Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 299 of 318
Found at i:93778869 original size:14 final size:15
Alignment explanation
Indices: 93778839--93778877 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
93778829 CTTTTCCCTA
*
93778839 TTTCTCTCTTCTTTT
1 TTTCTCTCTTATTTT
93778854 TTTCTC-CTTATTTT
1 TTTCTCTCTTATTTT
*
93778868 TTTCTTTCTT
1 TTTCTCTCTT
93778878 TTTCACGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTCTCTCTTATTTT
Found at i:93783906 original size:18 final size:18
Alignment explanation
Indices: 93783883--93783919 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
93783873 TTACTTTTAT
*
93783883 TATTATTGTTATTGGTAC
1 TATTATTATTATTGGTAC
*
93783901 TATTATTATTTTTGGTAC
1 TATTATTATTATTGGTAC
93783919 T
1 T
93783920 TCCCTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (18 bp):
TATTATTATTATTGGTAC
Found at i:93787471 original size:4 final size:4
Alignment explanation
Indices: 93787464--93787497 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
93787454 AGCAATATAT
93787464 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
93787498 TGTGTGTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:93788265 original size:1 final size:1
Alignment explanation
Indices: 93788259--93788286 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
93788249 AAGTACATTT
93788259 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
93788287 CAACAATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:93789612 original size:3 final size:3
Alignment explanation
Indices: 93789604--93789643 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
93789594 TGCCCTTGAA
93789604 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
93789644 TCTGGTTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:93790889 original size:32 final size:32
Alignment explanation
Indices: 93790853--93790913 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
93790843 ATAGACTTAG
* *
93790853 CTAACTTTAATGTAAAAATGTGACTGAATTGT
1 CTAACTTGAATGTAAAAATGAGACTGAATTGT
*
93790885 CTAACTTGAATGTAAAAATGAGGCTGAAT
1 CTAACTTGAATGTAAAAATGAGACTGAAT
93790914 AAGTTTAACG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (32 bp):
CTAACTTGAATGTAAAAATGAGACTGAATTGT
Found at i:93794646 original size:261 final size:260
Alignment explanation
Indices: 93794175--93794685 Score: 898
Period size: 261 Copynumber: 2.0 Consensus size: 260
93794165 AATTGTTACC
* *
93794175 TAACCATATACTATTCGTCAGAATTATAACATAAGCCCATCTTCCTTCTCTCTGCCATTTTTGCC
1 TAACCATATACTATTCGTCAGAATTATAACATAAGCCCATCATCCTTCTCTCTACCATTTTTGCC
* * *
93794240 CATATCTTTAAAAAAGTGGCTAGATTATTTATCGATTTTGCTCAATAGTTCCCCTAACATATTTC
66 CATAACTTTAAAAAAGTGGCTAGATGATTTATCGATTTTGCTCAATAGTTCCCCTAACATATTGC
93794305 TGCCTTTAGAAAGTTGGGTGCCAAAATCGTTATATCCACAGGGAATTTGAAACTGCCCTCATTAC
131 TGCCTTTAGAAAGTTGGGTGCCAAAATCGTTATATCCACAGGGAATTTGAAACTGCCCTCATTAC
*
93794370 CTTGCCAAGTTCCTTTACGATTATTTTTGACACATAGCATTTGCTACTTCTGTTCGTCAGAATTA
196 CTTGCCAAATTCCTTTACGATTATTTTTGACACATAGCATTTGCTACTTCTGTTCGTCAGAATTA
*
93794435 TAACCATATACTGA-TCGTCAGAATTATAACATAAGCCCTTCATCCTTCTCTCTACCATTTTTGC
1 TAACCATATACT-ATTCGTCAGAATTATAACATAAGCCCATCATCCTTCTCTCTACCATTTTTGC
*
93794499 CCATAACTTTAAAAAAGTGGCTAGATGATTTATTGATTTTGCTTCAATAGTTCCCCTAACATATT
65 CCATAACTTTAAAAAAGTGGCTAGATGATTTATCGATTTTGC-TCAATAGTTCCCCTAACATATT
* * *
93794564 GCTGCCTTTAGAAAGTTGGGTGCCAAAATTGTTATATCCACAGGGAATTTGTAACTTCCCTCATT
129 GCTGCCTTTAGAAAGTTGGGTGCCAAAATCGTTATATCCACAGGGAATTTGAAACTGCCCTCATT
93794629 ACCTTGCCAAATTCCTTTACGATTATTTTTGACACATAGCATTTGCTACTTCTGTTC
194 ACCTTGCCAAATTCCTTTACGATTATTTTTGACACATAGCATTTGCTACTTCTGTTC
93794686 ATAGGCACTA
Statistics
Matches: 238, Mismatches: 11, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
260 98 0.41
261 140 0.59
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (260 bp):
TAACCATATACTATTCGTCAGAATTATAACATAAGCCCATCATCCTTCTCTCTACCATTTTTGCC
CATAACTTTAAAAAAGTGGCTAGATGATTTATCGATTTTGCTCAATAGTTCCCCTAACATATTGC
TGCCTTTAGAAAGTTGGGTGCCAAAATCGTTATATCCACAGGGAATTTGAAACTGCCCTCATTAC
CTTGCCAAATTCCTTTACGATTATTTTTGACACATAGCATTTGCTACTTCTGTTCGTCAGAATTA
Found at i:93817804 original size:29 final size:31
Alignment explanation
Indices: 93817745--93817805 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 31
93817735 GGGGTTGGGA
** * *
93817745 TGGGAAGGGAGTAAAAGTTTTGGGGGGAAAG
1 TGGGAAGGGAGTAAAAGTTTTAAGAGAAAAG
93817776 TGGGAA-GGAGT-AAAGTTTTAAGAGAAAAG
1 TGGGAAGGGAGTAAAAGTTTTAAGAGAAAAG
93817805 T
1 T
93817806 CAAAAGGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 15 0.58
30 5 0.19
31 6 0.23
ACGTcount: A:0.38, C:0.00, G:0.41, T:0.21
Consensus pattern (31 bp):
TGGGAAGGGAGTAAAAGTTTTAAGAGAAAAG
Found at i:93821660 original size:15 final size:15
Alignment explanation
Indices: 93821642--93821693 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
93821632 AATAGTTAAT
93821642 AATAAAATGATATAA
1 AATAAAATGATATAA
*
93821657 AATAAAATAATA-AA
1 AATAAAATGATATAA
93821671 TAATAAAAATGATATAA
1 -AAT-AAAATGATATAA
*
93821688 TATAAA
1 AATAAA
93821694 TAATGATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 2 0.06
15 17 0.55
16 10 0.32
17 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (15 bp):
AATAAAATGATATAA
Found at i:93821673 original size:30 final size:30
Alignment explanation
Indices: 93821628--93821697 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
93821618 AATTTTACAT
* *
93821628 AATAAATAGTTAATAAT-AAAATGATATAA
1 AATAAATAATAAATAATAAAAATGATATAA
93821657 AATAAAATAATAAATAATAAAAATGATATAA
1 AAT-AAATAATAAATAATAAAAATGATATAA
*
93821688 TATAAATAAT
1 AATAAATAAT
93821698 GATTTACATA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.08
30 19 0.53
31 14 0.39
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (30 bp):
AATAAATAATAAATAATAAAAATGATATAA
Found at i:93825440 original size:2 final size:2
Alignment explanation
Indices: 93825433--93825460 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
93825423 ATTCTAGATT
93825433 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
93825461 GTGGAAAGTG
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):
TA
Found at i:93827366 original size:3 final size:3
Alignment explanation
Indices: 93827358--93827387 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
93827348 GGGGTGGGGG
93827358 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
93827388 GGGATTAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:93828489 original size:5 final size:5
Alignment explanation
Indices: 93828479--93828509 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
93828469 TGACGAAGAG
93828479 AGGGA AGGGA AGGGA AGGGA AGGGA AGGGA A
1 AGGGA AGGGA AGGGA AGGGA AGGGA AGGGA A
93828510 ACCTGAGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (5 bp):
AGGGA
Found at i:93829077 original size:3 final size:3
Alignment explanation
Indices: 93829069--93829105 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
93829059 TCAAGTACAC
93829069 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
93829106 TAGTTAGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:93829294 original size:6 final size:6
Alignment explanation
Indices: 93829283--93829328 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
93829273 AACTTTAGAA
*
93829283 AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGTGGG AGAGGG AGAG
1 AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAG
93829329 CAACATGGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.33, C:0.00, G:0.65, T:0.02
Consensus pattern (6 bp):
AGAGGG
Found at i:93832546 original size:2 final size:2
Alignment explanation
Indices: 93832539--93832584 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
93832529 CATTTAAACC
93832539 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93832581 AT AT
1 AT AT
93832585 GTGCAAACTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93833658 original size:156 final size:156
Alignment explanation
Indices: 93833374--93833685 Score: 511
Period size: 156 Copynumber: 2.0 Consensus size: 156
93833364 TCGATATCAA
*
93833374 ATGTAAGCTCAAATAAACATGTCATGGAACGATGGTATGTAAATGATATATCAATTCATAGCATG
1 ATGTAAGCTCAAATAAACATGTCATGGAACAATGGTATGTAAATGATATATCAATTCATAGCATG
* *
93833439 ATACCATTGAGAACTCCAAAGTCTTAAGCCTAAGTAAAAATATTAATTTTATATCCTAAGTCTAA
66 ATACCATCGAGAACTCCAAAGTCTTAAGCCTAAGTAAAAATATTAATCTTATATCCTAAGTCTAA
* *
93833504 -TCCTAATTCTAATTGTAGTTCTAAAC
131 GT-CTAATCCTAATTCTAGTTCTAAAC
* *
93833530 ATGTAAGCTCAAATAAACATGTCATGGAACAATGGTATGT-ATTGATATATTAATTCATAGCATG
