Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 154 of 213
Found at i:46227734 original size:19 final size:19
Alignment explanation
Indices: 46227712--46227756 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
46227702 AAAATAATAT
46227712 AAAAAATAATAAATTTTAA
1 AAAAAATAATAAATTTTAA
** *
46227731 AAAATTTATTAAATTTTAA
1 AAAAAATAATAAATTTTAA
*
46227750 TAAAAAT
1 AAAAAAT
46227757 TAAAGAATTT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAAATAATAAATTTTAA
Found at i:46227743 original size:29 final size:29
Alignment explanation
Indices: 46227690--46227774 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 29
46227680 CCGCTCTTAT
* *
46227690 TAAAAATTAGAAAAAATAATATAAAAAATAA
1 TAAAAATTA-AAAAATTTAT-TAAAAAATAA
** ***
46227721 TAAATTTTAAAAAATTTATTAAATTTTAA
1 TAAAAATTAAAAAATTTATTAAAAAATAA
*
46227750 TAAAAATTAAAGAATTTATTAAAAA
1 TAAAAATTAAAAAATTTATTAAAAA
46227775 TTATATTTTT
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
29 27 0.64
30 8 0.19
31 7 0.17
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (29 bp):
TAAAAATTAAAAAATTTATTAAAAAATAA
Found at i:46228091 original size:20 final size:20
Alignment explanation
Indices: 46228068--46228110 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
46228058 TTTTATAAAA
46228068 TTTTACAATATTTTAT-TTTT
1 TTTTACAAT-TTTTATATTTT
46228088 TTTTACAATTTTTATATTTT
1 TTTTACAATTTTTATATTTT
46228108 TTT
1 TTT
46228111 CTAATTGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTACAATTTTTATATTTT
Found at i:46228116 original size:19 final size:19
Alignment explanation
Indices: 46228068--46228110 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
46228058 TTTTATAAAA
*
46228068 TTTTACAATATTTTATTTTT
1 TTTTACAAT-TTTTATATTT
46228088 TTTTACAATTTTTATATTT
1 TTTTACAATTTTTATATTT
46228107 TTTT
1 TTTT
46228111 CTAATTGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTACAATTTTTATATTT
Found at i:46231286 original size:43 final size:43
Alignment explanation
Indices: 46231225--46231461 Score: 237
Period size: 43 Copynumber: 5.5 Consensus size: 43
46231215 GTTTTTGGAA
* * *
46231225 ACAAACGTCGCTAAAGAGCGGGACCTTTAGCGGCGCTTTTCTC
1 ACAAACGCCGCTAAAGAGCGAGACCTTTAGCGGCGCTTTTCCC
* * * * *
46231268 ACAAACGCCGCTAAAGAGCAAGACCATTAGCAGCGTTTTTTTCC
1 ACAAACGCCGCTAAAGAGCGAGACCTTTAGCGGCG-CTTTTCCC
* *
46231312 AAAAACACCGCTAAAGAGCCG-GACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGAG-CGAGACCTTTAGCGGCGCTTTTCCC
* * ***
46231355 AAAAACGCCGCTAAAAAG-GCAGACCTTTAGCGATACTTTTCCC
1 ACAAACGCCGCTAAAGAGCG-AGACCTTTAGCGGCGCTTTTCCC
* * * *
46231398 ACAAACGTCGCTAAAGAGCCAGA-CTTTTGACGACGCTTTTCCC
1 ACAAACGCCGCTAAAGAGCGAGACCTTTAG-CGGCGCTTTTCCC
*
46231441 ACAAACGCCACTAAAGAGCGA
1 ACAAACGCCGCTAAAGAGCGA
46231462 CAAACGCCGC
Statistics
Matches: 158, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 5 0.03
43 118 0.75
44 33 0.21
45 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAGCGAGACCTTTAGCGGCGCTTTTCCC
Found at i:46231379 original size:87 final size:86
Alignment explanation
Indices: 46231233--46231455 Score: 254
Period size: 87 Copynumber: 2.6 Consensus size: 86
46231223 AAACAAACGT
* * *
46231233 CGCTAAAGAGCGGGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGAGCAAGACCATTAG
1 CGCTAAAGAGCCGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAAGCAAGACCATTAG
* * *
46231298 CAGCGT-TTTTTTCCAAAAACAC
66 C-G-ATACTTTTCCCAAAAACAC
* *
46231320 CGCTAAAGAGCCGGACCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAAAGGC-AGACCTTTA
1 CGCTAAAGAGCCGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAA-GCAAGACCATTA
* **
46231384 GCGATACTTTTCCCACAAACGT
65 GCGATACTTTTCCCAAAAACAC
* * * *
46231406 CGCTAAAGAGCCAGA-CTTTTGACGACGCTTTTCCCACAAACGCCACTAAA
1 CGCTAAAGAGCCGGACCTTTAG-CGGCGCTTTTCCCACAAACGCCGCTAAA
46231456 GAGCGACAAA
Statistics
Matches: 117, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
85 6 0.05
86 51 0.44
87 58 0.50
88 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (86 bp):
CGCTAAAGAGCCGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAAGCAAGACCATTAG
CGATACTTTTCCCAAAAACAC
Found at i:46235427 original size:16 final size:17
Alignment explanation
Indices: 46235406--46235452 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
46235396 AACCCCAAAT
*
46235406 CCCTAACCCTTAAA-CC
1 CCCTAACCCATAAATCC
*
46235422 CCCTAACCCATAAATCT
1 CCCTAACCCATAAATCC
*
46235439 CCCTAACCCCTAAA
1 CCCTAACCCATAAA
46235453 GCATAACACT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.34, C:0.47, G:0.00, T:0.19
Consensus pattern (17 bp):
CCCTAACCCATAAATCC
Found at i:46235909 original size:113 final size:114
Alignment explanation
Indices: 46235709--46236172 Score: 632
Period size: 113 Copynumber: 4.1 Consensus size: 114
46235699 TAAATTATTT
*
46235709 TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTAAGAAAAC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
* * * * *
46235774 GGCGCCGTTGGGCTTAGATTTTTTTGCAGCGGTTTCCCAAAAATGCCGT
66 GGCGCCGTTGGGCTTAGTTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * *
46235823 TAAATCCCTGAGCATTAGCGGC-ATTTCTTAAAATCGCTGCTAAATCCCCGAAAGCTCAGAAAAC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
* * * * *
46235887 GGTGCCGTTCGGCTTAGTTTTTTCTGCGGCGCTTTCCCAAAAACACTGC
66 GGCGCCGTTGGGCTTAGTTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * * *
46235936 TAAA-GCCTGAGCATTAGCGGCGCTTTCTTCAAAACGCTGTTAAATCCCCGATAA-CTCAGAAAA
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGA-AAGCTCAGAAAA
* * * *
46235999 TGGAGCCGTTGGGCTTAGTTTTTTTTTGCGGTGCTTCCCCAAAAACGCCGC
65 CGGCGCCGTTGGGCTTAG-TTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
* *
46236050 TAAAGCCCTGAGCATTAGCGGCGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
* * *
46236115 GGCGTCGTTGGGCTTAG--GTTTTTGCGGCGCTTTCTCAAAAACGCCGC
66 GGCGCCGTTGGGCTTAGTTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
46236162 TAAATCCCTGA
1 TAAATCCCTGA
46236173 AAGCTCAGCA
Statistics
Matches: 305, Mismatches: 40, Indels: 12
0.85 0.11 0.03
Matches are distributed among these distances:
112 52 0.17
113 130 0.43
114 57 0.19
115 66 0.22
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (114 bp):
TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
GGCGCCGTTGGGCTTAGTTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
Found at i:46236156 original size:71 final size:72
Alignment explanation
Indices: 46236067--46236239 Score: 242
Period size: 71 Copynumber: 2.4 Consensus size: 72
46236057 CTGAGCATTA
*
46236067 GCGGCGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGT-TGGGCTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTGT-GGCTTA
46236131 GG-TTTTT
65 GGTTTTTT
* * *
46236138 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAAAGCTCAGCAAACGGTGTCGTGTGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTGTGGCTTAG
46236203 GTTTTTTTT
66 G--TTTTTT
* * *
46236212 GCGGCGCTTCCCCAAAAACACCGCTAAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAA
46236240 GCCCTGAACA
Statistics
Matches: 91, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
71 60 0.66
72 1 0.01
74 30 0.33
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (72 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTGTGGCTTAG
GTTTTTT
Found at i:46236266 original size:186 final size:187
Alignment explanation
Indices: 46235952--46236356 Score: 593
Period size: 186 Copynumber: 2.2 Consensus size: 187
46235942 CTGAGCATTA
* * *
46235952 GCGGCGCTTTCTTC-AAAACGCTGTTAAATCCCCGATAACTCAGAAAATGGAGCCGTTGGGCTTA
1 GCGGCGCTTTC-TCAAAAACGCCGCTAAATCCCCGATAACTCAGAAAACGGAGCCGTTGGGCTTA
* * * *
46236016 GTTTTTTTTTGCGGTGCTTCCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTAA
65 GGTTTTTTTTGCGGCGCTTCCCCAAAAACACCGCTAAAGCCCTGAACATTAGCGGCGCTTTCTAA
**
46236081 AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG-TTTTT
130 AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGAAGTCGTTGGGCTTAGGTTTTTT
* * * *
46236138 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGA-AAGCTCAGCAAACGGTGTCG-TGTGGCTT
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGATAA-CTCAGAAAACGGAGCCGTTG-GGCTT
46236201 AGGTTTTTTTTGCGGCGCTTCCCCAAAAACACCGCTAAAGCCCTGAACATTAGCGGCGCTTTCTA
64 AGGTTTTTTTTGCGGCGCTTCCCCAAAAACACCGCTAAAGCCCTGAACATTAGCGGCGCTTTCTA
* * *
46236266 AAAAACGCCGCTAAATCCCCGAAAGCTTAGAAAATGAAGTCGTTTGGCTTAGGTTTTTTT
129 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGAAGTCGTTGGGCTTAGG-TTTTTT
*
46236326 GCGGTGCTTTCTCAAAAACGCCGCTAAATCC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCC
46236357 TTGAGCATTA
Statistics
Matches: 197, Mismatches: 17, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
185 6 0.03
186 156 0.79
188 35 0.18
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (187 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGATAACTCAGAAAACGGAGCCGTTGGGCTTAG
GTTTTTTTTGCGGCGCTTCCCCAAAAACACCGCTAAAGCCCTGAACATTAGCGGCGCTTTCTAAA
AAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGAAGTCGTTGGGCTTAGGTTTTTT
Found at i:46236275 original size:115 final size:114
Alignment explanation
Indices: 46236138--46236467 Score: 462
Period size: 114 Copynumber: 2.9 Consensus size: 114
46236128 TTAGGTTTTT
* * * * * *
46236138 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAAAGCTCAGCAAACGGTGTCGTGTGGCTTAG
1 GCGGCGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGAGTCGTTTGGCTTAG
* *
46236203 GTTTTTTTTGCGGCGCTTCCCCAAAAACACCGCTAAAGCCCTGAACATTA
66 G-TTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAACATTA
* *
46236253 GCGGCGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTTAGAAAATGAAGTCGTTTGGCTTAG
1 GCGGCGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGAGTCGTTTGGCTTAG
* * * * *
46236318 GTTTTTTTGCGGTGCTTTCTCAAAAACGCCGCTAAATCCTTGAGCATTA
66 GTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAACATTA
* * * *
46236367 GCGACGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTTGGCTTAG
1 GCGGCGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGAGTCGTTTGGCTTAG
* *
46236432 GTTTTTTTGCGGCGCTTTACCAAAAACGCCACTAAA
66 GTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAA
46236468 TCCCCGAAAG
Statistics
Matches: 190, Mismatches: 25, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
114 132 0.69
115 58 0.31
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (114 bp):
GCGGCGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGAGTCGTTTGGCTTAG
GTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAACATTA
Found at i:46236325 original size:300 final size:300
Alignment explanation
Indices: 46235846--46236539 Score: 961
Period size: 300 Copynumber: 2.3 Consensus size: 300
46235836 ATTAGCGGCA
* * * *
46235846 TTTCTTAAAATCGCTGCTAAATCCCCGAAAGCTCAGAAAACGGTGCCGTTCGGCTTA-GTTTTTT
1 TTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGTCGTT-GGCTTAGGTTTTTT
* * * ** *
46235910 CTGCGGCGCTTTCCCAAAAACACTGCTAAAGCCTGAGCATTAGCGGCGCTTTCTTCAAAACGCTG
65 TTGCGGCGCTTTCCCAAAAACACCGCTAAAGCCTGAACATTAGCGGCGCTTTCTAAAAAACGCCG
* * *
46235975 TTAAATCCCCGATAACTCAGAAAATGGAGCCGTTGGGCTTAGTTTTTTTTTGCGGTGCTTCCCCA
130 CTAAATCCCCGATAACTCAGAAAATGAAGCCGTTGGGCTTAGTGTTTTTTTGCGGTGCTTCCCCA
*
46236040 AAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAG
195 AAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAG
46236105 CTCAGAAAACGGCGTCGTTGGGCTTAGG-TTTTTGCGGCGC
260 CTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGC
* *
46236145 TTTCTCAAAAACGCCGCTAAATCCCTGAAAGCTCAGCAAACGGTGTCGTGTGGCTTAGGTTTTTT
1 TTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGTCGT-TGGCTTAGGTTTTTT
*
46236210 TTGCGGCGCTTCCCCAAAAACACCGCTAAAGCCCTGAACATTAGCGGCGCTTTCTAAAAAACGCC
65 TTGCGGCGCTTTCCCAAAAACACCGCTAAAG-CCTGAACATTAGCGGCGCTTTCTAAAAAACGCC
* * * * *
46236275 GCTAAATCCCCGA-AAGCTTAGAAAATGAAGTCGTTTGGCTTAG-GTTTTTTTGCGGTGCTTTCT
129 GCTAAATCCCCGATAA-CTCAGAAAATGAAGCCGTTGGGCTTAGTGTTTTTTTGCGGTGCTTCCC
* * * *
46236338 CAAAAACGCCGCTAAATCCTTGAGCATTAGCGACGCTTTCTTAAAAATGCCGCTAAATCCCCGAA
193 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTAAAAAACGCCGCTAAATCCCCGAA
* *
46236403 AGCTCAGAAAATGGCGTCGTTTGGCTTAGGTTTTTTTGCGGCGC
258 AGCTCAGAAAACGGCGTCGTTGGGCTTAGG-TTTTTTGCGGCGC
* * * *
46236447 TTTAC-CAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAATGGTGTTGTTTGGCTTAGG--TTT
1 TTT-CTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGTCG-TTGGCTTAGGTTTTT
** *
46236509 TTTGCGGCGCTTTATCAAAAACACCACTAAA
64 TTTGCGGCGCTTTCCCAAAAACACCGCTAAA
46236540 TCCCCGAAAG
Statistics
Matches: 349, Mismatches: 38, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
299 49 0.14
300 173 0.50
301 64 0.18
302 61 0.17
303 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (300 bp):
TTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGTCGTTGGCTTAGGTTTTTTT
TGCGGCGCTTTCCCAAAAACACCGCTAAAGCCTGAACATTAGCGGCGCTTTCTAAAAAACGCCGC
TAAATCCCCGATAACTCAGAAAATGAAGCCGTTGGGCTTAGTGTTTTTTTGCGGTGCTTCCCCAA
AAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGC
TCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGC
Found at i:46236498 original size:73 final size:73
Alignment explanation
Indices: 46236371--46236616 Score: 368
Period size: 73 Copynumber: 3.4 Consensus size: 73
46236361 GCATTAGCGA
* * * * * * *
46236371 CGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTTGGCTTAGGTTT
1 CGCTTTATCAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAATGGTGTTGTTTGGCTTAGGTTT
46236436 TTTTGCGG
66 TTTTGCGG
*
46236444 CGCTTTACCAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAATGGTGTTGTTTGGCTTAGG-TT
1 CGCTTTATCAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAATGGTGTTGTTTGGCTTAGGTTT
