Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 63 of 221
Found at i:18115728 original size:15 final size:15
Alignment explanation
Indices: 18115708--18115736 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18115698 TAAAATGTGT
18115708 CGATTTAGTTAGTCC
1 CGATTTAGTTAGTCC
18115723 CGATTTAGTTAGTC
1 CGATTTAGTTAGTC
18115737 TGTCAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (15 bp):
CGATTTAGTTAGTCC
Found at i:18120712 original size:42 final size:41
Alignment explanation
Indices: 18120656--18120776 Score: 100
Period size: 42 Copynumber: 2.9 Consensus size: 41
18120646 GTGCTAAACA
*
18120656 GAAACCCGTAAGGGTTGAATGGAAGCTCATAAGAGTTGAACG
1 GAAACCCATAAGGGTTGAAT-GAAGCTCATAAGAGTTGAACG
* ** * *
18120698 GAAACCCATGAGGGTCAAACTGAAGCTCA-AATGAGCTGAATG
1 GAAACCCATAAGGGTTGAA-TGAAGCTCATAA-GAGTTGAACG
* * * * *
18120740 AAAACCCATTAGGGTTGAACAGAAACTCATATGAGTT
1 GAAACCCATAAGGGTTGAA-TGAAGCTCATAAGAGTT
18120777 AACAGAAGCT
Statistics
Matches: 62, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
41 2 0.03
42 58 0.94
43 2 0.03
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.20
Consensus pattern (41 bp):
GAAACCCATAAGGGTTGAATGAAGCTCATAAGAGTTGAACG
Found at i:18120794 original size:20 final size:21
Alignment explanation
Indices: 18120757--18120805 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
18120747 ATTAGGGTTG
*
18120757 AACAGAAACTCATATGAG-TT
1 AACAGAAACTCATATGAGCTA
* * *
18120777 AACAGAAGCTCGTGTGAGCTA
1 AACAGAAACTCATATGAGCTA
18120798 AACAGAAA
1 AACAGAAA
18120806 GTAAATACGA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.18
Consensus pattern (21 bp):
AACAGAAACTCATATGAGCTA
Found at i:18123645 original size:17 final size:18
Alignment explanation
Indices: 18123600--18123645 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
18123590 TTTCGGTAAA
18123600 ATATATTCAATTAATATTT
1 ATATATT-AATTAATATTT
* *
18123619 -TGTATGAATTAA-ATTT
1 ATATATTAATTAATATTT
18123635 ATATATTAATT
1 ATATATTAATT
18123646 TTATATATGT
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
16 4 0.18
17 14 0.64
18 4 0.18
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (18 bp):
ATATATTAATTAATATTT
Found at i:18138204 original size:20 final size:20
Alignment explanation
Indices: 18138167--18138206 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18138157 GATCTAAATG
*
18138167 ATATAATATATAATAATAGA
1 ATATAATATATAAAAATAGA
18138187 ATATAATAT-TAAAAAATAGA
1 ATATAATATAT-AAAAATAGA
18138207 GTTGCATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
ATATAATATATAAAAATAGA
Found at i:18140573 original size:20 final size:20
Alignment explanation
Indices: 18140542--18140603 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
18140532 TGCAAATCAT
*
18140542 TTAAAATGATTTTAACTTGA
1 TTAAAATCATTTTAACTTGA
* *
18140562 TTGAAATCATTTTGACTT-A
1 TTAAAATCATTTTAACTTGA
**
18140581 GTTAAAATCATTTGCACTTGA
1 -TTAAAATCATTTTAACTTGA
18140602 TT
1 TT
18140604 TTAAATTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 1 0.03
20 32 0.94
21 1 0.03
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (20 bp):
TTAAAATCATTTTAACTTGA
Found at i:18144854 original size:22 final size:21
Alignment explanation
Indices: 18144829--18144871 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
18144819 TAAACCTCTC
*
18144829 ATTTTTAACCTAAAACCATATT
1 ATTTATAACCTAAAA-CATATT
* *
18144851 ATTTATATCCTTAAACATATT
1 ATTTATAACCTAAAACATATT
18144872 TTAAGTCCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTTATAACCTAAAACATATT
Found at i:18150542 original size:92 final size:93
Alignment explanation
Indices: 18150446--18150627 Score: 219
Period size: 92 Copynumber: 2.0 Consensus size: 93
18150436 AGGGGGTGAT
* * * *
18150446 GCCATTCTCTATGGCACCACCAAATAAAAGAACAATT-TGAATTTT-AAATTAAA-AAAA-ATTT
1 GCCATTCTCTATGGAACCACCAAATAAAAGAA-AATTCTAAATTTTGAAATAAAACAAAACAATT
18150507 AAAAAAAAGAGTGGCAAATTACAATGGTTGA
65 --AAAAAAGAGTGGCAAATTACAATGGTTGA
* * * *
18150538 GCCATTCTTTATGGAACCACCAAGTAAAATAATATTCTAAATTTTGAAATAAAACAAAACAATTA
1 GCCATTCTCTATGGAACCACCAAATAAAAGAAAATTCTAAATTTTGAAATAAAACAAAACAATTA
* *
18150603 AAAAAGTGTGGCAAATTACACTGGT
66 AAAAAGAGTGGCAAATTACAATGGT
18150628 GGCGCCTTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
91 3 0.04
92 35 0.46
93 31 0.41
94 4 0.05
95 3 0.04
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.27
Consensus pattern (93 bp):
GCCATTCTCTATGGAACCACCAAATAAAAGAAAATTCTAAATTTTGAAATAAAACAAAACAATTA
AAAAAGAGTGGCAAATTACAATGGTTGA
Found at i:18173526 original size:23 final size:23
Alignment explanation
Indices: 18173500--18173544 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
18173490 TTTCTTACTA
18173500 TAGTAATTTTCAGGG-TATTACAG
1 TAGTAATTTTC-GGGATATTACAG
18173523 TAGTAATTTTCGGGATATTACA
1 TAGTAATTTTCGGGATATTACA
18173545 AATACAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (23 bp):
TAGTAATTTTCGGGATATTACAG
Found at i:18176430 original size:60 final size:60
Alignment explanation
Indices: 18176366--18176606 Score: 299
Period size: 60 Copynumber: 4.0 Consensus size: 60
18176356 GTGCAGTCAA
* * * * *
18176366 GGGCACCAAAGTGCGAATAGG-GACACAGATGTGCAAACAGGGACACCAAAGTGTATATAG
1 GGGCACCAAAGTGCGAATAGGAG-CACAGACGTGGAAATAGAGACACCGAAGTGTATATAG
* * *
18176426 GGGCACCAAAGTGCGAACAGGAGCATAGACGTGGAAATAGAGACACCGAAGTATATATATAG
1 GGGCACCAAAGTGCGAATAGGAGCACAGACGTGGAAATAGAGACACCGAAG--TGTATATAG
*
18176488 GGGCACCAAAGTGCGAAAAGGAGCACAGACGTGGAAATAGAGACACCGAAGTGTATATAG
1 GGGCACCAAAGTGCGAATAGGAGCACAGACGTGGAAATAGAGACACCGAAGTGTATATAG
* * * *
18176548 GGGCACCAAAGTGCAAATAAGG-GCATAGTA-GTGGCAATAAAGACACCGAAGTGTATATA
1 GGGCACCAAAGTGCGAAT-AGGAGCACAG-ACGTGGAAATAGAGACACCGAAGTGTATATA
18176607 TTTGAACTGA
Statistics
Matches: 160, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
60 98 0.61
61 5 0.03
62 57 0.36
ACGTcount: A:0.40, C:0.17, G:0.29, T:0.14
Consensus pattern (60 bp):
GGGCACCAAAGTGCGAATAGGAGCACAGACGTGGAAATAGAGACACCGAAGTGTATATAG
Found at i:18176592 original size:122 final size:122
Alignment explanation
Indices: 18176366--18176607 Score: 337
Period size: 122 Copynumber: 2.0 Consensus size: 122
18176356 GTGCAGTCAA
* * *
18176366 GGGCACCAAAGTGCGAATAGGGACACAGATGTGCAAACAGGGACACCAAAGTGTATATAGGGGCA
1 GGGCACCAAAGTGCGAAAAGGGACACAGACGTGCAAACAGAGACACCAAAGTGTATATAGGGGCA
* * *
18176431 CCAAAGTGCGAACAGGAGCATAGACGTGGAAATAGAGACACCGAAGTATATATATAG
66 CCAAAGTGCAAAAAGGAGCATAGACGTGGAAATAAAGACACCGAAGTATATATATAG
* * *
18176488 GGGCACCAAAGTGCGAAAA-GGAGCACAGACGTGGAAATAGAGACACCGAAGTGTATATAGGGGC
1 GGGCACCAAAGTGCGAAAAGGGA-CACAGACGTGCAAACAGAGACACCAAAGTGTATATAGGGGC
* *
18176552 ACCAAAGTGCAAATAAGG-GCATAGTA-GTGGCAATAAAGACACCGAAGTGTATATAT
65 ACCAAAGTGCAAA-AAGGAGCATAG-ACGTGGAAATAAAGACACCGAAGTATATATAT
18176608 TTGAACTGAA
Statistics
Matches: 106, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
121 3 0.03
122 99 0.93
123 4 0.04
ACGTcount: A:0.40, C:0.17, G:0.29, T:0.14
Consensus pattern (122 bp):
GGGCACCAAAGTGCGAAAAGGGACACAGACGTGCAAACAGAGACACCAAAGTGTATATAGGGGCA
CCAAAGTGCAAAAAGGAGCATAGACGTGGAAATAAAGACACCGAAGTATATATATAG
Found at i:18182293 original size:60 final size:59
Alignment explanation
Indices: 18182229--18182422 Score: 182
Period size: 60 Copynumber: 3.2 Consensus size: 59
18182219 ATGCACTTAG
*
18182229 GGGCACCAAAGTGTGAACTGGGGCACAGATCTGCAAACA-AGGACACCAAAGTGTATACAA
1 GGGCACCAAAGTG-GAACTGGGGCACAGATCTGCAAATAGA-GACACCAAAGTGTATACAA
** * * * * *
18182289 GGGCACTGAAGTGCAAATAGGAGCACAGA-CGTGCAAATAGAGACACCAAATTGTATACAG
1 GGGCACCAAAGTGGAACT-GGGGCACAGATC-TGCAAATAGAGACACCAAAGTGTATACAA
*
18182349 GGTGCACCAAAGTGCGAACAGGGGCACA-AT-TGTTCAAATAGAGACA-CAGAAGTGTATACAA
1 GG-GCACCAAAGTG-GAACTGGGGCACAGATCTG--CAAATAGAGACACCA-AAGTGTATACAA
*
18182410 GGCCACCAAAGTG
1 GGGCACCAAAGTG
18182423 CAAACAGGGG
Statistics
Matches: 108, Mismatches: 17, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
59 6 0.06
60 59 0.55
61 41 0.38
62 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.27, T:0.14
Consensus pattern (59 bp):
GGGCACCAAAGTGGAACTGGGGCACAGATCTGCAAATAGAGACACCAAAGTGTATACAA
Found at i:18182314 original size:20 final size:20
Alignment explanation
Indices: 18182291--18182328 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18182281 GTATACAAGG
*
18182291 GCACTGAAGTGCAAATAGGA
1 GCACAGAAGTGCAAATAGGA
*
18182311 GCACAGACGTGCAAATAG
1 GCACAGAAGTGCAAATAG
18182329 AGACACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.29, T:0.13
Consensus pattern (20 bp):
GCACAGAAGTGCAAATAGGA
Found at i:18192027 original size:8 final size:8
Alignment explanation
Indices: 18192014--18192040 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
18192004 CCATAGACAT
18192014 TAAAATAA
1 TAAAATAA
18192022 TAAAATAA
1 TAAAATAA
18192030 TAAAATAA
1 TAAAATAA
18192038 TAA
1 TAA
18192041 TTTACTTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
TAAAATAA
Found at i:18203690 original size:40 final size:40
Alignment explanation
Indices: 18203638--18203910 Score: 377
Period size: 40 Copynumber: 6.8 Consensus size: 40
18203628 ATTACCACAA
* * ** *
18203638 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
18203678 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
18203718 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGG--ATATATCAACTC
*
18203760 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
18203800 GCACAAATGCCTGCGGGTCTTAGCCCCGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
18203840 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
18203880 GCACAATTGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
18203911 AAATTCAAAT
Statistics
Matches: 211, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.00
40 169 0.80
41 4 0.02
42 37 0.18
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:18203855 original size:122 final size:120
Alignment explanation
Indices: 18203637--18203910 Score: 404
