Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 122 of 208
Found at i:40253233 original size:20 final size:20
Alignment explanation
Indices: 40253188--40253234 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
40253178 TTTTTTCTTC
*
40253188 TAATTTTTAATAAAATTTAA
1 TAATTTTTAATAAAATCTAA
*
40253208 -ATATTTTTATTAAAATCTAA
1 TA-ATTTTTAATAAAATCTAA
40253228 TAATTTT
1 TAATTTT
40253235 AGGTTATGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATTTTTAATAAAATCTAA
Found at i:40254272 original size:51 final size:51
Alignment explanation
Indices: 40254209--40254330 Score: 174
Period size: 51 Copynumber: 2.4 Consensus size: 51
40254199 ATTTCCTCTT
* * *
40254209 AATTTTCTCTCAATTTCCTTCCAAAATTCTCAT-AAATCCATATTTAATTTC
1 AATTTCCTCTCAATTTCCTTCCAAAAATCTC-TCAAAGCCATATTTAATTTC
**
40254260 AATTTCCTCTCAATTTTATTCCAAAAATCTCTCAAAGCCATATTTAATTTC
1 AATTTCCTCTCAATTTCCTTCCAAAAATCTCTCAAAGCCATATTTAATTTC
*
40254311 AATTTGCTCTCAATTTCCTT
1 AATTTCCTCTCAATTTCCTT
40254331 TTTTAAAATA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 1 0.02
51 61 0.98
ACGTcount: A:0.30, C:0.24, G:0.02, T:0.44
Consensus pattern (51 bp):
AATTTCCTCTCAATTTCCTTCCAAAAATCTCTCAAAGCCATATTTAATTTC
Found at i:40255123 original size:14 final size:14
Alignment explanation
Indices: 40255104--40255133 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
40255094 CTGCCGTCTT
40255104 GGCAACGTTGTATC
1 GGCAACGTTGTATC
40255118 GGCAACGTTGTATC
1 GGCAACGTTGTATC
40255132 GG
1 GG
40255134 GAGATGTGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.27
Consensus pattern (14 bp):
GGCAACGTTGTATC
Found at i:40255462 original size:7 final size:7
Alignment explanation
Indices: 40255450--40255481 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
40255440 TGCAAATAGA
40255450 TATTTAG
1 TATTTAG
40255457 TATTTAG
1 TATTTAG
40255464 TATTTAG
1 TATTTAG
40255471 TATTTAG
1 TATTTAG
40255478 TATT
1 TATT
40255482 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:40256158 original size:18 final size:18
Alignment explanation
Indices: 40256131--40256170 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
40256121 CAAGTGCGTT
*
40256131 TCCTATCCCTTATATGTA
1 TCCTAACCCTTATATGTA
40256149 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
40256167 TCCT
1 TCCT
40256171 TTTCCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:40256623 original size:25 final size:25
Alignment explanation
Indices: 40256595--40256642 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
40256585 TGAATATTTT
*
40256595 GAAGTTTGT-TTGATGTAATAAAATA
1 GAAGTTT-TATTGATGTAAAAAAATA
40256620 GAAGTTTTATTGATGTAAAAAAA
1 GAAGTTTTATTGATGTAAAAAAA
40256643 ATTAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (25 bp):
GAAGTTTTATTGATGTAAAAAAATA
Found at i:40256970 original size:212 final size:212
Alignment explanation
Indices: 40256603--40257135 Score: 978
Period size: 212 Copynumber: 2.5 Consensus size: 212
40256593 TTGAAGTTTG
*
40256603 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAAAAAAAATTAAATTTTTTTGAGTTATTTTGA
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTAAATTTTTTTGAGTTATTTTGA
* *
40256668 TATTATTTGATGTAATAAAATATAAGTTTTATTGATGTAATAAAAATTGAAATTTTTTTGAGTTA
66 TATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTGAAATTTTTTTGAATTA
40256733 TTTTGATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTGAAATTTTTTT
131 TTTTGATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTGAAATTTTTTT
40256798 GAGTTATTTTGATATTA
196 GAGTTATTTTGATATTA
40256815 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTGAAA-TTTTTTGAGTTATTTTG
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATT-AAATTTTTTTGAGTTATTTTG
*
40256879 ATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAATT
65 ATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTGAAATTTTTTTGAATT
* *
40256944 CTTTTGATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTT
130 ATTTTGATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTGAAATTTTTT
40257009 TGAGTTATTTTGATATTA
195 TGAGTTATTTTGATATTA
*
40257027 TTTGATGTAATAAAATAAAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAA-TTAAATTTTTTTGAGTTATTTTG
40257092 ATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAA
65 ATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAA
40257136 GTTGAAAACC
Statistics
Matches: 311, Mismatches: 7, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
212 245 0.79
213 66 0.21
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (212 bp):
TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTAAATTTTTTTGAGTTATTTTGA
TATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTGAAATTTTTTTGAATTA
TTTTGATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTGAAATTTTTTT
GAGTTATTTTGATATTA
Found at i:40257133 original size:71 final size:71
Alignment explanation
Indices: 40256603--40257135 Score: 980
Period size: 71 Copynumber: 7.5 Consensus size: 71
40256593 TTGAAGTTTG
*
40256603 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAA-AAAAAATTAAATTTTTTTGAGTTATTTTG
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
40256667 ATATTA
66 ATATTA
* *
40256673 TTTGATGTAATAAAATATAAGTTTTATTGATGTAATAAAAATTGAAATTTTTTTGAGTTATTTTG
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
40256738 ATATTA
66 ATATTA
*
40256744 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTGAAATTTTTTTGAGTTATTTTG
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
40256809 ATATTA
66 ATATTA
*
40256815 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTGAAA-TTTTTTGAGTTATTTTG
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
40256879 ATATTA
66 ATATTA
* *
40256885 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAATTCTTTTG
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
40256950 ATATTA
66 ATATTA
40256956 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
40257021 ATATTA
66 ATATTA
*
40257027 TTTGATGTAATAAAATAAAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
40257092 ATATTA
66 ATATTA
40257098 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAA
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAA
40257136 GTTGAAAACC
Statistics
Matches: 450, Mismatches: 11, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
70 103 0.23
71 347 0.77
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (71 bp):
TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
ATATTA
Found at i:40257159 original size:23 final size:23
Alignment explanation
Indices: 40257133--40257266 Score: 223
Period size: 23 Copynumber: 5.8 Consensus size: 23
40257123 ATTGATGTAA
40257133 TAAGTTGAAAACCCTAACCTAAT
1 TAAGTTGAAAACCCTAACCTAAT
40257156 TAAGTTGAAAACCCTAACCTAAT
1 TAAGTTGAAAACCCTAACCTAAT
* * *
40257179 TAAATTAAAAACCCTAACCTATT
1 TAAGTTGAAAACCCTAACCTAAT
40257202 TAAGTTGAAAACCCTAACCTAAT
1 TAAGTTGAAAACCCTAACCTAAT
* *
40257225 TAAGTTGAAAACCCTAACTTATT
1 TAAGTTGAAAACCCTAACCTAAT
40257248 TAAGTTGAAAACCCTAACC
1 TAAGTTGAAAACCCTAACC
40257267 CTAAACTTAA
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 102 1.00
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (23 bp):
TAAGTTGAAAACCCTAACCTAAT
Found at i:40260889 original size:123 final size:123
Alignment explanation
Indices: 40260518--40260877 Score: 589
Period size: 123 Copynumber: 2.9 Consensus size: 123
40260508 CCCAAACAGG
* * *
40260518 CTACTGTAGCAAAAGCGCATCCCCAAGGGTGCGATTTTCACAAA-TTCTTCTCAAATAGCATCCT
1 CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGA-TTTCA-AAATTTCTTCTCAAATAGCATCCT
* *
40260582 GCTAGAAGCGAATTTATACTATTTGCTCAGAAATGTCAAAAAAATTATTTCATCCATGAC
64 GCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCATCCATGAC
* *
40260642 CTACTGTAGCAAGAGCG-ATCCATGAGGGCGCGATTTCAAAATTTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCAAAATTTCTTCTCAAATAGCATCCTGC
*
40260706 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTTAAAAAAATTATTTCATCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCATCCATGAC
*
40260764 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAATTTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCAAAATTTCTTCTCAAATAGCATCCTGC
* *
40260829 TAGAAGCGATTTTATACTATTTGCTCAGAAAGGTCAAAAAAAATATTTC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTC
40260878 TTCCCAGACC
Statistics
Matches: 220, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
121 3 0.01
122 98 0.45
123 103 0.47
124 16 0.07
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.29
Consensus pattern (123 bp):
CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCAAAATTTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCATCCATGAC
Found at i:40267295 original size:20 final size:20
Alignment explanation
Indices: 40267270--40267312 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
40267260 AGGAACTATC
* *
40267270 CTAGAATTAGGGGATTACAA
1 CTAGAATTAGGGAATCACAA
40267290 CTAGAATTAGGGAATCACAA
1 CTAGAATTAGGGAATCACAA
40267310 CTA
1 CTA
40267313 ATTATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (20 bp):
CTAGAATTAGGGAATCACAA
Found at i:40270371 original size:114 final size:113
Alignment explanation
Indices: 40270210--40270418 Score: 364
Period size: 114 Copynumber: 1.8 Consensus size: 113
40270200 AAAATAAGCA
40270210 TTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTTT
1 TTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTTT
**
40270275 TGTTGATTTAGCGGCGTTTTTAAGAAAGCGTCGCTAATGCTCAGGGCT
66 CATTGATTTAGCGGCGTTTTTAAGAAAGCGTCGCTAATGCTCAGGGCT
* *
40270323 TTAGCGGCGTTTTTGAGGAAGCGCCGCCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTT
1 TTAGCGGCGTTTTGGAGAAAGCGCCG-CAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTT
*
40270388 TCATTGATTTAGCGGCGTTTTTGAGAAAGCG
65 TCATTGATTTAGCGGCGTTTTTAAGAAAGCG
40270419 CCGCAAAAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
113 24 0.27
114 66 0.73
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (113 bp):
TTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTTT
CATTGATTTAGCGGCGTTTTTAAGAAAGCGTCGCTAATGCTCAGGGCT
Found at i:40270441 original size:73 final size:73
Alignment explanation
Indices: 40270322--40270459 Score: 240
Period size: 73 Copynumber: 1.9 Consensus size: 73
40270312 TGCTCAGGGC
* *
40270322 TTTAGCGGCGTTTTTGAGGAAGCGCCGCCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
40270387 TTCATTGA
66 TTCATTGA
* *
40270395 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTTAGCCCAACGATGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
40270460 CTCGGGGATT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 61 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
TTCATTGA
Found at i:40270457 original size:187 final size:186
Alignment explanation
Indices: 40270210--40270609 Score: 599
Period size: 187 Copynumber: 2.1 Consensus size: 186
40270200 AAAATAAGCA
* *
40270210 TTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTCT
* ** * * * *
