Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 54 of 228
Found at i:16176748 original size:24 final size:24
Alignment explanation
Indices: 16176712--16176766 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
16176702 TCATTTTTCT
*
16176712 CCTCAAATTTTTCCCCAAAATTCC
1 CCTCAAATATTTCCCCAAAATTCC
*
16176736 CCTCCAATATTTCCCCAAAATTCC
1 CCTCAAATATTTCCCCAAAATTCC
16176760 CC-CAAAT
1 CCTCAAAT
16176767 CTAGAACCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.31, C:0.40, G:0.00, T:0.29
Consensus pattern (24 bp):
CCTCAAATATTTCCCCAAAATTCC
Found at i:16177156 original size:12 final size:12
Alignment explanation
Indices: 16177139--16177163 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16177129 AGTTTGAAAC
16177139 TGTTCATAATTT
1 TGTTCATAATTT
16177151 TGTTCATAATTT
1 TGTTCATAATTT
16177163 T
1 T
16177164 CATTATCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TGTTCATAATTT
Found at i:16178306 original size:69 final size:69
Alignment explanation
Indices: 16178226--16178367 Score: 248
Period size: 69 Copynumber: 2.1 Consensus size: 69
16178216 AAATTTTATT
* *
16178226 AATAATAAATTTTATACTTTTAAAAATAATTGTAAATGTTATTTTTTAAATATTAAAACCTATAT
1 AATAATAAATTTTATAATTTTAAAAATAATTGTAAATGATATTTTTTAAATATTAAAACCTATAT
16178291 TTTC
66 TTTC
*
16178295 AATAATAAATTTTATAATTTTAAAAATAATTGTAAATGATATTTTTTAAATATTAACACCTATAT
1 AATAATAAATTTTATAATTTTAAAAATAATTGTAAATGATATTTTTTAAATATTAAAACCTATAT
*
16178360 TTTT
66 TTTC
16178364 AATA
1 AATA
16178368 TATCACCCCA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (69 bp):
AATAATAAATTTTATAATTTTAAAAATAATTGTAAATGATATTTTTTAAATATTAAAACCTATAT
TTTC
Found at i:16178536 original size:8 final size:8
Alignment explanation
Indices: 16178523--16178568 Score: 64
Period size: 8 Copynumber: 6.2 Consensus size: 8
16178513 CATATAACTT
16178523 ACATAATA
1 ACATAATA
16178531 ACATAATA
1 ACATAATA
16178539 ACATAATA
1 ACATAATA
16178547 AC-T--T-
1 ACATAATA
16178551 ACATAATA
1 ACATAATA
16178559 ACATAATA
1 ACATAATA
16178567 AC
1 AC
16178569 TTATATATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
4 2 0.06
5 2 0.06
7 2 0.06
8 28 0.82
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (8 bp):
ACATAATA
Found at i:16178539 original size:20 final size:20
Alignment explanation
Indices: 16178531--16178647 Score: 130
Period size: 20 Copynumber: 5.7 Consensus size: 20
16178521 TTACATAATA
16178531 ACATAATAACATAATAACTT
1 ACATAATAACATAATAACTT
16178551 ACATAATAACATAATAACTT
1 ACATAATAACATAATAACTT
* * *
16178571 ATAT-ATAAACTTGCATAACTT
1 ACATAAT-AACAT-AATAACTT
* *
16178592 ACATAATAAAACTTGCATAACTT
1 ACATAAT--AACAT-AATAACTT
16178615 ACATAATAACATAATAACTT
1 ACATAATAACATAATAACTT
16178635 ACATAAT-ACATAA
1 ACATAATAACATAA
16178648 CTTACATTAT
Statistics
Matches: 87, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
19 8 0.09
20 41 0.47
21 14 0.16
22 2 0.02
23 22 0.25
ACGTcount: A:0.52, C:0.15, G:0.02, T:0.31
Consensus pattern (20 bp):
ACATAATAACATAATAACTT
Found at i:16178556 original size:12 final size:12
Alignment explanation
Indices: 16178512--16178642 Score: 60
Period size: 12 Copynumber: 11.7 Consensus size: 12
16178502 AAATTTTGTA
16178512 ACAT-ATAACTT
1 ACATAATAACTT
16178523 ACATAATAACATAAT
1 ACATAATAAC-T--T
16178538 AACATAATAACTT
1 -ACATAATAACTT
16178551 ACATAAT-A---
1 ACATAATAACTT
16178559 ACATAATAACTT
1 ACATAATAACTT
*
16178571 ATAT-ATAAACTT
1 ACATAAT-AACTT
*
16178583 GC---ATAACTT
1 ACATAATAACTT
16178592 ACATAATAAAACTT
1 ACATAAT--AACTT
*
16178606 GC---ATAACTT
1 ACATAATAACTT
16178615 ACATAAT-A---
1 ACATAATAACTT
16178623 ACATAATAACTT
1 ACATAATAACTT
16178635 ACATAATA
1 ACATAATA
16178643 CATAACTTAC
Statistics
Matches: 92, Mismatches: 6, Indels: 43
0.65 0.04 0.30
Matches are distributed among these distances:
8 14 0.15
9 14 0.15
10 2 0.02
11 10 0.11
12 32 0.35
13 2 0.02
14 6 0.07
15 2 0.02
16 10 0.11
ACGTcount: A:0.52, C:0.15, G:0.02, T:0.31
Consensus pattern (12 bp):
ACATAATAACTT
Found at i:16178590 original size:21 final size:23
Alignment explanation
Indices: 16178544--16178623 Score: 98
Period size: 23 Copynumber: 3.7 Consensus size: 23
16178534 TAATAACATA
* *
16178544 ATAACTTACATAAT--AACAT-A
1 ATAACTTACATAATAAAACTTGC
*
16178564 ATAACTTATAT-AT-AAACTTGC
1 ATAACTTACATAATAAAACTTGC
16178585 ATAACTTACATAATAAAACTTGC
1 ATAACTTACATAATAAAACTTGC
16178608 ATAACTTACATAATAA
1 ATAACTTACATAATAA
16178624 CATAATAACT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
19 2 0.04
20 14 0.27
21 10 0.19
22 2 0.04
23 24 0.46
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.33
Consensus pattern (23 bp):
ATAACTTACATAATAAAACTTGC
Found at i:16178596 original size:9 final size:9
Alignment explanation
Indices: 16178578--16178837 Score: 145
Period size: 9 Copynumber: 30.7 Consensus size: 9
16178568 CTTATATATA
*
16178578 AACTTGCAT
1 AACTTACAT
16178587 AACTTACAT
1 AACTTACAT
16178596 AA--TA-A-
1 AACTTACAT
*
16178601 AACTTGCAT
1 AACTTACAT
16178610 AACTTACAT
1 AACTTACAT
*
16178619 AA-TAACATAAT
1 AACTTAC---AT
16178630 AACTTACAT
1 AACTTACAT
16178639 AA--TACAT
1 AACTTACAT
16178646 AACTTACAT
1 AACTTACAT
* *
16178655 TA--TACAC
1 AACTTACAT
16178662 AACTTACAT
1 AACTTACAT
16178671 AACTTA-ATT
1 AACTTACA-T
16178680 AA-TTA-AT
1 AACTTACAT
* *
16178687 -ATTATATAT
1 AACT-TACAT
16178696 AACTTACAT
1 AACTTACAT
16178705 AACTTAC--
1 AACTTACAT
16178712 AACTTACAT
1 AACTTACAT
16178721 AACTTA-ATT
1 AACTTACA-T
* *
16178730 ACATTATACAC
1 A-ACT-TACAT
16178741 AACTTACAT
1 AACTTACAT
*
16178750 AACATACAT
1 AACTTACAT
*
16178759 AA--TATAT
1 AACTTACAT
* * *
16178766 TACATACGT
1 AACTTACAT
16178775 AACTTACAT
1 AACTTACAT
16178784 AA--TACAT
1 AACTTACAT
16178791 AACTTACAT
1 AACTTACAT
16178800 AA--TACAT
1 AACTTACAT
*
16178807 AGCTTACAT
1 AACTTACAT
16178816 AA--TACAT
1 AACTTACAT
16178823 AACTTACAT
1 AACTTACAT
16178832 AACTTA
1 AACTTA
16178838 TATGTGCTAT
Statistics
Matches: 195, Mismatches: 25, Indels: 62
0.69 0.09 0.22
Matches are distributed among these distances:
5 2 0.01
6 2 0.01
7 49 0.25
8 12 0.06
9 113 0.58
10 6 0.03
11 7 0.04
12 4 0.02
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:16178649 original size:16 final size:16
Alignment explanation
Indices: 16178607--16178833 Score: 168
Period size: 16 Copynumber: 13.9 Consensus size: 16
16178597 ATAAAACTTG
16178607 CATAACTTACATAATAA
1 CATAACTTACATAAT-A
16178624 CATAATAACTTACATAATA
1 C---ATAACTTACATAATA
*
16178643 CATAACTTACATTATA
1 CATAACTTACATAATA
*
16178659 CACAACTTACATAACTTA
1 CATAACTTACATAA--TA
16178677 -ATTAA-TTA-ATATTATA
1 CA-TAACTTACATA--ATA
*
16178693 TATAACTTACATAACTTA
1 CATAACTTACATAA--TA
16178711 C--AACTTACAT-A-A
1 CATAACTTACATAATA
* *
16178723 CTTAA-TTACATTATA
1 CATAACTTACATAATA
*
16178738 CACAACTTACATAACATA
1 CATAACTTACAT-A-ATA
*
16178756 CATAA-TATA-TTACATA
1 CATAACT-TACATA-ATA
*
16178772 CGTAACTTACATAATA
1 CATAACTTACATAATA
16178788 CATAACTTACATAATA
1 CATAACTTACATAATA
*
16178804 CATAGCTTACATAATA
1 CATAACTTACATAATA
16178820 CATAACTTACATAA
1 CATAACTTACATAA
16178834 CTTATATGTG
Statistics
Matches: 172, Mismatches: 15, Indels: 47
0.74 0.06 0.20
Matches are distributed among these distances:
12 2 0.01
13 6 0.03
14 3 0.02
15 5 0.03
16 107 0.62
17 14 0.08
18 19 0.11
19 2 0.01
20 14 0.08
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.33
Consensus pattern (16 bp):
CATAACTTACATAATA
Found at i:16180543 original size:66 final size:65
Alignment explanation
Indices: 16180436--16180605 Score: 207
Period size: 66 Copynumber: 2.6 Consensus size: 65
16180426 GAGCAAATTA
* * * * *
16180436 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGTTGAGGTTCAAA-AAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAG-TATGAAGAACTCCA
16180500 G
65 G
*
16180501 CTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGGAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAGTATGAAGAACTCCA
16180566 G
65 G
* * * * * *
16180567 CGCAGCTTAAAGTAGATGCGGCAGCGAGGGAAGCAGAGG
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
16180606 CAGCAGCGAG
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 33 0.36
66 55 0.60
67 3 0.03
ACGTcount: A:0.39, C:0.18, G:0.29, T:0.14
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAGTATGAAGAACTCCAG
Found at i:16181008 original size:43 final size:43
Alignment explanation
Indices: 16180947--16181086 Score: 208
Period size: 43 Copynumber: 3.3 Consensus size: 43
16180937 CGTTTTTTAT
* *
16180947 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGACAATTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCATTTGTGGG
* * * * *
16180990 AAAAGCGTCGCTAAAGGTCATGTTCTAAAGCGGCGTTTGTGGA
1 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCATTTGTGGG
*
16181033 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCATTTTTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCATTTGTGGG
16181076 AAAAGCGCCGC
1 AAAAGCGCCGC
16181087 AAATGTTAGC
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 84 1.00
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCATTTGTGGG
Found at i:16181664 original size:19 final size:19
Alignment explanation
Indices: 16181642--16181686 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
16181632 AAAATATCAT
*
16181642 AAAATATTTAAAATTTATA
1 AAAATAATTAAAATTTATA
* *
16181661 AAAAAAATTATAATTTATA
1 AAAATAATTAAAATTTATA
16181680 AAAATAA
1 AAAATAA
16181687 AAAATATTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATAATTAAAATTTATA
Found at i:16183257 original size:21 final size:21
Alignment explanation
Indices: 16183226--16183299 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
16183216 TTTAAAACTA
16183226 TATAATATTTTTTAATAAATTT
1 TATAAT-TTTTTTAATAAATTT
* * *
16183248 TATACTTTTTTAAATAATTTT
1 TATAATTTTTTTAATAAATTT
16183269 TAATAATTTATTTT-A-AAATTT
1 T-ATAATTT-TTTTAATAAATTT
*
16183290 TAAAATTTTT
1 TATAATTTTT
16183300 AAAAATTAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
19 2 0.05
20 6 0.14
21 20 0.47
22 12 0.28
23 3 0.07
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (21 bp):
TATAATTTTTTTAATAAATTT
Found at i:16190483 original size:69 final size:68
Alignment explanation
Indices: 16190369--16190681 Score: 320
Period size: 69 Copynumber: 4.5 Consensus size: 68
16190359 GGTGTCGCGA
* * * * * * *
16190369 CTCCAAAACAGCTTGCGGACCTATGATCCAGACTGATATTGTAAAGGCTCACTGATTTAATATCA
1 CTCCAAAATAGCTCGCAGACCTACGCTCCAG-CTGATATTGTAAAGGCTCGCTGATTTAAGATCA
16190434 CAGC
65 CAGC
* * * *
16190438 TTCCAAAATAGCTCGCAGACCTACGCTCTCAGCTAATATTGTAAAGGCTCGTTGATTTAAGATCG
1 CTCCAAAATAGCTCGCAGACCTACGCTC-CAGCTGATATTGTAAAGGCTCGCTGATTTAAGATCA
*
16190503 CAAC
65 CAGC
* * * * * * * **
16190507 CTTCGAAACAGCTCGCGGACCTACACTCCCAGTTGATATTGTAAAGGCTCGCGGATGCAAGATCA
1 CTCCAAAATAGCTCGCAGACCTACGCT-CCAGCTGATATTGTAAAGGCTCGCTGATTTAAGATCA
16190572 CAGC
65 CAGC
* * * * *
16190576 CTCTAAAATAGCTTGCTGACCTACGCTCCTAGCTGATATTGTAAAGGCTTGCTGATTTAAGATCG
