Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 303 of 335
Found at i:90051603 original size:14 final size:15
Alignment explanation
Indices: 90051577--90051620 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
90051567 CTTTAAACCC
90051577 TTATAATACCCTAAA-
1 TTATAA-ACCCTAAAT
90051592 TTATAAACCCTAAAT
1 TTATAAACCCTAAAT
*
90051607 TTGTAAACCCTAAA
1 TTATAAACCCTAAA
90051621 AATAAATTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 8 0.30
15 19 0.70
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.32
Consensus pattern (15 bp):
TTATAAACCCTAAAT
Found at i:90052599 original size:20 final size:20
Alignment explanation
Indices: 90052554--90052605 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
90052544 CCCCACCCAA
*
90052554 ATTTCCCCAAATCCCTAACT
1 ATTTCCCCAAATCCCTAAAT
*
90052574 -TTTCCCCTAATCCCTAAAT
1 ATTTCCCCAAATCCCTAAAT
*
90052593 ATTTCCCCGAATC
1 ATTTCCCCAAATC
90052606 AAAATCGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.27, C:0.38, G:0.02, T:0.33
Consensus pattern (20 bp):
ATTTCCCCAAATCCCTAAAT
Found at i:90052647 original size:19 final size:19
Alignment explanation
Indices: 90052623--90052676 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
90052613 AAATATCCTT
90052623 CTGCCGTTGAAGACTCCGA
1 CTGCCGTTGAAGACTCCGA
*
90052642 CTGCCGTTGAAGAATCCGA
1 CTGCCGTTGAAGACTCCGA
*
90052661 CTGCCATTGAAGACTC
1 CTGCCGTTGAAGACTC
90052677 TGAGTGGACG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (19 bp):
CTGCCGTTGAAGACTCCGA
Found at i:90056165 original size:23 final size:23
Alignment explanation
Indices: 90056135--90056183 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 23
90056125 ACATTAATCT
90056135 AATGTATGAA-TTGCAGCCCTTTA
1 AATGTATGAATTTG-AGCCCTTTA
90056158 AATGTATGAATTTGAGCCCTTTA
1 AATGTATGAATTTGAGCCCTTTA
90056181 AAT
1 AAT
90056184 AAACTTGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (23 bp):
AATGTATGAATTTGAGCCCTTTA
Found at i:90056242 original size:10 final size:10
Alignment explanation
Indices: 90056227--90056277 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
90056217 TTATTATTTG
90056227 AAGTATGAAT
1 AAGTATGAAT
90056237 AAGTATGAAT
1 AAGTATGAAT
* **
90056247 AAGTTTTTAT
1 AAGTATGAAT
90056257 -A--ATGAAT
1 AAGTATGAAT
90056264 AAGTATGAAT
1 AAGTATGAAT
90056274 AAGT
1 AAGT
90056278 TTTTATATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
7 3 0.09
8 1 0.03
9 1 0.03
10 27 0.84
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (10 bp):
AAGTATGAAT
Found at i:90056269 original size:27 final size:27
Alignment explanation
Indices: 90056231--90056284 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
90056221 TATTTGAAGT
90056231 ATGAATAAGTATGAATAAGTTTTTATA
1 ATGAATAAGTATGAATAAGTTTTTATA
90056258 ATGAATAAGTATGAATAAGTTTTTATA
1 ATGAATAAGTATGAATAAGTTTTTATA
90056285 TTTGATTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (27 bp):
ATGAATAAGTATGAATAAGTTTTTATA
Found at i:90057133 original size:240 final size:241
Alignment explanation
Indices: 90056343--90057254 Score: 1745
Period size: 241 Copynumber: 3.8 Consensus size: 241
90056333 ATGAATTAAT
* *
90056343 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGCTT
1 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTT
90056408 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
90056473 CCGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CCATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
90056538 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATA
196 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATA
90056584 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTT
1 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTT
*
90056649 ATTGTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
90056714 CCGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CCATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
90056779 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATA
196 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATA
90056825 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTT
1 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTT
90056890 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
* *
90056955 CTATAAGATATAATGGATCCTCCCTAGGTGTAACAACG-CGCGTATGATGAATCTTAAAAAATTC
131 CCATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
90057019 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATA
196 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATA
90057065 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTT
1 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTT
90057130 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
90057195 CTATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAA
131 CCATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAA
90057255 TTTATAACTA
Statistics
Matches: 662, Mismatches: 8, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
240 239 0.36
241 423 0.64
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (241 bp):
TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CCATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATA
Found at i:90057246 original size:481 final size:482
Alignment explanation
Indices: 90056343--90057254 Score: 1745
Period size: 481 Copynumber: 1.9 Consensus size: 482
90056333 ATGAATTAAT
*
90056343 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGCTT
1 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGCTT
90056408 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
90056473 CCGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CCATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
90056538 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATATTTATTACCATATAGCTTG
196 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATATTTATTACCATATAGCTTG
90056603 CTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTTATTGTAAATATTTTAAAGA
261 CTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTTATTGTAAATATTTTAAAGA
*
90056668 TTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCCGTAAGATATAATGGATC
326 TTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCCATAAGATATAATGGATC
90056733 CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAAAT
391 CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAAAT
90056798 TCTATCCAACTCATTTACTATTGAATA
456 TCTATCCAACTCATTTACTATTGAATA
*
90056825 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTT
1 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGCTT
90056890 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
* *
90056955 CTATAAGATATAATGGATCCTCCCTAGGTGTAACAACG-CGCGTATGATGAATCTTAAAAAATTC
131 CCATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
90057019 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATATTTATTACCATATAGCTTG
196 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATATTTATTACCATATAGCTTG
*
90057084 CTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTTATTTTAAATATTTTAAAGA
261 CTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTTATTGTAAATATTTTAAAGA
*
90057149 TTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTATAAGATATAATGGATC
326 TTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCCATAAGATATAATGGATC
90057214 CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAA
391 CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAA
90057255 TTTATAACTA
Statistics
Matches: 422, Mismatches: 8, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
481 258 0.61
482 164 0.39
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (482 bp):
TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CCATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATATTTATTACCATATAGCTTG
CTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTTATTGTAAATATTTTAAAGA
TTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCCATAAGATATAATGGATC
CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAAAT
TCTATCCAACTCATTTACTATTGAATA
Found at i:90057321 original size:9 final size:9
Alignment explanation
Indices: 90057298--90057410 Score: 118
Period size: 9 Copynumber: 12.2 Consensus size: 9
90057288 ATTGATCATT
*
90057298 ACTTAAATA
1 ACTTACATA
*
90057307 AATTACATA
1 ACTTACATA
90057316 ACTTACATA
1 ACTTACATA
* *
90057325 ACTCATATA
1 ACTTACATA
90057334 ACTTACATA
1 ACTTACATA
*
90057343 ATTTACATAACA
1 ACTTACAT---A
90057355 ACTTACATA
1 ACTTACATA
*
90057364 ACTCACATA
1 ACTTACATA
90057373 ACTTACATA
1 ACTTACATA
*
90057382 ATTTACATA
1 ACTTACATA
*
90057391 ACTCACATA
1 ACTTACATA
*
90057400 ACGTACATA
1 ACTTACATA
90057409 AC
1 AC
90057411 AACTTACATA
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
9 77 0.91
12 8 0.09
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:90057367 original size:39 final size:39
Alignment explanation
Indices: 90057315--90057392 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
90057305 TAAATTACAT
*
90057315 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
90057354 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
90057393 TCACATAACG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:90057392 original size:57 final size:57
Alignment explanation
Indices: 90057311--90057422 Score: 170
Period size: 57 Copynumber: 2.0 Consensus size: 57
90057301 TAAATAAATT
* * **
90057311 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* *
90057368 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAAC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAAC
90057423 CTAACTAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.29
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:90063444 original size:43 final size:43
Alignment explanation
Indices: 90063413--90063663 Score: 376
Period size: 43 Copynumber: 5.8 Consensus size: 43
90063403 GCGTTTGTAG
* * *
90063413 AAAAAGCGCCGCTAGAAGCCTTGACCTTTAGCGGCGCTTTTCCAA