40270275 TGTTGATTTAGCGGCGTTTTTA-AGAAAGCGTCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGA
66 CGGGGATTTAGCGGCGCTTTCATA-AAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTG-
* **
40270339 GG-AAGCGCCGCCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTTTCATTGAT
129 GGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTTTCAGGGAT
* *
40270396 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTTAGCCCAACGATGCCGTTTTGTGAGCTC
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTC
*
40270461 TCGGGGATTTAGTGGCGCTTTCATAAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGG
65 TCGGGGATTTAGCGGCGCTTTCATAAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGG
*
40270526 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTTTCGGGGAT
130 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTTTCAGGGAT
40270583 TTAGCGGCGTTTTT-AGGAAAGCGCCGC
1 TTAGCGGCGTTTTTGA-GAAAGCGCCGC
40270610 TAATGCTCAG
Statistics
Matches: 194, Mismatches: 16, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
186 29 0.15
187 164 0.85
188 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (186 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTCT
CGGGGATTTAGCGGCGCTTTCATAAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGGG
AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTTTCAGGGAT
Found at i:40270470 original size:73 final size:73
Alignment explanation
Indices: 40270314--40270477 Score: 238
Period size: 73 Copynumber: 2.2 Consensus size: 73
40270304 GTCGCTAATG
* * *
40270314 CTCAGGGCTTTAGCGGCGTTTTTGAGGAAGCGCCGCCAAAAAACCTAAGCCCAACGACGCCGTTT
1 CTCAGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTT
40270379 TGTGAGCT
66 TGTGAGCT
* ** * *
40270387 TTCATTGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTTAGCCCAACGATGCCGTTT
1 CTCAGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTT
40270452 TGTGAGCT
66 TGTGAGCT
* *
40270460 CTCGGGGATTTAGTGGCG
1 CTCAGGGATTTAGCGGCG
40270478 CTTTCATAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 78 1.00
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (73 bp):
CTCAGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTT
TGTGAGCT
Found at i:40270513 original size:114 final size:114
Alignment explanation
Indices: 40270395--40270771 Score: 560
Period size: 114 Copynumber: 3.3 Consensus size: 114
40270385 CTTTCATTGA
*
40270395 TTTAGCGGCGTTTTT-GAGAAAGCGCCGCAAAAAAACCTTAGCCCAACGATGCCGTTTTGTGAGC
1 TTTAGCGGCGTTTTTGGA-AAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTGTGAGC
* * * *
40270459 TCTCGGGGATTTAGTGGCGCTTTCATAAAAGCGCCGCTAATGCTCAAGG-C
65 TTTCGGGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTC-AGGAC
* *
40270509 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTGTGAGCT
* *
40270574 TTCGGGGATTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCAGGAC
66 TTCGGGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAGGAC
* * *
40270623 TTTAGCGGCGTTTTTGGCAAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCATTTTCTAAGC
1 TTTAGCGGCGTTTTTGG-AAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTGTGAGC
** **
40270688 TTTCAAGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAGGTT
65 TTTCGGGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAGGAC
*
40270738 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAAAAA
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCAAAAAA
40270772 TATTTTATCT
Statistics
Matches: 239, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
113 3 0.01
114 132 0.55
115 104 0.44
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGGAAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTGTGAGCT
TTCGGGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAGGAC
Found at i:40271045 original size:15 final size:14
Alignment explanation
Indices: 40271016--40271060 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
40271006 CATATTTTAA
40271016 GGTTTAGGG-TGTAT
1 GGTTTAGGGAT-TAT
40271030 GAGTTTAGGGATTAT
1 G-GTTTAGGGATTAT
*
40271045 GGATTAGGGATTAT
1 GGTTTAGGGATTAT
40271059 GG
1 GG
40271061 ATTAAGGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 15 0.54
15 12 0.43
16 1 0.04
ACGTcount: A:0.22, C:0.00, G:0.40, T:0.38
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:40271053 original size:14 final size:14
Alignment explanation
Indices: 40271034--40271064 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
40271024 GTGTATGAGT
40271034 TTAGGGATTATGGA
1 TTAGGGATTATGGA
40271048 TTAGGGATTATGGA
1 TTAGGGATTATGGA
40271062 TTA
1 TTA
40271065 AGGGTTGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:40271350 original size:14 final size:14
Alignment explanation
Indices: 40271316--40271356 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
40271306 ATTTTAAGAT
* *
40271316 TTAGGGAGTATGGAC
1 TTAGGGATTAT-GAA
40271331 TTAGGGATTATGAA
1 TTAGGGATTATGAA
40271345 TTAGGGATTATG
1 TTAGGGATTATG
40271357 GTTTAAGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.29, C:0.02, G:0.34, T:0.34
Consensus pattern (14 bp):
TTAGGGATTATGAA
Found at i:40271385 original size:35 final size:36
Alignment explanation
Indices: 40271345--40271431 Score: 104
Period size: 35 Copynumber: 2.4 Consensus size: 36
40271335 GGATTATGAA
* * * * *
40271345 TTAGGGATTATGGTTTAAGAGT-TGGGATTTAATGT
1 TTAGGGATTAGGGGTTAAGAGTAAGAGATTTAAGGT
*
40271380 TTAGGGGTTAGGGGTTAAGAGTAAGAGATTTAAGGT
1 TTAGGGATTAGGGGTTAAGAGTAAGAGATTTAAGGT
40271416 TTAGGGATTCAGGGGT
1 TTAGGGATT-AGGGGT
40271432 CGAGTTAAGG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 19 0.44
36 18 0.42
37 6 0.14
ACGTcount: A:0.26, C:0.01, G:0.37, T:0.36
Consensus pattern (36 bp):
TTAGGGATTAGGGGTTAAGAGTAAGAGATTTAAGGT
Found at i:40271933 original size:235 final size:231
Alignment explanation
Indices: 40271736--40272326 Score: 766
Period size: 235 Copynumber: 2.4 Consensus size: 231
40271726 AGCAATAGAT
*
40271736 AAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAATTTTAGAATAGCAAATC
1 AAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAA-TTTAGAATAGCAAAAC
40271801 GGCATCATTTTGTTCAAAATGAAAATTTTTTAGCGGCGTCACAAAAACGCCGCTAAAGGTGAGCA
65 GGCATCATTTTGTTCAAAATGAAAATTTTTTAGC-G-GT-------A----GCTAAAGGTGAGCA
40271866 ATAGCGGCGTTTTGTATAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAAATAAAATAAAA
117 ATAGCGGCGTTTTGTATAAAAACGCCACAAAAAATAAATCAATTTATT-AAAAAATAAAATAAAA
40271931 AATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAGTGAAATAGCGGCGTTTTTATA
181 AATTTT-AGCATAACAAAACGGCG-CA---T-TTCAAAGTG--ATA-CGGCGTTTTTATA
*
40271991 AAAAACGCTGCAAAAATAAATCAATTTATAAAAAAAACAAAAT-AAAAAATTTAGAATAGCAAAA
1 AAAAACGCCGCAAAAATAAATCAATTTAT--AAAAAACAAAATAAAAAAATTTAGAATAGCAAAA
40272055 CGGCATCATTTTGTTCAAAATGAAAA-TTTTT-----TAGCTAAAGGTGAGCAATAGCGGCGTTT
64 CGGCATCATTTTGTTCAAAATGAAAATTTTTTAGCGGTAGCTAAAGGTGAGCAATAGCGGCGTTT
40272114 TGTATAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAATAAAATAAAAAATTTTAAGCATA
129 TGTATAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAATAAAATAAAAAATTTT-AGCATA
40272179 ACAAAACGGCGTCATTTTGTTCAAAGTGAAATAGCGGCGTTTTTATA
193 ACAAAACGGCG-CA---T-TTCAAAGTG--ATA-CGGCGTTTTTATA
* *
40272226 AAAAATGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAAATTAGAATAGCAAAACG
1 AAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAATTTAGAATAGCAAAACG
40272291 GCATCATTTTGTTCAAAAT-AAAACTTTTTTAGCGGT
66 GCATCATTTTGTTCAAAATGAAAA-TTTTTTAGCGGT
40272327 GTTTTTTATA
Statistics
Matches: 321, Mismatches: 5, Indels: 35
0.89 0.01 0.10
Matches are distributed among these distances:
233 16 0.05
234 41 0.13
235 108 0.34
236 62 0.19
240 2 0.01
247 1 0.00
254 5 0.02
255 68 0.21
256 6 0.02
257 12 0.04
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (231 bp):
AAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAATTTAGAATAGCAAAACG
GCATCATTTTGTTCAAAATGAAAATTTTTTAGCGGTAGCTAAAGGTGAGCAATAGCGGCGTTTTG
TATAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAATAAAATAAAAAATTTTAGCATAACA
AAACGGCGCATTTCAAAGTGATACGGCGTTTTTATA
Found at i:40271992 original size:107 final size:106
Alignment explanation
Indices: 40271865--40272079 Score: 317
Period size: 107 Copynumber: 2.0 Consensus size: 106
40271855 AAAGGTGAGC
* *
40271865 AATAGCGGCGTTTTGTAT-AAAAACGCCACAAAAAATAAATCAATTTATTAAAAAAATAAAATAA
1 AATAGCGGCGTTTTGTATAAAAAACGCCAC-AAAAATAAATCAATTTATAAAAAAAACAAAATAA
* * *
40271929 AAAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAGTGA
65 AAAA-TTT-AGAATAACAAAACGGCATCATTTTGTTCAAAATGA
**
40271973 AATAGCGGCGTTTT-TATAAAAAACGCTGCAAAAATAAATCAATTTATAAAAAAAACAAAATAAA
1 AATAGCGGCGTTTTGTATAAAAAACGCCACAAAAATAAATCAATTTATAAAAAAAACAAAATAAA
*
40272037 AAATTTAGAATAGCAAAACGGCATCATTTTGTTCAAAATGA
66 AAATTTAGAATAACAAAACGGCATCATTTTGTTCAAAATGA
40272078 AA
1 AA
40272080 ATTTTTTAGC
Statistics
Matches: 98, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
105 33 0.34
106 3 0.03
107 39 0.40
108 23 0.23
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.26
Consensus pattern (106 bp):
AATAGCGGCGTTTTGTATAAAAAACGCCACAAAAATAAATCAATTTATAAAAAAAACAAAATAAA
AAATTTAGAATAACAAAACGGCATCATTTTGTTCAAAATGA
Found at i:40272109 original size:128 final size:130
Alignment explanation
Indices: 40271973--40272209 Score: 356
Period size: 128 Copynumber: 1.8 Consensus size: 130
40271963 TTCAAAGTGA
**
40271973 AATAGCGGCGTTTT-TATAAAAAACGCTGC-AAAAATAAATCAATTTATAAAAAAAACAAAATAA
1 AATAGCGGCGTTTTGTAT-AAAAACGCCACAAAAAATAAATCAATTTAT-AAAAAAACAAAATAA
*
40272036 AAAA-TTT-AGAATAGCAAAACGGCATCATTTTGTTCAAAATGAAAATTTTTTAGCTAAAGGTGA
64 AAAATTTTAAGAATAACAAAACGGCATCATTTTGTTCAAAATGAAAATTTTTTAGCTAAAGGTGA
40272099 GC
129 GC
* *
40272101 AATAGCGGCGTTTTGTATAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAATAAAATAAAA
1 AATAGCGGCGTTTTGTATAAAAACGCCACAAAAAATAAATCAATTTATAAAAAAACAAAATAAAA
* * *
40272166 AATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAGTGAAA
66 AATTTTAAGAATAACAAAACGGCATCATTTTGTTCAAAATGAAA
40272210 TAGCGGCGTT
Statistics
Matches: 97, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
128 40 0.41
129 24 0.25
130 33 0.34
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (130 bp):
AATAGCGGCGTTTTGTATAAAAACGCCACAAAAAATAAATCAATTTATAAAAAAACAAAATAAAA
AATTTTAAGAATAACAAAACGGCATCATTTTGTTCAAAATGAAAATTTTTTAGCTAAAGGTGAGC
Found at i:40272213 original size:107 final size:107
Alignment explanation
Indices: 40272101--40272556 Score: 512
Period size: 105 Copynumber: 4.2 Consensus size: 107
40272091 AAAGGTGAGC
40272101 AATAGCGGCGTTTTGTAT-AAAAACGCCACAAAAAATAAATCAATTTATTAAAAAATAAAATAAA
1 AATAGCGGCGTTTT-TATAAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAATAAAATAAA
* * * *
40272165 AAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAGTGA
65 AAAATTTAAGAATAACAAAACGGCGTCATTTTGTTCAAAATAA
* * *
40272208 AATAGCGGCGTTTTTATAAAAAATGCCGC-AAAAATAAATCAATTTA-TAAAAAACAAAATAAAA
1 AATAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAATAAAATAAAA
* * *
40272271 AAAATT-AGAATAGCAAAACGGCATCATTTTGTTCAAAATAA