1 ATGTAAGCTCAAATAAACATGTCATGGAACAATGGTATGTAAATGATATATCAATTCATAGCATG
*
93833594 ATACCATCGAGAATTCCAAAGTCTTTAAGCCTAAGTAAAAATATTAATCTTATATCCTAAGTCTA
66 ATACCATCGAGAACTCCAAAGTC-TTAAGCCTAAGTAAAAATATTAATCTTATATCCTAAGTCTA
*
93833659 AGTTTAATCCTAATTCTAGTTCTAAAC
130 AGTCTAATCCTAATTCTAGTTCTAAAC
93833686 CTAGTTTTGT
Statistics
Matches: 145, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
155 43 0.30
156 101 0.70
157 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (156 bp):
ATGTAAGCTCAAATAAACATGTCATGGAACAATGGTATGTAAATGATATATCAATTCATAGCATG
ATACCATCGAGAACTCCAAAGTCTTAAGCCTAAGTAAAAATATTAATCTTATATCCTAAGTCTAA
GTCTAATCCTAATTCTAGTTCTAAAC
Found at i:93840632 original size:43 final size:41
Alignment explanation
Indices: 93840535--93840672 Score: 190
Period size: 41 Copynumber: 3.3 Consensus size: 41
93840525 ACATAAAATT
* *
93840535 TGCTAGGC-ATAAAGCCT-AGTATAATACACCAGCACAGAGCC
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCGGCACAAAGCC
* *
93840576 TTCTAGGCAATAAGCCTGATATAATACACCGGCATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGC--ACAAAGCC
93840619 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
93840660 TGCTAGGCAATAA
1 TGCTAGGCAATAA
93840673 AGCCCGAATA
Statistics
Matches: 87, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
41 46 0.53
42 3 0.03
43 38 0.44
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.20
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
Found at i:93847237 original size:43 final size:41
Alignment explanation
Indices: 93847160--93847319 Score: 257
Period size: 41 Copynumber: 3.9 Consensus size: 41
93847150 TAAAGCCTAG
** * *
93847160 TATAATACACCAGCACAGAGCCTGCTAGGCAATAAGCCTGA
1 TATAATACACTGGCACAAAGCCTGCTAGGCAATAAGCTTGA
*
93847201 TATAATACACTGGCATATAAGGCCTGCTAGGCAATAAGCTTGA
1 TATAATACACTGGCACA-AA-GCCTGCTAGGCAATAAGCTTGA
93847244 TATAATACACTGGCACAAAGCCTGCTAGGCAATAAGCTTGA
1 TATAATACACTGGCACAAAGCCTGCTAGGCAATAAGCTTGA
93847285 TATAATACACTGGCACAAAGCCTGCTAGGCAATAA
1 TATAATACACTGGCACAAAGCCTGCTAGGCAATAA
93847320 AGCCCGAATA
Statistics
Matches: 111, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
41 71 0.64
42 3 0.03
43 37 0.33
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (41 bp):
TATAATACACTGGCACAAAGCCTGCTAGGCAATAAGCTTGA
Found at i:93847286 original size:84 final size:82
Alignment explanation
Indices: 93847160--93847319 Score: 257
Period size: 84 Copynumber: 1.9 Consensus size: 82
93847150 TAAAGCCTAG
* *
93847160 TATAATACACCAGCACAGAGCCTGCTAGGCAATAAGCCTGATATAATACACTGGCATATAAGGCC
1 TATAATACACCAGCACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACTGGCACA-AA-GCC
93847225 TGCTAGGCAATAAGCTTGA
64 TGCTAGGCAATAAGCTTGA
** *
93847244 TATAATACACTGGCACAAAGCCTGCTAGGCAATAAGCTTGATATAATACACTGGCACAAAGCCTG
1 TATAATACACCAGCACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACTGGCACAAAGCCTG
93847309 CTAGGCAATAA
66 CTAGGCAATAA
93847320 AGCCCGAATA
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
82 16 0.23
83 2 0.03
84 53 0.75
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (82 bp):
TATAATACACCAGCACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACTGGCACAAAGCCTG
CTAGGCAATAAGCTTGA
Found at i:93849253 original size:11 final size:11
Alignment explanation
Indices: 93849222--93849254 Score: 57
Period size: 12 Copynumber: 2.9 Consensus size: 11
93849212 ACATAGGAAA
93849222 TTTATTTTTTT
1 TTTATTTTTTT
93849233 TTTATGTTTTTT
1 TTTAT-TTTTTT
93849245 TTTATTTTTT
1 TTTATTTTTT
93849255 ATGTCAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTATTTTTTT
Found at i:93852285 original size:13 final size:13
Alignment explanation
Indices: 93852267--93852293 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
93852257 GTTTTGTATA
93852267 TTTCTCGAAAGTT
1 TTTCTCGAAAGTT
93852280 TTTCTCGAAAGTT
1 TTTCTCGAAAGTT
93852293 T
1 T
93852294 CTTGATCTCC
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:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (13 bp):
TTTCTCGAAAGTT
Found at i:93855909 original size:10 final size:10
Alignment explanation
Indices: 93855894--93855919 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
93855884 AATGTTTGAA
93855894 AACATTTTGC
1 AACATTTTGC
93855904 AACATTTTGC
1 AACATTTTGC
93855914 AACATT
1 AACATT
93855920 ACGATATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (10 bp):
AACATTTTGC
Found at i:93858017 original size:18 final size:19
Alignment explanation
Indices: 93857977--93858018 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
93857967 GCAAATGAAT
*
93857977 CATTTCTCAGTTTCATTTT
1 CATTTCTCAGTTTCATTTC
93857996 CATTTC-CA-TTTCAATTTC
1 CATTTCTCAGTTTC-ATTTC
93858014 CATTT
1 CATTT
93858019 TGATAAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 11 0.52
19 6 0.29
ACGTcount: A:0.19, C:0.24, G:0.02, T:0.55
Consensus pattern (19 bp):
CATTTCTCAGTTTCATTTC
Found at i:93866534 original size:6 final size:6
Alignment explanation
Indices: 93866520--93866566 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
93866510 AATAAAATTG
* *
93866520 AAATGAA AAATAA AAATAA AAAGAA GAATAA AAATAAA AAATAA AAA
1 AAAT-AA AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATAA AAA
93866567 GATAAGAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
6 25 0.71
7 10 0.29
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (6 bp):
AAATAA
Found at i:93877907 original size:21 final size:23
Alignment explanation
Indices: 93877871--93877915 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
93877861 TATTAACATG
*
93877871 CCTAAACTCTTATACAA-GTATT
1 CCTAAACTCATATACAATGTATT
93877893 CCTAAA-TCATATACAATGTATT
1 CCTAAACTCATATACAATGTATT
93877915 C
1 C
93877916 TAATAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (23 bp):
CCTAAACTCATATACAATGTATT
Found at i:93882044 original size:141 final size:139
Alignment explanation
Indices: 93881698--93882516 Score: 935
Period size: 141 Copynumber: 5.9 Consensus size: 139
93881688 CAAAACAGTG
* * * *
93881698 CTAATACGACACT-TATGGGGCAACACTTTCTTAAGTGTTGGGATAGAC-TGGCCAACATACGCT
1 CTAAGACGACACTAT-TGTGGCGACACTTTCTTAAGTGTTGGGATAGACAT-GCCAATATACGCT
* * * * * * *
93881761 TTAGCCAACTTTTTGTATAAAGGTTGGGATATGCATGCTTAAAGCAATGCTTAAATAAGAGTTGG
64 TTAGGCAACTCTTTGTATAAGGGTT-GGATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGG
* * *
93881826 CTTTGTCTAGCC
128 TTTTGTGTAGTC
* * * * * *
93881838 CTAAGACGACACTATTATGACGACTCTTTTTTAAGTGTTGCGATAGACATGCCAAGATACGCTTT
1 CTAAGACGACACTATTGTGGCGACACTTTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTT
*
93881903 AGGCAACTCTTTGTATAAGGGTTGAGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGTT
66 AGGCAACTCTTTGTATAAGGGTTG-GATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGG-T
93881968 TTTGTGTAGTC
129 TTTGTGTAGTC
* * * *
93881979 CTAAGACGACACTGTTTTGGCGACACTTTCTTATGTGTTGGGACAGACATGCCAATATACGCTTT
1 CTAAGACGACACTATTGTGGCGACACTTTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTT
*
93882044 AGGCAACTCCTTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGGCT
66 AGGCAACTCTTTGTATAAGGGTT-GGATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGG-T
93882109 TTTGTGTAGTC
129 TTTGTGTAGTC
* *
93882120 CTAAGATGACACTATTGTGGCGACACTTTCTTAAGTGTTGGGATATACATGCCAATATACGCTTT
1 CTAAGACGACACTATTGTGGCGACACTTTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTT
* * * *
93882185 AGGCAACTCTTTGTCTAAGGGTTGGAATATGTATGCCTAAGGAAACGCTTGAATAAGAATTGGCT
66 AGGCAACTCTTTGTATAAGGGTTGG-ATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGG-T
93882250 TTTGTGTAGTC
129 TTTGTGTAGTC
* * *
93882261 CTAAGACAACACTATTGTGGCGACACTTTCTTAAGTGTTGGGATAGACTTGCCAACT-TATG-TT
1 CTAAGACGACACTATTGTGGCGACACTTTCTTAAGTGTTGGGATAGACATGCCAA-TATACGCTT
* * *
93882324 TTGGCCAACTCTTTGTATAAGGGTTGGTATATGTATGCCTAAGTCAACGCTTAAATAATAGTTGG
65 TAGG-CAACTCTTTGTATAAGGGTTGG-ATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGG
* **
93882389 ATTTGTCCAGTC
128 TTTTGTGTAGTC
* * * * * * * *
93882401 CTAAGACGATA-TA-TAT----ATA--TTCCTAAGTGTTGGGATAGACTTTCCGACATACGCTTT
1 CTAAGACGACACTATTGTGGCGACACTTTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTT
* * * **
93882458 -GGTCAACTTTTTGTATAAGGATTGGGATATGTATGCTTAAGGCAAAACTTAAATAAGAG
66 AGG-CAACTCTTTGTATAAGGGTT-GGATATGTATGCCTAAGGCAACGCTTAAATAAGAG
93882517 CCGGCTTTAT
Statistics
Matches: 592, Mismatches: 76, Indels: 30
0.85 0.11 0.04
Matches are distributed among these distances:
132 76 0.13
133 5 0.01
134 2 0.00
138 2 0.00
139 3 0.01
140 130 0.22
141 372 0.63
142 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (139 bp):