46236508 TTTTGCGG
66 TTTTGCGG
* *
46236516 CGCTTTATCAAAAACACCACTAAATCCCCGAAAGCTCAAAAAATGGTATTGTTTGGCTTAGGTTT
1 CGCTTTATCAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAATGGTGTTGTTTGGCTTAGGTTT
*
46236581 TTTAGCGG
66 TTTTGCGG
* *
46236589 CGATTTATCAAAAACGCCGCTAAATCCC
1 CGCTTTATCAAAAACGCCACTAAATCCC
46236617 TGAGCATTAG
Statistics
Matches: 157, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
72 69 0.44
73 88 0.56
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (73 bp):
CGCTTTATCAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAATGGTGTTGTTTGGCTTAGGTTT
TTTTGCGG
Found at i:46236612 original size:259 final size:259
Alignment explanation
Indices: 46236253--46236730 Score: 706
Period size: 259 Copynumber: 1.8 Consensus size: 259
46236243 CTGAACATTA
* * * * *
46236253 GCGGCGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTTAGAAAATGAAGTCGTTTGGCTTAG
1 GCGGCGCTTTATAAAAAACACCACTAAATCCCCGAAAGCTCAAAAAATGAAGTCGTTTGGCTTAG
* * * * * *
46236318 GTTTTTTTGCGGTGCTTTCTCAAAAACGCCGCTAAATCCTTGAGCATTAGCGACGCTTTCTTAAA
66 GTTTTTTAGCGGCGATTTATCAAAAACGCCGCTAAATCCCTGAGCATTAGCGACACTTTCTTAAA
** * * * *
46236383 AATGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTTGGCTTAGGTTTTTTTGCGGCGCT
131 AACACCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTTGGCGTAGGGTTTTTTGCGGCGCT
46236448 TTACCAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAATGGTGTTGTTTGGCTTAGGTTTTTT
196 TTACCAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAATGGTGTTGTTTGGCTTAGGTTTTTT
* * *
46236512 GCGGCGCTTTATCAAAAACACCACTAAATCCCCGAAAGCTCAAAAAATGGTA-TTGTTTGGCTTA
1 GCGGCGCTTTATAAAAAACACCACTAAATCCCCGAAAGCTCAAAAAAT-GAAGTCGTTTGGCTTA
*
46236576 GGTTTTTTAGCGGCGATTTATCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCACTTTCTTAA
65 GGTTTTTTAGCGGCGATTTATCAAAAACGCCGCTAAATCCCTGAGCATTAGCGACACTTTCTTAA
* *
46236641 AAACACCGCTAAATCTCCGAAAGCTCAAAAAACGGCGTTGTTTGGCGTAGGGTTTTTTGCGGCGC
130 AAACACCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTTGGCGTAGGGTTTTTTGCGGCGC
* * *
46236706 TTTATCAAAAACGTCGCTAAATCCC
195 TTTACCAAAAACGCCACTAAATCCC
46236731 TGAGCATTAG
Statistics
Matches: 192, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
259 190 0.99
260 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (259 bp):
GCGGCGCTTTATAAAAAACACCACTAAATCCCCGAAAGCTCAAAAAATGAAGTCGTTTGGCTTAG
GTTTTTTAGCGGCGATTTATCAAAAACGCCGCTAAATCCCTGAGCATTAGCGACACTTTCTTAAA
AACACCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTTGGCGTAGGGTTTTTTGCGGCGCT
TTACCAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAATGGTGTTGTTTGGCTTAGGTTTTTT
Found at i:46236652 original size:373 final size:372
Alignment explanation
Indices: 46236067--46236838 Score: 983
Period size: 373 Copynumber: 2.1 Consensus size: 372
46236057 CTGAGCATTA
* *
46236067 GCGGCGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
1 GCGGCGCTTTCTAAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAG
* * * * ** *
46236132 GTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAAAGCTCAGCAAACGGTGTCGTGTG
66 GTTTTTGCGGCGCTTTATCAAAAACACCACTAAATCCCCGAAAGCTCAAAAAACGGTATCGTGTG
* * * *
46236197 GCTTAGGTTTTTTTTGCGGCGCTTCCCCAAAAACACCGCTAAAGCCCTGAACATTAGCGGCGCTT
131 GCTTAGGTTTTTTTAGCGGCGATTCACCAAAAACACCGCTAAAGCCCTGAACATTAGCGGCACTT
* * * * * *
46236262 TCTAAAAAACGCCGCTAAATCCCCGAAAGCTTAGAAAATGAAGTCGTTTGGCTTAGGTTTTTTTG
196 TCTAAAAAACACCGCTAAATCCCCGAAAGCTCAAAAAACGAAGTCGTTTGGCGTAGGGTTTTTTG
* * * **
46236327 CGGTGCTTTCTCAAAAACGCCGCTAAATCCTTGAGCATTAGC-GACGCTTTCTTAAAAATGCCGC
261 CGGCGCTTTATCAAAAACGCCGCTAAATCCCTGAGCATTAGCAG-CGCTTTCTTAAAAACACCGC
* ** * *
46236391 TAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTTGGCTTAGGTTTTTTT
325 TAAATCCCCGAAAACTCAGAAAACAGCGTCATTGGGCTTAGG-TTTTTT
* * * * *
46236440 GCGGCGCTTTAC-CAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAATGGTGTTGTTTGGCTTA
1 GCGGCGCTTT-CTAAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTA
* * *
46236504 GGTTTTTTGCGGCGCTTTATCAAAAACACCACTAAATCCCCGAAAGCTCAAAAAATGGTATTGTT
65 GG-TTTTTGCGGCGCTTTATCAAAAACACCACTAAATCCCCGAAAGCTCAAAAAACGGTATCGTG
* * * * *
46236569 TGGCTTAGG-TTTTTTAGCGGCGATTTATCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCAC
129 TGGCTTAGGTTTTTTTAGCGGCGATTCACCAAAAACACCGCTAAAGCCCTGAACATTAGCGGCAC
* * ** *
46236633 TTTCTTAAAAACACCGCTAAATCTCCGAAAGCTCAAAAAACGGCGTTGTTTGGCGTAGGGTTTTT
194 TTTCTAAAAAACACCGCTAAATCCCCGAAAGCTCAAAAAACGAAGTCGTTTGGCGTAGGGTTTTT
*
46236698 TGCGGCGCTTTATCAAAAACGTCGCTAAATCCCTGAGCATTAGCAGCGCTTTCTTAAAAACACCG
259 TGCGGCGCTTTATCAAAAACGCCGCTAAATCCCTGAGCATTAGCAGCGCTTTCTTAAAAACACCG
* * * * *
46236763 CTAAATCTCTGAAAACTCGGTAAACAGTGTCATTGGGCTTAGGTTTTTT
324 CTAAATCCCCGAAAACTCAGAAAACAGCGTCATTGGGCTTAGGTTTTTT
** *
46236812 GCGGCGCTTTCTGGAAAACGCCGCTAA
1 GCGGCGCTTTCTAAAAAACGCCACTAA
46236839 TTCTTATTTT
Statistics
Matches: 339, Mismatches: 56, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
371 1 0.00
372 28 0.08
373 247 0.73
374 63 0.19
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (372 bp):
GCGGCGCTTTCTAAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAG
GTTTTTGCGGCGCTTTATCAAAAACACCACTAAATCCCCGAAAGCTCAAAAAACGGTATCGTGTG
GCTTAGGTTTTTTTAGCGGCGATTCACCAAAAACACCGCTAAAGCCCTGAACATTAGCGGCACTT
TCTAAAAAACACCGCTAAATCCCCGAAAGCTCAAAAAACGAAGTCGTTTGGCGTAGGGTTTTTTG
CGGCGCTTTATCAAAAACGCCGCTAAATCCCTGAGCATTAGCAGCGCTTTCTTAAAAACACCGCT
AAATCCCCGAAAACTCAGAAAACAGCGTCATTGGGCTTAGGTTTTTT
Found at i:46236712 original size:114 final size:113
Alignment explanation
Indices: 46236525--46236838 Score: 412
Period size: 114 Copynumber: 2.8 Consensus size: 113
46236515 GCGCTTTATC
* * * *
46236525 AAAAACACCACTAAATCCCCGAAAGCTCAAAAAATGGTATTGTTTGGCTTAGGTTTTTTAGCGGC
1 AAAAACACCGCTAAATCTCCGAAAGCTCAAAAAACGGTGTTGTTTGGCTTAGGTTTTTT-GCGGC
* *
46236590 GATTTATCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCACTTTCTT
65 GCTTTATCAAAAACGCCGCTAAATCCCTGAGCATTAGCAGCACTTTCTT
* *
46236639 AAAAACACCGCTAAATCTCCGAAAGCTCAAAAAACGGCGTTGTTTGGCGTAGGGTTTTTTGCGGC
1 AAAAACACCGCTAAATCTCCGAAAGCTCAAAAAACGGTGTTGTTTGGCTTA-GGTTTTTTGCGGC
* *
46236704 GCTTTATCAAAAACGTCGCTAAATCCCTGAGCATTAGCAGCGCTTTCTT
65 GCTTTATCAAAAACGCCGCTAAATCCCTGAGCATTAGCAGCACTTTCTT
* * *** * ** *
46236753 AAAAACACCGCTAAATCTCTGAAAACTCGGTAAACAGTGTCATTGGGCTTAGGTTTTTTGCGGCG
1 AAAAACACCGCTAAATCTCCGAAAGCTCAAAAAACGGTGTTGTTTGGCTTAGGTTTTTTGCGGCG
* **
46236818 CTTTCTGGAAAACGCCGCTAA
66 CTTTATCAAAAACGCCGCTAA
46236839 TTCTTATTTT
Statistics
Matches: 174, Mismatches: 25, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
113 31 0.18
114 135 0.78
115 8 0.05
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (113 bp):
AAAAACACCGCTAAATCTCCGAAAGCTCAAAAAACGGTGTTGTTTGGCTTAGGTTTTTTGCGGCG
CTTTATCAAAAACGCCGCTAAATCCCTGAGCATTAGCAGCACTTTCTT
Found at i:46245058 original size:20 final size:20
Alignment explanation
Indices: 46245024--46245065 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
46245014 TACTATTTAA
** *
46245024 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
46245044 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
46245064 AT
1 AT
46245066 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:46246076 original size:32 final size:32
Alignment explanation
Indices: 46246004--46246081 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 32
46245994 CAGCTATTTT
* * *
46246004 TGTTCACACCTAATGGACCGTCCAACTCTTGA
1 TGTTCACACCCAAGGGACCGTCCAACTCATGA
* *
46246036 TGTCCACACCCAAGGGACCGTCCAAGTCCAT-A
1 TGTTCACACCCAAGGGACCGTCCAACT-CATGA
46246068 TGTTCACA-CCAAGG
1 TGTTCACACCCAAGG
46246082 ACTTTTTAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
31 6 0.15
32 31 0.79
33 2 0.05
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (32 bp):
TGTTCACACCCAAGGGACCGTCCAACTCATGA
Found at i:46257923 original size:255 final size:255
Alignment explanation
Indices: 46257472--46257978 Score: 937
Period size: 255 Copynumber: 2.0 Consensus size: 255
46257462 GTCCATTCTA
46257472 ACCCAAGCTCCTATATTGATTCAACCTAAGTCGAGTAAGGAGTTTGTGGTGTACAGCGATGCTTC
1 ACCCAAGCTCCTATATTGATTCAACCTAAGTCGAGTAAGGAGTTTGTGGTGTACAGCGATGCTTC
* *
46257537 ACACTTCGATTTGAGATATGTTCTGATGTAGGATGGTAAAGTGGTAGCTTATGCGCCGGTAACTA
66 ACACTTCGATTTAAGATATGTTCTGATGTAGGATGGTAAAGTGGTAGCTTATGCACCGGTAACTA
*
46257602 TCCTACTCATGATTTTGAGCTAGGTGCAGTCATGTTCACTCTGAAATTCTGGATGCACTACCTGT
131 TCCTACTCATGATTTTGAGCTAGGTGCAGTCATGTTCACTCTGAAAATCTGGATGCACTACCTGT
*
46257667 ATGGTGAGAGGTATATCATTTACACCGACCACAACAGATTGATTCAAGTGAAACTTCCTG
196 ATGGTGAGAGGTATATCATTTACACCAACCACAACAGATTGATTCAAGTGAAACTTCCTG
46257727 ACCCAAGCTCCTATATTGATTCAACCTAAGTCGAGTAAGGAGTTT-TCGGTGTACAGCGATGCTT
1 ACCCAAGCTCCTATATTGATTCAACCTAAGTCGAGTAAGGAGTTTGT-GGTGTACAGCGATGCTT
46257791 CACACTTCGATTTAAGATATAG-TCTGATGTAGGATGGTAAAGTGGTAGCTTATGCACCGGTAAC
65 CACACTTCGATTTAAGATAT-GTTCTGATGTAGGATGGTAAAGTGGTAGCTTATGCACCGGTAAC
*
46257855 TATCCTACTCATGATTTTGAGCTAGGTGCAGTCATGTTCGCTCTGAAAATCTGGATGCACTACCT
129 TATCCTACTCATGATTTTGAGCTAGGTGCAGTCATGTTCACTCTGAAAATCTGGATGCACTACCT
46257920 GTATGGTGAGAGGTATATCATTTACACCAACCACAACAGATTGATTCAAGTGAAACTTC
194 GTATGGTGAGAGGTATATCATTTACACCAACCACAACAGATTGATTCAAGTGAAACTTC
46257979 ATATTTTAGT
Statistics
Matches: 245, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
254 1 0.00
255 243 0.99
256 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (255 bp):
ACCCAAGCTCCTATATTGATTCAACCTAAGTCGAGTAAGGAGTTTGTGGTGTACAGCGATGCTTC
ACACTTCGATTTAAGATATGTTCTGATGTAGGATGGTAAAGTGGTAGCTTATGCACCGGTAACTA
TCCTACTCATGATTTTGAGCTAGGTGCAGTCATGTTCACTCTGAAAATCTGGATGCACTACCTGT
ATGGTGAGAGGTATATCATTTACACCAACCACAACAGATTGATTCAAGTGAAACTTCCTG
Found at i:46264926 original size:28 final size:27
Alignment explanation
Indices: 46264894--46264992 Score: 112
Period size: 28 Copynumber: 3.6 Consensus size: 27
46264884 TTAATAAGTA
* *
46264894 CGCACACTTAGTGCTTAATAATCACACT
1 CGCACACTTAGTGCTT-ATAATTAAACT
*
46264922 CGCACACTTAGTGCTT-TACCATTATACT
1 CGCACACTTAGTGCTTATA--ATTAAACT
46264950 CGCACACTTAGTGCATT-TCAATTAAACT
1 CGCACACTTAGTGC-TTAT-AATTAAACT
46264978 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46264993 AATCTCATTA
Statistics
Matches: 64, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
26 2 0.03
27 1 0.02
28 57 0.89
29 3 0.05
30 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.31
Consensus pattern (27 bp):
CGCACACTTAGTGCTTATAATTAAACT
Found at i:46269035 original size:45 final size:45
Alignment explanation
Indices: 46268936--46269057 Score: 122
Period size: 45 Copynumber: 2.7 Consensus size: 45
46268926 ATACGTTTAG
* *
46268936 AGATGAATAAGACCATAGCTGAAAGATGCTATGGTATCACGCTAA
1 AGATGAATAAGACCATAGCTGAAAGATGCTATGGCATCACGATAA
** * *
46268981 AGACCAATAAGACCATAGTTGAAAGATGCTATGGCGTCATC-ATATA
1 AGATGAATAAGACCATAGCTGAAAGATGCTATGGCATCA-CGATA-A
* * * *
46269027 A-ATGAATAAGATCATGGCTAAAAGACGCTAT
1 AGATGAATAAGACCATAGCTGAAAGATGCTAT
46269058 AACATCCTTT
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
45 59 0.95
46 3 0.05
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (45 bp):
AGATGAATAAGACCATAGCTGAAAGATGCTATGGCATCACGATAA
Found at i:46269372 original size:27 final size:27
Alignment explanation
Indices: 46269342--46269406 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
46269332 GATGACACAT
* *
46269342 TAAACATGGGATAGT-CTGTTAGGACAC
1 TAAACATGGGATAGTCCTCTT-GGACAA
*
46269369 TAAAC-TCGGGGTAGTCCTCTTGGACAA
1 TAAACAT-GGGATAGTCCTCTTGGACAA
46269396 TAAACATGGGA
1 TAAACATGGGA
46269407 GATTATGAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
26 1 0.03
27 25 0.81
28 5 0.16
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (27 bp):
TAAACATGGGATAGTCCTCTTGGACAA
Found at i:46274699 original size:13 final size:13
Alignment explanation
Indices: 46274681--46274705 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46274671 ATTTCATTTT
46274681 TTCAATTTCAATA
1 TTCAATTTCAATA
46274694 TTCAATTTCAAT
1 TTCAATTTCAAT
46274706 GTTTTACCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (13 bp):
TTCAATTTCAATA
Found at i:46275073 original size:30 final size:30
Alignment explanation
Indices: 46275039--46275111 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
46275029 TACATGTTAA
*
46275039 CATATTCATACCATGT-ATCATTCACATTTG
1 CATATTCATACC-TGTAATCAGTCACATTTG
* *
46275069 CATA-TCATACTCTGTAATTAGTCACATTTT
1 CATATTCATAC-CTGTAATCAGTCACATTTG
*
46275099 CATTTTCATACCT
1 CATATTCATACCT
46275112 TATAATCATC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 9 0.25
30 21 0.58
31 6 0.17
ACGTcount: A:0.29, C:0.23, G:0.05, T:0.42
Consensus pattern (30 bp):
CATATTCATACCTGTAATCAGTCACATTTG
Found at i:46277547 original size:20 final size:22
Alignment explanation
Indices: 46277522--46277564 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
46277512 GAAATGAATA
46277522 AAAATTTTA-AAA-CATAAATT
1 AAAATTTTATAAATCATAAATT
*
46277542 AAAATTTTATAAATTATAAATT
1 AAAATTTTATAAATCATAAATT
46277564 A
1 A
46277565 TAATACATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 3 0.15
22 8 0.40
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTTTATAAATCATAAATT
Found at i:46279506 original size:50 final size:49
Alignment explanation
Indices: 46279358--46279507 Score: 131
Period size: 50 Copynumber: 3.0 Consensus size: 49
46279348 CGTAACTATG
* * * *
46279358 ATGTCAGGGAAGCAAGATTCGCCATTGTAGCTTTAATCTAT-TCCGCTGCA
1 ATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTTAAT-T-TCTCCACTACA
* * * * * * **
46279408 TTATCTGGGAAGTAAGATTCACTGTTGTAGCTTTACTCTTCTGGACTACA
1 ATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTTAAT-TTCTCCACTACA
