Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 93 of 121
Found at i:15781906 original size:129 final size:131
Alignment explanation
Indices: 15781520--15781919 Score: 356
Period size: 129 Copynumber: 3.1 Consensus size: 131
15781510 AACTTTGTTT
* * * *
15781520 TTGTCATTACAAATA-ATATAAAATTTTTTGTAACAA-TCTTGTT-TGCCATTGTATAAAATA-T
1 TTGTCATTACAAATATA-ATAAAAATTTTTATAACAACTCTTGTTAT--CATTGCATAAAAGATT
* * * * *
15781581 TAAAATATAATTTAAGCAACAA-TCATGAAAAATCATTACAAATAAAAAAGGTATTTATAACAAA
63 TAAAA-ATAACTTAAACAACAACT-TTGAAAAATCATTACAAATAAAAAAGGTATTCACAA-AAA
15781645 TTTTTTG
125 TTTTTTG
* * * * * *
15781652 TTGTCATTACAAATGTAATAAAAATTTTTGTAACTACTCTTGTTGTCATTTCATAAAGGATTTAA
1 TTGTCATTACAAATATAATAAAAATTTTTATAACAACTCTTGTTATCATTGCATAAAAGATTTAA
* * * * * *
15781717 AAATAGCTTAAACAATAACTTT-AAAAATCATTGCAAATAAAAAATGTATTCGCAAGAATTTTTT
66 AAATAACTTAAACAACAACTTTGAAAAATCATTACAAATAAAAAAGGTATTCACAAAAATTTTTT
15781781 G
131 G
* **
15781782 TTGTCGTTAC-AATATAAT-AAAATTTTTCATAACAACAT-TT-TTATTGTTGCATAAAAGATTT
1 TTGTCATTACAAATATAATAAAAATTTTT-ATAACAAC-TCTTGTTATCATTGCATAAAAGATTT
** * * *
15781843 AAAAATAACTTAAGTAACGATTTTGAAAAAT-AGTTACAAATAAAATAAGGT-TTCACAATAATT
64 AAAAATAACTTAAACAACAACTTTGAAAAATCA-TTACAAATAAAA-AAGGTATTCACAAAAATT
15781906 TTTTG
127 TTTTG
*
15781911 TTGTAATTA
1 TTGTCATTA
15781920 GGAATTGTAG
Statistics
Matches: 219, Mismatches: 39, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
128 44 0.20
129 54 0.25
130 23 0.11
131 28 0.13
132 54 0.25
133 15 0.07
134 1 0.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (131 bp):
TTGTCATTACAAATATAATAAAAATTTTTATAACAACTCTTGTTATCATTGCATAAAAGATTTAA
AAATAACTTAAACAACAACTTTGAAAAATCATTACAAATAAAAAAGGTATTCACAAAAATTTTTT
G
Found at i:15784466 original size:77 final size:77
Alignment explanation
Indices: 15784339--15784488 Score: 201
Period size: 77 Copynumber: 1.9 Consensus size: 77
15784329 ATTTTTTTGA
* * * * *
15784339 TAGACATTAATTGGATTAACCTTAAGAACACGATGAATCTCAAGTCTCAACTATTCATGCAAGCA
1 TAGACATTAATTGAATTAACCTTAAGAACACAAAGAATCTCAACTCTCAACTATTCATACAAGCA
15784404 ATCTCAATTACC
66 ATCTCAATTACC
* ** * * *
15784416 TAGACATTAATTGAATTAACCTTTATTACATAAAGAATCTCAACTCTCAACTATTCATACATGCG
1 TAGACATTAATTGAATTAACCTTAAGAACACAAAGAATCTCAACTCTCAACTATTCATACAAGCA
15784481 ATCTCAAT
66 ATCTCAAT
15784489 GCCGATAATA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
77 62 1.00
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.31
Consensus pattern (77 bp):
TAGACATTAATTGAATTAACCTTAAGAACACAAAGAATCTCAACTCTCAACTATTCATACAAGCA
ATCTCAATTACC
Found at i:15787760 original size:13 final size:11
Alignment explanation
Indices: 15787710--15787771 Score: 52
Period size: 12 Copynumber: 5.3 Consensus size: 11
15787700 AATACCATAC
15787710 AAAAATAACAAA
1 AAAAATAA-AAA
* *
15787722 ATAAATAAAAT
1 AAAAATAAAAA
* *
15787733 CAACATAAAATA
1 AAAAATAAAA-A
15787745 AAAAATTAAAACA
1 AAAAA-TAAAA-A
15787758 AAAAATAAAAA
1 AAAAATAAAAA
15787769 AAA
1 AAA
15787772 TAGAGAAATC
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
11 13 0.33
12 15 0.38
13 11 0.28
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAATAAAAA
Found at i:15788800 original size:42 final size:43
Alignment explanation
Indices: 15788727--15788823 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 43
15788717 TTTTTTTTAA
** * * *
15788727 GAAAATTTGGAAGCCTCCTTTAAGCAGAGGCTTAATAACTTTT
1 GAAAATTTAAAAGCCTCCTCTAAGCAAAGGCTTAATAACTCTT
*
15788770 GAAAATTTAAAAG-CTCCTCTAAGTAAAGGCTTAATAACTCTT
1 GAAAATTTAAAAGCCTCCTCTAAGCAAAGGCTTAATAACTCTT
15788812 GAAAATTTAAAA
1 GAAAATTTAAAA
15788824 AGGCTCTTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 37 0.77
43 11 0.23
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (43 bp):
GAAAATTTAAAAGCCTCCTCTAAGCAAAGGCTTAATAACTCTT
Found at i:15789063 original size:34 final size:34
Alignment explanation
Indices: 15789025--15789113 Score: 169
Period size: 34 Copynumber: 2.6 Consensus size: 34
15789015 TGCTCTGATG
15789025 AGAGGTAATGAAACTTTAAATGGCTTTTTTGACC
1 AGAGGTAATGAAACTTTAAATGGCTTTTTTGACC
15789059 AGAGGTAATGAAACTTTAAATGGCTTTTTTGACC
1 AGAGGTAATGAAACTTTAAATGGCTTTTTTGACC
*
15789093 AGAGGCAATGAAACTTTAAAT
1 AGAGGTAATGAAACTTTAAAT
15789114 TAAAAATCTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 54 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (34 bp):
AGAGGTAATGAAACTTTAAATGGCTTTTTTGACC
Found at i:15789218 original size:33 final size:35
Alignment explanation
Indices: 15789176--15789287 Score: 88
Period size: 36 Copynumber: 3.2 Consensus size: 35
15789166 CTAAGTTTAT
* *
15789176 AAAAG-TCCTCTAACCAAAGGCTTTTAAA-ATT-A
1 AAAAGCTCCTCTAACCAAAGGCTATGAAACATTAA
* * * *
15789208 AAAAGCTCCTCTGATCAGAGGCTATGAAACTTTGAA
1 AAAAGCTCCTCTAACCAAAGGCTATGAAACATT-AA
* * *
15789244 AAAAGCTACTCTAACCAAAGGCCATGACAC-TATAA
1 AAAAGCTCCTCTAACCAAAGGCTATGAAACAT-TAA
15789279 AGAAAGCTC
1 A-AAAGCTC
15789288 TTTTGACCAT
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
32 5 0.08
33 18 0.30
34 2 0.03
35 4 0.07
36 32 0.52
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.22
Consensus pattern (35 bp):
AAAAGCTCCTCTAACCAAAGGCTATGAAACATTAA
Found at i:15789486 original size:33 final size:34
Alignment explanation
Indices: 15789415--15789487 Score: 80
Period size: 32 Copynumber: 2.2 Consensus size: 34
15789405 CATGCCTAAG
* *
15789415 TTTAAAAGAGTCCTCTAACCAGAGGCTCCTAAAA
1 TTTAAAAGACTCCTCTAACCAGAGGCTCATAAAA
* *
15789449 -TTAAAAG-CTCCTCTGACTAGAGGCT-ATAAAA
1 TTTAAAAGACTCCTCTAACCAGAGGCTCATAAAA
15789480 CTTTAAAA
1 -TTTAAAA
15789488 AAAGCTCTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
31 5 0.15
32 15 0.45
33 13 0.39
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.26
Consensus pattern (34 bp):
TTTAAAAGACTCCTCTAACCAGAGGCTCATAAAA
Found at i:15795516 original size:51 final size:49
Alignment explanation
Indices: 15795358--15795508 Score: 169
Period size: 51 Copynumber: 3.0 Consensus size: 49
15795348 ATATCTTCTC
* ** *
15795358 TTTTTTAATTTCTAAATTTTTCATCATTTGGGCCTAA-ATAAAAATTTATT
1 TTTTTTAATTTCTAAATTTTTCAACATTTGGATC-AATTTAAAAATTT-TT
* * *
15795408 TTTATTTAATTTTTAAATTTTTCAACATTTTGATCAATTTAGAAATATCTTT
1 TTT-TTTAATTTCTAAATTTTTCAACATTTGGATCAATTTA-AAA-ATTTTT
* *
15795460 TTTTTTAATTTCTAAATTTTTCACCATTTGGTTCAATTTAAAAATTTTT
1 TTTTTTAATTTCTAAATTTTTCAACATTTGGATCAATTTAAAAATTTTT
15795509 CCTTTTTTTT
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
49 5 0.06
50 8 0.09
51 61 0.72
52 8 0.09
53 3 0.04
ACGTcount: A:0.31, C:0.09, G:0.05, T:0.55
Consensus pattern (49 bp):
TTTTTTAATTTCTAAATTTTTCAACATTTGGATCAATTTAAAAATTTTT
Found at i:15796595 original size:11 final size:11
Alignment explanation
Indices: 15796579--15796605 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
15796569 ATCAACACAC
15796579 TTTTTTTTATT
1 TTTTTTTTATT
15796590 TTTTTTTTATT
1 TTTTTTTTATT
15796601 TTTTT
1 TTTTT
15796606 AAGCATACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTTTATT
Found at i:15796903 original size:42 final size:43
Alignment explanation
Indices: 15796705--15797027 Score: 299
Period size: 43 Copynumber: 7.6 Consensus size: 43
15796695 AAAGCTCAAT
* * * *
15796705 GACTTT-AAAAATAAAATAAGGTTGCTTTAAGTAGAGGCTTAAC
1 GACTTTAAAAAATAAAA-AAGGCTCCTCTAAGCAGAGGCTTAAC
* * ** *
15796748 GACTTTAAAAAAGTAAATAAGGCTCCTCTAAACAGAGGCACAAT
1 GACTTTAAAAAA-TAAAAAAGGCTCCTCTAAGCAGAGGCTTAAC
* * *
15796792 GACTTTAAAAAAGT---AAA-GCTCCTCTAAACAGAGGCTCAAT
1 GACTTTAAAAAA-TAAAAAAGGCTCCTCTAAGCAGAGGCTTAAC
*
15796832 GACTTT--AAAATAAAAAAGGCTCCTTTAAGCAGA-G-TTCAAC
1 GACTTTAAAAAATAAAAAAGGCTCCTCTAAGCAGAGGCTT-AAC
* ** *
15796872 GACTTTGAAAAATAAAAAAGGCTTATCTAAGCAGAGG-TTCAAT
1 GACTTTAAAAAATAAAAAAGGCTCCTCTAAGCAGAGGCTT-AAC
* * **
15796915 GACTTTGAAAAATAAATAAGGCTCCTCTAATTAGAGGCTTAAC
1 GACTTTAAAAAATAAAAAAGGCTCCTCTAAGCAGAGGCTTAAC
* *
15796958 GACTTTAAAAAATAAATAAGGCTCCTCTAAGCAGAGACTTAAC
1 GACTTTAAAAAATAAAAAAGGCTCCTCTAAGCAGAGGCTTAAC
*
15797001 GACATTAAAAAATAAATAAA-GCTCCTC
1 GACTTTAAAAAATAAA-AAAGGCTCCTC
15797028 GACAATCTTA
Statistics
Matches: 237, Mismatches: 31, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
37 1 0.00
38 4 0.02
39 1 0.00
40 40 0.17
41 15 0.06
42 24 0.10
43 107 0.45
44 41 0.17
45 4 0.02
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (43 bp):
GACTTTAAAAAATAAAAAAGGCTCCTCTAAGCAGAGGCTTAAC
Found at i:15802367 original size:2 final size:2
Alignment explanation
Indices: 15802360--15802392 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
15802350 AGGCTAATTT
15802360 TA TA TA TA TA TA TA TA TA TA -A T- TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15802393 TGGGGTGTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15802637 original size:2 final size:2
Alignment explanation
Indices: 15802630--15802675 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
15802620 ATCCCTCCTC
*
15802630 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15802672 TA TA
1 TA TA
15802676 GGAGGTATCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:15804810 original size:12 final size:12
Alignment explanation
Indices: 15804789--15804821 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
15804779 ATGTCTTAAA
15804789 TCTTTCTTTTTT
1 TCTTTCTTTTTT
15804801 TCTTT-TTTTTT
1 TCTTTCTTTTTT
15804812 TCATTTCTTT
1 TC-TTTCTTT
15804822 GACTACTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.42