1 AAAAA-CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCC-C
*
90063458 AAAAACGCCGCTAAAAGCCTAGACCTTTAGCGGCGCTTCTCCC
1 AAAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCC
* * *
90063501 ACAAGCGCCGCTAAAAGCCTAGACCTTTAGCGGCGCTTCTCCC
1 AAAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCC
*
90063544 ACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCC
1 AAAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCC
* *
90063587 ACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCC
* *
90063630 ACAAACGCCGCTAGAAGCCTTGACCTTTAGCGGC
1 AAAAACGCCGCTAAAAGCCTTGACCTTTAGCGGC
90063664 ATTTTTTTCC
Statistics
Matches: 196, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
43 157 0.80
44 34 0.17
45 5 0.03
ACGTcount: A:0.25, C:0.34, G:0.20, T:0.20
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCC
Found at i:90063580 original size:86 final size:86
Alignment explanation
Indices: 90063416--90063663 Score: 415
Period size: 86 Copynumber: 2.9 Consensus size: 86
90063406 TTTGTAGAAA
* * * *
90063416 AAGCGCCGCTAGAAGCCTTGACCTTTAGCGGCGCTTTTCCAAAAAAACGCCGCTAAAAGCCTAGA
1 AAGCGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCC-CACAAACGCCGCTAAAAGCCTTGA
90063481 CCTTTAGCGGCGCTTCTCCCAC
65 CCTTTAGCGGCGCTTCTCCCAC
* *
90063503 AAGCGCCGCTAAAAGCCTAGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAAGCCTTGAC
1 AAGCGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGAC
90063568 CTTTAGCGGCGCTTCTCCCAC
66 CTTTAGCGGCGCTTCTCCCAC
* *
90063589 AAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAGAAGCCTTGAC
1 AAGCGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGAC
90063654 CTTTAGCGGC
66 CTTTAGCGGC
90063664 ATTTTTTTCC
Statistics
Matches: 151, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
86 114 0.75
87 37 0.25
ACGTcount: A:0.24, C:0.35, G:0.21, T:0.21
Consensus pattern (86 bp):
AAGCGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGAC
CTTTAGCGGCGCTTCTCCCAC
Found at i:90064934 original size:13 final size:13
Alignment explanation
Indices: 90064913--90064947 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
90064903 AAATTTTTCT
90064913 AAAACACTTCTCA
1 AAAACACTTCTCA
*
90064926 AAAATACTTCTCA
1 AAAACACTTCTCA
*
90064939 AAAGCACTT
1 AAAACACTT
90064948 TTTCACAGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.46, C:0.26, G:0.03, T:0.26
Consensus pattern (13 bp):
AAAACACTTCTCA
Found at i:90064957 original size:13 final size:13
Alignment explanation
Indices: 90064938--90064983 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
90064928 AATACTTCTC
90064938 AAAAGCACTTTTT
1 AAAAGCACTTTTT
* *
90064951 CACAGCACTTTTT
1 AAAAGCACTTTTT
*
90064964 AAAAGCACTTTTC
1 AAAAGCACTTTTT
90064977 AAAAGCA
1 AAAAGCA
90064984 ATGAAGAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (13 bp):
AAAAGCACTTTTT
Found at i:90064983 original size:26 final size:26
Alignment explanation
Indices: 90064907--90064983 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 26
90064897 ACACTTAAAT
* **
90064907 TTTTCTAAAA-CACTTCTCAAAAATAC
1 TTTT-TAAAAGCACTTTTCAAAAGCAC
* * *
90064933 TTCTCAAAAGCACTTTTTC-ACAGCAC
1 TTTTTAAAAGCAC-TTTTCAAAAGCAC
90064959 TTTTTAAAAGCACTTTTCAAAAGCA
1 TTTTTAAAAGCACTTTTCAAAAGCA
90064984 ATGAAGAACT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
25 9 0.23
26 26 0.67
27 4 0.10
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (26 bp):
TTTTTAAAAGCACTTTTCAAAAGCAC
Found at i:90070840 original size:2 final size:2
Alignment explanation
Indices: 90070835--90070891 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
90070825 ACACACACGC
90070835 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90070877 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
90070892 GATTGATAAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90083864 original size:29 final size:29
Alignment explanation
Indices: 90083803--90083884 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
90083793 CGTGTCTAGT
* * * *
90083803 ACACAGCTTGTCACACGGCTATGTATCAT
1 ACACAGCCTGCCACACGGCTGTGTATCAC
* *
90083832 ACACAGCCTGCCACACGGCTGTGTGTCGC
1 ACACAGCCTGCCACACGGCTGTGTATCAC
* * *
90083861 ACACTGCCTACCACATGGCTGTGT
1 ACACAGCCTGCCACACGGCTGTGT
90083885 TGCGTTAATA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.23
Consensus pattern (29 bp):
ACACAGCCTGCCACACGGCTGTGTATCAC
Found at i:90086474 original size:20 final size:21
Alignment explanation
Indices: 90086451--90086504 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 21
90086441 TTAAAATAAA
90086451 TATTATACTTAATATGA-AT-T
1 TATTATA-TTAATATGAGATAT
*
90086471 TATTTTA-TAATATGAGATAT
1 TATTATATTAATATGAGATAT
*
90086491 AATTATATTTAATA
1 TATTATA-TTAATA
90086505 CATATTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 8 0.30
19 2 0.07
20 12 0.44
22 5 0.19
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (21 bp):
TATTATATTAATATGAGATAT
Found at i:90086723 original size:106 final size:108
Alignment explanation
Indices: 90086613--90086811 Score: 244
Period size: 107 Copynumber: 1.9 Consensus size: 108
90086603 ATACAATTAA
* * * **
90086613 GATATTATAATGCAC-TTTCTTTTATTAATGATATGCAA-CGT-AAATATTAAATATGGAACTAA
1 GATATTATAACGCACATTT-TTATATTAATGATAGGCAATC-TCAAATATTAAATATACAACTAA
* *
90086675 TTTTTTGGTAAATTATACTATATA-AATTAACATTATATACTTAG
64 TTTTATGGTAAATTATAATATATACAATTAACATTATATACTTAG
* * * * *
90086719 GATATTATAACGTACATTTTTATATTAATGATAGGTAATCTCAAATCTTAAATGTACAATTAATT
1 GATATTATAACGCACATTTTTATATTAATGATAGGCAATCTCAAATATTAAATATACAACTAATT
90086784 TTATGGTAAATTATAATATATACAATTA
66 TTATGGTAAATTATAATATATACAATTA
90086812 GCACGAGTTA
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
106 30 0.39
107 42 0.55
108 5 0.06
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (108 bp):
GATATTATAACGCACATTTTTATATTAATGATAGGCAATCTCAAATATTAAATATACAACTAATT
TTATGGTAAATTATAATATATACAATTAACATTATATACTTAG
Found at i:90091691 original size:23 final size:22
Alignment explanation
Indices: 90091648--90091691 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
90091638 AAAATAAAAT
*
90091648 AAAATAAAATATTTAAAAATTA
1 AAAATAAAATATTAAAAAATTA
90091670 AAAATAAAGATA-TAAAATAATT
1 AAAATAAA-ATATTAAAA-AATT
90091692 TTTTTCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAATAAAATATTAAAAAATTA
Found at i:90104357 original size:15 final size:16
Alignment explanation
Indices: 90104326--90104361 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
90104316 AATTGTTTGA
90104326 TAAATCAATAAAAAAT
1 TAAATCAATAAAAAAT
* *
90104342 TAAATCAATTAAAATT
1 TAAATCAATAAAAAAT
90104358 TAAA
1 TAAA
90104362 AAATTTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (16 bp):
TAAATCAATAAAAAAT
Found at i:90107765 original size:18 final size:18
Alignment explanation
Indices: 90107729--90107766 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
90107719 CTTATTACAA
90107729 AATTTAAAACCCAAATTAG
1 AATTTAAAA-CCAAATTAG
90107748 AATTTAAAA-CAGAATTAG
1 AATTTAAAACCA-AATTAG
90107766 A
1 A
90107767 GTCCAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.11
18 7 0.39
19 9 0.50
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (18 bp):
AATTTAAAACCAAATTAG
Found at i:90108025 original size:59 final size:60
Alignment explanation
Indices: 90107959--90108090 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 60
90107949 AATTGAGCCT
* * *
90107959 TAGCCCATATCAATTTTAATCTGGGCCATAGC-CCCTTAC-AGATC-AGAGTATACTGGGCC
1 TAGCCCATATCAATATCAATCTGGGCCATAGCACCATTACAAG-TCGAGA-TATACTGGGCC
* * * * *
90108018 TAGCCCATATCAGTATCAATCTGGGTCGTAGCACTATTACAAGTCGAGATATATTGGGCC
1 TAGCCCATATCAATATCAATCTGGGCCATAGCACCATTACAAGTCGAGATATACTGGGCC
*
90108078 TTGCCCATATCAA
1 TAGCCCATATCAA
90108091 CATAGTTGGG
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
59 27 0.45
60 28 0.47
61 5 0.08
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (60 bp):
TAGCCCATATCAATATCAATCTGGGCCATAGCACCATTACAAGTCGAGATATACTGGGCC
Found at i:90109387 original size:16 final size:17
Alignment explanation
Indices: 90109356--90109389 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
90109346 TCAAGGAAGG
*
90109356 AAGAGATGAGAAAAAGA
1 AAGAGATGAAAAAAAGA
90109373 AAGAGA-GAAAAAAAGA
1 AAGAGATGAAAAAAAGA
90109389 A
1 A
90109390 GAAAGAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (17 bp):
AAGAGATGAAAAAAAGA
Found at i:90114828 original size:2 final size:2
Alignment explanation
Indices: 90114821--90114852 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
90114811 ATTACTACTA
90114821 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90114853 TAGAACAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90122980 original size:18 final size:18
Alignment explanation
Indices: 90122941--90123056 Score: 173
Period size: 18 Copynumber: 6.5 Consensus size: 18
90122931 AATGATATGT
90122941 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
90122958 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
90122976 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
90122993 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
*
90123011 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
90123029 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
90123048 AATCTTAGA
1 AATCTTAGA
90123057 AGATATGATT
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
17 29 0.32
18 50 0.56
19 11 0.12
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:90122981 original size:35 final size:36
Alignment explanation
Indices: 90122932--90123056 Score: 191
Period size: 35 Copynumber: 3.5 Consensus size: 36
90122922 ATAATCTTCA
* *
90122932 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
90122968 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
*
90123003 ATGAT-TGCAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGA-TACAATCTTAGAT
*
90123039 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
90123057 AGATATGATT
Statistics
