Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 103 of 126
Found at i:31191385 original size:6 final size:6
Alignment explanation
Indices: 31191367--31191436 Score: 92
Period size: 6 Copynumber: 12.0 Consensus size: 6
31191357 TTAAATTGAT
*
31191367 TTTAAA TTT--A TTTAAA TTTAAA TTT-AC TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
31191412 TTTAAA TTTAAA TTAAAA TATTAAA
1 TTTAAA TTTAAA TTTAAA T-TTAAA
31191437 CATTAAAAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
4 4 0.07
5 4 0.07
6 44 0.79
7 4 0.07
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:31191397 original size:17 final size:16
Alignment explanation
Indices: 31191367--31191425 Score: 91
Period size: 17 Copynumber: 3.5 Consensus size: 16
31191357 TTAAATTGAT
31191367 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
31191383 TTTAAATTTACTTTAAA
1 TTTAAATTTA-TTTAAA
31191400 TTTAAATTTAAATTTAAA
1 TTTAAATTT--ATTTAAA
31191418 TTTAAATT
1 TTTAAATT
31191426 AAAATATTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.25
17 15 0.38
18 14 0.35
19 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:31192202 original size:28 final size:29
Alignment explanation
Indices: 31192153--31192216 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
31192143 CTTTTTTCTA
*
31192153 AATACGTATTAAATGCATTTAACAATAAT
1 AATACGTATTAAATGAATTTAACAATAAT
*
31192182 AATAC-TATTAAAT-AATATTAATAATAA-
1 AATACGTATTAAATGAAT-TTAACAATAAT
*
31192209 AAAACGTA
1 AATACGTA
31192217 ATTATTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 6 0.20
28 19 0.63
29 5 0.17
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.33
Consensus pattern (29 bp):
AATACGTATTAAATGAATTTAACAATAAT
Found at i:31192483 original size:20 final size:21
Alignment explanation
Indices: 31192446--31192484 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
31192436 AGCAAAACAA
*
31192446 TTTCAAAAAAATGGAAAAGAG
1 TTTCAAAAAAATGAAAAAGAG
*
31192467 TTTCAAAATAAT-AAAAAG
1 TTTCAAAAAAATGAAAAAG
31192485 GATTGTTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.59, C:0.05, G:0.13, T:0.23
Consensus pattern (21 bp):
TTTCAAAAAAATGAAAAAGAG
Found at i:31193359 original size:19 final size:19
Alignment explanation
Indices: 31193335--31193376 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
31193325 AAATTATTCA
31193335 AAAATTACATTTTGACCCC
1 AAAATTACATTTTGACCCC
*
31193354 AAAATTATATTTTGACCCC
1 AAAATTACATTTTGACCCC
31193373 AAAA
1 AAAA
31193377 CTTTTCCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (19 bp):
AAAATTACATTTTGACCCC
Found at i:31193386 original size:30 final size:30
Alignment explanation
Indices: 31193352--31193648 Score: 364
Period size: 30 Copynumber: 9.9 Consensus size: 30
31193342 CATTTTGACC
*
31193352 CCAAAATTATATTTTGACCCCAAAACTTTT
1 CCAAAATTACATTTTGACCCCAAAACTTTT
*
31193382 CCAAAATTACATTTTGACCCTAAAACTTTT
1 CCAAAATTACATTTTGACCCCAAAACTTTT
* * *
31193412 CCAAAATTATATTTTGACCTCAAAAATTTT
1 CCAAAATTACATTTTGACCCCAAAACTTTT
* * *
31193442 CTAAAATTACATTGTGACCCTAAAACTTTT
1 CCAAAATTACATTTTGACCCCAAAACTTTT
* *
31193472 CCAAAATTACATTTTAACCCTAAAACTTTT
1 CCAAAATTACATTTTGACCCCAAAACTTTT
*
31193502 CCAAAATTACATTTTGACCCCAAAAATTTT
1 CCAAAATTACATTTTGACCCCAAAACTTTT
*** ** *
31193532 TTGAAATTACATTGAGACCCTAAAACTTTT
1 CCAAAATTACATTTTGACCCCAAAACTTTT
31193562 CCAAAATTACATTTTGACCCCAAAACTTTT
1 CCAAAATTACATTTTGACCCCAAAACTTTT
* * * *
31193592 CTAAAATTATAATTTGACCCCGAAAC-TTT
1 CCAAAATTACATTTTGACCCCAAAACTTTT
* *
31193621 CAAAAATTACCATTTT-ACCCCCAAACTT
1 CCAAAATTA-CATTTTGACCCCAAAACTT
31193649 CCCTAAATCC
Statistics
Matches: 226, Mismatches: 39, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
29 20 0.09
30 206 0.91
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (30 bp):
CCAAAATTACATTTTGACCCCAAAACTTTT
Found at i:31193478 original size:90 final size:90
Alignment explanation
Indices: 31193354--31193630 Score: 412
Period size: 90 Copynumber: 3.1 Consensus size: 90
31193344 TTTTGACCCC
* * *
31193354 AAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTTCCAAAAT
1 AAAATTACATTGTGACCCTAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTTCCAAAAT
*
31193419 TATATTTTGACCTCAAAAATTTTCT
66 TATATTTTGACCCCAAAAATTTTCT
*
31193444 AAAATTACATTGTGACCCTAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTTTTCCAAAAT
1 AAAATTACATTGTGACCCTAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTTCCAAAAT
* *
31193509 TACATTTTGACCCCAAAAATTTTTT
66 TATATTTTGACCCCAAAAATTTTCT
* * * *
31193534 GAAATTACATTGAGACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCTAAAAT
1 AAAATTACATTGTGACCCTAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTTCCAAAAT
* * * *
31193599 TATAATTTGACCCC-GAAACTTTCA
66 TATATTTTGACCCCAAAAATTTTCT
31193623 AAAATTAC
1 AAAATTAC
31193631 CATTTTACCC
Statistics
Matches: 168, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
89 13 0.08
90 155 0.92
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.36
Consensus pattern (90 bp):
AAAATTACATTGTGACCCTAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTTCCAAAAT
TATATTTTGACCCCAAAAATTTTCT
Found at i:31193684 original size:59 final size:58
Alignment explanation
Indices: 31193621--31193817 Score: 200
Period size: 59 Copynumber: 3.4 Consensus size: 58
31193611 CCGAAACTTT
* *
31193621 CAAAAATTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTTAACCTCGATTTCAC
1 CAAAAATTACCATTTTACCCCCAAACTTTCC-AAATTCCATTTTTAACCTCGATTTCAC
* * * * * * * * * **
31193680 CAAAACTTACCGTTTTGCCTCCGAACTTTCCAAAATTTCATTTTTGACCTTGTTTTTGC
1 CAAAAATTACCATTTTACCCCCAAACTTTCC-AAATTCCATTTTTAACCTCGATTTCAC
* * *
31193739 CAAAATTTACCATTTTATTCCCCAAACTTTCCAAATTCCATTTTTAGCC-CTGATTTCA-
1 CAAAAATTACCATTTTA-CCCCCAAACTTTCCAAATTCCATTTTTAACCTC-GATTTCAC
31193797 CAAAAATTACCATTTTACCCC
1 CAAAAATTACCATTTTACCCC
31193818 TAAAAACCCA
Statistics
Matches: 107, Mismatches: 29, Indels: 6
0.75 0.20 0.04
Matches are distributed among these distances:
57 3 0.03
58 16 0.15
59 77 0.72
60 11 0.10
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.37
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCCAAACTTTCCAAATTCCATTTTTAACCTCGATTTCAC
Found at i:31194823 original size:27 final size:27
Alignment explanation
Indices: 31194793--31194885 Score: 89
Period size: 27 Copynumber: 3.4 Consensus size: 27
31194783 CACGGAGTAA
31194793 TCCAACGGGACATTAAACATGGGATAG
1 TCCAACGGGACATTAAACATGGGATAG
* * * * *
31194820 TCCAATGAGATATTAAACACGGGATAT
1 TCCAACGGGACATTAAACATGGGATAG
* *
31194847 TCTAATGGGACATTAAACATGAGG-TAG
1 TCCAACGGGACATTAAACATG-GGATAG
**
31194874 TCCGTCGGGACA
1 TCCAACGGGACA
31194886 GTAGATTTGA
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
27 49 0.96
28 2 0.04
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (27 bp):
TCCAACGGGACATTAAACATGGGATAG
Found at i:31201385 original size:6 final size:6
Alignment explanation
Indices: 31201376--31201406 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
31201366 AGGGGGGGGG
*
31201376 GGGAGG GGGAGA GGGAGA GGGAGA GGGAGA G
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA G
31201407 TGCTGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.71, T:0.00
Consensus pattern (6 bp):
GGGAGA
Found at i:31203728 original size:27 final size:27
Alignment explanation
Indices: 31203669--31203729 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
31203659 GATGCTCAGT
* *
31203669 AGTTGCTAGGTGAGACTCTTAGGAGAA
1 AGTTGTTAGGTGAGACTCTTAGAAGAA
* *
31203696 ATTTGTTAGGT-AGGACTCTTAGAATAA
1 AGTTGTTAGGTGA-GACTCTTAGAAGAA
31203723 AGTTGTT
1 AGTTGTT
31203730 TTAGGACTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (27 bp):
AGTTGTTAGGTGAGACTCTTAGAAGAA
Found at i:31204594 original size:37 final size:37
Alignment explanation
Indices: 31204543--31204623 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
31204533 CAAAAACAGA
*
31204543 ATAGTTGTTTTTGTTGCGGAATAAGTCAATGGCTGTT
1 ATAGTTGTTGTTGTTGCGGAATAAGTCAATGGCTGTT
* * *
31204580 ATAGTTGTTGTTGTTGTGGACTAAGTCAGTGGCTGTT
1 ATAGTTGTTGTTGTTGCGGAATAAGTCAATGGCTGTT
31204617 ATTAGTT
1 A-TAGTT
31204624 TGATTCAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
37 34 0.87
38 5 0.13
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.44
Consensus pattern (37 bp):
ATAGTTGTTGTTGTTGCGGAATAAGTCAATGGCTGTT
Found at i:31204885 original size:26 final size:29
Alignment explanation
Indices: 31204856--31204919 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 29
31204846 GTAGTTCTTC
*
31204856 GGTAGGACTCTTAA-A-AGAATTTGT-TA
1 GGTAGGACTCTTAATATAGAAGTTGTGTA
*
31204882 GGTAGGAATCTTAATATAGAAGTTGTGTA
1 GGTAGGACTCTTAATATAGAAGTTGTGTA
*
31204911 AGTAGGACT
1 GGTAGGACT
31204920 TTATTTACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 13 0.42
27 1 0.03
28 8 0.26
29 9 0.29
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (29 bp):
GGTAGGACTCTTAATATAGAAGTTGTGTA
Found at i:31210894 original size:25 final size:25
Alignment explanation
Indices: 31210866--31210914 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
31210856 AAATTTGATT
31210866 TAATCTTTTAAAAATTATAAGGATA
1 TAATCTTTTAAAAATTATAAGGATA
31210891 TAATCTTTTAAAAATTATAAGGAT
1 TAATCTTTTAAAAATTATAAGGAT
31210915 GTAGGCTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (25 bp):
TAATCTTTTAAAAATTATAAGGATA
Found at i:31210926 original size:25 final size:25
Alignment explanation
Indices: 31210873--31210928 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
31210863 ATTTAATCTT
* *
31210873 TTAAAAATTATAAGGATATAATCTT
1 TTAAAAATTATAAGGATATAAGCTA
* *
31210898 TTAAAAATTATAAGGATGTAGGCTA
1 TTAAAAATTATAAGGATATAAGCTA
31210923 TTAAAA
1 TTAAAA
31210929 TGATGAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.36
Consensus pattern (25 bp):
TTAAAAATTATAAGGATATAAGCTA
Found at i:31212431 original size:41 final size:37
Alignment explanation
Indices: 31212337--31212495 Score: 102
Period size: 38 Copynumber: 4.3 Consensus size: 37
31212327 ATTAATCACT
* *
31212337 TTAATATTAAATTAATATAATACTTATCAAAATAAATA
1 TTAA-ATTAAATTAATAGAATACTTATCAAAATAAACA
* * *
31212375 TTAGATTAAAATTAATAGAATATTTATCTATAAGATAAGCA
1 TTAAATT-AAATTAATAGAATACTTATC-A-AA-ATAAACA
31212416 TTAAATTAAATT--T--AATA--T-T-AAAATAATCACA
1 TTAAATTAAATTAATAGAATACTTATCAAAATAA--ACA
* * **
31212447 TTAATATTAAATTAATAAAATAC-TATAAAAATAATTA
1 TTAA-ATTAAATTAATAGAATACTTATCAAAATAAACA
31212484 TTAAATTAAATT
1 TTAAATTAAATT
31212496 TTTATAAATG
Statistics
Matches: 98, Mismatches: 9, Indels: 30
0.72 0.07 0.22
Matches are distributed among these distances:
29 4 0.04
30 2 0.02
31 7 0.07
32 8 0.08
33 1 0.01
34 2 0.02
36 16 0.16
37 9 0.09
38 23 0.23
39 8 0.08
40 7 0.07
41 11 0.11
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (37 bp):
TTAAATTAAATTAATAGAATACTTATCAAAATAAACA
Found at i:31212517 original size:18 final size:18
Alignment explanation
Indices: 31212494--31212529 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
31212484 TTAAATTAAA
31212494 TTTTTATAA-ATGCTTATT
1 TTTTTA-AATATGCTTATT
31212512 TTTTTAAATATGCTTATT
1 TTTTTAAATATGCTTATT
31212530 ATATTATGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 15 0.88
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (18 bp):
TTTTTAAATATGCTTATT
Found at i:31217477 original size:15 final size:15
Alignment explanation
Indices: 31217430--31217478 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
31217420 ATTATCAAAA
31217430 AAAATTAACCATATC
1 AAAATTAACCATATC
* * **
31217445 AAACTT-ACCAAAAA
1 AAAATTAACCATATC
31217459 AAAATTAACCATATC
1 AAAATTAACCATATC
31217474 AAAAT
1 AAAAT
31217479 AAGATTTGTA
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.59, C:0.18, G:0.00, T:0.22
Consensus pattern (15 bp):
AAAATTAACCATATC
Found at i:31217901 original size:2 final size:2
Alignment explanation
Indices: 31217894--31217918 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31217884 AAATTAATTG
31217894 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 A
31217919 AATAATAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31233272 original size:49 final size:49
Alignment explanation
Indices: 31233121--31233488 Score: 268
Period size: 49 Copynumber: 7.5 Consensus size: 49
31233111 GAAGATATGG
*
31233121 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAAAAGCATGA
* * * * * * * *
31233170 AGGAAAAGCTTTAAGCCGTAACGCCGAATCC-AGTA-TTGC-AAGGACAT-A
1 AGGGAAAGGTTTAAGTCGCAACGGCGAA-CCTTGTACCT-CAAAAG-CATGA
*
31233218 GAGGGAAAGGTTTAAGTCGCAATGGCGAACCTTGTACCTCAAAAGCATGA
1 -AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAAAAGCATGA
** * * * ** *
31233268 AGGGAAATATTTAAGCCGCAACGGCGAATCC-AGTACCATGAGGA-CATGG
1 AGGGAAAGGTTTAAGTCGCAACGGCGAA-CCTTGTACC-TCAAAAGCATGA
* * * * * * *
31233317 AGGGAATGGTTTAAGTCGTAACGACGAACCTTGTATCTTAGAAGCATAA
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAAAAGCATGA
