAAGCAAATTTGAGCCACAAGTCCTATATCCCTGGTCAGCAGTGCAATAGGTTGGGAAATTAC
66 AGGAAGCAAATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGCAATAGGTTGGGAAATTAC
** *
39065662 AGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCGAAAGCGACCAATCTTATCTTCAAGTGTAA
131 AGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCGAAAAAGACAAATCTTATCTTCAAGTGTAA
** *
39065727 GGAAGCAGATTTAAGCCACAAGTCCTATATCCTTGGTCAGCAGTGGAATAGGTTGTGAAATTACA
196 GGAAGCAGATTTAAGCCACAAGTCCTATATCCCCGGTCAGCAGTGGAATAGGTTGGGAAATTACA
* * *
39065792 GATCTTCTCTCCCTAAGAAGTATCGGAGTAGATCGAAAGCGGCAAATCTTATCTTCAGGTGTAAG
261 GATCTTCTCTCCCTAAGAAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTAAG
*
39065857 GAAGCAGATTTAAGCCACAAGTCCGATCTCTCTGGTCAACAGTGGAGTAGGTTGGAAATTACAGA
326 GAAGCAGATTTAAGCCACAAGTCCGATCTCCCTGGTCAACAGTGGAGTAGGTTGGAAATTACAGA
* *
39065922 TCTCGTCTCCTTAAGCAGTAGCGGAGCAGATCGAAAGCGGCGAATCTTATCTTCAAGTGTAAGGA
391 TCTCGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAAGCGGCGAATCTTATCTTCAAGTGTAAGGA
* *
39065987 AGCAGATTTAAGCCACAAGTCCTATGTCGCTGGTCAGCAGTGGAATAGGTTGGAAATTA
456 AGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGAAATTA
* *
39066046 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCG-AAGACGGCGAATCTTATCTTTAAGTGT
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAG-CGGCAAATCTTATCTTCAAGTGT
39066110 AAGGAA
65 AAGGAA
39066116 ACAGATTGAA
Statistics
Matches: 545, Mismatches: 38, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
513 3 0.01
514 71 0.13
515 471 0.86
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (514 bp):
CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
AGGAAGCAAATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGCAATAGGTTGGGAAATTAC
AGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCGAAAAAGACAAATCTTATCTTCAAGTGTAA
GGAAGCAGATTTAAGCCACAAGTCCTATATCCCCGGTCAGCAGTGGAATAGGTTGGGAAATTACA
GATCTTCTCTCCCTAAGAAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTAAG
GAAGCAGATTTAAGCCACAAGTCCGATCTCCCTGGTCAACAGTGGAGTAGGTTGGAAATTACAGA
TCTCGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAAGCGGCGAATCTTATCTTCAAGTGTAAGGA
AGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGAAATTA
Found at i:39066186 original size:44 final size:44
Alignment explanation
Indices: 39066137--39066279 Score: 150
Period size: 44 Copynumber: 3.3 Consensus size: 44
39066127 CCGATAATCC
*
39066137 TATCTCCCTTAAGTTGAAGTGGAGCGGATTAAAGTAATAGATCT
1 TATCTCCCTGAAGTTGAAGTGGAGCGGATTAAAGTAATAGATCT
* * * * * * *
39066181 TATCTCTCTGAAGTTGCAGTAGAGTGGA-T--CGCATTAGATCT
1 TATCTCCCTGAAGTTGAAGTGGAGCGGATTAAAGTAATAGATCT
** *
39066222 TATCTCCCT-AAGCAGTAGTGGAGCGGATTAAAGTAATAGATCT
1 TATCTCCCTGAAGTTGAAGTGGAGCGGATTAAAGTAATAGATCT
*
39066265 TATCTCTCTGAAGTT
1 TATCTCCCTGAAGTT
39066280 ACAGTAGAAC
Statistics
Matches: 75, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
40 13 0.17
41 18 0.24
43 18 0.24
44 26 0.35
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGAAGTGGAGCGGATTAAAGTAATAGATCT
Found at i:39067953 original size:3 final size:3
Alignment explanation
Indices: 39067945--39067984 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
39067935 TATTTTAGTG
*
39067945 TTA TTA TTA TTA TTA TTA TTA TTA CTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
39067985 GTTTCATCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:39069832 original size:111 final size:111
Alignment explanation
Indices: 39069633--39069859 Score: 427
Period size: 111 Copynumber: 2.0 Consensus size: 111
39069623 CATCAAGTGG
39069633 TTCCCTGAGTATGGAGCCAAGAGAAGGAATTTCTCTGGACTCTACATCCTATCGTAAATAATACA
1 TTCCCTGAGTATGGAGCCAAGAGAAGGAATTTCTCTGGACTCTACATCCTATCGTAAATAATACA
* * *
39069698 TAGTCATTCCCTCACCAGCGTGTATGAAGTAACACTTGTATTTGGA
66 TAGTCATTCCCTCACCAGAGTGTATGAACTAACACTTGTACTTGGA
39069744 TTCCCTGAGTATGGAGCCAAGAGAAGGAATTTCTCTGGACTCTACATCCTATCGTAAATAATACA
1 TTCCCTGAGTATGGAGCCAAGAGAAGGAATTTCTCTGGACTCTACATCCTATCGTAAATAATACA
39069809 TAGTCATTCCCTCACCAGAGTGTATGAACTAACACTTGTACTTGGA
66 TAGTCATTCCCTCACCAGAGTGTATGAACTAACACTTGTACTTGGA
39069855 TTCCC
1 TTCCC
39069860 CTACTTTCTT
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 113 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (111 bp):
TTCCCTGAGTATGGAGCCAAGAGAAGGAATTTCTCTGGACTCTACATCCTATCGTAAATAATACA
TAGTCATTCCCTCACCAGAGTGTATGAACTAACACTTGTACTTGGA
Found at i:39078177 original size:27 final size:27
Alignment explanation
Indices: 39078123--39078181 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
39078113 ATATGCTGGA
* *
39078123 GGCTTCTTTGGAGGTTCATGGATTGGT
1 GGCTTCTTTGGAGGTTCATAGATCGGT
*
39078150 GGCTTCTTTGGAGGTTCATATATCGGT
1 GGCTTCTTTGGAGGTTCATAGATCGGT
39078177 GGCTT
1 GGCTT
39078182 GTGTTCTGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.12, C:0.14, G:0.34, T:0.41
Consensus pattern (27 bp):
GGCTTCTTTGGAGGTTCATAGATCGGT
Found at i:39078455 original size:48 final size:48
Alignment explanation
Indices: 39078227--39078460 Score: 176
Period size: 48 Copynumber: 4.9 Consensus size: 48
39078217 CTGCTGGCTT
* * * * *
39078227 TGGTGGTTTAGGTTCATGA-ATCGGTGGCTTCTTTGGAAATTCGTGGAC
1 TGGTGGCTTAGGTTCAT-ACATTGGAGGCTTCTTTGGAAGTTCATGGAC
* * * *
39078275 TGGTGGTTTAGGTTTATACATTGGAGGCTTCTTTGGAGGTTCATGGAT
1 TGGTGGCTTAGGTTCATACATTGGAGGCTTCTTTGGAAGTTCATGGAC
* * * * *
39078323 TGATGGCGTAGGTTTATACATTGGAGGCTTATTTGGAAGTTCATCTGA-
1 TGGTGGCTTAGGTTCATACATTGGAGGCTTCTTTGGAAGTTCAT-GGAC
* *** * *
39078371 TGGTGGCTT-GTGTTC-TA-GTT--TCTCTTTTTTTGGAAGTTTATGGAC
1 TGGTGGCTTAG-GTTCATACATTGGAGGC-TTCTTTGGAAGTTCATGGAC
* **
39078416 TGGTGGCTTAGGGTCATATGTTGGAGGCTTCTTTGGAAGTTCATG
1 TGGTGGCTTAGGTTCATACATTGGAGGCTTCTTTGGAAGTTCATG
39078461 CACAGGAGGC
Statistics
Matches: 147, Mismatches: 29, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
44 3 0.02
45 26 0.18
46 5 0.03
47 7 0.05
48 103 0.70
49 3 0.02
ACGTcount: A:0.17, C:0.11, G:0.32, T:0.41
Consensus pattern (48 bp):
TGGTGGCTTAGGTTCATACATTGGAGGCTTCTTTGGAAGTTCATGGAC
Found at i:39090865 original size:17 final size:18
Alignment explanation
Indices: 39090834--39090871 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
39090824 ACTAATGAAT
39090834 AAAAGAGAAGAAAATCTAG
1 AAAAGAGAAGAAAATCT-G
39090853 AAAAGA-AAG-AAATCTG
1 AAAAGAGAAGAAAATCTG
39090869 AAA
1 AAA
39090872 TCACCTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 6 0.32
18 3 0.16
19 6 0.32
ACGTcount: A:0.66, C:0.05, G:0.18, T:0.11
Consensus pattern (18 bp):
AAAAGAGAAGAAAATCTG
Found at i:39099708 original size:26 final size:24
Alignment explanation
Indices: 39099667--39099718 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
39099657 ACTTATATAC
39099667 ATTTTATAATACATATATGTACATAT
1 ATTTTATAA-AC-TATATGTACATAT
**
39099693 ATTTTATAATTTATATGTACATAT
1 ATTTTATAAACTATATGTACATAT
39099717 AT
1 AT
39099719 ATTTGTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 15 0.62
26 9 0.38
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (24 bp):
ATTTTATAAACTATATGTACATAT
Found at i:39099719 original size:26 final size:27
Alignment explanation
Indices: 39099661--39099722 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
39099651 ATGTATACTT
*
39099661 ATATACATTTTATAATACATATATGTAC
1 ATATATATTTTATAATA-ATATATGTAC
*
39099689 --ATATATTTTATAAT-TTATATGTAC
1 ATATATATTTTATAATAATATATGTAC
39099713 ATATATATTT
1 ATATATATTT
39099723 GTTATATTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
24 9 0.30
26 21 0.70
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.50
Consensus pattern (27 bp):
ATATATATTTTATAATAATATATGTAC
Found at i:39105421 original size:27 final size:27
Alignment explanation
Indices: 39105391--39105455 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
39105381 CCCGTCAAAC
* * *
39105391 TCTGAAAGAATAGTATATATGGTGAAA
1 TCTGAAGGAATAATATATATGGCGAAA
* * *
39105418 TCTGAAGGAACAATATATGTGGCGAAC
1 TCTGAAGGAATAATATATATGGCGAAA
39105445 TCTGAAGGAAT
1 TCTGAAGGAAT
39105456 GGTAAGTACA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.26
Consensus pattern (27 bp):
TCTGAAGGAATAATATATATGGCGAAA
Found at i:39112830 original size:37 final size:37
Alignment explanation
Indices: 39112772--39112866 Score: 118
Period size: 37 Copynumber: 2.6 Consensus size: 37
39112762 TACTCCCTAT
* * * *
39112772 TTTGGCTTGTTATCGGGTGGATTAGCTCTTATGAGCA
1 TTTGGCGTGTTATCCGTTGGATTAACTCTTATGAGCA
* * *
39112809 TTTGGCGTGTTTTCCGTTGGATTAACTGTTATGAGCG
1 TTTGGCGTGTTATCCGTTGGATTAACTCTTATGAGCA
*
39112846 TTTGGCGTGTTATCGGTTGGA
1 TTTGGCGTGTTATCCGTTGGA
39112867 CTACTGTGCT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.14, C:0.13, G:0.32, T:0.42
Consensus pattern (37 bp):
TTTGGCGTGTTATCCGTTGGATTAACTCTTATGAGCA
Found at i:39121614 original size:61 final size:61
Alignment explanation
Indices: 39121539--39121657 Score: 175
Period size: 61 Copynumber: 2.0 Consensus size: 61
39121529 AAATTTAATA
* * *
39121539 TTAAATTTAATTTAATAGTTATGTTGATTGTATTTTACTAATTTAATATTATTGTGAGATG
1 TTAAATTTAATTTAATAGTTATCTTGATAGTATTTTACTAATTTAATATTAATGTGAGATG
* * * *
39121600 TTAAATTTGATTTAATATTTATCTTTATAGTATTTTATTAATTTAATATTAATGTGAG
1 TTAAATTTAATTTAATAGTTATCTTGATAGTATTTTACTAATTTAATATTAATGTGAG
39121658 TAATTTCAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.54
Consensus pattern (61 bp):
TTAAATTTAATTTAATAGTTATCTTGATAGTATTTTACTAATTTAATATTAATGTGAGATG
Found at i:39122612 original size:7 final size:7
Alignment explanation
Indices: 39122597--39122626 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
39122587 AAATAGAATA
*
39122597 TGGATAG
1 TGGAAAG
39122604 TGGAAAG
1 TGGAAAG
39122611 TGGAAAG
1 TGGAAAG