Matches: 83, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
35 50 0.60
36 22 0.27
37 11 0.13
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (36 bp):
ATGATATGCAATCTTAGATATGATACAATCTTAGAT
Found at i:90123031 original size:53 final size:53
Alignment explanation
Indices: 90122941--90123056 Score: 189
Period size: 53 Copynumber: 2.2 Consensus size: 53
90122931 AATGATATGT
90122941 AATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTAGATATG-ATAC
1 AATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTAGATATGAATAC
* *
90122993 AATCTTAGATATGATTGCAATCTTAGATATGATTGCAATCTTAGATATGATATAC
1 AATCTTAGATATGA-TACAATCTTAAATATGATTGCAATCTTAGATATGA-ATAC
90123048 AATCTTAGA
1 AATCTTAGA
90123057 AGATATGATT
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
52 14 0.24
53 32 0.54
55 13 0.22
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (53 bp):
AATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTAGATATGAATAC
Found at i:90123561 original size:18 final size:17
Alignment explanation
Indices: 90123537--90123596 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
90123527 CCAATATATT
90123537 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
90123554 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
90123570 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
90123588 TTATATTTT
1 TTATATTTT
90123597 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:90123581 original size:15 final size:16
Alignment explanation
Indices: 90123538--90123596 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
90123528 CAATATATTT
90123538 TATATTTTTTATATAA
1 TATATTTTTTATATAA
90123554 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
90123570 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
90123588 TTATATTTT
1 -TATATTTT
90123597 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:90123621 original size:26 final size:26
Alignment explanation
Indices: 90123573--90123622 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
90123563 TTATAAATAT
* * * *
90123573 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
90123599 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
90123623 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:90127536 original size:13 final size:13
Alignment explanation
Indices: 90127518--90127542 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90127508 GGACAGTGGG
90127518 AAATTAAAACATT
1 AAATTAAAACATT
90127531 AAATTAAAACAT
1 AAATTAAAACAT
90127543 GAATGTGCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATTAAAACATT
Found at i:90128618 original size:15 final size:15
Alignment explanation
Indices: 90128598--90128628 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
90128588 TTAAAATGAT
90128598 GGCACCATGGGAGAC
1 GGCACCATGGGAGAC
90128613 GGCACCATGGGAGAC
1 GGCACCATGGGAGAC
90128628 G
1 G
90128629 ACACTGTAAC
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:0.26, C:0.26, G:0.42, T:0.06
Consensus pattern (15 bp):
GGCACCATGGGAGAC
Found at i:90132069 original size:26 final size:26
Alignment explanation
Indices: 90132032--90132115 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
90132022 TGATACAAAT
* *
90132032 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
90132058 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
90132084 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
90132110 TGATAA
1 TGATAA
90132116 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:90135850 original size:9 final size:9
Alignment explanation
Indices: 90135833--90135869 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
90135823 TGAGTTTTCG
90135833 AATTCGAAT
1 AATTCGAAT
*
90135842 AACTCGAAT
1 AATTCGAAT
90135851 AATTCGAAT
1 AATTCGAAT
90135860 AATTCGAAT
1 AATTCGAAT
90135869 A
1 A
90135870 TCAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:90138878 original size:22 final size:21
Alignment explanation
Indices: 90138851--90138918 Score: 100
Period size: 22 Copynumber: 3.1 Consensus size: 21
90138841 GAAATCATCG
*
90138851 AAAAGAATTCACTCAAAAAACA
1 AAAAGAAATCA-TCAAAAAACA
90138873 AAAAGAAATCATTCAAAAAACA
1 AAAAGAAATCA-TCAAAAAACA
90138895 AAAAGAAATCATCAAAAAGACA
1 AAAAGAAATCATCAAAAA-ACA
90138917 AA
1 AA
90138919 CATGTCTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.16
22 36 0.84
ACGTcount: A:0.68, C:0.15, G:0.06, T:0.12
Consensus pattern (21 bp):
AAAAGAAATCATCAAAAAACA
Found at i:90149702 original size:2 final size:2
Alignment explanation
Indices: 90149690--90149724 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
90149680 TTATTAGATT
* *
90149690 TA TA AA TA TA TA TA TA CA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
90149725 CTTAATACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:90153189 original size:18 final size:18
Alignment explanation
Indices: 90153165--90153235 Score: 79
Period size: 18 Copynumber: 3.9 Consensus size: 18
90153155 ACCGTTTACA
90153165 GTACTATTCACGTATACG
1 GTACTATTCACGTATACG
* * ** *
90153183 ATACTATTTATTTATATG
1 GTACTATTCACGTATACG
*
90153201 GTACTATTTACGTATACG
1 GTACTATTCACGTATACG
*
90153219 GTACTATTCACATATAC
1 GTACTATTCACGTATAC
90153236 AGTAGTTGGG
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (18 bp):
GTACTATTCACGTATACG
Found at i:90157302 original size:11 final size:11
Alignment explanation
Indices: 90157288--90157332 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
90157278 TACCCATTCT
90157288 TTGCCCATACC
1 TTGCCCATACC
*
90157299 TTGCCCATGCC
1 TTGCCCATACC
*
90157310 TTTCCCATACC
1 TTGCCCATACC
*
90157321 -TACCCATACC
1 TTGCCCATACC
90157331 TT
1 TT
90157333 AGAAAGGTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 9 0.31
11 20 0.69
ACGTcount: A:0.18, C:0.44, G:0.07, T:0.31
Consensus pattern (11 bp):
TTGCCCATACC
Found at i:90161284 original size:26 final size:27
Alignment explanation
Indices: 90161227--90161286 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
90161217 TATATATAAA
90161227 ATTTATATTTTTGAGTAGGAATTTATT
1 ATTTATATTTTTGAGTAGGAATTTATT
90161254 ATTTATATTTTTGAGTAGGAATTTATT
1 ATTTATATTTTTGAGTAGGAATTTATT
90161281 -TTTATA
1 ATTTATA
90161287 GTTCTCGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 6 0.18
27 27 0.82
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (27 bp):
ATTTATATTTTTGAGTAGGAATTTATT
Found at i:90166544 original size:15 final size:15
Alignment explanation
Indices: 90166521--90166556 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
90166511 AAATTACTTG
*
90166521 AAAAATGGGTGTTAC
1 AAAATTGGGTGTTAC
90166536 AAAATTGGGTGTTAC
1 AAAATTGGGTGTTAC
90166551 AAAATT
1 AAAATT
90166557 ACTTTTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.31
Consensus pattern (15 bp):
AAAATTGGGTGTTAC
Found at i:90166572 original size:31 final size:32
Alignment explanation
Indices: 90166537--90166629 Score: 84
Period size: 31 Copynumber: 2.9 Consensus size: 32
90166527 GGGTGTTACA
90166537 AAATTGGGTGTTACAAAATTACTTTTTGACC-
1 AAATTGGGTGTTACAAAATTACTTTTTGACCG
* * * * * *
90166568 AAATTGGGTATATGAC--CATAACATTTAGGCCG
1 AAATTGGGTGT-T-ACAAAATTACTTTTTGACCG
*
90166600 GAATTGGGTGTTACAAAATTACTTTTTGAC
1 AAATTGGGTGTTACAAAATTACTTTTTGAC
90166630 AAAAAAAAAT
Statistics
Matches: 44, Mismatches: 13, Indels: 9
0.67 0.20 0.14
Matches are distributed among these distances:
30 2 0.05
31 21 0.48
32 19 0.43
33 2 0.05
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
AAATTGGGTGTTACAAAATTACTTTTTGACCG
Found at i:90171603 original size:24 final size:24
Alignment explanation
Indices: 90171575--90171623 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
90171565 CACCAAAGTC
90171575 ACGCCCACTATCATATGGATTTGG
1 ACGCCCACTATCATATGGATTTGG
90171599 ACGCCCACTATCATATGGATTTGG
1 ACGCCCACTATCATATGGATTTGG
90171623 A
1 A
90171624 TCATCACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (24 bp):
ACGCCCACTATCATATGGATTTGG
Found at i:90177959 original size:25 final size:25
Alignment explanation
Indices: 90177930--90177977 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
90177920 TTATAATATG
* * *
90177930 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
90177955 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
90177978 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:90178046 original size:20 final size:20
Alignment explanation
Indices: 90178021--90178079 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
90178011 TAAATATGGT
90178021 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
90178041 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
90178061 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
90178080 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:90178199 original size:47 final size:48
Alignment explanation
Indices: 90178130--90178248 Score: 163
Period size: 47 Copynumber: 2.5 Consensus size: 48
90178120 GAGGAAGTGA
90178130 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTAT-GCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTT-TGGCCCCAGTTATT
* *
90178177 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
*
90178225 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
90178249 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
46 1 0.02
47 42 0.65
48 11 0.17
49 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
Found at i:90178224 original size:24 final size:24
Alignment explanation
Indices: 90178130--90178248 Score: 145
Period size: 24 Copynumber: 5.0 Consensus size: 24
90178120 GAGGAAGTGA
*
90178130 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
90178154 GAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
90178177 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
90178201 GAAAGGGCTT-TGGCCCTAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
90178225 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
90178249 ATGATAAAGC
Statistics
Matches: 82, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