CTAAGACGACACTATTGTGGCGACACTTTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTT
AGGCAACTCTTTGTATAAGGGTTGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGGTTT
TGTGTAGTC
Found at i:93882668 original size:7 final size:7
Alignment explanation
Indices: 93882643--93882719 Score: 92
Period size: 7 Copynumber: 11.7 Consensus size: 7
93882633 CATATATAAG
93882643 GGGTTTA
1 GGGTTTA
*
93882650 GGGTGTA
1 GGGTTTA
*
93882657 TGGTTTA
1 GGGTTTA
93882664 GGGTTTA
1 GGGTTTA
93882671 GGGTTTA
1 GGGTTTA
93882678 GGGTTTA
1 GGGTTTA
93882685 GGGTTTA
1 GGGTTTA
*
93882692 GGG--TG
1 GGGTTTA
93882697 GGGTTTA
1 GGGTTTA
93882704 --G-TTA
1 GGGTTTA
93882708 GGGTTTA
1 GGGTTTA
93882715 GGGTT
1 GGGTT
93882720 AAGAGTTAGC
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
4 3 0.05
5 5 0.08
6 1 0.02
7 50 0.85
ACGTcount: A:0.13, C:0.00, G:0.45, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:93883743 original size:35 final size:35
Alignment explanation
Indices: 93883697--93883795 Score: 126
Period size: 35 Copynumber: 2.8 Consensus size: 35
93883687 GAAAACCAAT
* *
93883697 TGCATTTGCCGTCCACAACCTGCTCCAGGCACTAG
1 TGCATTTGCCGTCCACCACCTGCTCCAGCCACTAG
* * * * *
93883732 TGCATCTGCCGTTCACCACCTGATCCACCCACTGG
1 TGCATTTGCCGTCCACCACCTGCTCCAGCCACTAG
*
93883767 TGCATTTGTCGTCCACCACCTGCTCCAGC
1 TGCATTTGCCGTCCACCACCTGCTCCAGC
93883796 TACTGGCATT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.17, C:0.40, G:0.18, T:0.24
Consensus pattern (35 bp):
TGCATTTGCCGTCCACCACCTGCTCCAGCCACTAG
Found at i:93896986 original size:44 final size:44
Alignment explanation
Indices: 93896923--93897008 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 44
93896913 CAGTTGTCTC
* *
93896923 ATAATTTTTTGGTGTCATGGGAATCAAGTCGACAAAATGTTTTT
1 ATAATTTTTTGATATCATGGGAATCAAGTCGACAAAATGTTTTT
* *
93896967 ATAATTTTTTGATATCATGGGAATCAAGTTGACAACATGTTT
1 ATAATTTTTTGATATCATGGGAATCAAGTCGACAAAATGTTT
93897009 GCAACGTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (44 bp):
ATAATTTTTTGATATCATGGGAATCAAGTCGACAAAATGTTTTT
Found at i:93897467 original size:35 final size:36
Alignment explanation
Indices: 93897406--93897492 Score: 113
Period size: 35 Copynumber: 2.4 Consensus size: 36
93897396 AGGTCAATAC
*
93897406 CAACCTTTTCTAAAAGTTACCTTAGATGAGATTATCT
1 CAACCTTTT-TAAAAGTTACCTTAGATGAGATTATCA
* * *
93897443 CAACCTTTTT-AAGGTTACCTTAGATGGGTTTATCA
1 CAACCTTTTTAAAAGTTACCTTAGATGAGATTATCA
*
93897478 CAACCTTTTTTAAAG
1 CAACCTTTTTAAAAG
93897493 GTTTCATTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
35 31 0.70
36 4 0.09
37 9 0.20
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (36 bp):
CAACCTTTTTAAAAGTTACCTTAGATGAGATTATCA
Found at i:93897747 original size:74 final size:73
Alignment explanation
Indices: 93897274--93897905 Score: 548
Period size: 73 Copynumber: 8.7 Consensus size: 73
93897264 CGTTGTAAAA
* * * * * * * *
93897274 AAAAGTTGCTTTAGAC-GGGTTTATCCCAACTTTTTTTAA-GTTACATTAGAAAAGGTCTATCCT
1 AAAAGTTGCCTTAGACAAGGTCTATCCCAAC-CTTTTTAAGGTTGCCTTAG-ATAGGTCTATCCC
93897337 AACCTTTTTT
64 AACCTTTTTT
** * * * * *
93897347 -AGTGTTG-CTGTA-A-ATAGGTCTATCCCAA-CATTTTAACGTTGTCTTAGATAGGTCAATACC
1 AAAAGTTGCCT-TAGACA-AGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGATAGGTCTATCCC
*
93897407 AACCTTTTCT
64 AACCTTTTTT
* ** * * * * * *
93897417 AAAAGTTACCTTAGATGAGAT-TATCTCAACCTTTTTAAGGTTACCTTAGATGGGTTTATCACAA
1 AAAAGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGATAGGTCTATCCCAA
93897481 CCTTTTTT
66 CCTTTTTT
* * * * ** * ** * * * *
93897489 AAAGGTTTCATTACACAATATTTATCCCAACCTTTCCAAGGTTGCTTTAAAT-GGACCTATGCCA
1 AAAAGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGATAGG-TCTATCCCA
93897553 ACCTTTTTT
65 ACCTTTTTT
* * * *
93897562 AAAAGTTGCCTTAGACAAGGTCCATCCCAACCATTTTAATGTTGCCTTAGATGGGTCTATCCCAA
1 AAAAGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGATAGGTCTATCCCAA
*
93897627 CATTTTTT
66 CCTTTTTT
* * *
93897635 AAAGGTTGCCTTAGACATGGTCTATCCCAACCTATTTAAGGTTGCCTTAGATAGGTCTATCCCAA
1 AAAAGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGATAGGTCTATCCCAA
93897700 CCTTTTTTT
66 CC-TTTTTT
* * * *
93897709 ATAAGTTGTCTTAGACAAGGTCTATACCAACCTTTTTAAGGTTGCCTTAGA-CGGCTCTATCCCA
1 AAAAGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGATAGG-TCTATCCCA
93897773 ACCTTTTTTT
65 ACC-TTTTTT
* * * *
93897783 ATAAGTTGTCTTAGACAAGGTCTATACCAACCTTTTTAAGGTTGCCTTAGA-CGGATCTATCCCA
1 AAAAGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGATAGG-TCTATCCCA
**
93897847 ACAGTTTTT
65 ACCTTTTTT
* ** ** *
93897856 AAAAGTTGCCTTAGATAAGAACTATAGCAACCTTTTTAATGTTGCCTTAG
1 AAAAGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAG
93897906 CAAGGGGTCT
Statistics
Matches: 455, Mismatches: 90, Indels: 28
0.79 0.16 0.05
Matches are distributed among these distances:
70 24 0.05
71 22 0.05
72 72 0.16
73 200 0.44
74 137 0.30
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (73 bp):
AAAAGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGATAGGTCTATCCCAA
CCTTTTTT
Found at i:93897768 original size:147 final size:146
Alignment explanation
Indices: 93897363--93897905 Score: 562
Period size: 147 Copynumber: 3.7 Consensus size: 146
93897353 GCTGTAAATA
* * * * * * *
93897363 GGTCTATCCCAACATTTTAACGTTGTCTTAGATAGG-TCAATACCAACCTTTTCTAAAAGTTACC
1 GGTCTATCCCAACCTTTTAAGGTTGCCTTAGATAGGATCTATCCCAACCTTTTTTAAAAGTTGCC
** * * * *
93897427 TTAGATGAGAT-TAT-CTCAACCTTTTTAAGGTTACCTTAGATGGGTTTATCACAACCTTTTTTA
66 TTAGACAAGATCTATAC-CAACCTTTTTAAGGTTGCCTTAGATGGGTCTATCCCAACATTTTTTA
* * *
93897490 AAGGTTTCATTACACAAT
130 AAGGTTGCCTTAGAC-AT
* * * * * * *
93897508 -ATTTATCCCAACCTTTCCAAGGTTGCTTTAAAT-GGACCTATGCCAACCTTTTTTAAAAGTTGC
1 GGTCTATCCCAACCTTT-TAAGGTTGCCTTAGATAGGATCTATCCCAACCTTTTTTAAAAGTTGC
* * * * *
93897571 CTTAGACAAGGTCCATCCCAACCATTTTAATGTTGCCTTAGATGGGTCTATCCCAACATTTTTTA
65 CTTAGACAAGATCTATACCAACCTTTTTAAGGTTGCCTTAGATGGGTCTATCCCAACATTTTTTA
93897636 AAGGTTGCCTTAGACAT
130 AAGGTTGCCTTAGACAT
*
93897653 GGTCTATCCCAACCTATTTAAGGTTGCCTTAGATAGG-TCTATCCCAACCTTTTTTTATAAGTTG
1 GGTCTATCCCAACCT-TTTAAGGTTGCCTTAGATAGGATCTATCCCAACC-TTTTTTAAAAGTTG
* * * * *
93897717 TCTTAGACAAGGTCTATACCAACCTTTTTAAGGTTGCCTTAGACGGCTCTATCCCAACCTTTTTT
64 CCTTAGACAAGATCTATACCAACCTTTTTAAGGTTGCCTTAGATGGGTCTATCCCAA-CATTTTT
* *
93897782 TATAA-GTTGTCTTAGACAA
128 TA-AAGGTTGCCTTAGACAT
* * **
93897801 GGTCTATACCAACCTTTTTAAGGTTGCCTTAGA-CGGATCTATCCCAACAGTTTTTAAAAGTTGC
1 GGTCTATCCCAACC-TTTTAAGGTTGCCTTAGATAGGATCTATCCCAACCTTTTTTAAAAGTTGC
* * * *
93897865 CTTAGATAAGAACTATAGCAACCTTTTTAATGTTGCCTTAG
65 CTTAGACAAGATCTATACCAACCTTTTTAAGGTTGCCTTAG
93897906 CAAGGGGTCT
Statistics
Matches: 331, Mismatches: 55, Indels: 22
0.81 0.13 0.05
Matches are distributed among these distances:
144 15 0.05
145 44 0.13
146 90 0.27
147 118 0.36
148 61 0.18
149 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (146 bp):
GGTCTATCCCAACCTTTTAAGGTTGCCTTAGATAGGATCTATCCCAACCTTTTTTAAAAGTTGCC
TTAGACAAGATCTATACCAACCTTTTTAAGGTTGCCTTAGATGGGTCTATCCCAACATTTTTTAA
AGGTTGCCTTAGACAT
Found at i:93897892 original size:37 final size:35
Alignment explanation
Indices: 93897377--93897905 Score: 247
Period size: 37 Copynumber: 14.5 Consensus size: 35
93897367 TATCCCAACA
* * * * *
93897377 TTTTAACGTTGTCTTAGATAGGTCAATACCAACCT
1 TTTTAAAGTTGCCTTAGAAAGATCTATACCAACCT
* *
93897412 TTTCTAAAAGTTACCTTAGATGAGAT-TAT-CTCAACCT
1 TTT-T-AAAGTTGCCTTAGA-AAGATCTATAC-CAACCT
* * ** * *
93897449 TTTTAAGGTTACCTTAGATGGGTTTAT-CACAACCTT
1 TTTTAAAGTTGCCTTAGAAAGATCTATAC-CAACC-T
* * * * * *
93897485 TTTTAAAGGTTTCATTACACAATATTTATCCCAACCT
1 TTTTAAA-GTTGCCTTAGA-AAGATCTATACCAACCT
** * * * * *
93897522 TTCCAAGGTTGCTTTA-AATGGACCTATGCCAACCTT
1 TTTTAAAGTTGCCTTAGAA-AGATCTATACCAACC-T
* * * *
93897558 TTTTAAAAGTTGCCTTAGACAAGGTCCATCCCAACCA
1 TTTT-AAAGTTGCCTTAGA-AAGATCTATACCAACCT
* ** * * *
93897595 TTTTAATGTTGCCTTAGATGGGTCTATCCCAACATT
1 TTTTAAAGTTGCCTTAGAAAGATCTATACCAAC-CT
* * *
93897631 TTTTAAAGGTTGCCTTAGACATGGTCTATCCCAACCT
1 TTTTAAA-GTTGCCTTAGA-AAGATCTATACCAACCT
* * * * *
93897668 ATTTAAGGTTGCCTTAGATAGGTCTATCCCAACCTTT
1 TTTTAAAGTTGCCTTAGAAAGATCTATACCAACC--T
* *
93897705 TTTTATAAGTTGTCTTAGACAAGGTCTATACCAACCT
1 TTTTA-AAGTTGCCTTAGA-AAGATCTATACCAACCT
* ** * *
93897742 TTTTAAGGTTGCCTTAGACGGCTCTATCCCAACCTTT
1 TTTTAAAGTTGCCTTAGAAAGATCTATACCAACC--T
* *
93897779 TTTTATAAGTTGTCTTAGACAAGGTCTATACCAACCT
1 TTTTA-AAGTTGCCTTAGA-AAGATCTATACCAACCT
* ** * *
93897816 TTTTAAGGTTGCCTTAGACGGATCTATCCCAACAGT
1 TTTTAAAGTTGCCTTAGAAAGATCTATACCAAC-CT
* *
93897852 TTTTAAAAGTTGCCTTAGATAAGAACTATAGCAACCT