12 8 0.42
13 3 0.16
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (12 bp):
TCTTTCTTTTTT
Found at i:15808705 original size:15 final size:16
Alignment explanation
Indices: 15808674--15808706 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15808664 GTTTTTAATT
*
15808674 GAAAATAAAAGAAAGA
1 GAAAAGAAAAGAAAGA
15808690 GAAAAGAAAA-AAAGA
1 GAAAAGAAAAGAAAGA
15808705 GA
1 GA
15808707 TATTTTTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (16 bp):
GAAAAGAAAAGAAAGA
Found at i:15808959 original size:17 final size:17
Alignment explanation
Indices: 15808937--15808976 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
15808927 TGATTCTTGC
15808937 GAATCTCTAAAAATTGT
1 GAATCTCTAAAAATTGT
* * *
15808954 GAATCTTTTAAATTTGT
1 GAATCTCTAAAAATTGT
15808971 GAATCT
1 GAATCT
15808977 TTAACTCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (17 bp):
GAATCTCTAAAAATTGT
Found at i:15808977 original size:17 final size:17
Alignment explanation
Indices: 15808950--15809014 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
15808940 TCTCTAAAAA
15808950 TTGTGAATCTTTTAAAT
1 TTGTGAATCTTTTAAAT
*
15808967 TTGTGAATC-TTTAACT
1 TTGTGAATCTTTTAAAT
* *
15808983 CTTGTGAAACTTTAAACAT
1 -TTGTGAATCTTTTAA-AT
**
15809002 TTGCAAATCTTTT
1 TTGTGAATCTTTT
15809015 TACTCTTACG
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
16 6 0.16
17 17 0.46
18 13 0.35
19 1 0.03
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (17 bp):
TTGTGAATCTTTTAAAT
Found at i:15809070 original size:18 final size:18
Alignment explanation
Indices: 15808992--15809071 Score: 54
Period size: 18 Copynumber: 4.4 Consensus size: 18
15808982 TCTTGTGAAA
*
15808992 CTTTAAAC-ATTTGCAAAT
1 CTTTAAACTA-TTACAAAT
** * *
15809010 CTTTTTACTCTTACGAAT
1 CTTTAAACTATTACAAAT
* * * *
15809028 CTTTGAACTCTTGCAAAC
1 CTTTAAACTATTACAAAT
*
15809046 CTCTAAACTATTACAAAT
1 CTTTAAACTATTACAAAT
15809064 CTTTAAAC
1 CTTTAAAC
15809072 AGTTGCGAAT
Statistics
Matches: 45, Mismatches: 16, Indels: 2
0.71 0.25 0.03
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.39
Consensus pattern (18 bp):
CTTTAAACTATTACAAAT
Found at i:15809205 original size:18 final size:17
Alignment explanation
Indices: 15809164--15809242 Score: 52
Period size: 18 Copynumber: 4.4 Consensus size: 17
15809154 TTGACTTTAA
*
15809164 TGAATCTTTGAACTTTTG
1 TGAATC-TTAAACTTTTG
**
15809182 CAAATCTTAAAGCTTTTG
1 TGAATCTTAAA-CTTTTG
*
15809200 TGAATCTTGAAATTTTTG
1 TGAATCTT-AAACTTTTG
**
15809218 TG-ATCCTTAAAACGCTTG
1 TGAAT-CTT-AAACTTTTG
15809236 TGAATCT
1 TGAATCT
15809243 CTAACCCCAC
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
17 6 0.13
18 36 0.77
19 5 0.11
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (17 bp):
TGAATCTTAAACTTTTG
Found at i:15809280 original size:19 final size:21
Alignment explanation
Indices: 15809256--15809294 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
15809246 ACCCCACTTA
15809256 TGAATCTTT-GAA-TCATTTG
1 TGAATCTTTGGAATTCATTTG
15809275 TGAATCTTTGGAATTCATTT
1 TGAATCTTTGGAATTCATTT
15809295 ATGTAAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49
Consensus pattern (21 bp):
TGAATCTTTGGAATTCATTTG
Found at i:15809305 original size:23 final size:19
Alignment explanation
Indices: 15809258--15809306 Score: 53
Period size: 23 Copynumber: 2.4 Consensus size: 19
15809248 CCCACTTATG
*
15809258 AATCTTTGAATCATTTGTG
1 AATCTTTGAATCATTTGTA
15809277 AATCTTTGGAATTCATTTATGTA
1 AATCTTT-GAA-TCA-TT-TGTA
15809300 AATCTTT
1 AATCTTT
15809307 TAAACCATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 7 0.28
20 3 0.12
21 3 0.12
22 2 0.08
23 10 0.40
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (19 bp):
AATCTTTGAATCATTTGTA
Found at i:15809494 original size:41 final size:41
Alignment explanation
Indices: 15809373--15809504 Score: 126
Period size: 41 Copynumber: 3.2 Consensus size: 41
15809363 AGACCTCTAG
* * * * ** *
15809373 TTGTGAATCTTTGACTCTAATGTGAATCCAAAGTCCTCCAG
1 TTGTGAATCTTTAACTTTGATTTGAATCCAAAGTCCTTTAA
**
15809414 TTGTGAATAGTTAACTTTG-TTATGAATCCATATA-T-CTTTAA
1 TTGTGAATCTTTAACTTTGATT-TGAATCCA-A-AGTCCTTTAA
15809455 TTGTGAATCTTTAACTTTGATTTGAATCCAAAGTCCTTTAA
1 TTGTGAATCTTTAACTTTGATTTGAATCCAAAGTCCTTTAA
*
15809496 CTGTGAATC
1 TTGTGAATC
15809505 ATTGACTCCA
Statistics
Matches: 73, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
39 1 0.01
40 3 0.04
41 64 0.88
42 4 0.05
43 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (41 bp):
TTGTGAATCTTTAACTTTGATTTGAATCCAAAGTCCTTTAA
Found at i:15809873 original size:17 final size:18
Alignment explanation
Indices: 15809853--15809901 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
15809843 TACAAAAATT
*
15809853 AAAAAAT-CTAAAAAGAC
1 AAAAAATACAAAAAAGAC
*
15809870 AAAAAATACAAAAAATAC
1 AAAAAATACAAAAAAGAC
15809888 -AAAAATACAAAAAA
1 AAAAAATACAAAAAA
15809902 ATAATAATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 21 0.72
18 8 0.28
ACGTcount: A:0.78, C:0.10, G:0.02, T:0.10
Consensus pattern (18 bp):
AAAAAATACAAAAAAGAC
Found at i:15809874 original size:9 final size:9
Alignment explanation
Indices: 15809853--15809901 Score: 66
Period size: 9 Copynumber: 5.7 Consensus size: 9
15809843 TACAAAAATT
15809853 AAAAAAT-C
1 AAAAAATAC
* *
15809861 TAAAAAGAC
1 AAAAAATAC
15809870 AAAAAATAC
1 AAAAAATAC
15809879 AAAAAATAC
1 AAAAAATAC
15809888 -AAAAATAC
1 AAAAAATAC
15809896 AAAAAA
1 AAAAAA
15809902 ATAATAATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
8 13 0.37
9 22 0.63
ACGTcount: A:0.78, C:0.10, G:0.02, T:0.10
Consensus pattern (9 bp):
AAAAAATAC
Found at i:15809918 original size:8 final size:8
Alignment explanation
Indices: 15809843--15809918 Score: 66
Period size: 8 Copynumber: 9.2 Consensus size: 8
15809833 AAATGAGTTT
15809843 TACAAAAA
1 TACAAAAA
15809851 TTA-AAAAA
1 -TACAAAAA
15809859 T-CTAAAAA
1 TAC-AAAAA
*
15809867 GACAAAAAA
1 TAC-AAAAA
15809876 TACAAAAAA
1 TAC-AAAAA
15809885 TACAAAAA
1 TACAAAAA
15809893 TACAAAAA
1 TACAAAAA
* * *
15809901 AATAATAA
1 TACAAAAA
15809909 TACAAAAA
1 TACAAAAA
15809917 TA
1 TA
15809919 TCAATAAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
7 1 0.02
8 35 0.64
9 19 0.35
ACGTcount: A:0.74, C:0.09, G:0.01, T:0.16
Consensus pattern (8 bp):
TACAAAAA
Found at i:15809924 original size:17 final size:16
Alignment explanation
Indices: 15809874--15809925 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
15809864 AAAGACAAAA
*
15809874 AATACAAAAAATACAAA
1 AATACAAAAAAT-CAAT
15809891 AATACAAAAAAAT-AAT
1 AATAC-AAAAAATCAAT
15809907 AATACAAAAATATCAAT
1 AATACAAAAA-ATCAAT
15809924 AA
1 AA
15809926 AAAATCAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 5 0.16
16 9 0.29
17 10 0.32
18 7 0.23
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (16 bp):
AATACAAAAAATCAAT
Found at i:15810435 original size:24 final size:23
Alignment explanation
Indices: 15810401--15810493 Score: 87
Period size: 24 Copynumber: 3.8 Consensus size: 23
15810391 ACAAAATCAT
15810401 AATCATACAAAAATATTATTAAA
1 AATCATACAAAAATATTATTAAA
* *
15810424 AAGTCATACAAAAAAATCATTAAA
1 AA-TCATACAAAAATATTATTAAA
** *
15810448 ACATCATGTAATAATATTATAATAAA
1 A-ATCATACAAAAATATTAT--TAAA
*
15810474 AATTATACAAAACATATTAT
1 AATCATACAAAA-ATATTAT
15810494 AAATCATGCA
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
23 2 0.04
24 32 0.59
25 8 0.15
26 12 0.22
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (23 bp):
AATCATACAAAAATATTATTAAA
Found at i:15810512 original size:17 final size:17
Alignment explanation
Indices: 15810487--15810522 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15810477 TATACAAAAC
*
15810487 ATATTATAAATCATGCA
1 ATATCATAAATCATGCA
*
15810504 ATATCATAAATCATTCA
1 ATATCATAAATCATGCA
15810521 AT
1 AT
15810523 GCAAAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (17 bp):
ATATCATAAATCATGCA
Found at i:15810583 original size:20 final size:22
Alignment explanation
Indices: 15810528--15810605 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 22
15810518 TCAATGCAAA
* *
15810528 AATATCATAACAAATCATGTAAA
1 AATATAATAA-AAATCATGTAAT
15810551 AATATCCTAATAAAAATCATGTAA-
1 AATA---TAATAAAAATCATGTAAT
15810575 AA-ATAATAAAAATCATGTAAT
1 AATATAATAAAAATCATGTAAT
15810596 AATATAATAA
1 AATATAATAA
15810606 TGAAAACTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
20 17 0.35
21 2 0.04
22 7 0.14
23 5 0.10
24 2 0.04
25 11 0.22
26 5 0.10
ACGTcount: A:0.59, C:0.09, G:0.04, T:0.28
Consensus pattern (22 bp):
AATATAATAAAAATCATGTAAT
Found at i:15810611 original size:25 final size:23
Alignment explanation
Indices: 15810526--15810611 Score: 72
Period size: 23 Copynumber: 3.7 Consensus size: 23
15810516 ATTCAATGCA
* *
15810526 AAAATATCATAA-CAAATCATGT
1 AAAATATAATAATAAAATCATGT
**
15810548 AAAAATATCCTAATAAAAATCATGT
1 -AAAATATAATAAT-AAAATCATGT
15810573 AAAA-ATAAT-A-AAAATCATGT
1 AAAATATAATAATAAAATCATGT
15810593 AATAATATAATAATGAAAA
1 AA-AATATAATAAT-AAAA
15810612 CTAAAAATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
20 12 0.23
21 2 0.04
22 6 0.12
23 15 0.29
24 4 0.08
25 13 0.25
ACGTcount: A:0.60, C:0.08, G:0.05, T:0.27
Consensus pattern (23 bp):
AAAATATAATAATAAAATCATGT
Found at i:15810762 original size:16 final size:16
Alignment explanation
Indices: 15810741--15810771 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15810731 ATATATACCC