39122618 TGGAAAG
1 TGGAAAG
39122625 TG
1 TG
39122627 ATGGTCATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.43, T:0.20
Consensus pattern (7 bp):
TGGAAAG
Found at i:39123866 original size:2 final size:2
Alignment explanation
Indices: 39123859--39123883 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
39123849 TTTCAGCCAA
39123859 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
39123884 AAACATCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:39124699 original size:13 final size:13
Alignment explanation
Indices: 39124681--39124705 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39124671 GAATTAATAT
39124681 GTGTGAAAATTTC
1 GTGTGAAAATTTC
39124694 GTGTGAAAATTT
1 GTGTGAAAATTT
39124706 TATTGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:39125875 original size:43 final size:42
Alignment explanation
Indices: 39125812--39125937 Score: 132
Period size: 43 Copynumber: 2.9 Consensus size: 42
39125802 AGGATTCCGT
39125812 TATGTGTTATCGTGTAAGACCACGTCTGGGACGTTGGCATCAAC
1 TATGTGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCATC-AC
**
39125856 T-TGTGTTTACGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGT
1 TATGTG-TTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCAC
* * *
39125898 TATGTGATTACATGTAAGACCAGGTCTGGGATGTTGGCAT
1 TATGTG-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
39125938 TGTACGATAT
Statistics
Matches: 70, Mismatches: 6, Indels: 13
0.79 0.07 0.15
Matches are distributed among these distances:
42 3 0.04
43 62 0.89
44 5 0.07
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.32
Consensus pattern (42 bp):
TATGTGTTACGTGTAAGACCACGTCTGGGACGTTGGCATCAC
Found at i:39126946 original size:23 final size:23
Alignment explanation
Indices: 39126920--39127110 Score: 247
Period size: 23 Copynumber: 8.2 Consensus size: 23
39126910 ATTGGGTATA
* *
39126920 TATATATGCTGTCAAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
*
39126943 TATAAATGCTGTCCAATTTAGTG
1 TATAAATGCTGTCCAATTTGGTG
*
39126966 TATATATGCTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* *
39126989 TACAAATGTTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
*
39127012 TATAAATGTTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* *
39127035 TATATATGCTGTCCAATTTGGTA
1 TATAAATGCTGTCCAATTTGGTG
*
39127058 TATATATATGCTGTCCAATTGGGTG
1 TATA-A-ATGCTGTCCAATTTGGTG
* * *
39127083 TATAAATGCTGTTCGATTTGATG
1 TATAAATGCTGTCCAATTTGGTG
39127106 TATAA
1 TATAA
39127111 GAACTGCCTA
Statistics
Matches: 147, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
23 126 0.86
24 1 0.01
25 20 0.14
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (23 bp):
TATAAATGCTGTCCAATTTGGTG
Found at i:39127045 original size:69 final size:71
Alignment explanation
Indices: 39126914--39127109 Score: 279
Period size: 69 Copynumber: 2.8 Consensus size: 71
39126904 TAATTGATTG
* * *
39126914 GGTATATATATATGCTGTCAAATTTGGTGTATAAATGCTGTCCAATTTAGTGTATATATGCTGTC
1 GGTATACATATATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTC
39126979 CAATTT
66 CAATTT
* * *
39126985 GGTGTACA-A-ATGTTGTCCAATTTGGTGTATAAATGTTGTCCAATTTGGTGTATATATGCTGTC
1 GGTATACATATATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTC
39127048 CAATTT
66 CAATTT
* * * * *
39127054 GGTATATATATATGCTGTCCAATTGGGTGTATAAATGCTGTTCGATTTGATGTATA
1 GGTATACATATATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATA
39127110 AGAACTGCCT
Statistics
Matches: 109, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
69 62 0.57
70 2 0.02
71 45 0.41
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.42
Consensus pattern (71 bp):
GGTATACATATATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTC
CAATTT
Found at i:39128898 original size:22 final size:22
Alignment explanation
Indices: 39128873--39128945 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
39128863 TTTTATTATT
*
39128873 TCTCATGTTTCACGTACTAAGC
1 TCTCATGTTTAACGTACTAAGC
39128895 TCTCATGTTTAACGTACTAAGC
1 TCTCATGTTTAACGTACTAAGC
* *
39128917 TCTCATGTTTAACGAACTAAAC
1 TCTCATGTTTAACGTACTAAGC
*
39128939 CCTCATG
1 TCTCATG
39128946 GCTTTAGTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.34
Consensus pattern (22 bp):
TCTCATGTTTAACGTACTAAGC
Found at i:39129351 original size:20 final size:20
Alignment explanation
Indices: 39129324--39129382 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 20
39129314 CTATCTTCCG
39129324 CTTT-TTTATTCTATATTTT
1 CTTTATTTATTCTATATTTT
*
39129343 CTTTATTTAGT-TATTATTTT
1 CTTTATTTATTCTA-TATTTT
*** *
39129363 GAATATTTATTCTTTATTTT
1 CTTTATTTATTCTATATTTT
39129383 TAATTTTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
19 6 0.19
20 24 0.77
21 1 0.03
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.69
Consensus pattern (20 bp):
CTTTATTTATTCTATATTTT
Found at i:39131934 original size:177 final size:177
Alignment explanation
Indices: 39131638--39131964 Score: 532
Period size: 177 Copynumber: 1.8 Consensus size: 177
39131628 CTCACTTAAG
*
39131638 AGGTGTCTATGAGGAGGTTTAGGTTCATGAGGTGCTCCCTTTCCTTTACCCTTGGATGGTTTGTC
1 AGGTGTCTATGAGGAGGTTTAGGTTCATGAGGTGCTCCCTTTCCCTTACCCTTGGATGGTTTGTC
* * *
39131703 ACCGGGGAATGGTTTCATGGATGGCTTACCGTCAGGGAATCCTTCAACATGTGGAGGTTTACCCC
66 ACCGGGGAATGGCTTCATGGATGGCTTACCGTCAGGGAACCCCTCAACATGTGGAGGTTTACCCC
*
39131768 CTGAGTGTCGTGGAGGTTTATATGTGTCCTCAACTTCCACATTCAAT
131 CCGAGTGTCGTGGAGGTTTATATGTGTCCTCAACTTCCACATTCAAT
* *
39131815 AGGTGTCTATGAGGAGGTTTGGGTTCATGAGGTGCTCCCTTTCCCTTACCCTTGGATGGTTTTTC
1 AGGTGTCTATGAGGAGGTTTAGGTTCATGAGGTGCTCCCTTTCCCTTACCCTTGGATGGTTTGTC
* *
39131880 ACCGGGGAATGGCTTCATGGGT-GCTTTATCGGT-AGGGAACCCCTCAACATGTGGAGGTTTACC
66 ACCGGGGAATGGCTTCATGGATGGC-TTA-CCGTCAGGGAACCCCTCAACATGTGGAGGTTTACC
*
39131943 CCCCGAGTGTCTTGGAGGTTTA
129 CCCCGAGTGTCGTGGAGGTTTA
39131965 CCACCTGAAT
Statistics
Matches: 138, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
176 2 0.01
177 133 0.96
178 3 0.02
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (177 bp):
AGGTGTCTATGAGGAGGTTTAGGTTCATGAGGTGCTCCCTTTCCCTTACCCTTGGATGGTTTGTC
ACCGGGGAATGGCTTCATGGATGGCTTACCGTCAGGGAACCCCTCAACATGTGGAGGTTTACCCC
CCGAGTGTCGTGGAGGTTTATATGTGTCCTCAACTTCCACATTCAAT
Found at i:39131958 original size:24 final size:24
Alignment explanation
Indices: 39131930--39131988 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
39131920 CCCTCAACAT
* *
39131930 GTGGAGGTTTACCCCCCGAGTGTC
1 GTGGAGGTTTACCACCCGAATGTC
* *
39131954 TTGGAGGTTTACCACCTGAATGTC
1 GTGGAGGTTTACCACCCGAATGTC
39131978 GTGGAGGTTTA
1 GTGGAGGTTTA
39131989 TGTGTGCCCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.17, C:0.20, G:0.32, T:0.31
Consensus pattern (24 bp):
GTGGAGGTTTACCACCCGAATGTC
Found at i:39134028 original size:22 final size:20
Alignment explanation
Indices: 39133997--39134047 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
39133987 TTAATCATAT
*
39133997 AATAAATTATTAATATAATTA
1 AATAATTTATTAATATAA-TA
* *
39134018 ATATAATTTATTATTTTAATA
1 A-ATAATTTATTAATATAATA
39134039 AATAATTTA
1 AATAATTTA
39134048 ATATTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 8 0.31
21 4 0.15
22 14 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATAATTTATTAATATAATA
Found at i:39134039 original size:25 final size:26
Alignment explanation
Indices: 39134006--39134061 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
39133996 TAATAAATTA
39134006 TTAATATAATTAATATAAT-TTATTATT
1 TTAATA-AA-TAATATAATATTATTATT
* *
39134033 TTAATAAATAATTTAATATTTTTATT
1 TTAATAAATAATATAATATTATTATT
39134059 TTA
1 TTA
39134062 TTTTAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 8 0.31
26 12 0.46
27 6 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TTAATAAATAATATAATATTATTATT
Found at i:39134101 original size:16 final size:17
Alignment explanation
Indices: 39134065--39134101 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
39134055 TATTTTATTT
*
39134065 TAATAATAAATTTTGAA
1 TAATAATAAATTTTAAA
39134082 -AATAATAAA-TTTAAA
1 TAATAATAAATTTTAAA
39134097 TAATA
1 TAATA
39134102 TTCTTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTTAAA
Found at i:39140964 original size:43 final size:43
Alignment explanation
Indices: 39140898--39141208 Score: 347
Period size: 43 Copynumber: 7.3 Consensus size: 43
39140888 AACATGAAAT
* *
39140898 AAACGCCGCCATAGATCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* ** * * * *
39140941 AAACGTCAATATAGATCAAGACCTTTAGTGCCGCTTTTTCCAA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * *
39140984 AAACGCCGCTATAGATCAGGACCTTTAGCAGTGCTTTT-CCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
39141026 AAACGCCGCTATAGTTCAAGATCTTTAACGGCGCTTTTTCTAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * *
39141069 AAACGCCGCTATAGATCAAGACCTTTAACGGCGTTTTTCCAAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * ***
39141112 AAACGCCACTATAGATCAAGACCTTTAGCGCCGCTTTTTGATAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGC-TTTTCCCAC
* * *
39141156 AAACGCCGCTATAGAAC-AGACCTTTAGCGGCGCTTTTCACAA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
39141198 AAACGCCGCTA
1 AAACGCCGCTA
39141209 AAAACATATC
Statistics
Matches: 223, Mismatches: 43, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
42 52 0.23
43 150 0.67
44 21 0.09
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:39141126 original size:128 final size:129
Alignment explanation
Indices: 39140898--39141208 Score: 364
Period size: 128 Copynumber: 2.4 Consensus size: 129
39140888 AACATGAAAT
* * * * **