Period size: 122 Copynumber: 2.3 Consensus size: 120
18203627 TATTACCACA
* ** * *
18203637 AGCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTGCGGGTCTTAGC
* * * *
18203702 CCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACT
66 CCCGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATA-AAATC-ACT
* * * *
18203759 CGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTGCGGGTCTTAGC
18203824 CCCGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
66 CCCGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
*
18203879 AGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATA
18203911 AAATTCAAAT
Statistics
Matches: 135, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
120 31 0.23
121 4 0.03
122 100 0.74
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (120 bp):
AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTGCGGGTCTTAGC
CCCGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
Found at i:18214473 original size:30 final size:30
Alignment explanation
Indices: 18214437--18214496 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
18214427 CAAGGTAGAG
18214437 GCCACAAAGGAGCTTGAGCTGAGTCCTCTT
1 GCCACAAAGGAGCTTGAGCTGAGTCCTCTT
18214467 GCCACAAAGGAGCTTGAGCTGAGTCCTCTT
1 GCCACAAAGGAGCTTGAGCTGAGTCCTCTT
18214497 CACTGGGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.23
Consensus pattern (30 bp):
GCCACAAAGGAGCTTGAGCTGAGTCCTCTT
Found at i:18215831 original size:10 final size:10
Alignment explanation
Indices: 18215802--18215861 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
18215792 CCAATAAAAT
* *
18215802 AAATGAGTTA
1 AAATGAGCTC
18215812 AAATGTAGCT-
1 AAATG-AGCTC
18215822 AAATTGAGCTC
1 AAA-TGAGCTC
* *
18215833 GAATGAGCTG
1 AAATGAGCTC
18215843 AAATGAGCTC
1 AAATGAGCTC
*
18215853 AATTGAGCT
1 AAATGAGCT
18215862 GGTCGGAGCT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
10 34 0.83
11 7 0.17
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (10 bp):
AAATGAGCTC
Found at i:18215837 original size:21 final size:20
Alignment explanation
Indices: 18215813--18215862 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
18215803 AATGAGTTAA
18215813 AATGTAGCT-AAATTGAGCTCG
1 AATG-AGCTGAAA-TGAGCTCG
18215834 AATGAGCTGAAATGAGCTC-
1 AATGAGCTGAAATGAGCTCG
18215853 AATTGAGCTG
1 AA-TGAGCTG
18215863 GTCGGAGCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 2 0.07
20 18 0.67
21 7 0.26
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (20 bp):
AATGAGCTGAAATGAGCTCG
Found at i:18215859 original size:30 final size:31
Alignment explanation
Indices: 18215803--18215861 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
18215793 CAATAAAATA
*
18215803 AATGAGTTAAAATGTAGCTAAATTGAGCTCG
1 AATGAGCTAAAATGTAGCTAAATTGAGCTCG
* *
18215834 AATGAGCTGAAATG-AGCTCAATTGAGCT
1 AATGAGCTAAAATGTAGCTAAATTGAGCT
18215862 GGTCGGAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (31 bp):
AATGAGCTAAAATGTAGCTAAATTGAGCTCG
Found at i:18215900 original size:30 final size:30
Alignment explanation
Indices: 18215866--18215941 Score: 134
Period size: 30 Copynumber: 2.5 Consensus size: 30
18215856 TGAGCTGGTC
* *
18215866 GGAGCTGAAACGAGCTGGAGGAGCTGAAAT
1 GGAGCTGAAATGAGCTAGAGGAGCTGAAAT
18215896 GGAGCTGAAATGAGCTAGAGGAGCTGAAAT
1 GGAGCTGAAATGAGCTAGAGGAGCTGAAAT
18215926 GGAGCTGAAATGAGCT
1 GGAGCTGAAATGAGCT
18215942 TGCACGAGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.38, T:0.16
Consensus pattern (30 bp):
GGAGCTGAAATGAGCTAGAGGAGCTGAAAT
Found at i:18215901 original size:11 final size:11
Alignment explanation
Indices: 18215885--18215941 Score: 77
Period size: 11 Copynumber: 5.5 Consensus size: 11
18215875 ACGAGCTGGA
18215885 GGAGCTGAAAT
1 GGAGCTGAAAT
18215896 GGAGCTGAAAT
1 GGAGCTGAAAT
*
18215907 -GAGCT-AGA-
1 GGAGCTGAAAT
18215915 GGAGCTGAAAT
1 GGAGCTGAAAT
18215926 GGAGCTGAAAT
1 GGAGCTGAAAT
18215937 -GAGCT
1 GGAGCT
18215942 TGCACGAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 7 0.17
10 12 0.29
11 22 0.54
ACGTcount: A:0.35, C:0.11, G:0.37, T:0.18
Consensus pattern (11 bp):
GGAGCTGAAAT
Found at i:18216732 original size:6 final size:6
Alignment explanation
Indices: 18216723--18216747 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18216713 TTTCTTTTGC
18216723 TTTCTT TTTCTT TTTCTT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT T
18216748 ACTTCCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:18220277 original size:10 final size:10
Alignment explanation
Indices: 18220248--18220307 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
18220238 CCAACAAAAT
* *
18220248 AAATGAGTTA
1 AAATGAGCTC
18220258 AAATGTAGCT-
1 AAATG-AGCTC
18220268 AAATTGAGCTC
1 AAA-TGAGCTC
* *
18220279 GAATGAGCTG
1 AAATGAGCTC
18220289 AAATGAGCTC
1 AAATGAGCTC
*
18220299 AATTGAGCT
1 AAATGAGCT
18220308 GGTCGGAGCT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
10 34 0.83
11 7 0.17
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (10 bp):
AAATGAGCTC
Found at i:18220283 original size:21 final size:20
Alignment explanation
Indices: 18220259--18220308 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
18220249 AATGAGTTAA
18220259 AATGTAGCT-AAATTGAGCTCG
1 AATG-AGCTGAAA-TGAGCTCG
18220280 AATGAGCTGAAATGAGCTC-
1 AATGAGCTGAAATGAGCTCG
18220299 AATTGAGCTG
1 AA-TGAGCTG
18220309 GTCGGAGCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 2 0.07
20 18 0.67
21 7 0.26
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (20 bp):
AATGAGCTGAAATGAGCTCG
Found at i:18220305 original size:30 final size:31
Alignment explanation
Indices: 18220249--18220307 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
18220239 CAACAAAATA
*
18220249 AATGAGTTAAAATGTAGCTAAATTGAGCTCG
1 AATGAGCTAAAATGTAGCTAAATTGAGCTCG
* *
18220280 AATGAGCTGAAATG-AGCTCAATTGAGCT
1 AATGAGCTAAAATGTAGCTAAATTGAGCT
18220308 GGTCGGAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (31 bp):
AATGAGCTAAAATGTAGCTAAATTGAGCTCG
Found at i:18220346 original size:30 final size:30
Alignment explanation
Indices: 18220312--18220387 Score: 134
Period size: 30 Copynumber: 2.5 Consensus size: 30
18220302 TGAGCTGGTC
* *
18220312 GGAGCTGAAACGAGCTGGAGGAGCTGAAAT
1 GGAGCTGAAATGAGCTAGAGGAGCTGAAAT
18220342 GGAGCTGAAATGAGCTAGAGGAGCTGAAAT
1 GGAGCTGAAATGAGCTAGAGGAGCTGAAAT
18220372 GGAGCTGAAATGAGCT
1 GGAGCTGAAATGAGCT
18220388 TGCACGAGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.38, T:0.16
Consensus pattern (30 bp):
GGAGCTGAAATGAGCTAGAGGAGCTGAAAT
Found at i:18220347 original size:11 final size:11
Alignment explanation
Indices: 18220331--18220387 Score: 77
Period size: 11 Copynumber: 5.5 Consensus size: 11
18220321 ACGAGCTGGA
18220331 GGAGCTGAAAT
1 GGAGCTGAAAT
18220342 GGAGCTGAAAT
1 GGAGCTGAAAT
*
18220353 -GAGCT-AGA-
1 GGAGCTGAAAT
18220361 GGAGCTGAAAT
1 GGAGCTGAAAT
18220372 GGAGCTGAAAT
1 GGAGCTGAAAT
18220383 -GAGCT
1 GGAGCT
18220388 TGCACGAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 7 0.17
10 12 0.29
11 22 0.54
ACGTcount: A:0.35, C:0.11, G:0.37, T:0.18
Consensus pattern (11 bp):
GGAGCTGAAAT
Found at i:18221168 original size:17 final size:16
Alignment explanation
Indices: 18221146--18221185 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
18221136 TTCCTTTCTT
18221146 TTTTTCTCTCATGTTTC
1 TTTTTCTCTC-TGTTTC
* *
18221163 TTTTTCTTTCTTTTTC
1 TTTTTCTCTCTGTTTC
18221179 TTTTTCT
1 TTTTTCT
18221186 TTACTTCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTTTCTCTCTGTTTC
Found at i:18223351 original size:24 final size:26
Alignment explanation
Indices: 18223319--18223370 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
18223309 TTTCGATTTT
*
18223319 TTTTACTTCGT-ACTTTTTTTTTGAA
1 TTTTACTTCGTCACTTTTTTTTTCAA
* *
18223344 TTTT-CTTCTTCTCTTTTTTTTTCAA
1 TTTTACTTCGTCACTTTTTTTTTCAA
18223369 TT
1 TT
18223371 ACAATAGATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.12, C:0.15, G:0.04, T:0.69
Consensus pattern (26 bp):
TTTTACTTCGTCACTTTTTTTTTCAA
Found at i:18224713 original size:10 final size:10
Alignment explanation
Indices: 18224691--18224829 Score: 90
Period size: 10 Copynumber: 13.8 Consensus size: 10
18224681 CAATAAAATG
18224691 AATGAGCTGA
1 AATGAGCTGA
18224701 AATGTAGCT-A
1 AATG-AGCTGA
18224711 AATTGAGCTCG-
1 AA-TGAGCT-GA
18224722 AATGAGCTGA
1 AATGAGCTGA
*
18224732 AATGAGCTTA
1 AATGAGCTGA
*
18224742 ATTGAGCT-A
1 AATGAGCTGA
**
18224751 GTTGGAGCTGA
1 AAT-GAGCTGA
*
18224762 AACGAGCT-A
1 AATGAGCTGA
* *
18224771 GAGGAGCTGA
1 AATGAGCTGA
18224781 AATGGAGCTGA
1 AAT-GAGCTGA
*
18224792 AATAAGCT-A
1 AATGAGCTGA
* *
18224801 GAGGAGCTGA
1 AATGAGCTGA
*
18224811 AATGGAGTTGA
1 AAT-GAGCTGA
18224822 AATGAGCT
1 AATGAGCT
18224830 TGCCCGAGAA
Statistics
Matches: 100, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
9 17 0.17
10 55 0.55
11 28 0.28
ACGTcount: A:0.36, C:0.11, G:0.31, T:0.22
Consensus pattern (10 bp):
AATGAGCTGA
Found at i:18224759 original size:30 final size:30
Alignment explanation
Indices: 18224690--18224800 Score: 102
Period size: 30 Copynumber: 3.7 Consensus size: 30
18224680 CCAATAAAAT
*
18224690 GAATGAGCTGAAATGTAGCTAAATTGAGCTC
1 GAATGAGCTGAAATG-AGCTAAATTGAGCTA
*
18224721 GAATGAGCTGAAATGAGCTTAATTGAGCTA
1 GAATGAGCTGAAATGAGCTAAATTGAGCTA
* * * *
18224751 G-TTGGAGCTGAAACGAGCTAGA-GGAGCT-
1 GAAT-GAGCTGAAATGAGCTAAATTGAGCTA
*
18224779 GAAATGGAGCTGAAATAAGCTA
1 G-AAT-GAGCTGAAATGAGCTA
18224801 GAGGAGCTGA
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
28 1 0.01
29 6 0.09
30 45 0.67
31 15 0.22
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.23
Consensus pattern (30 bp):
GAATGAGCTGAAATGAGCTAAATTGAGCTA
Found at i:18224801 original size:30 final size:30
Alignment explanation
Indices: 18224771--18224829 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
18224761 AAACGAGCTA
*
18224771 GAGGAGCTGAAATGGAGCTGAAATAAGCTA