23 22 0.27
24 50 0.61
25 10 0.12
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:90178475 original size:31 final size:31
Alignment explanation
Indices: 90178440--90178503 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
90178430 CGTTTACAGT
90178440 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
90178471 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
90178502 AA
1 AA
90178504 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:90180635 original size:21 final size:21
Alignment explanation
Indices: 90180609--90180649 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
90180599 AGTCAAACGA
* *
90180609 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
90180630 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
90180650 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:90187960 original size:50 final size:51
Alignment explanation
Indices: 90187884--90188014 Score: 201
Period size: 51 Copynumber: 2.5 Consensus size: 51
90187874 AAGCCAAAAC
* * *
90187884 AATTTTTTAGGGAGTTAAATAAAATTTTAC-TTTTATAGTCTATATCTTTAT
1 AATTTTTAAAGGA-TTAAATGAAATTTTACTTTTTATAGTCTATATCTTTAT
90187935 AATTTTTAAAGGATTAAATGAAATTTTACTTTTTATAGTCTATATCTTTAT
1 AATTTTTAAAGGATTAAATGAAATTTTACTTTTTATAGTCTATATCTTTAT
*
90187986 AATTTTTAAAGGATTAAATAGAATTTTTA
1 AATTTTTAAAGGATTAAAT-GAAATTTTA
90188015 TAATTTTAAG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
50 15 0.20
51 51 0.69
52 8 0.11
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.50
Consensus pattern (51 bp):
AATTTTTAAAGGATTAAATGAAATTTTACTTTTTATAGTCTATATCTTTAT
Found at i:90190888 original size:12 final size:12
Alignment explanation
Indices: 90190871--90190898 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
90190861 TATGTACAAA
90190871 ATATATATATAC
1 ATATATATATAC
90190883 ATATATATATAC
1 ATATATATATAC
90190895 ATAT
1 ATAT
90190899 GTACATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATATATATAC
Found at i:90191042 original size:2 final size:2
Alignment explanation
Indices: 90190993--90191023 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
90190983 GGTATTTAAA
*
90190993 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
90191024 ATAGTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90191622 original size:17 final size:17
Alignment explanation
Indices: 90191600--90191683 Score: 60
Period size: 17 Copynumber: 4.5 Consensus size: 17
90191590 GTTTTTCTTT
*
90191600 TTTTTTTTTAGGTTAGG
1 TTTTTTTTTGGGTTAGG
*
90191617 TTTTTTTTGGGGGGTTAGG
1 TTTTTTTT--TGGGTTAGG
90191636 TTTTTTCTTTTTTTTGGGTTAGG
1 ----TT-TT-TTTTTGGGTTAGG
**
90191659 TTTTTTTTTTTGTTAGG
1 TTTTTTTTTGGGTTAGG
90191676 TTTTTTTT
1 TTTTTTTT
90191684 GGGGAGGGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
17 27 0.50
18 2 0.04
19 9 0.17
23 10 0.19
24 2 0.04
25 4 0.07
ACGTcount: A:0.06, C:0.01, G:0.24, T:0.69
Consensus pattern (17 bp):
TTTTTTTTTGGGTTAGG
Found at i:90191646 original size:23 final size:22
Alignment explanation
Indices: 90191617--90191670 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
90191607 TTAGGTTAGG
90191617 TTTTTTTTGGGGGGTTAGGTTT
1 TTTTTTTTGGGGGGTTAGGTTT
***
90191639 TTTCTTTTTTTTGGGTTAGGTTT
1 TTT-TTTTTGGGGGGTTAGGTTT
90191662 TTTTTTTTG
1 TTTTTTTTG
90191671 TTAGGTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.04, C:0.02, G:0.26, T:0.69
Consensus pattern (22 bp):
TTTTTTTTGGGGGGTTAGGTTT
Found at i:90191667 original size:45 final size:44
Alignment explanation
Indices: 90191583--90191670 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 44
90191573 TAGGTGGCTA
**
90191583 GGGTTAGGTTTTTCTTTTTTTTTTTTAGGTTAGGTTTTTTTTGGG
1 GGGTTAGGTTTTTCTTTTTTTTGGTTAGGTTA-GTTTTTTTTGGG
*
90191628 GGGTTAGGTTTTTTCTTTTTTTTGGGTTAGGTT-TTTTTTTTTG
1 GGGTTAGG-TTTTTCTTTTTTTT-GGTTAGGTTAGTTTTTTTTG
90191671 TTAGGTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
45 17 0.45
46 14 0.37
47 7 0.18
ACGTcount: A:0.06, C:0.02, G:0.26, T:0.66
Consensus pattern (44 bp):
GGGTTAGGTTTTTCTTTTTTTTGGTTAGGTTAGTTTTTTTTGGG
Found at i:90191682 original size:42 final size:43
Alignment explanation
Indices: 90191583--90191683 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
90191573 TAGGTGGCTA
*
90191583 GGGTTAGGTTTTTCTTTTTTTTTTTTAGGTTAGGTTTTTTTTGGG
1 GGGTTAGGTTTTT-TTTCTTTTTTTTAGGTTAGGTTTTTTTT-GG
* *
90191628 GGGTTAGG--TTTTTTCTTTTTTTTGGGTTAGGTTTTTTTT-T
1 GGGTTAGGTTTTTTTTCTTTTTTTTAGGTTAGGTTTTTTTTGG
**
90191668 TTGTTAGGTTTTTTTT
1 GGGTTAGGTTTTTTTT
90191684 GGGGAGGGCT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
40 6 0.12
42 32 0.65
43 3 0.06
45 8 0.16
ACGTcount: A:0.06, C:0.02, G:0.25, T:0.67
Consensus pattern (43 bp):
GGGTTAGGTTTTTTTTCTTTTTTTTAGGTTAGGTTTTTTTTGG
Found at i:90192344 original size:13 final size:13
Alignment explanation
Indices: 90192326--90192360 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
90192316 ATTGACTCTC
*
90192326 TAAAAATAGACAT
1 TAAAAATAGAAAT
90192339 TAAAAATAGAAAT
1 TAAAAATAGAAAT
*
90192352 TGAAAATAG
1 TAAAAATAG
90192361 CTCAGCGCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.23
Consensus pattern (13 bp):
TAAAAATAGAAAT
Found at i:90192543 original size:30 final size:30
Alignment explanation
Indices: 90192507--90192568 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
90192497 TTTTGAAAAA
90192507 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
90192537 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
90192567 CA
1 CA
90192569 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:90192882 original size:77 final size:79
Alignment explanation
Indices: 90192714--90193323 Score: 393
Period size: 75 Copynumber: 7.7 Consensus size: 79
90192704 ATGTGACCCG
* * *
90192714 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTG-AAAAATACCT
* * * *
90192779 CAGTGTGTGATCTGA
65 CAGCGCGTGAGCTCA
* *
90192794 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTG-AAAATAGCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAAATACCTC
90192857 AGCGCGTGAGC-CA
66 AGCGCGTGAGCTCA
***
90192870 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGGCAGAAATTGAAAAATGG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAAAATAGAAATTG---AA---
** ** * *
90192935 AAATTGAAAATACCTCGGCGTGTGAC-CTG
57 AAA-T--ACCT-CAGC-GCGTGAG-CTC-A
* * * * * *
90192964 AGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTG-ACAACAGAAATTG-AAATTACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAAATACCTC
* ** *
90193027 A--GCATGTCCT-G
66 AGCGCGTGAGCTCA
*
90193038 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAAATACCTC
* * **
90193102 A--GCATG-TCTTG
66 AGCGCGTGAGCTCA
** * * *
90193113 AGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTTTGAAAAATATAAATTG-AAATTACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAAATACCTC
* * **
90193177 A--ACGTG-TCTTG
66 AGCGCGTGAGCTCA
** * *
90193188 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTTTTTTGAAAGACAGAAATTG-AAAATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-A---TTTTTTTGAAAAATAGAAATTGAAAAATA
** * *
90193252 CCTCAGCATGTGAAC-CG
62 CCTCAGCGCGTGAGCTCA
* *
90193269 AGGCTCAACTCACCTATCGCAATATGAGCTGA---TTTTGAAAAAGTAGAAATT-AAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAA-TAGAAATTGAAAA
90193324 GGTTCAACCC
Statistics
Matches: 443, Mismatches: 57, Indels: 65
0.78 0.10 0.12
Matches are distributed among these distances:
74 49 0.11
75 136 0.31
76 8 0.02
77 47 0.11
79 78 0.18
80 24 0.05
81 32 0.07
82 2 0.00
83 2 0.00
84 1 0.00
86 1 0.00
87 3 0.01
88 1 0.00
90 12 0.03
91 10 0.02
92 6 0.01
93 2 0.00
94 29 0.07
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (79 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAAATACCTC
AGCGCGTGAGCTCA
Found at i:90192944 original size:250 final size:242
Alignment explanation
Indices: 90192340--90193323 Score: 882
Period size: 250 Copynumber: 4.1 Consensus size: 242
90192330 AATAGACATT
90192340 AAAAATAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAATAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
** * ** * ** *
90192405 TTGATTTTTTGAAACTTAACTTGAAAAGCAGATTTTG-AAATACCTCGATATGTGACTGGAGGTT
66 TTGATTTTTTGAAACAGAAATTGAAAA--AGAAATTGAAAATACCTCGACATGTGACCCGAGGCT
* *
90192469 CAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAAGACTCAACTCAA
129 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA-AAT-ACCTC-A
* * * *
90192531 CTCTCGCAGAAAT-TAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
191 GTAT-G-TG--ATCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG
* * ** * *
90192589 AAAAAAACAAGAATTGAAAATAGCTCAGTACTTGAGCCAAGGCTCAACTCACTTCTCGCAATATG
1 AAAAATA-GA-AATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATG
* *
90192654 AGTTGA-TTTTTGAAA-AGAATTTGAAAAACAAATTTTGAAAATACCTCGACATGTGACCCGAGG
64 AGTTGATTTTTTGAAACAGAAATTGAAAAAGAAA--TTGAAAATACCTCGACATGTGACCCGAGG
* * * *
90192717 CTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCAG
127 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATACCTCAG
*
90192782 TGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
192 TATGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
*
90192833 AAAGATAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAATAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* * *
90192898 TTGATTTTTTTTTTGAAAGGCAGAAATTGAAAAATGGAAATTGAAAATACCTCGGCGTGTGACCT
66 TTGA----TTTTTTGAAA--CAGAAATTGAAAAA--GAAATTGAAAATACCTCGACATGTGACCC
* * * * *
90192963 GAGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTG-ACAACAGAAATTG--AAATTACC
123 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATACC
* * *
90193025 TCAGCATGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
188 TCAGTATGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * * * ** ** *
90193078 AAAAACAGAAATTGAAAATACCTCA--GCATG-TCTTGAGGCTCAACTCATTTCTCACAATATGA
1 AAAAATAGAAATTGAAAATAGCTCAGCGCGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
