Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 117 of 425
Found at i:34773266 original size:40 final size:40
Alignment explanation
Indices: 34773207--34773414 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
34773197 CAATTGAATG
* * * *
34773207 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
34773247 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
34773287 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
34773327 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
34773367 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
34773407 ATATCCGG
1 ATATCCGG
34773415 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:34773345 original size:80 final size:80
Alignment explanation
Indices: 34773208--34773414 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
34773198 AATTGAATGA
* * ** * * *
34773208 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
34773273 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
34773286 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
34773351 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
34773368 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
34773415 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:34781276 original size:40 final size:40
Alignment explanation
Indices: 34781217--34781424 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
34781207 CAATTGAATG
* * * *
34781217 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
34781257 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
34781297 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
34781337 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
34781377 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
34781417 ATATCCGG
1 ATATCCGG
34781425 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:34781355 original size:80 final size:80
Alignment explanation
Indices: 34781218--34781424 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
34781208 AATTGAATGA
* * ** * * *
34781218 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
34781283 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
34781296 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
34781361 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
34781378 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
34781425 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:34787623 original size:129 final size:129
Alignment explanation
Indices: 34787420--34787675 Score: 503
Period size: 129 Copynumber: 2.0 Consensus size: 129
34787410 ATGTGTTTAC
34787420 CTCTTTGTAAATGGCCATGAAAATTGGCTTAATTGAAGTAGGCTATGACCTACAAAATTATGCAT
1 CTCTTTGTAAATGGCCATGAAAATTGGCTTAATTGAAGTAGGCTATGACCTACAAAATTATGCAT
34787485 GGTTTTAATTACAAGTGATGGGTTGTTACCAATTGGCAATGAGTCACATGAACGAGCCAATTAT
66 GGTTTTAATTACAAGTGATGGGTTGTTACCAATTGGCAATGAGTCACATGAACGAGCCAATTAT
*
34787549 CTCTTTGTATATGGCCATGAAAATTGGCTTAATTGAAGTAGGCTATGACCTACAAAATTATGCAT
1 CTCTTTGTAAATGGCCATGAAAATTGGCTTAATTGAAGTAGGCTATGACCTACAAAATTATGCAT
34787614 GGTTTTAATTACAAGTGATGGGTTGTTACCAATTGGCAATGAGTCACATGAACGAGCCAATT
66 GGTTTTAATTACAAGTGATGGGTTGTTACCAATTGGCAATGAGTCACATGAACGAGCCAATT
34787676 TTGGATGAAT
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 126 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (129 bp):
CTCTTTGTAAATGGCCATGAAAATTGGCTTAATTGAAGTAGGCTATGACCTACAAAATTATGCAT
GGTTTTAATTACAAGTGATGGGTTGTTACCAATTGGCAATGAGTCACATGAACGAGCCAATTAT
Found at i:34795425 original size:29 final size:29
Alignment explanation
Indices: 34795391--34795522 Score: 178
Period size: 29 Copynumber: 4.6 Consensus size: 29
34795381 GTGACAAGAT
*
34795391 TGGCACTAAGTGTGC-AAGCTTGAAA-TATA
1 TGGCACTAAGTGTGCGAA-CTT-AAATTACA
*
34795420 TGGCACTAAGTGTGCGAATTTAAATTACA
1 TGGCACTAAGTGTGCGAACTTAAATTACA
*
34795449 TGGCACTAAGTGTGCGAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTACA
* * *
34795478 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAACTTAAATTACA
34795507 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34795523 TGATCGATTA
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
28 3 0.03
29 87 0.95
30 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAACTTAAATTACA
Found at i:34795460 original size:58 final size:58
Alignment explanation
Indices: 34795391--34795522 Score: 196
Period size: 58 Copynumber: 2.3 Consensus size: 58
34795381 GTGACAAGAT
* *
34795391 TGGCACTAAGTGTGC-AAGCTTGAAA-TATATGGCACTAAGTGTGCGAATTTAAATTACA
1 TGGCACTAAGTGTGCGAA-CTT-AAATTATATGGCACTAAGTGTGCGAACTTAAATCACA
* *
34795449 TGGCACTAAGTGTGCGAACTTAAATTATATGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAACTTAAATTATATGGCACTAAGTGTGCGAACTTAAATCACA
34795507 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34795523 TGATCGATTA
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
57 3 0.04
58 63 0.93
59 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAACTTAAATTATATGGCACTAAGTGTGCGAACTTAAATCACA
Found at i:34803329 original size:29 final size:29
Alignment explanation
Indices: 34803295--34803426 Score: 178
Period size: 29 Copynumber: 4.6 Consensus size: 29
34803285 GTGACAAGAT
*
34803295 TGGCACTAAGTGTGC-AAGCTTGAAA-TATA
1 TGGCACTAAGTGTGCGAA-CTT-AAATTACA
*
34803324 TGGCACTAAGTGTGCGAATTTAAATTACA
1 TGGCACTAAGTGTGCGAACTTAAATTACA
*
34803353 TGGCACTAAGTGTGCGAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTACA
* * *
34803382 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAACTTAAATTACA
34803411 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34803427 TGATCGATTA
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
28 3 0.03
29 87 0.95
30 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAACTTAAATTACA
Found at i:34803364 original size:58 final size:58
Alignment explanation
Indices: 34803295--34803426 Score: 196
Period size: 58 Copynumber: 2.3 Consensus size: 58
34803285 GTGACAAGAT
* *
34803295 TGGCACTAAGTGTGC-AAGCTTGAAA-TATATGGCACTAAGTGTGCGAATTTAAATTACA
1 TGGCACTAAGTGTGCGAA-CTT-AAATTATATGGCACTAAGTGTGCGAACTTAAATCACA
* *
34803353 TGGCACTAAGTGTGCGAACTTAAATTATATGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAACTTAAATTATATGGCACTAAGTGTGCGAACTTAAATCACA
34803411 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34803427 TGATCGATTA
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
57 3 0.04
58 63 0.93
59 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAACTTAAATTATATGGCACTAAGTGTGCGAACTTAAATCACA
Found at i:34809504 original size:27 final size:27
Alignment explanation
Indices: 34809474--34809530 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
34809464 TTCACGTGGA
34809474 TTCCTGGAACAAATAGTCTCACAGACT
1 TTCCTGGAACAAATAGTCTCACAGACT
* *
34809501 TTCCTGGAGCAAATATTCTCACAGACT
1 TTCCTGGAACAAATAGTCTCACAGACT
34809528 TTC
1 TTC
34809531 ACATGCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (27 bp):
TTCCTGGAACAAATAGTCTCACAGACT
Found at i:34811007 original size:30 final size:30
Alignment explanation
Indices: 34810973--34811030 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
34810963 TCGAGCCTAA
*
34810973 GGGCAAAATTGTAAATATGCAAAAGTTTAG
1 GGGCAAAATTATAAATATGCAAAAGTTTAG
* * *
34811003 GGGCAAAATTATAATTTTGCCAAAGTTT
1 GGGCAAAATTATAAATATGCAAAAGTTT
34811031 GAGTTAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.31
Consensus pattern (30 bp):
GGGCAAAATTATAAATATGCAAAAGTTTAG
Found at i:34818809 original size:49 final size:49
Alignment explanation
Indices: 34818737--34818834 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
34818727 CTTTGAAAGA
34818737 AGGCTTCTTTCACCTCACTTCCTCAGACCTCAGCTATAATCCCACTACT
1 AGGCTTCTTTCACCTCACTTCCTCAGACCTCAGCTATAATCCCACTACT
* * * * *
34818786 AGGCTTCTTTCGCCTCACTTCCTCGGCCCTTAGCTATGATCCCACTACT
1 AGGCTTCTTTCACCTCACTTCCTCAGACCTCAGCTATAATCCCACTACT
34818835 TGCTGTTCGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.18, C:0.39, G:0.11, T:0.32
Consensus pattern (49 bp):
AGGCTTCTTTCACCTCACTTCCTCAGACCTCAGCTATAATCCCACTACT
Found at i:34824361 original size:23 final size:23
Alignment explanation
Indices: 34824309--34824550 Score: 222
Period size: 23 Copynumber: 10.6 Consensus size: 23
34824299 CAAAGTGCCA
* * * *
34824309 CACTGTAATATAGTCGAAGCTAT
1 CACTGTATTGTAGCCGAAGCTAC
**
34824332 CACTGTAACGTAGCCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTAC
* *
34824355 CATTGTATTGTAGCCAAAGCTAC
1 CACTGTATTGTAGCCGAAGCTAC
*
34824378 CATTGTATTGTAGCCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTAC
* * * *
34824401 CACTG-AGATGCAACCAAAGCTAC
1 CACTGTA-TTGTAGCCGAAGCTAC
*
34824424 CACTGTATTGTGGCCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTAC
* *
34824447 CACTG-AGAT-TAGCTGAAGCTAC
1 CACTGTA-TTGTAGCCGAAGCTAC
*
34824469 CACTATATTGTAGCCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTAC
* *
34824492 CACTATATTGTAGCTGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTAC
* * *
34824515 CACTG-AGATGTAGCCAAAGCTGC
1 CACTGTA-TTGTAGCCGAAGCTAC
*
34824538 CACTATATTGTAG
1 CACTGTATTGTAG
34824551 TCTATAGATT
Statistics
Matches: 179, Mismatches: 33, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
22 19 0.11
23 158 0.88
24 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (23 bp):
CACTGTATTGTAGCCGAAGCTAC
Found at i:34824511 original size:114 final size:114
Alignment explanation
Indices: 34824342--34824548 Score: 315
Period size: 114 Copynumber: 1.8 Consensus size: 114
34824332 CACTGTAACG
* * * *
34824342 TAGCCGAAGCTACCATTGTATTGTAGCCAAAGCTACCATTGTATTGTAGCCGAAGCTACCACTGA
1 TAGCCGAAGCTACCACTATATTGTAGCCAAAGCTACCACTATATTGTAGCCGAAGCTACCACTGA
*
34824407 GATGCAACCAAAGCTACCACTGTATTGTGGCCGAAGCTACCACTGAGAT
66 GATGCAACCAAAGCTACCACTATATTGTGGCCGAAGCTACCACTGAGAT
* * *
34824456 TAGCTGAAGCTACCACTATATTGTAGCCGAAGCTACCACTATATTGTAGCTGAAGCTACCACTGA
1 TAGCCGAAGCTACCACTATATTGTAGCCAAAGCTACCACTATATTGTAGCCGAAGCTACCACTGA
* * *
34824521 GATGTAGCCAAAGCTGCCACTATATTGT
66 GATGCAACCAAAGCTACCACTATATTGT
34824549 AGTCTATAGA
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
114 82 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (114 bp):
TAGCCGAAGCTACCACTATATTGTAGCCAAAGCTACCACTATATTGTAGCCGAAGCTACCACTGA
GATGCAACCAAAGCTACCACTATATTGTGGCCGAAGCTACCACTGAGAT
Found at i:34824535 original size:91 final size:91
Alignment explanation
Indices: 34824325--34824541 Score: 215
Period size: 91 Copynumber: 2.4 Consensus size: 91
34824315 AATATAGTCG
* * * * * ** * *
34824325 AAGCTATCACTGTAACGTAGCCGAAGCTACCATTGTA-TTGTAGCCAAAGCTACCATTGTATTGT
1 AAGCTACCACTGTAATGTAGCCAAAGCTACCACTG-AGAT-TAGCTGAAGCTACCACTATATTGT
34824389 AGCCGAAGCTACCACTGAGATGCAACCA
64 AGCCGAAGCTACCACTGAGATGCAACCA
* * *
34824417 AAGCTACCACTGTATTGTGGCCGAAGCTACCACTGAGATTAGCTGAAGCTACCACTATATTGTAG
1 AAGCTACCACTGTAATGTAGCCAAAGCTACCACTGAGATTAGCTGAAGCTACCACTATATTGTAG
* * * **
34824482 CCGAAGCTACCACT-ATATTGTAGCTG
66 CCGAAGCTACCACTGAGA-TGCAACCA
*
34824508 AAGCTACCACTG-AGATGTAGCCAAAGCTGCCACT
1 AAGCTACCACTGTA-ATGTAGCCAAAGCTACCACT
34824542 ATATTGTAGT
Statistics
Matches: 103, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
90 3 0.03
91 69 0.67
92 31 0.30
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (91 bp):
AAGCTACCACTGTAATGTAGCCAAAGCTACCACTGAGATTAGCTGAAGCTACCACTATATTGTAG
CCGAAGCTACCACTGAGATGCAACCA
Found at i:34833171 original size:40 final size:39