39140898 AAACGCCGCCATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGTCAATATAGATCAAGAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-TCACAAACGCCGCTATAGATCAAGAC
** * * * *
39140963 CTTTAGTGCCGCTTTTTCCAAAAACGCCGCTATAGATCAGGACCTTTAGCAG-TGC-TTTT-CCA
65 CTTTAACGCCGCTTTTTCCAAAAACGCCACTATAGATCAAGACCTTTAGC-GCCGCTTTTTGACA
39141025 C
129 C
* * *
39141026 AAACGCCGCTATAGTTCAAGATCTTTAACGGCGCTTTTTCTACAAACGCCGCTATAGATCAAGAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTC-ACAAACGCCGCTATAGATCAAGAC
* *
39141091 CTTTAACGGCG-TTTTTCCAACAAACGCCACTATAGATCAAGACCTTTAGCGCCGCTTTTTGATA
65 CTTTAACGCCGCTTTTTCCAA-AAACGCCACTATAGATCAAGACCTTTAGCGCCGCTTTTTGACA
39141155 C
129 C
*
39141156 AAACGCCGCTATAGAAC-AGACCTTTAGCGGCGC-TTTTCACAAAAACGCCGCTA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCAC--AAACGCCGCTA
39141209 AAAACATATC
Statistics
Matches: 155, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
127 13 0.08
128 96 0.62
129 29 0.19
130 17 0.11
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (129 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCACAAACGCCGCTATAGATCAAGACC
TTTAACGCCGCTTTTTCCAAAAACGCCACTATAGATCAAGACCTTTAGCGCCGCTTTTTGACAC
Found at i:39141150 original size:86 final size:86
Alignment explanation
Indices: 39140898--39141204 Score: 395
Period size: 86 Copynumber: 3.6 Consensus size: 86
39140888 AACATGAAAT
* * * * *
39140898 AAACGCCGCCATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGTCAATATAGATCAAGAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCAACAAACGCCACTATAGATCAAGAC
* * *
39140963 CTTTAGTGCCGCTTTTTCCAA
66 CTTTAGCGCCGCTTTTTCTAC
* * * * * *
39140984 AAACGCCGCTATAGATCAGGACCTTTAGCAGTGCTTTTCC-ACAAACGCCGCTATAGTTCAAGAT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCAACAAACGCCACTATAGATCAAGAC
* *
39141048 CTTTAACGGCGCTTTTTCTAC
66 CTTTAGCGCCGCTTTTTCTAC
* *
39141069 AAACGCCGCTATAGATCAAGACCTTTAACGGCGTTTTTCCAACAAACGCCACTATAGATCAAGAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCAACAAACGCCACTATAGATCAAGAC
*
39141134 CTTTAGCGCCGCTTTTTGATAC
66 CTTTAGCGCCGCTTTTT-CTAC
*
39141156 AAACGCCGCTATAGAAC-AGACCTTTAGCGGCGCTTTTCACAA-AAACGCC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTC-CAACAAACGCC
39141205 GCTAAAAACA
Statistics
Matches: 190, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
85 70 0.37
86 98 0.52
87 22 0.12
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (86 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCAACAAACGCCACTATAGATCAAGAC
CTTTAGCGCCGCTTTTTCTAC
Found at i:39141537 original size:43 final size:43
Alignment explanation
Indices: 39141471--39141561 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
39141461 ACATATGCAA
* * *
39141471 GGTAATAAAACATACAATGCATTT-TCTTAATCAAGTAAATCTT
1 GGTAATAAAACAAACAATACATTTAT-TTAATCAAGGAAATCTT
* *
39141514 GGTAATAAAAGAAATAATACATTTATTTAATCAAGGAAATCTT
1 GGTAATAAAACAAACAATACATTTATTTAATCAAGGAAATCTT
39141557 -GTAAT
1 GGTAAT
39141562 GAACTCAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 5 0.12
43 36 0.86
44 1 0.02
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (43 bp):
GGTAATAAAACAAACAATACATTTATTTAATCAAGGAAATCTT
Found at i:39144872 original size:21 final size:22
Alignment explanation
Indices: 39144821--39144872 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
39144811 CCCTGAATCT
*
39144821 CTAAACCCTAAATTCCTAATTC
1 CTAAACCCTAAATTCCTAACTC
* *
39144843 TTAATCCCTAACA-T-CTAACTC
1 CTAAACCCTAA-ATTCCTAACTC
39144864 CTAAACCCT
1 CTAAACCCT
39144873 TAGCCCCAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
21 13 0.54
22 10 0.42
23 1 0.04
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (22 bp):
CTAAACCCTAAATTCCTAACTC
Found at i:39145211 original size:16 final size:16
Alignment explanation
Indices: 39145160--39145213 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
39145150 TTTGGTTCGC
*
39145160 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAGG
*
39145176 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
39145192 TGTAATGGAATAGAGA
1 TGTAATGGAATAGAGG
39145208 TGTAAT
1 TGTAAT
39145214 AGCAAATCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.37, C:0.02, G:0.33, T:0.28
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:39145464 original size:16 final size:16
Alignment explanation
Indices: 39145427--39145468 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
39145417 TTAATCATAT
*
39145427 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
39145443 TT-AAATATATTATAA
1 TTAAAATATATTATAA
39145458 TTAAAATATAT
1 TTAAAATATAT
39145469 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:39145475 original size:14 final size:15
Alignment explanation
Indices: 39145436--39145477 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
39145426 TTTAAACATA
*
39145436 ATTATTATTAAATAT
1 ATTATAATTAAATAT
39145451 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
39145465 A-TATAATTTAATA
1 ATTATAATTAAATA
39145478 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:39145874 original size:16 final size:17
Alignment explanation
Indices: 39145848--39145885 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
39145838 AGTAAATGAT
39145848 ATATAAGATAAATTAAC
1 ATATAAGATAAATTAAC
*
39145865 ATATAA-ATAATTTAAC
1 ATATAAGATAAATTAAC
*
39145881 TTATA
1 ATATA
39145886 TAATTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (17 bp):
ATATAAGATAAATTAAC
Found at i:39148989 original size:14 final size:14
Alignment explanation
Indices: 39148970--39148997 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
39148960 AGCAGAAATC
39148970 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
39148984 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
39148998 GAAATGTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (14 bp):
TGGAGAAAAGAAAA
Found at i:39148995 original size:19 final size:18
Alignment explanation
Indices: 39148973--39149017 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
39148963 AGAAATCTGG
39148973 AGAAAAGAAAATG-GAGAAA
1 AGAAAAGAAAATGTGAG--A
39148992 AGAAAAG-AAATGTGAGA
1 AGAAAAGAAAATGTGAGA
39149009 AGAAAAGAA
1 AGAAAAGAA
39149018 GTGTACCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (18 bp):
AGAAAAGAAAATGTGAGA
Found at i:39150392 original size:114 final size:114
Alignment explanation
Indices: 39150171--39150488 Score: 548
Period size: 113 Copynumber: 2.8 Consensus size: 114
39150161 CTCTTTTTCA
*
39150171 AAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACAATGTCGTTGGGCTTAGGTTTTTTGCGGCG
1 AAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAGGTTTTTTGCGGCG
* *
39150236 CTTTTTCAAAAAA-GCCACTAAAGCTCTGAGCATTAGCGGCGCTATTTT
66 CTTTTCCAAAAAACGCCGCTAAAGCTCTGAGCATTAGCGGCGCTATTTT
*
39150284 AAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACGATGTCGTTAGGCTTAGGTTTTTTGCGGCG
1 AAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAGGTTTTTTGCGGCG
*
39150349 CTTTTCCAAAAAACGCCGCTAAAGCTCTGAGCATTAGCGGCGCTTTTTT
66 CTTTTCCAAAAAACGCCGCTAAAGCTCTGAGCATTAGCGGCGCTATTTT
* *
39150398 AAAAACGCTGCTAAAGCCCTGAAAGGTCAAAAAAATGATGTCGTTGGGCTTAGGTTTTTTGCGGC
1 AAAAACGCCGCTAAAGCCCTGAAAGGTC-AAAAAACGATGTCGTTGGGCTTAGGTTTTTTGCGGC
*
39150463 GCTTTTCTAAAAAACGCCGCTAAAGC
65 GCTTTTCCAAAAAACGCCGCTAAAGC
39150489 CTTAAAAGGT
Statistics
Matches: 194, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
113 75 0.39
114 60 0.31
115 59 0.30
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (114 bp):
AAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAGGTTTTTTGCGGCG
CTTTTCCAAAAAACGCCGCTAAAGCTCTGAGCATTAGCGGCGCTATTTT
Found at i:39150522 original size:187 final size:186
Alignment explanation
Indices: 39150271--39150674 Score: 614
Period size: 187 Copynumber: 2.2 Consensus size: 186
39150261 CTGAGCATTA
*
39150271 GCGGCGCTATTT-TAAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACGATGTCGTTAGGCTTA
1 GCGGCGCT-TTTCTAAAAACGCCGCTAAAGCCCTAAAAGGTCAAAAAACGATGTCGTTAGGCTTA
** * * *
39150335 GGTTTTTTGCGGCGCTTTTCCAAAAAACGCCGCTAAAGCTCTGAGCATTAGCGGCGCTTTTTTAA
65 GGTTTTTTGCAACGCTTTTCCAAAAAACACCGCTAAAGCTCTGAACATTAGCGGCGCTTTTTCAA
* * * *
39150400 AAACGCTGCTAAAGCCCTGAAAGGTCAAAAAAATGATGTCGTTGGGCTTAGGTTTTTT
130 AAACGCCGCTAAAGCACTGAAAGGTC-AAAAAACGATGACGTTGGGCTTAGGTTTTTT
* *
39150458 GCGGCGCTTTTCTAAAAAACGCCGCTAAAGCCTTAAAAGGTC-AAAAACGATGTCGTTGGGCTTA
1 GCGGCGCTTTTCT-AAAAACGCCGCTAAAGCCCTAAAAGGTCAAAAAACGATGTCGTTAGGCTTA
*
39150522 GGTTTTTTGCAACGCTTTTCCAAAAAGCACCGCTAAAGCTCTGAACATTAGCGGCGCTTTTTCAA
65 GGTTTTTTGCAACGCTTTTCCAAAAAACACCGCTAAAGCTCTGAACATTAGCGGCGCTTTTTCAA
*
39150587 AAATGCCGCTAAAGCACTGAAAGGTCAAAAAACGATGACGTTGGGCTTAGGTTTTTT
130 AAACGCCGCTAAAGCACTGAAAGGTCAAAAAACGATGACGTTGGGCTTAGGTTTTTT
* *
39150644 GCGGCGCTTTTCCGAAAAACGCCACTAAAGC
1 GCGGCGCTTTT-CTAAAAACGCCGCTAAAGC
39150675 TCTGAGCATT
Statistics
Matches: 198, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
186 59 0.30
187 113 0.57
188 26 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (186 bp):
GCGGCGCTTTTCTAAAAACGCCGCTAAAGCCCTAAAAGGTCAAAAAACGATGTCGTTAGGCTTAG
GTTTTTTGCAACGCTTTTCCAAAAAACACCGCTAAAGCTCTGAACATTAGCGGCGCTTTTTCAAA
AACGCCGCTAAAGCACTGAAAGGTCAAAAAACGATGACGTTGGGCTTAGGTTTTTT
Found at i:39150529 original size:72 final size:73
Alignment explanation
Indices: 39150385--39150560 Score: 239
Period size: 72 Copynumber: 2.4 Consensus size: 73
39150375 CTGAGCATTA
* * * *
39150385 GCGGCGCTTTT-TTAAAAACGCTGCTAAAGCCCTGAAAGGTCAAAAAAATGATGTCGTTGGGCTT
1 GCGGCGCTTTTCTAAAAAACGCCGCTAAAGCCCTAAAAGGTC-AAAAAACGATGTCGTTGGGCTT
39150449 AGGTTTTTT
65 AGGTTTTTT
*
39150458 GCGGCGCTTTTCTAAAAAACGCCGCTAAAGCCTTAAAAGGTC-AAAAACGATGTCGTTGGGCTTA