1 TTTT-AAAGTTGCCTTAGA-AAGATCTATACCAACCT
*
93897889 TTTTAATGTTGCCTTAG
1 TTTTAAAGTTGCCTTAG
93897906 CAAGGGGTCT
Statistics
Matches: 381, Mismatches: 85, Indels: 55
0.73 0.16 0.11
Matches are distributed among these distances:
34 3 0.01
35 85 0.22
36 89 0.23
37 107 0.28
38 69 0.18
39 28 0.07
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (35 bp):
TTTTAAAGTTGCCTTAGAAAGATCTATACCAACCT
Found at i:93905981 original size:19 final size:20
Alignment explanation
Indices: 93905959--93905998 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
93905949 TTGAAAATTG
93905959 AAATTTTTTAAGT-TTTTTA
1 AAATTTTTTAAGTATTTTTA
*
93905978 AAATTTTTTATGTATTTTTA
1 AAATTTTTTAAGTATTTTTA
93905998 A
1 A
93905999 GAGTAAGGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
AAATTTTTTAAGTATTTTTA
Found at i:93906895 original size:19 final size:19
Alignment explanation
Indices: 93906867--93906913 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
93906857 ATTCAAACGT
*
93906867 CGTCTTGACGCCAGTTTCA
1 CGTCTCGACGCCAGTTTCA
93906886 CGTCTCGACGCCAGTTTCA
1 CGTCTCGACGCCAGTTTCA
93906905 CGTCTCGAC
1 CGTCTCGAC
93906914 AACGTTCGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.15, C:0.36, G:0.21, T:0.28
Consensus pattern (19 bp):
CGTCTCGACGCCAGTTTCA
Found at i:93920641 original size:34 final size:33
Alignment explanation
Indices: 93920594--93920658 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 33
93920584 GTGTTTGCAT
93920594 ACTGTACTGAAATGGGCTAAGGCCCAGACTGCC
1 ACTGTACTGAAATGGGCTAAGGCCCAGACTGCC
*
93920627 ACTGATACTGAAATGGGCTCAGGCCCAGACTG
1 ACTG-TACTGAAATGGGCTAAGGCCCAGACTG
93920659 TTACTGCTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 4 0.13
34 26 0.87
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.18
Consensus pattern (33 bp):
ACTGTACTGAAATGGGCTAAGGCCCAGACTGCC
Found at i:93920673 original size:34 final size:33
Alignment explanation
Indices: 93920593--93920687 Score: 109
Period size: 34 Copynumber: 2.8 Consensus size: 33
93920583 TGTGTTTGCA
93920593 TACTGTACTGAAATGGGCTAAGGCCCAGACTGC
1 TACTGTACTGAAATGGGCTAAGGCCCAGACTGC
* * *
93920626 CACTGATACTGAAATGGGCTCAGGCCCAGACTGT
1 TACTG-TACTGAAATGGGCTAAGGCCCAGACTGC
* *
93920660 TACTGCTATTGAAAAAGGGGCTAAGGCC
1 TACTG-TACTG--AAATGGGCTAAGGCC
93920688 TTTAACTGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
33 4 0.08
34 34 0.67
36 13 0.25
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.21
Consensus pattern (33 bp):
TACTGTACTGAAATGGGCTAAGGCCCAGACTGC
Found at i:93923819 original size:39 final size:39
Alignment explanation
Indices: 93923761--93923865 Score: 122
Period size: 39 Copynumber: 2.7 Consensus size: 39
93923751 TTCAGTGATG
* * *
93923761 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCCGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCCGGAAA
* *
93923800 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCCGGAAA
* * *
93923839 TATCTCCGGGC-TAAAGTCCCGCAGGCT
1 TATATCCGGACTTAAGGT-CCGCAGGCT
93923866 TCGAGCTAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 5 0.09
39 51 0.91
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.24
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCCGGAAA
Found at i:93929009 original size:26 final size:24
Alignment explanation
Indices: 93928980--93929059 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 24
93928970 CCATGATCGA
**
93928980 TAAGCTCCTCCTCAGCTGATGAACAG
1 TAAGCTCCTAATCAGCTGA--AACAG
*
93929006 TAAGCT-CTAATGAGCTGAAACAG
1 TAAGCTCCTAATCAGCTGAAACAG
* *
93929029 TAAGCTCC-AATGAGCTGAAAATAG
1 TAAGCTCCTAATCAGCTG-AAACAG
93929053 TAAGCTC
1 TAAGCTC
93929060 TTACGAGCTG
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
23 20 0.42
24 13 0.27
25 9 0.19
26 6 0.12
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (24 bp):
TAAGCTCCTAATCAGCTGAAACAG
Found at i:93929030 original size:23 final size:24
Alignment explanation
Indices: 93929001--93929069 Score: 95
Period size: 23 Copynumber: 2.9 Consensus size: 24
93928991 TCAGCTGATG
93929001 AACAGTAAGCTCTAATGAGCTG-A
1 AACAGTAAGCTCTAATGAGCTGAA
*
93929024 AACAGTAAGCTCCAATGAGCTGAA
1 AACAGTAAGCTCTAATGAGCTGAA
* * *
93929048 AATAGTAAGCTCTTACGAGCTG
1 AACAGTAAGCTCTAATGAGCTG
93929070 TGGTGAGTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 21 0.52
24 19 0.47
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (24 bp):
AACAGTAAGCTCTAATGAGCTGAA
Found at i:93930858 original size:2 final size:2
Alignment explanation
Indices: 93930851--93930881 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
93930841 CTCCATTATC
93930851 AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
93930882 TTCATAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93932869 original size:6 final size:6
Alignment explanation
Indices: 93932858--93932930 Score: 101
Period size: 6 Copynumber: 12.2 Consensus size: 6
93932848 TGGGGGTAGG
*
93932858 ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT ATCTGT
1 ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT
* * * *
93932906 ATATGT ATATGC ATTTGT ATATGT A
1 ATTTGT ATTTGT ATTTGT ATTTGT A
93932931 ACTGATTTGT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 61 1.00
ACGTcount: A:0.22, C:0.03, G:0.16, T:0.59
Consensus pattern (6 bp):
ATTTGT
Found at i:93946667 original size:7 final size:7
Alignment explanation
Indices: 93946655--93946682 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
93946645 AGTTAAAAAA
93946655 TTTTAAG
1 TTTTAAG
93946662 TTTTAAG
1 TTTTAAG
93946669 TTTTAAG
1 TTTTAAG
93946676 TTTTAAG
1 TTTTAAG
93946683 CGGTGAGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (7 bp):
TTTTAAG
Found at i:93955522 original size:57 final size:57
Alignment explanation
Indices: 93955407--93955523 Score: 155
Period size: 57 Copynumber: 2.1 Consensus size: 57
93955397 AATTTGCACT
** * *
93955407 TGTAATTGACAGCTGTTGTCAAAACATCTCTTAATGTGCATATTTATGCTTTCCAAA
1 TGTAATTGACAGCTACTGTCAAAACATCTCTTAATGCGCATATTTATGCTTTCAAAA
* * *
93955464 TGTAATTTACAGCTACTGTCATAATATCTCTTAATGCGCATATTTATG-TTGTCAAAA
1 TGTAATTGACAGCTACTGTCAAAACATCTCTTAATGCGCATATTTATGCTT-TCAAAA
93955521 TGT
1 TGT
93955524 GAATAATGAC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
56 2 0.04
57 50 0.96
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (57 bp):
TGTAATTGACAGCTACTGTCAAAACATCTCTTAATGCGCATATTTATGCTTTCAAAA
Found at i:93958672 original size:43 final size:43
Alignment explanation
Indices: 93958606--93958698 Score: 168
Period size: 43 Copynumber: 2.1 Consensus size: 43
93958596 TACTTATATC
*
93958606 ATAGTACGGGACTCAGATGATGCTCTTGTCTATTTCCCTTGAAA
1 ATAG-ACGGGACTCAGATGATGCTCTCGTCTATTTCCCTTGAAA
93958650 ATAGACGGGACTCAGATGATGCTCTCGTCTATTTCCCTTGAAA
1 ATAGACGGGACTCAGATGATGCTCTCGTCTATTTCCCTTGAAA
93958693 ATAGAC
1 ATAGAC
93958699 TCATTAAGGA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 44 0.92
44 4 0.08
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
ATAGACGGGACTCAGATGATGCTCTCGTCTATTTCCCTTGAAA
Found at i:93963698 original size:21 final size:21
Alignment explanation
Indices: 93963674--93963719 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
93963664 GGTTTTCTTC
93963674 TTCCAT-TAATTTTTTTAGTTT
1 TTCCATGTAA-TTTTTTAGTTT
* *
93963695 TTCCTTGTAATTTTTTATTTT
1 TTCCATGTAATTTTTTAGTTT
93963716 TTCC
1 TTCC
93963720 TCGTATTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.15, C:0.13, G:0.04, T:0.67
Consensus pattern (21 bp):
TTCCATGTAATTTTTTAGTTT
Found at i:93963727 original size:20 final size:21
Alignment explanation
Indices: 93963684--93963724 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
93963674 TTCCATTAAT
*
93963684 TTTTTTAGTTTTTCCTTGTAA
1 TTTTTTAGTTTTTCCTCGTAA
*
93963705 TTTTTTATTTTTTCCTCGTA
1 TTTTTTAGTTTTTCCTCGTA
93963725 TTTCCTCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.07, T:0.68
Consensus pattern (21 bp):
TTTTTTAGTTTTTCCTCGTAA
Found at i:93964321 original size:20 final size:20
Alignment explanation
Indices: 93964296--93964334 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
93964286 AAGAAAGATA
93964296 TGCAAATTTACAAAAACAAT
1 TGCAAATTTACAAAAACAAT
93964316 TGCAAATTTACAAAAACAA
1 TGCAAATTTACAAAAACAA
93964335 GCACAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.23
Consensus pattern (20 bp):
TGCAAATTTACAAAAACAAT
Found at i:93964341 original size:20 final size:20
Alignment explanation
Indices: 93964298--93964342 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
93964288 GAAAGATATG
***
93964298 CAAATTTACAAAAACAATTG
1 CAAATTTACAAAAACAAGCA
93964318 CAAATTTACAAAAACAAGCA