Alignment explanation
Indices: 34833013--34833173 Score: 245
Period size: 38 Copynumber: 4.2 Consensus size: 39
34833003 TGCGTATGAA
*
34833013 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
34833052 TGTGC-AGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
34833090 GGTGC-AGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
34833128 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
34833168 TGTGCG
1 TGTGCG
34833174 GGTTACCATA
Statistics
Matches: 111, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
38 71 0.64
39 23 0.21
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:34833189 original size:40 final size:40
Alignment explanation
Indices: 34833030--34833209 Score: 145
Period size: 38 Copynumber: 4.6 Consensus size: 40
34833020 ATTGTGATAT
* *** *
34833030 CCGGGCTAAG-CCCGAAGGCAATTGTGC-AGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * * ** *
34833068 CCGGGCTAAG-CCCGAAGGCAATGGTGC-AGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *** *
34833106 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
34833145 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
34833185 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
34833210 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
38 61 0.49
39 18 0.15
40 45 0.36
ACGTcount: A:0.22, C:0.23, G:0.32, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:34841885 original size:39 final size:39
Alignment explanation
Indices: 34841831--34841993 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
34841821 TGCGTATGAA
*
34841831 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
34841870 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
34841909 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
34841948 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
34841988 TGTGCG
1 TGTGCG
34841994 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:34844160 original size:31 final size:32
Alignment explanation
Indices: 34844106--34844166 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
34844096 TATCGATTTA
*
34844106 TTTCATTTGTTTATTTTTCTTTGTTTCTTTCT
1 TTTCATTAGTTTATTTTTCTTTGTTTCTTTCT
34844138 TTTCATTAG-TTATTTATT-TTTGTTTCTTT
1 TTTCATTAGTTTATTT-TTCTTTGTTTCTTT
34844167 AATCTATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.10, C:0.10, G:0.07, T:0.74
Consensus pattern (32 bp):
TTTCATTAGTTTATTTTTCTTTGTTTCTTTCT
Found at i:34850880 original size:39 final size:39
Alignment explanation
Indices: 34850726--34850919 Score: 235
Period size: 40 Copynumber: 4.9 Consensus size: 39
34850716 TGTTCAAACA
* * * * * * *
34850726 CCTTCGGGACATAGCCCGGTTATGATAACCCACACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
*
34850766 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
* * * *
34850806 CCTTCGGAGTTTATCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGG-GCTTAGCCCGGATATCACAACTCGCACAATTG
*
34850846 CCTTCGGGCTTAGCCCGGATATCACAACTTGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
*
34850885 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
34850920 TTCATACACA
Statistics
Matches: 134, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 60 0.45
40 73 0.54
41 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
Found at i:34857474 original size:42 final size:41
Alignment explanation
Indices: 34857372--34857494 Score: 147
Period size: 44 Copynumber: 2.9 Consensus size: 41
34857362 TTCCGATGTG
* *
34857372 TGATTTCGTATAAGACCATGTCTGGGACGTTGGCATCGATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATT
* * *
34857413 TGAGATTTACGTGTAAGACCATGTTTGGGGCATTGGTATCGTATT
1 T--GATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCG-ATT
* *
34857458 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATC
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATC
34857495 AATATTTGAT
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 26 0.38
43 10 0.15
44 27 0.40
45 4 0.06
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.34
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATT
Found at i:34867471 original size:46 final size:46
Alignment explanation
Indices: 34867401--34867714 Score: 371
Period size: 46 Copynumber: 6.8 Consensus size: 46
34867391 TGTAACCCGC
* * * * *
34867401 CCATAAGTGAACTCGCACTCAACTCAACGAGCTCGGGCGTTCGCAA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCAT
** * * *
34867447 CTGTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTAGCAT
* * * * * * * *
34867493 ACATTTCA-CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGTAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCAT
* *
34867540 CCATAAGTGAACTCGGACTCAACTCAGCGAGTTCGGATGTTAGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCAT
* *
34867586 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTAGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCAT
*
34867632 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCAT
*
34867678 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
34867715 TGCCCAAATA
Statistics
Matches: 225, Mismatches: 38, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
45 2 0.01
46 189 0.84
47 32 0.14
48 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCAT
Found at i:34870494 original size:15 final size:15
Alignment explanation
Indices: 34870476--34870514 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
34870466 TCCAAGATTG
34870476 AGAAACCCAGAATAA
1 AGAAACCCAGAATAA
*
34870491 AGAAATCCAGAATAA
1 AGAAACCCAGAATAA
34870506 AGAAACCCA
1 AGAAACCCA
34870515 AGATACGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.59, C:0.21, G:0.13, T:0.08
Consensus pattern (15 bp):
AGAAACCCAGAATAA
Found at i:34870510 original size:30 final size:30
Alignment explanation
Indices: 34870455--34870514 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
34870445 CAAGAAAATC
**
34870455 GAATAAAGAAATCCAAGATTGAGAAACCCA
1 GAATAAAGAAATCCAAGATAAAGAAACCCA
34870485 GAATAAAGAAATCC-AGAATAAAGAAACCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAACCCA
34870515 AGATACGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.57, C:0.17, G:0.15, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCCA
Found at i:34872798 original size:29 final size:29
Alignment explanation
Indices: 34872765--34872924 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
34872755 GTGACGAGAT
34872765 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
34872794 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
34872823 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
34872852 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
34872881 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
34872910 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
34872925 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:34876890 original size:93 final size:93
Alignment explanation
Indices: 34876784--34877048 Score: 431
Period size: 93 Copynumber: 2.8 Consensus size: 93
34876774 GCCCATAATG
* * * * *
34876784 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTAAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCATCCATAAGTGAACTCGGACTCAACTCAA
* * *
34876849 CGAGTTCAGATGCCTAGTTACATTTCAT
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
34876877 GAACTCGGACTCAACTTAACGAGTTCGGATGTTAGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCATCCATAAGTGAACTCGGACTCAACTCAA
34876942 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
34876970 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCATCCATAAGTGAACTCGGACTCAACTCAA
34877035 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
34877049 CAAATATCCG
Statistics
Matches: 159, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 159 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:34877044 original size:46 final size:45
Alignment explanation
Indices: 34876776--34877044 Score: 258
Period size: 46 Copynumber: 5.8 Consensus size: 45
34876766 TGTAACCCGC
* * * *
34876776 CCATAATGGAACTCGGACTCAACTCAATGAGCTCGGGCGTTTGCAT
1 CCATAAT-GAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCAT
* * * * *
34876822 CCATAAGTGAACTCGGACTCAACTAAACGAGTTCAGATGCCTAG-TT
1 CCATAA-TGAACTCGGACTCAACTCAACGAGTTCGGACG-TTAGCAT
* * * *
34876868 ACATTTCATGAACTCGGACTCAACTTAACGAGTTCGGATGTTAGCAT
1 CCA--TAATGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCAT
34876915 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CAT
1 CCATAA-TGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTAGCAT
* * *
34876965 -C-TCACGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAATGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCAT
34877008 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAA-TGAACTCGGACTCAACTCAACGAGTTCGGA
34877045 TGCCCAAATA
Statistics
Matches: 184, Mismatches: 24, Indels: 30
0.77 0.10 0.13
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 2 0.01
45 4 0.02
46 95 0.52
47 65 0.35
48 4 0.02
49 1 0.01
50 3 0.02
51 4 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (45 bp):
CCATAATGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCAT
Found at i:34878801 original size:16 final size:16
Alignment explanation
Indices: 34878777--34878819 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
34878767 GTAATCAAAG
* *
34878777 TTTCAGCTTTTCTGCA
1 TTTCGGCTTTTCAGCA
34878793 TTTCGGCTTTTCAGCA
1 TTTCGGCTTTTCAGCA
*
34878809 TTTCGACTTTT
1 TTTCGGCTTTT
34878820 TTCGATCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.23, G:0.14, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:34881981 original size:27 final size:27
Alignment explanation
Indices: 34881951--34882050 Score: 96
Period size: 27 Copynumber: 3.7 Consensus size: 27
34881941 TTTAGTTTAC
*
34881951 TAAAATTACCGAAATACCCTTAGTTTG
1 TAAAATTACCGAAATACCCTTAATTTG
* * * *
34881978 TAAAAATACTGAAATAGCCTCAATTTG
1 TAAAATTACCGAAATACCCTTAATTTG
** *
34882005 TAAAATTACTAAAATA-CCTTCAACTTG
1 TAAAATTACCGAAATACCCTT-AATTTG
34882032 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
34882051 CCGATTTACA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
26 6 0.10
27 52 0.87
28 2 0.03
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTTAATTTG
Found at i:34882230 original size:27 final size:27
Alignment explanation
Indices: 34882046--34882230 Score: 262
Period size: 27 Copynumber: 6.9 Consensus size: 27
34882036 ATTACCAAAG
* *
34882046 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
34882073 TACCCTCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* **
34882100 TACCCTCGACTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
34882127 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
34882154 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
34882181 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
34882208 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
34882231 AAAATACCCT
Statistics
Matches: 145, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:34882238 original size:27 final size:27
Alignment explanation
Indices: 34881979--34882431 Score: 126
Period size: 27 Copynumber: 16.7 Consensus size: 27
34881969 CTTAGTTTGT
* * * * **
34881979 AAAAATACTGAAATAGCCTCAATTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* * * **
34882006 AAAATTACTAAAATACCTTCAACTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* * *
34882033 AAAATTACCAAAGTACCCCCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* *****
34882060 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* ***** *
34882087 ATAATTACCGTTTTACCCTCGACTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* * ***
34882114 AGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* *** *
34882141 AGAATTACTATTTTACCCTCGATTTAT
1 AAAATTACTAAAATACCCTCGATTTAC
* **** * *
34882168 AGAATTACTGTTTTACCCTTGATTTAT
1 AAAATTACTAAAATACCCTCGATTTAC
* ****
34882195 AGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* * **
34882222 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* * **
34882249 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACTAAAATACCCTCGA-TTTAC
* * **
34882276 AAAATTACCAAAATACCACT-GGTTTGT
1 AAAATTACTAAAATACC-CTCGATTTAC
* ** * **
34882303 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
34882330 AAAATTA-TCAAAATACCC-CTGATTTAC
1 AAAATTACT-AAAATACCCTC-GATTTAC
* * *
34882357 AAAGTTACAAAAATACCCTTGACTTT-C
1 AAAATTACTAAAATACCCTCGA-TTTAC
* * *
34882384 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACTA-AAATACCCTCGATTTAC
*
34882413 AAAATTACTGAAATACCCT
1 AAAATTACTAAAATACCCT
34882432 TGGTTTGTAG
Statistics
Matches: 348, Mismatches: 64, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.01
27 319 0.92
28 9 0.03
29 17 0.05
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.34
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTCGATTTAC
Found at i:34882255 original size:81 final size:81
Alignment explanation
Indices: 34882073--34882257 Score: 226
Period size: 81 Copynumber: 2.3 Consensus size: 81
34882063 ATTACCGTTT
* *
34882073 TACCCTCGATTTACATAATTACCGTTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATT
* ***
34882138 TACAGAATTACTATTT
66 TACAAAATTACTAAAA
* * * * * **
34882154 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATT
34882219 TACAAAATTACTAAAA
66 TACAAAATTACTAAAA
* * *
34882235 TACCCTTGGTTTGTAAAATTACC
1 TACCCTCGATTTATAAAATTACC
34882258 AAAATACCCC
Statistics
Matches: 87, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 87 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACCGTTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATT
TACAAAATTACTAAAA
Found at i:34882434 original size:27 final size:27
Alignment explanation
Indices: 34882181--34882460 Score: 152
Period size: 27 Copynumber: 10.3 Consensus size: 27
34882171 ATTACTGTTT
* * ****
34882181 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTTGGTTTATAAAATTACTAAAA
* * *
34882208 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* *
34882235 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* * * *
34882262 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* * **
34882289 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTATAAAATTACTAAAA
*** *
34882316 TACCCTCAATTTGTAAAATTA-TCAAAA
1 TACCCTTGGTTTATAAAATTACT-AAAA
* * * * *
34882343 TACCCCTGATTTACAAAGTTACAAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* *
34882370 TACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAT-AAAATTACTA-AAA
* * *
34882399 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* * * *
34882426 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
*
34882453 CACCCTTG
1 TACCCTTG
34882461 TAGGATGAAA
Statistics
Matches: 196, Mismatches: 49, Indels: 16
0.75 0.19 0.06
Matches are distributed among these distances:
26 1 0.01
27 170 0.87
28 9 0.05
29 16 0.08
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (27 bp):
TACCCTTGGTTTATAAAATTACTAAAA
Found at i:34882522 original size:27 final size:27
Alignment explanation
Indices: 34882492--34882578 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
34882482 CCCCTATTAC
*
34882492 GTAAAAAGCCCGTAAAGCCCCTGTAGG
1 GTAAAAAGACCGTAAAGCCCCTGTAGG
** *
34882519 GTAAAGTGACCGTAAAGCCCTTGTAGG
1 GTAAAAAGACCGTAAAGCCCCTGTAGG
** * *
34882546 GTAAAGTGACTGTAATA-CCCCTGTATG
1 GTAAAAAGACCGTAA-AGCCCCTGTAGG
34882573 GTAAAA
1 GTAAAA
34882579 TGACGAATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 50 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (27 bp):
GTAAAAAGACCGTAAAGCCCCTGTAGG
Found at i:34882582 original size:27 final size:27
Alignment explanation
Indices: 34882501--34882582 Score: 112
Period size: 27 Copynumber: 3.0 Consensus size: 27
34882491 CGTAAAAAGC
34882501 CCGTAAAGCCCCTGTAGGGTAAAGTGA
1 CCGTAAAGCCCCTGTAGGGTAAAGTGA
*
34882528 CCGTAAAGCCCTTGTAGGGTAAAGTGA
1 CCGTAAAGCCCCTGTAGGGTAAAGTGA
* * *
34882555 CTGTAATA-CCCCTGTATGGTAAAATGA
1 CCGTAA-AGCCCCTGTAGGGTAAAGTGA
34882582 C
1 C
34882583 GAATATGCCC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (27 bp):
CCGTAAAGCCCCTGTAGGGTAAAGTGA
Found at i:34883414 original size:26 final size:26
Alignment explanation
Indices: 34883385--34883469 Score: 88
Period size: 26 Copynumber: 3.3 Consensus size: 26
34883375 GAGGAAGTGC
34883385 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCTAGTTTATTG
**
34883411 AAAAGGGCTTATG-CCTAAGTTTACCG
1 AAAAGGGCTTATGCCCT-AGTTTATTG
* *
34883437 AAAAGGGC-TGTGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCTAGTTTATTG
34883460 AAAAGAGGCT
1 AAAAG-GGCT
34883470 AGGACTCCAG
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
23 5 0.10
24 6 0.12
25 8 0.16
26 30 0.61
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCTAGTTTATTG
Found at i:34883682 original size:42 final size:42
Alignment explanation
Indices: 34883603--34883682 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
34883593 AGTCTCCCCA
* ** *
34883603 AATGGGCTTGCATACATTCATTGGTATTTCATATGATATTTG
1 AATGGGCTTGCATACATCCATTGACATTACATATGATATTTG
*
34883645 AATGGGCTTGCATACATCCATTGACATTACATGTGATA
1 AATGGGCTTGCATACATCCATTGACATTACATATGATA
34883683 CTGAAATAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.38
Consensus pattern (42 bp):
AATGGGCTTGCATACATCCATTGACATTACATATGATATTTG
Found at i:34883752 original size:31 final size:31
Alignment explanation
Indices: 34883717--34883795 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
34883707 CGTTTACATT
*
34883717 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATAATTTATGA
*
34883748 AAAGGCTTCGGCCCAGTGATATAATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATAATTTATGA
* *
34883779 AAAGGCTTTGGCACAGT
1 AAAGGCTTCGGCCCAGT
34883796 AACCGTTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATAATTTATGA
Found at i:34888955 original size:40 final size:40
Alignment explanation
Indices: 34888872--34889209 Score: 472
Period size: 40 Copynumber: 8.5 Consensus size: 40
34888862 TGGATGATAA
*
34888872 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
34888913 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTATTACT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
34888953 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
34888993 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
34889033 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
34889073 CCGAGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
34889113 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
34889153 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
34889192 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
34889210 TACTTGGCTT
Statistics
Matches: 272, Mismatches: 22, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
38 15 0.06
39 17 0.06
40 213 0.78
41 24 0.09
42 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:34893733 original size:27 final size:27
Alignment explanation
Indices: 34893703--34893927 Score: 181
Period size: 27 Copynumber: 8.3 Consensus size: 27
34893693 GGGGTAAAAT
* *
34893703 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
34893730 GGTAATTCTACCTTAC-AGAAGTATTTC
1 GGTAATTTTACCCTACAAG-GGTATTTC
* * * *
34893757 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
34893784 AGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
34893811 GGTAATTCTACGCC-ACAGGGGTATTTT
1 GGTAATTTTAC-CCTACAAGGGTATTTC
* * *
34893838 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
34893865 GGT-ATTTCTACCCTACAGGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
34893892 GGT-ATTTCTACCCAACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
34893919 GGTAATTTT
1 GGTAATTTT
34893928 GTAAATCGAG
Statistics
Matches: 168, Mismatches: 22, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
26 10 0.06
27 148 0.88
28 10 0.06
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:34893793 original size:54 final size:53
Alignment explanation
Indices: 34893703--34893925 Score: 207
Period size: 54 Copynumber: 4.1 Consensus size: 53
34893693 GGGGTAAAAT
* * * * * * *
34893703 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGAAGTATTTC
1 GGTAATTCTA-CCTACAGGGGTATTTCAGTAATTCTACCCTACAGAGGTATTTC
* * *
34893757 AGTAATTCTACCTTACAGGGGTATTTCAGTATTTCTACCCTACA-AGGGTATTTT
1 GGTAATTCTACC-TACAGGGGTATTTCAGTAATTCTACCCTACAGA-GGTATTTC
* * *
34893811 GGTAATTCTACGCCACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTAC-CTACAGGGGTATTTCAGTAATTCTACCCTACAGAGGTATTTC
* ** * * *
34893865 GGTATTTCTACCCTACAGGGGTATTTTGGTATTTCTACCCAACA-AGGGTATTTT
1 GGTAATTCTA-CCTACAGGGGTATTTCAGTAATTCTACCCTACAGA-GGTATTTC
34893919 GGTAATT
1 GGTAATT
34893926 TTGTAAATCG
Statistics
Matches: 139, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
53 3 0.02
54 134 0.96
55 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (53 bp):
GGTAATTCTACCTACAGGGGTATTTCAGTAATTCTACCCTACAGAGGTATTTC
Found at i:34893835 original size:81 final size:80
Alignment explanation
Indices: 34893707--34893917 Score: 280
Period size: 81 Copynumber: 2.6 Consensus size: 80
34893697 TAAAATGGTA
* * * * ** *
34893707 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGAAGTATTTCAGTAATTCTACCTT
1 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACC-CACAGGGGTATTTCAGTAATTCTACCCT
34893771 ACAGGGGTATTTCAGT
65 ACAGGGGTATTTCAGT
*
34893787 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACGCCACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTAC-CCACAGGGGTATTTCAGTAATTCTACCCT
*
34893852 ACAGGGGTATTTCGGT
65 ACAGGGGTATTTCAGT
* * *
34893868 ATTTCTACCCTACAGGGGTATTTTGGTATTTCTACCCAACAAGGGTATTT
1 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCC-ACAGGGGTATTT
34893918 TGGTAATTTT
Statistics
Matches: 116, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
80 6 0.05
81 109 0.94
82 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (80 bp):
ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCACAGGGGTATTTCAGTAATTCTACCCTA
CAGGGGTATTTCAGT
Found at i:34893939 original size:27 final size:26
Alignment explanation
Indices: 34893798--34894385 Score: 426
Period size: 27 Copynumber: 21.8 Consensus size: 26
34893788 TTTCTACCCT
* **
34893798 ACAAGGGTATTTTGGTAATTCTACGCC
1 ACAAGGGTATTTTGGTAATTTTAC-AA
* * * **
34893825 ACAGGGGTATTTTAGTAATTCTACCCT
1 ACAAGGGTATTTTGGTAATTTTA-CAA
* * **
34893852 ACAGGGGTATTTCGGT-ATTTCTACCCT
1 ACAAGGGTATTTTGGTAATTT-TA-CAA
* *
34893879 ACAGGGGTATTTTGGT-ATTTCTACCCA
1 ACAAGGGTATTTTGGTAATTT-TA-CAA
**
34893906 ACAAGGGTATTTTGGTAATTTTGTAA
1 ACAAGGGTATTTTGGTAATTTTACAA
* **** *
34893932 ATCGAGGGTAAAACGATAATTCTGTA-AA
1 A-CAAGGGTATTTTGGTAATT-T-TACAA
* *
34893960 TCAAGGGTACTTTGGTAATTTTACAA
1 ACAAGGGTATTTTGGTAATTTTACAA
* * *** *