* * * * * * *
31233366 AGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTA-C-CACAAGGATATA
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAAAAGCAT-GA
* *
31233414 GAGGGAAGGGTTTAAGTCGCAACGGTGAACCTTGTACCTCAGAAA-CATGA
1 -AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCA-AAAGCATGA
* *
31233464 AGGGAAAGATTTAAGTCACAACGGC
1 AGGGAAAGGTTTAAGTCGCAACGGC
31233489 AAATCCAGTA
Statistics
Matches: 239, Mismatches: 63, Indels: 34
0.71 0.19 0.10
Matches are distributed among these distances:
47 6 0.03
48 14 0.06
49 199 0.83
50 14 0.06
51 4 0.02
52 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.19
Consensus pattern (49 bp):
AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAAAAGCATGA
Found at i:31233296 original size:98 final size:98
Alignment explanation
Indices: 31233120--31233537 Score: 516
Period size: 98 Copynumber: 4.3 Consensus size: 98
31233110 TGAAGATATG
* * *
31233120 GAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGAAAAGCTTTAAG
1 GAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAAAAGCATGAAGGGAAAGATTTAAG
* * **
31233185 CCGTAACGCCGAATCCAGTATTGCAAGGACATA
66 CCGCAACGGCGAATCCAGTATCACAAGGACATA
* *
31233218 GAGGGAAAGGTTTAAGTCGCAATGGCGAACCTTGTACCTCAAAAGCATGAAGGGAAATATTTAAG
1 GAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAAAAGCATGAAGGGAAAGATTTAAG
* ** *
31233283 CCGCAACGGCGAATCCAGTACCATGAGGACATG
66 CCGCAACGGCGAATCCAGTATCACAAGGACATA
* * * * * * *
31233316 GAGGGAATGGTTTAAGTCGTAACGACGAACCTTGTATCTTAGAAGCATAAAGGGAAAGATTTAAG
1 GAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAAAAGCATGAAGGGAAAGATTTAAG
* * *
31233381 CCGCAACGGCGAATCTAGTACCACAAGGATATA
66 CCGCAACGGCGAATCCAGTATCACAAGGACATA
* *
31233414 GAGGGAAGGGTTTAAGTCGCAACGGTGAACCTTGTACCTCAGAAA-CATGAAGGGAAAGATTTAA
1 GAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCA-AAAGCATGAAGGGAAAGATTTAA
* * * * *
31233478 GTCACAACGGCAAATCCAGTATCACGAGGATAT-
65 GCCGCAACGGCGAATCCAGTATCACAAGGACATA
* *
31233511 GAAGGGAAAGGTTTAAGTTGTAACGGC
1 G-AGGGAAAGGTTTAAGTCGCAACGGC
31233538 ATGGAAGGAA
Statistics
Matches: 273, Mismatches: 45, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
97 1 0.00
98 270 0.99
99 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (98 bp):
GAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAAAAGCATGAAGGGAAAGATTTAAG
CCGCAACGGCGAATCCAGTATCACAAGGACATA
Found at i:31233451 original size:196 final size:196
Alignment explanation
Indices: 31233111--31233775 Score: 760
Period size: 196 Copynumber: 3.5 Consensus size: 196
31233101 TCATTATCAT
*
31233111 GAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGAAA
1 GAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAA
* * * *** *
31233176 AGCTTTAAGCCGTAACGCCGAATCCAGTATTGCAAGGACATAGAGGGAAAGGTTTAAGTCGCAAT
66 AGATTTAAGCCGCAACGGCGAATCCAGTACCACAAGGACATAGAGGGAAAGGTTTAAGTCGCAAC
31233241 GGCGAACCTTGTACCTCA-AAAGCATGAAGGGAAATATTTAAGCCGCAACGGCGAATCCAGTACC
131 GGCGAACCTTGTACCTCAGAAA-CATGAAGGGAAATATTTAAGCCGCAACGGCGAATCCAGTACC
*
31233305 AT
195 AC
* * * * * * * *
31233307 GAGGACATGGAGGGAATGGTTTAAGTCGTAACGACGAACCTTGTATCTTAGAAGCATAAAGGGAA
1 GAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAA
* * *
31233372 AGATTTAAGCCGCAACGGCGAATCTAGTACCACAAGGATATAGAGGGAAGGGTTTAAGTCGCAAC
66 AGATTTAAGCCGCAACGGCGAATCCAGTACCACAAGGACATAGAGGGAAAGGTTTAAGTCGCAAC
* * * * * *
31233437 GGTGAACCTTGTACCTCAGAAACATGAAGGGAAAGATTTAAGTCACAACGGCAAATCCAGTATCA
131 GGCGAACCTTGTACCTCAGAAACATGAAGGGAAATATTTAAGCCGCAACGGCGAATCCAGTACCA
31233502 C
196 C
* * * *
31233503 GAGGATATGAAGGGAAAGGTTTAAGTTGTAAC-G-G---C----A--T-----G---GAA-GGAA
1 GAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAA
* * * * * *
31233548 AGATTTAAGCCGCAATGGCGAATCCAGTACCACGAGAACATGGAGGGAATGGTTTAAGTCACAAC
66 AGATTTAAGCCGCAACGGCGAATCCAGTACCACAAGGACATAGAGGGAAAGGTTTAAGTCGCAAC
* *
31233613 GGCGAACCTTGCACCTTAGAAACATGAAGGGAAATATTTAAGCCGCAACGGCGAATCCAGTACCA
131 GGCGAACCTTGTACCTCAGAAACATGAAGGGAAATATTTAAGCCGCAACGGCGAATCCAGTACCA
31233678 C
196 C
* * *
31233679 GAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCGGAAGGATGAAGGGAA
1 GAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAA
* * * * *
31233744 ATATTTAAGCTGCAATGACGAATCTAGTACCA
66 AGATTTAAGCCGCAACGGCGAATCCAGTACCA
31233776 TGAAGAATGG
Statistics
Matches: 392, Mismatches: 56, Indels: 42
0.80 0.11 0.09
Matches are distributed among these distances:
176 147 0.38
177 3 0.01
178 1 0.00
180 1 0.00
181 1 0.00
185 2 0.01
187 2 0.01
191 1 0.00
192 1 0.00
194 1 0.00
195 3 0.01
196 226 0.58
197 3 0.01
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (196 bp):
GAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAA
AGATTTAAGCCGCAACGGCGAATCCAGTACCACAAGGACATAGAGGGAAAGGTTTAAGTCGCAAC
GGCGAACCTTGTACCTCAGAAACATGAAGGGAAATATTTAAGCCGCAACGGCGAATCCAGTACCA
C
Found at i:31233513 original size:49 final size:49
Alignment explanation
Indices: 31233105--31233537 Score: 185
Period size: 49 Copynumber: 8.8 Consensus size: 49
31233095 CAGGTTTCAT
* * * * *
31233105 TATCATGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAA-CCTTG
1 TATCACGAGGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCC-AG
* * * * * * *
31233154 TACCTCA-GAAG-CATGAAGGAAAAGCTTTAAGCCGTAACGCCGAATCCAG
1 TA--TCACGAGGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAG
** * * * * *
31233203 TATTGCAAGGACAT-AGAGGGAAAGGTTTAAGTCGCAATGGCGAA-CCTTG
1 TATCACGAGGATATGA-AGGGAAAGATTTAAGTCGCAACGGCGAATCC-AG
* * * * *
31233252 TACCTCA-AAAG-CATGAAGGGAAATATTTAAGCCGCAACGGCGAATCCAG
1 TA--TCACGAGGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAG
* * * * * * * * *
31233301 TACCATGAGGACATGGAGGGAATGGTTTAAGTCGTAACGACGAA-CCTTG
1 TATCACGAGGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCC-AG
* * *
31233350 TATCTTA-GAAGCATA--AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
1 TATC--ACG-AGGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAG
* * * * * *
31233399 TACCACAAGGATAT-AGAGGGAAGGGTTTAAGTCGCAACGGTGAA-CCTTG
1 TATCACGAGGATATGA-AGGGAAAGATTTAAGTCGCAACGGCGAATCC-AG
* * * *
31233448 TACCTCA-GA-AACATGAAGGGAAAGATTTAAGTCACAACGGCAAATCCAG
1 TA--TCACGAGGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAG
* * *
31233497 TATCACGAGGATATGAAGGGAAAGGTTTAAGTTGTAACGGC
1 TATCACGAGGATATGAAGGGAAAGATTTAAGTCGCAACGGC
31233538 ATGGAAGGAA
Statistics
Matches: 282, Mismatches: 74, Indels: 56
0.68 0.18 0.14
Matches are distributed among these distances:
47 12 0.04
48 13 0.05
49 228 0.81
50 18 0.06
51 11 0.04
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (49 bp):
TATCACGAGGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAG
Found at i:31233614 original size:78 final size:78
Alignment explanation
Indices: 31233466--31233615 Score: 192
Period size: 78 Copynumber: 1.9 Consensus size: 78
31233456 AAACATGAAG
* * * * **
31233466 GGAAAGATTTAAGTCACAACGGCAAATCCAGTATCACGAGGATATGAAGGGAAAGGTTTAAGTTG
1 GGAAAGATTTAAGCCACAACGGCAAATCCAGTACCACGAGAACATGAAGGGAAAGGTTTAAGTCA
*
31233531 TAACGGCATGGAA
66 CAACGGCATGGAA
* * * * *
31233544 GGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCACGAGAACATGGAGGGAATGGTTTAAGTCA
1 GGAAAGATTTAAGCCACAACGGCAAATCCAGTACCACGAGAACATGAAGGGAAAGGTTTAAGTCA
31233609 CAACGGC
66 CAACGGC
31233616 GAACCTTGCA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
78 60 1.00
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.19
Consensus pattern (78 bp):
GGAAAGATTTAAGCCACAACGGCAAATCCAGTACCACGAGAACATGAAGGGAAAGGTTTAAGTCA
CAACGGCATGGAA
Found at i:31233617 original size:49 final size:48
Alignment explanation
Indices: 31233537--31233716 Score: 184
Period size: 49 Copynumber: 3.7 Consensus size: 48
31233527 GTTGTAACGG
* *
31233537 CATGGAAGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCACGAGAA
1 CATGGAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGA-AA
* * * * * *
31233586 CATGGAGGGAATGGTTTAAGTCACAACGGCGAA-CCTTGCACCTTA-GAAA
1 CATGGAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACC--ACGAAA
* *
31233635 CATGAAGGGAAATATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGA
1 CATGGAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAA-A
* * *
31233684 TATGGAGGGAAAGGTTTAAGTCGCAACGGCGAA
1 CATGGAGGGAAAGATTTAAGCCGCAACGGCGAA
31233717 CCTTATACCT
Statistics
Matches: 104, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
47 1 0.01
48 5 0.05
49 93 0.89
50 4 0.04
51 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (48 bp):
CATGGAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAA
Found at i:31233664 original size:176 final size:176
Alignment explanation
Indices: 31233368--31233713 Score: 512
Period size: 176 Copynumber: 2.0 Consensus size: 176
31233358 AAGCATAAAG
* * * *
31233368 GGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACAAGGATATAGAGGGAAGGGTTTAAGTCG
1 GGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAAGAACATAGAGGGAAGGGTTTAAGTCA
* * *
31233433 CAACGGTGAACCTTGTACCTCAGAAACATGAAGGGAAAGATTTAAGTCACAACGGCAAATCCAGT
66 CAACGGCGAACCTTGCACCTCAGAAACATGAAGGGAAAGATTTAAGCCACAACGGCAAATCCAGT
* * * *
31233498 ATCACGAGGATATGAAGGGAAAGGTTTAAGTTGTAACGGCATGGAA
131 ACCACGAAGATATGAAGGGAAAGGTTTAAGTCGCAACGGCATGGAA
* * * *
31233544 GGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCACGAGAACATGGAGGGAATGGTTTAAGTCA
1 GGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAAGAACATAGAGGGAAGGGTTTAAGTCA
* * * *
31233609 CAACGGCGAACCTTGCACCTTAGAAACATGAAGGGAAATATTTAAGCCGCAACGGCGAATCCAGT
66 CAACGGCGAACCTTGCACCTCAGAAACATGAAGGGAAAGATTTAAGCCACAACGGCAAATCCAGT
*
31233674 ACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGC
131 ACCACGAAGATATGAAGGGAAAGGTTTAAGTCGCAACGGC
31233714 GAACCTTATA
Statistics
Matches: 150, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
176 150 1.00
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (176 bp):
GGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAAGAACATAGAGGGAAGGGTTTAAGTCA
CAACGGCGAACCTTGCACCTCAGAAACATGAAGGGAAAGATTTAAGCCACAACGGCAAATCCAGT
ACCACGAAGATATGAAGGGAAAGGTTTAAGTCGCAACGGCATGGAA
Found at i:31233713 original size:98 final size:97
Alignment explanation
Indices: 31233544--31233796 Score: 337
Period size: 98 Copynumber: 2.6 Consensus size: 97
31233534 CGGCATGGAA
* *
31233544 GGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCACG-AGAACATGGAGGGAATGGTTTAAGTC
1 GGAAATATTTAAGCCGCAATGGCGAATCCAGTACCACGAAG-A-ATGGAGGGAAAGGTTTAAGTC
* *
31233608 ACAACGGCGAACCTTGCACCTTAGAAACATGAAG
64 ACAACGGCGAACCTTACACCTCAGAAACATGAAG
* *
31233642 GGAAATATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCG
1 GGAAATATTTAAGCCGCAATGGCGAATCCAGTACCACGAAGA-ATGGAGGGAAAGGTTTAAGTCA
* * **
31233707 CAACGGCGAACCTTATACCTCGGAAGGATGAAG
65 CAACGGCGAACCTTACACCTCAGAAACATGAAG
* * * * *
31233740 GGAAATATTTAAGCTGCAATGACGAATCTAGTACCATGAAGAATGGGGGGAAAGGTT
1 GGAAATATTTAAGCCGCAATGGCGAATCCAGTACCACGAAGAATGGAGGGAAAGGTT
31233797 ACGACCGCAA
Statistics
Matches: 137, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
97 14 0.10
98 121 0.88
99 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.19
Consensus pattern (97 bp):
GGAAATATTTAAGCCGCAATGGCGAATCCAGTACCACGAAGAATGGAGGGAAAGGTTTAAGTCAC
AACGGCGAACCTTACACCTCAGAAACATGAAG
Found at i:31233751 original size:49 final size:48
Alignment explanation
Indices: 31233600--31233752 Score: 139
Period size: 49 Copynumber: 3.1 Consensus size: 48
31233590 GAGGGAATGG
* ** * *
31233600 TTTAAGTCACAACGGCGAACCTTGCACCTTAGAAACATGAAGGGAAATA
1 TTTAAGTCGCAACGGCGAACCTTATACC-TCGAAGCATGAAGGGAAATA
* * * * **
31233649 TTTAAGCCGCAACGGCGAATCC--AGTACCACGAAGATATGGAGGGAAAGG
1 TTTAAGTCGCAACGGCGAA-CCTTA-TACCTCGAAG-CATGAAGGGAAATA
*
31233698 TTTAAGTCGCAACGGCGAACCTTATACCTCGGAAGGATGAAGGGAAATA
1 TTTAAGTCGCAACGGCGAACCTTATACCTC-GAAGCATGAAGGGAAATA
31233747 TTTAAG
1 TTTAAG
31233753 CTGCAATGAC
Statistics
Matches: 81, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
48 5 0.06
49 69 0.85
50 7 0.09
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (48 bp):
TTTAAGTCGCAACGGCGAACCTTATACCTCGAAGCATGAAGGGAAATA
Found at i:31234078 original size:102 final size:100
Alignment explanation
Indices: 31233945--31234151 Score: 238
Period size: 101 Copynumber: 2.0 Consensus size: 100
31233935 AAGAGCAAGA
* * * **
31233945 TGAAGCTTCAACATCAAATCCTATCTTCCTGAACT-TGCAGCGAAGTTGGATTAAAACTACAATA
1 TGAAGCTTCAACACCAAATCCTATC-TCCTGAAGTGT-CAGCGAA-TTGAACAAAAACTACAATA
* *
31234009 GCGGATCTCAATCTCCATGAAGTTACAGTGGGATAGAG
63 GCGAATCTCAATCTCCATGAAGTTACAGTGGAATAGAG
* * *
31234047 TGAAGCTTCAACACCAAAATTCTTATC-CCTGAAGTGTCAGTGGATTGAACAAAAACTACAATAG
1 TGAAGCTTCAACACC-AAA-TCCTATCTCCTGAAGTGTCAGCGAATTGAACAAAAACTACAATAG
* * *
31234111 CGAATCTCAATCTCCCTGAAGTTGCAGTGGAATGGAG
64 CGAATCTCAATCTCCATGAAGTTACAGTGGAATAGAG
31234148 TGAA
1 TGAA
31234152 ACTATAATAG