66 AAATTTAAGAATAACAAAACGGCGTCATTTTGTTCAAAATAA
* *
40272312 AACTTTTTTAGCGGTGTTTTT-TATAAAAACGCCACAAAAAATAAATTAATTTATTAAAAAAATA
1 AA------TAGCGGCGTTTTTATA-AAAAACGCCACAAAAAATAAATCAATTTATT-AAAAAATA
* * * * *
40272376 AAATAAAAAATTTTAAGCATAATAAAACAGCGTTATTTTGTTCAAAATAA
58 AAATAAAAAAATTTAAGAATAACAAAACGGCGTCATTTTGTTCAAAATAA
* ** *
40272426 AATAGTGGCGTTTTTATAAAAAACGCC-GTAAAAATAAATCAATTTATAAAAAAATAAAATAAAA
1 AATAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAATAAAATAAAA
* * *
40272490 AAATTTAA-AATAGCAAAAAGGTGTCATTTTGTTCAAAATGAAA
66 AAATTTAAGAATAACAAAACGGCGTCATTTTGTTCAAAAT--AA
40272533 AATTATTTGCGGCGTTTTTATAAA
1 AA-TA---GCGGCGTTTTTATAAA
40272557 GCCGCTAAAA
Statistics
Matches: 292, Mismatches: 38, Indels: 34
0.80 0.10 0.09
Matches are distributed among these distances:
104 32 0.11
105 44 0.15
106 43 0.15
107 44 0.15
108 22 0.08
109 4 0.01
110 21 0.07
111 31 0.11
112 1 0.00
113 19 0.07
114 31 0.11
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.30
Consensus pattern (107 bp):
AATAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAATAAAATAAAA
AAATTTAAGAATAACAAAACGGCGTCATTTTGTTCAAAATAA
Found at i:40272493 original size:218 final size:219
Alignment explanation
Indices: 40272103--40272556 Score: 693
Period size: 218 Copynumber: 2.1 Consensus size: 219
40272093 AGGTGAGCAA
*
40272103 TAGCGGCGTTTTGTATAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAATAAAATAAAAAA
1 TAGCGGCGTTTTTTATAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAATAAAATAAAAAA
* * * *
40272168 TTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAGTGAAATAGCGGCGTTTTTATAAAAAATG
66 TTTTAAGCATAACAAAACAGCGTCATTTTGTTCAAAATAAAATAGCGGCGTTTTTATAAAAAACG
* *
40272233 CCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAAA-TTAGAATAGCAAAACGGCATCA
131 CCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAAATTTAAAATAGCAAAAAGGCATCA
* *
40272297 TTTTGTTCAAAAT-AAAACTTTTT
196 TTTTGTTCAAAATGAAAAATTATT
* *
40272320 TAGCGGTGTTTTTTATAAAAACGCCACAAAAAATAAATTAATTTATTAAAAAAATAAAATAAAAA
1 TAGCGGCGTTTTTTATAAAAACGCCACAAAAAATAAATCAATTTATT-AAAAAATAAAATAAAAA
* * *
40272385 ATTTTAAGCATAATAAAACAGCGTTATTTTGTTCAAAATAAAATAGTGGCGTTTTTATAAAAAAC
65 ATTTTAAGCATAACAAAACAGCGTCATTTTGTTCAAAATAAAATAGCGGCGTTTTTATAAAAAAC
* * **
40272450 GCCGTAAAAATAAATCAATTTATAAAAAAATAAAAT-AAAAAAATTTAAAATAGCAAAAAGGTGT
130 GCCGCAAAAATAAATCAATTTAT-AAAAAACAAAATAAAAAAAATTTAAAATAGCAAAAAGGCAT
40272514 CATTTTGTTCAAAATGAAAAATTATT
194 CATTTTGTTCAAAATGAAAAATTATT
40272540 T-GCGGCG-TTTTTATAAA
1 TAGCGGCGTTTTTTATAAA
40272557 GCCGCTAAAA
Statistics
Matches: 214, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
217 44 0.21
218 114 0.53
219 47 0.22
220 9 0.04
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.30
Consensus pattern (219 bp):
TAGCGGCGTTTTTTATAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAATAAAATAAAAAA
TTTTAAGCATAACAAAACAGCGTCATTTTGTTCAAAATAAAATAGCGGCGTTTTTATAAAAAACG
CCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAAATTTAAAATAGCAAAAAGGCATCA
TTTTGTTCAAAATGAAAAATTATT
Found at i:40275501 original size:142 final size:142
Alignment explanation
Indices: 40275245--40275531 Score: 547
Period size: 142 Copynumber: 2.0 Consensus size: 142
40275235 TTGTTTTATA
*
40275245 ATGCAGCATACTCACAGGAAATTTGGATCTGATAATTTCACTGATATTGCAAATTTCCATCTTAA
1 ATGCAGCATACTCACAGGAAATTTGGATCTGATAATTTCACTGATATTGCAAATTTCCATCCTAA
40275310 GTTTGAAATTTAAGTGTCAACTTGTAATATACTCGATAACATTTTGATTGTACTTAGAATAATAG
66 GTTTGAAATTTAAGTGTCAACTTGTAATATACTCGATAACATTTTGATTGTACTTAGAATAATAG
40275375 TGCATAATGGTC
131 TGCATAATGGTC
*
40275387 ATGCAGCATACTCACAGGAAATTTGGATCTGATAATTTCATTGATATTGCAAATTTCCATCCTAA
1 ATGCAGCATACTCACAGGAAATTTGGATCTGATAATTTCACTGATATTGCAAATTTCCATCCTAA
*
40275452 GTTTGAACTTTAAGTGTCAACTTGTAATATACTCGATAACATTTTGATTGTACTTAGAATAATAG
66 GTTTGAAATTTAAGTGTCAACTTGTAATATACTCGATAACATTTTGATTGTACTTAGAATAATAG
40275517 TGCATAATGGTC
131 TGCATAATGGTC
40275529 ATG
1 ATG
40275532 TTCTTTCTTT
Statistics
Matches: 142, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
142 142 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (142 bp):
ATGCAGCATACTCACAGGAAATTTGGATCTGATAATTTCACTGATATTGCAAATTTCCATCCTAA
GTTTGAAATTTAAGTGTCAACTTGTAATATACTCGATAACATTTTGATTGTACTTAGAATAATAG
TGCATAATGGTC
Found at i:40276137 original size:43 final size:43
Alignment explanation
Indices: 40276072--40276341 Score: 283
Period size: 43 Copynumber: 6.3 Consensus size: 43
40276062 GTTATGTTTT
* ** * ** * *
40276072 TAGCGGCGTTTTTGCGAGAAGCGTCGCTAAATATAATGGTCTT
1 TAGCGGCGTTTGTGAAAAAAGCGTCGCTAAAGGTCATGGTCTA
* * * * *
40276115 TAGCGGCCTGTGTGATAAAAGCGTCGATAAAGGTCATGGTTTA
1 TAGCGGCGTTTGTGAAAAAAGCGTCGCTAAAGGTCATGGTCTA
*
40276158 TAGCGGCGTTTGTGATAAAAGCG-CTGCTAAAGGTCATGGTCTA
1 TAGCGGCGTTTGTGAAAAAAGCGTC-GCTAAAGGTCATGGTCTA
* *
40276201 TAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAGGTCATGGTCTA
1 TAGCGGCGTTTGTGAAAAAAGCGTCGCTAAAGGTCATGGTCTA
* ** * *
40276244 TAGCGGCATTTGTGAAAAAAGCACCGTTAAAGGTCATGGCCTA
1 TAGCGGCGTTTGTGAAAAAAGCGTCGCTAAAGGTCATGGTCTA
** ** *
40276287 TAGCGGCGTTTGTG-GGAAAGCGTCGCTAAAGGTCATGACCTT
1 TAGCGGCGTTTGTGAAAAAAGCGTCGCTAAAGGTCATGGTCTA
40276329 TAGCGGCGTTTGT
1 TAGCGGCGTTTGT
40276342 TTCTAAAAAC
Statistics
Matches: 194, Mismatches: 31, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
42 35 0.18
43 158 0.81
44 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAAAAAAGCGTCGCTAAAGGTCATGGTCTA
Found at i:40276356 original size:129 final size:129
Alignment explanation
Indices: 40276107--40276341 Score: 312
Period size: 129 Copynumber: 1.8 Consensus size: 129
40276097 GCTAAATATA
* * * ** **
40276107 ATGGTCTTTAGCGGCCTGTGTGATAAAAGCGTCGATAAAGGTCATGGTTTATAGCGGCGTTTGTG
1 ATGGTCTATAGCGGCATGTGTGAAAAAAGCACCGATAAAGGTCATGGCCTATAGCGGCGTTTGTG
* ** *
40276172 ATAAAAGCGCTGCTAAAGGTCATGGTCTATAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAGGTC
66 AGAAAAGCGCTGCTAAAGGTCATGACCTATAGCGGCGTTTGTAAAAAAAGCGCCGCAAAAGGTC
* *
40276236 ATGGTCTATAGCGGCATTTGTGAAAAAAGCACCGTTAAAGGTCATGGCCTATAGCGGCGTTTGTG
1 ATGGTCTATAGCGGCATGTGTGAAAAAAGCACCGATAAAGGTCATGGCCTATAGCGGCGTTTGTG
* *
40276301 -GGAAAGCG-TCGCTAAAGGTCATGACCTTTAGCGGCGTTTGT
66 AGAAAAGCGCT-GCTAAAGGTCATGACCTATAGCGGCGTTTGT
40276342 TTCTAAAAAC
Statistics
Matches: 91, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
127 1 0.01
128 34 0.37
129 56 0.62
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (129 bp):
ATGGTCTATAGCGGCATGTGTGAAAAAAGCACCGATAAAGGTCATGGCCTATAGCGGCGTTTGTG
AGAAAAGCGCTGCTAAAGGTCATGACCTATAGCGGCGTTTGTAAAAAAAGCGCCGCAAAAGGTC
Found at i:40278126 original size:28 final size:28
Alignment explanation
Indices: 40278094--40278165 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
40278084 TAATGAGATT
*
40278094 AGCACTAAGTGTGCGAGTTTAATGGTAA
1 AGCACTAAGTGTGCGAGTTTAATGATAA
* * *
40278122 AGCACTAAGTGTGCGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTTTAATGATAA
40278150 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
40278166 ACTTATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTAATGATAA
Found at i:40280992 original size:23 final size:23
Alignment explanation
Indices: 40280943--40280994 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
40280933 TGTTCGAGAT
40280943 TTTAA-TTTTCTTTTAAATTTTA
1 TTTAATTTTTCTTTTAAATTTTA
*
40280965 -ATAATTTTTCCTTTT-AATTTTA
1 TTTAATTTTT-CTTTTAAATTTTA
40280987 TTTAATTT
1 TTTAATTT
40280995 CTTTGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 3 0.12
22 11 0.44
23 11 0.44
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTAATTTTTCTTTTAAATTTTA
Found at i:40281796 original size:16 final size:16
Alignment explanation
Indices: 40281775--40281839 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
40281765 CGCTGTATTG
40281775 GAATAGAGGCGTAATA
1 GAATAGAGGCGTAATA
*
40281791 GAATAGAGGCGTAATG
1 GAATAGAGGCGTAATA
* *
40281807 GAATAGAGGTGTAATG
1 GAATAGAGGCGTAATA
40281823 GAATAGAGGCGTAATA
1 GAATAGAGGCGTAATA
40281839 G
1 G
40281840 CAAATCAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.40, C:0.05, G:0.35, T:0.20
Consensus pattern (16 bp):
GAATAGAGGCGTAATA
Found at i:40281879 original size:45 final size:44
Alignment explanation
Indices: 40281816--40281906 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 44
40281806 GGAATAGAGG
40281816 TGTAATGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATC-ATGTGTTTGGTTGAA
* *
40281861 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAA
40281905 TG
1 TG
40281907 GAATAGAGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.42
45 24 0.56
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAA
Found at i:40282088 original size:16 final size:16
Alignment explanation
Indices: 40282051--40282092 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
40282041 TTAATCATAT
*
40282051 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
40282067 TT-AAATATATTATAA
1 TTAAAATATATTATAA
40282082 TTAAAATATAT
1 TTAAAATATAT
40282093 AATTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:40282099 original size:14 final size:14
Alignment explanation
Indices: 40282060--40282101 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
40282050 TTTAAACATA
*
40282060 ATTATTATTAAATAT
1 ATTATAATTAAA-AT
40282075 ATTATAATTAAAAT
1 ATTATAATTAAAAT
40282089 A-TATAATTTAAAA
1 ATTATAA-TTAAAA
40282102 AATTCTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 5 0.20
14 9 0.36
15 11 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTATAATTAAAAT
Found at i:40282209 original size:16 final size:16
Alignment explanation
Indices: 40282166--40282211 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
40282156 ACTATAAAAG
*
40282166 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
40282182 ATTATT-AAATATATT
1 ATAATTAAAATATATT
40282197 ATAATTAAAATATAT
1 ATAATTAAAATATAT
40282212 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:40282241 original size:16 final size:15
Alignment explanation
Indices: 40282216--40282245 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
40282206 ATATATAATT
40282216 TAATAATATTCTTAA
1 TAATAATATTCTTAA
40282231 TAATCAATATTCTTA
1 TAAT-AATATTCTTA
40282246 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATAATATTCTTAA
Found at i:40282263 original size:120 final size:120
Alignment explanation
Indices: 40282049--40282374 Score: 575
Period size: 120 Copynumber: 2.7 Consensus size: 120
40282039 ATTTAATCAT
40282049 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAA-AAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
40282113 ATTAATATTCTTATATGAATTTACTCAAATCATAACATATGATACTATAAAAGATA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAACATACGATACTATAAAAGATA
*
40282169 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAATATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* * *
40282234 TCAATATTCTTATATGAATTTACTCAAATCATAATATACGATACTATAAAATATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAACATACGATACTATAAAAGATA
*
40282289 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
40282354 TTAATATTCTTATAT-AATTTA
66 TTAATATTCTTATATGAATTTA
40282375 ATAAAACAAT
Statistics
Matches: 197, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
119 52 0.26
120 145 0.74
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAACATACGATACTATAAAAGATA
Found at i:40282329 original size:16 final size:16
Alignment explanation
Indices: 40282285--40282357 Score: 55
Period size: 16 Copynumber: 4.6 Consensus size: 16
40282275 TACTATAAAA
*
40282285 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
40282301 TATTATT-AAATATAT
1 TATAATTAAAATATAT
40282316 TATAATTAAAATATAT
1 TATAATTAAAATATAT
*
40282332 AATTTAA-TAAAAT-TAT
1 --TATAATTAAAATATAT
40282348 TAATAATTAA
1 T-ATAATTAA
40282358 TATTCTTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
14 5 0.11
15 13 0.28
16 18 0.39
17 6 0.13
18 4 0.09
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:40282331 original size:18 final size:18
Alignment explanation
Indices: 40282310--40282357 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
40282300 TTATTATTAA
40282310 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
40282328 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
40282345 -TAT-TAATAATTAA
1 ATATATTATAATTAA
40282358 TATTCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:40288353 original size:42 final size:42
Alignment explanation
Indices: 40288304--40288394 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
40288294 TTTCTTGTTA
40288304 ATTTTT-AATATTTAATTGT-TATTTTTAACTAATAAATATATT
1 ATTTTTAAAT-TTTAATT-TATATTTTTAACTAATAAATATATT
* * * * *
40288346 ATTTTTAAATTTTTATTTATATTTTTAATTAATAACTCTTTT
1 ATTTTTAAATTTTAATTTATATTTTTAACTAATAAATATATT
40288388 ATTTTTA
1 ATTTTTA
40288395 TAAATAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 1 0.02
42 38 0.90
43 3 0.07
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (42 bp):
ATTTTTAAATTTTAATTTATATTTTTAACTAATAAATATATT
Found at i:40291636 original size:104 final size:104
Alignment explanation
Indices: 40291472--40291671 Score: 305
Period size: 104 Copynumber: 1.9 Consensus size: 104
40291462 CACGTACATA
* * * **
40291472 TCCTTGGTCGTGTGGTCCTAAATCATAAACAGTGAGTTACACGCCCTGGACATATGCCCATGTCC
1 TCCTTGGTCGTGTGGTCCTAAATCATAAACAGTAAGTTACACGACCTGGACACACACCCATGTCC
* *
40291537 TTGCCTGT-TTGGCTCACACGGCCTGGGCACACACTTATG
66 TTACCTGTGTT-GCTCACACGGCCTAGGCACACACTTATG
40291576 TCCTTGG-CAGTGTGGTCCTAAATCATAAACAGTAAGTTACACGACCTGGACACACACCCATGTC
1 TCCTTGGTC-GTGTGGTCCTAAATCATAAACAGTAAGTTACACGACCTGGACACACACCCATGTC
40291640 CTTACCTGTGTTGCTCACACGGCCTAGGCACA
65 CTTACCTGTGTTGCTCACACGGCCTAGGCACA
40291672 TGCCCATGTC
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
103 1 0.01
104 84 0.97
105 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.26
Consensus pattern (104 bp):
TCCTTGGTCGTGTGGTCCTAAATCATAAACAGTAAGTTACACGACCTGGACACACACCCATGTCC
TTACCTGTGTTGCTCACACGGCCTAGGCACACACTTATG
Found at i:40291681 original size:104 final size:105
Alignment explanation
Indices: 40291472--40291695 Score: 303
Period size: 104 Copynumber: 2.2 Consensus size: 105
40291462 CACGTACATA
* * * **
40291472 TCCTTGGTC-GTGTGGTCCTAAATCATAAACAGTGAGTTACACGCCCTGGACATATGCCCATGTC
1 TCCTTGGTCAGTGTGGTCCTAAATCATAAACAGTAAGTTACACGACCTGGACACACACCCATGTC
* * **
40291536 CTTGCCTGTTTGGCTCACACGGCCTGGGCACACACTTATG
66 CTTACCTGTTTGGCTCACACGGCCTAGGCACACACCCATG
40291576 TCCTTGG-CAGTGTGGTCCTAAATCATAAACAGTAAGTTACACGACCTGGACACACACCCATGTC
1 TCCTTGGTCAGTGTGGTCCTAAATCATAAACAGTAAGTTACACGACCTGGACACACACCCATGTC
**
40291640 CTTACCTGTGTT-GCTCACACGGCCTAGGCACATGCCCATG
66 CTTACCTGT-TTGGCTCACACGGCCTAGGCACACACCCATG
*
40291680 TCCCTGGTCA-TGTGGT
1 TCCTTGGTCAGTGTGGT
40291696 GTCAATAGCC
Statistics
Matches: 105, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
103 1 0.01
104 100 0.95
105 4 0.04
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.27
Consensus pattern (105 bp):
TCCTTGGTCAGTGTGGTCCTAAATCATAAACAGTAAGTTACACGACCTGGACACACACCCATGTC
CTTACCTGTTTGGCTCACACGGCCTAGGCACACACCCATG
Found at i:40293679 original size:10 final size:10
Alignment explanation
Indices: 40293666--40293708 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
40293656 GGAATGGTAC
*
40293666 AGAGCAGAGT
1 AGAGCAGAAT
*
40293676 AGAGCAGAGT
1 AGAGCAGAAT
* *
40293686 AGAACAGAAC
1 AGAGCAGAAT
40293696 AGAGCAGAAT
1 AGAGCAGAAT
40293706 AGA
1 AGA
40293709 TCATGTATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.49, C:0.12, G:0.33, T:0.07
Consensus pattern (10 bp):
AGAGCAGAAT
Found at i:40294618 original size:104 final size:104
Alignment explanation
Indices: 40294446--40294677 Score: 306
Period size: 104 Copynumber: 2.2 Consensus size: 104
40294436 AGTCACACAA
* *
40294446 CCTGGGCACACGCCCATGTCCCTAATCGTGTGGCTCTAAATCATAAACAGTGAGTTACACGGCCT
1 CCTGGGCACACACCCATGTCCCTAATCGTGTGGCTCTAAATCATAAACAGTGAGTTACACGACCT
** * *
40294511 GGACACAGGCCTATGTCTTTGCCCGTGTGGCTCACACGG
66 GGACACACACCCATGTCCTTGCCCGTGTGGCTCACACGG
* ** * *
40294550 CCTGGGCACACACCCATGTTCCT-GGCTGTGTGG-TCCTAAATCATAAATAGTGAGTTACATGAC
1 CCTGGGCACACACCCATGTCCCTAATC-GTGTGGCT-CTAAATCATAAACAGTGAGTTACACGAC
40294613 CTGGACACACACCCATGTCCTTGCCCGTGTGGCTCACACGG
64 CTGGACACACACCCATGTCCTTGCCCGTGTGGCTCACACGG
* **
40294654 TCTGGGCACACGTCCATGTCCCTA
1 CCTGGGCACACACCCATGTCCCTA
40294678 GCCATATGAC
Statistics
Matches: 110, Mismatches: 15, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
103 2 0.02
104 108 0.98
ACGTcount: A:0.21, C:0.31, G:0.24, T:0.24
Consensus pattern (104 bp):
CCTGGGCACACACCCATGTCCCTAATCGTGTGGCTCTAAATCATAAACAGTGAGTTACACGACCT
GGACACACACCCATGTCCTTGCCCGTGTGGCTCACACGG
Found at i:40311325 original size:143 final size:143
Alignment explanation
Indices: 40311119--40311421 Score: 428
Period size: 143 Copynumber: 2.1 Consensus size: 143
40311109 GCCACTAATT
** * *
40311119 TTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAATACAGCGAATCTTATTTCCCTGGCATTGCAG
1 TTATCTCCCTGAAGTTGCAACAGAACAGACTGAAGACAGCGAATCTTATTTCCCTGGCATTGCAG
*
40311184 TGGAATAGATTAAAGCTACAAATTAT-GCCAGATCTTATCTTCCTGAACTGGCAGTAGAGCAGAT
66 TGGAATAGATTAAAGCTACAAATTATAG-CAGATCTTATCTTCCTAAACTGGCAGTAGAGCAGAT
40311248 TGAAGCCACCAACC
130 TGAAGCCACCAACC
* * * * * *
40311262 TTATCTCCCTAAAGTTGCAACGGAACAGATTGAAGATAGCGAATCTTATTTCTCTGGCGTTGCAG
1 TTATCTCCCTGAAGTTGCAACAGAACAGACTGAAGACAGCGAATCTTATTTCCCTGGCATTGCAG
* * * *
40311327 TGGAATAGATTAAAGCTACAAATTATAGCGGATCTTATCTTCCTAAAGTTGCAGTAGAGCATATT
66 TGGAATAGATTAAAGCTACAAATTATAGCAGATCTTATCTTCCTAAACTGGCAGTAGAGCAGATT
**
40311392 GAAGCCACCAGTC
131 GAAGCCACCAACC
*
40311405 TTATCTCTCTGAAGTTG
1 TTATCTCCCTGAAGTTG
40311422 TGGTGGAGTA
Statistics
Matches: 140, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
143 139 0.99
144 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (143 bp):
TTATCTCCCTGAAGTTGCAACAGAACAGACTGAAGACAGCGAATCTTATTTCCCTGGCATTGCAG
TGGAATAGATTAAAGCTACAAATTATAGCAGATCTTATCTTCCTAAACTGGCAGTAGAGCAGATT
GAAGCCACCAACC
Found at i:40311999 original size:19 final size:20
Alignment explanation
Indices: 40311963--40312000 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
40311953 TAATACAACA
*
40311963 AACCCAAATTACCAAACCCT
1 AACCCAAATTAACAAACCCT
40311983 AACCCAAA-TAACAAACCC
1 AACCCAAATTAACAAACCC
40312001 AAATGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.50, C:0.39, G:0.00, T:0.11
Consensus pattern (20 bp):
AACCCAAATTAACAAACCCT
Found at i:40313416 original size:20 final size:19
Alignment explanation
Indices: 40313381--40313437 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
40313371 TTATTCATGA
*
40313381 TGTTAGTTAGTCTATTTAGT
1 TGTTAGTTA-TTTATTTAGT
*
40313401 TGTTAGTTATTTTATTTATT
1 TGTTAGTTA-TTTATTTAGT
*
40313421 TGCTTATTTATTTATTT
1 TG-TTAGTTATTTATTT
40313438 TGATTGTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 26 0.81
21 6 0.19
ACGTcount: A:0.19, C:0.04, G:0.12, T:0.65
Consensus pattern (19 bp):
TGTTAGTTATTTATTTAGT
Found at i:40314240 original size:19 final size:18
Alignment explanation
Indices: 40314203--40314242 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
40314193 AATAATGATA
* *
40314203 TATATAATATATTTTTAT
1 TATATAATACATATTTAT
40314221 TATATAATTACATATTTAT
1 TATATAA-TACATATTTAT
40314240 TAT
1 TAT
40314243 TTTATTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TATATAATACATATTTAT
Found at i:40314321 original size:17 final size:17
Alignment explanation
Indices: 40314288--40314321 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
40314278 AAGATGAATT
* *
40314288 AAAAATATTTTTTTTAA
1 AAAAATATGTTTATTAA
40314305 AAAAATATGTTTATTAA
1 AAAAATATGTTTATTAA
40314322 TTATTTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
AAAAATATGTTTATTAA
Found at i:40315042 original size:19 final size:20
Alignment explanation
Indices: 40315010--40315058 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
40315000 TTTAAAAATA
* * *
40315010 TAAAAATTATTATAATTTTT
1 TAAAAAGTATTATAAATTAT
40315030 TAAAAAGTA-TATAAATTAT
1 TAAAAAGTATTATAAATTAT
40315049 TAAAAA-TATT
1 TAAAAAGTATT
40315059 TTTCAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.60
20 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TAAAAAGTATTATAAATTAT
Found at i:40318405 original size:23 final size:22
Alignment explanation
Indices: 40318354--40318405 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
40318344 CCTCGTCTTT
*
40318354 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
40318376 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
40318399 TTCTTTT
1 TTCTTTT
40318406 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:40323001 original size:21 final size:22
Alignment explanation
Indices: 40322971--40323011 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
40322961 TAATTAAATG
40322971 TTAAACTAAATAA-TTAAAATAT
1 TTAAACTAAA-AATTTAAAATAT
40322993 TTAAA-TAAAAATTTAAAAT
1 TTAAACTAAAAATTTAAAAT
40323012 TATAAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 11 0.61
22 5 0.28
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAACTAAAAATTTAAAATAT
Found at i:40345437 original size:140 final size:140
Alignment explanation
Indices: 40345184--40345487 Score: 495
Period size: 140 Copynumber: 2.2 Consensus size: 140
40345174 CACTAGACTC
* *
40345184 AAAAGTGTCAGCCCAAAAGTGTTGGCATAGTACTGAGCAAAGTCGAATCTTATTTAACCGTTGCC
1 AAAAGTGTCAGCCCAAAAGTGTCGGCATAGTACTGAGCAAAGCCGAATCTTATTTAACCGTTGCC
*
40345249 TTAGGCATGCATATCTCAACCTTTATACAAAGAGTTGGGCAAAGCGTGTGTTGGCAAGTCTATCC
66 TTAGGCATGCATATCTCAACCCTTATACAAAGAGTTGGGCAAAGCGTGTGTTGGCAAGTCTATCC
*
40345314 CAACATTTA-
131 CAACACTTAG
* *
40345323 AGAAAGTGTC-GACCCAAAAGTGTCGGCATAGTACTGGGCAAAGCCGACTCTTATTTAACCGTTG
1 A-AAAGTGTCAG-CCCAAAAGTGTCGGCATAGTACTGAGCAAAGCCGAATCTTATTTAACCGTTG
40345387 CCTTAGGCATGCATATCTCAACCCTTATACAAAGAGTTGGGCAAAGCGTGTGTTGGCAAGTCTAT