1 GAGGAGCTGAAATGGAGCTGAAATGAGCTA
*
18224801 GAGGAGCTGAAATGGAGTTGAAATGAGCT
1 GAGGAGCTGAAATGGAGCTGAAATGAGCT
18224830 TGCCCGAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.36, T:0.19
Consensus pattern (30 bp):
GAGGAGCTGAAATGGAGCTGAAATGAGCTA
Found at i:18229174 original size:28 final size:28
Alignment explanation
Indices: 18229139--18229198 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
18229129 TTGGGTTGAG
18229139 TGGG-TCACACGGGCGTATGGGCCCACA
1 TGGGCTCACACGGGCGTATGGGCCCACA
* *
18229166 TGGGCTCACACGGGCGTGTGGGCCTACA
1 TGGGCTCACACGGGCGTATGGGCCCACA
*
18229194 CGGGC
1 TGGGC
18229199 AGATCACATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.15, C:0.30, G:0.40, T:0.15
Consensus pattern (28 bp):
TGGGCTCACACGGGCGTATGGGCCCACA
Found at i:18231161 original size:19 final size:19
Alignment explanation
Indices: 18231137--18231173 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
18231127 TATTTTAAAG
18231137 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
18231156 TTATTTAGGTAGATAAAT
1 TTATTTAGGTAGATAAAT
18231174 ATTAGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:18231260 original size:41 final size:42
Alignment explanation
Indices: 18231202--18231294 Score: 145
Period size: 41 Copynumber: 2.3 Consensus size: 42
18231192 AGATATTCTA
* *
18231202 GGAA-TATTTTATTTTATCTTTTACTAGTTTATTATAATAAG
1 GGAATTATTTTATCTTATCTTTTACTAGTTTATTAGAATAAG
*
18231243 GGAATTATTTT-TCTTATCTTTTAGTAGTTTATTAGAATAAG
1 GGAATTATTTTATCTTATCTTTTACTAGTTTATTAGAATAAG
18231284 GGAATTATTTT
1 GGAATTATTTT
18231295 CCTAATTAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
41 42 0.88
42 6 0.12
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.53
Consensus pattern (42 bp):
GGAATTATTTTATCTTATCTTTTACTAGTTTATTAGAATAAG
Found at i:18237538 original size:80 final size:80
Alignment explanation
Indices: 18237386--18237578 Score: 221
Period size: 80 Copynumber: 2.4 Consensus size: 80
18237376 CGGTTTTAGT
* * *
18237386 AACTCACACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
1 AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTT
*
18237451 AACCCGGATTTA-AC
66 AACCCGGATATATAC
** *
18237465 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATC
1 AACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-C
** *
18237529 TTAGTCCGGATATATTC
64 TTAACCCGGATATATAC
* * *
18237546 -ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
18237579 CAGCATTCAA
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
79 11 0.11
80 80 0.82
81 6 0.06
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (80 bp):
AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTT
AACCCGGATATATAC
Found at i:18237539 original size:40 final size:40
Alignment explanation
Indices: 18237356--18237525 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
18237346 TCCTCGTTCA
* * * ** *
18237356 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
18237395 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
18237435 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
18237475 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
18237515 AAGGCCTTCGG
1 AATGCCTTCGG
18237526 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 33 0.28
40 86 0.72
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:18237578 original size:120 final size:119
Alignment explanation
Indices: 18237356--18237578 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
18237346 TCCTCGTTCA
* * * *
18237356 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATA
* *
18237421 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * **
18237475 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CTTAACCCGGA
* *
18237539 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
18237579 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:18237587 original size:41 final size:41
Alignment explanation
Indices: 18237510--18237587 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
18237500 TTAGTATCTC
* * *
18237510 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
18237551 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
18237588 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:18242540 original size:40 final size:40
Alignment explanation
Indices: 18242457--18242757 Score: 378
Period size: 40 Copynumber: 7.6 Consensus size: 40
18242447 TTGAATGCTG
* * * * * *
18242457 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
18242497 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
18242537 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
18242576 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
18242616 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
18242656 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
18242696 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
18242735 ACCGGGCTATGT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
18242758 TGAACGAGGA
Statistics
Matches: 239, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
38 11 0.05
39 58 0.24
40 162 0.68
41 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:18242668 original size:119 final size:118
Alignment explanation
Indices: 18242457--18242757 Score: 388
Period size: 119 Copynumber: 2.5 Consensus size: 118
18242447 TTGAATGCTG
* * * * * * * *
18242457 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGTTAAG-TCCGAAGGCATTC
18242522 GTGCGAGATACTAAATCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAA
64 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
18242576 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGTTAAGT-CCGAAGGCATTC
* ** *
18242641 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
64 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * * * *
18242696 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGTTAAGTCCGAAGGCATT
18242758 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
118 12 0.08
119 95 0.59
120 53 0.33
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (118 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGTTAAGTCCGAAGGCATTCGT
GCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:18256935 original size:26 final size:26
Alignment explanation
Indices: 18256867--18256936 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
18256857 ACGAATCTTA
* *
18256867 AGAATCTAACAAATTAACTAACTTGG
1 AGAACCTAACAAATTAACTAACTAGG
* **
18256893 CGAACCTATTAAATTAACTAACTAGG
1 AGAACCTAACAAATTAACTAACTAGG
*
18256919 AGAACCTAACAAGTTAAC
1 AGAACCTAACAAATTAAC
18256937 CAACCTTGCA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (26 bp):
AGAACCTAACAAATTAACTAACTAGG
Found at i:18278285 original size:27 final size:26
Alignment explanation
Indices: 18278255--18278430 Score: 163
Period size: 27 Copynumber: 6.5 Consensus size: 26
18278245 AATTGTACAG
18278255 CACTAAGTGTGCGATTTGACTATGTTA
1 CACTAAGTGTGCGATTTGACTATG-TA
** * *
18278282 CACTAAGTGTGCGAAATGAATATGATG
1 CACTAAGTGTGCGATTTGACTATG-TA
* * **
18278309 CACTAAGTGTGCGAATTGACCATGCGG
1 CACTAAGTGTGCGATTTGACTATG-TA
18278336 CACTAAGTGTGCGAGTTTGACTATGTA
1 CACTAAGTGTGCGA-TTTGACTATGTA
* *
18278363 GCACTAAGTGTGCGATTTGATTACGTA
1 -CACTAAGTGTGCGATTTGACTATGTA
* * *
18278390 GCACTAAGTGTGCGAGTTGATTATATA
1 -CACTAAGTGTGCGATTTGACTATGTA
*
18278417 GCACTGAGTGTGCG
1 -CACTAAGTGTGCG
18278431 GACTCAATAT
Statistics
Matches: 127, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (26 bp):
CACTAAGTGTGCGATTTGACTATGTA
Found at i:18278314 original size:54 final size:54
Alignment explanation
Indices: 18278253--18278430 Score: 191
Period size: 54 Copynumber: 3.3 Consensus size: 54
18278243 TAAATTGTAC
*
18278253 AGCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATG-TACACTAAGTGTGCGAATTGAATATGAT
* * ** * *
18278308 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATG-TACACTAAGTGTGCGA-ATTGAATATGAT
* * * *
18278362 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTA-CACTAAGTGTGCGAATTGAATATGAT
*
18278416 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18278431 GACTCAATAT
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
54 60 0.59
55 42 0.41
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTACACTAAGTGTGCGAATTGAATATGAT
Found at i:18278368 original size:82 final size:81
Alignment explanation
Indices: 18278254--18278409 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
18278244 AAATTGTACA
*
18278254 GCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18278318 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
18278335 GCACTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTTA-CACTAAGTGTGCGAAATGAATACGTAGCACTAAGT
*
18278399 GTGCGAGTTGA
64 GTGCGAATTGA
18278410 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 17 0.25
82 49 0.73
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18278421 original size:82 final size:81
Alignment explanation
Indices: 18278250--18278430 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
18278240 GATTAAATTG
*
18278250 TACAGCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGATGCACTAA
18278315 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
18278331 TGCGGCACTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCGATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTTA-CACTAAGTGTGCGAAATGAATACGAT-GCAC
* **
18278394 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
18278413 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18278431 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 20 0.24
82 64 0.76
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18286337 original size:27 final size:26
Alignment explanation
Indices: 18286307--18286482 Score: 154
Period size: 27 Copynumber: 6.5 Consensus size: 26
18286297 AATTGTACAG
18286307 CACTAAGTGTGCGATTTGACTATGTTA
1 CACTAAGTGTGCGATTTGACTATG-TA