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
101 53 0.60
102 26 0.29
103 4 0.04
104 6 0.07
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (100 bp):
TGAAGCTTCAACACCAAATCCTATCTCCTGAAGTGTCAGCGAATTGAACAAAAACTACAATAGCG
AATCTCAATCTCCATGAAGTTACAGTGGAATAGAG
Found at i:31234154 original size:51 final size:51
Alignment explanation
Indices: 31233998--31234162 Score: 129
Period size: 51 Copynumber: 3.3 Consensus size: 51
31233988 AGTTGGATTA
* * * * *
31233998 AAACTACAATAGCGGATCTCAATCTCCATGAAGTTACAGTGGGATAGAGTG
1 AAACTACAATAGCGAATCTCAATCTCCCTGAAGTTGCAGTGGAATGGAGTG
* * * * * * * * * ***
31234049 AAGCTTCAACACCAAAAT-TC-TTATCCCTGAAG-TGTCAGTGGATTGAACAA
1 AAACTACAATAGC-GAATCTCAATCTCCCTGAAGTTG-CAGTGGAATGGAGTG
31234099 AAACTACAATAGCGAATCTCAATCTCCCTGAAGTTGCAGTGGAATGGAGTG
1 AAACTACAATAGCGAATCTCAATCTCCCTGAAGTTGCAGTGGAATGGAGTG
*
31234150 AAACTATAATAGC
1 AAACTACAATAGC
31234163 AAATTTTGTC
Statistics
Matches: 79, Mismatches: 30, Indels: 10
0.66 0.25 0.08
Matches are distributed among these distances:
49 4 0.05
50 28 0.35
51 43 0.54
52 4 0.05
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (51 bp):
AAACTACAATAGCGAATCTCAATCTCCCTGAAGTTGCAGTGGAATGGAGTG
Found at i:31234832 original size:11 final size:9
Alignment explanation
Indices: 31234804--31234837 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
31234794 TTTACTCACG
31234804 AAAAATACA
1 AAAAATACA
31234813 AAAAATACA
1 AAAAATACA
31234822 AAATCAATACA
1 AAA--AATACA
31234833 AAAAA
1 AAAAA
31234838 GGAGCATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 14 0.61
11 9 0.39
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAATACA
Found at i:31235924 original size:30 final size:29
Alignment explanation
Indices: 31235857--31235945 Score: 124
Period size: 29 Copynumber: 3.0 Consensus size: 29
31235847 CAAGAGGTCT
*
31235857 CCAAACTTTTCTAAAATTACATTTTGACC
1 CCAAACTTTTCCAAAATTACATTTTGACC
*
31235886 CCAAACTTTTCCAAAATTAAATTTTGATCC
1 CCAAACTTTTCCAAAATTACATTTTGA-CC
** *
31235916 TTAAACTTTTCCAAAATCACATTTTGACC
1 CCAAACTTTTCCAAAATTACATTTTGACC
31235945 C
1 C
31235946 TCGAGTTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
29 27 0.52
30 25 0.48
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (29 bp):
CCAAACTTTTCCAAAATTACATTTTGACC
Found at i:31235956 original size:30 final size:30
Alignment explanation
Indices: 31235858--31235970 Score: 129
Period size: 30 Copynumber: 3.8 Consensus size: 30
31235848 AAGAGGTCTC
*
31235858 CAAACTTTTCTAAAATTACATTTTGACCC-
1 CAAACTTTTCCAAAATTACATTTTGACCCT
* *
31235887 CAAACTTTTCCAAAATTAAATTTTGATCCT
1 CAAACTTTTCCAAAATTACATTTTGACCCT
* *
31235917 TAAACTTTTCCAAAATCACATTTTGACCCT
1 CAAACTTTTCCAAAATTACATTTTGACCCT
* ** * *
31235947 CGAGTTTTTCTAAAATTTCATTTT
1 CAAACTTTTCCAAAATTACATTTT
31235971 CATCCCAAGT
Statistics
Matches: 69, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
29 26 0.38
30 43 0.62
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (30 bp):
CAAACTTTTCCAAAATTACATTTTGACCCT
Found at i:31237401 original size:22 final size:22
Alignment explanation
Indices: 31237376--31237443 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
31237366 GCGCTTTAGC
* *
31237376 GCTTAATGTTTTGTACATT-GGT
1 GCTTAATGATTTGCAC-TTCGGT
31237398 GCTTAATGATTTGCACTTCGGT
1 GCTTAATGATTTGCACTTCGGT
* * *
31237420 GCTTAGTAATTCGCACTTCGGT
1 GCTTAATGATTTGCACTTCGGT
31237442 GC
1 GC
31237444 CAAGTGTTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 2 0.05
22 38 0.95
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.41
Consensus pattern (22 bp):
GCTTAATGATTTGCACTTCGGT
Found at i:31239257 original size:22 final size:24
Alignment explanation
Indices: 31239221--31239268 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
31239211 TAATTCTATA
31239221 AAAAAATTTAATAAATA-AAAAAT
1 AAAAAATTTAATAAATATAAAAAT
* *
31239244 AAAAAA-TTATTAAATATTAAAAT
1 AAAAAATTTAATAAATATAAAAAT
31239267 AA
1 AA
31239269 TATAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAAAATTTAATAAATATAAAAAT
Found at i:31239376 original size:73 final size:73
Alignment explanation
Indices: 31239285--31239447 Score: 308
Period size: 73 Copynumber: 2.2 Consensus size: 73
31239275 ATAAATATAT
*
31239285 ATTTTAAAAATTTTAAAAATAATATAAACGAGCTTAAAATAAATTTAAACAAATATTTTATAAAT
1 ATTTAAAAAATTTTAAAAATAATATAAACGAGCTTAAAATAAATTTAAACAAATATTTTATAAAT
31239350 ATGAATAA
66 ATGAATAA
*
31239358 ATTTAAAAAATTTTAAAAATAATATAAACGAGCTTAAAATAGATTTAAACAAATATTTTATAAAT
1 ATTTAAAAAATTTTAAAAATAATATAAACGAGCTTAAAATAAATTTAAACAAATATTTTATAAAT
31239423 ATGAATAA
66 ATGAATAA
31239431 ATTTAAAAAATTTTAAA
1 ATTTAAAAAATTTTAAA
31239448 CTTAAATTTT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 88 1.00
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (73 bp):
ATTTAAAAAATTTTAAAAATAATATAAACGAGCTTAAAATAAATTTAAACAAATATTTTATAAAT
ATGAATAA
Found at i:31249243 original size:23 final size:21
Alignment explanation
Indices: 31249196--31249252 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 21
31249186 AAGATATATT
*
31249196 GAAAATTAATAAAATATTTTA
1 GAAAATGAATAAAATATTTTA
*
31249217 -AAAATGAATAATATAATTTATA
1 GAAAATGAATAAAAT-ATTT-TA
*
31249239 GAAAAT-AAAAAAAT
1 GAAAATGAATAAAAT
31249253 CATTATTGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 12 0.41
21 4 0.14
22 8 0.28
23 5 0.17
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (21 bp):
GAAAATGAATAAAATATTTTA
Found at i:31252350 original size:3 final size:3
Alignment explanation
Indices: 31252342--31252374 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
31252332 TATGTATATA
31252342 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
31252375 GAAATTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:31260869 original size:87 final size:87
Alignment explanation
Indices: 31260720--31260919 Score: 330
Period size: 87 Copynumber: 2.3 Consensus size: 87
31260710 GGTATATATA
*
31260720 GGTTTAGGTATATGAAATTTAAGTCATCAATAAAATATTGAACCCCCTCCACCCCAATAACATAC
1 GGTTTAGGTATATGAAATTTAAGTCATCAATAAAATATTAAACCCCCTCCACCCCAATAACATAC
*
31260785 CATTTTGGTAAAATAAAATACG
66 CATTTTGGCAAAATAAAATACG
* * *
31260807 GGTTTAGGTATGTGAAATTTAAGTCATCAATAAAATATTAAACCCCTTTCACCCCCAA-AACATA
1 GGTTTAGGTATATGAAATTTAAGTCATCAATAAAATATTAAACCCCCTCCA-CCCCAATAACATA
31260871 CCATTTTGGCAAAATAAAATACG
65 CCATTTTGGCAAAATAAAATACG
*
31260894 GGTTTAAGTATATGAAATTTAAGTCA
1 GGTTTAGGTATATGAAATTTAAGTCA
31260920 CCTAAACCTG
Statistics
Matches: 105, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
87 99 0.94
88 6 0.06
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.30
Consensus pattern (87 bp):
GGTTTAGGTATATGAAATTTAAGTCATCAATAAAATATTAAACCCCCTCCACCCCAATAACATAC
CATTTTGGCAAAATAAAATACG
Found at i:31261211 original size:17 final size:17
Alignment explanation
Indices: 31261189--31261226 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
31261179 TATTTTTTTA
*
31261189 AAATTTATTTTAAATTT
1 AAATTTATTCTAAATTT
31261206 AAATTTATTCTAAATTT
1 AAATTTATTCTAAATTT
31261223 AAAT
1 AAAT
31261227 AAATAAATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATTTATTCTAAATTT
Found at i:31261547 original size:14 final size:14
Alignment explanation
Indices: 31261528--31261556 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
31261518 ACAAAAGAAC
31261528 ATGATTGTACTTTT
1 ATGATTGTACTTTT
31261542 ATGATTGTACTTTT
1 ATGATTGTACTTTT
31261556 A
1 A
31261557 GGCTATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (14 bp):
ATGATTGTACTTTT
Found at i:31261896 original size:11 final size:11
Alignment explanation
Indices: 31261873--31261929 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
31261863 GTTCGTATTT
31261873 AATATAGTAATA
1 AATATA-TAATA
31261885 AATATATAATA
1 AATATATAATA
* *
31261896 AACACAT--TA
1 AATATATAATA
*
31261905 AATA-ATATTA
1 AATATATAATA
31261915 AATATATAATA
1 AATATATAATA
31261926 AATA
1 AATA
31261930 AAAAAAAGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
8 2 0.05
9 5 0.13
10 6 0.16
11 19 0.50
12 6 0.16
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (11 bp):
AATATATAATA
Found at i:31262946 original size:29 final size:29
Alignment explanation
Indices: 31262835--31263085 Score: 154
Period size: 29 Copynumber: 8.6 Consensus size: 29
31262825 TAGAAATCAT
* * *
31262835 ATTTTGACCCCCAAACATTTCCAAAATTAC
1 ATTTTTACCCCTAAAC-TTTCAAAAATTAC
* ** * *
31262865 -GTTTTATTCCTAAACTTTTCTAAAATCAC
1 ATTTTTACCCCTAAAC-TTTCAAAAATTAC
**
31262894 ATTTAAACCCCTAAA-TTTCTAAAAATTAC
1 ATTTTTACCCCTAAACTTTC-AAAAATTAC
*
31262923 ATTTTTACCCCTAAACTTACAAAAATTAC
1 ATTTTTACCCCTAAACTTTCAAAAATTAC
* * ** *
31262952 ATGTTTGCCTTTAAACTTCCAAAAATTAC
1 ATTTTTACCCCTAAACTTTCAAAAATTAC
* * * *
31262981 ATTTTT-GCCCTCGAGCTTGT-AAAAGTTAC
1 ATTTTTACCCCT-AAACTT-TCAAAAATTAC
* *
31263010 ATTTTTA-CCCTCGAACTTCTCAAAAATTAT
1 ATTTTTACCCCT-AAACTT-TCAAAAATTAC
* * *
31263040 ATTTTTGCCCCTAAATTTTTCCAAAATTAC
1 ATTTTTACCCCTAAA-CTTTCAAAAATTAC
*
31263070 ATTTTAACCCC-AAACT
1 ATTTTTACCCCTAAACT
31263086 CTCTGAAACT
Statistics
Matches: 169, Mismatches: 43, Indels: 20
0.73 0.19 0.09
Matches are distributed among these distances:
28 7 0.04
29 111 0.66
30 45 0.27
31 6 0.04
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (29 bp):
ATTTTTACCCCTAAACTTTCAAAAATTAC
Found at i:31264103 original size:42 final size:42
Alignment explanation
Indices: 31264056--31264137 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
31264046 AAAGGAGTTG
*
31264056 TTATGAGTGTTATTT-AGGAATAAAATTATATTTGGGTTTAGT
1 TTATGAGTGTT-TTTGAAGAATAAAATTATATTTGGGTTTAGT
*
31264098 TTATGAGTGTTTTTGAAGAATGAAATTATATTTGGGTTTA
1 TTATGAGTGTTTTTGAAGAATAAAATTATATTTGGGTTTA
31264138 AAAATATTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 3 0.08
42 34 0.92
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (42 bp):
TTATGAGTGTTTTTGAAGAATAAAATTATATTTGGGTTTAGT
Found at i:31264146 original size:16 final size:16
Alignment explanation
Indices: 31264125--31264156 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31264115 GAATGAAATT
31264125 ATATTTGGGTTTAAAA
1 ATATTTGGGTTTAAAA
31264141 ATATTTGGGTTTAAAA
1 ATATTTGGGTTTAAAA
31264157 TTATATAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (16 bp):
ATATTTGGGTTTAAAA
Found at i:31266583 original size:29 final size:29
Alignment explanation
Indices: 31266371--31266593 Score: 122
Period size: 29 Copynumber: 7.7 Consensus size: 29
31266361 CTTGGATACC
* * *
31266371 CGAGGGCAAAATGGTAATTTTGGGAC-TCT
1 CGAGGGTAAAATGGTAATTTTCGAACAT-T
* ** *
31266400 CGAGGGCAAAATGGTAATTTTAAAAAATT
1 CGAGGGTAAAATGGTAATTTTCGAACATT
31266429 C-AGGGTTAAAAAT-G-ACATTTT-GAACATT
1 CGAGGG-T-AAAATGGTA-ATTTTCGAACATT
* * * *
31266457 CGAGGCTAAAATGGTAATTTTTGGAAAAAT
1 CGAGGGTAAAATGGTAA-TTTTCGAACATT
* * *
31266487 CG-GGATCAAAAATAG-AATTTTCGGACATT
1 CGAGGGT--AAAATGGTAATTTTCGAACATT
* * * *
31266516 TG-GGGTAAAATGGTAATTTTAGAAGAAT
1 CGAGGGTAAAATGGTAATTTTCGAACATT
* **
31266544 CGA-GATCAAAAACGTAATTTTCGAACATT
1 CGAGGGT-AAAATGGTAATTTTCGAACATT
31266573 CGAGGGTAAAATGGTAATTTT
1 CGAGGGTAAAATGGTAATTTT
31266594 GAAAGTTTCG
Statistics
Matches: 146, Mismatches: 33, Indels: 30
0.70 0.16 0.14
Matches are distributed among these distances:
27 11 0.08
28 27 0.18
29 85 0.58
30 17 0.12
31 6 0.04
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (29 bp):
CGAGGGTAAAATGGTAATTTTCGAACATT
Found at i:31266603 original size:29 final size:30
Alignment explanation
Indices: 31266571--31266854 Score: 245
Period size: 29 Copynumber: 9.8 Consensus size: 30
31266561 TTTTCGAACA
*
31266571 TTCGAGGGT-AAAATGGTAA-TTTTGAAAGT
1 TTCGAGGGTAAAAAT-GTAATTTTTGGAAGT
*
31266600 TTCG-GGGTTAAAAAT-TGAATTTTTGAAAG-
1 TTCGAGGG-TAAAAATGT-AATTTTTGGAAGT
* * **
31266629 TACG-GGGTCAAAAATGAAATTTTTTAAAGT
1 TTCGAGGGT-AAAAATGTAATTTTTGGAAGT
*
31266659 TT-G-GGAT-AAAATGTAATTTTTGGAAGT
1 TTCGAGGGTAAAAATGTAATTTTTGGAAGT
* * *
31266686 TTTG-GGGTTAAAATATAATTTTTGGAAGT
1 TTCGAGGGTAAAAATGTAATTTTTGGAAGT
** *
31266715 TTTAAGGGTAAAAATGTAATTTTTAGAAG-
1 TTCGAGGGTAAAAATGTAATTTTTGGAAGT
31266744 TTCGA-GGTCAAAAATGTAATTTTTGGAAG-
1 TTCGAGGGT-AAAAATGTAATTTTTGGAAGT
* *
31266773 TTCGAGGTTAAAAATGGAATTTTTGGAAG-
1 TTCGAGGGTAAAAATGTAATTTTTGGAAGT
* * *
31266802 TTCGGGGGTAAAAATGTAATTGTAGGAAGT
1 TTCGAGGGTAAAAATGTAATTTTTGGAAGT
* *
31266832 TTTGAGGTTAAAAATGTAATTTT
1 TTCGAGGGTAAAAATGTAATTTT
31266855 CAAAAATTTT
Statistics
Matches: 214, Mismatches: 28, Indels: 25
0.80 0.10 0.09
Matches are distributed among these distances:
27 19 0.09
28 12 0.06
29 126 0.59
30 57 0.27
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (30 bp):
TTCGAGGGTAAAAATGTAATTTTTGGAAGT
Found at i:31266613 original size:58 final size:57
Alignment explanation
Indices: 31266399--31266598 Score: 205
Period size: 57 Copynumber: 3.5 Consensus size: 57
31266389 TTTGGGACTC
* * * *
31266399 TCGAGGGCAAAATGGTAATTTT-AAAAAATTCAGGG-TTAAAAATGACATTTT-GAACAT