* * * * **
90193140 GTTGATTTTTTTG--A-A-AAA-T-----ATAAATTGAAATTACCTC-A-ACGTGTCTTGAGGCT
65 GTTGA-TTTTTTGAAACAGAAATTGAAAAAGAAATTGAAAATACCTCGACATGTGACCCGAGGCT
** *
90193193 CAACTCATTTCTCGCAATATGAGTTGAATTTTTTTTTTGAAAGACAGAAATTG--AAAATACCTC
129 CAACTCACCTCTCGCAATATGAGTTG-A---TTTTTTTGAAAAACAGAAATTGAAAAAATACCTC
* * * * * *
90193256 AGCATGTGAACCGAGGCTCAACTCACCTATCGCAATATGAGCTGA---TTTTG
190 AGTATGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
90193306 AAAAAGTAGAAATT-AAAA
1 AAAAA-TAGAAATTGAAAA
90193324 GGTTCAACCC
Statistics
Matches: 626, Mismatches: 81, Indels: 77
0.80 0.10 0.10
Matches are distributed among these distances:
224 32 0.05
225 1 0.00
226 15 0.02
228 23 0.04
229 34 0.05
231 32 0.05
233 1 0.00
234 3 0.00
235 1 0.00
238 1 0.00
240 8 0.01
242 57 0.09
243 34 0.05
244 14 0.02
245 95 0.15
246 2 0.00
247 26 0.04
248 1 0.00
249 29 0.05
250 131 0.21
251 60 0.10
252 22 0.04
253 4 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (242 bp):
AAAAATAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGAAACAGAAATTGAAAAAGAAATTGAAAATACCTCGACATGTGACCCGAGGCTCA
ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATACCTCAGTATG
TGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:90192993 original size:94 final size:94
Alignment explanation
Indices: 90192830--90193002 Score: 249
Period size: 94 Copynumber: 1.8 Consensus size: 94
90192820 GTTGATTTTT
* * * *
90192830 TTGAAAGATAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAATAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
90192895 GAGTTGATTTTTTTTTTGAAAGGCAGAAA
66 GAGTTGATTTTTTTTTTGAAAGGCAGAAA
* * * * *
90192924 TTGAAAAATGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCGCCTCTCACAATA
1 TTGAAAAATAGAAATTGAAAATACCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCACAATA
90192988 CGAGTTGATTTTTTT
65 CGAGTTGATTTTTTT
90193003 GACAACAGAA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
93 2 0.03
94 67 0.97
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (94 bp):
TTGAAAAATAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
GAGTTGATTTTTTTTTTGAAAGGCAGAAA
Found at i:90193118 original size:75 final size:75
Alignment explanation
Indices: 90192924--90193304 Score: 451
Period size: 75 Copynumber: 5.0 Consensus size: 75
90192914 AAGGCAGAAA
** * * * * *
90192924 TTGAAAAATGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGT--CCTGAGGCTCAACTCACCTCTCGCAATAT
90192989 GAGTTGATTTTT
64 GAGTTGATTTTT
* *
90193001 TTG-ACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
90193065 GTTGATTTTT
66 GTTGATTTTT
* ** *
90193075 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
90193140 GTTGATTTTT
66 GTTGATTTTT
* * * * * * **
90193150 TTGAAAAATATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
90193215 GTTGAATTTTTTTT
66 GTTG-A---TTTTT
* *
90193229 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTATCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGT---CCTGAGGCTCAACTCACCTCTCGCAATA
*
90193293 TGAGCTGATTTT
63 TGAGTTGATTTT
90193305 GAAAAAGTAG
Statistics
Matches: 264, Mismatches: 32, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
74 41 0.16
75 128 0.48
76 25 0.09
77 7 0.03
79 33 0.12
80 1 0.00
81 28 0.11
82 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:90193373 original size:54 final size:55
Alignment explanation
Indices: 90193273--90193378 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
90193263 GAACCGAGGC
* *
90193273 TCAACTCACCTATCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTATCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * * *
90193327 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTATCGCAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
90193379 CAAAAATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 33 0.75
55 11 0.25
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (55 bp):
TCAACCCACCTATCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:90193385 original size:13 final size:13
Alignment explanation
Indices: 90193358--90193391 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
90193348 GAGTTGATTC
*
90193358 TTGAACAACATAAA
1 TTGAA-AACAAAAA
90193372 TTGAAAACAAAAA
1 TTGAAAACAAAAA
90193385 TTGAAAA
1 TTGAAAA
90193392 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.62, C:0.09, G:0.09, T:0.21
Consensus pattern (13 bp):
TTGAAAACAAAAA
Found at i:90193513 original size:54 final size:54
Alignment explanation
Indices: 90193413--90193518 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
90193403 GACCTGAGGC
*
90193413 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
90193467 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
90193519 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:90193612 original size:277 final size:279
Alignment explanation
Indices: 90193229--90193993 Score: 1365
Period size: 277 Copynumber: 2.7 Consensus size: 279
90193219 AATTTTTTTT
*
90193229 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTATCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
90193293 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTG-AAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
* *
90193358 TTGAACAACATAAATTGAAAACAAAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACC
126 TTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACC
*
90193423 TCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATAT
191 TCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATAT
90193488 GAGTTGATTCTTGAACAACGTAAA
256 GAGTTGATTCTTGAACAACGTAAA
90193512 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCA-CTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
90193576 CTGATTTTG-AAAGTAGAAATTAAAAGGTTTAACCCACTTCTTGCAATATGAGTTGATTCTTGAA
66 CTGATTTTGAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAA
90193640 CAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCG
131 CAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCG
*
90193705 CAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAATGTTCAACCCACCTCTCGCAATATGAGTT
196 CAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTT
90193770 GATTCTTGAACAACGTAAA
261 GATTCTTGAACAACGTAAA
*
90193789 TCGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
90193854 TTGATTTTGAAAATGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAA-GTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
90193919 ACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTC
130 ACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTC
90193984 GCAATATGAG
195 GCAATATGAG
90193994 TTGAAATTAA
Statistics
Matches: 465, Mismatches: 13, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
277 245 0.53
278 23 0.05
279 29 0.06
280 139 0.30
282 23 0.05
283 6 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (279 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAA
CAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCG
CAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTT
GATTCTTGAACAACGTAAA
Found at i:90193930 original size:54 final size:54
Alignment explanation
Indices: 90193830--90193935 Score: 153
Period size: 54 Copynumber: 1.9 Consensus size: 54
90193820 GACCTGAGGC
* *
90193830 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAATGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGTTGATTTTGAAAACGTA-AAATTGAAAAGGT
90193884 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGTTGATT-TTGAA-AACGTAAAATTGAAAA
90193936 CAGAAATTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
54 34 0.72
55 9 0.19
56 4 0.09
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGTTGATTTTGAAAACGTAAAATTGAAAAGGT
Found at i:90193997 original size:140 final size:140
Alignment explanation
Indices: 90193229--90193993 Score: 1367
Period size: 140 Copynumber: 5.5 Consensus size: 140
90193219 AATTTTTTTT
*
90193229 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTATCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
90193293 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
*
90193358 TTGAACAACATAAA
127 TTGAACAACGTAAA
*
90193372 TTGAAAACAAAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
90193437 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
90193502 ACAACGTAAA
131 ACAACGTAAA
90193512 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCA-CTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
90193576 CTGATTTTG--AAAGTAGAAATTAAAAGGTTTAACCCACTTCTTGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
90193639 ACAACGTAAA
131 ACAACGTAAA
90193649 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
90193714 CTGATTTTGAAAAAGTAGAAATTAAAATGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
90193779 ACAACGTAAA
131 ACAACGTAAA
*
90193789 TCGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
90193854 TTGATTTTGAAAATGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
90193919 ACAACGTAAA
131 ACAACGTAAA
90193929 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
90193994 TTGAAATTAA
Statistics
Matches: 602, Mismatches: 16, Indels: 11
0.96 0.03 0.02
Matches are distributed among these distances:
137 111 0.18
138 24 0.04
139 27 0.04
140 412 0.68
142 22 0.04
143 6 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACGTAAA
Found at i:90194200 original size:121 final size:124
Alignment explanation
Indices: 90193966--90194211 Score: 392
Period size: 121 Copynumber: 2.0 Consensus size: 124
90193956 GCGTGACCTG
* *
90193966 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
90194031 TGCCCCGAGGCTCAACTCACCTCTGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
* * * *
90194090 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
*
90194152 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCT-GCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
90194211 A
1 A
90194212 ATACCTCAAC
Statistics