15810741 AAAAATAATAAAATTA
1 AAAAATAATAAAATTA
*
15810757 AAAAATAGTAAAATT
1 AAAAATAATAAAATT
15810772 TATAAAAATT
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:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAAATAATAAAATTA
Found at i:15811606 original size:132 final size:129
Alignment explanation
Indices: 15811452--15811829 Score: 374
Period size: 132 Copynumber: 2.9 Consensus size: 129
15811442 AATATAATTT
* * * * **
15811452 TTTTTGTAACAATCTTGTTTGTTGTTGTATAAAATA-TTAAAATATAATTTAAGCAACAATTTTG
1 TTTTTGTAACACT-TTTTTTGTTGTTGTATAAAAAATTTAAAA-ATAACTTAAGCAATGATTTTG
* * * *
15811516 AAAAATCATAGCAAATAAAAAAAGTATTTAGAACAAATTTTTTGTTGTCATTACAAATGTAATAA
64 AAAAATCATAGCAAATAAAAAAAGTATTCACAACAAATTTTTTGTTGTAATTAC-AATATAAT-A
15811581 AAA
127 AAA
* * *
15811584 TTTTTGTAACTACTTTTTTTGTTGTT-TCATAAAAAATTTAAAAGTAACTTAAACAATGACTTTG
1 TTTTTGTAAC-ACTTTTTTTGTTGTTGT-ATAAAAAATTTAAAAATAACTTAAGCAATGATTTTG
* * * * **
15811648 AAAAATCGTTGCAAATAAAAAATA-TATTCACAAGAATTTTTTTGTTGTTGTTACAATATAATAA
64 AAAAATCATAGCAAATAAAAAA-AGTATTCACAACAAATTTTTTGTTGTAATTACAATATAATAA
15811712 AA
128 AA
* * * * *
15811714 TTTTTCATAACAAC-TTTTTTATTGTTGCATAAAAGATTTAAAAATAACTTAAGTAATGATTTTG
1 TTTTT-GTAAC-ACTTTTTTTGTTGTTGTATAAAAAATTTAAAAATAACTTAAGCAATGATTTTG
* *
15811778 AAAAATCGTTA-CAAATAAAATAAGGT-TTCACAAC-AATTTTTTGTTGTAATTA
64 AAAAATC-ATAGCAAATAAAA-AAAGTATTCACAACAAATTTTTTGTTGTAATTA
15811830 GGAATTGTAG
Statistics
Matches: 203, Mismatches: 34, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
129 15 0.07
130 74 0.36
131 18 0.09
132 87 0.43
133 9 0.04
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (129 bp):
TTTTTGTAACACTTTTTTTGTTGTTGTATAAAAAATTTAAAAATAACTTAAGCAATGATTTTGAA
AAATCATAGCAAATAAAAAAAGTATTCACAACAAATTTTTTGTTGTAATTACAATATAATAAAA
Found at i:15814382 original size:77 final size:77
Alignment explanation
Indices: 15814255--15814407 Score: 220
Period size: 77 Copynumber: 2.0 Consensus size: 77
15814245 ATTTTTTTGA
* * *
15814255 TAGACATTAATTGGATTAACCTTAAGACTAAGATGAATCTCAAGTCTCAACTATTCATGCAAGCA
1 TAGACATTAATTGAATTAACCTTAAGACTAAGATGAATCTCAACTCTCAACTATTCATACAAGCA
15814320 ATCTCAATTACC
66 ATCTCAATTACC
** *
15814332 TAGACATTAATTGAATTAACCTTTATTAC-ATA-ATGAATCTCAACTCTCAACTATTCATACATG
1 TAGACATTAATTGAATTAACC-TTAAGACTA-AGATGAATCTCAACTCTCAACTATTCATACAAG
15814395 CAATCTCAATTAC
64 CAATCTCAATTAC
15814408 GATTATATCA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
77 62 0.91
78 6 0.09
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (77 bp):
TAGACATTAATTGAATTAACCTTAAGACTAAGATGAATCTCAACTCTCAACTATTCATACAAGCA
ATCTCAATTACC
Found at i:15818250 original size:3 final size:3
Alignment explanation
Indices: 15818237--15818283 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
15818227 TAAAAGAATG
* * *
15818237 AAT ATT AAT AAT AAT -AT AA- AAT AAT AAC AAT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15818283 A
1 A
15818284 TCATACAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 4 0.11
3 32 0.89
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:15818271 original size:12 final size:12
Alignment explanation
Indices: 15818243--15818283 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
15818233 AATGAATATT
*
15818243 AATAATAAT-AT
1 AATAATAATAAC
15818254 AA-AATAATAAC
1 AATAATAATAAC
15818265 AATAATAATAAC
1 AATAATAATAAC
15818277 AATAATA
1 AATAATA
15818284 TCATACAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 6 0.22
11 5 0.19
12 16 0.59
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:15818329 original size:18 final size:20
Alignment explanation
Indices: 15818296--15818340 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
15818286 ATACAAAAAT
15818296 AACAAAATAAATAAAATCAA
1 AACAAAATAAATAAAATCAA
* *
15818316 CACAAAAT-AA-AAAATTAA
1 AACAAAATAAATAAAATCAA
15818334 AACAAAA
1 AACAAAA
15818341 AATAAAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 13 0.59
19 2 0.09
20 7 0.32
ACGTcount: A:0.76, C:0.11, G:0.00, T:0.13
Consensus pattern (20 bp):
AACAAAATAAATAAAATCAA
Found at i:15818334 original size:28 final size:28
Alignment explanation
Indices: 15818277--15818330 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
15818267 TAATAATAAC
*
15818277 AATAATATCATACAAAAATAACAAAATA
1 AATAAAATCATACAAAAATAACAAAATA
15818305 AATAAAATCA-ACACAAAATAA-AAAAT
1 AATAAAATCATACA-AAAATAACAAAAT
15818331 TAAAACAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (28 bp):
AATAAAATCATACAAAAATAACAAAATA
Found at i:15818347 original size:18 final size:18
Alignment explanation
Indices: 15818304--15818347 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
15818294 ATAACAAAAT
*
15818304 AAATAAAATCAACACAAA
1 AAATAAAATCAAAACAAA
*
15818322 ATAA-AAAATTAAAACAAA
1 A-AATAAAATCAAAACAAA
15818340 AAATAAAA
1 AAATAAAA
15818348 AGAAAAGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 2 0.09
18 18 0.82
19 2 0.09
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (18 bp):
AAATAAAATCAAAACAAA
Found at i:15819165 original size:3 final size:3
Alignment explanation
Indices: 15819157--15819197 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
15819147 AAATTTGACT
15819157 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15819198 TTGTTTTGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15819559 original size:36 final size:36
Alignment explanation
Indices: 15819502--15819608 Score: 119
Period size: 36 Copynumber: 2.9 Consensus size: 36
15819492 TTTAAAATTT
15819502 AAAAGACTCATCTAACTAGAGGCAATGAAACTTTAAA
1 AAAAG-CTCATCTAACTAGAGGCAATGAAACTTTAAA
* *
15819539 AAAAGCTCTTCTAAGC-AGAGGCTATGACAA-TTTAAA
1 AAAAGCTCATCTAA-CTAGAGGCAATGA-AACTTTAAA
* * * *
15819575 GAAAGCTCCTCTGACTATAGGCAATGAAACTTTA
1 AAAAGCTCATCTAACTAGAGGCAATGAAACTTTA
15819609 GAATTTAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
35 3 0.05
36 48 0.81
37 8 0.14
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (36 bp):
AAAAGCTCATCTAACTAGAGGCAATGAAACTTTAAA
Found at i:15820090 original size:37 final size:36
Alignment explanation
Indices: 15820049--15820137 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 36
15820039 TCTTCTGATT
15820049 GCTATGAAACTTTAAAAAAAACTCCTCCAAACCAAAA
1 GCTATGAAACTTTAAAAAAAACTCCT-CAAACCAAAA
* * * **
15820086 GCTATGACACTTTAAACAAAGCTCCTCTGACCAAAA
1 GCTATGAAACTTTAAAAAAAACTCCTCAAACCAAAA
* *
15820122 ACAATGAAACTTTAAA
1 GCTATGAAACTTTAAA
15820138 TTAAAAATCT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 21 0.48
37 23 0.52
ACGTcount: A:0.47, C:0.24, G:0.08, T:0.21
Consensus pattern (36 bp):
GCTATGAAACTTTAAAAAAAACTCCTCAAACCAAAA
Found at i:15820134 original size:36 final size:37
Alignment explanation
Indices: 15820052--15820137 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 37
15820042 TCTGATTGCT
* *
15820052 ATGAAACTTTAAAAAAAACTCCTCCAAACCAAAAGCT
1 ATGAAACTTTAAAAAAAACTCCTCCAAACCAAAAACA
* * * **
15820089 ATGACACTTTAAACAAAGCTCCT-CTGACCAAAAACA
1 ATGAAACTTTAAAAAAAACTCCTCCAAACCAAAAACA
15820125 ATGAAACTTTAAA
1 ATGAAACTTTAAA
15820138 TTAAAAATCT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 21 0.51
37 20 0.49
ACGTcount: A:0.49, C:0.23, G:0.07, T:0.21
Consensus pattern (37 bp):
ATGAAACTTTAAAAAAAACTCCTCCAAACCAAAAACA
Found at i:15823992 original size:18 final size:18
Alignment explanation
Indices: 15823953--15823992 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
15823943 CAAAAAATAT
* *
15823953 TTTATTTTATTTTTTAAT
1 TTTATTTTATTTTTAAAA
15823971 TTTATTTTATTTTTAAAA
1 TTTATTTTATTTTTAAAA
15823989 TTTA
1 TTTA
15823993 ATCATACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTTATTTTTAAAA
Found at i:15824758 original size:24 final size:25
Alignment explanation
Indices: 15824718--15824764 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
15824708 ATTTCTTTTA
*
15824718 AACTTCAACTCAAACTTAGACACCC
1 AACTTCAACTCAAACTTAAACACCC
15824743 AACTTCAA-TCAAACTTAAACAC
1 AACTTCAACTCAAACTTAAACAC
15824765 TTATTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.45, C:0.32, G:0.02, T:0.21
Consensus pattern (25 bp):
AACTTCAACTCAAACTTAAACACCC
Found at i:15824808 original size:18 final size:19
Alignment explanation
Indices: 15824767--15824801 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
15824757 TTAAACACTT
15824767 ATTTTTTATTTT-TT-TTC
1 ATTTTTTATTTTGTTATTC
15824784 ATTTTTTATTTTGTTATT
1 ATTTTTTATTTTGTTATT
15824802 TTTTTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 2 0.12
19 2 0.12
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (19 bp):
ATTTTTTATTTTGTTATTC
Found at i:15825977 original size:20 final size:21
Alignment explanation
Indices: 15825942--15825985 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
15825932 ACATGGGCCT
* *
15825942 ATTCTAGTTAAATTTGGTTAA
1 ATTCAAGTTAAATTTGGTCAA
15825963 ATTCAAGTT-AATTTGGTCAA
1 ATTCAAGTTAAATTTGGTCAA
15825983 ATT
1 ATT
15825986 TAGCCAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (21 bp):
ATTCAAGTTAAATTTGGTCAA
Found at i:15827965 original size:25 final size:26
Alignment explanation
Indices: 15827907--15827967 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 26
15827897 ACCAAATGTT
*
15827907 AACCTTAACCTTAGACCTAAACCCTAA
1 AACC-TAACCTTAGACCTAAACCCCAA
15827934 AACCTAACCTTAGA-CTAAAACCCCAA
1 AACCTAACCTTAGACCT-AAACCCCAA
15827960 AA-CTAACC
1 AACCTAACC
