Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 153 of 210
Found at i:46487914 original size:302 final size:300
Alignment explanation
Indices: 46487328--46487958 Score: 757
Period size: 302 Copynumber: 2.1 Consensus size: 300
46487318 ATGCTCAGGG
* *** *
46487328 ATTTAGCGGCGTTTTTTATAAAGCGCCGCAAAAAAACCTAAGCCAAACGACATTGTTTTTTGAGC
1 ATTTAGCGGCG-TTTTTAAAAAGCGCCGCAAAAAAACCTAAGCCAAACGACACCATTTTCTGAGC
**
46487393 TTTCGGGGATTTAGTGACGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTT
65 TTTCGGGGATTTAACGACGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTT
* * ** *
46487458 GAGAAAGCGCTGCAAAAAAACCTAAGCCAAACGACGTTGTTTTCTGAGCTTTCGGGGATTTAGCG
130 GAGAAAGCGCCGCAAAAAAAACTAAGCCAAACGACGCCGTTTTCTGAGCTATCGGGGATTTAGCG
* * * * *
46487523 GCGTTTTTTAGAAAGCGTCACTAATGCTCAAAGCTTTAGCAGCATTTTTGGGGATATGCCGCAAA
195 GCATTTTTAAGAAAGCGCCACTAATGCTCAAAGCTTTAGCAGCATTTTTGGGGAAACGCCGCAAA
* * *
46487588 AAAACCTAAGCCAAACGACACCGTTTTTTGAGCTTTCGGGC
260 AAAAACTAAGCCAAACGACACCGTTTTCTGAACTTTCGGGC
* * * *
46487629 ATTTAGTGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCATTTTCTGAGC
1 ATTTAGCGGCGTTTTT-AAAAAGCGCCGCAAAAAAACCTAAGCCAAACGACACCATTTTCTGAGC
* * * * * *
46487693 TTTCGGGGATTTAACGGCGTTTTTTAGAAAGCGCGGCTAATTCTCAGGGCTTTAG-GGTGTTTTT
65 TTTCGGGGATTTAACGACGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTT
* * * **
46487757 G-GGAAGTGCCGCAAAAAATAAAAACTAAGCCCAACGGTGCCGTTTTCTGAGCTATCGGGGATTT
130 GAGAAAGCGCCGC---AAA-AAAAACTAAGCCAAACGACGCCGTTTTCTGAGCTATCGGGGATTT
* ** * *
46487821 AGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTT-GGGAAAGCGCC
191 AGCGGCATTTTTAAGAAAGCGCCACTAATGCTCAAAGCTTTAGCAGCATTTTTGGGGAAA-CGCC
* * * *
46487885 GCAAAAAAAACTAAGCCGAACGGCACCGTTTTCTGAACTTTTGGGG
255 GCAAAAAAAACTAAGCCAAACGACACCGTTTTCTGAACTTTCGGGC
* *
46487931 ATTTAACGGCATTTTTAAAAAGCGCCGC
1 ATTTAGCGGCGTTTTTAAAAAGCGCCGC
46487959 TAATGCTCAG
Statistics
Matches: 277, Mismatches: 47, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
298 8 0.03
299 9 0.03
300 82 0.30
301 40 0.14
302 138 0.50
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (300 bp):
ATTTAGCGGCGTTTTTAAAAAGCGCCGCAAAAAAACCTAAGCCAAACGACACCATTTTCTGAGCT
TTCGGGGATTTAACGACGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTG
AGAAAGCGCCGCAAAAAAAACTAAGCCAAACGACGCCGTTTTCTGAGCTATCGGGGATTTAGCGG
CATTTTTAAGAAAGCGCCACTAATGCTCAAAGCTTTAGCAGCATTTTTGGGGAAACGCCGCAAAA
AAAACTAAGCCAAACGACACCGTTTTCTGAACTTTCGGGC
Found at i:46488381 original size:16 final size:16
Alignment explanation
Indices: 46488346--46488390 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
46488336 AGTGTTATGT
*
46488346 TTTAGGGGTTAGGGGGA
1 TTTAGGGGTTA-GAGGA
*
46488363 TTTATGGGTTAGAGGA
1 TTTAGGGGTTAGAGGA
46488379 TTTAGGGGTTAG
1 TTTAGGGGTTAG
46488391 GGGTTAGGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.20, C:0.00, G:0.44, T:0.36
Consensus pattern (16 bp):
TTTAGGGGTTAGAGGA
Found at i:46488412 original size:22 final size:24
Alignment explanation
Indices: 46488359--46488414 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 24
46488349 AGGGGTTAGG
*
46488359 GGGATTTATGGGTTAGAGGATTTA
1 GGGATTTAGGGGTTAGAGGATTTA
*
46488383 GGG-GTTAGGGGTTAG-GGATTT-
1 GGGATTTAGGGGTTAGAGGATTTA
46488404 GGGATTTAGGG
1 GGGATTTAGGG
46488415 TTTCAACAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 3 0.11
22 12 0.43
23 10 0.36
24 3 0.11
ACGTcount: A:0.20, C:0.00, G:0.46, T:0.34
Consensus pattern (24 bp):
GGGATTTAGGGGTTAGAGGATTTA
Found at i:46492459 original size:43 final size:43
Alignment explanation
Indices: 46492395--46492666 Score: 350
Period size: 43 Copynumber: 6.3 Consensus size: 43
46492385 TTTTCATGAC
* * * *
46492395 CTTTAGCGGCGTTTGTCGTAAAAGCGTCGCTAAAGGTCCTGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCGGCT
* *
46492438 CTTTAGCGGTGTTTGTGGTAAAAGCGCCG-TCAAAGGTCCGGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT-AAAGGTCCGGCT
* **
46492481 CTTTAGCGGCGTTTGTGGGAAAAGTGCTACTAAAGGTCCGGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCGGCT
*
46492524 CTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCCGGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCGGCT
* * * * **
46492567 CTTTAGCTGCGTTTTTGGGAAATGCGCCGCTAAAAGTCTTGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCGGCT
* *
46492610 CTTTAGCAGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCCCGG-T
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT-CCGGCT
46492653 CTTTAGCGGCGTTT
1 CTTTAGCGGCGTTT
46492667 ATTTCCAAAA
Statistics
Matches: 200, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.00
43 196 0.98
44 3 0.01
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCGGCT
Found at i:46492760 original size:22 final size:22
Alignment explanation
Indices: 46492730--46492771 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
46492720 CGGCGCTTCT
* *
46492730 AAAAGCGCCGCTAAAGGCCTAG
1 AAAAACGCCGCTAAAAGCCTAG
46492752 AAAAACGCCGCTAAAAGCCT
1 AAAAACGCCGCTAAAAGCCT
46492772 GTTTTGGTGT
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:0.40, C:0.29, G:0.21, T:0.10
Consensus pattern (22 bp):
AAAAACGCCGCTAAAAGCCTAG
Found at i:46494587 original size:13 final size:13
Alignment explanation
Indices: 46494569--46494594 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46494559 AACAGCTAAG
46494569 GCCTTCCTTATAC
1 GCCTTCCTTATAC
46494582 GCCTTCCTTATAC
1 GCCTTCCTTATAC
46494595 TCTTAACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.08, T:0.38
Consensus pattern (13 bp):
GCCTTCCTTATAC
Found at i:46497684 original size:18 final size:17
Alignment explanation
Indices: 46497661--46497695 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
46497651 GAATAGATTT
46497661 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
46497679 TTAATTAAAAAATTTAA
1 TTAATTAAAAAATTTAA
46497696 ACCCTAGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:46498544 original size:16 final size:17
Alignment explanation
Indices: 46498505--46498547 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
46498495 ATTTAGGGTT
46498505 TAAATTT-TTTAATTAA
1 TAAATTTATTTAATTAA
46498521 TTAAATTTATTTAATTAA
1 -TAAATTTATTTAATTAA
46498539 -AAATTTATT
1 TAAATTTATT
46498548 CTCATCCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.36
17 7 0.28
18 9 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAAATTTATTTAATTAA
Found at i:46500777 original size:29 final size:29
Alignment explanation
Indices: 46500744--46500829 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 29
46500734 AAAAGACCGT
46500744 TGAACGATTCCATAACAAATGCCCTCCCC
1 TGAACGATTCCATAACAAATGCCCTCCCC
46500773 TGAACAGGA-TCC-T------TGCCCTCCCC
1 TGAAC--GATTCCATAACAAATGCCCTCCCC
46500796 TGAACGATTCCATAACAAATGCCCTCCCC
1 TGAACGATTCCATAACAAATGCCCTCCCC
46500825 TGAAC
1 TGAAC
46500830 AAATGCTCCC
Statistics
Matches: 47, Mismatches: 0, Indels: 20
0.70 0.00 0.30
Matches are distributed among these distances:
21 2 0.04
22 3 0.06
23 16 0.34
29 21 0.45
30 3 0.06
31 2 0.04
ACGTcount: A:0.28, C:0.38, G:0.13, T:0.21
Consensus pattern (29 bp):
TGAACGATTCCATAACAAATGCCCTCCCC
Found at i:46500840 original size:16 final size:17
Alignment explanation
Indices: 46500809--46500845 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
46500799 ACGATTCCAT
46500809 AACAAATGCCCTCCCCTG
1 AACAAATG-CCTCCCCTG
46500827 AACAAATG-CTCCCCTG
1 AACAAATGCCTCCCCTG
46500843 AAC
1 AAC
46500846 GATTCCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.58
18 8 0.42
ACGTcount: A:0.32, C:0.41, G:0.11, T:0.16
Consensus pattern (17 bp):
AACAAATGCCTCCCCTG
Found at i:46500859 original size:11 final size:11
Alignment explanation
Indices: 46500843--46500867 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
46500833 TGCTCCCCTG
46500843 AACGATTCCAT
1 AACGATTCCAT
46500854 AACGATTCCAT
1 AACGATTCCAT
46500865 AAC
1 AAC
46500868 ACTACCGCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (11 bp):
AACGATTCCAT
Found at i:46508022 original size:206 final size:206
Alignment explanation
Indices: 46507668--46508069 Score: 531
Period size: 206 Copynumber: 2.0 Consensus size: 206
46507658 ATGCGGTGTG
* * * ** * *
46507668 CGTCGTAGAGGGCTTGAGCTGTGTCTTCCTCTCTGGGTAGTATGCTGAGTTTGGATACGAGTGAG
1 CGTCGTAGAGGGCTCGAGCTGAGTCTTCCTCTCTGGGCAGTATGCCAAATTTCGATACGAGTGAG
*
46507733 ACACCGATTTCACCCACTACTGAGACAGGGTCTTAAAGCCACTCGACTAGGGACGATGCACTGTC
66 ACACCGATTTCACCCACTACTGAGACAGGGTCTCAAAGCCACTCGACTAGGGACGATGCACTGTC
* * *
46507798 CCAAGCCATGCTGAGAGTTTTGGAGAGGGTCACTGGACCCTATTCTGGATCTGGGGGTCGTGGGT
131 CCAAGCCATGCTGAGAGTTTTGGAAAGGGTCACTGGACCCAATTCTGGATCTGGGGGCCGTGGGT
46507863 CGATAAGTGAA
196 CGATAAGTGAA
* * *
46507874 CGTCGTAG-GAGGCTCGAGTTGAGTCTTTCTCTTTGGGCAGTATGCCAAATTTCGATACGAGTGA
1 CGTCGTAGAG-GGCTCGAGCTGAGTCTTCCTCTCTGGGCAGTATGCCAAATTTCGATACGAGTGA
** * * * * *
46507938 GACACCGATTTCACGTACTACTGAGACTA-GGTCTCACAA-CCGCTTGGCTGGGGACGATGCATT
65 GACACCGATTTCACCCACTACTGAGAC-AGGGTCTCA-AAGCCACTCGACTAGGGACGATGCACT
* * * *
46508001 GTCTCAAGTCATGCTGAGAGTTTTGGAAAGGGTCACTGGACCCAATTTTGGATCTGGGGGCCGTT
128 GTCCCAAGCCATGCTGAGAGTTTTGGAAAGGGTCACTGGACCCAATTCTGGATCTGGGGGCCGTG
46508066 GGTC
193 GGTC
46508070 AGTAACTGAA
Statistics
Matches: 168, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
205 1 0.01
206 164 0.98
207 3 0.02
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (206 bp):
CGTCGTAGAGGGCTCGAGCTGAGTCTTCCTCTCTGGGCAGTATGCCAAATTTCGATACGAGTGAG
ACACCGATTTCACCCACTACTGAGACAGGGTCTCAAAGCCACTCGACTAGGGACGATGCACTGTC
CCAAGCCATGCTGAGAGTTTTGGAAAGGGTCACTGGACCCAATTCTGGATCTGGGGGCCGTGGGT
CGATAAGTGAA
Found at i:46515032 original size:18 final size:18
Alignment explanation
Indices: 46514986--46515038 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
46514976 TAAAGATAAC
* * *
46514986 TAAAAATAAACATAAACA
1 TAAAAACAAAAATAAAAA
*
46515004 TAAAAATAAAAATAAAAA
1 TAAAAACAAAAATAAAAA
* *
46515022 TAAAACCAAAAAGAAAA
1 TAAAAACAAAAATAAAA
46515039 CAAATAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.77, C:0.08, G:0.02, T:0.13
Consensus pattern (18 bp):
TAAAAACAAAAATAAAAA
Found at i:46515038 original size:6 final size:6
Alignment explanation
Indices: 46514986--46515026 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
46514976 TAAAGATAAC
* *
46514986 TAAAAA TAAACA TAAACA TAAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
46515027 CCAAAAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:46525429 original size:39 final size:40
Alignment explanation
Indices: 46525292--46525409 Score: 161
Period size: 40 Copynumber: 3.0 Consensus size: 40
46525282 TGCGTTTGGA
* *
46525292 TAAAAAAAGCCGCTAAAAATCA-AGCATTAGCGGCGCTTTT
1 TAAAAAACGCCACTAAAAAT-AGAGCATTAGCGGCGCTTTT
* * *
46525332 TAAAAAACGCCACTAAAGATAGAGTATTAGCAGCGCTTTT
1 TAAAAAACGCCACTAAAAATAGAGCATTAGCGGCGCTTTT
46525372 TAAAAAACGCCACTAAAAAT-GAGCATTAGCGGCG-TTTT
1 TAAAAAACGCCACTAAAAATAGAGCATTAGCGGCGCTTTT
46525410 CCAAAAAGCG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
38 4 0.06
39 13 0.19
40 52 0.75
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.24
Consensus pattern (40 bp):
TAAAAAACGCCACTAAAAATAGAGCATTAGCGGCGCTTTT
Found at i:46525585 original size:42 final size:41
Alignment explanation
Indices: 46525469--46525588 Score: 195
Period size: 41 Copynumber: 2.9 Consensus size: 41
46525459 TTTGGGTGCA
*
46525469 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGGCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
* *
46525510 TTAGTGGCGTTTATGAAGAAGCGCCGCTAATGCTCAGGGCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
*
46525551 TTAGCGGCGTTTTTTGGAGAAGCGCCGCTAATGCTCAG
1 TTAGCGGCG-TTTTTGAAGAAGCGCCGCTAATGCTCAG
46525589 ATTTATCATA
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 46 0.64
42 26 0.36
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
Found at i:46529313 original size:23 final size:23
Alignment explanation
Indices: 46529279--46529726 Score: 316
Period size: 23 Copynumber: 19.6 Consensus size: 23
46529269 NNNNNNNNNN
46529279 ATTGAAGTGTTTAAGTGCTGCAA
1 ATTGAAGTGTTTAAGTGCTGCAA
*
46529302 ATTGAAGCGTTTAAGTGCTGCAA
1 ATTGAAGTGTTTAAGTGCTGCAA
* * *
46529325 ATTGAAGTGCTT-AGTTGTTGGAA
1 ATTGAAGTGTTTAAG-TGCTGCAA
* *
46529348 ATTG-AGATGTTTTA-TCGCTG-TA
1 ATTGAAG-TGTTTAAGT-GCTGCAA
* * * * **
46529370 ATTGAGGTGTATAAATGTTGTTA
1 ATTGAAGTGTTTAAGTGCTGCAA
46529393 ATTGATA-TGTTTAAGTGCTGCAA
1 ATTGA-AGTGTTTAAGTGCTGCAA
* * *
46529416 ATTTAAGTGTTTAAATGCTGTAA
1 ATTGAAGTGTTTAAGTGCTGCAA
*
46529439 ATTGACGTGTTTAAGTGCTGCAA
1 ATTGAAGTGTTTAAGTGCTGCAA
46529462 ATTGAAGTGTTTAAGTGCTGCAA
1 ATTGAAGTGTTTAAGTGCTGCAA
* *
46529485 ATTGAAGTGCTT-AGTTGCTGGAA
1 ATTGAAGTGTTTAAG-TGCTGCAA
* * *
46529508 ATTG-AGATGTTTTA-TCGTTG-TA
1 ATTGAAG-TGTTTAAGT-GCTGCAA
* * * * **
46529530 ATTGAGGTGTATAAATGTTGTTA
1 ATTGAAGTGTTTAAGTGCTGCAA
46529553 ATTGATA-TGTTTAAGTGCTGCAA
1 ATTGA-AGTGTTTAAGTGCTGCAA
* * *
46529576 ATTTAAGTGTTTAAATGCTGTAA
1 ATTGAAGTGTTTAAGTGCTGCAA
46529599 ATTGAAGTGTTTAAGTGCTGCAA
1 ATTGAAGTGTTTAAGTGCTGCAA
*
46529622 ATTGAAGTGTTT-AGTTGCTGAAA
1 ATTGAAGTGTTTAAG-TGCTGCAA
* *
46529645 ATTG-AGATGTTTTA-TCGCTG-TA
1 ATTGAAG-TGTTTAAGT-GCTGCAA
* * * **
46529667 ATTGATGTGTATGAA-TGTTGTTA
1 ATTGAAGTGT-TTAAGTGCTGCAA
*
46529690 ATTGATA-TGTTAAAGTGCTGCAA
1 ATTGA-AGTGTTTAAGTGCTGCAA
46529713 ATTGAAGTGTTTAA
1 ATTGAAGTGTTTAA
46529727 ATTTAACTTG
Statistics
Matches: 339, Mismatches: 58, Indels: 56
0.75 0.13 0.12
Matches are distributed among these distances:
22 59 0.17
23 277 0.82
24 3 0.01
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.40
Consensus pattern (23 bp):
ATTGAAGTGTTTAAGTGCTGCAA
Found at i:46529532 original size:137 final size:137
Alignment explanation
Indices: 46529279--46529726 Score: 496
Period size: 137 Copynumber: 3.3 Consensus size: 137
46529269 NNNNNNNNNN
* * *
46529279 ATTGAAGTGTTTAAGTGCTGCAAATTGAAGCGTTTAAGTGCTGCAAATTGAAGTGCTT-AGTTGT
1 ATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAG-TGC
* * * * ** *