34893986 GTCGAGGGTATTTAAATAATTTTACAGG
1 -ACAAGGGTATTTTGGTAATTTTACA-A
* * *** *
34894014 TCGAGGGTATTTCAATAATTTCACAA
1 ACAAGGGTATTTTGGTAATTTTACAA
*
34894040 ATCAGGGGTATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
** * *
34894067 AGTAGGTATATTTTGATAATTTTACAA
1 ACAAGG-GTATTTTGGTAATTTTACAA
*
34894094 ACCAGGGGTATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
*
34894121 ACTAAGGGTATTTTGGTAATTTTATAA
1 AC-AAGGGTATTTTGGTAATTTTACAA
*
34894148 ACCAAGGGTATTTTAGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* *
34894175 ACCAGGGGTATTTTGGTAATTTTATAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
34894202 ACCAAGGGTATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* * *
34894229 ACTAGTGGTATTTTGGTGATTTTATAA
1 ACAAG-GGTATTTTGGTAATTTTACAA
*
34894256 ACCAAGGGTATTTTAGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* * **
34894283 ACCAGGGGTATTTTGTTAATTTTGTAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
34894310 ACCAAGGGTATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* * *
34894337 ACTAGGGGTATTTTGGTGATTTTATAA
1 AC-AAGGGTATTTTGGTAATTTTACAA
34894364 ACCAAGGGTATTTTGGTAATTT
1 A-CAAGGGTATTTTGGTAATTT
34894386 GGTAAACTAA
Statistics
Matches: 461, Mismatches: 82, Indels: 36
0.80 0.14 0.06
Matches are distributed among these distances:
25 2 0.00
26 15 0.03
27 428 0.93
28 15 0.03
29 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (26 bp):
ACAAGGGTATTTTGGTAATTTTACAA
Found at i:34893941 original size:54 final size:53
Alignment explanation
Indices: 34893883--34894385 Score: 497
Period size: 54 Copynumber: 9.3 Consensus size: 53
34893873 TACCCTACAG
* * * *
34893883 GGGTATTTTGGT-ATTTCTACCCAACAAGGGTATTTTGGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTT-TA-CAAACAAGGGTATTTTGGTAATTTTATAAACCAA
**** * * * * ** *
34893937 GGGTAAAACGATAATTCTGTA-AATCAAGGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATT-T-TACAAACAAGGGTATTTTGGTAATTTTATAAACCAA
*** ** * *** * * * *
34893991 GGGTATTTAAATAATTTTACAGGTCGAGGGTATTTCAATAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACA-AACAAGGGTATTTTGGTAATTTTATAAACCAA
** * * * *
34894045 GGGTATTTTGGTAATTTTACAAAGTAGGTATATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACAAGG-GTATTTTGGTAATTTTATAAACCAA
34894099 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTTGGTAATTTTATAAACCAA
* *
34894153 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTTGGTAATTTTATAAACCAA
* *
34894207 GGGTATTTTGGTAATTTTACAAACTAGTGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACAAG-GGTATTTTGGTAATTTTATAAACCAA
* * * *
34894261 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGTTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTTGGTAATTTTATAAACCAA
* *
34894315 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTTGGTAATTTTATAAACCAA
34894369 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
34894386 GGTAAACTAA
Statistics
Matches: 378, Mismatches: 61, Indels: 20
0.82 0.13 0.04
Matches are distributed among these distances:
52 2 0.01
53 8 0.02
54 356 0.94
55 9 0.02
56 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACAAGGGTATTTTGGTAATTTTATAAACCAA
Found at i:34894392 original size:27 final size:27
Alignment explanation
Indices: 34894045--34894385 Score: 434
Period size: 27 Copynumber: 12.6 Consensus size: 27
34894035 CACAAATCAG
* **
34894045 GGGTATTTTGGTAATTTTACAAA-GTA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * *
34894071 GGTATATTTTGATAATTTTACAAACCAG
1 GG-GTATTTTGGTAATTTTATAAACCAA
* *
34894099 GGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTATAAACCAA
34894126 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
34894153 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
34894180 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
34894207 GGGTATTTTGGTAATTTTACAAA-CTA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
34894233 GTGGTATTTTGGTGATTTTATAAACCAA
1 G-GGTATTTTGGTAATTTTATAAACCAA
* * *
34894261 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
34894288 GGGTATTTTGTTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
34894315 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
34894342 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
34894369 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
34894386 GGTAAACTAA
Statistics
Matches: 270, Mismatches: 41, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
26 5 0.02
27 260 0.96
28 5 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:34894394 original size:54 final size:54
Alignment explanation
Indices: 34894045--34894385 Score: 538
Period size: 54 Copynumber: 6.3 Consensus size: 54
34894035 CACAAATCAG
* ** * * *
34894045 GGGTATTTTGGTAATTTTACAAAGTAGGTATATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
*
34894099 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* *
34894153 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* *
34894207 GGGTATTTTGGTAATTTTACAAACTAGTGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* * * *
34894261 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGTTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
*
34894315 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
34894369 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
34894386 GGTAAACTAA
Statistics
Matches: 262, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 262 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
Found at i:34896056 original size:20 final size:20
Alignment explanation
Indices: 34896033--34896081 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
34896023 AGCTCCATCT
*
34896033 AGCTCAACTCAGCTTATTTG
1 AGCTCAACTCAGCTCATTTG
*** *
34896053 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
34896073 AGCTCAACT
1 AGCTCAACT
34896082 GATCTTACTT
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:34899898 original size:40 final size:39
Alignment explanation
Indices: 34899853--34900060 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
34899843 CGGAAAACAA
*
34899853 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
34899893 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
34899933 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
34899973 CCGGATGTAGTCACTAGCACAATTGCCTTCGGTTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
34900013 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
34900053 CCGGATAT
1 CCGGATAT
34900061 CATTCAATTG
Statistics
Matches: 140, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 1 0.01
40 139 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:34899993 original size:80 final size:81
Alignment explanation
Indices: 34899853--34900058 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 81
34899843 CGGAAAACAA
* * *
34899853 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
34899917 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
34899933 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
* *
34899996 TGCCTTCGGTTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
34900013 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
34900059 ATCATTCAAT
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 103 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:34903130 original size:6 final size:6
Alignment explanation
Indices: 34903100--34903224 Score: 87
Period size: 6 Copynumber: 20.3 Consensus size: 6
34903090 AAGAAACATT
* * *
34903100 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
34903149 ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA
*
34903198 ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
34903225 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
5 5 0.05
6 75 0.82
7 9 0.10
8 3 0.03
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:34903158 original size:31 final size:31
Alignment explanation
Indices: 34903121--34903224 Score: 163
Period size: 31 Copynumber: 3.4 Consensus size: 31
34903111 AATCAAAATG
34903121 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
* *
34903152 AGAATCAGAATCAGAATTAGGTGACAGAATT
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
* *
34903183 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
34903214 AAAATCAGAAT
1 AGAATCAGAAT
34903225 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 66 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:34903162 original size:37 final size:34
Alignment explanation
Indices: 34903109--34903224 Score: 109
Period size: 31 Copynumber: 3.5 Consensus size: 34
34903099 TATCAGAACT
* *
34903109 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAG--T-AGGTGAC
34903146 AGAATCAGAATCAGAATCAGAAT---TAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGTAGGTGAC
* * *
34903177 AGAATTAGAATCAGAATCAGTATC---AGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGTAGGTGAC
*
34903208 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
34903225 GTGAATGCAA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
31 49 0.69
32 1 0.01
37 21 0.30
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.19
Consensus pattern (34 bp):
AGAATCAGAATCAGAATCAGAATCAGTAGGTGAC
Found at i:34903934 original size:27 final size:27
Alignment explanation
Indices: 34903730--34903923 Score: 316
Period size: 27 Copynumber: 7.2 Consensus size: 27
34903720 AACACCCTAG
* *
34903730 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
34903757 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
34903784 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* *
34903811 GGGTAAAATAGTAATTCGGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
34903838 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
34903865 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
34903892 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
34903919 GGGTA
1 GGGTA
34903924 CTTTGGTAAT
Statistics
Matches: 155, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 155 1.00
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (27 bp):
GGGTAAAATGGTAATTCTGTAAATCGA
Found at i:34903949 original size:27 final size:27
Alignment explanation
Indices: 34903919--34904015 Score: 149
Period size: 27 Copynumber: 3.6 Consensus size: 27
34903909 TGTAAATCGA
*
34903919 GGGTACTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
34903946 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
34903973 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
34904000 TGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
34904016 CTACCCTACA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:34903950 original size:81 final size:80
Alignment explanation
Indices: 34903730--34903950 Score: 257
Period size: 81 Copynumber: 2.7 Consensus size: 80
34903720 AACACCCTAG
* * * * * *
34903730 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGA-GGGTAAAACG
1 GGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATT-T-TAAAACTAGGGGTAAAACA
34903794 GTAATTCTGTAAATCGA
64 GTAATTCTGTAAATCGA
* * * * *
34903811 GGGTAAAATAGTAATTCGGTAAATCGAGGGTAAAATGGTAATTTTGTAAA-TCGAGGGTAAAATA
1 GGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTT-AAAACTAG-GGGTAAAACA
34903875 GTAATTCTGTAAATCGA
64 GTAATTCTGTAAATCGA
***
34903892 GGGTAAAATGGTAATTCTGTAAATCGAGGGTACTTTGGTAATTTTACAAACTAGGGGTA