1 CTCCAAAATAGCTCGCAGACCTACGCTCC-AGCTGATATTGTAAAGGCTCGCTGATTTAAGATCA
16190641 CAGC
65 CAGC
** *
16190645 CTCTGAAATAGCTCGCAGACCTACGTTCCTAGCTGAT
1 CTCCAAAATAGCTCGCAGACCTACGCTCC-AGCTGAT
16190682 GATTAAAGGT
Statistics
Matches: 198, Mismatches: 43, Indels: 6
0.80 0.17 0.02
Matches are distributed among these distances:
68 2 0.01
69 192 0.97
70 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (68 bp):
CTCCAAAATAGCTCGCAGACCTACGCTCCAGCTGATATTGTAAAGGCTCGCTGATTTAAGATCAC
AGC
Found at i:16190622 original size:138 final size:138
Alignment explanation
Indices: 16190402--16190668 Score: 367
Period size: 138 Copynumber: 1.9 Consensus size: 138
16190392 TGATCCAGAC
* ** * *
16190402 TGATATTGTAAAGGCTCACTGATTTAATATCACAGCTTCCAAAATAGCTCGCAGACCTACGCTCT
1 TGATATTGTAAAGGCTCACGGATGCAAGATCACAGCCTCCAAAATAGCTCGCAGACCTACGCTCT
* *
16190467 CAGCTAATATTGTAAAGGCTCGTTGATTTAAGATCGCAACCT-TCGAAACAGCTCGCGGACCTAC
66 CAGCTAATATTGTAAAGGCTCGCTGATTTAAGATCGCAACCTCT-GAAACAGCTCGCAGACCTAC
16190531 ACTCCCAGT
130 ACTCCCAGT
* * * *
16190540 TGATATTGTAAAGGCTCGCGGATGCAAGATCACAGCCTCTAAAATAGCTTGCTGACCTACGCTC-
1 TGATATTGTAAAGGCTCACGGATGCAAGATCACAGCCTCCAAAATAGCTCGCAGACCTACGCTCT
* * * *
16190604 CTAGCTGATATTGTAAAGGCTTGCTGATTTAAGATCGCAGCCTCTGAAATAGCTCGCAGACCTAC
66 C-AGCTAATATTGTAAAGGCTCGCTGATTTAAGATCGCAACCTCTGAAACAGCTCGCAGACCTAC
16190669 GTTCCTAGCT
Statistics
Matches: 112, Mismatches: 15, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
137 1 0.01
138 110 0.98
139 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (138 bp):
TGATATTGTAAAGGCTCACGGATGCAAGATCACAGCCTCCAAAATAGCTCGCAGACCTACGCTCT
CAGCTAATATTGTAAAGGCTCGCTGATTTAAGATCGCAACCTCTGAAACAGCTCGCAGACCTACA
CTCCCAGT
Found at i:16190750 original size:37 final size:37
Alignment explanation
Indices: 16190692--16190790 Score: 112
Period size: 37 Copynumber: 2.7 Consensus size: 37
16190682 GATTAAAGGT
* * *
16190692 TAGCTGAGTTG-AGCTCACAACCTCCAATTATTTGGGC
1 TAGCTGA-TTGAAGATCGCAACCTCCAATTATTTGAGC
* * *
16190729 TCGCTGATTTAAGATCGCAACCTCCAATTATTTGAGT
1 TAGCTGATTGAAGATCGCAACCTCCAATTATTTGAGC
*
16190766 TAGCTGATTGAAGATTGCAA-CTCCA
1 TAGCTGATTGAAGATCGCAACCTCCA
16190791 CACAACTCAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
36 7 0.13
37 45 0.87
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (37 bp):
TAGCTGATTGAAGATCGCAACCTCCAATTATTTGAGC
Found at i:16191131 original size:3 final size:3
Alignment explanation
Indices: 16191123--16191156 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
16191113 TAAAGAGGGG
16191123 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT -TT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
16191157 ATATATTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:16192618 original size:48 final size:49
Alignment explanation
Indices: 16192565--16192820 Score: 304
Period size: 48 Copynumber: 5.3 Consensus size: 49
16192555 TAGTAACAAC
* * * *
16192565 ATTTGGATAGCATTGATTTG-TACAAAAATGGACATCATTTAAGCACCA
1 ATTTGGACAGCATTAATATGCTACAAAAATGGACAGCATTTAAGCACCA
* * * * *
16192613 ATTTGGATAGCATTAATATACTA-AAAAATGGACAGCAATTAAGAATCA
1 ATTTGGACAGCATTAATATGCTACAAAAATGGACAGCATTTAAGCACCA
* * ** *
16192661 ATTTGGACAGAATTAATATGCTAAAAAAAAATAAACAGCATTTAAGCACTA
1 ATTTGGACAGCATTAATATGCT--ACAAAAATGGACAGCATTTAAGCACCA
* *
16192712 ATTTGAACAGCATTAATATGCT-CAAAAATGGACAGCATTTAAGCACTA
1 ATTTGGACAGCATTAATATGCTACAAAAATGGACAGCATTTAAGCACCA
* *
16192760 ATTTGGACAGCATTAATATGCT-CAAAAATGGACAACAATTAAGCACCA
1 ATTTGGACAGCATTAATATGCTACAAAAATGGACAGCATTTAAGCACCA
16192808 ATTTGGACAGCAT
1 ATTTGGACAGCAT
16192821 CTTATCATCA
Statistics
Matches: 179, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
48 137 0.77
49 2 0.01
50 1 0.01
51 39 0.22
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (49 bp):
ATTTGGACAGCATTAATATGCTACAAAAATGGACAGCATTTAAGCACCA
Found at i:16192706 original size:99 final size:96
Alignment explanation
Indices: 16192600--16192820 Score: 282
Period size: 99 Copynumber: 2.3 Consensus size: 96
16192590 AAATGGACAT
*
16192600 CATTTAAGCACCAATTTGGATAGCATTAATATACTAAAAAATGGACAGCAATTAAGAA-TCAATT
1 CATTTAAGCACCAATTTGGACAGCATTAATATACTAAAAAATGGACAGCAATTAAGAACT-AATT
*
16192664 TGGACAGAATTAATATGCTAAAAAAAAATAAACAG
65 TGGACAGAATTAATATGCT---AAAAAATAAACAA
* * * * * *
16192699 CATTTAAGCACTAATTTGAACAGCATTAATATGCTCAAAAATGGACAGCATTTAAGCACTAATTT
1 CATTTAAGCACCAATTTGGACAGCATTAATATACTAAAAAATGGACAGCAATTAAGAACTAATTT
* * **
16192764 GGACAGCATTAATATGCTCAAAAATGGACAA
66 GGACAGAATTAATATGCTAAAAAATAAACAA
*
16192795 CAATTAAGCACCAATTTGGACAGCAT
1 CATTTAAGCACCAATTTGGACAGCAT
16192821 CTTATCATCA
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
96 32 0.30
99 73 0.69
100 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (96 bp):
CATTTAAGCACCAATTTGGACAGCATTAATATACTAAAAAATGGACAGCAATTAAGAACTAATTT
GGACAGAATTAATATGCTAAAAAATAAACAA
Found at i:16192724 original size:23 final size:23
Alignment explanation
Indices: 16192694--16192773 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
16192684 AAAAAAAATA
16192694 AACAGCATTTAAGCACTAATTTG
1 AACAGCATTTAAGCACTAATTTG
* * * **
16192717 AACAGCATTAATATGCTCAAAAATG
1 AACAGCATT--TAAGCACTAATTTG
*
16192742 GACAGCATTTAAGCACTAATTTG
1 AACAGCATTTAAGCACTAATTTG
*
16192765 GACAGCATT
1 AACAGCATT
16192774 AATATGCTCA
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
23 27 0.61
25 17 0.39
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (23 bp):
AACAGCATTTAAGCACTAATTTG
Found at i:16192748 original size:25 final size:25
Alignment explanation
Indices: 16192718--16192793 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 25
16192708 ACTAATTTGA
16192718 ACAGCATTAATATGCTCAAAAATGG
1 ACAGCATTAATATGCTCAAAAATGG
* * * **
16192743 ACAGCATT--TAAGCACTAATTTGG
1 ACAGCATTAATATGCTCAAAAATGG
16192766 ACAGCATTAATATGCTCAAAAATGG
1 ACAGCATTAATATGCTCAAAAATGG
16192791 ACA
1 ACA
16192794 ACAATTAAGC
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
23 18 0.46
25 21 0.54
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (25 bp):
ACAGCATTAATATGCTCAAAAATGG
Found at i:16193480 original size:42 final size:43
Alignment explanation
Indices: 16193362--16193481 Score: 154
Period size: 42 Copynumber: 2.8 Consensus size: 43
16193352 AGCTTGTACA
* * ** *
16193362 ATGCC-ATATCCCAGATATAGTCTTACATGTTATAATATATCG
1 ATGCCAATGTCCCAGATATGGTCTTACATGAAATCATATATCG
* *
16193404 ATGCCACTGTCCCAGATAGGGTCTTACATGAAATCATATA-CG
1 ATGCCAATGTCCCAGATATGGTCTTACATGAAATCATATATCG
*
16193446 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCA
1 ATGCCAATGTCCCAGATATGGTCTTACATGAAATCA
16193482 CACCTCAGAA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
42 40 0.60
43 27 0.40
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGATATGGTCTTACATGAAATCATATATCG
Found at i:16196804 original size:34 final size:33
Alignment explanation
Indices: 16196759--16196822 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
16196749 CCTTTTCCCC
*
16196759 TATTTTTAATAATATTCATTATTTTTCACTTTT
1 TATTTTTAATAATATTCATTACTTTTCACTTTT
* *
16196792 TATTTTGTAATAATTTTTATTACTTTTCACT
1 TATTTT-TAATAATATTCATTACTTTTCACT
16196823 CACAGAGTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 6 0.22
34 21 0.78
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (33 bp):
TATTTTTAATAATATTCATTACTTTTCACTTTT
Found at i:16198417 original size:14 final size:15
Alignment explanation
Indices: 16198395--16198471 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
16198385 CAATCAAACA
16198395 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
16198409 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
16198424 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
16198444 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
16198458 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
16198472 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:16198436 original size:20 final size:20
Alignment explanation
Indices: 16198411--16198450 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
16198401 AATATTTTCC
*
16198411 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
16198431 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
16198451 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:16198456 original size:34 final size:35
Alignment explanation
Indices: 16198399--16198465 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
16198389 CAAACACCAG
*
16198399 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
16198434 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
16198466 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:16199278 original size:3 final size:3
Alignment explanation
Indices: 16199270--16199359 Score: 173
Period size: 3 Copynumber: 30.3 Consensus size: 3
16199260 AGTTAACAGT
16199270 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
16199318 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG- AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
16199360 ATGGAGATGC
Statistics
Matches: 86, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 84 0.98
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:16201869 original size:3 final size:3
Alignment explanation
Indices: 16201863--16201916 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
16201853 TACAAAGCGG
* * * *
16201863 TAA TAA TAA TAA TAA TAA TAA TAA TGA -AA T-T TAA TTA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16201909 TAA TAA TA
1 TAA TAA TA
16201917 GTAACAAAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:16202722 original size:15 final size:16
Alignment explanation
Indices: 16202686--16202722 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
16202676 GGCCAGAATT
16202686 ATAGAAA-AAAATAAA
1 ATAGAAATAAAATAAA
16202701 ATA-AAATAAAATAAA
1 ATAGAAATAAAATAAA
16202716 A-AGAAAT
1 ATAGAAAT
16202723 CCTCCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (16 bp):
ATAGAAATAAAATAAA
Found at i:16204982 original size:32 final size:32
Alignment explanation
Indices: 16204941--16205004 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
16204931 AATACTCCTT
16204941 GTATTTATTTGAATTCGACATAGTAAATTTTC
1 GTATTTATTTGAATTCGACATAGTAAATTTTC
16204973 GTATTTATTTGAATTCGACATAGTAAATTTTC
1 GTATTTATTTGAATTCGACATAGTAAATTTTC
16205005 TTCTCCTCTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.47
Consensus pattern (32 bp):
GTATTTATTTGAATTCGACATAGTAAATTTTC
Found at i:16208248 original size:19 final size:19
Alignment explanation
Indices: 16208224--16208351 Score: 211
Period size: 19 Copynumber: 6.7 Consensus size: 19
16208214 TCATATATTT
16208224 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
*
16208243 TAAGATTACATATCATATC
1 TAAGATTGCATATCATATC
16208262 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
*
16208281 TAAGATTACATATCATATC
1 TAAGATTGCATATCATATC
*
16208300 TAAGATTGCATATCATGTC