1 CAAATTTACAAAAACAAGCA
93964338 CAAAT
1 CAAAT
93964343 GAAACTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.58, C:0.18, G:0.04, T:0.20
Consensus pattern (20 bp):
CAAATTTACAAAAACAAGCA
Found at i:93966059 original size:46 final size:44
Alignment explanation
Indices: 93966000--93966114 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
93965990 ACAGGACAGA
* *
93966000 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* * *
93966046 ACAGGATTGAGCCATGTAATTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
93966090 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
93966115 GTCAAAGACA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 34 0.58
46 25 0.42
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:93966095 original size:44 final size:45
Alignment explanation
Indices: 93966007--93966133 Score: 139
Period size: 44 Copynumber: 2.8 Consensus size: 45
93965997 AGAACAGAAA
*
93966007 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAT
* * *
93966053 TGAGCCATGTAATTCCATATT-ATATATGGCATTGGAGACAGGAA
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
* ** * * *
93966097 TAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 TGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
93966134 CAGGATATTG
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 35 0.52
45 1 0.01
46 31 0.46
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
Found at i:93973421 original size:46 final size:44
Alignment explanation
Indices: 93973362--93973476 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
93973352 ACAGGACAGA
* *
93973362 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
93973408 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
93973452 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
93973477 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:93973457 original size:44 final size:45
Alignment explanation
Indices: 93973362--93973495 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
93973352 ACAGGACAGA
* *
93973362 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
93973408 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
93973452 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
93973496 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:93975742 original size:18 final size:19
Alignment explanation
Indices: 93975719--93975756 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
93975709 TTTTTTCATC
*
93975719 ATAATAAAA-TAAAATAAA
1 ATAATAAAAGTAAAACAAA
93975737 ATAATAAAAGTAAAACAAA
1 ATAATAAAAGTAAAACAAA
93975756 A
1 A
93975757 CCATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (19 bp):
ATAATAAAAGTAAAACAAA
Found at i:93975762 original size:19 final size:18
Alignment explanation
Indices: 93975721--93975764 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
93975711 TTTTCATCAT
* *
93975721 AATAAAATAAAATAAAAT
1 AATAAAATAAAACAAAAC
93975739 AATAAAAGTAAAACAAAAC
1 AATAAAA-TAAAACAAAAC
*
93975758 CATAAAA
1 AATAAAA
93975765 AATAATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (18 bp):
AATAAAATAAAACAAAAC
Found at i:93976271 original size:28 final size:28
Alignment explanation
Indices: 93976223--93976303 Score: 126
Period size: 28 Copynumber: 2.9 Consensus size: 28
93976213 GTGACAGAGT
* *
93976223 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGGGC
93976252 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGGGC
*
93976280 CACCAGAACAGATAATTTATGGCA
1 CACCAGAACAGATAATTTGTGGCA
93976304 TAGCCACTAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 42 0.86
29 7 0.14
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGGGC
Found at i:93976463 original size:27 final size:27
Alignment explanation
Indices: 93976423--93976477 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
93976413 CCTAGGGGTA
*
93976423 TATAAAGGTCATTTTGCATACATAGGG
1 TATAAAGGTAATTTTGCATACATAGGG
*
93976450 TATAATGGTAATTTTGCATACATAGGG
1 TATAAAGGTAATTTTGCATACATAGGG
93976477 T
1 T
93976478 TTCTAGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (27 bp):
TATAAAGGTAATTTTGCATACATAGGG
Found at i:93981896 original size:28 final size:28
Alignment explanation
Indices: 93981848--93981928 Score: 135
Period size: 28 Copynumber: 2.9 Consensus size: 28
93981838 GTGATAGAGT
* *
93981848 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGGGC
93981877 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGGGC
93981905 CACCAGAACAGATAATTTGTGGCA
1 CACCAGAACAGATAATTTGTGGCA
93981929 TAGCCACTAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 43 0.86
29 7 0.14
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGGGC
Found at i:93982091 original size:28 final size:28
Alignment explanation
Indices: 93982044--93982108 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
93982034 AAATTAACCC
*
93982044 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
93982072 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
93982100 TAGGGGTAT
1 TAGGGGTAT
93982109 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:93984132 original size:18 final size:16
Alignment explanation
Indices: 93984109--93984144 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
93984099 GTTTAAAATT
93984109 TTTAATTAATTAAATTTA
1 TTTAATTAA--AAATTTA
93984127 TTTAATTAAAAATTTA
1 TTTAATTAAAAATTTA
93984143 TT
1 TT
93984145 CTTATCCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
18 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAATTAAAAATTTA
Found at i:93984599 original size:18 final size:19
Alignment explanation
Indices: 93984571--93984615 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
93984561 ATGAAAATAC
93984571 ATATAAAAAA-ATAAAGATTT
1 ATATAAAAAATAT-AA-ATTT
93984591 A-ATAAAAAATATAAATTT
1 ATATAAAAAATATAAATTT
93984609 ATATAAA
1 ATATAAA
93984616 TTTAGCTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 5 0.22
19 15 0.65
20 3 0.13
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
ATATAAAAAATATAAATTT
Found at i:93984614 original size:19 final size:20
Alignment explanation
Indices: 93984571--93984615 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
93984561 ATGAAAATAC
93984571 ATATAAAAAAATAAAGATTT
1 ATATAAAAAAATAAAGATTT
93984591 A-AT-AAAAAATATAA-ATTT
1 ATATAAAAAAATA-AAGATTT
93984609 ATATAAA
1 ATATAAA
93984616 TTTAGCTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
18 13 0.59
19 6 0.27
20 3 0.14
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
ATATAAAAAAATAAAGATTT
Found at i:93991338 original size:6 final size:6
Alignment explanation
Indices: 93991327--93991352 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
93991317 AAGGCAGGCG
93991327 TTTGCC TTTGCC TTTGCC TTTGCC TT
1 TTTGCC TTTGCC TTTGCC TTTGCC TT
93991353 CTTGGTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.31, G:0.15, T:0.54
Consensus pattern (6 bp):
TTTGCC
Found at i:93995272 original size:45 final size:45
Alignment explanation
Indices: 93995208--93995299 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
93995198 AAGTGTTAAG
*
93995208 TGTAGTGATAAAGTACATTGCACTCCTAATCGGAGAATGTAGATT
1 TGTAGTGATAAAGTACATTGCACTCCTAATCGGAGAATATAGATT
93995253 TGTAGTGATAAAGTACATTGCACTCCTAATCGGAGAATATAGATT
1 TGTAGTGATAAAGTACATTGCACTCCTAATCGGAGAATATAGATT
93995298 TG
1 TG
93995300 AACTTTGAAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.32
Consensus pattern (45 bp):
TGTAGTGATAAAGTACATTGCACTCCTAATCGGAGAATATAGATT
Found at i:93999912 original size:23 final size:22
Alignment explanation
Indices: 93999886--93999945 Score: 57
Period size: 25 Copynumber: 2.5 Consensus size: 22
93999876 TTTTATAAAA
93999886 ATAAATTATTTTTATAAAATTTT
1 ATAAATTATTTTTAT-AAATTTT
* * *
93999909 ATAAAAATTATTTTTCTCATTTTT
1 AT--AAATTATTTTTATAAATTTT
93999933 ATTAAATTATTTT
1 A-TAAATTATTTT
93999946 ACTAATATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 12 0.39
24 6 0.19
25 13 0.42
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (22 bp):
ATAAATTATTTTTATAAATTTT
Found at i:94000150 original size:17 final size:19
Alignment explanation
Indices: 94000085--94000135 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
94000075 ATTTTACAAA
* *
94000085 ATTTTATGATATTTAA-TT
1 ATTTTATAATTTTTAAGTT
*
94000103 ATTTTATAAATTTTAAGTT
1 ATTTTATAATTTTTAAGTT
*
94000122 -TTTCATAATTTTTA
1 ATTTTATAATTTTTA
94000136 TAATTTTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 25 0.93
19 2 0.07
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (19 bp):
ATTTTATAATTTTTAAGTT