1 GGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTA-AAACTAGGGGTA
34903951 TTTTGGTAAT
Statistics
Matches: 117, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
79 1 0.01
80 3 0.03
81 111 0.95
82 2 0.02
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (80 bp):
GGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAAAACTAGGGGTAAAACAGT
AATTCTGTAAATCGA
Found at i:34903958 original size:54 final size:55
Alignment explanation
Indices: 34903900--34904017 Score: 143
Period size: 54 Copynumber: 2.2 Consensus size: 55
34903890 GAGGGTAAAA
* * *
34903900 TGGTAATTCTGTA-AATCGA-GGGTACTTTGGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTCT-TACAAACGAGGGGTACTTTGGTAATTTTACAAACCAAGGGTATTT
* * * *
34903954 TGGTAATT-TTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAATGGTATTT
1 TGGTAATTCTTACAAACGAGGGGTACTTTGGTAATTTTACAAACCAAGGGTATTT
34904008 TGGTAATTCT
1 TGGTAATTCT
34904018 ACCCTACAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
52 2 0.04
53 5 0.09
54 46 0.85
55 1 0.02
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (55 bp):
TGGTAATTCTTACAAACGAGGGGTACTTTGGTAATTTTACAAACCAAGGGTATTT
Found at i:34904041 original size:54 final size:54
Alignment explanation
Indices: 34903929--34904042 Score: 122
Period size: 54 Copynumber: 2.1 Consensus size: 54
34903919 GGGTACTTTG
* * * * **
34903929 GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTGGTAATTCTACAAACTAGGGGCATTTCA
* * **
34903983 GTAATTTTATAAACCAATGGTATTTTGGTAATTCTACCCTAC-AGGGGCATTTCA
1 GTAATTTTACAAACCAAGGGTATTTTGGTAATTCTA-CAAACTAGGGGCATTTCA
34904037 GTAATT
1 GTAATT
34904043 CTACCCTACA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
54 46 0.94
55 3 0.06
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.39
Consensus pattern (54 bp):
GTAATTTTACAAACCAAGGGTATTTTGGTAATTCTACAAACTAGGGGCATTTCA
Found at i:34904061 original size:27 final size:27
Alignment explanation
Indices: 34904010--34904079 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
34904000 TGGTATTTTG
* *
34904010 GTAATTCTACCCTACAGGGGCATTTCA
1 GTAATTCTACCCTACAAGAGCATTTCA
*
34904037 GTAATTCTACCCTACAAGAGTATTTCA
1 GTAATTCTACCCTACAAGAGCATTTCA
* *
34904064 GTAATGCTAGCCTACA
1 GTAATTCTACCCTACA
34904080 GATATGAGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGAGCATTTCA
Found at i:34905979 original size:6 final size:6
Alignment explanation
Indices: 34905941--34906046 Score: 65
Period size: 6 Copynumber: 17.3 Consensus size: 6
34905931 AAGAAACATT
* * * * *
34905941 ATCAGA A-CTAGA ATCAAA ATGAGA ATGAGA ATCAGA ATCA-A GTGACAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
34905990 ATCAGA ATCAGA ATTAGA ATTAGA ATCAGT ATCAGGTA AT-AGA ATCAAA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
34906039 ATCAGA AT
1 ATCAGA AT
34906047 GTGAATGCAA
Statistics
Matches: 79, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
5 6 0.08
6 64 0.81
7 5 0.06
8 4 0.05
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:34906036 original size:43 final size:43
Alignment explanation
Indices: 34905950--34906053 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 43
34905940 TATCAGAACT
* *
34905950 AGAATCAAAATGAGAATGAGAATCAGAATCAAGTGACAAAATC
1 AGAATCAGAATGAGAATGAGAATCAGAATCAAGTAACAAAATC
* * * * * *
34905993 AGAATCAGAATTAGAATTAGAATCAGTATCAGGTAATAGAATC
1 AGAATCAGAATGAGAATGAGAATCAGAATCAAGTAACAAAATC
* *
34906036 AAAATCAGAATGTGAATG
1 AGAATCAGAATGAGAATG
34906054 CAATCCCAAC
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.50, C:0.10, G:0.19, T:0.21
Consensus pattern (43 bp):
AGAATCAGAATGAGAATGAGAATCAGAATCAAGTAACAAAATC
Found at i:34906838 original size:27 final size:27
Alignment explanation
Indices: 34906553--34906827 Score: 397
Period size: 27 Copynumber: 10.2 Consensus size: 27
34906543 AACACCCAAG
* * *
34906553 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
*
34906580 GGATAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
34906607 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
*
34906634 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
** *
34906661 GGGTAAAACAATAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
*
34906688 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* ** *
34906715 TGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
*
34906742 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* *
34906769 GGGTAAAACGATAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
*
34906796 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
34906823 GGGTA
1 GGGTA
34906828 CTTTGGTAAT
Statistics
Matches: 222, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 222 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GGGTAAAACGGTAATTCTGTAAATCGA
Found at i:34910007 original size:47 final size:47
Alignment explanation
Indices: 34909950--34910049 Score: 119
Period size: 47 Copynumber: 2.1 Consensus size: 47
34909940 TTAGGATTTT
* ** * *
34909950 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAACATGCATATATGAGATAAAGCCGAATGGCCA
* * * *
34909997 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATATGAACATGCATATATGAGATAAAGCCGAATGGCCA
34910044 ATGTGA
1 ATGTGA
34910050 AATATGTATG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATATGAACATGCATATATGAGATAAAGCCGAATGGCCA
Found at i:34910082 original size:48 final size:48
Alignment explanation
Indices: 34910019--34910118 Score: 200
Period size: 48 Copynumber: 2.1 Consensus size: 48
34910009 TGAACATGCA
34910019 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
34910067 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
34910115 TATA
1 TATA
34910119 GAATAGACTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.38, C:0.06, G:0.26, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
Found at i:34916359 original size:2 final size:2
Alignment explanation
Indices: 34916352--34916381 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
34916342 CGAATTCATT
34916352 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
34916382 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:34916386 original size:2 final size:2
Alignment explanation
Indices: 34916381--34916410 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
34916371 ACACACACAC
34916381 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34916411 CGTGCCTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34916660 original size:39 final size:39
Alignment explanation
Indices: 34916617--34916745 Score: 179
Period size: 39 Copynumber: 3.3 Consensus size: 39
34916607 GGTCTTTAAC
* ** * *
34916617 CCGGATATACTTCCAGCACGTAGCCTGCAGACCTCAAGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
* *
34916656 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
*
34916695 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
34916734 CCGGATAT-TTTC
1 CCGGATATATTTC
34916746 AATCTCATAC
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
38 4 0.05
39 76 0.95
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:34921179 original size:15 final size:15
Alignment explanation
Indices: 34921159--34921189 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
34921149 GCTAGATACG
34921159 AAAGCTGAGCCTGTA
1 AAAGCTGAGCCTGTA
34921174 AAAGCTGAGCCTGTA
1 AAAGCTGAGCCTGTA
34921189 A
1 A
34921190 CAGGGGGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (15 bp):
AAAGCTGAGCCTGTA
Found at i:34924241 original size:12 final size:12
Alignment explanation
Indices: 34924224--34924249 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34924214 ACATGGTGGC
34924224 AAATCCTGCTTT
1 AAATCCTGCTTT
34924236 AAATCCTGCTTT
1 AAATCCTGCTTT
34924248 AA
1 AA
34924250 GTGGAAGAAT
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:0.23, G:0.08, T:0.38
Consensus pattern (12 bp):
AAATCCTGCTTT
Found at i:34936112 original size:46 final size:45
Alignment explanation
Indices: 34936045--34936214 Score: 162
Period size: 46 Copynumber: 3.7 Consensus size: 45
34936035 TGTAACCCAC
* * *
34936045 CCATAAGCGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * *
34936091 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * * *
34936137 ACATCTCTCGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
34936184 CCATAAGTGAACTCGGACTCTACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
34936215 TTTGGATGCT
Statistics
Matches: 97, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
45 1 0.01
46 61 0.63
47 33 0.34
48 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:34936181 original size:93 final size:93
Alignment explanation
Indices: 34936052--34936223 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
34936042 CACCCATAAG
** * *
34936052 CGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
34936117 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* * *
34936145 CGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCTACTCA
1 CGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
34936210 ACGAGTTTGGATGC
66 ACGAGCTCGGATGC
34936224 TCAACCATCC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:34938600 original size:20 final size:20
Alignment explanation
Indices: 34938572--34938615 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
34938562 ACCAAACTTG
*
34938572 CAACTTACCATAATCTTTCA
1 CAACATACCATAATCTTTCA
34938592 CAACATACCATAATCTTTCA
1 CAACATACCATAATCTTTCA
34938612 CAAC
1 CAAC
34938616 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.30
Consensus pattern (20 bp):
CAACATACCATAATCTTTCA
Found at i:34938820 original size:42 final size:42
Alignment explanation
Indices: 34938693--34938822 Score: 161
Period size: 42 Copynumber: 3.1 Consensus size: 42
34938683 ACACATAGTA
* * **
34938693 TCATACCAATGCCATATCCCAGATATGGTCTTACATGGGATC
1 TCATATCAATGCCATATCCCAGATATGGTCTTACACGAAATC
* * * * *
34938735 TCATATCGATGCCAATAGCCTAGCTATGGTCTTACACAAAATC
1 TCATATCAATGCC-ATATCCCAGATATGGTCTTACACGAAATC
*
34938778 TCATATCAATGCCATATCCCAGATATGGTCTTACACGTAATC
1 TCATATCAATGCCATATCCCAGATATGGTCTTACACGAAATC
34938820 TCA
1 TCA
34938823 ACTAACCCCA
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 38 0.53
43 34 0.47
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (42 bp):
TCATATCAATGCCATATCCCAGATATGGTCTTACACGAAATC
Found at i:34945208 original size:21 final size:22
Alignment explanation
Indices: 34945166--34945221 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
34945156 AATGCAATAC
34945166 TAAAAAATGAAAATAACAAAAA
1 TAAAAAATGAAAATAACAAAAA
* **
34945188 TAAAAAATAAAAATTTCAAAAA
1 TAAAAAATGAAAATAACAAAAA
*
34945210 -AATAAATGAAAA
1 TAAAAAATGAAAA
34945222 GGAATTTTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (22 bp):
TAAAAAATGAAAATAACAAAAA
Found at i:34952348 original size:9 final size:9
Alignment explanation
Indices: 34952334--34952360 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
34952324 AGCTATAGGG
34952334 TTAACTAAC
1 TTAACTAAC
34952343 TTAACTAAC
1 TTAACTAAC
34952352 TTAACTAAC
1 TTAACTAAC
34952361 ACTAAGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (9 bp):
TTAACTAAC
Found at i:34953807 original size:18 final size:18
Alignment explanation
Indices: 34953774--34953808 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34953764 TGAGTGGAAC
*
34953774 AAAAACATGGTTAGTGAT
1 AAAAACATGGTGAGTGAT
*
34953792 AAAAACATTGTGAGTGA
1 AAAAACATGGTGAGTGA