64 CCTTAGGCATGCATATCTCAACCCTTATACAAAGAGTTGGGCAAAGCGTGTGTTGGCAAGTCTAT
40345452 CCCAACACTTAG
129 CCCAACACTTAG
** *
40345464 AAAAGTGTTTGCCCAAAAATGTCG
1 AAAAGTGTCAGCCCAAAAGTGTCG
40345488 TCTTAGGACT
Statistics
Matches: 153, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
139 2 0.01
140 149 0.97
141 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (140 bp):
AAAAGTGTCAGCCCAAAAGTGTCGGCATAGTACTGAGCAAAGCCGAATCTTATTTAACCGTTGCC
TTAGGCATGCATATCTCAACCCTTATACAAAGAGTTGGGCAAAGCGTGTGTTGGCAAGTCTATCC
CAACACTTAG
Found at i:40345812 original size:23 final size:23
Alignment explanation
Indices: 40345769--40345821 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
40345759 TTTTTATTTT
*
40345769 TATATTTTTAAAATCTATTATTA
1 TATATTTTTAAAATATATTATTA
40345792 TATATTTTTAAAA-ATA-T-TTA
1 TATATTTTTAAAATATATTATTA
*
40345812 TGTATTTTTA
1 TATATTTTTA
40345822 TATATTTCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 12 0.43
21 1 0.04
22 2 0.07
23 13 0.46
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
TATATTTTTAAAATATATTATTA
Found at i:40346305 original size:14 final size:14
Alignment explanation
Indices: 40346286--40346363 Score: 50
Period size: 14 Copynumber: 5.1 Consensus size: 14
40346276 TTGATTGAGA
40346286 GTAAAATATTTTCT
1 GTAAAATATTTTCT
40346300 GTAAAATGA-TTTCT
1 GTAAAAT-ATTTTCT
*
40346314 GGAAAATGTTTTACTTTTCT
1 GTAAAA-----TA-TTTTCT
*
40346334 GTAAAATGATTTACT
1 GTAAAAT-ATTTTCT
*
40346349 GGAAAATATTTTCT
1 GTAAAATATTTTCT
40346363 G
1 G
40346364 GTGTTTGATT
Statistics
Matches: 50, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
14 24 0.48
15 13 0.26
16 1 0.02
18 1 0.02
19 1 0.02
20 10 0.20
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (14 bp):
GTAAAATATTTTCT
Found at i:40346334 original size:20 final size:20
Alignment explanation
Indices: 40346309--40346348 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
40346299 TGTAAAATGA
*
40346309 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
40346329 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
40346349 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:40346337 original size:34 final size:35
Alignment explanation
Indices: 40346294--40346360 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
40346284 GAGTAAAATA
*
40346294 TTTTCTGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
40346328 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
40346361 CTGGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:40347878 original size:20 final size:21
Alignment explanation
Indices: 40347842--40347882 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
40347832 AATTTTATTT
40347842 ATAAATTCTATAATTTTAAAA
1 ATAAATTCTATAATTTTAAAA
*
40347863 ATAAATTTTA-AATTTTAAAA
1 ATAAATTCTATAATTTTAAAA
40347883 GAATTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
ATAAATTCTATAATTTTAAAA
Found at i:40353060 original size:23 final size:23
Alignment explanation
Indices: 40353017--40353061 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
40353007 AAAATTTGTC
*
40353017 AAATTCAAAACTTGAATTAAAAG
1 AAATTCAAAACTTCAATTAAAAG
*
40353040 AAATTCACAAC-TCAATATAAAA
1 AAATTCAAAACTTCAAT-TAAAA
40353062 ACAATTCCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.58, C:0.13, G:0.04, T:0.24
Consensus pattern (23 bp):
AAATTCAAAACTTCAATTAAAAG
Found at i:40354743 original size:19 final size:19
Alignment explanation
Indices: 40354719--40354772 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
40354709 GTAAATAATT
40354719 AATATTTTAAAATTAAAAA
1 AATATTTTAAAATTAAAAA
*
40354738 AATATTTTAAAAATAAAAA
1 AATATTTTAAAATTAAAAA
40354757 AA-ATTTATTAAAATTA
1 AATA-TT-TTAAAATTA
40354773 TTATCAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 1 0.03
19 22 0.71
20 8 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AATATTTTAAAATTAAAAA
Found at i:40354756 original size:20 final size:20
Alignment explanation
Indices: 40354719--40354769 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
40354709 GTAAATAATT
*
40354719 AATATTTT-AAAATTAAAAA
1 AATATTTTAAAAATAAAAAA
40354738 AATATTTTAAAAATAAAAAA
1 AATATTTTAAAAATAAAAAA
40354758 AAT-TTATTAAAA
1 AATATT-TTAAAA
40354770 TTATTATCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AATATTTTAAAAATAAAAAA
Found at i:40355926 original size:24 final size:24
Alignment explanation
Indices: 40355891--40355936 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
40355881 ATATTATATT
*
40355891 TTATTAATATTTAAT-AATTTACA
1 TTATTAAAATTTAATGAATTTACA
*
40355914 TTATATAAAATTTGATGAATTTA
1 TTAT-TAAAATTTAATGAATTTA
40355937 TTTATTCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 9 0.47
25 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (24 bp):
TTATTAAAATTTAATGAATTTACA
Found at i:40364554 original size:20 final size:19
Alignment explanation
Indices: 40364529--40364580 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
40364519 GCAACTTAAT
40364529 TTTATTTTATTTATTTTCC
1 TTTATTTTATTTATTTTCC
* * *
40364548 ATTTATTTGAGTAATTTTCC
1 -TTTATTTTATTTATTTTCC
40364568 TTTAATTTTATTT
1 TTT-ATTTTATTT
40364581 TTATTGTTAG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.21, C:0.08, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTATTTTATTTATTTTCC
Found at i:40368186 original size:46 final size:46
Alignment explanation
Indices: 40368130--40368220 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
40368120 CAAAGAAAAG
*
40368130 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGCATATGATGA
1 ACCTCAACCCACTATCAAGAATGATAGGAACCTTGGCATATGATGA
* *
40368176 ACCTCAACCCACTATCAAGGATGATAGGAACCTTGGTATATGATG
1 ACCTCAACCCACTATCAAGAATGATAGGAACCTTGGCATATGATG
40368221 GACGCCACAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (46 bp):
ACCTCAACCCACTATCAAGAATGATAGGAACCTTGGCATATGATGA
Found at i:40374244 original size:33 final size:33
Alignment explanation
Indices: 40374207--40374312 Score: 122
Period size: 33 Copynumber: 3.2 Consensus size: 33
40374197 ATAACTGGAC
*
40374207 TATGGCATCCTGATGATAAGATCATAGCTGGGT
1 TATGGCATCCTGATGATAAGACCATAGCTGGGT
* * * *
40374240 TATGGCATCTTGATGATAAGAGCATAGCTGAGC
1 TATGGCATCCTGATGATAAGACCATAGCTGGGT
* * * * *
40374273 TATGACATTCTGATGATAAGACCACAACTAGGT
1 TATGGCATCCTGATGATAAGACCATAGCTGGGT
40374306 TATGGCA
1 TATGGCA
40374313 CTATGAACGT
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (33 bp):
TATGGCATCCTGATGATAAGACCATAGCTGGGT
Found at i:40377766 original size:59 final size:60
Alignment explanation
Indices: 40377695--40377811 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 60
40377685 ATCACTTTAA
* * ** * *
40377695 TATTAAATTAATATAATATTTATC-AAGATAAATGTTAGATTAGATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCTAAGATAAACATTAAATTAAATTTAATATTAAATCT
*
40377754 TATTAAAATAATAGAATGTTTATCTATAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTATC--TAAGATAAACATTAAATTAAATTTAATATTAA
40377812 GATAATCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 21 0.44
62 27 0.56
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (60 bp):
TATTAAAATAATAGAATATTTATCTAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:40379528 original size:16 final size:16
Alignment explanation
Indices: 40379507--40379537 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
40379497 CTATGTATGC
40379507 AAAATATAAAAGACAA
1 AAAATATAAAAGACAA
40379523 AAAATATAAAAGACA
1 AAAATATAAAAGACA
40379538 TAGTAGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.13
Consensus pattern (16 bp):
AAAATATAAAAGACAA
Found at i:40383799 original size:23 final size:23
Alignment explanation
Indices: 40383765--40383808 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
40383755 ACCATGTTGA
*
40383765 GACGTCATATGTCGCGTCGTCGG
1 GACGTCAGATGTCGCGTCGTCGG
40383788 GACGTCAGATGTCGCGTCGTC
1 GACGTCAGATGTCGCGTCGTC
40383809 AGACGTCGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.14, C:0.27, G:0.34, T:0.25
Consensus pattern (23 bp):
GACGTCAGATGTCGCGTCGTCGG
Found at i:40395974 original size:23 final size:23
Alignment explanation
Indices: 40395947--40396068 Score: 156
Period size: 23 Copynumber: 5.3 Consensus size: 23
40395937 ATAAGTGCCA
* *
40395947 CACTGTTATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
40395970 GACTGATATGTAGTCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
40395993 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
40396016 CACTGATATGTAACCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
40396039 CACTGA-ATTGTAGCCGAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
40396062 CACTGAT
1 CACTGAT
40396069 CAATAACACT
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
22 1 0.01
23 82 0.99
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:40396014 original size:46 final size:46
Alignment explanation
Indices: 40395954--40396068 Score: 185
Period size: 46 Copynumber: 2.5 Consensus size: 46
40395944 CCACACTGTT
* * **
40395954 ATGTAGCCAAAGCTACGACTGATATGTAGTCGTAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGATATGTAACCGTAGCTACCACTGAA
40396000 ATGTAGCCGAAGCTACCACTGATATGTAACCGTAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGATATGTAACCGTAGCTACCACTGAA
*
40396046 TTGTAGCCGAAGCTACCACTGAT
1 ATGTAGCCGAAGCTACCACTGAT
40396069 CAATAACACT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTGATATGTAACCGTAGCTACCACTGAA
Found at i:40396308 original size:18 final size:17
Alignment explanation
Indices: 40396282--40396320 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
40396272 ATTTTCCTTC
40396282 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
40396299 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
40396317 CACA
1 CACA
40396321 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:40406410 original size:13 final size:13
Alignment explanation
Indices: 40406389--40406424 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
40406379 TAGAGAGAAC
40406389 AAAATAAAAAATA
1 AAAATAAAAAATA
* *
40406402 TATATAAAAAATA
1 AAAATAAAAAATA
40406415 AAAATAAAAA
1 AAAATAAAAA
40406425 CAGAATTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:40412024 original size:20 final size:20
Alignment explanation
Indices: 40411999--40412037 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
40411989 TCTTGAAGAA
40411999 CTTTAACAATCTAGATGTAC
1 CTTTAACAATCTAGATGTAC
*
40412019 CTTTAACAATCTGGATGTA
1 CTTTAACAATCTAGATGTA
40412038 GATGCATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (20 bp):
CTTTAACAATCTAGATGTAC
Found at i:40413438 original size:21 final size:21
Alignment explanation
Indices: 40413402--40413444 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
40413392 ATCTTGAGGT
* *
40413402 AACTTCTTGTTGAGTTAGGGC
1 AACTTCTTGATAAGTTAGGGC
*
40413423 AACTTCTTGATAAGTTGGGGC
1 AACTTCTTGATAAGTTAGGGC
40413444 A
1 A
40413445 GCCGCTTGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (21 bp):
AACTTCTTGATAAGTTAGGGC
Found at i:40416610 original size:35 final size:35