15827968 CTAAATTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 8 0.25
26 20 0.62
27 4 0.12
ACGTcount: A:0.44, C:0.34, G:0.03, T:0.18
Consensus pattern (26 bp):
AACCTAACCTTAGACCTAAACCCCAA
Found at i:15828035 original size:19 final size:19
Alignment explanation
Indices: 15827987--15828037 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
15827977 ACCTTAATTG
15827987 AAACCCCAAATTTTAAACC
1 AAACCCCAAATTTTAAACC
** * *
15828006 TTAGCCAAAATTTTAAACC
1 AAACCCCAAATTTTAAACC
15828025 AAACCCCAAATTT
1 AAACCCCAAATTT
15828038 GTTCAAAACC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.45, C:0.27, G:0.02, T:0.25
Consensus pattern (19 bp):
AAACCCCAAATTTTAAACC
Found at i:15830011 original size:13 final size:16
Alignment explanation
Indices: 15829991--15830031 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
15829981 ATTAACTTTG
15829991 ATTTATTAAT-TTA-A
1 ATTTATTAATATTATA
15830005 A-TTATTAATATTATA
1 ATTTATTAATATTATA
15830020 ATTTATTAATAT
1 ATTTATTAATAT
15830032 AATTATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.33
14 4 0.17
15 2 0.08
16 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTATTAATATTATA
Found at i:15834345 original size:17 final size:18
Alignment explanation
Indices: 15834310--15834345 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15834300 AGGAAAACTT
15834310 TAAAATGCAAATGCAATG
1 TAAAATGCAAATGCAATG
*
15834328 TAAAATGTAAAT-CAATG
1 TAAAATGCAAATGCAATG
15834345 T
1 T
15834346 TTCCAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.50, C:0.08, G:0.14, T:0.28
Consensus pattern (18 bp):
TAAAATGCAAATGCAATG
Found at i:15834405 original size:5 final size:5
Alignment explanation
Indices: 15834378--15834490 Score: 71
Period size: 5 Copynumber: 23.6 Consensus size: 5
15834368 TTTTTTTCTT
* * * * *
15834378 TTTTC TTATTC TTTT- TCTTTC TTTTC TTTCC TTTTT TTTTC -TTAC ATTGC
1 TTTTC TT-TTC TTTTC T-TTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
* *
15834428 TTGT- TTTTC -TTT- TTTTC TTTTC -TCTC TTTT- TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
*
15834473 -TCTC TTTATC TTTTC TTT
1 TTTTC TTT-TC TTTTC TTT
15834491 CCCTTTTTTT
Statistics
Matches: 83, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
4 23 0.28
5 49 0.59
6 11 0.13
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTTC
Found at i:15834415 original size:23 final size:22
Alignment explanation
Indices: 15834362--15834491 Score: 95
Period size: 23 Copynumber: 5.7 Consensus size: 22
15834352 ACAACCTCCC
*
15834362 TCTTTTTTTT-TTTCTTTTTTCT
1 TCTTTTTTTTCTTTCTTTTCT-T
* *
15834384 TATTCTTTTTCTTTCTTTTCTT
1 TCTTTTTTTTCTTTCTTTTCTT
* * *
15834406 TCCTTTTTTTTTCTTACATTGCTT
1 T-C-TTTTTTTTCTTTCTTTTCTT
*
15834430 GT-TTTTCTTTT-TTTCTTTTCTC
1 -TCTTTT-TTTTCTTTCTTTTCTT
*
15834452 TCTTTTTTTTCTTTTCTTTTCTC
1 TCTTTTTTTTC-TTTCTTTTCTT
15834475 TCTTTATCTTTTCTTTC
1 TCTTT-T-TTTTCTTTC
15834492 CCTTTTTTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
21 5 0.06
22 25 0.29
23 29 0.34
24 21 0.24
25 6 0.07
ACGTcount: A:0.03, C:0.19, G:0.02, T:0.76
Consensus pattern (22 bp):
TCTTTTTTTTCTTTCTTTTCTT
Found at i:15836372 original size:20 final size:20
Alignment explanation
Indices: 15836297--15836372 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
15836287 GTTCGATTTA
15836297 GTTTTGATTT-AGGATTTGGG
1 GTTTTGATTTAAGG-TTTGGG
* *
15836317 GTTTTGGTTTAAGGTTTGGA
1 GTTTTGATTTAAGGTTTGGG
*
15836337 GTTTT--TTTTAGAGTTTGGG
1 GTTTTGATTTAAG-GTTTGGG
15836356 GTTTTGATTTAAGGTTT
1 GTTTTGATTTAAGGTTT
15836373 TAGTTTTAGG
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
18 5 0.11
19 11 0.23
20 23 0.49
21 8 0.17
ACGTcount: A:0.14, C:0.00, G:0.32, T:0.54
Consensus pattern (20 bp):
GTTTTGATTTAAGGTTTGGG
Found at i:15839378 original size:13 final size:13
Alignment explanation
Indices: 15839360--15839389 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15839350 ATTTTTATTT
15839360 ATTTTTATTTCAG
1 ATTTTTATTTCAG
*
15839373 ATTTTTATTTCAT
1 ATTTTTATTTCAG
15839386 ATTT
1 ATTT
15839390 ATCATTTTTT
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:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (13 bp):
ATTTTTATTTCAG
Found at i:15841924 original size:58 final size:57
Alignment explanation
Indices: 15841863--15842143 Score: 329
Period size: 58 Copynumber: 4.9 Consensus size: 57
15841853 AAATAAAATG
*
15841863 ATAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAA
1 ATAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAA
** * *
15841920 GATAAGCTTTCCAAAAAAATA-TTTTGAGGAAAAGTTAAAAATATCAATTTTCCTCGAA
1 -ATAAAATTT-CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAA
* **
15841978 ATTAAAATTTCTAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
1 A-TAAAATTTCAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCC-TCGAA
* * * *
15842037 ATAAATTTTCAAAAAAGGT-TTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTCGAA
1 ATAAAATTTCAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAA
**
15842094 ATTAAAATTTTTAAAAAATA-TTTTG-GGAAAAAGTTGAAAGTATCAATTTT
1 A-TAAAATTTCAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTT
15842144 TCCTGCACAA
Statistics
Matches: 188, Mismatches: 25, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
56 1 0.01
57 42 0.22
58 129 0.69
59 16 0.09
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (57 bp):
ATAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAA
Found at i:15842147 original size:116 final size:115
Alignment explanation
Indices: 15841864--15842143 Score: 402
Period size: 116 Copynumber: 2.4 Consensus size: 115
15841854 AATAAAATGA
* * * *
15841864 TAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAGATAAGCTT
1 TAAAATTTCTAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGATT
* *
15841929 TCCAAAAAAATATTTTGAGGAAAAGTTAAAAATATCAATTTTCCTCGAAAT
65 TCCAAAAAAATATTTTGAGAAAAAATTAAAAATATCAATTTTCCTCGAAAT
15841980 TAAAATTTCTAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA-ATT
1 TAAAATTTCTAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGATT
* * * * *
15842044 TTCAAAAAAGGTTTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTCGAAAT
65 TCCAAAAAA-ATATTTTGAGAAAAAATTAAAAATATCAATTTTCCTCGAAAT
*
15842096 TAAAATTTTTAAAAAATA-TTTTGGGAAAAAGTTGAAAGTATCAATTTT
1 TAAAATTTCTAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTT
15842144 TCCTGCACAA
Statistics
Matches: 149, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
114 3 0.02
115 36 0.24
116 109 0.73
117 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (115 bp):
TAAAATTTCTAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGATTT
CCAAAAAAATATTTTGAGAAAAAATTAAAAATATCAATTTTCCTCGAAAT
Found at i:15848938 original size:17 final size:16
Alignment explanation
Indices: 15848918--15848953 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
15848908 ACAAAAAGTG
15848918 AAAAAGGACAAAAATAA
1 AAAAAGGA-AAAAATAA
*
15848935 AAAAAGGAAAACATAA
1 AAAAAGGAAAAAATAA
15848951 AAA
1 AAA
15848954 TATAAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.78, C:0.06, G:0.11, T:0.06
Consensus pattern (16 bp):
AAAAAGGAAAAAATAA
Found at i:15852153 original size:104 final size:104
Alignment explanation
Indices: 15852004--15852216 Score: 372
Period size: 104 Copynumber: 2.0 Consensus size: 104
15851994 CCCTAAACAA
15852004 ACCCTAAACTATAAACCAAACCTTAAGCCCCTCCAAACCCCAAATCCTAACCTAGACACTAAACT
1 ACCCTAAACTATAAACCAAACCTTAAGCCCCTCCAAACCCCAAATCCTAACCTAGACACTAAACT
15852069 AACCCTAAACCAAATCCTAAACCCCTCAAACCCTTAACC
66 AACCCTAAACCAAATCCTAAACCCCTCAAACCCTTAACC
* * *
15852108 ACCCTAAACTATAAACCAAACCTTAAGCCCCTCCAAGCCCTAAATCCTAACCTAGACCCTAAACT
1 ACCCTAAACTATAAACCAAACCTTAAGCCCCTCCAAACCCCAAATCCTAACCTAGACACTAAACT
***
15852173 AACCCTAAACCCCTTCCTAAACCCCTCAAACCCTTAACC
66 AACCCTAAACCAAATCCTAAACCCCTCAAACCCTTAACC
15852212 ACCCT
1 ACCCT
15852217 TCAAACCCTA
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.38, C:0.42, G:0.02, T:0.17
Consensus pattern (104 bp):
ACCCTAAACTATAAACCAAACCTTAAGCCCCTCCAAACCCCAAATCCTAACCTAGACACTAAACT
AACCCTAAACCAAATCCTAAACCCCTCAAACCCTTAACC
Found at i:15852215 original size:19 final size:19
Alignment explanation
Indices: 15852193--15852230 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
15852183 CCCTTCCTAA
*
15852193 ACCCCTCAAACCCTTAACC
1 ACCCCTCAAACCCTAAACC
*
15852212 ACCCTTCAAACCCTAAACC
1 ACCCCTCAAACCCTAAACC
15852231 TTAAATCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.50, G:0.00, T:0.16
Consensus pattern (19 bp):
ACCCCTCAAACCCTAAACC
Found at i:15852407 original size:42 final size:41
Alignment explanation
Indices: 15852354--15852445 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 41
15852344 CTAAACCCTA
* * *
15852354 AAACCGTAACCTAGACTCCAAA-CTAACCCTAAATCCTAAACC
1 AAACCCTAACCTAGACCCCAAATC-AACCC-AAACCCTAAACC
* *
15852396 AAACCCTAACCTAGACCCCAAATCAATCCAAACCCTAAATC
1 AAACCCTAACCTAGACCCCAAATCAACCCAAACCCTAAACC
15852437 AAACCCTAA
1 AAACCCTAA
15852446 AACCTAACCT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
41 19 0.43
42 24 0.55
43 1 0.02
ACGTcount: A:0.45, C:0.37, G:0.03, T:0.15
Consensus pattern (41 bp):
AAACCCTAACCTAGACCCCAAATCAACCCAAACCCTAAACC
Found at i:15852943 original size:20 final size:21
Alignment explanation
Indices: 15852910--15852948 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