1 GCGGCGCTTTTCTAAAAAACGCCGCTAAAGCCCTAAAAGGTCAAAAAACGATGTCGTTGGGCTTA
39150522 GGTTTTTT
66 GGTTTTTT
** * * *
39150530 GCAACGCTTTTCCAAAAAGCACCGCTAAAGC
1 GCGGCGCTTTTCTAAAAAACGCCGCTAAAGC
39150561 TCTGAACATT
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
72 55 0.60
73 11 0.12
74 26 0.28
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (73 bp):
GCGGCGCTTTTCTAAAAAACGCCGCTAAAGCCCTAAAAGGTCAAAAAACGATGTCGTTGGGCTTA
GGTTTTTT
Found at i:39150788 original size:114 final size:114
Alignment explanation
Indices: 39150472--39150788 Score: 438
Period size: 114 Copynumber: 2.8 Consensus size: 114
39150462 CGCTTTTCTA
* * **
39150472 AAAAACGCCGCTAAAGCCTTAAAAGGTC-AAAAACGATGTCGTTGGGCTTAGGTTTTTTGCAACG
1 AAAAACGCCGCTAAAGCATTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAGGTTTTTTGCGGCG
* * **
39150536 CTTTTCCAAAAAGCACCGCTAAAGCTCTGAACATTAGCGGCGCTTTTTC
66 CTTTTCCAAAAAACGCCGCTAAAGCTCTGAACATTAGCGGAACTTTTTC
* * *
39150585 AAAAATGCCGCTAAAGCACTGAAAGGTCAAAAAACGATGACGTTGGGCTTAGGTTTTTTGCGGCG
1 AAAAACGCCGCTAAAGCATTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAGGTTTTTTGCGGCG
* * *
39150650 CTTTTCCGAAAAACGCCACTAAAGCTCTGAGCATTAGCGGAACTTTTTC
66 CTTTTCCAAAAAACGCCGCTAAAGCTCTGAACATTAGCGGAACTTTTTC
* * * *
39150699 AAAAACGCTGCTAAAGCATTGAAAGGTCAAAAAACGATGTTGTTGAGCTTAGGTTTTTTGTGGCG
1 AAAAACGCCGCTAAAGCATTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAGGTTTTTTGCGGCG
** *
39150764 CTTTTTTAAAAAACGCCGCAAAAGC
66 CTTTTCCAAAAAACGCCGCTAAAGC
39150789 CTTGAAAGGT
Statistics
Matches: 177, Mismatches: 26, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
113 24 0.14
114 153 0.86
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (114 bp):
AAAAACGCCGCTAAAGCATTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAGGTTTTTTGCGGCG
CTTTTCCAAAAAACGCCGCTAAAGCTCTGAACATTAGCGGAACTTTTTC
Found at i:39150812 original size:300 final size:300
Alignment explanation
Indices: 39150152--39150859 Score: 1100
Period size: 301 Copynumber: 2.4 Consensus size: 300
39150142 GAAAAAAATG
* * * *
39150152 TTTTTGTGGCTCTTTTTCAAAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACAATGTCGTTGG
1 TTTTTGTGGCGCTTTTTTAAAAAACGCCGCTAAAGCCTTGAAAGGTC-AAAAACGATGTCGTTGG
* *
39150217 GCTTAGGTTTTTTGCGGCGCTTTTTCAAAAA-AGCCACTAAAGCTCTGAGCATTAGCGGCGCTAT
65 GCTTAGGTTTTTTGCGGCGCTTTTTCAAAAAGA-CCGCTAAAGCTCTGAACATTAGCGGCGCTAT
* *
39150281 TTTAAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACGATGTCGTTAGGCTTAGGTTTTTTGCG
129 TTTAAAAACGCCGCTAAAGCACTGAAAGGTCAAAAAACGATGACGTTAGGCTTAGGTTTTTTGCG
* ** *
39150346 GCGCTTTTCCAAAAAACGCCGCTAAAGCTCTGAGCATTAGCGGCGCTTTTTTAAAAACGCTGCTA
194 GCGCTTTTCCAAAAAACGCCACTAAAGCTCTGAGCATTAGCGGAACTTTTTCAAAAACGCTGCTA
* * *
39150411 AAGCCCTGAAAGGTCAAAAAAATGATGTCGTTGGGCTTAGGT
259 AAGCACTGAAAGGTCAAAAAAACGATGTCGTTGAGCTTAGGT
* * *
39150453 TTTTTGCGGCGCTTTTCTAAAAAACGCCGCTAAAGCCTTAAAAGGTCAAAAACGATGTCGTTGGG
1 TTTTTGTGGCGCTTTTTTAAAAAACGCCGCTAAAGCCTTGAAAGGTCAAAAACGATGTCGTTGGG
** *
39150518 CTTAGGTTTTTTGCAACGCTTTTCCAAAAAGCACCGCTAAAGCTCTGAACATTAGCGGCGCT-TT
66 CTTAGGTTTTTTGCGGCGCTTTTTCAAAAAG-ACCGCTAAAGCTCTGAACATTAGCGGCGCTATT
* *
39150582 TTCAAAAATGCCGCTAAAGCACTGAAAGGTCAAAAAACGATGACGTTGGGCTTAGGTTTTTTGCG
130 TT-AAAAACGCCGCTAAAGCACTGAAAGGTCAAAAAACGATGACGTTAGGCTTAGGTTTTTTGCG
*
39150647 GCGCTTTTCCGAAAAACGCCACTAAAGCTCTGAGCATTAGCGGAACTTTTTCAAAAACGCTGCTA
194 GCGCTTTTCCAAAAAACGCCACTAAAGCTCTGAGCATTAGCGGAACTTTTTCAAAAACGCTGCTA
* *
39150712 AAGCATTGAAAGGTC-AAAAAACGATGTTGTTGAGCTTAGGT
259 AAGCACTGAAAGGTCAAAAAAACGATGTCGTTGAGCTTAGGT
*
39150753 TTTTTGTGGCGCTTTTTTAAAAAACGCCGCAAAAGCCTTGAAAGGTCAAAAACGATGTCGTTGGG
1 TTTTTGTGGCGCTTTTTTAAAAAACGCCGCTAAAGCCTTGAAAGGTCAAAAACGATGTCGTTGGG
39150818 CTTAGGTTTTTTGCGGCGCTTTTTCAAAAATG-CCGCTAAAGC
66 CTTAGGTTTTTTGCGGCGCTTTTTCAAAAA-GACCGCTAAAGC
39150860 CTTGAAAGGT
Statistics
Matches: 370, Mismatches: 33, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
299 10 0.03
300 159 0.43
301 200 0.54
302 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (300 bp):
TTTTTGTGGCGCTTTTTTAAAAAACGCCGCTAAAGCCTTGAAAGGTCAAAAACGATGTCGTTGGG
CTTAGGTTTTTTGCGGCGCTTTTTCAAAAAGACCGCTAAAGCTCTGAACATTAGCGGCGCTATTT
TAAAAACGCCGCTAAAGCACTGAAAGGTCAAAAAACGATGACGTTAGGCTTAGGTTTTTTGCGGC
GCTTTTCCAAAAAACGCCACTAAAGCTCTGAGCATTAGCGGAACTTTTTCAAAAACGCTGCTAAA
GCACTGAAAGGTCAAAAAAACGATGTCGTTGAGCTTAGGT
Found at i:39150869 original size:71 final size:72
Alignment explanation
Indices: 39150692--39150914 Score: 349
Period size: 72 Copynumber: 3.1 Consensus size: 72
39150682 ATTAGCGGAA
* * * *
39150692 CTTTTTCAAAAACGCTGCTAAAGCATTGAAAGGTCAAAAAACGATGTTGTTGAGCTTAGGTTTTT
1 CTTTTTCAAAAACGCCGCTAAAGCCTTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAGGTTTTT
*
39150757 TGTGGCG
66 TGCGGCG
* *
39150764 CTTTTTTAAAAAACGCCGCAAAAGCCTTGAAAGGTC-AAAAACGATGTCGTTGGGCTTAGGTTTT
1 C-TTTTTCAAAAACGCCGCTAAAGCCTTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAGGTTTT
39150828 TTGCGGCG
65 TTGCGGCG
* *
39150836 CTTTTTCAAAAATGCCGCTAAAGCCTTGAAAGGTCAAAAAACGATGTCTTTGGGCTTAGGTTTTT
1 CTTTTTCAAAAACGCCGCTAAAGCCTTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAGGTTTTT
39150901 TGCGGCG
66 TGCGGCG
39150908 CTTTTTC
1 CTTTTTC
39150915 TTTAGTGACG
Statistics
Matches: 138, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
71 31 0.22
72 77 0.56
73 30 0.22
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (72 bp):
CTTTTTCAAAAACGCCGCTAAAGCCTTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAGGTTTTT
TGCGGCG
Found at i:39150968 original size:40 final size:40
Alignment explanation
Indices: 39150913--39151008 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
39150903 CGGCGCTTTT
* * * *
39150913 TCTTTAGTGACGTTTTCCAAAAAGCGTCGCTAATGCTCGA
1 TCTTTAGCGGCGTTTTCCAAAAAGCGCCACTAATGCTCGA
*** *
39150953 TCTTTAGCGGCGTTTTTTGAAAAGCGCCACTAATGCTTGA
1 TCTTTAGCGGCGTTTTCCAAAAAGCGCCACTAATGCTCGA
39150993 T-TTTCAGCGGCGTTTT
1 TCTTT-AGCGGCGTTTT
39151009 TATCCAAACG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.06
40 44 0.94
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (40 bp):
TCTTTAGCGGCGTTTTCCAAAAAGCGCCACTAATGCTCGA
Found at i:39151009 original size:40 final size:40
Alignment explanation
Indices: 39150932--39151009 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
39150922 ACGTTTTCCA
* *
39150932 AAAAGCGTCGCTAATGCTCGATCTTTAGCGGCGTTTTTTG
1 AAAAGCGCCACTAATGCTCGATCTTTAGCGGCGTTTTTTG
*
39150972 AAAAGCGCCACTAATGCTTGAT-TTTCAGCGGCGTTTTT
1 AAAAGCGCCACTAATGCTCGATCTTT-AGCGGCGTTTTT
39151010 ATCCAAACGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.09
40 31 0.91
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.35
Consensus pattern (40 bp):
AAAAGCGCCACTAATGCTCGATCTTTAGCGGCGTTTTTTG
Found at i:39151021 original size:40 final size:40
Alignment explanation
Indices: 39150932--39151025 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
39150922 ACGTTTTCCA
* * *
39150932 AAAAGCGTCGCTAATGCTCGATCTTTAGCGGCGTTTTTTG
1 AAAAGCGCCACTAATGCTCGATCTTTAGCGGCGTTTTTTC
*
39150972 AAAAGCGCCACTAATGCTTGAT-TTTCAGCGGCGTTTTTATC
1 AAAAGCGCCACTAATGCTCGATCTTT-AGCGGCGTTTTT-TC
*
39151013 CAAA-CGCCACTAA
1 AAAAGCGCCACTAA
39151026 AAATGCCGCT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.06
40 40 0.85
41 4 0.09
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (40 bp):
AAAAGCGCCACTAATGCTCGATCTTTAGCGGCGTTTTTTC
Found at i:39151881 original size:9 final size:9
Alignment explanation
Indices: 39151867--39151914 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
39151857 GTAGATGAGT
39151867 TAAAAAATA
1 TAAAAAATA
39151876 TAAAAAATA
1 TAAAAAATA
* *
39151885 TAGAAATTA
1 TAAAAAATA
39151894 TAAAAAAATA
1 T-AAAAAATA
*
39151904 TTAATAAATA
1 -TAAAAAATA
39151914 T
1 T
39151915 TTAAAAATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 18 0.56
10 13 0.41
11 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (9 bp):
TAAAAAATA
Found at i:39152283 original size:21 final size:22
Alignment explanation
Indices: 39152240--39152284 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
39152230 ACACCAAAAC
*
39152240 AGGCTTTTAGCGGCGCATTTTT
1 AGGCCTTTAGCGGCGCATTTTT
39152262 AGGCCTTTAGCGGCGC-TTTTT
1 AGGCCTTTAGCGGCGCATTTTT
39152283 AG
1 AG
39152285 CACCGCTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.13, C:0.20, G:0.29, T:0.38
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCATTTTT
Found at i:39152437 original size:43 final size:43
Alignment explanation
Indices: 39152376--39152574 Score: 272
Period size: 43 Copynumber: 4.6 Consensus size: 43
39152366 TTACGGAGAA
* *
39152376 AAACGCCGCTAAAGACCAAGACCCTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * *
39152419 AAACGTCGCGAAGGACCAAGACCTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * *
39152462 AAACGCCGCTAAAGACTATGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
39152505 AAACGCCGCTAAAGATCAAGACCTTTAGCGGCGCTTTTCCAAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * *
39152548 AAATGCCGCTAAAAACCATGACCTTTA
1 AAACGCCGCTAAAGACCAAGACCTTTA
39152575 ATGGCGTTTT
Statistics
Matches: 134, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 134 1.00
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:39158442 original size:9 final size:9
Alignment explanation
Indices: 39158428--39159107 Score: 192
Period size: 9 Copynumber: 78.2 Consensus size: 9
39158418 AAATTAAATG
39158428 AGTTATGTA
1 AGTTATGTA
39158437 AGTTATGATA
1 AGTTATG-TA
* * *
39158447 TGATATAT-
1 AGTTATGTA
*
39158455 ATTTATGT-
1 AGTTATGTA
*
39158463 A-TTAAGTA
1 AGTTATGTA
*
39158471 AATTATGTA
1 AGTTATGTA
39158480 AGTTATGT-
1 AGTTATGTA