* *
46279458 ATGTCGGGGAAGTAAGATTCGCCGTTGTGGCTTTAATTTGCTCCACTACA
1 ATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTTAATTT-CTCCACTACA
46279508 TTATCTGGGA
Statistics
Matches: 77, Mismatches: 21, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
49 3 0.04
50 74 0.96
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (49 bp):
ATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTTAATTTCTCCACTACA
Found at i:46279832 original size:175 final size:173
Alignment explanation
Indices: 46279552--46279870 Score: 460
Period size: 175 Copynumber: 1.8 Consensus size: 173
46279542 TATTCCATTC
* * * *
46279552 TAATCTCAGGGAGATAAGACCTGATACGATCTGCTCTACTGTAACTTTAGAGATAAGATCCTTTA
1 TAATCTCAGGGAGATAAAACCTGATACGATCTACTCTACTGTAACTTGAGAGATAAAATCCTTTA
* * *
46279617 TTTTAATCCGCTCCACTATAATCTCAAAGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAA
66 GTTTAATCCGCTCCACTATAATCTCAAAGAAATAGGATTACTAGCTTCAATCTGCTCCGCTATAA
46279682 TCTC-AGGAAGATAATATCTGAAATTCTTCTGTTTATTCAACTA
131 TCTCAAGG-AGATAATATCTGAAATTCTTCTGTTTATTCAACTA
* *
46279725 TAATCTCAGGGAGATAAAACCTGATGCGATCTACTCTACTGTAGCTTCAGAGAGATAAAATCCTT
1 TAATCTCAGGGAGATAAAACCTGATACGATCTACTCTACTGTAACTT--GAGAGATAAAATCCTT
* * * ** * *
46279790 TAGTTTAATCCGTTCCATTGTAATCTCAGGGAAATAGGATTACTGGCTTTAATCTGCTCCGCTAT
64 TAGTTTAATCCGCTCCACTATAATCTCAAAGAAATAGGATTACTAGCTTCAATCTGCTCCGCTAT
46279855 AATCTCAAGGAGATAA
129 AATCTCAAGGAGATAA
46279871 GATTCACCAT
Statistics
Matches: 127, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
173 43 0.34
175 81 0.64
176 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (173 bp):
TAATCTCAGGGAGATAAAACCTGATACGATCTACTCTACTGTAACTTGAGAGATAAAATCCTTTA
GTTTAATCCGCTCCACTATAATCTCAAAGAAATAGGATTACTAGCTTCAATCTGCTCCGCTATAA
TCTCAAGGAGATAATATCTGAAATTCTTCTGTTTATTCAACTA
Found at i:46293984 original size:25 final size:25
Alignment explanation
Indices: 46293956--46294003 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46293946 TTGAACAATC
46293956 TTATCATTTAAAAAAATATATATCA
1 TTATCATTTAAAAAAATATATATCA
* * *
46293981 TTATCTTTTCAAAATATATATAT
1 TTATCATTTAAAAAAATATATAT
46294004 ATGATACTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (25 bp):
TTATCATTTAAAAAAATATATATCA
Found at i:46294061 original size:13 final size:15
Alignment explanation
Indices: 46294035--46294066 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
46294025 CATTGTATGC
46294035 ATTTCCCACCATC-T
1 ATTTCCCACCATCTT
46294049 ATTTCCC-CCATCTT
1 ATTTCCCACCATCTT
46294063 ATTT
1 ATTT
46294067 GGTTCAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.19, C:0.38, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTTCCCACCATCTT
Found at i:46304046 original size:17 final size:17
Alignment explanation
Indices: 46304021--46304054 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
46304011 GAAAGAGTAG
* *
46304021 TAATTTTTAATTTTTTA
1 TAATATTTAATATTTTA
46304038 TAATATTTAATATTTTA
1 TAATATTTAATATTTTA
46304055 AAAAAAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TAATATTTAATATTTTA
Found at i:46305481 original size:13 final size:14
Alignment explanation
Indices: 46305456--46305484 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
46305446 AATATGAAAG
46305456 TTTAAATATTTAAT
1 TTTAAATATTTAAT
46305470 TTTAAA-ATTTAAT
1 TTTAAATATTTAAT
46305483 TT
1 TT
46305485 CAATATTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTAAATATTTAAT
Found at i:46307243 original size:17 final size:19
Alignment explanation
Indices: 46307220--46307261 Score: 70
Period size: 17 Copynumber: 2.3 Consensus size: 19
46307210 GTTCGCATTC
46307220 AGTTCGTATT-CATATAAG
1 AGTTCGTATTGCATATAAG
46307238 -GTTCGTATTGCATATAAG
1 AGTTCGTATTGCATATAAG
46307256 AGTTCG
1 AGTTCG
46307262 CATACCTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 8 0.36
19 5 0.23
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (19 bp):
AGTTCGTATTGCATATAAG
Found at i:46308444 original size:91 final size:92
Alignment explanation
Indices: 46308287--46308460 Score: 314
Period size: 91 Copynumber: 1.9 Consensus size: 92
46308277 GTTGCTGCAG
* *
46308287 GGAACTAGTGGAATGAGTATTTAGGATCCAAGTTTGAAGATAAGAGCTTTGCTTGTGAGTTTTTC
1 GGAACTAGTGGAATGAGTATTTAGGATCCAAGTTTGAAGACAAGAGCTTTGCTTGTGAGTTGTTC
46308352 TCTAGTAACT-AAACCCTAAACCCTAA
66 TCTAGTAACTAAAACCCTAAACCCTAA
*
46308378 GGAACTAGTGGAATGAGTATTTATGATCCAAGTTTGAAGACAAGAGCTTTGCTTGTGAGTTGTTC
1 GGAACTAGTGGAATGAGTATTTAGGATCCAAGTTTGAAGACAAGAGCTTTGCTTGTGAGTTGTTC
46308443 TCTAGTAACTAAAACCCT
66 TCTAGTAACTAAAACCCT
46308461 TCAAGTTGCA
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 72 0.91
92 7 0.09
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (92 bp):
GGAACTAGTGGAATGAGTATTTAGGATCCAAGTTTGAAGACAAGAGCTTTGCTTGTGAGTTGTTC
TCTAGTAACTAAAACCCTAAACCCTAA
Found at i:46314483 original size:121 final size:114
Alignment explanation
Indices: 46314252--46314489 Score: 334
Period size: 121 Copynumber: 2.0 Consensus size: 114
46314242 TCGTAAGTCT
*
46314252 CTAAGGGCTCCTTTAGATGGGTGTTTACCTCTAGTGCGGTGCATTTAGTTTTTTTTTGTCTCACG
1 CTAAGGGCTCCTTTAGATGGGTGTATACCTCTAGTGCGGTGCATTTAGTTTTTTTTTGTCTCACG
* * *
46314317 TTACAGTATGGTTATAGTATCTAATCTCATCGCCACAACAGTTTTTACA
66 CTACAATATGGCTATAGTATCTAATCTCATCGCCACAACAGTTTTTACA
* *
46314366 CTAAGGGCTCCTTTAGATGGGTGTATACCTCTAGTGTGGTGCGTTTAGTTTCTTTTTTTTTTTTG
1 CTAAGGGCTCCTTTAGATGGGTGTATACCTCTAGTGCGGTGCATTTAG-------TTTTTTTTTG
*
46314431 TCTCACGCTATAATATGGCTATAGTATCTAATCTCATCGCCACAACTA-TTTTTACA
59 TCTCACGCTACAATATGGCTATAGTATCTAATCTCATCGCCACAAC-AGTTTTTACA
46314487 CTA
1 CTA
46314490 GCCGCAGGTA
Statistics
Matches: 109, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
114 45 0.41
121 63 0.58
122 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (114 bp):
CTAAGGGCTCCTTTAGATGGGTGTATACCTCTAGTGCGGTGCATTTAGTTTTTTTTTGTCTCACG
CTACAATATGGCTATAGTATCTAATCTCATCGCCACAACAGTTTTTACA
Found at i:46316328 original size:12 final size:12
Alignment explanation
Indices: 46316311--46316336 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46316301 CTTTTCCCTT
46316311 CCATCGGTTCTG
1 CCATCGGTTCTG
46316323 CCATCGGTTCTG
1 CCATCGGTTCTG
46316335 CC
1 CC
46316337 GTCGCTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.38, G:0.23, T:0.31
Consensus pattern (12 bp):
CCATCGGTTCTG
Found at i:46319207 original size:18 final size:17
Alignment explanation
Indices: 46319185--46319319 Score: 86
Period size: 18 Copynumber: 8.0 Consensus size: 17
46319175 AATACTAAGA
46319185 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
46319202 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
* *
46319218 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
46319232 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* * *
46319251 AGTATTA-TATATTAT-G
1 A-TTTTATTAAATTATAT
*
46319267 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
46319285 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
46319302 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
46319320 TTAATAATAA
Statistics
Matches: 90, Mismatches: 15, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 8 0.09
16 10 0.11
17 18 0.20
18 41 0.46
19 2 0.02
20 3 0.03
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:46319517 original size:39 final size:41
Alignment explanation
Indices: 46319464--46319569 Score: 108
Period size: 44 Copynumber: 2.5 Consensus size: 41
46319454 TTTCCTTATA
* * * *
46319464 CTATTACACTTCTATTCCATTCAACCAAACACAAGAA-TAT
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
*
46319504 C-ATTATGCCTCTATTCCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTC---T--ATTCCATTCAACCAAACAAAAGAATTAC
46319549 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
46319570 ACGCATCTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
39 7 0.13
40 1 0.02
41 8 0.15
42 1 0.02
43 1 0.02
44 23 0.43
45 3 0.06
46 9 0.17
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.32
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:46319544 original size:44 final size:46
Alignment explanation
Indices: 46319477--46319569 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 46
46319467 TTACACTTCT
* * *
46319477 ATTCCATTCAACCAAACACAAGAA-TATC-ATTATGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
46319521 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
46319567 ATT
1 ATT
46319570 ACGCATCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.37, C:0.29, G:0.04, T:0.30
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:46319585 original size:32 final size:32
Alignment explanation
Indices: 46319549--46319620 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
46319539 AAAGAATTAC
* *
46319549 CTATTACGCCTCTATTCCATTACGCATCTATT
1 CTATTACACCTCTATTCCATTACACATCTATT
* *
46319581 CTATTACACTTCTATTCCATTACACCTCTATT
1 CTATTACACCTCTATTCCATTACACATCTATT
*
46319613 ATATTACA
1 CTATTACA
46319621 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.26, C:0.29, G:0.03, T:0.42
Consensus pattern (32 bp):
CTATTACACCTCTATTCCATTACACATCTATT
Found at i:46319618 original size:16 final size:16
Alignment explanation
Indices: 46319549--46319620 Score: 81
Period size: 16 Copynumber: 4.5 Consensus size: 16
46319539 AAAGAATTAC
*
46319549 CTATTACGCCTCTATT
1 CTATTACACCTCTATT
* * *
46319565 CCATTACGCATCTATT
1 CTATTACACCTCTATT
*
46319581 CTATTACACTTCTATT
1 CTATTACACCTCTATT
*
46319597 CCATTACACCTCTATT
1 CTATTACACCTCTATT
*
46319613 ATATTACA
1 CTATTACA
46319621 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.26, C:0.29, G:0.03, T:0.42
Consensus pattern (16 bp):
CTATTACACCTCTATT
Found at i:46320306 original size:22 final size:22
Alignment explanation
Indices: 46320281--46320322 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
46320271 AAGATTTGTG
* *
46320281 TGTTTTATTATTGTTTTTATGA
1 TGTTTTATAATAGTTTTTATGA
46320303 TGTTTTATAATAGTTTTTAT
1 TGTTTTATAATAGTTTTTAT
46320323 ATTTAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (22 bp):
TGTTTTATAATAGTTTTTATGA
Found at i:46320482 original size:116 final size:114
Alignment explanation
Indices: 46320347--46320627 Score: 334
Period size: 116 Copynumber: 2.4 Consensus size: 114
46320337 TTTTATAATG
* * * *
46320347 TTTTTTAGATTTAAGTTTGTATTAAATGTATGGTTAATTTGTTTTATTAATGTTATTGTTGTATC
1 TTTTTTAGATTTAAGTTTGTATT-AAGGTATGATTAATTTATTTTATTAATGTTATTGTGGTATC
46320412 TTATA-TAAGTTTTTTTCGTATTCAAGGGAAATGATATTTTTT-TTGTTGTGT
65 TTATATTAA--TTTTTT-GTATTCAAGGGAAATGATATTTTTTGTTGTTGTGT
* *
46320463 TTTTTTAGTTTTATA-TTTGTATTGAAGGTATGATTAATTTATTTTATTAATGTTTTTGTGGTAT
1 TTTTTTAGATTTA-AGTTTGTATT-AAGGTATGATTAATTTATTTTATTAATGTTATTGTGGTAT
***** *
46320527 CTTATATTAATTTTTTGTATTTTCTTGAAATGTTATTTTTTGTTGTTGTGT
64 CTTATATTAATTTTTTGTATTCAAGGGAAATGATATTTTTTGTTGTTGTGT
* * * * *
46320578 TTTATTAGCTTTAAGTTTGTATTTAGGTTTGATTAATTTTTTTTATTAAT
1 TTTTTTAGATTTAAGTTTGTATTAAGGTATGATTAATTTATTTTATTAAT
46320628 ATGGGTAAGA
Statistics
Matches: 143, Mismatches: 18, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
114 44 0.31
115 34 0.24
116 61 0.43
117 4 0.03
ACGTcount: A:0.23, C:0.02, G:0.15, T:0.60
Consensus pattern (114 bp):
TTTTTTAGATTTAAGTTTGTATTAAGGTATGATTAATTTATTTTATTAATGTTATTGTGGTATCT
TATATTAATTTTTTGTATTCAAGGGAAATGATATTTTTTGTTGTTGTGT
Found at i:46320779 original size:22 final size:22
Alignment explanation
Indices: 46320725--46320779 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
46320715 ATTTGGGGAA
46320725 TTGTGTTTATTAATATAATTAAT
1 TTGT-TTTATTAATATAATTAAT
* *
46320748 TTGTTATATTAAT-TAATTTAT
1 TTGTTTTATTAATATAATTAAT
*
46320769 TATTTTTTATT
1 T-TGTTTTATT
46320780 CAAGTTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 8 0.30
22 15 0.56
23 4 0.15
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (22 bp):
TTGTTTTATTAATATAATTAAT
Found at i:46325132 original size:25 final size:25
Alignment explanation
Indices: 46325111--46325157 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
46325101 TTTTATATTA
46325111 ATATTAATATTAAATAAATATAAGT
1 ATATTAATATTAAATAAATATAAGT
46325136 ATATTAATATTAAATAAA-ATAA
1 ATATTAATATTAAATAAATATAA
46325158 AAATTTATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
ATATTAATATTAAATAAATATAAGT
Found at i:46325554 original size:16 final size:17
Alignment explanation
Indices: 46325521--46325555 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46325511 TTCATTATTC
*
46325521 AATTTTTAATTATTTAT
1 AATTTTTAATTATATAT
46325538 AATTTTTAA-TATATAT
1 AATTTTTAATTATATAT
46325554 AA
1 AA
46325556 AACTACGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
AATTTTTAATTATATAT
Found at i:46332373 original size:7 final size:7
Alignment explanation
Indices: 46332356--46332388 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
46332346 AATTTAAAAA
46332356 AAAAGATG
1 AAAA-ATG
46332364 AAAAATG
1 AAAAATG
46332371 -AAAATG
1 AAAAATG
46332377 AAAAATG
1 AAAAATG
46332384 AAAAA
1 AAAAA
46332389 ATAAAAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.25
7 14 0.58
8 4 0.17
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:46332377 original size:13 final size:13
Alignment explanation
Indices: 46332361--46332387 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46332351 AAAAAAAAAG
46332361 ATGAAAAATGAAA
1 ATGAAAAATGAAA
46332374 ATGAAAAATGAAA
1 ATGAAAAATGAAA
46332387 A
1 A
46332388 AATAAAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:46332401 original size:14 final size:15
Alignment explanation
Indices: 46332355--46332395 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
46332345 GAATTTAAAA
46332355 AAAAAGATGAAAAATG
1 AAAAA-ATGAAAAATG