46529343 TGGAAATTG-AGATGTTTTA-TCGCT-GTAATTGAGGTGTATAAAT-GTTGTTAATTGATATGTT
65 TGCAAATTGAAG-TG-TTTAGTTGCTGGAAATTGAGATGT-TTTATCGTTG-TAATTGATATGTA
*
46529404 TAAGTGCTGCAA
126 TAAATGCTGCAA
* * * *
46529416 ATTTAAGTGTTTAAATGCTGTAAATTGACGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCT
1 ATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCT
* **
46529481 GCAAATTGAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGTTGTAATTGAGGTGTATAAAT
66 GCAAATTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATCGTTGTAATTGATATGTATAAAT
* **
46529546 GTTGTTA
131 GCTGCAA
* * *
46529553 ATTGATA-TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGC
1 ATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGC
* * * *
46529617 TGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTTTATCGCTGTAATTGATGTGTATGAA
65 TGCAAATTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATCGTTGTAATTGATATGTATAAA
* **
46529682 TGTTGTTA
130 TGCTGCAA
*
46529690 ATTGATA-TGTTAAAGTGCTGCAAATTGAAGTGTTTAA
1 ATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAA
46529727 ATTTAACTTG
Statistics
Matches: 270, Mismatches: 35, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
136 3 0.01
137 247 0.91
138 20 0.07
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.40
Consensus pattern (137 bp):
ATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCT
GCAAATTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATCGTTGTAATTGATATGTATAAAT
GCTGCAA
Found at i:46529694 original size:160 final size:160
Alignment explanation
Indices: 46529279--46529649 Score: 681
Period size: 160 Copynumber: 2.3 Consensus size: 160
46529269 NNNNNNNNNN
* *
46529279 ATTGAAGTGTTTAAGTGCTGCAAATTGAAGCGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGTT
1 ATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCT
*
46529344 GGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGT
66 GGAAATTGAGATGTTTTATCGTTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGT
46529409 GCTGCAAATTTAAGTGTTTAAATGCTGTAA
131 GCTGCAAATTTAAGTGTTTAAATGCTGTAA
*
46529439 ATTGACGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCT
1 ATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCT
46529504 GGAAATTGAGATGTTTTATCGTTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGT
66 GGAAATTGAGATGTTTTATCGTTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGT
46529569 GCTGCAAATTTAAGTGTTTAAATGCTGTAA
131 GCTGCAAATTTAAGTGTTTAAATGCTGTAA
*
46529599 ATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTT-AGTTGCTGAAAATTGA
1 ATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAG-TGCTGCAAATTGA
46529650 GATGTTTTAT
Statistics
Matches: 204, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
159 2 0.01
160 202 0.99
ACGTcount: A:0.29, C:0.07, G:0.25, T:0.39
Consensus pattern (160 bp):
ATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCT
GGAAATTGAGATGTTTTATCGTTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGT
GCTGCAAATTTAAGTGTTTAAATGCTGTAA
Found at i:46529727 original size:137 final size:137
Alignment explanation
Indices: 46529426--46529728 Score: 500
Period size: 137 Copynumber: 2.2 Consensus size: 137
46529416 ATTTAAGTGT
* * *
46529426 TTAAA-TGCTGTAAATTGACGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
* *
46529490 AGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGTTGTAATTGAGGTGTATAAATGTTGTTAAT
66 AGTGCTTAGTTGCTGAAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAAT
46529555 TGATATG
131 TGATATG
* * *
46529562 TTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGA
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
* * *
46529627 AGTGTTTAGTTGCTGAAAATTGAGATGTTTTATCGCTGTAATTGATGTGTATGAATGTTGTTAAT
66 AGTGCTTAGTTGCTGAAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAAT
46529692 TGATATG
131 TGATATG
46529699 TTAAAGTGCTGCAAATTGAAGTGTTTAAAT
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAAT
46529729 TTAACTTGTT
Statistics
Matches: 153, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
136 4 0.03
137 149 0.97
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (137 bp):
TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
AGTGCTTAGTTGCTGAAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAAT
TGATATG
Found at i:46530334 original size:10 final size:11
Alignment explanation
Indices: 46530311--46530336 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
46530301 TGGAATAGCG
46530311 TTTTTATAATT
1 TTTTTATAATT
46530322 TTTTTATAATT
1 TTTTTATAATT
46530333 TTTT
1 TTTT
46530337 GTGACCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:46530432 original size:43 final size:43
Alignment explanation
Indices: 46530342--46530525 Score: 242
Period size: 43 Copynumber: 4.3 Consensus size: 43
46530332 TTTTTGTGAC
* * * * *
46530342 CTTTAGTGGCGTTTTTTGGGGAATGCGCCGCTAAAAGTCCTGAT
1 CTTTAGCGGCG-TTTGTGGGAAAAGCGCCGCTAAAGGTCCTGAT
* *
46530386 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTCTGGT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGAT
* * *
46530429 CTTTACCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCCTAAT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGAT
* * *
46530472 CTTTAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGGTCCTGGT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGAT
46530515 CTTTAGCGGCG
1 CTTTAGCGGCG
46530526 ACGCGATCTT
Statistics
Matches: 121, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
43 111 0.92
44 10 0.08
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGAT
Found at i:46530619 original size:22 final size:22
Alignment explanation
Indices: 46530591--46530633 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
46530581 TAGCGTCGCT
*
46530591 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
46530613 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
46530634 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:46531864 original size:2 final size:2
Alignment explanation
Indices: 46531812--46531856 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
46531802 GTTGGGTCTT
46531812 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46531854 TA T
1 TA T
46531857 GCATATATCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:46534359 original size:30 final size:30
Alignment explanation
Indices: 46534315--46534383 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
46534305 CCCCTCTCTT
46534315 TTCTTTTC-TTTTCTGGTATGAAAATATTA
1 TTCTTTTCTTTTTCTGGTATGAAAATATTA
46534344 TTCTTTTCTTTTTCTGGTATGAAAATATTA
1 TTCTTTTCTTTTTCTGGTATGAAAATATTA
46534374 TTCTTTTCTT
1 TTCTTTTCTT
46534384 CCATAATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
29 8 0.21
30 31 0.79
ACGTcount: A:0.20, C:0.12, G:0.09, T:0.59
Consensus pattern (30 bp):
TTCTTTTCTTTTTCTGGTATGAAAATATTA
Found at i:46535306 original size:24 final size:24
Alignment explanation
Indices: 46535274--46535321 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
46535264 TCTTCAGCCA
*
46535274 AAGACAATTTTATTAATCTCAAAC
1 AAGAAAATTTTATTAATCTCAAAC
46535298 AAGAAAATTTTATTAATCTCAAAC
1 AAGAAAATTTTATTAATCTCAAAC
46535322 GGAAAACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (24 bp):
AAGAAAATTTTATTAATCTCAAAC
Found at i:46536663 original size:12 final size:11
Alignment explanation
Indices: 46536632--46536661 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
46536622 TTAAGTAAAC
46536632 AAATAAATATT
1 AAATAAATATT
46536643 AAATGAAATATT
1 AAAT-AAATATT
46536655 AAATAAA
1 AAATAAA
46536662 ATTTTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (11 bp):
AAATAAATATT
Found at i:46538377 original size:44 final size:43
Alignment explanation
Indices: 46538329--46538825 Score: 213
Period size: 44 Copynumber: 11.6 Consensus size: 43
46538319 GTTTTAATCC
*
46538329 GCTCCACTGCAAATTCAGGGAGATAAGATTGGTTTCTATCGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTATC-TCT
* * * * * * *
46538373 GCTCCACTGCAACTTCAGAGAAATAAGACTAGATGCGA--TCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTATCTCT
* * * *
46538414 GCTCTACTGCAACTTCAGAGAGATGAGATCTATGGTTTTTAATC-C-
1 GCTCCACTGCAACTTCAGGGAGATAAGA--T-TGGTTTCT-ATCTCT
* * *
46538459 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTTCGTCA
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTATC-TCT
* * * * *
46538503 GCTCCACTGTAACTTCAGGGAGATAAGACTGGATGCGATCTACT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTATCT-CT
* ** *
46538547 -CT--ACTGCAACTCCAGAAAGATGAGATCTATGGTTT-TAATC-C-
1 GCTCCACTGCAACTTCAGGGAGATAAGA--T-TGGTTTCT-ATCTCT
* * * * * *
46538588 GCTCCACTGCAACTTCAGGGGGATAGGGTTGATTTATTTCATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTATC-TCT
* * * * *
46538632 GCTCCACTGCAACTTCAAGGAGATAAGACTGGATGCGA--TCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTATCTCT
* * *
46538673 GCTCTACTGCAACTTCAGAGAGATGAGATCTATGGTTT-TAGTC-C-
1 GCTCCACTGCAACTTCAGGGAGATAAGA--T-TGGTTTCTA-TCTCT
* * * * ** * *
46538717 GCTCTACTGTAACTTTAGGGAGATAGGATTGACTTCTTTTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTC-TATCTCT
* ** * * *
46538761 GCTCCACTACTGCTT-AGGGAGATAAGACTT-GATGCGA--TCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTTTCTATCTCT
* *
46538801 GTTCTACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
46538826 GGATCTGTCA
Statistics
Matches: 328, Mismatches: 92, Indels: 69
0.67 0.19 0.14
Matches are distributed among these distances:
40 13 0.04
41 95 0.29
42 14 0.04
43 22 0.07
44 156 0.48
45 27 0.08
46 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTATCTCT
Found at i:46538529 original size:130 final size:129
Alignment explanation
Indices: 46538319--46538824 Score: 708
Period size: 129 Copynumber: 3.9 Consensus size: 129
46538309 ATGATTCATC
* * * *
46538319 GTTTTAATCCGCTCCACTGCAAATTCAGGGAGATAAGATTGGTTTCTATCGTCTGCTCCACTGCA
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGATTTATTTCGTCTGCTCCACTGCA
* * *
46538384 ACTTCAGAGAAATAAGACTAGATGCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATG
66 ACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATG
* * *
46538448 GTTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTTCGTCAGCTCCACTGT
1 G-TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGATTTATTTCGTCTGCTCCACTGC
* * *
46538513 AACTTCAGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTCCAGAAAGATGAGATCTATG
65 AACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATG
* * * *
46538578 GTTTTAATCCGCTCCACTGCAACTTCAGGGGGATAGGGTTGATTTATTTCATCTGCTCCACTGCA
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGATTTATTTCGTCTGCTCCACTGCA
*
46538643 ACTTCAAGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATG
66 ACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATG
* * * * * * * * * *
46538707 GTTTTAGTCCGCTCTACTGTAACTTTAGGGAGATAGGATTGACTTCTTTTGTCTGCTCCACTACT
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGATTTATTTCGTCTGCTCCACTGCA
* * * *
46538772 GCTT-AGGGAGATAAGACTTGATGCGATCTGTTCTACTGCAACTTCAGGGAGAT
66 ACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGAT
46538825 AGGATCTGTC
Statistics
Matches: 337, Mismatches: 39, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
128 45 0.13
129 174 0.52
130 118 0.35
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (129 bp):
GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGATTTATTTCGTCTGCTCCACTGCA
ACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATG
Found at i:46539249 original size:99 final size:99
Alignment explanation
Indices: 46539060--46539837 Score: 839
Period size: 99 Copynumber: 7.8 Consensus size: 99
46539050 AGATAGGATC
* * * * * *
46539060 CGCCATTGTGGCTTCAATCTTTTTAATTGTAATGTCGGGGAACACGATT-AGCCGTTGTAGCTTC
1 CGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCA-CCATCGTAGCTTC
* *
46539124 AATC-AGTTCCACTGCACCACCAAGG-AAGTAAGATT
65 AATCTA-CTCCACTGCACCGCC-AGGAAAGTAAGATT
* * ** *
46539159 CACCGTTGCGGCTTCAATCTTTTTAATTGTAATGTCGGGGAAGCAAGATTCACTGTCGTAGCTTT
1 CGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAA-CAAGATTCACCATCGTAGCTTC
46539224 AATCTACTCCACTGCACCGCCAGGAAAGTAAGATT
65 AATCTACTCCACTGCACCGCCAGGAAAGTAAGATT
* * * * * * *
46539259 CGCTGTTGCGACTTTAATCTTTTAAATTGCAATGTTGGGGAACGAGATTCACCATTGTAGCTTCA
1 CGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCACCATCGTAGCTTCA
*
46539324 ATCTGA-TCCACTGCATCGCCAGGAAAGTAAGATT
66 ATCT-ACTCCACTGCACCGCCAGGAAAGTAAGATT
* * * * * * *
46539358 CGTCGTTGCGGCTTCAATCTTTTTAAATGCAATGTTGGGGAAGCAAGATTCGCCACCGTAGTTTT
1 CGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAA-CAAGATTCACCATCGTAGCTTC
* * * *
46539423 AATCTGCCCCACTGCACTGCCAGAAAAGTAAGATT
65 AATCTACTCCACTGCACCGCCAGGAAAGTAAGATT
* * * * * * *
46539458 CACTGTTGCGACTTCAATCTTTTTAATTGTAATGTCGGGGAACGAGATTCGCCATTGTAGCTTCA
1 CGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCACCATCGTAGCTTCA
*
46539523 ATCTGA-TCCACTGCATCGCCAGGAAAGTAAGATT
66 ATCT-ACTCCACTGCACCGCCAGGAAAGTAAGATT
* * * * * * *
46539557 CACCGTTGCGGCTTTAATCTTTTAAATTACAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTT
1 CGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAA-CAAGATTCACCATCGTAGCTTC
* *
46539622 AATCTGCTCCACTGCATCGCCAGGAAAGTAAGATT
65 AATCTACTCCACTGCACCGCCAGGAAAGTAAGATT
* * * * *
46539657 CGCCGTTGTGTCTTCAATCTTTTTAATTACAATGTCGGGGAACGAGATTCACCGTTC-TAGCTTC
1 CGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCACC-ATCGTAGCTTC
* * * *
46539721 AATCTAATCCACTACATCGCTAGGAAAGTAAGATT
65 AATCTACTCCACTGCACCGCCAGGAAAGTAAGATT
* * * * *
46539756 CGCCGTTGCAGCTTCAATATTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTT
1 CGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAA-CAAGATTCACCATCGTAGCTTC
* *
46539821 AACCTGCTCCACTGCAC
65 AATCTACTCCACTGCAC
46539838 TACCAAGGAA
Statistics
Matches: 571, Mismatches: 95, Indels: 25
0.83 0.14 0.04
Matches are distributed among these distances:
99 293 0.51
100 276 0.48
101 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (99 bp):
CGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCACCATCGTAGCTTCA
ATCTACTCCACTGCACCGCCAGGAAAGTAAGATT
Found at i:46539367 original size:199 final size:199
Alignment explanation
Indices: 46539071--46539837 Score: 1083
Period size: 199 Copynumber: 3.9 Consensus size: 199
46539061 GCCATTGTGG
* * * *
46539071 CTTCAATCTTTTTAATTGTAATGTCGGGGAAC-ACGATT-AGCCGTTGTAGCTTCAATCAGTTCC
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAACGA-GATTCA-CCATTGTAGCTTCAATCTGATCC
* * * *
46539134 ACTGCACCACCAAGG-AAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGTAATGTCGGG
64 ACTGCATCGCC-AGGAAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGG
* ** *
46539198 GAAGCAAGATTCACTGTCGTAGCTTTAATCTACTCCACTGCACCGCCAGGAAAGTAAGATTCGCT
128 GAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGAAAGTAAGATTCGCT
46539263 GTTGCGA
193 GTTGCGA
* * *
46539270 CTTTAATCTTTTAAATTGCAATGTTGGGGAACGAGATTCACCATTGTAGCTTCAATCTGATCCAC
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAACGAGATTCACCATTGTAGCTTCAATCTGATCCAC
** *
46539335 TGCATCGCCAGGAAAGTAAGATTCGTCGTTGCGGCTTCAATCTTTTTAAA-TGCAATGTTGGGGA
66 TGCATCGCCAGGAAAGTAAGATTCACCGTTGCGGCTTCAATC-TTTTAAATTGCAATGTCGGGGA
* * * * * *
46539399 AGCAAGATTCGCCACCGTAGTTTTAATCTGCCCCACTGCACTGCCAGAAAAGTAAGATTCACTGT
130 AGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGAAAGTAAGATTCGCTGT
46539464 TGCGA
195 TGCGA
* *
46539469 CTTCAATCTTTTTAATTGTAATGTCGGGGAACGAGATTCGCCATTGTAGCTTCAATCTGATCCAC
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAACGAGATTCACCATTGTAGCTTCAATCTGATCCAC
* *
46539534 TGCATCGCCAGGAAAGTAAGATTCACCGTTGCGGCTTTAATCTTTTAAATTACAATGTCGGGGAA
66 TGCATCGCCAGGAAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
* * *
46539599 GCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGAAAGTAAGATTCGCCGTT
131 GCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGAAAGTAAGATTCGCTGTT
* *
46539664 GTGT
196 GCGA
* * * *
46539668 CTTCAATCTTTTTAATTACAATGTCGGGGAACGAGATTCACCGTTCTAGCTTCAATCTAATCCAC
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAACGAGATTCACCATTGTAGCTTCAATCTGATCCAC
* * * * *
46539733 TACATCGCTAGGAAAGTAAGATTCGCCGTTGCAGCTTCAATATTTTAAATTGCAATGTCGGGGAA
66 TGCATCGCCAGGAAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
*
46539798 GCAAGATTCGCCATCGTAGCTTTAACCTGCTCCACTGCAC
131 GCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGCAC
46539838 TACCAAGGAA
Statistics
Matches: 502, Mismatches: 61, Indels: 10
0.88 0.11 0.02
Matches are distributed among these distances:
198 10 0.02
199 484 0.96
200 8 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (199 bp):
CTTCAATCTTTTTAATTGCAATGTCGGGGAACGAGATTCACCATTGTAGCTTCAATCTGATCCAC
TGCATCGCCAGGAAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
GCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGAAAGTAAGATTCGCTGTT
GCGA
Found at i:46539605 original size:50 final size:50
Alignment explanation
Indices: 46539551--46539809 Score: 161
Period size: 50 Copynumber: 5.2 Consensus size: 50
46539541 CCAGGAAAGT
* * *
46539551 AAGATTCACCGTTGCGGCTTTAATCTTTTAAATTACAATGTCGGGGAAGC
1 AAGATTCGCCGTTGCAGCTTCAATCTTTTAAATTACAATGTCGGGGAAGC
* * * ** ** * * * * * *
46539601 AAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGC-ATCGCCAGGAAAGT
1 AAGATTCGCCGTTGCAGCTTCAATCTTTTAAATTACAAT-GTCGGGGAAGC
* *
46539651 AAGATTCGCCGTTG-TGTCTTCAATCTTTTTAATTACAATGTCGGGGAA-C
1 AAGATTCGCCGTTGCAG-CTTCAATCTTTTAAATTACAATGTCGGGGAAGC
* * ** ** * * * *
46539700 GAGATTCACCGTT-CTAGCTTCAATCTAATCCACTAC-ATCG-CTAGGAAAGT
1 AAGATTCGCCGTTGC-AGCTTCAATCTTTTAAATTACAAT-GTC-GGGGAAGC
* *
46539750 AAGATTCGCCGTTGCAGCTTCAATATTTTAAATTGCAATGTCGGGGAAGC
1 AAGATTCGCCGTTGCAGCTTCAATCTTTTAAATTACAATGTCGGGGAAGC
46539800 AAGATTCGCC
1 AAGATTCGCC
46539810 ATCGTAGCTT
Statistics
Matches: 148, Mismatches: 50, Indels: 22
0.67 0.23 0.10
Matches are distributed among these distances:
48 3 0.02
49 33 0.22
50 106 0.72
51 6 0.04
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (50 bp):
AAGATTCGCCGTTGCAGCTTCAATCTTTTAAATTACAATGTCGGGGAAGC
Found at i:46540189 original size:24 final size:24
Alignment explanation
Indices: 46540132--46540189 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
46540122 TGGATTGCCC
46540132 CCACTGTAATCTTCAAAGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
** * *
46540156 CTGCTGTAATCTTCAAGGTTCAGT
1 CCACTGTAATCTTCAAAGTTCAAT
*
46540180 CCACTATAAT
1 CCACTGTAAT
46540190 TTTAGGACAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:46541066 original size:7 final size:7
Alignment explanation
Indices: 46541054--46541105 Score: 52
Period size: 7 Copynumber: 7.0 Consensus size: 7
46541044 TTGGCCTCTC
46541054 CTTTTTT
1 CTTTTTT
46541061 CTTTTTTGTT
1 C--TTTT-TT
46541071 CTTCTTTT
1 CTT-TTTT
46541079 CTTTTTT
1 CTTTTTT
46541086 C-TTTTT
1 CTTTTTT
46541092 CTTTTTT
1 CTTTTTT
*
46541099 GTTTTTT
1 CTTTTTT
46541106 TTCAAGTGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
6 6 0.15
7 17 0.44
8 7 0.18
9 6 0.15
10 3 0.08
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (7 bp):
CTTTTTT
Found at i:46541080 original size:18 final size:18
Alignment explanation
Indices: 46541057--46541096 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
46541047 GCCTCTCCTT
*
46541057 TTTTCTTTTTTGTTCTTC
1 TTTTCTTTTTTCTTCTTC
*
46541075 TTTTCTTTTTTCTTTTTC
1 TTTTCTTTTTTCTTCTTC
46541093 TTTT
1 TTTT
46541097 TTGTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTTTCTTCTTC
Found at i:46546130 original size:23 final size:23
Alignment explanation
Indices: 46546095--46546139 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
46546085 TGGAGTATAA
* *
46546095 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
46546118 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
46546140 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:46546980 original size:41 final size:42
Alignment explanation
Indices: 46546906--46547036 Score: 126
Period size: 41 Copynumber: 3.2 Consensus size: 42
46546896 NNNNNNNNNN
* *
46546906 CGGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAA-TGC
1 CGGTGAAACAATATCAAACTATACGTCTAGCAGGC-TAAGTGC
* *
46546948 CGGTGAAAC-ATTTCAAACTATATGTCTAGCAGGCTAAGTGC
1 CGGTGAAACAATATCAAACTATACGTCTAGCAGGCTAAGTGC
* * ** * *
46546989 CGGTG-TACTGA-ATCAGGCTTTAAGTCTAGCAGGCTAAGTGC
1 CGGTGAAAC-AATATCAAACTATACGTCTAGCAGGCTAAGTGC
46547030 CGGTGAA
1 CGGTGAA
46547037 TCTGTTTAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
40 5 0.07
41 59 0.80
42 10 0.14
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (42 bp):
CGGTGAAACAATATCAAACTATACGTCTAGCAGGCTAAGTGC
Found at i:46551645 original size:2 final size:2
Alignment explanation
Indices: 46551638--46551670 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
46551628 ATAACATAAG
46551638 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
46551671 TTTAACACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46563052 original size:15 final size:15
Alignment explanation
Indices: 46563034--46563089 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
46563024 TAATTTTGAC
*
46563034 GTGTCTGGTAGTGAT
1 GTGTCTGATAGTGAT
* *
46563049 GTGTCTGTTAGTTAT
1 GTGTCTGATAGTGAT
* *
46563064 GTATCTGAAAGTGAT
1 GTGTCTGATAGTGAT
*
46563079 GTGTCTAATAG
1 GTGTCTGATAG
46563090 GATAAGGGTT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.21, C:0.07, G:0.30, T:0.41
Consensus pattern (15 bp):
GTGTCTGATAGTGAT
Found at i:46573744 original size:25 final size:25
Alignment explanation
Indices: 46573709--46573763 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
46573699 GTCACATGAC
*
46573709 TGTTTTAGTGAGTATTTTTTAATAT
1 TGTTTTAGTGACTATTTTTTAATAT
* * *
46573734 TGTTTTGGTGACTATTTTTTAGTTT
1 TGTTTTAGTGACTATTTTTTAATAT
46573759 TGTTT
1 TGTTT
46573764 CATCACATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.02, G:0.18, T:0.64
Consensus pattern (25 bp):
TGTTTTAGTGACTATTTTTTAATAT
Found at i:46573820 original size:20 final size:20
Alignment explanation
Indices: 46573795--46573834 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
46573785 GGTATCAGGT
46573795 TGAATATGGTCTAGACAGTC
1 TGAATATGGTCTAGACAGTC
*
46573815 TGAATATGGTCTAGGCAGTC
1 TGAATATGGTCTAGACAGTC
46573835 AGCACATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (20 bp):
TGAATATGGTCTAGACAGTC
Found at i:46573843 original size:20 final size:20
Alignment explanation
Indices: 46573800--46573844 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
46573790 CAGGTTGAAT
* *
46573800 ATGGTCTAGACAGTCTGAAT
1 ATGGTCTAGACAGTCAGAAC
* *
46573820 ATGGTCTAGGCAGTCAGCAC
1 ATGGTCTAGACAGTCAGAAC
46573840 ATGGT
1 ATGGT
46573845 GGACTTAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (20 bp):
ATGGTCTAGACAGTCAGAAC
Found at i:46574888 original size:25 final size:25
Alignment explanation
Indices: 46574822--46574891 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 25
46574812 CATATTCTCC
*
46574822 TATTACAATTTGTAAGCAACAACAA
1 TATTACAATTTGTAAGAAACAACAA
* * *
46574847 TAGTACAA----AACATAAACAACAA
1 TATTACAATTTGTA-AGAAACAACAA
46574869 TATTACAATTTGTAAGAAACAAC
1 TATTACAATTTGTAAGAAACAAC
46574892 CACATATTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 10
0.66 0.14 0.20
Matches are distributed among these distances:
21 1 0.03
22 16 0.48
25 15 0.45
26 1 0.03
ACGTcount: A:0.53, C:0.16, G:0.07, T:0.24
Consensus pattern (25 bp):
TATTACAATTTGTAAGAAACAACAA
Found at i:46575392 original size:3 final size:3
Alignment explanation
Indices: 46575384--46575421 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
46575374 TTCTCTTTTC
*
46575384 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT ATT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
46575422 ACTGCATAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:46578306 original size:42 final size:41
Alignment explanation
Indices: 46578252--46578557 Score: 398
Period size: 42 Copynumber: 7.3 Consensus size: 41
46578242 TTATTTCTAT
* * *
46578252 AAACGCTGCTATAGGTCATGACCTTTAGCGGCGCTTCTCCAA
1 AAACGCCGCTATAGATCA-GACCTTTAGCGGCGCTTCTCCAC
* *
46578294 AAATGCCGCTATAGATCAGGACCTTTAGCGGCGCTTCCCCAC
1 AAACGCCGCTATAGATCA-GACCTTTAGCGGCGCTTCTCCAC
46578336 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTT-TCCCAC
1 AAACGCCGCTATAGATCA-GACCTTTAGCGGCGCTTCT-CCAC
*
46578378 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTATAGATCA-GACCTTTAGCGGCGC-TTCTCCAC
* *
46578421 AAACGCCGCTATAGAACAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAGACCTTTAGCGGCGCTTCT-CCAC
* * *
46578463 AAACGCTGCTATAGAACAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAGACCTTTAGCGGCGCTTCT-CCAC
* * *
46578505 AAACGCCACTATAGAACAGACCTTTAGCGGCGCTTTTCACAC
1 AAACGCCGCTATAGATCAGACCTTTAGCGGCGCTTCTC-CAC
46578547 AAACGCCGCTA
1 AAACGCCGCTA
46578558 AAAAAATATC
Statistics
Matches: 243, Mismatches: 16, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
41 3 0.01
42 217 0.89
43 23 0.09
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (41 bp):
AAACGCCGCTATAGATCAGACCTTTAGCGGCGCTTCTCCAC
Found at i:46578393 original size:84 final size:85
Alignment explanation
Indices: 46578252--46578557 Score: 458
Period size: 84 Copynumber: 3.6 Consensus size: 85
46578242 TTATTTCTAT
* ** * * *
46578252 AAACGCTGCTATAGGTCATGACCTTTAGCGGCGCTTCT-CCAAAAATGCCGCTATAGATCAGGAC
1 AAACGCCGCTATAGAACA-GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
46578316 CTTTAGCGGCGC-TTCCCCAC
65 CTTTAGCGGCGCTTTCCCCAC
*
46578336 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTCCCACAAACGCCGCTATAGATCAGGAC
1 AAACGCCGCTATAGAACA-GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
46578400 CTTTAGCGGCGCTTTCCCCAC
65 CTTTAGCGGCGCTTTCCCCAC
* *
46578421 AAACGCCGCTATAGAACAGACCTTTAGCGGCGCTTTTCCCACAAACGCTGCTATAGAACA-GACC
1 AAACGCCGCTATAGAACAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGACC
*
46578485 TTTAGCGGCGCTTTTCCCAC
66 TTTAGCGGCGCTTTCCCCAC
* *
46578505 AAACGCCACTATAGAACAGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTA
1 AAACGCCGCTATAGAACAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTA
46578558 AAAAAATATC
Statistics
Matches: 206, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
83 2 0.01
84 155 0.75
85 49 0.24
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (85 bp):
AAACGCCGCTATAGAACAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGACC
TTTAGCGGCGCTTTCCCCAC
Found at i:46578485 original size:126 final size:127
Alignment explanation
Indices: 46578252--46578557 Score: 440
Period size: 126 Copynumber: 2.4 Consensus size: 127
46578242 TTATTTCTAT
* * * * * *
46578252 AAACGCTGCTATAGGTCATGACCTTTAGCGGCGC-TTCTCCAAAAATGCCGCTATAGATCAGGAC
1 AAACGCCGCTATAGATCA-GACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTATAGAACAGGAC
*
46578316 CTTTAGCGGCGCTTCCCCACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTCCCAC
65 CTTTAGCGGCGCTTCCCCACAAACGCCGCTATAGAACAGGACCTTTAGCGGCGCTTTTCCCAC
46578378 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTATAGAACA-GAC
1 AAACGCCGCTATAGATCA-GACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTATAGAACAGGAC
* *
46578442 CTTTAGCGGCGCTTTTCCCACAAACGCTGCTATAGAACA-GACCTTTAGCGGCGCTTTTCCCAC
65 CTTTAGCGGCGC-TTCCCCACAAACGCCGCTATAGAACAGGACCTTTAGCGGCGCTTTTCCCAC
* * * *
46578505 AAACGCCACTATAGAACAGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTA
1 AAACGCCGCTATAGATCAGACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTA
46578558 AAAAAATATC
Statistics
Matches: 163, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
126 94 0.58
127 69 0.42
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (127 bp):
AAACGCCGCTATAGATCAGACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTATAGAACAGGACC
TTTAGCGGCGCTTCCCCACAAACGCCGCTATAGAACAGGACCTTTAGCGGCGCTTTTCCCAC
Found at i:46578599 original size:15 final size:15
Alignment explanation
Indices: 46578556--46578599 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46578546 CAAACGCCGC
*
46578556 TAAAAAAATATCTTT