*
39158488 A-TTATATA
1 AGTTATGTA
*
39158496 AGTTATTTA
1 AGTTATGTA
39158505 AGTTATGT-
1 AGTTATGTA
39158513 A-TTATGTA
1 AGTTATGTA
**
39158521 ACCTATGTA
1 AGTTATGTA
39158530 AGTTATGTA
1 AGTTATGTA
39158539 AGTGT-TGT-
1 AGT-TATGTA
*
39158547 A-TTATATA
1 AGTTATGTA
**
39158555 AGACAAAT-TA
1 AG--TTATGTA
39158565 AGTTATGTA
1 AGTTATGTA
* *
39158574 GGCTATGT-
1 AGTTATGTA
*
39158582 A-TTATGCA
1 AGTTATGTA
*
39158590 AGTTATTTA
1 AGTTATGTA
*
39158599 AGTTGTGTA
1 AGTTATGTA
39158608 AGTGT-TGT-
1 AGT-TATGTA
39158616 A-TTATGTA
1 AGTTATGTA
**
39158624 AGGCAAAT-TA
1 A-G-TTATGTA
39158634 AGTTATGT-
1 AGTTATGTA
39158642 AGTCTATGT-
1 AGT-TATGTA
*
39158651 A-TTATGGA
1 AGTTATGTA
*
39158659 AGTTATTTA
1 AGTTATGTA
*
39158668 AGTTGTGTA
1 AGTTATGTA
39158677 AGTGT-TGTA
1 AGT-TATGTA
*
39158686 TTA-TGTAAGTA
1 --AGT-TATGTA
39158697 AGTTATGT-
1 AGTTATGTA
39158705 A-TTATGTA
1 AGTTATGTA
39158713 AGTTTTATGTA
1 AG--TTATGTA
**
39158724 AAATATGTA
1 AGTTATGTA
39158733 AG-T-TGTA
1 AGTTATGTA
** *
39158740 TTTTATGAA
1 AGTTATGTA
*
39158749 AGTTATATA
1 AGTTATGTA
39158758 AGTTATGTA
1 AGTTATGTA
* *
39158767 GGCTATGT-
1 AGTTATGTA
* *
39158775 -TTTATGCA
1 AGTTATGTA
*
39158783 AGTTATTTA
1 AGTTATGTA
* *
39158792 ATTTCTGTA
1 AGTTATGTA
39158801 AGTGT-TGT-
1 AGT-TATGTA
*
39158809 A-TTATATA
1 AGTTATGTA
39158817 AGTTATGT-
1 AGTTATGTA
39158825 A-TTATGTA
1 AGTTATGTA
*
39158833 AGATATGTA
1 AGTTATGTA
39158842 AG-T-TGTA
1 AGTTATGTA
**
39158849 TTTTATGTA
1 AGTTATGTA
39158858 AGTTATGT-
1 AGTTATGTA
39158866 A-TTATGTA
1 AGTTATGTA
*
39158874 TGTTATGTA
1 AGTTATGTA
*
39158883 AGTAATG--
1 AGTTATGTA
39158890 AGTTATGTA
1 AGTTATGTA
*
39158899 AGCTATGTA
1 AGTTATGTA
39158908 AGTTATGTA
1 AGTTATGTA
*
39158917 AGTTATTTA
1 AGTTATGTA
39158926 AGTGGTGTAT-TA
1 A---GT-TATGTA
*
39158938 AGTTATGGA
1 AGTTATGTA
39158947 AGTTATTATGTA
1 AG---TTATGTA
*
39158959 AGTTATGCA
1 AGTTATGTA
*
39158968 AGCTTATATATA
1 AG--T-TATGTA
39158980 AGTTATGT-
1 AGTTATGTA
*
39158988 A-TTATGTT
1 AGTTATGTA
39158996 A-TTATGT-
1 AGTTATGTA
39159003 A-TTATGTA
1 AGTTATGTA
*
39159011 ATTTAT-TA
1 AGTTATGTA
*
39159019 TGTTAT-T-
1 AGTTATGTA
*
39159026 A--TATATA
1 AGTTATGTA
*
39159033 AGTTATGGA
1 AGTTATGTA
39159042 AGTTATTATGTA
1 AG---TTATGTA
*
39159054 AGTTATGCA
1 AGTTATGTA
*
39159063 AGCTTATATATA
1 AG--T-TATGTA
39159075 AGTTATGT-
1 AGTTATGTA
*
39159083 A-TTATGTT
1 AGTTATGTA
39159091 A-TTATGT-
1 AGTTATGTA
39159098 A-TTATGTA
1 AGTTATGTA
39159106 AG
1 AG
39159108 CAAATGATTG
Statistics
Matches: 499, Mismatches: 94, Indels: 156
0.67 0.13 0.21
Matches are distributed among these distances:
5 3 0.01
6 4 0.01
7 97 0.19
8 63 0.13
9 255 0.51
10 23 0.05
11 18 0.04
12 33 0.07
13 3 0.01
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (9 bp):
AGTTATGTA
Found at i:39158488 original size:25 final size:25
Alignment explanation
Indices: 39158457--39158538 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
39158447 TGATATATAT
39158457 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* *
39158482 TTATGTATTATA-TAAGTTATTTAAG
1 TTATGTATTA-AGTAAATTATGTAAG
* **
39158507 TTATGTATTATGTAACCTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
39158532 TTATGTA
1 TTATGTA
39158539 AGTGTTGTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
25 48 0.98
26 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTATGTAAG
Found at i:39158583 original size:35 final size:34
Alignment explanation
Indices: 39158494--39158694 Score: 169
Period size: 34 Copynumber: 5.9 Consensus size: 34
39158484 ATGTATTATA
* **
39158494 TAAGTTATTTAAGT-TATGTATTATGTAA-CCTAT
1 TAAGTTATGTAAGTGT-TGTATTATGTAAGCAAAT
*
39158527 GTAAGTTATGTAAGTGTTGTATTATATAAGACAAAT
1 -TAAGTTATGTAAGTGTTGTATTATGTAAG-CAAAT
* ** *
39158563 TAAGTTATGT-AG-GCTATGTATTATGCAAGTTATT
1 TAAGTTATGTAAGTG-T-TGTATTATGTAAGCAAAT
*
39158597 TAAGTTGTGTAAGTGTTGTATTATGTAAGGCAAAT
1 TAAGTTATGTAAGTGTTGTATTATGTAA-GCAAAT
* * ** *
39158632 TAAGTTATGT-AGTCTATGTATTATGGAAGTTATT
1 TAAGTTATGTAAGTGT-TGTATTATGTAAGCAAAT
*
39158666 TAAGTTGTGTAAGTGTTGTATTATGTAAG
1 TAAGTTATGTAAGTGTTGTATTATGTAAG
39158695 TAAGTTATGT
Statistics
Matches: 134, Mismatches: 23, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
33 1 0.01
34 77 0.57
35 52 0.39
36 4 0.03
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.44
Consensus pattern (34 bp):
TAAGTTATGTAAGTGTTGTATTATGTAAGCAAAT
Found at i:39158585 original size:69 final size:69
Alignment explanation
Indices: 39158494--39158694 Score: 294
Period size: 69 Copynumber: 2.9 Consensus size: 69
39158484 ATGTATTATA
* * * * ** * * *
39158494 TAAGTTATTTAAGTTATGTATTATGTAACCTATGTAAGTTATGTAAGTGTTGTATTATATAAGAC
1 TAAGTTATGTAGGCTATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGTTGTATTATGTAAGAC
39158559 AAAT
66 AAAT
*
39158563 TAAGTTATGTAGGCTATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGTTGTATTATGTAAGGC
1 TAAGTTATGTAGGCTATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGTTGTATTATGTAAGAC
39158628 AAAT
66 AAAT
* *
39158632 TAAGTTATGTAGTCTATGTATTATGGAAGTTATTTAAGTTGTGTAAGTGTTGTATTATGTAAG
1 TAAGTTATGTAGGCTATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGTTGTATTATGTAAG
39158695 TAAGTTATGT
Statistics
Matches: 120, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 120 1.00
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.44
Consensus pattern (69 bp):
TAAGTTATGTAGGCTATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGTTGTATTATGTAAGAC
AAAT
Found at i:39158765 original size:34 final size:34
Alignment explanation
Indices: 39158727--39158863 Score: 87
Period size: 34 Copynumber: 3.8 Consensus size: 34
39158717 TTATGTAAAA
39158727 TATGTAAGTTGTATTTTATGAAAGTTATATAAGT
1 TATGTAAGTTGTATTTTATGAAAGTTATATAAGT
* * * * * * *
39158761 TATGTAGGCTATGTTTTATGCAAGTTATTTAATT
1 TATGTAAGTTGTATTTTATGAAAGTTATATAAGT
* * * *
39158795 TCTGTAAGTGTTGTATTATAT-AAGTTATGTATTATGTAAGA
1 TATGTAA--GTTGTATTTTATGAA---A-G--TTATATAAGT
*
39158836 TATGTAAGTTGTATTTTATGTAAGTTAT
1 TATGTAAGTTGTATTTTATGAAAGTTAT
39158864 GTATTATGTA
Statistics
Matches: 74, Mismatches: 20, Indels: 18
0.66 0.18 0.16
Matches are distributed among these distances:
34 36 0.49
35 1 0.01
36 9 0.12
37 1 0.01
38 1 0.01
39 12 0.16
40 1 0.01
41 13 0.18
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.49
Consensus pattern (34 bp):
TATGTAAGTTGTATTTTATGAAAGTTATATAAGT
Found at i:39158843 original size:25 final size:26
Alignment explanation
Indices: 39158749--39158922 Score: 109
Period size: 25 Copynumber: 6.9 Consensus size: 26
39158739 ATTTTATGAA
* * *
39158749 AGTTATATAAGTTATGTAGGCTATGT
1 AGTTATGTAAGTTATGTAAGTTATGT
* * * * *
39158775 -TTTATGCAAGTTATTTAATTTCTGT
1 AGTTATGTAAGTTATGTAAGTTATGT
*
39158800 AAGTGT-TGT-A-TTATATAAGTTATGT
1 -AGT-TATGTAAGTTATGTAAGTTATGT
*
39158825 A-TTATGTAAGATATGTAAG-T-TGT
1 AGTTATGTAAGTTATGTAAGTTATGT
*
39158848 ATTTTATGTAAGTTATGT-A-TTATGT
1 A-GTTATGTAAGTTATGTAAGTTATGT
*
39158873 ATGTTATGTAAGTAATG--AGTTATGT
1 A-GTTATGTAAGTTATGTAAGTTATGT
*
39158898 AAGCTATGTAAGTTATGTAAGTTAT
1 -AGTTATGTAAGTTATGTAAGTTAT
39158923 TTAAGTGGTG
Statistics
Matches: 114, Mismatches: 20, Indels: 27
0.71 0.12 0.17
Matches are distributed among these distances:
22 1 0.01
23 8 0.07
24 6 0.05
25 87 0.76
26 2 0.02
27 9 0.08
28 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (26 bp):
AGTTATGTAAGTTATGTAAGTTATGT
Found at i:39158981 original size:21 final size:21
Alignment explanation
Indices: 39158936--39158986 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
39158926 AGTGGTGTAT
* *
39158936 TAAGTTATGGAAGTTATTATG
1 TAAGTTATGCAAGTTATTATA
39158957 TAAGTTATGCAAGCTTA-TATA
1 TAAGTTATGCAAG-TTATTATA
39158978 TAAGTTATG
1 TAAGTTATG
39158987 TATTATGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.41
Consensus pattern (21 bp):
TAAGTTATGCAAGTTATTATA
Found at i:39159000 original size:8 final size:7
Alignment explanation
Indices: 39158982--39159027 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
39158972 TATATATAAG
39158982 TTATGTA
1 TTATGTA
39158989 TTATGTTA
1 TTATG-TA
39158997 TTATGTA
1 TTATGTA
39159004 TTATGTA
1 TTATGTA
*
39159011 --ATTTA
1 TTATGTA
39159016 TTATGTTA
1 TTATG-TA
39159024 TTAT
1 TTAT
39159028 ATATAAGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 4 0.12
7 16 0.48
8 13 0.39
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (7 bp):
TTATGTA
Found at i:39159002 original size:15 final size:15
Alignment explanation
Indices: 39158982--39159104 Score: 65
Period size: 15 Copynumber: 7.9 Consensus size: 15
39158972 TATATATAAG
39158982 TTATGTATTATGTTA
1 TTATGTATTATGTTA
39158997 TTATGTATTATG-TA
1 TTATGTATTATGTTA
*
39159011 --ATTTATTATGTTA
1 TTATGTATTATGTTA
* *
39159024 TTATATA-TAAGTTA
1 TTATGTATTATGTTA
* * *
39159038 TGGAAGTTATTATGTAA
1 T-TATG-TATTATGTTA
* *
39159055 GTTATGCAAGCTTATATATAA
1 -TTATG-TA--TTATGT-T-A
39159076 GTTATGTATTATGTTA
1 -TTATGTATTATGTTA
39159092 TTATGTATTATGT
1 TTATGTATTATGT
39159105 AAGCAAATGA
Statistics
Matches: 81, Mismatches: 16, Indels: 22
0.68 0.13 0.18
Matches are distributed among these distances:
12 9 0.11
13 2 0.02
14 9 0.11
15 30 0.37
16 3 0.04
17 9 0.11
18 6 0.07
19 5 0.06
20 1 0.01
21 7 0.09
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.52
Consensus pattern (15 bp):
TTATGTATTATGTTA
Found at i:39159057 original size:21 final size:21
Alignment explanation
Indices: 39159024--39159081 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
39159014 TATTATGTTA
*
39159024 TTATATATAAGTTATGGAAG-
1 TTATATATAAGTTATGCAAGC
*
39159044 TTATTATGTAAGTTATGCAAGC
1 TTA-TATATAAGTTATGCAAGC