** * *
18286334 CACTAAGTGTGCGAAATGAATATGATG
1 CACTAAGTGTGCGATTTGACTATG-TA
* * **
18286361 CACTAAGTGTGCGAATTGACCATGCGG
1 CACTAAGTGTGCGATTTGACTATG-TA
*
18286388 CACTAAGTGTGTGAGTTTGACTATGTA
1 CACTAAGTGTGCGA-TTTGACTATGTA
* *
18286415 GCACTAAGTGTGCGATTTGATTACGTA
1 -CACTAAGTGTGCGATTTGACTATGTA
* * *
18286442 GCACTAAGTGTGCGAGTTGATTATATA
1 -CACTAAGTGTGCGATTTGACTATGTA
*
18286469 GCACTGAGTGTGCG
1 -CACTAAGTGTGCG
18286483 GACTCAATAT
Statistics
Matches: 125, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
27 104 0.83
28 21 0.17
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (26 bp):
CACTAAGTGTGCGATTTGACTATGTA
Found at i:18286420 original size:82 final size:81
Alignment explanation
Indices: 18286306--18286461 Score: 217
Period size: 82 Copynumber: 1.9 Consensus size: 81
18286296 AAATTGTACA
*
18286306 GCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18286370 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
18286387 GCACTAAGTGTGTGAGTTTGACTATG-TAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTTA-CACTAAGTGTGCGAAATGAATACGTAGCACTAAGT
*
18286451 GTGCGAGTTGA
64 GTGCGAATTGA
18286462 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
81 16 0.24
82 49 0.74
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18286473 original size:82 final size:81
Alignment explanation
Indices: 18286302--18286482 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 81
18286292 GATTAAATTG
*
18286302 TACAGCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGATGCACTAA
18286367 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
18286383 TGCGGCACTAAGTGTGTGAGTTTGACTATG-TAGCACTAAGTGTGCGATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTTA-CACTAAGTGTGCGAAATGAATACGAT-GCAC
* **
18286446 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
18286465 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18286483 GACTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 19 0.23
82 63 0.77
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18290914 original size:29 final size:29
Alignment explanation
Indices: 18290858--18290916 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
18290848 GGAACGTCGT
* *
18290858 CATGACATATTGAGATAACCATGCCATGA
1 CATGACATACTGAGATAACCACGCCATGA
* * *
18290887 CATGACATACTGAGATGACTACGTCATGA
1 CATGACATACTGAGATAACCACGCCATGA
18290916 C
1 C
18290917 GAAGTCGCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.24
Consensus pattern (29 bp):
CATGACATACTGAGATAACCACGCCATGA
Found at i:18298330 original size:21 final size:22
Alignment explanation
Indices: 18298304--18298346 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
18298294 AGGACAAAAA
18298304 AATGTTATTTT-TTGTTCTTTT
1 AATGTTATTTTCTTGTTCTTTT
*
18298325 AATGTTATTTTCTTGTTGTTTT
1 AATGTTATTTTCTTGTTCTTTT
18298347 CTCCCTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.14, C:0.05, G:0.12, T:0.70
Consensus pattern (22 bp):
AATGTTATTTTCTTGTTCTTTT
Found at i:18307574 original size:30 final size:31
Alignment explanation
Indices: 18307540--18307607 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
18307530 TTGCCTAAGA
** * **
18307540 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
18307570 GTAAATACAAAAAATTTGAAGGACCAATAGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
18307601 GTAAATA
1 GTAAATA
18307608 TTTTAAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (31 bp):
GTAAATACAAAAAATTTGAAGGACCAATAGT
Found at i:18311055 original size:101 final size:101
Alignment explanation
Indices: 18310908--18311158 Score: 321
Period size: 101 Copynumber: 2.5 Consensus size: 101
18310898 CAAACATAAT
* *
18310908 ACCATGGTTGGACCATG-CAGTGTTTAAATGTAAGACCATAGTTGGGCTATGCCATTCCAATGAT
1 ACCATGGTTGGACCATGACAGTATTTATATGTAAGACCATAGTTGGGCTATGCCATTCCAATGAT
* *
18310972 AAGACTATAACTGGGTTATGGCACTATGGATGCAAG
66 AAGACCATAACTGGGTTATGGCACTATGAATGCAAG
* * *** *
18311008 ACCATGGTTGGACCATGACAGTATTTATATGTAAGACCATAGCTGGGCTATGGCATTTTGATGGT
1 ACCATGGTTGGACCATGACAGTATTTATATGTAAGACCATAGTTGGGCTATGCCATTCCAATGAT
*
18311073 AAGACCATAACTGGGTTATGGCACTATGAATGTAAG
66 AAGACCATAACTGGGTTATGGCACTATGAATGCAAG
** ** *
18311109 ACCATGGCAAGG-CCATGACA--ATGCATATGTAAGACCATAGTTGGACTATG
1 ACCATGG-TTGGACCATGACAGTATTTATATGTAAGACCATAGTTGGGCTATG
18311159 GCACAAAGGA
Statistics
Matches: 132, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
99 26 0.20
100 17 0.13
101 87 0.66
102 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (101 bp):
ACCATGGTTGGACCATGACAGTATTTATATGTAAGACCATAGTTGGGCTATGCCATTCCAATGAT
AAGACCATAACTGGGTTATGGCACTATGAATGCAAG
Found at i:18311078 original size:33 final size:33
Alignment explanation
Indices: 18310934--18311113 Score: 114
Period size: 33 Copynumber: 5.4 Consensus size: 33
18310924 GCAGTGTTTA
** * *
18310934 AATGTAAGACCATAGTTGGGCTATGCCA-T-TCC
1 AATGTAAGACCATAACTGGGCTATGGCACTAT-G
* *
18310966 AATGATAAGACTATAACTGGGTTATGGCACTATG
1 AATG-TAAGACCATAACTGGGCTATGGCACTATG
* * *** * * * * *
18311000 GATGCAAGACCATGGTTGGACCATGACAGTATTT
1 AATGTAAGACCATAACTGGGCTATGGCACTA-TG
* * *
18311034 ATATGTAAGACCATAGCTGGGCTATGGCATTTTG
1 A-ATGTAAGACCATAACTGGGCTATGGCACTATG
*
18311068 -ATGGTAAGACCATAACTGGGTTATGGCACTATG
1 AAT-GTAAGACCATAACTGGGCTATGGCACTATG
18311101 AATGTAAGACCAT
1 AATGTAAGACCAT
18311114 GGCAAGGCCA
Statistics
Matches: 109, Mismatches: 32, Indels: 13
0.71 0.21 0.08
Matches are distributed among these distances:
32 6 0.06
33 72 0.66
34 8 0.07
35 23 0.21
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (33 bp):
AATGTAAGACCATAACTGGGCTATGGCACTATG
Found at i:18311664 original size:17 final size:18
Alignment explanation
Indices: 18311639--18311673 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
18311629 AAATCCAAAT
18311639 TTATAATATT-AATTTTA
1 TTATAATATTAAATTTTA
*
18311656 TTATTATATTAAATTTTA
1 TTATAATATTAAATTTTA
18311674 CAGCATGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATAATATTAAATTTTA
Found at i:18313565 original size:43 final size:43
Alignment explanation
Indices: 18313450--18313565 Score: 169
Period size: 43 Copynumber: 2.7 Consensus size: 43
18313440 TGTGATTTCA
* * * *
18313450 TGTAAAACCATGTCTGGGACATTGGCATCAAAGTGAGAAAATG
1 TGTAAGACCATGTTTGGGACATTGGCATCGAAGTCAGAAAATG
* *
18313493 TGTAAGACCTTGTTTGGGACATTAGCATCGAAGTCAGAAAATG
1 TGTAAGACCATGTTTGGGACATTGGCATCGAAGTCAGAAAATG
*
18313536 TGTAAGACAATGTTTGGGACATTGGCATCG
1 TGTAAGACCATGTTTGGGACATTGGCATCG
18313566 TATATGATTC
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATGTTTGGGACATTGGCATCGAAGTCAGAAAATG
Found at i:18322454 original size:17 final size:18
Alignment explanation
Indices: 18322432--18322466 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
18322422 GTCGGTGCCA
*
18322432 CAAGGAACGA-AAACACT
1 CAAGGAACCATAAACACT
18322449 CAAGGAACCATAAACACT
1 CAAGGAACCATAAACACT
18322467 GCATGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.51, C:0.26, G:0.14, T:0.09
Consensus pattern (18 bp):
CAAGGAACCATAAACACT
Found at i:18327749 original size:20 final size:21
Alignment explanation
Indices: 18327710--18327750 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18327700 ATTGTTTCTA
* *
18327710 TTTAAGAAAAACCTTAGTTTT
1 TTTAACAAAAACCGTAGTTTT
18327731 TTTAACAAAAACCGT-GTTTT
1 TTTAACAAAAACCGTAGTTTT
18327751 GTAGAGTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (21 bp):
TTTAACAAAAACCGTAGTTTT
Found at i:18339555 original size:26 final size:26
Alignment explanation
Indices: 18339487--18339556 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
18339477 GCGAATCTTA
* *
18339487 AGAATCTAACAAATTAACTAACTTGG
1 AGAACCTAACAAATTAACTAACTAGG
* **
18339513 CGAACCTATTAAATTAACTAACTAGG
1 AGAACCTAACAAATTAACTAACTAGG
*
18339539 AGAACCTAACAAGTTAAC
1 AGAACCTAACAAATTAAC
18339557 CAACCTTGCG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (26 bp):
AGAACCTAACAAATTAACTAACTAGG
Found at i:18341315 original size:27 final size:27
Alignment explanation
Indices: 18341285--18341462 Score: 142
Period size: 27 Copynumber: 6.6 Consensus size: 27
18341275 ATATTGAGTC
*
18341285 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTACATAATCAACT
* *
18341312 CGCACACTCAGTGCTACGTAATCAAAT
1 CGCACACTCAGTGCTACATAATCAACT
* *
18341339 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTACATAATC-AACT
* ** ** *
18341367 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTCAGTGCTACATAATCAACT
* * * **
18341394 CGCACACTTAGCGC-ATCATATTCATTT
1 CGCACACTCAGTGCTA-CATAATCAACT
* * * *
18341421 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTCAGTGCTACATAATCAACT
*
18341448 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
18341463 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTCAGTGCTACATAATCAACT
Found at i:18353074 original size:27 final size:27
Alignment explanation
Indices: 18353044--18353221 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
18353034 ATATTGAGTC
* * *
18353044 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
18353071 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
18353098 CGCACACTTAGTGCTACATAGTTAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
** ** *
18353126 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
18353153 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
18353180 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
18353207 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18353222 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:18353183 original size:82 final size:81
Alignment explanation
Indices: 18353065--18353220 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
18353055 TGCTATATAA
* * *
18353065 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTTAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
18353130 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
18353147 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
