Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 293 of 373
Found at i:99400068 original size:6 final size:6
Alignment explanation
Indices: 99400059--99400101 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
99400049 AAAAAAATAA
* * *
99400059 AAAAAT AAAAAAT AAAAGT ACAAAT AAAAAT AAAAAG AAAAAT
1 AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
99400102 GAATAAAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:99403807 original size:79 final size:82
Alignment explanation
Indices: 99403689--99403873 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
99403679 GCTACTCGTT
* * * *
99403689 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGTCTTTGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATG-CCTTCGGATCTTAACCC
* *
99403752 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
99403769 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
99403832 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
99403849 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
99403874 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 6 0.07
79 50 0.56
80 34 0.38
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:99403873 original size:40 final size:40
Alignment explanation
Indices: 99403670--99403873 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
99403660 CAGAATTTAA
** *
99403670 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
99403710 CCGGTTATAGTAACTCGCACAAATGTCTTTGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
99403750 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
99403789 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
99403829 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
99403869 CCGGA
1 CCGGA
99403874 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 90 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:99407128 original size:26 final size:25
Alignment explanation
Indices: 99407070--99407128 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
99407060 AGTAAATAAA
*
99407070 TAAAAATAATACTAAATAAAAATAC
1 TAAAAATAATACTAAAGAAAAATAC
* * **
99407095 TAATAATAATAGCTTAAGAAAAATTG
1 TAAAAATAATA-CTAAAGAAAAATAC
99407121 TAAAAATA
1 TAAAAATA
99407129 TGGTGGTGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (25 bp):
TAAAAATAATACTAAAGAAAAATAC
Found at i:99419142 original size:14 final size:15
Alignment explanation
Indices: 99419123--99419179 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
99419113 AATCTTTAAG
99419123 GATATG-CAATCTTA
1 GATATGACAATCTTA
99419137 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
99419154 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
99419173 GATATGA
1 GATATGA
99419180 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:99419164 original size:36 final size:38
Alignment explanation
Indices: 99419123--99419201 Score: 126
Period size: 36 Copynumber: 2.1 Consensus size: 38
99419113 AATCTTTAAG
99419123 GATATGCAATCTTAGATATGATA-CAATCTT-AGATAT
1 GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
99419159 GATATGCAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATATGCAATCTTAGATATGATA-GCAATCTT-AAGATAT
99419199 GAT
1 GAT
99419202 CTTGTAATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
40 9 0.23
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
Found at i:99419170 original size:19 final size:19
Alignment explanation
Indices: 99419123--99419201 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
99419113 AATCTTTAAG
99419123 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
99419142 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
99419159 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
99419178 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
99419199 GAT
1 GAT
99419202 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:99424389 original size:21 final size:21
Alignment explanation
Indices: 99424365--99424404 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
99424355 AATTATTAAA
99424365 AATTATTAAAAATAAAAATAG
1 AATTATTAAAAATAAAAATAG
* *
99424386 AATTTTTAGAAATAAAAAT
1 AATTATTAAAAATAAAAAT
99424405 CAATTACTAA
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:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
AATTATTAAAAATAAAAATAG
Found at i:99426281 original size:39 final size:39
Alignment explanation
Indices: 99426233--99426323 Score: 137
Period size: 39 Copynumber: 2.3 Consensus size: 39
99426223 CGTTTGAATG
99426233 AAAAACGCCGCTAAAGAACGAGCATTAGCGGCGCATTTT
1 AAAAACGCCGCTAAAGAACGAGCATTAGCGGCGCATTTT
* * * * *
99426272 GAAAACGCCGCTAAAGATCGAGTATTAGCGGTGCTTTTT
1 AAAAACGCCGCTAAAGAACGAGCATTAGCGGCGCATTTT
99426311 AAAAACGCCGCTA
1 AAAAACGCCGCTA
99426324 TATGTACACC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (39 bp):
AAAAACGCCGCTAAAGAACGAGCATTAGCGGCGCATTTT
Found at i:99426497 original size:132 final size:132
Alignment explanation
Indices: 99426257--99426755 Score: 444
Period size: 132 Copynumber: 3.6 Consensus size: 132
99426247 AGAACGAGCA
* *
99426257 TTAGCGGCGCATTTTGAAAACGCCGCTAAAGATCGAGTATTAGCGGTGCTTTTTAAAAACGCCGC
1 TTAGCGGCGCATTTTAAAAACGCCGCTAAAGATCGAGTATTAGCGGCGCTTTTTAAAAACGCCGC
* * *
99426322 TATATGTACACCCTTTAGCGGTGTTTTTCAAAAAATACCGCAAAAAATAACACAACGTATTGAGC
66 TATATGTACACCCTTTAACGGCGTTTTTCAAAAAACACCGCAAAAAATAACACAACGTATTGAGC
99426387 CT
131 CT
* **
99426389 TTAGCGGCGCTTTTTAAAAACGGTGCTAAAGATCGAGTATTAGCGGCGCTTTTTAGAAAACGCCG
1 TTAGCGGCGCATTTTAAAAACGCCGCTAAAGATCGAGTATTAGCGGCGCTTTTTA-AAAACGCCG
** * * *
99426454 CTA-ATGCTTGA-TCTTTAACGGCGTTTTTCAAAAAACGCTGCAAAAAAAATTAACACAACGCTG
65 CTATATG-TACACCCTTTAACGGCGTTTTTCAAAAAACACCGC--AAAAAA-TAACACAA--C--
99426517 TTGTTTTGTATTGAGCCT
122 -------GTATTGAGCCT
* * * * *
99426535 TTAGTGGCTTTAGCAGCGCTTTTTAAAAATGCCGCTAAAGATTGAGTATTAGCGGAGTTTTTTTA
1 TTA---GC----G--GCGCATTTTAAAAACGCCGCTAAAGATCGAGTATTAGCGGCG-CTTTTTA
* * * **
99426600 AAAACGCCGCAATATGTACACCCTTTAGCGGCGTTTTTCAAAAAATATAGCAAAAAAATAACACA
56 AAAACGCCGCTATATGTACACCCTTTAACGGCGTTTTTCAAAAAACACCGC-AAAAAATAACACA
*
99426665 ACGCCGATTGAGCCT
120 ACG--TATTGAGCCT
* ** * * *
99426680 TTAGCGGCGCTTTTTAAAAACGTTGCTAAAGATCGAGTATTAGTGGTGCTTTTTTAAAAACACCG
1 TTAGCGGCGCATTTTAAAAACGCCGCTAAAGATCGAGTATTAGCGGCGC-TTTTTAAAAACGCCG
99426745 CTATATGTACA
65 CTATATGTACA
99426756 TCTTTAGCGG
Statistics
Matches: 298, Mismatches: 38, Indels: 58
0.76 0.10 0.15
Matches are distributed among these distances:
132 77 0.26
133 14 0.05
134 6 0.02
135 8 0.03
136 60 0.20
137 1 0.00
138 1 0.00
142 2 0.01
143 1 0.00
145 12 0.04
146 14 0.05
149 2 0.01
152 1 0.00
153 1 0.00
154 8 0.03
155 57 0.19
156 33 0.11
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (132 bp):
TTAGCGGCGCATTTTAAAAACGCCGCTAAAGATCGAGTATTAGCGGCGCTTTTTAAAAACGCCGC
TATATGTACACCCTTTAACGGCGTTTTTCAAAAAACACCGCAAAAAATAACACAACGTATTGAGC
CT
Found at i:99426585 original size:155 final size:154
Alignment explanation
Indices: 99426387--99426668 Score: 365
Period size: 155 Copynumber: 1.8 Consensus size: 154
99426377 CGTATTGAGC
* ** *
99426387 CTTTAGCGGCGCTTTTTAAAAACGGTGCTAAAGATCGAGTATTAGCGGCG-CTTTTTAGAAAACG
1 CTTTAGCAGCGCTTTTTAAAAACGCCGCTAAAGATCGAGTATTAGCGGAGTCTTTTTA-AAAACG
* ** * *
99426451 CCGCTA-ATGCTTGA-TCTTTAACGGCGTTTTTCAAAAAACGCT-GCAAAAAAAATTAACACAAC
65 CCGCAATATG-TACACCCTTTAACGGCGTTTTTCAAAAAA-GATAGC-AAAAAAA-TAACACAAC
99426513 GCTGTTGTTTTGTATTGAGCCTTTAGTGG
126 GCTGTTGTTTTGTATTGAGCCTTTAGTGG
* * *
99426542 CTTTAGCAGCGCTTTTTAAAAATGCCGCTAAAGATTGAGTATTAGCGGAGTTTTTTTAAAAACGC
1 CTTTAGCAGCGCTTTTTAAAAACGCCGCTAAAGATCGAGTATTAGCGGAGTCTTTTTAAAAACGC
* *
99426607 CGCAATATGTACACCCTTTAGCGGCGTTTTTCAAAAAATATAGCAAAAAAATAACACAACGC
66 CGCAATATGTACACCCTTTAACGGCGTTTTTCAAAAAAGATAGCAAAAAAATAACACAACGC
99426669 CGATTGAGCC
Statistics
Matches: 109, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
154 11 0.10
155 65 0.60
156 33 0.30
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (154 bp):
CTTTAGCAGCGCTTTTTAAAAACGCCGCTAAAGATCGAGTATTAGCGGAGTCTTTTTAAAAACGC
CGCAATATGTACACCCTTTAACGGCGTTTTTCAAAAAAGATAGCAAAAAAATAACACAACGCTGT
TGTTTTGTATTGAGCCTTTAGTGG
Found at i:99426799 original size:40 final size:39
Alignment explanation
Indices: 99426678--99426825 Score: 99
Period size: 40 Copynumber: 3.7 Consensus size: 39
99426668 CCGATTGAGC
* * * *
99426678 CTTTAGCGGCGC-TTTTTAAAAACGTTGCTAAAGATCGAGT
1 CTTTAGCGGTGCGTTTTTAAAAACGCTGCTAATG-TAGA-T
* * * * * *
99426718 -ATTAGTGGTGCTTTTTTAAAAACACCGCTATATGTACAT
1 CTTTAGCGGTGCGTTTTTAAAAACGCTGCTA-ATGTAGAT
*
99426757 CTTTAGCGGTGC-TTTTTAGAAAACGCTGCTAATGCTTGAT
1 CTTTAGCGGTGCGTTTTTA-AAAACGCTGCTAATG-TAGAT
99426797 CTTTAGC--TGCGTTTTTCAAAAAACGCTGC
1 CTTTAGCGGTGCGTTTTT--AAAAACGCTGC
99426826 AAAAAAAATT
Statistics
Matches: 85, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
38 3 0.04
39 23 0.27
40 56 0.66
41 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (39 bp):
CTTTAGCGGTGCGTTTTTAAAAACGCTGCTAATGTAGAT
Found at i:99427041 original size:194 final size:195
Alignment explanation
Indices: 99426678--99427134 Score: 657
Period size: 194 Copynumber: 2.3 Consensus size: 195
99426668 CCGATTGAGC
* ** * * *
99426678 CTTTAGCGGCGCTTTTTAAAAACGTTGCTAAAGATCGAGTATTAGTGGTGCTTTTTTAAAAACAC
1 CTTTAGCGGCGCTTTTTAAAAATGCCGCTAAAGATCGAGTATTAGCGGAGCTTTTTTAAAAACGC
* * * * *
99426743 CGCTATATGTACATCTTTAGCGGTGCTTTTTAGAAAACGCTGCTAATGCTTGATCTTTAGCTGCG
66 CGCTATATGTACACCTTTAGCGGCGCTTTTTAGAAAACGCCGCTAATACTTGATCTTTAGCGGCG
* * *
99426808 TTTTTCAAAAAACGCTGCAAAAAAAATTAACACAACGCCGTCGTTTTGTATTGAGCCTTTAGTGG
131 TTTTTCAAAAAACACCGCAAAAAAAATTAACAAAACGCCGTCGTTTTGTATTGAGCCTTTAGTGG
* *
99426873 CTTTAGCAGCGCTTTTTAAAAATGCCGCTAAAGATCGAGTATTAGCGGAG-TTTTTTAAAAACGT
1 CTTTAGCGGCGCTTTTTAAAAATGCCGCTAAAGATCGAGTATTAGCGGAGCTTTTTTAAAAACGC
*
99426937 GGCTATATGTACACCTTTAGCGGCGCTTTTTAGAAAACGCCGCTAATACTTGATCTTTAGCGGCG
66 CGCTATATGTACACCTTTAGCGGCGCTTTTTAGAAAACGCCGCTAATACTTGATCTTTAGCGGCG