1 TAAAAAAATATTTTT
46578571 TAAAAAAATAATTTTT
1 TAAAAAAAT-ATTTTT
* *
46578587 TTAAATAATATTT
1 TAAAAAAATATTT
46578600 ATTTCTATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAAAAAATATTTTT
Found at i:46582876 original size:18 final size:21
Alignment explanation
Indices: 46582853--46582907 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
46582843 CAAAACACGT
46582853 AAAAAACTGAACC-AG-A-TA
1 AAAAAACTGAACCGAGTACTA
*
46582871 AAAAAAATGAACCGAGTACTA
1 AAAAAACTGAACCGAGTACTA
*
46582892 AAAATACTGAACCGAG
1 AAAAAACTGAACCGAG
46582908 AAGGGATAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 12 0.39
19 2 0.06
20 1 0.03
21 16 0.52
ACGTcount: A:0.56, C:0.16, G:0.15, T:0.13
Consensus pattern (21 bp):
AAAAAACTGAACCGAGTACTA
Found at i:46583084 original size:20 final size:21
Alignment explanation
Indices: 46583059--46583097 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
46583049 CTAGTTAATC
46583059 TAAACCCT-AAACCATAAATT
1 TAAACCCTAAAACCATAAATT
46583079 TAAACCCTAAAACCATAAA
1 TAAACCCTAAAACCATAAA
46583098 CCCTTAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAACCCTAAAACCATAAATT
Found at i:46583155 original size:21 final size:21
Alignment explanation
Indices: 46583107--46583155 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
46583097 ACCCTTAACA
*
46583107 CATAACCTCTAAACCTTAAAC
1 CATAACCTCTAAACCATAAAC
** *
46583128 CCCAACCTTTAAACCATAAAC
1 CATAACCTCTAAACCATAAAC
46583149 CATAACC
1 CATAACC
46583156 CATAATCCCT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (21 bp):
CATAACCTCTAAACCATAAAC
Found at i:46583172 original size:15 final size:15
Alignment explanation
Indices: 46583137--46583185 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
46583127 CCCCAACCTT
*
46583137 TAAA-CCATAAACCA
1 TAAACCCATAATCCA
*
46583151 T-AACCCATAATCCC
1 TAAACCCATAATCCA
46583165 TAAACCCATAATCCA
1 TAAACCCATAATCCA
46583180 TAAACC
1 TAAACC
46583186 TTAAAATGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 2 0.07
14 10 0.33
15 18 0.60
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:46583252 original size:74 final size:74
Alignment explanation
Indices: 46583163--46583307 Score: 220
Period size: 74 Copynumber: 2.0 Consensus size: 74
46583153 ACCCATAATC
* * *
46583163 CCTAAACCCATAATCCATAAACCTTAAAATGGCAACACCTAAACC-AGTCTAAACCGTGCACCCT
1 CCTAAACCCAAAATCCATAAACCTTAAAATGGCAACACCTAAACCTA-TCTAAACCATACACCCT
46583227 AAACCAAGGA
65 AAACCAAGGA
* * *
46583237 CCTAAACCCAAAATCCATAAACCTTAAAATGGTAACACCTAAACCTATTTAAACCATATACCCTA
1 CCTAAACCCAAAATCCATAAACCTTAAAATGGCAACACCTAAACCTATCTAAACCATACACCCTA
46583302 AACCAA
66 AACCAA
46583308 AAACCCTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 63 0.98
75 1 0.02
ACGTcount: A:0.44, C:0.31, G:0.06, T:0.19
Consensus pattern (74 bp):
CCTAAACCCAAAATCCATAAACCTTAAAATGGCAACACCTAAACCTATCTAAACCATACACCCTA
AACCAAGGA
Found at i:46583427 original size:66 final size:66
Alignment explanation
Indices: 46583321--46583454 Score: 250
Period size: 66 Copynumber: 2.0 Consensus size: 66
46583311 CCCTAAACTA
*
46583321 TAGTGATAATAAATTCAATATTTTAAAATTAATACTATCTCTTTTATGATTATATAAGAAATTAT
1 TAGTGATAATAAATTCAATATTTTAAAATTAATACTATCTCTTTTACGATTATATAAGAAATTAT
46583386 T
66 T
*
46583387 TAGTGATAATTAATTCAATATTTTAAAATTAATACTATCTCTTTTACGATTATATAAGAAATTAT
1 TAGTGATAATAAATTCAATATTTTAAAATTAATACTATCTCTTTTACGATTATATAAGAAATTAT
46583452 T
66 T
46583453 TA
1 TA
46583455 ATATATAAAT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.46
Consensus pattern (66 bp):
TAGTGATAATAAATTCAATATTTTAAAATTAATACTATCTCTTTTACGATTATATAAGAAATTAT
T
Found at i:46583629 original size:41 final size:41
Alignment explanation
Indices: 46583574--46583810 Score: 352
Period size: 41 Copynumber: 5.8 Consensus size: 41
46583564 CCTGAGCATT
* *
46583574 ATTAGCGGTGCTTTCTCAAAAACGCCGCTAAAGGCCTGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCCTGGGC
* *
46583615 ATTAGCGGCACTTTCCCAAAAACGCCACTAAAGGCCTGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCCTGGGC
46583656 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAA-GCCATGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCC-TGGGC
*
46583697 ATTAGCGGCGCTTTCCCAAAATCGCCGCTAAA-GCCATGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCC-TGGGC
* * *
46583738 ATTAGCGACGCTTTCCCAAAAACGCCGCTAAAGCCCTAGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCCTGGGC
* *
46583779 ATTAGCGGCGCTTTCCTAAACACGCCGCTAAA
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAA
46583811 TCCCCGAAAG
Statistics
Matches: 180, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 3 0.02
41 175 0.97
42 2 0.01
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (41 bp):
ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCCTGGGC
Found at i:46583933 original size:39 final size:40
Alignment explanation
Indices: 46583875--46583975 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 40
46583865 ATTGAAAATG
* * *
46583875 CCGCTAATGCT-TATTTTTAGCGGCG-TTTCCATAAAGCA
1 CCGCTAATGCTCGATCTTTAGCGGCGTTTTCCAAAAAGCA
*
46583913 CCGCTAAAT-CTCGATCTTTAGCGGCGTTTTCCAAAAAGCG
1 CCGCT-AATGCTCGATCTTTAGCGGCGTTTTCCAAAAAGCA
*
46583953 CCGCTAATGCTCGATTTTTAGCG
1 CCGCTAATGCTCGATCTTTAGCG
46583976 ACATTTTTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
38 7 0.13
39 18 0.33
40 29 0.54
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (40 bp):
CCGCTAATGCTCGATCTTTAGCGGCGTTTTCCAAAAAGCA
Found at i:46585120 original size:20 final size:20
Alignment explanation
Indices: 46585092--46585130 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46585082 AAGCAGAAGC
* *
46585092 AAAAGTAGAGAAAGAAAAAG
1 AAAAATAGAAAAAGAAAAAG
*
46585112 AAAAATAGAAAAATAAAAA
1 AAAAATAGAAAAAGAAAAA
46585131 TATTTGTAAT
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:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (20 bp):
AAAAATAGAAAAAGAAAAAG
Found at i:46591876 original size:44 final size:44
Alignment explanation
Indices: 46591828--46592013 Score: 153
Period size: 44 Copynumber: 4.1 Consensus size: 44
46591818 TGGAGTAAGA
*
46591828 TGAAGCTACAAATCTTATACCCCTGTAGTTACAGTGGGTCAGAT
1 TGAAGCTACAAATCTTATACCCCTGAAGTTACAGTGGGTCAGAT
* *
46591872 TGAAGTTACCATAGTGAGTCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAAGA-
1 TGAAGCTA-CA-A---A-TCTTATAC-CCCTGAAGTTACAGTGG-GTC-AGAT
* * **
46591922 TGAAGCTACAAATCTTATATCCCTAAAGTTACAGTGCATCAGAT
1 TGAAGCTACAAATCTTATACCCCTGAAGTTACAGTGGGTCAGAT
* * * * * *
46591966 TGAAGATACAATTCCTATACCCTTGAAGTTGCAGTGGGTCAGAA
1 TGAAGCTACAAATCTTATACCCCTGAAGTTACAGTGGGTCAGAT
46592010 TGAA
1 TGAA
46592014 ATTAGAATGG
Statistics
Matches: 111, Mismatches: 19, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
43 3 0.03
44 66 0.59
45 3 0.03
46 1 0.01
48 1 0.01
49 4 0.04
50 29 0.26
51 4 0.04
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
TGAAGCTACAAATCTTATACCCCTGAAGTTACAGTGGGTCAGAT
Found at i:46591914 original size:94 final size:94
Alignment explanation
Indices: 46591743--46591970 Score: 323
Period size: 94 Copynumber: 2.4 Consensus size: 94
46591733 GTGAAACAAT
** * *
46591743 AAATCTTATACCCCTAAAGTTGTAGTGGGTC-GAATTGAACTTACCATAGCGAGTCTTATCTCCT
1 AAATCTTATACCCCTAAAGTTACAGTGGGTCAG-ATTGAAGTTACCATAGCGAGTCTTATCTCCC
* * *
46591807 TGAATTTGTAGTGGAGTAAGATGAAGCTAC
65 TGAAGTTGCAGTGGAGCAAGATGAAGCTAC
** *
46591837 AAATCTTATACCCCTGTAGTTACAGTGGGTCAGATTGAAGTTACCATAGTGAGTCTTATCTCCCT
1 AAATCTTATACCCCTAAAGTTACAGTGGGTCAGATTGAAGTTACCATAGCGAGTCTTATCTCCCT
46591902 GAAGTTGCAGTGGAGCAAGATGAAGCTAC
66 GAAGTTGCAGTGGAGCAAGATGAAGCTAC
* **
46591931 AAATCTTATATCCCTAAAGTTACAGTGCATCAGATTGAAG
1 AAATCTTATACCCCTAAAGTTACAGTGGGTCAGATTGAAG
46591971 ATACAATTCC
Statistics
Matches: 118, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
94 117 0.99
95 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (94 bp):
AAATCTTATACCCCTAAAGTTACAGTGGGTCAGATTGAAGTTACCATAGCGAGTCTTATCTCCCT
GAAGTTGCAGTGGAGCAAGATGAAGCTAC
Found at i:46591926 original size:50 final size:49
Alignment explanation
Indices: 46591778--46591926 Score: 125
Period size: 50 Copynumber: 3.1 Consensus size: 49
46591768 TGGGTCGAAT
* * * * *
46591778 TGAACTTACCATAGCGAGTCTTATCTCCTTGAATTTGTAGTGGAGTAAGA
1 TGAAGTTACCATAG-GAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA
* * *
46591828 TGAAGCTA-CA-A--A-TCTTATAC-CCCTGTAGTTACAGTGG-GTC-AGA
1 TGAAGTTACCATAGGAGTCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAAGA
46591871 TTGAAGTTACCATAGTGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA
1 -TGAAGTTACCATAG-GAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA
46591922 TGAAG
1 TGAAG
46591927 CTACAAATCT
Statistics
Matches: 76, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
43 4 0.05
44 25 0.33
45 4 0.05
46 1 0.01
48 1 0.01
49 4 0.05
50 33 0.43
51 4 0.05
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (49 bp):
TGAAGTTACCATAGGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA
Found at i:46592047 original size:138 final size:137
Alignment explanation
Indices: 46591893--46592220 Score: 417
Period size: 138 Copynumber: 2.4 Consensus size: 137
46591883 TAGTGAGTCT
* *
46591893 TATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCTTATATCCCTAAAGT-TACAGT
1 TATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTAAAGTCTA-A-T
* * *
46591957 GCATCAGATTGAAGATACAATTCCTATACCCTTGAAGTTGCAGTGGGTCAGAATGAAATTAGAAT
64 GCATCAAATTGAAGATACAATTCCTATACCCTTGAAGTTGCAGTGGGTCAGAATGAAACTACAAT
46592022 GGCAAATCC
129 GGCAAATCC
* * * *
46592031 TATTTTCCTAAAGTTGCAGTGAAGCAAGATGAAGCTTCAAATCCTATATCCCTAAAGTCGTAATG
1 TATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTAAAGTC-TAATG
* * * *
46592096 GATCAAATTGAATATACAATTCCTATACCGTTGAAGTTGTAGTGGGTCAGAATGAAACTACAATG
65 CATCAAATTGAAGATACAATTCCTATACCCTTGAAGTTGCAGTGGGTCAGAATGAAACTACAATG
**
46592161 GTGAATCC
130 GCAAATCC
* ** * * * *
46592169 TATCTCCCTGAAGTTATAGTAGAACAAGATAAAGCTACAAATACTATA-CCCT
1 TATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCT
46592221 TGAAGTTGCA
Statistics
Matches: 162, Mismatches: 26, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
137 4 0.02
138 155 0.96
139 1 0.01
140 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (137 bp):
TATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTAAAGTCTAATGC
ATCAAATTGAAGATACAATTCCTATACCCTTGAAGTTGCAGTGGGTCAGAATGAAACTACAATGG
CAAATCC
Found at i:46592461 original size:44 final size:44
Alignment explanation
Indices: 46592413--46592560 Score: 104
Period size: 44 Copynumber: 3.2 Consensus size: 44
46592403 TCTCCCTGAG
46592413 GTTACAGTGGAGCAAGATGAAACTACAAATCCTATATCTCTAAA
1 GTTACAGTGGAGCAAGATGAAACTACAAATCCTATATCTCTAAA
* * * *
46592457 GTTACTGTGG-GTC-AGAATGAAACTACAATGGTGAATCTTATCTCCCTAAA
1 GTTACAGTGGAG-CAAG-ATGAAACTAC-A-----AATCCTATATCTCTAAA
** * * *
46592507 GTTGTAATGAAGCAAGATGAAGA-TACAAATCCTATACCTCTAAA
1 GTTACAGTGGAGCAAGATGAA-ACTACAAATCCTATATCTCTAAA
*
46592551 GTTGCAGTGG
1 GTTACAGTGG
46592561 GTCGGATTGA
Statistics
Matches: 77, Mismatches: 16, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
43 3 0.04
44 40 0.52
45 1 0.01
49 1 0.01
50 28 0.36
51 4 0.05
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (44 bp):
GTTACAGTGGAGCAAGATGAAACTACAAATCCTATATCTCTAAA
Found at i:46592571 original size:232 final size:231
Alignment explanation
Indices: 46591980--46592572 Score: 636
Period size: 232 Copynumber: 2.6 Consensus size: 231
46591970 GATACAATTC
* * * * * * *
46591980 CTATACCCTTGAAGTTGCAGTGGGTCAGAATGAAATTAGAATGGCAAATCCTATTTTCCTAAAGT
1 CTATACCCTTAAAGTTACAGTGGGTCAGAATGAAATTACAATGGTAAATCTTATCTCCCTAAAGT
* * * * * *
46592045 TGCAGTGAAGCAAGATGAAGCTTCAAATCCTATATCCCTAAAGTCGTAATGGATCAAATTGAATA
66 TGCAGTGAAGCAAGATGAAGATACAAATCCTATA-CCCTAAAGTTGTAGTGGATCAGATTGAAGA
** * * * *
46592110 TACAATTCCTATACCGTTGAAGTTGTAGTGGGTCAGAATGAAACTACAATGGTGAATCCTATCTC
130 TACAATTCCTATACCCCTAAAGTTGCAATGGGTCAGAATGAAACTACAATGGCGAATCCTATCTC
*
46592175 CCTGAAGTTATAGTAGAACAAGATAAAGCTACAAATA
195 CCTGAAGTTACAGTAGAACAAGATAAAGCTACAAATA
* * * * * *
46592212 CTATACCCTTGAAGTTGCAGTGGGTC-GAATTAGAGTTATC-ATAGTTAATCTTATCTCCCTAAA
1 CTATACCCTTAAAGTTACAGTGGGTCAGAATGA-AATTA-CAATGGTAAATCTTATCTCCCTAAA
* * * * * *
46592275 GTTGCAGTGGAGCAAGATGAAGTTACAAATCCTATATCACTGATGTTATAGTGGATCAGATTGAA
64 GTTGCAGTGAAGCAAGATGAAGATACAAATCCTATA-CCCTAAAGTTGTAGTGGATCAGATTGAA
* * * * * *
46592340 GATATAATTTCTATGCCCCTAAAGTTGCAATGGGTCGGAATGAAATTACACTGGCGAATCCTATC
128 GATACAATTCCTATACCCCTAAAGTTGCAATGGGTCAGAATGAAACTACAATGGCGAATCCTATC
* * * *
46592405 TCCCTGAGGTTACAGTGGAGCAAGATGAAA-CTACAAATC
193 TCCCTGAAGTTACAGTAGAACAAGAT-AAAGCTACAAATA
* * * *
46592444 CTATA-TCTCTAAAGTTACTGTGGGTCAGAATGAAACTACAATGGTGAATCTTATCTCCCTAAAG
1 CTATACCCT-TAAAGTTACAGTGGGTCAGAATGAAATTACAATGGTAAATCTTATCTCCCTAAAG
* * * * *
46592508 TTGTAATGAAGCAAGATGAAGATACAAATCCTATACCTCTAAAGTTGCAGTGGGTCGGATTGAAG
65 TTGCAGTGAAGCAAGATGAAGATACAAATCCTATACC-CTAAAGTTGTAGTGGATCAGATTGAAG
46592573 CTACCATGGT
Statistics
Matches: 297, Mismatches: 57, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
231 9 0.03
232 280 0.94
233 8 0.03
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (231 bp):
CTATACCCTTAAAGTTACAGTGGGTCAGAATGAAATTACAATGGTAAATCTTATCTCCCTAAAGT
TGCAGTGAAGCAAGATGAAGATACAAATCCTATACCCTAAAGTTGTAGTGGATCAGATTGAAGAT
ACAATTCCTATACCCCTAAAGTTGCAATGGGTCAGAATGAAACTACAATGGCGAATCCTATCTCC
CTGAAGTTACAGTAGAACAAGATAAAGCTACAAATA
Found at i:46592618 original size:94 final size:95
Alignment explanation
Indices: 46592358--46592630 Score: 304
Period size: 94 Copynumber: 2.9 Consensus size: 95
46592348 TTCTATGCCC
* * * * *
46592358 CTAAAGTTGCAATGGGTCGGAATGAAATTA-CACTGGCGAATCCTATCTCCCTGAGGTTACAGTG
1 CTAAAGTTGCAGTGGGTCGGAATGAAACTACCA-TGGTGAATCTTATCTCCCTAAGGTTACAGTG
*
46592422 GAGCAAGATGAA-ACTACAAATCCTATATCT
65 GAGCAAGATGAAGACTACAAATCCTATACCT
* * * * * ** * *
46592452 CTAAAGTTACTGTGGGTCAGAATGAAACTACAATGGTGAATCTTATCTCCCTAAAGTTGTAATGA
1 CTAAAGTTGCAGTGGGTCGGAATGAAACTACCATGGTGAATCTTATCTCCCTAAGGTTACAGTGG