18353211 CACTTAGTGC
65 CACTTAGTGC
18353221 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:18364430 original size:18 final size:16
Alignment explanation
Indices: 18364394--18364427 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18364384 ACATGTATAC
*
18364394 ATATACATATATGAAA
1 ATATACATATAAGAAA
18364410 ATATACATATAAAGAAA
1 ATATACATAT-AAGAAA
18364427 A
1 A
18364428 ATAAATACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (16 bp):
ATATACATATAAGAAA
Found at i:18364684 original size:3 final size:3
Alignment explanation
Indices: 18364676--18364731 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
18364666 ACCTCATATG
* * * *
18364676 AAT AAT AAT AAT AAT AAT AAT GAT AAT AGT AAT AGT AAT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18364724 AAT AAT AA
1 AAT AAT AA
18364732 ACTAATTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:18366173 original size:44 final size:44
Alignment explanation
Indices: 18366125--18366379 Score: 307
Period size: 44 Copynumber: 5.8 Consensus size: 44
18366115 TATAGAGACT
* ** * **
18366125 AATCTTCCACCTATTCCACTATTGGTCAAGGAGATAGGACTTGT
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
*
18366169 AATCTTCAACCTATTCCACTGCTGGTCAGGG-GCATAGGACCTAC
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAG-ATAGGACTTAC
* **
18366213 AATCTTCAACCTATTCCACCGCTGGTCAGGGAGATAGGACTTGT
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * ** * * *
18366257 GATCTTCCACCTATTCCGCTATTGGTCTGGGAAATAGGACATAC
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
*
18366301 AATCTTCAACCTATTCCACTGCTAGTCAGGGAGATAGGAC-TAC
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
*
18366344 AATCTTCAACCTATTCCGCTGCTGGTCAGGGAGATA
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATA
18366380 AGATTCGCCG
Statistics
Matches: 177, Mismatches: 32, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
43 38 0.21
44 138 0.78
45 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
Found at i:18366283 original size:88 final size:88
Alignment explanation
Indices: 18366125--18366375 Score: 342
Period size: 88 Copynumber: 2.9 Consensus size: 88
18366115 TATAGAGACT
* ** * *
18366125 AATCTTCCACCTATTCCACTATTGGTCAAGGAGATAGGACTTGTAATCTTCAACCTATTCCACTG
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTGTAATCTTCAACCTATTCCGCTG
** *
18366190 CTGGTCAGGGGCATAGGACCTAC
66 CTGGTCAGGGAAATAGGACATAC
* * * *
18366213 AATCTTCAACCTATTCCACCGCTGGTCAGGGAGATAGGACTTGTGATCTTCCACCTATTCCGCTA
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTGTAATCTTCAACCTATTCCGCTG
* *
18366278 TTGGTCTGGGAAATAGGACATAC
66 CTGGTCAGGGAAATAGGACATAC
* **
18366301 AATCTTCAACCTATTCCACTGCTAGTCAGGGAGATAGGAC-TACAATCTTCAACCTATTCCGCTG
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTGTAATCTTCAACCTATTCCGCTG
18366365 CTGGTCAGGGA
66 CTGGTCAGGGA
18366376 GATAAGATTC
Statistics
Matches: 140, Mismatches: 23, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
87 28 0.20
88 112 0.80
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (88 bp):
AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTGTAATCTTCAACCTATTCCGCTG
CTGGTCAGGGAAATAGGACATAC
Found at i:18378946 original size:3 final size:3
Alignment explanation
Indices: 18378938--18378987 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
18378928 ACCTCGTATG
* * *
18378938 AAT AAT AAT AAT GAT AAT AAT AAT AAT AGT AAT AAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18378986 AA
1 AA
18378988 ACTAATTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:18387750 original size:50 final size:50
Alignment explanation
Indices: 18387672--18387814 Score: 187
Period size: 50 Copynumber: 2.8 Consensus size: 50
18387662 ATTTGGGTAA
* *
18387672 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
18387722 AGAGGTCCCCCGTAAGACCATGTCTGGGACATAGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
18387772 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
18387815 TGTTATTATC
Statistics
Matches: 78, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 45 0.58
51 33 0.42
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:18399268 original size:24 final size:25
Alignment explanation
Indices: 18399212--18399271 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
18399202 CTTGATTGTC
*
18399212 ATTTATTATAATAAATAATTTAAAAT
1 ATTTA-TAAAATAAATAATTTAAAAT
*
18399238 -TACTATAAAATAAATAA-TTAAAAT
1 AT-TTATAAAATAAATAATTTAAAAT
18399262 ATTTATAAAA
1 ATTTATAAAA
18399272 ATATTATGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 14 0.48
25 13 0.45
26 2 0.07
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATTTATAAAATAAATAATTTAAAAT
Found at i:18399272 original size:25 final size:24
Alignment explanation
Indices: 18399212--18399274 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
18399202 CTTGATTGTC
* * *
18399212 ATTTATTATAATAAATAATTTAAA
1 ATTTATAAAAATAAATAATTAAAA
18399236 A-TTACTATAAAATAAATAATTAAAA
1 ATTTA-TA-AAAATAAATAATTAAAA
18399261 TATTTATAAAAATA
1 -ATTTATAAAAATA
18399275 TTATGATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 3 0.09
24 2 0.06
25 21 0.66
26 3 0.09
27 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTTATAAAAATAAATAATTAAAA
Found at i:18420107 original size:12 final size:13
Alignment explanation
Indices: 18420084--18420109 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18420074 TTGAATTTTG
18420084 CATTTAAAAAAAA
1 CATTTAAAAAAAA
18420097 CATTTAAAAAAAA
1 CATTTAAAAAAAA
18420110 GGGTGACAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (13 bp):
CATTTAAAAAAAA
Found at i:18421081 original size:15 final size:15
Alignment explanation
Indices: 18421063--18421094 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
18421053 ACGTTGATAG
18421063 AATACCTGACCTTCA
1 AATACCTGACCTTCA
18421078 AATACCTGACCTTCA
1 AATACCTGACCTTCA
18421093 AA
1 AA
18421095 AGACTTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.31, G:0.06, T:0.25
Consensus pattern (15 bp):
AATACCTGACCTTCA
Found at i:18427070 original size:75 final size:75
Alignment explanation
Indices: 18426951--18427209 Score: 272
Period size: 75 Copynumber: 3.5 Consensus size: 75
18426941 CTACGTTTAT
* * * ** *
18426951 AGCTGATATCTTTACTG-TTTGCTGATTTAAGATC-ACGACCCTCAGTTTTCTATTAGCTTGATG
1 AGCTGATATATTTA-TGATTCGCTGATTTAAGATCGA-AACCCTCAGTTTTCTAACAGCTCGATG
18427014 ACCTATATTCAC
64 ACCTATATTCAC
** * * * * *
18427026 ATTTGTTATATTTATGATTCGCTGATTTAAGATCGAAACTCTCAGTTTTCTAACAACTCAATGAT
1 AGCTGATATATTTATGATTCGCTGATTTAAGATCGAAACCCTCAGTTTTCTAACAGCTCGATGAC
*
18427091 CTAGATTCAC
66 CTATATTCAC
* * * * *
18427101 AGCTGATATCTTTATG-GTCTGCTGATTTAAGATCGTAACCCTCGGTTTACTAACAGCTCGATGA
1 AGCTGATATATTTATGATTC-GCTGATTTAAGATCGAAACCCTCAGTTTTCTAACAGCTCGATGA
* * *
18427165 CTTATGTTCAT
65 CCTATATTCAC
18427176 AGCTGATATATTTATGATTCGCTGATTTAAGATC
1 AGCTGATATATTTATGATTCGCTGATTTAAGATC
18427210 ACAACCTATC
Statistics
Matches: 148, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
74 4 0.03
75 141 0.95
76 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (75 bp):
AGCTGATATATTTATGATTCGCTGATTTAAGATCGAAACCCTCAGTTTTCTAACAGCTCGATGAC
CTATATTCAC
Found at i:18427330 original size:105 final size:105
Alignment explanation
Indices: 18427152--18427871 Score: 709
Period size: 105 Copynumber: 6.9 Consensus size: 105
18427142 TCGGTTTACT
* * * * * * * * *
18427152 AACAGCTCGATGACTTATGTTCATAGCTGATA-TATTTATGATTCGCTGATTTAAGATCACAACC
1 AACAACTCGATGACCTACGTTCACAGCTGATATTA-TAAAGGTTAGCTGATTTAAGATCGCAACC
* *
18427216 TATCAATCTTTGAGTTAGCTAATTTAAGATCGCAACTCCTA
65 TATCTATCTTTGAGTTAGCTGATTTAAGATCGCAACTCCTA
* * * * * * *
18427257 AACAACTCGACGACTTACGTTTACAACTAATATTATAAAGGTTAGCTGATCTAATATCGCAACCT
1 AACAACTCGATGACCTACGTTCACAGCTGATATTATAAAGGTTAGCTGATTTAAGATCGCAACCT
* * * *
18427322 ATCTATCTTTAAGTTAGTTCATTTAAGAT-G-ATGCCTCCTA
66 ATCTATCTTTGAGTTAGCTGATTTAAGATCGCA--ACTCCTA
* * * * * *
18427362 AACAACTCGATGACCTACGTTCACAGATGATATTATAAAGGTTGGTTGATTTAAGATTGTAGCCT
1 AACAACTCGATGACCTACGTTCACAGCTGATATTATAAAGGTTAGCTGATTTAAGATCGCAACCT
* * *
18427427 ATTTATCTTTGAGTTAGCTGATTTAAGATCGTAACGCCTA
66 ATCTATCTTTGAGTTAGCTGATTTAAGATCGCAACTCCTA
* * * *
18427467 AACAACTCGATGAACTACATTCACAGCTGATATTATAAAGGTTAGTTGATTTAATATCGCAACCT
1 AACAACTCGATGACCTACGTTCACAGCTGATATTATAAAGGTTAGCTGATTTAAGATCGCAACCT
* * *
18427532 ATCTATCTTTAAGTTAGCTGATTTAATATCGCAGCTCCTA
66 ATCTATCTTTGAGTTAGCTGATTTAAGATCGCAACTCCTA
* * * ** * *
18427572 AACAGCTCGATGACCTACGTTCACAGTTGATATTATAAAGGGTAATTGATTTAAGGTCGTAACCT
1 AACAACTCGATGACCTACGTTCACAGCTGATATTATAAAGGTTAGCTGATTTAAGATCGCAACCT
18427637 ATCTATCTTTGAGTTAGCTGATTTAAGATCGCAACTCCTA
66 ATCTATCTTTGAGTTAGCTGATTTAAGATCGCAACTCCTA
* * * * * * *
18427677 AATAGCTC-ACTGACCTACGTTCACGGCTGATGTTATAAAGGTTATCTGATTTAAGTTCACAACC
1 AACAACTCGA-TGACCTACGTTCACAGCTGATATTATAAAGGTTAGCTGATTTAAGATCGCAACC
** * *
18427741 TAAGTTTATTTGAGTTCA-CTGATTTAAGATCGCAACTCCT-
65 TATCTATCTTTGAGTT-AGCTGATTTAAGATCGCAACTCCTA
* * * * * * * * * *
18427781 AGCAGCTTGCTGACCTACGTTCACAGTTGATATTATTAAGGCTCGCTGATTTAATATCACAACC-
1 AACAACTCGATGACCTACGTTCACAGCTGATATTATAAAGGTTAGCTGATTTAAGATCGCAACCT
* *
18427845 -TCTAATTATTTGAGTTAGTTGATTTAA
66 ATCT-A-TCTTTGAGTTAGCTGATTTAA
18427872 TATTGCAATT
Statistics
Matches: 509, Mismatches: 95, Indels: 23
0.81 0.15 0.04
Matches are distributed among these distances:
102 1 0.00
103 2 0.00
104 70 0.14
105 431 0.85
106 4 0.01
107 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (105 bp):
AACAACTCGATGACCTACGTTCACAGCTGATATTATAAAGGTTAGCTGATTTAAGATCGCAACCT
ATCTATCTTTGAGTTAGCTGATTTAAGATCGCAACTCCTA
Found at i:18430207 original size:50 final size:50
Alignment explanation
Indices: 18430030--18430222 Score: 246
Period size: 51 Copynumber: 3.8 Consensus size: 50
18430020 TCCCTATAAA
* * * * *