* * * ** * *
99427002 CTTTTT-AGAAAACACCGCAAAAGAATTTTGCAAAACGCCGTCTTTTTGTATTGAGCTTTTAGTG
131 -TTTTTCAAAAAACACCGCAAAAAAAATTAACAAAACGCCGTCGTTTTGTATTGAGCCTTTAGTG
99427066 G
195 G
*
99427067 CTTTAGCGGCGCTTTTTAAAAATGCCGCTAAAGATCGAGTATTAGCGGCGCTTTTTTAATAAACG
1 CTTTAGCGGCGCTTTTTAAAAATGCCGCTAAAGATCGAGTATTAGCGGAGCTTTTTTAA-AAACG
99427132 CCG
65 CCG
99427135 TTATGAAATG
Statistics
Matches: 231, Mismatches: 28, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
194 168 0.73
195 57 0.25
196 6 0.03
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (195 bp):
CTTTAGCGGCGCTTTTTAAAAATGCCGCTAAAGATCGAGTATTAGCGGAGCTTTTTTAAAAACGC
CGCTATATGTACACCTTTAGCGGCGCTTTTTAGAAAACGCCGCTAATACTTGATCTTTAGCGGCG
TTTTTCAAAAAACACCGCAAAAAAAATTAACAAAACGCCGTCGTTTTGTATTGAGCCTTTAGTGG
Found at i:99427319 original size:21 final size:21
Alignment explanation
Indices: 99427273--99427465 Score: 62
Period size: 21 Copynumber: 9.2 Consensus size: 21
99427263 TTAATTATTA
* *
99427273 TTATAGTTTAGGGTTTATGGT
1 TTATGGTTAAGGGTTTATGGT
*
99427294 ATATGGTTAAGGGTTTAAT-GT
1 TTATGGTTAAGGGTTT-ATGGT
**** *
99427315 TTATGAGTTACTATTTTAAGGT
1 TTATG-GTTAAGGGTTTATGGT
* * *
99427337 TTATGGATTATGGGTTTAGGGA
1 TTATGG-TTAAGGGTTTATGGT
99427359 TTATGGTTTAAGGG----TGGT
1 TTATGG-TTAAGGGTTTATGGT
* *
99427377 TTAAGGGTT-AGGGTTTAAGGT
1 TT-ATGGTTAAGGGTTTATGGT
* *
99427398 TTATGTGTT-AGGGGTCATGGT
1 TTATG-GTTAAGGGTTTATGGT
* * *
99427419 TTAGGGGTT-ATGTTTTA-GGAT
1 TTA-TGGTTAAGGGTTTATGG-T
* * *
99427440 TTATGGTTCAGGGTTTAAGGA
1 TTATGGTTAAGGGTTTATGGT
99427461 TTATG
1 TTATG
99427466 AGTTTAAATT
Statistics
Matches: 124, Mismatches: 34, Indels: 28
0.67 0.18 0.15
Matches are distributed among these distances:
17 4 0.03
18 6 0.05
19 3 0.02
20 8 0.06
21 63 0.51
22 40 0.32
ACGTcount: A:0.22, C:0.02, G:0.32, T:0.45
Consensus pattern (21 bp):
TTATGGTTAAGGGTTTATGGT
Found at i:99427354 original size:22 final size:22
Alignment explanation
Indices: 99427329--99427373 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
99427319 GAGTTACTAT
* *
99427329 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAAGGG
* *
99427351 TTTAGGGATTATGGTTTAAGGG
1 TTTAAGGATTATGGATTAAGGG
99427373 T
1 T
99427374 GGTTTAAGGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (22 bp):
TTTAAGGATTATGGATTAAGGG
Found at i:99427391 original size:25 final size:25
Alignment explanation
Indices: 99427349--99427396 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
99427339 ATGGATTATG
*
99427349 GGTTTAGGGATTATGGTTTAAGGGT
1 GGTTTAGGGATTAGGGTTTAAGGGT
99427374 GGTTTAAGGG-TTAGGGTTTAAGG
1 GGTTT-AGGGATTAGGGTTTAAGG
99427397 TTTATGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.38
Consensus pattern (25 bp):
GGTTTAGGGATTAGGGTTTAAGGGT
Found at i:99427443 original size:42 final size:42
Alignment explanation
Indices: 99427373--99427452 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
99427363 GGTTTAAGGG
99427373 TGGTTTAAGGGTTAGGGTTTAAGGTTTATGTGTT-AGGGGTCA
1 TGGTTTAAGGGTTAGGGTTTAAGGTTTATG-GTTCAGGGGTCA
* * *
99427415 TGGTTTAGGGGTTA-TGTTTTAGGATTTATGGTTCAGGG
1 TGGTTTAAGGGTTAGGGTTTAAGG-TTTATGGTTCAGGG
99427453 TTTAAGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 10 0.30
42 23 0.70
ACGTcount: A:0.17, C:0.03, G:0.38, T:0.42
Consensus pattern (42 bp):
TGGTTTAAGGGTTAGGGTTTAAGGTTTATGGTTCAGGGGTCA
Found at i:99427456 original size:14 final size:14
Alignment explanation
Indices: 99427329--99427456 Score: 70
Period size: 14 Copynumber: 9.3 Consensus size: 14
99427319 GAGTTACTAT
* *
99427329 TTTAAGGTTTATGG
1 TTTATGGTTTAGGG
*
99427343 ATTATGGGTTTAGGG
1 TTTAT-GGTTTAGGG
*
99427358 ATTATGGTTTAAGGG
1 TTTATGGTTT-AGGG
99427373 ----TGGTTTAAGGG
1 TTTATGGTTT-AGGG
* *
99427384 -TTAGGGTTTAAGG
1 TTTATGGTTTAGGG
99427397 TTTAT-GTGTTAGGG
1 TTTATGGT-TTAGGG
* *
99427411 GTCATGGTTTAGGG
1 TTTATGGTTTAGGG
* * *
99427425 GTTATGTTTTAGGA
1 TTTATGGTTTAGGG
*
99427439 TTTATGGTTCAGGG
1 TTTATGGTTTAGGG
99427453 TTTA
1 TTTA
99427457 AGGATTATGA
Statistics
Matches: 90, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
11 11 0.12
13 5 0.06
14 55 0.61
15 19 0.21
ACGTcount: A:0.20, C:0.02, G:0.35, T:0.44
Consensus pattern (14 bp):
TTTATGGTTTAGGG
Found at i:99427489 original size:18 final size:19
Alignment explanation
Indices: 99427459--99427496 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
99427449 AGGGTTTAAG
99427459 GATTATGAGTTTAAATTAT
1 GATTATGAGTTTAAATTAT
99427478 GATTAT-AGTTTAAATTAT
1 GATTATGAGTTTAAATTAT
99427496 G
1 G
99427497 TAAGAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (19 bp):
GATTATGAGTTTAAATTAT
Found at i:99427710 original size:21 final size:21
Alignment explanation
Indices: 99427684--99427725 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
99427674 TTAAATTTTT
*
99427684 GAGTTTAGGGTTCATGGTTTA
1 GAGTTTAGGGTTCATGATTTA
* *
99427705 GAGTTTGGGGTTTATGATTTA
1 GAGTTTAGGGTTCATGATTTA
99427726 TTGTTTTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.45
Consensus pattern (21 bp):
GAGTTTAGGGTTCATGATTTA
Found at i:99427937 original size:21 final size:21
Alignment explanation
Indices: 99427912--99427958 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
99427902 TTAGGGTGTA
*
99427912 GGTTTATGGTCTAAGATTTAG
1 GGTTTATGGTCTAAAATTTAG
*
99427933 GGTTTATGGTCTAAAATTTGG
1 GGTTTATGGTCTAAAATTTAG
99427954 GGTTT
1 GGTTT
99427959 GAGGTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.04, G:0.30, T:0.45
Consensus pattern (21 bp):
GGTTTATGGTCTAAAATTTAG
Found at i:99428420 original size:7 final size:7
Alignment explanation
Indices: 99428405--99428462 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
99428395 AATCTTCAAA
*
99428405 AAAAATT
1 AAAATTT
99428412 AAAATTT
1 AAAATTT
99428419 AAAATTT
1 AAAATTT
*
99428426 AAAAATTA
1 -AAAATTT
*
99428434 AAAACTTA
1 AAAA-TTT
99428442 AAAATTT
1 AAAATTT
*
99428449 AATATTT
1 AAAATTT
*
99428456 AATATTT
1 AAAATTT
99428463 TAGTCCATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
7 32 0.71
8 13 0.29
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (7 bp):
AAAATTT
Found at i:99428430 original size:8 final size:8
Alignment explanation
Indices: 99428412--99428450 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
99428402 AAAAAAAATT
99428412 AAAATTT-
1 AAAATTTA
99428419 AAAATTTA
1 AAAATTTA
99428427 AAAA-TTA
1 AAAATTTA
*
99428434 AAAACTTA
1 AAAATTTA
99428442 AAAATTTA
1 AAAATTTA
99428450 A
1 A
99428451 TATTTAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
7 14 0.48
8 15 0.52
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAATTTA
Found at i:99428430 original size:15 final size:15
Alignment explanation
Indices: 99428412--99428457 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
99428402 AAAAAAAATT
99428412 AAAATTTAAAATTTA
1 AAAATTTAAAATTTA
* *
99428427 AAAATTAAAAACTTA
1 AAAATTTAAAATTTA
*
99428442 AAAATTTAATATTTA
1 AAAATTTAAAATTTA
99428457 A
1 A
99428458 TATTTTAGTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAATTTAAAATTTA
Found at i:99432531 original size:16 final size:15
Alignment explanation
Indices: 99432496--99432532 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
99432486 TGTTAATTTG
*
99432496 ATTTTTGGATGTTCC
1 ATTTTTGGATGTACC
99432511 ATTTTTGGATGTACC
1 ATTTTTGGATGTACC
99432526 ATTTTTG
1 ATTTTTG
99432533 TTCATCTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.16, C:0.11, G:0.19, T:0.54
Consensus pattern (15 bp):
ATTTTTGGATGTACC
Found at i:99433880 original size:42 final size:43
Alignment explanation
Indices: 99433786--99433905 Score: 163
Period size: 42 Copynumber: 2.8 Consensus size: 43
99433776 TTTAAATTTT
*
99433786 ATGACTTTTAGCGACGATTT-TGGGAAAAGCGCCGCTAAAGGTC
1 ATGACCTTTAGCGACG-TTTGTGGGAAAAGCGCCGCTAAAGGTC
*
99433829 ATGACCTTTAGCGACGTTTGTGGGAAAAGCGCTG-TAAAGGTC
1 ATGACCTTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTC
* * * *
99433871 ATGATCTTTAGTGGCGTTTGTGTGAAAAGCGCCGC
1 ATGACCTTTAGCGACGTTTGTGGGAAAAGCGCCGC
99433906 AAATAGTTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 40 0.59
43 28 0.41
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (43 bp):
ATGACCTTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTC
Found at i:99437713 original size:27 final size:27
Alignment explanation
Indices: 99437696--99437846 Score: 194
Period size: 27 Copynumber: 5.6 Consensus size: 27
99437686 ATATTAAGTC
99437696 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
99437723 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
99437750 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
99437777 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
99437805 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
99437832 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
99437847 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
27 92 0.77
28 27 0.23
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:99437821 original size:55 final size:54
Alignment explanation
Indices: 99437696--99437846 Score: 230
Period size: 55 Copynumber: 2.8 Consensus size: 54
99437686 ATATTAAGTC
* * * * *
99437696 CGCACACTCAGTGCTATATAATCAACTCGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
*
99437750 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATC-AACT
*
99437805 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
99437847 GCACAATTTA
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
54 44 0.49
55 45 0.51
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:99437835 original size:82 final size:81
Alignment explanation
Indices: 99437696--99437846 Score: 230
Period size: 82 Copynumber: 1.9 Consensus size: 81
99437686 ATATTAAGTC
* *
99437696 CGCACACTCAGTGCTATATAATCAACTCGCACACTCAGTGCTATATAATCAACTCGCACACTTAG
1 CGCACACTCAGTGCTACATAATCAACTCGCACACTCAGTGCTACATAATCAACTCGCACACTTAG