1 TCGAGGGTAAAATGGTAATTTTGAAAGAA-TC-GGGATCAAAAAAGA-ATTTTCGAACAT
* *
31266456 TCGAGGCTAAAATGGTAATTTTTGGAAA-AATCGGGATCAAAAATAGAATTTTCGGACAT
1 TCGAGGGTAAAATGGTAA-TTTT-GAAAGAATCGGGATCAAAAA-AGAATTTTCGAACAT
* * *
31266515 TTG-GGGTAAAATGGTAATTTT-AGAAGAATCGAGATCAAAAACGTAATTTTCGAACAT
1 TCGAGGGTAAAATGGTAATTTTGA-AAGAATCGGGATCAAAAAAG-AATTTTCGAACAT
31266572 TCGAGGGTAAAATGGTAATTTTGAAAG
1 TCGAGGGTAAAATGGTAATTTTGAAAG
31266599 TTTCGGGGTT
Statistics
Matches: 121, Mismatches: 11, Indels: 21
0.79 0.07 0.14
Matches are distributed among these distances:
55 1 0.01
56 3 0.02
57 51 0.42
58 51 0.42
59 12 0.10
60 3 0.02
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (57 bp):
TCGAGGGTAAAATGGTAATTTTGAAAGAATCGGGATCAAAAAAGAATTTTCGAACAT
Found at i:31266621 original size:58 final size:57
Alignment explanation
Indices: 31266399--31266622 Score: 217
Period size: 58 Copynumber: 3.9 Consensus size: 57
31266389 TTTGGGACTC
* * *
31266399 TCGAGGGCAAAATGGTAATTTT-AAAAAATTCAGGG-TTAAAAATGACATTTT-GAACAT
1 TCGAGGGTAAAATGGTAATTTTGAAAGAA-TC-GGGATCAAAAATGA-ATTTTCGAACAT
* *
31266456 TCGAGGCTAAAATGGTAATTTTTGGAAA-AATCGGGATCAAAAATAGAATTTTCGGACAT
1 TCGAGGGTAAAATGGTAA-TTTT-GAAAGAATCGGGATCAAAAAT-GAATTTTCGAACAT
* * *
31266515 TTG-GGGTAAAATGGTAATTTT-AGAAGAATCGAGATCAAAAACGTAATTTTCGAACAT
1 TCGAGGGTAAAATGGTAATTTTGA-AAGAATCGGGATCAAAAATG-AATTTTCGAACAT
** * *
31266572 TCGAGGGTAAAATGGTAATTTTGAAAGTTTCGGGGTTAAAAATTGAATTTT
1 TCGAGGGTAAAATGGTAATTTTGAAAGAATCGGGATCAAAAA-TGAATTTT
31266623 TGAAAGTACG
Statistics
Matches: 139, Mismatches: 16, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
55 1 0.01
56 3 0.02
57 51 0.37
58 68 0.49
59 13 0.09
60 3 0.02
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (57 bp):
TCGAGGGTAAAATGGTAATTTTGAAAGAATCGGGATCAAAAATGAATTTTCGAACAT
Found at i:31266744 original size:59 final size:59
Alignment explanation
Indices: 31266571--31266854 Score: 264
Period size: 59 Copynumber: 4.9 Consensus size: 59
31266561 TTTTCGAACA
* * * *
31266571 TTCGAGGGT-AAAATGGTAA-TTTTGAAAGTTTCGGGGTTAAAAAT-TGAATTTTTGAAAG-
1 TTCG-GGGTAAAAAT-GTAATTTTTGGAAGTTTTGAGGTTAAAAATGT-AATTTTTGGAAGT
* * ** *
31266629 TACGGGGTCAAAAATGAAATTTTTTAAAG-TTTG-GGAT-AAAATGTAATTTTTGGAAGT
1 TTCGGGGT-AAAAATGTAATTTTTGGAAGTTTTGAGGTTAAAAATGTAATTTTTGGAAGT
* * * * * *
31266686 TTTGGGGTTAAAATATAATTTTTGGAAGTTTTAAGGGTAAAAATGTAATTTTTAGAAG-
1 TTCGGGGTAAAAATGTAATTTTTGGAAGTTTTGAGGTTAAAAATGTAATTTTTGGAAGT
* * *
31266744 TTCGAGGTCAAAAATGTAATTTTTGGAAG-TTCGAGGTTAAAAATGGAATTTTTGGAAG-
1 TTCGGGGT-AAAAATGTAATTTTTGGAAGTTTTGAGGTTAAAAATGTAATTTTTGGAAGT
* *
31266802 TTCGGGGGTAAAAATGTAATTGTAGGAAGTTTTGAGGTTAAAAATGTAATTTT
1 TTC-GGGGTAAAAATGTAATTTTTGGAAGTTTTGAGGTTAAAAATGTAATTTT
31266855 CAAAAATTTT
Statistics
Matches: 185, Mismatches: 30, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
56 31 0.17
57 17 0.09
58 63 0.34
59 74 0.40
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (59 bp):
TTCGGGGTAAAAATGTAATTTTTGGAAGTTTTGAGGTTAAAAATGTAATTTTTGGAAGT
Found at i:31266787 original size:88 final size:88
Alignment explanation
Indices: 31266666--31266854 Score: 240
Period size: 88 Copynumber: 2.1 Consensus size: 88
31266656 AGTTTGGGAT
* * * *
31266666 AAAATGTAATTTTTGGAAGTTTTGGGGTTAAAATATAATTTTTGGAAGTTTTAAGGGTAAAAATG
1 AAAATGTAATTTTTGGAAGTTTCGAGGTTAAAATAGAATTTTTGGAAG-TTCAAGGGTAAAAATG
*
31266731 TAATTTTTA-GAAG-TTCGAGGTCA
65 TAA-TTGTAGGAAGTTTCGAGGTCA
* **
31266754 AAAATGTAATTTTTGGAAG-TTCGAGGTTAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATG
1 AAAATGTAATTTTTGGAAGTTTCGAGGTT-AAAATAGAATTTTTGGAAGTTCAAGGGTAAAAATG
* *
31266818 TAATTGTAGGAAGTTTTGAGGTTA
65 TAATTGTAGGAAGTTTCGAGGTCA
31266842 AAAATGTAATTTT
1 AAAATGTAATTTT
31266855 CAAAAATTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
86 4 0.05
87 27 0.31
88 57 0.65
ACGTcount: A:0.35, C:0.02, G:0.24, T:0.38
Consensus pattern (88 bp):
AAAATGTAATTTTTGGAAGTTTCGAGGTTAAAATAGAATTTTTGGAAGTTCAAGGGTAAAAATGT
AATTGTAGGAAGTTTCGAGGTCA
Found at i:31279558 original size:155 final size:156
Alignment explanation
Indices: 31279276--31279643 Score: 465
Period size: 155 Copynumber: 2.4 Consensus size: 156
31279266 ACAGTCATCA
* * * * * * * *
31279276 GATCTTTTACCCCGAACTTGAGGCAAATCACCACCTGTCAATCTCTTACCCCGAGCTGGGGGTAG
1 GATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTGGAGGCAG
* * *
31279341 ATTGCAGCCATTCGATCTTTTACCTCGAGCTTGGGGCAGATCACCATCAGTCAATCTCTTACCCC
66 AATGCAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGTCAATCTCTTACCCC
* * *
31279406 GAG-CTTGGAAAAATTGTAGCCATTC
131 GAGCCTGGGAAAAATTGCAACCATTC
* * *
31279431 GATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATATCTTACCCCGATCAT-GAGGCA
1 GATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGC-TGGAGGCA
* *
31279495 GAATGCAGCCATTCGATCTTTTACCCCGAGCCTGGGGTAGATCATCATCAG-CAAATCTCTTACC
65 GAATGCAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGTC-AATCTCTTACC
** *
31279559 CCGAGCCTGGGGCAGATTGCAACCATTC
129 CCGAGCCTGGGAAAAATTGCAACCATTC
* *
31279587 GATCTTTTACCCCAAGCATT-GGGCAGATCACCATCAGCCAATCTCTTACCCCAAGCT
1 GATCTTTTACCCCGAGC-TTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCT
31279644 TAGGGCAGAT
Statistics
Matches: 182, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
154 1 0.01
155 114 0.63
156 65 0.36
157 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (156 bp):
GATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTGGAGGCAG
AATGCAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGTCAATCTCTTACCCC
GAGCCTGGGAAAAATTGCAACCATTC
Found at i:31279636 original size:39 final size:38
Alignment explanation
Indices: 31279238--31279653 Score: 185
Period size: 39 Copynumber: 10.7 Consensus size: 38
31279228 GAAGATTCTG
* * *
31279238 ATCTCTTACCCCGAGTTTAGGGCGGATCA-CAGTCA-TCA
1 ATCTCTTACCCCGAGCTT-GGGCAGATCACCA-TCAGCCA
* * * * * *
31279276 GATCTTTTACCCCGAACTTGAGGCAAATCACCACCTGTCA
1 -ATCTCTTACCCCGAGCTTG-GGCAGATCACCATCAGCCA
* *
31279316 ATCTCTTACCCCGAGCTGGGGGTAGATTGCAGCCATTC-G---
1 ATCTCTTACCCCGAGCT-TGGGCAGA-T-CA-CCA-TCAGCCA
* * *
31279355 ATCTTTTACCTCGAGCTTGGGGCAGATCACCATCAGTCA
1 ATCTCTTACCCCGAGCTT-GGGCAGATCACCATCAGCCA
** * *
31279394 ATCTCTTACCCCGAGCTTGGAAAAATTGTAGCCATTC-G---
1 ATCTCTTACCCCGAGCTTGGGCAGA-T-CA-CCA-TCAGCCA
31279432 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCTT-GGGCAGATCACCATCAGCCA
* * *
31279471 ATATCTTACCCCGATCATGAGGCAGAATGCAGCCATTC-G---
1 ATCTCTTACCCCGAGCTTG-GGCAG-AT-CA-CCA-TCAGCCA
* * * * *
31279510 ATCTTTTACCCCGAGCCTGGGGTAGATCATCATCAGCAA
1 ATCTCTTACCCCGAG-CTTGGGCAGATCACCATCAGCCA
* ** * * ** *
31279549 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTCG
1 ATCTCTTACCCCGAG-CTTGGGCAGATCACCATCAGCCA
* *
31279588 ATCTTTTACCCCAAGCATTGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGC-TTGGGCAGATCACCATCAGCCA
*
31279627 ATCTCTTACCCCAAGCTTAGGGCAGAT
1 ATCTCTTACCCCGAGCTT-GGGCAGAT
31279654 TGCAGCAGAT
Statistics
Matches: 284, Mismatches: 59, Indels: 68
0.69 0.14 0.17
Matches are distributed among these distances:
35 6 0.02
36 11 0.04
37 5 0.02
38 31 0.11
39 198 0.70
40 12 0.04
41 8 0.03
42 10 0.04
43 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (38 bp):
ATCTCTTACCCCGAGCTTGGGCAGATCACCATCAGCCA
Found at i:31279654 original size:78 final size:76
Alignment explanation
Indices: 31279238--31279659 Score: 459
Period size: 78 Copynumber: 5.4 Consensus size: 76
31279228 GAAGATTCTG
* * ** * * *
31279238 ATCTCTTACCCCGAGTTTAGGGCGGATCACAGTCA-TCAGATCTTTTACCCCGAACTTGAGGCAA
1 ATCTCTTACCCCGAGCTT-GGGCAGATTGCAGCCATTC-GATCTTTTACCCCGAGCTTG-GGCAG
* * *
31279302 ATCACCACCTGTCA
63 ATCACCATCAGCCA
* * *
31279316 ATCTCTTACCCCGAGCTGGGGGTAGATTGCAGCCATTCGATCTTTTACCTCGAGCTTGGGGCAGA
1 ATCTCTTACCCCGAGCT-TGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCTT-GGGCAGA
*
31279381 TCACCATCAGTCA
64 TCACCATCAGCCA
** * * *
31279394 ATCTCTTACCCCGAGCTTGGAAAAATTGTAGCCATTCGATCTCTTACCCCGAGCTTGGGGCAGAT
1 ATCTCTTACCCCGAGCTTGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCTT-GGGCAGAT
31279459 CACCATCAGCCA
65 CACCATCAGCCA
* * * * * *
31279471 ATATCTTACCCCGATCATGAGGCAGAATGCAGCCATTCGATCTTTTACCCCGAGCCTGGGGTAGA
1 ATCTCTTACCCCGAGCTTG-GGCAGATTGCAGCCATTCGATCTTTTACCCCGAG-CTTGGGCAGA
* *
31279536 TCATCATCAGCAA
64 TCACCATCAGCCA
* * *
31279549 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTCGATCTTTTACCCCAAGCATTGGGCAGA
1 ATCTCTTACCCCGAG-CTTGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGC-TTGGGCAGA
31279614 TCACCATCAGCCA
64 TCACCATCAGCCA
*
31279627 ATCTCTTACCCCAAGCTTAGGGCAGATTGCAGC
1 ATCTCTTACCCCGAGCTT-GGGCAGATTGCAGC
31279660 AGATCACCAT
Statistics
Matches: 289, Mismatches: 47, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
77 71 0.25
78 211 0.73
79 7 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (76 bp):
ATCTCTTACCCCGAGCTTGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCTTGGGCAGATC
ACCATCAGCCA
Found at i:31279759 original size:127 final size:127
Alignment explanation
Indices: 31279533--31279764 Score: 367
Period size: 127 Copynumber: 1.8 Consensus size: 127
31279523 AGCCTGGGGT
* * * *
31279533 AGATCATCATCAGCAAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTCGATCTTTTACC
1 AGATCACCATCAGCAAATCTCTTACCCCAAGCCTGGGGCAAAATGCAACCATTCGATCTTTTACC
*
31279598 CCAAGCATTGGGCAGATCACCATCAGCCAATCTCTTACCCCAAGCTTAGGGCAGATTGCAGC
66 CCAAGCATTGGGCAGATCACCATCAGCCAATCTCTGACCCCAAGCTTAGGGCAGATTGCAGC
*
31279660 AGATCACCATCAGTAAATCTCTTACCCCAAGCCTGGGGCAAAATGCAACCATTCGATCTTTTACC
1 AGATCACCATCAGCAAATCTCTTACCCCAAGCCTGGGGCAAAATGCAACCATTCGATCTTTTACC
* * *
31279725 CCGAGC-TTGGGGTAGATCATCATCAGCCAATCTCTGACCC
66 CCAAGCATT-GGGCAGATCACCATCAGCCAATCTCTGACCC
31279765 TGATCATGGG
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
126 2 0.02
127 93 0.98
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.23
Consensus pattern (127 bp):
AGATCACCATCAGCAAATCTCTTACCCCAAGCCTGGGGCAAAATGCAACCATTCGATCTTTTACC
CCAAGCATTGGGCAGATCACCATCAGCCAATCTCTGACCCCAAGCTTAGGGCAGATTGCAGC
Found at i:31280226 original size:11 final size:11
Alignment explanation
Indices: 31280212--31280267 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
31280202 TATTTTAAGA
31280212 TTTAAATTTAT
1 TTTAAATTTAT
*
31280223 TTTAAATTTAAA
1 TTTAAATTT-AT
*
31280235 TTT-AATTTAAG
1 TTTAAATTT-AT
*
31280246 TTGAAATTTATT
1 TTTAAATTTA-T
31280258 TTTAAATTTA
1 TTTAAATTTA
31280268 AATTTATTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
11 19 0.51
12 18 0.49
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:31280231 original size:17 final size:17
Alignment explanation
Indices: 31280198--31280287 Score: 126
Period size: 17 Copynumber: 5.2 Consensus size: 17
31280188 TCATTTTTTT
31280198 AATTTATTTTAAGATTTA
1 AATTTATTTTAA-ATTTA
31280216 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
* * *
31280233 AATTTAATTTAAGTTGA
1 AATTTATTTTAAATTTA
31280250 AATTTATTTTTAAATTTA
1 AATTTA-TTTTAAATTTA
*
31280268 AATTTATTCTAAATTTA
1 AATTTATTTTAAATTTA
31280285 AAT
1 AAT
31280288 AAATAAAGTC
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
17 38 0.59
18 26 0.41
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:31280232 original size:6 final size:6
Alignment explanation
Indices: 31280205--31280287 Score: 75
Period size: 6 Copynumber: 14.2 Consensus size: 6
31280195 TTTAATTTAT
* * *
31280205 TTTAAGA TTTAAA TTT-AT TTTAAA TTTAAA TTT-AA TTTAAG TTGAAA
1 TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
**
31280252 TTTATT TTTAAA TTTAAA TTT--A TTCTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA T
31280288 AAATAAAGTC
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
4 3 0.05
5 10 0.16
6 40 0.66
7 8 0.13
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:31280237 original size:35 final size:36
Alignment explanation
Indices: 31280198--31280287 Score: 132
Period size: 35 Copynumber: 2.6 Consensus size: 36
31280188 TCATTTTTTT
31280198 AATTTATTTTAAGATTTAAATTTA-TTTTAAATTTA
1 AATTTATTTTAAGATTTAAATTTATTTTTAAATTTA
* *
31280233 AATTTAATTTAAG-TTGAAATTTATTTTTAAATTTA
1 AATTTATTTTAAGATTTAAATTTATTTTTAAATTTA
*
31280268 AATTTATTCTAA-ATTTAAAT
1 AATTTATTTTAAGATTTAAAT
31280288 AAATAAAGTC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
34 9 0.19
35 39 0.81
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (36 bp):
AATTTATTTTAAGATTTAAATTTATTTTTAAATTTA
Found at i:31281911 original size:30 final size:29
Alignment explanation
Indices: 31281863--31281953 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 29
31281853 CCCAAAAGGT
* * * *
31281863 CCCTAAACTGTCCAAAAATCATATTTTGA
1 CCCTAAACTTTTCTAAAATCACATTTTGA
**
31281892 CCTCTAAACTTTTCTAAAATTGCA-TTTGA
1 CC-CTAAACTTTTCTAAAATCACATTTTGA
*
31281921 CACCTAAATTTTTCTAAAATCACATTTTGA
1 C-CCTAAACTTTTCTAAAATCACATTTTGA
31281951 CCC
1 CCC
31281954 CTGAACTTCC