46332371 --AAAATGAAAAATG
1 AAAAAATGAAAAATG
46332384 AAAAAAT-AAAAA
1 AAAAAATGAAAAA
46332396 GTAAAATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 10 0.43
14 8 0.35
15 5 0.22
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAAAATGAAAAATG
Found at i:46333767 original size:131 final size:131
Alignment explanation
Indices: 46333598--46333961 Score: 629
Period size: 131 Copynumber: 2.8 Consensus size: 131
46333588 GTGAAATCAC
*
46333598 CACGTCCTATGTCCCTGACCAGCGGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAGCA
1 CACGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAGCA
* *
46333663 GTAGTGGAGCAGATCCAAGACGGCAAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCC
66 GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCC
46333728 A
131 A
*
46333729 CACGTACTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAGCA
1 CACGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAGCA
*
46333794 GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTCAGGAGTAGGGAAACAGATTTAAGCC
66 GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCC
46333859 A
131 A
* * *
46333860 CACGTCCTATGTCCCTGACCAGTAGTGAAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCA
1 CACGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAGCA
* * *
46333925 ATAGTGGAGCAGATCGAAAATGGCGAATCTTATCTTC
66 GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTC
46333962 AAGTGTAAGG
Statistics
Matches: 221, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
131 221 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (131 bp):
CACGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCC
A
Found at i:46334176 original size:142 final size:142
Alignment explanation
Indices: 46333994--46334566 Score: 1011
Period size: 142 Copynumber: 4.0 Consensus size: 142
46333984 GCCACAGTAG
* * * *
46333994 ATCAGATTAAAGCCAGAAATCTTATCCCCCTAAGATTACAGCGGAGCAAATTGAAGCTAGTAATC
1 ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
* *
46334059 CTATCTCCCTGAGATTATAGTGGAGCGGATTAAAATAAAGGATCTTATATCTCTGAAGTTACAGT
66 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
*
46334124 AGAGTAGATCGT
131 AGAGTAGATCGC
*
46334136 ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC
1 ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
46334201 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
66 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
46334266 AGAGTAGATCGC
131 AGAGTAGATCGC
* *
46334278 ATCAGATTGAAGCTAGAAATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
*
46334343 TTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
66 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
*
46334408 AAAGTAGATCGC
131 AGAGTAGATCGC
*
46334420 ATCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
* *
46334485 CTATCTCCCTGAGATTACAGTAGAGCGGATTAAAATAAAGGATCTTATCTCCCTGAAGTTACAGT
66 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
46334550 AGAGTAGATCGC
131 AGAGTAGATCGC
46334562 ATCAG
1 ATCAG
46334567 GTCTTATCTC
Statistics
Matches: 413, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 413 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (142 bp):
ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
AGAGTAGATCGC
Found at i:46334206 original size:44 final size:44
Alignment explanation
Indices: 46334138--46334558 Score: 311
Period size: 44 Copynumber: 9.1 Consensus size: 44
46334128 TAGATCGTAT
*
46334138 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAG
* *
46334182 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAG
* ** *
46334226 CGGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G
* *
46334277 CATCAGATTGAAGCTAGAAATCTTATCTCCTTGAGATTACAGCGGAG
1 ---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAG
*
46334324 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAG
* ** *
46334368 CGGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAAAGTAGATCG
1 CAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G
*
46334419 CATCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 ---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAG
* * *
46334466 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTAGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAG
* ** *
46334510 CGGATT-AAAATA-AAGGATCTTATCTCCCTGA-AGTTACAGTAGAG
1 CAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTACAGTGGAG
*
46334554 TAGAT
1 CAGAT
46334559 CGCATCAGGT
Statistics
Matches: 303, Mismatches: 39, Indels: 70
0.74 0.09 0.17
Matches are distributed among these distances:
42 3 0.01
43 15 0.05
44 206 0.68
47 4 0.01
49 8 0.03
51 4 0.01
54 49 0.16
55 10 0.03
56 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAG
Found at i:46334219 original size:98 final size:94
Alignment explanation
Indices: 46334043--46334509 Score: 310
Period size: 98 Copynumber: 4.9 Consensus size: 94
46334033 AGCGGAGCAA
* * * * ** *
46334043 ATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAGTGGAGCGGATT-AAAATAAAGGATCTTAT
1 ATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT--AGAATCTTAT
* *
46334107 ATCTCTGA-AGTTACAGTAGAGTAGATCGTATCAG
64 CTCCCTGAGA-TTACAGTAGAG-AGA-CG-ATCAG
* *
46334141 ATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATC
1 ATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAG-AATCTTATC
46334206 TCCCTGAGATTACAGT-G-GAG-CG----G
65 TCCCTGAGATTACAGTAGAGAGACGATCAG
** *
46334229 ATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGC
1 ATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGC
* *
46334291 TAGAAATCTTATCTCCTTGAGATTAC---AGCG-GA-G--CAG
53 TAG-AATCTTATCTCCCTGAGATTACAGTAGAGAGACGATCAG
* * ** *
46334327 ATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAGGATCTTAT
1 ATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT--AGAATCTTAT
* *
46334391 CTCTCTGA-AGTTACAGTAAAGTAGATCGCATCAG
64 CTCCCTGAGA-TTACAGTAGAG-AGA-CG-ATCAG
* *
46334425 ATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
1 ATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAG-AATCTTATC
46334490 TCCCTGAGATTACAGTAGAG
65 TCCCTGAGATTACAGTAGAG
46334510 CGGATTAAAA
Statistics
Matches: 290, Mismatches: 39, Indels: 80
0.71 0.10 0.20
Matches are distributed among these distances:
86 2 0.01
87 8 0.03
88 47 0.16
89 2 0.01
91 4 0.01
93 8 0.03
95 5 0.02
96 4 0.01
97 6 0.02
98 190 0.66
99 13 0.04
100 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (94 bp):
ATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGAATCTTATCT
CCCTGAGATTACAGTAGAGAGACGATCAG
Found at i:46338827 original size:18 final size:19
Alignment explanation
Indices: 46338792--46338843 Score: 83
Period size: 18 Copynumber: 2.9 Consensus size: 19
46338782 AAAAATAAAA
46338792 TTTT-AAAACACGAGAATT
1 TTTTGAAAACACGAGAATT
46338810 TTTTGAAAACACGA-AATT
1 TTTTGAAAACACGAGAATT
46338828 TTTTG-AAACACGAGAA
1 TTTTGAAAACACGAGAA
46338844 AGTTGTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.25
18 15 0.47
19 9 0.28
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (19 bp):
TTTTGAAAACACGAGAATT
Found at i:46338844 original size:19 final size:18
Alignment explanation
Indices: 46338801--46338892 Score: 66
Period size: 19 Copynumber: 4.8 Consensus size: 18
46338791 ATTTTAAAAC
46338801 ACGAG-AATTTTTTGAAA
1 ACGAGAAATTTTTTGAAA
46338818 AC-ACGAAATTTTTTGAAA
1 ACGA-GAAATTTTTTGAAA
46338836 CACGAGAAAGTTGTTTTTTGAAA
1 -ACGAGAAA----TTTTTTGAAA
46338859 ATGCGA-AAATTTTTT-AAA
1 A--CGAGAAATTTTTTGAAA
46338877 GACGAGAAAGTTTTTT
1 -ACGAGAAA-TTTTTT
46338893 TTTTTAAAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 24
0.72 0.00 0.28
Matches are distributed among these distances:
16 1 0.02
17 6 0.10
18 18 0.29
19 19 0.31
20 1 0.02
22 1 0.02
23 13 0.21
24 3 0.05
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (18 bp):
ACGAGAAATTTTTTGAAA
Found at i:46338903 original size:42 final size:42
Alignment explanation
Indices: 46338808--46338895 Score: 126
Period size: 41 Copynumber: 2.1 Consensus size: 42
46338798 AACACGAGAA
**
46338808 TTTTTTGAAAACACG-AAATTTTTTGAAACACGAGAAAGTTG
1 TTTTTTGAAAATGCGAAAATTTTTTGAAACACGAGAAAGTTG
* *
46338849 TTTTTTGAAAATGCGAAAATTTTTT-AAAGACGAGAAAGTTT
1 TTTTTTGAAAATGCGAAAATTTTTTGAAACACGAGAAAGTTG
46338890 TTTTTT
1 TTTTTT
46338896 TTAAAATGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 33 0.79
42 9 0.21
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (42 bp):
TTTTTTGAAAATGCGAAAATTTTTTGAAACACGAGAAAGTTG
Found at i:46339056 original size:18 final size:18
Alignment explanation
Indices: 46339029--46339065 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
46339019 CGTGATTCTA
* *
46339029 TTAAAGCACGAGAATTTT
1 TTAAAACACGAAAATTTT
46339047 TTAAAACACGAAAATTTT
1 TTAAAACACGAAAATTTT
46339065 T
1 T
46339066 GAATATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (18 bp):
TTAAAACACGAAAATTTT
Found at i:46339381 original size:11 final size:12
Alignment explanation
Indices: 46339360--46339384 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46339350 GATTAGGCCC
46339360 TTTTCCTTTTTT
1 TTTTCCTTTTTT
46339372 TTTTCCTTTTTT
1 TTTTCCTTTTTT
46339384 T
1 T
46339385 GGCTGGACTG
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTCCTTTTTT
Found at i:46339711 original size:4 final size:4
Alignment explanation
Indices: 46339700--46339767 Score: 72
Period size: 4 Copynumber: 17.8 Consensus size: 4
46339690 ATTTTTTTTC
*
46339700 CTTT -TTT CTTT CTTT C-TT CTTT CCTTT CTTT C-TT CTTT CTTT CTTC
1 CTTT CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT CTTT
* *
46339746 CCTT -TTT CTTT TTTT CTTT CTT
1 CTTT CTTT CTTT CTTT CTTT CTT
46339768 CTCCGTTCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
3 11 0.21
4 38 0.72
5 4 0.08
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:46339726 original size:23 final size:22
Alignment explanation
Indices: 46339694--46339764 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 22
46339684 GTTTTAATTT
46339694 TTTTTCCTTTTTTCTTTCTTTC
1 TTTTTCCTTTTTTCTTTCTTTC
46339716 TTCTTTCCTTTCTTTC-TTCTTTC
1 TT-TTTCCTTT-TTTCTTTCTTTC
* *
46339739 TTTCTTCCCTTTTTCTTTTTTTC
1 TTT-TTCCTTTTTTCTTTCTTTC
46339762 TTT
1 TTT
46339765 CTTCTCCGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.16
23 32 0.74
24 4 0.09
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTTCCTTTTTTCTTTCTTTC
Found at i:46339762 original size:8 final size:8
Alignment explanation
Indices: 46339692--46339764 Score: 51
Period size: 8 Copynumber: 9.4 Consensus size: 8
46339682 CTGTTTTAAT
46339692 TTTTTTTC
1 TTTTTTTC
*
46339700 CTTTTTTC
1 TTTTTTTC
*
46339708 TTTCTTTC
1 TTTTTTTC
* *
46339716 TTCTTTCC
1 TTTTTTTC
*
46339724 TTTCTTTC
1 TTTTTTTC
*
46339732 -TTCTTTC
1 TTTTTTTC
*
46339739 -TTTCTTC
1 TTTTTTTC
**
46339746 CCTTTTTC
1 TTTTTTTC
46339754 TTTTTTTC
1 TTTTTTTC
46339762 TTT
1 TTT
46339765 CTTCTCCGTT
Statistics
Matches: 49, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
7 12 0.24
8 37 0.76
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTTTC
Found at i:46339762 original size:27 final size:25
Alignment explanation
Indices: 46339694--46339767 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 25
46339684 GTTTTAATTT
*
46339694 TTTTTCCTTTTTTCTTTCTTTCTTCT
1 TTTTT-CTTTTTTCTTTCTTTCTTCC
*
46339720 TTCCTTTCTTTCTTCTTTCTTTCTTCCC
1 TT--TTTCTTTTTTCTTTCTTTCTT-CC
46339748 TTTTTCTTTTTTTCTTTCTT
1 TTTTTC-TTTTTTCTTTCTT
46339768 CTCCGTTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 6 0.15
27 29 0.71
28 6 0.15
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTTTCTTTTTTCTTTCTTTCTTCC
Found at i:46339894 original size:21 final size:21
Alignment explanation
Indices: 46339866--46339923 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
46339856 TTTCTCTCAT
*
46339866 TTTCTTTTTTTCT-TCTTT-GC
1 TTTCTTTTTTT-TATTTTTCGC
46339886 TTTCTTTTTTTTATTTTTCGC
1 TTTCTTTTTTTTATTTTTCGC
*
46339907 TTGC-TTTTTTTATTTTT
1 TTTCTTTTTTTTATTTTT
46339924 TATTTTTCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.03
20 28 0.82
21 5 0.15
ACGTcount: A:0.03, C:0.14, G:0.05, T:0.78
Consensus pattern (21 bp):
TTTCTTTTTTTTATTTTTCGC
Found at i:46339902 original size:27 final size:27
Alignment explanation
Indices: 46339882--46339931 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
46339872 TTTTTCTTCT
46339882 TTGC-TTTCTT-TTTTTTATTTTTCGC
1 TTGCTTTTCTTATTTTTTATTTTTCGC
*
46339907 TTGCTTTTTTTATTTTTTATTTTTC
1 TTGCTTTTCTTATTTTTTATTTTTC
46339932 ACTTCTTGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 5 0.23
27 13 0.59
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.76
Consensus pattern (27 bp):
TTGCTTTTCTTATTTTTTATTTTTCGC
Found at i:46339924 original size:21 final size:19
Alignment explanation
Indices: 46339869--46339924 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 19
46339859 CTCTCATTTT
* *
46339869 CTTTTTTTCTTCTTTGCTTT
1 CTTTTTTT-TTTTTTGCTTG
46339889 CTTTTTTTTATTTTTCGCTTG
1 CTTTTTTTT-TTTTT-GCTTG
46339910 CTTTTTTTATTTTTT
1 CTTTTTTT-TTTTTT
46339925 ATTTTTCACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 1 0.03
20 12 0.39
21 17 0.55
22 1 0.03
ACGTcount: A:0.04, C:0.14, G:0.05, T:0.77
Consensus pattern (19 bp):
CTTTTTTTTTTTTTGCTTG
Found at i:46340353 original size:29 final size:30
Alignment explanation
Indices: 46340252--46340347 Score: 142
Period size: 30 Copynumber: 3.2 Consensus size: 30
46340242 TTTTGGGGCT
* *
46340252 AAAATGTAATTTCAAGAAAA-TTTAGGGGTT
1 AAAATGTAATTT-TAGAAAAGTTTAGGGGTC
46340282 AAAATGTAATTTT-GAGAAAGTTTAGGGGTC
1 AAAATGTAATTTTAGA-AAAGTTTAGGGGTC
46340312 AAAATGTAATTTTAGAAAAGTTTAGGGGTC