99437761 TGCTACATAGTCAACT
66 TGCTACATAGTCAACT
* * * * *
99437777 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATTCGCACACTTA
1 CGCACACTCAGTGCTACATAATC-AACTCGCACACTCAGTGCTACATAATCAACTCGCACACTTA
99437842 GTGCT
65 GTGCT
99437847 GCACAATTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 20 0.32
82 42 0.68
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (81 bp):
CGCACACTCAGTGCTACATAATCAACTCGCACACTCAGTGCTACATAATCAACTCGCACACTTAG
TGCTACATAGTCAACT
Found at i:99457301 original size:22 final size:22
Alignment explanation
Indices: 99457271--99457315 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
99457261 TGTGCTTCTC
99457271 TTTACTCTCTAT-TTATCTTATT
1 TTTACTCTCTATATTAT-TTATT
* *
99457293 TTTATTCTCTTTATTATTTATT
1 TTTACTCTCTATATTATTTATT
99457315 T
1 T
99457316 CCTAATAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTACTCTCTATATTATTTATT
Found at i:99459832 original size:19 final size:19
Alignment explanation
Indices: 99459808--99459845 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
99459798 GATTTCTAGA
*
99459808 AAATGATTTATTTTTCTGG
1 AAATGATTTACTTTTCTGG
99459827 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
99459846 TGTTTGGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (19 bp):
AAATGATTTACTTTTCTGG
Found at i:99463510 original size:40 final size:39
Alignment explanation
Indices: 99463412--99463634 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
99463402 TCCTCGTTCA
* * * *
99463412 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
99463451 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
99463490 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * *
99463530 AAAGGTCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
99463570 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
99463611 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
99463635 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 40 0.26
40 103 0.66
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:99463643 original size:41 final size:41
Alignment explanation
Indices: 99463566--99463643 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
99463556 TTTGTATCTC
* * *
99463566 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
99463607 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
99463644 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:99471455 original size:40 final size:39
Alignment explanation
Indices: 99471357--99471579 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
99471347 TCCTCGTTCA
* * * *
99471357 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
99471396 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
99471435 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * *
99471475 AAAGGTCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
99471515 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
99471556 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
99471580 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 40 0.26
40 103 0.66
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:99471588 original size:41 final size:41
Alignment explanation
Indices: 99471511--99471588 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
99471501 TTTGTATCTC
* * *
99471511 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
99471552 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
99471589 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:99476230 original size:14 final size:14
Alignment explanation
Indices: 99476192--99476234 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
99476182 TAAAATGTAC
99476192 AATATAATTAAA-T
1 AATATAATTAAATT
99476205 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
99476220 AA-ATAATTTAATT
1 AATATAATTAAATT
99476233 AA
1 AA
99476235 CTATTTACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:99481463 original size:28 final size:27
Alignment explanation
Indices: 99481400--99481579 Score: 279
Period size: 28 Copynumber: 6.6 Consensus size: 27
99481390 ATATTAAGTC
* *
99481400 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
99481427 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
99481455 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
99481483 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
99481510 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
99481538 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
99481565 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
99481580 GCACAATTTA
Statistics
Matches: 147, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
27 66 0.45
28 81 0.55
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:99481510 original size:55 final size:55
Alignment explanation
Indices: 99481400--99481579 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
99481390 ATATTAAGTC
* * *
99481400 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTC-AACT
99481455 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACT
* *
99481510 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACT
99481565 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
99481580 GCACAATTTA
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 93 0.78
56 26 0.22
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACT
Found at i:99481539 original size:83 final size:82
Alignment explanation
Indices: 99481400--99481579 Score: 297
Period size: 83 Copynumber: 2.2 Consensus size: 82
99481390 ATATTAAGTC
* *
99481400 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
99481465 GTGCTACATAATCAAACT
66 GTGCTACATAATC-AACT
* *
99481483 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
* *
99481548 GTGCTACATAGTCAATT
66 GTGCTACATAATCAACT
99481565 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
99481580 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 18 0.20
83 73 0.80
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAATCAACT
Found at i:99486246 original size:4 final size:4
Alignment explanation
Indices: 99486237--99486273 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
99486227 AACCGAGCCT
99486237 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
99486274 GTTTGTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:99487728 original size:7 final size:7
Alignment explanation
Indices: 99487718--99487832 Score: 81
Period size: 7 Copynumber: 17.1 Consensus size: 7
99487708 TTTTTATTTT
99487718 TATATTA
1 TATATTA
99487725 TATATTA
1 TATATTA
99487732 TATAATTA
1 TAT-ATTA
99487740 T-T-TTA
1 TATATTA
99487745 TATATTA
1 TATATTA
99487752 CTCATATTA
1 -T-ATATTA
*
99487761 TTTA-TA
1 TATATTA
99487767 TATATTA
1 TATATTA
99487774 TATATTA
1 TATATTA
99487781 T-T-TTCA
1 TATATT-A
*
99487787 CATA-TA
1 TATATTA
99487793 TACT-TT-
1 TA-TATTA
99487799 TATATTA
1 TATATTA
99487806 TATATTA
1 TATATTA
99487813 TAT-TTA
1 TATATTA
99487819 T-T-TTA
1 TATATTA
99487824 TATTATTA
1 TA-TATTA
99487832 T
1 T
99487833 GTCATTTTAC
Statistics
Matches: 88, Mismatches: 4, Indels: 31
0.72 0.03 0.25
Matches are distributed among these distances:
5 12 0.14
6 18 0.20
7 41 0.47
8 11 0.12
9 6 0.07
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (7 bp):
TATATTA
Found at i:99487730 original size:21 final size:21
Alignment explanation
Indices: 99487681--99487730 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
99487671 ATTATACAAA
* *
99487681 TATAAATTTTTATTGTTATTT
1 TATATATTTTTATTGTTATAT
* * *
99487702 TCTTTATTTTTATTTTTATAT
1 TATATATTTTTATTGTTATAT
99487723 TATATATT
1 TATATATT
99487731 ATATAATTAT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (21 bp):
TATATATTTTTATTGTTATAT
Found at i:99487745 original size:20 final size:19
Alignment explanation
Indices: 99487717--99487832 Score: 119
Period size: 20 Copynumber: 5.8 Consensus size: 19
99487707 ATTTTTATTT
*
99487717 TTATATTATATATTATATAA
1 TTATTTTATATATTATAT-A
99487737 TTATTTTATATATTACTCATA
1 TTATTTTATATATTA-T-ATA
99487758 TTATTTATATATATTATATA
1 TTATTT-TATATATTATATA
* *
99487778 TTATTTTCACATA-TATACTT
1 TTATTTT-ATATATTATA-TA
*
99487798 TTATATTATATATTATAT-
1 TTATTTTATATATTATATA
99487816 TTATTTTATATTATTAT
1 TTATTTTATA-TATTAT
99487833 GTCATTTTAC
Statistics
Matches: 83, Mismatches: 6, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
18 9 0.11
19 16 0.19
20 38 0.46
21 9 0.11
22 11 0.13
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.59
Consensus pattern (19 bp):
TTATTTTATATATTATATA
Found at i:99487761 original size:29 final size:26
Alignment explanation
Indices: 99487711--99487832 Score: 85
Period size: 26 Copynumber: 4.6 Consensus size: 26
99487701 TTCTTTATTT
99487711 TTATTTT-TATATTATATATTATATAA
1 TTATTTTATATATTATATATTAT-TAA
*
99487737 TTATTTTATATATTACTCATATTATTTA
1 TTATTTTATATATTA-T-ATATTATTAA
* *
99487765 TATATATTATATATTAT-T-TTCA-CATA
1 T-TATTTTATATATTATATATT-ATTA-A
* *
99487791 TATACTTT-TATATTATATATTA-TAT
1 T-TATTTTATATATTATATATTATTAA
99487816 TTATTTTATATTATTAT
1 TTATTTTATA-TATTAT
99487833 GTCATTTTAC
Statistics
Matches: 77, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
24 5 0.06
25 13 0.17
26 25 0.32
27 9 0.12
28 5 0.06
29 20 0.26
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (26 bp):
TTATTTTATATATTATATATTATTAA
Found at i:99488182 original size:17 final size:17
Alignment explanation
Indices: 99488125--99488182 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
99488115 TCGAAACCAT
*
99488125 TATATTTTATATTTTTA
1 TATATTATATATTTTTA
*
99488142 TATAATTAT-TATTCTTA
1 TAT-ATTATATATTTTTA
99488159 TA-A--ATATATTTTTA
1 TATATTATATATTTTTA
99488173 TATATTATAT
1 TATATTATAT
99488183 CATTGAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
13 2 0.06
14 9 0.27
15 2 0.06
17 16 0.48
18 4 0.12
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATTATATATTTTTA
Found at i:99493092 original size:94 final size:94