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
29 28 0.56
30 22 0.44
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.36
Consensus pattern (29 bp):
CCCTAAACTTTTCTAAAATCACATTTTGA
Found at i:31281974 original size:29 final size:29
Alignment explanation
Indices: 31281936--31282274 Score: 243
Period size: 29 Copynumber: 11.7 Consensus size: 29
31281926 AAATTTTTCT
* * *
31281936 AAAATCACATTTTGACCCCTGAACTTCCA
1 AAAATTACATTTTTACCCTTGAACTTCCA
* * *
31281965 AATATTACATTTTTACTCTTGAACTTTCA
1 AAAATTACATTTTTACCCTTGAACTTCCA
***
31281994 AAAATTACATTTTTACCCAAAAACTTCCA
1 AAAATTACATTTTTACCCTTGAACTTCCA
* *
31282023 AAAATTACATTTTTACTCTTGAACTTTCA
1 AAAATTACATTTTTACCCTTGAACTTCCA
* * * ** *
31282052 AAAATTACATTGTTGCCATAAAACTTTCA
1 AAAATTACATTTTTACCCTTGAACTTCCA
* * * * * *
31282081 AAAGTTACATTTTTGCTCTCGAGCTTTTC-
1 AAAATTACATTTTTACCCTTGAAC-TTCCA
* * * * *
31282110 AAAGTTATATTTTTGCCCTCGAACTTCTA
1 AAAATTACATTTTTACCCTTGAACTTCCA
* *
31282139 AAAATCT-TATTTTTACCCTCGAACTTCTCA
1 AAAAT-TACATTTTTACCCTTGAACTTC-CA
* *
31282169 AAAATTACATTTTTGCCCTCGAACTT-CA
1 AAAATTACATTTTTACCCTTGAACTTCCA
* * * *
31282197 AAAATCACATTTTTACTCTCGAACTTCCT
1 AAAATTACATTTTTACCCTTGAACTTCCA
* * * * *
31282226 AAAATGACATTTTTACCCCTAAATCTTTCT
1 AAAATTACATTTTTACCCTTGAA-CTTCCA
*
31282256 AAAATTACATTTTAACCCT
1 AAAATTACATTTTTACCCT
31282275 AAACTCTTCG
Statistics
Matches: 250, Mismatches: 53, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
28 27 0.11
29 174 0.70
30 49 0.20
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (29 bp):
AAAATTACATTTTTACCCTTGAACTTCCA
Found at i:31282004 original size:58 final size:57
Alignment explanation
Indices: 31281931--31282238 Score: 273
Period size: 58 Copynumber: 5.3 Consensus size: 57
31281921 CACCTAAATT
* * * * *
31281931 TTTCTAAAATCACATTTTGACCC-CTGAACTTCCAAATATTACATTTTTACTCTTGAAC
1 TTTCAAAAATTACATTTTG-CCCTC-AAACTTCCAAAAATTACATTTTTACTCTCGAAC
* ** *
31281989 TTTCAAAAATTACATTTTTACCCAAAAACTTCCAAAAATTACATTTTTACTCTTGAAC
1 TTTCAAAAATTACA-TTTTGCCCTCAAACTTCCAAAAATTACATTTTTACTCTCGAAC
* * * * * *
31282047 TTTCAAAAATTACATTGTTGCCATAAAACTTTCAAAAGTTACATTTTTGCTCTCGAGC
1 TTTCAAAAATTACATT-TTGCCCTCAAACTTCCAAAAATTACATTTTTACTCTCGAAC
* * * * * *
31282105 TTTTC-AAAGTTATATTTTTGCCCTCGAACTTCTAAAAATCT-TATTTTTACCCTCGAAC
1 -TTTCAAAAATTACA-TTTTGCCCTCAAACTTCCAAAAAT-TACATTTTTACTCTCGAAC
* *
31282163 TTCTCAAAAATTACATTTTTGCCCTCGAACTT-CAAAAATCACATTTTTACTCTCGAAC
1 TT-TCAAAAATTACA-TTTTGCCCTCAAACTTCCAAAAATTACATTTTTACTCTCGAAC
* * *
31282221 TTCCTAAAATGACATTTT
1 TTTCAAAAATTACATTTT
31282239 TACCCCTAAA
Statistics
Matches: 206, Mismatches: 35, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
56 4 0.02
57 13 0.06
58 154 0.75
59 35 0.17
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (57 bp):
TTTCAAAAATTACATTTTGCCCTCAAACTTCCAAAAATTACATTTTTACTCTCGAAC
Found at i:31282209 original size:87 final size:86
Alignment explanation
Indices: 31281956--31282268 Score: 285
Period size: 87 Copynumber: 3.6 Consensus size: 86
31281946 TTTGACCCCT
* * * * * ***
31281956 GAACTTCCAAATATTACATTTTTACTCTTGAACTTTCAAAAATTACATTTTTACCCAAAAACTTC
1 GAACTTCTAAAAATTACATTTTTACCCTAGAACTTTCAAAAATTACATTTTTGCCCTCGAACTT-
*
31282021 CAAAAATTACATTTTTACTCTT
65 CAAAAATTACATTTTTACTCTC
* * * * * * *
31282043 GAACTT-TCAAAAATTACATTGTTGCCATAAAACTTTCAAAAGTTACATTTTTGCTCTCGAGCTT
1 GAACTTCT-AAAAATTACATTTTTACCCTAGAACTTTCAAAAATTACATTTTTGCCCTCGAAC--
* * * *
31282107 TTC-AAAGTTATATTTTTGCCCTC
63 TTCAAAAATTACATTTTTACTCTC
* *
31282130 GAACTTCTAAAAATCT-TATTTTTACCCTCGAACTTCTCAAAAATTACATTTTTGCCCTCGAACT
1 GAACTTCTAAAAAT-TACATTTTTACCCTAGAACTT-TCAAAAATTACATTTTTGCCCTCGAACT
*
31282194 TCAAAAATCACATTTTTACTCTC
64 TCAAAAATTACATTTTTACTCTC
* *
31282217 GAACTTCCT-AAAATGACATTTTTACCCCTA-AATCTTTCTAAAATTACATTTT
1 GAACTT-CTAAAAATTACATTTTTA-CCCTAGAA-CTTTCAAAAATTACATTTT
31282269 AACCCTAAAC
Statistics
Matches: 177, Mismatches: 38, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
86 3 0.02
87 136 0.77
88 36 0.20
89 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (86 bp):
GAACTTCTAAAAATTACATTTTTACCCTAGAACTTTCAAAAATTACATTTTTGCCCTCGAACTTC
AAAAATTACATTTTTACTCTC
Found at i:31284287 original size:7 final size:7
Alignment explanation
Indices: 31284275--31284309 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
31284265 AAAAATGTAT
31284275 AATATTA
1 AATATTA
31284282 AATATTA
1 AATATTA
31284289 AATATTA
1 AATATTA
31284296 AATATTA
1 AATATTA
31284303 AATATTA
1 AATATTA
31284310 GTTTGATGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AATATTA
Found at i:31287827 original size:2 final size:2
Alignment explanation
Indices: 31287820--31287859 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
31287810 GAGTATAATA
*
31287820 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
31287860 GTTTTATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:31290260 original size:5 final size:5
Alignment explanation
Indices: 31290250--31290277 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
31290240 ATATTTAAAA
31290250 AAATT AAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAA
31290278 ATTTGACAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AAATT
Found at i:31295842 original size:17 final size:17
Alignment explanation
Indices: 31295813--31295860 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
31295803 TTCATTTTAA
31295813 AAAATATTT-AATATAT
1 AAAATATTTAAATATAT
31295829 AAAATATTTAAATATAT
1 AAAATATTTAAATATAT
* *
31295846 CAAATGAATTAAATA
1 AAAAT-ATTTAAATA
31295861 AAATAATCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.32
17 11 0.39
18 8 0.29
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
AAAATATTTAAATATAT
Found at i:31297260 original size:19 final size:19
Alignment explanation
Indices: 31297238--31297284 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
31297228 GAAACAGCAT
31297238 GCAGCAGGGACAACACACG
1 GCAGCAGGGACAACACACG
31297257 GCAGCAGGGACAACACACG
1 GCAGCAGGGACAACACACG
*
31297276 GCAGTAGGG
1 GCAGCAGGG
31297285 GCCAAGGCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.34, C:0.28, G:0.36, T:0.02
Consensus pattern (19 bp):
GCAGCAGGGACAACACACG
Found at i:31311483 original size:33 final size:33
Alignment explanation
Indices: 31311441--31311506 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
31311431 TACTATTATT
* *
31311441 ATGAGATATTATCTCCTAGCAATTTGATTCCTA
1 ATGAGATATTATCTCCTAACAAATTGATTCCTA
**
31311474 ATGAGATATTATCTTTTAACAAATTGATTCCTA
1 ATGAGATATTATCTCCTAACAAATTGATTCCTA
31311507 CGTAACTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (33 bp):
ATGAGATATTATCTCCTAACAAATTGATTCCTA
Found at i:31312453 original size:17 final size:17
Alignment explanation
Indices: 31312431--31312465 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
31312421 TACAACGTCA
31312431 ACTCTTATATGCTTTCT
1 ACTCTTATATGCTTTCT
31312448 ACTCTTATATGCTTTCT
1 ACTCTTATATGCTTTCT
31312465 A
1 A
31312466 AACATTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.06, T:0.51
Consensus pattern (17 bp):
ACTCTTATATGCTTTCT
Found at i:31314224 original size:6 final size:6
Alignment explanation
Indices: 31314207--31314237 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
31314197 ATCTGCAGGA
*
31314207 GCTGAT GTTGAT GCTGAT GCTGAT GCTGAT G
1 GCTGAT GCTGAT GCTGAT GCTGAT GCTGAT G
31314238 AGTGCCTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.13, G:0.35, T:0.35
Consensus pattern (6 bp):
GCTGAT
Found at i:31315239 original size:14 final size:15
Alignment explanation
Indices: 31315215--31315244 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
31315205 TTATCCGGTC
31315215 TAAATTAAATAAAAT
1 TAAATTAAATAAAAT
31315230 TAAA-TAAATAAAAT
1 TAAATTAAATAAAAT
31315244 T
1 T
31315245 TTATCAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAATTAAATAAAAT
Found at i:31315408 original size:37 final size:37
Alignment explanation
Indices: 31315358--31315634 Score: 242
Period size: 37 Copynumber: 7.2 Consensus size: 37
31315348 CAATGTCGCT
31315358 GCCATGTCAGCACGTATCACGTCAGAACCACGTCAAC
1 GCCATGTCAGCACGTATCACGTCAGAACCACGTCAAC
31315395 GCCATGTCAGCACGTATCACGTCAGAACCACGTCAAC
1 GCCATGTCAGCACGTATCACGTCAGAACCACGTCAAC
* * * * * **
31315432 GCCATGTCAGTCACGTGA-C-CTTTTAGCATCTGA-TTCTTC
1 GCCATGTCAG-CACGT-ATCAC-GTCAG-AAC-CACGTCAAC
* ** * * * *
31315471 GACTATCGATCTTTCGACTTAT-TC-TCAGCATATCCAATGTC-GC
1 G-CCAT-G-TC-AGC-ACGTATCACGTCAG-A-A-CC-ACGTCAAC
31315514 TGCCATGTCAGCACGTATCACGTCAGAACCACGTCAAC
1 -GCCATGTCAGCACGTATCACGTCAGAACCACGTCAAC
31315552 GCCATGTCAGCACGTATCACGTCAGAACCACGTCAAC
1 GCCATGTCAGCACGTATCACGTCAGAACCACGTCAAC
*
31315589 GCCATGTCAGCACGTATCACGTCAGAATCACGTCAAC
1 GCCATGTCAGCACGTATCACGTCAGAACCACGTCAAC
31315626 GCCATGTCA
1 GCCATGTCA
31315635 ATCACGTGAC
Statistics
Matches: 196, Mismatches: 24, Indels: 40
0.75 0.09 0.15
Matches are distributed among these distances:
37 134 0.68
38 12 0.06
39 13 0.07
40 7 0.04
41 12 0.06
42 5 0.03
43 10 0.05
44 3 0.02
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
GCCATGTCAGCACGTATCACGTCAGAACCACGTCAAC
Found at i:31321615 original size:51 final size:51
Alignment explanation
Indices: 31321531--31321711 Score: 263
Period size: 51 Copynumber: 3.5 Consensus size: 51
31321521 TAAACGAAAG
* *
31321531 GGTCCGATGACTAAGTGTCATCGTGAGCAAATGAATCCTTTATGGATTAAT
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCTTTTATGGATTAAT
* * *
31321582 GGTTCGATGACTGAGTGTCATCGTGAGTGAATGAATCTTTTATGGATTAAT
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCTTTTATGGATTAAT
* *
31321633 GGTCCGATGACTAAGTGTCATCATGAGTAAATGAATCTTTTATGGATTAAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCTTTTATGGATTAAT
** **
31321684 AATCTAATGACTAAGTGTCATCGTGAGT
1 GGTCCGATGACTAAGTGTCATCGTGAGT
31321712 TTATGGATTC
Statistics
Matches: 115, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 115 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.34
Consensus pattern (51 bp):
GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCTTTTATGGATTAAT
Found at i:31328110 original size:188 final size:188
Alignment explanation
Indices: 31327793--31328170 Score: 756
Period size: 188 Copynumber: 2.0 Consensus size: 188
31327783 GAAAGCAAGA
31327793 GAGTCTGGGTTTTGCGACTCAGTGATGAAGACAATCGCCTGCCTATAAATTGAGTTTTCTTTATG
1 GAGTCTGGGTTTTGCGACTCAGTGATGAAGACAATCGCCTGCCTATAAATTGAGTTTTCTTTATG
31327858 AAATGTCTTTTAACACCTTTTGGGAATACAAAAATCAGTTAACATTTAAAATTAAGCATATGCAC
66 AAATGTCTTTTAACACCTTTTGGGAATACAAAAATCAGTTAACATTTAAAATTAAGCATATGCAC
31327923 TTTTCAGTAATTTCACAATTTCTTGAAAAGTGAGAAGGATAGAGAACAAAATTGGTAG
131 TTTTCAGTAATTTCACAATTTCTTGAAAAGTGAGAAGGATAGAGAACAAAATTGGTAG
31327981 GAGTCTGGGTTTTGCGACTCAGTGATGAAGACAATCGCCTGCCTATAAATTGAGTTTTCTTTATG
1 GAGTCTGGGTTTTGCGACTCAGTGATGAAGACAATCGCCTGCCTATAAATTGAGTTTTCTTTATG
31328046 AAATGTCTTTTAACACCTTTTGGGAATACAAAAATCAGTTAACATTTAAAATTAAGCATATGCAC
66 AAATGTCTTTTAACACCTTTTGGGAATACAAAAATCAGTTAACATTTAAAATTAAGCATATGCAC
31328111 TTTTCAGTAATTTCACAATTTCTTGAAAAGTGAGAAGGATAGAGAACAAAATTGGTAG
131 TTTTCAGTAATTTCACAATTTCTTGAAAAGTGAGAAGGATAGAGAACAAAATTGGTAG
31328169 GA
1 GA
31328171 TTATCAAATG
Statistics
Matches: 190, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
188 190 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (188 bp):
GAGTCTGGGTTTTGCGACTCAGTGATGAAGACAATCGCCTGCCTATAAATTGAGTTTTCTTTATG
AAATGTCTTTTAACACCTTTTGGGAATACAAAAATCAGTTAACATTTAAAATTAAGCATATGCAC
TTTTCAGTAATTTCACAATTTCTTGAAAAGTGAGAAGGATAGAGAACAAAATTGGTAG
Found at i:31330293 original size:41 final size:41
Alignment explanation
Indices: 31330236--31330317 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
31330226 CAGATTTAGA
*
31330236 ATGATTTAGCTATCCGTTGTCACTTCATATGTTTACCTAGC
1 ATGATTTAGCTATCCGTTGTCACTTCATACGTTTACCTAGC
31330277 ATGATTTAGCTATCCGTTGTCACTTCATACGTTTACCTAGC
1 ATGATTTAGCTATCCGTTGTCACTTCATACGTTTACCTAGC
31330318 TATGGCCAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (41 bp):
ATGATTTAGCTATCCGTTGTCACTTCATACGTTTACCTAGC
Found at i:31335460 original size:13 final size:13
Alignment explanation
Indices: 31335442--31335489 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
31335432 TTTAAAATTA
31335442 TTAAAATTATTTT
1 TTAAAATTATTTT
31335455 TTAAAATATAATTTT
1 TTAAAAT-T-ATTTT
* **
31335470 TTTATTTTATTTT
1 TTAAAATTATTTT
31335483 TTAAAAT
1 TTAAAAT
31335490 ATAAAATTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 16 0.59
14 2 0.07
15 9 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTAAAATTATTTT
Found at i:31335505 original size:29 final size:29
Alignment explanation
Indices: 31335434--31335512 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 29
31335424 CAAATGATTT
**
31335434 TAAAATTATTAAAATTATTTTTTAAAATA
1 TAAAATTATTAATTTTATTTTTTAAAATA
* * *
31335463 T-AATTTTTTTATTTTATTTTTTAAAATA