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTC
46340342 AAAATG
1 AAAATG
46340348 CATTTTTTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
28 2 0.03
29 3 0.05
30 54 0.89
31 2 0.03
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (30 bp):
AAAATGTAATTTTAGAAAAGTTTAGGGGTC
Found at i:46340621 original size:77 final size:77
Alignment explanation
Indices: 46340526--46342358 Score: 2169
Period size: 76 Copynumber: 23.8 Consensus size: 77
46340516 TTGGTGTGCC
* *
46340526 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTCTT-AAAAAAAGAAATTGAAAATAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTG-AAA-AA
*
46340589 TACCTCGGCATGCG
64 TACCTCGGCATGTG
* *
46340603 ACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTTGAAAAAAACAAAAATTGAAAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--AAAAACAGAAATTGAAAAA
* * *
46340667 TATCTCAGCATGAG
64 TACCTCGGCATGTG
* * *
46340681 ACCCGAGGCTTAACTCACCTCTCGCAATATGACTTGA-TTTTTGAAAAACAGAAATT-TAAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
** * *
46340744 CCTCAACGTGCG
66 CCTCGGCATGTG
* *
46340756 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTGAAAAAGACATAAATTGAAAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAA-ACAGAAATTGAAAAA
* *
46340820 TACCTCAGCGTGTG
64 TACCTCGGCATGTG
* * * *
46340834 ACCCGAGGCTCAACTTACTTCTAGCAATATGAGTTGA-TTTTTGAAAAACAGAAACTTAAAAGAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-TT-GAA-AA
46340898 ATACCTCGGCATGTG
63 ATACCTCGGCATGTG
* * *
46340913 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-CTTTTG-AAAACATAAATTTAAAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-TTGAAAAAT
46340976 ACCTCGGCATGTG
65 ACCTCGGCATGTG
* * * *
46340989 -TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTGAAAAATAGAAATTTAAAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-TTGAAAAAT
*
46341052 ACCTCAGCATGTG
65 ACCTCGGCATGTG
* * *
46341065 -CCCCAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAATAA-AGAAATTTTAAAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA-AACAGAAA--TTGAAAA
46341127 ATACCTCGGCATGTG
63 ATACCTCGGCATGTG
* * * *
46341142 -TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTGAAAAATAGAAATTTAAAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-TTGAAAAAT
46341205 ACCTCGGCATGTG
65 ACCTCGGCATGTG
* * * * *
46341218 -TCCGATGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTGAAAAATAGAAATT-AAAGATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
**
46341280 CCTCGATATGTG
66 CCTCGGCATGTG
* * * * * * *
46341292 ATCCGATGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTAAAAAATAGAAAAT-AAAGATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
* *
46341356 CCTCCGTATGTG
66 CCTCGGCATGTG
* * *
46341368 ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAACTG-AAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACAGAAATTGAAAAA
*
46341432 TACCTC--AATGTG
64 TACCTCGGCATGTG
** * * * * *
46341444 ACTTGAGGCTCAACTCACCTCTTGCATTATTAGTTGATTTTTTTGAAAAACAAAAATT-AAAGAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAAT
* *
46341508 ACCTCGGTAAGTG
65 ACCTCGGCATGTG
* *** * *
46341521 ACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGA-TTTAAAAAAAATAGAAATTAAAATAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT-GAA-AAA
*
46341585 TACATCGGC--GTG
64 TACCTCGGCATGTG
* * *
46341597 ACCCGAGGCTTAACTCACCTCTCGCAATATGCGTTGA-TTTTTGAAAAAACAGAAATTGAGAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAACAGAAATTGAAAAAT
* *
46341661 ACCTTGGCGTGTG
65 ACCTCGGCATGTG
* * * *
46341674 -CCCAAGGCTCAACTCACCTCTTGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATT--GAAAA
*
46341738 ATACCTCGGCGTGTG
63 ATACCTCGGCATGTG
*
46341753 ACCCGAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAAT
*
46341817 ACCTCAGC--GTG
65 ACCTCGGCATGTG
*
46341828 ACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
46341893 CCTCAGG-ATGTG
66 CCTC-GGCATGTG
*
46341905 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAAT
46341970 ACCTCAGG-ATGTG
65 ACCTC-GGCATGTG
* *
46341983 ACCCGGGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAAT
*
46342048 ACCTCAAG-ATGTG
65 ACCTC-GGCATGTG
* *
46342061 ACCCGAGGCTCAACTCACCTCTCG-ATTATGATTTGATTTTTTGAAAAACAGAAATTGAAAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
46342125 CCTCAGG-ATGTG
66 CCTC-GGCATGTG
* * *
46342137 ACCCGAGGCTCAACTCATCTTTCGCAATATGAGTTAATTTTTTTGAAAAACAGAAATTGAAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAAT
46342202 ACCTCAGG-ATGTG
65 ACCTC-GGCATGTG
* *
46342215 ACCCGAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
46342280 CCTCAGG-ATGTG
66 CCTC-GGCATGTG
* *
46342292 ACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGCAAAAATAGAAATTGAAAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAAACAGAAATTGAAAAA
46342357 TA
64 TA
46342359 AATCTTAAAA
Statistics
Matches: 1570, Mismatches: 145, Indels: 80
0.87 0.08 0.04
Matches are distributed among these distances:
74 37 0.02
75 228 0.15
76 431 0.27
77 337 0.21
78 378 0.24
79 94 0.06
80 65 0.04
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (77 bp):
ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
CCTCGGCATGTG
Found at i:46340786 original size:153 final size:153
Alignment explanation
Indices: 46340526--46342358 Score: 1982
Period size: 153 Copynumber: 11.9 Consensus size: 153
46340516 TTGGTGTGCC
* *
46340526 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTCTT-AAAAAAAGAAATTGAAAATAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT--AAA-AA
* * *
46340589 TACCTCGGCATGCGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAAAAC
63 TACCTC-GCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAC
* * *
46340654 AAAAATTGAAAAATATCTCAGCATGAG
127 AGAAATTGAAAAATACCTCAGCATGTG
* * *
46340681 ACCCGAGGCTTAACTCACCTCTCGCAATATGACTTGA-TTTTTGAAAAACAGAAATTTAAAATAC
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAATAC
* * * * *
46340745 CTCAACGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAAGACATA
66 CTC-GCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAACAGA
*
46340810 AATTGAAAAATACCTCAGCGTGTG
130 AATTGAAAAATACCTCAGCATGTG
* * *
46340834 ACCCGAGGCTCAACTTACTTCTAGCAATATGAGTTGA-TTTTTGAAAAACAGAAACTTAAAAGAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-TT--AA-AA
* *
46340898 ATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTTG---AAAA
62 ATACCTC-GCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAA
* * *
46340960 CATAAATTTAAAAAATACCTCGGCATGTG
126 CAGAAA-TTGAAAAATACCTCAGCATGTG
* * *
46340989 -TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTGAAAAATAGAAATTTAAAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-TT-AAAAAT
* * * *
46341052 ACCTCAGCATGTG-CCCCAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG-AAATAA-A
64 ACCTC-GCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAACA
* *
46341114 GAAATTTTAAAAAATACCTCGGCATGTG
128 GAAA--TTGAAAAATACCTCAGCATGTG
* * *
46341142 -TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTGAAAAATAGAAATTTAAAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-TT-AAAAAT
* * * * *
46341205 ACCTCGGCATGTG-TCCGATGCTCAACTCACCTCTCGCAATTTGAGTTGATTTTTG--AAAAATA
64 ACCTC-GCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAACA
* *
46341267 GAAATT-AAAGATACCTC-GATATGTG
128 GAAATTGAAAAATACCTCAG-CATGTG
* * * * * * *
46341292 ATCCGATGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTAAAAAATAGAAAATAAAGATAC
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAATAC
* *** *
46341357 CTC-CGTATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATA
66 CTCGCG--TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAAACA
*
46341421 GAAACTG-AAAATACCTCA--ATGTG
128 GAAATTGAAAAATACCTCAGCATGTG
** * * * * *
46341444 ACTTGAGGCTCAACTCACCTCTTGCATTATTAGTTGATTTTTTTGAAAAACAAAAATTAAAGATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTAAAAATA
* * *
46341509 CCTCG-GTAAGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGA--TTTAAAAAAAATA
65 CCTCGCGT--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAACA
* * *
46341571 GAAATTAAAATAAATACATCGGC--GTG
128 GAAATT-GAA-AAATACCTCAGCATGTG
* * *
46341597 ACCCGAGGCTTAACTCACCTCTCGCAATATGCGTTGA-TTTTTGAAAAAACAGAAATTGAGAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAACAGAAATT-AAAAAT
* * * * ***
46341661 ACCTTGGCGTGTG-CCCAAGGCTCAACTCACCTCTTGCATTATGAGTTGATTTTTTTGAAAAACA
64 ACC-TCGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAACA
* * *
46341725 GAAATTAAAAAAAATACCTCGGCGTGTG
128 GAAATT--GAAAAATACCTCAGCATGTG
* *
46341753 ACCCGAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTAAAAATA
*
46341818 CCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTG--AAAAACA
65 CCTC-GCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAAACA
*
46341879 GAAATTGAAAAATACCTCAGGATGTG
128 GAAATTGAAAAATACCTCAGCATGTG
*
46341905 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATT-AAAAAT
* * ***
46341970 ACCTCAG-GATGTGACCCGGGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAAC
64 ACCTC-GCG-TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAC
46342034 AGAAATTGAAAAATACCTCAAG-ATGTG
127 AGAAATTGAAAAATACCTC-AGCATGTG
* *
46342061 ACCCGAGGCTCAACTCACCTCTCG-ATTATGATTTGATTTTTTGAAAAACAGAAATTGAAAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT-AAAAATA
* * * ***
46342125 CCTCAG-GATGTGACCCGAGGCTCAACTCATCTTTCGCAATATGAGTTAATTTTTTTGAAAAACA
65 CCTC-GCG-TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAACA
*
46342189 GAAATTGAAAAATACCTCAGGATGTG
128 GAAATTGAAAAATACCTCAGCATGTG
* *
46342215 ACCCGAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT-AAAAATA
* *
46342280 CCTCAG-GATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-CAAAAA
65 CCTC-GCG-TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAAAA
*
46342343 TAGAAATTGAAAAATA
126 CAGAAATTGAAAAATA
46342359 AATCTTAAAA
Statistics
Matches: 1480, Mismatches: 143, Indels: 109
0.85 0.08 0.06
Matches are distributed among these distances:
148 1 0.00
149 1 0.00
150 44 0.03
151 114 0.08
152 196 0.13
153 410 0.28
154 264 0.18
155 232 0.16
156 138 0.09
157 74 0.05
158 6 0.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (153 bp):
ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAATAC
CTCGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAACAGAA
ATTGAAAAATACCTCAGCATGTG
Found at i:46343231 original size:15 final size:16
Alignment explanation
Indices: 46343207--46343253 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
46343197 TTCATCTTGA
46343207 TTTTTC-ATTTTTTG-
1 TTTTTCTATTTTTTGC
46343221 TTTTTCTATTTTTTTTGC
1 TTTTTCTA--TTTTTTGC
46343239 TTCTTTCTATTTTTT
1 TT-TTTCTATTTTTT
46343254 CTATTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
14 6 0.21
15 1 0.04
17 13 0.46
18 2 0.07
19 6 0.21
ACGTcount: A:0.06, C:0.11, G:0.04, T:0.79
Consensus pattern (16 bp):
TTTTTCTATTTTTTGC
Found at i:46343233 original size:9 final size:9
Alignment explanation
Indices: 46343221--46343272 Score: 59
Period size: 9 Copynumber: 5.6 Consensus size: 9
46343211 TCATTTTTTG
46343221 TTTTTCTAT
1 TTTTTCTAT
* *
46343230 TTTTTTTGCT
1 TTTTTCT-AT
*
46343240 TCTTTCTAT
1 TTTTTCTAT
46343249 TTTTTCTATT
1 TTTTTCTA-T
46343259 TTTTTCTAT
1 TTTTTCTAT
46343268 TTTTT
1 TTTTT
46343273 AGGCATAACA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 20 0.57
10 15 0.43
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.79
Consensus pattern (9 bp):
TTTTTCTAT
Found at i:46343236 original size:19 final size:19
Alignment explanation
Indices: 46343214--46343272 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
46343204 TGATTTTTCA
46343214 TTTTTTGTTTTTCTA--TT
1 TTTTTTGTTTTTCTATTTT
46343231 TTTTTTGCTTCTTTCTATTTT
1 TTTTTTG-TT-TTTCTATTTT
*
46343252 TTCTATT-TTTTTCTATTTT
1 TT-TTTTGTTTTTCTATTTT
46343271 TT
1 TT
46343273 AGGCATAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 7 0.19
18 2 0.06
19 18 0.50
20 2 0.06
21 4 0.11
22 3 0.08
ACGTcount: A:0.07, C:0.10, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTTTTGTTTTTCTATTTT
Found at i:46343263 original size:10 final size:10
Alignment explanation
Indices: 46343221--46343272 Score: 63
Period size: 10 Copynumber: 5.4 Consensus size: 10
46343211 TCATTTTTTG
46343221 TTTTTCTATT
1 TTTTTCTATT
**
46343231 TTTTT-TGCT
1 TTTTTCTATT
*
46343240 TCTTTCTA-T
1 TTTTTCTATT
46343249 TTTTTCTATT
1 TTTTTCTATT
46343259 TTTTTCTATT
1 TTTTTCTATT
46343269 TTTT
1 TTTT
46343273 AGGCATAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 14 0.40
10 21 0.60
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.79
Consensus pattern (10 bp):
TTTTTCTATT
Found at i:46348231 original size:67 final size:67
Alignment explanation
Indices: 46348118--46348282 Score: 303
Period size: 67 Copynumber: 2.5 Consensus size: 67
46348108 ATTTACTTAT
* *
46348118 GCCTATGCGGAGGGACAAGTTAACTCACGAAAGCATAAGTCATATGTAACCCGAAAGTATTTCAC
1 GCCTGTGCGGAGGGACGAGTTAACTCACGAAAGCATAAGTCATATGTAACCCGAAAGTATTTCAC
46348183 TA
66 TA
*
46348185 GCCTGTGCGGAGGGACGAGTTAACTCACGAAAGCATAAGTCATATGTAACCCGGAAGTATTTCAC
1 GCCTGTGCGGAGGGACGAGTTAACTCACGAAAGCATAAGTCATATGTAACCCGAAAGTATTTCAC
46348250 TA
66 TA
46348252 GCCTGTGCGGAGGGACGAGTTAACTCACGAA
1 GCCTGTGCGGAGGGACGAGTTAACTCACGAA
46348283 GGCGTAGCGT
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 95 1.00
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.21
Consensus pattern (67 bp):
GCCTGTGCGGAGGGACGAGTTAACTCACGAAAGCATAAGTCATATGTAACCCGAAAGTATTTCAC
TA
Found at i:46349057 original size:18 final size:18
Alignment explanation
Indices: 46349034--46349136 Score: 117