Matches: 114, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
121 60 0.53
122 26 0.23
123 1 0.01
124 27 0.24
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:90194233 original size:71 final size:69
Alignment explanation
Indices: 90194090--90194262 Score: 206
Period size: 69 Copynumber: 2.5 Consensus size: 69
90194080 AAAAATTAAA
* * * * *
90194090 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
90194154 CCCCG
65 CCCCG
*
90194159 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCAC-TCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
90194224 GTCTTG
64 GCCCCG
* *
90194230 AGGCTCAACTCA-TCTCACAGTATGAGTTGATTT
1 AGGCTCAACTCACTCTCGCAATATGAGTTGATTT
90194263 CCCTTGAAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
68 1 0.01
69 44 0.49
70 5 0.06
71 40 0.44
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (69 bp):
AGGCTCAACTCACTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTGC
CCCG
Found at i:90201153 original size:2 final size:2
Alignment explanation
Indices: 90201146--90201178 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
90201136 TATGTACAAA
*
90201146 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
90201179 GATACATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:90201183 original size:12 final size:12
Alignment explanation
Indices: 90201148--90201187 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
90201138 TGTACAAAAT
*
90201148 ATATATATATAT
1 ATATATATATAC
90201160 ATATATATATAC
1 ATATATATATAC
*
90201172 ATATATAGATAC
1 ATATATATATAC
90201184 ATAT
1 ATAT
90201188 GTACATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (12 bp):
ATATATATATAC
Found at i:90201310 original size:25 final size:25
Alignment explanation
Indices: 90201255--90201310 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
90201245 ATTTGTAATA
*
90201255 ATAATATATACACAATATGGTATTT
1 ATAATATATACACAATATGGTATAT
* * *
90201280 AAAATATATATATATATAT-GTATAT
1 ATAATATATACACA-ATATGGTATAT
90201305 ATAATA
1 ATAATA
90201311 GTATTTAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (25 bp):
ATAATATATACACAATATGGTATAT
Found at i:90201379 original size:39 final size:39
Alignment explanation
Indices: 90201280--90201379 Score: 105
Period size: 39 Copynumber: 2.6 Consensus size: 39
90201270 TATGGTATTT
* * * *
90201280 AAAATATATATAT-ATATATGTATATATAATAGTATTTA
1 AAAATATATACATAATATATATATATATAATAGCATTAA
* * * *
90201318 AGAATATATACATAAGAAATATATA-ACTAATGGCATTAA
1 AAAATATATACATAATATATATATATA-TAATAGCATTAA
90201357 AAAATATATACATAATATATATA
1 AAAATATATACATAATATATATA
90201380 AAATACCTAA
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
38 12 0.24
39 37 0.76
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (39 bp):
AAAATATATACATAATATATATATATATAATAGCATTAA
Found at i:90201898 original size:23 final size:23
Alignment explanation
Indices: 90201869--90201969 Score: 110
Period size: 24 Copynumber: 4.7 Consensus size: 23
90201859 TAGGTGGCTA
*
90201869 GGGTTAGGTTTTTTTTTTTTTTT
1 GGGTTAGGTTTTTTTTTTTTTTG
* *
90201892 AGGTTAGG------TTTTTTTGG
1 GGGTTAGGTTTTTTTTTTTTTTG
90201909 GGGTTAGGTTTTTTCTTTTTTTTG
1 GGGTTAGGTTTTTT-TTTTTTTTG
90201933 GGGTTAGGTTTTTTTTTTTTTT-
1 GGGTTAGGTTTTTTTTTTTTTTG
90201955 -GGTTAGGTTTTTTTT
1 GGGTTAGGTTTTTTTT
90201970 GGGGAGGGCT
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
17 14 0.21
21 15 0.23
23 15 0.23
24 22 0.33
ACGTcount: A:0.06, C:0.01, G:0.26, T:0.67
Consensus pattern (23 bp):
GGGTTAGGTTTTTTTTTTTTTTG
Found at i:90201916 original size:40 final size:41
Alignment explanation
Indices: 90201869--90201947 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
90201859 TAGGTGGCTA
*
90201869 GGGTTAGGTTTTTT-TTTTTTTTTAGGTTAGGTTTTTTTGG
1 GGGTTAGGTTTTTTCTTTTTTTTGAGGTTAGGTTTTTTTGG
*
90201909 GGGTTAGGTTTTTTCTTTTTTTTGGGGTTAGGTTTTTTT
1 GGGTTAGGTTTTTTCTTTTTTTTGAGGTTAGGTTTTTTT
90201948 TTTTTTTGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 14 0.39
41 22 0.61
ACGTcount: A:0.06, C:0.01, G:0.28, T:0.65
Consensus pattern (41 bp):
GGGTTAGGTTTTTTCTTTTTTTTGAGGTTAGGTTTTTTTGG
Found at i:90201991 original size:62 final size:63
Alignment explanation
Indices: 90201869--90201991 Score: 144
Period size: 62 Copynumber: 2.0 Consensus size: 63
90201859 TAGGTGGCTA
** * *
90201869 GGGTTAGGTTTTTTTTTTTTTTTAGGTTAGGTTTTTTTGGGGGTTAGGTTTTTTCTTTTTTTTG
1 GGGTTAGGTTTTTTTTTTTTTTTAGGTTAGGTTTTTTTGGGGG-TAGGTTAATGCGTTTTTTTG
* *
90201933 GGGTTAGG-TTTTTTTTTTTTTT-GGTTAGGTTTTTTTTGGGG-AGGGCTTAATGGGTTTTT
1 GGGTTAGGTTTTTTTTTTTTTTTAGGTTAGGTTTTTTTGGGGGTA-GG-TTAATGCGTTTTT
90201992 GAATTGGGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
60 1 0.02
61 2 0.04
62 26 0.51
63 14 0.27
64 8 0.16
ACGTcount: A:0.07, C:0.02, G:0.29, T:0.62
Consensus pattern (63 bp):
GGGTTAGGTTTTTTTTTTTTTTTAGGTTAGGTTTTTTTGGGGGTAGGTTAATGCGTTTTTTTG
Found at i:90208567 original size:33 final size:34
Alignment explanation
Indices: 90208524--90208587 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
90208514 CTGGCAGAAA
90208524 TCGGTAGTGGAGCAGA-GGGAGCACATGCTGGCG
1 TCGGTAGTGGAGCAGAGGGGAGCACATGCTGGCG
* *
90208557 TCGGTGGTGGAGCAGAGGGGAGCACCTGCTG
1 TCGGTAGTGGAGCAGAGGGGAGCACATGCTG
90208588 CGGCTAGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 15 0.54
34 13 0.46
ACGTcount: A:0.19, C:0.19, G:0.47, T:0.16
Consensus pattern (34 bp):
TCGGTAGTGGAGCAGAGGGGAGCACATGCTGGCG
Found at i:90209218 original size:44 final size:44
Alignment explanation
Indices: 90209170--90209313 Score: 118
Period size: 44 Copynumber: 3.3 Consensus size: 44
90209160 ATCCGTTTTC
*
90209170 CTACTGCTTAGGGGTTTAAGGCTCTTCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGTTTAAGGATCTTCGTCTTCGATCTGCTCCA
* * * * * *
90209214 CTACTGCTTAGGGAG-ATAA-GATCTGCAAT-TT-AACCTGTTACC-
1 CTACTGCTTAGGG-GTTTAAGGATCTTC-GTCTTCGATCTGCT-CCA
* * * * *
90209256 CCACTGCTTAGGGGTTTAAGGTTTTTCGTCTTCGATCTACACCA
1 CTACTGCTTAGGGGTTTAAGGATCTTCGTCTTCGATCTGCTCCA
90209300 CTACTGCTTAGGGG
1 CTACTGCTTAGGGG
90209314 GATAAGATCT
Statistics
Matches: 73, Mismatches: 19, Indels: 16
0.68 0.18 0.15
Matches are distributed among these distances:
41 1 0.01
42 21 0.29
43 17 0.23
44 33 0.45
45 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (44 bp):
CTACTGCTTAGGGGTTTAAGGATCTTCGTCTTCGATCTGCTCCA
Found at i:90209276 original size:86 final size:86
Alignment explanation
Indices: 90209172--90209361 Score: 290
Period size: 86 Copynumber: 2.2 Consensus size: 86
90209162 CCGTTTTCCT
* *
90209172 ACTGCTTAGGGGTTTAAGGCTCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
1 ACTGCTTAGGGGTTTAAGGCTCTTCGTCTTCGATCTACACCACTACTGCTTAGGGAGATAAGATC
90209237 TGCAATTTAACCTGTTACCCC
66 TGCAATTTAACCTGTTACCCC
* * *
90209258 ACTGCTTAGGGGTTTAAGGTTTTTCGTCTTCGATCTACACCACTACTGCTTAGGGGGATAAGATC
1 ACTGCTTAGGGGTTTAAGGCTCTTCGTCTTCGATCTACACCACTACTGCTTAGGGAGATAAGATC
*** * *
90209323 TGCAATTTGGTCTGTTTCCCT
66 TGCAATTTAACCTGTTACCCC
90209344 ACTGCTTAGGGGTTTAAG
1 ACTGCTTAGGGGTTTAAG
90209362 ACCTTACGAC
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 94 1.00
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (86 bp):
ACTGCTTAGGGGTTTAAGGCTCTTCGTCTTCGATCTACACCACTACTGCTTAGGGAGATAAGATC
TGCAATTTAACCTGTTACCCC
Found at i:90209390 original size:86 final size:86
Alignment explanation
Indices: 90209118--90209400 Score: 283
Period size: 86 Copynumber: 3.3 Consensus size: 86
90209108 GATTTACAGC
* * *
90209118 CTGTTACC-CTACTGCTTA-GGGGATTAAG-GCTTGTCATATTTGATCCGTTTTCCTACTGCTTA
1 CTGTTACCACTACTGCTTAGGGGGA-TAAGATC-TG-CA-ATTTGATCTGTTTCCCTACTGCTTA
90209180 GGGGTTTAAGGCTCTTCGTCTTCGAT
62 GGGGTTTAAGGC-CTTCGTCTTCGAT
* * * * * *
90209206 CTGCT-CCACTACTGCTTAGGGAGATAAGATCTGCAATTTAACCTGTTACCCCACTGCTTAGGGG
1 CTGTTACCACTACTGCTTAGGGGGATAAGATCTGCAATTTGATCTGTTTCCCTACTGCTTAGGGG
**
90209270 TTTAAGGTTTTTCGTCTTCGAT
66 TTTAAGG-CCTTCGTCTTCGAT
** *
90209292 CT-ACACCACTACTGCTTAGGGGGATAAGATCTGCAATTTGGTCTGTTTCCCTACTGCTTAGGGG
1 CTGTTACCACTACTGCTTAGGGGGATAAGATCTGCAATTTGATCTGTTTCCCTACTGCTTAGGGG
* * * *
90209356 TTTAAGACCTTACGACATC-AG
66 TTTAAGGCCTT-CGTCTTCGAT
90209377 CTTGTTACC-CTACTGCTTAGGGGG
1 C-TGTTACCACTACTGCTTAGGGGG
90209401 TTAAAGCTTG
Statistics
Matches: 160, Mismatches: 27, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
85 4 0.03
86 124 0.77
87 7 0.04
88 20 0.12
89 5 0.03
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (86 bp):
CTGTTACCACTACTGCTTAGGGGGATAAGATCTGCAATTTGATCTGTTTCCCTACTGCTTAGGGG
TTTAAGGCCTTCGTCTTCGAT
Found at i:90209608 original size:44 final size:44
Alignment explanation
Indices: 90209554--90209716 Score: 134
Period size: 44 Copynumber: 3.7 Consensus size: 44
90209544 CTTCTTTGAT
* * *
90209554 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGCAATTTTCAAC
1 CTGTTACCCTACTGCTTAGGGGGATAAGATCTGCAATTTTCGAC
* * * * * * *
90209598 CTATTACCCTACTTCTTAGGGGGTTAAGGTCTGTAAATTT-GGC
1 CTGTTACCCTACTGCTTAGGGGGATAAGATCTGCAATTTTCGAC
* * * * *
90209641 CCGTTACCCTACTGCTTAGGGGGTTAA-AGCT-CATTATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGATAAGATCTGCA--ATTTTCGAC
* *
90209685 CTGTTTCCCTACTGCTTAGGGTGATAAGATCT
1 CTGTTACCCTACTGCTTAGGGGGATAAGATCT
90209717 AGGAATTTAC
Statistics
Matches: 90, Mismatches: 25, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 28 0.31
44 56 0.62
45 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGATAAGATCTGCAATTTTCGAC
Found at i:90210544 original size:1 final size:1
Alignment explanation
Indices: 90210538--90210570 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
90210528 GCCTCTCTCC
90210538 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
90210571 AGGCGAAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:90223209 original size:34 final size:34
Alignment explanation
Indices: 90223165--90223229 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
90223155 CTGGCAGAAA
90223165 TCGGTAGTGGAGCAGAGGGGAGCACATGCTGGCG
1 TCGGTAGTGGAGCAGAGGGGAGCACATGCTGGCG
* *
90223199 TCGGTGGTGGAGCAGAGGGGAGCACCTGCTG