15852900 CTTAATCCAA
15852910 AAAAATAAAATATTTATTTCC
1 AAAAATAAAATATTTATTTCC
*
15852931 AAAAA-AAATTATTTATTT
1 AAAAATAAAATATTTATTT
15852949 TCAATAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAATAAAATATTTATTTCC
Found at i:15852993 original size:24 final size:23
Alignment explanation
Indices: 15852956--15853001 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
15852946 TTTTCAATAG
*
15852956 AAAAGAAAAAAATTCAAGTTTTAC
1 AAAAGAAAAAAATT-AACTTTTAC
**
15852980 AAAAGAAAGGAATTAACTTTTA
1 AAAAGAAAAAAATTAACTTTTA
15853002 AACATTAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.57, C:0.07, G:0.11, T:0.26
Consensus pattern (23 bp):
AAAAGAAAAAAATTAACTTTTAC
Found at i:15858520 original size:14 final size:15
Alignment explanation
Indices: 15858496--15858525 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
15858486 AAACCCTAGG
15858496 TTTTTGCTTTTTTTT
1 TTTTTGCTTTTTTTT
15858511 TTTTTG-TTTTTTTT
1 TTTTTGCTTTTTTTT
15858525 T
1 T
15858526 CCTTTTTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.00, C:0.03, G:0.07, T:0.90
Consensus pattern (15 bp):
TTTTTGCTTTTTTTT
Found at i:15858867 original size:84 final size:84
Alignment explanation
Indices: 15858768--15858936 Score: 320
Period size: 84 Copynumber: 2.0 Consensus size: 84
15858758 ATCGATATAT
* *
15858768 ATTAATTCATATATAATTATCATAATTTCCTTAACATATATGATAATTTTTCATTTTATTTTATT
1 ATTAATTCATATATAATTATCATAATCTCCTTAACATATATGATAACTTTTCATTTTATTTTATT
15858833 AATAATAAATATCCAAACA
66 AATAATAAATATCCAAACA
15858852 ATTAATTCATATATAATTATCATAATCTCCTTAACATATATGATAACTTTTCATTTTATTTTATT
1 ATTAATTCATATATAATTATCATAATCTCCTTAACATATATGATAACTTTTCATTTTATTTTATT
15858917 AATAATAAATATCCAAACA
66 AATAATAAATATCCAAACA
15858936 A
1 A
15858937 CAAATGATAC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.42, C:0.12, G:0.01, T:0.45
Consensus pattern (84 bp):
ATTAATTCATATATAATTATCATAATCTCCTTAACATATATGATAACTTTTCATTTTATTTTATT
AATAATAAATATCCAAACA
Found at i:15860087 original size:9 final size:9
Alignment explanation
Indices: 15860070--15860098 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
15860060 TTTTAAATCA
15860070 TATTATTTT
1 TATTATTTT
15860079 TATT-TTTT
1 TATTATTTT
15860087 TATTATTTT
1 TATTATTTT
15860096 TAT
1 TAT
15860099 ATCATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TATTATTTT
Found at i:15862053 original size:3 final size:3
Alignment explanation
Indices: 15862045--15862205 Score: 81
Period size: 3 Copynumber: 54.0 Consensus size: 3
15862035 CTACTGATAC
15862045 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAGCA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA--A TAA TAA TAA TAA
* * *
15862090 TAA -CA TAG T-A TAA TAGA TACGA TAA T-A TAA TCA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TA--A TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
15862135 T-A TAGCA TACCA TAC T-A TAA T-A TAA TAA TAA TAA CAC TAA TAC TAA
1 TAA TA--A TA--A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
15862181 -AA -AA TAA TAG CAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
15862206 AAATCGACCC
Statistics
Matches: 122, Mismatches: 21, Indels: 30
0.71 0.12 0.17
Matches are distributed among these distances:
2 17 0.14
3 88 0.72
4 3 0.02
5 14 0.11
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:15862166 original size:63 final size:64
Alignment explanation
Indices: 15862047--15862167 Score: 165
Period size: 63 Copynumber: 1.9 Consensus size: 64
15862037 ACTGATACTA
* *
15862047 ATAATAATAATAATAATAATAATAATATAGCATAATATAATAATAACATAGTATAATAGATACG
1 ATAATAATAATAATAATAATAATAATATAGCATAACATAATAATAACATAATATAATAGATACG
* * * *
15862111 ATAAT-ATAATCATAATAATAATAATATAGCATACCATACT-ATAATATAATAATAATA
1 ATAATAATAATAATAATAATAATAATATAGCATAACATAATAATAACATAAT-ATAATA
15862168 ACACTAATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
62 8 0.16
63 37 0.74
64 5 0.10
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.32
Consensus pattern (64 bp):
ATAATAATAATAATAATAATAATAATATAGCATAACATAATAATAACATAATATAATAGATACG
Found at i:15862176 original size:40 final size:36
Alignment explanation
Indices: 15862083--15862176 Score: 98
Period size: 40 Copynumber: 2.5 Consensus size: 36
15862073 ATAGCATAAT
* *
15862083 ATAATAATAACATAGTATAATAGATACGATAATATA
1 ATAATAATAACATAATATAATACATACGATAATATA
* * *
15862119 ATCATAATAATAATAATATAGCATACCATACTATAATATA
1 ATAATAATAA-CATAATATA--ATA-CATACGATAATATA
15862159 ATAATAATAACACTAATA
1 ATAATAATAACA-TAATA
15862177 CTAAAAAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
36 9 0.20
37 7 0.15
39 4 0.09
40 26 0.57
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (36 bp):
ATAATAATAACATAATATAATACATACGATAATATA
Found at i:15862186 original size:22 final size:23
Alignment explanation
Indices: 15862156--15862207 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
15862146 ATACTATAAT
*
15862156 ATAATAATAATAACACTAATACTA
1 ATAA-AATAATAACAATAATACTA
* *
15862180 A-AAAATAATAGCAATAATAGTA
1 ATAAAATAATAACAATAATACTA
15862202 ATAAAA
1 ATAAAA
15862208 ATCGACCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 17 0.71
23 6 0.25
24 1 0.04
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.25
Consensus pattern (23 bp):
ATAAAATAATAACAATAATACTA
Found at i:15862519 original size:55 final size:55
Alignment explanation
Indices: 15862428--15862781 Score: 297
Period size: 55 Copynumber: 6.5 Consensus size: 55
15862418 GAATCAAGAT
* * * *
15862428 ATGATCTGGATTGAGCTAAGA-CTGAACGACTAGGATTGAACCACAAGTCTA-GAAA
1 ATGATCTGGACTAAGCCAAGATC-GAATGACTAGGATTGAACCACAAGTC-AGGAAA
* *** * * * *
15862483 ATTATCTGGACTAAGTTGAGATCGAATGATTGGGATTGAACTATAAGTCAGGAAA
1 ATGATCTGGACTAAGCCAAGATCGAATGACTAGGATTGAACCACAAGTCAGGAAA
** * * * * * *
15862538 ACAATTTGGACTGAGCCAAGTTCGAATGAC-CGAGATTAAATCACAAGTCAGGAAA
1 ATGATCTGGACTAAGCCAAGATCGAATGACTAG-GATTGAACCACAAGTCAGGAAA
* * * *
15862593 ATGATTTGGACTAAGCCAAGATCGAATAACTAGCATTGAACCACAAGTTAGGAAA
1 ATGATCTGGACTAAGCCAAGATCGAATGACTAGGATTGAACCACAAGTCAGGAAA
* * * * * *
15862648 A-GATCTGGACTGAA-CCAAGATCAAACGATTAGGATTAAACCATAAGTCAAGAAA
1 ATGATCTGGACT-AAGCCAAGATCGAATGACTAGGATTGAACCACAAGTCAGGAAA
* * * *
15862702 ATGATATGGACTAAGCAAAGATCAAATGACT-GGATTGAACCACAAGTCAAGAAA
1 ATGATCTGGACTAAGCCAAGATCGAATGACTAGGATTGAACCACAAGTCAGGAAA
* * *
15862756 ATGATCTTGACTGAGCTAAGATCGAA
1 ATGATCTGGACTAAGCCAAGATCGAA
15862782 AATGAATGAT
Statistics
Matches: 237, Mismatches: 55, Indels: 15
0.77 0.18 0.05
Matches are distributed among these distances:
54 87 0.37
55 148 0.62
56 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (55 bp):
ATGATCTGGACTAAGCCAAGATCGAATGACTAGGATTGAACCACAAGTCAGGAAA
Found at i:15862704 original size:109 final size:109
Alignment explanation
Indices: 15862571--15862778 Score: 283
Period size: 109 Copynumber: 1.9 Consensus size: 109
15862561 GAATGACCGA
* * * * *
15862571 GATTAAATCACAAGTCAGGAAAATGATTTGGACTAAGCCAAGATCGAATAACTAGCATTGAACCA
1 GATTAAACCACAAGTCAAGAAAATGATATGGACTAAGCAAAGATCAAATAACT-GCATTGAACCA
* *
15862636 CAAGTTAGGAAAA-GATCTGGACTGAACCAAGATCAAACGATTAG
65 CAAGTCAAGAAAATGATCTGGACTGAACCAAGATCAAACGATTAG
* * *
15862680 GATTAAACCATAAGTCAAGAAAATGATATGGACTAAGCAAAGATCAAATGACTGGATTGAACCAC
1 GATTAAACCACAAGTCAAGAAAATGATATGGACTAAGCAAAGATCAAATAACTGCATTGAACCAC
* * *
15862745 AAGTCAAGAAAATGATCTTGACTGAGCTAAGATC
66 AAGTCAAGAAAATGATCTGGACTGAACCAAGATC
15862779 GAAAATGAAT
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
108 21 0.25
109 64 0.75
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.21
Consensus pattern (109 bp):
GATTAAACCACAAGTCAAGAAAATGATATGGACTAAGCAAAGATCAAATAACTGCATTGAACCAC
AAGTCAAGAAAATGATCTGGACTGAACCAAGATCAAACGATTAG
Found at i:15863889 original size:18 final size:17
Alignment explanation
Indices: 15863858--15863891 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15863848 TCTCCATCAA
15863858 TTTTTTCTTCATTTTTT
1 TTTTTTCTTCATTTTTT
*
15863875 TTTTTTCCTTTATTTTT
1 TTTTTT-CTTCATTTTT
15863892 CAAGAAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTCTTCATTTTTT
Found at i:15868374 original size:23 final size:21
Alignment explanation
Indices: 15868336--15868398 Score: 65
Period size: 23 Copynumber: 2.9 Consensus size: 21
15868326 AATAACTAGT
*
15868336 AAAAT-AAAATTTAAATATCA
1 AAAATCAAAATTAAAATATCA
15868356 AAATATCAAAATATAAAATAAATCA
1 AAA-ATCAAAAT-TAAAAT--ATCA
*
15868381 AAAATTAAAATTAAAATA
1 AAAATCAAAATTAAAATA
15868399 GAAAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
20 3 0.08
21 3 0.08
22 5 0.14
23 11 0.31
24 7 0.19
25 7 0.19
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAATCAAAATTAAAATATCA
Found at i:15868406 original size:23 final size:24
Alignment explanation
Indices: 15868363--15868408 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
15868353 TCAAAATATC
*
15868363 AAAATATAAAATAAATCAAAAATT
1 AAAATATAAAATAAATAAAAAATT
*
15868387 AAAAT-TAAAATAGAAAAAAAAA
1 AAAATATAAAATA-AATAAAAAA
15868409 CCTGCAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (24 bp):
AAAATATAAAATAAATAAAAAATT
Found at i:15868799 original size:21 final size:20
Alignment explanation
Indices: 15868758--15868800 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
15868748 TCAAAATTTC
* *
15868758 CCAAAAATCCAACCTTGAAT
1 CCAAAAATCCAAACTTCAAT
*
15868778 CCAAAAATCCAAAATTTCAAT
1 CCAAAAATCC-AAACTTCAAT
15868799 CC
1 CC