1 TAAGATTGCATATCATATC
* *
16208319 TAATATTACATATCATATC
1 TAAGATTGCATATCATATC
16208338 TAAGATTGCATATC
1 TAAGATTGCATATC
16208352 CTTGAAGATT
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 99 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:16208271 original size:38 final size:38
Alignment explanation
Indices: 16208224--16208351 Score: 238
Period size: 38 Copynumber: 3.4 Consensus size: 38
16208214 TCATATATTT
16208224 TAAGATTGCATATCATATCTAAGATTACATATCATATC
1 TAAGATTGCATATCATATCTAAGATTACATATCATATC
16208262 TAAGATTGCATATCATATCTAAGATTACATATCATATC
1 TAAGATTGCATATCATATCTAAGATTACATATCATATC
* *
16208300 TAAGATTGCATATCATGTCTAATATTACATATCATATC
1 TAAGATTGCATATCATATCTAAGATTACATATCATATC
16208338 TAAGATTGCATATC
1 TAAGATTGCATATC
16208352 CTTGAAGATT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 88 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (38 bp):
TAAGATTGCATATCATATCTAAGATTACATATCATATC
Found at i:16209780 original size:25 final size:25
Alignment explanation
Indices: 16209699--16209780 Score: 58
Period size: 25 Copynumber: 3.3 Consensus size: 25
16209689 GCTTCTTAAT
** *
16209699 TATGGCTCTTATGAGCTTCCTATTA
1 TATGGCTCACATGAGCTTCCCATTA
* * * * *
16209724 TATAGC-CAGGATAAGCTTCTCGTTA
1 TATGGCTCA-CATGAGCTTCCCATTA
* *
16209749 CAGGGCTCACATGAGCTTCCCATTA
1 TATGGCTCACATGAGCTTCCCATTA
16209774 TATGGCT
1 TATGGCT
16209781 TGAGAGAAGG
Statistics
Matches: 39, Mismatches: 16, Indels: 4
0.66 0.27 0.07
Matches are distributed among these distances:
24 1 0.03
25 36 0.92
26 2 0.05
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (25 bp):
TATGGCTCACATGAGCTTCCCATTA
Found at i:16232660 original size:38 final size:38
Alignment explanation
Indices: 16232613--16232685 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
16232603 ACTCTTGTAT
* *
16232613 TGGGTTCCATTTTGGTAAAGTAGTTGCTCTTTTTTCCC
1 TGGGATCCATTTTGGTAAAGTAATTGCTCTTTTTTCCC
*
16232651 TGGGATCCATTTTGGTAAAGTAATTGCTTTTTTTT
1 TGGGATCCATTTTGGTAAAGTAATTGCTCTTTTTT
16232686 TTTCCCTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.16, C:0.14, G:0.21, T:0.49
Consensus pattern (38 bp):
TGGGATCCATTTTGGTAAAGTAATTGCTCTTTTTTCCC
Found at i:16233814 original size:17 final size:18
Alignment explanation
Indices: 16233789--16233834 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
16233779 TATAAGAATA
*
16233789 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
16233806 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
16233824 ATTAAATTATA
1 ATTAAATTATA
16233835 TTTAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:16234089 original size:16 final size:16
Alignment explanation
Indices: 16234064--16234094 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16234054 ATTAAATTAC
*
16234064 TATTATAGTTCTATTT
1 TATTACAGTTCTATTT
16234080 TATTACAGTTCTATT
1 TATTACAGTTCTATT
16234095 CCATTAGAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.10, G:0.06, T:0.58
Consensus pattern (16 bp):
TATTACAGTTCTATTT
Found at i:16234821 original size:23 final size:23
Alignment explanation
Indices: 16234776--16234820 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
16234766 CAACGGAAAA
*
16234776 AATTTAACTACAATTAATATTTT
1 AATTTAACTACAAATAATATTTT
*
16234799 AATTTAACTA-AAATAATTTTTT
1 AATTTAACTACAAATAATATTTT
16234821 TTTTACTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (23 bp):
AATTTAACTACAAATAATATTTT
Found at i:16237470 original size:25 final size:24
Alignment explanation
Indices: 16237442--16237488 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
16237432 AAGTGTATAA
* *
16237442 TATATTCTAAATAATACAAGTATTC
1 TATATTCCAAA-AAAACAAGTATTC
16237467 TATATTCCAAAAAAACAAGTAT
1 TATATTCCAAAAAAACAAGTAT
16237489 ACACCTTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (24 bp):
TATATTCCAAAAAAACAAGTATTC
Found at i:16240597 original size:21 final size:21
Alignment explanation
Indices: 16240552--16240619 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
16240542 TATACATATT
*
16240552 AAAAA-ATAT-AAAAATGTA-
1 AAAAATATATAAAAAATCTAG
16240570 AATAAATATATAAAAAAT-TCAG
1 AA-AAATATATAAAAAATCT-AG
* *
16240592 AAAAATTTATATAAAATCTAG
1 AAAAATATATAAAAAATCTAG
16240613 AAAAATA
1 AAAAATA
16240620 AAATATAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
18 2 0.05
19 3 0.07
20 5 0.12
21 28 0.68
22 3 0.07
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.26
Consensus pattern (21 bp):
AAAAATATATAAAAAATCTAG
Found at i:16240727 original size:10 final size:11
Alignment explanation
Indices: 16240712--16240758 Score: 64
Period size: 10 Copynumber: 4.5 Consensus size: 11
16240702 ATATTATTAC
16240712 AAAAAA-TGTA
1 AAAAAATTGTA
16240722 AAAAAATTGT-
1 AAAAAATTGTA
*
16240732 AAAAAA-TATA
1 AAAAAATTGTA
16240742 AAAAAATTGTA
1 AAAAAATTGTA
16240753 AAAAAA
1 AAAAAA
16240759 ATATTTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 2 0.06
10 18 0.56
11 12 0.38
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.21
Consensus pattern (11 bp):
AAAAAATTGTA
Found at i:16240737 original size:20 final size:20
Alignment explanation
Indices: 16240712--16240757 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
16240702 ATATTATTAC
*
16240712 AAAAAATGTAAAAAAATTGT
1 AAAAAATATAAAAAAATTGT
16240732 AAAAAATATAAAAAAATTGT
1 AAAAAATATAAAAAAATTGT
16240752 AAAAAA
1 AAAAAA
16240758 AATATTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (20 bp):
AAAAAATATAAAAAAATTGT
Found at i:16240770 original size:13 final size:13
Alignment explanation
Indices: 16240754--16240813 Score: 68
Period size: 13 Copynumber: 4.5 Consensus size: 13
16240744 AAAATTGTAA
16240754 AAAAAATATTTTT
1 AAAAAATATTTTT
16240767 AAAAAATATTTTT
1 AAAAAATATTTTT
**
16240780 AAAAAAT-TTTAAA
1 AAAAAATATTT-TT
16240793 AATAAAATATTTTT
1 AA-AAAATATTTTT
*
16240807 ATAAAAT
1 AAAAAAT
16240814 TCTAAAACAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
12 3 0.08
13 27 0.69
14 6 0.15
15 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AAAAAATATTTTT
Found at i:16240799 original size:27 final size:27
Alignment explanation
Indices: 16240769--16240820 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
16240759 ATATTTTTAA
*
16240769 AAAATATTTTTAAAAAATTTTAAAAAT
1 AAAATATTTTTAAAAAATTCTAAAAAT
*
16240796 AAAATATTTTTATAAAATTCTAAAA
1 AAAATATTTTTAAAAAATTCTAAAA
16240821 CATACAATTA
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:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (27 bp):
AAAATATTTTTAAAAAATTCTAAAAAT
Found at i:16241114 original size:28 final size:26
Alignment explanation
Indices: 16241082--16241133 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
16241072 ATATTTAAAT
16241082 ATTTAAAATTATAATTTTTTAGTTTTTA
1 ATTT-AAA-TATAATTTTTTAGTTTTTA
* *
16241110 ATTTAAATGTAATTTTTTTGTTTT
1 ATTTAAATATAATTTTTTAGTTTT
16241134 AAGTAAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 3 0.14
28 4 0.18
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (26 bp):
ATTTAAATATAATTTTTTAGTTTTTA
Found at i:16241140 original size:24 final size:26
Alignment explanation
Indices: 16241093--16241148 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
16241083 TTTAAAATTA
*
16241093 TAATTTTTTAGTTTTTAATTTAAA-T
1 TAATTTTTTAGTTTTTAATGTAAACT
*
16241118 GTAATTTTTTTG-TTTTAA-GTAAACT
1 -TAATTTTTTAGTTTTTAATGTAAACT
16241143 TAATTT
1 TAATTT
16241149 GCATGTGGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 10 0.37
25 7 0.26
26 10 0.37
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (26 bp):
TAATTTTTTAGTTTTTAATGTAAACT
Found at i:16244210 original size:27 final size:27
Alignment explanation
Indices: 16244173--16244229 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
16244163 TGTTTTCAAG
16244173 GGGAGCCTATTCACTGAAACCCTATTA
1 GGGAGCCTATTCACTGAAACCCTATTA
16244200 GGGAGCCTATTCACTGAAACCCTATTA
1 GGGAGCCTATTCACTGAAACCCTATTA
16244227 GGG
1 GGG
16244230 CCACAATAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (27 bp):
GGGAGCCTATTCACTGAAACCCTATTA
Found at i:16244285 original size:110 final size:110
Alignment explanation
Indices: 16244090--16244312 Score: 410
Period size: 110 Copynumber: 2.0 Consensus size: 110
16244080 TGTTTTCGAG
*
16244090 GGGAGCCTATTCATTGAAACCCTATTAGGGCCACAATAGCAATTTGAAGTTGTTTGAGAGAAAGT
1 GGGAGCCTATTCACTGAAACCCTATTAGGGCCACAATAGCAATTTGAAGTTGTTTGAGAGAAAGT
16244155 TTCTCTCTTGTTTTCAAGGGGAGCCTATTCACTGAAACCCTATTA
66 TTCTCTCTTGTTTTCAAGGGGAGCCTATTCACTGAAACCCTATTA
*
16244200 GGGAGCCTATTCACTGAAACCCTATTAGGGCCACAATAGCAATTTGAAGTTGTTTGAGAGAGAGT
1 GGGAGCCTATTCACTGAAACCCTATTAGGGCCACAATAGCAATTTGAAGTTGTTTGAGAGAAAGT
* *
16244265 TTCTCTCTTGTTTTCGAGGGGAGCCTATTCATTGAAACCCTATTA
66 TTCTCTCTTGTTTTCAAGGGGAGCCTATTCACTGAAACCCTATTA
16244310 GGG
1 GGG
16244313 TCACAATAGC
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 109 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (110 bp):
GGGAGCCTATTCACTGAAACCCTATTAGGGCCACAATAGCAATTTGAAGTTGTTTGAGAGAAAGT
TTCTCTCTTGTTTTCAAGGGGAGCCTATTCACTGAAACCCTATTA
Found at i:16244567 original size:25 final size:25
Alignment explanation
Indices: 16244539--16244607 Score: 97
Period size: 23 Copynumber: 2.8 Consensus size: 25
16244529 ATTATATATT
*
16244539 AAATATATATTTTTTATTTTTAATC
1 AAATATATATTTATTATTTTTAATC
16244564 AAATATATA--TATTATTTTTAATC
1 AAATATATATTTATTATTTTTAATC
16244587 AAATATATATTATATATATTT
1 AAATATATATT-TAT-TATTT
16244608 AATATGGGCC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
23 22 0.56
25 9 0.23
26 3 0.08
27 5 0.13
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (25 bp):
AAATATATATTTATTATTTTTAATC
Found at i:16245215 original size:15 final size:15
Alignment explanation
Indices: 16245195--16245225 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16245185 GGTGCCCTTG
16245195 TCTTGATAAATCTCA
1 TCTTGATAAATCTCA
16245210 TCTTGATAAATCTCA
1 TCTTGATAAATCTCA
16245225 T
1 T
16245226 ATATATATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (15 bp):
TCTTGATAAATCTCA
Found at i:16245685 original size:17 final size:16
Alignment explanation
Indices: 16245619--16245674 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
16245609 AAACTTTTTT
* *
16245619 CCCAAATTTTAAAATC
1 CCCAAATTATGAAATC
* * *
16245635 CCCAACTTGTTAAATTC
1 CCCAAATTATGAAA-TC
16245652 CCCAAATTATGAAATC
1 CCCAAATTATGAAATC
16245668 CCCAAAT
1 CCCAAAT
16245675 CTATAACATC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
16 20 0.61
17 13 0.39
ACGTcount: A:0.39, C:0.29, G:0.04, T:0.29
Consensus pattern (16 bp):
CCCAAATTATGAAATC
Found at i:16245742 original size:16 final size:16
Alignment explanation
Indices: 16245699--16245743 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
16245689 ATTTTTGTTG
16245699 AATCCTTAAAATCTTGA
1 AATCCTT-AAATCTTGA
**
16245716 AATCCCCAAATCTTGA
1 AATCCTTAAATCTTGA
16245732 AATCCTTAAATC
1 AATCCTTAAATC
16245744 GTTAGCATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.31