46592517 AGCAAGATGAAGA-TACAAATCCTATACCT
66 AGCAAGATGAAGACTACAAATCCTATACCT
* * * *
46592546 CTAAAGTTGCAGTGGGTCGGATTGAAGCTACCATGGTAAATCTTATCTCTCTAAGGATT-CAGTG
1 CTAAAGTTGCAGTGGGTCGGAATGAAACTACCATGGTGAATCTTATCTCCCTAAGG-TTACAGTG
* *
46592610 GAGTAAGATGAAG-CCACAAAT
65 GAGCAAGATGAAGACTACAAAT
46592631 ATTATATCCC
Statistics
Matches: 146, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
94 142 0.97
95 4 0.03
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (95 bp):
CTAAAGTTGCAGTGGGTCGGAATGAAACTACCATGGTGAATCTTATCTCCCTAAGGTTACAGTGG
AGCAAGATGAAGACTACAAATCCTATACCT
Found at i:46593825 original size:37 final size:37
Alignment explanation
Indices: 46593784--46593869 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
46593774 AGGGTCTAAT
46593784 ATGACGTCGTTTTGGGTTTGACTTCTAGACGCCCAAA
1 ATGACGTCGTTTTGGGTTTGACTTCTAGACGCCCAAA
46593821 ATGACGTCGTTTTGGGTTTGACTTCTAGACGCCCAAA
1 ATGACGTCGTTTTGGGTTTGACTTCTAGACGCCCAAA
* *
46593858 ACGATGTCGTTT
1 ATGACGTCGTTT
46593870 AAGGACCGAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (37 bp):
ATGACGTCGTTTTGGGTTTGACTTCTAGACGCCCAAA
Found at i:46595545 original size:13 final size:13
Alignment explanation
Indices: 46595527--46595552 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46595517 TAAATCTAAC
46595527 ATTTTATTAAAAT
1 ATTTTATTAAAAT
46595540 ATTTTATTAAAAT
1 ATTTTATTAAAAT
46595553 GACTAAGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTTATTAAAAT
Found at i:46597235 original size:14 final size:14
Alignment explanation
Indices: 46597209--46597239 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
46597199 TTAATTTAGA
46597209 AAATTTAATTAATT
1 AAATTTAATTAATT
46597223 AAATTTAATTAATT
1 AAATTTAATTAATT
46597237 AAA
1 AAA
46597240 AAATCAAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AAATTTAATTAATT
Found at i:46604263 original size:43 final size:42
Alignment explanation
Indices: 46604035--46604406 Score: 419
Period size: 42 Copynumber: 9.0 Consensus size: 42
46604025 TGTGCTTACA
* * * *
46604035 GAAAAAACGCCGCTAAAGAACATGTTCTTTAGTGGCACTAAG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* * *
46604077 AAAATAAACGCCGCTAAAGATCATGTTCTTTAGCAGCGCCTAG
1 GAAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
**
46604120 G-AAAAACTGCCGCTAAAGATCATGTTCTTTAGCGGCGCTCGG
1 GAAAAAAC-GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
*
46604162 GAAAAAACGCCGCTAAAGAT-ATGTTCTTTAGCGGCGCTTGG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* * *
46604203 GAAAAAACGACGCTAAAGATCATGTTCTTTAGCGGTGGTTAG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
*
46604245 GAAGAAAACGCCGCTAAAGATCATG-------GCGGCGCTTGG
1 GAA-AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
46604281 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* * *
46604323 GAAGAAAACGCCGCTAAA-AGTAATGTTCTATAGCGGTGCTT-G
1 GAA-AAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAG
*
46604365 GTCAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGCTTA
1 G-AAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCTTA
46604407 TTTCACAAAC
Statistics
Matches: 285, Mismatches: 28, Indels: 33
0.82 0.08 0.10
Matches are distributed among these distances:
35 21 0.07
36 11 0.04
41 44 0.15
42 118 0.41
43 91 0.32
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (42 bp):
GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
Found at i:46604295 original size:78 final size:78
Alignment explanation
Indices: 46604121--46604340 Score: 309
Period size: 78 Copynumber: 2.7 Consensus size: 78
46604111 AGCGCCTAGG
**
46604121 AAAAACTGCCGCTAAAGATCATGTTCTTTAGCGGCGCTCGGGAA-AAAACGCCGCTAAAGATATG
1 AAAAAC-GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAAGATATG
46604185 TTCTTTAGCGGCGCTTGGGA
65 -----T-GCGGCGCTTGGGA
* * *
46604205 AAAAACGACGCTAAAGATCATGTTCTTTAGCGGTGGTTAGGAAGAAAACGCCGCTAAAGATCATG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAAGAT-ATG
46604270 -GCGGCGCTTGGGA
65 TGCGGCGCTTGGGA
46604283 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAA
46604341 AGTAATGTTC
Statistics
Matches: 126, Mismatches: 8, Indels: 10
0.88 0.06 0.07
Matches are distributed among these distances:
78 68 0.54
83 32 0.25
84 23 0.18
85 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.21
Consensus pattern (78 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAAGATATGT
GCGGCGCTTGGGA
Found at i:46604831 original size:21 final size:21
Alignment explanation
Indices: 46604807--46604875 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
46604797 ACTTCTATCG
*
46604807 CTGCTTCTCTCGCTGTGGCCT
1 CTGCTTCTCTCGCTGTAGCCT
46604828 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGTAGCCT
* **
46604849 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGTAGCCT
46604870 CTGCTT
1 CTGCTT
46604876 TAAGTTGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.01, C:0.42, G:0.20, T:0.36
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGTAGCCT
Found at i:46610273 original size:9 final size:9
Alignment explanation
Indices: 46610256--46611193 Score: 307
Period size: 9 Copynumber: 106.2 Consensus size: 9
46610246 TAAGTATAAT
*
46610256 TAAGCTATG
1 TAAGTTATG
46610265 TAAGTTATG
1 TAAGTTATG
46610274 T-A-TTATG
1 TAAGTTATG
46610281 TAAGTTAT-
1 TAAGTTATG
* *
46610289 TTA-TTCTG
1 TAAGTTATG
* *
46610297 AAAATTATG
1 TAAGTTATG
*
46610306 TAAGTTGTG
1 TAAGTTATG
46610315 T-A-TTATG
1 TAAGTTATG
*
46610322 -AA--AAT-
1 TAAGTTATG
* *
46610327 TATGCTATG
1 TAAGTTATG
*
46610336 TAAGCTATG
1 TAAGTTATG
* *
46610345 TAAGTCATA
1 TAAGTTATG
46610354 TAAGTTATG
1 TAAGTTATG
46610363 T-A-TTATG
1 TAAGTTATG
46610370 TAAGTTATG
1 TAAGTTATG
46610379 TAAGTTAT-
1 TAAGTTATG
*
46610387 TTA-TTATG
1 TAAGTTATG
* * *
46610395 AAAATTAAG
1 TAAGTTATG
*
46610404 TAAGTTATA
1 TAAGTTATG
*
46610413 TAATTTATG
1 TAAGTTATG
*
46610422 -AA-TAAT-
1 TAAGTTATG
***
46610428 TAAAAAAATG
1 T-AAGTTATG
46610438 TAAGTTATG
1 TAAGTTATG
46610447 TAAG-T-TG
1 TAAGTTATG
46610454 TAAGTTATG
1 TAAGTTATG
46610463 TAAGTTATG
1 TAAGTTATG
*
46610472 TATA-ATAT-
1 TA-AGTTATG
46610480 TAA-TTAAT-
1 TAAGTT-ATG
46610488 TAAGTTATG
1 TAAGTTATG
*
46610497 TAATTTATG
1 TAAGTTATG
*
46610506 TATAATATTAATG
1 --TAA-GTT-ATG
46610519 TAAGTTATG
1 TAAGTTATG
*
46610528 TAATTTATG
1 TAAGTTATG
*
46610537 -AA-TAAT-
1 TAAGTTATG
***
46610543 TAAAAAAATG
1 T-AAGTTATG
46610553 TAAGTTATG
1 TAAGTTATG
46610562 TAAG-T-TG
1 TAAGTTATG
46610569 TAAGTTATG
1 TAAGTTATG
46610578 TAAGTTATG
1 TAAGTTATG
*
46610587 TATA-ATAT-
1 TA-AGTTATG
46610595 TAA-TTAAT-
1 TAAGTT-ATG
46610603 TAAGTTATG
1 TAAGTTATG
*
46610612 TAATTTATG
1 TAAGTTATG
*
46610621 TATAATATTAATG
1 --TAA-GTT-ATG
46610634 TAAGTTATG
1 TAAGTTATG
*
46610643 TAATTTATG
1 TAAGTTATG
*
46610652 TATA-ATAT-
1 TA-AGTTATG
46610660 TAA-TTAAT-
1 TAAGTT-ATG
46610668 TAAGTTATG
1 TAAGTTATG
*
46610677 TAATTTATG
1 TAAGTTATG
*
46610686 TATAATATTAATG
1 --TAA-GTT-ATG
46610699 TAAGTTATG
1 TAAGTTATG
*
46610708 TAATTTATG
1 TAAGTTATG
46610717 T-A--TAT-
1 TAAGTTATG
46610722 TAA-TTAAT-
1 TAAGTT-ATG
46610730 TAAGTTATG
1 TAAGTTATG
*
46610739 TAATTTATG
1 TAAGTTATG
*
46610748 TATAATATTAATG
1 --TAA-GTT-ATG
46610761 TAAGTTATG
1 TAAGTTATG
*
46610770 TAATTTATG
1 TAAGTTATG
*
46610779 TTTAATATTAATG
1 --TAA-GTT-ATG
46610792 TAAGTTATG
1 TAAGTTATG
46610801 TAAG-T-TG
1 TAAGTTATG
46610808 TAAGTTATG
1 TAAGTTATG
46610817 TAAGTTATG
1 TAAGTTATG
*
46610826 TATA-ATAT-
1 TA-AGTTATG
46610834 TAA-TTAAT-
1 TAAGTT-ATG
46610842 TAAGTTATG
1 TAAGTTATG
*
46610851 TAATTTATG
1 TAAGTTATG
*
46610860 TATAATATTAATG
1 --TAA-GTT-ATG
46610873 TAAGTTATG
1 TAAGTTATG
46610882 TAA-TATATG
1 TAAGT-TATG
46610891 T-A--TAT-
1 TAAGTTATG
46610896 TAA-TTAAT-
1 TAAGTT-ATG
46610904 TAAGTTATG
1 TAAGTTATG
46610913 TAAG-T-TG
1 TAAGTTATG
46610920 TAAGTTATG
1 TAAGTTATG
46610929 TAAGTTATG
1 TAAGTTATG
*
46610938 TATA-ATAT-
1 TA-AGTTATG
46610946 TAA-TTAAT-
1 TAAGTT-ATG
46610954 TAAGTTATG
1 TAAGTTATG
*
46610963 TAATTTATG
1 TAAGTTATG
*
46610972 TATAATTTTAATG
1 --TAA-GTT-ATG
46610985 TAAGTTAT-
1 TAAGTTATG
*
46610993 TTA-TTATG
1 TAAGTTATG
* * *
46611001 AAAATTAAG
1 TAAGTTATG
46611010 TAAGTTATG
1 TAAGTTATG
*
46611019 TAATTTATG
1 TAAGTTATG
*
46611028 TATAATATTAATG
1 --TAA-GTT-ATG
46611041 TAAGTTATG
1 TAAGTTATG
*
46611050 TAATTTATG
1 TAAGTTATG
46611059 T-A--TAT-
1 TAAGTTATG
46611064 TAA-TTAAT-
1 TAAGTT-ATG
46611072 TAAGTTATG
1 TAAGTTATG
*
46611081 TAATTTATG
1 TAAGTTATG
*
46611090 TTTAATATTAATG
1 --TAA-GTT-ATG
46611103 TAAGTTATG
1 TAAGTTATG
46611112 TAAG-T-TG
1 TAAGTTATG
46611119 TAAGTTATG
1 TAAGTTATG
46611128 TAAGTTATG
1 TAAGTTATG
*
46611137 TATA-ATAT-
1 TA-AGTTATG
46611145 TAA-TTAAT-
1 TAAGTT-ATG
46611153 TAAGTTATG
1 TAAGTTATG
46611162 TAAGTTATG
1 TAAGTTATG
*
46611171 TATAATACTATG
1 TA-AGT--TATG
46611183 TAAGTTATG
1 TAAGTTATG
46611192 TA
1 TA
46611194 TTATATAATA
Statistics
Matches: 727, Mismatches: 90, Indels: 224
0.70 0.09 0.22
Matches are distributed among these distances:
5 3 0.00
6 15 0.02
7 79 0.11
8 113 0.16
9 381 0.52
10 28 0.04
11 56 0.08
12 25 0.03
13 27 0.04
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:46610282 original size:16 final size:16
Alignment explanation
Indices: 46610261--46610380 Score: 78
Period size: 16 Copynumber: 7.9 Consensus size: 16
46610251 ATAATTAAGC
46610261 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
46610277 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
*
46610293 TCTG-AA---A---AT
1 TATGTAAGTTATGTAT
*
46610302 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
46610318 TATGAAAATTATG--C
1 TATGTAAGTTATGTAT
*
46610332 TATGTAAGCTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
46610350 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
46610366 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
46610381 AGTTATTTAT
Statistics
Matches: 76, Mismatches: 17, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
9 5 0.07
10 2 0.03
12 1 0.01
14 10 0.13
15 2 0.03
16 44 0.58
17 1 0.01
18 11 0.14
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.45
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:46610303 original size:25 final size:25
Alignment explanation
Indices: 46610275--46611197 Score: 121
Period size: 25 Copynumber: 33.8 Consensus size: 25
46610265 TAAGTTATGT
* *
46610275 ATTATGTAAGTTATTTATTCTGAAA
1 ATTATGTAAGTTATGTATTATGAAA
*
46610300 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* * * *
46610325 ATTATGCTATG-TAAG--CTATGTAA
1 ATTATG-TAAGTTATGTATTATGAAA
* * * *
46610348 GTCATATAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATGTATTATGAAA
* *
46610373 GTTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* *
46610398 ATTAAGTAAGTTATATAATTTATGAATA
1 ATTATGTAAGTTATGT-A-TTATGAA-A
* *
46610426 ATTAAAAAAATGTAAGTTATGTAAGT-TGTAA
1 ATT------ATGTAAGTTATGT-ATTATGAAA
* * *
46610457 GTTATGTAAGTTATGTATAAT-ATTA
1 ATTATGTAAGTTATGTATTATGA-AA
46610482 ATTAAT-TAAGTTATGTAATTTATGTATAA
1 ATT-ATGTAAGTTATGT-A-TTATG-A-AA
46610511 TATTAATGTAAGTTATGTAATTTATGAATA
1 -ATT-ATGTAAGTTATGT-A-TTATGAA-A
* *
46610541 ATTAAAAAAATGTAAGTTATGTAAGT-TGTAA
1 ATT------ATGTAAGTTATGT-ATTATGAAA
* * *
46610572 GTTATGTAAGTTATGTATAAT-ATTA
1 ATTATGTAAGTTATGTATTATGA-AA
46610597 ATTAAT-TAAGTTATGTAATTTATGTATAA
1 ATT-ATGTAAGTTATGT-A-TTATG-A-AA
*
46610626 TATTAATGTAAGTTATGTAATTTATGTATA
1 -ATT-ATGTAAGTTATGT-A-TTATG-AAA
*
46610656 A-TAT-TAA-TTAAT-TAAGTTATGTAA
1 ATTATGTAAGTT-ATGT-A-TTATGAAA
* * *
46610680 TTTATGTATAATATTAATGTAAGTTATGTAA
1 ATTATG--TAA-GTT-ATGT-A-TTATGAAA
* *
46610711 TTTATGT-A--TAT-TAATTAAT-TAA
1 ATTATGTAAGTTATGT-ATT-ATGAAA
* * *
46610733 GTTATGTAATTTATG---TAT-AAT
1 ATTATGTAAGTTATGTATTATGAAA
*
46610754 ATTAATGTAAGTTATGTAATTTATGTTTAAT
1 ATT-ATGTAAGTTATGT-A-TTATG---AAA
* *
46610785 ATTAATGTAAGTTATGTAAGT-TGTAA
1 ATT-ATGTAAGTTATGT-ATTATGAAA
* * *
46610811 GTTATGTAAGTTATGTATAAT-ATTA
1 ATTATGTAAGTTATGTATTATGA-AA
46610836 ATTAAT-TAAGTTATGTAATTTATGTATAA
1 ATT-ATGTAAGTTATGT-A-TTATG-A-AA
46610865 TATTAATGTAAGTTATGTAATATATGTATATTA
1 -ATT-ATGTAAGTTATGT-AT-TATG-A-A--A
* *
46610898 ATTAAT-TAAGTTATGTAAGT-TGTAA
1 ATT-ATGTAAGTTATGT-ATTATGAAA
* * *
46610923 GTTATGTAAGTTATGTATAAT-ATTA
1 ATTATGTAAGTTATGTATTATGA-AA
46610948 ATTAAT-TAAGTTATGTAATTTATGTATAA
1 ATT-ATGTAAGTTATGT-A-TTATG-A-AA
* *
46610977 TTTTAATGTAAGTTATTTATTATGAAA
1 -ATT-ATGTAAGTTATGTATTATGAAA
*
46611004 ATTAAGTAAGTTATGTAATTTATGTATAA
1 ATTATGTAAGTTATGT-A-TTATG-A-AA
46611033 TATTAATGTAAGTTATGTAATTTATGTATATTA
1 -ATT-ATGTAAGTTATGT-A-TTATG-A-A--A
*
46611066 ATTAAT-TAAGTTATGTAATTTATGTTTAAT
1 ATT-ATGTAAGTTATGT-A-TTATG---AAA
* *
46611096 ATTAATGTAAGTTATGTAAGT-TGTAA
1 ATT-ATGTAAGTTATGT-ATTATGAAA
* * *
46611122 GTTATGTAAGTTATGTATAAT-ATTA
1 ATTATGTAAGTTATGTATTATGA-AA
46611147 ATTAAT-TAAGTTATGTAAGTTATGTATAA
1 ATT-ATGTAAGTTATGT-A-TTATG-A-AA
*
46611176 TACTATGTAAGTTATGTATTAT
1 -ATTATGTAAGTTATGTATTAT
46611198 ATAATAACAG
Statistics
Matches: 703, Mismatches: 93, Indels: 201
0.71 0.09 0.20
Matches are distributed among these distances:
21 5 0.01
22 26 0.04
23 18 0.03
24 10 0.01
25 234 0.33
26 33 0.05
27 35 0.05
28 15 0.02
29 37 0.05
30 57 0.08
31 179 0.25
32 19 0.03
33 6 0.01
34 29 0.04
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.47
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTATGAAA
Found at i:46610407 original size:34 final size:34
Alignment explanation
Indices: 46610364--46610452 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 34
46610354 TAAGTTATGT
* ** *
46610364 ATTATGTAAGTTATGTAAGTTATTTATTATGAAA
1 ATTAAGTAAGTTATGTAAGTTATGAATAATGAAA
* * *
46610398 ATTAAGTAAGTTATATAATTTATGAATAATTAAA
1 ATTAAGTAAGTTATGTAAGTTATGAATAATGAAA
*
46610432 A-AAATGTAAGTTATGTAAGTT
1 ATTAA-GTAAGTTATGTAAGTT
46610453 GTAAGTTATG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
33 2 0.05
34 42 0.95
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.43
Consensus pattern (34 bp):
ATTAAGTAAGTTATGTAAGTTATGAATAATGAAA