15868801 CAACGCCCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (20 bp):
CCAAAAATCCAAACTTCAAT
Found at i:15869246 original size:3 final size:3
Alignment explanation
Indices: 15869238--15869427 Score: 118
Period size: 3 Copynumber: 65.0 Consensus size: 3
15869228 CTGTTGATAC
15869238 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAGCA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA--A TAA TAA TAA
* *
15869283 T-A TAA T-A TAA TAA TACCA TAG T-A TAA TAGA T-A TGA T-A TAA T-A
1 TAA TAA TAA TAA TAA TA--A TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* * *
15869325 TAA TAA TAA TAG TAC TAA TAA TAA TAA TAA TAA T-A TAA -CA TACCA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA--A
* * * *
15869370 TACT TAA T-A TAA TAA TAA TAA CAC TAA TAC TAA -AA -AA TAA TAA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
15869413 TAG TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA
15869428 AAATTGACCT
Statistics
Matches: 149, Mismatches: 19, Indels: 38
0.72 0.09 0.18
Matches are distributed among these distances:
2 24 0.16
3 111 0.74
4 5 0.03
5 9 0.06
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:15869419 original size:22 final size:23
Alignment explanation
Indices: 15869378--15869429 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
15869368 CATACTTAAT
15869378 ATAATAATAATAACACTAATACTA
1 ATAA-AATAATAACACTAATACTA
* * *
15869402 A-AAAATAATAATAGTAATAGTA
1 ATAAAATAATAACACTAATACTA
15869424 ATAAAA
1 ATAAAA
15869430 ATTGACCTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 17 0.71
23 6 0.25
24 1 0.04
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (23 bp):
ATAAAATAATAACACTAATACTA
Found at i:15869969 original size:34 final size:34
Alignment explanation
Indices: 15869910--15870017 Score: 112
Period size: 34 Copynumber: 3.1 Consensus size: 34
15869900 GCAATTTTTG
* *
15869910 AAAATTCATTTCTAAAAATAATATGCAATGTACCA
1 AAAATTCATTTCTGAAAAT-GTATGCAATGTACCA
* *
15869945 AAAATTCATTTCCT-AAAATGTATGCAATGCACTA
1 AAAATTCATTT-CTGAAAATGTATGCAATGTACCA
* * *
15869979 AAAATGCATTTTTGGAAAA-GTATGCAATGTACCG
1 AAAATTCATTTCT-GAAAATGTATGCAATGTACCA
15870013 AAAAT
1 AAAAT
15870018 ATATTTTTGG
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
33 1 0.02
34 39 0.63
35 20 0.32
36 2 0.03
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (34 bp):
AAAATTCATTTCTGAAAATGTATGCAATGTACCA
Found at i:15870024 original size:34 final size:35
Alignment explanation
Indices: 15869931--15870029 Score: 96
Period size: 34 Copynumber: 2.9 Consensus size: 35
15869921 CTAAAAATAA
* * *
15869931 TATGCAATGTACCAAAAATTCATTTCCT--AAAATG
1 TATGCAATGCACCAAAAATACATTT-TTGGAAAATG
* *
15869965 TATGCAATGCACTAAAAATGCATTTTTGGAAAA-G
1 TATGCAATGCACCAAAAATACATTTTTGGAAAATG
* * *
15869999 TATGCAATGTACCGAAAATATATTTTTGGAA
1 TATGCAATGCACCAAAAATACATTTTTGGAA
15870030 GTAACAACTT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
33 1 0.02
34 49 0.91
35 4 0.07
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (35 bp):
TATGCAATGCACCAAAAATACATTTTTGGAAAATG
Found at i:15874818 original size:74 final size:74
Alignment explanation
Indices: 15874729--15874909 Score: 221
Period size: 74 Copynumber: 2.5 Consensus size: 74
15874719 TACTAAAATG
* ** * *
15874729 TCAT-TTTTTCAACAAAGATTGTATTTTCTATCTTAGGAA-CGTTGTCTCTGTTGAATTTTGAAA
1 TCATATTTTTCAACAAAAATTACATTTTCTATCTTA-GAAGCATTATCTCTGTTGAATTTT-AAA
15874792 AAATA-TATTTT
64 AAATACT-TTTT
*
15874803 TCATATTTTT-AACAAAAATTACATTTTCTATCTTAGAAGCATTATCTTTGTTGAATTTTAAAAA
1 TCATATTTTTCAACAAAAATTACATTTTCTATCTTAGAAGCATTATCTCTGTTGAATTTTAAAAA
15874867 ATACTTTTT
66 ATACTTTTT
*
15874876 TACATA-TTTTCAATAAAAATTACATTTT-TATCTT
1 T-CATATTTTTCAACAAAAATTACATTTTCTATCTT
15874910 TAAAATGTCT
Statistics
Matches: 95, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
73 26 0.27
74 64 0.67
75 5 0.05
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (74 bp):
TCATATTTTTCAACAAAAATTACATTTTCTATCTTAGAAGCATTATCTCTGTTGAATTTTAAAAA
ATACTTTTT
Found at i:15874949 original size:37 final size:40
Alignment explanation
Indices: 15874880--15874990 Score: 122
Period size: 37 Copynumber: 2.9 Consensus size: 40
15874870 CTTTTTTACA
* * * * *
15874880 TATTTTCAATAAAAATTACATTTTTATCTTTAAAATGTC-
1 TATTTTCAACAAAAACTGCATTTGTATCTTTAAAATATCT
*
15874919 T-TTTT-AACAAAAACTGCATTTGTATTTTTAAAATATCT
1 TATTTTCAACAAAAACTGCATTTGTATCTTTAAAATATCT
* *
15874957 TATTTTCAACAAAAATTGCATTT-TATCTTAAAAA
1 TATTTTCAACAAAAACTGCATTTGTATCTTTAAAA
15874991 CGTTATCTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
37 26 0.43
38 5 0.08
39 14 0.23
40 15 0.25
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.46
Consensus pattern (40 bp):
TATTTTCAACAAAAACTGCATTTGTATCTTTAAAATATCT
Found at i:15875059 original size:40 final size:38
Alignment explanation
Indices: 15874882--15875072 Score: 136
Period size: 40 Copynumber: 4.9 Consensus size: 38
15874872 TTTTTACATA
* * * * *
15874882 TTTTCAATAAAAATTACATTTTTATCTTTAAAA-TGTC
1 TTTTCAACAAAAACTGCATTTTTATCTTAAAAATTATC
* * * *
15874919 TTTTTAACAAAAACTGCATTTGTATTTTTAAAATATCT-TA
1 TTTTCAACAAAAACTGCATTTTTA-TCTTAAAA-AT-TATC
*
15874959 TTTTCAACAAAAATTGCA-TTTTATCTTAAAAACGTTATC
1 TTTTCAACAAAAACTGCATTTTTATCTTAAAAA--TTATC
* * *
15874998 TTTTCAATAAAAAATGTATTTTTATCTTAAAAACTTCATC
1 TTTTCAACAAAAACTGCATTTTTATCTTAAAAA-TT-ATC
* * * *
15875038 TTTTTAACAAAGACTACATTTTTTATTTTAAAAAT
1 TTTTCAACAAAAACTGCA-TTTTTATCTTAAAAAT
15875073 GTCACTTTTG
Statistics
Matches: 120, Mismatches: 24, Indels: 17
0.75 0.15 0.11
Matches are distributed among these distances:
37 20 0.17
38 14 0.12
39 24 0.20
40 47 0.39
41 15 0.12
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.46
Consensus pattern (38 bp):
TTTTCAACAAAAACTGCATTTTTATCTTAAAAATTATC
Found at i:15878624 original size:2 final size:2
Alignment explanation
Indices: 15878617--15878652 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
15878607 TGAAAGTGAA
*
15878617 AT AT AT AT AT AT AT AT AT AGT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A
15878653 CACACACTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15885228 original size:15 final size:15
Alignment explanation
Indices: 15885208--15885258 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
15885198 TGCGTGTTTT
*
15885208 ATTTTATATTTTTAA
1 ATTTTATTTTTTTAA
*
15885223 ATTTTATTTTGTTTTA
1 ATTTTATTTT-TTTAA
*
15885239 TTTTTATTTATTTTAA
1 ATTTTATTT-TTTTAA
15885255 ATTT
1 ATTT
15885259 ATTAAATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 9 0.31
16 19 0.66
17 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (15 bp):
ATTTTATTTTTTTAA
Found at i:15885267 original size:20 final size:20
Alignment explanation
Indices: 15885205--15885268 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
15885195 CATTGCGTGT
*
15885205 TTTATTTTATATTT-TTAAA
1 TTTATTTTAAATTTATTAAA
** **
15885224 TTTTATTTT-GTTTTATTTTTA
1 -TTTATTTTAAATTTA-TTAAA
15885245 TTTATTTTAAATTTATTAAA
1 TTTATTTTAAATTTATTAAA
15885265 TTTA
1 TTTA
15885269 AAAACATATT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
19 3 0.09
20 23 0.70
21 7 0.21
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTATTTTAAATTTATTAAA
Found at i:15885380 original size:23 final size:22
Alignment explanation
Indices: 15885354--15885412 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 22
15885344 TTTAGGCTTC
15885354 ATTTGTTATTAATATATAATAAT
1 ATTT-TTATTAATATATAATAAT
*
15885377 A--TTTATTAATATATTATAAT
1 ATTTTTATTAATATATAATAAT
15885397 ATTATTTATTTAATAT
1 ATT-TTTA-TTAATAT
15885413 TATTTTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 18 0.58
21 1 0.03
23 5 0.16
24 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTTTTATTAATATATAATAAT
Found at i:15885415 original size:22 final size:22
Alignment explanation
Indices: 15885362--15885452 Score: 93
Period size: 22 Copynumber: 4.3 Consensus size: 22
15885352 TCATTTGTTA
*
15885362 TTAATA-TATAATAATATTTAT
1 TTAATATTATAATATTATTTAT
*
15885383 TAATATATTATAATATTATTTAT
1 TTA-ATATTATAATATTATTTAT
*
15885406 TTAATATTAT--T-TTATTAAT
1 TTAATATTATAATATTATTTAT
* *
15885425 TTATTAATATAATATTATTTA-
1 TTAATATTATAATATTATTTAT
15885446 TTAATAT
1 TTAATAT
15885453 ATTATTCATT
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
19 15 0.27
20 1 0.02
21 8 0.14
22 16 0.29
23 16 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTAATATTATAATATTATTTAT
Found at i:15885463 original size:15 final size:15
Alignment explanation
Indices: 15885395--15885502 Score: 91
Period size: 15 Copynumber: 7.2 Consensus size: 15
15885385 ATATATTATA
*
15885395 ATATTATTTATTTA-
1 ATATTATTTATTAAT
15885409 ATATTATTTTATTAAT
1 ATATTA-TTTATTAAT
* *
15885425 TTATTA-ATA-T-A-
1 ATATTATTTATTAAT
15885436 ATATTATTTATTAAT
1 ATATTATTTATTAAT
*
15885451 ATATTATTCATTAAT
1 ATATTATTTATTAAT
*
15885466 ATAATATTTATATAAT
1 ATATTATTTAT-TAAT
15885482 AAAATATTATTTATTAAT
1 ---ATATTATTTATTAAT
15885500 ATA
1 ATA
15885503 ATAATTATGA
Statistics
Matches: 75, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
11 5 0.07
12 3 0.04
13 2 0.03
14 9 0.12
15 33 0.44
16 9 0.12
18 4 0.05
19 10 0.13
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.56
Consensus pattern (15 bp):
ATATTATTTATTAAT
Found at i:15885482 original size:49 final size:44
Alignment explanation
Indices: 15885359--15885502 Score: 152