Alignment explanation
Indices: 99492931--99493300 Score: 285
Period size: 94 Copynumber: 3.9 Consensus size: 94
99492921 TTATTTGTGT
* *
99492931 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCTAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCTAGTGTAAGACCATGTC
99492996 TGGGACATGACATCGGCATTGAGACAAGA
66 TGGGACATGACATCGGCATTGAGACAAGA
* * *
99493025 GCTAGTGTATGACATGTCTGGGACATGCATTAGCCTCGA-GATGTA-AGCTAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATG-AGAGCTAGTGTAAGACCATG
* * *
99493088 TCTGGGACATGGCATCGGC-TATGAG--ATGT
64 TCTGGGACATGACATCGGCAT-TGAGACAAGA
* * * * * *
99493117 GTTAGTGTAAGGCCATATCTGGGACATGGCATCAACACAGAT-ATGTGAGAGCCAGTGTAAGACC
1 GCTAGTGTAA-GACATGTCTGGGACAT-GCATCAGC-CACATGA--TGAGAGCTAGTGTAAGACC
* * * * * * * * *
99493181 ATGTCTGGAACATGGCGTCGACCTCGATTACGATA
61 ATGTCTGGGACATGACATCGGCATTGA-GACAAGA
* * *
99493216 G-TCAGTGTAAGACCAT-TCTGGGACATGCCATC-G--ACTTAATGGATGAGCCAGTGTAAGACC
1 GCT-AGTGTAAGA-CATGTCTGGGACATG-CATCAGCCACATGAT-GA-GAGCTAGTGTAAGACC
* *
99493276 ATGTTTGGGACATGGCATCGGCATT
61 ATGTCTGGGACATGACATCGGCATT
99493301 CTACCCTATG
Statistics
Matches: 220, Mismatches: 36, Indels: 39
0.75 0.12 0.13
Matches are distributed among these distances:
92 10 0.05
93 16 0.07
94 88 0.40
95 40 0.18
96 37 0.17
97 2 0.01
98 16 0.07
99 11 0.05
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCTAGTGTAAGACCATGTC
TGGGACATGACATCGGCATTGAGACAAGA
Found at i:99493123 original size:46 final size:46
Alignment explanation
Indices: 99492931--99493297 Score: 245
Period size: 46 Copynumber: 7.8 Consensus size: 46
99492921 TTATTTGTGT
* *
99492931 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGA-GA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-C-TATGA-GATGA
* *
99492977 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGC-ATTGAGACAAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-TGAG--ATGA
* * * *
99493025 GCTAGTGTATGA-CATGTCTGGGACAT-GCATTAGCCT-CGAGATGTAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCA-TCGGCTATGAGATG--A
*
99493071 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGATGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGATGA
* * * * * *
99493117 GTTAGTGTAAGGCCATATCTGGGACATGGCATCAACACAGATATGTGA-GA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT-----CGGCTATGAGATGA
* * * * *
99493167 GCCAGTGTAAGACCATGTCTGGAACATGGCGTCGACCTCGATTACGAT-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG-GCT--ATGA-GATGA
* *
99493216 G-TCAGTGTAAGACCAT-TCTGGGACATGCCATCGACTTAATG-GATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGC-T-ATGAGATGA
* *
99493262 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
99493298 ATTCTACCCT
Statistics
Matches: 251, Mismatches: 42, Indels: 55
0.72 0.12 0.16
Matches are distributed among these distances:
44 2 0.01
45 6 0.02
46 76 0.30
47 70 0.28
48 45 0.18
49 17 0.07
50 27 0.11
51 8 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGATGA
Found at i:99495050 original size:19 final size:19
Alignment explanation
Indices: 99495011--99495054 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
99495001 TGGGCTGAAG
*
99495011 ACACGGGCGTGTCCAAGCC
1 ACACGGGCGTGTCAAAGCC
* *
99495030 ACACGGGCGTGTGAAATCC
1 ACACGGGCGTGTCAAAGCC
99495049 ACACGG
1 ACACGG
99495055 TCAACCCACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.25, C:0.32, G:0.32, T:0.11
Consensus pattern (19 bp):
ACACGGGCGTGTCAAAGCC
Found at i:99499408 original size:49 final size:49
Alignment explanation
Indices: 99499319--99499412 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 49
99499309 TGCTATGCAA
* * * *
99499319 TGCTAAACTTGGTTTTCCACTGTTTACATTATTATCACTATTTATACAT
1 TGCTAAACTTGATTTTCCACTGTCTACACTATTATAACTATTTATACAT
* *
99499368 TGCTAAACTT-ATTCTTTCACTGTCTACACTCTTATAACTATTTAT
1 TGCTAAACTTGATT-TTCCACTGTCTACACTATTATAACTATTTAT
99499413 CCTTTATTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 2 0.05
49 36 0.95
ACGTcount: A:0.27, C:0.20, G:0.06, T:0.47
Consensus pattern (49 bp):
TGCTAAACTTGATTTTCCACTGTCTACACTATTATAACTATTTATACAT
Found at i:99502663 original size:23 final size:22
Alignment explanation
Indices: 99502633--99502676 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
99502623 AAAATAGTGG
*
99502633 AAATTGAG-TTAGAAGTTTAATA
1 AAATTGAGATTA-AAGCTTAATA
99502655 AAATATGAGATTAAAGCTTAAT
1 AAAT-TGAGATTAAAGCTTAAT
99502677 GAGTCTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 12 0.63
24 3 0.16
ACGTcount: A:0.48, C:0.02, G:0.16, T:0.34
Consensus pattern (22 bp):
AAATTGAGATTAAAGCTTAATA
Found at i:99514268 original size:42 final size:42
Alignment explanation
Indices: 99514125--99514282 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 42
99514115 CAATGCCAAC
* * * *
99514125 GTCCTAGACATGGTCTTACATG-TAATCAAATATCGATGTCACT
1 GTCCCAGACATGGTCTTACACGAAAATCAAATA-CGATG-CAAT
* * *
99514168 GTCCCAGACAGGGTCTTACACGAAAATCATAATCCGATGCCAAC
1 GTCCCAGACATGGTCTTACACGAAAATCA-AATACGATG-CAAT
* *
99514212 GTCCCAAACGTGGTCTTACACG-AAATCAAATACGATGCAAAT
1 GTCCCAGACATGGTCTTACACGAAAATCAAATACGATGC-AAT
*
99514254 GTCCCAGACATGGTCTTACACGTAAATCA
1 GTCCCAGACATGGTCTTACACGAAAATCA
99514283 CAAATCAATC
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
41 1 0.01
42 30 0.31
43 31 0.32
44 31 0.32
45 3 0.03
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAAATCAAATACGATGCAAT
Found at i:99514281 original size:86 final size:87
Alignment explanation
Indices: 99514117--99514282 Score: 237
Period size: 87 Copynumber: 1.9 Consensus size: 87
99514107 AACTCGTACA
* * * * *
99514117 ATGCCAACGTCCTAGACATGGTCTTACATGTAATCAAATATCGATGTCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAAACATGGTCTTACACGAAATCAAATATCGATGTCAATGTCCCAGACAGGGT
99514182 CTTACACGAAAATCATAATCCG
66 CTTACACGAAAATCATAATCCG
* *
99514204 ATGCCAACGTCCCAAACGTGGTCTTACACGAAATCAAATA-CGATG-CAAATGTCCCAGACATGG
1 ATGCCAACGTCCCAAACATGGTCTTACACGAAATCAAATATCGATGTC-AATGTCCCAGACAGGG
*
99514267 TCTTACACGTAAATCA
65 TCTTACACGAAAATCA
99514283 CAAATCAATC
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
85 1 0.01
86 34 0.49
87 35 0.50
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (87 bp):
ATGCCAACGTCCCAAACATGGTCTTACACGAAATCAAATATCGATGTCAATGTCCCAGACAGGGT
CTTACACGAAAATCATAATCCG
Found at i:99518471 original size:18 final size:18
Alignment explanation
Indices: 99518450--99518509 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
99518440 AATCGGTTAA
*
99518450 TCAGTAATATTCATTTAT
1 TCAGTAATACTCATTTAT
*
99518468 TCAGT-ATCACTCGTTTAT
1 TCAGTAAT-ACTCATTTAT
* * * *
99518486 TCTGTAACAGTCAATTAT
1 TCAGTAATACTCATTTAT
99518504 TCAGTA
1 TCAGTA
99518510 GCAGACAGTC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
17 2 0.06
18 29 0.91
19 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (18 bp):
TCAGTAATACTCATTTAT
Found at i:99519034 original size:3 final size:3
Alignment explanation
Indices: 99519026--99519085 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
99519016 ATTCAATACC
*
99519026 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
99519074 ATG ATA ATA ATA
1 ATA ATA ATA ATA
99519086 CTTACCATTC
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:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:99519761 original size:22 final size:21
Alignment explanation
Indices: 99519729--99519769 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
99519719 TCCCTTGTTC
*
99519729 TTCTCTATTTCGTTTGCTTTGT
1 TTCTCTATTTCATTT-CTTTGT
*
99519751 TTCTCTTTTTCATTTCTTT
1 TTCTCTATTTCATTTCTTT
99519770 TATTTCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.05, C:0.20, G:0.07, T:0.68
Consensus pattern (21 bp):
TTCTCTATTTCATTTCTTTGT
Found at i:99519776 original size:9 final size:9
Alignment explanation
Indices: 99519757--99519791 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
99519747 TTGTTTCTCT
99519757 TTTTCATTTC
1 TTTT-ATTTC
99519767 TTTTATTTC
1 TTTTATTTC
99519776 TTTTATTTC
1 TTTTATTTC
99519785 -TTTATTT
1 TTTTATTT
99519792 TTATTATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 7 0.28
9 14 0.56
10 4 0.16
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTATTTC
Found at i:99519799 original size:17 final size:18
Alignment explanation
Indices: 99519757--99519791 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
99519747 TTGTTTCTCT
99519757 TTTTCATTTCTTTTATTTC
1 TTTT-ATTTCTTTTATTTC
99519776 TTTTATTTC-TTTATTT
1 TTTTATTTCTTTTATTT
99519792 TTATTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTATTTCTTTTATTTC
Found at i:99538474 original size:68 final size:68
Alignment explanation
Indices: 99538360--99538629 Score: 443
Period size: 68 Copynumber: 4.0 Consensus size: 68
99538350 AAATCAAATA
*
99538360 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAATAGATCTCCTTGAAGTTTCAGTGG
1 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGG
99538425 ATC
66 ATC
* *
99538428 TCTTTTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
1 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGG
99538493 ATC
66 ATC
* *
99538496 TCTTCTCCCTGATATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGA
1 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGG
*
99538561 ATA
66 ATC
* * * *
99538564 TCTTCTCCCTGAAATGGTGGT-GAGCAGCTAAAAGCCACAACAGATTTCCTTGAAGTTTCAGTGG
1 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGG
99538628 AT
66 AT
99538630 TAATCGAAGC
Statistics
Matches: 188, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
67 42 0.22
68 146 0.78
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (68 bp):
TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGG
ATC
Found at i:99539000 original size:12 final size:12
Alignment explanation
Indices: 99538983--99539007 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
99538973 ACCCAAAACC
99538983 CTTAGCCCAAAA
1 CTTAGCCCAAAA