1 TAAAATTATTAATTTTATTTTTTAAAATA
*
31335491 TAAAATTATTAATTTTAATTTT
1 TAAAATTATTAATTTTATTTTT
31335513 CAATTTCATC
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
28 23 0.57
29 17 0.43
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (29 bp):
TAAAATTATTAATTTTATTTTTTAAAATA
Found at i:31336311 original size:20 final size:20
Alignment explanation
Indices: 31336288--31336383 Score: 73
Period size: 20 Copynumber: 4.9 Consensus size: 20
31336278 GATAATGATT
31336288 ATAATTTTAAAATAATTTTA
1 ATAATTTTAAAATAATTTTA
31336308 ATAATTTT---AT-ATTTTAAAAA
1 ATAATTTTAAAATAATTTT----A
31336328 ATAATTTT--AATAATTTT-
1 ATAATTTTAAAATAATTTTA
31336345 AT-ATTTTAAAAAATAATTTTA
1 ATAATTTT--AAAATAATTTTA
*
31336366 ATAATTTTAAAATCATTT
1 ATAATTTTAAAATAATTT
31336384 GTTGACGTGG
Statistics
Matches: 63, Mismatches: 1, Indels: 24
0.72 0.01 0.27
Matches are distributed among these distances:
16 10 0.16
17 4 0.06
20 35 0.56
21 4 0.06
22 10 0.16
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (20 bp):
ATAATTTTAAAATAATTTTA
Found at i:31336311 original size:29 final size:28
Alignment explanation
Indices: 31336286--31336374 Score: 144
Period size: 29 Copynumber: 3.1 Consensus size: 28
31336276 AGGATAATGA
31336286 TTATAATTTT-AAAATAATTTTAATAATT
1 TTAT-ATTTTAAAAATAATTTTAATAATT
31336314 TTATATTTTAAAAAATAATTTTAATAATT
1 TTATATTTT-AAAAATAATTTTAATAATT
31336343 TTATATTTTAAAAAATAATTTTAATAATT
1 TTATATTTT-AAAAATAATTTTAATAATT
31336372 TTA
1 TTA
31336375 AAATCATTTG
Statistics
Matches: 59, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
27 5 0.08
28 4 0.07
29 50 0.85
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TTATATTTTAAAAATAATTTTAATAATT
Found at i:31339342 original size:16 final size:15
Alignment explanation
Indices: 31339319--31339351 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
31339309 TTAATAATGT
31339319 TTTATAT-TTTTTAA
1 TTTATATATTTTTAA
31339333 TTTATATATTTTTAA
1 TTTATATATTTTTAA
31339348 TTTA
1 TTTA
31339352 AAAAACTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTATATATTTTTAA
Found at i:31345206 original size:20 final size:18
Alignment explanation
Indices: 31345181--31345219 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
31345171 TCTCAAGCTC
31345181 CTTCTTTAAATTATCTATTT
1 CTTCTTTAAA-TATCT-TTT
*
31345201 CTTCTTTCAATATCTTTT
1 CTTCTTTAAATATCTTTT
31345219 C
1 C
31345220 CTCCTCTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
20 9 0.50
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (18 bp):
CTTCTTTAAATATCTTTT
Found at i:31359726 original size:39 final size:42
Alignment explanation
Indices: 31359625--31359744 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 42
31359615 AAGACTTAGT
*
31359625 TTTCTCGATTGCAATTTTATTTCAGTTCATTTCTTTCCGTAGG
1 TTTCTCAATTGCAATTTTATTTCAGTT-ATTTCTTTCCGTAGG
** **
31359668 TTTCTCAATTGTGATTTTATTTCAGTT-TTTCATTT-TTTAGG
1 TTTCTCAATTGCAATTTTATTTCAGTTATTTC-TTTCCGTAGG
31359709 -TT-TCAATTGCAATTTTATTTCAGTTGATTTCTTTCC
1 TTTCTCAATTGCAATTTTATTTCAGTT-ATTTCTTTCC
31359745 TTTCTAGAAC
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
39 21 0.32
40 5 0.08
41 12 0.18
42 3 0.05
43 24 0.37
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.56
Consensus pattern (42 bp):
TTTCTCAATTGCAATTTTATTTCAGTTATTTCTTTCCGTAGG
Found at i:31365471 original size:19 final size:19
Alignment explanation
Indices: 31365435--31365472 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
31365425 AAAAACTTTC
*
31365435 AAGATTTTTCATTTCATTA
1 AAGATTTTTCATTGCATTA
31365454 AAGATTTTAT-ATTGCATTA
1 AAGATTTT-TCATTGCATTA
31365473 TTTTCTCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (19 bp):
AAGATTTTTCATTGCATTA
Found at i:31365799 original size:60 final size:60
Alignment explanation
Indices: 31365705--31365831 Score: 150
Period size: 60 Copynumber: 2.1 Consensus size: 60
31365695 TCTTTTTTTG
* *
31365705 AATTTTTAGAACTAGAACAAAACTGAAAAATTTTATAAATGTTG-AGGATTAAATTTATTA
1 AATTTTTAGAACTAGAACAAAACTGAAAAATTTTAAAAATATTGAAGG-TTAAATTTATTA
* * * * * *
31365765 AATTTTTAGAATTTGAACTAAAA-TGACAAATTTTAAAAATATTGAATGTTAAATTTGTTG
1 AATTTTTAGAACTAGAAC-AAAACTGAAAAATTTTAAAAATATTGAAGGTTAAATTTATTA
31365825 AATTTTT
1 AATTTTT
31365832 TAGATTTAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
60 51 0.89
61 6 0.11
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.41
Consensus pattern (60 bp):
AATTTTTAGAACTAGAACAAAACTGAAAAATTTTAAAAATATTGAAGGTTAAATTTATTA
Found at i:31368844 original size:27 final size:27
Alignment explanation
Indices: 31368803--31368854 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
31368793 ACCTTTGGAT
* *
31368803 ACTCGGGGGGTAAAATGGTAATTTTGA
1 ACTCGCGGGGCAAAATGGTAATTTTGA
31368830 ACTCGCGGGGCAAAATGGTAATTTT
1 ACTCGCGGGGCAAAATGGTAATTTT
31368855 CGGTGAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.29
Consensus pattern (27 bp):
ACTCGCGGGGCAAAATGGTAATTTTGA
Found at i:31368883 original size:30 final size:30
Alignment explanation
Indices: 31368841--31368944 Score: 99
Period size: 31 Copynumber: 3.5 Consensus size: 30
31368831 CTCGCGGGGC
*
31368841 AAAATGGTAATTTTCGGTGAAATTAGGGTCA
1 AAAATGGTAATTTT-GGTGAAATTGGGGTCA
*
31368872 AAAATGG-AATTTT-G-GAAAGTTTGGGGGCA
1 AAAATGGTAATTTTGGTGAAA--TTGGGGTCA
* *
31368901 AAAATGGTAATTTTTGGTGAAATCGGGGTTA
1 AAAATGGTAA-TTTTGGTGAAATTGGGGTCA
*
31368932 AAAATAG-AATTTT
1 AAAATGGTAATTTT
31368945 AGAAAGTTCG
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
27 4 0.07
28 1 0.02
29 18 0.30
30 10 0.16
31 23 0.38
32 1 0.02
33 4 0.07
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.33
Consensus pattern (30 bp):
AAAATGGTAATTTTGGTGAAATTGGGGTCA
Found at i:31368909 original size:60 final size:59
Alignment explanation
Indices: 31368836--31368969 Score: 171
Period size: 60 Copynumber: 2.3 Consensus size: 59
31368826 TTGAACTCGC
* * *
31368836 GGGGCAAAATGGTAATTTTCGGTGAAATTAGGGTCAAAAATGGAATTTTGGAAAGTTTG
1 GGGGCAAAATGGTAATTTTCGGTGAAATCAGGGTCAAAAATAGAATTTTAGAAAGTTTG
* * * *
31368895 GGGGCAAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAGAAAGTTCG
1 GGGGC-AAAATGGTAATTTTCGGTGAAATCAGGGTCAAAAATAGAATTTTAGAAAGTTTG
* *
31368955 GTGGTAAAAT-GTAAT
1 GGGGCAAAATGGTAAT
31368970 CTTGGACAGT
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
58 5 0.08
59 10 0.15
60 50 0.77
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.31
Consensus pattern (59 bp):
GGGGCAAAATGGTAATTTTCGGTGAAATCAGGGTCAAAAATAGAATTTTAGAAAGTTTG
Found at i:31370803 original size:17 final size:17
Alignment explanation
Indices: 31370783--31370833 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
31370773 TAATTTTGAT
* *
31370783 TAAACTTAAATTTAAAG
1 TAAATTTAAATTTAAAA
31370800 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
31370817 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
31370834 CCCATTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:31370809 original size:6 final size:6
Alignment explanation
Indices: 31370782--31370832 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
31370772 TTAATTTTGA
* * *
31370782 TTAAAC TTAAAT TTAAA- GTAAAT TTAAAT TTAAA- ATAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
31370828 TTAAA
1 TTAAA
31370833 ACCCATTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
5 8 0.21
6 30 0.79
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (6 bp):
TTAAAT
Found at i:31371203 original size:38 final size:37
Alignment explanation
Indices: 31371111--31371464 Score: 219
Period size: 38 Copynumber: 9.7 Consensus size: 37
31371101 TCGAGGCTTC
31371111 ATCTTGCTCTTACTTCAATTTCAGAGAGAT---AAA-G
1 ATCTTGCTCTTACTTCAATTTCAGAG-GATAGGAAATG
**
31371145 A-CTTGCTATCCAACTTCAATTTCAAGAGGATAGGAAATG
1 ATCTTGC--TCTTACTTCAATTTC-AGAGGATAGGAAATG
* **
31371184 ATCTTGCTCTTACTTCAATTTCAGA-GATAAAGACTTG
1 ATCTTGCTCTTACTTCAATTTCAGAGGAT-AGGAAATG
**
31371221 ATATCCAGCT-TTACTTCAATTTCAAGAGGATAGGAAATG
1 --ATCTTGCTCTTACTTCAATTTC-AGAGGATAGGAAATG
31371260 ATCTTGCTCTTACTTCAATTTCAGA-GAT---AAA-G
1 ATCTTGCTCTTACTTCAATTTCAGAGGATAGGAAATG
*
31371292 AT-TTG---ATA-TTCAATTTCAAGAGGATAGGAAATG
1 ATCTTGCTCTTACTTCAATTTC-AGAGGATAGGAAATG
* * **
31371325 ATCTTGCTCTTACTTCAATTACAGA-GATAAAGATTTG
1 ATCTTGCTCTTACTTCAATTTCAGAGGAT-AGGAAATG
** * **
31371362 ATATCCAGCT-TTACTTCAATTTCAGA-GATAAAGACTTG
1 --ATCTTGCTCTTACTTCAATTTCAGAGGAT-AGGAAATG
*** *
31371400 TTATCCAACT-TTACTTCAATTTCAAGAGGATAGGAAAAG
1 --ATCTTGCTCTTACTTCAATTTC-AGAGGATAGGAAATG
*
31371439 ATTTTGCTCTTACTTCAATTTCAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAG
31371465 ATAAAAACTT
Statistics
Matches: 255, Mismatches: 34, Indels: 59
0.73 0.10 0.17
Matches are distributed among these distances:
27 9 0.04
28 5 0.02
29 3 0.01
31 3 0.01
32 6 0.02
33 11 0.04
34 4 0.02
35 16 0.06
36 13 0.05
37 35 0.14
38 110 0.43
39 29 0.11
40 11 0.04
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (37 bp):
ATCTTGCTCTTACTTCAATTTCAGAGGATAGGAAATG
Found at i:31371259 original size:76 final size:76
Alignment explanation
Indices: 31371111--31371792 Score: 491
Period size: 76 Copynumber: 9.0 Consensus size: 76
31371101 TCGAGGCTTC
*
31371111 ATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCA-----ACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTC--AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAG
31371171 AGGATAGGAAATG
64 AGGATAGGAAATG
31371184 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
31371249 GATAGGAAATG
66 GATAGGAAATG
*
31371260 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGA--T--T-T---G--ATA-TTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
31371314 GATAGGAAATG
66 GATAGGAAATG
* *
31371325 ATCTTGCTCTTACTTCAATTACAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTC-AGA-
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
* **
31371388 GATAAAGACTTG
66 GAT-AGGAAATG
*** * *** **
31371400 TTATCCAACT-TTACTTCAATTTCAAGAGGAT-AGGAAAAGAT-T-TTGCTCTTACTTCAATTTC
1 --ATCTTGCTCTTACTTCAATTTC-AGA-GATAAAGACTTGATATCCAGCT-TTACTTCAATTTC
*
31371461 -AGA-GATA-AAAACTTG
61 AAGAGGATAGGAAA--TG
*** * * *
31371476 TTATCCAACTC-TACTTCAA-TTCAAGAGGATAGGAAAATGATGTTGGTCCTTCTTCTTA-CTCT
1 --ATCTTGCTCTTACTTCAATTTC-AGA-GAT----AAA-GA-CTTGAT--ATC--C--AGCT-T
* **
31371538 TACTTCAATTTC-AGA-GATAAAGACTTG
49 TACTTCAATTTCAAGAGGAT-AGGAAATG
***
31371565 TTATCCAACTC-TACTTCAATTTCGAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAA
1 --ATCTTGCTCTTACTTCAATTTC-AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAA
*
31371629 GAGGATAGGAAATA
63 GAGGATAGGAAATG
*
31371643 ATCTTGCTCTTACATCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
*
31371708 GATAGGAAAAG
66 GATAGGAAATG
* * * * *
31371719 ATTTTGCTCTTACTTCAATTTTAGAGATAAAAACTTGTTA-CC--C--AACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
31371779 GATAGGAAAATG
66 GATAGG-AAATG
31371791 AT
1 AT
31371793 GTTGGTCCTT
Statistics
Matches: 510, Mismatches: 51, Indels: 97
0.78 0.08 0.15
Matches are distributed among these distances:
65 57 0.11
66 2 0.00
67 1 0.00
68 1 0.00
69 1 0.00
70 1 0.00
71 44 0.09
72 7 0.01
73 24 0.05
74 5 0.01
75 27 0.05
76 214 0.42
77 39 0.08
78 12 0.02
79 4 0.01
80 1 0.00
81 4 0.01
82 2 0.00
83 4 0.01
84 2 0.00
85 4 0.01
89 46 0.09
90 7 0.01
91 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (76 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
GATAGGAAATG
Found at i:31371277 original size:32 final size:32
Alignment explanation
Indices: 31371241--31371342 Score: 82
Period size: 32 Copynumber: 3.2 Consensus size: 32
31371231 TTACTTCAAT
31371241 TTCAAGAGGATAGGAAATGATCTTGCTCTTAC
1 TTCAAGAGGATAGGAAATGATCTTGCTCTTAC
**** * * * * *
31371273 TTCAATTTCAGA-GATAAAGAT-TTGATATTCAAT
1 TTCAAGAGGATAGGA-AATGATCTTGCTCTT--AC
31371306 TTCAAGAGGATAGGAAATGATCTTGCTCTTAC
1 TTCAAGAGGATAGGAAATGATCTTGCTCTTAC
31371338 TTCAA
1 TTCAA
31371343 TTACAGAGAT
Statistics
Matches: 47, Mismatches: 18, Indels: 10
0.63 0.24 0.13
Matches are distributed among these distances:
31 8 0.17
32 18 0.38
33 13 0.28
34 8 0.17
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (32 bp):
TTCAAGAGGATAGGAAATGATCTTGCTCTTAC
Found at i:31371328 original size:141 final size:145
Alignment explanation
Indices: 31371111--31371792 Score: 491
Period size: 141 Copynumber: 4.5 Consensus size: 145
31371101 TCGAGGCTTC
31371111 ATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTCAATTTCAAGAGGAT
1 ATCTTGCTCTTACTTCAATTTCA-AGAGATAAAGACTTGC-AT-C-ACTTCAATTTCAAGAGGAT
*
31371176 AGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAAT
62 AGGAAATGATCTTGCTCTTACTTCAATTACAGAGATAAAGACTTGATATCCAGCTTTACTTCAAT
31371241 TTCAAGAGGATAGGAAATG
127 TTCAAGAGGATAGGAAATG
*
31371260 ATCTTGCTCTTACTTCAATTTC-AGAGATAAAGATTTG-AT-A-TTCAATTTCAAGAGGATAGGA
1 ATCTTGCTCTTACTTCAATTTCAAGAGATAAAGACTTGCATCACTTCAATTTCAAGAGGATAGGA
*