18430030 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATAGATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAAAGAT-TTGGT
*
18430081 CACATGTGTAGTACTATGTGCAA-GCTACTACGTGTACCGAAAGTATTTGGT
1 CACGTGTGTAGTACTATGTG-AAGGCTACTACGTGTACCGAAAG-ATTTGGT
* * *
18430132 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAAG-TTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACC-GAAAGATTTGGT
*
18430182 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAA
18430223 TGATAATAAT
Statistics
Matches: 125, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
49 3 0.02
50 41 0.33
51 73 0.58
52 8 0.06
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAAAGATTTGGT
Found at i:18430247 original size:101 final size:102
Alignment explanation
Indices: 18430030--18430252 Score: 249
Period size: 101 Copynumber: 2.2 Consensus size: 102
18430020 TCCCTATAAA
* * * * *
18430030 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATAGATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAAAGATAATGATCACATGTGTAGTAC
* **
18430095 TATGTGCAAGCTACTACGTGTACCGAAAGTATTTGGT
66 TATGTGCAAGCTACTACGTGTACCGAAAGTAATAAGT
* *
18430132 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAAG-T-TTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACC-GAAAGATAATGATCACATGTGTAGTA
* * *
18430195 CTATGTG-AAGGCTACTACGTGTATCGAATGATAATAATT
65 CTATGTGCAA-GCTACTACGTGTACCGAAAG-TAATAAGT
*
18430234 ACACG-G-GTGGTACTATGTG
1 -CACGTGTGTAGTACTATGTG
18430253 AAAACCACCG
Statistics
Matches: 103, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
100 2 0.02
101 52 0.50
102 41 0.40
103 8 0.08
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAAAGATAATGATCACATGTGTAGTAC
TATGTGCAAGCTACTACGTGTACCGAAAGTAATAAGT
Found at i:18448704 original size:28 final size:28
Alignment explanation
Indices: 18448651--18448704 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
18448641 AAAATCAACT
*
18448651 AATAAAAATAATGAGAAAATAAATGAAA
1 AATAAAAATAAAGAGAAAATAAATGAAA
* *
18448679 AATAAAATTAAAG-GAAATTAATATGA
1 AATAAAAATAAAGAGAAAATAA-ATGA
18448705 TGAAATGAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (28 bp):
AATAAAAATAAAGAGAAAATAAATGAAA
Found at i:18454868 original size:26 final size:26
Alignment explanation
Indices: 18454804--18454862 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
18454794 TCTTAAGAAT
*
18454804 CTAACAAACTAACTAACTTGGCGAAC
1 CTAACAAACTAACTAACTAGGCGAAC
** *
18454830 CTATTAAATTAACTAACTAGGCGAAC
1 CTAACAAACTAACTAACTAGGCGAAC
18454856 CTAACAA
1 CTAACAA
18454863 GATAACCAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.44, C:0.24, G:0.10, T:0.22
Consensus pattern (26 bp):
CTAACAAACTAACTAACTAGGCGAAC
Found at i:18466254 original size:3 final size:3
Alignment explanation
Indices: 18466246--18466330 Score: 98
Period size: 3 Copynumber: 28.3 Consensus size: 3
18466236 TGTACTCTTG
* *
18466246 TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TGA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
18466294 TCA TGA TCA TTA TTA TTA TGA TTA CTA TTA CTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18466331 ATTTTCATAT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:18473748 original size:19 final size:19
Alignment explanation
Indices: 18473707--18473766 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 19
18473697 TATTTTTCAA
*
18473707 AAAAAAAGGAAAAA-ATGATG
1 AAAAAAA-GAAAAAGA-GAAG
18473727 AAAAAAAGAAAAAGAGAAG
1 AAAAAAAGAAAAAGAGAAG
*
18473746 --AAAAAG-AAAAGAAAAG
1 AAAAAAAGAAAAAGAGAAG
18473762 AAAAA
1 AAAAA
18473767 GGAGGGACCA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
16 9 0.26
17 6 0.17
18 3 0.09
19 9 0.26
20 8 0.23
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.03
Consensus pattern (19 bp):
AAAAAAAGAAAAAGAGAAG
Found at i:18473755 original size:16 final size:17
Alignment explanation
Indices: 18473729--18473767 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
18473719 AAATGATGAA
*
18473729 AAAAAGAAAAAGAGAAG
1 AAAAAGAAAAAGAAAAG
18473746 AAAAAG-AAAAGAAAAG
1 AAAAAGAAAAAGAAAAG
18473762 AAAAAG
1 AAAAAG
18473768 GAGGGACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAGAAAAG
Found at i:18473767 original size:11 final size:11
Alignment explanation
Indices: 18473730--18473765 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
18473720 AATGATGAAA
18473730 AAAAGAAAAAG
1 AAAAGAAAAAG
*
18473741 AGAAGAAAAAG
1 AAAAGAAAAAG
18473752 AAAAG-AAAAG
1 AAAAGAAAAAG
18473762 AAAA
1 AAAA
18473766 AGGAGGGACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:18473861 original size:45 final size:45
Alignment explanation
Indices: 18473776--18473860 Score: 138
Period size: 44 Copynumber: 1.9 Consensus size: 45
18473766 AGGAGGGACC
*
18473776 AAGGTGAAAATCCGCAAAAGGGCGCTTTGAGTCCTAAAAAAGACT
1 AAGGTGAAAATCCGCAAAAGGGCGCTTTGAGTCATAAAAAAGACT
18473821 AAGGTGAAAA-CCTGC-AAAGGGCGCTTTGAGTCATAAAAAA
1 AAGGTGAAAATCC-GCAAAAGGGCGCTTTGAGTCATAAAAAA
18473861 ATAATAAGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
44 26 0.68
45 12 0.32
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (45 bp):
AAGGTGAAAATCCGCAAAAGGGCGCTTTGAGTCATAAAAAAGACT
Found at i:18475888 original size:89 final size:89
Alignment explanation
Indices: 18475101--18475889 Score: 826
Period size: 89 Copynumber: 8.9 Consensus size: 89
18475091 AAGAAGATAA
* * * * * * *
18475101 CAGAACTTGTCTTCCTCTATTGACAGCGAAACAGATCGAAGACGCCAGCCTTGCCTCCCTGATTT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGTT
* * *
18475166 TGTAGCAGAGCAGACTGAAAATAG
66 TGCAGCGGAGTAGACTGAAAATAG
* * * *
18475190 CAGATCTTGTCTTCCTATATTGGCAGCGAAGAAAATCGAAGACACCAGCCTTGCCTCCCTGAGTT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGTT
* * *
18475255 TGCAACAGAGTAGA-TAGAAAATAA
66 TGCAGCGGAGTAGACT-GAAAATAG
* * * * * * *
18475279 CAGATCCTATCTTCCTATACTGGTAGCGAAGCAGATCGAAGACACCAGTCTTATCTCCCTGAGTT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGTT
* * * *
18475344 TGCAGCAGAATAGACTGACAACAG
66 TGCAGCGGAGTAGACTGAAAATAG
* * * * *
18475368 TAGATCTTATCTTCCTGTATTGGTAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGAGTT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGTT
* *
18475433 TACAGCAGAGTAGACTGAAAAT-G
66 TGCAGCGGAGTAGACTGAAAATAG
* * * * * * *
18475456 ACAGATCTTGTCTTCCTATACTGGCAGCGAAGCAGATCGAAGATACCAACCTGACCTCCCTAAAT
1 -CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGT
* *
18475521 TTACAGCGGAGTAGACTGAAGATAG
65 TTGCAGCGGAGTAGACTGAAAATAG
* * * * * *
18475546 CAGATCTTGTCTTCTTGTATTGGTAGCGAAGCAGATCCAAGACACCCGCCTAACCTCCCTTAGTT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGTT
* *
18475611 TGCAGCGGAGTAGATTGAAGATAG
66 TGCAGCGGAGTAGACTGAAAATAG
* *
18475635 CAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGCCTGACCTCCCTGAGTT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGTT
* * **
18475700 TGTAGCGGAGCAGACTGAGGATAG
66 TGCAGCGGAGTAGACTGAAAATAG
* * * * * * ** *
18475724 CAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATTGATGACACCATCCTTGCCTCTTTTAGTT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGTT
* * *
18475789 TACAGCGGAGTAGACTAAAAACAG
66 TGCAGCGGAGTAGACTGAAAATAG
* * * * * * * *
18475813 TAAATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAAACACTAGCCTTACCTCTCTGAGTT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGTT
* *
18475878 TGTAGTGGAGTA
66 TGCAGCGGAGTA
18475890 TGTTGAAGAT
Statistics
Matches: 586, Mismatches: 110, Indels: 8
0.83 0.16 0.01
Matches are distributed among these distances:
88 2 0.00
89 582 0.99
90 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (89 bp):
CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGTT
TGCAGCGGAGTAGACTGAAAATAG
Found at i:18475898 original size:267 final size:267
Alignment explanation
Indices: 18475093--18475899 Score: 924
Period size: 267 Copynumber: 3.0 Consensus size: 267
18475083 GTGGATTGAA
* * * * * *
18475093 GAAGATAACAGAACTTGTCTTCCTCTATTGACAGCGAAACAGATCGAAGACGCCAGCCTTGCCTC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
*
18475158 CCTGATTTTGTAGCAGAGCAGACTGAAAATAGCAGATCTTGTCTTCCTATATTGGCAGCGAAGAA
66 CCTGAGTTTGTAGCAGAGCAGACTGAAAATAGCAGATCTTGTCTTCCTATATTGGCAGCGAAGAA
* * * * * * * *
18475223 AATCGAAGACACCAGCCTTGCCTCCCTGAGTTTGCAACAGAGTAGA-TAGAAAATAACAGATCCT
131 GATCGAAGACACCAACCTTGCCTCCCTAAGTTTACAGCGGAGTAGACTA-AAAATAGCAGATCTT
* * * * * *
18475287 ATCTTCCTATACTGGTAGCGAAGCAGATCGAAGACACCAGTCTTATCTCCCTGAGTTTGCAGCAG
195 GTCTTCCTGTACTGGTAGCGAAGCAGATCAAAGACACCAGCCTTACCTCCCTGAGTTTGCAGCGG
* *
18475352 AATAGACT
260 AGTAGATT
* * * * *
18475360 GACA-ACAGTAGATCTTATCTTCCTGTATTGGTAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
1 GA-AGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
** * *
18475424 CCCTGAGTTTACAGCAGAGTAGACTGAAAAT-GACAGATCTTGTCTTCCTATACTGGCAGCGAAG
65 CCCTGAGTTTGTAGCAGAGCAGACTGAAAATAG-CAGATCTTGTCTTCCTATATTGGCAGCGAAG
* * * * *
18475488 CAGATCGAAGATACCAACC-TGACCTCCCTAAATTTACAGCGGAGTAGACTGAAGATAGCAGATC
129 AAGATCGAAGACACCAACCTTG-CCTCCCTAAGTTTACAGCGGAGTAGACTAAAAATAGCAGATC
* * * * * *
18475552 TTGTCTTCTTGTATTGGTAGCGAAGCAGATCCAAGACACCCGCCTAACCTCCCTTAGTTTGCAGC
193 TTGTCTTCCTGTACTGGTAGCGAAGCAGATCAAAGACACCAGCCTTACCTCCCTGAGTTTGCAGC
18475617 GGAGTAGATT
258 GGAGTAGATT
*
18475627 GAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGCC-TGACCT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTG-CCT
* ** * * *
18475691 CCCTGAGTTTGTAGCGGAGCAGACTGAGGATAGCAGATCTTATCTTCCTGTATTGGCAGCGAAGT
65 CCCTGAGTTTGTAGCAGAGCAGACTGAAAATAGCAGATCTTGTCTTCCTATATTGGCAGCGAAGA
* * * ** * * * *
18475756 AGATTGATGACACCATCCTTGCCTCTTTTAGTTTACAGCGGAGTAGACTAAAAACAGTAAATCTT
130 AGATCGAAGACACCAACCTTGCCTCCCTAAGTTTACAGCGGAGTAGACTAAAAATAGCAGATCTT
* * * * * * *
18475821 GTCTTCCTGTACTGGCAGCGAAGTAGATCAAAAACACTAGCCTTACCTCTCTGAGTTTGTAGTGG
195 GTCTTCCTGTACTGGTAGCGAAGCAGATCAAAGACACCAGCCTTACCTCCCTGAGTTTGCAGCGG
18475886 AGTATG-TT
260 AGTA-GATT
18475894 GAAGAT