99538995 CTTAGCCCAAAA
1 CTTAGCCCAAAA
99539007 C
1 C
99539008 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:99539085 original size:9 final size:9
Alignment explanation
Indices: 99539071--99539118 Score: 51
Period size: 9 Copynumber: 4.9 Consensus size: 9
99539061 CTCCACTAAG
99539071 CCACTCCAA
1 CCACTCCAA
99539080 CCACTCCACTAAA
1 CCACT-C-C--AA
*
99539093 CTACTCCAA
1 CCACTCCAA
99539102 CCACTCCAA
1 CCACTCCAA
99539111 CCACTCCA
1 CCACTCCA
99539119 CTAAACCACC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
9 23 0.70
10 1 0.03
11 2 0.06
12 1 0.03
13 6 0.18
ACGTcount: A:0.33, C:0.52, G:0.00, T:0.15
Consensus pattern (9 bp):
CCACTCCAA
Found at i:99539088 original size:22 final size:22
Alignment explanation
Indices: 99539060--99539109 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
99539050 AAATATCTTT
*
99539060 ACTCCACTAAGCCACTCCAACC
1 ACTCCACTAAACCACTCCAACC
*
99539082 ACTCCACTAAACTACTCCAACC
1 ACTCCACTAAACCACTCCAACC
99539104 ACTCCA
1 ACTCCA
99539110 ACCACTCCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.34, C:0.48, G:0.02, T:0.16
Consensus pattern (22 bp):
ACTCCACTAAACCACTCCAACC
Found at i:99539108 original size:31 final size:31
Alignment explanation
Indices: 99539071--99539136 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
99539061 CTCCACTAAG
* *
99539071 CCACTCCAACCACTCCACTAAACTACTCCAA
1 CCACTCCAACCACTCCACTAAACCACCCCAA
99539102 CCACTCCAACCACTCCACTAAACCACCCCAA
1 CCACTCCAACCACTCCACTAAACCACCCCAA
99539133 CCAC
1 CCAC
99539137 CCTACTAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.35, C:0.53, G:0.00, T:0.12
Consensus pattern (31 bp):
CCACTCCAACCACTCCACTAAACCACCCCAA
Found at i:99539122 original size:53 final size:53
Alignment explanation
Indices: 99539060--99539162 Score: 145
Period size: 53 Copynumber: 1.9 Consensus size: 53
99539050 AAATATCTTT
* * * *
99539060 ACTCCACTAAGCCACTCCAACCACTCC-ACTAAACTACTCCAACCACTCCAACC
1 ACTCCACTAAACCACCCCAACCAC-CCTACTAAACCACCCCAACCACTCCAACC
*
99539113 ACTCCACTAAACCACCCCAACCACCCTACTAAACCACCCCAATCACTCCA
1 ACTCCACTAAACCACCCCAACCACCCTACTAAACCACCCCAACCACTCCA
99539163 CTTGCCTACA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 2 0.05
53 42 0.95
ACGTcount: A:0.35, C:0.50, G:0.01, T:0.14
Consensus pattern (53 bp):
ACTCCACTAAACCACCCCAACCACCCTACTAAACCACCCCAACCACTCCAACC
Found at i:99539125 original size:22 final size:22
Alignment explanation
Indices: 99539100--99539164 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
99539090 AAACTACTCC
*
99539100 AACCACTCCAACCACTCCACTA
1 AACCACCCCAACCACTCCACTA
99539122 AACCACCCCAACCAC-CCTACTA
1 AACCACCCCAACCACTCC-ACTA
*
99539144 AACCACCCCAATCACTCCACT
1 AACCACCCCAACCACTCCACT
99539165 TGCCTACAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 2 0.05
22 35 0.90
23 2 0.05
ACGTcount: A:0.35, C:0.52, G:0.00, T:0.12
Consensus pattern (22 bp):
AACCACCCCAACCACTCCACTA
Found at i:99539629 original size:3 final size:3
Alignment explanation
Indices: 99539556--99539609 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
99539546 GAGCTTTGTT
* * *
99539556 TTA TTT TTA TT- TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
99539599 TTA TTA TTA TT
1 TTA TTA TTA TT
99539610 TCTCATGTAG
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
2 5 0.12
3 35 0.85
4 1 0.02
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:99539639 original size:15 final size:16
Alignment explanation
Indices: 99539572--99539650 Score: 56
Period size: 18 Copynumber: 4.8 Consensus size: 16
99539562 TTATTTTATT
*
99539572 TTATTAT-TTTTACTA
1 TTATTATATTATACTA
*
99539587 TTATTTATATTATTATTA
1 TTA-TTATATTA-TACTA
* *
99539605 TTATTTCTCATGTAGA-TA
1 TTA-TTAT-AT-TATACTA
99539623 TTATTAT-TTATACTA
1 TTATTATATTATACTA
99539638 TTATTATATTATA
1 TTATTATATTATA
99539651 TATGCCCTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
14 3 0.06
15 13 0.25
16 9 0.18
17 5 0.10
18 16 0.31
19 3 0.06
20 2 0.04
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (16 bp):
TTATTATATTATACTA
Found at i:99539642 original size:18 final size:18
Alignment explanation
Indices: 99539585--99539644 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
99539575 TTATTTTTAC
*
99539585 TATTATTTATATTATTAT
1 TATTATTTATACTATTAT
* * *
99539603 TATTATTTCTCATGTAGATAT
1 TATTATTTAT-A-CTA-TTAT
99539624 TATTATTTATACTATTAT
1 TATTATTTATACTATTAT
99539642 TAT
1 TAT
99539645 ATTATATATG
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 15 0.45
19 3 0.09
20 3 0.09
21 12 0.36
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (18 bp):
TATTATTTATACTATTAT
Found at i:99543252 original size:27 final size:28
Alignment explanation
Indices: 99543168--99543263 Score: 131
Period size: 27 Copynumber: 3.4 Consensus size: 28
99543158 CATGAGATTG
* * * *
99543168 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
99543197 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
99543225 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
99543252 GCACTGAGTGTG
1 GCACTAAGTGTG
99543264 TGGACTTAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
29 18 0.29
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:99543276 original size:27 final size:27
Alignment explanation
Indices: 99543196--99543278 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
99543186 TAAATTGTAC
* *
99543196 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
99543224 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
* *
99543251 AGCACTGAGTGTGTGGACTT-AATATAT
1 AGCACTAAGTGTG-CGACTTGAATATAT
99543278 A
1 A
99543279 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:99543278 original size:29 final size:27
Alignment explanation
Indices: 99543168--99543279 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
99543158 CATGAGATTG
** * *
99543168 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
99543197 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
99543225 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
* *
99543252 GCACTGAGTGTGTGGACTTAATATATAT
1 GCACTAAGTGTG-CGACTTAAT-TATAT
99543280 TTTTGAATCA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
27 22 0.31
28 28 0.39
29 21 0.30
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.34
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:99551553 original size:27 final size:28
Alignment explanation
Indices: 99551469--99551566 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
99551459 CATGAGATTG
* * * **
99551469 GCACTAAGTGTGCGGGTTTAAATTGTACG
1 GCACTAAGTGTGCGAGTTT-GATTATATA
99551498 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
99551526 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
99551553 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
99551567 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 18 0.29
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:99551577 original size:27 final size:27
Alignment explanation
Indices: 99551498--99551579 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
99551488 AAATTGTACG
* *
99551498 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTGAATATATA
* *
99551526 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTGAATATATA
*
99551553 GCACTGAGTGTGCGGACTT-AATATATA
1 GCACTAAGTGTGC-GACTTGAATATATA
99551580 ATTTTGAATC
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.61
28 19 0.39
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTGAATATATA
Found at i:99561057 original size:16 final size:16
Alignment explanation
Indices: 99561028--99561100 Score: 54
Period size: 15 Copynumber: 5.0 Consensus size: 16
99561018 ATTCATCAAT
99561028 TCATA-TTT-CATTTC
1 TCATATTTTCCATTTC
99561042 TCATATTTTCCATTTC
1 TCATATTTTCCATTTC
* *
99561058 -AATATTCTCTCA--TC
1 TCATATTTTC-CATTTC
99561072 TCATA--TT-CATTTC
1 TCATATTTTCCATTTC
*
99561085 TCATCTTTTCCATTTC
1 TCATATTTTCCATTTC
99561101 AATATCAATC
Statistics
Matches: 45, Mismatches: 5, Indels: 16
0.68 0.08 0.24
Matches are distributed among these distances:
11 2 0.04
13 7 0.16
14 7 0.16
15 15 0.33
16 14 0.31
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (16 bp):
TCATATTTTCCATTTC
Found at i:99562258 original size:20 final size:20
Alignment explanation
Indices: 99562225--99562264 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
99562215 TCCTTTTTCA
*
99562225 TTTCTATTTCATTTAATTATT
1 TTTCTATTTAATTT-ATTATT
99562246 TTTC-ATTTAATTTATTATT
1 TTTCTATTTAATTTATTATT
99562265 ATTATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTCTATTTAATTTATTATT
Found at i:99568656 original size:22 final size:22
Alignment explanation
Indices: 99568629--99568681 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
99568619 GTCAGTGTCA
99568629 CACACGGCCTTAGGACACGCCT
1 CACACGGCCTTAGGACACGCCT
99568651 CACACGGCCTTAGGACACGCCT
1 CACACGGCCTTAGGACACGCCT
99568673 CACACGGCC
1 CACACGGCC
99568682 ACATCGCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.23, C:0.43, G:0.23, T:0.11
Consensus pattern (22 bp):
CACACGGCCTTAGGACACGCCT
Found at i:99578647 original size:31 final size:31
Alignment explanation
Indices: 99578609--99578674 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
99578599 AAGCTTCAGG
99578609 TGATAGTGTGATCAATGCCTCTGACGTCCCT
1 TGATAGTGTGATCAATGCCTCTGACGTCCCT
*
99578640 TGATAGTGTGATCAATGCCTTTGACGTCCCT
1 TGATAGTGTGATCAATGCCTCTGACGTCCCT
99578671 TGAT
1 TGAT
99578675 CCCCAATACT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (31 bp):
TGATAGTGTGATCAATGCCTCTGACGTCCCT
Found at i:99579156 original size:48 final size:48
Alignment explanation
Indices: 99579094--99579362 Score: 258
Period size: 48 Copynumber: 5.6 Consensus size: 48
99579084 TGAATTGCTA
* *
99579094 ATGCCATG-CTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCTG
1 ATGCCATGTC-CCAAACATGGTCTTACACTGGCTCTCATGTCGAGGCCG
* ** * * * * *