Period size: 18 Copynumber: 5.8 Consensus size: 18
46349024 AAAATGAAAA
46349034 TTTGAAACACAAGAATTT
1 TTTGAAACACAAGAATTT
*
46349052 TTTGAAA-ACATAAAATTT
1 TTTGAAACACA-AGAATTT
46349070 TTTGAAACACGAA-AA-TT
1 TTTGAAACAC-AAGAATTT
46349087 TTT-AAACACAAGAATTT
1 TTTGAAACACAAGAATTT
*
46349104 TTTGAAA-ACACGAAATTT
1 TTTGAAACACAAG-AATTT
*
46349122 TTTGAAACACGAGAA
1 TTTGAAACACAAGAA
46349137 AGTTTTTTTT
Statistics
Matches: 73, Mismatches: 4, Indels: 16
0.78 0.04 0.17
Matches are distributed among these distances:
15 2 0.03
16 8 0.11
17 17 0.23
18 39 0.53
19 6 0.08
20 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (18 bp):
TTTGAAACACAAGAATTT
Found at i:46349077 original size:17 final size:17
Alignment explanation
Indices: 46349034--46349171 Score: 120
Period size: 17 Copynumber: 7.6 Consensus size: 17
46349024 AAAATGAAAA
46349034 TTTGAAACACAAGAATTT
1 TTTGAAACACAA-AATTT
*
46349052 TTTGAAAACATAAAATTT
1 TTTG-AAACACAAAATTT
46349070 TTTGAAACACGAAAA-TT
1 TTTGAAACAC-AAAATTT
46349087 TTT-AAACACAAGAATTT
1 TTTGAAACACAA-AATTT
*
46349104 TTTGAAAACACGAAATTT
1 TTTG-AAACACAAAATTT
46349122 TTTGAAACACGAGAAAGTTTTT
1 TTTGAAACAC-A-AAA---TTT
*
46349144 TTTGAAAACGCGAAAATTT
1 TTTG-AAACAC-AAAATTT
46349163 TTT-AAACAC
1 TTTGAAACAC
46349172 GAGAAAGTTT
Statistics
Matches: 102, Mismatches: 6, Indels: 25
0.77 0.05 0.19
Matches are distributed among these distances:
15 2 0.02
16 8 0.08
17 26 0.25
18 26 0.25
19 23 0.23
22 10 0.10
23 7 0.07
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (17 bp):
TTTGAAACACAAAATTT
Found at i:46349103 original size:52 final size:52
Alignment explanation
Indices: 46349029--46349143 Score: 178
Period size: 52 Copynumber: 2.2 Consensus size: 52
46349019 TAAAAAAAAT
* *
46349029 GAAAA-TTTGAAACACAAGAATTTTTTGAAAACATAAAATTTTTTGAAACAC
1 GAAAATTTTTAAACACAAGAATTTTTTGAAAACACAAAATTTTTTGAAACAC
*
46349080 GAAAATTTTTAAACACAAGAATTTTTTGAAAACACGAAATTTTTTGAAACAC
1 GAAAATTTTTAAACACAAGAATTTTTTGAAAACACAAAATTTTTTGAAACAC
46349132 GAGAAAGTTTTT
1 GA-AAA-TTTTT
46349144 TTTGAAAACG
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
51 5 0.09
52 45 0.78
53 3 0.05
54 5 0.09
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (52 bp):
GAAAATTTTTAAACACAAGAATTTTTTGAAAACACAAAATTTTTTGAAACAC
Found at i:46349146 original size:40 final size:39
Alignment explanation
Indices: 46349067--46349190 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
46349057 AAACATAAAA
* *
46349067 TTTTTTG-AAACACGAAAATTTTTAAACACAAG-AA---
1 TTTTTTGAAAACACGAAATTTTTTAAACACGAGAAAGTT
46349101 TTTTTTGAAAACACGAAATTTTTTGAAACACGAGAAAGTT
1 TTTTTTGAAAACACGAAATTTTTT-AAACACGAGAAAGTT
*
46349141 TTTTTTGAAAACGCGAAAATTTTTTAAACACGAGAAAGTT
1 TTTTTTGAAAACACG-AAATTTTTTAAACACGAGAAAGTT
46349181 TTTTTT-AAAA
1 TTTTTTGAAAA
46349191 TGAATTTTTT
Statistics
Matches: 80, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
34 7 0.09
35 15 0.19
36 8 0.10
37 2 0.03
39 4 0.05
40 35 0.44
41 9 0.11
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (39 bp):
TTTTTTGAAAACACGAAATTTTTTAAACACGAGAAAGTT
Found at i:46349186 original size:21 final size:21
Alignment explanation
Indices: 46349119--46349189 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
46349109 AAACACGAAA
*
46349119 TTTTTTGAAACACGAGAAAGT
1 TTTTTTTAAACACGAGAAAGT
*
46349140 TTTTTTTGAAA-ACGCGAAA--
1 TTTTTTT-AAACACGAGAAAGT
*
46349159 ATTTTTTAAACACGAGAAAGT
1 TTTTTTTAAACACGAGAAAGT
46349180 TTTTTTTAAA
1 TTTTTTTAAA
46349190 ATGAATTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 3 0.07
19 13 0.32
21 22 0.54
22 3 0.07
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.39
Consensus pattern (21 bp):
TTTTTTTAAACACGAGAAAGT
Found at i:46349345 original size:18 final size:18
Alignment explanation
Indices: 46349312--46349354 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
46349302 TTTATTCGTG
* *
46349312 ATTTTATTAAAGCACGAGA
1 ATTTT-TTAAAACACGAAA
46349331 ATTTTTTAAAACACGAAA
1 ATTTTTTAAAACACGAAA
46349349 ATTTTT
1 ATTTTT
46349355 GAATATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (18 bp):
ATTTTTTAAAACACGAAA
Found at i:46350019 original size:13 final size:13
Alignment explanation
Indices: 46350000--46350034 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
46349990 AATTTTTTTC
46350000 CTTCTTTCTCTTT
1 CTTCTTTCTCTTT
* *
46350013 TTTCTTTCCCTTT
1 CTTCTTTCTCTTT
46350026 CTTCTTTCT
1 CTTCTTTCT
46350035 TTCTTATTTC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (13 bp):
CTTCTTTCTCTTT
Found at i:46350053 original size:16 final size:16
Alignment explanation
Indices: 46350029--46350086 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
46350019 TCCCTTTCTT
*
46350029 CTTTCTTTCTTATTTC
1 CTTTTTTTCTTATTTC
46350045 CTTTTTTTCTTATTT-
1 CTTTTTTTCTTATTTC
**
46350060 CTTTCTTCCCTT-TTTC
1 CTTT-TTTTCTTATTTC
*
46350076 TTTTTTTTCTT
1 CTTTTTTTCTT
46350087 TCTTCTCCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
15 12 0.35
16 22 0.65
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.74
Consensus pattern (16 bp):
CTTTTTTTCTTATTTC
Found at i:46350065 original size:31 final size:31
Alignment explanation
Indices: 46350027--46350086 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
46350017 TTTCCCTTTC
*
46350027 TTCTTTCTT-TCTTATTTCCTTTTTTTCTTAT
1 TTCTTTCTTCCCTT-TTTCCTTTTTTTCTTAT
*
46350058 TTCTTTCTTCCCTTTTTCTTTTTTTTCTT
1 TTCTTTCTTCCCTTTTTCCTTTTTTTCTT
46350087 TCTTCTCCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 23 0.88
32 3 0.12
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (31 bp):
TTCTTTCTTCCCTTTTTCCTTTTTTTCTTAT
Found at i:46350089 original size:24 final size:24
Alignment explanation
Indices: 46350013--46350091 Score: 76
Period size: 24 Copynumber: 3.3 Consensus size: 24
46350003 CTTTCTCTTT
*
46350013 TTTCTTTCCCTTTCTTC-TTTCTTTC
1 TTTC-TTCCCTTT-TTCTTTTATTTC
46350038 TTAT-TT-CCTTTTT-TTCTTATTTC
1 TT-TCTTCCCTTTTTCTT-TTATTTC
*
46350061 TTTCTTCCCTTTTTCTTTTTTTTC
1 TTTCTTCCCTTTTTCTTTTATTTC
46350085 TTTCTTC
1 TTTCTTC
46350092 TCCATTCACC
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
22 4 0.09
23 15 0.33
24 22 0.48
25 4 0.09
26 1 0.02
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTCTTCCCTTTTTCTTTTATTTC
Found at i:46350214 original size:20 final size:19
Alignment explanation
Indices: 46350189--46350251 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
46350179 TTTCTCTCCT
46350189 TTTCTTTTTTTCCTTTTTGC
1 TTTCTTTTTTT-CTTTTTGC
*
46350209 TTTCTTCTTTTTGTTTTTCGC
1 TTTCTT-TTTTTCTTTTT-GC
* *
46350230 TTGCTTTTTTTCTTTTTTC
1 TTTCTTTTTTTCTTTTTGC
46350249 TTT
1 TTT
46350252 TTTACTTCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.08
20 21 0.58
21 12 0.33
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.76
Consensus pattern (19 bp):
TTTCTTTTTTTCTTTTTGC
Found at i:46350612 original size:30 final size:30
Alignment explanation
Indices: 46350578--46350666 Score: 97
Period size: 30 Copynumber: 3.0 Consensus size: 30
46350568 GGCTAAAACA
* *
46350578 TAATTTCAAGAAAGTTTAGGGGTTAAAATG
1 TAATTTAAAGAAAGTTTAGGGGTCAAAATG
** * * *
46350608 TAATTTTGAGAATGCTCAGGGGTCAAAATG
1 TAATTTAAAGAAAGTTTAGGGGTCAAAATG
* *
46350638 TAATTTAAAAAAAGTTTAAGGGTCAAAAT
1 TAATTTAAAGAAAGTTTAGGGGTCAAAAT
46350667 ACAATTTTTT
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (30 bp):
TAATTTAAAGAAAGTTTAGGGGTCAAAATG
Found at i:46353178 original size:40 final size:40
Alignment explanation
Indices: 46353091--46353195 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 40
46353081 AGATTTAGTG
**
46353091 GCATTAGCGGCGCTTTTTGAAAAACACTGCAATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACACCACAATAGATCGA
* *
46353131 GCATTAGCGGCACTTTTTGAAAAACACCACTAAT-GGTCGA
1 GCATTAGCGGCGCTTTTTGAAAAACACCAC-AATAGATCGA
* *
46353171 -CTTTTAGCGGCGCCTTTTGAAAAAC
1 GC-ATTAGCGGCGCTTTTTGAAAAAC
46353196 GCTGCAAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 1 0.02
40 52 0.93
41 3 0.05
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACACCACAATAGATCGA
Found at i:46353237 original size:99 final size:98
Alignment explanation
Indices: 46353131--46353313 Score: 244
Period size: 99 Copynumber: 1.9 Consensus size: 98
46353121 AATAGATCGA
* *
46353131 GCATTAGCGGCACTTTTTGAAAAACACCACTA-ATGGTCGA-CTTTTAGCGGCGCCTTTTGAAAA
1 GCATTAGCGGCACTTTTTGAAAAACACCACTATA-GATCGAGC-ATTAGCGGCGCCTTTTGAAAA
*
46353194 ACGCTGCAAAAAAATTAAGCACCCTTAGCTTTAGTG
64 ACGCCG-AAAAAAATTAAGCACCCTTAGCTTTAGTG
* * * * *
46353230 GCATTAGCGGCGCTTTTTGAAAATCGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAAC
1 GCATTAGCGGCACTTTTTGAAAAACACCACTATAGATCGAGCATTAGCGGCGCCTTTTGAAAAAC
*
46353295 GCCGTAAAAAATTAAGCAC
66 GCCGAAAAAAATTAAGCAC
46353314 AACGCCGTCG
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
98 14 0.19
99 57 0.78
100 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (98 bp):
GCATTAGCGGCACTTTTTGAAAAACACCACTATAGATCGAGCATTAGCGGCGCCTTTTGAAAAAC
GCCGAAAAAAATTAAGCACCCTTAGCTTTAGTG
Found at i:46353831 original size:14 final size:14
Alignment explanation
Indices: 46353809--46354008 Score: 100
Period size: 14 Copynumber: 13.5 Consensus size: 14
46353799 TTAATTATCA
*
46353809 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
46353823 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* * *
46353837 ATATGATTTAGAGT
1 TTATGGTTTAGGGT
*
46353851 TTAAGGTTTAGGAGT
1 TTATGGTTTAGG-GT
*
46353866 TACTATTTTCAGGTTTATGGAT
1 T--TA---T--GGTTTA-GGGT
*
46353888 TATAT-GTTTAGGGA
1 T-TATGGTTTAGGGT
*
46353902 TTATGGTTTAGGGA
1 TTATGGTTTAGGGT
46353916 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
46353930 TTAGGGTTTAAGGT
1 TTATGGTTTAGGGT
* *
46353944 TTAAGAGTTACTA-TG-
1 TTATG-GTT--TAGGGT
* * *
46353959 TTAAGGTTTATGGA
1 TTATGGTTTAGGGT
*
46353973 TTATGGGTTTAGGGA
1 TTAT-GGTTTAGGGT
*
46353988 TTATGGTTTATGGT
1 TTATGGTTTAGGGT
46354002 TTATGGT
1 TTATGGT
46354009 CTAAGGGTTG
Statistics
Matches: 147, Mismatches: 23, Indels: 32
0.73 0.11 0.16
Matches are distributed among these distances:
12 2 0.01
13 4 0.03
14 94 0.64
15 29 0.20
16 1 0.01
17 4 0.03
18 1 0.01
21 2 0.01
22 8 0.05
23 2 0.01
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:46353932 original size:7 final size:7
Alignment explanation
Indices: 46353893--46354091 Score: 64
Period size: 7 Copynumber: 27.9 Consensus size: 7
46353883 TGGATTATAT
46353893 GTTTAGG
1 GTTTAGG
* *
46353900 GATTATG
1 GTTTAGG
46353907 GTTTAGG
1 GTTTAGG
* *
46353914 GATTATG
1 GTTTAGG
46353921 GTTTAGG
1 GTTTAGG
46353928 GTTTAGG
1 GTTTAGG
*
46353935 GTTTAAG
1 GTTTAGG
*
46353942 GTTTAAGA
1 GTTT-AGG
*
46353950 GTTACTA-T
1 GTT--TAGG
*
46353958 G-TTAAG
1 GTTTAGG
*
46353964 GTTTATG
1 GTTTAGG
*
46353971 GATTATGG
1 GTTTA-GG
46353979 GTTTAGG
1 GTTTAGG
* *
46353986 GATTATG
1 GTTTAGG
*
46353993 GTTTATG
1 GTTTAGG
*
46354000 GTTTATG
1 GTTTAGG
*
46354007 GTCTAAGG
1 GT-TTAGG
*
46354015 G-TTGGG
1 GTTTAGG
* **
46354021 GTTGAAA
1 GTTTAGG
*
46354028 GTCTATGG
1 GTTTA-GG
*
46354036 GTTTATG
1 GTTTAGG
*
46354043 GTTTATG
1 GTTTAGG
* *
46354050 TTTTATG
1 GTTTAGG
*
46354057 ATTTAGG
1 GTTTAGG
46354064 GTTTAAGG
1 GTTT-AGG
*
46354072 G-ATAGAG
1 GTTTAG-G
46354079 GTTTAGG
1 GTTTAGG
46354086 GTTTAG
1 GTTTAG
46354092 ATTAATTAGT
Statistics
Matches: 140, Mismatches: 40, Indels: 24
0.69 0.20 0.12
Matches are distributed among these distances:
5 2 0.01
6 7 0.05
7 104 0.74
8 25 0.18
9 1 0.01
10 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.34, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:46353966 original size:86 final size:87
Alignment explanation
Indices: 46353843--46354017 Score: 262
Period size: 86 Copynumber: 2.0 Consensus size: 87
46353833 GGGTATATGA
* * * *
46353843 TTTAGAGTTTAAGGTTTAGGAGTTACTATTTTCAGGTTTATGGATTATATGTTTAGGGATTATGG
1 TTTAGAGTTTAAGGTTTAAGAGTTACTATGTTAAGGTTTATGGATTATAGGTTTAGGGATTATGG
*
46353908 TTTAGGGATTATGGT-TTAGGG
66 TTTAGGGATTATGGTCTAAGGG
* *
46353929 TTTAGGGTTTAAGGTTTAAGAGTTACTATGTTAAGGTTTATGGATTATGGGTTTAGGGATTATGG
1 TTTAGAGTTTAAGGTTTAAGAGTTACTATGTTAAGGTTTATGGATTATAGGTTTAGGGATTATGG
* *
46353994 TTTATGGTTTATGGTCTAAGGG
66 TTTAGGGATTATGGTCTAAGGG
46354016 TT
1 TT
46354018 GGGGTTGAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
86 72 0.91
87 7 0.09
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (87 bp):
TTTAGAGTTTAAGGTTTAAGAGTTACTATGTTAAGGTTTATGGATTATAGGTTTAGGGATTATGG
TTTAGGGATTATGGTCTAAGGG
Found at i:46354006 original size:29 final size:29
Alignment explanation
Indices: 46353877--46354007 Score: 115
Period size: 29 Copynumber: 4.6 Consensus size: 29
46353867 ACTATTTTCA
**
46353877 GGTTTATGGATTATATGTTTAGGGATTAT
1 GGTTTATGGATTATGGGTTTAGGGATTAT
* * *
46353906 GGTTTAGGGATTAT-GGTTTAGGGTTTAG
1 GGTTTATGGATTATGGGTTTAGGGATTAT
* * * * * *
46353934 GGTTTAAGGTTTAAGAGTTACTA-TG-TTAA
1 GGTTTATGGATTATGGGTT--TAGGGATTAT
46353963 GGTTTATGGATTATGGGTTTAGGGATTAT
1 GGTTTATGGATTATGGGTTTAGGGATTAT
*
46353992 GGTTTATGGTTTATGG
1 GGTTTATGGATTATGG
46354008 TCTAAGGGTT
Statistics
Matches: 80, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
27 2 0.03
28 23 0.29
29 52 0.65
30 1 0.01
31 2 0.03
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.45
Consensus pattern (29 bp):
GGTTTATGGATTATGGGTTTAGGGATTAT
Found at i:46354784 original size:115 final size:113
Alignment explanation
Indices: 46354603--46355037 Score: 397
Period size: 115 Copynumber: 3.8 Consensus size: 113
46354593 CAAAAATCAT
* * * * * * * *
46354603 TTTGTTTTAATAAAAATGGCACCGTTTTATTGGATTTCTTAGTGGTGTTTTTGGTGAAACGCTGC
1 TTTGTTTTAATCAAAACGGCGCCATTTTTTTTGATTTTTTAGTGGTGTTTTTGGTAAAACGCTGC
* * * * * *