Consensus pattern (16 bp):
AATCCTTAAATCTTGA
Found at i:16245942 original size:7 final size:7
Alignment explanation
Indices: 16245926--16245958 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
16245916 TCGGCTTGGT
*
16245926 TTATTGG
1 TTATTTG
16245933 TTATTTG
1 TTATTTG
16245940 TTATTTG
1 TTATTTG
16245947 TTATTTG
1 TTATTTG
16245954 TTATT
1 TTATT
16245959 GCAATTTCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (7 bp):
TTATTTG
Found at i:16246577 original size:33 final size:33
Alignment explanation
Indices: 16246540--16246608 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
16246530 TGTAGACTGG
*
16246540 TGGGGAGGGTGATGTTGAAGGGGTAGAA-GTTGA
1 TGGGGAGGGTGATGATGAAGGGGTAGAATG-TGA
*
16246573 TGGGGAGGGTGATGATGGAGGGGTAGAATGTGA
1 TGGGGAGGGTGATGATGAAGGGGTAGAATGTGA
16246606 TGG
1 TGG
16246609 TGAAGGTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.54, T:0.23
Consensus pattern (33 bp):
TGGGGAGGGTGATGATGAAGGGGTAGAATGTGA
Found at i:16249730 original size:16 final size:16
Alignment explanation
Indices: 16249711--16249741 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16249701 TGATATAGCA
16249711 TGAATGATGTATAGGG
1 TGAATGATGTATAGGG
*
16249727 TGAATGGTGTATAGG
1 TGAATGATGTATAGG
16249742 CTAATCATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.39, T:0.32
Consensus pattern (16 bp):
TGAATGATGTATAGGG
Found at i:16250933 original size:17 final size:17
Alignment explanation
Indices: 16250899--16250944 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
16250889 GGATGTTATA
16250899 GATTTGGAG-ATTTCAC
1 GATTTGGAGAATTTCAC
*
16250915 GATTTGGAGAATTTGAC
1 GATTTGGAGAATTTCAC
*
16250932 GAGTTGG-GAATTT
1 GATTTGGAGAATTT
16250945 TAAAATTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.26, C:0.07, G:0.30, T:0.37
Consensus pattern (17 bp):
GATTTGGAGAATTTCAC
Found at i:16256605 original size:19 final size:19
Alignment explanation
Indices: 16256583--16256623 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
16256573 AGGGTTAGAT
16256583 TTTTAATTAAAAATTAGGG
1 TTTTAATTAAAAATTAGGG
** *
16256602 TTTTTGTTAAGAATTAGGG
1 TTTTAATTAAAAATTAGGG
16256621 TTT
1 TTT
16256624 AGGGTTTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.49
Consensus pattern (19 bp):
TTTTAATTAAAAATTAGGG
Found at i:16258540 original size:22 final size:22
Alignment explanation
Indices: 16258515--16258556 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
16258505 TAAGTTGGAG
*
16258515 CCAAAGCAGAAGTAGAAAGTAA
1 CCAAAGCAGAAGCAGAAAGTAA
16258537 CCAAAGCAGAAGCAGAAAGT
1 CCAAAGCAGAAGCAGAAAGT
16258557 CTTACTACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.17, G:0.24, T:0.07
Consensus pattern (22 bp):
CCAAAGCAGAAGCAGAAAGTAA
Found at i:16270094 original size:4 final size:4
Alignment explanation
Indices: 16270087--16270166 Score: 58
Period size: 4 Copynumber: 20.0 Consensus size: 4
16270077 GAATAAATAA
* * *
16270087 AAAG AAAG AAAG ATAG AAACG AAAC AAA- AAGAA AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAA-G AAAG AAAG AA-AG AAAG AAAG AAAG AAAG
* * *
16270136 AAA- AGAG AAAGG AAGG AAAG GAAG -AAG AAAG
1 AAAG AAAG AAA-G AAAG AAAG AAAG AAAG AAAG
16270167 CCACAGCCTT
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
3 7 0.11
4 45 0.74
5 9 0.15
ACGTcount: A:0.70, C:0.03, G:0.26, T:0.01
Consensus pattern (4 bp):
AAAG
Found at i:16270855 original size:24 final size:24
Alignment explanation
Indices: 16270828--16270874 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
16270818 ATTGAAATGG
16270828 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
16270852 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
16270875 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:16271163 original size:40 final size:40
Alignment explanation
Indices: 16271033--16271172 Score: 126
Period size: 40 Copynumber: 3.5 Consensus size: 40
16271023 GACTTTGAGT
* * * *
16271033 CGATGAGACACTTGGTGTCAATTTACTACTTC-AGATTAATC
1 CGATGAGGCACTGGGTGTCAAATTATTACTTCGA-ATT-ATC
* ** *
16271074 CGATGAGGCACTGGGTG-CCAA-T-TTACTTCGGTTTAAC
1 CGATGAGGCACTGGGTGTCAAATTATTACTTCGAATTATC
* *
16271111 TGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGGCACTGGGTGTCAAATTATTACTTCGAATTATC
* *
16271151 CGATTAGGCACTGGGTGCCAAA
1 CGATGAGGCACTGGGTGTCAAA
16271173 CTGGTGTGTT
Statistics
Matches: 77, Mismatches: 18, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
37 17 0.22
38 11 0.14
39 2 0.03
40 32 0.42
41 15 0.19
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (40 bp):
CGATGAGGCACTGGGTGTCAAATTATTACTTCGAATTATC
Found at i:16275339 original size:26 final size:26
Alignment explanation
Indices: 16275310--16275378 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 26
16275300 ATTCTCTTAA
*
16275310 CATTTTTATTATTTTTTAATTTAATT
1 CATTTTTATTATTTATTAATTTAATT
* *
16275336 CATTTGTGATT-TATATTAATTTAATT
1 CATTT-TTATTATTTATTAATTTAATT
16275362 CTATTTTATAATTATTT
1 C-ATTTT-T-ATTATTT
16275379 GCGATTGCTC
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
26 20 0.61
27 8 0.24
28 3 0.09
29 2 0.06
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (26 bp):
CATTTTTATTATTTATTAATTTAATT
Found at i:16278931 original size:105 final size:98
Alignment explanation
Indices: 16278795--16278993 Score: 274
Period size: 105 Copynumber: 2.0 Consensus size: 98
16278785 ATTTTTATAA
* * * *
16278795 ATAGGAGCCAAATTTCATTTGCTTGATACACTAGAAAAACACATCAAAAGTTT-TTTTCTATTCT
1 ATAGGAGCCAAATTTCATTTGCCTGACACACTACAAAAACACATAAAAAGTTTCTTTT-TATTCT
16278859 CGCACAATCTTTTATATTCCTAGATTGTTCTATAAAGTTTT
65 ----C-A--TTTTATATTCCTAGATTGTTCTATAAAGTTTT
*
16278900 ATAGGAGCCAAATTTCATTTGCCTGGCACACTACAAAAACACATAAAAAGTTTCTTTTTATTCTC
1 ATAGGAGCCAAATTTCATTTGCCTGACACACTACAAAAACACATAAAAAGTTTCTTTTTATTCTC
16278965 ATTTTATATTCCTAGATTGTTCTATAAAG
66 ATTTTATATTCCTAGATTGTTCTATAAAG
16278994 AATTACTGCA
Statistics
Matches: 88, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
98 28 0.32
100 1 0.01
101 1 0.01
105 54 0.61
106 4 0.05
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.39
Consensus pattern (98 bp):
ATAGGAGCCAAATTTCATTTGCCTGACACACTACAAAAACACATAAAAAGTTTCTTTTTATTCTC
ATTTTATATTCCTAGATTGTTCTATAAAGTTTT
Found at i:16281810 original size:114 final size:114
Alignment explanation
Indices: 16281629--16281841 Score: 381
Period size: 114 Copynumber: 1.9 Consensus size: 114
16281619 TAATGTAGTT
* * *
16281629 GAAAGGTCCCTACATCATTTCCAATTAGTAGAATGTCATCGACATATCGAATGAGAAAGACCATC
1 GAAAGGTCCCTACATCATTCCCAATTAGTAGAATGTCATCGACATATAGAACGAGAAAGACCATC
*
16281694 TTTCCATCCCCTAAGCATTTGTAAACACAAGGTTAACCACAAATTAATC
66 TTTCCATCCCCTAAACATTTGTAAACACAAGGTTAACCACAAATTAATC
16281743 GAAAGGTCCCTACATCATTCCCAATTAGTAGAATGTCATCGACATATAGAACGAGAAAGACCATC
1 GAAAGGTCCCTACATCATTCCCAATTAGTAGAATGTCATCGACATATAGAACGAGAAAGACCATC
*
16281808 TTTTCATCCCCTAAACATTTGTAAACACAAGGTT
66 TTTCCATCCCCTAAACATTTGTAAACACAAGGTT
16281842 CATCTACTTT
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 94 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (114 bp):
GAAAGGTCCCTACATCATTCCCAATTAGTAGAATGTCATCGACATATAGAACGAGAAAGACCATC
TTTCCATCCCCTAAACATTTGTAAACACAAGGTTAACCACAAATTAATC
Found at i:16289585 original size:41 final size:41
Alignment explanation
Indices: 16289434--16289577 Score: 225
Period size: 41 Copynumber: 3.5 Consensus size: 41
16289424 GAAGTAATCT
*
16289434 AGACATTATGTCTAGCAGGCTTGATGCCGGTGAAACATACC
1 AGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACC
*
16289475 AGACATTACGTCTAGCAGGCTTGATACCGGTGAAACATACC
1 AGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACC
* * *
16289516 ATACTTTACGTCTAGCAGGCTTGATGCCGGTGAAACATATC
1 AGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACC
* *
16289557 AGACTTTATGTCTAGCAGGCT
1 AGACATTACGTCTAGCAGGCT
16289578 AAGTGCCGAT
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (41 bp):
AGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACC
Found at i:16289618 original size:82 final size:82
Alignment explanation
Indices: 16289445--16289618 Score: 190
Period size: 82 Copynumber: 2.1 Consensus size: 82
16289435 GACATTATGT
* *
16289445 CTAGCAGGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGCAGGCTTGATACCGGTGAAA
1 CTAGCAGGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGCAGGCTAGATACCGATGAAA
* * * * *
16289510 CATACCATACTTTACGT
66 CAAACAAGACTTTAAGC
* * * * *
16289527 CTAGCAGGCTTGATGCCGGTGAAACATATCAGACTTTATGTCTAGCAGGCTA-AGTGCCGATG-T
1 CTAGCAGGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGCAGGCTAGA-TACCGATGAA
*
16289590 ACTAAACAAGGCTTTAAGC
65 AC-AAACAAGACTTTAAGC
*
16289609 CTAGTAGGCT
1 CTAGCAGGCT
16289619 AAGTGCCGAT
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
81 3 0.04
82 73 0.96
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (82 bp):
CTAGCAGGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGCAGGCTAGATACCGATGAAA
CAAACAAGACTTTAAGC
Found at i:16296737 original size:15 final size:15
Alignment explanation
Indices: 16296717--16296745 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16296707 CGAAACAAGA
16296717 GATGTTGCTATTGCT
1 GATGTTGCTATTGCT
16296732 GATGTTGCTATTGC
1 GATGTTGCTATTGC
16296746 AAGAAGTTAG
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:0.14, C:0.14, G:0.28, T:0.45
Consensus pattern (15 bp):
GATGTTGCTATTGCT
Found at i:16299805 original size:39 final size:39
Alignment explanation
Indices: 16299751--16299829 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
16299741 AGAAGAACTA
16299751 AGCTAAAAGTACTAAAAGAGATAGAGATAGATGTGATTG
1 AGCTAAAAGTACTAAAAGAGATAGAGATAGATGTGATTG
*
16299790 AGCTAAAAGTACTAAAAGAGATGGAGATAGATGTGATTG
1 AGCTAAAAGTACTAAAAGAGATAGAGATAGATGTGATTG
16299829 A
1 A
16299830 AGAGTATGCG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.05, G:0.27, T:0.23
Consensus pattern (39 bp):
AGCTAAAAGTACTAAAAGAGATAGAGATAGATGTGATTG
Found at i:16304172 original size:56 final size:56
Alignment explanation
Indices: 16304112--16304225 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
16304102 AGGATATAGT
16304112 TATTAAATTGAATATTACATAAAATTGAGGCTAATGAATTGAAATAAATTACTTTA
1 TATTAAATTGAATATTACATAAAATTGAGGCTAATGAATTGAAATAAATTACTTTA
* *
16304168 TATTAAATTGAGTATTACATGAAATTGAGGCTAATGAATTGAAATAAATTACTTTA
1 TATTAAATTGAATATTACATAAAATTGAGGCTAATGAATTGAAATAAATTACTTTA
16304224 TA
1 TA
16304226 GATTAATAAC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (56 bp):
TATTAAATTGAATATTACATAAAATTGAGGCTAATGAATTGAAATAAATTACTTTA
Found at i:16310556 original size:15 final size:15
Alignment explanation
Indices: 16310532--16310563 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16310522 TATACATGCA
*
16310532 AAATATAAAAGACAT
1 AAATACAAAAGACAT
16310547 AAATACAAAAGACAT
1 AAATACAAAAGACAT
16310562 AA
1 AA
16310564 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:16315351 original size:42 final size:42