39159066 TTATATATAAGTTATG
1 TTATATATAAGTTATG
39159082 TATTATGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.09
21 27 0.82
22 3 0.09
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.43
Consensus pattern (21 bp):
TTATATATAAGTTATGCAAGC
Found at i:39159320 original size:61 final size:61
Alignment explanation
Indices: 39159250--39159391 Score: 212
Period size: 61 Copynumber: 2.3 Consensus size: 61
39159240 AAAAATATAT
* * * *
39159250 AATTATTTAGAAAACTTATAAAATTGATACTTATAAATTTTATTAATAATAAATTTAGAAC
1 AATTATTTAGAAAACTTATAAAATTAATACTAATAAATTTTAATAATAATAAATTTAGAAA
* * * *
39159311 ACTTTTTTAGAAAACTTATAAATTTAATACTAATAAATTTTAATACTAATAAATTTAGAAA
1 AATTATTTAGAAAACTTATAAAATTAATACTAATAAATTTTAATAATAATAAATTTAGAAA
39159372 AATTATTTAGAAAACTTATA
1 AATTATTTAGAAAACTTATA
39159392 TAGAAAATAA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 71 1.00
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (61 bp):
AATTATTTAGAAAACTTATAAAATTAATACTAATAAATTTTAATAATAATAAATTTAGAAA
Found at i:39159354 original size:16 final size:16
Alignment explanation
Indices: 39159328--39159366 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
39159318 TAGAAAACTT
39159328 ATAAA-TTTAATACTA
1 ATAAATTTTAATACTA
39159343 ATAAATTTTAATACTA
1 ATAAATTTTAATACTA
39159359 ATAAATTT
1 ATAAATTT
39159367 AGAAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAAATTTTAATACTA
Found at i:39159381 original size:13 final size:13
Alignment explanation
Indices: 39159363--39159398 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
39159353 ATACTAATAA
39159363 ATTTAGAAAAATT
1 ATTTAGAAAAATT
*
39159376 ATTTAGAAAACTT
1 ATTTAGAAAAATT
*
39159389 ATATAGAAAA
1 ATTTAGAAAA
39159399 TAAAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (13 bp):
ATTTAGAAAAATT
Found at i:39160309 original size:17 final size:16
Alignment explanation
Indices: 39160289--39160329 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
39160279 TAAATATTCA
39160289 AATTTATAAATACTATC
1 AATTT-TAAATACTATC
39160306 AA-TTTAAATACTATC
1 AATTTTAAATACTATC
*
39160321 AATATTAAA
1 AATTTTAAA
39160330 ATTTATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 13 0.59
16 7 0.32
17 2 0.09
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTTTAAATACTATC
Found at i:39160315 original size:15 final size:16
Alignment explanation
Indices: 39160295--39160329 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
39160285 TTCAAATTTA
39160295 TAAATACTATCAAT-T
1 TAAATACTATCAATAT
39160310 TAAATACTATCAATAT
1 TAAATACTATCAATAT
39160326 TAAA
1 TAAA
39160330 ATTTATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAATACTATCAATAT
Found at i:39162040 original size:3 final size:3
Alignment explanation
Indices: 39162032--39162071 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
39162022 AATATATAGG
39162032 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
39162072 TTTAAAAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:39166463 original size:39 final size:39
Alignment explanation
Indices: 39166408--39166811 Score: 508
Period size: 39 Copynumber: 10.4 Consensus size: 39
39166398 GTTTTTTCCC
* * * *
39166408 ATGTGGTGGTTCCTCTCCCCTGCCACCAGGTCCAGGGTG
1 ATGTGGTGGCTCATCTCCCCTACCACCAGGTCCGGGGTG
* * * *
39166447 GTGTGGTGGCTCCTCTCCACTACCACCAGGTCCTGGGTG
1 ATGTGGTGGCTCATCTCCCCTACCACCAGGTCCGGGGTG
*
39166486 GTGTGGTGGCTCATCTCCCCTACCACCAGGTCCGGGGTG
1 ATGTGGTGGCTCATCTCCCCTACCACCAGGTCCGGGGTG
* *
39166525 ATGTGGTGGCTCCTCTCCTCTACCACCAGGTCCGGGGTG
1 ATGTGGTGGCTCATCTCCCCTACCACCAGGTCCGGGGTG
39166564 ATGTGGTGGCTCATCTCCCCTACCACCAGGTCCGGGGTG
1 ATGTGGTGGCTCATCTCCCCTACCACCAGGTCCGGGGTG
* *
39166603 ATGTGGTGGCTCCTCTCCTCTACCACCAGGTCCGGGGTG
1 ATGTGGTGGCTCATCTCCCCTACCACCAGGTCCGGGGTG
*
39166642 ATGTGGTGGCTCATC-CCCCATACCACTAGGTCCGGGGTG
1 ATGTGGTGGCTCATCTCCCC-TACCACCAGGTCCGGGGTG
* * *
39166681 GTGTGGTGGCTTC-TCTCTCCTATCACCAGGTCCGGGGTG
1 ATGTGGTGGC-TCATCTCCCCTACCACCAGGTCCGGGGTG
* * * *
39166720 ATGTGGTGGTTCAT-TCCCCATACCACTAGGTTCAGGGTG
1 ATGTGGTGGCTCATCTCCCC-TACCACCAGGTCCGGGGTG
* * * * *
39166759 GTGTGGTGGCTCATCCCCCCAACCACTAGGTCCAGGGTG
1 ATGTGGTGGCTCATCTCCCCTACCACCAGGTCCGGGGTG
* *
39166798 TTGGGGTGGCTCAT
1 ATGTGGTGGCTCAT
39166812 TATCGTGGTT
Statistics
Matches: 323, Mismatches: 36, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
38 9 0.03
39 305 0.94
40 9 0.03
ACGTcount: A:0.12, C:0.31, G:0.31, T:0.26
Consensus pattern (39 bp):
ATGTGGTGGCTCATCTCCCCTACCACCAGGTCCGGGGTG
Found at i:39168268 original size:43 final size:43
Alignment explanation
Indices: 39168207--39168293 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
39168197 AATGGTCACC
39168207 TAACTATTTTTTTGGGTCACCAACTAGTTATCGGTGACAATTT
1 TAACTATTTTTTTGGGTCACCAACTAGTTATCGGTGACAATTT
39168250 TAACTATTTTTTTGGGTCACCAACTAGTTATCGGTGACAATTT
1 TAACTATTTTTTTGGGTCACCAACTAGTTATCGGTGACAATTT
39168293 T
1 T
39168294 TAAAATTAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (43 bp):
TAACTATTTTTTTGGGTCACCAACTAGTTATCGGTGACAATTT
Found at i:39169022 original size:15 final size:15
Alignment explanation
Indices: 39169004--39169051 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
39168994 GATGTTTCTA
39169004 AATATATTTCATAAT
1 AATATATTTCATAAT
39169019 AATATATTTC-T-A-
1 AATATATTTCATAAT
*
39169031 AATA-AATTCATAAT
1 AATATATTTCATAAT
39169045 AATATAT
1 AATATAT
39169052 ATTTTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 2 0.07
14 5 0.19
15 11 0.41
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATATTTCATAAT
Found at i:39169040 original size:26 final size:27
Alignment explanation
Indices: 39168998--39169051 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
39168988 AAAATAGATG
*
39168998 TTTCTAAATATATTTCATAATAATATA
1 TTTCTAAATATAATTCATAATAATATA
39169025 TTTCTAAATA-AATTCATAATAATATA
1 TTTCTAAATATAATTCATAATAATATA
39169051 T
1 T
39169052 ATTTTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (27 bp):
TTTCTAAATATAATTCATAATAATATA
Found at i:39172225 original size:9 final size:10
Alignment explanation
Indices: 39172201--39172235 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
39172191 TGAAACAAAA
39172201 TAGAAAAATT
1 TAGAAAAATT
39172211 TAGAAAAATT
1 TAGAAAAATT
*
39172221 T-GAAAATTT
1 TAGAAAAATT
39172230 TAGAAA
1 TAGAAA
39172236 CAACGGCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (10 bp):
TAGAAAAATT
Found at i:39185312 original size:27 final size:28
Alignment explanation
Indices: 39185281--39185362 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 28
39185271 AGCCTGCTAG
39185281 CCCAATTTTATTTTTTCTCTTGTAGGCT
1 CCCAATTTTATTTTTTCTCTTGTAGGCT
*
39185309 CCAAGCCCAATTTTATTTTTTCTCCTGTAGGCT
1 -----CCCAATTTTATTTTTTCTCTTGTAGGCT
39185342 -CCAATTTTATTTTTTCTCTTG
1 CCCAATTTTATTTTTTCTCTTG
39185363 CAGGTAAAGT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
27 20 0.43
33 27 0.57
ACGTcount: A:0.16, C:0.23, G:0.10, T:0.51
Consensus pattern (28 bp):
CCCAATTTTATTTTTTCTCTTGTAGGCT
Found at i:39185316 original size:33 final size:33
Alignment explanation
Indices: 39185279--39185345 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
39185269 CCAGCCTGCT
*
39185279 AGCCCAATTTTATTTTTTCTCTTGTAGGCTCCA
1 AGCCCAATTTTATTTTTTCTCCTGTAGGCTCCA
39185312 AGCCCAATTTTATTTTTTCTCCTGTAGGCTCCA
1 AGCCCAATTTTATTTTTTCTCCTGTAGGCTCCA
39185345 A
1 A
39185346 TTTTATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.43
Consensus pattern (33 bp):
AGCCCAATTTTATTTTTTCTCCTGTAGGCTCCA
Found at i:39186913 original size:28 final size:28
Alignment explanation
Indices: 39186871--39186928 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
39186861 TATTTCAATA
* *
39186871 GTGGTGATTCCAATACAATATTATGTTT
1 GTGGTGATTCCAATACAATACTAAGTTT
** *
39186899 GTGGTGATTTTAATACGATACTAAGTTT
1 GTGGTGATTCCAATACAATACTAAGTTT
39186927 GT
1 GT
39186929 TTTAAATGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.43
Consensus pattern (28 bp):
GTGGTGATTCCAATACAATACTAAGTTT
Found at i:39189504 original size:20 final size:20
Alignment explanation
Indices: 39189481--39189543 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
39189471 TATGTGTTAA
39189481 TTTTAAGACTTATGTAATGT
1 TTTTAAGACTTATGTAATGT
* **
39189501 TTTT-A-A-TTATGTAGTAA
1 TTTTAAGACTTATGTAATGT
**
39189518 TTCAAAGACTTATGTAATGT
1 TTTTAAGACTTATGTAATGT
39189538 TTTTAA
1 TTTTAA
39189544 TTATGTAGTG
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
17 10 0.33
18 2 0.07
19 2 0.07
20 16 0.53
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (20 bp):
TTTTAAGACTTATGTAATGT
Found at i:39189510 original size:17 final size:17
Alignment explanation
Indices: 39189490--39189550 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
39189480 ATTTTAAGAC
39189490 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* * ***
39189507 TTATGTAGTAATTCAAAGA
1 TTATGTAAT-GTTTTTA-A
39189526 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
39189544 TTATGTA
1 TTATGTA
39189551 GTGATTCAAT
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
17 15 0.48
18 4 0.13
19 4 0.13
20 8 0.26
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:39189519 original size:37 final size:37
Alignment explanation
Indices: 39189464--39189559 Score: 149
Period size: 37 Copynumber: 2.6 Consensus size: 37
39189454 AAGACTTACA
**
39189464 TTTTAATTATGT-GTTAATTTTAAGACTTATGTAATGT
1 TTTTAATTATGTAG-TAATTCAAAGACTTATGTAATGT
39189501 TTTTAATTATGTAGTAATTCAAAGACTTATGTAATGT
1 TTTTAATTATGTAGTAATTCAAAGACTTATGTAATGT
*
39189538 TTTTAATTATGTAGTGATTCAA
1 TTTTAATTATGTAGTAATTCAA
39189560 TTCGGTTAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