Alignment explanation
Indices: 40416564--40416637 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
40416554 CATGGCAGAC
*
40416564 AATAACTAAAGAAATCCAAACCTGCCATACACTTT
1 AATAACCAAAGAAATCCAAACCTGCCATACACTTT
* *
40416599 AATAACCAAAGAAATCCAAACTTGTCATACACTTT
1 AATAACCAAAGAAATCCAAACCTGCCATACACTTT
40416634 AATA
1 AATA
40416638 CAAACAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.24
Consensus pattern (35 bp):
AATAACCAAAGAAATCCAAACCTGCCATACACTTT
Found at i:40417859 original size:23 final size:23
Alignment explanation
Indices: 40417832--40417897 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
40417822 ATATTTAAGT
40417832 ATATTTTATTTATAATTTTTTGA
1 ATATTTTATTTATAATTTTTTGA
* * *
40417855 ATATTTTATTAATGATTTTTATGC
1 ATATTTTATTTATAATTTTT-TGA
40417879 AT-TTTTATTT-TAATTTTTT
1 ATATTTTATTTATAATTTTTT
40417898 AAAAAAAATC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 7 0.19
23 25 0.68
24 4 0.11
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.67
Consensus pattern (23 bp):
ATATTTTATTTATAATTTTTTGA
Found at i:40424835 original size:40 final size:40
Alignment explanation
Indices: 40424752--40424974 Score: 213
Period size: 40 Copynumber: 5.6 Consensus size: 40
40424742 TTGAATGCTG
* * * * *
40424752 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* * *
40424792 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
* **
40424832 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
**
40424872 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-ATTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-TACTAAA
* * *
40424912 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* *
40424951 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
40424975 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 34 0.21
40 114 0.72
41 10 0.06
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:40424889 original size:80 final size:79
Alignment explanation
Indices: 40424752--40424976 Score: 242
Period size: 80 Copynumber: 2.8 Consensus size: 79
40424742 TTGAATGCTG
* * * * * *
40424752 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTG-ATAAATCCGGGTTAAG-TCCCGAAGGCAT
40424815 TTGTGCGAGA-TACTAAA
63 TTGTGCGA-ATTACTAAA
* *
40424832 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTT
**
40424897 GTGCGAATTGTTAAA
65 GTGCGAATTACTAAA
* * * *
40424912 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTT-ACTAAATCCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGA-TAAATCCGGGTTAAGTCCCGAAGGCATTT
40424976 G
65 G
40424977 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
79 37 0.30
80 81 0.65
81 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAATTACTAAA
Found at i:40424994 original size:79 final size:80
Alignment explanation
Indices: 40424827--40425009 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
40424817 GTGCGAGATA
** *
40424827 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
** **
40424892 CATTCGTGCGAATTG
66 CATTCGAACGAAGAG
* * * *
40424907 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
* *
40424971 CATTTGAACGAGGAG
66 CATTCGAACGAAGAG
* *
40424986 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
40425010 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
CATTCGAACGAAGAG
Found at i:40424994 original size:119 final size:120
Alignment explanation
Indices: 40424752--40425009 Score: 281
Period size: 119 Copynumber: 2.2 Consensus size: 120
40424742 TTGAATGCTG
* * * * *
40424752 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCTTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCATT
* ** ** *
40424817 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
* * * *
40424872 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTG-TTAAATCCGGGTTATG-TCCCGAAGG-CA
1 TCCGGGTTAAGTCCCGAAGGC-TTCGTGCGAAGTGAATAAATCCGGATTAAGAT-CCGAAGGCCA
* * * * *
40424934 TTGTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATA
64 TTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
*
40424991 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
40425010 TACGTGATTT
Statistics
Matches: 115, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
118 15 0.13
119 51 0.44
120 39 0.34
121 10 0.09
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCATT
GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
Found at i:40435770 original size:14 final size:14
Alignment explanation
Indices: 40435753--40435779 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
40435743 AAAAAATATT
40435753 AAAAAAAAAGAAAG
1 AAAAAAAAAGAAAG
40435767 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
40435780 ACAAACCAAA
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:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAAAG
Found at i:40436797 original size:90 final size:86
Alignment explanation
Indices: 40436683--40436885 Score: 280
Period size: 90 Copynumber: 2.3 Consensus size: 86
40436673 AGGCTCTACT
** * * *
40436683 CTTTTTTTTGCACTCAATTAGGTACTTAAACTTTCAAAATGTATCAAAAAGGCCCTCAAACTTTT
1 CTTTTTTTTGCACTCAATT-GGTACTTAAACTGCCAAAATGCATCAAAAAGACCCTCAAAATTTT
40436748 TCAAAAAAAGCAATTAAGCCCCTG
65 TC--AAAAAGCAATTAAGCCCCTG
*
40436772 CTTTTTTTTGGCACTCAATTGGGTACTTGAACTGCCAAAATGCATCAAAAAGACCCTCAAAATTT
1 CTTTTTTTT-GCACTCAATT-GGTACTTAAACTGCCAAAATGCATCAAAAAGACCCTCAAAATTT
* *
40436837 TTCAGAAAGCAATTAAGTCCCTG
64 TTCAAAAAGCAATTAAGCCCCTG
*
40436860 CTTTCTTTTGCACTCAATTGGTACTT
1 CTTTTTTTTGCACTCAATTGGTACTT
40436886 TAACAGTTGA
Statistics
Matches: 103, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
86 7 0.07
87 10 0.10
88 26 0.25
89 9 0.09
90 51 0.50
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (86 bp):
CTTTTTTTTGCACTCAATTGGTACTTAAACTGCCAAAATGCATCAAAAAGACCCTCAAAATTTTT
CAAAAAGCAATTAAGCCCCTG
Found at i:40436983 original size:60 final size:61
Alignment explanation
Indices: 40436887--40437007 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 61
40436877 TTGGTACTTT
* * * *
40436887 AACAGTTGACCGTTAAAGTTAATTGCCCTAATTTTTTTTAGTTAAAGCCA-CACGTGTCAC
1 AACAGTTGACCGTTAAAGTTAACTGCCCTAAGTTTTTTCAGTTAAAGCCATCACATGTCAC
*
40436947 AACAGTTGACTGTTAAAGTTAACTGCTCCT-AGTTTTTTCAGTTAAAGCCATCACATGTCAC
1 AACAGTTGACCGTTAAAGTTAACTGC-CCTAAGTTTTTTCAGTTAAAGCCATCACATGTCAC
40437008 GACCACAGCG
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
60 42 0.78
61 12 0.22
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.35
Consensus pattern (61 bp):
AACAGTTGACCGTTAAAGTTAACTGCCCTAAGTTTTTTCAGTTAAAGCCATCACATGTCAC
Found at i:40437103 original size:22 final size:21
Alignment explanation
Indices: 40437078--40437136 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
40437068 AAAAGTTATT
*
40437078 AAATTTTAATAAAAAATATTAA
1 AAATTATAATAAAAAATA-TAA
*
40437100 AAATTAGAAT-AAAAATATAA
1 AAATTATAATAAAAAATATAA
**
40437120 AAATCGTAA-AAAAAATA
1 AAATTATAATAAAAAATA
40437137 AAAGAGTGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 16 0.52
21 7 0.23
22 8 0.26
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (21 bp):
AAATTATAATAAAAAATATAA
Found at i:40437179 original size:29 final size:28
Alignment explanation
Indices: 40437145--40437237 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 28
40437135 TAAAAGAGTG
*
40437145 TAAAATTTTATATAAATAGTAATAAATTA
1 TAAAATTTTATA-AAATAGTAAAAAATTA
* * *
40437174 TAAAATATATAGAAATATAGAAAAAAATTA
1 TAAAAT-TTTATAAA-ATAGTAAAAAATTA
* *
40437204 TAAAATTTTATAAAGTCGTAAGAAAATTA
1 TAAAATTTTATAAAATAGTAA-AAAATTA
40437233 TAAAA
1 TAAAA
40437238 ATGTAAAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
28 4 0.08
29 26 0.50
30 22 0.42
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.33
Consensus pattern (28 bp):
TAAAATTTTATAAAATAGTAAAAAATTA
Found at i:40437243 original size:19 final size:18
Alignment explanation
Indices: 40437110--40437278 Score: 74
Period size: 18 Copynumber: 8.8 Consensus size: 18
40437100 AAATTAGAAT
40437110 AAAAA-TATAAAAATCGTA
1 AAAAATTATAAAAAT-GTA
*
40437128 AAAAA-AATAAAAGAGTGTA
1 AAAAATTATAAAA-A-TGTA
** *
40437147 AAATTTTATATAAATAGTA
1 AAAAATTATAAAAAT-GTA
* *
40437166 ATAAATTATAAAATATATA
1 AAAAATTATAAAA-ATGTA
* * *
40437185 GAAATATAGAAAAAAAT-TA
1 -AAAAAT-TATAAAAATGTA
* * *
40437204 TAAAATTTTATAAAGTCGTA
1 AAAAATTATA-AAAAT-GTA
40437224 AGAAAATTATAAAAATGTA
1 A-AAAATTATAAAAATGTA
* *
40437243 AAAAAATATAAAATTTGTAAA
1 AAAAATTATAAAA-ATGT--A
40437264 AAAAATTATAAAAAT
1 AAAAATTATAAAAAT
40437279 TATCGTACCA
Statistics
Matches: 110, Mismatches: 27, Indels: 26
0.67 0.17 0.16
Matches are distributed among these distances:
17 1 0.01
18 31 0.28
19 31 0.28
20 21 0.19
21 26 0.24
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.29
Consensus pattern (18 bp):
AAAAATTATAAAAATGTA
Found at i:40438185 original size:45 final size:45
Alignment explanation
Indices: 40438117--40438207 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
40438107 TTCCTTTTTC
*
40438117 TGTTGTTAGTTTCTTTCGATTTTGAATCAAGGTGGTTGAATTGTT
1 TGTTGTAAGTTTCTTTCGATTTTGAATCAAGGTGGTTGAATTGTT
*
40438162 TGTTGTAAGTTTCTTTCGGTTTTGAATCAAGGTGGTTGAATTGTT
1 TGTTGTAAGTTTCTTTCGATTTTGAATCAAGGTGGTTGAATTGTT
40438207 T
1 T
40438208 TCGAAGTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.18, C:0.07, G:0.25, T:0.51
Consensus pattern (45 bp):
TGTTGTAAGTTTCTTTCGATTTTGAATCAAGGTGGTTGAATTGTT
Found at i:40438768 original size:98 final size:98
Alignment explanation
Indices: 40438597--40438774 Score: 223
Period size: 98 Copynumber: 1.8 Consensus size: 98
40438587 GGGATTTAAG
* * * *
40438597 CAGACCGTGTGTTGTGGTCGTATGTAGCACACGATCGTGTAGGATTATGTAGCCTATGTGGCTAG
1 CAGACCGTGCGTTGTGGTCGTATGTAGCACACGATCGTGTAGGATTATGTAGCCCACGTGACTAG
40438662 GCTATGTGAGACATTCGGCCGTGTGAGTCATTA
66 GCTATGTGAGACATTCGGCCGTGTGAGTCATTA
* * * * * * *
40438695 CAGACCGTGCGTTGTGGTCGTGTGTAGCACAC-AGTTGTGTGGGATTGTGTAGCCCGCGTGATTG
1 CAGACCGTGCGTTGTGGTCGTATGTAGCACACGA-TCGTGTAGGATTATGTAGCCCACGTGACTA
* *
40438759 GGCTGTGTGAGTCATT
65 GGCTATGTGAGACATT
40438775 ACAAACCATG
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
97 1 0.02
98 65 0.98
ACGTcount: A:0.17, C:0.17, G:0.34, T:0.31
Consensus pattern (98 bp):
CAGACCGTGCGTTGTGGTCGTATGTAGCACACGATCGTGTAGGATTATGTAGCCCACGTGACTAG
GCTATGTGAGACATTCGGCCGTGTGAGTCATTA
Found at i:40440883 original size:126 final size:125
Alignment explanation
Indices: 40440642--40440923 Score: 392
Period size: 126 Copynumber: 2.2 Consensus size: 125
40440632 TTATTTTGAG
**
40440642 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAAGATGCTATCAGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTGATACCAAGATGCTATCAGAGAAGAAATTGT
* * *
40440706 GAAATCGTGCCCTCGTGGACGCCATTTCGGCACAGTTGGTCATGTCAGAAATAATTTTTTT
65 GAAATAGCGCCCTCGTGGACGCCATTTCGGCACAGTTGGTCATGTCAGAAATAATTATTTT
* *
40440767 TTTACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTAT-ATGAGAAGAAATTG
1 TTGACG-TTTCTGAGCAAATAGTATAAAATCGCTGATACCAAGATGCTATCA-GAGAAGAAATTG
* *