31371321 AATGATCTTGCTCTTACTTCAATTACAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTC-
66 AATGATCTTGCTCTTACTTCAATTACAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCA
* **
31371385 AGA-GATAAAGACTTG
131 AGAGGAT-AGGAAATG
*** *
31371400 TTATCCAACT-TTACTTCAATTTCAAGAGGATAGGAAAAGATTTTGC-TCTTACTTCAATTTC-A
1 --ATCTTGCTCTTACTTCAATTTCAAGA-GAT----AAAGA-CTTGCATC--ACTTCAATTTCAA
* *** * *
31371462 GA-GATA-AAAACTTGTTATCCAACTC-TACTTCAATT-CAAGAGGATAGGAAAATGATGTTGGT
56 GAGGATAGGAAA--TG--ATCTTGCTCTTACTTCAATTAC-AGA-GAT----AAA-GA-CTTGAT
* * **
31371523 CCTTCTTCTTA-CTCTTACTTCAATTTC-AGA-GATAAAGACTTG
109 --ATC--C--AGCT-TTACTTCAATTTCAAGAGGAT-AGGAAATG
*** * *
31371565 TTATCCAACTC-TACTTCAATTTCGAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAA
1 --ATCTTGCTCTTACTTCAATTTCAAGAGATAAAGACTTG-----CA---TCACTTCAATTTCAA
* * *
31371629 GAGGATAGGAAATAATCTTGCTCTTACATCAATTTCAGAGATAAAGACTTGATATCCAGCTTTAC
56 GAGGATAGGAAATGATCTTGCTCTTACTTCAATTACAGAGATAAAGACTTGATATCCAGCTTTAC
*
31371694 TTCAATTTCAAGAGGATAGGAAAAG
121 TTCAATTTCAAGAGGATAGGAAATG
* * * * *
31371719 ATTTTGCTCTTACTTCAATTT-TAGAGATAAAAACTTGTTACCCAACTTCAATTTCAAGAGGATA
1 ATCTTGCTCTTACTTCAATTTCAAGAGATAAAGACTTG-CA-TC-ACTTCAATTTCAAGAGGATA
31371783 GGAAAATGAT
63 GG-AAATGAT
31371793 GTTGGTCCTT
Statistics
Matches: 434, Mismatches: 44, Indels: 111
0.74 0.07 0.19
Matches are distributed among these distances:
139 3 0.01
140 8 0.02
141 96 0.22
142 9 0.02
143 3 0.01
145 2 0.00
147 41 0.09
148 12 0.03
149 25 0.06
150 4 0.01
151 7 0.02
152 41 0.09
153 34 0.08
154 9 0.02
155 4 0.01
157 5 0.01
158 2 0.00
159 11 0.03
160 7 0.02
161 5 0.01
163 1 0.00
164 6 0.01
165 63 0.15
166 23 0.05
167 5 0.01
168 5 0.01
169 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (145 bp):
ATCTTGCTCTTACTTCAATTTCAAGAGATAAAGACTTGCATCACTTCAATTTCAAGAGGATAGGA
AATGATCTTGCTCTTACTTCAATTACAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCA
AGAGGATAGGAAATG
Found at i:31371339 original size:65 final size:65
Alignment explanation
Indices: 31371235--31371365 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
31371225 CCAGCTTTAC
*
31371235 TTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATA
1 TTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTACAGAGATAAAGATTTGATA
31371300 TTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTACAGAGATAAAGATTTGATA
1 TTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTACAGAGATAAAGATTTGATA
31371365 T
1 T
31371366 CCAGCTTTAC
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (65 bp):
TTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTACAGAGATAAAGATTTGATA
Found at i:31371457 original size:179 final size:180
Alignment explanation
Indices: 31371193--31371683 Score: 601
Period size: 179 Copynumber: 2.6 Consensus size: 180
31371183 GATCTTGCTC
31371193 TTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
1 TTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
*
31371258 TGATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATTCAATTTCAAGAGGATAGG-AA
66 AGATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATTCAA-TTCAAGAGGATAGGAAA
* * *
31371322 ATGA-TCTTGCTCTTACTTCAATTACAGAGATAAAGATTTGATATCCAGCT
130 ATGATTCTTACTCTTACTTCAATTACAGAGATAAAGACTTGATATCCAACT
* *
31371372 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAA
1 TTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
* * *
31371437 AGATTTTGCTCTTACTTCAATTTCAGAGATAAAAACTTGTTATCCAACTCTACTTCAATTCAAGA
66 AGATCTTGCTCTTACTTCAATTTCAGAGATAAAGA----TT-T--GA---TA-TTCAATTCAAGA
* *
31371502 GGATAGGAAAATGATGTTGGTCCTTCTTCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTT
120 GGATAGGAAAATGA------------TTCTTACTCTTACTTCAATTACAGAGATAAAGACTTGAT
31371567 ATCCAACT
173 ATCCAACT
*
31371575 CTACTTCAATTTCGAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAA
1 TTACTTCAATTTC-AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAA
* *
31371640 ATA-ATCTTGCTCTTACATCAATTTCAGAGATAAAGACTTGATAT
65 A-AGATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATAT
31371684 CCAGCTTTAC
Statistics
Matches: 266, Mismatches: 19, Indels: 40
0.82 0.06 0.12
Matches are distributed among these distances:
179 95 0.36
183 2 0.01
184 1 0.00
186 1 0.00
189 16 0.06
190 11 0.04
193 1 0.00
194 2 0.01
197 1 0.00
199 1 0.00
200 1 0.00
203 53 0.20
204 80 0.30
205 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Consensus pattern (180 bp):
TTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
AGATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATTCAATTCAAGAGGATAGGAAAA
TGATTCTTACTCTTACTTCAATTACAGAGATAAAGACTTGATATCCAACT
Found at i:31371491 original size:38 final size:38
Alignment explanation
Indices: 31371335--31371765 Score: 197
Period size: 38 Copynumber: 11.0 Consensus size: 38
31371325 ATCTTGCTCT
* * * * * *
31371335 TACTTCAATTACAGAGATAAAGATTTGATATCCAGCTT
1 TACTTCAATTTCAGAGATAAAAACTTGTTATCCAACTC
* *
31371373 TACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTT
1 TACTTCAATTTCAGAGATAAAAACTTGTTATCCAACTC
** * *
31371411 TACTTCAATTTCAAGAGGATAGGAAAAGAT-TT-TGC-TCT-
1 TACTTCAATTTC-AGA-GATA--AAAACTTGTTATCCAACTC
31371449 TACTTCAATTTCAGAGATAAAAACTTGTTATCCAACTC
1 TACTTCAATTTCAGAGATAAAAACTTGTTATCCAACTC
* *
31371487 TACTTCAA-TTCAAGAGGATAGGAAAA-TGATGTTGGTCCTTCTTCTTACTC
1 TACTTCAATTTC-AGA-GATA--AAAACT--TG-T--T--ATC--C-AACTC
*
31371537 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTC
1 -TACTTCAATTTCAGAGATAAAAACTTGTTATCCAACTC
* * * *
31371576 TACTTCAATTTCGAGAGATAAAGACTTGATATCCAGCTT
1 TACTTCAATTTC-AGAGATAAAAACTTGTTATCCAACTC
* * ***
31371615 TACTTCAATTTCAAGAGGATAGGAAA----TAATCTTGCTC
1 TACTTCAATTTC-AGA-GATA-AAAACTTGTTATCCAACTC
* * * * *
31371652 TTACATCAATTTCAGAGATAAAGACTTGATATCCAGCTT
1 -TACTTCAATTTCAGAGATAAAAACTTGTTATCCAACTC
** * *
31371691 TACTTCAATTTCAAGAGGATAGGAAAAGAT-TT-TGC-TCT-
1 TACTTCAATTTC-AGA-GATA--AAAACTTGTTATCCAACTC
* *
31371729 TACTTCAATTTTAGAGATAAAAACTTGTTACCCAACT
1 TACTTCAATTTCAGAGATAAAAACTTGTTATCCAACT
31371766 TCAATTTCAA
Statistics
Matches: 303, Mismatches: 50, Indels: 81
0.70 0.12 0.19
Matches are distributed among these distances:
34 10 0.03
35 6 0.02
36 15 0.05
37 22 0.07
38 114 0.38
39 62 0.20
40 18 0.06
41 9 0.03
42 12 0.04
43 1 0.00
44 1 0.00
45 1 0.00
46 1 0.00
47 4 0.01
48 3 0.01
49 2 0.01
50 8 0.03
51 11 0.04
52 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (38 bp):
TACTTCAATTTCAGAGATAAAAACTTGTTATCCAACTC
Found at i:31371593 original size:39 final size:38
Alignment explanation
Indices: 31371533--31371703 Score: 168
Period size: 39 Copynumber: 4.4 Consensus size: 38
31371523 CCTTCTTCTT
*
31371533 ACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCA
1 ACTC-TACTTCAATTTCAGAGATAAAGACTTGATATCCA
31371572 ACTCTACTTCAATTTCGAGAGATAAAGACTTGATATCCA
1 ACTCTACTTCAATTTC-AGAGATAAAGACTTGATATCCA
* * * ** **
31371611 GCTTTACTTCAATTTCAAGAGGAT-AGGAAAT-A-ATCTT
1 ACTCTACTTCAATTTC-AGA-GATAAAGACTTGATATCCA
* *
31371648 GCTCTTACATCAATTTCAGAGATAAAGACTTGATATCCA
1 ACTC-TACTTCAATTTCAGAGATAAAGACTTGATATCCA
* *
31371687 GCTTTACTTCAATTTCA
1 ACTCTACTTCAATTTCA
31371704 AGAGGATAGG
Statistics
Matches: 108, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
36 3 0.03
37 13 0.12
38 37 0.34
39 52 0.48
40 3 0.03
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (38 bp):
ACTCTACTTCAATTTCAGAGATAAAGACTTGATATCCA
Found at i:31371697 original size:204 final size:204
Alignment explanation
Indices: 31371326--31371717 Score: 626
Period size: 204 Copynumber: 1.9 Consensus size: 204
31371316 TAGGAAATGA
* * * *
31371326 TCTTGCTCTTACTTCAATTACAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTCAGAGAT
1 TCTTACTCTTACTTCAATTACAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAGAGAT
* * *
31371391 AAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAAAGATTTTGCTCTTACTTCA
66 AAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACATCA
*
31371456 ATTTCAGAGATAAAAACTTGTTATCCAACTCTACTTCAA-TTCAAGAGGATAGGAAAATGATGTT
131 ATTTCAGAGATAAAAACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAATGATGTT
31371520 GGTCCTTCT
196 GGTCCTTCT
* *
31371529 TCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCGAGAGA
1 TCTTACTCTTACTTCAATTACAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTC-AGAGA
*
31371594 TAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATA-ATCTTGCTCTTACAT
65 TAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAA-AGATCTTGCTCTTACAT
* * *
31371658 CAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAA
129 CAATTTCAGAGATAAAAACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAA
31371718 GATTTTGCTC
Statistics
Matches: 172, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
203 53 0.31
204 100 0.58
205 19 0.11
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (204 bp):
TCTTACTCTTACTTCAATTACAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAGAGAT
AAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACATCA
ATTTCAGAGATAAAAACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAATGATGTT
GGTCCTTCT
Found at i:31382569 original size:30 final size:29
Alignment explanation
Indices: 31382542--31382646 Score: 99
Period size: 29 Copynumber: 3.6 Consensus size: 29
31382532 ATTGGGGTCA
31382542 AAAATGG-AATTTTGGATAGTTCGGGGGT
1 AAAATGGTAATTTTGGATAGTTCGGGGGT
** ** *
31382570 AAAATGGTAATTTTTGG-TGAAATCAAGGTT
1 AAAATGGTAA-TTTTGGAT-AGTTCGGGGGT
*
31382600 AAAAATGG-AATTTTGGAAAGTTCGGGGGT
1 -AAAATGGTAATTTTGGATAGTTCGGGGGT
31382629 AAAATGGTAATTCTTGGA
1 AAAATGGTAATT-TTGGA
31382647 CAGTCCAGGG
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
28 14 0.24
29 19 0.32
30 19 0.32
31 7 0.12
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.32
Consensus pattern (29 bp):
AAAATGGTAATTTTGGATAGTTCGGGGGT
Found at i:31382575 original size:59 final size:59
Alignment explanation
Indices: 31382511--31382640 Score: 206
Period size: 59 Copynumber: 2.2 Consensus size: 59
31382501 TCACGAGGGC
*** *
31382511 AAAATGGTAATTTTCGGTGAAATTGGGGTCAAAAATGGAATTTTGGATAGTTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCAAGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGT
* *
31382570 AAAATGGTAATTTTTGGTGAAATCAAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCAAGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGT
31382629 AAAATGGTAATT
1 AAAATGGTAATT
31382641 CTTGGACAGT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 65 1.00
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (59 bp):
AAAATGGTAATTTTCGGTGAAATCAAGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGT
Found at i:31382631 original size:29 final size:29
Alignment explanation
Indices: 31382479--31382646 Score: 102
Period size: 28 Copynumber: 5.7 Consensus size: 29
31382469 GATACTTGGA
* * *
31382479 GGGTAAAATGGTAATTTT-G-AACTCACGA
1 GGGTAAAATGGTAATTTTGGAAAGT-TCGG
*
31382507 GGGCAAAATGGTAATTTTCGGTGAAA-TT--G
1 GGGTAAAATGGTAATTTT--G-GAAAGTTCGG
*
31382536 GGGTCAAAAATGG-AATTTTGGATAGTTCGG
1 GGGT--AAAATGGTAATTTTGGAAAGTTCGG
**
31382566 GGGTAAAATGGTAATTTTTGGTGAAA--TCAA
1 GGGTAAAATGGTAA-TTTT-G-GAAAGTTCGG
*
31382596 GGTTAAAAATGG-AATTTTGGAAAGTTCGG
1 GGGT-AAAATGGTAATTTTGGAAAGTTCGG
31382625 GGGTAAAATGGTAATTCTTGGA
1 GGGTAAAATGGTAATT-TTGGA
31382647 CAGTCCAGGG
Statistics
Matches: 109, Mismatches: 12, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
27 7 0.06
28 35 0.32
29 18 0.17
30 27 0.25
31 15 0.14
32 5 0.05
33 2 0.02
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.31
Consensus pattern (29 bp):
GGGTAAAATGGTAATTTTGGAAAGTTCGG
Found at i:31384273 original size:6 final size:6
Alignment explanation
Indices: 31384258--31384316 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
31384248 TTAAATTTGA
* * *
31384258 TTAAAC TTAAAT TTAAA- GTAAAT TTAAAT AAGTAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAAAT
*
31384306 ATAAAT TTAAA
1 TTAAAT TTAAA
31384317 ACCATTCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
5 8 0.19
6 29 0.69
8 5 0.12
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (6 bp):
TTAAAT
Found at i:31384292 original size:14 final size:14
Alignment explanation
Indices: 31384273--31384300 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31384263 CTTAAATTTA
31384273 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
31384287 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
31384301 TTAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AAGTAAATTTAAAT
Found at i:31384504 original size:3 final size:3
Alignment explanation
Indices: 31384496--31384535 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
31384486 CTCTAACAAT
*
31384496 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
31384536 TTACTAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:31385829 original size:22 final size:24