1 TCGGTAGTGGAGCAGAGGGGAGCACATGCTG
90223230 CGGCTAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.18, C:0.18, G:0.48, T:0.15
Consensus pattern (34 bp):
TCGGTAGTGGAGCAGAGGGGAGCACATGCTGGCG
Found at i:90225077 original size:24 final size:25
Alignment explanation
Indices: 90225027--90225078 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
90225017 GTCGTATTGG
*
90225027 TTTTTCATATATTTAATTTCGTGATT
1 TTTTTCATATATTTAATTTC-TAATT
90225053 TTTTTCATAGT-TTTAATTT-TAATT
1 TTTTTCATA-TATTTAATTTCTAATT
90225077 TT
1 TT
90225079 AAACCCCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 6 0.25
26 17 0.71
27 1 0.04
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (25 bp):
TTTTTCATATATTTAATTTCTAATT
Found at i:90231060 original size:49 final size:51
Alignment explanation
Indices: 90230998--90231125 Score: 161
Period size: 51 Copynumber: 2.5 Consensus size: 51
90230988 TCTAGTACGT
* ** *
90230998 ATAGTAGCTTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACAT
1 ATAGTAGCCTGCACTTAGTACTACACACACGATCCAAGTTATCCGGTACAC
* * * * *
90231047 GTAGTAGCCTGCACTTAGTATTACACACATGATCGAAGTTATCGGGTACAC
1 ATAGTAGCCTGCACTTAGTACTACACACACGATCCAAGTTATCCGGTACAC
90231098 ATAGTAGCCTGCACTTAGTACTACACAC
1 ATAGTAGCCTGCACTTAGTACTACACAC
90231126 GGGACCTCAC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
49 26 0.39
50 3 0.05
51 37 0.56
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (51 bp):
ATAGTAGCCTGCACTTAGTACTACACACACGATCCAAGTTATCCGGTACAC
Found at i:90231413 original size:27 final size:27
Alignment explanation
Indices: 90231383--90231436 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
90231373 TCATACAACC
* *
90231383 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
90231410 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
90231437 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:90233621 original size:16 final size:17
Alignment explanation
Indices: 90233600--90233636 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
90233590 TTCTATATGG
90233600 ATTTTACT-TT-TATTTT
1 ATTTTACTATTGTA-TTT
90233616 ATTTTACTATTGTATTT
1 ATTTTACTATTGTATTT
90233633 ATTT
1 ATTT
90233637 AAATAAGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 9 0.47
18 2 0.11
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (17 bp):
ATTTTACTATTGTATTT
Found at i:90238265 original size:2 final size:2
Alignment explanation
Indices: 90238260--90238292 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
90238250 TATAAATCAA
90238260 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
90238293 AGCACAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90238598 original size:21 final size:20
Alignment explanation
Indices: 90238559--90238598 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
90238549 AAAATTCATT
*
90238559 AATCACACAATTTAAATATA
1 AATCACACAATATAAATATA
*
90238579 AATCGACACAATATAGATAT
1 AATC-ACACAATATAAATAT
90238599 GAGTACATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.28
Consensus pattern (20 bp):
AATCACACAATATAAATATA
Found at i:90241180 original size:12 final size:12
Alignment explanation
Indices: 90241165--90241194 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
90241155 GTGAATAAAG
90241165 AAGATAAATGAA
1 AAGATAAATGAA
*
90241177 AAGATAAATGGA
1 AAGATAAATGAA
90241189 AAGATA
1 AAGATA
90241195 GAACGTGGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (12 bp):
AAGATAAATGAA
Found at i:90244652 original size:12 final size:12
Alignment explanation
Indices: 90244637--90244666 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
90244627 GTGAATAAAG
90244637 AAGATAAATGAA
1 AAGATAAATGAA
*
90244649 AAGATAAATGGA
1 AAGATAAATGAA
90244661 AAGATA
1 AAGATA
90244667 GAACGTGGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (12 bp):
AAGATAAATGAA
Found at i:90247954 original size:89 final size:89
Alignment explanation
Indices: 90247803--90247980 Score: 356
Period size: 89 Copynumber: 2.0 Consensus size: 89
90247793 TACATATATG
90247803 CATTGCATTCTCAAACACCTTCTCATACTTTATAGCATTCAACTAGAGGAATCCTAAGTTACATA
1 CATTGCATTCTCAAACACCTTCTCATACTTTATAGCATTCAACTAGAGGAATCCTAAGTTACATA
90247868 TCATATATATAAACATAACAACAT
66 TCATATATATAAACATAACAACAT
90247892 CATTGCATTCTCAAACACCTTCTCATACTTTATAGCATTCAACTAGAGGAATCCTAAGTTACATA
1 CATTGCATTCTCAAACACCTTCTCATACTTTATAGCATTCAACTAGAGGAATCCTAAGTTACATA
90247957 TCATATATATAAACATAACAACAT
66 TCATATATATAAACATAACAACAT
90247981 GTCAAAGTTA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.31
Consensus pattern (89 bp):
CATTGCATTCTCAAACACCTTCTCATACTTTATAGCATTCAACTAGAGGAATCCTAAGTTACATA
TCATATATATAAACATAACAACAT
Found at i:90248996 original size:5 final size:5
Alignment explanation
Indices: 90248981--90249031 Score: 57
Period size: 5 Copynumber: 9.6 Consensus size: 5
90248971 CTTTTTGAGA
* *
90248981 AAAAT AGAAT AAAAT AGAAT AAAAT AAAAT AAAGAT AAAGAT AAAGAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAA-AT AAA-AT
90249029 AAA
1 AAA
90249032 GAACACACAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
5 24 0.59
6 17 0.41
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:90249020 original size:6 final size:6
Alignment explanation
Indices: 90248999--90249033 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
90248989 ATAAAATAGA
90248999 ATAAA- ATAAA- ATAAAG ATAAAG ATAAAG ATAAAG A
1 ATAAAG ATAAAG ATAAAG ATAAAG ATAAAG ATAAAG A
90249034 ACACACAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (6 bp):
ATAAAG
Found at i:90256427 original size:92 final size:92
Alignment explanation
Indices: 90256270--90256452 Score: 348
Period size: 92 Copynumber: 2.0 Consensus size: 92
90256260 AAGCATTACA
*
90256270 CAACTCATTTTAACCAAATTGACACATGCAATACACAATCAAAGAAAAGCATATCTTGTCATTCG
1 CAACTCATTTTAACCAAATTGACACATGCAAAACACAATCAAAGAAAAGCATATCTTGTCATTCG
90256335 ATGCATCAATGCCCAACCAAATAATTC
66 ATGCATCAATGCCCAACCAAATAATTC
*
90256362 CAACTCATTTTAACCAATTTGACACATGCAAAACACAATCAAAGAAAAGCATATCTTGTCATTCG
1 CAACTCATTTTAACCAAATTGACACATGCAAAACACAATCAAAGAAAAGCATATCTTGTCATTCG
90256427 ATGCATCAATGCCCAACCAAATAATT
66 ATGCATCAATGCCCAACCAAATAATT
90256453 TGTGTAATAA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.25
Consensus pattern (92 bp):
CAACTCATTTTAACCAAATTGACACATGCAAAACACAATCAAAGAAAAGCATATCTTGTCATTCG
ATGCATCAATGCCCAACCAAATAATTC
Found at i:90257903 original size:14 final size:15
Alignment explanation
Indices: 90257884--90257921 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
90257874 AATCTTTAAG
90257884 GATATG-CAATCTTA
1 GATATGACAATCTTA
90257898 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
90257915 GATATGA
1 GATATGA
90257922 TATGCAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:90257934 original size:19 final size:19
Alignment explanation
Indices: 90257884--90257962 Score: 108
Period size: 19 Copynumber: 4.2 Consensus size: 19
90257874 AATCTTTAAG
90257884 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
90257903 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
90257920 GATATGCAATTTTAGATAT
1 GATATGCAATCTTAGATAT
*
90257939 GATATGAAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
90257960 GAT
1 GAT
90257963 TTTGTAATCT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
17 17 0.32
19 27 0.51
21 9 0.17
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:90261212 original size:27 final size:26
Alignment explanation
Indices: 90261175--90261289 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
90261165 AGCATGGCTG
* *
90261175 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
90261201 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
90261229 CCAGAACAGATATATGTGGCAGAGCCG
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
90261256 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
90261283 CCAGAAC
1 CCAGAAC
90261290 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.06
27 56 0.72
28 17 0.22
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:90261239 original size:54 final size:54
Alignment explanation
Indices: 90261175--90261289 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
90261165 AGCATGGCTG
*
90261175 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
90261229 CCAGAACAGATATATGTGGCAGAGCCGCCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
90261283 CCAGAAC
1 CCAGAAC
90261290 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:90262713 original size:46 final size:46
Alignment explanation
Indices: 90262663--90262835 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
90262653 TGGTTGAGCA
90262663 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
90262709 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
90262754 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
90262802 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
90262836 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:90262819 original size:93 final size:93
Alignment explanation
Indices: 90262660--90262830 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
90262650 GGATGGTTGA
* * *
90262660 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
90262725 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
90262753 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
90262818 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
90262831 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:90268228 original size:46 final size:46
Alignment explanation
Indices: 90268178--90268350 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
90268168 TGGTTGAGCA
90268178 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
90268224 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
90268269 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
90268317 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
90268351 GGGGGGGTTA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:90268334 original size:93 final size:93