40440831 TGAAATAGCGCCCTCGTGGACGCGATTTC-GCTACAGTTGGTTATGT-AGGAAATAATTATTTT
64 TGAAATAGCGCCCTCGTGGACGCCATTTCGGC-ACAGTTGGTCATGTCA-GAAATAATTATTTT
* *
40440893 TTGACGTTTCTGAGCAAATAGTGTCAAATCG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCG
40440924 TGCCCTCGTG
Statistics
Matches: 140, Mismatches: 12, Indels: 10
0.86 0.07 0.06
Matches are distributed among these distances:
125 32 0.23
126 107 0.76
127 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTGATACCAAGATGCTATCAGAGAAGAAATTGTG
AAATAGCGCCCTCGTGGACGCCATTTCGGCACAGTTGGTCATGTCAGAAATAATTATTTT
Found at i:40443016 original size:14 final size:15
Alignment explanation
Indices: 40442999--40443032 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
40442989 AATATTTATC
40442999 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
40443013 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
40443028 TAAAA
1 TAAAA
40443033 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:40443154 original size:20 final size:18
Alignment explanation
Indices: 40443123--40443172 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
40443113 GCCATTGTTG
**
40443123 AAAATA-TTAAAAATTTA
1 AAAATATTTAAAAAAATA
40443140 AAAATTATTTTAAAAAAATA
1 AAAA-TA-TTTAAAAAAATA
40443160 AAAATATTTAAAA
1 AAAATATTTAAAA
40443173 TTTTCTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.14
18 9 0.32
19 2 0.07
20 13 0.46
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATATTTAAAAAAATA
Found at i:40443193 original size:29 final size:30
Alignment explanation
Indices: 40443131--40443188 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
40443121 TGAAAATATT
40443131 AAAA-ATTTAAAAATTATTTTAAAAAAATA
1 AAAATATTTAAAAATTATTTTAAAAAAATA
*
40443160 AAAATATTT-AAAATTTTCTTTAAAAAAAT
1 AAAATATTTAAAAATTAT-TTTAAAAAAAT
40443189 GAAATTGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (30 bp):
AAAATATTTAAAAATTATTTTAAAAAAATA
Found at i:40443297 original size:52 final size:52
Alignment explanation
Indices: 40443225--40443324 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 52
40443215 TATGGAGTTG
* * * *
40443225 AGAGATTTTTTGAAGGAAATTGTGAGGATTTTGGAAGGAATTTAAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTTAAGAGTTTA
* *
40443277 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTTGAAGGAATTTGAGAG
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTTAAGAG
40443325 AATTTTTGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTTAAGAGTTTA
Found at i:40443304 original size:22 final size:22
Alignment explanation
Indices: 40443277--40443345 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
40443267 TAAGAGTTTA
*
40443277 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
*
40443299 AGAGAATTTTTGAAGGAATTTG
1 AGAGAATTTTTGAAGGAAATTG
*
40443321 AGAGAATTTTTGAATGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
40443343 AGA
1 AGA
40443346 TGGGATTTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.32
Consensus pattern (22 bp):
AGAGAATTTTTGAAGGAAATTG
Found at i:40443810 original size:20 final size:20
Alignment explanation
Indices: 40443787--40443832 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
40443777 TTAATTTTAC
*
40443787 TTTAAATTT-TTTTTGAAAAT
1 TTTAAATTTATTATT-AAAAT
40443807 TTT-AATTTATTATTAAAAT
1 TTTAAATTTATTATTAAAAT
40443826 TTTAAAT
1 TTTAAAT
40443833 CTAAACTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTAAATTTATTATTAAAAT
Found at i:40443823 original size:31 final size:31
Alignment explanation
Indices: 40443766--40443828 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
40443756 TCTCCAAAGC
*
40443766 TTTTGAAAATTTTAATTTTACTTTAAATTTT
1 TTTTGAAAATTTTAATTTTACTTTAAAATTT
*
40443797 TTTTGAAAATTTTAA-TTTATTATTAAAATTT
1 TTTTGAAAATTTTAATTTTACT-TTAAAATTT
40443828 T
1 T
40443829 AAATCTAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (31 bp):
TTTTGAAAATTTTAATTTTACTTTAAAATTT
Found at i:40445687 original size:29 final size:29
Alignment explanation
Indices: 40445641--40445721 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 29
40445631 TTAGACCATG
*
40445641 GACCTTGGACCCTAGATCTTGAAACCCTA
1 GACCATGGACCCTAGATCTTGAAACCCTA
* * *
40445670 GACCATGGACTCTGGATCTTGAAACCTTA
1 GACCATGGACCCTAGATCTTGAAACCCTA
* *
40445699 GACCATGGACCCTCGACCTTGAA
1 GACCATGGACCCTAGATCTTGAA
40445722 CTAGGGTCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (29 bp):
GACCATGGACCCTAGATCTTGAAACCCTA
Found at i:40445786 original size:28 final size:27
Alignment explanation
Indices: 40445722--40445809 Score: 79
Period size: 28 Copynumber: 3.2 Consensus size: 27
40445712 CGACCTTGAA
* * *
40445722 CTAGGGTCTAGGGTTCAAGTTTAGGGT
1 CTAGGGTCCAAGGTTCAAGTTCAGGGT
* *
40445749 -TCAGGATCCATGGTTCAAGATTCAGGGT
1 CT-AGGGTCCAAGGTTCAAG-TTCAGGGT
* *
40445777 CTAGGGTCCAAGGTTCAAGGTCGAGAGT
1 CTAGGGTCCAAGGTTCAAGTTC-AGGGT
40445805 CTAGG
1 CTAGG
40445810 ATTCAGGTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
26 1 0.02
27 16 0.33
28 31 0.63
29 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.34, T:0.27
Consensus pattern (27 bp):
CTAGGGTCCAAGGTTCAAGTTCAGGGT
Found at i:40445788 original size:21 final size:21
Alignment explanation
Indices: 40445764--40445816 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
40445754 ATCCATGGTT
* *
40445764 CAAGATTCAGGGTCTAGGGTC
1 CAAGATTCAGGGTCGAGAGTC
* *
40445785 CAAGGTTCAAGGTCGAGAGTC
1 CAAGATTCAGGGTCGAGAGTC
* *
40445806 TAGGATTCAGG
1 CAAGATTCAGG
40445817 TTAAAAAAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.34, T:0.23
Consensus pattern (21 bp):
CAAGATTCAGGGTCGAGAGTC
Found at i:40458985 original size:43 final size:41
Alignment explanation
Indices: 40458918--40459069 Score: 178
Period size: 43 Copynumber: 3.5 Consensus size: 41
40458908 GGCAGCGTTT
* *
40458918 TTTTTCACATAAATGCCGCTAAAGAACATGACCTTTAGTGACGC
1 TTTTTCAC--AAACGCCGCTAAAGAACATGACCTTTAGCGAC-C
*
40458962 TTTTATCACAAACGCCGCTAAAGATCATGACCTTTAGCGGCACC
1 TTTT-TCACAAACGCCGCTAAAGAACATGACCTTTAGC-G-ACC
* *
40459006 TTTTTCACAAATGCCGCTAAAGAACATGACCTTTAGCGACATT
1 TTTTTCACAAACGCCGCTAAAGAACATGACCTTTAGCGAC--C
*
40459049 TTTTTCACAAACACCGCTAAA
1 TTTTTCACAAACGCCGCTAAA
40459070 AGTACCGTTC
Statistics
Matches: 95, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 76 0.80
44 10 0.11
45 6 0.06
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (41 bp):
TTTTTCACAAACGCCGCTAAAGAACATGACCTTTAGCGACC
Found at i:40463171 original size:12 final size:12
Alignment explanation
Indices: 40463156--40463181 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
40463146 ATCATCCTCT
40463156 TCATCAGATTCA
1 TCATCAGATTCA
40463168 TCATCAGATTCA
1 TCATCAGATTCA
40463180 TC
1 TC
40463182 CATCGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:40464913 original size:9 final size:9
Alignment explanation
Indices: 40464899--40465012 Score: 104
Period size: 9 Copynumber: 12.1 Consensus size: 9
40464889 TAAGTATAAA
40464899 TAAGTTATG
1 TAAGTTATG
40464908 TAAGTTATG
1 TAAGTTATG
* *
40464917 ATATGATATATA
1 -TAAG-T-TATG
40464929 TAAGTTAT-
1 TAAGTTATG
*
40464937 TGAGTTATG
1 TAAGTTATG
40464946 TAAGTTATG
1 TAAGTTATG
*
40464955 TGAGTTATG
1 TAAGTTATG
40464964 TAAGTTATG
1 TAAGTTATG
* * *
40464973 ATATGATACATA
1 -TAAG-T-TATG
40464985 TAAGTTATG
1 TAAGTTATG
40464994 TAAGTTATG
1 TAAGTTATG
40465003 TAAGTTATG
1 TAAGTTATG
40465012 T
1 T
40465013 GAGTAATGAA
Statistics
Matches: 85, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
8 7 0.08
9 57 0.67
10 8 0.09
11 8 0.09
12 5 0.06
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:40464934 original size:30 final size:30
Alignment explanation
Indices: 40464893--40465002 Score: 138
Period size: 30 Copynumber: 3.8 Consensus size: 30
40464883 TATTTATAAG
*
40464893 TATAAATAAGTTATGTAAGTTATGATATGA
1 TATATATAAGTTATGTAAGTTATGATATGA
* *
40464923 TATATATAAGTTAT-TGAGTTATG-TAAG-
1 TATATATAAGTTATGTAAGTTATGATATGA
* *
40464950 T-TATGTGAGTTATGTAAGTTATGATATGA
1 TATATATAAGTTATGTAAGTTATGATATGA
*
40464979 TACATATAAGTTATGTAAGTTATG
1 TATATATAAGTTATGTAAGTTATG
40465003 TAAGTTATGT
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
26 10 0.15
27 9 0.14
28 6 0.09
29 9 0.14
30 32 0.48
ACGTcount: A:0.37, C:0.01, G:0.19, T:0.43
Consensus pattern (30 bp):
TATATATAAGTTATGTAAGTTATGATATGA
Found at i:40464962 original size:56 final size:57
Alignment explanation
Indices: 40464901--40465016 Score: 207
Period size: 56 Copynumber: 2.1 Consensus size: 57
40464891 AGTATAAATA
* *
40464901 AGTTATGTAAGTTATGATATGATATATATAAGTTAT-TGAGTTATGTAAGTTATGTG
1 AGTTATGTAAGTTATGATATGATACATATAAGTTATGTAAGTTATGTAAGTTATGTG
40464957 AGTTATGTAAGTTATGATATGATACATATAAGTTATGTAAGTTATGTAAGTTATGTG
1 AGTTATGTAAGTTATGATATGATACATATAAGTTATGTAAGTTATGTAAGTTATGTG
40465014 AGT
1 AGT
40465017 AATGAATTTG
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 35 0.61
57 22 0.39
ACGTcount: A:0.34, C:0.01, G:0.22, T:0.43
Consensus pattern (57 bp):
AGTTATGTAAGTTATGATATGATACATATAAGTTATGTAAGTTATGTAAGTTATGTG
Found at i:40465153 original size:120 final size:120
Alignment explanation
Indices: 40465004--40465602 Score: 991
Period size: 120 Copynumber: 5.0 Consensus size: 120
40464994 TAAGTTATGT
* *
40465004 AAGTTATGTGAGTAATGAATTTGAAATATAGGTTACATATCCATACTAATATATGTTATATATTA
1 AAGTTAT-T-AGTAATGAATTTGAAATATAGGTTATATATCCATACTAATATAGGTTATATATTA
* *
40465069 AAAATATAGGTTTTAATAATTAAAATATAATATTTATAATTATGTATAAAATTTAAA
64 AAAATATAGGTTTTAATATTTAAAATATAATATTTATAATTATGTTTAAAATTTAAA
*
40465126 AAGTTATTAGTAATGAATTTGAAATATAGGTAATATATCCATACTAATATAGGTTATATATTAAA
1 AAGTTATTAGTAATGAATTTGAAATATAGGTTATATATCCATACTAATATAGGTTATATATTAAA
* *
40465191 AATATAGGTTTTAATATTTAAAATATAATATTTATAATTATGTATAAAATTGAAA
66 AATATAGGTTTTAATATTTAAAATATAATATTTATAATTATGTTTAAAATTTAAA
** * *
40465246 ATTTTATTAGTAATGAATTTGAAATATAGGTAATATATTCATACTAATATAGGTTATATATTAAA
1 AAGTTATTAGTAATGAATTTGAAATATAGGTTATATATCCATACTAATATAGGTTATATATTAAA
* **
40465311 AATATAGGTTTTAATATTTAAAATATAAAATAAATAATTATGTTTAAAATTTAAA
66 AATATAGGTTTTAATATTTAAAATATAATATTTATAATTATGTTTAAAATTTAAA
*
40465366 AAGTTATTAGTAATGAATTTGAAATATAGGTTATATATCCATACTAATATACGTTATATATTAAA
1 AAGTTATTAGTAATGAATTTGAAATATAGGTTATATATCCATACTAATATAGGTTATATATTAAA
* *
40465431 AATATAGGTTTTAATATTTAAAATATAATATTTTTAATTATTTTTAAAATTTAAA
66 AATATAGGTTTTAATATTTAAAATATAATATTTATAATTATGTTTAAAATTTAAA
40465486 AAGTTATTAGTAATGAATTTGAAATATAGGTTATATATCCATACTTAATATAGGTTATATATTAA
1 AAGTTATTAGTAATGAATTTGAAATATAGGTTATATATCCATAC-TAATATAGGTTATATATTAA
* * *
40465551 AAATATAGGTTTTAATATTTAAAATATAATATATGTAATTATTTTTAAAATT
65 AAATATAGGTTTTAATATTTAAAATATAATATTTATAATTATGTTTAAAATT
40465603 GCATAGGAAT
Statistics
Matches: 450, Mismatches: 26, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
120 373 0.83
121 70 0.16
122 7 0.02
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.43
Consensus pattern (120 bp):
AAGTTATTAGTAATGAATTTGAAATATAGGTTATATATCCATACTAATATAGGTTATATATTAAA
AATATAGGTTTTAATATTTAAAATATAATATTTATAATTATGTTTAAAATTTAAA