34953809 AATAGTGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.23, T:0.26
Consensus pattern (18 bp):
AAAAACATGGTGAGTGAT
Found at i:34957196 original size:19 final size:19
Alignment explanation
Indices: 34957172--34957233 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
34957162 AGAAAGAGAT
34957172 TTCAATTAATTGACCTAGA
1 TTCAATTAATTGACCTAGA
*
34957191 TTCAATT-GTT---CTGAGA
1 TTCAATTAATTGACCT-AGA
34957207 TTTCAATTAATTGACCTAGA
1 -TTCAATTAATTGACCTAGA
34957227 TTCAATT
1 TTCAATT
34957234 GTTCTTACTC
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
15 2 0.06
16 3 0.09
17 7 0.20
18 4 0.11
19 14 0.40
20 3 0.09
21 2 0.06
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (19 bp):
TTCAATTAATTGACCTAGA
Found at i:34957207 original size:36 final size:36
Alignment explanation
Indices: 34957167--34957238 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
34957157 TAATTAGAAA
34957167 GAGATTTCAATTAATTGACCTAGATTCAATTGTTCT
1 GAGATTTCAATTAATTGACCTAGATTCAATTGTTCT
34957203 GAGATTTCAATTAATTGACCTAGATTCAATTGTTCT
1 GAGATTTCAATTAATTGACCTAGATTCAATTGTTCT
34957239 TACTCTCGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (36 bp):
GAGATTTCAATTAATTGACCTAGATTCAATTGTTCT
Found at i:34964943 original size:19 final size:19
Alignment explanation
Indices: 34964919--34964955 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
34964909 CATTATAATT
34964919 GATTCCATATTCTATTTCC
1 GATTCCATATTCTATTTCC
*
34964938 GATTCCGTATTCTATTTC
1 GATTCCATATTCTATTTC
34964956 TGTATGACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.24, G:0.08, T:0.49
Consensus pattern (19 bp):
GATTCCATATTCTATTTCC
Found at i:34965281 original size:2 final size:2
Alignment explanation
Indices: 34965274--34965299 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
34965264 TTGACTAAAC
34965274 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
34965300 CTGATTATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34965993 original size:12 final size:13
Alignment explanation
Indices: 34965976--34966004 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
34965966 AAAGTTAATT
34965976 TATATCATAAAA-
1 TATATCATAAAAC
34965988 TATATCATAAAAC
1 TATATCATAAAAC
34966001 TATA
1 TATA
34966005 GTGCTCATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (13 bp):
TATATCATAAAAC
Found at i:34970352 original size:30 final size:30
Alignment explanation
Indices: 34970318--34970375 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
34970308 TTTTCGGGCG
* *
34970318 TAGGGGTAAAATGGTCATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTCATTTTACCAAAGTT
34970348 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
34970376 ATGTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTT
Found at i:34970784 original size:47 final size:44
Alignment explanation
Indices: 34970714--34971073 Score: 212
Period size: 47 Copynumber: 7.8 Consensus size: 44
34970704 TGATTTATGC
* * *
34970714 GCCAGTGTAAG--ATGTCTAGGACATGCTTCGGCGACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACA-GATGAGA
* * * *
34970758 GCCAGTGTAAGACCATGTCTGGGACATGACATCGACATCCAAACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACATG-CATCGGCA--CAGATGAGA
* * *
34970806 GCTAGTGTAAGACATGTCTCGGACATGCATCAGCCATACA-ATG-GTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GGC--ACAGATGAG-A
* *
34970852 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--ACAGATGAGA
* * *
34970900 GCTAGTGTAAGACATGTATGGGACATGCATCGGCCTCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG---C-ACAGATGAGA
* * * * *
34970947 GCCAGTGTAAGACGTGTCTGGGACACGTATCGGCTA-AGA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACAGATG-AGA
** * * *
34970991 GCTGGTGTAAGACATGTCTAGGACATGCATCAGCAAGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-A-C--AGATGAGA
34971039 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
34971074 TAATATTTCC
Statistics
Matches: 245, Mismatches: 46, Indels: 44
0.73 0.14 0.13
Matches are distributed among these distances:
43 4 0.02
44 41 0.17
45 1 0.00
46 24 0.10
47 94 0.38
48 56 0.23
49 19 0.08
50 6 0.02
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGATGAGA
Found at i:34970904 original size:94 final size:93
Alignment explanation
Indices: 34970757--34971073 Score: 330
Period size: 94 Copynumber: 3.4 Consensus size: 93
34970747 ACATTATGAG
* * *
34970757 AGCCAGTGTAAGACCATGTCTGGGACATGACATCGACATCCAA-ACGAGGGCTAGTGTAAGACAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT--AAGA-GAGTGCTAGTGTAAGACAT
*
34970821 GTCTCGGACATGCATCAGCCATACA-ATGGT
63 GTCTAGGACATGCATCAGCCATACAGATGGT
34970851 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGAGTGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATA-AGA-GAGTGCTAGTGTAAGACATG
* * * *
34970916 TATGGGACATGCATCGGCC-TCGACAGA-GAT
64 TCTAGGACATGCATCAGCCAT--ACAGATGGT
* * * * *
34970946 AGCCAGTGTAAGA-CGTGTCTGGGACA-CGTATCGGC-TAAGAGTTGTGCTGGTGTAAGACATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAAGAG-AGTGCTAGTGTAAGACATGT
*
34971008 CTAGGACATGCATCAG-CA-AGCGTATATGAG-
65 CTAGGACATGCATCAGCCATA-C--AGATG-GT
34971038 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
34971074 TAATATTTCC
Statistics
Matches: 188, Mismatches: 21, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
88 1 0.01
89 1 0.01
90 2 0.01
91 36 0.19
92 17 0.09
93 21 0.11
94 91 0.48
95 18 0.10
96 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.21
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAAGAGAGTGCTAGTGTAAGACATGTC
TAGGACATGCATCAGCCATACAGATGGT
Found at i:34971071 original size:141 final size:141
Alignment explanation
Indices: 34970714--34971073 Score: 353
Period size: 141 Copynumber: 2.6 Consensus size: 141
34970704 TGATTTATGC
* * *
34970714 GCCAGTGTAAG--ATGTCTAGGACATGCTTCGGCGACAT-TATGAGAGCCAGTGTAAGACCATGT
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCAACGTATATGAGAGCCAGTGTAAGACCATGT
* * * * *
34970776 CTGGGACATGACATCGACATCCAAACGAGGGCTAGTGTAAGACATGTCTCGGACATGCATCAGCC
66 CTGGGACATGGCATCGGCATCCAAACGAGAGCCAGTGTAAGACATGTCTCGGACACGCATCAGCC
34970841 ATACAATGGTA
131 ATACAATGGTA
* * * *
34970852 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATA-G-AGATGAGTGCTAGTGTAAGA-CA
1 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCA-ACGTATATGAGAGCCAGTGTAAGACCA
* * * * * * *
34970914 TGTATGGGACAT-GCATCGGCCTCGACAGA-GATAGCCAGTGTAAGACGTGTCTGGGACACGTAT
63 TGTCTGGGACATGGCATCGGCATC--CAAACGAGAGCCAGTGTAAGACATGTCTCGGACACGCAT
* * * * *
34970977 CGGCTA-AGAGTTGT-
126 CAGCCATACAATGGTA
** *
34970991 GCTGGTGTAAGACATGTCTAGGACATGCATCAGCAAGCGTATATGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCAA-CGTATATGAGAGCCAGTGTAAGACCATG
34971056 TCTGGGACATGGCATCGG
65 TCTGGGACATGGCATCGG
34971074 TAATATTTCC
Statistics
Matches: 177, Mismatches: 32, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
136 1 0.01
137 8 0.05
138 25 0.14
139 27 0.15
140 26 0.15
141 63 0.36
142 26 0.15
143 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (141 bp):
GCCAGTGTAAGACATGTCTAGGACATGCATCGGCAACGTATATGAGAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCGGCATCCAAACGAGAGCCAGTGTAAGACATGTCTCGGACACGCATCAGCC
ATACAATGGTA
Found at i:34977960 original size:30 final size:30
Alignment explanation
Indices: 34977926--34977983 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
34977916 TTTTCAGGCA
* *
34977926 TAGGGGTAAAATGGTTATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTTATTTTACCAAAGTC
*
34977956 TAGGGGCAAAATGGTTGTTTTACCAAAG
1 TAGGGGCAAAATGGTTATTTTACCAAAG
34977984 ATGTAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATGGTTATTTTACCAAAGTC
Found at i:34978394 original size:47 final size:45
Alignment explanation
Indices: 34978323--34978682 Score: 273
Period size: 47 Copynumber: 7.7 Consensus size: 45
34978313 TGATTTATGC
* * *
34978323 GCCAGTGTAAGATATGTCTGGGACATGCTTCGGCTACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACA-GATGAGA
* * *
34978369 GCCAGTGTAAGACCATGTCTGGGACATGACATCGGCATCCAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACATG-CATCGGC-TACAGATGAGA
* * * *
34978417 GCTAGTGTAAGACATGTCTCGGACATGCATCAGCCATAC-TATG-GTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GGC-TACAGATGAG-A
*
34978463 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-TACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC--AGATGAGA
* * *
34978511 GCTAGTGTAAGACATGTATGGGACATGCATCGGCCTCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CT--ACAGATGAGA
* * * * * *
34978558 GCCAGTGTAAGACGTGTCTGGGACACGTATCAGCTA-AGA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAGATG-AGA
* * * * *
34978602 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCAAGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTA-C--AGATGAGA
34978650 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
34978683 AGCAATATTT
Statistics
Matches: 249, Mismatches: 42, Indels: 42
0.75 0.13 0.13
Matches are distributed among these distances:
43 4 0.02
44 31 0.12
45 4 0.02
46 38 0.15
47 89 0.36
48 58 0.23
49 18 0.07
50 7 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAGATGAGA
Found at i:34978487 original size:94 final size:93
Alignment explanation
Indices: 34978326--34978682 Score: 356
Period size: 94 Copynumber: 3.8 Consensus size: 93
34978316 TTTATGCGCC
* * * * * *
34978326 AGTGTAAGATATGTCTGGGACATGCTTCGGCTACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGG
* * *
34978391 GACATGACATCGGCATCCAGACGAGGGCT
66 GACATGGCATCGGCATCAAGA-GAGTGCT
*
34978420 AGTGTAAGACATGTCTCGGACATGCATCAGCCATACTATG-GTAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAG-AGCCAGTGTAAGACCATGTCTG
*
34978484 GGACATGGCATCGGTA-CAGAGATGAGTGCT
65 GGACATGGCATCGGCATCA-AGA-GAGTGCT
* * *
34978514 AGTGTAAGACATGTATGGGACATGCATCGGCC-TCGAC-A-GAGATAGCCAGTGTAAGA-CGTGT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ACTATGAG--AGCCAGTGTAAGACCATGT
* * * *
34978575 CTGGGACA-CGTATCAGC-T-AAGAGTTGTGCT
62 CTGGGACATGGCATCGGCATCAAGAG-AGTGCT
* *
34978605 AGTGTAAGACATGTCTAGGACATGCATCAGCAAGCGTA-TATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC---CATACTATGAGAGCCAGTGTAAGACCATGTC
34978669 TGGGACATGGCATC
63 TGGGACATGGCATC
34978683 AGCAATATTT
Statistics
Matches: 220, Mismatches: 27, Indels: 32
0.79 0.10 0.11
Matches are distributed among these distances:
90 1 0.00
91 36 0.16
92 14 0.06
93 23 0.10
94 129 0.59
95 17 0.08
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCATCAAGAGAGTGCT
Found at i:34978576 original size:141 final size:140
Alignment explanation
Indices: 34978323--34978682 Score: 365
Period size: 141 Copynumber: 2.6 Consensus size: 140
34978313 TGATTTATGC
* * ** *
34978323 GCCAGTGTAAGATATGTCTGGGACATGCTTCGGCTACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGAGCCAGTGTAAGACCATGTA
* * *
34978388 TGGGACATGACATCGGCATCCAGACGAGGGCTAGTGTAAGACATGTCTCGGACATGCATCAGCCA
66 TGGGACATGACATCGGCATCCAGACGAGAGCCAGTGTAAGACATGTCTCGGACACGCATCAGCCA
34978453 TACTATGGTA
131 TACTATGGTA
* *
34978463 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-TACAGAGATGAGTGCTAGTGTAAGA-CAT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACA-AGATGAGAGCCAGTGTAAGACCAT
* * * * *
34978526 GTATGGGACATG-CATCGGCCTCGACAGA-GATAGCCAGTGTAAGACGTGTCTGGGACACGTATC
63 GTATGGGACATGACATCGGCATC--CAGACGAGAGCCAGTGTAAGACATGTCTCGGACACGCATC
** *
34978589 AG-C-TAAGAGTTGT-