Alignment explanation
Indices: 16315292--16315377 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
16315282 TAAATCCATG
16315292 AATATGGCAGGAGCATTAGTCAAACCAAATGGAATCACAAGA
1 AATATGGCAGGAGCATTAGTCAAACCAAATGGAATCACAAGA
*
16315334 AATATGGCAGGAGCATTAGTCAAACCAAATGGCATCACAAGA
1 AATATGGCAGGAGCATTAGTCAAACCAAATGGAATCACAAGA
16315376 AA
1 AA
16315378 CTCATAGTGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.16
Consensus pattern (42 bp):
AATATGGCAGGAGCATTAGTCAAACCAAATGGAATCACAAGA
Found at i:16316735 original size:50 final size:49
Alignment explanation
Indices: 16316608--16316737 Score: 129
Period size: 49 Copynumber: 2.6 Consensus size: 49
16316598 GATAATAACA
* * * *
16316608 TGCCAAAGCCATGTCCCAAACATGGCCTTACATGGGATGTTTCCTGTAT
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATGTTTCATATAT
* * * *
16316657 TGCCAATGCTATTTCCCAGATATGGTCTTACATGGGA-GTTCTCATATCGA-
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATGTT-TCATAT--AT
* *
16316707 TGCCTATGCCATGTCCCAAACAGGGTCTTAC
1 TGCCAATGCCATGTCCCAAACATGGTCTTAC
16316738 GGGGGCCCTC
Statistics
Matches: 64, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
48 3 0.05
49 35 0.55
50 25 0.39
51 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATGTTTCATATAT
Found at i:16316800 original size:50 final size:50
Alignment explanation
Indices: 16316608--16316843 Score: 152
Period size: 50 Copynumber: 4.6 Consensus size: 50
16316598 GATAATAACA
* * * * ** * * * *
16316608 TGCCAAAGCCATGTCCCAAACATGGCCTTACATGGGATGTTTCCTGT-AT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACATCTCATCTCAG
* * * * ** *
16316657 TGCCAATGCTATTTCCCAGATATGGTCTTACATGGGAGTTCTCATATC-G
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACATCTCATCTCAG
* * * * * *
16316706 ATGCCTATGCCATGTCCCAAACAGGGTCTTACGGGGGCCCTCTCATCTCAG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACATCTCATCTCAG
* * *
16316757 TGCCAACGCCATGTCCCAGACATGGTCTTATGTGGGACATCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACATCTCAT---CTC---AG
*
16316813 TGCCAATGACATGTCCCAGACATGGTCTTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC
16316844 ATAGGATCTC
Statistics
Matches: 142, Mismatches: 36, Indels: 11
0.75 0.19 0.06
Matches are distributed among these distances:
49 36 0.25
50 73 0.51
51 1 0.01
53 3 0.02
56 29 0.20
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACATCTCATCTCAG
Found at i:16319414 original size:31 final size:31
Alignment explanation
Indices: 16319376--16319439 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
16319366 AAATTTTGTG
16319376 TGGTGGGATGCTTAGGGATGACCTAAGGCAT
1 TGGTGGGATGCTTAGGGATGACCTAAGGCAT
16319407 TGGTGGGATGCTTAGGGATGACCTAAGGCAT
1 TGGTGGGATGCTTAGGGATGACCTAAGGCAT
16319438 TG
1 TG
16319440 TTTGAATAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.22, C:0.12, G:0.39, T:0.27
Consensus pattern (31 bp):
TGGTGGGATGCTTAGGGATGACCTAAGGCAT
Found at i:16320533 original size:14 final size:15
Alignment explanation
Indices: 16320510--16320553 Score: 63
Period size: 14 Copynumber: 2.9 Consensus size: 15
16320500 AAATTAAGTC
*
16320510 ATTTTCATTTTTTT-
1 ATTTTTATTTTTTTA
16320524 ATTTTTATTTTTTTA
1 ATTTTTATTTTTTTA
16320539 ATTTCTTATTTTTTT
1 ATTT-TTATTTTTTT
16320554 CAATATTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 13 0.48
15 4 0.15
16 10 0.37
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.80
Consensus pattern (15 bp):
ATTTTTATTTTTTTA
Found at i:16328052 original size:23 final size:22
Alignment explanation
Indices: 16328025--16328074 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 22
16328015 GGAATTTGAA
16328025 AAAGATAACCCAACTTATTT-TT
1 AAAGATAACCCAACTT-TTTCTT
16328047 AGAAG--AACCCAACTTTTTCTT
1 A-AAGATAACCCAACTTTTTCTT
16328068 AAAGATA
1 AAAGATA
16328075 TTTTTATAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
20 6 0.25
21 13 0.54
22 2 0.08
23 3 0.12
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (22 bp):
AAAGATAACCCAACTTTTTCTT
Found at i:16330996 original size:44 final size:44
Alignment explanation
Indices: 16330943--16331975 Score: 1272
Period size: 44 Copynumber: 23.4 Consensus size: 44
16330933 ACCAGTATGG
* * *
16330943 GAAGACAAGATCTGCTCTCTTTGATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
16330987 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * ***
16331031 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
16331076 GAAGACAAGATCTG-TTGTAC-TCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTT-T-CTTCGATCTACTTCACGCCAATACAT
16331120 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * * ***
16331164 GAAGACAAGATCTG-TTTTTTCCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTT-CGATCTACTTC-ACGCCAATACAT
* *
16331209 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
*
16331253 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
16331297 GAAGACAAGATCTG-TTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
*
16331341 GAAGACAAGATCTGCTTTCTTGGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* *
16331385 GAAGACAAGATCTGCTTTCTTGGATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * *
16331429 GAAGACAAGATCTACTTTCTTGGATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* *
16331473 GAAGACAAGATCTGTTTTCTTCGATCTACTTCACGTCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * * * * ***
16331517 GAATACATGATCTACTTT-TTCTGATCTATTTCGCCACCAATATGG
1 GAAGACAAGATCTGCTTTCTTC-GATCTACTTC-ACGCCAATACAT
* *
16331562 GAAAACAAGATCTG-TTATCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
* * * * *
16331606 GAAGACAAGATTTGCTATCTTTGATCTACTTCACACCAATATAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
*
16331650 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
*
16331694 GAAGACAAGATCTGCTTTCTTCGTTCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * * ***
16331738 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
* *
16331783 GAAGACAAGATCTG-TTGTAC-TCGATCTACTTTATGCCAATACAT
1 GAAGACAAGATCTGCTT-T-CTTCGATCTACTTCACGCCAATACAT
* *
16331827 GAAGACAAGATCTGTTTTCTTCGATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * * * * * *
16331871 AAAGACAAGATCTACTTTTTTCGATCTACTTCGCCACCAGTATAG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
* * *
16331916 GAAGACAAGATCTGCTTTCTTTGATCTACTTCATGTCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* *
16331960 AAAGACAAGATTTGCT
1 GAAGACAAGATCTGCT
16331976 GCTTTTCAAC
Statistics
Matches: 854, Mismatches: 114, Indels: 42
0.85 0.11 0.04
Matches are distributed among these distances:
43 11 0.01
44 673 0.79
45 162 0.19
46 8 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
Found at i:16331153 original size:133 final size:132
Alignment explanation
Indices: 16330915--16331975 Score: 1174
Period size: 133 Copynumber: 8.0 Consensus size: 132
16330905 AAGACTTGTA
* *** * * *
16330915 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTCTCTTTGATCTACTTCATGCC
1 TCTTCGATCTACTTCGCCACCAATACATGAAGACAAGATCTG-TTTCTTCGATCTACTTCACGCC
16330980 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
65 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
16331045 CTT
130 CTT
* ***
16331048 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTGTAC-TCGATCTACTTCACGC
1 TCTTCGATCTACTTCGCCACCAATACATGAAGACAAGATCTGTT-T-CTTCGATCTACTTCACGC
16331112 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
64 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
16331177 G-TT
129 GCTT
* * *** * *
16331180 TTTTCCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGC
1 TCTT-CGATCTACTTCGCCACCAATACATGAAGACAAGATCTG-TTTCTTCGATCTACTTCACGC
*
16331245 CAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
64 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
16331310 G-TT
129 GCTT
* * *
16331313 ATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTGGATCTACTTCACGC
1 -TCTTCGATCTACTTCGCCACCAATACATGAAGACAAGATCTG-TTTCTTCGATCTACTTCACGC
* *
16331377 CAATACATGAAGACAAGATCTGCTTTCTTGGATCTACTTCATGCCAATACATGAAGACAAGATCT
64 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
*
16331442 ACTT
129 GCTT
* *** *
16331446 TCTTGGATCTACTTC-ATGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGTC
1 TCTTCGATCTACTTCGCCACCAATACATGAAGACAAGATCTG-TTTCTTCGATCTACTTCACGCC
* * * * * * *** *
16331510 AATACATGAATACATGATCTACTTT-TTCTGATCTATTTCGCCACCAATATGGGAAAACAAGATC
65 AATACATGAAGACAAGATCTGCTTTCTTC-GATCTACTTC-ACGCCAATACATGAAGACAAGATC
16331574 TG-TT
128 TGCTT
* * * * * * *
16331578 ATCTTTGATCTACTTC-ACGCCAATACATGAAGACAAGATTTGCTATCTTTGATCTACTTCACAC
1 -TCTTCGATCTACTTCGCCACCAATACATGAAGACAAGATCTG-TTTCTTCGATCTACTTCACGC
* *
16331642 CAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
64 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
16331707 GCTT
129 GCTT
* * * * * *
16331711 TCTTCGTTCTACTTC-ACGCCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCAC
1 TCTTCGATCTACTTCGCCACCAATACATGAAGACAAGATCT-GTTTCTTCGATCTACTTC-ACGC
* *** * *
16331775 CAGTATGGGAAGACAAGATCTG-TTGTAC-TCGATCTACTTTATGCCAATACATGAAGACAAGAT
64 CAATACATGAAGACAAGATCTGCTT-T-CTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
*
16331838 CTGTTT
127 CTGCTT
*** * * * * *
16331844 TCTTCGATCTACTTC-ATGCCAATACATAAAGACAAGATCTACTTTTTTCGATCTACTTCGCCAC
1 TCTTCGATCTACTTCGCCACCAATACATGAAGACAAGATCT-GTTTCTTCGATCTACTTC-ACGC
* * * * * * * *
16331908 CAGTATAGGAAGACAAGATCTGCTTTCTTTGATCTACTTCATGTCAATACATAAAGACAAGATTT
64 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
16331973 GCT
129 GCT
16331976 GCTTTTCAAC
Statistics
Matches: 827, Mismatches: 83, Indels: 36
0.87 0.09 0.04
Matches are distributed among these distances:
131 2 0.00
132 275 0.33
133 539 0.65
134 11 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (132 bp):
TCTTCGATCTACTTCGCCACCAATACATGAAGACAAGATCTGTTTCTTCGATCTACTTCACGCCA
ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
TT
Found at i:16331342 original size:221 final size:220
Alignment explanation
Indices: 16330943--16331970 Score: 1229
Period size: 221 Copynumber: 4.6 Consensus size: 220
16330933 ACCAGTATGG
* *
16330943 GAAGACAAGATCTGCTCTCTTT-GATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTGCT-TTTTTCGATCTACTTCA-GCCAATACATGAAGACAAGATCTGCTATCT
* * *
16331007 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
64 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAAT
*** * * *
16331072 ATGGGAAGACAAGATCT-GTTGTAC-TCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTG
128 ACATGAAGACAAGATCTACTT-T-CTTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTG
16331134 CTT-TCTTCGATCTACTTCACGCCAATACAT
191 -TTATCTTCGATCTACTTCACGCCAATACAT
***
16331164 GAAGACAAGATCTG-TTTTTTCCGATCTACTTC-GCCACCAGTATGGGAAGACAAGATCTGCTAT
1 GAAGACAAGATCTGCTTTTTT-CGATCTACTTCAGCCA--A-TACATGAAGACAAGATCTGCTAT
* *
16331227 CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAA
62 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAA
* * *
16331292 TACATGAAGACAAGATCT-GTTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTG
127 TACATGAAGACAAGATCTACTT-TCTTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTG
*
16331355 CTT-TCTTGGATCTACTTCACGCCAATACAT
191 -TTATCTTCGATCTACTTCACGCCAATACAT
* * * *
16331385 GAAGACAAGATCTGCTTTCTTGGATCTACTTCATGCCAATACATGAAGACAAGATCTACTTTCTT
1 GAAGACAAGATCTGCTTTTTTCGATCTACTTCA-GCCAATACATGAAGACAAGATCTGCTATCTT
* * * *
16331450 GGATCTACTTCATGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGTCAATAC
65 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATAC
* * * * ** *
16331515 ATGAATACATGATCTACTTT-TTCTGATCTATTTCGCCACCAATATGGGAAAACAAGATCTGTTA
130 ATGAAGACAAGATCTACTTTCTTC-GATCTACTTCGACACCAATACAGGAAGACAAGATCTGTTA
*
16331579 TCTTTGATCTACTTCACGCCAATACAT
194 TCTTCGATCTACTTCACGCCAATACAT
* * * *
16331606 GAAGACAAGATTTGCTATCTTT-GATCTACTTCACACCAATATATGAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCT-TTTTTCGATCTACTTCA-GCCAATACATGAAGACAAGATCTGCTATCT
*
16331670 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGTTCTACTTCACGCCAATA
64 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATA
* * ** *
16331735 CATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTG
129 CATGAAGACAAGATCTACTTTCTTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGTTA
* *
16331800 TAC-TCGATCTACTTTATGCCAATACAT
194 T-CTTCGATCTACTTCACGCCAATACAT
* * * *
16331827 GAAGACAAGATCTG-TTTTCTTCGATCTACTTCATGCCAATACATAAAGACAAGATCTACTTTTT
1 GAAGACAAGATCTGCTTTT-TTCGATCTACTTCA-GCCAATACATGAAGACAAGATCTGCTATCT
* * * * * * * *
16331891 TCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCTTTCTTTGATCTACTTCATGTCAAT
64 TCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAAT
*
16331956 ACATAAAGACAAGAT
128 ACATGAAGACAAGAT
16331971 TTGCTGCTTT
Statistics
Matches: 709, Mismatches: 79, Indels: 37
0.86 0.10 0.04
Matches are distributed among these distances:
219 13 0.02
220 111 0.16
221 437 0.62
222 144 0.20
223 4 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (220 bp):
GAAGACAAGATCTGCTTTTTTCGATCTACTTCAGCCAATACATGAAGACAAGATCTGCTATCTTC
GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACA
TGAAGACAAGATCTACTTTCTTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGTTATC
TTCGATCTACTTCACGCCAATACAT
Found at i:16333302 original size:13 final size:13
Alignment explanation
Indices: 16333281--16333310 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16333271 TTTTCCGTTC
*
16333281 TTCATTTTTCATT
1 TTCACTTTTCATT
16333294 TTCACTTTTCATT
1 TTCACTTTTCATT
16333307 TTCA
1 TTCA
16333311 TTTCATCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCACTTTTCATT
Found at i:16336643 original size:16 final size:16
Alignment explanation
Indices: 16336618--16336648 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16336608 TTCTATAATG
*
16336618 AAATGTCATGCAGTCT
1 AAATGCCATGCAGTCT
16336634 AAATGCCATGCAGTC
1 AAATGCCATGCAGTC
16336649 AAAGTGAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (16 bp):
AAATGCCATGCAGTCT
Found at i:16342327 original size:115 final size:118
Alignment explanation
Indices: 16342124--16342358 Score: 431
Period size: 115 Copynumber: 2.0 Consensus size: 118
16342114 ATTTTTAGGT
16342124 CTGGTTAGGATTATTTCACTCTTCTAATGCAAAAAAAAAAAGAAAGAAAGAAACCACAACTCATT
1 CTGGTTAGGATTATTTCACTCTTCTAATGC--AAAAAAAAAGAAAGAAAGAAACCACAACTCATT
16342189 TGTTAGCTAATTGATTAAAATATTGTTATAGGATTAGGATTATTAATTTTAACTA
64 TGTTAGCTAATTGATTAAAATATTGTTATAGGATTAGGATTATTAATTTTAACTA
16342244 CTGGTTAGGATTATTTCACTCTTCTAATGC-AAAAAAAA-AAA-AAAGAAACCACAACTCATTTG
1 CTGGTTAGGATTATTTCACTCTTCTAATGCAAAAAAAAAGAAAGAAAGAAACCACAACTCATTTG
16342306 TTAGCTAATTGATTAAAATATTGTTATAGGATTAGGATTATTAATTTTAACTA
66 TTAGCTAATTGATTAAAATATTGTTATAGGATTAGGATTATTAATTTTAACTA
16342359 TTGCTACTTC
Statistics
Matches: 115, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
115 74 0.64
116 3 0.03
117 8 0.07
120 30 0.26
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (118 bp):
CTGGTTAGGATTATTTCACTCTTCTAATGCAAAAAAAAAGAAAGAAAGAAACCACAACTCATTTG
TTAGCTAATTGATTAAAATATTGTTATAGGATTAGGATTATTAATTTTAACTA
Found at i:16343357 original size:24 final size:24
Alignment explanation
Indices: 16343330--16343376 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
16343320 GTTTTGAGAA
16343330 ACACGCGGAGAGCATGGGAATGCG
1 ACACGCGGAGAGCATGGGAATGCG
* *
16343354 ACACGTGGAGCGCATGGGAATGC
1 ACACGCGGAGAGCATGGGAATGC
16343377 AAATATAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.21, G:0.40, T:0.11
Consensus pattern (24 bp):
ACACGCGGAGAGCATGGGAATGCG
Found at i:16344744 original size:13 final size:13
Alignment explanation
Indices: 16344726--16344750 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16344716 GGTCTAATTA
16344726 TTTATTAAATTTT
1 TTTATTAAATTTT
16344739 TTTATTAAATTT
1 TTTATTAAATTT
16344751 AAAAGTGTGT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTATTAAATTTT
Found at i:16345885 original size:12 final size:12
Alignment explanation
Indices: 16345847--16345877 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
16345837 TGACAATGTA
16345847 AATAAATAAATG
1 AATAAATAAATG
16345859 AATAAATAAAATG
1 AATAAAT-AAATG
16345872 AATAAA
1 AATAAA
16345878 AATATGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (12 bp):
AATAAATAAATG
Found at i:16345917 original size:26 final size:25
Alignment explanation
Indices: 16345847--16345909 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
16345837 TGACAATGTA
*
16345847 AATAAATAA-ATGAATAA-ATAAAATG
1 AATAAA-AATATGAA-AATATAAAAAG
16345872 AATAAAAATATGAAAATATAAAAAG
1 AATAAAAATATGAAAATATAAAAAG
*
16345897 ATATATAAATATG
1 A-ATAAAAATATG
16345910 TATATATATG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 4 0.12
25 19 0.58
26 10 0.30
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (25 bp):
AATAAAAATATGAAAATATAAAAAG
Found at i:16346296 original size:16 final size:17
Alignment explanation
Indices: 16346271--16346303 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
16346261 TAATGTATAC
*
16346271 AAAAATTATAA-AATAT
1 AAAAAGTATAAGAATAT
16346287 AAAAAGTATAAGAATAT
1 AAAAAGTATAAGAATAT
16346304 GTGTGTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (17 bp):
AAAAAGTATAAGAATAT
Found at i:16348052 original size:129 final size:128
Alignment explanation
Indices: 16347923--16348210 Score: 418
Period size: 129 Copynumber: 2.2 Consensus size: 128
16347913 TACAAATTCA
*
16347923 AAGGGACGA-AATTGGTTTCTTTTGTCTGCTCAACTGCAACTTCAGGGAGATAAGACTGAATGCG
1 AAGGGA-GAGAATTGGTTTCTTTCGTCTGCTCAACTGCAACTTCAGGGAGATAAGACTGAATGCG
* *
16347987 ATCTACTCTACTACAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTC
65 ATCTACTCTACTACAACTTCAGAGAGATAAGATATGTGATTTTAATCCACTCCACTGCAACTTC
* * * *
16348051 AAGGAGATAGAATTGGTTTCTTTCGTCTGCTCCACTGCAACTTCATGGAGATAAGACTGGATGCG
1 AAGG-GAGAGAATTGGTTTCTTTCGTCTGCTCAACTGCAACTTCAGGGAGATAAGACTGAATGCG
* * * *
16348116 ATCTGCTCTACTGCAACTTCGGAGAGATAAGATATGTGATTTTAATCCGCTCCACTGCAACTTC
65 ATCTACTCTACTACAACTTCAGAGAGATAAGATATGTGATTTTAATCCACTCCACTGCAACTTC
*
16348180 -AGGGAGATAGGATTGGTTTCTTTCGTCTGCT
1 AAGGGAG--AGAATTGGTTTCTTTCGTCTGCT
16348211 TCCTACTATC
Statistics
Matches: 143, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
127 2 0.01
128 8 0.06
129 133 0.93
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (128 bp):
AAGGGAGAGAATTGGTTTCTTTCGTCTGCTCAACTGCAACTTCAGGGAGATAAGACTGAATGCGA
TCTACTCTACTACAACTTCAGAGAGATAAGATATGTGATTTTAATCCACTCCACTGCAACTTC
Found at i:16348058 original size:44 final size:42
Alignment explanation
Indices: 16348000--16348198 Score: 131
Period size: 44 Copynumber: 4.6 Consensus size: 42
16347990 TACTCTACTA
* *
16348000 CAACTTC-AGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTG
1 CAACTTCAAG-GAGATAAGA-AT-TGGTTTTAATCCGCTCCACTG
*
16348044 CAACTTCAAGGAGAT-AGAATTGGTTTCT-TTCGTCTGCTCCACTG
1 CAACTTCAAGGAGATAAGAATTGGTTT-TAATC--C-GCTCCACTG
* * * *** * *
16348088 CAACTTCATGGAGATAAG-ACTGGATGCGATCTGCTCTACTG
1 CAACTTCAAGGAGATAAGAATTGGTTTTAATCCGCTCCACTG
* *
16348129 CAACTTC-GGAGAGATAAGATATGTGATTTTAATCCGCTCCACTG
1 CAACTTCAAG-GAGATAAGA-AT-TGGTTTTAATCCGCTCCACTG
* *
16348173 CAACTTCAGGGAGAT-AGGATTGGTTT
1 CAACTTCAAGGAGATAAGAATTGGTTT
16348199 CTTTCGTCTG
Statistics
Matches: 121, Mismatches: 22, Indels: 27
0.71 0.13 0.16
Matches are distributed among these distances:
40 1 0.01
41 36 0.30
42 4 0.03
43 7 0.06
44 67 0.55
45 6 0.05
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (42 bp):
CAACTTCAAGGAGATAAGAATTGGTTTTAATCCGCTCCACTG
Found at i:16348133 original size:41 final size:40
Alignment explanation
Indices: 16347947--16348188 Score: 128
Period size: 44 Copynumber: 5.7 Consensus size: 40
16347937 GTTTCTTTTG
* *
16347947 TCTGCTCAACTGCAACTTCAGGGAGATAAGACTGAATGCGA
1 TCTGCTCCACTGCAACTTCA-GGAGATAAGACTGGATGCGA
* * * * ***
16347988 TCTACTCTACTACAACTTCAGAGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAG-GAGATAAGA-C--TGGATGCGA
** * * *
16348032 TCCACTCCACTGCAACTTCAAGGAGAT-AGAATTGGTTTCTTTCG-
1 TCTGCTCCACTGCAACTTC-AGGAGATAAG-ACTGG----ATGCGA
16348076 TCTGCTCCACTGCAACTTCATGGAGATAAGACTGGATGCGA
1 TCTGCTCCACTGCAACTTCA-GGAGATAAGACTGGATGCGA
* * * ***
16348117 TCTGCTCTACTGCAACTTCGGAGAGATAAGATATGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAG-GAGATAAGA-CTG-GA-TGCGA
*
16348161 TCCGCTCCACTGCAACTTCAGGGAGATA
1 TCTGCTCCACTGCAACTTCA-GGAGATA
16348189 GGATTGGTTT
Statistics
Matches: 155, Mismatches: 28, Indels: 33
0.72 0.13 0.15
Matches are distributed among these distances:
40 5 0.03
41 56 0.36
42 3 0.02
43 5 0.03
44 78 0.50
45 8 0.05
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (40 bp):
TCTGCTCCACTGCAACTTCAGGAGATAAGACTGGATGCGA
Found at i:16348340 original size:131 final size:131
Alignment explanation
Indices: 16348205--16349113 Score: 1451
Period size: 131 Copynumber: 6.9 Consensus size: 131
16348195 GTTTCTTTCG
* *
16348205 TCTGCTTCCTACTATCTCGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGG
1 TCTGCTTCCTACTACCTCGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
* *
16348270 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAGAACTAGTGGCTTAA
66 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAGGACTGGTGGCTTAA
16348335 A
131 A
* * *
16348336 TCTGCTTCTTACTACCTCGGGAAGATAAGATTTGCCGTCTTCGATCTGTTCCACTACTGCTTAGG
1 TCTGCTTCCTACTACCTCGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
* *
16348401 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGATGGCTTAA
66 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAGGACTGGTGGCTTAA
16348466 A
131 A
* * * * *
16348467 TCTGCTTCCTACTACCTTGAGAAAATAAGATTCGCCATCTTCGATCTGCTCCACTACTGTTTAGG
1 TCTGCTTCCTACTACCTCGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
* * *
16348532 GAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
66 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAGGACTGGTGGCTTAA
16348597 A
131 A
* * * * *
16348598 TCAGCTTCCTACTACCTCGGGAAAATAAGATTTGCCGTCTTCGATCTGTTCCGCTACTGCTTAGG
1 TCTGCTTCCTACTACCTCGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
*
16348663 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTACTCAAGGAGATAGGACTGGTGGCTTAA
66 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAGGACTGGTGGCTTAA
16348728 A
131 A
* *
16348729 TCTGCTTCTTACTACCTCAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
1 TCTGCTTCCTACTACCTCGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
*
16348794 GAGATAAGATCTACAATCTTCAACCCACTCCACTGCTGCTCAAGGAGATAGGACTGGTGGCTTAA
66 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAGGACTGGTGGCTTAA
16348859 A
131 A
* * *
16348860 TCTGCTTCCTACTACCTCGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCATTACTTCTTAGG
1 TCTGCTTCCTACTACCTCGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
16348925 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTC-AGAGAGATAGGACTGGTGGCTTA
66 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAG-GAGATAGGACTGGTGGCTTA
16348989 AA
130 AA
** * * * * *
16348991 TCTGCTTCCTACTACCTCAAGAAGATAAGATTCACCGTATTCAATCTGCTCTACTACTACTTAGG
1 TCTGCTTCCTACTACCTCGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
* * *
16349056 GAGATAAGATCTACAATCTTCAACCTACTCCACTACTCCTCAGGGAGATAGGACTGGT
66 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAGGACTGGT
16349114 TTCACCGATC
Statistics
Matches: 717, Mismatches: 59, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
130 2 0.00
131 714 1.00
132 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (131 bp):
TCTGCTTCCTACTACCTCGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAGGACTGGTGGCTTAA
A
Found at i:16349970 original size:20 final size:20
Alignment explanation
Indices: 16349947--16349984 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16349937 TCCTTTTTCC
16349947 TTTTTCG-TTCTTCTTTTCTT
1 TTTTTCGTTTCTT-TTTTCTT
*
16349967 TTTTTTGTTTCTTTTTTC
1 TTTTTCGTTTCTTTTTTC
16349985 AAAATAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTTCGTTTCTTTTTTCTT
Found at i:16350419 original size:16 final size:16
Alignment explanation
Indices: 16350395--16350430 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16350385 CGGTAGAGGG
16350395 TTTTATTTTTTTATGT
1 TTTTATTTTTTTATGT
* *
16350411 TTTTGTTTTTTTTTGT
1 TTTTATTTTTTTATGT
16350427 TTTT
1 TTTT
16350431 TTACCTCCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.00, G:0.08, T:0.86
Consensus pattern (16 bp):
TTTTATTTTTTTATGT
Found at i:16355316 original size:12 final size:12
Alignment explanation
Indices: 16355278--16355308 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
16355268 TGACAATGTA
16355278 AATAAATAAATG
1 AATAAATAAATG
16355290 AATAAATAAAATG
1 AATAAAT-AAATG
16355303 AATAAA
1 AATAAA
16355309 AATATGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (12 bp):
AATAAATAAATG
Found at i:16355348 original size:26 final size:25
Alignment explanation
Indices: 16355278--16355340 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
16355268 TGACAATGTA
*
16355278 AATAAATAA-ATGAATAA-ATAAAATG
1 AATAAA-AATATGAA-AATATAAAAAG
16355303 AATAAAAATATGAAAATATAAAAAG
1 AATAAAAATATGAAAATATAAAAAG
*
16355328 ATATATAAATATG
1 A-ATAAAAATATG
16355341 TATATATACG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 4 0.12
25 19 0.58
26 10 0.30
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (25 bp):
AATAAAAATATGAAAATATAAAAAG
Found at i:16355607 original size:12 final size:12
Alignment explanation
Indices: 16355590--16355620 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
16355580 ATTATAAAAA
16355590 TATATAAGCATG
1 TATATAAGCATG
*
16355602 TATATATGCATG
1 TATATAAGCATG
16355614 TATATAA
1 TATATAA
16355621 ATAAGTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (12 bp):
TATATAAGCATG
Found at i:16359462 original size:63 final size:63
Alignment explanation
Indices: 16359345--16359493 Score: 181
Period size: 63 Copynumber: 2.4 Consensus size: 63
16359335 CGGTCTAAGA
* * * * * *
16359345 AATGATTGTGCGTGTTATGGTGCTTGTGTAAAATAAATTGGCGATAACTGTGTTGGTGCAGGG
1 AATGATTGCGCGTGTTATGGTACTTGTGTAAAATAAACTAGCGATAACTGTGTTGGAGCAGAG
* * * * * *
16359408 AATGATTGCACGTGTTGTGGTACTTGTGTAAAATAAACTAGTGATGATTTTGTTGGAGCAGAG
1 AATGATTGCGCGTGTTATGGTACTTGTGTAAAATAAACTAGCGATAACTGTGTTGGAGCAGAG
*
16359471 AATGATTGCGTGTGTTATGGTAC
1 AATGATTGCGCGTGTTATGGTAC
16359494 ATGTTGTGAT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 71 1.00
ACGTcount: A:0.26, C:0.08, G:0.31, T:0.36
Consensus pattern (63 bp):
AATGATTGCGCGTGTTATGGTACTTGTGTAAAATAAACTAGCGATAACTGTGTTGGAGCAGAG
Found at i:16361154 original size:52 final size:52
Alignment explanation
Indices: 16361076--16361180 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
16361066 TATTAATCTA
* * **
16361076 AACAACATAATAATTAACTATTTAAAATTAAATAATTTGATAATATTTTCTT
1 AACAACATAATAATTAACAAATTAAAATTAAATAATTAAATAATATTTTCTT
*
16361128 AACATCATAATAATTAACAAATTAAAATTAAATAATTAAATAATATTTTCTT
1 AACAACATAATAATTAACAAATTAAAATTAAATAATTAAATAATATTTTCTT
16361180 A
1 A
16361181 CCATTTGTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.51, C:0.08, G:0.01, T:0.40
Consensus pattern (52 bp):
AACAACATAATAATTAACAAATTAAAATTAAATAATTAAATAATATTTTCTT
Found at i:16364782 original size:17 final size:17
Alignment explanation
Indices: 16364760--16364817 Score: 71
Period size: 17 Copynumber: 3.3 Consensus size: 17
16364750 ATTACTTTTT
16364760 TAAAATATTAAAAATTA
1 TAAAATATTAAAAATTA
*
16364777 TAAAATATTAAAAATCA
1 TAAAATATTAAAAATTA
* *
16364794 TTAAAATTACTAAAAAGTA
1 -TAAAA-TATTAAAAATTA
16364813 TAAAA
1 TAAAA
16364818 AAAATTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 16 0.46
18 10 0.29
19 9 0.26
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (17 bp):
TAAAATATTAAAAATTA
Found at i:16364827 original size:9 final size:9
Alignment explanation
Indices: 16364761--16364850 Score: 67
Period size: 10 Copynumber: 9.6 Consensus size: 9
16364751 TTACTTTTTT
16364761 AAAATATT-
1 AAAATATTA
16364769 AAAA-ATTA
1 AAAATATTA
16364777 TAAAATATTA
1 -AAAATATTA
16364787 AAAATCATTA
1 AAAAT-ATTA
* *
16364797 AAATTACTA
1 AAAATATTA
*
16364806 AAAAGTATAA
1 AAAA-TATTA
*
16364816 AAAAAATTA
1 AAAATATTA
*
16364825 AAAATTTTTA
1 AAAA-TATTA
16364835 AAAACTAATTA
1 AAAA-T-ATTA
16364846 AAAAT
1 AAAAT
16364851 TGACATGTCA
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
7 3 0.05
8 4 0.06
9 22 0.34
10 28 0.44
11 7 0.11
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAATATTA
Found at i:16370493 original size:16 final size:16
Alignment explanation
Indices: 16370449--16370502 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
16370439 TTTGGTTCGC
* *
16370449 TGTAATGGAATAAAGC
1 TGTAATGGAATAGAGA
*
16370465 TGTAATGGAATAGGGA
1 TGTAATGGAATAGAGA
16370481 TGTAATGGAATAGAGA
1 TGTAATGGAATAGAGA
*
16370497 CGTAAT
1 TGTAAT
16370503 AGTAATTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.41, C:0.04, G:0.30, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGA
Found at i:16370792 original size:38 final size:37
Alignment explanation
Indices: 16370750--16371019 Score: 125
Period size: 37 Copynumber: 6.8 Consensus size: 37
16370740 AAAAATAAAC
**
16370750 AATTTAATAAAATTCTTAATATTAAATATTCTTATAT
1 AATTTAATAAAATTCTTAATATTAAATATTAATATAT
* * *
16370787 GAATTTACTAAAA-TCATAATA-TATAATACTATAAAATAT
1 -AATTTAATAAAATTCTTAATATTA-AATA-T-TAATATAT
* * * * **
16370826 AATTGAACATAATTATTATTAAATATAATTTAATAAAAATATAT
1 AATT-TA-ATAA-AATTCTT--A-AT-ATTAAATATTAATATAT
** *
16370870 AATTTAATAAAATTCTTAATATTAAATATTCTTCTAT
1 AATTTAATAAAATTCTTAATATTAAATATTAATATAT
* *
16370907 GAATTTAATAAAA-TCATAATA-TATAATACTATAAAATAT
1 -AATTTAATAAAATTCTTAATATTA-AATA-T-TAATATAT
* * * **
16370946 AATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATAT
1 AATTT--AATAA-AATTCTT--A-AT-ATTAAATATTAATATAT
16370990 AATTTAATAAAATTCTTAATATTAAATATT
1 AATTTAATAAAATTCTTAATATTAAATATT
16371020 CTTCTATGAA
Statistics
Matches: 167, Mismatches: 40, Indels: 51
0.65 0.16 0.20
Matches are distributed among these distances:
36 4 0.02
37 40 0.24
38 38 0.23
39 12 0.07
40 8 0.05
41 12 0.07
42 13 0.08
43 1 0.01
44 23 0.14
45 4 0.02
46 10 0.06
47 2 0.01
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (37 bp):
AATTTAATAAAATTCTTAATATTAAATATTAATATAT
Found at i:16370847 original size:120 final size:120
Alignment explanation
Indices: 16370711--16371031 Score: 579
Period size: 120 Copynumber: 2.7 Consensus size: 120
16370701 ATCATATTTT
* * *
16370711 AACATAACTATTATTAAATATAATTTAATAAAAATAAACAATTTAATAAAATTCTTAATATTAAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
* *
16370776 TATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTG
66 TATTCTTCTATGAATTTAATAAAATCATAATATATAATACTATAAAATATAATTG
16370831 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
*
16370896 TATTCTTCTATGAATTTAATAAAATCATAATATATAATACTATAAAATATAATTT
66 TATTCTTCTATGAATTTAATAAAATCATAATATATAATACTATAAAATATAATTG
*
16370951 AAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
16371016 TATTCTTCTATGAATT
66 TATTCTTCTATGAATT
16371032 CAAAAATTTA
Statistics
Matches: 194, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 194 1.00
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
TATTCTTCTATGAATTTAATAAAATCATAATATATAATACTATAAAATATAATTG
Found at i:16374844 original size:16 final size:16
Alignment explanation
Indices: 16374812--16374845 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16374802 GGTTAGCCTC
*
16374812 TCATTTCCTTCTCATT
1 TCATTTCCTCCTCATT
*
16374828 TCATTTCCTCCTTATT
1 TCATTTCCTCCTCATT
16374844 TC
1 TC
16374846 CTCTCCGTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.32, G:0.00, T:0.56
Consensus pattern (16 bp):
TCATTTCCTCCTCATT
Found at i:16375978 original size:205 final size:202
Alignment explanation
Indices: 16375605--16376261 Score: 844
Period size: 205 Copynumber: 3.2 Consensus size: 202
16375595 AGAAATTAGA
* * * * * *
16375605 AAGTTGAATGCCTTAATAAGGATGTATGGTATGGTGTTTCTATCTTGTAATGCTTGAAAACTGTG
1 AAGTTGAATGCCTTAATATGGATGCATGATATAGTGTTTCCATCTTGTAATGCTTGAAAAC-GTA
* * * * *
16375670 TATAAACCAAAATGGATGAAAGTATAATTGCATCT-TGTGTT-T-T-AAAATTAGGAATATTTTT
65 TATAAACCAGAGTGGATGAAAGTATAATTGCATCTGTGTTTTGTGTCAAAATTAGCAATATTTCT
* * * * *
16375731 GTCATTAATTGCTGATTTGCATGTTCTGCTGCTCTGCCTTGTTTTCATTTGGATGATTTTACCAT
130 GTCATTAATTGCTAATTTTCATGTTCTACTGCTCTGCCTTGTTTTCATTTGGATAATTGTACCAT
16375796 ATATAATGT
195 ATA-AATGT
16375805 AAGTTGAATGCCTTAATATGGATGCATGATATAGTGTTTCCATCTTGTAATGCTTGAAAAC-TAT
1 AAGTTGAATGCCTTAATATGGATGCATGATATAGTGTTTCCATCTTGTAATGCTTGAAAACGTAT
* *
16375869 ATAAACCAGAGTGAATTG-AAGTATTATTGCATCTGGTGTTTTGTGTACCAAAATTAGCAATATT
66 ATAAACCAGAGTGGA-TGAAAGTATAATTGCATCT-GTGTTTTGTGT--CAAAATTAGCAATATT
* *
16375933 TCTGTCATTAATTGCTAATTTTCATGTTCTACTGCTCTCCCTTGTTTTGATTTGGATAATTGTAC