Period size: 49 Copynumber: 3.2 Consensus size: 44
15885349 GCTTCATTTG
* ** * *
15885359 TTATTAATATATAATAATATT-TATTAATATATTATAATATTAT
1 TTATTAATATATTATTTTATTATATTTATATAATATAATATTAT
*
15885402 TTATTTA-ATATTATTTTATTA-ATTTAT-TAATATAATATTAT
1 TTATTAATATATTATTTTATTATATTTATATAATATAATATTAT
*
15885443 TTATTAATATATTATTCATTAATATAATATTTATATAATAAAATATTAT
1 TTATTAATATATTATT--TT-AT-T-ATATTTATATAATATAATATTAT
15885492 TTATTAATATA
1 TTATTAATATA
15885503 ATAATTATGA
Statistics
Matches: 84, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
41 19 0.23
42 23 0.27
43 6 0.07
44 2 0.02
45 2 0.02
46 1 0.01
47 1 0.01
48 6 0.07
49 24 0.29
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (44 bp):
TTATTAATATATTATTTTATTATATTTATATAATATAATATTAT
Found at i:15885489 original size:34 final size:33
Alignment explanation
Indices: 15885418--15885510 Score: 123
Period size: 34 Copynumber: 2.7 Consensus size: 33
15885408 AATATTATTT
* * *
15885418 TATTAATTTATTAATATAATATTATTTATTAATA
1 TATT-ATTTATTAATATAATATTATATAATAAAA
*
15885452 TATTATTCATTAATATAATATTTATATAATAAAA
1 TATTATTTATTAATATAATA-TTATATAATAAAA
15885486 TATTATTTATTAATATAATAATTAT
1 TATTATTTATTAATATAAT-ATTAT
15885511 GATGTCACTA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
33 15 0.29
34 36 0.69
35 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (33 bp):
TATTATTTATTAATATAATATTATATAATAAAA
Found at i:15885510 original size:15 final size:15
Alignment explanation
Indices: 15885425--15885510 Score: 66
Period size: 18 Copynumber: 5.3 Consensus size: 15
15885415 TTTTATTAAT
15885425 TTATTAATATAATATTA
1 TTATTAATATAATA--A
*
15885442 TTTATTAATAT-ATTA
1 -TTATTAATATAATAA
*
15885457 TTCATTAATATAATAT
1 TT-ATTAATATAATAA
*
15885473 TTATATAATAAAATATTA
1 TTAT-TAATATAATA--A
15885491 TTTATTAATATAATAA
1 -TTATTAATATAATAA
15885507 TTAT
1 TTAT
15885511 GATGTCACTA
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
14 2 0.04
15 15 0.27
16 14 0.25
17 2 0.04
18 19 0.34
19 4 0.07
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (15 bp):
TTATTAATATAATAA
Found at i:15886348 original size:6 final size:6
Alignment explanation
Indices: 15886337--15886361 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15886327 TATCCTCAAA
15886337 TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT T
15886362 CTAAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:15888460 original size:44 final size:44
Alignment explanation
Indices: 15888270--15888462 Score: 147
Period size: 44 Copynumber: 4.3 Consensus size: 44
15888260 TAGACTCTTT
* **
15888270 TAAATAGAGGCTCT-ATGACTTTAAAATAAATAAATAAAGCTCCTC
1 TAAACAGAGGCT-TAATGACTTTTTAA-AAATAAATAAAGCTCCTC
* * * * * * * *
15888315 TAAACCAGAGACTCAATGAC-TTTTGAAGATGAATCAGGCTCCTT
1 TAAA-CAGAGGCTTAATGACTTTTTAAAAATAAATAAAGCTCCTC
* * * * *
15888359 TAAACAAAGCCTTAACGACTTTTTAAAAATAAGTAAATAAAGTTCTTC
1 TAAACAGAGGCTTAATGACTTTTT--AAA-AA-TAAATAAAGCTCCTC
* *
15888407 TAAATAGAGGCTTAATGACTTTTTAAAAATAAATAAGGCTCCTC
1 TAAACAGAGGCTTAATGACTTTTTAAAAATAAATAAAGCTCCTC
15888451 TAAACAGAGGCT
1 TAAACAGAGGCT
15888463 CTTTTTAACA
Statistics
Matches: 110, Mismatches: 31, Indels: 15
0.71 0.20 0.10
Matches are distributed among these distances:
43 11 0.10
44 44 0.40
45 9 0.08
46 16 0.15
47 1 0.01
48 29 0.26
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.29
Consensus pattern (44 bp):
TAAACAGAGGCTTAATGACTTTTTAAAAATAAATAAAGCTCCTC
Found at i:15889556 original size:19 final size:17
Alignment explanation
Indices: 15889529--15889585 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 17
15889519 CTCCTTTTCA
*
15889529 TTTTTATTTCTTCTCTTT
1 TTTTTATTT-TTTTCTTT
15889547 TTTTTCATTTTTTTCATTT
1 TTTTT-ATTTTTTTC-TTT
15889566 TTTTTATTTTTTTCTTT
1 TTTTTATTTTTTTCTTT
15889583 TTT
1 TTT
15889586 AAAAGTAGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
17 6 0.17
18 18 0.50
19 12 0.33
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTATTTTTTTCTTT
Found at i:15889559 original size:9 final size:9
Alignment explanation
Indices: 15889545--15889585 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
15889535 TTTCTTCTCT
15889545 TTTTTTTCA
1 TTTTTTTCA
15889554 TTTTTTTCA
1 TTTTTTTCA
*
15889563 TTTTTTTTA
1 TTTTTTTCA
15889572 TTTTTTTC-
1 TTTTTTTCA
15889580 TTTTTT
1 TTTTTT
15889586 AAAAGTAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 6 0.20
9 24 0.80
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:15891116 original size:14 final size:14
Alignment explanation
Indices: 15891097--15891123 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15891087 AGTTAAAGTC
15891097 TCCAAATATTTTCG
1 TCCAAATATTTTCG
15891111 TCCAAATATTTTC
1 TCCAAATATTTTC
15891124 AATACGTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.44
Consensus pattern (14 bp):
TCCAAATATTTTCG
Found at i:15895457 original size:19 final size:21
Alignment explanation
Indices: 15895435--15895477 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
15895425 ATTACCAACG
15895435 ATTTACTGACGAA-TTTT-TT
1 ATTTACTGACGAAGTTTTATT
* *
15895454 ATTTATTGATGAAGTTTTATT
1 ATTTACTGACGAAGTTTTATT
15895475 ATT
1 ATT
15895478 ACTAACGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 4 0.20
21 5 0.25
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.56
Consensus pattern (21 bp):
ATTTACTGACGAAGTTTTATT
Found at i:15896197 original size:42 final size:40
Alignment explanation
Indices: 15896150--15896227 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
15896140 CATGAATTTT
*
15896150 TTAAATTAATATATTAAATA-ACATATTTTAATAATATATTAA
1 TTAAA-TAA-ATAATAAATATACATATTTTAAT-ATATATTAA
* *
15896192 TTAAATAAATAATAAATATATATATTTTTATATATA
1 TTAAATAAATAATAAATATACATATTTTAATATATA
15896228 CTAAGGTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 14 0.44
41 13 0.41
42 5 0.16
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (40 bp):
TTAAATAAATAATAAATATACATATTTTAATATATATTAA
Found at i:15896198 original size:13 final size:12
Alignment explanation
Indices: 15896157--15896212 Score: 53
Period size: 11 Copynumber: 4.6 Consensus size: 12
15896147 TTTTTAAATT
15896157 AATATATTAAATA
1 AATATATT-AATA
*
15896170 ACATATTTTAAT-
1 A-ATATATTAATA
15896182 AATATATTAATTA
1 AATATATTAA-TA
*
15896195 AATA-AATAATA
1 AATATATTAATA
15896206 AATATAT
1 AATATAT
15896213 ATATTTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
11 14 0.40
12 7 0.20
13 8 0.23
14 6 0.17
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (12 bp):
AATATATTAATA
Found at i:15898902 original size:36 final size:37
Alignment explanation
Indices: 15898844--15898915 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
15898834 TGAAATAATT
*
15898844 TTGTTAATTTAATATATAAAAA-TATTATTTGATATA
1 TTGTTAATTTAATATATAAAAATTATAATTTGATATA
* *
15898880 TTGTTATTATTAAT-TATTAAAATTATAATTTGATAT
1 TTGTTAAT-TTAATATATAAAAATTATAATTTGATAT
15898916 TAAAATAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 14 0.45
37 17 0.55
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (37 bp):
TTGTTAATTTAATATATAAAAATTATAATTTGATATA
Found at i:15899184 original size:49 final size:49
Alignment explanation
Indices: 15899129--15899229 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
15899119 TCACATCCAC
15899129 TATTATTTTTAATCTAATTGAAGTTGATTTATCATTCATTCAAATGGAT
1 TATTATTTTTAATCTAATTGAAGTTGATTTATCATTCATTCAAATGGAT
15899178 TATTATTTTTAATCTAATTGAAGTTGATTTATCATTCATTCAAATGGAT
1 TATTATTTTTAATCTAATTGAAGTTGATTTATCATTCATTCAAATGGAT
15899227 TAT
1 TAT
15899230 AAAAATAATG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.50
Consensus pattern (49 bp):
TATTATTTTTAATCTAATTGAAGTTGATTTATCATTCATTCAAATGGAT
Found at i:15899590 original size:16 final size:16
Alignment explanation
Indices: 15899569--15899602 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
15899559 TTTTAAAATT
15899569 AAAAAA-ATCAAAATGA
1 AAAAAACAT-AAAATGA
15899585 AAAAAACATAAAATGA
1 AAAAAACATAAAATGA
15899601 AA
1 AA
15899603 GGTTAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAAAACATAAAATGA
Found at i:15901398 original size:17 final size:16
Alignment explanation
Indices: 15901376--15901432 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
15901366 GAAAATTATA
15901376 AATTTAAAATATAATTT
1 AATTT-AAATATAATTT
*
15901393 AATTTAAATATATTTT
1 AATTTAAATATAATTT
* *
15901409 ATTCTTTAAT-TAATTT
1 AAT-TTAAATATAATTT
15901425 AAATTTAA
1 -AATTTAA
15901433 TTAAATCAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 20 0.62
17 12 0.38
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTTAAATATAATTT
Found at i:15901462 original size:21 final size:19
Alignment explanation
Indices: 15901423--15901470 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 19
15901413 TTTAATTAAT
15901423 TTAAATTTAATTAAATCAA
1 TTAAATTTAATTAAATCAA
*
15901442 TTAAATTTAAATTTGAATCAA
1 TTAAATTT-AA-TTAAATCAA
15901463 TTAAATTT
1 TTAAATTT
15901471 TAAAATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 8 0.31
20 2 0.08
21 16 0.62
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (19 bp):
TTAAATTTAATTAAATCAA
Found at i:15901484 original size:31 final size:31
Alignment explanation
Indices: 15901449--15901525 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 31
15901439 CAATTAAATT
*
15901449 TAAATTTGAATCAATTAAATTTTAAAATTAA
1 TAAATATGAATCAATTAAATTTTAAAATTAA
*
15901480 TAAATATG-AT---TAAAATTTTAAAATTAA