126 AGCCATACTA-TGGTA
* * * * * *
34978602 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCAAGCGTATATGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTA-C-AAGATGAGAGCCAGTGTAAGACCATG
* *
34978667 TCTGGGACATGGCATC
64 TATGGGACATGACATC
34978683 AGCAATATTT
Statistics
Matches: 182, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
137 6 0.03
138 14 0.08
139 32 0.18
140 39 0.21
141 65 0.36
142 26 0.14
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (140 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGAGCCAGTGTAAGACCATGTA
TGGGACATGACATCGGCATCCAGACGAGAGCCAGTGTAAGACATGTCTCGGACACGCATCAGCCA
TACTATGGTA
Found at i:34980907 original size:40 final size:40
Alignment explanation
Indices: 34980863--34981008 Score: 210
Period size: 38 Copynumber: 3.7 Consensus size: 40
34980853 GCTACTTGCT
34980863 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
34980903 CAAATGCCTTCGGGACTTAG-CC-GATAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
34980941 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
34980980 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
34981009 CATCCGAATA
Statistics
Matches: 94, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
37 5 0.05
38 31 0.33
39 26 0.28
40 31 0.33
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:34980943 original size:38 final size:40
Alignment explanation
Indices: 34980830--34981004 Score: 218
Period size: 40 Copynumber: 4.5 Consensus size: 40
34980820 AAACCAAGTA
* * * *
34980830 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
34980869 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34980909 CCTTCGGGACTTAG-CC-GATAGAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34980947 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
34980986 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34981005 TTATCATCCG
Statistics
Matches: 120, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
37 5 0.04
38 31 0.26
39 40 0.33
40 44 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34988980 original size:40 final size:40
Alignment explanation
Indices: 34988867--34989120 Score: 369
Period size: 40 Copynumber: 6.5 Consensus size: 40
34988857 AAACCAAGTA
* * * *
34988867 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
34988906 CCTTCGGGACTTAG-CCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34988945 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34988985 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34989025 CCTTCGGGACTTAGCCC--ATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34989063 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
34989102 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34989121 TTATCATCCG
Statistics
Matches: 199, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
37 8 0.04
38 30 0.15
39 71 0.36
40 90 0.45
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34989115 original size:117 final size:119
Alignment explanation
Indices: 34988900--34989124 Score: 384
Period size: 117 Copynumber: 1.9 Consensus size: 119
34988890 GCTACTTGCT
**
34988900 CAAATGCCTTCGGGACTTAGCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCGCATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
34988965 TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
66 TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
34989019 CAAATGCCTTCGGGACTTAGCC-CATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCGCATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
34989082 -ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
66 TA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
34989125 CATCCGAATA
Statistics
Matches: 101, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
116 1 0.01
117 50 0.50
118 28 0.28
119 22 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCGCATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:35000165 original size:24 final size:23
Alignment explanation
Indices: 35000138--35000203 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
35000128 TTTTCTTTAT
35000138 TTTATTTTATTTCATTTTTACTTA
1 TTTATTTTATTTCATTTTTA-TTA
35000162 TTTACTTATTA-TTC-TTATTTATTA
1 TTTA-TT-TTATTTCATT-TTTATTA
35000186 TTTA-TTTATTTTCATTTT
1 TTTATTTTA-TTTCATTTT
35000204 CTTCCTATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
21 3 0.08
22 1 0.03
23 5 0.14
24 15 0.42
25 9 0.25
26 3 0.08
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTATTTTATTTCATTTTTATTA
Found at i:35000167 original size:8 final size:8
Alignment explanation
Indices: 35000154--35000196 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
35000144 TTATTTCATT
35000154 TTTACTTA
1 TTTACTTA
35000162 TTTACTTA
1 TTTACTTA
*
35000170 TTATTCTTA
1 TT-TACTTA
35000179 TTTA-TTA
1 TTTACTTA
*
35000186 TTTATTTA
1 TTTACTTA
35000194 TTT
1 TTT
35000197 TCATTTTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 7 0.23
8 17 0.55
9 7 0.23
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTACTTA
Found at i:35003835 original size:28 final size:28
Alignment explanation
Indices: 35003784--35003847 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 28
35003774 GTCTTTTTAG
35003784 TTTTCTTTTTTATTTTGTGTTTA-TGCTTA
1 TTTTC-TTTTTATTTTGTGTTTATTG-TTA
35003813 TGTTTCTTTTTATTTCT-T-TTTATTGTTA
1 T-TTTCTTTTTATTT-TGTGTTTATTGTTA
35003841 TTTTCTT
1 TTTTCTT
35003848 AGAATTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
27 6 0.19
28 8 0.25
29 13 0.41
30 5 0.16
ACGTcount: A:0.09, C:0.08, G:0.08, T:0.75
Consensus pattern (28 bp):
TTTTCTTTTTATTTTGTGTTTATTGTTA
Found at i:35007864 original size:24 final size:24
Alignment explanation
Indices: 35007832--35007917 Score: 147
Period size: 24 Copynumber: 3.6 Consensus size: 24
35007822 GGCTCTTTAT
35007832 GAGCTTCCCGATATTAGCTATCTG
1 GAGCTTCCCGATATTAGCTATCTG
35007856 GAGCTTCCCGATATTAGCTATCTG
1 GAGCTTCCCGATATTAGCTATCTG
35007880 GAGCTTCCCGATATTAGCTATCCT-
1 GAGCTTCCCGATATTAGCTAT-CTG
*
35007904 GAGCTTCTCGATAT
1 GAGCTTCCCGATAT
35007918 CGTTCTTTGT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
24 58 0.97
25 2 0.03
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGATATTAGCTATCTG
Found at i:35007935 original size:48 final size:49
Alignment explanation
Indices: 35007823--35007935 Score: 133
Period size: 48 Copynumber: 2.3 Consensus size: 49
35007813 CATTAAATTG
*
35007823 GCTCTTTATGAGCTTCCCGATATTAGCTATCTGGAGCTTCCCGATATTA
1 GCTCTTTGTGAGCTTCCCGATATTAGCTATCTGGAGCTTCCCGATATTA
* * * *
35007872 GCTATCTG-GAGCTTCCCGATATTAGCTATCCT-GAGCTTCTCGATA-TC
1 GCTCTTTGTGAGCTTCCCGATATTAGCTAT-CTGGAGCTTCCCGATATTA
* *
35007919 GTTCTTTGTGAACTTCC
1 GCTCTTTGTGAGCTTCC
35007936 TGATTATGGC
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
47 6 0.11
48 40 0.75
49 7 0.13
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.37
Consensus pattern (49 bp):
GCTCTTTGTGAGCTTCCCGATATTAGCTATCTGGAGCTTCCCGATATTA
Found at i:35008004 original size:23 final size:24
Alignment explanation
Indices: 35007978--35008033 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
35007968 AGCTCGGATA
* * * *
35007978 AGCTTCCCGATAT-GTTTTTTGTG
1 AGCTTCCCGAAATGGTTCTGTGTC
35008001 AGCTTCCCGAAATGGTTCTGTGTC
1 AGCTTCCCGAAATGGTTCTGTGTC
35008025 AGCTTCCCG
1 AGCTTCCCG
35008034 TTACAAGGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (24 bp):
AGCTTCCCGAAATGGTTCTGTGTC
Found at i:35013347 original size:36 final size:35
Alignment explanation
Indices: 35013272--35013351 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 35
35013262 GCTGAAAATC
* * *
35013272 TTTCTTTACTTTTCATAGTTTTAGGTTAGGTTTCTT
1 TTTCTTTTCTTTT-ATAGTTTTAGATTAGGTTTCCT
*
35013308 TTTCTTTTCTTTT-TATTTTTAGATTAGGTTTTTCCT
1 TTTCTTTTCTTTTATAGTTTTAGATTAGG--TTTCCT
35013344 TTTCTTTT
1 TTTCTTTT
35013352 AGAATATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
34 13 0.34
36 25 0.66
ACGTcount: A:0.11, C:0.11, G:0.10, T:0.68
Consensus pattern (35 bp):
TTTCTTTTCTTTTATAGTTTTAGATTAGGTTTCCT
Found at i:35017540 original size:29 final size:29
Alignment explanation
Indices: 35017506--35017608 Score: 138
Period size: 29 Copynumber: 3.6 Consensus size: 29
35017496 TAATCGATCA
*
35017506 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATGTAATTTAAGCT
* *
35017535 CGCACACATAGTGCAATGTAATTTAAGCT
1 CGCACACTTAGTGCCATGTAATTTAAGCT
35017564 CGCACACTTAGTGCCA--TACATTTCAAGCT
1 CGCACACTTAGTGCCATGTA-ATTT-AAGCT
*
35017593 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
35017609 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 60 0.91
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGTAATTTAAGCT
Found at i:35025570 original size:29 final size:28
Alignment explanation
Indices: 35025536--35025638 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 28
35025526 TAATCGATCA
*
35025536 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
*
35025565 CGCACACATAGTGCCATATAATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
35025594 CGCACACTTAGTGCCA-TACATTTCAAGCT
1 CGCACACTTAGTGCCATTA-ATTT-AAGCT
*
35025623 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
35025639 ATCTCGTCAC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 61 0.91
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATTAATTTAAGCT
Found at i:35031449 original size:47 final size:47
Alignment explanation
Indices: 35031361--35031534 Score: 233
Period size: 47 Copynumber: 3.7 Consensus size: 47
35031351 GATTTTATGC
* * *
35031361 GATGAATGTGAATGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAA-G-GTGTATATATGTGATAAGGCCGAATGGCCAATGT
35031410 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * * *
35031457 GATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* *
35031504 GATGGATGTGGAA-GTGTATAAATGTGATAAG
1 GATGAATGT-GAAGGTGTATATATGTGATAAG
35031535 TCCCGAAGGG
Statistics
Matches: 114, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
47 98 0.86
48 4 0.04
49 12 0.11
ACGTcount: A:0.32, C:0.07, G:0.32, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:35035237 original size:6 final size:6
Alignment explanation
Indices: 35035219--35035355 Score: 84
Period size: 6 Copynumber: 22.3 Consensus size: 6
35035209 AAGAAACATT
* * *
35035219 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAAA ATCAGA ATTAGA GTCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
35035267 ATTAG- GTGACAGA ATCAAA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * *
35035317 ATCAGA ATTAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
35035356 GTGAATGCAA
Statistics
Matches: 98, Mismatches: 22, Indels: 22
0.69 0.15 0.15
Matches are distributed among these distances:
5 6 0.06
6 80 0.82
7 9 0.09
8 3 0.03
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:35035310 original size:31 final size:31
Alignment explanation
Indices: 35035270--35035355 Score: 154
Period size: 31 Copynumber: 2.8 Consensus size: 31
35035260 AGTCAGAATT
*
35035270 AGGTGACAGAATCAAAATCAGAATCAGTATC
1 AGGTAACAGAATCAAAATCAGAATCAGTATC
*
35035301 AGGTAACAGAATCAAAATCAGAATTAGTATC
1 AGGTAACAGAATCAAAATCAGAATCAGTATC
35035332 AGGTAACAGAATCAAAATCAGAAT
1 AGGTAACAGAATCAAAATCAGAAT
35035356 GTGAATGCAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (31 bp):
AGGTAACAGAATCAAAATCAGAATCAGTATC
Found at i:35036878 original size:40 final size:40