46354668 AATATGTTGGGCTGTAGTGGTGCTATCCTAAAAACGCTGCAAAAAGTTA
66 AATAGGTCGGGCTTTAGCGGCGCTA-CCTAAAAACGCTACAAAAAGTTA
* * * **
46354717 TTCTGTTTTTATTAAAACGGCGCCTTTTTTTTTGATTTTTTAGTGGCATTTTTGGTAAAACGCTG
1 TT-TGTTTTAATCAAAACGGCGCCATTTTTTTTGATTTTTTAGTGGTGTTTTTGGTAAAACGCTG
** * *
46354782 CAATAGGTCGGGCTTTAGCGGCGCTAGGTGAAAAACGCCACAAAAGGTTAA
65 CAATAGGTCGGGCTTTAGCGGCGCTACCT-AAAAACGCTACAAAAAGTT-A
** * * * * *
46354833 TTTGTTTTAATCAAAACGAAGCCGTTTTATTTGATTTTTTTAGTGGTG-TTTTCGTCAAAATGCC
1 TTTGTTTTAATCAAAACGGCGCCATTTTTTTTGA-TTTTTTAGTGGTGTTTTTGGT-AAAACGCT
* *
46354897 GCAATAGGTCGGGCTTTAGCGGCGCTACCAAAAAACACTACAAAATA-TTA
64 GCAATAGGTCGGGCTTTAGCGGCGCTACCTAAAAACGCTACAAAA-AGTTA
* * * * ** * *
46354947 TTTTGTTTTAATCAAAATGGCGCCATTTTTGTAGGTTTTTTAGTGGTGTTTTCAGTTAAATGCTG
1 -TTTGTTTTAATCAAAACGGCGCCATTTTTTTTGATTTTTTAGTGGTGTTTTTGGTAAAACGCTG
* * *
46355012 CAATATGTAGGGATTTAGCGGCGCTA
65 CAATAGGTCGGGCTTTAGCGGCGCTA
46355038 TGAATAAACG
Statistics
Matches: 260, Mismatches: 53, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
114 47 0.18
115 166 0.64
116 47 0.18
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (113 bp):
TTTGTTTTAATCAAAACGGCGCCATTTTTTTTGATTTTTTAGTGGTGTTTTTGGTAAAACGCTGC
AATAGGTCGGGCTTTAGCGGCGCTACCTAAAAACGCTACAAAAAGTTA
Found at i:46355032 original size:230 final size:228
Alignment explanation
Indices: 46354624--46355078 Score: 504
Period size: 230 Copynumber: 2.0 Consensus size: 228
46354614 AAAAATGGCA
* * * * * * *
46354624 CCGTTTTATTGGATTTCTTAGTGGTGTTTTTGGTGAAACGCTGCAATATGTTGGGCTGTAGTGGT
1 CCGTTTTATTGGATTTCTTAGTGGTGTTTTTCGTAAAACGCCGCAATAGGTCGGGCTGTAGCGGC
* * * * * * * *
46354689 GCTATCCTAAAAACGCTGCAAAAAGTTATTCTGTTTTTATTAAAACGGCGCCTTTTTTTTTGATT
66 GCTATCCAAAAAACACTACAAAAAGTTATTCTGTTTTAATCAAAACGGCGCCATTTTTGTAGATT
** * *
46354754 TTTTAGTGGCATTTTTGGTAAAACGCTGCAATAGGTCGGGCTTTAGCGGCGCTAGGTGAA-AAAC
131 TTTTAGTGGCATTTTCAGTAAAACGCTGCAATAGGTAGGGATTTAGCGGCGCTA--TGAATAAAC
* *
46354818 GCCACAAAAGGTTAATTTGTTTTAATCAAAACGAAG
194 GCCAC-AAAGGTTAATTTCTTTTAAGCAAAACGAAG
* * * *
46354854 CCGTTTTATTTGATTTTTTTAGTGGTG-TTTTCGTCAAAATGCCGCAATAGGTCGGGCTTTAGCG
1 CCGTTTTATTGGA-TTTCTTAGTGGTGTTTTTCGT-AAAACGCCGCAATAGGTCGGGCTGTAGCG
* *
46354918 GCGCTA-CCAAAAAACACTACAAAATA-TTATTTTGTTTTAATCAAAATGGCGCCATTTTTGTAG
64 GCGCTATCCAAAAAACACTACAAAA-AGTTATTCTGTTTTAATCAAAACGGCGCCATTTTTGTAG
* ** * * *
46354981 GTTTTTTAGTGGTGTTTTCAGTTAAATGCTGCAATATGTAGGGATTTAGCGGCGCTATGAATAAA
128 ATTTTTTAGTGGCATTTTCAGTAAAACGCTGCAATAGGTAGGGATTTAGCGGCGCTATGAATAAA
* * *
46355046 CGCCGCAAAGGTTGATTTCTTTTAGGCAAAACG
193 CGCCACAAAGGTTAATTTCTTTTAAGCAAAACG
46355079 TCGTCGTTTT
Statistics
Matches: 185, Mismatches: 36, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
228 27 0.15
229 8 0.04
230 110 0.59
231 40 0.22
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (228 bp):
CCGTTTTATTGGATTTCTTAGTGGTGTTTTTCGTAAAACGCCGCAATAGGTCGGGCTGTAGCGGC
GCTATCCAAAAAACACTACAAAAAGTTATTCTGTTTTAATCAAAACGGCGCCATTTTTGTAGATT
TTTTAGTGGCATTTTCAGTAAAACGCTGCAATAGGTAGGGATTTAGCGGCGCTATGAATAAACGC
CACAAAGGTTAATTTCTTTTAAGCAAAACGAAG
Found at i:46355529 original size:20 final size:20
Alignment explanation
Indices: 46355492--46355530 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46355482 AAAAATGGAT
* *
46355492 ATGGGTGTTCATGGTTGTTC
1 ATGGCTGTTCATCGTTGTTC
*
46355512 ATGGCTGTTCATCTTTGTT
1 ATGGCTGTTCATCGTTGTT
46355531 TCCATAATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.10, C:0.13, G:0.28, T:0.49
Consensus pattern (20 bp):
ATGGCTGTTCATCGTTGTTC
Found at i:46357033 original size:36 final size:36
Alignment explanation
Indices: 46356985--46357055 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
46356975 AATAAAAACT
*
46356985 ATAAAAGTTTATTTATCATATCATTAAATTGTTATTA
1 ATAAAAGTTTATTAATCA-ATCATTAAATTGTTATTA
** *
46357022 ATAAAA-TTTATTAATCAATGTTTTAATTGTTATT
1 ATAAAAGTTTATTAATCAATCATTAAATTGTTATT
46357056 TTAAGAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 14 0.47
36 10 0.33
37 6 0.20
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (36 bp):
ATAAAAGTTTATTAATCAATCATTAAATTGTTATTA
Found at i:46357255 original size:21 final size:20
Alignment explanation
Indices: 46357201--46357332 Score: 65
Period size: 18 Copynumber: 7.0 Consensus size: 20
46357191 ATATCAAAAC
46357201 TTACATAACT-TACATAA--T
1 TTACATAACTAT-CATAACTT
* *
46357219 TCACATAACT-TAATAACTT
1 TTACATAACTATCATAACTT
* *
46357238 TTATATATCATATCATAAC--
1 TTACATAAC-TATCATAACTT
46357257 TTACATAACTCA-CATAA--T
1 TTACATAACT-ATCATAACTT
*
46357275 TTACATAACT-TAATAACTT
1 TTACATAACTATCATAACTT
* *
46357294 TTATATATCATATCATAAC--
1 TTACATAAC-TATCATAACTT
46357313 TTACATAACTCA-CATAACTT
1 TTACATAACT-ATCATAACTT
46357333 ACATAAATTA
Statistics
Matches: 86, Mismatches: 14, Indels: 26
0.68 0.11 0.21
Matches are distributed among these distances:
17 8 0.09
18 33 0.38
19 31 0.36
20 2 0.02
21 12 0.14
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (20 bp):
TTACATAACTATCATAACTT
Found at i:46357258 original size:56 final size:55
Alignment explanation
Indices: 46357183--46357425 Score: 360
Period size: 56 Copynumber: 4.5 Consensus size: 55
46357173 CTTACATAAA
* *
46357183 TATATATCATATCAAAACTTACATAACTTACATAATTCACATAACTTAATAACTTT
1 TATATATCATATCATAACTTACATAACTCACATAATT-ACATAACTTAATAACTTT
46357239 TATATATCATATCATAACTTACATAACTCACATAATTTACATAACTTAATAACTTT
1 TATATATCATATCATAACTTACATAACTCACATAA-TTACATAACTTAATAACTTT
*
46357295 TATATATCATATCATAACTTACATAACTCACATAACTTACATAAATTAATAAC---
1 TATATATCATATCATAACTTACATAACTCACATAA-TTACATAACTTAATAACTTT
46357348 T-TATAT-ATATCAT-A--T-CATAACTCACATAACTTACATAACTTAATAACTTT
1 TATATATCATATCATAACTTACATAACTCACATAA-TTACATAACTTAATAACTTT
46357398 TATATATCATATCATAACTTACATAACT
1 TATATATCATATCATAACTTACATAACT
46357426 TGCATGATAT
Statistics
Matches: 172, Mismatches: 5, Indels: 20
0.87 0.03 0.10
Matches are distributed among these distances:
47 31 0.18
48 1 0.01
50 2 0.01
51 12 0.07
52 12 0.07
53 2 0.01
55 1 0.01
56 109 0.63
57 2 0.01
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (55 bp):
TATATATCATATCATAACTTACATAACTCACATAATTACATAACTTAATAACTTT
Found at i:46357261 original size:47 final size:48
Alignment explanation
Indices: 46357204--46357469 Score: 260
Period size: 56 Copynumber: 5.4 Consensus size: 48
46357194 TCAAAACTTA
46357204 CATAACTTACATAA-TTCACATAACTTAATAACTTTTATATATCATAT
1 CATAACTTACATAACTTCACATAACTTAATAACTTTTATATATCATAT
*
46357251 CATAACTTACATAACTCACATAATTTACATAACTTAATAACTTTTATATATCATAT
1 CATAACTTACAT-A---AC----TTCACATAACTTAATAACTTTTATATATCATAT
* *
46357307 CATAACTTACATAACTCACATAACTTACATAAATTAATAACTTATATATATCATAT
1 CATAACTTACATAACT----T--C--ACATAACTTAATAACTTTTATATATCATAT
*
46357363 CATAACTCACATAACTT-ACATAACTTAATAACTTTTATATATCATAT
1 CATAACTTACATAACTTCACATAACTTAATAACTTTTATATATCATAT
* * *
46357410 CATAACTTACATAACTT-GCATGA--TATATAA---ATATATATCATAT
1 CATAACTTACATAACTTCACATAACTTA-ATAACTTTTATATATCATAT
46357453 CATAACTTACATAACTT
1 CATAACTTACATAACTT
46357470 AATTATACTT
Statistics
Matches: 190, Mismatches: 11, Indels: 40
0.79 0.05 0.17
Matches are distributed among these distances:
43 29 0.15
45 2 0.01
46 4 0.02
47 60 0.32
48 2 0.01
51 1 0.01
52 4 0.02
55 1 0.01
56 87 0.46
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.38
Consensus pattern (48 bp):
CATAACTTACATAACTTCACATAACTTAATAACTTTTATATATCATAT
Found at i:46357367 original size:103 final size:109
Alignment explanation
Indices: 46357183--46357425 Score: 365
Period size: 103 Copynumber: 2.3 Consensus size: 109
46357173 CTTACATAAA
* * *
46357183 TATATATCATATCAAAACTTACATAACTTACATAATTCACATAACTTAATAACTTTTATATATCA
1 TATATATCATATCATAACTTACATAACTCACATAATTCACATAAATTAATAAC--TTATATATCA
*
46357248 TATCATAACTTACATAACTCACATAATTTACATAACTTAATAACTTT
64 TATCATAAC-TACATAACTCACATAACTTACATAACTTAATAACTTT
46357295 TATATATCATATCATAACTTACATAACTCACATAACTT-ACATAAATTAATAAC-T-TATAT-AT
1 TATATATCATATCATAACTTACATAACTCACATAA-TTCACATAAATTAATAACTTATATATCAT
46357356 ATCAT-A-T-CATAACTCACATAACTTACATAACTTAATAACTTT
65 ATCATAACTACATAACTCACATAACTTACATAACTTAATAACTTT
46357398 TATATATCATATCATAACTTACATAACT
1 TATATATCATATCATAACTTACATAACT
46357426 TGCATGATAT
Statistics
Matches: 126, Mismatches: 4, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
103 62 0.49
104 1 0.01
106 1 0.01
107 7 0.06
108 5 0.04
109 1 0.01
112 47 0.37
113 2 0.02
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (109 bp):
TATATATCATATCATAACTTACATAACTCACATAATTCACATAAATTAATAACTTATATATCATA
TCATAACTACATAACTCACATAACTTACATAACTTAATAACTTT
Found at i:46363247 original size:23 final size:23
Alignment explanation
Indices: 46363217--46363262 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
46363207 GCGTTGCTAA
*
46363217 AGGTCATGTTCTTTAGTGGCGTT
1 AGGTCATGTTCTTTAGTAGCGTT
46363240 AGGTCATGTTCTTTAGTAGCGTT
1 AGGTCATGTTCTTTAGTAGCGTT
46363263 TGTGATACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.15, C:0.13, G:0.28, T:0.43
Consensus pattern (23 bp):
AGGTCATGTTCTTTAGTAGCGTT
Found at i:46363347 original size:43 final size:43
Alignment explanation
Indices: 46363299--46363447 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 43
46363289 TAAAACCCCG
* * *
46363299 CTAAAGGTCATGTTCTTTATCAGCGTTTGTGACAAAAGCGCCA
1 CTAAAGGTCATGATCTTTAGCAGCGTTTGTGATAAAAGCGCCA
** * * * ** *
46363342 CTAAAGAACATGACCTTTAGCAGCGCTTCTCTTTAAA-CGCCA
1 CTAAAGGTCATGATCTTTAGCAGCGTTTGTGATAAAAGCGCCA
46363384 CTAAAGGTCATGATCTTTAGCAGCGTTTGTGATAAAAGCGCC-
1 CTAAAGGTCATGATCTTTAGCAGCGTTTGTGATAAAAGCGCCA
* *
46363426 CTTAGAGGTCATGTTCTTTAGC
1 C-TAAAGGTCATGATCTTTAGC
46363448 GGCATTTATG
Statistics
Matches: 83, Mismatches: 21, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
42 35 0.42
43 48 0.58
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (43 bp):
CTAAAGGTCATGATCTTTAGCAGCGTTTGTGATAAAAGCGCCA
Found at i:46368613 original size:17 final size:18
Alignment explanation
Indices: 46368587--46368621 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
46368577 ATTAGAAAAT
46368587 ACAAAGAAAAGAT-GAGG
1 ACAAAGAAAAGATCGAGG
*
46368604 ACAAATAAAAGATCGAGG
1 ACAAAGAAAAGATCGAGG
46368622 CATACATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.57, C:0.09, G:0.26, T:0.09
Consensus pattern (18 bp):
ACAAAGAAAAGATCGAGG
Found at i:46370141 original size:39 final size:39
Alignment explanation
Indices: 46370087--46370169 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 39
46370077 CGATTTATTA
*
46370087 TGAGTAAATCATGTTGCATGAATCCTTCTCCAATTAATT
1 TGAGTAAATCATGTTGCATGAATCATTCTCCAATTAATT
*
46370126 TGAGTAACTCATGTTGCATGAATCATTCTCCAATTAATT
1 TGAGTAAATCATGTTGCATGAATCATTCTCCAATTAATT
46370165 TGAGT
1 TGAGT
46370170 CGATTTAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (39 bp):
TGAGTAAATCATGTTGCATGAATCATTCTCCAATTAATT
Found at i:46371129 original size:21 final size:21
Alignment explanation
Indices: 46371084--46371159 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
46371074 ATCTTCAAGG
*
46371084 ATATGTAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
46371103 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
46371124 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
46371145 TTATGCAATCTTAGA
1 ATATGCAATCTTAGA
46371160 AGATATGATT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.34
21 35 0.66
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:46371692 original size:17 final size:17
Alignment explanation
Indices: 46371661--46371704 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
46371651 CATAACTTTT
*
46371661 ATATACA-TGTATATAC
1 ATATACATTTTATATAC
*
46371677 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
46371694 ATATACATTTT
1 ATATACATTTT
46371705 TTATTTCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:46371901 original size:30 final size:31
Alignment explanation
Indices: 46371867--46371924 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
46371857 TATTTGTTTA
*
46371867 TATATATATGTA-ATTATCTTTTTTATAATC
1 TATATATATGTATATAATCTTTTTTATAATC
*
46371897 TATATATATGTATATAATTTTTTTTATA
1 TATATATATGTATATAATCTTTTTTATA
46371925 TATGTACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (31 bp):
TATATATATGTATATAATCTTTTTTATAATC
Found at i:46371917 original size:28 final size:27
Alignment explanation
Indices: 46371865--46371944 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 27
46371855 ATTATTTGTT
*
46371865 TATATATATATGTAATTATCTTTTTTATAA
1 TATATATATATGT-A-TAT-ATTTTTATAA
* * *
46371895 TCTATATATATGTATATAATTTTTTTTA
1 TATATATATATGTATAT-ATTTTTATAA
* *
46371923 TATATGTACATGTATATATTTT
1 TATATATATATGTATATATTTT
46371945 GTACCATTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 5 0.12
28 24 0.57
29 1 0.02
30 12 0.29
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (27 bp):
TATATATATATGTATATATTTTTATAA
Found at i:46376463 original size:44 final size:44
Alignment explanation
Indices: 46376326--46376557 Score: 117
Period size: 44 Copynumber: 5.3 Consensus size: 44
46376316 AGACACCAAC
* * * * *
46376326 CTTGTCTCCCTAGGTTGTAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGTAGAT
* * ** ** * ** * * * *
46376370 ATTGCCTTCCTGCACTAACAGCGAAGCAGATCGAAGACACTAGCT
1 CTTGCCTCCCTG-GGTTGCAGCGAAGCAGGTTAAAAATAGTAGAT
*
46376415 -TTGCCTCCCTGGGTTGCAGCGTAGCAGGTTAAAAATAGTAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGTAGAT
* * **** * ** * * ** *
46376458 CTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGAAGCAGGTTAAAAATAGTAGAT
*
46376502 CTTGCCTCCCTAGGTTGCAGCGAAGCAGGTTAAAAATAGTAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGTAGAT
*
46376546 CTTGCCTTCCTG
1 CTTGCCTCCCTG