1 TAAATATGAATCAATTAAATTTTAAAATTAA
*
15901507 TAAATATGATTCAA-TAAAT
1 TAAATATGAATCAATTAAAT
15901526 AAAATATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
27 24 0.63
28 1 0.03
30 6 0.16
31 7 0.18
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (31 bp):
TAAATATGAATCAATTAAATTTTAAAATTAA
Found at i:15901500 original size:27 final size:27
Alignment explanation
Indices: 15901465--15901517 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
15901455 TGAATCAATT
15901465 AAATTTTAAAATTAATAAATATGATTA
1 AAATTTTAAAATTAATAAATATGATTA
15901492 AAATTTTAAAATTAATAAATATGATT
1 AAATTTTAAAATTAATAAATATGATT
15901518 CAATAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (27 bp):
AAATTTTAAAATTAATAAATATGATTA
Found at i:15903809 original size:30 final size:30
Alignment explanation
Indices: 15903775--15903840 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 30
15903765 CACACACACA
*
15903775 TATATATATG-ACATCTCACATCTCTCTCTT
1 TATATACATGTAC-TCTCACATCTCTCTCTT
*
15903805 TATATACATGTTTACTGTCACATCTCTCTCTT
1 TATATACATG--TACTCTCACATCTCTCTCTT
15903837 TATA
1 TATA
15903841 AACTCATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 9 0.29
32 20 0.65
33 2 0.06
ACGTcount: A:0.26, C:0.24, G:0.05, T:0.45
Consensus pattern (30 bp):
TATATACATGTACTCTCACATCTCTCTCTT
Found at i:15906324 original size:20 final size:18
Alignment explanation
Indices: 15906295--15906335 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
15906285 CATCAATCAC
*
15906295 TAATTCAAATGTTCATATAA
1 TAATTAAAATGTT-ATA-AA
15906315 TAATTAAAATGTTATAAA
1 TAATTAAAATGTTATAAA
15906333 TAA
1 TAA
15906336 AAGTTAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 3 0.15
20 12 0.60
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (18 bp):
TAATTAAAATGTTATAAA
Found at i:15907262 original size:15 final size:16
Alignment explanation
Indices: 15907234--15907264 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
15907224 AATTAATGAA
15907234 ATCATTGAGATAAATT
1 ATCATTGAGATAAATT
15907250 ATCATTG-GATAAATT
1 ATCATTGAGATAAATT
15907265 GTAAGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (16 bp):
ATCATTGAGATAAATT
Found at i:15912232 original size:18 final size:20
Alignment explanation
Indices: 15912191--15912227 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
15912181 GAAAAATAAG
15912191 ATGAAATGAAAAATAAAACA
1 ATGAAATGAAAAATAAAACA
*
15912211 ATGAAAT-AAAATTAAAA
1 ATGAAATGAAAAATAAAA
15912228 TATGACTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.70, C:0.03, G:0.08, T:0.19
Consensus pattern (20 bp):
ATGAAATGAAAAATAAAACA
Found at i:15912539 original size:18 final size:18
Alignment explanation
Indices: 15912517--15912552 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15912507 TTGATATGTG
*
15912517 GTTTTT-TTTTAATTTTT
1 GTTTTTGTTTTTATTTTT
15912534 GTTTTTGTTTTTATTTTT
1 GTTTTTGTTTTTATTTTT
15912552 G
1 G
15912553 AAAATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.08, C:0.00, G:0.11, T:0.81
Consensus pattern (18 bp):
GTTTTTGTTTTTATTTTT
Found at i:15912749 original size:82 final size:82
Alignment explanation
Indices: 15912654--15912823 Score: 243
Period size: 82 Copynumber: 2.1 Consensus size: 82
15912644 ATGCTTGAAA
* * *
15912654 GTCTTACAAATCTTGACATTTATGAAAACTCCTCCAATAAGAGGT-ATTGTAACTTTAAAGATTT
1 GTCTTACAAATCTTGACATCTATGAAAAATCCTCCAATAAGAGGTCATAG-AACTTTAAAGATTT
*
15912718 AAAATGTTTTGCCTAGAG
65 AAAATGTTTTACCTAGAG
* * *
15912736 GTCTTACAAATCTTGACATCTATGAAAAATCCTCTAATAAGATGTCGTAGAACTTTAAAGATTTA
1 GTCTTACAAATCTTGACATCTATGAAAAATCCTCCAATAAGAGGTCATAGAACTTTAAAGATTTA
* *
15912801 AAATGTTTTACTTGGAG
66 AAATGTTTTACCTAGAG
15912818 GTCTTA
1 GTCTTA
15912824 GAGATTATGC
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
82 76 0.97
83 2 0.03
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (82 bp):
GTCTTACAAATCTTGACATCTATGAAAAATCCTCCAATAAGAGGTCATAGAACTTTAAAGATTTA
AAATGTTTTACCTAGAG
Found at i:15912936 original size:42 final size:40
Alignment explanation
Indices: 15912855--15912959 Score: 122
Period size: 42 Copynumber: 2.6 Consensus size: 40
15912845 ATTTTGTCGG
*
15912855 AGGTTTTTTAAAATCATTAAAAATTTAAAAGTTTGCTTGA
1 AGGTTTTTGAAAATCATTAAAAATTTAAAAGTTTGCTTGA
* * * *
15912895 AGGTTTTTGAAAATCTTTCTAAGAATTTAAAATTTTTCTTGA
1 AGGTTTTTGAAAATC-AT-TAAAAATTTAAAAGTTTGCTTGA
*
15912937 AGGTATTTTG-AAATCATTTAAAA
1 AGGT-TTTTGAAAATCATTAAAAA
15912960 GTCAAATGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
40 18 0.33
41 2 0.04
42 29 0.54
43 5 0.09
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (40 bp):
AGGTTTTTGAAAATCATTAAAAATTTAAAAGTTTGCTTGA
Found at i:15918445 original size:10 final size:10
Alignment explanation
Indices: 15918432--15918547 Score: 68
Period size: 10 Copynumber: 11.3 Consensus size: 10
15918422 TAAAAATGAG
15918432 ATAAAATAAA
1 ATAAAATAAA
15918442 ATAAAGAT-AA
1 ATAAA-ATAAA
*
15918452 AT-AGATAAA
1 ATAAAATAAA
15918461 A-AAAAGTTAAA
1 ATAAAA--TAAA
15918472 AT--AATAAA
1 ATAAAATAAA
15918480 GATAAAAT-AA
1 -ATAAAATAAA
15918490 ATATAAATATAA
1 ATA-AAATA-AA
15918502 AT-AAATAACA
1 ATAAAATAA-A
15918512 ATAATAAT-AA
1 ATAA-AATAAA
15918522 ATACAATTATAAA
1 ATA-AA--ATAAA
15918535 ATAAAATAAA
1 ATAAAATAAA
15918545 ATA
1 ATA
15918548 TAAAAAATTA
Statistics
Matches: 85, Mismatches: 2, Indels: 38
0.68 0.02 0.30
Matches are distributed among these distances:
8 6 0.07
9 12 0.14
10 38 0.45
11 13 0.15
12 11 0.13
13 5 0.06
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (10 bp):
ATAAAATAAA
Found at i:15918461 original size:19 final size:18
Alignment explanation
Indices: 15918408--15918544 Score: 83
Period size: 19 Copynumber: 7.6 Consensus size: 18
15918398 TTTTATTTTT
*
15918408 ATAAAGATAAACAATAAA
1 ATAAAGATAAATAATAAA
*
15918426 A-ATGAGAT-AA-AATAAA
1 ATA-AAGATAAATAATAAA
15918442 ATAAAGATAAATAGATAAA
1 ATAAAGATAAATA-ATAAA
* *
15918461 AAAAAGTTAAAATAATAAA
1 ATAAAGAT-AAATAATAAA
15918480 GATAAA-ATAAAT-AT-AA
1 -ATAAAGATAAATAATAAA
*
15918496 ATATAA-ATAAATAACAATA
1 ATA-AAGATAAATAATAA-A
* *
15918515 ATAATAAATACAATTATAAA
1 ATAA-AGATA-AATAATAAA
15918535 ATAAA-ATAAA
1 ATAAAGATAAA
15918545 ATATAAAAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 29
0.72 0.07 0.22
Matches are distributed among these distances:
15 3 0.03
16 21 0.22
17 11 0.11
18 15 0.16
19 23 0.24
20 17 0.18
21 6 0.06
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (18 bp):
ATAAAGATAAATAATAAA
Found at i:15918485 original size:14 final size:13
Alignment explanation
Indices: 15918430--15918490 Score: 51
Period size: 14 Copynumber: 4.9 Consensus size: 13
15918420 AATAAAAATG
15918430 AGATAAAAT--AA
1 AGATAAAATAAAA
*
15918441 A-ATAAAGATAAAT
1 AGATAAA-ATAAAA
15918454 AGAT-AAA-AAAA
1 AGATAAAATAAAA
*
15918465 AGTTAAAATAATAA
1 AGATAAAATAA-AA
15918479 AGATAAAATAAA
1 AGATAAAATAAA
15918491 TATAAATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
10 5 0.13
11 9 0.23
12 4 0.10
13 7 0.18
14 14 0.36
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (13 bp):
AGATAAAATAAAA
Found at i:15918501 original size:17 final size:17
Alignment explanation
Indices: 15918470--15918552 Score: 75
Period size: 16 Copynumber: 4.9 Consensus size: 17
15918460 AAAAAAGTTA
*
15918470 AAATAATAAAGATAAAAT
1 AAAT-ATAAATATAAAAT
15918488 AAATATAAATAT-AAAT
1 AAATATAAATATAAAAT
*
15918504 AAATA-ACAATA-ATAAT
1 AAATATA-AATATAAAAT
* *
15918520 AAATACAATTATAAAAT
1 AAATATAAATATAAAAT
15918537 AAA-ATAAAATATAAAA
1 AAATAT-AAATATAAAA
15918553 AATTAGACAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
15 1 0.02
16 25 0.46
17 24 0.44
18 4 0.07
ACGTcount: A:0.71, C:0.02, G:0.01, T:0.25
Consensus pattern (17 bp):
AAATATAAATATAAAAT
Found at i:15919355 original size:23 final size:22
Alignment explanation
Indices: 15919329--15919375 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
15919319 GATTTTTTTA
15919329 TTATATTTTT-CATAATTTTAGAT
1 TTAT-TTTTTACATAATTTTA-AT
*
15919352 TTATTTTTTACTTAATTTTAAT
1 TTATTTTTTACATAATTTTAAT
15919374 TT
1 TT
15919376 TTTATATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (22 bp):
TTATTTTTTACATAATTTTAAT
Found at i:15919926 original size:28 final size:28
Alignment explanation
Indices: 15919868--15919926 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
15919858 GAACCATTTG
**
15919868 CTTTTTATTAATTCTTATTTTTGACTTA
1 CTTTTTATTAATTCTTATTTTTGACAAA
*
15919896 CTTTTTATTAGTTCTTATTTTTGACAAA
1 CTTTTTATTAATTCTTATTTTTGACAAA
15919924 CTT
1 CTT
15919927 CAAGTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.22, C:0.12, G:0.05, T:0.61
Consensus pattern (28 bp):
CTTTTTATTAATTCTTATTTTTGACAAA
Found at i:15920550 original size:21 final size:21
Alignment explanation
Indices: 15920524--15920565 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
15920514 CATCATATAA
15920524 GTTTTAAATAAGTCCTAATAC
1 GTTTTAAATAAGTCCTAATAC
15920545 GTTTTAAATAAGTCCTAATAC
1 GTTTTAAATAAGTCCTAATAC
15920566 TCGGCCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
GTTTTAAATAAGTCCTAATAC
Found at i:15920883 original size:2 final size:2
Alignment explanation
Indices: 15920876--15920911 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15920866 TTTATTAAGC
15920876 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15920912 GGAACCATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.