Alignment explanation
Indices: 35036809--35036934 Score: 157
Period size: 40 Copynumber: 3.2 Consensus size: 40
35036799 AACCCAAGTA
* **
35036809 CCTTCGGGATTTAG-CCGGATATAACAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
*
35036848 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* * * *
35036888 CCGTCGGGACTTAACCTGGATATAGTCACT-AGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCA-CACAAATG
35036928 CCTTCGG
1 CCTTCGG
35036935 ATCTTAGTCC
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
39 13 0.17
40 62 0.83
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
Found at i:35041040 original size:29 final size:29
Alignment explanation
Indices: 35041008--35041110 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
35040998 GTGACGAGAT
* *
35041008 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
35041037 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
35041066 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
35041095 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
35041111 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:35049028 original size:29 final size:29
Alignment explanation
Indices: 35048996--35049098 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
35048986 GTGACGAGAT
* *
35048996 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
35049025 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
35049054 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
35049083 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
35049099 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:35055306 original size:40 final size:40
Alignment explanation
Indices: 35055237--35055433 Score: 243
Period size: 40 Copynumber: 5.2 Consensus size: 40
35055227 AACCCAAGTA
* * **
35055237 CCTTCGGGA-TTTAGCCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
* *
35055276 CCTTCGGGATTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
35055316 CCTTCGGG-----A--C--ATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
35055347 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
* * *
35055387 CCTTCGGGACTTAACCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
35055427 CCTTCGG
1 CCTTCGG
35055434 ATCTTAGTCC
Statistics
Matches: 139, Mismatches: 9, Indels: 19
0.83 0.05 0.11
Matches are distributed among these distances:
31 29 0.21
33 1 0.01
36 1 0.01
38 1 0.01
39 9 0.06
40 98 0.71
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
Found at i:35055333 original size:31 final size:31
Alignment explanation
Indices: 35055295--35055356 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
35055285 TTTAGCCCGG
35055295 ATATAGTAACTCGCACAAATGCCTTCGGGAC
1 ATATAGTAACTCGCACAAATGCCTTCGGGAC
35055326 ATATAGTAACTCGCACAAATGCCTTCGGGAC
1 ATATAGTAACTCGCACAAATGCCTTCGGGAC
35055357 TTAACCCGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (31 bp):
ATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:35055371 original size:71 final size:71
Alignment explanation
Indices: 35055262--35055396 Score: 252
Period size: 71 Copynumber: 1.9 Consensus size: 71
35055252 CGGATATAAC
* *
35055262 AACTCGCACAAATGCCTTCGGGATTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACA
1 AACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACA
35055327 TATAGT
66 TATAGT
35055333 AACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 AACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
35055397 TTAACCCGAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (71 bp):
AACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACA
TATAGT
Found at i:35057420 original size:27 final size:27
Alignment explanation
Indices: 35057373--35057564 Score: 190
Period size: 27 Copynumber: 7.1 Consensus size: 27
35057363 GTAAAATGGA
* * * *
35057373 AATTTTACCCCACAAGGGTATCTCAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
* * *
35057400 AATTCTACCTTACAGGAGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
* *
35057427 AATTCTACCAC-ATAGGGATATTTC-GT
1 AATTCTACC-CTACAGGGGTATTTCAGT
* * *
35057453 ATTTCTACCTTACAGGGGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
*
35057480 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCAGT
*
35057507 ATTTCTACCCTACAGGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
* * * * *
35057534 ATTTCTACCCTGCAAGGATATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCAGT
35057561 AATT
1 AATT
35057565 TCACAAATCA
Statistics
Matches: 134, Mismatches: 28, Indels: 6
0.80 0.17 0.04
Matches are distributed among these distances:
26 20 0.15
27 114 0.85
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCAGT
Found at i:35057465 original size:53 final size:54
Alignment explanation
Indices: 35057402--35057566 Score: 226
Period size: 54 Copynumber: 3.1 Consensus size: 54
35057392 ATCTCAGTAA
* *
35057402 TTCTACCTTACAGGAGTATTTTAGTAATTCTACCAC-ATAGGGATATTTC-GTAT
1 TTCTACCTTACAGGGGTATTTTAGTAATTCTACC-CTACAGGGATATTTCGGTAT
*
35057455 TTCTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAT
1 TTCTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGATATTTCGGTAT
* * * * *
35057509 TTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTGCAAGGATATTTCGGTAAT
1 TTCTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGATATTTCGGT-AT
35057564 TTC
1 TTC
35057567 ACAAATCAAG
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 44 0.44
54 50 0.50
55 5 0.05
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (54 bp):
TTCTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGATATTTCGGTAT
Found at i:35057529 original size:80 final size:81
Alignment explanation
Indices: 35057388--35057542 Score: 206
Period size: 80 Copynumber: 1.9 Consensus size: 81
35057378 TACCCCACAA
* * *
35057388 GGGTATCTCAGTAATTCTACCTTACAGGAGTATTTTAGTAATTCTACCACATAGGGATATTTC-G
1 GGGTATCTCAGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCACACAGGGATATTTCAG
35057452 TATTTCTACCTTACAG
66 TATTTCTACCTTACAG
* * * * * *
35057468 GGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC-CTACAGGGGTATTTCA
1 GGGTATCTCAGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCAC-ACAGGGATATTTCA
35057532 GTATTTCTACC
65 GTATTTCTACC
35057543 CTGCAAGGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.02
80 52 0.81
81 11 0.17
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (81 bp):
GGGTATCTCAGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCACACAGGGATATTTCAG
TATTTCTACCTTACAG
Found at i:35057540 original size:54 final size:54
Alignment explanation
Indices: 35057373--35057566 Score: 223
Period size: 54 Copynumber: 3.6 Consensus size: 54
35057363 GTAAAATGGA
* * * * * * *
35057373 AATTTTACCCCACAAGGGTATCTCAGTAATTCTACCTTACAGGAGTATTTTAGT
1 AATTCTACCCTACAAGGATATTTCGGTATTTCTACCTTACAGGGGTATTTTAGT
35057427 AATTCTA-CC-ACATAGGGATATTTC-GTATTTCTACCTTACAGGGGTATTTTAGT
1 AATTCTACCCTACA-A-GGATATTTCGGTATTTCTACCTTACAGGGGTATTTTAGT
* * * *
35057480 AATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCAGT
1 AATTCTACCCTACAAGGATATTTCGGTATTTCTACCTTACAGGGGTATTTTAGT
* *
35057534 ATTTCTACCCTGCAAGGATATTTCGGTAATTTC
1 AATTCTACCCTACAAGGATATTTCGGT-ATTTC
35057567 ACAAATCAAG
Statistics
Matches: 121, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
52 3 0.02
53 45 0.37
54 65 0.54
55 8 0.07
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (54 bp):
AATTCTACCCTACAAGGATATTTCGGTATTTCTACCTTACAGGGGTATTTTAGT
Found at i:35057668 original size:26 final size:27
Alignment explanation
Indices: 35057610--35057724 Score: 171
Period size: 27 Copynumber: 4.3 Consensus size: 27
35057600 CGAGGGTATT
35057610 ATGGTAATTCTGTAAATCAAGGGTAAA
1 ATGGTAATTCTGTAAATCAAGGGTAAA
*
35057637 ACGGTAATTCTGTAAATCAA-GGTAAA
1 ATGGTAATTCTGTAAATCAAGGGTAAA
*
35057663 ATGGTAATTTTGTAAATCAAGGGTAAA
1 ATGGTAATTCTGTAAATCAAGGGTAAA
* *
35057690 ATGGTAATTCTATAAATCGAGGGT-AA
1 ATGGTAATTCTGTAAATCAAGGGTAAA
*
35057716 ACGGTAATT
1 ATGGTAATT
35057725 GTGACAACCC
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
26 34 0.43
27 46 0.57
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
ATGGTAATTCTGTAAATCAAGGGTAAA
Found at i:35057682 original size:53 final size:53
Alignment explanation
Indices: 35057610--35057724 Score: 169
Period size: 53 Copynumber: 2.2 Consensus size: 53
35057600 CGAGGGTATT
*
35057610 ATGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTGTAAATC-AAGGTAAA
1 ATGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTATAAATCGAAGGT-AA
* * *
35057663 ATGGTAATTTTGTAAATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAA
1 ATGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTATAAATCGAAGGTAA
*
35057716 ACGGTAATT
1 ATGGTAATT
35057725 GTGACAACCC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 52 0.93
54 4 0.07
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (53 bp):
ATGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTATAAATCGAAGGTAA
Found at i:35059054 original size:68 final size:70
Alignment explanation
Indices: 35058982--35059179 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
35058972 ACACCCTGTA
* * * *
35058982 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
35059044 ATAAAT
65 ATAAAT
*
35059050 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
35059115 ATAAAT
65 ATAAAT
*
35059121 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
35059180 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:35059093 original size:41 final size:41
Alignment explanation
Indices: 35059048--35059165 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
35059038 TGAAAGATAA
35059048 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
35059089 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35059119 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35059160 ATGTAG
1 ATGTAG
35059166 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:35059105 original size:71 final size:71
Alignment explanation
Indices: 35059016--35059179 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35059006 GAGATGTATC
35059016 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35059081 AGGACA
66 AGGACA
35059087 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35059152 AGGACA
66 AGGACA
35059158 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
35059180 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:35063214 original size:40 final size:40
Alignment explanation
Indices: 35063159--35063455 Score: 451
Period size: 40 Copynumber: 7.5 Consensus size: 40
35063149 AAGCCAAGTA
* *
35063159 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
35063199 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35063238 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
35063278 CCTTCGGGACTTAGCCCGGATGTAATAACT--CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35063316 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
35063356 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
35063396 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
35063437 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
35063456 TTATCATCCA
Statistics
Matches: 236, Mismatches: 15, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
38 36 0.15
39 37 0.16
40 136 0.58
41 24 0.10
42 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Done.