46376558 CACCGACAGC
Statistics
Matches: 121, Mismatches: 63, Indels: 8
0.63 0.33 0.04
Matches are distributed among these distances:
43 38 0.31
44 48 0.40
45 35 0.29
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (44 bp):
CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGTAGAT
Found at i:46376486 original size:45 final size:45
Alignment explanation
Indices: 46376431--46376567 Score: 109
Period size: 45 Copynumber: 3.1 Consensus size: 45
46376421 CCCTGGGTTG
*
46376431 CAGCGTAGCAGGTTAAAAATAGTAGATCTTGCCTTCTTGCACCGA
1 CAGCGAAGCAGGTTAAAAATAGTAGATCTTGCCTTCTTGCACCGA
* ** * * ** * * * ***
46376476 CAGCGAAGCAGATCGAAGACACCAG-CCTTGCCTCCCTAG-GTTG-
1 CAGCGAAGCAGGTTAAAAATAGTAGATCTTGCCT-TCTTGCACCGA
*
46376519 CAGCGAAGCAGGTTAAAAATAGTAGATCTTGCCTTCCTGCACCGA
1 CAGCGAAGCAGGTTAAAAATAGTAGATCTTGCCTTCTTGCACCGA
46376564 CAGC
1 CAGC
46376568 AAAGTAGATC
Statistics
Matches: 60, Mismatches: 28, Indels: 8
0.62 0.29 0.08
Matches are distributed among these distances:
43 20 0.33
44 16 0.27
45 24 0.40
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.21
Consensus pattern (45 bp):
CAGCGAAGCAGGTTAAAAATAGTAGATCTTGCCTTCTTGCACCGA
Found at i:46376690 original size:88 final size:88
Alignment explanation
Indices: 46376277--46376667 Score: 602
Period size: 88 Copynumber: 4.4 Consensus size: 88
46376267 GTGAAGATAA
* * *
46376277 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGTCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
46376342 GTAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* ** * *
46376365 CAGATATTGCCTTCCTGCACTAACAGCGAAGCAGATCGAAGACACTAGCTTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
46376430 GCAGCGTAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * *
46376453 TAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
46376518 GCAGCGAAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * *
46376541 TAGATCTTGCCTTCCTGCACCGACAGCAAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
46376606 GTAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* *
46376629 CAGATCTTGCCTTCCTGCACCGACAGTGAAGCAAATCGA
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
46376668 TGACCCCAAC
Statistics
Matches: 273, Mismatches: 30, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 273 1.00
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGTTAAAAATAG
Found at i:46377198 original size:44 final size:44
Alignment explanation
Indices: 46377119--46377240 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 44
46377109 GAAGATGGCG
* * * *
46377119 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATT-AAAGCAAA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAACCAAA
* * *
46377162 TAATCCTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAACCACA
1 -AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAACCAAA
* * *
46377207 GATCTTATCTCTCTGAAGTTGAAGTAGAGTAGAT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGAT
46377241 CACATCGGGT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 59 0.91
45 6 0.09
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAACCAAA
Found at i:46377709 original size:19 final size:19
Alignment explanation
Indices: 46377674--46377792 Score: 121
Period size: 19 Copynumber: 5.8 Consensus size: 19
46377664 GGTATTCAAG
*
46377674 GATATGTAATATTAGATAT
1 GATATGTAATCTTAGATAT
* *
46377693 GATCTGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
46377712 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
46377731 GATATATGTAATCTTAGATAT
1 G--ATATGTAATCTTAGATAT
*
46377752 GATTTATGCAATCTTAGAAGATAT
1 GA--TATGTAATCTT---AGATAT
*
46377776 GATTCTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
46377793 GATTTAATTT
Statistics
Matches: 85, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
19 35 0.41
20 3 0.04
21 29 0.34
23 10 0.12
24 8 0.09
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:46377791 original size:23 final size:24
Alignment explanation
Indices: 46377725--46377792 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 24
46377715 ATGTAATCTT
* *
46377725 AGATATGATATATGTAATCTT---
1 AGATATGATTTATGCAATCTTAGA
46377746 AGATATGATTTATGCAATCTTAGA
1 AGATATGATTTATGCAATCTTAGA
* *
46377770 AGATATGA-TTCTGTAATCTTAGA
1 AGATATGATTTATGCAATCTTAGA
46377793 GATTTAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.47
23 13 0.32
24 8 0.20
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (24 bp):
AGATATGATTTATGCAATCTTAGA
Found at i:46378120 original size:20 final size:20
Alignment explanation
Indices: 46378064--46378123 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
46378054 TCTTTTTTAT
* *
46378064 TTATTATTTATTTTTATTAAAT
1 TTATTA-TTATTGTTATT-AAG
*
46378086 TTGATT-TTCTTGTTATTAAG
1 TT-ATTATTATTGTTATTAAG
46378106 TTATTATTATTGTTATTA
1 TTATTATTATTGTTATTA
46378124 TTATCATCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 3 0.09
20 15 0.47
21 9 0.28
22 2 0.06
23 3 0.09
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.65
Consensus pattern (20 bp):
TTATTATTATTGTTATTAAG
Found at i:46378317 original size:17 final size:17
Alignment explanation
Indices: 46378286--46378320 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
46378276 TATATACATA
**
46378286 TATATACATTTACATTT
1 TATATACATAAACATTT
46378303 TATATACATAAACATTT
1 TATATACATAAACATTT
46378320 T
1 T
46378321 TTATTTCCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (17 bp):
TATATACATAAACATTT
Found at i:46378541 original size:30 final size:30
Alignment explanation
Indices: 46378486--46378542 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46378476 TATTTGTTTT
* *
46378486 TATATATATGTAATTATCTTTTTTATAATC
1 TATATATATGTAATAATCTTCTTTATAATC
46378516 TATATATATGTATATAAT-TTCTTTATA
1 TATATATATGTA-ATAATCTTCTTTATA
46378543 TATGTACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (30 bp):
TATATATATGTAATAATCTTCTTTATAATC
Found at i:46380591 original size:70 final size:70
Alignment explanation
Indices: 46380516--46381144 Score: 528
Period size: 70 Copynumber: 9.0 Consensus size: 70
46380506 ATTAAACTAA
* * * **
46380516 CGAGCCTTTAGAATCCAGCTGGGAGCATAAGCTCATGCTAACTATTTTGGAGGCTCTGGTATTGA
1 CGAGCCTTAAGATTCCAGCTGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCTCTGGTATTGA
*
46380581 ACTTG
66 ACCTG
* * * * * * * *
46380586 TGAGCCTTTAGATTCTAGTTGGGTGCATAGGCTCGCGCTAACTATTTTGGAGGCTGTGGTATTGA
1 CGAGCCTTAAGATTCCAGCTGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCTCTGGTATTGA
*
46380651 CCCTG
66 ACCTG
* * * * * **
46380656 CGAGGCTTAAGATCCCAGTTGGGAGCGTAGGCTCGCCCTAACTATTTTGGAGATTGC-GGTATTG
1 CGAGCCTTAAGATTCCAGCTGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCT-CTGGTATTG
* *
46380720 AACGTA
65 AACCTG
* * * * * *
46380726 CGAGCCTTAAGATTCTAGCTAGGAGCGTAAGCTCGAGCGAATTATTTTGGAGGCTGC-GTTATTG
1 CGAGCCTTAAGATTCCAGCTGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCT-CTGGTATTG
*
46380790 AACTTG
65 AACCTG
* * * * * ** ** * *
46380796 CGAGACTTAAGATTCCAACTTGAAGCGTAAGCTTGCGCTAGTTATTTTATAGGCTGC-AGTATTA
1 CGAGCCTTAAGATTCCAGCTGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCT-CTGGTATTG
*
46380860 AACCTA
65 AACCTG
* * * * * * * *
46380866 CGAGCCTTAAGATTCCAGATAGGAGCATAGGCCCGCGCTAACTATTTTAGAGGCTATGATATTGA
1 CGAGCCTTAAGATTCCAGCTGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCTCTGGTATTGA
46380931 ACCTG
66 ACCTG
* * * * * * * *
46380936 CGAGCCTTAAGATTACAGCTAGGAGTGTAGGCTTGCACTAACTCTTTTGGAGGCTGTGGTATTGA
1 CGAGCCTTAAGATTCCAGCTGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCTCTGGTATTGA
46381001 ACCTG
66 ACCTG
* * * * * * *
46381006 TGAACCTTAAGATTCCAGTTGGGAGCGTAAGCTCGCGTTAACTATTTTTGAGGTTAC-GATATTG
1 CGAGCCTTAAGATTCCAGCTGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCT-CTGGTATTG
*
46381070 AACTTG
65 AACCTG
* * * * * * *
46381076 CGAGCCTTAAGATTCTAGTTGGGAGCATAAGCTTGCACTAACTATTTTGGAGGTTGTGGTATTGA
1 CGAGCCTTAAGATTCCAGCTGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCTCTGGTATTGA
46381141 ACCT
66 ACCT
46381145 ACAAACCTAA
Statistics
Matches: 444, Mismatches: 111, Indels: 8
0.79 0.20 0.01
Matches are distributed among these distances:
70 444 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (70 bp):
CGAGCCTTAAGATTCCAGCTGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCTCTGGTATTGA
ACCTG
Found at i:46381152 original size:140 final size:140
Alignment explanation
Indices: 46380485--46381146 Score: 603
Period size: 140 Copynumber: 4.7 Consensus size: 140
46380475 TAGGTCCGCC
* * ** * * * *
46380485 AACTATTTTTGAGG-TCGCGATATTAAACTAACGAGCCTTTAGAATCCAGCTGGGAGCATAAGC-
1 AACTATTTTGGAGGCT-GCGATATTGAACTTGCGAGCCTTAAGATTCCAGTTGGGAGCGTAAGCT
* * ** * * * *
46380548 T-CATGCTAACTATTTTGGAGGCTCTGGTATTGAACTTGTGAGCCTTTAGATTCTAGTTGGGTGC
65 TGCA--CTAACTATTTTGGAGGCTGTGGTATTGAACCTACGAGCCTTAAGATTCCAGTTAGGAGC
*
46380612 ATAGGCTCGCGCT
128 ATAAGCTCGCGCT
* * * * * * * *
46380625 AACTATTTTGGAGGCTGTGGTATTGACCCTGCGAGGCTTAAGATCCCAGTTGGGAGCGTAGGCTC
1 AACTATTTTGGAGGCTGCGATATTGAACTTGCGAGCCTTAAGATTCCAGTTGGGAGCGTAAGCTT
* ** * * * * *
46380690 GCCCTAACTATTTTGGAGATTGCGGTATTGAACGTACGAGCCTTAAGATTCTAGCTAGGAGCGTA
66 GCACTAACTATTTTGGAGGCTGTGGTATTGAACCTACGAGCCTTAAGATTCCAGTTAGGAGCATA
* *
46380755 AGCTCGAGCG
131 AGCTCGCGCT
* * * * *
46380765 AATTATTTTGGAGGCTGCGTTATTGAACTTGCGAGACTTAAGATTCCAACTT-GAAGCGTAAGCT
1 AACTATTTTGGAGGCTGCGATATTGAACTTGCGAGCCTTAAGATTCC-AGTTGGGAGCGTAAGCT
* ** ** ** * *
46380829 TGCGCTAGTTATTTTATAGGCTGCAGTATTAAACCTACGAGCCTTAAGATTCCAGATAGGAGCAT
65 TGCACTAACTATTTTGGAGGCTGTGGTATTGAACCTACGAGCCTTAAGATTCCAGTTAGGAGCAT
* *
46380894 AGGCCCGCGCT
130 AAGCTCGCGCT
* ** * * * * * *
46380905 AACTATTTTAGAGGCTATGATATTGAACCTGCGAGCCTTAAGATTACAGCTAGGAGTGTAGGCTT
1 AACTATTTTGGAGGCTGCGATATTGAACTTGCGAGCCTTAAGATTCCAGTTGGGAGCGTAAGCTT
* ** * * *
46380970 GCACTAACTCTTTTGGAGGCTGTGGTATTGAACCTGTGAACCTTAAGATTCCAGTTGGGAGCGTA
66 GCACTAACTATTTTGGAGGCTGTGGTATTGAACCTACGAGCCTTAAGATTCCAGTTAGGAGCATA
*
46381035 AGCTCGCGTT
131 AGCTCGCGCT
* * * * *
46381045 AACTATTTTTGAGGTTACGATATTGAACTTGCGAGCCTTAAGATTCTAGTTGGGAGCATAAGCTT
1 AACTATTTTGGAGGCTGCGATATTGAACTTGCGAGCCTTAAGATTCCAGTTGGGAGCGTAAGCTT
*
46381110 GCACTAACTATTTTGGAGGTTGTGGTATTGAACCTAC
66 GCACTAACTATTTTGGAGGCTGTGGTATTGAACCTAC
46381147 AAACCTAAGA
Statistics
Matches: 411, Mismatches: 106, Indels: 10
0.78 0.20 0.02
Matches are distributed among these distances:
139 2 0.00
140 404 0.98
141 4 0.01
142 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (140 bp):
AACTATTTTGGAGGCTGCGATATTGAACTTGCGAGCCTTAAGATTCCAGTTGGGAGCGTAAGCTT
GCACTAACTATTTTGGAGGCTGTGGTATTGAACCTACGAGCCTTAAGATTCCAGTTAGGAGCATA
AGCTCGCGCT
Found at i:46383478 original size:47 final size:47
Alignment explanation
Indices: 46383425--46383811 Score: 623
Period size: 47 Copynumber: 8.2 Consensus size: 47
46383415 AATTCTAAAT
46383425 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
46383472 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT-
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
46383518 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
46383565 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
46383612 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
46383660 TATGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
46383709 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*** * * * * * * *
46383756 TGTGACGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
46383803 TGTGATAAG
1 TGTGATAAG
46383812 TCCCGAAGGG
Statistics
Matches: 317, Mismatches: 19, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
46 46 0.15
47 181 0.57
48 45 0.14
49 45 0.14
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:46383646 original size:95 final size:94
Alignment explanation
Indices: 46383425--46383811 Score: 623
Period size: 93 Copynumber: 4.1 Consensus size: 94
46383415 AATTCTAAAT
46383425 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
46383490 CCGATGTGATGAATGTGAAAGTGTATAT-
66 CCGATGTGATGAATGTGAAAGTGTATATA
46383518 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
46383583 CCGATGTGATGAATGTGAAAGTGTATATA
66 CCGATGTGATGAATGTGAAAGTGTATATA
* *
46383612 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATG
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
*
46383677 GCTGATGTGATGAATGTGAAAGTGTATATATA
65 GCCGATGTGATGAATGTGAAAGTG--TATATA
*** * *
46383709 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACGGGGCCGAGTGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* * * * *
46383774 CCAACGTGATGGATGTGAAAGTGCATAAA
66 CCGATGTGATGAATGTGAAAGTGTATATA
46383803 TGTGATAAG
1 TGTGATAAG
46383812 TCCCGAAGGG
Statistics
Matches: 274, Mismatches: 16, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
93 93 0.34
94 17 0.06
95 81 0.30
96 73 0.27
97 10 0.04
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (94 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATA
Found at i:46386043 original size:43 final size:43
Alignment explanation
Indices: 46385857--46386045 Score: 360
Period size: 43 Copynumber: 4.4 Consensus size: 43
46385847 TTGGTTTTCA
*
46385857 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
46385900 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
46385943 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
46385986 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
46386029 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
46386046 TTGAAATGCA
Statistics
Matches: 145, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 145 1.00
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Done.