Found at i:40465196 original size:20 final size:21
Alignment explanation
Indices: 40465171--40465217 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
40465161 TATCCATACT
40465171 AATATAGGTTAT-ATATTAAA
1 AATATAGGTTATAATATTAAA
* *
40465191 AATATAGGTTTTAATATTTAA
1 AATATAGGTTATAATATTAAA
40465212 AATATA
1 AATATA
40465218 ATATTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (21 bp):
AATATAGGTTATAATATTAAA
Found at i:40465333 original size:21 final size:20
Alignment explanation
Indices: 40465267--40465337 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 20
40465257 AATGAATTTG
*
40465267 AAATATAGGTAATATATTCATA
1 AAATATAGGTTATATATT-A-A
*
40465289 CTAATATAGGTTATATATTAA
1 -AAATATAGGTTATATATTAA
* *
40465310 AAATATAGGTTTTAATATTTA
1 AAATATAGGTTAT-ATATTAA
40465331 AAATATA
1 AAATATA
40465338 AAATAAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 11 0.26
21 14 0.33
22 1 0.02
23 16 0.38
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (20 bp):
AAATATAGGTTATATATTAA
Found at i:40465557 original size:20 final size:21
Alignment explanation
Indices: 40465532--40465578 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
40465522 ATCCATACTT
40465532 AATATAGGTTAT-ATATTAAA
1 AATATAGGTTATAATATTAAA
* *
40465552 AATATAGGTTTTAATATTTAA
1 AATATAGGTTATAATATTAAA
40465573 AATATA
1 AATATA
40465579 ATATATGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (21 bp):
AATATAGGTTATAATATTAAA
Found at i:40468060 original size:23 final size:24
Alignment explanation
Indices: 40468034--40468098 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 24
40468024 ACAAAAGTAA
40468034 TTAAATCCTAAAACCATAAAA-CC
1 TTAAATCCTAAAACCATAAAACCC
*
40468057 TTAAATCCTAAATCC-TAAAACCC
1 TTAAATCCTAAAACCATAAAACCC
* *
40468080 ATAAACCCT-AAACCATAAA
1 TTAAATCCTAAAACCATAAA
40468099 CACTATACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 9 0.25
23 27 0.75
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.22
Consensus pattern (24 bp):
TTAAATCCTAAAACCATAAAACCC
Found at i:40468086 original size:30 final size:30
Alignment explanation
Indices: 40468035--40468091 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
40468025 CAAAAGTAAT
*
40468035 TAAATCCTAAAACCATAAAACCTTAAATCC
1 TAAATCCTAAAACCATAAAACCCTAAATCC
40468065 TAAATCCTAAAACCCAT-AAACCCTAAA
1 TAAATCCTAAAA-CCATAAAACCCTAAA
40468092 CCATAAACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (30 bp):
TAAATCCTAAAACCATAAAACCCTAAATCC
Found at i:40468133 original size:21 final size:21
Alignment explanation
Indices: 40468082--40468133 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
40468072 TAAAACCCAT
*
40468082 AAACCCTAAACCATAAACACT
1 AAACCCTAAACCATAAACACC
* **
40468103 ATACATTAAACCATAAACACC
1 AAACCCTAAACCATAAACACC
40468124 AAACCCTAAA
1 AAACCCTAAA
40468134 ATCTTAAACT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (21 bp):
AAACCCTAAACCATAAACACC
Found at i:40468605 original size:115 final size:115
Alignment explanation
Indices: 40468368--40468613 Score: 300
Period size: 115 Copynumber: 2.1 Consensus size: 115
40468358 GGCATTTTTA
* * * *
40468368 TCAAAAA-CGCCGTTAATTCCACTAAAGCTCAACAACAAACGACGTCGTTTTCTCAAATTTTTTG
1 TCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACAAAAAACGAAGTCGTTTTCTCAAATTTTTTG
* * * * *
40468432 CGATGTTTCTAAAAACATGCCGCTAATGCTTGATCTATTGCGGAGTTTGT
66 CGATATTTCTAAAAAAACGCCGCTAATGCTTGATCTATAGCGGAGTTTGC
* *
40468482 TGAAAAAGCGCCGCTAATGCCACTAATGCTCAACAAAAAACGAAGTCGTTTTGCTCAAATTTTTT
1 TCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACAAAAAACGAAGTCGTTTT-CTCAAATTTTTT
* * * *
40468547 GCGGTATTT-TACAAAAAACGCCGCTAATTCTTTATCTATAGCGGCGTTT-C
65 GCGATATTTCTA-AAAAAACGCCGCTAATGCTTGATCTATAGCGGAGTTTGC
* *
40468597 TCAGAAAGCACCGCTAA
1 TCAAAAAGCGCCGCTAA
40468614 AACTCAATCT
Statistics
Matches: 111, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
114 6 0.05
115 55 0.50
116 50 0.45
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (115 bp):
TCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACAAAAAACGAAGTCGTTTTCTCAAATTTTTTG
CGATATTTCTAAAAAAACGCCGCTAATGCTTGATCTATAGCGGAGTTTGC
Found at i:40468651 original size:40 final size:40
Alignment explanation
Indices: 40468580--40468674 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
40468570 CTAATTCTTT
*
40468580 ATCTATAGCGGCGTTTCTCAGAAAGCACCGCTAAAACTCA
1 ATCTATTGCGGCGTTTCTCAGAAAGCACCGCTAAAACTCA
** * ** *
40468620 ATCTATTGCGGCGTTTCTCAGTTAGCGCCGCTAATGCTCG
1 ATCTATTGCGGCGTTTCTCAGAAAGCACCGCTAAAACTCA
*
40468660 ATCTATTGTGGCGTT
1 ATCTATTGCGGCGTT
40468675 CTTTAAAAGG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (40 bp):
ATCTATTGCGGCGTTTCTCAGAAAGCACCGCTAAAACTCA
Found at i:40468725 original size:195 final size:196
Alignment explanation
Indices: 40468450--40468830 Score: 559
Period size: 195 Copynumber: 1.9 Consensus size: 196
40468440 CTAAAAACAT
* * * * *
40468450 GCCGCTAATGCTTGATCTATTGCGGAGTTTGTTGAAAAAGCGCCGCTAATGCCACTAATGCTCAA
1 GCCGCTAATGCTCGATCTATTGCGGAGTTTGTTGAAAAAGCGCCACTAAAGCCAATAAAGCTCAA
* * *
40468515 CAAAAAACGAAGTCGTTTTGCTCAAATTTTTTGCGGTATTTTACAAAAAACGCCGCTAATTCTTT
66 CAAAAAACAAAGTCGTTTTGCTCAAATTTTTTGCGGCATTTTACAAAAAACGCCGCTAATTCTTG
40468580 ATCTATAGCGGCGTTTCTCAGAAAGCACCGCTAAAACTCAATCTATTGCGGCGTTTCTCAGTTAG
131 ATCTATAGCGGCGTTTCTCAGAAAGCACCGCTAAAACTCAATCTATTGCGGCGTTTCTCAGTTAG
40468645 C
196 C
* * *
40468646 GCCGCTAATGCTCGATCTATTGTGGCGTTCT-TT-AAAAGGCGCCACTAAAGCCAATAAAGCTCA
1 GCCGCTAATGCTCGATCTATTGCGGAGTT-TGTTGAAAAAGCGCCACTAAAGCCAATAAAGCTCA
* * * *
40468709 ACAAAAAACAAAGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTACATAAAGCGCCGCTAATTCTT
65 ACAAAAAACAAAGTCGTTTTGCTCAAATTTTTTGCGGCATTTTACAAAAAACGCCGCTAATTCTT
* * * * *
40468774 GATCTATAGCGGCGTTTCTCAGAAAGCGCTGCTAAAGCTCGATCTATTGCGGTGTTT
130 GATCTATAGCGGCGTTTCTCAGAAAGCACCGCTAAAACTCAATCTATTGCGGCGTTT
40468831 TTTAAAAAGC
Statistics
Matches: 164, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
195 135 0.82
196 28 0.17
197 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (196 bp):
GCCGCTAATGCTCGATCTATTGCGGAGTTTGTTGAAAAAGCGCCACTAAAGCCAATAAAGCTCAA
CAAAAAACAAAGTCGTTTTGCTCAAATTTTTTGCGGCATTTTACAAAAAACGCCGCTAATTCTTG
ATCTATAGCGGCGTTTCTCAGAAAGCACCGCTAAAACTCAATCTATTGCGGCGTTTCTCAGTTAG
C
Found at i:40468760 original size:155 final size:155
Alignment explanation
Indices: 40468620--40468989 Score: 555
Period size: 155 Copynumber: 2.4 Consensus size: 155
40468610 CTAAAACTCA
** * * *
40468620 ATCTATTGCGGCGTTTCTCAGTTAGCGCCGCTAATGCTCGATCTATTGTGGCGTTCTTTAAAAGG
1 ATCTATTGCGGCGTTTCTCAGAAAGCGCCGCTAAAGCTCGATCTATTGCGGCGTTCTTTAAAAAG
40468685 CGCCACTAAAGCCAATAAAGCTCAACAAAAAACAAAGTCGTTTTGCTCAACTTTTTTGCGGCGTT
66 CGCCACTAAAGCCAATAAAGCTCAACAAAAAACAAAGTCGTTTTGCTCAACTTTTTTGCGGCGTT
40468750 TTACATAAAGCGCCGCTAATTCTTG
131 TTACATAAAGCGCCGCTAATTCTTG
* * * *
40468775 ATCTATAGCGGCGTTTCTCAGAAAGCGCTGCTAAAGCTCGATCTATTGCGGTGTTTTTTAAAAAG
1 ATCTATTGCGGCGTTTCTCAGAAAGCGCCGCTAAAGCTCGATCTATTGCGGCGTTCTTTAAAAAG
* *
40468840 CGCCACTAAAGCCAATAAAGCTCAACAAAAAACGAAGTCGTTTTGCTCAACTTTTTTGCGGTGTT
66 CGCCACTAAAGCCAATAAAGCTCAACAAAAAACAAAGTCGTTTTGCTCAACTTTTTTGCGGCGTT
40468905 TTACATAAAGCGCCGCTAATTCTTG
131 TTACATAAAGCGCCGCTAATTCTTG
* * * * * *
40468930 ATCTATTGCGGCGCTTTTTGA-AAAGCACCGCTAATA-CTTGATCTTTTGCGGCGTTTTTTA
1 ATCTATTGCGGCG-TTTCTCAGAAAGCGCCGCTAA-AGCTCGATCTATTGCGGCGTTCTTTA
40468990 TTCAAACACC
Statistics
Matches: 194, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
155 188 0.97
156 6 0.03
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (155 bp):
ATCTATTGCGGCGTTTCTCAGAAAGCGCCGCTAAAGCTCGATCTATTGCGGCGTTCTTTAAAAAG
CGCCACTAAAGCCAATAAAGCTCAACAAAAAACAAAGTCGTTTTGCTCAACTTTTTTGCGGCGTT
TTACATAAAGCGCCGCTAATTCTTG
Found at i:40468818 original size:40 final size:40
Alignment explanation
Indices: 40468742--40468851 Score: 105
Period size: 40 Copynumber: 2.8 Consensus size: 40
40468732 CAACTTTTTT
* ** *
40468742 GCGGCGTTTTACATAAAGCGCCGCTAATTCTTGATCTATA
1 GCGGCGTTTTACAGAAAGCGCCGCTAAAGCTCGATCTATA
* *
40468782 GCGGCGTTTCT-CAGAAAGCGCTGCTAAAGCTCGATCTATT
1 GCGGCGTTT-TACAGAAAGCGCCGCTAAAGCTCGATCTATA
* ** * *
40468822 GCGGTGTTTTTTAAAAAGCGCCACTAAAGC
1 GCGGCGTTTTACAGAAAGCGCCGCTAAAGC
40468852 CAATAAAGCT
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
39 1 0.02
40 55 0.96
41 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (40 bp):
GCGGCGTTTTACAGAAAGCGCCGCTAAAGCTCGATCTATA
Found at i:40468955 original size:40 final size:40
Alignment explanation
Indices: 40468911--40468988 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
40468901 TGTTTTACAT
* *
40468911 AAAGCGCCGCTAATTCTTGATCTATTGCGGCGCTTTTTGA
1 AAAGCACCGCTAATACTTGATCTATTGCGGCGCTTTTTGA
* *
40468951 AAAGCACCGCTAATACTTGATCTTTTGCGGCGTTTTTT
1 AAAGCACCGCTAATACTTGATCTATTGCGGCGCTTTTT
40468989 ATTCAAACAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (40 bp):
AAAGCACCGCTAATACTTGATCTATTGCGGCGCTTTTTGA
Found at i:40477171 original size:23 final size:23
Alignment explanation
Indices: 40477145--40477188 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
40477135 AAAATGGAAA
40477145 GAAATAATATATAT-AAATAATCT
1 GAAA-AATATATATGAAATAATCT
*
40477168 GAAAAATATATGTGAAATAAT
1 GAAAAATATATATGAAATAAT
40477189 TAAATGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (23 bp):
GAAAAATATATATGAAATAATCT
Found at i:40479977 original size:50 final size:50
Alignment explanation
Indices: 40479874--40479967 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
40479864 GTATATATAT
*
40479874 TTATGAAAATAAAATACATATATAGACATGTATATAGATATGTATAAAAA
1 TTATGAAAATAAAATACATATATAGACATGTATATAGATATATATAAAAA
* **
40479924 TTATGAAATATAAAA-ATATATATAGGTATGTATAT-G-TATATATA
1 TTATGAAA-ATAAAATACATATATAGACATGTATATAGATATATATA
40479968 GATAGATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 7 0.18
49 1 0.03
50 25 0.64
51 6 0.15
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (50 bp):
TTATGAAAATAAAATACATATATAGACATGTATATAGATATATATAAAAA
Found at i:40481819 original size:41 final size:41
Alignment explanation
Indices: 40481755--40481959 Score: 178
Period size: 41 Copynumber: 4.9 Consensus size: 41
40481745 TTGATTTCTT
* *
40481755 CAATCTACTCCACTGCAACTTTAGGGAGATAAGATTGGATG
1 CAATCTACTCCACTGCAACTTCAGAGAGATAAGATTGGATG
* * * * * * *
40481796 CGATCTGCTCTACTGCAACTTTAGATAGATAAGATCTGTGGTTT
1 CAATCTACTCCACTGCAACTTCAGAGAGATAAGA--T-TGGATG
* * * * *
40481840 TAATAC-ACTCCACTGCAACTTCAGAGAGATAGGACTAGTAACTT
1 CAAT-CTACTCCACTGCAACTTCAGAGAGATAAGA-TTG-GA-TG
*
40481884 CAATCTACTCCACTGCAACTTCAGGGAGATAAGATTGGATG
1 CAATCTACTCCACTGCAACTTCAGAGAGATAAGATTGGATG
* * *
40481925 CAATCTGCTCTACTGCAACTTCAAAGAGATAAGAT
1 CAATCTACTCCACTGCAACTTCAGAGAGATAAGAT
40481960 CTATGGTTTT
Statistics
Matches: 130, Mismatches: 27, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
41 61 0.47
42 2 0.02
43 6 0.05
44 60 0.46
45 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (41 bp):
CAATCTACTCCACTGCAACTTCAGAGAGATAAGATTGGATG
Done.