127 TCTGTCATTAATTGCTAATTTTCATGTTCTACTGCTCTGCCTTGTTTTCATTTGGATAATTGTAC
*
16375998 CATATAAGCTGT
192 CATATAA-ATGT
*
16376010 AAGTTGAATGCCATAATATGGATGCATGATATAGTGTTTCCATCTTGTAATGCTTGAAAACTGTA
1 AAGTTGAATGCCTTAATATGGATGCATGATATAGTGTTTCCATCTTGTAATGCTTGAAAAC-GTA
*
16376075 TATAAACCAGAGTGGATGAAAGTATAATTGCATTTGTGTTTTGTGTTTCAAAAATTA-CTAATAT
65 TATAAACCAGAGTGGATGAAAGTATAATTGCATCTGTGTTTTGTG--TC-AAAATTAGC-AATAT
* * * * * *
16376139 TTCTATCATTGAACTACTAATTTT-ATTGTTCCACTGCTCTGCCTTGATTTCTTTTGGATAATTG
126 TTCTGTCATT-AATTGCTAATTTTCA-TGTTCTACTGCTCTGCCTTGTTTTCATTTGGATAATTG
*
16376203 TACCATATAAAATGC
189 TACCATAT-AAATGT
*
16376218 AAGTTGAATGCCTTAAGATGGATGCATGATATAGTGTTTCCATC
1 AAGTTGAATGCCTTAATATGGATGCATGATATAGTGTTTCCATC
16376262 ATGCTCGAAA
Statistics
Matches: 401, Mismatches: 37, Indels: 30
0.86 0.08 0.06
Matches are distributed among these distances:
198 29 0.07
199 2 0.00
200 61 0.15
201 1 0.00
202 1 0.00
204 1 0.00
205 140 0.35
206 14 0.03
207 53 0.13
208 97 0.24
209 2 0.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (202 bp):
AAGTTGAATGCCTTAATATGGATGCATGATATAGTGTTTCCATCTTGTAATGCTTGAAAACGTAT
ATAAACCAGAGTGGATGAAAGTATAATTGCATCTGTGTTTTGTGTCAAAATTAGCAATATTTCTG
TCATTAATTGCTAATTTTCATGTTCTACTGCTCTGCCTTGTTTTCATTTGGATAATTGTACCATA
TAAATGT
Found at i:16376583 original size:52 final size:51
Alignment explanation
Indices: 16376490--16376591 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 51
16376480 CTATTGCATA
* * * *
16376490 CTTTAGCTTTGCAGCAATTTTTTGTTTCAAAACGAGTGATGTAGGATAAGG
1 CTTTAGCTTTGCAGAAATTTTGTGTTTCAAAACGAGAGATGTAAGATAAGG
16376541 CTTTAGCTTTGCA-AAATGTTGTGTGTTTCAAAA-GAAGAGATGTAAGATAAG
1 CTTTAGCTTTGCAGAAAT-TT-TGTGTTTCAAAACG-AGAGATGTAAGATAAG
16376592 TAAGGAGAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
50 3 0.07
51 16 0.36
52 25 0.57
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (51 bp):
CTTTAGCTTTGCAGAAATTTTGTGTTTCAAAACGAGAGATGTAAGATAAGG
Found at i:16376757 original size:40 final size:40
Alignment explanation
Indices: 16376675--16376757 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 40
16376665 GAGGAAACAA
* * *
16376675 AAGAAATATATAAAGAACATCGGAAAGGAATTAAGAGAGT
1 AAGAAATATATAAAGAACATCGGAAAAGAATCAACAGAGT
* * *
16376715 AAGAAATATATAGAGAACATCGGAAAAGAGTCAACAGCGT
1 AAGAAATATATAAAGAACATCGGAAAAGAATCAACAGAGT
16376755 AAG
1 AAG
16376758 GAATCAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.53, C:0.08, G:0.23, T:0.16
Consensus pattern (40 bp):
AAGAAATATATAAAGAACATCGGAAAAGAATCAACAGAGT
Found at i:16377354 original size:74 final size:72
Alignment explanation
Indices: 16377263--16377487 Score: 317
Period size: 74 Copynumber: 3.0 Consensus size: 72
16377253 ATTGCAGCAG
* *
16377263 TTCCTACTTTCCCTTTCATTTTCTCTAGTTCTAAACTTTTGCAGCAGTTTCCCTTCTTTTGTCTT
1 TTCCTACTTT-CCTTTCATTTTCTCTAGTTCTAAACTTTTGTAGCAGTTTCCCTTCTTTTAT-TT
16377328 CTCTGGTTC
64 CTCTGGTTC
* * *
16377337 TTCCTACTTTCCTTTTCATTCTCTCTAGTTCTAAACTTTTGTAGTAGTTTCCCTTCTTTAATTTC
1 TTCCTACTTTCC-TTTCATTTTCTCTAGTTCTAAACTTTTGTAGCAGTTTCCCTTCTTTTATTT-
*
16377402 CTCTGGTTT
64 CTCTGGTTC
*
16377411 TTCCTACTTTTCCTTTCATTTTCTCTAGTTCTAAACTTTTGTA-CTAATTTCCCTTCTTTTATTT
1 TTCCTAC-TTTCCTTTCATTTTCTCTAGTTCTAAACTTTTGTAGC-AGTTTCCCTTCTTTTA-TT
16377475 TCTCTGGTTC
63 TCTCTGGTTC
16377485 TTC
1 TTC
16377488 AACTTTTGCA
Statistics
Matches: 135, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
73 4 0.03
74 123 0.91
75 8 0.06
ACGTcount: A:0.12, C:0.26, G:0.08, T:0.54
Consensus pattern (72 bp):
TTCCTACTTTCCTTTCATTTTCTCTAGTTCTAAACTTTTGTAGCAGTTTCCCTTCTTTTATTTCT
CTGGTTC
Found at i:16386803 original size:12 final size:12
Alignment explanation
Indices: 16386788--16386820 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
16386778 ATGGAAAAAG
16386788 TGATGATGACGA
1 TGATGATGACGA
*
16386800 TGATGATGACGG
1 TGATGATGACGA
16386812 TGATGATGA
1 TGATGATGA
16386821 TGACGACGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.30, C:0.06, G:0.36, T:0.27
Consensus pattern (12 bp):
TGATGATGACGA
Found at i:16386806 original size:15 final size:15
Alignment explanation
Indices: 16386788--16386829 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
16386778 ATGGAAAAAG
*
16386788 TGATGATGACGATGA
1 TGATGACGACGATGA
**
16386803 TGATGACGGTGATGA
1 TGATGACGACGATGA
16386818 TGATGACGACGA
1 TGATGACGACGA
16386830 ATCAAACAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.31, C:0.10, G:0.36, T:0.24
Consensus pattern (15 bp):
TGATGACGACGATGA
Found at i:16390795 original size:61 final size:59
Alignment explanation
Indices: 16390698--16390897 Score: 206
Period size: 68 Copynumber: 3.2 Consensus size: 59
16390688 TTAACTTTAA
* * *
16390698 TATTAAATTAATATAATACTTATCAAGATAAATATTAGATTACATTTAATATTAAATCT
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATCT
*
16390757 TATTAAATTAATAGAATATTTATCTACAGATAAATATTAAATTAAATTTAATATTAAGATAATCA
1 TATTAAATTAATAGAATACTTATC-A-AGATAAATATTAAATTAAATTTAATATT---A-AAT--
16390822 CTT
58 C-T
* **
16390825 TAATCTTAAATTAATAAAATAC-TATCAAGATAAGCATTAAATTAAATTTAATATTAAATC-
1 T-A--TTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATCT
*
16390885 TATTAAAATAATA
1 TATTAAATTAATA
16390898 TTATTTTTGG
Statistics
Matches: 120, Mismatches: 9, Indels: 26
0.77 0.06 0.17
Matches are distributed among these distances:
57 10 0.08
59 23 0.19
60 2 0.02
61 26 0.22
62 1 0.01
64 4 0.03
65 4 0.03
67 1 0.01
68 28 0.23
69 2 0.02
70 4 0.03
71 15 0.12
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.40
Consensus pattern (59 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:16394106 original size:56 final size:55
Alignment explanation
Indices: 16394019--16394152 Score: 148
Period size: 56 Copynumber: 2.4 Consensus size: 55
16394009 TGATGACTAA
* * *
16394019 AATATTGTCCATGTGCATATTGAGTACT-A-CACATAATTAATAGCTCACCACATAAT
1 AATATTGCCCAAGTGCTTATTGAGTACTAACCACATAATTAATAG-T--CCACATAAT
* *
16394075 AATATTGCCCAAGTGCTTA-TGTAGTACTACACCACATAATTGATAGTTCACATAAT
1 AATATTGCCCAAGTGCTTATTG-AGTACTA-ACCACATAATTAATAGTCCACATAAT
16394131 AATATTGCCCAAGTGCATTATT
1 AATATTGCCCAAGTGC-TTATT
16394153 AATACTGCAC
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
55 2 0.03
56 46 0.69
57 3 0.04
58 3 0.04
59 13 0.19
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (55 bp):
AATATTGCCCAAGTGCTTATTGAGTACTAACCACATAATTAATAGTCCACATAAT
Found at i:16395369 original size:24 final size:24
Alignment explanation
Indices: 16395336--16395403 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
16395326 TGGAAATTCT
16395336 AAAATGGTTTAGCATCTAACACAC
1 AAAATGGTTTAGCATCTAACACAC
* * * *
16395360 AAAATCGTTT--CTTCAAAATCCCAC
1 AAAATGGTTTAGCATC-TAA-CACAC
16395384 AAAATGGTTTAGCATCTAAC
1 AAAATGGTTTAGCATCTAAC
16395404 TCCTTTGCAT
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
22 3 0.09
23 2 0.06
24 23 0.70
25 2 0.06
26 3 0.09
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (24 bp):
AAAATGGTTTAGCATCTAACACAC
Found at i:16397813 original size:13 final size:13
Alignment explanation
Indices: 16397795--16397819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16397785 TGAGACACAA
16397795 GGACGAGCTACAC
1 GGACGAGCTACAC
16397808 GGACGAGCTACA
1 GGACGAGCTACA
16397820 TGAGCTGCAC
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:0.32, C:0.28, G:0.32, T:0.08
Consensus pattern (13 bp):
GGACGAGCTACAC
Found at i:16405549 original size:24 final size:24
Alignment explanation
Indices: 16405520--16405568 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
16405510 TGTAAGGTAT
16405520 ATAAGTTAAATATGTTAGTATGTG
1 ATAAGTTAAATATGTTAGTATGTG
16405544 ATAAGTTAAATATGTTAGTATGTG
1 ATAAGTTAAATATGTTAGTATGTG
16405568 A
1 A
16405569 AATAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (24 bp):
ATAAGTTAAATATGTTAGTATGTG
Found at i:16405958 original size:13 final size:13
Alignment explanation
Indices: 16405940--16405990 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 13
16405930 CGTGTGTGCC
16405940 ACACGGCCAGGTG
1 ACACGGCCAGGTG
*
16405953 ACACGGCCGTGTGTG
1 ACACGGCC-AG-GTG
16405968 CCACACGGCCAGGTG
1 --ACACGGCCAGGTG
16405983 ACACGGCC
1 ACACGGCC
16405991 GTGTGTCCCC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
13 16 0.50
14 1 0.03
15 6 0.19
16 1 0.03
17 8 0.25
ACGTcount: A:0.20, C:0.35, G:0.35, T:0.10
Consensus pattern (13 bp):
ACACGGCCAGGTG
Found at i:16405964 original size:30 final size:30
Alignment explanation
Indices: 16405928--16405996 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
16405918 GTGTGTCTTA
16405928 GCCGTGTGTGCCACACGGCCAGGTGACACG
1 GCCGTGTGTGCCACACGGCCAGGTGACACG
16405958 GCCGTGTGTGCCACACGGCCAGGTGACACG
1 GCCGTGTGTGCCACACGGCCAGGTGACACG
16405988 GCCGTGTGT
1 GCCGTGTGT
16405997 CCCCTGTATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.14, C:0.32, G:0.38, T:0.16
Consensus pattern (30 bp):
GCCGTGTGTGCCACACGGCCAGGTGACACG
Found at i:16408772 original size:26 final size:26
Alignment explanation
Indices: 16408745--16408799 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
16408735 AGTTAATAAA
16408745 TTCTCTTTGAGTTTTCTTTT-CAAGAAT
1 TTCTC-TTGAG-TTTCTTTTACAAGAAT
*
16408772 TTCTCTTGAGTTTCTTTTAGAAGAAT
1 TTCTCTTGAGTTTCTTTTACAAGAAT
16408798 TT
1 TT
16408800 TAACAATCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 8 0.31
26 13 0.50
27 5 0.19
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.55
Consensus pattern (26 bp):
TTCTCTTGAGTTTCTTTTACAAGAAT
Found at i:16409688 original size:33 final size:33
Alignment explanation
Indices: 16409646--16409708 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
16409636 CATTTGAGGT
*
16409646 CAATTTGACTAAGTATCAAATGGAACTACAGGC
1 CAATTTGACTAAGTATCAAACGGAACTACAGGC
* *
16409679 CAATTTGACTAAGTTTCGAACGGAACTACA
1 CAATTTGACTAAGTATCAAACGGAACTACA
16409709 AGAGAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (33 bp):
CAATTTGACTAAGTATCAAACGGAACTACAGGC
Found at i:16409717 original size:33 final size:33
Alignment explanation
Indices: 16409646--16409717 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
16409636 CATTTGAGGT
* * *
16409646 CAATTTGACTAAGTATCAAATGGAACTACAGGC
1 CAATTTGACTAAGTATCAAACGGAACTACAAGA
* *
16409679 CAATTTGACTAAGTTTCGAACGGAACTACAAGA
1 CAATTTGACTAAGTATCAAACGGAACTACAAGA
*
16409712 GAATTT
1 CAATTT
16409718 TAATCAGCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (33 bp):
CAATTTGACTAAGTATCAAACGGAACTACAAGA
Found at i:16416649 original size:26 final size:27
Alignment explanation
Indices: 16416611--16416665 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
16416601 AGTTAATAAA
* *
16416611 TTCTCTTTGAGTTT-TTTTTGCAAGAAT
1 TTCTCTTTAAGTTTCTTTTAG-AAGAAT
16416638 TTCT-TTTAAGTTTCTTTTAGAAGAAT
1 TTCTCTTTAAGTTTCTTTTAGAAGAAT
16416664 TT
1 TT
16416666 TAACAATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.22, C:0.09, G:0.13, T:0.56
Consensus pattern (27 bp):
TTCTCTTTAAGTTTCTTTTAGAAGAAT
Done.