99579142 ATGCCATGTCCCAAACATGGTCTTATACTAACTCTCGTCTCAATGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTCGAGGCCG
* *
99579190 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGAT-GTGGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATG-TCGAGGCCG
* ** *
99579238 ATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATAAC-ATTGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTCGA-GGCCG
* * * * * * *
99579286 ATGTCATGTCCCAAACATGGTCTTACACTGCCTCTTATAAT-GTGACAG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-GTCGAGGCCG
*
99579334 ATGCCATGTTCCAAACATGGTCTTACACT
1 ATGCCATGTCCCAAACATGGTCTTACACT
99579363 AGCGCACAAT
Statistics
Matches: 180, Mismatches: 35, Indels: 12
0.79 0.15 0.05
Matches are distributed among these distances:
48 177 0.98
49 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTCGAGGCCG
Found at i:99579258 original size:96 final size:96
Alignment explanation
Indices: 99579089--99579363 Score: 329
Period size: 96 Copynumber: 2.9 Consensus size: 96
99579079 AAGGGTGAAT
* * * *
99579089 TGCTAATGCCATG-CTCCAAACATGGTCTTACACTGGCTCACATG-TCGAGGCTGATGCCATGTC
1 TGCTGATGCCATGTC-CCAAACATGGTCTTACACTGGCTCTCATGAT-GTGGCAGATGCCATGTC
* * **
99579152 CCAAACATGGTCTTATACTAACTCTCGTCTCAA
64 CCAAACATGGTCTTACACTAACTCTCATAACAA
* *
99579185 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGATGTGGCCGATGCCATGTCCC
1 TGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGATGTGGCAGATGCCATGTCCC
* ** *
99579250 AAACATGGTCTTACATTGGCTCTCATAACAT
66 AAACATGGTCTTACACTAACTCTCATAACAA
* * * * * * *
99579281 TGCCGATGTCATGTCCCAAACATGGTCTTACACTGCCTCTTATAATGTGACAGATGCCATGTTCC
1 TGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGATGTGGCAGATGCCATGTCCC
99579346 AAACATGGTCTTACACTA
66 AAACATGGTCTTACACTA
99579364 GCGCACAATC
Statistics
Matches: 153, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
96 151 0.99
97 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (96 bp):
TGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGATGTGGCAGATGCCATGTCCC
AAACATGGTCTTACACTAACTCTCATAACAA
Found at i:99579354 original size:144 final size:144
Alignment explanation
Indices: 99579094--99579362 Score: 332
Period size: 144 Copynumber: 1.9 Consensus size: 144
99579084 TGAATTGCTA
** *
99579094 ATGCCATGCTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCTGATGCCATGTCCCAAACA
1 ATGCCATGCTCCAAACATGGTCTTACACTGGCTCACATAACGAGGCCGATGCCATGTCCCAAACA
* * * *
99579159 TGGTCTTATACTAACTCTCGTCTCAATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
66 TGGTCTTACACTAACTCTCGTATCAATGCAGATGCCATGTCCCAAACATGGTCTTACACTGGCTC
99579224 TCATGATGTGGCCG
131 TCATGATGTGGCCG
* * * *
99579238 ATGCCATG-TCCCAAACATGGTCTTACATTGGCTCTCATAAC-ATTGCCGATGTCATGTCCCAAA
1 ATGCCATGCT-CCAAACATGGTCTTACACTGGCTCACATAACGA-GGCCGATGCCATGTCCCAAA
* * *
99579301 CATGGTCTTACACT-GC-CTCTTAT-AATGTGACAGATGCCATGTTCCAAACATGGTCTTACACT
64 CATGGTCTTACACTAACTCTCGTATCAA--TG-CAGATGCCATGTCCCAAACATGGTCTTACACT
99579363 AGCGCACAAT
Statistics
Matches: 106, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
141 2 0.02
142 5 0.05
143 5 0.05
144 94 0.89
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (144 bp):
ATGCCATGCTCCAAACATGGTCTTACACTGGCTCACATAACGAGGCCGATGCCATGTCCCAAACA
TGGTCTTACACTAACTCTCGTATCAATGCAGATGCCATGTCCCAAACATGGTCTTACACTGGCTC
TCATGATGTGGCCG
Found at i:99586047 original size:32 final size:31
Alignment explanation
Indices: 99586007--99586073 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 31
99585997 TCAATTGAAT
*
99586007 TTTCGTACATACATGTACTATATTGTACCAA
1 TTTCGTACATACATGTACCATATTGTACCAA
*
99586038 TTTCTGTACATACCTGTACCATATTGTACCAA
1 TTTC-GTACATACATGTACCATATTGTACCAA
99586070 TTTC
1 TTTC
99586074 CACAGATACC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
31 4 0.12
32 29 0.88
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (31 bp):
TTTCGTACATACATGTACCATATTGTACCAA
Found at i:99586083 original size:32 final size:32
Alignment explanation
Indices: 99586013--99586102 Score: 99
Period size: 32 Copynumber: 2.8 Consensus size: 32
99586003 GAATTTTCGT
* * ***
99586013 ACATACATGTACTATATTGTACCAATTTCTGT
1 ACATACCTGTACCATATTGTACCAATTTCCAC
99586045 ACATACCTGTACCATATTGTACCAATTTCCAC
1 ACATACCTGTACCATATTGTACCAATTTCCAC
* * * *
99586077 AGATACCTGTATCATCTCGTACCAAT
1 ACATACCTGTACCATATTGTACCAAT
99586103 CTCATACTCG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (32 bp):
ACATACCTGTACCATATTGTACCAATTTCCAC
Found at i:99586211 original size:28 final size:28
Alignment explanation
Indices: 99586180--99586279 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 28
99586170 CCGATACCTT
*
99586180 GCACACTAAGTGCCGTTCTGGATGTTTC
1 GCACACTAAGTGCCATTCTGGATGTTTC
* * * **
99586208 GCACACTAAGTGCCATCCTCGTTACTTC
1 GCACACTAAGTGCCATTCTGGATGTTTC
* *
99586236 GCACACTAAGTGCCATTCTGAATGTATC
1 GCACACTAAGTGCCATTCTGGATGTTTC
*
99586264 ACACACTAAGTGCCAT
1 GCACACTAAGTGCCAT
99586280 CCTCAATACT
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTGGATGTTTC
Found at i:99586240 original size:56 final size:56
Alignment explanation
Indices: 99586180--99586306 Score: 182
Period size: 56 Copynumber: 2.3 Consensus size: 56
99586170 CCGATACCTT
* * * * **
99586180 GCACACTAAGTGCCGTTCTGGATGTTTCGCACACTAAGTGCCATCCTCGTTACTTC
1 GCACACTAAGTGCCATTCTGAATGTATCACACACTAAGTGCCATCCTCAATACTTC
99586236 GCACACTAAGTGCCATTCTGAATGTATCACACACTAAGTGCCATCCTCAATACTTC
1 GCACACTAAGTGCCATTCTGAATGTATCACACACTAAGTGCCATCCTCAATACTTC
**
99586292 GCACGTTAAGTGCCA
1 GCACACTAAGTGCCA
99586307 CATATAATTA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (56 bp):
GCACACTAAGTGCCATTCTGAATGTATCACACACTAAGTGCCATCCTCAATACTTC
Found at i:99586301 original size:28 final size:28
Alignment explanation
Indices: 99586205--99586306 Score: 116
Period size: 28 Copynumber: 3.6 Consensus size: 28
99586195 TTCTGGATGT
**
99586205 TTCGCACACTAAGTGCCATCCTCGTTAC
1 TTCGCACACTAAGTGCCATCCTCAATAC
* * *
99586233 TTCGCACACTAAGTGCCATTCTGAAT-G
1 TTCGCACACTAAGTGCCATCCTCAATAC
*
99586260 TATCACACACTAAGTGCCATCCTCAATAC
1 T-TCGCACACTAAGTGCCATCCTCAATAC
**
99586289 TTCGCACGTTAAGTGCCA
1 TTCGCACACTAAGTGCCA
99586307 CATATAATTA
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
27 1 0.02
28 58 0.97
29 1 0.02
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.27
Consensus pattern (28 bp):
TTCGCACACTAAGTGCCATCCTCAATAC
Found at i:99591852 original size:55 final size:55
Alignment explanation
Indices: 99591783--99591896 Score: 142
Period size: 55 Copynumber: 2.1 Consensus size: 55
99591773 TAAAATAGCG
* * **
99591783 CGGGCGTGCAACACGTCCGTGCCTTG-AACCCGTGGCTGAACCT-TTCAAATTAACA
1 CGGGCGTGCAACACGACCATGCCAAGCAA-CCGTGGCTGAACCTGTT-AAATTAACA
* *
99591838 CGGGCGTGCGACACGACCATGCCAAGCAACCGTGGGTGAACCTGTTAAATTAACA
1 CGGGCGTGCAACACGACCATGCCAAGCAACCGTGGCTGAACCTGTTAAATTAACA
99591893 CGGG
1 CGGG
99591897 TGTGGGCCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
55 47 0.92
56 4 0.08
ACGTcount: A:0.25, C:0.29, G:0.27, T:0.18
Consensus pattern (55 bp):
CGGGCGTGCAACACGACCATGCCAAGCAACCGTGGCTGAACCTGTTAAATTAACA
Found at i:99606971 original size:14 final size:14
Alignment explanation
Indices: 99606939--99606965 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
99606929 TGAATTTAAA
99606939 GAATTAGGAGTATT
1 GAATTAGGAGTATT
99606953 GAATTAGGAGTAT
1 GAATTAGGAGTAT
99606966 CTAATTCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (14 bp):
GAATTAGGAGTATT
Found at i:99617202 original size:49 final size:49
Alignment explanation
Indices: 99617131--99617404 Score: 300
Period size: 49 Copynumber: 5.5 Consensus size: 49
99617121 TGAGGTCACG
* * * *
99617131 TGTGTAGAAC-AAGTGCAGGCTACTACGTGTATCGGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATTGGTCGCA
* * * * *
99617179 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAA-TT-GGTCGCA
* * *
99617230 TGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATTGGTCGCA
* ** * *
99617279 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGAC-CA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAA-TTGGTCGCA
** *
99617328 TGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCACA
1 --TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATTGGTCGCA
*
99617379 TGTGTAGTACTAAGTGCAGACTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
99617405 TGCGTACTAG
Statistics
Matches: 186, Mismatches: 33, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
48 9 0.05
49 90 0.48
50 12 0.06
51 75 0.40
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATTGGTCGCA
Found at i:99617319 original size:100 final size:100
Alignment explanation
Indices: 99617126--99617407 Score: 449
Period size: 100 Copynumber: 2.8 Consensus size: 100
99617116 TATTGTGAGG
* * *
99617126 TCACGTGTGTAGAAC-AAGTGCAGGCTACTACGTGTATCGGATAATTGGTTGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
*
99617190 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCATACCCGATAACTTCGA
* * *
99617225 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
99617290 AAGTGCAGGCTACTATGCATACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCATACCCGATAACTTCGA
* * * *
99617325 CCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
*
99617390 AAGTGCAGACTACTATGC
66 AAGTGCAGGCTACTATGC
99617408 GTACTAGATA
Statistics
Matches: 167, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
99 14 0.08
100 153 0.92
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCCGATAACTTCGA
Found at i:99619219 original size:48 final size:48
Alignment explanation
Indices: 99619176--99619446 Score: 262
Period size: 48 Copynumber: 5.7 Consensus size: 48
99619166 ATGCCATACT
* * * *
99619176 CCAAACATGGTCTTACACTGGCTCACATGTCAAGGCTGATGCCATGTC
1 CCAAACATGGTCTTACACTAGCTCACATATCAACGCCGATGCCATGTC
* * * * * * *
99619224 CCAGACATGGTCTTACACTAGCTCTCGTCTTAATGCCGATTCCATGTC
1 CCAAACATGGTCTTACACTAGCTCACATATCAACGCCGATGCCATGTC
**
99619272 CCAAACATGGTCTTACACTAGCGGACATATCAACGCCGATGCCATGTC