37 54 0.98
38 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.50
Consensus pattern (37 bp):
TTTTAATTATGTAGTAATTCAAAGACTTATGTAATGT
Found at i:39189575 original size:9 final size:9
Alignment explanation
Indices: 39189561--39189640 Score: 106
Period size: 9 Copynumber: 8.9 Consensus size: 9
39189551 GTGATTCAAT
39189561 TCGGTTAAA
1 TCGGTTAAA
39189570 TCGGTTAAA
1 TCGGTTAAA
* *
39189579 TCGATTAAG
1 TCGGTTAAA
39189588 TCGGTTAAA
1 TCGGTTAAA
*
39189597 TTGGTTAAA
1 TCGGTTAAA
39189606 TCGGTTAAA
1 TCGGTTAAA
* * *
39189615 TTGATTAAG
1 TCGGTTAAA
39189624 TCGGTTAAA
1 TCGGTTAAA
39189633 TCGGTTAA
1 TCGGTTAA
39189641 TTTTTAATCA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.36
Consensus pattern (9 bp):
TCGGTTAAA
Found at i:39190025 original size:15 final size:15
Alignment explanation
Indices: 39190005--39190038 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
39189995 GGTTTTGGTG
*
39190005 TTTTATTTATTTGTT
1 TTTTATTTATTTATT
39190020 TTTTATTTATTTATT
1 TTTTATTTATTTATT
39190035 TTTT
1 TTTT
39190039 CTAGCCGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (15 bp):
TTTTATTTATTTATT
Found at i:39190078 original size:25 final size:25
Alignment explanation
Indices: 39190050--39190103 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
39190040 TAGCCGGTTC
* *
39190050 GGGCCT-TTTCTTTTTTTTTTCTTTT
1 GGGCCTCTTTCTTCTTTTTCTC-TTT
39190075 GGG-CTCTTTCTTCTTTTTCTCTTT
1 GGGCCTCTTTCTTCTTTTTCTCTTT
39190099 GGGCC
1 GGGCC
39190104 AATGTTGGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.00, C:0.22, G:0.17, T:0.61
Consensus pattern (25 bp):
GGGCCTCTTTCTTCTTTTTCTCTTT
Found at i:39190099 original size:24 final size:21
Alignment explanation
Indices: 39190058--39190102 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
39190048 TCGGGCCTTT
39190058 TCTTTTTTTTTTCTTTTGGGC
1 TCTTTTTTTTTTCTTTTGGGC
39190079 TCTTTCTTCTTTTTCTCTTTGGGC
1 TCTTT-TT-TTTTTCT-TTTGGGC
39190103 CAATGTTGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 2 0.10
23 7 0.33
24 7 0.33
ACGTcount: A:0.00, C:0.20, G:0.13, T:0.67
Consensus pattern (21 bp):
TCTTTTTTTTTTCTTTTGGGC
Found at i:39199769 original size:44 final size:44
Alignment explanation
Indices: 39199705--39199799 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 44
39199695 ATTCTCTCTC
*
39199705 AACTCAAAAATTGCCTTCACCAGTTCTTACATGTTTAAATACAG
1 AACTCAAAAATTGCCTTCACCAGTTATTACATGTTTAAATACAG
* * * * *
39199749 AACTCGAACATTGGCTTCACCAGTTATTACATGTTTACATACTG
1 AACTCAAAAATTGCCTTCACCAGTTATTACATGTTTAAATACAG
39199793 AA-TCAAA
1 AACTCAAA
39199800 GAATACACTA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 4 0.09
44 40 0.91
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.32
Consensus pattern (44 bp):
AACTCAAAAATTGCCTTCACCAGTTATTACATGTTTAAATACAG
Found at i:39202546 original size:19 final size:18
Alignment explanation
Indices: 39202524--39202577 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
39202514 AAAGAATATT
39202524 TTTATATAAATATAAAATA
1 TTTATA-AAATATAAAATA
*
39202543 TTTATAATTATATAAAATA
1 TTTATAA-AATATAAAATA
* *
39202562 CTGATAAAATATAAAA
1 TTTATAAAATATAAAA
39202578 AAAAAATCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 9 0.30
19 21 0.70
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (18 bp):
TTTATAAAATATAAAATA
Found at i:39203393 original size:30 final size:30
Alignment explanation
Indices: 39203358--39203414 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
39203348 AATAATAAAA
* *
39203358 AATAAAAATCA-ATAGAAATTATAAAAATTT
1 AATAAAAAT-ATATACAAATTAGAAAAATTT
39203388 AATAAAAATATATACAAATTAGAAAAA
1 AATAAAAATATATACAAATTAGAAAAA
39203415 AAATATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.26
Consensus pattern (30 bp):
AATAAAAATATATACAAATTAGAAAAATTT
Found at i:39203504 original size:29 final size:30
Alignment explanation
Indices: 39203441--39203507 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
39203431 AAAAAATTAT
*
39203441 AGAAAATTTTAAATTTTTATAAAAATAGTA
1 AGAAAATTATAAATTTTTATAAAAATAGTA
* *
39203471 A-AAAATTATAAATTTTTAT-AAAGTCGTA
1 AGAAAATTATAAATTTTTATAAAAATAGTA
39203499 AGAAAATTA
1 AGAAAATTA
39203508 AAAAAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 8 0.24
29 24 0.73
30 1 0.03
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.37
Consensus pattern (30 bp):
AGAAAATTATAAATTTTTATAAAAATAGTA
Found at i:39203766 original size:19 final size:20
Alignment explanation
Indices: 39203734--39203776 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
39203724 TACAATTATT
*
39203734 ATTTTTATGGTTTTTATAAA
1 ATTTTTATGGTTTTAATAAA
*
39203754 ATTTTTA-GTTTTTAATAAA
1 ATTTTTATGGTTTTAATAAA
39203773 ATTT
1 ATTT
39203777 AAAATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
ATTTTTATGGTTTTAATAAA
Found at i:39203784 original size:19 final size:19
Alignment explanation
Indices: 39203744--39203786 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
39203734 ATTTTTATGG
** *
39203744 TTTTT-ATAAAATTTTTAG
1 TTTTTAATAAAATTTAAAA
39203762 TTTTTAATAAAATTTAAAA
1 TTTTTAATAAAATTTAAAA
39203781 TTTTTA
1 TTTTTA
39203787 TATTTTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTTTAATAAAATTTAAAA
Found at i:39203785 original size:27 final size:27
Alignment explanation
Indices: 39203750--39203816 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
39203740 ATGGTTTTTA
*
39203750 TAAAATTTTTA-GTTTTTAATAAAATT
1 TAAAATTTTTATATTTTTAATAAAATT
*
39203776 TAAAATTTTTATATTTTTATTAAAATT
1 TAAAATTTTTATATTTTTAATAAAATT
39203803 TAATAATTTTTATA
1 TAA-AATTTTTATA
39203817 ACTTATTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 11 0.30
27 16 0.43
28 10 0.27
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (27 bp):
TAAAATTTTTATATTTTTAATAAAATT
Found at i:39203811 original size:20 final size:20
Alignment explanation
Indices: 39203775--39203815 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
39203765 TTAATAAAAT
*
39203775 TTAAAATTTTTATATTTTTA
1 TTAAAATTTATATATTTTTA
39203795 TTAAAATTTA-ATAATTTTTA
1 TTAAAATTTATAT-ATTTTTA
39203815 T
1 T
39203816 AACTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTAAAATTTATATATTTTTA
Found at i:39203822 original size:27 final size:27
Alignment explanation
Indices: 39203769--39203823 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
39203759 TAGTTTTTAA
**
39203769 TAAAATTTAAAATTTTTATATTTTTAT
1 TAAAATTTAAAATTTTTATATACTTAT
39203796 TAAAATTTAATAATTTTTATA-ACTTAT
1 TAAAATTTAA-AATTTTTATATACTTAT
39203823 T
1 T
39203824 TTTTGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (27 bp):
TAAAATTTAAAATTTTTATATACTTAT
Found at i:39203978 original size:88 final size:88
Alignment explanation
Indices: 39203824--39203984 Score: 207
Period size: 88 Copynumber: 1.8 Consensus size: 88
39203814 ATAACTTATT
* * *
39203824 TTTTGAAAAAGTTTCAGGACCTTTTTTTATACATTTTGAAAGTTCAAATACCCAGTTGAGTGCAA
1 TTTTGAAAAAGTTTCAGGACCTTTTTTTATACATTTTGAAAGTTCAAATACCCAATTAAGTACAA
39203889 AAAAAAAAAGGGGGATTAATGGA
66 AAAAAAAAAGGGGGATTAATGGA
* * * * ** *
39203912 TTTTGAAAAAGTTTGAGGGA-CTTTTTTTATGCATTTTGAAAGTTTAAGTACTTAATTAATTACA
1 TTTTGAAAAAGTTTCA-GGACCTTTTTTTATACATTTTGAAAGTTCAAATACCCAATTAAGTACA
*
39203976 AAAACAAAA
65 AAAAAAAAA
39203985 GTAAGGGCTT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
88 58 0.95
89 3 0.05
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (88 bp):
TTTTGAAAAAGTTTCAGGACCTTTTTTTATACATTTTGAAAGTTCAAATACCCAATTAAGTACAA
AAAAAAAAAGGGGGATTAATGGA
Found at i:39206061 original size:16 final size:16
Alignment explanation
Indices: 39206042--39206075 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
39206032 ATAAAAGAAC
39206042 AATTAATTAATGGATT
1 AATTAATTAATGGATT
39206058 AATTAATTAATGGATT
1 AATTAATTAATGGATT
39206074 AA
1 AA
39206076 ATTACAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (16 bp):
AATTAATTAATGGATT
Found at i:39212401 original size:18 final size:18
Alignment explanation
Indices: 39212378--39212415 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
39212368 GGACACACGA
39212378 CCGTGTCCCA-GCCCGTGT
1 CCGTGT-CCATGCCCGTGT
*
39212396 CCGTGTTCATGCCCGTGT
1 CCGTGTCCATGCCCGTGT
39212414 CC
1 CC
39212416 ATGCCTGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.05, C:0.42, G:0.26, T:0.26
Consensus pattern (18 bp):
CCGTGTCCATGCCCGTGT
Found at i:39212671 original size:14 final size:14
Alignment explanation
Indices: 39212652--39212679 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
39212642 AACATGCATA
39212652 AAATGACCAAATTC
1 AAATGACCAAATTC
39212666 AAATGACCAAATTC
1 AAATGACCAAATTC
39212680 CATTAAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.21, G:0.07, T:0.21
Consensus pattern (14 bp):
AAATGACCAAATTC
Found at i:39214153 original size:26 final size:26
Alignment explanation
Indices: 39214117--39214183 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
39214107 TACATCGTTG
39214117 CTCACACGAGCTGTGAAAT-GAGTCTA
1 CTCACACGAGCTGTGAAATAG-GTCTA
*
39214143 CTCACACGAGCTGTGAAATAGGTCTG
1 CTCACACGAGCTGTGAAATAGGTCTA
*
39214169 CTCACACGAGTTGTG
1 CTCACACGAGCTGTG
39214184 GGTCAGAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 37 0.97
27 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (26 bp):
CTCACACGAGCTGTGAAATAGGTCTA
Found at i:39219381 original size:24 final size:24
Alignment explanation
Indices: 39219345--39219393 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
39219335 GGAAGAATTA
39219345 GTGGCTTCATCCACAACCTACATG
1 GTGGCTTCATCCACAACCTACATG
* *
39219369 GTGGCTTCGTCCATAACCTACATG
1 GTGGCTTCATCCACAACCTACATG