Found at i:46610457 original size:16 final size:16
Alignment explanation
Indices: 46610436--46610468 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46610426 ATTAAAAAAA
46610436 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
46610452 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
46610468 T
1 T
46610469 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:46610457 original size:50 final size:50
Alignment explanation
Indices: 46610403--46610614 Score: 147
Period size: 50 Copynumber: 3.9 Consensus size: 50
46610393 TGAAAATTAA
*
46610403 GTAAGTTATATAATTTATGAATAAT-TAAAAAAATGTAAGTTATGTAAGTT
1 GTAAGTTATATAAGTTATGAATAATATAAAAAAAT-TAAGTTATGTAAGTT
* * * ** *
46610453 GTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAT
1 GTAAGTTATATAAGTTATGAATAATATAAAAAAATTAAGTTATGTAA-GT-T
* *
46610505 GTATAATATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGTAAGTT
1 G--TAA-GTT-ATATAAGTTATG--A---AT-AAT-A-TAAAAAAAT-TAAGTTATGTAAGTT
* * * **
46610568 GTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAA
1 GTAAGTTATATAAGTTATGAATAATATAAAAAAATTAAGTTATGTAA
46610615 TTTATGTATA
Statistics
Matches: 128, Mismatches: 18, Indels: 32
0.72 0.10 0.18
Matches are distributed among these distances:
50 46 0.36
51 13 0.10
52 3 0.02
53 3 0.02
54 5 0.04
55 2 0.02
56 12 0.09
59 12 0.09
60 2 0.02
61 5 0.04
62 3 0.02
63 3 0.02
64 7 0.05
65 12 0.09
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.43
Consensus pattern (50 bp):
GTAAGTTATATAAGTTATGAATAATATAAAAAAATTAAGTTATGTAAGTT
Found at i:46610473 original size:34 final size:34
Alignment explanation
Indices: 46610435--46611193 Score: 185
Period size: 34 Copynumber: 22.4 Consensus size: 34
46610425 AATTAAAAAA
46610435 ATGTAAGTTATGTAAGT-TGTAAGTTATGTAAGTT
1 ATGTAAGTTATGTAA-TATGTAAGTTATGTAAGTT
* *
46610469 ATGTATA-ATAT-TAATTAAT-TAAGTTATGTAATTT
1 ATGTA-AGTTATGTAA-T-ATGTAAGTTATGTAAGTT
* *
46610503 ATGTATA-ATAT-T-A-ATGTAAGTTATGTAATTT
1 ATGTA-AGTTATGTAATATGTAAGTTATGTAAGTT
** *
46610534 ATGAATAA-TTA-AAAAAATGTAAGTTATGTAAG-T
1 ATG--TAAGTTATGTAATATGTAAGTTATGTAAGTT
*
46610567 -TGTAAGTTATGTAAGTTATGTATA-ATAT-TAA-TT
1 ATGTAAGTTATGTAA--TATGTA-AGTTATGTAAGTT
*
46610600 AAT-TAAGTTATGTAATTTATGTATAATATTAATGTAAGTT
1 -ATGTAAGTTATGTAA--TATG--TAA-GTT-ATGTAAGTT
*
46610640 ATGTAATTTATGTATAATAT-TAA-TTAAT-TAAGTT
1 ATGTAAGTTATG--TAATATGTAAGTT-ATGTAAGTT
* *
46610674 ATGTAATTTATGT-ATA-AT-A-TTAATGTAAGTT
1 ATGTAAGTTATGTAATATGTAAGTT-ATGTAAGTT
*
46610705 ATGTAATTTATGT-ATAT-TAA-TTAAT-TAAGTT
1 ATGTAAGTTATGTAATATGTAAGTT-ATGTAAGTT
* *
46610736 ATGTAATTTATGT-ATA-AT-A-TTAATGTAAGTT
1 ATGTAAGTTATGTAATATGTAAGTT-ATGTAAGTT
*
46610767 ATGTAATTTATGTTTAATATTAATGTAAGTTATGTAAG-T
1 ATGTAAGTTATG--T-A-A-T-ATGTAAGTTATGTAAGTT
*
46610806 -TGTAAGTTATGTAAGTTATGTATA-ATAT-TAA-TT
1 ATGTAAGTTATGTAA--TATGTA-AGTTATGTAAGTT
*
46610839 AAT-TAAGTTATGTAATTTATGTATAATATTAATGTAAGTT
1 -ATGTAAGTTATGTAA--TATG--TAA-GTT-ATGTAAGTT
46610879 ATGTAA-TATATGT-ATAT-TAA-TTAAT-TAAGTT
1 ATGTAAGT-TATGTAATATGTAAGTT-ATGTAAGTT
*
46610910 ATGTAAG-T-TGTAAGTTATGTAAGTTATGTATA-AT
1 ATGTAAGTTATGTAA--TATGTAAGTTATGTA-AGTT
* *
46610944 AT-TAA-TTAAT-TAAGTTATGTAATTTATGTATAATTTT
1 ATGTAAGTT-ATGTAA--TATGTAAGTTATG--TAA-GTT
* * * * *
46610981 AATGTAAGTTATTTATTATGAAAATTAAGTAAGTT
1 -ATGTAAGTTATGTAATATGTAAGTTATGTAAGTT
* *
46611016 ATGTAATTTATGT-ATA-AT-A-TTAATGTAAGTT
1 ATGTAAGTTATGTAATATGTAAGTT-ATGTAAGTT
*
46611047 ATGTAATTTATGT-ATAT-TAA-TTAAT-TAAGTT
1 ATGTAAGTTATGTAATATGTAAGTT-ATGTAAGTT
*
46611078 ATGTAATTTATGTTTAATAT-T-A---ATGTAAGTT
1 ATGTAAGTTATG--TAATATGTAAGTTATGTAAGTT
*
46611109 ATGTAAG-T-TGTAAGTTATGTAAGTTATGTATA-AT
1 ATGTAAGTTATGTAA--TATGTAAGTTATGTA-AGTT
*
46611143 AT-TAA-TTAAT-TAAGTTATGTAAGTTATGTATAATACT
1 ATGTAAGTT-ATGTAA--TATGTAAGTTATGTA-AGT--T
46611180 ATGTAAGTTATGTA
1 ATGTAAGTTATGTA
46611194 TTATATAATA
Statistics
Matches: 590, Mismatches: 35, Indels: 195
0.72 0.04 0.24
Matches are distributed among these distances:
27 3 0.01
29 8 0.01
30 25 0.04
31 158 0.27
32 28 0.05
33 35 0.06
34 191 0.32
35 23 0.04
36 11 0.02
37 13 0.02
38 32 0.05
39 23 0.04
40 35 0.06
41 2 0.00
42 3 0.01
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (34 bp):
ATGTAAGTTATGTAATATGTAAGTTATGTAAGTT
Found at i:46610526 original size:31 final size:31
Alignment explanation
Indices: 46610452--46611193 Score: 682
Period size: 31 Copynumber: 25.4 Consensus size: 31
46610442 TTATGTAAGT
*
46610452 TGTAAGTTATGTAAGTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
*
46610483 TTAATTAAGTTATGTAATTTATGTATAATATTAA
1 -T--GTAAGTTATGTAATTTATGTATAATATTAA
* **
46610517 TGTAAGTTATGTAATTTATGAATAATTAAAAAAA
1 TGTAAGTTATGTAATTTATGTATAA-T--ATTAA
* *
46610551 TGTAAGTTATGTAA-GT-TG--TAA-GTT-A
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
46610576 TGTAAGTTATGT-A--TA-ATATTA-ATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
46610602 T-TAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
46610632 TGTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
*
46610663 TTAATTAAGTTATGTAATTTATGTATAATATTAA
1 -T--GTAAGTTATGTAATTTATGTATAATATTAA
*
46610697 TGTAAGTTATGTAATTTATGTATATTAATTAA
1 TGTAAGTTATGTAATTTATGTATAAT-ATTAA
46610729 T-TAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
*
46610759 TGTAAGTTATGTAATTTATGTTTAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
46610790 TGTAAGTTATGTAA-GT-TG--TAA-GTT-A
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
46610815 TGTAAGTTATGT-A--TA-ATATTA-ATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
46610841 T-TAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
46610871 TGTAAGTTATGTAATATATGTATATTAATTAA
1 TGTAAGTTATGTAATTTATGTATAAT-ATTAA
* *
46610903 T-TAAGTTATGTAA-GT-TG--TAA-GTT-A
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
46610927 TGTAAGTTATGT-A--TA-ATATTA-ATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
*
46610953 T-TAAGTTATGTAATTTATGTATAATTTTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
*
46610983 TGTAAGTTAT-TTA-TTATG-A-AA-ATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
46611009 -GTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
*
46611039 TGTAAGTTATGTAATTTATGTATATTAATTAA
1 TGTAAGTTATGTAATTTATGTATAAT-ATTAA
*
46611071 T-TAAGTTATGTAATTTATGTTTAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
46611101 TGTAAGTTATGTAA-GT-TG--TAA-GTT-A
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
46611126 TGTAAGTTATGT-A--TA-ATATTA-ATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
46611152 T-TAAGTTATGTAAGTTATGTATAATACT-A
1 TGTAAGTTATGTAATTTATGTATAATATTAA
46611181 TGTAAGTTATGTA
1 TGTAAGTTATGTA
46611194 TTATATAATA
Statistics
Matches: 598, Mismatches: 52, Indels: 122
0.77 0.07 0.16
Matches are distributed among these distances:
23 4 0.01
24 6 0.01
25 116 0.19
26 22 0.04
27 15 0.03
28 10 0.02
29 31 0.05
30 55 0.09
31 239 0.40
32 23 0.04
33 3 0.01
34 74 0.12
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (31 bp):
TGTAAGTTATGTAATTTATGTATAATATTAA
Found at i:46610526 original size:65 final size:65
Alignment explanation
Indices: 46610452--46611114 Score: 575
Period size: 65 Copynumber: 10.2 Consensus size: 65
46610442 TTATGTAAGT
*
46610452 TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
* * ** * *
46610517 TGTAAGTTATGTAATTTATGAATAAT-TAAAAAAATGTAAGTTATGTAA-GT-TG--TAA-GTT-
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAAT-TAAGTTATGTAATTTATGTATAATATTA
46610575 A
65 A
46610576 TGTAAG---T-T-A-T---GTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
46610632 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
46610697 TGTAAGTTATGTAATTTATG--T-ATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
* * *
46610759 TGTAAGTTATGTAATTTATGTTTAATATTAATGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTA
1 TGTAAGTTATGTAATTTATGTATAATATTAAT-T-A---AT-TAAG-T-TATG-TA----ATTTA
46610824 TGTATAATATTAA
53 TGTATAATATTAA
* * * *
46610837 TTAATTAAGTTATGTAATTTATGTATAATATTAA-T--GTAAGTTATGTAATATATGTATATTAA
1 -T--GTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAAT-A
46610899 TTAA
62 TTAA
* * *
46610903 T-TAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGT-ATAATATTAA-TTAAT-TAAGTTATG-
1 TGTAAGTTATGTAA-TT-TATG-TA--TAA--TAT-TAATTA-ATTAAGTT-ATGTAATTTATGT
46610963 -TAAT-TT-A
56 ATAATATTAA
* * * * * *
46610970 TGTATAATTTTAATGTAAGTTATTTATTATGA-AAATTAAGTAAGTTATGTAATTTATGTATAAT
1 TG--TAA-GTT-ATGTAATTTATGTATAAT-ATTAATTAATTAAGTTATGTAATTTATGTATAAT
46611034 ATTAA
61 ATTAA
*
46611039 TGTAAGTTATGTAATTTATG--T-ATATTAATTAATTAAGTTATGTAATTTATGTTTAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
46611101 TGTAAGTTATGTAA
1 TGTAAGTTATGTAA
46611115 GTTGTAAGTT
Statistics
Matches: 491, Mismatches: 43, Indels: 131
0.74 0.06 0.20
Matches are distributed among these distances:
50 18 0.04
51 7 0.01
52 2 0.00
53 1 0.00
54 4 0.01
55 3 0.01
56 8 0.02
59 8 0.02
60 3 0.01
61 5 0.01
62 124 0.25
63 6 0.01
64 17 0.03
65 147 0.30
66 9 0.02
67 15 0.03
68 4 0.01
69 11 0.02
70 14 0.03
71 8 0.02
72 20 0.04
73 8 0.02
74 2 0.00
78 17 0.03
79 2 0.00
81 28 0.06
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (65 bp):
TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
Found at i:46610572 original size:16 final size:16
Alignment explanation
Indices: 46610551--46610583 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46610541 ATTAAAAAAA
46610551 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
46610567 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
46610583 T
1 T
46610584 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:46610811 original size:16 final size:16
Alignment explanation
Indices: 46610790--46610822 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46610780 TTAATATTAA
46610790 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
46610806 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
46610822 T
1 T
46610823 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:46610925 original size:16 final size:16
Alignment explanation
Indices: 46610904--46610934 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
46610894 ATTAATTAAT
46610904 TAAGTTATGTAAGTTG
1 TAAGTTATGTAAGTTG
46610920 TAAGTTATGTAAGTT
1 TAAGTTATGTAAGTT
46610935 ATGTATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (16 bp):
TAAGTTATGTAAGTTG
Found at i:46610963 original size:50 final size:47
Alignment explanation
Indices: 46610871--46611167 Score: 166
Period size: 47 Copynumber: 6.0 Consensus size: 47
46610861 ATAATATTAA
46610871 TGTAAGTTATGTAATATATGTATATTAATTAATTAAGTTATGTAAGT
1 TGTAAGTTATGTAATATATGTATATTAATTAATTAAGTTATGTAAGT
46610918 TGTAAGTTATGTAAGT-TATGTATAATATTAATTAATTAAGTTATGTAA-T
1 TGTAAGTTATGTAA-TATATG--T-ATATTAATTAATTAAGTTATGTAAGT
* * * * * * * *
46610967 T-TATGTATAATTTTAATGTAAGT-TATTTATT-ATGAAAATTAAGTAAGTT
1 TGTAAGT-T-A-TGTAATATATGTATATTAATTAAT-TAAGTTATGTAAG-T
* *
46611016 ATGTAATTTATGTATAATATTAATGTA-AGTT-ATGTAATTTATGTATAT-TAA-T
1 -TGTAAGTTATG--TAATA-T-ATGTATA-TTAAT-TAA-TTAAGT-TATGTAAGT
* * * *
46611068 TAATTAAGTTATGTAATTTATGTTTAAT-ATTAATGTAAGTTATGTAAGT
1 T--GTAAGTTATGTAATATATGTATATTAATTAAT-TAAGTTATGTAAGT
46611117 TGTAAGTTATGTAAGT-TATGTATAATATTAATTAATTAAGTTATGTAAGT
1 TGTAAGTTATGTAA-TATATG--T-ATATTAATTAATTAAGTTATGTAAGT
46611167 T
1 T
46611168 ATGTATAATA
Statistics
Matches: 191, Mismatches: 25, Indels: 65
0.68 0.09 0.23
Matches are distributed among these distances:
46 2 0.01
47 54 0.28
48 17 0.09
49 17 0.09
50 52 0.27
51 22 0.12
52 7 0.04
53 11 0.06
54 6 0.03
55 3 0.02
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (47 bp):
TGTAAGTTATGTAATATATGTATATTAATTAATTAAGTTATGTAAGT
Found at i:46611048 original size:22 final size:21
Alignment explanation
Indices: 46611014--46611199 Score: 71
Period size: 22 Copynumber: 9.0 Consensus size: 21
46611004 ATTAAGTAAG
*
46611014 TTATGTAATTTATGTATAATA
1 TTATGTAAGTTATGTATAATA
46611035 TTAATGTAAGTTATG--TAAT-
1 TT-ATGTAAGTTATGTATAATA
*
46611054 TTATGTATA-TTAAT-TAATTAA-G
1 TTATGTA-AGTT-ATGT-A-TAATA
* *
46611076 TTATGTAATTTATGTTTAATA
1 TTATGTAAGTTATGTATAATA
46611097 TTAATGTAAGTTATG--T-A-A
1 TT-ATGTAAGTTATGTATAATA
* *
46611115 GT-TGTAAGTTATG--TAA-G
1 TTATGTAAGTTATGTATAATA
*
46611132 TTATGTATA-ATAT-TAATTAATTAA
1 TTATGTA-AGTTATGT-A-TAA-T-A
46611156 GTTATGTAAGTTATGTATAATA
1 -TTATGTAAGTTATGTATAATA
* *
46611178 CTATGTAAGTTATGTATTATA
1 TTATGTAAGTTATGTATAATA
46611199 T
1 T
46611200 AATAACAGCG
Statistics
Matches: 127, Mismatches: 13, Indels: 50
0.67 0.07 0.26
Matches are distributed among these distances:
16 12 0.09
17 2 0.02
18 16 0.13
19 7 0.06
20 8 0.06
21 29 0.23
22 36 0.28
23 1 0.01
24 4 0.03
25 11 0.09
26 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.49
Consensus pattern (21 bp):
TTATGTAAGTTATGTATAATA
Found at i:46611094 original size:112 final size:113
Alignment explanation
Indices: 46610806--46611174 Score: 308
Period size: 112 Copynumber: 3.2 Consensus size: 113
46610796 TTATGTAAGT
46610806 TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAAGTTATG--T-ATATTAATTAATTAAGTTATGTAATTTATG----AT-TTAA
* * *
46610871 TGTAAGTTATGTAATATATGTATATTAATTAATTAAGTTATGTAAGT-TG--TAA-GTT-A
58 TGTAAGTTATGTAAT-TATG-A-A--AATTAAGTAAGTTATGTAATTATGTATAATATTAA
46610927 TGTAAGTTATGT-A--TA---ATATTAATTAATTAAGTTATGTAATTTATGTATAATTTTAATGT
1 TGTAAGTTATGTAAGTTATGTATATTAATTAATTAAGTTATGTAATTTATG----A-TTTAATGT
*
46610986 AAGTTAT-TTATTATGAAAATTAAGTAAGTTATGTAATTTATGTATAATATTAA
61 AAGTTATGTAATTATGAAAATTAAGTAAGTTATGTAA-TTATGTATAATATTAA
*
46611039 TGTAAGTTATGTAATTTATGTATATTAATTAATTAAGTTATGTAATTTATG-TTTAA--T-A-TT
1 TGTAAGTTATGTAAGTTATGTATATTAATTAATTAAGTTATGTAATTTATGATTTAATGTAAGTT
* *
46611099 AATGTAAGTTATGTAAGTT--GTAAGTTATGTAAGTTATGTATAATATTAA
66 -ATGTAA-TTATGAAAATTAAGTAAGTTATGTAA-TTATGTATAATATTAA
*
46611148 TTAATTAAGTTATGTAAGTTATGTATA
1 -T--GTAAGTTATGTAAGTTATGTATA
46611175 ATACTATGTA
Statistics
Matches: 219, Mismatches: 10, Indels: 47
0.79 0.04 0.17