Found at i:94001165 original size:23 final size:23
Alignment explanation
Indices: 94001130--94001173 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
94001120 ATATGAACAA
* *
94001130 TATACAAAGGGATAACATATATG
1 TATAAAAACGGATAACATATATG
*
94001153 TATAAAAACGGATAATATATA
1 TATAAAAACGGATAACATATA
94001174 AGTGATTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.27
Consensus pattern (23 bp):
TATAAAAACGGATAACATATATG
Found at i:94001282 original size:13 final size:13
Alignment explanation
Indices: 94001264--94001288 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94001254 ACATATTTAT
94001264 ATGAAAATAATAA
1 ATGAAAATAATAA
94001277 ATGAAAATAATA
1 ATGAAAATAATA
94001289 TATATACAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
ATGAAAATAATAA
Found at i:94001387 original size:27 final size:27
Alignment explanation
Indices: 94001353--94001472 Score: 81
Period size: 27 Copynumber: 4.5 Consensus size: 27
94001343 AAAGAAAGCC
94001353 AAAT-TATATATGAATA-ATTTTAAAGA
1 AAATATATATAT-AATAGATTTTAAAGA
* *
94001379 AAATATATATAAAAATA-A-ATTAGAAGA
1 AAATATATAT-ATAATAGATTTTA-AAGA
* * * *
94001406 AAATATTTACATAACAGATTTGAAAAGA
1 AAATATATATATAATAGATTT-TAAAGA
*
94001434 AAATATACAT-TAA-AGATTTTAAAGA
1 AAATATATATATAATAGATTTTAAAGA
* *
94001459 AACTATATAAATAA
1 AAATATATATATAA
94001473 AATACCATAG
Statistics
Matches: 72, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
25 12 0.17
26 20 0.28
27 26 0.36
28 13 0.18
29 1 0.01
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATATATATATAATAGATTTTAAAGA
Found at i:94001450 original size:26 final size:25
Alignment explanation
Indices: 94001402--94001465 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 25
94001392 AATAAATTAG
94001402 AAGAAAATATTTACATAACAGATTTGAA
1 AAGAAAATA--TACATAACAGATTT-AA
*
94001430 AAGAAAATATACATTAA-AGATTTTA
1 AAGAAAATATACA-TAACAGATTTAA
*
94001455 AAGAAACTATA
1 AAGAAAATATA
94001466 TAAATAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
25 11 0.33
26 10 0.30
27 3 0.09
28 9 0.27
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.28
Consensus pattern (25 bp):
AAGAAAATATACATAACAGATTTAA
Found at i:94001747 original size:2 final size:2
Alignment explanation
Indices: 94001740--94001788 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
94001730 ATACCAAACA
*
94001740 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94001781 AT A- AT AT A
1 AT AT AT AT A
94001789 CACATAAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:94003442 original size:2 final size:2
Alignment explanation
Indices: 94003435--94003471 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
94003425 GAAATGAAGG
*
94003435 TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
94003472 AGAGTTCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:94005638 original size:8 final size:8
Alignment explanation
Indices: 94005625--94005666 Score: 68
Period size: 8 Copynumber: 5.4 Consensus size: 8
94005615 AGGAAGGCTT
94005625 GATTGAAA
1 GATTGAAA
94005633 GATTGAAA
1 GATTGAAA
94005641 GATTGAAA
1 GATTGAAA
94005649 GATT-AAA
1 GATTGAAA
*
94005656 GATTCAAA
1 GATTGAAA
94005664 GAT
1 GAT
94005667 GATTGGATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 7 0.21
8 26 0.79
ACGTcount: A:0.50, C:0.02, G:0.21, T:0.26
Consensus pattern (8 bp):
GATTGAAA
Found at i:94005658 original size:15 final size:16
Alignment explanation
Indices: 94005625--94005666 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
94005615 AGGAAGGCTT
94005625 GATTGAAAGATTGAAA
1 GATTGAAAGATTGAAA
94005641 GATTGAAAGATT-AAA
1 GATTGAAAGATTGAAA
*
94005656 GATTCAAAGAT
1 GATTGAAAGAT
94005667 GATTGGATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.50, C:0.02, G:0.21, T:0.26
Consensus pattern (16 bp):
GATTGAAAGATTGAAA
Found at i:94005865 original size:13 final size:13
Alignment explanation
Indices: 94005826--94005865 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
94005816 TTAAAATTAC
94005826 TTAGTGATAATAT
1 TTAGTGATAATAT
94005839 TTAGT-AT--TAT
1 TTAGTGATAATAT
94005849 TTAGTGATAATAT
1 TTAGTGATAATAT
94005862 TTAG
1 TTAG
94005866 GAAAAATCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
10 8 0.33
11 2 0.08
12 2 0.08
13 12 0.50
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (13 bp):
TTAGTGATAATAT
Found at i:94005865 original size:23 final size:23
Alignment explanation
Indices: 94005792--94005865 Score: 105
Period size: 23 Copynumber: 3.3 Consensus size: 23
94005782 GATTTTTAAA
*
94005792 ATTT-GAATTATTTAATGATAAT
1 ATTTAGAATTATTTAGTGATAAT
* *
94005814 ATTTAAAATTACTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
94005837 ATTTAGTATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
94005860 ATTTAG
1 ATTTAG
94005866 GAAAAATCTA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
22 4 0.09
23 41 0.91
ACGTcount: A:0.39, C:0.01, G:0.11, T:0.49
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:94014849 original size:49 final size:49
Alignment explanation
Indices: 94014763--94014858 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
94014753 TATAAACAAG
* * *
94014763 GGCTAAAATTATTGAATTACTGATTTTAGGATCAAATTGATAAAATGAA
1 GGCTAAAATTATTGAATTACTGATTTCAAGATAAAATTGATAAAATGAA
* *
94014812 GGCTAAAATTATTGAATT-TTTAGTTTCAAGATAAAATTGATAAAATG
1 GGCTAAAATTATTGAATTACTGA-TTTCAAGATAAAATTGATAAAATG
94014859 TGTAAACATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
48 2 0.05
49 39 0.95
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.36
Consensus pattern (49 bp):
GGCTAAAATTATTGAATTACTGATTTCAAGATAAAATTGATAAAATGAA
Found at i:94015898 original size:3 final size:3
Alignment explanation
Indices: 94015892--94015951 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
94015882 CAACAGCAAC
* *
94015892 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG TAG AAG ATG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
94015940 AAG AAG AAG AAG
1 AAG AAG AAG AAG
94015952 CGCCAAAACC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:94017032 original size:3 final size:3
Alignment explanation
Indices: 94017024--94017066 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
94017014 TTAGGGACTT
* * *
94017024 ATG ATG ATG ATG ATA ATA ATG ATG ATG ATG ATG ATA ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
94017067 CATGGGACGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:94017047 original size:18 final size:18
Alignment explanation
Indices: 94017024--94017066 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
94017014 TTAGGGACTT
94017024 ATGATGATGATGATAATA
1 ATGATGATGATGATAATA
*
94017042 ATGATGATGATGATGATA
1 ATGATGATGATGATAATA
94017060 ATGATGA
1 ATGATGA
94017067 CATGGGACGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.33
Consensus pattern (18 bp):
ATGATGATGATGATAATA
Found at i:94018336 original size:19 final size:20
Alignment explanation
Indices: 94018312--94018355 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
94018302 TGTGCACAAC
94018312 GATATTATTATTTA-GCTAA
1 GATATTATTATTTATGCTAA
* *
94018331 GATATTTTTGTTTATGCTAA
1 GATATTATTATTTATGCTAA
*
94018351 AATAT
1 GATAT
94018356 CTATATCTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (20 bp):
GATATTATTATTTATGCTAA
Found at i:94021594 original size:21 final size:21
Alignment explanation
Indices: 94021570--94021610 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
94021560 CCGATCAACC
* *
94021570 CTTATGGGTTTCTGTTTAGCA
1 CTTATGGGCTTCTGTGTAGCA
*
94021591 CTTATGTGCTTCTGTGTAGC
1 CTTATGGGCTTCTGTGTAGC
94021611 CTTCGGCCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.17, G:0.24, T:0.46
Consensus pattern (21 bp):
CTTATGGGCTTCTGTGTAGCA
Found at i:94021853 original size:28 final size:28
Alignment explanation
Indices: 94021821--94021878 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
94021811 AGTAGGTCAG
94021821 TAAGATTTATATTTAAAGCCATCGAACT
1 TAAGATTTATATTTAAAGCCATCGAACT
94021849 TAAGATTTATATTTAAAGCCATCGAACT
1 TAAGATTTATATTTAAAGCCATCGAACT
94021877 TA
1 TA
94021879 CTAAGCTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (28 bp):
TAAGATTTATATTTAAAGCCATCGAACT
Found at i:94022240 original size:41 final size:41
Alignment explanation
Indices: 94022187--94022270 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
94022177 AATTGGAATG
94022187 TTAGGATATATGTGATAACATGACAATATTAGAGCTAGGAA
1 TTAGGATATATGTGATAACATGACAATATTAGAGCTAGGAA
94022228 TTAGGATATATGTGATAACATGACAATATTAGAGCTAGGAA
1 TTAGGATATATGTGATAACATGACAATATTAGAGCTAGGAA
94022269 TT
1 TT