39219393 G
1 G
39219394 CAACTTGTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (24 bp):
GTGGCTTCATCCACAACCTACATG
Found at i:39232320 original size:18 final size:18
Alignment explanation
Indices: 39232284--39232321 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
39232274 ACATGAGAAA
*
39232284 TGATAAATAATTTGTAAT
1 TGATAAATAAATTGTAAT
39232302 TGATAAATGAAATTG-AAT
1 TGATAAAT-AAATTGTAAT
39232320 TG
1 TG
39232322 TAATATGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (18 bp):
TGATAAATAAATTGTAAT
Found at i:39238198 original size:67 final size:67
Alignment explanation
Indices: 39238119--39238284 Score: 233
Period size: 67 Copynumber: 2.5 Consensus size: 67
39238109 CTGGTAGCCC
* * * *
39238119 GTTTGCATATATTGGCAGTTTATTTGCATTACCGTTACTGGTGGCTTGTCCGTAATACTAGCAGC
1 GTTTGCATATATTGGCAGTTTATTTGCATTACCATTACTAGTGGCTTGTCCATAATACTAGCAAC
39238184 TT
66 TT
* *
39238186 GTTTGTATATATTGGCAGTTTATCTGCATTACCATTACTAGTGGCTTGTCCATAATACTAGCAAC
1 GTTTGCATATATTGGCAGTTTATTTGCATTACCATTACTAGTGGCTTGTCCATAATACTAGCAAC
39238251 TT
66 TT
* ** * *
39238253 GTTTGCACATATTAACAATTTGTTTGCATTAC
1 GTTTGCATATATTGGCAGTTTATTTGCATTAC
39238285 TATACTGGTG
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
67 86 1.00
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.41
Consensus pattern (67 bp):
GTTTGCATATATTGGCAGTTTATTTGCATTACCATTACTAGTGGCTTGTCCATAATACTAGCAAC
TT
Found at i:39239141 original size:50 final size:50
Alignment explanation
Indices: 39239066--39239167 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
39239056 TAGCATTGTC
39239066 AACAATAAAATGAATCTTAAGTATAGATGACCTAATAAATGAATGTTTTT
1 AACAATAAAATGAATCTTAAGTATAGATGACCTAATAAATGAATGTTTTT
39239116 AACAATAAAATGAATCTTAAGTATAGATGACCTAATAAATGAATGTTTTT
1 AACAATAAAATGAATCTTAAGTATAGATGACCTAATAAATGAATGTTTTT
39239166 AA
1 AA
39239168 ACTAACTTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (50 bp):
AACAATAAAATGAATCTTAAGTATAGATGACCTAATAAATGAATGTTTTT
Found at i:39241720 original size:19 final size:20
Alignment explanation
Indices: 39241698--39241735 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
39241688 TGATCAAATA
39241698 TAAAAAATTATAAT-TTTTT
1 TAAAAAATTATAATATTTTT
**
39241717 TAAAATTTTATAATATTTT
1 TAAAAAATTATAATATTTT
39241736 AATAAGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TAAAAAATTATAATATTTTT
Found at i:39241736 original size:18 final size:19
Alignment explanation
Indices: 39241714--39241808 Score: 74
Period size: 18 Copynumber: 5.0 Consensus size: 19
39241704 ATTATAATTT
39241714 TTTTAA-AATTTTATAATA
1 TTTTAATAATTTTATAATA
39241732 TTTTAATAAGTTTTAT-AT-
1 TTTTAATAA-TTTTATAATA
* *
39241750 TTTTTATATTTTTTATCAA-A
1 TTTTAATA-ATTTTAT-AATA
*
39241770 TTTTAATATTTTTATAAT-
1 TTTTAATAATTTTATAATA
*
39241788 TTCATAATAATTTTATTAATA
1 TT-TTAATAATTTTA-TAATA
39241809 CAAAATTTGA
Statistics
Matches: 62, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
18 23 0.37
19 21 0.34
20 18 0.29
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (19 bp):
TTTTAATAATTTTATAATA
Found at i:39241753 original size:28 final size:27
Alignment explanation
Indices: 39241722--39241803 Score: 71
Period size: 28 Copynumber: 2.9 Consensus size: 27
39241712 TTTTTTAAAA
39241722 TTTTATAATATTTTAATAAGTTTTATAT
1 TTTTATAATATTTTAATAA-TTTTATAT
*
39241750 TTTT-T-ATATTTTTTATCAAATTTTAATAT
1 TTTTATAATA-TTTTAAT--AATTTT-ATAT
*
39241779 TTTTATAAT-TTCATAATAATTTTAT
1 TTTTATAATATT-TTAATAATTTTAT
39241804 TAATACAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
26 3 0.07
27 9 0.20
28 14 0.32
29 12 0.27
30 4 0.09
31 2 0.05
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (27 bp):
TTTTATAATATTTTAATAATTTTATAT
Found at i:39241789 original size:9 final size:9
Alignment explanation
Indices: 39241705--39241789 Score: 64
Period size: 9 Copynumber: 9.0 Consensus size: 9
39241695 ATATAAAAAA
39241705 TTATAATTT
1 TTATAATTT
* *
39241714 TTTTAAAATT
1 TTAT-AATTT
39241724 TTATAATATT
1 TTATAAT-TT
*
39241734 TTAATAAGTT
1 TT-ATAATTT
*
39241744 TTATATTTT
1 TTATAATTT
*
39241753 TTATATTTT
1 TTATAATTT
*
39241762 TTATCAAATT
1 TTAT-AATTT
39241772 TTA-ATATTT
1 TTATA-ATTT
39241781 TTATAATTT
1 TTATAATTT
39241790 CATAATAATT
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
8 1 0.02
9 33 0.55
10 22 0.37
11 4 0.07
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (9 bp):
TTATAATTT
Found at i:39242039 original size:19 final size:19
Alignment explanation
Indices: 39242015--39242076 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
39242005 TTATATAATT
**
39242015 TATATTTTATAATTTTTGG
1 TATATTTTATAATTTTTAA
39242034 TATATTTTA-AATATTTTAA
1 TATATTTTATAAT-TTTTAA
*
39242053 TAAATTTT-TAATTTTTAA
1 TATATTTTATAATTTTTAA
*
39242071 TTTATT
1 TATATT
39242077 AACATTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 13 0.36
19 23 0.64
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
TATATTTTATAATTTTTAA
Found at i:39244879 original size:41 final size:39
Alignment explanation
Indices: 39244818--39244945 Score: 132
Period size: 41 Copynumber: 3.2 Consensus size: 39
39244808 AATACTGTTC
39244818 CAAAATTTATCAGTTCGTATTTTATTTTTAGTCTTTTTTTT
1 CAAAATTTATCAGTT-GTATTTTATTTTTA-TCTTTTTTTT
* * * **
39244859 TAAAATTTATCAGCTTGTATTTTATTTTTAAC-CTCATTT
1 CAAAATTTATCAG-TTGTATTTTATTTTTATCTTTTTTTT
* * *
39244898 CAAAATTTATCTGTTTGTATCTTATTTTTAATATTTTTTTT
1 CAAAATTTATCAG-TTGTATTTTATTTTT-ATCTTTTTTTT
39244939 CAAAATT
1 CAAAATT
39244946 GTATACGTAT
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
39 29 0.41
40 2 0.03
41 37 0.53
42 2 0.03
ACGTcount: A:0.27, C:0.10, G:0.05, T:0.58
Consensus pattern (39 bp):
CAAAATTTATCAGTTGTATTTTATTTTTATCTTTTTTTT
Found at i:39244916 original size:39 final size:40
Alignment explanation
Indices: 39244818--39244928 Score: 125
Period size: 39 Copynumber: 2.8 Consensus size: 40
39244808 AATACTGTTC
* * * **
39244818 CAAAATTTATCAGTTCGTATTTTATTTTTAGTCTTTTTTTT
1 CAAAATTTATCAGTTTGTATTTTATTTTTA-ACTCTCATTT
* *
39244859 TAAAATTTATCAGCTTGTATTTTATTTTTAAC-CTCATTT
1 CAAAATTTATCAGTTTGTATTTTATTTTTAACTCTCATTT
* *
39244898 CAAAATTTATCTGTTTGTATCTTATTTTTAA
1 CAAAATTTATCAGTTTGTATTTTATTTTTAA
39244929 TATTTTTTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 31 0.53
40 1 0.02
41 27 0.46
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (40 bp):
CAAAATTTATCAGTTTGTATTTTATTTTTAACTCTCATTT
Found at i:39245746 original size:12 final size:12
Alignment explanation
Indices: 39245731--39245755 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39245721 ATATTTTTTG
39245731 TGATTTTTTTCA
1 TGATTTTTTTCA
39245743 TGATTTTTTTCA
1 TGATTTTTTTCA
39245755 T
1 T
39245756 TTTTTGTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (12 bp):
TGATTTTTTTCA
Found at i:39245804 original size:25 final size:24
Alignment explanation
Indices: 39245755--39245804 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
39245745 ATTTTTTTCA
**
39245755 TTTTTTGTATCCGAAAATCCTTTT
1 TTTTTTGTATCCGAAAATCAATTT
39245779 TTTTTCTGTATCC-ATAAATCAATTT
1 TTTTT-TGTATCCGA-AAATCAATTT
39245804 T
1 T
39245805 GGTCAGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.24, C:0.16, G:0.06, T:0.54
Consensus pattern (24 bp):
TTTTTTGTATCCGAAAATCAATTT
Found at i:39246022 original size:15 final size:15
Alignment explanation
Indices: 39245977--39246022 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
39245967 ATATTGTAAG
*
39245977 TTACAAAAA-AAAAG
1 TTACAAAAATAAAAA
*
39245991 TTAC-AAAGTAAATAA
1 TTACAAAAATAAA-AA
39246006 TTACAAAAATAAAAA
1 TTACAAAAATAAAAA
39246021 TT
1 TT
39246023 GTGTGGACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
13 3 0.12
14 7 0.27
15 9 0.35
16 7 0.27
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.24
Consensus pattern (15 bp):
TTACAAAAATAAAAA
Found at i:39247005 original size:29 final size:28
Alignment explanation
Indices: 39246924--39246999 Score: 118
Period size: 29 Copynumber: 2.7 Consensus size: 28
39246914 AAAAAATGAC
*
39246924 ATTAACAAAA-CTTTTTATTCAATTAAT
1 ATTAACAAAATTTTTTTATTCAATTAAT
*
39246951 ACTAACAAAAGTTTTTTTATTCAATTAAT
1 ATTAACAAAA-TTTTTTTATTCAATTAAT
39246980 ATTAACAAAATTTTTTTATT
1 ATTAACAAAATTTTTTTATT
39247000 AAAATTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 9 0.20
28 10 0.23
29 25 0.57
ACGTcount: A:0.42, C:0.09, G:0.01, T:0.47
Consensus pattern (28 bp):
ATTAACAAAATTTTTTTATTCAATTAAT
Found at i:39248218 original size:2 final size:2
Alignment explanation
Indices: 39248211--39248244 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
39248201 TAGCCTACAA
39248211 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
39248245 TTTACATACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39250914 original size:16 final size:15
Alignment explanation
Indices: 39250893--39250926 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
39250883 TTTGATAATT
* *
39250893 TGAAAATTTAAGTGC
1 TGAAAAATTAAGTAC
39250908 TGAAAAATTAAGTAC
1 TGAAAAATTAAGTAC
39250923 TGAA
1 TGAA
39250927 TTTTTATTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (15 bp):
TGAAAAATTAAGTAC
Found at i:39251067 original size:25 final size:27
Alignment explanation
Indices: 39251039--39251089 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
39251029 AAATATTGAT
*
39251039 TTTTAAT-AGATT-ATTTATTTTTTAA
1 TTTTAATCAGATTAATATATTTTTTAA
*
39251064 TTTTAATCATATTAATATATTTTTTA
1 TTTTAATCAGATTAATATATTTTTTA
39251090 TATTATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 4 0.18
27 11 0.50
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (27 bp):
TTTTAATCAGATTAATATATTTTTTAA
Done.