1 GAAGAT
18475900 TGTAGATCCT
Statistics
Matches: 447, Mismatches: 84, Indels: 18
0.81 0.15 0.03
Matches are distributed among these distances:
266 6 0.01
267 435 0.97
268 6 0.01
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (267 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
CCTGAGTTTGTAGCAGAGCAGACTGAAAATAGCAGATCTTGTCTTCCTATATTGGCAGCGAAGAA
GATCGAAGACACCAACCTTGCCTCCCTAAGTTTACAGCGGAGTAGACTAAAAATAGCAGATCTTG
TCTTCCTGTACTGGTAGCGAAGCAGATCAAAGACACCAGCCTTACCTCCCTGAGTTTGCAGCGGA
GTAGATT
Found at i:18476165 original size:51 final size:51
Alignment explanation
Indices: 18476076--18476268 Score: 180
Period size: 51 Copynumber: 3.9 Consensus size: 51
18476066 GGTCGAAGAA
* * * *
18476076 AGCGAATCTTATTTCCCTGGTGTTGCAGTGGAATAGATTAAAGCTTAAGGC
1 AGCGAATCTCATTTCCCTGGCGTTGCAGTGGAGTAGATTAAAGCTAAAGGC
* * * * *
18476127 AACGAATCTCATTTCCTTGGCGTTGCAATGGAGCAGATTAAAGCTGAAGGC
1 AGCGAATCTCATTTCCCTGGCGTTGCAGTGGAGTAGATTAAAGCTAAAGGC
* * * *
18476178 AGCAAATCTTATCTCCCTGGCG-T-C-GT--AGTAGATTAAAGCTAAAGGT
1 AGCGAATCTCATTTCCCTGGCGTTGCAGTGGAGTAGATTAAAGCTAAAGGC
* * * * * *
18476224 AGCGAGTCTCATTTACTTGGCATTCCAGTGGAGAAGATTAAAGCT
1 AGCGAATCTCATTTCCCTGGCGTTGCAGTGGAGTAGATTAAAGCT
18476269 GAAGATAGCT
Statistics
Matches: 112, Mismatches: 25, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
46 32 0.29
47 1 0.01
48 2 0.02
49 3 0.03
50 1 0.01
51 73 0.65
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (51 bp):
AGCGAATCTCATTTCCCTGGCGTTGCAGTGGAGTAGATTAAAGCTAAAGGC
Found at i:18476234 original size:97 final size:97
Alignment explanation
Indices: 18476109--18476286 Score: 248
Period size: 97 Copynumber: 1.8 Consensus size: 97
18476099 TGCAGTGGAA
* * * * *
18476109 TAGATTAAAGCTTAAGGCAACGAATCTCATTTCCTTGGCGTTGCAATGGAGCAGATTAAAGCTGA
1 TAGATTAAAGCTAAAGGCAACGAATCTCATTTACTTGGCATTCCAATGGAGAAGATTAAAGCTGA
*
18476174 AGGCAGCAAATCTTATCTCCCTGGCGTCGTAG
66 AGACAGCAAATCTTATCTCCCTGGCGTCGTAG
* * * *
18476206 TAGATTAAAGCTAAAGGTAGCGAGTCTCATTTACTTGGCATTCCAGTGGAGAAGATTAAAGCTGA
1 TAGATTAAAGCTAAAGGCAACGAATCTCATTTACTTGGCATTCCAATGGAGAAGATTAAAGCTGA
* *
18476271 AGATAGCTAATCTTAT
66 AGACAGCAAATCTTAT
18476287 ATCTCTGACG
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
97 69 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (97 bp):
TAGATTAAAGCTAAAGGCAACGAATCTCATTTACTTGGCATTCCAATGGAGAAGATTAAAGCTGA
AGACAGCAAATCTTATCTCCCTGGCGTCGTAG
Found at i:18477914 original size:3 final size:3
Alignment explanation
Indices: 18477906--18477939 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
18477896 TGTACTCTTG
18477906 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18477940 CACTATTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18478075 original size:20 final size:19
Alignment explanation
Indices: 18478038--18478085 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
18478028 ATATGTTATC
18478038 ATTTAATTTTATAATATACT
1 ATTTAATTTTATAATATA-T
**
18478058 ATTTAATTTTATTTTATAT
1 ATTTAATTTTATAATATAT
18478077 ATATTAATT
1 AT-TTAATT
18478086 CAACGTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTAATTTTATAATATAT
Found at i:18491650 original size:44 final size:45
Alignment explanation
Indices: 18491599--18491695 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 45
18491589 TGTAAAACTT
* ** * *
18491599 TTGTTGTGCACCCACAGCCAGAGTTAGATTTCATCTGC-GGGTAC
1 TTGTTGTGCACCCACAACCAGAGGCAGATTCCATCTGCAGGGTAA
* * *
18491643 TTGTTGTGTATCCACAACCAGAGGCAGATTCCATCTGCAGGTTAA
1 TTGTTGTGCACCCACAACCAGAGGCAGATTCCATCTGCAGGGTAA
18491688 TTGTTGTG
1 TTGTTGTG
18491696 TAATTTACAA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 32 0.73
45 12 0.27
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (45 bp):
TTGTTGTGCACCCACAACCAGAGGCAGATTCCATCTGCAGGGTAA
Found at i:18494436 original size:24 final size:24
Alignment explanation
Indices: 18494385--18494436 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
18494375 TTTAAAATTT
* * *
18494385 ATTAATATAATATATTTAGCATTT
1 ATTAACATAACATATTTAGCATTG
18494409 ATTAACATAACATATTT-GACATTG
1 ATTAACATAACATATTTAG-CATTG
18494433 ATTA
1 ATTA
18494437 TAATTAGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (24 bp):
ATTAACATAACATATTTAGCATTG
Found at i:18495840 original size:24 final size:23
Alignment explanation
Indices: 18495803--18495847 Score: 81
Period size: 24 Copynumber: 1.9 Consensus size: 23
18495793 GAAGAATATG
18495803 AGAAGAGAGAAAAATAAAGAAGA
1 AGAAGAGAGAAAAATAAAGAAGA
18495826 AGAAGAAGAGAAAAATAAAGAA
1 AGAAG-AGAGAAAAATAAAGAA
18495848 ATAAAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.04
Consensus pattern (23 bp):
AGAAGAGAGAAAAATAAAGAAGA
Found at i:18498308 original size:45 final size:45
Alignment explanation
Indices: 18498231--18498326 Score: 115
Period size: 45 Copynumber: 2.2 Consensus size: 45
18498221 GATAGATAAA
* * *
18498231 ATATAA-ATTAATCTAAAATTTTAAATATATTTTAAATATTTAAT
1 ATATAATATTAATCTAAAATTTTAAATACATTTTAAATAATGAAT
* * * *
18498275 ATATAATATTCATCTAAATTTTTATATCCATTTTAAATAATGAAT
1 ATATAATATTAATCTAAAATTTTAAATACATTTTAAATAATGAAT
18498320 ATA-AATA
1 ATATAATA
18498327 AGATTATTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 10 0.23
45 34 0.77
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.46
Consensus pattern (45 bp):
ATATAATATTAATCTAAAATTTTAAATACATTTTAAATAATGAAT
Found at i:18514927 original size:13 final size:13
Alignment explanation
Indices: 18514909--18514933 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18514899 NNNNNNNNNN
18514909 CTCGCACGAATGA
1 CTCGCACGAATGA
18514922 CTCGCACGAATG
1 CTCGCACGAATG
18514934 CCTTCGGGAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.16
Consensus pattern (13 bp):
CTCGCACGAATGA
Found at i:18514977 original size:40 final size:39
Alignment explanation
Indices: 18514921--18515033 Score: 113
Period size: 40 Copynumber: 2.8 Consensus size: 39
18514911 CGCACGAATG
* * *
18514921 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGT-
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTC
* *
18514960 ATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTC
1 A-CTCGCACAAA-GCCTTCGGGA-CTTAGCCCGGATATAGTC
*
18515001 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
18515034 CAGCATTCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
39 6 0.10
40 43 0.70
41 12 0.20
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTC
Found at i:18515042 original size:41 final size:41
Alignment explanation
Indices: 18514965--18515042 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
18514955 TTAGTATCTC
* * *
18514965 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
18515006 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
18515043 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:18522081 original size:14 final size:14
Alignment explanation
Indices: 18522062--18522095 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
18522052 TTAAGAAATG
18522062 TAATTAATCAAACA
1 TAATTAATCAAACA
18522076 TAATTAATCAAACA
1 TAATTAATCAAACA
*
18522090 CAATTA
1 TAATTA
18522096 TGTCTTCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (14 bp):
TAATTAATCAAACA
Found at i:18527634 original size:17 final size:18
Alignment explanation
Indices: 18527601--18527634 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18527591 ATTCTTTTGC
*
18527601 TATTTCTTTTGTCACTCG
1 TATTTCTGTTGTCACTCG
18527619 TATTTCTGTT-TCACTC
1 TATTTCTGTTGTCACTC
18527635 TCGTCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.12, C:0.24, G:0.09, T:0.56
Consensus pattern (18 bp):
TATTTCTGTTGTCACTCG
Found at i:18527667 original size:13 final size:14
Alignment explanation
Indices: 18527641--18527678 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
18527631 ACTCTCGTCA
*
18527641 TTCTTTTCTTTCTTT
1 TTCTTTT-TCTCTTT
18527656 TT-TTTTTCTCTTT
1 TTCTTTTTCTCTTT
18527669 TTCTTTTTCT
1 TTCTTTTTCT
18527679 TGCTGATGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 8 0.38
14 11 0.52
15 2 0.10
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTCTTTTTCTCTTT
Found at i:18529217 original size:36 final size:36
Alignment explanation
Indices: 18529177--18529245 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
18529167 TTTGGGGGTC
*
18529177 TCTGACGCGTTGTCCTCCTTCGCCTAATTGTTCGTT
1 TCTGACGCGTTGTACTCCTTCGCCTAATTGTTCGTT
*
18529213 TCTGACGCGTTGTACTTCTTCGCCTAATTGTTC
1 TCTGACGCGTTGTACTCCTTCGCCTAATTGTTC
18529246 CAATTTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.10, C:0.29, G:0.19, T:0.42
Consensus pattern (36 bp):
TCTGACGCGTTGTACTCCTTCGCCTAATTGTTCGTT
Found at i:18529823 original size:8 final size:9
Alignment explanation
Indices: 18529810--18529845 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
18529800 TAAATTTTGA
18529810 ATTTTTTTT
1 ATTTTTTTT
18529819 ATTTTTTTT
1 ATTTTTTTT
18529828 ATTTTTTTCT
1 ATTTTTTT-T
*
18529838 CTTTTTTT
1 ATTTTTTT
18529846 ACAATATCGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.08, C:0.06, G:0.00, T:0.86
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:18529842 original size:18 final size:17
Alignment explanation
Indices: 18529812--18529846 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
18529802 AATTTTGAAT
18529812 TTTTTTTATTTTTTTTA
1 TTTTTTTATTTTTTTTA
*
18529829 TTTTTTTCTCTTTTTTTA
1 TTTTTTTAT-TTTTTTTA
18529847 CAATATCGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTTTATTTTTTTTA
Found at i:18541249 original size:3 final size:3
Alignment explanation
Indices: 18541236--18541307 Score: 69
Period size: 3 Copynumber: 24.0 Consensus size: 3
18541226 GCATGTATAT
*
18541236 ATA AGA ATA ATA ATA ATA ATA ATA ATA AT- ATA CGAT- ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA AT-A ATA
* *
18541282 ATA ATA ATA ATA A-A CTA ATA AGA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
18541308 TAGACAATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