94022271 GGTTGTTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.31
Consensus pattern (41 bp):
TTAGGATATATGTGATAACATGACAATATTAGAGCTAGGAA
Found at i:94023173 original size:32 final size:32
Alignment explanation
Indices: 94023132--94023195 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
94023122 AGGTTGAGTA
* *
94023132 TATTATTTATTTCGGTTAATTACTCAATTTTG
1 TATTATTTATTTCGATTAATTACCCAATTTTG
*
94023164 TATTATTTATTTCGATTAATTACCCGATTTTG
1 TATTATTTATTTCGATTAATTACCCAATTTTG
94023196 AACCAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.25, C:0.11, G:0.09, T:0.55
Consensus pattern (32 bp):
TATTATTTATTTCGATTAATTACCCAATTTTG
Found at i:94029561 original size:18 final size:18
Alignment explanation
Indices: 94029540--94029587 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
94029530 ATAAAATTTT
94029540 TAAAAAAATTTAAATA-TA
1 TAAAAAAATTTAAA-AGTA
** *
94029558 TAAATTAATATAAAAGTA
1 TAAAAAAATTTAAAAGTA
94029576 TAAAAAAATTTA
1 TAAAAAAATTTA
94029588 CATCAAGAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
TAAAAAAATTTAAAAGTA
Found at i:94033426 original size:23 final size:22
Alignment explanation
Indices: 94033378--94033443 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
94033368 GCATTTTTGG
*
94033378 CACTTATGTGCAA-CATTCTGG
1 CACTTATGTGCAATCATTCTGA
* *
94033399 TACTTATGTGCAATTCAATCTGA
1 CACTTATGTGCAA-TCATTCTGA
94033422 CACTT-TAGTGCAAATCATTCTG
1 CACTTAT-GTGC-AATCATTCTG
94033444 GTATTATACG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
21 12 0.33
22 1 0.03
23 21 0.58
24 2 0.06
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (22 bp):
CACTTATGTGCAATCATTCTGA
Found at i:94034556 original size:13 final size:13
Alignment explanation
Indices: 94034538--94034563 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94034528 ATAGTAGAGG
94034538 AAAAAAATTGCAA
1 AAAAAAATTGCAA
94034551 AAAAAAATTGCAA
1 AAAAAAATTGCAA
94034564 TGTTATCTAC
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:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (13 bp):
AAAAAAATTGCAA
Found at i:94035998 original size:21 final size:21
Alignment explanation
Indices: 94035957--94036000 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
94035947 TCGCCCGTAT
* *
94035957 TAATTTTTATATTATTTTATA
1 TAATTTTTAAATTATTATATA
94035978 TAATTTTTAAA-TA-TATATA
1 TAATTTTTAAATTATTATATA
94035997 TAAT
1 TAAT
94036001 ACATCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 2 0.10
21 10 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATTTTTAAATTATTATATA
Found at i:94036671 original size:27 final size:27
Alignment explanation
Indices: 94036621--94036672 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
94036611 TCACTTTTTT
* *
94036621 AAAATAAAAAATAATAATTTTTTTCTG
1 AAAATAAAAAATAATAAATATTTTCTG
94036648 AAAATAAAAAATGAA-AAATATTTTC
1 AAAATAAAAAAT-AATAAATATTTTC
94036673 AAACAACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (27 bp):
AAAATAAAAAATAATAAATATTTTCTG
Found at i:94039255 original size:4 final size:4
Alignment explanation
Indices: 94039248--94039274 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
94039238 TTTATTCATT
94039248 TAAA TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAA
94039275 CTTATTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:94041407 original size:3 final size:3
Alignment explanation
Indices: 94041399--94041438 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
94041389 CAGCTCAACG
94041399 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
94041439 GCCTTCCATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:94047510 original size:22 final size:22
Alignment explanation
Indices: 94047482--94047523 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
94047472 GCGTTGAACC
94047482 TTCTTTTC-TTCTTTCTTTTTCT
1 TTCTTTTCTTTC-TTCTTTTTCT
94047504 TTCTTTTCTTTCTTCTTTTT
1 TTCTTTTCTTTCTTCTTTTT
94047524 ACTAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (22 bp):
TTCTTTTCTTTCTTCTTTTTCT
Found at i:94047523 original size:13 final size:12
Alignment explanation
Indices: 94047485--94047523 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
94047475 TTGAACCTTC
94047485 TTTTCTTCTTTCT
1 TTTTCTTCTTT-T
94047498 TTTTCTTTCTTTT
1 TTTTC-TTCTTTT
*
94047511 CTTTCTTCTTTT
1 TTTTCTTCTTTT
94047523 T
1 T
94047524 ACTAAATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 7 0.30
13 10 0.43
14 6 0.26
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCTTCTTTT
Found at i:94048766 original size:21 final size:21
Alignment explanation
Indices: 94048742--94048784 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
94048732 GTCATTTACT
94048742 ATTCATAT-TAATTCATCTCAA
1 ATTCA-ATCTAATTCATCTCAA
* *
94048763 ATTCAATCTATTTCATGTCAA
1 ATTCAATCTAATTCATCTCAA
94048784 A
1 A
94048785 ACTCTGCTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.37, C:0.19, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTCAATCTAATTCATCTCAA
Found at i:94049546 original size:43 final size:44
Alignment explanation
Indices: 94049448--94049561 Score: 119
Period size: 43 Copynumber: 2.6 Consensus size: 44
94049438 ATAATCAGTG
* * *
94049448 AGATCAGGATTACCAGTCCAGGCTAAATCTCATCTCCAGCATAT
1 AGATCAGAATTACCAGTCCAGGCTAAATCCCATCTCCAACATAT
* *
94049492 A-ATCA-AGATTACCAGTCCAGGCTAAATCCCGAT-TTCAACGTA-
1 AGATCAGA-ATTACCAGTCCAGGCTAAATCCC-ATCTCCAACATAT
* *
94049534 AGATCAGAATTACTAGTTCAGGCTAAAT
1 AGATCAGAATTACCAGTCCAGGCTAAAT
94049562 TCTGTCTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
42 1 0.02
43 54 0.92
44 4 0.07
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (44 bp):
AGATCAGAATTACCAGTCCAGGCTAAATCCCATCTCCAACATAT
Found at i:94051267 original size:11 final size:11
Alignment explanation
Indices: 94051251--94051287 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
94051241 TATACTAAAT
*
94051251 AAATAATAATG
1 AAATAATAATA
94051262 AAATAATAA-A
1 AAATAATAATA
94051272 AAATAATAATA
1 AAATAATAATA
94051283 AAATA
1 AAATA
94051288 TCTCATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (11 bp):
AAATAATAATA
Found at i:94051277 original size:21 final size:22
Alignment explanation
Indices: 94051246--94051287 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
94051236 CCTTTTATAC
*
94051246 TAAATAAATAATAATGAAATAA
1 TAAATAAATAATAATAAAATAA
94051268 TAAA-AAATAATAATAAAATA
1 TAAATAAATAATAATAAAATA
94051288 TCTCATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (22 bp):
TAAATAAATAATAATAAAATAA
Found at i:94057154 original size:48 final size:49
Alignment explanation
Indices: 94057087--94057234 Score: 171
Period size: 48 Copynumber: 3.1 Consensus size: 49
94057077 ATGTCATTAG
* *
94057087 GAGATA-CATTTATTTGGCTTTGGGCCATGATATTGGCACTTTAGGTGC
1 GAGATATCATTGATTTGGCTTTGAGCCATGATATTGGCACTTTAGGTGC
* * *
94057135 GA-ACT-TCATTGATTTGGCTTCGTGCCATGATATTGGCACTTTGGGTGC
1 GAGA-TATCATTGATTTGGCTTTGAGCCATGATATTGGCACTTTAGGTGC
* * *
94057183 GAGATAT-ATTGAGTTGTCTTTAAGCCATGATATTGGCAC-TTAGTGTGC
1 GAGATATCATTGATTTGGCTTTGAGCCATGATATTGGCACTTTAG-GTGC
94057231 GAGA
1 GAGA
94057235 CTCCTGAGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
47 4 0.05
48 79 0.93
49 2 0.02
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (49 bp):
GAGATATCATTGATTTGGCTTTGAGCCATGATATTGGCACTTTAGGTGC
Found at i:94058038 original size:16 final size:16
Alignment explanation
Indices: 94058017--94058050 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
94058007 ATTTGCATGA
94058017 TTTATGTTTGAATTGG
1 TTTATGTTTGAATTGG
94058033 TTTATGTTTGAATTGG
1 TTTATGTTTGAATTGG
94058049 TT
1 TT
94058051 GATTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.59
Consensus pattern (16 bp):
TTTATGTTTGAATTGG
Found at i:94065052 original size:37 final size:37
Alignment explanation
Indices: 94065024--94065177 Score: 204
Period size: 37 Copynumber: 4.2 Consensus size: 37
94065014 AGTATCTGAT
94065024 GTGTTTACAGTTGGATTAGCTCTTATAAGCATTTGGC
1 GTGTTTACAGTTGGATTAGCTCTTATAAGCATTTGGC
** *
94065061 GTGTTTGTAGTTGGATTAGCTCTTATGAGCATTTGGC
1 GTGTTTACAGTTGGATTAGCTCTTATAAGCATTTGGC
* * *
94065098 GTGTTTACGGTTGGATTAGCTTTTATGAA-CATTTGGT
1 GTGTTTACAGTTGGATTAGCTCTTAT-AAGCATTTGGC
* *
94065135 GTG-TTATCAGTTGGATTAGCTCTTATGAGCGTTTGGC
1 GTGTTTA-CAGTTGGATTAGCTCTTATAAGCATTTGGC
94065172 GTGTTT
1 GTGTTT
94065178 CGATTGGATT
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
36 4 0.04
37 92 0.93
38 3 0.03
ACGTcount: A:0.18, C:0.11, G:0.28, T:0.44
Consensus pattern (37 bp):
GTGTTTACAGTTGGATTAGCTCTTATAAGCATTTGGC
Found at i:94065147 original size:74 final size:74