Alignment explanation
Indices: 90268175--90268345 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
90268165 GGATGGTTGA
* *
90268175 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90268240 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
90268268 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90268333 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
90268346 ACTTAGGGGG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:90271315 original size:26 final size:26
Alignment explanation
Indices: 90271187--90271322 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
90271177 CATGAAATTC
* *
90271187 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
* *
90271213 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
90271239 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
90271265 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
90271291 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
90271317 CTATCA
1 TTATCA
90271323 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:90274287 original size:46 final size:46
Alignment explanation
Indices: 90274237--90274410 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 46
90274227 GGTTGAGCAT
*
90274237 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGTC
* * * * *
90274283 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACT-AG-GCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-TGAGAACGTC
* * * **
90274330 CGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAACACC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGTC
* * *
90274376 CGAGCTCGTTGAGTTAAGTCCGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90274411 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 63 0.62
47 31 0.30
48 3 0.03
49 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGTC
Found at i:90274396 original size:93 final size:92
Alignment explanation
Indices: 90274233--90274403 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 92
90274223 GGATGGTTGA
* ***
90274233 GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATGTCCGAACTCGTTGAGTT
1 GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGAGAACACCCGAACTCGTTGAGTT
*
90274298 GAGTCCGAGTTCGTGAAATGTAACTAG
66 AAGTCCGAGTTCGTGAAATGTAACTAG
* * *
90274325 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCAT-CGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGAGAACACCCGAACTCGTTGAGT
90274390 TAAGTCCGAGTTCG
65 TAAGTCCGAGTTCG
90274404 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 4 0.06
93 66 0.94
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (92 bp):
GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGAGAACACCCGAACTCGTTGAGTT
AAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:90279743 original size:46 final size:45
Alignment explanation
Indices: 90279693--90279862 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 45
90279683 TGAGCATCTA
90279693 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
* * * *
90279739 AACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAGTCCG
*
90279785 AACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
* *
90279830 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90279863 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 1 0.01
45 32 0.31
46 62 0.60
47 1 0.01
48 3 0.03
49 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCG
Found at i:90282610 original size:30 final size:30
Alignment explanation
Indices: 90282574--90282633 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
90282564 CAATGACTAG
90282574 ATTCCGCAACATCCACGTCTAAAATTTCTT
1 ATTCCGCAACATCCACGTCTAAAATTTCTT
*
90282604 ATTCCGCAACATCCACGTCTATAATTTCTT
1 ATTCCGCAACATCCACGTCTAAAATTTCTT
90282634 TCCAACTGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (30 bp):
ATTCCGCAACATCCACGTCTAAAATTTCTT
Found at i:90288843 original size:10 final size:10
Alignment explanation
Indices: 90288816--90288854 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
90288806 TTAAATTTTA
90288816 AAAGATAAAT
1 AAAGATAAAT
90288826 ACAA-ATAAAT
1 A-AAGATAAAT
*
90288836 AAAGATAATT
1 AAAGATAAAT
90288846 AAAGATAAA
1 AAAGATAAA
90288855 AGAAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:90290791 original size:24 final size:24
Alignment explanation
Indices: 90290741--90290792 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
90290731 TTAGCAAGTC
* * **
90290741 AAATAAATTATGCTAGTAAATGTT
1 AAATAAATTATACTAATAAATACT
*
90290765 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
90290789 AAAT
1 AAAT
90290793 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:90304904 original size:26 final size:26
Alignment explanation
Indices: 90304857--90304915 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
90304847 GGAGGGGAGG
* * *
90304857 AGAAAAGGAAGAGAGGAGGAAAGGGAA
1 AGAAAAGGAAGAGAGAAAGAAA-GAAA
*
90304884 AGAAAAGG-GGAGAGAAAGAAAGAAA
1 AGAAAAGGAAGAGAGAAAGAAAGAAA
90304909 AGAAAAG
1 AGAAAAG
90304916 AGAAAAAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 10 0.36
26 10 0.36
27 8 0.29
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (26 bp):
AGAAAAGGAAGAGAGAAAGAAAGAAA
Found at i:90304918 original size:22 final size:23
Alignment explanation
Indices: 90304893--90304936 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
90304883 AAGAAAAGGG
*
90304893 GAGAGAAAGAA-AGAAAAGAAAA
1 GAGAAAAAGAAGAGAAAAGAAAA
*
90304915 GAGAAAAAGAAGATAAAAGAAA
1 GAGAAAAAGAAGAGAAAAGAAA
90304937 GAAAAATGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (23 bp):
GAGAAAAAGAAGAGAAAAGAAAA
Found at i:90304919 original size:16 final size:16
Alignment explanation
Indices: 90304898--90304941 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
90304888 AAGGGGAGAG
90304898 AAAGAAAGAAAAGA-A
1 AAAGAAAGAAAAGATA
90304913 AAGAGAAA-AAGAAGATA
1 AA-AGAAAGAA-AAGATA
90304930 AAAGAAAGAAAA
1 AAAGAAAGAAAA
90304942 ATGGAGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 4 0.16
16 16 0.64
17 5 0.20
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.02
Consensus pattern (16 bp):
AAAGAAAGAAAAGATA
Found at i:90327471 original size:87 final size:86
Alignment explanation
Indices: 90327356--90327550 Score: 239
Period size: 87 Copynumber: 2.3 Consensus size: 86
90327346 GTTTTGCTTT
* * * *
90327356 TGTTTTAATTTCCACTTCACCTTCAAAATGTGTTTTTCAATTTTCCACACCAATGAACCTTTAAA
1 TGTTTTAAATTCCACTTCAGCTTCAAAATGTATTTTTCAATTTTCCACACCAATAAACCTTTAAA
** *
90327421 CACTTCTAGACTTA-TTTTTC
66 CACGACTAGACTTACTTTTTA
* * * *
90327441 TGTCTTTTAAATTCCACTTGAGCTTTAAAATGTATTTTTCAATTTTTCACACCAATAAATCTTTA
1 TG--TTTTAAATTCCACTTCAGCTTCAAAATGTATTTTTCAATTTTCCACACCAATAAACCTTTA
*
90327506 AGCACGACTAGACTTACTTTTTA
64 AACACGACTAGACTTACTTTTTA
* *
90327529 TGTTTTAAATTTCACTTTAGCT
1 TGTTTTAAATTCCACTTCAGCT
90327551 CTACACCAAT
Statistics
Matches: 93, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
85 2 0.02
86 18 0.19
87 66 0.71
88 7 0.08
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.45
Consensus pattern (86 bp):
TGTTTTAAATTCCACTTCAGCTTCAAAATGTATTTTTCAATTTTCCACACCAATAAACCTTTAAA
CACGACTAGACTTACTTTTTA
Found at i:90327569 original size:64 final size:64
Alignment explanation
Indices: 90327489--90327614 Score: 191
Period size: 64 Copynumber: 2.0 Consensus size: 64
90327479 TCAATTTTTC
* * *
90327489 ACACCAATAAATCTTTAAGCACGACTAGACTTACTTTTTATGTTTTAAATTTCACTTTAGCTCT
1 ACACCAATAAATCTTTAAACACGACTACACTTACTTTTTATGTTTTAAATTCCACTTTAGCTCT
* *
90327553 ACACCAAT-AATCCTTTAAACACGACTACACTTACTTTTTGTGTTTTAAATTCCATTTTAGCT
1 ACACCAATAAAT-CTTTAAACACGACTACACTTACTTTTTATGTTTTAAATTCCACTTTAGCT
90327615 TTAAAATGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 3 0.05
64 53 0.95
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.40
Consensus pattern (64 bp):
ACACCAATAAATCTTTAAACACGACTACACTTACTTTTTATGTTTTAAATTCCACTTTAGCTCT
Found at i:90341067 original size:24 final size:24
Alignment explanation
Indices: 90341035--90341083 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
90341025 ACGTACCTCT
90341035 TTTACGCGGAAGCTTTAG-AAAACA
1 TTTACGCGGAAGCTTT-GCAAAACA
90341059 TTTACGCGGAAGCTTTGCAAAACA
1 TTTACGCGGAAGCTTTGCAAAACA
90341083 T
1 T
90341084 ACTATCTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (24 bp):
TTTACGCGGAAGCTTTGCAAAACA
Found at i:90347328 original size:130 final size:130
Alignment explanation
Indices: 90347161--90347413 Score: 461
Period size: 130 Copynumber: 1.9 Consensus size: 130
90347151 AGTGGTACTG
90347161 GGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGC
1 GGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGC
* * *
90347226 CCATAGGCCTATTTCAAAATATATGCAACATCAGTAAACATATGCAAGCCCATTTGGGTAACAGT
66 CCATAGGCCCATTTCAAAAAACATGCAACATCAGTAAACATATGCAAGCCCATTTGGGTAACAGT
* *
90347291 GGCCAGAGCCCTTTTTAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGC
1 GGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGC
90347356 CCATAGGCCCATTTCAAAAAACATGCAACATCAGTAAACATATGCAAGCCCATTTGGG
66 CCATAGGCCCATTTCAAAAAACATGCAACATCAGTAAACATATGCAAGCCCATTTGGG
90347414 GAGACTACTC
Statistics
Matches: 118, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
130 118 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (130 bp):
GGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGC
CCATAGGCCCATTTCAAAAAACATGCAACATCAGTAAACATATGCAAGCCCATTTGGGTAACAGT
Found at i:90347698 original size:25 final size:27
Alignment explanation
Indices: 90347661--90347713 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
90347651 TTAAACATGC
90347661 ATTTAGGTCAATTTAACC-A-TAGGGGT
1 ATTTAGGTCAATTT-ACCTACTAGGGGT
*
90347687 ATTTCGGT-AATTTACCTACTAGGGGT
1 ATTTAGGTCAATTTACCTACTAGGGGT
90347713 A
1 A
90347714 AAACTATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 6 0.25
26 15 0.62
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (27 bp):
ATTTAGGTCAATTTACCTACTAGGGGT
Done.