Matches are distributed among these distances:
106 18 0.08
107 1 0.00
108 5 0.02
109 33 0.15
110 11 0.05
111 14 0.06
112 88 0.40
113 2 0.01
115 2 0.01
118 32 0.15
120 1 0.00
121 12 0.05
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (113 bp):
TGTAAGTTATGTAAGTTATGTATATTAATTAATTAAGTTATGTAATTTATGATTTAATGTAAGTT
ATGTAATTATGAAAATTAAGTAAGTTATGTAATTATGTATAATATTAA
Found at i:46611103 original size:118 final size:110
Alignment explanation
Indices: 46610368--46611021 Score: 569
Period size: 112 Copynumber: 5.7 Consensus size: 110
46610358 TTATGTATTA
* * * * * *
46610368 TGTAAGTTATGTAAGTTATTTATTATGAAAATTAAGTAAGTTATATAATTTATGAATAATTAAAA
1 TGTAAGTTATGTAAGTTATGTA-TAT--TAATTAATTAAGTTATGTAATTTATGTATAA-T--AT
*
46610433 AAATGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAAT
60 TAATGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAAT
* * * * *
46610484 TAATTAAGTTATGTAATTTATGTATAAT-ATTAATGTAAGTTATGTAATTTATGAATAATTAAAA
1 T--GTAAGTTATGTAAGTTATGTATATTAATTAAT-TAAGTTATGTAATTTATGTATAA-T--AT
*
46610548 AAATGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAAT
60 TAATGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAAT
* * *
46610599 TAATTAAGTTATGTAATTTATGTATAAT-ATTAATGTAAGTTATGTAATTTATGTATAATATTAA
1 T--GTAAGTTATGTAAGTTATGTATATTAATTAAT-TAAGTTATGTAATTTATGTATAATATTAA
* * *
46610663 TTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATATTAAT
63 -T--GTAAGTTATGTAA-GT-TG--TAA-GTT-ATGTAAGTTATGT-A--TA---ATATTAAT
* * * *
46610726 TAATTAAGTTATGTAATTTATGTATAAT-ATTAATGTAAGTTATGTAATTTATGTTTAATATTAA
1 T--GTAAGTTATGTAAGTTATGTATATTAATTAAT-TAAGTTATGTAATTTATGTATAATATTAA
46610790 TGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAAT
63 TGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAAT
* * * * *
46610838 TAATTAAGTTATGTAATTTATGTATAAT-ATTAATGTAAGTTATGTAATATATGTATATTAATTA
1 T--GTAAGTTATGTAAGTTATGTATATTAATTAAT-TAAGTTATGTAATTTATGTATAAT-ATTA
46610902 AT-TAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAAT
62 ATGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAAT
* * *
46610950 TAATTAAGTTATGTAATTTATGTATAATT--TTAATGTAAGTTAT-TTA-TTATG-A-AA-ATTA
1 T--GTAAGTTATGTAAGTTATGTAT-ATTAATTAAT-TAAGTTATGTAATTTATGTATAATATTA
46611008 A-GTAAGTTATGTAA
62 ATGTAAGTTATGTAA
46611022 TTTATGTATA
Statistics
Matches: 493, Mismatches: 24, Indels: 52
0.87 0.04 0.09
Matches are distributed among these distances:
106 17 0.03
108 1 0.00
109 1 0.00
110 4 0.01
111 2 0.00
112 152 0.31
113 9 0.02
114 6 0.01
115 150 0.30
116 2 0.00
117 5 0.01
118 31 0.06
119 5 0.01
120 5 0.01
121 13 0.03
122 3 0.01
123 1 0.00
124 14 0.03
126 1 0.00
127 71 0.14
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (110 bp):
TGTAAGTTATGTAAGTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGT
AAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAAT
Found at i:46611122 original size:16 final size:16
Alignment explanation
Indices: 46611101--46611133 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46611091 TTAATATTAA
46611101 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
46611117 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
46611133 T
1 T
46611134 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:46611131 original size:118 final size:113
Alignment explanation
Indices: 46610918--46611174 Score: 329
Period size: 118 Copynumber: 2.2 Consensus size: 113
46610908 TTATGTAAGT
*
46610918 TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATTTTAA
1 TGTAAGTTATGTAAGTTATG--T-ATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
* * *
46610983 TGTAAGTTATTTATTATGAAAATTAAGTAAGTTATGTAATTTATGTATAATATTAA
63 TGTAAGTTATTAAGTATGAAAATTAAGTAAGTTATGT-A--TA-ATATAA-ATTAA
* *
46611039 TGTAAGTTATGTAATTTATGTATATTAATTAATTAAGTTATGTAATTTATGTTTAATATTAATGT
1 TGTAAGTTATGTAAGTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGT
* * * *
46611104 AAGTTATGTAAGT-TGTAAGTTATGTAAGTTATGTATAATATTAATTAA
66 AAGTTAT-TAAGTATGAAAATTAAGTAAGTTATGTATAATATAAATTAA
46611152 T-TAAGTTATGTAAGTTATGTATA
1 TGTAAGTTATGTAAGTTATGTATA
46611175 ATACTATGTA
Statistics
Matches: 124, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
112 21 0.17
113 6 0.05
114 4 0.03
115 2 0.02
117 1 0.01
118 67 0.54
119 4 0.03
121 19 0.15
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (113 bp):
TGTAAGTTATGTAAGTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGT
AAGTTATTAAGTATGAAAATTAAGTAAGTTATGTATAATATAAATTAA
Found at i:46613883 original size:16 final size:16
Alignment explanation
Indices: 46613838--46613893 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
46613828 TAAATCTCAC
*
46613838 ATCTTTTATTTATT-T
1 ATCTTTTATTAATTGT
* *
46613853 ATTTATTTCTTAATTGT
1 ATCT-TTTATTAATTGT
46613870 ATCTTTTATTAATTGT
1 ATCTTTTATTAATTGT
46613886 ATCTTTTA
1 ATCTTTTA
46613894 ATTACTTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 3 0.09
16 27 0.79
17 4 0.12
ACGTcount: A:0.23, C:0.07, G:0.04, T:0.66
Consensus pattern (16 bp):
ATCTTTTATTAATTGT
Found at i:46614599 original size:13 final size:14
Alignment explanation
Indices: 46614564--46614604 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
46614554 CAAACCCCTA
*
46614564 AAGT-CTAAACCGT
1 AAGTCCTAAACCAT
*
46614577 AAGTCATAAACCAT
1 AAGTCCTAAACCAT
46614591 AA-TCCTAAACCAT
1 AAGTCCTAAACCAT
46614604 A
1 A
46614605 TCTTTGGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.22
Consensus pattern (14 bp):
AAGTCCTAAACCAT
Found at i:46620540 original size:35 final size:35
Alignment explanation
Indices: 46620500--46620570 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
46620490 GAAAAAACAC
46620500 ATAGACAAATCAACATACAAAAATAGAACACAGTA
1 ATAGACAAATCAACATACAAAAATAGAACACAGTA
*
46620535 ATAGACAAATCAGCATACAAAAATAGAACACAGTA
1 ATAGACAAATCAACATACAAAAATAGAACACAGTA
46620570 A
1 A
46620571 CAACCAATCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.59, C:0.17, G:0.10, T:0.14
Consensus pattern (35 bp):
ATAGACAAATCAACATACAAAAATAGAACACAGTA
Found at i:46625282 original size:27 final size:27
Alignment explanation
Indices: 46625243--46625506 Score: 322
Period size: 27 Copynumber: 9.8 Consensus size: 27
46625233 ATAACATTAA
46625243 GCAT-ACAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
* *
46625269 GCATAATAGTCATTTTATAACATAGTG
1 GCATAACAGTCATTTTATAACATAGGG
46625296 GCATAACAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
* * *
46625323 GCATAATAGTCA-TTT-TACCATGTGAGG
1 GCATAACAGTCATTTTATAACAT-AG-GG
46625350 GCATAACAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
* *
46625377 GCATAACCGTCATTTTATAAAATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
*
46625404 GCATAACCA-TCATTTCATAACATAGGG
1 GCATAA-CAGTCATTTTATAACATAGGG
* ** *
46625431 GCATAATAGTCATTTTACCACGT-GAGG
1 GCATAACAGTCATTTTATAACATAG-GG
* *
46625458 GCATAACAGTTATTTTATAACTTAGGG
1 GCATAACAGTCATTTTATAACATAGGG
*
46625485 GCATAATAGTCATTTTATAACA
1 GCATAACAGTCATTTTATAACA
46625507 GTTTGGGGGT
Statistics
Matches: 201, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.02
26 10 0.05
27 175 0.87
28 6 0.03
29 5 0.02
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (27 bp):
GCATAACAGTCATTTTATAACATAGGG
Found at i:46625307 original size:54 final size:54
Alignment explanation
Indices: 46625243--46625506 Score: 356
Period size: 54 Copynumber: 4.9 Consensus size: 54
46625233 ATAACATTAA
46625243 GCAT-ACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAACAT-AGTG
1 GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAACATGAG-G
** **
46625296 GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTACCATGTGAGG
1 GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAACATGAGG
** *
46625350 GCATAACAGTCATTTTATAACATAGGGGCATAACCGTCATTTTATAAAAT-AGGG
1 GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAACATGA-GG
* ** *
46625404 GCATAACCA-TCATTTCATAACATAGGGGCATAATAGTCATTTTACCACGTGAGG
1 GCATAA-CAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAACATGAGG
* *
46625458 GCATAACAGTTATTTTATAACTTAGGGGCATAATAGTCATTTTATAACA
1 GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAACA
46625507 GTTTGGGGGT
Statistics
Matches: 182, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
53 7 0.04
54 170 0.93
55 5 0.03
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (54 bp):
GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAACATGAGG
Found at i:46625436 original size:108 final size:108
Alignment explanation
Indices: 46625243--46625504 Score: 429
Period size: 108 Copynumber: 2.4 Consensus size: 108
46625233 ATAACATTAA
* *
46625243 GCAT-ACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAACATAGTGGCATAACAGTC
1 GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAAAATAGGGGCATAACAGTC
* *
46625307 ATTTTATAACATAGGGGCATAATAGTCATTTTACCATGTGAGG
66 ATTTCATAACATAGGGGCATAATAGTCATTTTACCACGTGAGG
**
46625350 GCATAACAGTCATTTTATAACATAGGGGCATAACCGTCATTTTATAAAATAGGGGCATAACCA-T
1 GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAAAATAGGGGCATAA-CAGT
46625414 CATTTCATAACATAGGGGCATAATAGTCATTTTACCACGTGAGG
65 CATTTCATAACATAGGGGCATAATAGTCATTTTACCACGTGAGG
* *
46625458 GCATAACAGTTATTTTATAACTTAGGGGCATAATAGTCATTTTATAA
1 GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAA
46625505 CAGTTTGGGG
Statistics
Matches: 143, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
107 4 0.03
108 137 0.96
109 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (108 bp):
GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAAAATAGGGGCATAACAGTC
ATTTCATAACATAGGGGCATAATAGTCATTTTACCACGTGAGG
Found at i:46632270 original size:21 final size:21
Alignment explanation
Indices: 46632244--46632283 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46632234 AAATTAGGAT
* *
46632244 ATAAAAATTAAATTAAAAACA
1 ATAAAAATAAAAATAAAAACA
46632265 ATAAAAATAAAAATAAAAA
1 ATAAAAATAAAAATAAAAA
46632284 ATGGCTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (21 bp):
ATAAAAATAAAAATAAAAACA
Found at i:46638093 original size:54 final size:54
Alignment explanation
Indices: 46637968--46638083 Score: 171
Period size: 54 Copynumber: 2.1 Consensus size: 54
46637958 AGTCATGGGA
* * * *
46637968 AAAATGATCGAATTACCC-CCGAAGGGTAACATGACTGAATTACCCCCAAAGGGT
1 AAAATGACCGAATTACCCTCC-ATGGGTAAAATGACTGAAATACCCCCAAAGGGT
*
46638022 AAAATGACCGAATTACCCTCCATGGGTAAAATGACTGAAATACCCCCATAGGGT
1 AAAATGACCGAATTACCCTCCATGGGTAAAATGACTGAAATACCCCCAAAGGGT
46638076 AAAATGAC
1 AAAATGAC
46638084 TGTTATACCC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 54 0.96
55 2 0.04
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (54 bp):
AAAATGACCGAATTACCCTCCATGGGTAAAATGACTGAAATACCCCCAAAGGGT
Found at i:46638094 original size:26 final size:26
Alignment explanation
Indices: 46637961--46638094 Score: 126
Period size: 27 Copynumber: 5.0 Consensus size: 26
46637951 ATGTGCGAGT
* *
46637961 CATGGGAAAAATGA-TCGAATTACCCC
1 CATGGGTAAAATGACT-GAAATACCCC
* * *
46637987 CGAAGGGTAACATGACTGAATTACCCC
1 C-ATGGGTAAAATGACTGAAATACCCC
* * *
46638014 CAAAGGGTAAAATGACCGAATTACCCTC
1 C-ATGGGTAAAATGACTGAAATACCC-C
46638042 CATGGGTAAAATGACTGAAATACCCC
1 CATGGGTAAAATGACTGAAATACCCC
**
46638068 CATAGGGTAAAATGACTGTTATACCCC
1 CAT-GGGTAAAATGACTGAAATACCCC
46638095 TAAGAGTTGA
Statistics
Matches: 93, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.05
27 85 0.91
28 3 0.03
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (26 bp):
CATGGGTAAAATGACTGAAATACCCC
Found at i:46638094 original size:27 final size:27
Alignment explanation
Indices: 46637968--46638085 Score: 152
Period size: 27 Copynumber: 4.4 Consensus size: 27
46637958 AGTCATGGGA
46637968 AAAATGA-TCGAATTACCCCCGA-AGGGT
1 AAAATGACT-GAATTACCCCC-ATAGGGT
* *
46637995 AACATGACTGAATTACCCCCAAAGGGT
1 AAAATGACTGAATTACCCCCATAGGGT
*
46638022 AAAATGACCGAATTACCCTCCAT-GGGT
1 AAAATGACTGAATTACCC-CCATAGGGT
*
46638049 AAAATGACTGAAATACCCCCATAGGGT
1 AAAATGACTGAATTACCCCCATAGGGT
46638076 AAAATGACTG
1 AAAATGACTG
46638086 TTATACCCCT
Statistics
Matches: 81, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
26 5 0.06
27 72 0.89
28 4 0.05
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (27 bp):
AAAATGACTGAATTACCCCCATAGGGT
Found at i:46644136 original size:27 final size:27
Alignment explanation
Indices: 46644089--46644245 Score: 197
Period size: 27 Copynumber: 5.8 Consensus size: 27
46644079 TGCGAATCAT
** * *
46644089 GGGTAAAATGATTGAAATACCTTTGAA
1 GGGTAAAATGACCGAATTACCCTTGAA
46644116 GGGTAAAATGACCGAATTACCCTTGAA
1 GGGTAAAATGACCGAATTACCCTTGAA
*
46644143 GGGTAAAATGACCGAATTACCCCTGAA
1 GGGTAAAATGACCGAATTACCCTTGAA
*** **
46644170 GGGTAAAATGGTTGAATTACCCCCGAA
1 GGGTAAAATGACCGAATTACCCTTGAA
* *
46644197 GGGTAAAATGACCGAATTGCCCTCGAA
1 GGGTAAAATGACCGAATTACCCTTGAA
*
46644224 GGGTAAAATGACCGAAATACCC
1 GGGTAAAATGACCGAATTACCC
46644246 CCATAGGATA
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (27 bp):
GGGTAAAATGACCGAATTACCCTTGAA
Found at i:46644153 original size:54 final size:53
Alignment explanation
Indices: 46644089--46644272 Score: 197
Period size: 54 Copynumber: 3.4 Consensus size: 53
46644079 TGCGAATCAT
** * *
46644089 GGGTAAAATGATTGAAATACCTTTGAAGGGTAAAATGACCGAATTACCCTTGAA
1 GGGTAAAATGACCGAAATACCCTTGAAGGGTAAAATGACCGAATTACCC-CGAA
* * ***
46644143 GGGTAAAATGACCGAATTACCCCTGAAGGGTAAAATGGTTGAATTACCCCCGAA
1 GGGTAAAATGACCGAAATACCCTTGAAGGGTAAAATGACCGAATTA-CCCCGAA
* * * * *
46644197 GGGTAAAATGACCGAATTGCCCTCGAAGGGTAAAATGACCGAAATACCCCCATA
1 GGGTAAAATGACCGAAATACCCTTGAAGGGTAAAATGACCGAATTACCCCGA-A
* *
46644251 GGATAAAATGACTGAAATACCC
1 GGGTAAAATGACCGAAATACCC
46644273 CCATAAGGTA
Statistics
Matches: 107, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
53 5 0.05
54 99 0.93
55 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (53 bp):
GGGTAAAATGACCGAAATACCCTTGAAGGGTAAAATGACCGAATTACCCCGAA
Found at i:46644225 original size:81 final size:81
Alignment explanation
Indices: 46644089--46644289 Score: 262
Period size: 81 Copynumber: 2.5 Consensus size: 81