Alignment explanation
Indices: 94065024--94065188 Score: 237
Period size: 74 Copynumber: 2.2 Consensus size: 74
94065014 AGTATCTGAT
* *
94065024 GTGTTTACAGTTGGATTAGCTCTTATAAGCATTTGGCGTGTTTGTAGTTGGATTAGCTCTTATGA
1 GTGTTTACGGTTGGATTAGCTCTTATAAGCATTTGGCGTGTTTGCAGTTGGATTAGCTCTTATGA
94065089 GCATTTGGC
66 GCATTTGGC
* *
94065098 GTGTTTACGGTTGGATTAGCTTTTATGAA-CATTTGGTGTGTTAT-CAGTTGGATTAGCTCTTAT
1 GTGTTTACGGTTGGATTAGCTCTTAT-AAGCATTTGGCGTGTT-TGCAGTTGGATTAGCTCTTAT
*
94065161 GAGCGTTTGGC
64 GAGCATTTGGC
*
94065172 GTGTTT-CGATTGGATTA
1 GTGTTTACGGTTGGATTA
94065189 CTTGTGTACT
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
73 10 0.12
74 70 0.84
75 3 0.04
ACGTcount: A:0.18, C:0.11, G:0.28, T:0.43
Consensus pattern (74 bp):
GTGTTTACGGTTGGATTAGCTCTTATAAGCATTTGGCGTGTTTGCAGTTGGATTAGCTCTTATGA
GCATTTGGC
Found at i:94068769 original size:24 final size:22
Alignment explanation
Indices: 94068741--94068791 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
94068731 TTGATATTTA
94068741 AAGTTGTAATAAATTTTATTATGC
1 AAGTT-TAATAAATTTT-TTATGC
* *
94068765 AAGTTTCA-AAATTTTTTATGG
1 AAGTTTAATAAATTTTTTATGC
94068786 AAGTTT
1 AAGTTT
94068792 TAATTGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 11 0.44
22 7 0.28
23 2 0.08
24 5 0.20
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.47
Consensus pattern (22 bp):
AAGTTTAATAAATTTTTTATGC
Found at i:94068789 original size:21 final size:22
Alignment explanation
Indices: 94068751--94068791 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
94068741 AAGTTGTAAT
94068751 AAATTTTATTATGCAAGTTTCA
1 AAATTTTATTATGCAAGTTTCA
*
94068773 AAATTTT-TTATGGAAGTTT
1 AAATTTTATTATGCAAGTTT
94068792 TAATTGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (22 bp):
AAATTTTATTATGCAAGTTTCA
Found at i:94085953 original size:46 final size:46
Alignment explanation
Indices: 94085900--94086075 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
94085890 TATTTGGGCA
94085900 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
94085946 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
94085993 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
94086039 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94086076 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:94086055 original size:93 final size:93
Alignment explanation
Indices: 94085896--94086067 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
94085886 GGGATATTTG
* *
94085896 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94085961 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
94085989 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94086054 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
94086068 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:94089048 original size:15 final size:15
Alignment explanation
Indices: 94089028--94089096 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
94089018 GTATCTTGGG
94089028 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
94089043 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
94089058 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
94089073 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
94089088 TTTCTTTAT
1 TTTCTTTAT
94089097 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:94089097 original size:30 final size:30
Alignment explanation
Indices: 94089019--94089106 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
94089009 CATAGTATCG
* * * *
94089019 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
94089049 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
94089079 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
94089107 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:94091545 original size:46 final size:46
Alignment explanation
Indices: 94091492--94091620 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
94091482 TATTTGGGCA
*
94091492 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
94091538 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
94091584 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94091621 GCGGGTTACA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:94093428 original size:16 final size:17
Alignment explanation
Indices: 94093397--94093429 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
94093387 TTCATAAGTA
94093397 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
94093414 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
94093430 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:94093775 original size:46 final size:46
Alignment explanation
Indices: 94093710--94094032 Score: 425
Period size: 46 Copynumber: 7.0 Consensus size: 46
94093700 TTATCTTTGA
* * * * * *
94093710 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATAT
*
94093756 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
* * * *
94093802 CA-GCTGCCATGGTATCTTTCAACCATGGTCTAATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
*
94093847 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
**
94093893 CGCGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
** * **
94093939 CGCGTTACCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
* **
94093985 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
94094031 CA
1 CA
94094033 GAGAGCACAC
Statistics
Matches: 253, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
45 46 0.18
46 207 0.82
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
Found at i:94103284 original size:4 final size:4
Alignment explanation
Indices: 94103277--94103303 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
94103267 TGCATGTATT
94103277 CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CAT
94103304 GTATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:94109550 original size:2 final size:2
Alignment explanation
Indices: 94109543--94109569 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
94109533 ACGATTTTAA
94109543 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
94109570 CTTATTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94109994 original size:2 final size:2
Alignment explanation
Indices: 94109989--94110018 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
94109979 AGAAAGGAGT
94109989 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
94110019 ATCAATGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:94114781 original size:20 final size:21
Alignment explanation
Indices: 94114758--94114799 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
94114748 TAAAAAGTTA
94114758 ATAGAAATTATTAAAA-TATT
1 ATAGAAATTATTAAAATTATT
94114778 ATAGAAATTATTAAAATTATT
1 ATAGAAATTATTAAAATTATT
94114799 A
1 A
94114800 ATTTTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
ATAGAAATTATTAAAATTATT
Found at i:94115607 original size:15 final size:15
Alignment explanation
Indices: 94115587--94115638 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
94115577 ACAAAGAAAT
94115587 CCAAAAAACCCTAAA
1 CCAAAAAACCCTAAA
*
94115602 CCAAAATACCCTTAAA
1 CCAAAAAACCC-TAAA
* *
94115618 TCCAAAAAATCATAAA
1 -CCAAAAAACCCTAAA
94115634 CCAAA
1 CCAAA
94115639 TACAAAAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 15 0.48
16 8 0.26
17 8 0.26
ACGTcount: A:0.58, C:0.29, G:0.00, T:0.13
Consensus pattern (15 bp):
CCAAAAAACCCTAAA
Found at i:94116285 original size:16 final size:18
Alignment explanation
Indices: 94116255--94116297 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
94116245 AGAATTTATC
* *
94116255 AATTCTAAAATACT-AAT
1 AATTTTAAAAAACTAAAT
94116272 -ATTTTAAAAAACTAAAT
1 AATTTTAAAAAACTAAAT
94116289 AATTTTAAA
1 AATTTTAAA
94116298 TATTTTCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 11 0.50
17 3 0.14
18 8 0.36
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTTTAAAAAACTAAAT
Found at i:94117343 original size:2 final size:2
Alignment explanation
Indices: 94117336--94117362 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
94117326 ATTTAACTTT
94117336 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 T
94117363 GAACAATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:94120503 original size:13 final size:13
Alignment explanation
Indices: 94120487--94120520 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
94120477 ATTACAGATT
94120487 CAGATA-ACAGAAA
1 CAGATATACAG-AA
94120500 CAGATATACAGAA
1 CAGATATACAGAA
94120513 CAGATATA
1 CAGATATA
94120521 TTGAGTGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (13 bp):
CAGATATACAGAA
Done.