Alignment explanation
Indices: 31385801--31385845 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
31385791 CAAATATGGT
*
31385801 TTTAATAT-CATTT-GGTCCTTGG
1 TTTAATATCCATTTAAGTCCTTGG
31385823 TTTAATATCCATTTAAGTCCTTG
1 TTTAATATCCATTTAAGTCCTTG
31385846 CTCAATTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 5 0.25
24 7 0.35
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (24 bp):
TTTAATATCCATTTAAGTCCTTGG
Found at i:31389746 original size:6 final size:6
Alignment explanation
Indices: 31389728--31389802 Score: 77
Period size: 6 Copynumber: 13.2 Consensus size: 6
31389718 TTAAATTGAT
* *
31389728 TTTAAA TTT--A TTTAAA TTTAAA TTT-AC TTTAAA TTTAAA TTT-AC
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
31389772 TTTAAA TTTAAA TTAAAA TTAAAA TTAAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
31389803 ACTAAACATT
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
4 4 0.07
5 8 0.13
6 48 0.80
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:31389758 original size:11 final size:11
Alignment explanation
Indices: 31389718--31389793 Score: 66
Period size: 11 Copynumber: 6.9 Consensus size: 11
31389708 TAATTTGGAG
* *
31389718 TTAAATTGATT
1 TTAAATTTAAT
31389729 TTAAATTT-AT
1 TTAAATTTAAT
31389739 TTAAATTTAAAT
1 TTAAATTT-AAT
*
31389751 TT-ACTTTAAAT
1 TTAAATTT-AAT
*
31389762 TTAAATTTACT
1 TTAAATTTAAT
*
31389773 TTAAATTTAAA
1 TTAAATTTAAT
*
31389784 TTAAAATTAA
1 TTAAATTTAA
31389794 AATTAAAATA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
10 9 0.17
11 37 0.69
12 8 0.15
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:31389794 original size:11 final size:12
Alignment explanation
Indices: 31389775--31389823 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
31389765 AATTTACTTT
*
31389775 AAATTTAAATTA
1 AAATTAAAATTA
31389787 AAATTAAAATTA
1 AAATTAAAATTA
31389799 AAATACTAAACATTAA
1 AAAT--TAAA-ATT-A
31389815 AAATTAAAA
1 AAATTAAAA
31389824 GTCCAATGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
12 15 0.47
13 1 0.03
14 8 0.25
15 3 0.09
16 5 0.16
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATTAAAATTA
Found at i:31389794 original size:17 final size:17
Alignment explanation
Indices: 31389728--31389785 Score: 109
Period size: 17 Copynumber: 3.5 Consensus size: 17
31389718 TTAAATTGAT
31389728 TTTAAATTTA-TTTAAA
1 TTTAAATTTACTTTAAA
31389744 TTTAAATTTACTTTAAA
1 TTTAAATTTACTTTAAA
31389761 TTTAAATTTACTTTAAA
1 TTTAAATTTACTTTAAA
31389778 TTTAAATT
1 TTTAAATT
31389786 AAAATTAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
16 10 0.24
17 31 0.76
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAAATTTACTTTAAA
Found at i:31390847 original size:20 final size:21
Alignment explanation
Indices: 31390810--31390848 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
31390800 AGCAAAACAA
*
31390810 TTTCAAAAAAATGGAAAAGAG
1 TTTCAAAAAAATGAAAAAGAG
*
31390831 TTTCAAAATAAT-AAAAAG
1 TTTCAAAAAAATGAAAAAG
31390849 GATTGTTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.59, C:0.05, G:0.13, T:0.23
Consensus pattern (21 bp):
TTTCAAAAAAATGAAAAAGAG
Found at i:31390927 original size:14 final size:15
Alignment explanation
Indices: 31390903--31390931 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31390893 ATGTTTTGGA
31390903 AAATCCCAGATCTGG
1 AAATCCCAGATCTGG
31390918 AAAT-CCAGATCTGG
1 AAATCCCAGATCTGG
31390932 GTTTGGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (15 bp):
AAATCCCAGATCTGG
Found at i:31391752 original size:30 final size:30
Alignment explanation
Indices: 31391711--31392092 Score: 523
Period size: 30 Copynumber: 12.7 Consensus size: 30
31391701 AAATTGTCCA
*
31391711 AAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTAACCCCAAAACTTTTCC
*
31391741 AAAATTGCATTTTAACCCCAAAACTTTTCC
1 AAAATTACATTTTAACCCCAAAACTTTTCC
* *
31391771 AAAATTACATTTTGACCCCAAAACTATTCC
1 AAAATTACATTTTAACCCCAAAACTTTTCC
* * *
31391801 TAAATTACATTTTAACCTCAAAACTTTTCT
1 AAAATTACATTTTAACCCCAAAACTTTTCC
*
31391831 AAAATTACATTTTAACCCTAAAACTTTTCC
1 AAAATTACATTTTAACCCCAAAACTTTTCC
* *
31391861 AAAATTACATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTAACCCCAAAACTTTTCC
* * * *
31391891 AAAATTATATTTTAACCTCGAAACTTTACC
1 AAAATTACATTTTAACCCCAAAACTTTTCC
* *
31391921 AAAATTACATTTTGACCCCGAAACTTTTCC
1 AAAATTACATTTTAACCCCAAAACTTTTCC
31391951 AAAATTACATTTTAACCCCAAAACTTTTCC
1 AAAATTACATTTTAACCCCAAAACTTTTCC
* * * *
31391981 ACAATTACATTTTGACCTCGAAACTTTTCC
1 AAAATTACATTTTAACCCCAAAACTTTTCC
* *
31392011 AAAATTACATTTTAACCCTAAAACTTTTCT
1 AAAATTACATTTTAACCCCAAAACTTTTCC
* *
31392041 AAAATTATATTTTAACCCCAAAAC-TTTCA
1 AAAATTACATTTTAACCCCAAAACTTTTCC
*
31392070 AAAATTACCATTTTACCCCCAAA
1 AAAATTA-CATTTTAACCCCAAA
31392093 CTTCCCTAAA
Statistics
Matches: 309, Mismatches: 42, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
29 11 0.04
30 298 0.96
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.35
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCAAAACTTTTCC
Found at i:31404188 original size:68 final size:68
Alignment explanation
Indices: 31404074--31404683 Score: 738
Period size: 68 Copynumber: 9.0 Consensus size: 68
31404064 ATCATGTCCA
* * *
31404074 ATCCGCTTGAAATTTAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
31404139 GTC
66 GTC
*
31404142 ATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
31404207 GTC
66 GTC
**
31404210 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
31404275 GTC
66 GTC
* *** ** * ***
31404278 TTTATCTCTGAAATTGAAGTA-A---GAGCA-ACGTCATCCCCT-TGAAATTGAAGTAGAGTGGA
1 ATCCCCT-TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTA-A---GA
**
31404337 TAAAACGTC
61 -GCAACGTC
* ** ** **
31404346 TTCGTCTCTGAAATTGAAGTA-A---GAGCA-ACGTCTTCGTCTCTGAAATTGAAGTAAGAGCAA
1 ATCCCCT-TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
31404406 TGTC
65 CGTC
31404410 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
31404475 GTC
66 GTC
**
31404478 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
31404543 GTC
66 GTC
*
31404546 ATCCCCTTGAAATTGAAGTAGAATGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
31404611 GTC
66 GTC
* * * * * *
31404614 ATCCCTTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCCCTCTGAAATTGAAGTAAGAGT
1 ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTAT--CTCTGAAATTGAAGTAAGAGC
31404679 AACGT
63 AACGT
31404684 GAAGCACCAA
Statistics
Matches: 481, Mismatches: 46, Indels: 27
0.87 0.08 0.05
Matches are distributed among these distances:
63 26 0.05
64 20 0.04
65 5 0.01
67 5 0.01
68 360 0.75
69 40 0.08
71 25 0.05
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (68 bp):
ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
GTC
Found at i:31404297 original size:100 final size:100
Alignment explanation
Indices: 31404174--31404683 Score: 593
Period size: 100 Copynumber: 5.0 Consensus size: 100
31404164 GTGGATAACG
31404174 CGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATA
1 CGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATA
31404239 ACACGTCTTCGTCTCTGAAATTGAAGTAAGAGCAA
66 ACACGTCTTCGTCTCTGAAATTGAAGTAAGAGCAA
31404274 CGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATA
1 CGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATA
*
31404339 AAACGTCTTCGTCTCTGAAATTGAAGTAAGAGCAA
66 ACACGTCTTCGTCTCTGAAATTGAAGTAAGAGCAA
** *
31404374 CGTCTTCGTCTCTGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAAATTGAAGTAGAGTGGATA
1 CGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATA
**
31404439 ACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
66 ACACGTCTTCGTCTCTGAAATTGAAGTAAGAGCAA
* *** ** * **
31404474 CGTCATCCCCT-TGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGAAGTA-A-
1 CGTCTTTATCTCTGAAATTGAAGTA-A---GAGCA-ACGTCATCCCCT-TGAAATTGAAGTAGAG
** * ** **
31404536 --GAGCA-ACGTCATCCCCT-TGAAATTGAAGTAGAATGGATAACA
60 TGGATAACACGTCTTCGTCTCTGAAATTGAAGT--AA--GAGCA-A
*
31404578 CGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCTTTGAAATTGAAGTAGAGCTGGAT
1 CGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGAT
* * * * *
31404643 ATCAAGCCTTTGTCCCTCTGAAATTGAAGTAAGAGTAA
65 AACACGTCTTCGT--CTCTGAAATTGAAGTAAGAGCAA
31404681 CGT
1 CGT
31404684 GAAGCACCAA
Statistics
Matches: 344, Mismatches: 45, Indels: 39
0.80 0.11 0.09
Matches are distributed among these distances:
99 38 0.11
100 219 0.64
101 8 0.02
103 10 0.03
104 23 0.07
105 30 0.09
106 2 0.01
107 2 0.01
108 12 0.03
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (100 bp):
CGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATA
ACACGTCTTCGTCTCTGAAATTGAAGTAAGAGCAA
Found at i:31404447 original size:168 final size:170
Alignment explanation
Indices: 31404074--31404581 Score: 735
Period size: 168 Copynumber: 3.0 Consensus size: 170
31404064 ATCATGTCCA
* * *
31404074 ATCCGCTTGAAATTTAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
* **
31404139 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTTATCTCTGAAATTGAAGTAAGAGC
66 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGAAGTAAGAGC
*
31404204 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTC
131 AACGTCATCCCCTTGAAATTGAAGTAGA--GGAGAACACGTC
* ** **
31404246 TTCGTCTCTGAAATTGAAGTA-A---GAGCA-ACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCCCT-TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
31404306 CGTCATCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCGTCTCTGAAATTGAAGTAAGAG
65 CGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGAAGTAAGAG
* ** * *
31404371 CAACGTCTTCGTCTCTGAAATTGAAGTA-A-GAGCA-ATGTC
130 CAACGTCATCCCCT-TGAAATTGAAGTAGAGGAGAACACGTC
31404410 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
31404475 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGAAGTAAGAGC
66 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGAAGTAAGAGC
*
31404540 AACGTCATCCCCTTGAAATTGAAGTAGAATGGATAACACGTC
131 AACGTCATCCCCTTGAAATTGAAGTAG-A-GGAGAACACGTC
31404582 TTTATCTCTG
Statistics
Matches: 295, Mismatches: 29, Indels: 24
0.85 0.08 0.07
Matches are distributed among these distances:
163 13 0.04
164 9 0.03
165 3 0.01
167 16 0.05
168 213 0.72
169 17 0.06
171 3 0.01
172 9 0.03
173 12 0.04
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (170 bp):
ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGAAGTAAGAGC
AACGTCATCCCCTTGAAATTGAAGTAGAGGAGAACACGTC
Found at i:31405034 original size:6 final size:6
Alignment explanation
Indices: 31405016--31405104 Score: 96
Period size: 6 Copynumber: 15.2 Consensus size: 6
31405006 TTAAATTGAT
*
31405016 TTTAAA TTT--A TTTAAA TTTAAA TTT-AC TTTAAA TTTAAA TTTAATTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA--A
* * *
31405063 TTTAAA TTT-AC TTTAAA TTTAAA TTTAAA TTAAAA TTAAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
31405105 ACTAAACATT
Statistics
Matches: 72, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
4 4 0.06
5 8 0.11
6 54 0.75
8 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:31405046 original size:11 final size:11
Alignment explanation
Indices: 31405006--31405093 Score: 72
Period size: 11 Copynumber: 7.6 Consensus size: 11
31404996 TAATTTGGAG
* *
31405006 TTAAATTGATT
1 TTAAATTTAAT
31405017 TTAAATTT-AT
1 TTAAATTTAAT
31405027 TTAAATTTAAAT
1 TTAAATTT-AAT
*
31405039 TT-ACTTTAAAT
1 TTAAATTT-AAT
31405050 TTAAATTTAATTAT
1 TTAAATTT-A--AT
*
31405064 TTAAATTTACT
1 TTAAATTTAAT
31405075 TTAAATTTAAAT
1 TTAAATTT-AAT
31405087 TTAAATT
1 TTAAATT
31405094 AAAATTAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
10 9 0.14
11 26 0.40
12 19 0.29
13 1 0.02
14 10 0.15
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:31405046 original size:17 final size:16
Alignment explanation
Indices: 31405016--31405089 Score: 107
Period size: 17 Copynumber: 4.6 Consensus size: 16
31405006 TTAAATTGAT
31405016 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
31405032 TTTAAATTTACTTTAAA
1 TTTAAATTTA-TTTAAA
*
31405049 TTTAAATTTAATT--A
1 TTTAAATTTATTTAAA
31405063 TTTAAATTTACTTTAAA
1 TTTAAATTTA-TTTAAA
31405080 TTTAAATTTA
1 TTTAAATTTA
31405090 AATTAAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
14 11 0.21
15 2 0.04
16 12 0.23
17 27 0.52
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:31405071 original size:37 final size:37
Alignment explanation
Indices: 31405023--31405093 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
31405013 GATTTTAAAT
*
31405023 TTATTTAAATTTAAATTT-ACTTTAAATTTAAATTTAA
1 TTATTTAAATTT-AATTTAAATTTAAATTTAAATTTAA
*
31405060 TTATTTAAATTTACTTTAAATTTAAATTTAAATT
1 TTATTTAAATTTAATTTAAATTTAAATTTAAATT
31405094 AAAATTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 4 0.13
37 27 0.87
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (37 bp):
TTATTTAAATTTAATTTAAATTTAAATTTAAATTTAA
Done.