1 CCAAACATGGTCTTACACTAGCTCACATATCAACGCCGATGCCATGTC
* * * * * *
99619320 CCAGACATGGTCTTACACTAGCTCTCATAACATCGCCAATGCCATGTT
1 CCAAACATGGTCTTACACTAGCTCACATATCAACGCCGATGCCATGTC
* * * * *
99619368 CCAAACATGGTCTTATACTGGCT--CTTAT-AATGTGACCGATGCCATGTT
1 CCAAACATGGTCTTACACTAGCTCACATATCAA--CG-CCGATGCCATGTC
*
99619416 CCAAACATGGTCTTACATTAGCTCACA-ATCA
1 CCAAACATGGTCTTACACTAGCTCACATATCA
99619447 CCCAAATTTC
Statistics
Matches: 179, Mismatches: 38, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
45 1 0.01
46 3 0.02
47 1 0.01
48 170 0.95
49 2 0.01
50 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
CCAAACATGGTCTTACACTAGCTCACATATCAACGCCGATGCCATGTC
Found at i:99633009 original size:107 final size:107
Alignment explanation
Indices: 99632823--99633036 Score: 376
Period size: 107 Copynumber: 2.0 Consensus size: 107
99632813 ATAGATTGGC
* * *
99632823 AAGTAAAGAATGTTATTGTTTTTTTGATGGATACTTGAGATATCATTAGATTCCTAAACATACAA
1 AAGTAAAGAATGTTATTGTTTTCTGGATGGATACTTGAGATATCATTAGATTCCCAAACATACAA
99632888 ATGATCAAGAAAAACTACATTCACATGCCCTTTTAGCACATA
66 ATGATCAAGAAAAACTACATTCACATGCCCTTTTAGCACATA
99632930 AAGTAAAGAATGTTATTGTTTTCTGGATGGATACTTGAGATATCATTAGATTCCCAAACAT-CAA
1 AAGTAAAGAATGTTATTGTTTTCTGGATGGATACTTGAGATATCATTAGATTCCCAAACATAC-A
*
99632994 AATGATCAAGAAAAACTACATTCACATGCCCTTTTAGTACATA
65 AATGATCAAGAAAAACTACATTCACATGCCCTTTTAGCACATA
99633037 CGATTTTAAA
Statistics
Matches: 102, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
106 1 0.01
107 101 0.99
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (107 bp):
AAGTAAAGAATGTTATTGTTTTCTGGATGGATACTTGAGATATCATTAGATTCCCAAACATACAA
ATGATCAAGAAAAACTACATTCACATGCCCTTTTAGCACATA
Found at i:99636317 original size:26 final size:26
Alignment explanation
Indices: 99636281--99636337 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
99636271 GCAAAATGGT
*
99636281 AGGAGTACCAATGGATTGACTGGATA
1 AGGAGTACCAAAGGATTGACTGGATA
99636307 AGGAGTACCAAAGGATTGACTGGATA
1 AGGAGTACCAAAGGATTGACTGGATA
99636333 AGGAG
1 AGGAG
99636338 ATGAAACCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.37, C:0.11, G:0.33, T:0.19
Consensus pattern (26 bp):
AGGAGTACCAAAGGATTGACTGGATA
Found at i:99638460 original size:24 final size:24
Alignment explanation
Indices: 99638433--99638494 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 24
99638423 CATAACCAGT
* *
99638433 AAGTTCACAAAGAACCTTATCGGG
1 AAGTTCACAAAGAACCATATCAGG
* *
99638457 AAGTTGACAAAAAAACCATATCAGG
1 AAGTTCAC-AAAGAACCATATCAGG
99638482 AAGTTCACAAAGA
1 AAGTTCACAAAGA
99638495 TCCAGATAGC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
24 11 0.35
25 20 0.65
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (24 bp):
AAGTTCACAAAGAACCATATCAGG
Found at i:99654065 original size:18 final size:20
Alignment explanation
Indices: 99654035--99654071 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
99654025 TGAAGGTTTT
99654035 ATTCTTAAGTTTTT-CTTTC
1 ATTCTTAAGTTTTTACTTTC
99654054 ATTCTT-AGTTTTTACTTT
1 ATTCTTAAGTTTTTACTTT
99654072 GGTTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.16, C:0.14, G:0.05, T:0.65
Consensus pattern (20 bp):
ATTCTTAAGTTTTTACTTTC
Found at i:99672740 original size:40 final size:40
Alignment explanation
Indices: 99672666--99672884 Score: 311
Period size: 40 Copynumber: 5.5 Consensus size: 40
99672656 AACCCAAGTA
* * *
99672666 CCTTTGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
99672705 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
99672745 CCTTCAGGACTTAGCCCGGATATAGTCAATAGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
99672785 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
99672825 CCTTCGGGACTTAGCCCGGATATAGTCACTA--ACATCATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACA-AATG
*
99672864 CCTTCGAGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
99672885 GTCATCCGAA
Statistics
Matches: 164, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 3 0.02
39 34 0.21
40 126 0.77
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:99676666 original size:3 final size:3
Alignment explanation
Indices: 99676658--99676693 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
99676648 GCATGAAAGT
* *
99676658 GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA AAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
99676694 ACTGAAGAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:99683523 original size:46 final size:46
Alignment explanation
Indices: 99683458--99683823 Score: 527
Period size: 46 Copynumber: 8.0 Consensus size: 46
99683448 GCTCTCTGAT
** * * *
99683458 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
99683504 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
99683550 ATGAAGTGAATAAGACCTTGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
99683596 AGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
99683642 AGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
99683688 AGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
99683734 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
99683780 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
99683824 TCAAAGATAA
Statistics
Matches: 298, Mismatches: 21, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 297 1.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:99684125 original size:16 final size:17
Alignment explanation
Indices: 99684104--99684136 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
99684094 ATGATGGTGC
99684104 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
99684120 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
99684137 TACTTATGAA
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:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:99687633 original size:19 final size:22
Alignment explanation
Indices: 99687587--99687633 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
99687577 ATTGAGTGGT
99687587 TAATTAGACTTTAATTAAGTAA
1 TAATTAGACTTTAATTAAGTAA
*
99687609 -ATTTAG-C-TTAATTAAG-AA
1 TAATTAGACTTTAATTAAGTAA
99687627 TAATTAG
1 TAATTAG
99687634 TGGAAAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
18 2 0.09
19 14 0.64
20 1 0.05
21 5 0.23
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (22 bp):
TAATTAGACTTTAATTAAGTAA
Found at i:99687984 original size:13 final size:13
Alignment explanation
Indices: 99687966--99688008 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
99687956 TTTAATAATA
99687966 AAATAAAGAAATG
1 AAATAAAGAAATG
99687979 AAATAAAGAAAT-
1 AAATAAAGAAATG
* *
99687991 AAATGAAATAAAAG
1 AAAT-AAAGAAATG
99688005 AAAT
1 AAAT
99688009 GAAAAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
AAATAAAGAAATG
Found at i:99687996 original size:17 final size:18
Alignment explanation
Indices: 99687962--99688008 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
99687952 ATAGTTTAAT
* *
99687962 AATAAAATAAAGAAATGA
1 AATAAAAGAAATAAATGA
99687980 AAT-AAAGAAATAAATGA
1 AATAAAAGAAATAAATGA
99687997 AATAAAAGAAAT
1 AATAAAAGAAAT
99688009 GAAAAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (18 bp):
AATAAAAGAAATAAATGA
Found at i:99688000 original size:9 final size:9
Alignment explanation
Indices: 99687974--99688008 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
99687964 TAAAATAAAG
99687974 AAATGAAAT
1 AAATGAAAT
99687983 AAA-GAAAT
1 AAATGAAAT
99687991 AAATGAAAT
1 AAATGAAAT
*
99688000 AAAAGAAAT
1 AAATGAAAT
99688009 GAAAAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (9 bp):
AAATGAAAT
Found at i:99689399 original size:5 final size:5
Alignment explanation
Indices: 99689384--99689435 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
99689374 AGTGGAAAAG
* * * * *
99689384 TGAATT TGAAT TGAAT TGAAT TGAAT GGAAT GGAAT GGAAT GGAAT GGAAT
1 TGAA-T TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT
99689435 T
1 T
99689436 ATGATTAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
5 40 0.91
6 4 0.09
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.33
Consensus pattern (5 bp):
TGAAT
Found at i:99689404 original size:10 final size:10
Alignment explanation
Indices: 99689391--99689435 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
99689381 AAGTGAATTT
*
99689391 GAATTGAATT
1 GAATTGAATG
99689401 GAATTGAATG
1 GAATTGAATG
*
99689411 GAATGGAATG
1 GAATTGAATG
*
99689421 GAATGGAATG
1 GAATTGAATG
99689431 GAATT
1 GAATT
99689436 ATGATTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (10 bp):
GAATTGAATG
Found at i:99689409 original size:15 final size:15
Alignment explanation
Indices: 99689389--99689435 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
99689379 AAAAGTGAAT
* *
99689389 TTGAATTGAATTGAA
1 TTGAATGGAATGGAA
99689404 TTGAATGGAATGGAA
1 TTGAATGGAATGGAA
*
99689419 TGGAATGGAATGGAA
1 TTGAATGGAATGGAA
99689434 TT
1 TT
99689436 ATGATTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.38, C:0.00, G:0.30, T:0.32
Consensus pattern (15 bp):
TTGAATGGAATGGAA
Found at i:99689908 original size:45 final size:45
Alignment explanation
Indices: 99689844--99690083 Score: 345
Period size: 45 Copynumber: 5.3 Consensus size: 45
99689834 CTGTTAACGC
* *
99689844 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* ** *
99689889 TACTGCTACTATTACCGATTCGACACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * *
99689934 TGCTATTACCGTTACCGATTCGGCACTGTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
99689979 TACTGTTACCGTTACCGATTCGGCACTGTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * *
99690024 TACTGTTACCGTTACCGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
99690069 TATTGTTACTGTTAC
1 TACTGTTACCGTTAC
99690084 TGTTACTATT
Statistics
Matches: 178, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 178 1.00
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (45 bp):
TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:99690143 original size:6 final size:6
Alignment explanation
Indices: 99690128--99690158 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
99690118 CTGTGTACCG
*
99690128 TACTGC TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
99690159 CCAGCTTCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:99690304 original size:18 final size:18
Alignment explanation
Indices: 99690263--99690465 Score: 121
Period size: 18 Copynumber: 11.3 Consensus size: 18
99690253 AAAGGTATAA
* * *
99690263 AATAACTGATTATTATTG
1 AATAATTGACTATTACTG
* *
99690281 ATTAATTGACTATTACCG
1 AATAATTGACTATTACTG
* *
99690299 GATAATTGACTGTTACTG
1 AATAATTGACTATTACTG
* *
99690317 GAT-ATTAGACTGTTACTG
1 AATAATT-GACTATTACTG
* *
99690335 AATAACTGAATATTACTG
1 AATAATTGACTATTACTG
99690353 AATAATTGA-TCATTACTG
1 AATAATTGACT-ATTACTG
* * * *
99690371 AATAACTGATTGTCACTG
1 AATAATTGACTATTACTG
**
99690389 AATGAA-TGACTGCTACTG
1 AAT-AATTGACTATTACTG
*
99690407 AATAACTT-AATAGTTACTG
1 AATAA-TTGACTA-TTACTG
*
99690426 AAT-ATCTGA-TTTTACTG
1 AATAAT-TGACTATTACTG
*
99690443 AATAATTGACTGTTACTG
1 AATAATTGACTATTACTG
*
99690461 GATAA
1 AATAA
99690466 CCGATCAATT
Statistics
Matches: 147, Mismatches: 26, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
17 19 0.13
18 113 0.77
19 15 0.10
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
AATAATTGACTATTACTG
Found at i:99690369 original size:36 final size:36
Alignment explanation
Indices: 99690329--99690545 Score: 129
Period size: 36 Copynumber: 5.8 Consensus size: 36
99690319 TATTAGACTG
99690329 TTACTGAATAACTGAATATTACTGAATAATTGATCA
1 TTACTGAATAACTGAATATTACTGAATAATTGATCA
* * *
99690365 TTACTGAATAACTGATTGTCACTGAATGAA-TGA-C-
1 TTACTGAATAACTGAATATTACTGAAT-AATTGATCA
* *
99690399 TGCTACTGAATAACTTAATAGTTACTGAAT-ATCTGAT-T
1 T--TACTGAATAACTGAATA-TTACTGAATAAT-TGATCA
* * *
99690437 TTACTGAATAATTGACTGTTACTGGATAACCGATCAATTGATCA
1 TTACTGAATAACTGAATATTACT-G---A---AT-AATTGATCA
* ** * **
99690481 ATACTGAATAACTGGTTATTATTGAATAATTGATTG
1 TTACTGAATAACTGAATATTACTGAATAATTGATCA
* * *
99690517 TTACCGAATAACTGACTGTTACTGAATAA
1 TTACTGAATAACTGAATATTACTGAATAA
99690546 ATAATTATTC
Statistics
Matches: 137, Mismatches: 26, Indels: 36
0.69 0.13 0.18
Matches are distributed among these distances:
34 1 0.01
35 7 0.05
36 85 0.62
37 15 0.11
38 1 0.01
39 1 0.01
40 1 0.01
42 2 0.01
43 5 0.04
44 19 0.14
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (36 bp):
TTACTGAATAACTGAATATTACTGAATAATTGATCA
Found at i:99690389 original size:54 final size:53
Alignment explanation
Indices: 99690331--99690466 Score: 150
Period size: 54 Copynumber: 2.5 Consensus size: 53
99690321 TTAGACTGTT
* * *
99690331 ACTGAATAACTGAATATTACTGAATAA-TTGATCA-TTACTGAATAACTGATTGTC
1 ACTGAATAA-TGACTGTTACTGAATAACTTAAT-AGTTACTGAATAACTGATT-TC
* * *
99690385 ACTGAATGAATGACTGCTACTGAATAACTTAATAGTTACTGAATATCTGATTTT
1 ACTGAAT-AATGACTGTTACTGAATAACTTAATAGTTACTGAATAACTGATTTC
*
99690439 ACTGAATAATTGACTGTTACTGGATAAC
1 ACTGAATAA-TGACTGTTACTGAATAAC
99690467 CGATCAATTG
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
53 2 0.03
54 46 0.66
55 22 0.31
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (53 bp):
ACTGAATAATGACTGTTACTGAATAACTTAATAGTTACTGAATAACTGATTTC
Found at i:99690400 original size:72 final size:72
Alignment explanation
Indices: 99690263--99690545 Score: 205
Period size: 72 Copynumber: 3.8 Consensus size: 72
99690253 AAAGGTATAA
* * * * * * * * *
99690263 AATAACTGATTATTATTGATTAATTGA-CTATTACCGGATAATTGACTGTTACTGGATATTAGAC
1 AATAACTGAATATTACTGAATAATTGATC-ATTACTGAATAACTGACTGTCACTGAATAATAGAC
*
99690327 TGTTACTG
65 TGCTACTG
*
99690335 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTGTCACTGAATGAAT-GAC
1 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAAT-AATAGAC
99690399 TGCTACTG
65 TGCTACTG
* * * * * **
99690407 AATAACTTAATAGTTACTGAAT-ATCTGAT-TTTACTGAATAATTGACTGTTACTGGATAACCGA
1 AATAACTGAATA-TTACTGAATAAT-TGATCATTACTGAATAACTGACTGTCACTGAATAATAGA
99690470 TCAATTGATCAATACTG
64 -C---TG--C--TACTG
** * ** * *
99690487 AATAACTGGTTATTATTGAATAATTGATTGTTACCGAATAACTGACTGTTACTGAATAA
1 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAATAA
99690546 ATAATTATTC
Statistics
Matches: 170, Mismatches: 26, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
71 2 0.01
72 94 0.55
73 17 0.10
76 2 0.01
78 1 0.01
79 12 0.07
80 42 0.25
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (72 bp):
AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAATAATAGACT
GCTACTG
Found at i:99690525 original size:18 final size:18
Alignment explanation
Indices: 99690504--99690545 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
99690494 GGTTATTATT
* *
99690504 GAATAATTGATTGTTACC
1 GAATAACTGACTGTTACC
*
99690522 GAATAACTGACTGTTACT
1 GAATAACTGACTGTTACC
99690540 GAATAA
1 GAATAA
99690546 ATAATTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (18 bp):
GAATAACTGACTGTTACC
Found at i:99691467 original size:28 final size:27
Alignment explanation
Indices: 99691432--99691485 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
99691422 AAACTTGGGG
99691432 AAAACAACCTAGAATATTTAATTCTCA
1 AAAACAACCTAGAATATTTAATTCTCA
* ** *
99691459 AAAATCAACTTATCATATTTGATTCTC
1 AAAA-CAACCTAGAATATTTAATTCTC
99691486 TGATGTCTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.35
Consensus pattern (27 bp):
AAAACAACCTAGAATATTTAATTCTCA
Found at i:99702648 original size:40 final size:40
Alignment explanation
Indices: 99702579--99702704 Score: 175
Period size: 40 Copynumber: 3.2 Consensus size: 40
99702569 AACCCAAGTA
* **
99702579 CCTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
99702618 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
99702658 CCTTCGGGACTTAGCCCGAATATAGTCAC-CAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTC-GCACAAATG
99702698 CCTTCGG
1 CCTTCGG
99702705 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 14 0.18
40 65 0.82
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:99705059 original size:5 final size:5
Alignment explanation
Indices: 99705049--99705086 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
99705039 AATTTGTGTG
*
99705049 TTATT TTATT TTTTCT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TT
99705087 TTTCACAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:99707034 original size:93 final size:93
Alignment explanation
Indices: 99706875--99707060 Score: 345
Period size: 93 Copynumber: 2.0 Consensus size: 93
99706865 AAGTCAGAAG
*
99706875 GGATCATGAGACACTTGACAGTTCGTCATACTCTACAGCAAAACGGCGTTGCAGAACGAATGAAT
1 GGATCATGAGACACTTGACAGTTCGTCATACTCCACAGCAAAACGGCGTTGCAGAACGAATGAAT
99706940 AGAACGATCATGAAGAAGGTTCGATGTA
66 AGAACGATCATGAAGAAGGTTCGATGTA
* *
99706968 GGATCATGAGACACTTGACAGTTCTTCATACTCCACAGCAAAACGGTGTTGCAGAACGAATGAAT
1 GGATCATGAGACACTTGACAGTTCGTCATACTCCACAGCAAAACGGCGTTGCAGAACGAATGAAT
99707033 AGAACGATCATGAAGAAGGTTCGATGTA
66 AGAACGATCATGAAGAAGGTTCGATGTA
99707061 TGTTGTCAAT
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 90 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (93 bp):
GGATCATGAGACACTTGACAGTTCGTCATACTCCACAGCAAAACGGCGTTGCAGAACGAATGAAT
AGAACGATCATGAAGAAGGTTCGATGTA
Found at i:99709607 original size:5 final size:5
Alignment explanation
Indices: 99709597--99709634 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
99709587 AAAATTTGTG
*
99709597 TTATT TTATT TTTTCT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TT
99709635 TTTCACATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:99709740 original size:22 final size:23
Alignment explanation
Indices: 99709695--99709740 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
99709685 TAAATTTTGA
*
99709695 ATTTTTTAGTATTTAAATAATAT
1 ATTTTTTAGTATTTAAACAATAT
* *
99709718 ATTTTTTA-TATTTTAACATTAT
1 ATTTTTTAGTATTTAAACAATAT
99709740 A
1 A
99709741 AAATACACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
ATTTTTTAGTATTTAAACAATAT
Found at i:99710362 original size:5 final size:6
Alignment explanation
Indices: 99710344--99710373 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
99710334 TATGGTTACT
99710344 AATAAA AATAAA AATAAAA AATAAA AATAA
1 AATAAA AATAAA AAT-AAA AATAAA AATAA
99710374 TCATATGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:99710365 original size:13 final size:13
Alignment explanation
Indices: 99710347--99710373 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
99710337 GGTTACTAAT
99710347 AAAAATAAAAATA
1 AAAAATAAAAATA
99710360 AAAAATAAAAATA
1 AAAAATAAAAATA
99710373 A
1 A
99710374 TCATATGCAA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:99712349 original size:141 final size:141
Alignment explanation
Indices: 99712085--99712342 Score: 338
Period size: 141 Copynumber: 1.8 Consensus size: 141
99712075 TATTAAATTA
** * * *
99712085 TTGCTATTACTGGCTTAAACAATGAGGAAGAGAAGTTGCACGATAATGTAACAGTTAACTAGATT
1 TTGCTATTACTAACTTAAACAATGAGGAAGAGAAGTTGCACCATAATCTAACAATTAACTAGATT
* * * *
99712150 GAACCTTTTATTTTTGCAAATAACTATTACTAACAACACTAAAACCACAATTACACAAAAATCAA
66 GAACCTTATATTTTTGCAAACAACTAATACCAACAACACTAAAACCACAATTACACAAAAATCAA
99712215 ACCTTATATTG
131 ACCTTATATTG
* * *
99712226 TTGCTATTACTAACTTAAGCAATGAGGAAGATAAGTTGTACCATAATCTAACAATT-ACATAGAT
1 TTGCTATTACTAACTTAAACAATGAGGAAGAGAAGTTGCACCATAATCTAACAATTAAC-TAGAT
*** * * *
99712290 TGAACCTTATATTTTTGTGGACAACTAATACCAACAATATTAAAACCGCAATT
65 TGAACCTTATATTTTTGCAAACAACTAATACCAACAACACTAAAACCACAATT
99712343 TTACAAATTG
Statistics
Matches: 98, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
140 2 0.02
141 96 0.98
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.31
Consensus pattern (141 bp):
TTGCTATTACTAACTTAAACAATGAGGAAGAGAAGTTGCACCATAATCTAACAATTAACTAGATT
GAACCTTATATTTTTGCAAACAACTAATACCAACAACACTAAAACCACAATTACACAAAAATCAA
ACCTTATATTG
Done.