2 5 0.09
3 47 0.82
4 3 0.05
5 2 0.04
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:18542441 original size:34 final size:35
Alignment explanation
Indices: 18542379--18542447 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
18542369 TCATAAATCT
18542379 TGGGTTTTTAAGAGAAAAGAAGTGAAACTGAAGAG
1 TGGGTTTTTAAGAGAAAAGAAGTGAAACTGAAGAG
18542414 TGGGTTTTTAAGAGAAAA-AAGTGAAACTGAAGAG
1 TGGGTTTTTAAGAGAAAAGAAGTGAAACTGAAGAG
18542448 AGCGAGAGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 16 0.47
35 18 0.53
ACGTcount: A:0.43, C:0.03, G:0.30, T:0.23
Consensus pattern (35 bp):
TGGGTTTTTAAGAGAAAAGAAGTGAAACTGAAGAG
Found at i:18544521 original size:34 final size:34
Alignment explanation
Indices: 18544478--18544546 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
18544468 CCATTTCAAA
18544478 TCATCTCCTGCTCAGTCTTATCACCAATGGCAAT
1 TCATCTCCTGCTCAGTCTTATCACCAATGGCAAT
18544512 TCATCTCCTGCTCAGTCTTATCACCAATGGCAAT
1 TCATCTCCTGCTCAGTCTTATCACCAATGGCAAT
18544546 T
1 T
18544547 TCCAGTCACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.23, C:0.32, G:0.12, T:0.33
Consensus pattern (34 bp):
TCATCTCCTGCTCAGTCTTATCACCAATGGCAAT
Found at i:18548355 original size:107 final size:107
Alignment explanation
Indices: 18548169--18548386 Score: 400
Period size: 107 Copynumber: 2.0 Consensus size: 107
18548159 CATTGTATTT
*
18548169 TATCCTTTCAATAATTTCAAAACGAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCT
1 TATCCTTTCAATAATTTCAAAACGAGGCAATGTTTTGCGTTAGGAAATTCGAGAAAACGTGCCCT
* *
18548234 AACGTGCTGGGTTTCGATTTCTCGTTCGACCAAATGGCCAAA
66 AACGTGCTGGGTTTCGATTTCTCATTCGACCAAATAGCCAAA
18548276 TATCCTTTCAATAATTTCAAAACGAGGCAATGTTTTGCGTTAGGAAATTCGAGAAAACGTGCCCT
1 TATCCTTTCAATAATTTCAAAACGAGGCAATGTTTTGCGTTAGGAAATTCGAGAAAACGTGCCCT
*
18548341 AACGTGCTGGGTTTCGATTTCTCATTCGACTAAATAGCCAAA
66 AACGTGCTGGGTTTCGATTTCTCATTCGACCAAATAGCCAAA
18548383 TATC
1 TATC
18548387 TTTTTAAAAC
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 107 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (107 bp):
TATCCTTTCAATAATTTCAAAACGAGGCAATGTTTTGCGTTAGGAAATTCGAGAAAACGTGCCCT
AACGTGCTGGGTTTCGATTTCTCATTCGACCAAATAGCCAAA
Found at i:18551227 original size:1 final size:1
Alignment explanation
Indices: 18551221--18551291 Score: 70
Period size: 1 Copynumber: 71.0 Consensus size: 1
18551211 CAGTGGAGGC
* * * * * * * *
18551221 AAAAAAAAACAAAAAACAAAAAACAAAAAAAAAACAAAAAAACAAAAAAAAAACAAAAACAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
18551286 AAAAAA
1 AAAAAA
18551292 CATCTACCGG
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.89, C:0.10, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:18551249 original size:25 final size:24
Alignment explanation
Indices: 18551221--18551284 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 24
18551211 CAGTGGAGGC
18551221 AAAAAAAAACAAAAAACAAAAAACA
1 AAAAAAAAACAAAAAACAAAAAA-A
18551246 AAAAAAAAACAAAAAAACAAAAAAA
1 AAAAAAAAAC-AAAAAACAAAAAAA
*
18551271 AAACAAAAACAAAA
1 AAAAAAAAACAAAA
18551285 GAAAAAACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
24 4 0.11
25 20 0.54
26 13 0.35
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (24 bp):
AAAAAAAAACAAAAAACAAAAAAA
Found at i:18551252 original size:11 final size:11
Alignment explanation
Indices: 18551221--18551291 Score: 83
Period size: 11 Copynumber: 6.5 Consensus size: 11
18551211 CAGTGGAGGC
18551221 AAAAAAAAACA
1 AAAAAAAAACA
18551232 AAAAACAAAA-A
1 AAAAA-AAAACA
18551243 ACAAAAAAAA-A
1 A-AAAAAAAACA
*
18551254 ACAAAAAAACA
1 AAAAAAAAACA
18551265 AAAAAAAAACA
1 AAAAAAAAACA
* *
18551276 AAAACAAAAGA
1 AAAAAAAAACA
18551287 AAAAA
1 AAAAA
18551292 CATCTACCGG
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
10 7 0.13
11 37 0.71
12 8 0.15
ACGTcount: A:0.89, C:0.10, G:0.01, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:18551252 original size:18 final size:18
Alignment explanation
Indices: 18551220--18551293 Score: 107
Period size: 19 Copynumber: 4.1 Consensus size: 18
18551210 TCAGTGGAGG
*
18551220 CAAAAAA-AAACAAAAAA
1 CAAAAAACAAAAAAAAAA
18551237 CAAAAAACAAAAAAAAAA
1 CAAAAAACAAAAAAAAAA
18551255 CAAAAAAACAAAAAAAAAA
1 C-AAAAAACAAAAAAAAAA
18551274 C-AAAAACAAAAGAAAAAA
1 CAAAAAACAAAA-AAAAAA
18551292 CA
1 CA
18551294 TCTACCGGGG
Statistics
Matches: 52, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
17 17 0.33
18 17 0.33
19 18 0.35
ACGTcount: A:0.86, C:0.12, G:0.01, T:0.00
Consensus pattern (18 bp):
CAAAAAACAAAAAAAAAA
Found at i:18551768 original size:13 final size:13
Alignment explanation
Indices: 18551726--18551771 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
18551716 AACTTCACTT
*
18551726 GAAAAAAAAGAAAC
1 GAAAAAGAA-AAAC
18551740 -AAAAAGAAAAAC
1 GAAAAAGAAAAAC
18551752 GAAAAAGAAAAGA-
1 GAAAAAGAAAA-AC
18551765 GAAAAAG
1 GAAAAAG
18551772 GAGAGGCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 4 0.14
13 24 0.83
14 1 0.03
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.00
Consensus pattern (13 bp):
GAAAAAGAAAAAC
Found at i:18554811 original size:107 final size:107
Alignment explanation
Indices: 18554625--18554846 Score: 399
Period size: 107 Copynumber: 2.1 Consensus size: 107
18554615 CATTGTATTT
*
18554625 TATCCTTTCAATAATTTCAAAACGAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCT
1 TATCCTTTCAATAATTTCAAAACGAGGCAATGTTTTGCGTTAGGAAATTCGAGAAAACGTGCCCT
* *
18554690 AACGTGTTGGGTTTCGATTTCTCGTTCAACCAAATGGCCAAA
66 AACGTGCTGGGTTTCGATTTCTCGTTCAACCAAATAGCCAAA
18554732 TATCCTTTCAATAATTTCAAAACGAGGCAATGTTTTGCGTTAGGAAATTCGAGAAAACGTGCCCT
1 TATCCTTTCAATAATTTCAAAACGAGGCAATGTTTTGCGTTAGGAAATTCGAGAAAACGTGCCCT
* *
18554797 AACGTGCTGGGTTTCGATTTCTCGTTCGACTAAATAGCCAAA
66 AACGTGCTGGGTTTCGATTTCTCGTTCAACCAAATAGCCAAA
18554839 TATCCTTT
1 TATCCTTT
18554847 TAAAACTTCA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 110 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (107 bp):
TATCCTTTCAATAATTTCAAAACGAGGCAATGTTTTGCGTTAGGAAATTCGAGAAAACGTGCCCT
AACGTGCTGGGTTTCGATTTCTCGTTCAACCAAATAGCCAAA
Found at i:18560910 original size:18 final size:17
Alignment explanation
Indices: 18560882--18560916 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18560872 ATTTTTAAGA
*
18560882 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18560899 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18560917 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18561170 original size:16 final size:16
Alignment explanation
Indices: 18561149--18561187 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18561139 TTGATTTGCT
*
18561149 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
18561165 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
18561181 ATTACAC
1 ATTACAC
18561188 CTCTAATCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:18561188 original size:16 final size:16
Alignment explanation
Indices: 18561162--18561218 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
18561152 ACACAGCTTT
* *
18561162 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
18561178 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
*
18561194 TCTAATACACCTCTAA
1 TCCAATACACCTCTAA
18561210 TCCAATACA
1 TCCAATACA
18561219 GCGAACCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.32
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:18565405 original size:13 final size:13
Alignment explanation
Indices: 18565387--18565436 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
18565377 AAGTTATATA
*
18565387 AAATAATTAAAAT
1 AAATAACTAAAAT
18565400 AAATAACTAAAAT
1 AAATAACTAAAAT
18565413 -AAT---TAAAAT
1 AAATAACTAAAAT
18565422 AAATAACTAAAAT
1 AAATAACTAAAAT
18565435 AA
1 AA
18565437 TTAAAATAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
9 6 0.19
10 3 0.09
12 3 0.09
13 20 0.62
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATAACTAAAAT
Found at i:18565410 original size:22 final size:22
Alignment explanation
Indices: 18565385--18565454 Score: 124
Period size: 22 Copynumber: 3.2 Consensus size: 22
18565375 CCAAGTTATA
18565385 TAAAATAATTAAAATAAATAAC
1 TAAAATAATTAAAATAAATAAC
18565407 TAAAATAATTAAAATAAATAAC
1 TAAAATAATTAAAATAAATAAC
18565429 TAAAATAATTAAAATAGAATAA-
1 TAAAATAATTAAAATA-AATAAC
18565451 TAAA
1 TAAA
18565455 TCTACGATTA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
22 42 0.89
23 5 0.11
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (22 bp):
TAAAATAATTAAAATAAATAAC
Found at i:18565933 original size:8 final size:8
Alignment explanation
Indices: 18565920--18565951 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
18565910 AAAAATTTGG
18565920 AATAATAA
1 AATAATAA
18565928 AATAATAA
1 AATAATAA
18565936 AATAATAA
1 AATAATAA
18565944 AATAATAA
1 AATAATAA
18565952 GAGCTGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AATAATAA
Found at i:18573712 original size:43 final size:43
Alignment explanation
Indices: 18573664--18573861 Score: 212
Period size: 43 Copynumber: 4.7 Consensus size: 43
18573654 ATTTTATGTG
18573664 AAAGGGGTTGCTAAGTGTTGATTCCACCGTAT-ATTTGATTGT
1 AAAGGGGTTGCTAAGTGTTGATTCCACCGTATCATTTGATTGT
* * * *
18573706 AAAAGGGGTTGCTATGTGTTGATTCC-CCGTATCA-CTGAATAT
1 -AAAGGGGTTGCTAAGTGTTGATTCCACCGTATCATTTGATTGT
*
18573748 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATC-TTTGATTGT
1 AAAGG-GGTTGCTAAGTGTTGATTCCACCGTATCATTTGATTGT
* * * **
18573791 GAAAGGGGTTGCTATGTGCTGATTCC-CCGTATCACTAAATT-T
1 -AAAGGGGTTGCTAAGTGTTGATTCCACCGTATCATTTGATTGT
*
18573833 -AAGGTGGTTGCTAAGTGTTGAATCCACCG
1 AAAGG-GGTTGCTAAGTGTTGATTCCACCG
18573862 AGTAATGGAT
Statistics
Matches: 131, Mismatches: 16, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
40 4 0.03
41 22 0.17
42 40 0.31
43 60 0.46
44 5 0.04
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
AAAGGGGTTGCTAAGTGTTGATTCCACCGTATCATTTGATTGT
Done.