46644079 TGCGAATCAT
*** *
46644089 GGGTAAAATGATTGAAATACCTTTGAAGGGTAAAATGACCGAATTACCCTTGAAGGGTAAAATGA
1 GGGTAAAATGATTGAAATACCCCCGAAGGGTAAAATGACCGAATTACCCTCGAAGGGTAAAATGA
* *
46644154 CCGAATTACCCCTGA-A
66 CCGAAATACCCC-CATA
* * *
46644170 GGGTAAAATGGTTGAATTACCCCCGAAGGGTAAAATGACCGAATTGCCCTCGAAGGGTAAAATGA
1 GGGTAAAATGATTGAAATACCCCCGAAGGGTAAAATGACCGAATTACCCTCGAAGGGTAAAATGA
46644235 CCGAAATACCCCCATA
66 CCGAAATACCCCCATA
* * *
46644251 GGATAAAATGACTGAAATACCCCC-ATAAGGTAAAATGAC
1 GGGTAAAATGATTGAAATACCCCCGA-AGGGTAAAATGAC
46644290 TATTATACCC
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
80 2 0.02
81 102 0.98
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (81 bp):
GGGTAAAATGATTGAAATACCCCCGAAGGGTAAAATGACCGAATTACCCTCGAAGGGTAAAATGA
CCGAAATACCCCCATA
Found at i:46644257 original size:27 final size:26
Alignment explanation
Indices: 46644114--46644289 Score: 181
Period size: 27 Copynumber: 6.5 Consensus size: 26
46644104 AATACCTTTG
**
46644114 AAGGGTAAAATGACCGAATTACCCTTG
1 AAGGGTAAAATGACCGAATTACCC-CC
*
46644141 AAGGGTAAAATGACCGAATTACCCCTG
1 AAGGGTAAAATGACCGAATTACCCC-C
***
46644168 AAGGGTAAAATGGTTGAATTACCCCC
1 AAGGGTAAAATGACCGAATTACCCCC
* *
46644194 GAAGGGTAAAATGACCGAATTGCCCTCG
1 -AAGGGTAAAATGACCGAATTACCC-CC
*
46644222 AAGGGTAAAATGACCGAAATACCCCC
1 AAGGGTAAAATGACCGAATTACCCCC
* * *
46644248 ATAGGATAAAATGACTGAAATACCCCC
1 A-AGGGTAAAATGACCGAATTACCCCC
*
46644275 ATAAGGTAAAATGAC
1 A-AGGGTAAAATGAC
46644290 TATTATACCC
Statistics
Matches: 128, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.02
27 125 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (26 bp):
AAGGGTAAAATGACCGAATTACCCCC
Found at i:46644493 original size:26 final size:26
Alignment explanation
Indices: 46644464--46644539 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
46644454 TTGCCACATA
* *
46644464 TACTGTTACTGGTAGCTTTGGTGCAT
1 TACTGTTACTGGCAGCTTTGCTGCAT
46644490 TACTGTTACTGGCAGCTTTGCTGCAT
1 TACTGTTACTGGCAGCTTTGCTGCAT
* * *
46644516 CACTATTACTGGCAGTTTTGCTGC
1 TACTGTTACTGGCAGCTTTGCTGC
46644540 GATATTGGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCAT
Found at i:46644692 original size:28 final size:28
Alignment explanation
Indices: 46644651--46644705 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
46644641 ATTGTATTAA
**
46644651 TTACTGTACTGGGCTAAGGCCCACACTG
1 TTACTGTAAGGGGCTAAGGCCCACACTG
46644679 TTACTGTAAGGGGCTAAGGCCCACACT
1 TTACTGTAAGGGGCTAAGGCCCACACT
46644706 ATACTAATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (28 bp):
TTACTGTAAGGGGCTAAGGCCCACACTG
Found at i:46658783 original size:79 final size:79
Alignment explanation
Indices: 46658652--46658811 Score: 302
Period size: 79 Copynumber: 2.0 Consensus size: 79
46658642 ACGTTTAATT
* *
46658652 CCTTTTTAATTTTTCGTTTTGTTTATGACCTGAAGCTTCTGCACCCCAATCGAACCATACCTAGA
1 CCTTTTTAATTTTTCGGTTTGTTTATGACCGGAAGCTTCTGCACCCCAATCGAACCATACCTAGA
46658717 TCCGAAGCAACTAG
66 TCCGAAGCAACTAG
46658731 CCTTTTTAATTTTTCGGTTTGTTTATGACCGGAAGCTTCTGCACCCCAATCGAACCATACCTAGA
1 CCTTTTTAATTTTTCGGTTTGTTTATGACCGGAAGCTTCTGCACCCCAATCGAACCATACCTAGA
46658796 TCCGAAGCAACTAG
66 TCCGAAGCAACTAG
46658810 CC
1 CC
46658812 AGGCGTGCTC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.33
Consensus pattern (79 bp):
CCTTTTTAATTTTTCGGTTTGTTTATGACCGGAAGCTTCTGCACCCCAATCGAACCATACCTAGA
TCCGAAGCAACTAG
Found at i:46660163 original size:24 final size:24
Alignment explanation
Indices: 46660132--46660177 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
46660122 GAGATTTCCA
46660132 AAGAAGTTGATGAACCCATGGAGG
1 AAGAAGTTGATGAACCCATGGAGG
46660156 AAGAAGTTGATGAACCCATGGA
1 AAGAAGTTGATGAACCCATGGA
46660178 CAAACAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.13, G:0.30, T:0.17
Consensus pattern (24 bp):
AAGAAGTTGATGAACCCATGGAGG
Found at i:46668033 original size:18 final size:17
Alignment explanation
Indices: 46668012--46668047 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
46668002 TTATTTTCAG
46668012 TTTAGTTTGTTTTTCGTT
1 TTTAGTTTGTTTTT-GTT
*
46668030 TTTATTTTGTTTTTGTT
1 TTTAGTTTGTTTTTGTT
46668047 T
1 T
46668048 AGTTTTCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.06, C:0.03, G:0.14, T:0.78
Consensus pattern (17 bp):
TTTAGTTTGTTTTTGTT
Found at i:46670848 original size:13 final size:13
Alignment explanation
Indices: 46670832--46670858 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46670822 GTTTTTGTGG
46670832 TTGTTTTTCTTCA
1 TTGTTTTTCTTCA
46670845 TTGTTTTTCTTCA
1 TTGTTTTTCTTCA
46670858 T
1 T
46670859 GGCCACGGAG
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:0.07, C:0.15, G:0.07, T:0.70
Consensus pattern (13 bp):
TTGTTTTTCTTCA
Found at i:46677926 original size:10 final size:10
Alignment explanation
Indices: 46677911--46677940 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
46677901 GTAATTTTGA
46677911 TATTTAAAAT
1 TATTTAAAAT
*
46677921 TATTTAAAAA
1 TATTTAAAAT
46677931 TATTTAAAAT
1 TATTTAAAAT
46677941 CTATATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TATTTAAAAT
Found at i:46683487 original size:2 final size:2
Alignment explanation
Indices: 46683480--46683507 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
46683470 CTCAAATTGG
46683480 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46683508 TGTAAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46685735 original size:14 final size:15
Alignment explanation
Indices: 46685706--46685738 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
46685696 CGAGAAAACA
46685706 AAAATAAAACAAAAT
1 AAAATAAAACAAAAT
*
46685721 AAAAT-AAACAGAAT
1 AAAATAAAACAAAAT
46685735 AAAA
1 AAAA
46685739 ATAACATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (15 bp):
AAAATAAAACAAAAT
Found at i:46685739 original size:15 final size:15
Alignment explanation
Indices: 46685700--46685742 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46685690 GATTTTCGAG
*
46685700 AAAACAAAAATAAAAC
1 AAAATAAAAAT-AAAC
46685716 AAAAT-AAAATAAAC
1 AAAATAAAAATAAAC
*
46685730 AGAATAAAAATAA
1 AAAATAAAAATAA
46685743 CATCATATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 8 0.33
15 12 0.50
16 4 0.17
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (15 bp):
AAAATAAAAATAAAC
Found at i:46694334 original size:510 final size:509
Alignment explanation
Indices: 46693435--46694770 Score: 2149
Period size: 510 Copynumber: 2.6 Consensus size: 509
46693425 GGCTGGGCAT
*
46693435 ACGCCAGATTTTTAGCTTTTGACGATCATCATTTTCTCGCATTTTTTGTTATACACTTAGTTCAT
1 ACGCCAGATTTTTAGCTTTTGACGATCGTCATTTTCTCG---TTTTTGTTATACACTTAGTTCA-
* *
46693500 TTTTTTATGTGAAAGCAATCTCGAGACCTCTGAAACTTAAGAAATAGCATTCCAAAGACTATTTT
62 TTTTTTATGTGAAAGCAATCTCGAGACCTCTGAAACCTAAGAAATAGCATTCCAAAGACTACTTT
* * * * *
46693565 CGCAATAAATTTACGAATTCAACACAAGTAAACTGAACAATGCACTCGAACTTACCGCCAACAAA
127 CGCAATCAATTTACGAATTCAACACAACTAAACTGAACAACGCACACGAACTTACCGCCAACGAA
*
46693630 CACAATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTGCTTCACAACCTTTTCCTAAAAGC
192 CACAATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTACTTCACAACCTTTTCCTAAAAGC
* *
46693695 AAAACCAACTAATTAATGGCTACAAATTAACATCACTAGCATCCCATAATTCTAAATGCTCCATA
257 AAAACCCACTAATTAATGGCTACAAATTAACATCACTAGCATCCCATAATTCTAAACGCTCCATA
46693760 GTCGATTGGAACGACACATGCAACCATAGGGAAACATTCTAAAATTTGGGCCTACATACCCGTGT
322 GTCGATTGGAACGACACATGCAACCATAGGGAAACATTCTAAAATTTGGGCCTACATACCCGTGT
* *
46693825 GGCCCACACGTCCAAAATGGCCTTGTCCCTGGGATCACATGGCCTAGCCTACGACCACACACACA
387 GGCCCACACGTCCAAAATGGCCTTGTCCCTGGGACCACATGGCCTAGCCCACGACCACACACACA
* * * *
46693890 CCCGTCACATGACACACGACCTACCACATGGCTGGGCACACGCCTGTGTGGTGTCAAC
452 CCCATCACATGACACACGACCTACCACACGGCTGGGCACACGCCCGTGTGGCGTCAAC
* *
46693948 ACGCCAAATTTTTAGCTTTTGATGATCGTCATTTTCTCGTTTTTGTTATACACTTAGTTCATTTT
1 ACGCCAGATTTTTAGCTTTTGACGATCGTCATTTTCTCGTTTTTGTTATACACTTAGTTCATTTT
* * *
46694013 TTATGTGAAAGCAATCTCGATA-CTTTGAAACCTAAGAAATAGCATTCCAATGACTACTTTCGCA
66 TTATGTGAAAGCAATCTCGAGACCTCTGAAACCTAAGAAATAGCATTCCAAAGACTACTTTCGCA
* *
46694077 TTCAATTTACGAATTCAACACAACTAAACTGAACAACGCACAGGAACTTACCGCCAACGAACACA
131 ATCAATTTACGAATTCAACACAACTAAACTGAACAACGCACACGAACTTACCGCCAACGAACACA
46694142 ATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTACTTCACAACCTTTTTCCTAAAAGCAAA
196 ATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTACTTCACAACC-TTTTCCTAAAAGCAAA
*
46694207 ACCCACTAATCAAATGG-TAACAAATTAACATCACTAGCATCCCATAATTCTAAACGCTCCATAG
260 ACCCACTAAT-TAATGGCT-ACAAATTAACATCACTAGCATCCCATAATTCTAAACGCTCCATAG
* * * *
46694271 TCGATTGGAACTACACATGCGACCATAGGGAAACATTCTGAAATTTGGGCCTACATGCCCGTGTG
323 TCGATTGGAACGACACATGCAACCATAGGGAAACATTCTAAAATTTGGGCCTACATACCCGTGTG
* * *
46694336 GCCCACATGTCCAAAATGGCCTTGTCCCTGGGCCCACATGGCCTGGCCCACGACCACACACACAC
388 GCCCACACGTCCAAAATGGCCTTGTCCCTGGGACCACATGGCCTAGCCCACGACCACACACACAC
* *
46694401 CCATCACATGACACACGGCCTACCACACGGCTGGGCACACGCCCGTGTGGCGTCGAC
453 CCATCACATGACACACGACCTACCACACGGCTGGGCACACGCCCGTGTGGCGTCAAC
* * *
46694458 ACGCCAGATTTTTAGCTTTTGACGATCGCCA-TTTCTTGTGTTTTTGTTATACACTTAGTTCGTT
1 ACGCCAGATTTTTAGCTTTTGACGATCGTCATTTTC-T-CGTTTTTGTTATACACTTAGTTCATT
* * *
46694522 TTTTATGTGAAAGCAATCTCAAGACCTCTAAAACCTAAGAAATAGCATTCCAACGACTACTTTCG
64 TTTTATGTGAAAGCAATCTCGAGACCTCTGAAACCTAAGAAATAGCATTCCAAAGACTACTTTCG
* * * *
46694587 CAATCAATTTATGAATTTAACACAACTAAACCGAA-AACGCACACGAACTTATCGCCAACGAACA
129 CAATCAATTTACGAATTCAACACAACTAAACTGAACAACGCACACGAACTTACCGCCAACGAACA
46694651 CAATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTACTTCACAACCTTTTCCTAAAAGCAA
194 CAATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTACTTCACAACCTTTTCCTAAAAGCAA
* *
46694716 AACCCAATAATTAATGGCTATAAATTAACATCACTAGCATCCCATAATTCTAAAC
259 AACCCACTAATTAATGGCTACAAATTAACATCACTAGCATCCCATAATTCTAAAC
46694771 ACTAAAGATA
Statistics
Matches: 763, Mismatches: 53, Indels: 18
0.91 0.06 0.02
Matches are distributed among these distances:
508 143 0.19
509 95 0.12
510 298 0.39
511 123 0.16
512 68 0.09
513 36 0.05
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (509 bp):
ACGCCAGATTTTTAGCTTTTGACGATCGTCATTTTCTCGTTTTTGTTATACACTTAGTTCATTTT
TTATGTGAAAGCAATCTCGAGACCTCTGAAACCTAAGAAATAGCATTCCAAAGACTACTTTCGCA
ATCAATTTACGAATTCAACACAACTAAACTGAACAACGCACACGAACTTACCGCCAACGAACACA
ATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTACTTCACAACCTTTTCCTAAAAGCAAAA
CCCACTAATTAATGGCTACAAATTAACATCACTAGCATCCCATAATTCTAAACGCTCCATAGTCG
ATTGGAACGACACATGCAACCATAGGGAAACATTCTAAAATTTGGGCCTACATACCCGTGTGGCC
CACACGTCCAAAATGGCCTTGTCCCTGGGACCACATGGCCTAGCCCACGACCACACACACACCCA
TCACATGACACACGACCTACCACACGGCTGGGCACACGCCCGTGTGGCGTCAAC
Found at i:46694941 original size:10 final size:10
Alignment explanation
Indices: 46694917--46694960 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
46694907 GATTTTGGGG
*
46694917 AAAACAAAAAC
1 AAAAC-AAAAT
46694928 AAAACAAAAT
1 AAAACAAAAT
*
46694938 AAAATAAAAT
1 AAAACAAAAT
46694948 -AAACAAAAT
1 AAAACAAAAT
46694957 AAAA
1 AAAA
46694961 ATAACATCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 8 0.28
10 16 0.55
11 5 0.17
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (10 bp):
AAAACAAAAT
Found at i:46699299 original size:15 final size:15
Alignment explanation
Indices: 46699276--46699312 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
46699266 TAAATTAACT
46699276 TTCCAAATAACCACA
1 TTCCAAATAACCACA
* *
46699291 TTCCTAATAACCATA
1 TTCCAAATAACCACA
46699306 TTCCAAA
1 TTCCAAA
46699313 GATTCATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (15 bp):
TTCCAAATAACCACA
Found at i:46699958 original size:19 final size:20
Alignment explanation
Indices: 46699922--46699969 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
46699912 TAAAATAAGC
*
46699922 TTAAAAATCAAAACA-TTTA
1 TTAAAAATTAAAACATTTTA
46699941 TTAAAAATTATAAA-ATTTTA
1 TTAAAAATTA-AAACATTTTA
*
46699961 TAAAAAATT
1 TTAAAAATT
46699970 TCAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAAAATTAAAACATTTTA
Found at i:46701541 original size:20 final size:20
Alignment explanation
Indices: 46701518--46701557 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46701508 CTATTCAAAC
*
46701518 AATATTACTTGAATAATTAT
1 AATATTACATGAATAATTAT
*
46701538 AATATTAGATGAATAATTAT
1 AATATTACATGAATAATTAT
46701558 GGGTCTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (20 bp):
AATATTACATGAATAATTAT
Found at i:46702151 original size:28 final size:28
Alignment explanation
Indices: 46702117--46702172 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
46702107 GTTAGGGACC
*
46702117 AAATTTTAAAAAATTAACAAATTTAGGG
1 AAATTTTAAAAAACTAACAAATTTAGGG
46702145 AAATTTTAAAAAACTAACAAATTTAGGG
1 AAATTTTAAAAAACTAACAAATTTAGGG
46702173 TTTAAATGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.54, C:0.05, G:0.11, T:0.30
Consensus pattern (28 bp):
AAATTTTAAAAAACTAACAAATTTAGGG
Found at i:46702875 original size:11 final size:11
Alignment explanation
Indices: 46702853--46702899 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
46702843 CACTAACCCT
46702853 CTCTCAAATTTC
1 CTCTC-AATTTC
46702865 CTCTCAATTTC
1 CTCTCAATTTC
46702876 CTCTCAA-TTC
1 CTCTCAATTTC
*
46702886 GCTCTCAAATTC
1 -CTCTCAATTTC
46702898 CT
1 CT
46702900 TCCAAATTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
10 3 0.09
11 22 0.67
12 8 0.24
ACGTcount: A:0.21, C:0.36, G:0.02, T:0.40
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:46702912 original size:22 final size:22
Alignment explanation
Indices: 46702853--46702917 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
46702843 CACTAACCCT
*
46702853 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTT-CTCTCAAATTC
*
46702876 CTCTC-AATTCGCTCTCAAATTC
1 CTCTCAAATT-TCTCTCAAATTC
46702898 CT-TCCAAATTTCTCTCAAAT
1 CTCT-CAAATTTCTCTCAAAT
46702918 CGATTTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
21 1 0.03
22 26 0.72
23 9 0.25
ACGTcount: A:0.25, C:0.34, G:0.02, T:0.40
Consensus pattern (22 bp):
CTCTCAAATTTCTCTCAAATTC
Done.